NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|446312720|ref|WP_000390575|]
View 

MULTISPECIES: metal-sulfur cluster assembly factor [Bacilli]

Protein Classification

metal-sulfur cluster assembly factor( domain architecture ID 10005417)

metal-sulfur cluster assembly factor similar to Bacillus subtilis Fe-S protein maturation auxiliary factor YitW, which may function as a Fe-S cluster carrier

CATH:  3.30.300.130
SCOP:  4003743

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
PaaD COG2151
Metal-sulfur cluster biosynthetic enzyme [Posttranslational modification, protein turnover, ...
2-99 1.29e-45

Metal-sulfur cluster biosynthetic enzyme [Posttranslational modification, protein turnover, chaperones];


:

Pssm-ID: 441754  Cd Length: 102  Bit Score: 142.17  E-value: 1.29e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446312720   2 EEALKDSILGALEMVIDPELGIDIVNLGLVYKVNVDDEGVCTVDMTLTSMGCPMGPQIIDQVKTVLAEIPEIQDTEVNIV 81
Cdd:COG2151    5 AEPLEEEVWEALKTVYDPEIPVNIVDLGLIYDVEVDDDGRVKVTMTLTTPGCPAADVIPDDVEEALEEVPGVEDVEVELV 84
                         90
                 ....*....|....*...
gi 446312720  82 WSPPWTKDMMSRYAKIAL 99
Cdd:COG2151   85 WDPPWTPDRMSEEARLKL 102
 
Name Accession Description Interval E-value
PaaD COG2151
Metal-sulfur cluster biosynthetic enzyme [Posttranslational modification, protein turnover, ...
2-99 1.29e-45

Metal-sulfur cluster biosynthetic enzyme [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 441754  Cd Length: 102  Bit Score: 142.17  E-value: 1.29e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446312720   2 EEALKDSILGALEMVIDPELGIDIVNLGLVYKVNVDDEGVCTVDMTLTSMGCPMGPQIIDQVKTVLAEIPEIQDTEVNIV 81
Cdd:COG2151    5 AEPLEEEVWEALKTVYDPEIPVNIVDLGLIYDVEVDDDGRVKVTMTLTTPGCPAADVIPDDVEEALEEVPGVEDVEVELV 84
                         90
                 ....*....|....*...
gi 446312720  82 WSPPWTKDMMSRYAKIAL 99
Cdd:COG2151   85 WDPPWTPDRMSEEARLKL 102
SUF_assoc TIGR02945
FeS assembly SUF system protein; Members of this family belong to the broader pfam01883, or ...
5-100 5.48e-31

FeS assembly SUF system protein; Members of this family belong to the broader pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]


Pssm-ID: 131990  Cd Length: 99  Bit Score: 105.08  E-value: 5.48e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446312720    5 LKDSILGALEMVIDPELGIDIVNLGLVYKVNVDDEGVCTVDMTLTSMGCPMGPQIIDQVKTVLAEIPEIQDTEVNIVWSP 84
Cdd:TIGR02945   2 LKDAVIEALKTVYDPEIPVNIYELGLIYDIDVDDDGHVDIQMTLTAPNCPVAGSMPGEVENAVRAVPGVGSVTVELVWDP 81
                          90
                  ....*....|....*.
gi 446312720   85 PWTKDMMSRYAKIALG 100
Cdd:TIGR02945  82 PWTPERMSEEARLELG 97
FeS_assembly_P pfam01883
Iron-sulfur cluster assembly protein; This family has an alpha/beta topology, with 13 ...
6-80 3.92e-17

Iron-sulfur cluster assembly protein; This family has an alpha/beta topology, with 13 conserved hydrophobic residues at its core and a putative active site containing a highly conserved cysteine. Members of this family are involved in a range of physiological functions. The family includes PaaJ (PhaH) from Pseudomonas putida. PaaJ forms a complex with PaaG (PhaF), PaaI (PhaG) and PaaK (PhaI), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid. It also includes PaaD from Escherichia coli, a member of a multicomponent oxygenase involved in phenylacetyl-CoA hydroxylation. Furthermore, several members of this family are shown to be involved in iron-sulfur (FeS) cluster assembly. Iron-sulfur (FeS) clusters are inorganic co-factors that are are able to transfer electrons and act as catalysts. They are involved in diverse cellular processes including cellular respiration, DNA replication and repair, antibiotic resistance, and dinitrogen fixation. The biogenesis of such clusters from elemental iron and sulfur is an enzymatic process that requires a set of specialized proteins. Proteins containing this domain include the chloroplast protein HCF101 (high chlorophyll fluorescence 101), which has been described as an essential and specific factor for assembly of [4Fe-4S]-cluster-containing protein complexes such as the membrane complex Photosystem I (PSI) and the heterodimeric FTR (ferredoxin-thioredoxin reductase) complex and is involved in the assembly of [4Fe-4S] clusters and their transfer to apoproteins. The mature HCF101 protein contains this domain at the N-terminal as well as eight cysteine residues along the sequence. All cysteine residues are conserved among higher plants, but of the two cysteine residues located in this domain only Cys128 is highly conserved and is present in the highly conserved P-loop domain of the plant HCF101 (CKGGVGKS). SufT protein from Staphylococcus aureus is composed of this domain solely and is shown to be involved in the maturation of FeS proteins. Given all this data, it is hypothesized that this domain might play a role in FeS cluster assembly.


Pssm-ID: 460370  Cd Length: 73  Bit Score: 69.20  E-value: 3.92e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446312720    6 KDSILGALEMVIDPELGIDIVNLGLVYKVNVDDEGVcTVDMTLTSMGCPMGPQIIDQVKTVLAEIPEiQDTEVNI 80
Cdd:pfam01883   1 KAAVLAALRTVIDPETGVDLVSLGLVRNIDIEGGKV-SVDITLTYPACPAAEAIRADAEAALRALPG-EVVEVSV 73
 
Name Accession Description Interval E-value
PaaD COG2151
Metal-sulfur cluster biosynthetic enzyme [Posttranslational modification, protein turnover, ...
2-99 1.29e-45

Metal-sulfur cluster biosynthetic enzyme [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 441754  Cd Length: 102  Bit Score: 142.17  E-value: 1.29e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446312720   2 EEALKDSILGALEMVIDPELGIDIVNLGLVYKVNVDDEGVCTVDMTLTSMGCPMGPQIIDQVKTVLAEIPEIQDTEVNIV 81
Cdd:COG2151    5 AEPLEEEVWEALKTVYDPEIPVNIVDLGLIYDVEVDDDGRVKVTMTLTTPGCPAADVIPDDVEEALEEVPGVEDVEVELV 84
                         90
                 ....*....|....*...
gi 446312720  82 WSPPWTKDMMSRYAKIAL 99
Cdd:COG2151   85 WDPPWTPDRMSEEARLKL 102
SUF_assoc TIGR02945
FeS assembly SUF system protein; Members of this family belong to the broader pfam01883, or ...
5-100 5.48e-31

FeS assembly SUF system protein; Members of this family belong to the broader pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]


Pssm-ID: 131990  Cd Length: 99  Bit Score: 105.08  E-value: 5.48e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446312720    5 LKDSILGALEMVIDPELGIDIVNLGLVYKVNVDDEGVCTVDMTLTSMGCPMGPQIIDQVKTVLAEIPEIQDTEVNIVWSP 84
Cdd:TIGR02945   2 LKDAVIEALKTVYDPEIPVNIYELGLIYDIDVDDDGHVDIQMTLTAPNCPVAGSMPGEVENAVRAVPGVGSVTVELVWDP 81
                          90
                  ....*....|....*.
gi 446312720   85 PWTKDMMSRYAKIALG 100
Cdd:TIGR02945  82 PWTPERMSEEARLELG 97
FeS_long_SufT TIGR03406
probable FeS assembly SUF system protein SufT; The function is unknown for this protein family, ...
2-101 2.20e-28

probable FeS assembly SUF system protein SufT; The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]


Pssm-ID: 213809  Cd Length: 174  Bit Score: 100.88  E-value: 2.20e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446312720    2 EEALKDSILGALEMVIDPELGIDIVNLGLVYKVNV----DDEGVCTVDMTLTSMGCPMGPQIIDQVKTVLAEIPEIQDTE 77
Cdd:TIGR03406  71 GEDNEDQVWEQLRTVYDPEIPVNIVDLGLVYGCRVeklgEGQFRVDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVE 150
                          90       100
                  ....*....|....*....|....
gi 446312720   78 VNIVWSPPWTKDMMSRYAKIALGV 101
Cdd:TIGR03406 151 VELVFDPPWSREMMSEAAKLELGM 174
FeS_assembly_P pfam01883
Iron-sulfur cluster assembly protein; This family has an alpha/beta topology, with 13 ...
6-80 3.92e-17

Iron-sulfur cluster assembly protein; This family has an alpha/beta topology, with 13 conserved hydrophobic residues at its core and a putative active site containing a highly conserved cysteine. Members of this family are involved in a range of physiological functions. The family includes PaaJ (PhaH) from Pseudomonas putida. PaaJ forms a complex with PaaG (PhaF), PaaI (PhaG) and PaaK (PhaI), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid. It also includes PaaD from Escherichia coli, a member of a multicomponent oxygenase involved in phenylacetyl-CoA hydroxylation. Furthermore, several members of this family are shown to be involved in iron-sulfur (FeS) cluster assembly. Iron-sulfur (FeS) clusters are inorganic co-factors that are are able to transfer electrons and act as catalysts. They are involved in diverse cellular processes including cellular respiration, DNA replication and repair, antibiotic resistance, and dinitrogen fixation. The biogenesis of such clusters from elemental iron and sulfur is an enzymatic process that requires a set of specialized proteins. Proteins containing this domain include the chloroplast protein HCF101 (high chlorophyll fluorescence 101), which has been described as an essential and specific factor for assembly of [4Fe-4S]-cluster-containing protein complexes such as the membrane complex Photosystem I (PSI) and the heterodimeric FTR (ferredoxin-thioredoxin reductase) complex and is involved in the assembly of [4Fe-4S] clusters and their transfer to apoproteins. The mature HCF101 protein contains this domain at the N-terminal as well as eight cysteine residues along the sequence. All cysteine residues are conserved among higher plants, but of the two cysteine residues located in this domain only Cys128 is highly conserved and is present in the highly conserved P-loop domain of the plant HCF101 (CKGGVGKS). SufT protein from Staphylococcus aureus is composed of this domain solely and is shown to be involved in the maturation of FeS proteins. Given all this data, it is hypothesized that this domain might play a role in FeS cluster assembly.


Pssm-ID: 460370  Cd Length: 73  Bit Score: 69.20  E-value: 3.92e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446312720    6 KDSILGALEMVIDPELGIDIVNLGLVYKVNVDDEGVcTVDMTLTSMGCPMGPQIIDQVKTVLAEIPEiQDTEVNI 80
Cdd:pfam01883   1 KAAVLAALRTVIDPETGVDLVSLGLVRNIDIEGGKV-SVDITLTYPACPAAEAIRADAEAALRALPG-EVVEVSV 73
PA_CoA_Oxy4 TIGR02159
phenylacetate-CoA oxygenase, PaaJ subunit; Phenylacetate-CoA oxygenase is comprised of a five ...
16-96 2.37e-10

phenylacetate-CoA oxygenase, PaaJ subunit; Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA. [Energy metabolism, Other]


Pssm-ID: 131214  Cd Length: 146  Bit Score: 53.64  E-value: 2.37e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446312720   16 VIDPEL-GIDIVNLGLVYKVNVDDEGVcTVDMTLTSMGCPMGPQIIDQVKTVLAEIPeIQDTEVNIVWSPPWTKDMMSRY 94
Cdd:TIGR02159   1 VPDPEIpVVSVTDLGMVREVDVDGGGV-VVKFTPTYSGCPALEVIRQDIRDAVRALG-VEVVEVSTSLDPPWTTDWITED 78

                  ..
gi 446312720   95 AK 96
Cdd:TIGR02159  79 AR 80
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH