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Conserved domains on  [gi|1016561206|gb|AMX21904|]
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photosystem II protein D1, partial (plastid) [Halichrysis micans]

Protein Classification

photosynthetic reaction center family protein( domain architecture ID 607)

photosynthetic reaction center family protein is a subunit of a photosynthetic system that utilizes light-induced electron transfer to generate protons that power reactions such as the synthesis of ATP, similar to photosystem II protein D

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Photo_RC super family cl08220
D1, D2 subunits of photosystem II (PSII); M, L subunits of bacterial photosynthetic reaction ...
1-317 0e+00

D1, D2 subunits of photosystem II (PSII); M, L subunits of bacterial photosynthetic reaction center; This protein superfamily contains the D1, D2 subunits of the photosystem II (PS II) and the M, L subunits of the bacterial photosynthetic reaction center (RC). These four proteins are highly homologous and share a common fold. PS II is a multi-subunit protein found in the photosynthetic membranes of plants, algae, and cyanobacteria. It utilizes light-induced electron transfer and water-splitting reactions to produce protons, electrons, and molecular oxygen. The protons generated are instrumental in ATP formation. Bacterial photosynthetic reaction center (RC) complex is found in photosynthetic bacteria, such as purple bacteria and other proteobacteria species. It couples light-induced electron transfer to proton pumping across the membrane by reactions of a quinone molecule (QB) that binds two electrons and two protons at the active site. Protons are translocated from the bacterial cytoplasm to the periplasmic space, generating an electrochemical gradient of protons (the protonmotive force) that can be used to power reactions such as the synthesis of ATP.


The actual alignment was detected with superfamily member TIGR01151:

Pssm-ID: 447584 [Multi-domain]  Cd Length: 360  Bit Score: 611.94  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206   1 ESASLWERFCNWITSTENRLYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIREPVAGSLLYGNNIISGAIIPSSAA 80
Cdd:TIGR01151   9 ESASLWERFCEWITSTENRLYIGWFGVLMIPTLLTATSCFIIAFIAAPPVDIDGIREPVAGSLLYGNNIISGAVVPSSNA 88
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  81 IGIHFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSF 160
Cdd:TIGR01151  89 IGLHFYPIWEAASLDEWLYNGGPYQLIVFHFLLGVACYMGREWELSYRLGMRPWICVAYSAPVAAATAVFLIYPIGQGSF 168
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 161 SDGMPLGISGTFNFMLVFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTESESANNGYKFGQEEETYNI 240
Cdd:TIGR01151 169 SDGMPLGISGTFNFMIVFQAEHNILMHPFHMLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANYGYKFGQEEETYNI 248
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1016561206 241 VAAHGYFGRLIFQYASFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNFNQSVVDSQGRVINTWADILNRAN 317
Cdd:TIGR01151 249 VAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGIWFTALGISTMAFNLNGFNFNQSVVDSQGRVINTWADIINRAN 325
 
Name Accession Description Interval E-value
psbA TIGR01151
photosystem II, DI subunit (also called Q(B)); This model describes the Photosystem II, DI ...
1-317 0e+00

photosystem II, DI subunit (also called Q(B)); This model describes the Photosystem II, DI subunit (also called Q(B)) in bacterial and its equivalents in chloroplast of algae and higher plants. Photosystem II is many ways functionally equivalent to bacterial reaction center. At the core of Photosystem II are several light harvesting cofactors including plastoquinones, pheophytins, phyloquinones etc. These cofactors are intimately associated with the polypeptides, which principally including subunits DI, DII, Cyt.b, Cyt.f and iron-sulphur protein. Together they participate in the electron transfer reactions that lead to the net production of the reducting equivalents in the form of NADPH, which are used for reduction of CO2 to carbohydrates(C6H1206). Phosystem II operates during oxygenic photosynthesis and principal electron donor is H2O. Although no structural data is presently available, a huge body of literature exits that describes function using a variety of biochemical and biophysical techniques. [Energy metabolism, Electron transport, Energy metabolism, Photosynthesis]


Pssm-ID: 130221 [Multi-domain]  Cd Length: 360  Bit Score: 611.94  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206   1 ESASLWERFCNWITSTENRLYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIREPVAGSLLYGNNIISGAIIPSSAA 80
Cdd:TIGR01151   9 ESASLWERFCEWITSTENRLYIGWFGVLMIPTLLTATSCFIIAFIAAPPVDIDGIREPVAGSLLYGNNIISGAVVPSSNA 88
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  81 IGIHFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSF 160
Cdd:TIGR01151  89 IGLHFYPIWEAASLDEWLYNGGPYQLIVFHFLLGVACYMGREWELSYRLGMRPWICVAYSAPVAAATAVFLIYPIGQGSF 168
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 161 SDGMPLGISGTFNFMLVFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTESESANNGYKFGQEEETYNI 240
Cdd:TIGR01151 169 SDGMPLGISGTFNFMIVFQAEHNILMHPFHMLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANYGYKFGQEEETYNI 248
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1016561206 241 VAAHGYFGRLIFQYASFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNFNQSVVDSQGRVINTWADILNRAN 317
Cdd:TIGR01151 249 VAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGIWFTALGISTMAFNLNGFNFNQSVVDSQGRVINTWADIINRAN 325
Photosystem-II_D1 cd09289
D1 subunit of photosystem II (PS II); Photosystem II (PS II), D2 subunit. PS II is a ...
1-317 0e+00

D1 subunit of photosystem II (PS II); Photosystem II (PS II), D2 subunit. PS II is a multi-subunit protein found in the photosynthetic membranes of plants, algae, and cyanobacteria. It utilizes light-induced electron transfer and water-splitting reactions to produce protons, electrons, and molecular oxygen. The protons generated are instrumental in ATP formation. Molecular dioxygen is released as a by-product. PS II can be described as containing two parts: the photochemical part and the catalytic part. The photochemical portion promotes the fast, efficient light-induced charge separation and stabilization that occur when light is absorbed by chlorophyll. The catalytic portion, where water is oxidized, involves a cluster of Mn ions close to a redox-active tyrosine residue. The Mn cluster and its ligands form a functional unit called the oxygen-evolving complex (OEC) or the water-oxidizing complex (WOC). The D1 and D2 subunits are a pair of interwined polypeptides. They contain all the cofactors involved directly in water oxidation and plastoquinone reduction. The D1 subunit contains the Mn cluster that constitutes the site of water oxidation. D1 and D2 are highly homologous and are also similar to the L and M proteins in bacterial photosynthetic reaction centers.


Pssm-ID: 187747  Cd Length: 338  Bit Score: 607.26  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206   1 ESASLWERFCNWITSTENRLYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIREPVAGSLLYGNNIISGAIIPSSAA 80
Cdd:cd09289     3 ESASLWERFCAWITSTENRLYIGWFGVLMIPTLLTATSVFIIAFIAAPPVDIDGIREPVSGSLLYGNNIISGAVVPTSNA 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  81 IGIHFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSF 160
Cdd:cd09289    83 IGLHFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYMGREWELSYRLGMRPWIAVAYSAPVAAATAVFLIYPIGQGSF 162
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 161 SDGMPLGISGTFNFMLVFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTESESANNGYKFGQEEETYNI 240
Cdd:cd09289   163 SDGMPLGISGTFNFMIVFQAEHNILMHPFHMLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANAGYKFGQEEETYNI 242
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1016561206 241 VAAHGYFGRLIFQYASFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNFNQSVVDSQGRVINTWADILNRAN 317
Cdd:cd09289   243 VAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGIWFTALGISTMAFNLNGFNFNQSVVDSQGRVINTWADIINRAN 319
PLN00056 PLN00056
photosystem Q(B) protein; Provisional
1-317 0e+00

photosystem Q(B) protein; Provisional


Pssm-ID: 177687  Cd Length: 353  Bit Score: 535.09  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206   1 ESASLWERFCNWITSTENRLYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIREPVAGSLLYGNNIISGAIIPSSAA 80
Cdd:PLN00056    9 ESESLWGRFCNWITSTENRLYIGWFGVLMIPTLLTATSVFIIAFIAAPPVDIDGIREPVSGSLLYGNNIISGAIIPTSAA 88
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  81 IGIHFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSF 160
Cdd:PLN00056   89 IGLHFYPIWEAASVDEWLYNGGPYELIVLHFLLGVACYMGREWELSFRLGMRPWIAVAYSAPVAAATAVFLIYPIGQGSF 168
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 161 SDGMPLGISGTFNFMLVFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTESESANNGYKFGQEEETYNI 240
Cdd:PLN00056  169 SDGMPLGISGTFNFMIVFQAEHNILMHPFHMLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANEGYRFGQEEETYNI 248
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1016561206 241 VAAHGYFGRLIFQYASFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNFNQSVVDSQGRVINTWADILNRAN 317
Cdd:PLN00056  249 VAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGIWFTALGISTMAFNLNGFNFNQSVVDSQGRVINTWADIINRAN 325
PsbA COG5716
Photosystem II reaction center D1, PsbA [Energy production and conversion]; Photosystem II ...
4-317 2.19e-174

Photosystem II reaction center D1, PsbA [Energy production and conversion]; Photosystem II reaction center D1, PsbA is part of the Pathway/BioSystem: Photosystem II


Pssm-ID: 444426  Cd Length: 356  Bit Score: 486.91  E-value: 2.19e-174
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206   4 SLWERFCNWITSTENRLYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIREPVAGSLLYGNNIISGAIIPSSAAIGI 83
Cdd:COG5716    15 SSWERFCAWITSTENRIYLGWFGVLMIPTLLTAFIIFGIAFLAAPPVDMDGIREPVIGSLLFGNNLITAAVEPPSPAIGL 94
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  84 HFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSFSDG 163
Cdd:COG5716    95 HFYPIWEAASMDEWLYNGGPYQLIVFHFLIGIWAYWGRTWELSYRLGMRPWIAWAFAAPVAAATSVGLVYPIGQGSFSEG 174
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 164 MPLGISGTFNFMLVFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTESESANNGYKFGQEEETYNIVAA 243
Cdd:COG5716   175 VPLGIFGTFDFMLAFQADHNILMNPFHMLGVAGVYGGALLFAMHGSLVTSVLRRETTESESINAGYFGGQRELTYIVDRG 254
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1016561206 244 H-GYFGRLIFQYASFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNFNQSVVDSQGRVINTWADILNRAN 317
Cdd:COG5716   255 TaGERARLFWRWTMGFNARSIHFWLAAFPVLGIWTAGLGILLTAFNLNGFNVDNSIWDSQGRFIPTYADLINRAN 329
Photo_RC pfam00124
Photosynthetic reaction centre protein;
20-310 6.17e-84

Photosynthetic reaction centre protein;


Pssm-ID: 425477  Cd Length: 260  Bit Score: 253.71  E-value: 6.17e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  20 LYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIdgirepvaGSLLYGNNIISGAIIPSSAAIGIHFYPIWeaasldewly 99
Cdd:pfam00124   1 FYVGFFGVLSIPTALLATFIIGIGFVAAPSVDW--------SPLLFGRNLITLAIEPPSPSYGLSFPPLW---------- 62
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 100 NGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSFSDGMPLGISGTFNFMLVFQ 179
Cdd:pfam00124  63 EGGLWQIITFHATIAFISWWLREYEIARKLGMGPHIAWAFSAAIAAYLSLGLIRPILMGSWSEGFPLGIFPHLDWTSNFS 142
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 180 AEH-NILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIR-ETTESESANNGYKFGQEEETYnivaahgYFGRLIFQYasf 257
Cdd:pfam00124 143 YRYgNFLYNPFHMLGIAFLFGSALLLAMHGALVLSVLRPgGTREVESINDRGTAGEREATF-------WRWTMGFNA--- 212
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1016561206 258 nNSRALHFFLGMWPVVGIWFTAMSVSTMAfnlngfnfnqSVVDSQGRVINTWA 310
Cdd:pfam00124 213 -NSRSIHRWGLWFAVLGIWTSAIGILLSG----------TVVDNQWPEWWTWA 254
 
Name Accession Description Interval E-value
psbA TIGR01151
photosystem II, DI subunit (also called Q(B)); This model describes the Photosystem II, DI ...
1-317 0e+00

photosystem II, DI subunit (also called Q(B)); This model describes the Photosystem II, DI subunit (also called Q(B)) in bacterial and its equivalents in chloroplast of algae and higher plants. Photosystem II is many ways functionally equivalent to bacterial reaction center. At the core of Photosystem II are several light harvesting cofactors including plastoquinones, pheophytins, phyloquinones etc. These cofactors are intimately associated with the polypeptides, which principally including subunits DI, DII, Cyt.b, Cyt.f and iron-sulphur protein. Together they participate in the electron transfer reactions that lead to the net production of the reducting equivalents in the form of NADPH, which are used for reduction of CO2 to carbohydrates(C6H1206). Phosystem II operates during oxygenic photosynthesis and principal electron donor is H2O. Although no structural data is presently available, a huge body of literature exits that describes function using a variety of biochemical and biophysical techniques. [Energy metabolism, Electron transport, Energy metabolism, Photosynthesis]


Pssm-ID: 130221 [Multi-domain]  Cd Length: 360  Bit Score: 611.94  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206   1 ESASLWERFCNWITSTENRLYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIREPVAGSLLYGNNIISGAIIPSSAA 80
Cdd:TIGR01151   9 ESASLWERFCEWITSTENRLYIGWFGVLMIPTLLTATSCFIIAFIAAPPVDIDGIREPVAGSLLYGNNIISGAVVPSSNA 88
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  81 IGIHFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSF 160
Cdd:TIGR01151  89 IGLHFYPIWEAASLDEWLYNGGPYQLIVFHFLLGVACYMGREWELSYRLGMRPWICVAYSAPVAAATAVFLIYPIGQGSF 168
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 161 SDGMPLGISGTFNFMLVFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTESESANNGYKFGQEEETYNI 240
Cdd:TIGR01151 169 SDGMPLGISGTFNFMIVFQAEHNILMHPFHMLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANYGYKFGQEEETYNI 248
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1016561206 241 VAAHGYFGRLIFQYASFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNFNQSVVDSQGRVINTWADILNRAN 317
Cdd:TIGR01151 249 VAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGIWFTALGISTMAFNLNGFNFNQSVVDSQGRVINTWADIINRAN 325
Photosystem-II_D1 cd09289
D1 subunit of photosystem II (PS II); Photosystem II (PS II), D2 subunit. PS II is a ...
1-317 0e+00

D1 subunit of photosystem II (PS II); Photosystem II (PS II), D2 subunit. PS II is a multi-subunit protein found in the photosynthetic membranes of plants, algae, and cyanobacteria. It utilizes light-induced electron transfer and water-splitting reactions to produce protons, electrons, and molecular oxygen. The protons generated are instrumental in ATP formation. Molecular dioxygen is released as a by-product. PS II can be described as containing two parts: the photochemical part and the catalytic part. The photochemical portion promotes the fast, efficient light-induced charge separation and stabilization that occur when light is absorbed by chlorophyll. The catalytic portion, where water is oxidized, involves a cluster of Mn ions close to a redox-active tyrosine residue. The Mn cluster and its ligands form a functional unit called the oxygen-evolving complex (OEC) or the water-oxidizing complex (WOC). The D1 and D2 subunits are a pair of interwined polypeptides. They contain all the cofactors involved directly in water oxidation and plastoquinone reduction. The D1 subunit contains the Mn cluster that constitutes the site of water oxidation. D1 and D2 are highly homologous and are also similar to the L and M proteins in bacterial photosynthetic reaction centers.


Pssm-ID: 187747  Cd Length: 338  Bit Score: 607.26  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206   1 ESASLWERFCNWITSTENRLYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIREPVAGSLLYGNNIISGAIIPSSAA 80
Cdd:cd09289     3 ESASLWERFCAWITSTENRLYIGWFGVLMIPTLLTATSVFIIAFIAAPPVDIDGIREPVSGSLLYGNNIISGAVVPTSNA 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  81 IGIHFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSF 160
Cdd:cd09289    83 IGLHFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYMGREWELSYRLGMRPWIAVAYSAPVAAATAVFLIYPIGQGSF 162
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 161 SDGMPLGISGTFNFMLVFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTESESANNGYKFGQEEETYNI 240
Cdd:cd09289   163 SDGMPLGISGTFNFMIVFQAEHNILMHPFHMLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANAGYKFGQEEETYNI 242
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1016561206 241 VAAHGYFGRLIFQYASFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNFNQSVVDSQGRVINTWADILNRAN 317
Cdd:cd09289   243 VAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGIWFTALGISTMAFNLNGFNFNQSVVDSQGRVINTWADIINRAN 319
PLN00056 PLN00056
photosystem Q(B) protein; Provisional
1-317 0e+00

photosystem Q(B) protein; Provisional


Pssm-ID: 177687  Cd Length: 353  Bit Score: 535.09  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206   1 ESASLWERFCNWITSTENRLYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIREPVAGSLLYGNNIISGAIIPSSAA 80
Cdd:PLN00056    9 ESESLWGRFCNWITSTENRLYIGWFGVLMIPTLLTATSVFIIAFIAAPPVDIDGIREPVSGSLLYGNNIISGAIIPTSAA 88
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  81 IGIHFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSF 160
Cdd:PLN00056   89 IGLHFYPIWEAASVDEWLYNGGPYELIVLHFLLGVACYMGREWELSFRLGMRPWIAVAYSAPVAAATAVFLIYPIGQGSF 168
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 161 SDGMPLGISGTFNFMLVFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTESESANNGYKFGQEEETYNI 240
Cdd:PLN00056  169 SDGMPLGISGTFNFMIVFQAEHNILMHPFHMLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANEGYRFGQEEETYNI 248
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1016561206 241 VAAHGYFGRLIFQYASFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNFNQSVVDSQGRVINTWADILNRAN 317
Cdd:PLN00056  249 VAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGIWFTALGISTMAFNLNGFNFNQSVVDSQGRVINTWADIINRAN 325
psbA CHL00003
photosystem II protein D1
1-317 0e+00

photosystem II protein D1


Pssm-ID: 176948  Cd Length: 338  Bit Score: 502.49  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206   1 ESASLWERFCNWITSTENRLYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIREPVAGSLLYGNNIISGAIIPSSAA 80
Cdd:CHL00003    3 ESTSLWGRFCNWITSTENRLYIGWFGVLMIPTLLTATSVFIIAFIAAPPVDIDGIREPVSGSLLYGNNIISGAIIPSSAA 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  81 IGIHFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSF 160
Cdd:CHL00003   83 IGLHFYPIWEAASVDEWLYNGGPYELIVLHFLLGVACYMGREWELSFRLGMRPWIAVAYSAPVAAATAVFLIYPIGQGSF 162
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 161 SDGMPLGISGTFNFMLVFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTESESANNGYKFGQEEETYNI 240
Cdd:CHL00003  163 SDGMPLGISGTFNFMIVFQAEHNILMHPFHMLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANLGYKFGQEEETYNI 242
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1016561206 241 VAAHGYFGRLIFQYASFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNFNQSVVDSQGRVINTWADILNRAN 317
Cdd:CHL00003  243 VAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGIWFTALGISTMAFNLNGFNFNQSVVDSQGRVINTWADIINRAN 319
PsbA COG5716
Photosystem II reaction center D1, PsbA [Energy production and conversion]; Photosystem II ...
4-317 2.19e-174

Photosystem II reaction center D1, PsbA [Energy production and conversion]; Photosystem II reaction center D1, PsbA is part of the Pathway/BioSystem: Photosystem II


Pssm-ID: 444426  Cd Length: 356  Bit Score: 486.91  E-value: 2.19e-174
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206   4 SLWERFCNWITSTENRLYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIREPVAGSLLYGNNIISGAIIPSSAAIGI 83
Cdd:COG5716    15 SSWERFCAWITSTENRIYLGWFGVLMIPTLLTAFIIFGIAFLAAPPVDMDGIREPVIGSLLFGNNLITAAVEPPSPAIGL 94
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  84 HFYPIWEAASLDEWLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSFSDG 163
Cdd:COG5716    95 HFYPIWEAASMDEWLYNGGPYQLIVFHFLIGIWAYWGRTWELSYRLGMRPWIAWAFAAPVAAATSVGLVYPIGQGSFSEG 174
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 164 MPLGISGTFNFMLVFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTESESANNGYKFGQEEETYNIVAA 243
Cdd:COG5716   175 VPLGIFGTFDFMLAFQADHNILMNPFHMLGVAGVYGGALLFAMHGSLVTSVLRRETTESESINAGYFGGQRELTYIVDRG 254
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1016561206 244 H-GYFGRLIFQYASFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNFNQSVVDSQGRVINTWADILNRAN 317
Cdd:COG5716   255 TaGERARLFWRWTMGFNARSIHFWLAAFPVLGIWTAGLGILLTAFNLNGFNVDNSIWDSQGRFIPTYADLINRAN 329
Photo_RC pfam00124
Photosynthetic reaction centre protein;
20-310 6.17e-84

Photosynthetic reaction centre protein;


Pssm-ID: 425477  Cd Length: 260  Bit Score: 253.71  E-value: 6.17e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  20 LYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIdgirepvaGSLLYGNNIISGAIIPSSAAIGIHFYPIWeaasldewly 99
Cdd:pfam00124   1 FYVGFFGVLSIPTALLATFIIGIGFVAAPSVDW--------SPLLFGRNLITLAIEPPSPSYGLSFPPLW---------- 62
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 100 NGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSFSDGMPLGISGTFNFMLVFQ 179
Cdd:pfam00124  63 EGGLWQIITFHATIAFISWWLREYEIARKLGMGPHIAWAFSAAIAAYLSLGLIRPILMGSWSEGFPLGIFPHLDWTSNFS 142
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 180 AEH-NILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIR-ETTESESANNGYKFGQEEETYnivaahgYFGRLIFQYasf 257
Cdd:pfam00124 143 YRYgNFLYNPFHMLGIAFLFGSALLLAMHGALVLSVLRPgGTREVESINDRGTAGEREATF-------WRWTMGFNA--- 212
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1016561206 258 nNSRALHFFLGMWPVVGIWFTAMSVSTMAfnlngfnfnqSVVDSQGRVINTWA 310
Cdd:pfam00124 213 -NSRSIHRWGLWFAVLGIWTSAIGILLSG----------TVVDNQWPEWWTWA 254
Photo_RC cd09223
D1, D2 subunits of photosystem II (PSII); M, L subunits of bacterial photosynthetic reaction ...
97-285 4.78e-53

D1, D2 subunits of photosystem II (PSII); M, L subunits of bacterial photosynthetic reaction center; This protein superfamily contains the D1, D2 subunits of the photosystem II (PS II) and the M, L subunits of the bacterial photosynthetic reaction center (RC). These four proteins are highly homologous and share a common fold. PS II is a multi-subunit protein found in the photosynthetic membranes of plants, algae, and cyanobacteria. It utilizes light-induced electron transfer and water-splitting reactions to produce protons, electrons, and molecular oxygen. The protons generated are instrumental in ATP formation. Bacterial photosynthetic reaction center (RC) complex is found in photosynthetic bacteria, such as purple bacteria and other proteobacteria species. It couples light-induced electron transfer to proton pumping across the membrane by reactions of a quinone molecule (QB) that binds two electrons and two protons at the active site. Protons are translocated from the bacterial cytoplasm to the periplasmic space, generating an electrochemical gradient of protons (the protonmotive force) that can be used to power reactions such as the synthesis of ATP.


Pssm-ID: 187745 [Multi-domain]  Cd Length: 199  Bit Score: 172.64  E-value: 4.78e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  97 WLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSFSDGMPLGISGTFNFML 176
Cdd:cd09223    20 IGIAGGLWQIITFHALGAFISWMLRQVEIARKLGMGPHIAVAFSAPIASFFVLFLIRPIGQGSWSDAFPYGISSHLDWVN 99
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 177 VFQAEH-NILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTESEsanngykfGQEEETYNIVAAHGYFGRLIFQYA 255
Cdd:cd09223   100 NFQYEHnNWHYNPFHMLGVAFVFGGALLCAMHGALVLSVLNPEGEETE--------GQEAEEYNTAEHANYFWRDIFGYA 171
                         170       180       190
                  ....*....|....*....|....*....|
gi 1016561206 256 SFNnsRALHFFLGMWPVVGIWFTAMSVSTM 285
Cdd:cd09223   172 IGN--RSIHRFGLFLAVVGVWFSAIGIITS 199
Photosystem-II_D2 cd09288
D2 subunit of photosystem II (PS II); Photosystem II (PS II), D2 subunit. PS II is a ...
20-294 6.79e-37

D2 subunit of photosystem II (PS II); Photosystem II (PS II), D2 subunit. PS II is a multi-subunit protein found in the photosynthetic membranes of plants, algae, and cyanobacteria. It utilizes light-induced electron transfer and water-splitting reactions to produce protons, electrons, and molecular oxygen. The protons generated are instrumental in ATP formation. Molecular dioxygen is released as a by-product. PS II can be described as containing two parts: the photochemical part and the catalytic part. The photochemical portion promotes the fast, efficient light-induced charge separation and stabilization that occur when light is absorbed by chlorophyll. The catalytic portion, where water is oxidized, involves a cluster of Mn ions close to a redox-active tyrosine residue. The Mn cluster and its ligands form a functional unit called the oxygen-evolving complex (OEC) or the water-oxidizing complex (WOC). The D1 and D2 subunits are a pair of intertwined polypeptides. They contain all the cofactors involved directly in water oxidation and plastoquinone reduction. D1 and D2 are highly homologous and are also similar to the L and M proteins in bacterial photosynthetic reaction centers.


Pssm-ID: 187746  Cd Length: 339  Bit Score: 134.73  E-value: 6.79e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  20 LYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIrepvAGSLLYGNNIISGAIIPSSAAIGIHFYPIW--EA-ASLDE 96
Cdd:cd09288    15 VFVGWSGLLLFPCAYLALGGWFTGTTFVTSWYTHGL----ASSYLEGCNFLTAAVSTPANSMGHSLLLLWgpEAqGDFTR 90
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  97 WLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSFSDGMPLGISGTFNFML 176
Cdd:cd09288    91 WCQLGGLWTFVALHGAFGLIGFMLRQFEIARSVGIRPYNAIAFSGPIAVFVSVFLIYPLGQSGWFFAPSFGVAAIFRFIL 170
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 177 VFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIrETTESESANNGYKFGQEEETYNIVAAHGYFGRlIFQYAs 256
Cdd:cd09288   171 FFQGFHNWTLNPFHMMGVAGVLGAALLCAIHGATVENTLF-EDGDGANTFRAFNPTQAEETYSMVTANRFWSQ-IFGVA- 247
                         250       260       270
                  ....*....|....*....|....*....|....*...
gi 1016561206 257 FNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNF 294
Cdd:cd09288   248 FSNKRWLHFFMLFVPVTGLWMSAIGVVGLALNLRAYDF 285
psbD CHL00004
photosystem II protein D2
20-294 6.46e-32

photosystem II protein D2


Pssm-ID: 176949  Cd Length: 353  Bit Score: 121.88  E-value: 6.46e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  20 LYIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIrepvAGSLLYGNNIISGAIIPSSAAIGIHFYPIW--EA-ASLDE 96
Cdd:CHL00004   29 VFVGWSGLLLFPCAYFALGGWFTGTTFVTSWYTHGL----ASSYLEGCNFLTAAVSTPANSLAHSLLLLWgpEAqGDFTR 104
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  97 WLYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSFSDGMPLGISGTFNFML 176
Cdd:CHL00004  105 WCQLGGLWTFVALHGAFGLIGFMLRQFELARSVQLRPYNAIAFSGPIAVFVSVFLIYPLGQSGWFFAPSFGVAAIFRFIL 184
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 177 VFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRettESESANNGYKFG--QEEETYNIVAAHGYFGRlIFQY 254
Cdd:CHL00004  185 FFQGFHNWTLNPFHMMGVAGVLGAALLCAIHGATVENTLFE---DGDGANTFRAFNptQAEETYSMVTANRFWSQ-IFGV 260
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|
gi 1016561206 255 AsFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNF 294
Cdd:CHL00004  261 A-FSNKRWLHFFMLFVPVTGLWMSAIGVVGLALNLRAYDF 299
PLN00074 PLN00074
photosystem II D2 protein (PsbD); Provisional
21-294 4.23e-31

photosystem II D2 protein (PsbD); Provisional


Pssm-ID: 215048  Cd Length: 353  Bit Score: 119.77  E-value: 4.23e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  21 YIGWFGVVMIPTLLTATSVFIIAFVAAPPVDIDGIrepvAGSLLYGNNIISGAIIPSSAAIGIHFYPIW--EA-ASLDEW 97
Cdd:PLN00074   30 FVGWSGLLLFPCAYFALGGWFTGTTFVTSWYTHGL----ASSYLEGCNFLTAAVSTPANSLAHSLLLLWgpEAqGDFTRW 105
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  98 LYNGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSFSDGMPLGISGTFNFMLV 177
Cdd:PLN00074  106 CQLGGLWTFVALHGAFGLIGFMLRQFELARSVQLRPYNAIAFSGPIAVFVSVFLIYPLGQSGWFFAPSFGVAAIFRFILF 185
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 178 FQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRettESESANNGYKFG--QEEETYNIVAAHGYFGRlIFQYA 255
Cdd:PLN00074  186 FQGFHNWTLNPFHMMGVAGVLGAALLCAIHGATVENTLFE---DGDGANTFRAFNptQAEETYSMVTANRFWSQ-IFGVA 261
                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 1016561206 256 sFNNSRALHFFLGMWPVVGIWFTAMSVSTMAFNLNGFNF 294
Cdd:PLN00074  262 -FSNKRWLHFFMLFVPVTGLWMSALGVVGLALNLRAYDF 299
Photo-RC_L cd09290
Subunit L of bacterial photosynthetic reaction center; Bacterial photosynthetic reaction ...
19-213 5.40e-05

Subunit L of bacterial photosynthetic reaction center; Bacterial photosynthetic reaction center (RC) complex, subunit L. The bacterial photosynthetic reaction center couples light-induced electron transfer with pumping protons across the membrane using reactions involving a quinone molecule (QB) that binds two electrons and two protons at the active site. The reaction center consists of three membrane-bound subunits, designated L, M, and H, plus an additional extracellular cytochrome subunit. The L and M subunits are arranged around an axis of 2-fold rotational symmetry perpendicular to the membrane, forming a scaffold that maintains the cofactors in a precise configuration. The L and M subunits have both sequence and structural similarity, suggesting a common evolutionary origin. The L and M subunits bind noncovalently to the nine cofactors in 2-fold symmetric branches: four bacteriochlorophylls (Bchl), two bacteriopheophytins (Bphe), two ubiquinone molecules (QA and QB), and a non-heme iron. Two Bchls on the periplasmic side of the membrane form the 'special pair' or dimer which is the primary electron donor for the photosynthetic reactions. The electron transfer reaction proceeds from the dimer to an intermediate acceptor (PA), a primary quinone (QA), and a secondary quinone (QB). Protons are translocated from the bacterial cytoplasm to the periplasmic space, generating an electrochemical gradient of protons (the protonmotive force) that can be used to power reactions such as ATP synthesis. The RC complex is found in photosynthetic bacteria, such as purple bacteria and other proteobacteria species.


Pssm-ID: 187748  Cd Length: 273  Bit Score: 43.97  E-value: 5.40e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  19 RLYIGWFGVVMIPTLLTATSVFIIAFVAAPPVdidgirepvagsllygNNIISGAIIPSSAAIGIHFYPIWEaasldewl 98
Cdd:cd09290    28 PFYVGFFGVVSIFFIILGVALIIWEAVLGGPT----------------WNIWAISINPPDLSYGLGAAPLTE-------- 83
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  99 ynGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSFSDGMPLGISGTFNFMLVF 178
Cdd:cd09290    84 --GGLWQIITVCATGAFVSWALRQVEISRKLGMGYHVPIAFGVAISAYLTLQVIRPILMGAWGHGFPYGIMSHLDWVSNF 161
                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1016561206 179 QAEH-NILMHPFHQLGVAGVFGGSLFSAMHGSLVTS 213
Cdd:cd09290   162 GYQYlNFHYNPAHMIAITFLFTNTLALSMHGSLILS 197
PsbD COG5719
Photosystem II reaction center D2, PsbD [Energy production and conversion]; Photosystem II ...
20-213 1.01e-04

Photosystem II reaction center D2, PsbD [Energy production and conversion]; Photosystem II reaction center D2, PsbD is part of the Pathway/BioSystem: Photosystem II


Pssm-ID: 444429  Cd Length: 316  Bit Score: 43.50  E-value: 1.01e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  20 LYIGWFGVVMIPTLLTATsvFIIAFVAAPPVDIDGIREPVAGSLLygnniisgAIIPSSAAIGIHFYPIWEaasldewly 99
Cdd:COG5719    51 IYVGFFGVTSIFFGFLAI--AIIGLNAAASVTWNPIQFVRQFFWL--------ALEPPDPEYGLGLAPLAE--------- 111
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 100 nGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSFSDGMPLGISG----TFNFM 175
Cdd:COG5719   112 -GGWWQIATFFLTGSFLSWWLREYERARKLGMGTHVPWAFAAAIFLYLVLGVIRPLLMGSWGEAVPYGIFPhldwTSNFS 190
                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 1016561206 176 LVFQaehNILMHPFHQLGVAGVFGGSLFSAMHGSLVTS 213
Cdd:COG5719   191 YRYG---NFHYNPFHMLSITFLFGSTLLLAMHGATILA 225
PRK14505 PRK14505
bifunctional photosynthetic reaction center subunit L/M; Provisional
154-221 5.65e-04

bifunctional photosynthetic reaction center subunit L/M; Provisional


Pssm-ID: 172976  Cd Length: 643  Bit Score: 41.57  E-value: 5.65e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1016561206 154 PIGQGSFSDGMPLGISGTFNFMLVFQAEH-NILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTE 221
Cdd:PRK14505  175 PIAMGAWGHGFPLGITHHLDWVSNIGYQYyNFFYNPFHAIGITLLFASTLFLHMHGSAVLSEAKRNISD 243
Photo-RC_M cd09291
Subunit M of bacterial photosynthetic reaction center; Bacterial photosynthetic reaction ...
20-208 4.74e-03

Subunit M of bacterial photosynthetic reaction center; Bacterial photosynthetic reaction center (RC) complex, subunit M. The bacterial photosynthetic reaction center couples light-induced electron transfer with pumping protons across the membrane using reactions involving a quinone molecule (QB) that binds two electrons and two protons at the active site. The reaction center consists of three membrane-bound subunits, designated L, M, and H, plus an additional extracellular cytochrome subunit. The L and M subunits are arranged around an axis of 2-fold rotational symmetry perpendicular to the membrane, forming a scaffold that maintains the cofactors in a precise configuration. The L and M subunits have both sequence and structural similarity, suggesting a common evolutionary origin. The L and M subunits bind noncovalently to the nine cofactors in 2-fold symmetric branches: four bacteriochlorophylls (Bchl), two bacteriopheophytins (Bphe), two ubiquinone molecules (QA and QB), and a non-heme iron. Two Bchls on the periplasmic side of the membrane form the 'special pair' or dimer which is the primary electron donor for the photosynthetic reactions. The electron transfer reaction proceeds from the dimer to an intermediate acceptor (PA), a primary quinone (QA), and a secondary quinone (QB). Protons are translocated from the bacterial cytoplasm to the periplasmic space, generating an electrochemical gradient of protons (the protonmotive force) that can be used to power reactions such as ATP synthesis. The RC complex is found in photosynthetic bacteria, such as purple bacteria and other proteobacteria species.


Pssm-ID: 187749  Cd Length: 297  Bit Score: 38.18  E-value: 4.74e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206  20 LYIGWFGVVMIPTLLTATsvFIIAFVAAPPVDIDgirePVAgsllYGNNIISGAIIPSSAAIGIHFYPiweaasldewLY 99
Cdd:cd09291    40 IYLGLWGVLSIIFGFIAI--FIILFNMLAQVNWN----PVQ----FLRQFFWLALEPPPPEYGLSIPP----------LN 99
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1016561206 100 NGGPYQLIVLHFLLGVCCYIGREWEFSYRLGMRPWISVAFTAPVAAAAAVFLVYPIGQGSFSDGMPLGISGTFNFMLVFQ 179
Cdd:cd09291   100 EGGWWLIAGFFLTLSILLWWIRTYTRAKALGMGTHLAWAFAAAIFLYLVIGFIRPVLMGSWSEAVPFGIFPHLDWTNAFS 179
                         170       180       190
                  ....*....|....*....|....*....|
gi 1016561206 180 AEH-NILMHPFHQLGVAGVFGGSLFSAMHG 208
Cdd:cd09291   180 IRYgNFYYNPFHMLSIAFLYGSTLLFAMHG 209
 
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.
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