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Conserved domains on  [gi|1007515040|gb|KYH42847|]
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hypothetical protein AYL33_000070 [Candidatus Bathyarchaeota archaeon B63]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
GXGXG super family cl00239
GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit ...
1-38 4.08e-06

GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran dehydrogenase (FmdC). It is also found in a primarily archeal group of proteins predicted to encode part of the large subunit of GltS. It is characterized by a repeated GXXGXXXG motif. GltS is a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the transfer of ammonia and electrons among three distinct active centers that carry out L-Gln hydrolysis, conversion of 2-oxoglutarate into L-Glu, and electron uptake from a donor. These catalytic sites occur in other domains within the protein or or encoded by separate genes, and are not present in the domain in this CD. FwdC and FmdC are reversible ion pumps that catalyze the formylation and deformylation of methanofuran in hyperthermophiles and bacteria. They require the presence of either tungstun (FwdC) or molybdenum (FmdC). The specific function of this domain also remains unidentified in the formylmethanofuran dehydrogenases.


The actual alignment was detected with superfamily member cd00981:

Pssm-ID: 469679 [Multi-domain]  Cd Length: 232  Bit Score: 40.75  E-value: 4.08e-06
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1007515040   1 MEEDWEVLRRLVYEFCECFRFDAEGILEREFMKIIPVS 38
Cdd:cd00981   195 TEEDLEFIEKYIEEFCKEFGYDKAEILDEEFTKLKPKS 232
 
Name Accession Description Interval E-value
arch_gltB cd00981
Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown ...
1-38 4.08e-06

Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to the C-terminal domain of glutamate synthase based upon sequence similarity coupled with genome organization data, showing that this domain is found in a gene cluster with other domains of Glts, which are annotated. This domain is found primarily in archaea, but is also present in a few bacteria, likely as a result of lateral gene transfer.


Pssm-ID: 238481 [Multi-domain]  Cd Length: 232  Bit Score: 40.75  E-value: 4.08e-06
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1007515040   1 MEEDWEVLRRLVYEFCECFRFDAEGILEREFMKIIPVS 38
Cdd:cd00981   195 TEEDLEFIEKYIEEFCKEFGYDKAEILDEEFTKLKPKS 232
 
Name Accession Description Interval E-value
arch_gltB cd00981
Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown ...
1-38 4.08e-06

Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to the C-terminal domain of glutamate synthase based upon sequence similarity coupled with genome organization data, showing that this domain is found in a gene cluster with other domains of Glts, which are annotated. This domain is found primarily in archaea, but is also present in a few bacteria, likely as a result of lateral gene transfer.


Pssm-ID: 238481 [Multi-domain]  Cd Length: 232  Bit Score: 40.75  E-value: 4.08e-06
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1007515040   1 MEEDWEVLRRLVYEFCECFRFDAEGILEREFMKIIPVS 38
Cdd:cd00981   195 TEEDLEFIEKYIEEFCKEFGYDKAEILDEEFTKLKPKS 232
 
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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