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Conserved domains on  [gi|1149984644|ref|WP_077911323|]
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SH3 domain-containing C40 family peptidase [Salmonella enterica]

Protein Classification

SH3 domain-containing C40 family peptidase( domain architecture ID 10331780)

SH3 (SRC Homology 3) domain-containing C40 family peptidase is a cell-wall hydrolase that cleaves peptide cross-bridges between glycan chains and is essential for bacterial growth and viability; typically cleaves the linkage between D-Glu and diaminopimelic acid (or Lys) within peptidoglycan stem peptides; contains a Cys-His-His catalytic triad

Gene Ontology:  GO:0008233|GO:0016787|GO:0006508
PubMed:  12620121|11517925

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SH3_6 pfam12913
SH3 domain (SH3b1 type); This domain appears to be an SH3 domain of the SH3b1-type, and is ...
 179-231 4.43e-22

SH3 domain (SH3b1 type); This domain appears to be an SH3 domain of the SH3b1-type, and is just C-terminal to an N-terminal domain that is probably the stabilising domain for the structure from Swiss:Q72DN3, PDB:3m1u, which is a four-domain protein. The next domain is an SH3b2 and the last, the C-terminal region, is the catalytic domain of the cysteine-peptidase type, ie family NLPC_P60, pfam00877 (details derived from TOPSAN).


:

Pssm-ID: 432871  Cd Length: 53  Bit Score: 88.85  E-value: 4.43e-22
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1149984644 179 PLFNDPRQAGEGYPFDNLQMSSLRPGTPVYTLTKSKDQRWQYVVSPAVTGWVH 231
Cdd:pfam12913   1 PLFYDPSLAGEGYPFDYLQNSALHPGTPVLISHYSADGAWLFVETPFASGWVP 53
NlpC COG0791
Cell wall-associated hydrolase, NlpC_P60 family [Cell wall/membrane/envelope biogenesis];
231-420 5.13e-12

Cell wall-associated hydrolase, NlpC_P60 family [Cell wall/membrane/envelope biogenesis];


:

Pssm-ID: 440554 [Multi-domain]  Cd Length: 218  Bit Score: 65.11  E-value: 5.13e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1149984644 231 HSEDIASADQKFITQWVLLAHKQLGAFINAPVSVHAAGVYYFTGRPGTILPFRHQRAGQFLIAAPVRDSNGRAFIHWVWL 310
Cdd:COG0791     1 ASVASALAAALAAAAAALAAVAAAGALAAADAAVAAALVAAAAAVLAAAALLAGPAAAVAGAAAPAVGSAGAAAAAAAAK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1149984644 311 SGNEFTAMPWKM------TPENIAVLMKAMHGAPYGWG-NFNFYNDCSAEVRSLLMPFGIFLPRHSSAQvESAGRVVDLS 383
Cdd:COG0791    81 AGSSAAKSAAGAsappssTAEAIVAAALSYLGTPYVWGgTSPSGFDCSGLVQYVYRQAGISLPRTSADQ-AAAGTPVSRS 159

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 1149984644 384 hkNPQmridyltrygkP-----FTTLVYIPGHIMLYIGNTTM 420
Cdd:COG0791   160 --ELQ-----------PgdlvfFRTGGGGISHVGIYLGNGKF 188
N_NLPC_P60 super family cl15160
NLPC_P60 stabilising domain, N term; This domain, at the N-terminus, appears to be the ...
 44-143 1.54e-03

NLPC_P60 stabilising domain, N term; This domain, at the N-terminus, appears to be the stabilising domain for the structure from Swiss:Q72DN3, PDB:3m1u, which is a four-domain protein. The next domain is an SH3b1, the third an SH3b2 and the last, the C-terminal region, the catalytic domain of the cysteine-peptidase type, ie family NLPC_P60, pfam00877 (details derived from TOPSAN).


The actual alignment was detected with superfamily member pfam12912:

Pssm-ID: 432870  Cd Length: 107  Bit Score: 38.22  E-value: 1.54e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1149984644  44 TRFPladysQSVDKWIPPDSADytIPVIDSATQQRYFHALKSHYFgmdseahSPWNgfyITALLKKnaaqARDASIKQFL 123
Cdd:pfam12912  18 RRFP-----QDLTVYADNAGPD--RPLLSDARQAALYEDFLRRFF-------APWN---QTKPSVS----AEDALWAFAA 76

                          90       100
                  ....*....|....*....|.
gi 1149984644 124 SDGSAYWGENFRLYT-SRWKE 143
Cdd:pfam12912  77 FGTKRGYGENLQPWPpKRWDA 97
 
Name Accession Description Interval E-value
SH3_6 pfam12913
SH3 domain (SH3b1 type); This domain appears to be an SH3 domain of the SH3b1-type, and is ...
 179-231 4.43e-22

SH3 domain (SH3b1 type); This domain appears to be an SH3 domain of the SH3b1-type, and is just C-terminal to an N-terminal domain that is probably the stabilising domain for the structure from Swiss:Q72DN3, PDB:3m1u, which is a four-domain protein. The next domain is an SH3b2 and the last, the C-terminal region, is the catalytic domain of the cysteine-peptidase type, ie family NLPC_P60, pfam00877 (details derived from TOPSAN).


Pssm-ID: 432871  Cd Length: 53  Bit Score: 88.85  E-value: 4.43e-22
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1149984644 179 PLFNDPRQAGEGYPFDNLQMSSLRPGTPVYTLTKSKDQRWQYVVSPAVTGWVH 231
Cdd:pfam12913   1 PLFYDPSLAGEGYPFDYLQNSALHPGTPVLISHYSADGAWLFVETPFASGWVP 53
NlpC COG0791
Cell wall-associated hydrolase, NlpC_P60 family [Cell wall/membrane/envelope biogenesis];
231-420 5.13e-12

Cell wall-associated hydrolase, NlpC_P60 family [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 440554 [Multi-domain]  Cd Length: 218  Bit Score: 65.11  E-value: 5.13e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1149984644 231 HSEDIASADQKFITQWVLLAHKQLGAFINAPVSVHAAGVYYFTGRPGTILPFRHQRAGQFLIAAPVRDSNGRAFIHWVWL 310
Cdd:COG0791     1 ASVASALAAALAAAAAALAAVAAAGALAAADAAVAAALVAAAAAVLAAAALLAGPAAAVAGAAAPAVGSAGAAAAAAAAK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1149984644 311 SGNEFTAMPWKM------TPENIAVLMKAMHGAPYGWG-NFNFYNDCSAEVRSLLMPFGIFLPRHSSAQvESAGRVVDLS 383
Cdd:COG0791    81 AGSSAAKSAAGAsappssTAEAIVAAALSYLGTPYVWGgTSPSGFDCSGLVQYVYRQAGISLPRTSADQ-AAAGTPVSRS 159

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 1149984644 384 hkNPQmridyltrygkP-----FTTLVYIPGHIMLYIGNTTM 420
Cdd:COG0791   160 --ELQ-----------PgdlvfFRTGGGGISHVGIYLGNGKF 188
SH3_7 pfam12914
SH3 domain of SH3b2 type; This domain appears to be an SH3 domain of the SH3b2-type, and is ...
 239-287 1.24e-08

SH3 domain of SH3b2 type; This domain appears to be an SH3 domain of the SH3b2-type, and is the second SH3 domain to be found, downstream of an N-terminal domain that is probably the stabilising domain, for the structure from Swiss:Q72DN3, PDB:3m1u, which is a four-domain protein. The last, the C-terminal region, is the catalytic domain of the cysteine-peptidase type, ie family NLPC_P60, pfam00877 (details derived from TOPSAN).


Pssm-ID: 432872  Cd Length: 47  Bit Score: 50.59  E-value: 1.24e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1149984644 239 DQKFITQWVLLahkQLGAFINAPVSVH-AAGVYYFTGRPGTILPFRHQRA 287
Cdd:pfam12914   1 DDAFVTIWQNL---PYAAVIRDNVPLYdAKGRFLFTARIGTLLPLLGEDA 47
N_NLPC_P60 pfam12912
NLPC_P60 stabilising domain, N term; This domain, at the N-terminus, appears to be the ...
 44-143 1.54e-03

NLPC_P60 stabilising domain, N term; This domain, at the N-terminus, appears to be the stabilising domain for the structure from Swiss:Q72DN3, PDB:3m1u, which is a four-domain protein. The next domain is an SH3b1, the third an SH3b2 and the last, the C-terminal region, the catalytic domain of the cysteine-peptidase type, ie family NLPC_P60, pfam00877 (details derived from TOPSAN).


Pssm-ID: 432870  Cd Length: 107  Bit Score: 38.22  E-value: 1.54e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1149984644  44 TRFPladysQSVDKWIPPDSADytIPVIDSATQQRYFHALKSHYFgmdseahSPWNgfyITALLKKnaaqARDASIKQFL 123
Cdd:pfam12912  18 RRFP-----QDLTVYADNAGPD--RPLLSDARQAALYEDFLRRFF-------APWN---QTKPSVS----AEDALWAFAA 76

                          90       100
                  ....*....|....*....|.
gi 1149984644 124 SDGSAYWGENFRLYT-SRWKE 143
Cdd:pfam12912  77 FGTKRGYGENLQPWPpKRWDA 97
 
Name Accession Description Interval E-value
SH3_6 pfam12913
SH3 domain (SH3b1 type); This domain appears to be an SH3 domain of the SH3b1-type, and is ...
 179-231 4.43e-22

SH3 domain (SH3b1 type); This domain appears to be an SH3 domain of the SH3b1-type, and is just C-terminal to an N-terminal domain that is probably the stabilising domain for the structure from Swiss:Q72DN3, PDB:3m1u, which is a four-domain protein. The next domain is an SH3b2 and the last, the C-terminal region, is the catalytic domain of the cysteine-peptidase type, ie family NLPC_P60, pfam00877 (details derived from TOPSAN).


Pssm-ID: 432871  Cd Length: 53  Bit Score: 88.85  E-value: 4.43e-22
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1149984644 179 PLFNDPRQAGEGYPFDNLQMSSLRPGTPVYTLTKSKDQRWQYVVSPAVTGWVH 231
Cdd:pfam12913   1 PLFYDPSLAGEGYPFDYLQNSALHPGTPVLISHYSADGAWLFVETPFASGWVP 53
NlpC COG0791
Cell wall-associated hydrolase, NlpC_P60 family [Cell wall/membrane/envelope biogenesis];
231-420 5.13e-12

Cell wall-associated hydrolase, NlpC_P60 family [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 440554 [Multi-domain]  Cd Length: 218  Bit Score: 65.11  E-value: 5.13e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1149984644 231 HSEDIASADQKFITQWVLLAHKQLGAFINAPVSVHAAGVYYFTGRPGTILPFRHQRAGQFLIAAPVRDSNGRAFIHWVWL 310
Cdd:COG0791     1 ASVASALAAALAAAAAALAAVAAAGALAAADAAVAAALVAAAAAVLAAAALLAGPAAAVAGAAAPAVGSAGAAAAAAAAK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1149984644 311 SGNEFTAMPWKM------TPENIAVLMKAMHGAPYGWG-NFNFYNDCSAEVRSLLMPFGIFLPRHSSAQvESAGRVVDLS 383
Cdd:COG0791    81 AGSSAAKSAAGAsappssTAEAIVAAALSYLGTPYVWGgTSPSGFDCSGLVQYVYRQAGISLPRTSADQ-AAAGTPVSRS 159

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 1149984644 384 hkNPQmridyltrygkP-----FTTLVYIPGHIMLYIGNTTM 420
Cdd:COG0791   160 --ELQ-----------PgdlvfFRTGGGGISHVGIYLGNGKF 188
SH3_7 pfam12914
SH3 domain of SH3b2 type; This domain appears to be an SH3 domain of the SH3b2-type, and is ...
 239-287 1.24e-08

SH3 domain of SH3b2 type; This domain appears to be an SH3 domain of the SH3b2-type, and is the second SH3 domain to be found, downstream of an N-terminal domain that is probably the stabilising domain, for the structure from Swiss:Q72DN3, PDB:3m1u, which is a four-domain protein. The last, the C-terminal region, is the catalytic domain of the cysteine-peptidase type, ie family NLPC_P60, pfam00877 (details derived from TOPSAN).


Pssm-ID: 432872  Cd Length: 47  Bit Score: 50.59  E-value: 1.24e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1149984644 239 DQKFITQWVLLahkQLGAFINAPVSVH-AAGVYYFTGRPGTILPFRHQRA 287
Cdd:pfam12914   1 DDAFVTIWQNL---PYAAVIRDNVPLYdAKGRFLFTARIGTLLPLLGEDA 47
NLPC_P60 pfam00877
NlpC/P60 family; The function of this domain is unknown. It is found in several lipoproteins.
 336-420 4.94e-07

NlpC/P60 family; The function of this domain is unknown. It is found in several lipoproteins.


Pssm-ID: 395705 [Multi-domain]  Cd Length: 105  Bit Score: 48.05  E-value: 4.94e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1149984644 336 GAPYGWGN---FNFynDCSAEVRSLLMPFGIFLPRHSSAQVESAGRVVDLSHknPQmRIDYLtrygkpFTTLVYIPGHIM 412
Cdd:pfam00877   1 GVPYRWGGgspSGF--DCSGLVRYAFAKVGIELPRSSGQQYNAGKKTIPKSE--PQ-RGDLV------FFGTGKGISHVG 69


                  ....*...
gi 1149984644 413 LYIGNTTM 420
Cdd:pfam00877  70 IYLGNGQM 77
N_NLPC_P60 pfam12912
NLPC_P60 stabilising domain, N term; This domain, at the N-terminus, appears to be the ...
 44-143 1.54e-03

NLPC_P60 stabilising domain, N term; This domain, at the N-terminus, appears to be the stabilising domain for the structure from Swiss:Q72DN3, PDB:3m1u, which is a four-domain protein. The next domain is an SH3b1, the third an SH3b2 and the last, the C-terminal region, the catalytic domain of the cysteine-peptidase type, ie family NLPC_P60, pfam00877 (details derived from TOPSAN).


Pssm-ID: 432870  Cd Length: 107  Bit Score: 38.22  E-value: 1.54e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1149984644  44 TRFPladysQSVDKWIPPDSADytIPVIDSATQQRYFHALKSHYFgmdseahSPWNgfyITALLKKnaaqARDASIKQFL 123
Cdd:pfam12912  18 RRFP-----QDLTVYADNAGPD--RPLLSDARQAALYEDFLRRFF-------APWN---QTKPSVS----AEDALWAFAA 76

                          90       100
                  ....*....|....*....|.
gi 1149984644 124 SDGSAYWGENFRLYT-SRWKE 143
Cdd:pfam12912  77 FGTKRGYGENLQPWPpKRWDA 97
 
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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