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YVTN repeat-like/Quinoprotein amine dehydrogenase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   7-bladed beta-propeller [ 50964] (14)
Superfamily:   YVTN repeat-like/Quinoprotein amine dehydrogenase [ 50969] (3)
Families:   YVTN repeat [ 82166]
  Quinohemoprotein amine dehydrogenase B chain [ 69309]
  Methylamine dehydrogenase, H-chain [ 50970]


Superfamily statistics
Genomes (1,563) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,944 11,821 8
Proteins 4,855 11,703 8


Functional annotation
General category Metabolism
Detailed category Other enzymes

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) biological regulation 0.8295 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.2457 Least Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.00000003925 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.0003653 Moderately Informative Direct
Biological Process (BP) cellular developmental process 0.00000008785 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.00000133 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.00003083 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.08002 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.3641 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.003201 Moderately Informative Inherited
Biological Process (BP) system development 0.007843 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.02387 Moderately Informative Inherited
Biological Process (BP) animal organ morphogenesis 0.000009014 Informative Direct
Biological Process (BP) positive regulation of gene expression 0.000008291 Informative Direct
Biological Process (BP) negative regulation of gene expression 0.000005042 Informative Direct
Biological Process (BP) regulation of cell differentiation 0.00000002391 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.000006033 Informative Direct
Biological Process (BP) positive regulation of developmental process 0.0000000006198 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 0.00000000949 Informative Direct
Biological Process (BP) circulatory system development 0.00001658 Informative Direct
Cellular Component (CC) cell projection 0.021 Moderately Informative Inherited
Cellular Component (CC) site of polarized growth 0.00001148 Informative Direct
Cellular Component (CC) cell projection part 0.0004083 Informative Direct
Cellular Component (CC) neuron projection 0.08114 Informative Inherited
Cellular Component (CC) growth cone 0.000009378 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0.00001165Least InformativeDirect

Document: EC annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect
Yeast Phenotype (YP)metabolism and growth0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details) Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)cell0Least InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0.00001152Least InformativeDirect
Enzyme Commission (EC)Acting on the CH-NH(2) group of donors0.000000000000007196InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0.02273Least InformativeInherited
Biological processElectron transport0.0005428InformativeDirect
Cellular componentCell projection0.00000001312Moderately InformativeDirect
Cellular componentCell junction0.00000001382Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0.000004479Moderately InformativeDirect
Cellular componentSynapse0.00000000003798InformativeDirect
Cellular componentPeriplasm0.0000001553InformativeDirect
DomainWD repeat0InformativeDirect
Post-translational modificationDevelopmental protein0.000001021Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR011044 SSF50969 Protein matches
Abstract

Quinohemoprotein amine dehydrogenase (QHNDH) from Paracoccus denitrificans is a heterotrimer consisting of alpha, beta and gamma chains [PubMed11717396]. The alpha chain has a four-domain structure that includes a dihaem cytochrome c, the beta chain forms a 7-bladed beta-propeller that is part of the enzyme active site, and the gamma chain contains the redox factor cysteine tryptophylquinone (CTQ).

The beta chain of QHNDH structurally resembles the 7-bladed beta propeller of the H chain of the periplasmic quinoprotein methylamine dehydrogenase (MADH), found in methylotrophic bacteria [PubMed9514722]. MADH is a heterotetramer consisting of two heavy (H) chains and two light (L) chains, and contains the redox cofactor tryptophan tryptophylquinone (TTQ). There is no similarity between the quinone-containing chains of MAD and QHNDH.

The beta-propeller structure found in MAD and QHNDH is similar to the YVTN (Tyr-Val-Thr-Asn) repeat that folds into a beta-propeller found in the N-terminal domain of archaeal surface layer proteins, which help protect cells from extreme environments [PubMed12377130].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 6 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a YVTN repeat-like/Quinoprotein amine dehydrogenase domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 6 hidden Markov models representing the YVTN repeat-like/Quinoprotein amine dehydrogenase superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]