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Conserved domains on  [gi|2728088560|ref|WP_343286704|]
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SH3 domain-containing protein, partial [Flavonifractor sp. An91]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Peptidase_M15 super family cl38918
Metalloproteases including zinc D-Ala-D-Ala carboxypeptidase, L-Ala-D-Glu peptidase, L, ...
 150-210 2.12e-05

Metalloproteases including zinc D-Ala-D-Ala carboxypeptidase, L-Ala-D-Glu peptidase, L,D-carboxypeptidase, bacteriophage endolysins, and related proteins; This family summarizes zinc-binding metallopeptidases which are mostly carboxypeptidases and dipeptidases, and includes zinc-dependent D-Ala-D-Ala carboxypeptidases, VanX, L-Ala-D-Glu peptidase, L,D-carboxypeptidase and bacteriophage endolysins, amongst other family members. These peptidases belong to MEROPS family M15 which are involved in bacterial cell wall biosynthesis and metabolism.


The actual alignment was detected with superfamily member cd14840:

Pssm-ID: 453889 [Multi-domain]  Cd Length: 158  Bit Score: 43.18  E-value: 2.12e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2728088560 150 ITGQALY-QGKVYnprfdeeqflmpVLYATAKKICAAQQKALAQGNSLKLYEAYRPYATQRA 210
Cdd:cd14840    10 FTGKKLYpSARAY------------LRKEAAEKLAKAQKELKKPGYRLKIFDAYRPLSVQKK 59
YgiM super family cl34551
Uncharacterized conserved protein YgiM, contains N-terminal SH3 domain, DUF1202 family ...
 84-143 8.76e-04

Uncharacterized conserved protein YgiM, contains N-terminal SH3 domain, DUF1202 family [General function prediction only];


The actual alignment was detected with superfamily member COG3103:

Pssm-ID: 442337 [Multi-domain]  Cd Length: 119  Bit Score: 38.18  E-value: 8.76e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2728088560  84 VLPAGASFTILGEKENWWKVSSGYG-TGWVDHRLcmINLPDVVPSIVYDATNAYASRYTSS 143
Cdd:COG3103    29 TLPKGEKVTVLGRSGGWYKVRYSNGkTGWVSSRY--LTVTPSARERLPDELNLRAGPSTSS 87
PHA03269 super family cl29788
envelope glycoprotein C; Provisional
 1-73 9.89e-03

envelope glycoprotein C; Provisional


The actual alignment was detected with superfamily member PHA03269:

Pssm-ID: 165527 [Multi-domain]  Cd Length: 566  Bit Score: 36.63  E-value: 9.89e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2728088560   1 ATPSPTPVVTPSPTPAPTPALSAEPELSGSSAPEPALSETPAA----EPSVSPTPEASPLPSPVQAQATTQLSEAQP 73
Cdd:PHA03269   36 ATQKPDPAPAPHQAASRAPDPAVAPTSAASRKPDLAQAPTPAAsekfDPAPAPHQAASRAPDPAVAPQLAAAPKPDA 112
 
Name Accession Description Interval E-value
D-Ala-D-Ala_dipeptidase_Aad cd14840
D-Ala-D-Ala dipeptidase (includes Lactobacillus plantarum Aad peptidase); D-Ala-D-Ala ...
 150-210 2.12e-05

D-Ala-D-Ala dipeptidase (includes Lactobacillus plantarum Aad peptidase); D-Ala-D-Ala dipeptidase (also known as D-alanyl-D-alanine dipeptidase vanX; VanX; EC 3.4.13.22) is a Zn2+-dependent enzyme that mediates resistance to the antibiotic vancomycin in Enterococci and other bacteria (both Gram-positive and Gram-negative). It is part of a gene cluster that affects cell-wall biosynthesis. The operon triggers the termination of peptidoglycan precursors by D-Ala-(R)-lactate instead of D-Ala-D-Ala dipeptides. The enzyme is stereospecific, as L-Ala-L-Ala, D-Ala-L-Ala and L-Ala-D-Ala are not substrates. This subfamily includes Lactobacillus Aad peptidase and belongs in the MEROPS peptidase family M15, subfamily D.


Pssm-ID: 350617 [Multi-domain]  Cd Length: 158  Bit Score: 43.18  E-value: 2.12e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2728088560 150 ITGQALY-QGKVYnprfdeeqflmpVLYATAKKICAAQQKALAQGNSLKLYEAYRPYATQRA 210
Cdd:cd14840    10 FTGKKLYpSARAY------------LRKEAAEKLAKAQKELKKPGYRLKIFDAYRPLSVQKK 59
YgiM COG3103
Uncharacterized conserved protein YgiM, contains N-terminal SH3 domain, DUF1202 family ...
 84-143 8.76e-04

Uncharacterized conserved protein YgiM, contains N-terminal SH3 domain, DUF1202 family [General function prediction only];


Pssm-ID: 442337 [Multi-domain]  Cd Length: 119  Bit Score: 38.18  E-value: 8.76e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2728088560  84 VLPAGASFTILGEKENWWKVSSGYG-TGWVDHRLcmINLPDVVPSIVYDATNAYASRYTSS 143
Cdd:COG3103    29 TLPKGEKVTVLGRSGGWYKVRYSNGkTGWVSSRY--LTVTPSARERLPDELNLRAGPSTSS 87
SH3_3 pfam08239
Bacterial SH3 domain;
84-112 7.03e-03

Bacterial SH3 domain;


Pssm-ID: 462405 [Multi-domain]  Cd Length: 54  Bit Score: 33.76  E-value: 7.03e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2728088560  84 VLPAGASFTILGEKEN-WWKVSSGYG-TGWV 112
Cdd:pfam08239  18 TLPKGEKVEVLEEQGGgWYKVRTYDGyEGWV 48
PHA03269 PHA03269
envelope glycoprotein C; Provisional
 1-73 9.89e-03

envelope glycoprotein C; Provisional


Pssm-ID: 165527 [Multi-domain]  Cd Length: 566  Bit Score: 36.63  E-value: 9.89e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2728088560   1 ATPSPTPVVTPSPTPAPTPALSAEPELSGSSAPEPALSETPAA----EPSVSPTPEASPLPSPVQAQATTQLSEAQP 73
Cdd:PHA03269   36 ATQKPDPAPAPHQAASRAPDPAVAPTSAASRKPDLAQAPTPAAsekfDPAPAPHQAASRAPDPAVAPQLAAAPKPDA 112
 
Name Accession Description Interval E-value
D-Ala-D-Ala_dipeptidase_Aad cd14840
D-Ala-D-Ala dipeptidase (includes Lactobacillus plantarum Aad peptidase); D-Ala-D-Ala ...
 150-210 2.12e-05

D-Ala-D-Ala dipeptidase (includes Lactobacillus plantarum Aad peptidase); D-Ala-D-Ala dipeptidase (also known as D-alanyl-D-alanine dipeptidase vanX; VanX; EC 3.4.13.22) is a Zn2+-dependent enzyme that mediates resistance to the antibiotic vancomycin in Enterococci and other bacteria (both Gram-positive and Gram-negative). It is part of a gene cluster that affects cell-wall biosynthesis. The operon triggers the termination of peptidoglycan precursors by D-Ala-(R)-lactate instead of D-Ala-D-Ala dipeptides. The enzyme is stereospecific, as L-Ala-L-Ala, D-Ala-L-Ala and L-Ala-D-Ala are not substrates. This subfamily includes Lactobacillus Aad peptidase and belongs in the MEROPS peptidase family M15, subfamily D.


Pssm-ID: 350617 [Multi-domain]  Cd Length: 158  Bit Score: 43.18  E-value: 2.12e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2728088560 150 ITGQALY-QGKVYnprfdeeqflmpVLYATAKKICAAQQKALAQGNSLKLYEAYRPYATQRA 210
Cdd:cd14840    10 FTGKKLYpSARAY------------LRKEAAEKLAKAQKELKKPGYRLKIFDAYRPLSVQKK 59
YgiM COG3103
Uncharacterized conserved protein YgiM, contains N-terminal SH3 domain, DUF1202 family ...
 84-143 8.76e-04

Uncharacterized conserved protein YgiM, contains N-terminal SH3 domain, DUF1202 family [General function prediction only];


Pssm-ID: 442337 [Multi-domain]  Cd Length: 119  Bit Score: 38.18  E-value: 8.76e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2728088560  84 VLPAGASFTILGEKENWWKVSSGYG-TGWVDHRLcmINLPDVVPSIVYDATNAYASRYTSS 143
Cdd:COG3103    29 TLPKGEKVTVLGRSGGWYKVRYSNGkTGWVSSRY--LTVTPSARERLPDELNLRAGPSTSS 87
D-Ala-D-Ala_dipeptidase_like cd14843
D-Ala-D-Ala dipeptidase, includes uncharacterized enzymes; This subfamily of D-Ala-D-Ala ...
 179-224 6.44e-03

D-Ala-D-Ala dipeptidase, includes uncharacterized enzymes; This subfamily of D-Ala-D-Ala dipeptidase (also known as D-alanyl-D-alanine dipeptidase vanX; VanX; EC 3.4.13.22) also includes several uncharacterized proteins. This is a Zn2+-dependent enzyme that mediates resistance to the antibiotic vancomycin in Enterococci and other bacteria (both Gram-positive and Gram-negative). It is part of a gene cluster that affects cell-wall biosynthesis. The operon triggers the termination of peptidoglycan precursors by D-Ala-(R)-lactate instead of D-Ala-D-Ala dipeptides. The enzyme is stereospecific, as L-Ala-L-Ala, D-Ala-L-Ala and L-Ala-D-Ala are not substrates. It belongs in the MEROPS peptidase family M15, subfamily D.


Pssm-ID: 350618 [Multi-domain]  Cd Length: 160  Bit Score: 36.11  E-value: 6.44e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 2728088560 179 AKKICAAQQkALAQGNSLKLYEAYRPYATQRAVVKT-LTALAEKDPE 224
Cdd:cd14843     6 AERLLQAQS-LLPKGLRLLIFDGYRPLAVQKFLFERyYQKIRKRHPG 51
SH3_3 pfam08239
Bacterial SH3 domain;
84-112 7.03e-03

Bacterial SH3 domain;


Pssm-ID: 462405 [Multi-domain]  Cd Length: 54  Bit Score: 33.76  E-value: 7.03e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2728088560  84 VLPAGASFTILGEKEN-WWKVSSGYG-TGWV 112
Cdd:pfam08239  18 TLPKGEKVEVLEEQGGgWYKVRTYDGyEGWV 48
PHA03269 PHA03269
envelope glycoprotein C; Provisional
 1-73 9.89e-03

envelope glycoprotein C; Provisional


Pssm-ID: 165527 [Multi-domain]  Cd Length: 566  Bit Score: 36.63  E-value: 9.89e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2728088560   1 ATPSPTPVVTPSPTPAPTPALSAEPELSGSSAPEPALSETPAA----EPSVSPTPEASPLPSPVQAQATTQLSEAQP 73
Cdd:PHA03269   36 ATQKPDPAPAPHQAASRAPDPAVAPTSAASRKPDLAQAPTPAAsekfDPAPAPHQAASRAPDPAVAPQLAAAPKPDA 112
YraI COG4991
Uncharacterized conserved protein YraI [Function unknown];
84-112 9.92e-03

Uncharacterized conserved protein YraI [Function unknown];


Pssm-ID: 444015 [Multi-domain]  Cd Length: 92  Bit Score: 34.27  E-value: 9.92e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2728088560  84 VLPAGASFTILGEKEN--WWKVSSGYGTGWV 112
Cdd:COG4991    46 TLPAGATVTVLGCTSGggWCKVSYGGQRGWV 76
 
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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