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Conserved domains on  [gi|488225193|ref|WP_002296401|]
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MULTISPECIES: YdcF family protein [Enterococcus]

Protein Classification

YdcF family protein( domain architecture ID 10155978)

YdcF family protein is a DUF218 domain-containing protein; similar to Streptomyces coelicolor uncharacterized protein SCO4629

CATH:  1.10.3620.10

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YdcF-like cd06259
YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found ...
 46-176 6.51e-17

YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been idenitified. The family also includes Escherichia coli sanA and Salmonella typhimurium sfiX, which are involved in vancomycin resistance; sfiX may also be involved in murein synthesis.


:

Pssm-ID: 99750  Cd Length: 150  Bit Score: 75.04  E-value: 6.51e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488225193  46 ADKAAQMYLNGQVDQLFLVGGVGHatrilyenfekqgfhfEDGMSESEICRQYLKEVYdLPDKAFLIESKSTNSGENATF 125
Cdd:cd06259   23 LDAAAELYRAGPAPKLIVSGGQGP----------------GEGYSEAEAMARYLIELG-VPAEAILLEDRSTNTYENARF 85

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 488225193 126 SLEILHSLGAvpEKILLMNDPTLQRRTRATFEKVWQNEQTIFANAVPFVPE 176
Cdd:cd06259   86 SAELLRERGI--RSVLLVTSAYHMPRALLIFRKAGLDVEVVPAPTDFYSLS 134
 
Name Accession Description Interval E-value
YdcF-like cd06259
YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found ...
 46-176 6.51e-17

YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been idenitified. The family also includes Escherichia coli sanA and Salmonella typhimurium sfiX, which are involved in vancomycin resistance; sfiX may also be involved in murein synthesis.


Pssm-ID: 99750  Cd Length: 150  Bit Score: 75.04  E-value: 6.51e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488225193  46 ADKAAQMYLNGQVDQLFLVGGVGHatrilyenfekqgfhfEDGMSESEICRQYLKEVYdLPDKAFLIESKSTNSGENATF 125
Cdd:cd06259   23 LDAAAELYRAGPAPKLIVSGGQGP----------------GEGYSEAEAMARYLIELG-VPAEAILLEDRSTNTYENARF 85

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 488225193 126 SLEILHSLGAvpEKILLMNDPTLQRRTRATFEKVWQNEQTIFANAVPFVPE 176
Cdd:cd06259   86 SAELLRERGI--RSVLLVTSAYHMPRALLIFRKAGLDVEVVPAPTDFYSLS 134
ElyC COG1434
Lipid carrier protein ElyC involved in cell wall biogenesis, DUF218 family [Cell wall/membrane ...
 17-160 1.17e-12

Lipid carrier protein ElyC involved in cell wall biogenesis, DUF218 family [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 441043  Cd Length: 212  Bit Score: 65.04  E-value: 1.17e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488225193  17 NFLAAPEEGNFEELTAPTLIL-------AGNCLPILA---DKAAQMYLNGQVDQLFLVGGVGHatrilyenfekqgfhfE 86
Cdd:COG1434   34 FWLLRPLERYADPPQPADAIVvlgggvyDGRPSPVLLerlDAAARLYRQGPAPRIIVSGGQGP----------------G 97

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488225193  87 DGMSESEICRQYLKEvYDLPDKAFLIESKSTNSGENATFSLEILHSLGavPEKILLMNDPTLQRRTRATFEKVW 160
Cdd:COG1434   98 EGVSEAEVMARYLLA-LGVPAERILLEDRSRNTWENARFSAALLRERG--IRRVILVTSAYHMPRALALFRRAG 168
DUF218 pfam02698
DUF218 domain; This large family of proteins contains several highly conserved charged amino ...
 47-160 1.27e-08

DUF218 domain; This large family of proteins contains several highly conserved charged amino acids, suggesting this may be an enzymatic domain (Bateman A pers. obs). The family includes SanA, which is involved in Vancomycin resistance. This protein may be involved in murein synthesis.


Pssm-ID: 460654  Cd Length: 138  Bit Score: 52.26  E-value: 1.27e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488225193   47 DKAAQMYLNGQVdqLFLVGGVGHAtrilyenfekqgfhfeDGMSESEICRQYLKEvYDLPDKAFLIESKSTNSGENATFS 126
Cdd:pfam02698  19 DAAAELYREGPP--IIVSGGQGGG----------------EPYSEAEAMARYLLE-LGVPEERIILEDRSRNTYENARFS 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 488225193  127 LEIlhsLGAVPEKILLMNDPTLQRRTRATFEKVW 160
Cdd:pfam02698  80 AEL---LKERIRRILLVTSAFHMPRALLLFRRAG 110
 
Name Accession Description Interval E-value
YdcF-like cd06259
YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found ...
 46-176 6.51e-17

YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been idenitified. The family also includes Escherichia coli sanA and Salmonella typhimurium sfiX, which are involved in vancomycin resistance; sfiX may also be involved in murein synthesis.


Pssm-ID: 99750  Cd Length: 150  Bit Score: 75.04  E-value: 6.51e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488225193  46 ADKAAQMYLNGQVDQLFLVGGVGHatrilyenfekqgfhfEDGMSESEICRQYLKEVYdLPDKAFLIESKSTNSGENATF 125
Cdd:cd06259   23 LDAAAELYRAGPAPKLIVSGGQGP----------------GEGYSEAEAMARYLIELG-VPAEAILLEDRSTNTYENARF 85

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 488225193 126 SLEILHSLGAvpEKILLMNDPTLQRRTRATFEKVWQNEQTIFANAVPFVPE 176
Cdd:cd06259   86 SAELLRERGI--RSVLLVTSAYHMPRALLIFRKAGLDVEVVPAPTDFYSLS 134
ElyC COG1434
Lipid carrier protein ElyC involved in cell wall biogenesis, DUF218 family [Cell wall/membrane ...
 17-160 1.17e-12

Lipid carrier protein ElyC involved in cell wall biogenesis, DUF218 family [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 441043  Cd Length: 212  Bit Score: 65.04  E-value: 1.17e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488225193  17 NFLAAPEEGNFEELTAPTLIL-------AGNCLPILA---DKAAQMYLNGQVDQLFLVGGVGHatrilyenfekqgfhfE 86
Cdd:COG1434   34 FWLLRPLERYADPPQPADAIVvlgggvyDGRPSPVLLerlDAAARLYRQGPAPRIIVSGGQGP----------------G 97

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488225193  87 DGMSESEICRQYLKEvYDLPDKAFLIESKSTNSGENATFSLEILHSLGavPEKILLMNDPTLQRRTRATFEKVW 160
Cdd:COG1434   98 EGVSEAEVMARYLLA-LGVPAERILLEDRSRNTWENARFSAALLRERG--IRRVILVTSAYHMPRALALFRRAG 168
DUF218 pfam02698
DUF218 domain; This large family of proteins contains several highly conserved charged amino ...
 47-160 1.27e-08

DUF218 domain; This large family of proteins contains several highly conserved charged amino acids, suggesting this may be an enzymatic domain (Bateman A pers. obs). The family includes SanA, which is involved in Vancomycin resistance. This protein may be involved in murein synthesis.


Pssm-ID: 460654  Cd Length: 138  Bit Score: 52.26  E-value: 1.27e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488225193   47 DKAAQMYLNGQVdqLFLVGGVGHAtrilyenfekqgfhfeDGMSESEICRQYLKEvYDLPDKAFLIESKSTNSGENATFS 126
Cdd:pfam02698  19 DAAAELYREGPP--IIVSGGQGGG----------------EPYSEAEAMARYLLE-LGVPEERIILEDRSRNTYENARFS 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 488225193  127 LEIlhsLGAVPEKILLMNDPTLQRRTRATFEKVW 160
Cdd:pfam02698  80 AEL---LKERIRRILLVTSAFHMPRALLLFRRAG 110
 
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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