SUPERFAMILY 1.75 HMM library and genome assignments server


PAZ domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   SH3-like barrel [ 50036] (21)
Superfamily:   PAZ domain [ 101690]
Families:   PAZ domain [ 101691] (5)


Superfamily statistics
Genomes (374) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 3,234 2,730 7
Proteins 3,171 2,701 7


Functional annotation
General category Regulation
Detailed category RNA binding, metabolism and transport

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) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) regulation of metabolic process 1.773e-14 Least Informative Direct
Biological Process (BP) multicellular organismal process 1.405e-09 Least Informative Direct
Biological Process (BP) developmental process 2.052e-09 Least Informative Direct
Biological Process (BP) single-organism cellular process 1.389e-07 Least Informative Direct
Biological Process (BP) response to stimulus 0.0004457 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.001797 Least Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) reproduction 0 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) response to organic substance 0 Moderately Informative Direct
Biological Process (BP) gene expression 1.263e-14 Moderately Informative Direct
Biological Process (BP) cell differentiation 2.736e-08 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 3.504e-07 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 3.338e-05 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.000356 Moderately Informative Direct
Biological Process (BP) immune system process 0.0004226 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.7113 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.01469 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.9486 Moderately Informative Inherited
Biological Process (BP) tissue development 0.4618 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.007342 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.004665 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.001749 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.9177 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.04613 Moderately Informative Inherited
Biological Process (BP) macromolecule catabolic process 0.006535 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 0.09815 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.2597 Moderately Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0 Informative Direct
Biological Process (BP) negative regulation of gene expression 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0 Informative Direct
Biological Process (BP) response to organic cyclic compound 5.586e-15 Informative Direct
Biological Process (BP) cellular process involved in reproduction 1.267e-12 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 3.183e-10 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 5.565e-10 Informative Direct
Biological Process (BP) single organism reproductive process 1.028e-08 Informative Direct
Biological Process (BP) RNA processing 4.859e-07 Informative Direct
Biological Process (BP) defense response 1.292e-06 Informative Direct
Biological Process (BP) immune effector process 0.0002621 Informative Direct
Biological Process (BP) ncRNA metabolic process 0.0002898 Informative Direct
Biological Process (BP) chromosome organization 0.0004679 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.05585 Informative Inherited
Biological Process (BP) DNA metabolic process 0.2215 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.005408 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.004899 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.02323 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.008093 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.006046 Informative Inherited
Biological Process (BP) sexual reproduction 0.01243 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.01689 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.001586 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.3233 Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 0 Highly Informative Direct
Biological Process (BP) DNA modification 0 Highly Informative Direct
Biological Process (BP) cellular response to organic cyclic compound 0 Highly Informative Direct
Biological Process (BP) regulation of translation 0 Highly Informative Direct
Biological Process (BP) gene silencing 0 Highly Informative Direct
Biological Process (BP) RNA phosphodiester bond hydrolysis, endonucleolytic 0 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 3.946e-12 Highly Informative Direct
Biological Process (BP) stem cell development 1.387e-11 Highly Informative Direct
Biological Process (BP) positive regulation of cellular catabolic process 7.579e-10 Highly Informative Direct
Biological Process (BP) post-embryonic development 5.265e-08 Highly Informative Direct
Biological Process (BP) spermatogenesis 1.703e-07 Highly Informative Direct
Biological Process (BP) response to virus 2.306e-07 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 1.964e-06 Highly Informative Direct
Biological Process (BP) RNA catabolic process 6.092e-06 Highly Informative Direct
Biological Process (BP) pattern specification process 0.0003427 Highly Informative Direct
Biological Process (BP) cell division 0.0005217 Highly Informative Direct
Biological Process (BP) mRNA processing 0.7789 Highly Informative Inherited
Biological Process (BP) cell proliferation 0.001845 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.01832 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.6965 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.1002 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 4.383e-06 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 4.534e-15 Moderately Informative Direct
Molecular Function (MF) nuclease activity 0 Informative Direct
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) endoribonuclease activity 0 Highly Informative Direct
Molecular Function (MF) endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomo 2.112e-05 Highly Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 1.663e-12 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.2758 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 0 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.2941 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.3803 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.9762 Informative Inherited
Cellular Component (CC) RNA cap binding complex 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic mRNA processing body 4.569e-13 Highly Informative Direct

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details) Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal reproductive system morphology0.000172Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal reproductive system physiology0.000809Moderately InformativeDirect
Mammalian Phenotype (MP)endocrine/exocrine gland phenotype0.001222Moderately InformativeInherited
Mammalian Phenotype (MP)decreased germ cell number1.394e-06InformativeDirect
Mammalian Phenotype (MP)abnormal male germ cell morphology3.026e-06InformativeDirect
Mammalian Phenotype (MP)abnormal sex determination3.97e-06InformativeDirect
Mammalian Phenotype (MP)abnormal spermatogenesis6.076e-06InformativeDirect
Mammalian Phenotype (MP)abnormal internal male genitalia morphology1.346e-05InformativeDirect
Mammalian Phenotype (MP)abnormal sex gland morphology2.899e-05InformativeDirect
Mammalian Phenotype (MP)abnormal testis weight6.514e-08Highly InformativeDirect
Mammalian Phenotype (MP)small testis1.394e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal male reproductive system physiology3.908e-05Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant5.89e-05Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.5473Least InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.003549Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.1771Moderately InformativeInherited
Worm Phenotype (WP)RNA expression variant4.484e-15InformativeDirect
Worm Phenotype (WP)chromosome segregation variant0.0098InformativeInherited
Worm Phenotype (WP)RNAi response variant2.391e-09Highly InformativeDirect
Worm Phenotype (WP)meiotic chromosome segregation variant0.0006371Highly InformativeDirect
Worm Phenotype (WP)transgene silencing variant0.9817Highly InformativeInherited
Worm Phenotype (WP)mRNA expression variant1Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)mitotic cell cycle defective8.9e-06InformativeDirect
Fly Phenotype (FP)modifier of variegation1.265e-05InformativeDirect
Fly Phenotype (FP)sterile0.01008InformativeInherited
Fly Phenotype (FP)suppressor of variegation5.954e-06Highly InformativeDirect
Fly Phenotype (FP)male sterile0.0005513Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)cell0.2872Least InformativeInherited
Fly Anatomy (FA)late embryo0.6008Moderately InformativeInherited
Fly Anatomy (FA)extended germ band embryo0.04063InformativeInherited
Fly Anatomy (FA)dorsal closure embryo0.0469InformativeInherited
Fly Anatomy (FA)gastrula embryo0.004014Highly InformativeInherited

Document: FA 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)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0Moderately InformativeDirect

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)C globular stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation4.83e-15Moderately InformativeDirect
Biological processTranscription regulation1.792e-06Moderately InformativeDirect
Biological processMeiosis0InformativeDirect
Biological processTranslation regulation0InformativeDirect
Biological processPlant defense4.136e-13InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Biological processSpermatogenesis0.0006375Highly InformativeDirect
Cellular componentNucleus3.393e-10Least InformativeDirect
Cellular componentCytoplasm0.0004127Least InformativeDirect
DomainRepeat9.609e-05Least InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Molecular functionManganese1.868e-13Moderately InformativeDirect
Molecular functionMagnesium6.667e-05Moderately InformativeDirect
Post-translational modificationHydrolase0.0001331Least InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationRepressor3.305e-14Moderately InformativeDirect
Post-translational modificationRibonucleoprotein1.667e-08Moderately InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect
Post-translational modificationHelicase3.503e-15InformativeDirect
Post-translational modificationMethylation1.285e-11Moderately InformativeDirect
Post-translational modificationHydroxylation1.792e-07InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

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 PAZ 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 6 hidden Markov models representing the PAZ 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) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]