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Conserved domains on  [gi|2735787838|ref|WP_347011905|]
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G5 domain-containing protein [Bifidobacterium dentium]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YabE COG3583
Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function ...
 14-281 2.45e-39

Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function unknown];


:

Pssm-ID: 442802 [Multi-domain]  Cd Length: 335  Bit Score: 145.01  E-value: 2.45e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2735787838  14 RRVRVVICVTTVTLASVLAFGVGARKTVALTVNGETTTVTTYAMSVDRLLQEQQVKVKTHDLVESTSSGTLQNHS----V 89
Cdd:COG3583     7 KLLLAAVAAVLVTLAGGGGAYAAAKKTVTLDVDGEERTVTTFAGTVGEVLEEAGITVGEHDVVSPALDTPLTDGDtgelT 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2735787838  90 VTVRSAYQTTVTIDGQEVPFWTVATsadqllgffeaneaeaskitvnidnvynkltgglvinqngpvTViadgkssvspn 169
Cdd:COG3583    87 ITVKRAKPVTVVVDGKTRTVTTTAT------------------------------------------TV----------- 113

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2735787838 170 gklpaASILDSKGIILNKEDRVSVEKN----NGETIlRVQRVTHDEQTRTKTVPHGTQTIIDASLQPGEAVVRQEGEDGE 245
Cdd:COG3583   114 -----GEALAEAGITLGEDDRVSPALDapltDGMTI-TVTRVTTKTVTEEEPIPFETVRKEDPSLPKGETKVVQEGVPGV 187

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 2735787838 246 IQQTYDVTYVDGVEESEKLINEVTTKIAIDQIIAVG 281
Cdd:COG3583   188 KEVTYRVTYENGKEVSREVVSEKVTKEPVDEVVAVG 223
Lyz-like super family cl00222
lysozyme-like domains; This family contains several members, including soluble lytic ...
 408-455 5.40e-03

lysozyme-like domains; This family contains several members, including soluble lytic transglycosylases (SLT), goose egg-white lysozymes (GEWL), hen egg-white lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, chitosanases, and pesticin. Typical members are involved in the hydrolysis of beta-1,4- linked polysaccharides.


The actual alignment was detected with superfamily member cd13925:

Pssm-ID: 469668 [Multi-domain]  Cd Length: 71  Bit Score: 35.43  E-value: 5.40e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 2735787838 408 KLWNRESSWLWYSENASSGAYGIPQSLPGSKMASFGANWRDDA--AVQID 455
Cdd:cd13925     5 AIAQCESGGNWNAVNTGNGYYGGLQFLQGTWKSVGGLGYPDDAtrAEQIT 54
 
Name Accession Description Interval E-value
YabE COG3583
Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function ...
 14-281 2.45e-39

Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function unknown];


Pssm-ID: 442802 [Multi-domain]  Cd Length: 335  Bit Score: 145.01  E-value: 2.45e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2735787838  14 RRVRVVICVTTVTLASVLAFGVGARKTVALTVNGETTTVTTYAMSVDRLLQEQQVKVKTHDLVESTSSGTLQNHS----V 89
Cdd:COG3583     7 KLLLAAVAAVLVTLAGGGGAYAAAKKTVTLDVDGEERTVTTFAGTVGEVLEEAGITVGEHDVVSPALDTPLTDGDtgelT 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2735787838  90 VTVRSAYQTTVTIDGQEVPFWTVATsadqllgffeaneaeaskitvnidnvynkltgglvinqngpvTViadgkssvspn 169
Cdd:COG3583    87 ITVKRAKPVTVVVDGKTRTVTTTAT------------------------------------------TV----------- 113

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2735787838 170 gklpaASILDSKGIILNKEDRVSVEKN----NGETIlRVQRVTHDEQTRTKTVPHGTQTIIDASLQPGEAVVRQEGEDGE 245
Cdd:COG3583   114 -----GEALAEAGITLGEDDRVSPALDapltDGMTI-TVTRVTTKTVTEEEPIPFETVRKEDPSLPKGETKVVQEGVPGV 187

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 2735787838 246 IQQTYDVTYVDGVEESEKLINEVTTKIAIDQIIAVG 281
Cdd:COG3583   188 KEVTYRVTYENGKEVSREVVSEKVTKEPVDEVVAVG 223
G5 pfam07501
G5 domain; This domain is found in a wide range of extracellular proteins. It is found ...
 211-282 1.20e-19

G5 domain; This domain is found in a wide range of extracellular proteins. It is found tandemly repeated in up to 8 copies. It is found in the N-terminus of peptidases belonging to the M26 family which cleave human IgA. The domain is also found in proteins involved in metabolism of bacterial cell walls suggesting this domain may have an adhesive function.


Pssm-ID: 462185 [Multi-domain]  Cd Length: 75  Bit Score: 82.98  E-value: 1.20e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2735787838 211 EQTRTKTVPHGTQTIIDASLQPGEAVVRQEGEDGEIQQTYDVTYVDGVEESEKLINEVTTKIAIDQIIAVGP 282
Cdd:pfam07501   3 TVTEEEEIPFETVTKEDPSLPKGEEKVVQEGKPGEKEVTYKVTYVNGKEVSREVVSEEVTKEPVDEVVAVGT 74
RPF cd13925
core lysozyme-like domain of resuscitation-promoting factor proteins; Resuscitation-promoting ...
 408-455 5.40e-03

core lysozyme-like domain of resuscitation-promoting factor proteins; Resuscitation-promoting factor (RPF) proteins, found in various (G+C)-rich Gram-positive bacteria, act to reactivate cultures from stationary phase. This protein shares elements of the structural core of lysozyme and related proteins. Furthermore, it shares a conserved active site glutamate which is required for activity, and has a polysaccharide binding cleft that corresponds to the peptidoglycan binding cleft of lysozyme. Muralytic activity of Rpf in Micrococcus luteus correlates with resuscitation, supporting a mechanism dependent on cleavage of peptidoglycan by RPF.


Pssm-ID: 381607 [Multi-domain]  Cd Length: 71  Bit Score: 35.43  E-value: 5.40e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 2735787838 408 KLWNRESSWLWYSENASSGAYGIPQSLPGSKMASFGANWRDDA--AVQID 455
Cdd:cd13925     5 AIAQCESGGNWNAVNTGNGYYGGLQFLQGTWKSVGGLGYPDDAtrAEQIT 54
 
Name Accession Description Interval E-value
YabE COG3583
Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function ...
 14-281 2.45e-39

Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function unknown];


Pssm-ID: 442802 [Multi-domain]  Cd Length: 335  Bit Score: 145.01  E-value: 2.45e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2735787838  14 RRVRVVICVTTVTLASVLAFGVGARKTVALTVNGETTTVTTYAMSVDRLLQEQQVKVKTHDLVESTSSGTLQNHS----V 89
Cdd:COG3583     7 KLLLAAVAAVLVTLAGGGGAYAAAKKTVTLDVDGEERTVTTFAGTVGEVLEEAGITVGEHDVVSPALDTPLTDGDtgelT 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2735787838  90 VTVRSAYQTTVTIDGQEVPFWTVATsadqllgffeaneaeaskitvnidnvynkltgglvinqngpvTViadgkssvspn 169
Cdd:COG3583    87 ITVKRAKPVTVVVDGKTRTVTTTAT------------------------------------------TV----------- 113

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2735787838 170 gklpaASILDSKGIILNKEDRVSVEKN----NGETIlRVQRVTHDEQTRTKTVPHGTQTIIDASLQPGEAVVRQEGEDGE 245
Cdd:COG3583   114 -----GEALAEAGITLGEDDRVSPALDapltDGMTI-TVTRVTTKTVTEEEPIPFETVRKEDPSLPKGETKVVQEGVPGV 187

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 2735787838 246 IQQTYDVTYVDGVEESEKLINEVTTKIAIDQIIAVG 281
Cdd:COG3583   188 KEVTYRVTYENGKEVSREVVSEKVTKEPVDEVVAVG 223
G5 pfam07501
G5 domain; This domain is found in a wide range of extracellular proteins. It is found ...
 211-282 1.20e-19

G5 domain; This domain is found in a wide range of extracellular proteins. It is found tandemly repeated in up to 8 copies. It is found in the N-terminus of peptidases belonging to the M26 family which cleave human IgA. The domain is also found in proteins involved in metabolism of bacterial cell walls suggesting this domain may have an adhesive function.


Pssm-ID: 462185 [Multi-domain]  Cd Length: 75  Bit Score: 82.98  E-value: 1.20e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2735787838 211 EQTRTKTVPHGTQTIIDASLQPGEAVVRQEGEDGEIQQTYDVTYVDGVEESEKLINEVTTKIAIDQIIAVGP 282
Cdd:pfam07501   3 TVTEEEEIPFETVTKEDPSLPKGEEKVVQEGKPGEKEVTYKVTYVNGKEVSREVVSEEVTKEPVDEVVAVGT 74
DUF348 pfam03990
G5-linked-Ubiquitin-like domain; This domain normally occurs as tandem repeats; however it is ...
 41-77 2.09e-06

G5-linked-Ubiquitin-like domain; This domain normally occurs as tandem repeats; however it is found as a single copy in the S. cerevisiae DNA-binding nuclear protein YCR593. This protein is involved in sporulation part of the SET3C complex, which is required to repress early/middle sporulation genes during meiosis. The bacterial proteins are likely to be involved in a cell wall function as they are found in conjunction with the pfam07501 domain, which is involved in various cell surface processes. This domain is also present in the resuscitation-promoting factors RpfB from Mycobacterium tuberculosis and Rpf2 from Corynebacterium glutamicum. These are factors that stimulate resuscitation of dormant cells. This domain has a beta grasp fold. Structural description of this domain revealed a structural conservation between these domains and ubiquitin, hence it is termed UBL-G5.


Pssm-ID: 461121 [Multi-domain]  Cd Length: 41  Bit Score: 44.33  E-value: 2.09e-06
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 2735787838  41 VALTVNGETTTVTTYAMSVDRLLQEQQVKVKTHDLVE 77
Cdd:pfam03990   1 VTLTVDGKERTVTTTAGTVGDLLEEAGITLGEHDKVS 37
RPF cd13925
core lysozyme-like domain of resuscitation-promoting factor proteins; Resuscitation-promoting ...
 408-455 5.40e-03

core lysozyme-like domain of resuscitation-promoting factor proteins; Resuscitation-promoting factor (RPF) proteins, found in various (G+C)-rich Gram-positive bacteria, act to reactivate cultures from stationary phase. This protein shares elements of the structural core of lysozyme and related proteins. Furthermore, it shares a conserved active site glutamate which is required for activity, and has a polysaccharide binding cleft that corresponds to the peptidoglycan binding cleft of lysozyme. Muralytic activity of Rpf in Micrococcus luteus correlates with resuscitation, supporting a mechanism dependent on cleavage of peptidoglycan by RPF.


Pssm-ID: 381607 [Multi-domain]  Cd Length: 71  Bit Score: 35.43  E-value: 5.40e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 2735787838 408 KLWNRESSWLWYSENASSGAYGIPQSLPGSKMASFGANWRDDA--AVQID 455
Cdd:cd13925     5 AIAQCESGGNWNAVNTGNGYYGGLQFLQGTWKSVGGLGYPDDAtrAEQIT 54
 
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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