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Conserved domains on  [gi|2486412387|ref|WP_279120998|]
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NigD-like C-terminal domain-containing protein [Bacteroides acidifaciens]

Protein Classification

NigD_N and NigD_C domain-containing protein( domain architecture ID 13783686)

NigD_N and NigD_C domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NigD_C super family cl38694
NigD-like C-terminal beta sandwich domain; This family of proteins is functionally ...
 97-209 3.05e-22

NigD-like C-terminal beta sandwich domain; This family of proteins is functionally uncharacterized. This family of proteins is found in Bacteroides species. Proteins in this family are typically between 234 and 260 amino acids in length. These proteins possess an N-terminal lipoprotein attachment site. The family includes NigD a protein found in the Nig operon that encodes a bacteriocin called nigrescin. It has been suggested that NigD may be the immunity protein for nigrescin (NigC) because it is directly downstream. This entry represents the C-terminal beta-sandwich domain of NigD.


The actual alignment was detected with superfamily member pfam17415:

Pssm-ID: 435906  Cd Length: 120  Bit Score: 87.70  E-value: 3.05e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2486412387  97 TPDPKPEDDpvyKDGVKTDPVEMVSIWLGRNYLNMIL--NLKVSTGKGHVFGIVEDVSELATK-GIVNMLLYHDANSDAE 173
Cdd:pfam17415   1 SIVPLPGEN---EDSYGNDPVEIVSIWISDGYLNLRFrtKWGNASNKKHMINLVTNENTTTDGdNYLELELRHNANGDPE 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2486412387 174 YYNRRAYISVPLEKYVDAENPDRVIKIKFKYYKYGE 209
Cdd:pfam17415  78 GYLGDGYVSFPLNSLPDTLGKTVGLKLKVNTYSGGE 113
NigD_N pfam12667
NigD-like N-terminal OB domain; This family of proteins is functionally uncharacterized. This ...
 36-95 8.67e-08

NigD-like N-terminal OB domain; This family of proteins is functionally uncharacterized. This family of proteins is found in Bacteroides species. Proteins in this family are typically between 234 and 260 amino acids in length. These proteins possess an N-terminal lipoprotein attachment site. The family includes NigD a protein found in the Nig operon that encodes a bacteriocin called nigrescin. It has been suggested that NigD may be the immunity protein for nigrescin (NigC) because it is directly downstream. This domain has an OB fold.


:

Pssm-ID: 432708  Cd Length: 66  Bit Score: 47.71  E-value: 8.67e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2486412387  36 VTVVSGEDGSIQTLIPDKGESLPVLEDRTkSAISPNTSRRVMSNYELLTG-------GVRIYSLQSL 95
Cdd:pfam12667   1 VTVKTGSDGDAFYLQLDDGTTLYPTNMAV-SGYTPDDGVRALVNYTPLEEnyegydkAVKINWIDSI 66
 
Name Accession Description Interval E-value
NigD_C pfam17415
NigD-like C-terminal beta sandwich domain; This family of proteins is functionally ...
 97-209 3.05e-22

NigD-like C-terminal beta sandwich domain; This family of proteins is functionally uncharacterized. This family of proteins is found in Bacteroides species. Proteins in this family are typically between 234 and 260 amino acids in length. These proteins possess an N-terminal lipoprotein attachment site. The family includes NigD a protein found in the Nig operon that encodes a bacteriocin called nigrescin. It has been suggested that NigD may be the immunity protein for nigrescin (NigC) because it is directly downstream. This entry represents the C-terminal beta-sandwich domain of NigD.


Pssm-ID: 435906  Cd Length: 120  Bit Score: 87.70  E-value: 3.05e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2486412387  97 TPDPKPEDDpvyKDGVKTDPVEMVSIWLGRNYLNMIL--NLKVSTGKGHVFGIVEDVSELATK-GIVNMLLYHDANSDAE 173
Cdd:pfam17415   1 SIVPLPGEN---EDSYGNDPVEIVSIWISDGYLNLRFrtKWGNASNKKHMINLVTNENTTTDGdNYLELELRHNANGDPE 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2486412387 174 YYNRRAYISVPLEKYVDAENPDRVIKIKFKYYKYGE 209
Cdd:pfam17415  78 GYLGDGYVSFPLNSLPDTLGKTVGLKLKVNTYSGGE 113
NigD_N pfam12667
NigD-like N-terminal OB domain; This family of proteins is functionally uncharacterized. This ...
 36-95 8.67e-08

NigD-like N-terminal OB domain; This family of proteins is functionally uncharacterized. This family of proteins is found in Bacteroides species. Proteins in this family are typically between 234 and 260 amino acids in length. These proteins possess an N-terminal lipoprotein attachment site. The family includes NigD a protein found in the Nig operon that encodes a bacteriocin called nigrescin. It has been suggested that NigD may be the immunity protein for nigrescin (NigC) because it is directly downstream. This domain has an OB fold.


Pssm-ID: 432708  Cd Length: 66  Bit Score: 47.71  E-value: 8.67e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2486412387  36 VTVVSGEDGSIQTLIPDKGESLPVLEDRTkSAISPNTSRRVMSNYELLTG-------GVRIYSLQSL 95
Cdd:pfam12667   1 VTVKTGSDGDAFYLQLDDGTTLYPTNMAV-SGYTPDDGVRALVNYTPLEEnyegydkAVKINWIDSI 66
 
Name Accession Description Interval E-value
NigD_C pfam17415
NigD-like C-terminal beta sandwich domain; This family of proteins is functionally ...
 97-209 3.05e-22

NigD-like C-terminal beta sandwich domain; This family of proteins is functionally uncharacterized. This family of proteins is found in Bacteroides species. Proteins in this family are typically between 234 and 260 amino acids in length. These proteins possess an N-terminal lipoprotein attachment site. The family includes NigD a protein found in the Nig operon that encodes a bacteriocin called nigrescin. It has been suggested that NigD may be the immunity protein for nigrescin (NigC) because it is directly downstream. This entry represents the C-terminal beta-sandwich domain of NigD.


Pssm-ID: 435906  Cd Length: 120  Bit Score: 87.70  E-value: 3.05e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2486412387  97 TPDPKPEDDpvyKDGVKTDPVEMVSIWLGRNYLNMIL--NLKVSTGKGHVFGIVEDVSELATK-GIVNMLLYHDANSDAE 173
Cdd:pfam17415   1 SIVPLPGEN---EDSYGNDPVEIVSIWISDGYLNLRFrtKWGNASNKKHMINLVTNENTTTDGdNYLELELRHNANGDPE 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2486412387 174 YYNRRAYISVPLEKYVDAENPDRVIKIKFKYYKYGE 209
Cdd:pfam17415  78 GYLGDGYVSFPLNSLPDTLGKTVGLKLKVNTYSGGE 113
NigD_N pfam12667
NigD-like N-terminal OB domain; This family of proteins is functionally uncharacterized. This ...
 36-95 8.67e-08

NigD-like N-terminal OB domain; This family of proteins is functionally uncharacterized. This family of proteins is found in Bacteroides species. Proteins in this family are typically between 234 and 260 amino acids in length. These proteins possess an N-terminal lipoprotein attachment site. The family includes NigD a protein found in the Nig operon that encodes a bacteriocin called nigrescin. It has been suggested that NigD may be the immunity protein for nigrescin (NigC) because it is directly downstream. This domain has an OB fold.


Pssm-ID: 432708  Cd Length: 66  Bit Score: 47.71  E-value: 8.67e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2486412387  36 VTVVSGEDGSIQTLIPDKGESLPVLEDRTkSAISPNTSRRVMSNYELLTG-------GVRIYSLQSL 95
Cdd:pfam12667   1 VTVKTGSDGDAFYLQLDDGTTLYPTNMAV-SGYTPDDGVRALVNYTPLEEnyegydkAVKINWIDSI 66
 
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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