SUPERFAMILY 1.75 HMM library and genome assignments server


TK C-terminal domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   TK C-terminal domain-like [ 52921]
Superfamily:   TK C-terminal domain-like [ 52922] (3)
Families:   Transketolase C-terminal domain-like [ 52923] (2)
  Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain [ 52926] (4)
  Pyruvate-ferredoxin oxidoreductase, PFOR, domain II [ 52931]


Superfamily statistics
Genomes (3,204) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 16,936 84,315 18
Proteins 16,929 84,310 18


Functional annotation
General category Metabolism
Detailed category Transferases

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) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.1573 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.1302 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.9935 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.6049 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.9522 Least Informative Inherited
Biological Process (BP) carbohydrate metabolic process 4.168e-06 Moderately Informative Direct
Biological Process (BP) cellular amino acid metabolic process 0.0005136 Moderately Informative Direct
Biological Process (BP) sulfur compound metabolic process 0.0009047 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 2.947e-05 Moderately Informative Direct
Biological Process (BP) cofactor metabolic process 0 Moderately Informative Direct
Biological Process (BP) organelle organization 0.8624 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.2448 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.5795 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.01706 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.004444 Moderately Informative Inherited
Biological Process (BP) carbohydrate catabolic process 2.394e-12 Informative Direct
Biological Process (BP) hexose metabolic process 0 Informative Direct
Biological Process (BP) pyridine-containing compound metabolic process 0 Informative Direct
Biological Process (BP) coenzyme biosynthetic process 0.2825 Informative Inherited
Biological Process (BP) cytoskeleton organization 0.1155 Informative Inherited
Biological Process (BP) microtubule-based process 0.01052 Informative Inherited
Biological Process (BP) carboxylic acid catabolic process 0.6282 Informative Inherited
Biological Process (BP) oxidoreduction coenzyme metabolic process 0.09657 Informative Inherited
Biological Process (BP) energy derivation by oxidation of organic compounds 0.206 Informative Inherited
Biological Process (BP) acyl-CoA metabolic process 0 Highly Informative Direct
Biological Process (BP) pentose metabolic process 2.318e-06 Highly Informative Direct
Biological Process (BP) thioester biosynthetic process 0 Highly Informative Direct
Biological Process (BP) nicotinamide nucleotide metabolic process 0 Highly Informative Direct
Biological Process (BP) aerobic respiration 0.0208 Highly Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity 0.1915 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 1.898e-14 Moderately Informative Direct
Molecular Function (MF) cofactor binding 0.0001137 Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the aldehyde or oxo group of donors 0 Highly Informative Direct
Cellular Component (CC) protein complex 3.822e-08 Least Informative Direct
Cellular Component (CC) cytoplasmic part 8.437e-10 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.3768 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.1158 Least Informative Inherited
Cellular Component (CC) mitochondrial part 0.0001306 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.3831 Moderately Informative Inherited
Cellular Component (CC) mitochondrial matrix 9.032e-09 Informative Direct
Cellular Component (CC) plastid 9.035e-05 Informative Direct
Cellular Component (CC) external encapsulating structure 0.01318 Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0.3443Least InformativeInherited
Enzyme Commission (EC)Acting on the aldehyde or oxo group of donors0Moderately InformativeDirect
Enzyme Commission (EC)With an iron-sulfur protein as acceptor0Highly InformativeDirect
Enzyme Commission (EC)Transketolases and transaldolases1Highly InformativeInherited

Document: EC annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)developmental timing variant0Least InformativeDirect

Document: WP 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 growth0.1512Least InformativeInherited
Yeast Phenotype (YP)nutrient utilization0.00172Moderately InformativeInherited
Yeast Phenotype (YP)utilization of nitrogen source0.0006617InformativeDirect

Document: YP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0Least InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)intestine0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ovary0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)gamete0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)immune system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)visual system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)heart0InformativeDirect
Xenopus ANatomical entity (XAN)lung0InformativeDirect
Xenopus ANatomical entity (XAN)liver and biliary system0InformativeDirect
Xenopus ANatomical entity (XAN)anatomical entity in vitro0InformativeDirect
Xenopus ANatomical entity (XAN)limb0InformativeDirect
Xenopus ANatomical entity (XAN)solid compound organ0InformativeDirect
Xenopus ANatomical entity (XAN)kidney0InformativeDirect
Xenopus ANatomical entity (XAN)pancreas0Highly InformativeDirect
Xenopus ANatomical entity (XAN)mesonephric kidney0Highly InformativeDirect
Xenopus ANatomical entity (XAN)adipose tissue0Highly InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)seed development stage1.711e-05InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0.07759Least InformativeInherited
Enzyme Commission (EC)Acting on the aldehyde or oxo group of donors0InformativeDirect
Enzyme Commission (EC)With an iron-sulfur protein as acceptor0Highly InformativeDirect
Enzyme Commission (EC)Transketolases and transaldolases1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCarbohydrate metabolism1Moderately InformativeInherited
Biological processGlycolysis0InformativeDirect
Biological processNitrogen fixation6.154e-05InformativeDirect
Biological processIsoprene biosynthesis0Highly InformativeDirect
Biological processThiamine biosynthesis0Highly InformativeDirect
Biological processGlucose metabolism8.812e-07Highly InformativeDirect
DomainTransit peptide6.394e-08Moderately InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionPyruvate0Highly InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationOxidoreductase8.221e-08Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)metabolic intermediate biosynthesis0Moderately InformativeDirect
UniPathway (UP)1-deoxy-D-xylulose 5-phosphate biosynthesis0Highly InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR009014 SSF52922 Protein matches
Abstract

Transketolase C-terminal-like domains [PubMed8176731] can be found in a number of different enzymes, including the C-terminal domain of the pyruvate dehydrogenase E1 component [PubMed11955070], the C-terminal domain of branched-chain alpha-keto acid dehydrogenases [PubMed10426958], and domain II of pyruvate-ferredoxin oxidoreductase (PFOR) [PubMed11752578]. Structural studies reveal this domain to comprise of three layers alpha/beta/alpha. The mixed beta sheet consists of five strands in the order 13245, where strand 1 is antiparallel to the others.


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) · Worm Phenotype (WP) · Yeast Phenotype (YP) · 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 12 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 TK C-terminal domain-like 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 12 hidden Markov models representing the TK C-terminal domain-like 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) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]