NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|165988345|gb|ABY77498|]
View 

phycoerythrin beta subunit, partial (plastid) [Aglaothamnion hookeri]

Protein Classification

globin family protein( domain architecture ID 229384)

globin family protein is an all-helical protein that may bind porphyrins, phycobilins, and other non-heme cofactors, and may play various roles including as a sensor or transporter of oxygen

CATH:  1.10.490.10
Gene Ontology:  GO:0019825|GO:0020037
PubMed:  32863222|16061809|19281958
SCOP:  3000554

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Globin-like super family cl21461
Globin-like protein superfamily; This globin-like domain superfamily contains a wide variety ...
 1-162 5.44e-100

Globin-like protein superfamily; This globin-like domain superfamily contains a wide variety of all-helical proteins that bind porphyrins, phycobilins, and other non-heme cofactors, and play various roles in all three kingdoms of life, including sensors or transporters of oxygen. It includes the M/myoglobin-like, S/sensor globin, and T/truncated globin (TrHb) families, and the phycobiliproteins (PBPs). The M family includes chimeric (FHbs/flavohemoglobins) and single-domain globins: FHbs, Ngbs/neuroglobins, Cygb/cytoglobins, GbE/avian eye specific globin E, GbX/globin X, amphibian GbY/globin Y, Mb/myoglobin, HbA/hemoglobin-alpha, HbB/hemoglobin-beta, SDgbs/single-domain globins related to FHbs, and Adgb/androglobin. The S family includes GCS/globin-coupled sensors, Pgbs/protoglobins, and SSDgbs/sensor single domain globins. The T family is classified into three main groups: TrHb1s (N), TrHb2s (O) and TrHb3s (P). The M- and S families exhibit the canonical secondary structure of hemoglobins, a 3-over-3 alpha-helical sandwich structure (3/3 Mb-fold), built by eight alpha-helical segments (named A through H). For M family Adgbs, this globin domain is permuted, such that C-H are followed by A-B. The T family globins adopt a 2-on-2 alpha-helical sandwich structure, resulting from extensive and complex modifications of the canonical 3-on-3 alpha-helical sandwich that are distributed throughout the whole protein molecule. PBPs bind the linear tetrapyrrole chromophore, phycobilin, a prosthetic group chemically and metabolically related to iron protoporphyrin IX/protoheme. Examples of other globin-like domains which bind non-heme cofactors include those of the Bacillus anthracis sporulation inhibitors pXO1-118 and pXO2-61 which bind fatty acid and halide in vitro, and the globin-like domain of Bacillus subtilis RsbRA which is presumed to channel sensory input to the C-terminal sulfate transporter/ anti-sigma factor antagonist (STAT) domain. RsbRA is a component of the sigma B-activating stressosome, and a regulator of the RNA polymerase sigma factor subunit sigma (B).


The actual alignment was detected with superfamily member CHL00172:

Pssm-ID: 473869  Cd Length: 177  Bit Score: 285.04  E-value: 5.44e-100
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:CHL00172  15 KAAYVGGSDLQALKKFISEGNKRLDSVNSIVSNASCIVSDAVSGMICENPGLISPGGNCYTNRRMAACLRDGEIILRYVS 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASQRKVEVASGDCSALAAEAGTYFDNVAS 160
Cdd:CHL00172  95 YALLAGDPSVLEDRCLNGLKETYIALGVPANSSARAVSIMKASAVAFINNTASQRKMSTAQGDCSALASEVASYFDRVTA 174


                 ..
gi 165988345 161 AV 162
Cdd:CHL00172 175 AI 176
 
Name Accession Description Interval E-value
cpeB CHL00172
phycoerythrin beta subunit; Provisional
 1-162 5.44e-100

phycoerythrin beta subunit; Provisional


Pssm-ID: 133617  Cd Length: 177  Bit Score: 285.04  E-value: 5.44e-100
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:CHL00172  15 KAAYVGGSDLQALKKFISEGNKRLDSVNSIVSNASCIVSDAVSGMICENPGLISPGGNCYTNRRMAACLRDGEIILRYVS 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASQRKVEVASGDCSALAAEAGTYFDNVAS 160
Cdd:CHL00172  95 YALLAGDPSVLEDRCLNGLKETYIALGVPANSSARAVSIMKASAVAFINNTASQRKMSTAQGDCSALASEVASYFDRVTA 174


                 ..
gi 165988345 161 AV 162
Cdd:CHL00172 175 AI 176
PE_beta-like cd14767
Phycoerythrin beta subunit, a component of the phycobilisome rod; and related proteins; ...
 1-162 1.10e-99

Phycoerythrin beta subunit, a component of the phycobilisome rod; and related proteins; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC). This subfamily also includes the beta subunits of Cryptophyte phycobiliproteins which represent another type of biliprotein antenna with different structure and organization. The beta subunits of cryptophyte PBPs share a high degree of sequence identity with both the alpha and beta subunits of the cyanobacterial and red algal PBPs, however the alpha cryptophyte subunits are shorter, and unrelated. There is only one type of PBP present in a single species, either phycocyanin or phycoerythrin, but not allophycocyanin. Structurally, phycoerythrin in cryptophytes is an alpha1alpha2betabeta dimer and not a trimer as in the PBS.


Pssm-ID: 271300  Cd Length: 176  Bit Score: 284.09  E-value: 1.10e-99
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:cd14767   15 KAAYVGGSDLQALKTFISDGNKRLDAVNYIVSNASCIVSDAVSGMICENPGLISPGG*CYTNRRMAACLRDGEIILRYVS 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASQRKVEVASGDCSALAAEAGTYFDNVAS 160
Cdd:cd14767   95 YALLAGDASVLEDRCLNGLKETYIALGVPTNSNIRAVSIMKATAVAFINNTASQRKLETPQGDCSALASEAASYFDKVTA 174


                 ..
gi 165988345 161 AV 162
Cdd:cd14767  175 AI 176
CpcB COG5688
Phycocyanin/phycoerythrin beta chain, CpcB/CpeB [Energy production and conversion];
1-162 5.01e-92

Phycocyanin/phycoerythrin beta chain, CpcB/CpeB [Energy production and conversion];


Pssm-ID: 444402  Cd Length: 172  Bit Score: 264.58  E-value: 5.01e-92
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:COG5688   15 RGEFLSGAQLDALKAFVADGNKRLDAVNRITSNASCIVADAARGLFAEQPGLIQPGGNAYTNRRMAACLRDMEIILRYVT 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASqrkveVASGDCSALAAEAGTYFDNVAS 160
Cdd:COG5688   95 YALLAGDASVLDDRCLNGLRETYQALGVPGASVARGVQKMKAAAVAIANDTNG-----ITQGDCSSLASEVASYFDRAAA 169


                 ..
gi 165988345 161 AV 162
Cdd:COG5688  170 AV 171
phycocy_beta TIGR01339
phycocyanin, beta subunit; This model describes the phycocyanin beta subunit. Other, ...
 1-162 2.13e-61

phycocyanin, beta subunit; This model describes the phycocyanin beta subunit. Other, homologous phycobiliproteins of the phycobilisome include phycocyanin beta chain and the allophycocyanin and phycoerythrin alpha and beta chains. This model excludes the closely related phycoerythrocyanin beta subunit. [Energy metabolism, Photosynthesis]


Pssm-ID: 273560  Cd Length: 171  Bit Score: 187.11  E-value: 2.13e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345    1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:TIGR01339  14 RGEFISSDKIDALKKVVSEGNKRSDAVSRITNNASSIVTNAARQLFADQPQLIAPGGNAYTSRRMAACLRDMEIILRYVT 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASqrkveVASGDCSALAAEAGTYFDNVAS 160
Cdd:TIGR01339  94 YATFTGDASVLEDRCLNGLRETYLALGTPGASVAAGVRAMKDAALAIVNDPAG-----ITSGDCSSLQQEIETYFDRAAA 168


                  ..
gi 165988345  161 AV 162
Cdd:TIGR01339 169 AV 170
Phycobilisome pfam00502
Phycobilisome protein;
4-162 3.58e-60

Phycobilisome protein;


Pssm-ID: 425723 [Multi-domain]  Cd Length: 155  Bit Score: 183.46  E-value: 3.58e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345    4 YIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVSYAL 83
Cdd:pfam00502  12 YLSDGELEALKGFFQSGEARLEAANALASNADEIVKEAAAQLFQKYPDLTQPGGNAYTTRRTAACLRDIDYYLRYITYAL 91

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 165988345   84 LSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTAsqrkvevasgdcsalAAEAGTYFDNVASAV 162
Cdd:pfam00502  92 VAGDTSPLDERGLNGLRETYNSLGVPIGAMVEAIQCMKEAALQLLSPEA---------------AAEAAPYFDYLINAL 155
 
Name Accession Description Interval E-value
cpeB CHL00172
phycoerythrin beta subunit; Provisional
 1-162 5.44e-100

phycoerythrin beta subunit; Provisional


Pssm-ID: 133617  Cd Length: 177  Bit Score: 285.04  E-value: 5.44e-100
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:CHL00172  15 KAAYVGGSDLQALKKFISEGNKRLDSVNSIVSNASCIVSDAVSGMICENPGLISPGGNCYTNRRMAACLRDGEIILRYVS 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASQRKVEVASGDCSALAAEAGTYFDNVAS 160
Cdd:CHL00172  95 YALLAGDPSVLEDRCLNGLKETYIALGVPANSSARAVSIMKASAVAFINNTASQRKMSTAQGDCSALASEVASYFDRVTA 174


                 ..
gi 165988345 161 AV 162
Cdd:CHL00172 175 AI 176
PE_beta-like cd14767
Phycoerythrin beta subunit, a component of the phycobilisome rod; and related proteins; ...
 1-162 1.10e-99

Phycoerythrin beta subunit, a component of the phycobilisome rod; and related proteins; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC). This subfamily also includes the beta subunits of Cryptophyte phycobiliproteins which represent another type of biliprotein antenna with different structure and organization. The beta subunits of cryptophyte PBPs share a high degree of sequence identity with both the alpha and beta subunits of the cyanobacterial and red algal PBPs, however the alpha cryptophyte subunits are shorter, and unrelated. There is only one type of PBP present in a single species, either phycocyanin or phycoerythrin, but not allophycocyanin. Structurally, phycoerythrin in cryptophytes is an alpha1alpha2betabeta dimer and not a trimer as in the PBS.


Pssm-ID: 271300  Cd Length: 176  Bit Score: 284.09  E-value: 1.10e-99
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:cd14767   15 KAAYVGGSDLQALKTFISDGNKRLDAVNYIVSNASCIVSDAVSGMICENPGLISPGG*CYTNRRMAACLRDGEIILRYVS 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASQRKVEVASGDCSALAAEAGTYFDNVAS 160
Cdd:cd14767   95 YALLAGDASVLEDRCLNGLKETYIALGVPTNSNIRAVSIMKATAVAFINNTASQRKLETPQGDCSALASEAASYFDKVTA 174


                 ..
gi 165988345 161 AV 162
Cdd:cd14767  175 AI 176
CpcB COG5688
Phycocyanin/phycoerythrin beta chain, CpcB/CpeB [Energy production and conversion];
1-162 5.01e-92

Phycocyanin/phycoerythrin beta chain, CpcB/CpeB [Energy production and conversion];


Pssm-ID: 444402  Cd Length: 172  Bit Score: 264.58  E-value: 5.01e-92
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:COG5688   15 RGEFLSGAQLDALKAFVADGNKRLDAVNRITSNASCIVADAARGLFAEQPGLIQPGGNAYTNRRMAACLRDMEIILRYVT 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASqrkveVASGDCSALAAEAGTYFDNVAS 160
Cdd:COG5688   95 YALLAGDASVLDDRCLNGLRETYQALGVPGASVARGVQKMKAAAVAIANDTNG-----ITQGDCSSLASEVASYFDRAAA 169


                 ..
gi 165988345 161 AV 162
Cdd:COG5688  170 AV 171
PE-PC-PEC_beta cd12127
Beta subunits of phycocyanin, phycoerythrin and phycoerythrocyanin; phycobilisome rod ...
 1-162 1.47e-83

Beta subunits of phycocyanin, phycoerythrin and phycoerythrocyanin; phycobilisome rod components; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC). This family also includes the beta subunits of Cryptophyte phycobiliproteins which represent another type of biliprotein antenna with different structure and organization. The beta subunits of cryptophyte PBPs share a high degree of sequence identity with both the alpha and beta subunits of the cyanobacterial and red algal PBPs, however the alpha cryptophyte subunits are shorter, and unrelated. There is only one type of PBP present in a single species, either phycocyanin or phycoerythrin, but not allophycocyanin. Structurally, phycoerythrin in cryptophytes is an alpha1alpha2betabeta dimer and not a trimer as in the PBS.


Pssm-ID: 381266  Cd Length: 174  Bit Score: 243.16  E-value: 1.47e-83
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:cd12127   15 KGEYLSNAQLDALKKFIAEGNKRLDAVNRITSNASCIVADAVRAMICENPQLINPGG*CYTNRRMAACLRDGEIILRYVS 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASQRKVEvaSGDCSALAAEAGTYFDNVAS 160
Cdd:cd12127   95 YALLAGDSSVLDDRCLNGLKETYQALGVPGSSVARAIEKMKEAAVAIANDTNGGRSGT--KGDCSDLASEAASYFDRAIA 172


                 ..
gi 165988345 161 AV 162
Cdd:cd12127  173 AV 174
PC_PEC_beta cd14768
Beta subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; ...
 1-162 1.21e-65

Beta subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 271301  Cd Length: 171  Bit Score: 197.75  E-value: 1.21e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:cd14768   15 RGEFLSNAQIDALSAMVAEGNKRLDVVNRITSNASTIVSNAARALFAEQPQLIAPGG*AYTNRRMAACLRDMEIILRYVT 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASqrkveVASGDCSALAAEAGTYFDNVAS 160
Cdd:cd14768   95 YAVFAGDASVLDDRCLNGLRETYQALGTPGSSVAVGVQKMKEAALAIVNDPNG-----ITPGDCSALMSEIATYFDRAAA 169


                 ..
gi 165988345 161 AV 162
Cdd:cd14768  170 AV 171
phycocy_beta TIGR01339
phycocyanin, beta subunit; This model describes the phycocyanin beta subunit. Other, ...
 1-162 2.13e-61

phycocyanin, beta subunit; This model describes the phycocyanin beta subunit. Other, homologous phycobiliproteins of the phycobilisome include phycocyanin beta chain and the allophycocyanin and phycoerythrin alpha and beta chains. This model excludes the closely related phycoerythrocyanin beta subunit. [Energy metabolism, Photosynthesis]


Pssm-ID: 273560  Cd Length: 171  Bit Score: 187.11  E-value: 2.13e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345    1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:TIGR01339  14 RGEFISSDKIDALKKVVSEGNKRSDAVSRITNNASSIVTNAARQLFADQPQLIAPGGNAYTSRRMAACLRDMEIILRYVT 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASqrkveVASGDCSALAAEAGTYFDNVAS 160
Cdd:TIGR01339  94 YATFTGDASVLEDRCLNGLRETYLALGTPGASVAAGVRAMKDAALAIVNDPAG-----ITSGDCSSLQQEIETYFDRAAA 168


                  ..
gi 165988345  161 AV 162
Cdd:TIGR01339 169 AV 170
Phycobilisome pfam00502
Phycobilisome protein;
4-162 3.58e-60

Phycobilisome protein;


Pssm-ID: 425723 [Multi-domain]  Cd Length: 155  Bit Score: 183.46  E-value: 3.58e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345    4 YIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVSYAL 83
Cdd:pfam00502  12 YLSDGELEALKGFFQSGEARLEAANALASNADEIVKEAAAQLFQKYPDLTQPGGNAYTTRRTAACLRDIDYYLRYITYAL 91

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 165988345   84 LSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTAsqrkvevasgdcsalAAEAGTYFDNVASAV 162
Cdd:pfam00502  92 VAGDTSPLDERGLNGLRETYNSLGVPIGAMVEAIQCMKEAALQLLSPEA---------------AAEAAPYFDYLINAL 155
cpcB CHL00171
phycocyanin beta subunit; Reviewed
 1-162 1.16e-59

phycocyanin beta subunit; Reviewed


Pssm-ID: 100271  Cd Length: 172  Bit Score: 182.89  E-value: 1.16e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:CHL00171  15 RGEFLSNTQLDALSKMVAEGNKRLDAVNKINANASTIVTNAARSLFAEQPQLIQPGGNAYTNRRMAACLRDMEIVLRYVS 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASqrkveVASGDCSALAAEAGTYFDNVAS 160
Cdd:CHL00171  95 YAMIAGDSSVLDDRCLNGLRETYQALGVPGSSVAVAVQKMKEAAVSLANDSSG-----VTVGDCSALISELASYFDRAAV 169


                 ..
gi 165988345 161 AV 162
Cdd:CHL00171 170 AV 171
ApcB COG5685
Allophycocyanin beta chain [Energy production and conversion];
4-162 1.33e-56

Allophycocyanin beta chain [Energy production and conversion];


Pssm-ID: 444399 [Multi-domain]  Cd Length: 162  Bit Score: 174.74  E-value: 1.33e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   4 YIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVSYAL 83
Cdd:COG5685   18 YLDRNALDKLKAYFASGTARVQAAALINSNAASIVKDAAAKLFAEYPELIRPGGNAYTTRRYAACLRDMDYYLRYATYAL 97

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 165988345  84 LSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTAsqrkvevasgdcsalAAEAGTYFDNVASAV 162
Cdd:COG5685   98 VAGDASVLDERVLNGLRETYNSLGVPIGPTVRGIQIMKEVVKSMVADAG---------------GAEVDEYFDHLIRGL 161
APC_beta cd12126
Allophycocyanin beta subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main ...
 4-124 2.31e-44

Allophycocyanin beta subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 271281 [Multi-domain]  Cd Length: 163  Bit Score: 143.63  E-value: 2.31e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   4 YIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVSYAL 83
Cdd:cd12126   18 YLDRNAIDKLKAYFDTGELRVQAAKVINANAAEIIKEASAKLFEEYPELLRPGGNAYTTRRYAACLRDMDYYLRYATYAI 97

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 165988345  84 LSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAV 124
Cdd:cd12126   98 LAGDTSILDERVLNGLKDTYNSLGVPIGPTVRAIQLMKEVV 138
PBP-like cd08919
Phycobiliproteins (PBPs) and related proteins; phycobilisomes (PBSs) are the main ...
 2-162 5.92e-44

Phycobiliproteins (PBPs) and related proteins; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC). This family also contains allophycocyanin-like (Apl) proteins, which conserve the residues critical for chromophore interactions, but may not maintain the proper alpha-beta subunit interactions and tertiary structure of PBPs. The genes encoding the Apl proteins cluster with light-responsive regulatory components, so these may have photoresponsive regulatory role(s). Included in this family is the PBP-like domain of the core-membrane linker polypeptide (LCM). The LCM serves both as a terminal energy acceptor and as a linker polypeptide. Its single phycocyanobilin (PCB) chromophore is one of two terminal energy transmitters, and transfers excitations from the hundreds of chromophores of the PBS to the RCs. This family also includes some proteins which have glutathione-S-transferases (GST) domains N-terminal to this PBP-like domain.


Pssm-ID: 381259  Cd Length: 153  Bit Score: 142.05  E-value: 5.92e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   2 AAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNcytnRRMAACLRDGEIILRYVSY 81
Cdd:cd08919   12 GRYLSSSELQALKGYIQSAEARLEAAEKLRENAEEIVKQAVRKLFAENPPLFRPGG*----DRSAKCLRDLDYVLRYIAY 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  82 ALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFItntasqrkvevasgdCSALAAEAGTYFDNVASA 161
Cdd:cd08919   88 AMLAGDPDPLDERLLNWLREIYKALGVPLDAYAAAYKDMKEAASQLL---------------TPEAAKLVRPYLDYAISA 152


                 .
gi 165988345 162 V 162
Cdd:cd08919  153 L 153
apcF CHL00089
allophycocyanin beta 18 subunit
 13-124 1.33e-35

allophycocyanin beta 18 subunit


Pssm-ID: 100206  Cd Length: 169  Bit Score: 121.44  E-value: 1.33e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  13 LKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVSYALLSGDSSVLE 92
Cdd:CHL00089  27 LNSYFSSASDRIKIVEIINAQASNIIKEASAQLFEEQPELLRPGGNAYTTRRYAACLRDIEYYLRYASYAIVAGDTNILD 106

                         90       100       110
                 ....*....|....*....|....*....|..
gi 165988345  93 DRCLNGLKETYIALGVPANSTTRAVNIMKAAV 124
Cdd:CHL00089 107 ERVLDGLKDTYNSLGVPIAPTVRSIELLKEII 138
apcB CHL00088
allophycocyanin beta subunit
 1-162 2.92e-32

allophycocyanin beta subunit


Pssm-ID: 164493 [Multi-domain]  Cd Length: 161  Bit Score: 112.77  E-value: 2.92e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENpGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:CHL00088  15 QGKYLDDNSVEKLRSYFQTGELRVRAAATIAANAATIIKEAVAKSLLYS-DITRPGGNMYTTRRYAACIRDLDYYLRYAT 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITNTASQrkvevasgdcsalaaEAGTYFDNVAS 160
Cdd:CHL00088  94 YGMLAGDPSILDERVLNGLKETYNSLGVPIGATIQAIQAMKEVTASLVGPDAGK---------------EMGVYFDYICS 158


                 ..
gi 165988345 161 AV 162
Cdd:CHL00088 159 GL 160
ApcA COG5684
Allophycocyanin alpha chain [Energy production and conversion];
4-162 1.72e-25

Allophycocyanin alpha chain [Energy production and conversion];


Pssm-ID: 444398 [Multi-domain]  Cd Length: 161  Bit Score: 95.32  E-value: 1.72e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   4 YIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVSYAL 83
Cdd:COG5684   17 YLTDGELEQIKAFLPSGEQRLRIAKTLRDNAKKIVDQARKQLLQKRPDITAPGGNAYGQERAAACLRDFWHYLRLITYGI 96

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 165988345  84 LSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITntasqrkvevasgdcSALAAEAGTYFDNVASAV 162
Cdd:COG5684   97 AAGDKDPIEEIGLIGVREMYQSLGVPLPAMVEGIRCLKEASLSLLS---------------GEDAAEAAPYFDYLIQAM 160
APC_alpha cd12125
Allophycocyanin alpha subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main ...
 4-161 2.11e-25

Allophycocyanin alpha subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 381265 [Multi-domain]  Cd Length: 159  Bit Score: 95.04  E-value: 2.11e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   4 YIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVSYAL 83
Cdd:cd12125   16 YPSPGELEAIQDFFNTGEQRIRIAKTLAENEKKIVEQASKQLWQRCPDTPSPGGNAYGEKKTALCLRDQGWYLRLITYGI 95

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 165988345  84 LSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFITntasqrkvevasgdcSALAAEAGTYFDNVASA 161
Cdd:cd12125   96 LAGDVEPLEEIGLIGVREMYNSLGVPLPNMVEAMRCLKEAALALLS---------------PEDAAEAAPYFDYIIQA 158
apcA CHL00086
allophycocyanin alpha subunit
 1-162 7.60e-25

allophycocyanin alpha subunit


Pssm-ID: 164492 [Multi-domain]  Cd Length: 161  Bit Score: 93.90  E-value: 7.60e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   1 KAAYIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVS 80
Cdd:CHL00086  14 EARYLSPGELDRIKSFVLSGQRRLRIAQILTDNRERIVKQGGQQLFQKRPDIVSPGGNAYGEEMTATCLRDLDYYLRLVT 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  81 YALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVVAFItntasqrkvevaSGDCsalAAEAGTYFDNVAS 160
Cdd:CHL00086  94 YGIVAGDVTPIEEIGLVGVKEMYNSLGTPISGVAEGVRSMKSVACSLL------------AGED---SAEAGFYFDYTIG 158


                 ..
gi 165988345 161 AV 162
Cdd:CHL00086 159 AM 160
apcD CHL00090
allophycocyanin gamma subunit
 4-162 6.51e-20

allophycocyanin gamma subunit


Pssm-ID: 164494  Cd Length: 161  Bit Score: 80.98  E-value: 6.51e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   4 YIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVSYAL 83
Cdd:CHL00090  17 YPTIGELESIQDYLKTGEKRIRIATILRDNEKEIIQKASKQLFQIHPEYIAPGGNASGSRQRSLCLRDYGWYLRLITYGV 96

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 165988345  84 LSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKAAVvafitntasqrkVEVASGDCSALaaeAGTYFDNVASAV 162
Cdd:CHL00090  97 LAGDKNSIEKIGIIGVREMYNSLGVPIIGMVDSIQCLKEAA------------LEVLSPEDVKI---IEPYFDYIIQGM 160
Globin-like cd01067
Globin-like protein superfamily; This globin-like domain superfamily contains a wide variety ...
 26-162 1.22e-18

Globin-like protein superfamily; This globin-like domain superfamily contains a wide variety of all-helical proteins that bind porphyrins, phycobilins, and other non-heme cofactors, and play various roles in all three kingdoms of life, including sensors or transporters of oxygen. It includes the M/myoglobin-like, S/sensor globin, and T/truncated globin (TrHb) families, and the phycobiliproteins (PBPs). The M family includes chimeric (FHbs/flavohemoglobins) and single-domain globins: FHbs, Ngbs/neuroglobins, Cygb/cytoglobins, GbE/avian eye specific globin E, GbX/globin X, amphibian GbY/globin Y, Mb/myoglobin, HbA/hemoglobin-alpha, HbB/hemoglobin-beta, SDgbs/single-domain globins related to FHbs, and Adgb/androglobin. The S family includes GCS/globin-coupled sensors, Pgbs/protoglobins, and SSDgbs/sensor single domain globins. The T family is classified into three main groups: TrHb1s (N), TrHb2s (O) and TrHb3s (P). The M- and S families exhibit the canonical secondary structure of hemoglobins, a 3-over-3 alpha-helical sandwich structure (3/3 Mb-fold), built by eight alpha-helical segments (named A through H). For M family Adgbs, this globin domain is permuted, such that C-H are followed by A-B. The T family globins adopt a 2-on-2 alpha-helical sandwich structure, resulting from extensive and complex modifications of the canonical 3-on-3 alpha-helical sandwich that are distributed throughout the whole protein molecule. PBPs bind the linear tetrapyrrole chromophore, phycobilin, a prosthetic group chemically and metabolically related to iron protoporphyrin IX/protoheme. Examples of other globin-like domains which bind non-heme cofactors include those of the Bacillus anthracis sporulation inhibitors pXO1-118 and pXO2-61 which bind fatty acid and halide in vitro, and the globin-like domain of Bacillus subtilis RsbRA which is presumed to channel sensory input to the C-terminal sulfate transporter/ anti-sigma factor antagonist (STAT) domain. RsbRA is a component of the sigma B-activating stressosome, and a regulator of the RNA polymerase sigma factor subunit sigma (B).


Pssm-ID: 381255 [Multi-domain]  Cd Length: 119  Bit Score: 76.34  E-value: 1.22e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  26 SVNYIASNASCIVSDAVSGMICE--NPGLIAPGGncytnrRMAACLRDGEIILRYVSYALLSGDSsvlEDRCLNGLKETY 103
Cdd:cd01067    1 AWGYLEENQEEIVDDFYDRLFALpsLSELFSPPG------RLAKCIRKQMHFLRYALYGLVDGDS---IEEGLAGLGEAH 71

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 165988345 104 IALGVPANSTTRAVNIMKAAVVAFITNTAsqrkvevasgdCSALAAEAGTYFDNVASAV 162
Cdd:cd01067   72 KSLGVPISYFIAALNVMKDVLTELLGDKF-----------TPAAGEAWTKIFDYIISSM 119
PE_alpha cd14769
Phycoerythrin alpha subunit, a phycobilisome rod component; phycobilisomes (PBSs) are the main ...
 7-121 2.91e-07

Phycoerythrin alpha subunit, a phycobilisome rod component; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 271302  Cd Length: 164  Bit Score: 47.59  E-value: 2.91e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   7 GSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVSYALLSG 86
Cdd:cd14769   21 SSDLESVQGNIQRAAARLEAAEKLAANHEAVVKEAGDACFAKYPYLKNPGEAGENQEKINKCYRDIDHYMRLINYCLVVG 100

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 165988345  87 DSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMK 121
Cdd:cd14769  101 GTGPLDEWGIAGAREVYRALNLPTSAYVAAFAFTR 135
apcE CHL00091
phycobillisome linker protein
 9-101 1.05e-06

phycobillisome linker protein


Pssm-ID: 164495 [Multi-domain]  Cd Length: 877  Bit Score: 47.13  E-value: 1.05e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   9 DLAALKTFISEGNKRLDSVNYIASNASCIVSDA-----------------------------------VSGMICEN---- 49
Cdd:CHL00091  39 ELDQLVTYLNSGNKRLEIADILTKNANLIVSRAadrifvggspisylerpqaavtltgdqssqtkiqsLSGNIQGNffrs 118

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 165988345  50 ---PGLIAPGG----NC--YTNRRMAACLRDGEIILRYVSYALLSGDSSVLEDRcLNGLKE 101
Cdd:CHL00091 119 lfnAGGATPAGfkpiNVvrYGTTRMRKSLRDLDWFLRYLTYAIVAGDPNILSVN-IRGLRE 178
PE-PC-PEC_alpha cd12129
Alpha subunits of phycoerythrin, phycocyanin and phycoerythrocyanin; phycobilisome rod ...
 4-122 1.88e-06

Alpha subunits of phycoerythrin, phycocyanin and phycoerythrocyanin; phycobilisome rod components; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 271284  Cd Length: 161  Bit Score: 45.29  E-value: 1.88e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   4 YIGGSDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCY--TNRRMAACLRDGEIILRYVSY 81
Cdd:cd12129   17 FLSNTELQAVQGRFQRAAARLEAARALANNHEAVVKEAADAVYQKFPYTTNMQGPQYasTPEGKAKCYRDIDHYLRLINY 96

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 165988345  82 ALLSGDSSVLEDRCLNGLKETYIALGVPANSTTRAVNIMKA 122
Cdd:cd12129   97 CLVVGGTGPLDEYGIAGLREVNSALNLSPSWYIAALEFTRD 137
Apl cd12130
Allophycocyanin-like globins; phycobilisomes (PBSs) are the main light-harvesting complex in ...
 32-109 2.17e-05

Allophycocyanin-like globins; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC). This subfamily contains allophycocyanin-like proteins (Apls), which have conserved the residues critical for chromophore interactions, but may not maintain the proper alpha-beta subunit interactions and tertiary structure of phycobiliproteins. Indeed AplA isolated from Fremyella diplosiphon was not detected in phycobilisomes. As the genes encoding Apls cluster with light-responsive regulatory components, Apls may have photoresponsive regulatory role(s).


Pssm-ID: 381268  Cd Length: 154  Bit Score: 42.28  E-value: 2.17e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 165988345  32 SNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVSYALLSGDSSVLEDRCLNGLKETYIALGVP 109
Cdd:cd12130   39 DQAHELVDQARATLLAQFPGITEPGGALYPPERAEACWRDCWHFLRCITYGIAGGQTDFTSPEGLGAMRLLYQELQVP 116
cpeA CHL00173
phycoerythrin alpha subunit; Provisional
 8-116 3.65e-05

phycoerythrin alpha subunit; Provisional


Pssm-ID: 100273  Cd Length: 164  Bit Score: 41.65  E-value: 3.65e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345   8 SDLAALKTFISEGNKRLDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCYTNRRMAACLRDGEIILRYVSYALLSGD 87
Cdd:CHL00173  22 SDLESVQGNIQRAAARLEAAEKLASNHEAVVKEAGDACFAKYSYLKNPGEAGDSQEKVNKCYRDVDHYMRLVNYCLVVGG 101

                         90       100
                 ....*....|....*....|....*....
gi 165988345  88 SSVLEDRCLNGLKETYIALGVPANSTTRA 116
Cdd:CHL00173 102 TGPVDEWGIAGAREVYRTLNLPTSAYVAS 130
PBP_PBS-LCM cd12128
Phycobiliprotein-like domain of the phycobilisome core-membrane linker polypeptide; ...
 60-101 3.78e-05

Phycobiliprotein-like domain of the phycobilisome core-membrane linker polypeptide; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae, they consist of a central core and radiating rods and function to harvest and channel light energy toward the photosynthetic reaction centers (RCs) within the membrane. They are comprised of phycobiliproteins or chromophorylated proteins (PBPs) maintained together by linker polypeptides. LCM is a chromophore-bearing PBS linker protein; it facilitates PBS assembly and functionally connects the PBS to the chlorophyll-containing core-complexes in the photosynthetic membrane. In addition to being a linker polypeptide that stabilizes the PBS architecture, the LCM also serves as a terminal energy acceptor. The single phycocyanobilin (PCB) chromophore of LCM are one of two terminal energy transmitters that transfer excitations from the hundreds of chromophores of the PBS to the RCs within the membrane.


Pssm-ID: 381267 [Multi-domain]  Cd Length: 172  Bit Score: 41.92  E-value: 3.78e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 165988345  60 YTNRRMAACLRDGEIILRYVSYALLSGDSSVLEDRCLnGLKE 101
Cdd:cd12128   85 YGPSNMKKSLRDLDWFLRYVTYAIVAGDPSILVVNTR-GLRE 125
ApcE COG5693
Phycobilisome linker protein ApcE [Energy production and conversion];
60-137 1.93e-04

Phycobilisome linker protein ApcE [Energy production and conversion];


Pssm-ID: 444407 [Multi-domain]  Cd Length: 904  Bit Score: 40.49  E-value: 1.93e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  60 YTNRRMAACLRDGEIILRYVSYALLSGDSSVLedrCLN--GLKETyIALGVPANSTTRAVNIMKAAVVAFITNTASQRKV 137
Cdd:COG5693  151 YGPSNMQKSLRDLSWFLRYVTYAIVAGDPNII---VVNvrGLREI-IENACSGDATIVALQEMRAASLGYFRNDAEAQEI 226
PC-PEC_alpha cd14770
Alpha subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; ...
 24-122 9.82e-04

Alpha subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 271303  Cd Length: 162  Bit Score: 37.52  E-value: 9.82e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988345  24 LDSVNYIASNASCIVSDAVSGMICENPGLIAPGGNCY--TNRRMAACLRDGEIILRYVSYALLSGDSSVLEDRCLNGLKE 101
Cdd:cd14770   38 LEAARALTSNADSLISGAAQAVYNKFPYTTQMQGPQYasTQTGKAKCARDIGYYLRMVTYCLVAGGTGPMDEYLIAGLDE 117

                         90       100
                 ....*....|....*....|.
gi 165988345 102 TYIALGVPANSTTRAVNIMKA 122
Cdd:cd14770  118 INRTFDLSPSWYIEALKYIKA 138
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH