SUPERFAMILY 1.75 HMM library and genome assignments server

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Pyridoxal-dependent decarboxylase family

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   PLP-dependent transferase-like [ 53382] (3)
Superfamily:   PLP-dependent transferases [ 53383] (9)
Family:   Pyridoxal-dependent decarboxylase [ 69565] (3)


Family statistics
Genomes (1,105) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 2,996 15,967 3
Proteins 2,976 15,875 3


Enzyme Commission (EC)

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show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Carboxy-lyases0.00000381Moderately InformativeDirect
Enzyme Commission (EC)Aldehyde-lyases0.7562InformativeInherited

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)disease of mental health0.001232Moderately InformativeInherited
Disease Ontology (DO)substance dependence0.0001293InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)growth/size/body region phenotype0.03021Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.08333Least InformativeInherited
Mammalian Phenotype (MP)abnormal synaptic transmission0.0003908Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal craniofacial morphology0.01514Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.01529Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal head morphology0.04068Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal mouth morphology0.001654InformativeInherited
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.009816InformativeInherited
Mammalian Phenotype (MP)abnormal CNS synaptic transmission0.7116InformativeInherited
Mammalian Phenotype (MP)abnormal inhibitory postsynaptic currents0.000005792Highly InformativeDirect
Mammalian Phenotype (MP)cleft palate0.0002106Highly InformativeDirect
Mammalian Phenotype (MP)abnormal anxiety-related response0.0004155Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism behavior variant0.07142Least InformativeInherited
Worm Phenotype (WP)movement variant0.03343Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.2156Moderately InformativeInherited
Worm Phenotype (WP)locomotion variant0.2778Moderately InformativeInherited
Worm Phenotype (WP)foraging behavior variant0.000001152InformativeDirect
Worm Phenotype (WP)head movement variant0.000003661InformativeDirect
Worm Phenotype (WP)directionality variant0.000006366InformativeDirect
Worm Phenotype (WP)body bend variant0.00001042InformativeDirect
Worm Phenotype (WP)tail bend angle variant0.0000809InformativeDirect
Worm Phenotype (WP)egg laying variant0.0001242InformativeDirect
Worm Phenotype (WP)forward locomotion variant0.0001255InformativeDirect
Worm Phenotype (WP)body posture variant0.000625InformativeDirect
Worm Phenotype (WP)velocity of movement variant0.04353InformativeInherited
Worm Phenotype (WP)amplitude of sinusoidal movement variant0.00000386Highly InformativeDirect
Worm Phenotype (WP)carbon dioxide avoidance variant0.000005497Highly InformativeDirect
Worm Phenotype (WP)body posture wavelength variant0.00005297Highly InformativeDirect
Worm Phenotype (WP)forward point velocity variant0.00005881Highly InformativeDirect
Worm Phenotype (WP)body posture amplitude variant0.00006505Highly InformativeDirect
Worm Phenotype (WP)backward point velocity variant0.00006666Highly InformativeDirect
Worm Phenotype (WP)egg laying response to drug variant0.0002159Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.02254Highly InformativeInherited
Worm Phenotype (WP)foraging hyperactive0.03656Highly InformativeInherited
Worm Phenotype (WP)path curvature variant0.05723Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)multi-tissue structure0Least InformativeDirect
Zebrafish Anatomy (ZA)cavitated compound organ0Least InformativeDirect

Document: ZA 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 structure DEvelopment stage (PDE)4 leaf senescence stage0Least InformativeDirect
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

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Moderately InformativeDirect
Enzyme Commission (EC)Carboxy-lyases0.000000004873InformativeDirect
Enzyme Commission (EC)Aldehyde-lyases0.882Highly InformativeInherited

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

Internal database links

   
Superfamily level     Family level

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.


   
Superfamily level     Family level

Alignments of sequences to 259 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.


Superfamily level

Browse and view proteins in genomes which have different domain combinations including a PLP-dependent transferases domain.


   
Superfamily level     Family level

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.


Jump to [ Top of page · SCOP classification · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]