Vitamin K-dependent gamma-carboxylase; Using reduced vitamin K, oxygen, and carbon dioxide, ...
3-409
0e+00
Vitamin K-dependent gamma-carboxylase; Using reduced vitamin K, oxygen, and carbon dioxide, gamma-glutamyl carboxylase post-translationally modifies certain glutamates by adding carbon dioxide to the gamma position of those amino acids. In vertebrates, the modification of glutamate residues of target proteins is facilitated by an interaction between a propeptide present on target proteins and the gamma-glutamyl carboxylase.
:
Pssm-ID: 461546 Cd Length: 432 Bit Score: 578.76 E-value: 0e+00
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
417-509
1.95e-04
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP (deoxythymidine diphosphates)-4-dehydrorhamnose 3,5-epimerase)-like cupins. RmlC is a dTDP-sugar isomerase involved in the synthesis of L-rhamnose, a saccharide required for the virulence of some pathogenic bacteria. Cupins are a functionally diverse superfamily originally discovered based on the highly conserved motif found in germin and germin-like proteins. This conserved motif forms a beta-barrel fold found in all of the cupins, giving rise to the name cupin ('cupa' is the Latin term for small barrel). The active site of members of this superfamily is generally located at the center of a conserved barrel and usually includes a metal ion. The different functional classes in this superfamily include single domain bacterial isomerases and epimerases involved in the modification of cell wall carbohydrates, two domain bicupins such as the desiccation-tolerant seed storage globulins, and multidomain nuclear transcription factors involved in legume root nodulation.
The actual alignment was detected with superfamily member cd02235:
Pssm-ID: 477354 [Multi-domain] Cd Length: 100 Bit Score: 41.02 E-value: 1.95e-04
Vitamin K-dependent gamma-carboxylase; Using reduced vitamin K, oxygen, and carbon dioxide, ...
3-409
0e+00
Vitamin K-dependent gamma-carboxylase; Using reduced vitamin K, oxygen, and carbon dioxide, gamma-glutamyl carboxylase post-translationally modifies certain glutamates by adding carbon dioxide to the gamma position of those amino acids. In vertebrates, the modification of glutamate residues of target proteins is facilitated by an interaction between a propeptide present on target proteins and the gamma-glutamyl carboxylase.
Pssm-ID: 461546 Cd Length: 432 Bit Score: 578.76 E-value: 0e+00
Horizontally Transferred TransMembrane Domain; Sequence analysis of vitamin K dependent ...
1-220
2.17e-88
Horizontally Transferred TransMembrane Domain; Sequence analysis of vitamin K dependent gamma-carboxylases (VKGC) revealed the presence of a novel domain, HTTM (Horizontally Transferred TransMembrane) in its N-terminus. In contrast to most known domains, HTTM contains four transmembrane regions. Its occurrence in eukaryotes, bacteria and archaea is more likely caused by horizontal gene transfer than by early invention. The conservation of VKGC catalytic sites indicates an enzymatic function also for the other family members.
Pssm-ID: 214802 Cd Length: 271 Bit Score: 276.90 E-value: 2.17e-88
Bradyrhizobium diazoefficiens BLL4011 and related proteins, cupin domain; This family includes ...
417-509
1.95e-04
Bradyrhizobium diazoefficiens BLL4011 and related proteins, cupin domain; This family includes bacterial and fungal proteins homologous to BLL4011, a Bradyrhizobium diazoefficiens protein of unknown function. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.
Pssm-ID: 380363 [Multi-domain] Cd Length: 100 Bit Score: 41.02 E-value: 1.95e-04
Vitamin K-dependent gamma-carboxylase; Using reduced vitamin K, oxygen, and carbon dioxide, ...
3-409
0e+00
Vitamin K-dependent gamma-carboxylase; Using reduced vitamin K, oxygen, and carbon dioxide, gamma-glutamyl carboxylase post-translationally modifies certain glutamates by adding carbon dioxide to the gamma position of those amino acids. In vertebrates, the modification of glutamate residues of target proteins is facilitated by an interaction between a propeptide present on target proteins and the gamma-glutamyl carboxylase.
Pssm-ID: 461546 Cd Length: 432 Bit Score: 578.76 E-value: 0e+00
Horizontally Transferred TransMembrane Domain; Sequence analysis of vitamin K dependent ...
1-220
2.17e-88
Horizontally Transferred TransMembrane Domain; Sequence analysis of vitamin K dependent gamma-carboxylases (VKGC) revealed the presence of a novel domain, HTTM (Horizontally Transferred TransMembrane) in its N-terminus. In contrast to most known domains, HTTM contains four transmembrane regions. Its occurrence in eukaryotes, bacteria and archaea is more likely caused by horizontal gene transfer than by early invention. The conservation of VKGC catalytic sites indicates an enzymatic function also for the other family members.
Pssm-ID: 214802 Cd Length: 271 Bit Score: 276.90 E-value: 2.17e-88
Bradyrhizobium diazoefficiens BLL4011 and related proteins, cupin domain; This family includes ...
417-509
1.95e-04
Bradyrhizobium diazoefficiens BLL4011 and related proteins, cupin domain; This family includes bacterial and fungal proteins homologous to BLL4011, a Bradyrhizobium diazoefficiens protein of unknown function. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.
Pssm-ID: 380363 [Multi-domain] Cd Length: 100 Bit Score: 41.02 E-value: 1.95e-04
Desulfitobacterium hafniense dsy2733 and related proteins, cupin domain; This family includes ...
449-495
6.30e-03
Desulfitobacterium hafniense dsy2733 and related proteins, cupin domain; This family includes bacterial proteins homologous to dsy2733, a Desulfitobacterium hafniense protein of unknown function. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.
Pssm-ID: 380388 [Multi-domain] Cd Length: 81 Bit Score: 36.07 E-value: 6.30e-03
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.
of the residues that compose this conserved feature have been mapped to the query sequence.
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if a domain or superfamily has been annotated with functional sites (conserved features),
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