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Conserved domains on  [gi|40889629|pdb|1R94|B]
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Chain B, Protein yfhF

Protein Classification

iron-sulfur cluster assembly accessory protein( domain architecture ID 10013259)

iron-sulfur cluster assembly accessory protein from the HesB/IscA family is involved in the assembly of iron-sulfur proteins

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
iscA PRK09502
iron-sulfur cluster assembly protein IscA;
1-105 4.10e-72

iron-sulfur cluster assembly protein IscA;


:

Pssm-ID: 181914 [Multi-domain]  Cd Length: 107  Bit Score: 210.11  E-value: 4.10e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B         1 MSITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFV 80
Cdd:PRK09502   1 MSITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFV 80

                         90       100
                 ....*....|....*....|....*
1R94_B        81 KEGLNEGFKFTNPNVKDECGCGESF 105
Cdd:PRK09502  81 KEGLNEGFKFTNPNVKDECGCGESF 105
 
Name Accession Description Interval E-value
iscA PRK09502
iron-sulfur cluster assembly protein IscA;
1-105 4.10e-72

iron-sulfur cluster assembly protein IscA;


Pssm-ID: 181914 [Multi-domain]  Cd Length: 107  Bit Score: 210.11  E-value: 4.10e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B         1 MSITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFV 80
Cdd:PRK09502   1 MSITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFV 80

                         90       100
                 ....*....|....*....|....*
1R94_B        81 KEGLNEGFKFTNPNVKDECGCGESF 105
Cdd:PRK09502  81 KEGLNEGFKFTNPNVKDECGCGESF 105
IscA TIGR02011
iron-sulfur cluster assembly protein IscA; This model represents the IscA component of the ISC ...
 3-105 1.41e-65

iron-sulfur cluster assembly protein IscA; This model represents the IscA component of the ISC system for iron-sulfur cluster assembly. The ISC system consists of IscRASU, HscAB and an Isc-specific ferredoxin. IscA previously was believed to act as a scaffold and now is seen as an iron donor protein. This clade is limited to the proteobacteria. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]


Pssm-ID: 213674  Cd Length: 105  Bit Score: 193.50  E-value: 1.41e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B          3 ITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFVKE 82
Cdd:TIGR02011   1 ITLTDSAAARVNTFLANRGKGFGLRLGVKTSGCSGMAYVLEFVDEPTPDDIVFEDKGVKIVIDGKSLQYLDGTQLDFVKE 80

                          90       100
                  ....*....|....*....|...
1R94_B         83 GLNEGFKFTNPNVKDECGCGESF 105
Cdd:TIGR02011  81 GLNEGFKFTNPNVKDECGCGESF 103
IscA COG0316
Fe-S cluster assembly iron-binding protein IscA [Posttranslational modification, protein ...
 3-105 2.54e-56

Fe-S cluster assembly iron-binding protein IscA [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440085 [Multi-domain]  Cd Length: 107  Bit Score: 169.95  E-value: 2.54e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B        3 ITLSDSAAARVNTFLANRG-KGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFVK 81
Cdd:COG0316   2 ITLTDAAAKRIKRLLAKEGnPGLGLRVGVKGGGCSGFSYGLDFDDEPNEDDLVFEQDGVKVVVDPKSLPYLDGTEIDYVE 81

                        90       100
                ....*....|....*....|....
1R94_B       82 EGLNEGFKFTNPNVKDECGCGESF 105
Cdd:COG0316  82 ELLGSGFKFNNPNAKSSCGCGESF 105
Fe-S_biosyn pfam01521
Iron-sulphur cluster biosynthesis; This family is involved in iron-sulphur cluster ...
 1-103 3.66e-24

Iron-sulphur cluster biosynthesis; This family is involved in iron-sulphur cluster biosynthesis. Its members include proteins that are involved in nitrogen fixation such as the HesB and HesB-like proteins.


Pssm-ID: 426304  Cd Length: 111  Bit Score: 88.86  E-value: 3.66e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B          1 MSITLSDSAAARVNTFLANRGKGfgLRLGVRTSG-------CS-GMAYVLEFVDEPTPE-DIVFEDKGVKVVVDGKSLQF 71
Cdd:pfam01521   1 MKITITDAAAERLKKLLAGDKKE--LRLDVDDGGgpyskggCSiGGKFSLVLVDEPDPDyDEVIESNGGPIYVDSYSLPF 78

                          90       100       110
                  ....*....|....*....|....*....|...
1R94_B         72 LD-GTQLDFVKEGLNEGFKFTNPNVKDECGCGE 103
Cdd:pfam01521  79 LDeGLTLDFVEDLGTLGLKSDNGNLDGNVGCGD 111
IscA_HesB_Se NF038090
IscA/HesB family protein; Members of this family, a large fraction of which are selenoproteins, ...
 3-102 2.07e-03

IscA/HesB family protein; Members of this family, a large fraction of which are selenoproteins, are homologous to proteins of iron-sulfur cluster biosynthesis such as IscA, and belong to the broader set of HesB-related proteins.


Pssm-ID: 411672  Cd Length: 99  Bit Score: 35.00  E-value: 2.07e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B         3 ITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEfVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFVKE 82
Cdd:NF038090   2 LEVTDLASRKLKEYFADKKIDSPIRVFLNQGGUAGPSLGLA-LDEPKENDEVFEQDGLTFVIDKELLEQCGPIKVDFIDC 80

                         90       100
                 ....*....|....*....|
1R94_B        83 GLneGFKFTNPNVKDECGCG 102
Cdd:NF038090  81 RS--GFSITSSMPLGGGGCG 98
 
Name Accession Description Interval E-value
iscA PRK09502
iron-sulfur cluster assembly protein IscA;
1-105 4.10e-72

iron-sulfur cluster assembly protein IscA;


Pssm-ID: 181914 [Multi-domain]  Cd Length: 107  Bit Score: 210.11  E-value: 4.10e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B         1 MSITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFV 80
Cdd:PRK09502   1 MSITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFV 80

                         90       100
                 ....*....|....*....|....*
1R94_B        81 KEGLNEGFKFTNPNVKDECGCGESF 105
Cdd:PRK09502  81 KEGLNEGFKFTNPNVKDECGCGESF 105
IscA TIGR02011
iron-sulfur cluster assembly protein IscA; This model represents the IscA component of the ISC ...
 3-105 1.41e-65

iron-sulfur cluster assembly protein IscA; This model represents the IscA component of the ISC system for iron-sulfur cluster assembly. The ISC system consists of IscRASU, HscAB and an Isc-specific ferredoxin. IscA previously was believed to act as a scaffold and now is seen as an iron donor protein. This clade is limited to the proteobacteria. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]


Pssm-ID: 213674  Cd Length: 105  Bit Score: 193.50  E-value: 1.41e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B          3 ITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFVKE 82
Cdd:TIGR02011   1 ITLTDSAAARVNTFLANRGKGFGLRLGVKTSGCSGMAYVLEFVDEPTPDDIVFEDKGVKIVIDGKSLQYLDGTQLDFVKE 80

                          90       100
                  ....*....|....*....|...
1R94_B         83 GLNEGFKFTNPNVKDECGCGESF 105
Cdd:TIGR02011  81 GLNEGFKFTNPNVKDECGCGESF 103
IscA COG0316
Fe-S cluster assembly iron-binding protein IscA [Posttranslational modification, protein ...
 3-105 2.54e-56

Fe-S cluster assembly iron-binding protein IscA [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440085 [Multi-domain]  Cd Length: 107  Bit Score: 169.95  E-value: 2.54e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B        3 ITLSDSAAARVNTFLANRG-KGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFVK 81
Cdd:COG0316   2 ITLTDAAAKRIKRLLAKEGnPGLGLRVGVKGGGCSGFSYGLDFDDEPNEDDLVFEQDGVKVVVDPKSLPYLDGTEIDYVE 81

                        90       100
                ....*....|....*....|....
1R94_B       82 EGLNEGFKFTNPNVKDECGCGESF 105
Cdd:COG0316  82 ELLGSGFKFNNPNAKSSCGCGESF 105
TIGR00049 TIGR00049
Iron-sulfur cluster assembly accessory protein; Proteins in this subfamily appear to be ...
 4-105 3.71e-49

Iron-sulfur cluster assembly accessory protein; Proteins in this subfamily appear to be associated with the process of FeS-cluster assembly. The HesB proteins are associated with the nif gene cluster and the Rhizobium gene IscN has been shown to be required for nitrogen fixation. Nitrogenase includes multiple FeS clusters and many genes for their assembly. The E. coli SufA protein is associated with SufS, a NifS homolog and SufD which are involved in the FeS cluster assembly of the FhnF protein. The Azotobacter protein IscA (homologs of which are also found in E.coli) is associated which IscS, another NifS homolog and IscU, a nifU homolog as well as other factors consistent with a role in FeS cluster chemistry. A homolog from Geobacter contains a selenocysteine in place of an otherwise invariant cysteine, further suggesting a role in redox chemistry. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]


Pssm-ID: 272875 [Multi-domain]  Cd Length: 105  Bit Score: 151.96  E-value: 3.71e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B          4 TLSDSAAARVNTFLANRGK-GFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFVKE 82
Cdd:TIGR00049   1 TLTDSAAKRIKALLAGEGEpNLGLRVGVKGGGCSGLQYGLEFDDEPNEDDEVFEQDGVKVVVDPKSLPYLDGSEIDYVEE 80

                          90       100
                  ....*....|....*....|...
1R94_B         83 GLNEGFKFTNPNVKDECGCGESF 105
Cdd:TIGR00049  81 LLGSGFTFTNPNAKGTCGCGKSF 103
sufA_proteo TIGR01997
FeS assembly scaffold SufA; This model represents the SufA protein of the SUF system of ...
 3-107 3.20e-40

FeS assembly scaffold SufA; This model represents the SufA protein of the SUF system of iron-sulfur cluster biosynthesis. This system performs FeS biosynthesis even during oxidative stress and tends to be absent in obligate anaerobic and microaerophilic bacteria. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]


Pssm-ID: 131052  Cd Length: 107  Bit Score: 129.56  E-value: 3.20e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B          3 ITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFVKE 82
Cdd:TIGR01997   3 ITLTDAAAIHIRELVAKRPEAVGIRLGVKKTGCAGMEYVLDLVSEPKKDDDLIEHDGAKVFVAPEAVLFILGTQVDFVRT 82

                          90       100
                  ....*....|....*....|....*
1R94_B         83 GLNEGFKFTNPNVKDECGCGESFKL 107
Cdd:TIGR01997  83 TLRQGFKFNNPNATSACGCGESFEL 107
sufA PRK09504
iron-sulfur cluster assembly scaffold protein; Provisional
 3-105 4.16e-40

iron-sulfur cluster assembly scaffold protein; Provisional


Pssm-ID: 181915  Cd Length: 122  Bit Score: 129.47  E-value: 4.16e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B         3 ITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFVKE 82
Cdd:PRK09504  18 LTLTPAAAAHIRELMAKQPGMKGVRLGVKQTGCAGFGYVLDSVSEPDKDDLVFEHDGAKLFVPLQAMPFIDGTEVDYVRE 97

                         90       100
                 ....*....|....*....|...
1R94_B        83 GLNEGFKFTNPNVKDECGCGESF 105
Cdd:PRK09504  98 GLNQIFKFHNPKAQNECGCGESF 120
Fe-S_biosyn pfam01521
Iron-sulphur cluster biosynthesis; This family is involved in iron-sulphur cluster ...
 1-103 3.66e-24

Iron-sulphur cluster biosynthesis; This family is involved in iron-sulphur cluster biosynthesis. Its members include proteins that are involved in nitrogen fixation such as the HesB and HesB-like proteins.


Pssm-ID: 426304  Cd Length: 111  Bit Score: 88.86  E-value: 3.66e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B          1 MSITLSDSAAARVNTFLANRGKGfgLRLGVRTSG-------CS-GMAYVLEFVDEPTPE-DIVFEDKGVKVVVDGKSLQF 71
Cdd:pfam01521   1 MKITITDAAAERLKKLLAGDKKE--LRLDVDDGGgpyskggCSiGGKFSLVLVDEPDPDyDEVIESNGGPIYVDSYSLPF 78

                          90       100       110
                  ....*....|....*....|....*....|...
1R94_B         72 LD-GTQLDFVKEGLNEGFKFTNPNVKDECGCGE 103
Cdd:pfam01521  79 LDeGLTLDFVEDLGTLGLKSDNGNLDGNVGCGD 111
PRK13623 PRK13623
iron-sulfur cluster insertion protein ErpA; Provisional
 3-105 1.96e-22

iron-sulfur cluster insertion protein ErpA; Provisional


Pssm-ID: 184186  Cd Length: 115  Bit Score: 84.59  E-value: 1.96e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B         3 ITLSDSAAARVNTFLANRGKG-FGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFvK 81
Cdd:PRK13623  10 LVFTDAAAAKVKELIEEEGNPdLKLRVYITGGGCSGFQYGFTFDEQVNEDDTTIEKQGVTLVVDPMSLQYLVGAEVDY-T 88

                         90       100
                 ....*....|....*....|....*.
1R94_B        82 EGLnEGFKF--TNPNVKDECGCGESF 105
Cdd:PRK13623  89 EGL-EGSRFviKNPNAKTTCGCGSSF 113
PLN03082 PLN03082
Iron-sulfur cluster assembly; Provisional
 2-105 1.38e-20

Iron-sulfur cluster assembly; Provisional


Pssm-ID: 215564  Cd Length: 163  Bit Score: 81.13  E-value: 1.38e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B         2 SITLSDSAAARVNTFLANRG--KGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDF 79
Cdd:PLN03082  54 AVHMTDNCIRRLKELQTSEPsaEDKMLRLSVETGGCSGFQYVFELDDKTNSDDRVFEKDGVKLVVDNISYDFVKGATVDY 133

                         90       100
                 ....*....|....*....|....*..
1R94_B        80 VKEGLNEGFKF-TNPNVKDECGCGESF 105
Cdd:PLN03082 134 VEELIRSAFVVsTNPSAVGGCSCKSSF 160
YqkB COG4918
Predicted Fe-S cluster biosynthesis protein YqkB [General function prediction only];
1-83 2.92e-07

Predicted Fe-S cluster biosynthesis protein YqkB [General function prediction only];


Pssm-ID: 443946  Cd Length: 112  Bit Score: 45.32  E-value: 2.92e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B        1 MSITLSDSAAARVNTFLANRGKGfgLRLGVRTSGCS-GMA--YVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGT-Q 76
Cdd:COG4918   1 MKITFTEAAKEKLQAILGSDKKY--LKLFYDTEGCGcAVNgvPTLRLVDEPDEYDTAIESNLGPVYIDRSQEVFFDDEmT 78


                ....*..
1R94_B       77 LDFVKEG 83
Cdd:COG4918  79 IDFNPKG 85
PRK11190 PRK11190
iron-sulfur cluster biogenesis protein NfuA;
3-96 7.26e-05

iron-sulfur cluster biogenesis protein NfuA;


Pssm-ID: 183027 [Multi-domain]  Cd Length: 192  Bit Score: 40.00  E-value: 7.26e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B         3 ITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCS----GMAYVLEFVDEPTPEDIVFEdkGVKVVVDGKSLQFLDGTQLD 78
Cdd:PRK11190   2 ITISDAAQAHFAKLLANQEEGTQIRVFVINPGTPnaecGVSYCPPDAVEATDTELKFD--GFSAYVDELSAPFLEDAEID 79

                         90
                 ....*....|....*...
1R94_B        79 FVKEGLNEGFKFTNPNVK 96
Cdd:PRK11190  80 FVTDQLGSQLTLKAPNAK 97
IscA_HesB_Se NF038090
IscA/HesB family protein; Members of this family, a large fraction of which are selenoproteins, ...
 3-102 2.07e-03

IscA/HesB family protein; Members of this family, a large fraction of which are selenoproteins, are homologous to proteins of iron-sulfur cluster biosynthesis such as IscA, and belong to the broader set of HesB-related proteins.


Pssm-ID: 411672  Cd Length: 99  Bit Score: 35.00  E-value: 2.07e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B         3 ITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEfVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFVKE 82
Cdd:NF038090   2 LEVTDLASRKLKEYFADKKIDSPIRVFLNQGGUAGPSLGLA-LDEPKENDEVFEQDGLTFVIDKELLEQCGPIKVDFIDC 80

                         90       100
                 ....*....|....*....|
1R94_B        83 GLneGFKFTNPNVKDECGCG 102
Cdd:NF038090  81 RS--GFSITSSMPLGGGGCG 98
PTZ00260 PTZ00260
dolichyl-phosphate beta-glucosyltransferase; Provisional
 12-107 8.45e-03

dolichyl-phosphate beta-glucosyltransferase; Provisional


Pssm-ID: 240336 [Multi-domain]  Cd Length: 333  Bit Score: 34.36  E-value: 8.45e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1R94_B        12 RVNTFLANRGKGFGLRLGVRtsgCSGMAYVLeFVDEPTPEDI----VFEDKGVKVVVDGKSLQFLDGTQLD--------- 78
Cdd:PTZ00260 140 RLLSLLRNKGKGGAVRIGML---ASRGKYIL-MVDADGATDIddfdKLEDIMLKIEQNGLGIVFGSRNHLVdsdvvakrk 215

                         90       100       110
                 ....*....|....*....|....*....|....*
1R94_B        79 FVKEGLNEGFKF-----TNPNVKD-ECGcgesFKL 107
Cdd:PTZ00260 216 WYRNILMYGFHFivntiCGTNLKDtQCG----FKL 246
 
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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