SUPERFAMILY 1.75 HMM library and genome assignments server

Please note: Superfamily is currently under maintenance and some functionality may be limited. Please bear with us as we fix these problems.


Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   FwdE/GAPDH domain-like [ 55346] (4)
Superfamily:   Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain [ 55347] (5)
Families:   GAPDH-like [ 55348] (6)
  Homoserine dehydrogenase-like [ 55363] (2)
  Dihydrodipicolinate reductase-like [ 55368] (6)
  Biliverdin reductase [ 55373]
  Glucose 6-phosphate dehydrogenase-like [ 55376] (7)


Superfamily statistics
Genomes (3,242) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 39,034 208,109 92
Proteins 38,969 208,063 92


Functional annotation
General category Metabolism
Detailed category Energy

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 0.000000002545 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.05277 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.05906 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.7881 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.6707 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0 Moderately Informative Direct
Biological Process (BP) cofactor metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular amino acid metabolic process 0.00000000000935 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 0.00000001055 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 0.00000008701 Moderately Informative Direct
Biological Process (BP) single-organism biosynthetic process 0.000008716 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.00002315 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.0001748 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.4831 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.3128 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.006097 Moderately Informative Inherited
Biological Process (BP) sulfur compound metabolic process 0.003878 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.01189 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound biosynthetic process 0.01108 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.2978 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.006287 Moderately Informative Inherited
Biological Process (BP) carbohydrate catabolic process 0 Informative Direct
Biological Process (BP) pyridine-containing compound metabolic process 0 Informative Direct
Biological Process (BP) apoptotic process 0.00000000000002119 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.00000000000006398 Informative Direct
Biological Process (BP) oxidoreduction coenzyme metabolic process 0.0000000000001083 Informative Direct
Biological Process (BP) microtubule-based process 0.00000000000173 Informative Direct
Biological Process (BP) peptidyl-amino acid modification 0.000000000003721 Informative Direct
Biological Process (BP) carbohydrate biosynthetic process 0.000000005193 Informative Direct
Biological Process (BP) aspartate family amino acid metabolic process 0.00000001623 Informative Direct
Biological Process (BP) cytoskeleton organization 0.00000005573 Informative Direct
Biological Process (BP) response to oxidative stress 0.00005359 Informative Direct
Biological Process (BP) sulfur compound biosynthetic process 0.0005852 Informative Direct
Biological Process (BP) alcohol metabolic process 0.8721 Informative Inherited
Biological Process (BP) localization of cell 0.572 Informative Inherited
Biological Process (BP) cellular component movement 1 Informative Inherited
Biological Process (BP) locomotion 1 Informative Inherited
Biological Process (BP) alpha-amino acid biosynthetic process 0.001901 Informative Inherited
Biological Process (BP) hexose metabolic process 0.377 Informative Inherited
Biological Process (BP) organic hydroxy compound biosynthetic process 0.01213 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.3825 Informative Inherited
Biological Process (BP) cell-type specific apoptotic process 0 Highly Informative Direct
Biological Process (BP) nicotinamide nucleotide metabolic process 0 Highly Informative Direct
Biological Process (BP) regulation of protein stability 0 Highly Informative Direct
Biological Process (BP) glycolysis 0.000000354 Highly Informative Direct
Biological Process (BP) pentose metabolic process 0.0003984 Highly Informative Direct
Biological Process (BP) serine family amino acid metabolic process 0.6856 Highly Informative Inherited
Biological Process (BP) polyol metabolic process 0.001051 Highly Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) isomerase activity 0.003274 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) cytoskeletal protein binding 0.000000000004668 Informative Direct
Molecular Function (MF) cofactor binding 0.00000003463 Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on CH-OH group of donors 0.0004958 Informative Direct
Molecular Function (MF) nucleotide binding 0.001472 Informative Inherited
Molecular Function (MF) kinase activity 0.2724 Informative Inherited
Molecular Function (MF) tubulin binding 0 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor 0 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the aldehyde or oxo group of donors 0 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor 0.00000000000078 Highly Informative Direct
Molecular Function (MF) NADP binding 0.0000000004095 Highly Informative Direct
Molecular Function (MF) NAD binding 0.000008385 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the CH-CH group of donors 1 Highly Informative Inherited
Cellular Component (CC) cytoplasmic part 0.00001305 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.7738 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.1682 Least Informative Inherited
Cellular Component (CC) cytosol 0.00000000002924 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 0.000006839 Moderately Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.00000000005511 Informative Direct
Cellular Component (CC) plastid 0.0000001158 Informative Direct
Cellular Component (CC) external encapsulating structure 0.0004239 Informative Direct
Cellular Component (CC) chloroplast stroma 0.00000003652 Highly Informative Direct
Cellular Component (CC) sperm part 0.00003081 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)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Isomerases1Least InformativeInherited
Enzyme Commission (EC)Acting on the CH-CH group of donors0Moderately InformativeDirect
Enzyme Commission (EC)Acting on the aldehyde or oxo group of donors0Moderately InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0Moderately InformativeDirect
Enzyme Commission (EC)Acting on the CH-NH group of donors1Moderately InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0InformativeDirect
Enzyme Commission (EC)Intramolecular lyases1InformativeInherited
Enzyme Commission (EC)Phosphotransferases with a carboxyl group as accep1InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0.9413InformativeInherited
Enzyme Commission (EC)1-deoxy-D-xylulose-5-phosphate reductoisomerase0Highly InformativeDirect
Enzyme Commission (EC)Homoserine dehydrogenase0Highly InformativeDirect
Enzyme Commission (EC)Aspartate kinase0.00000000000006098Highly InformativeDirect

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
Worm Phenotype (WP)organism metabolism processing variant0.02435Least InformativeInherited
Worm Phenotype (WP)lipid metabolism variant0.002185InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)metabolism and growth0.009924Least InformativeInherited
Yeast Phenotype (YP)nutrient utilization0.08254Moderately InformativeInherited
Yeast Phenotype (YP)utilization of nitrogen source0.0004089InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)viable0Least InformativeDirect

Document: FP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least 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)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)seed0.000287Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0.00112Least InformativeInherited
Plant ANatomical entity (PAN)leaf0.002227Least InformativeInherited
Plant ANatomical entity (PAN)microsporophyll0.002321Least InformativeInherited
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0.01258Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis0.02205Least InformativeInherited
Plant ANatomical entity (PAN)collective phyllome structure0.02424Least InformativeInherited
Plant ANatomical entity (PAN)flower0.04188Least InformativeInherited
Plant ANatomical entity (PAN)rosette leaf0.0002799InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.06 six leaves visible stage0.0003247Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.10 ten leaves visible stage0.0003553Least InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0.0005948Least InformativeDirect
Plant structure DEvelopment stage (PDE)seed development stage0.00003734InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Acting on the CH-OH group of donors0.04171Moderately InformativeInherited
Enzyme Commission (EC)Isomerases1Moderately InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups0InformativeDirect
Enzyme Commission (EC)Acting on the aldehyde or oxo group of donors0InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0.2054InformativeInherited
Enzyme Commission (EC)Acting on the CH-NH(2) group of donors1InformativeInherited
Enzyme Commission (EC)Acting on the CH-NH group of donors1InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0Highly InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0Highly InformativeDirect
Enzyme Commission (EC)Phosphotransferases with a carboxyl group as acceptor1Highly InformativeInherited
Enzyme Commission (EC)Intramolecular lyases1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAmino-acid biosynthesis0Moderately InformativeDirect
Biological processCarbohydrate metabolism0.001996Moderately InformativeInherited
Biological processLipid metabolism1Moderately InformativeInherited
Biological processAromatic hydrocarbons catabolism0InformativeDirect
Biological processGlycolysis0InformativeDirect
Biological processArginine biosynthesis0Highly InformativeDirect
Biological processDiaminopimelate biosynthesis0Highly InformativeDirect
Biological processGlucose metabolism0Highly InformativeDirect
Biological processIsoprene biosynthesis0Highly InformativeDirect
Biological processLysine biosynthesis0Highly InformativeDirect
Biological processPyridine nucleotide biosynthesis0Highly InformativeDirect
Biological processPhospholipid metabolism0.000001796Highly InformativeDirect
Biological processBranched-chain amino acid biosynthesis1Highly InformativeInherited
Cellular componentCytoplasm0Least InformativeDirect
Molecular functionNAD0Moderately InformativeDirect
Molecular functionNADP0InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationS-nitrosylation0InformativeDirect
Post-translational modificationADP-ribosylation0.00000000003869InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)amino-acid metabolism0Least InformativeDirect
UniPathway (UP)lipid metabolism0Least InformativeDirect
UniPathway (UP)carbohydrate metabolism0.000001259Least InformativeDirect
UniPathway (UP)cofactor metabolism1Least InformativeInherited
UniPathway (UP)proteinogenic amino-acid biosynthesis0Moderately InformativeDirect
UniPathway (UP)carbohydrate degradation0Moderately InformativeDirect
UniPathway (UP)metabolic intermediate biosynthesis0Moderately InformativeDirect
UniPathway (UP)lipid biosynthesis0Moderately InformativeDirect
UniPathway (UP)alcohol metabolism0.008889Moderately InformativeInherited
UniPathway (UP)carbohydrate biosynthesis1Moderately InformativeInherited
UniPathway (UP)amino-acid degradation1Moderately InformativeInherited
UniPathway (UP)porphyrin-containing compound metabolism1Moderately InformativeInherited
UniPathway (UP)macrocycle metabolism1Moderately InformativeInherited
UniPathway (UP)L-arginine biosynthesis0InformativeDirect
UniPathway (UP)glycolysis0InformativeDirect
UniPathway (UP)L-lysine biosynthesis0InformativeDirect
UniPathway (UP)isoprenoid biosynthesis0InformativeDirect
UniPathway (UP)alcohol biosynthesis4.527e-16InformativeDirect
UniPathway (UP)NAD(+) biosynthesis0.000005274InformativeDirect
UniPathway (UP)L-methionine biosynthesis1InformativeInherited
UniPathway (UP)isopentenyl diphosphate biosynthesis via DXP pathway0Highly InformativeDirect
UniPathway (UP)polyol biosynthesis0Highly InformativeDirect
UniPathway (UP)myo-inositol metabolism0Highly InformativeDirect
UniPathway (UP)L-threonine biosynthesis0.000000000000001345Highly InformativeDirect
UniPathway (UP)Calvin cycle0.00000000006794Highly InformativeDirect
UniPathway (UP)porphyrin-containing compound degradation0.00005266Highly InformativeDirect
UniPathway (UP)L-lysine degradation via saccharopine pathway0.0004987Highly InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · 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 50 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 Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 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 50 hidden Markov models representing the Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 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 · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]