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 (413) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,904 0 7
Proteins 3,825 0 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 7.281e-15 Least Informative Direct
Biological Process (BP) multicellular organismal process 1.97e-09 Least Informative Direct
Biological Process (BP) developmental process 2.625e-09 Least Informative Direct
Biological Process (BP) single-organism cellular process 1.729e-07 Least Informative Direct
Biological Process (BP) response to stimulus 0.0004215 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.001903 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 1.761e-14 Moderately Informative Direct
Biological Process (BP) cell differentiation 3.336e-08 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 3.803e-07 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 2.286e-05 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 6.685e-05 Moderately Informative Direct
Biological Process (BP) immune system process 0.0005549 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.788 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.01451 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.9488 Moderately Informative Inherited
Biological Process (BP) tissue development 0.4737 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.01006 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.0069 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.926 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.04866 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.2526 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.4235 Moderately Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0 Informative Direct
Biological Process (BP) response to organic cyclic compound 7.281e-15 Informative Direct
Biological Process (BP) cellular process involved in reproduction 1.188e-12 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 5.286e-11 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 2.537e-09 Informative Direct
Biological Process (BP) single organism reproductive process 1.218e-08 Informative Direct
Biological Process (BP) developmental process involved in reproduction 2.25e-08 Informative Direct
Biological Process (BP) RNA processing 3.38e-07 Informative Direct
Biological Process (BP) defense response 1.163e-06 Informative Direct
Biological Process (BP) reproductive system development 7.995e-06 Informative Direct
Biological Process (BP) response to other organism 0.0001127 Informative Direct
Biological Process (BP) immune effector process 0.0001897 Informative Direct
Biological Process (BP) ncRNA metabolic process 0.0003486 Informative Direct
Biological Process (BP) chromosome organization 0.0004697 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 0.05346 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.08399 Informative Inherited
Biological Process (BP) DNA metabolic process 0.1346 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.006902 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.006088 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.02207 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.008314 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.007518 Informative Inherited
Biological Process (BP) sexual reproduction 0.03256 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.07799 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.001454 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.3214 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) regulation of translation 0 Highly Informative Direct
Biological Process (BP) RNA phosphodiester bond hydrolysis, endonucleolytic 0 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 3.612e-12 Highly Informative Direct
Biological Process (BP) stem cell development 1.475e-11 Highly Informative Direct
Biological Process (BP) positive regulation of catabolic process 1.969e-08 Highly Informative Direct
Biological Process (BP) post-embryonic development 6.647e-08 Highly Informative Direct
Biological Process (BP) spermatogenesis 1.522e-07 Highly Informative Direct
Biological Process (BP) response to virus 2.473e-07 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 2.574e-06 Highly Informative Direct
Biological Process (BP) pattern specification process 0.000318 Highly Informative Direct
Biological Process (BP) cell division 0.0004286 Highly Informative Direct
Biological Process (BP) mRNA processing 0.7836 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.02087 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.7082 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.09822 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 9.133e-07 Least Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0 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 7.806e-06 Highly Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 2.706e-11 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.1713 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 0.4925 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.5761 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.8426 Informative Inherited
Cellular Component (CC) RNA cap binding complex 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic mRNA processing body 6.093e-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 morphology0.000173Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal reproductive system physiology0.0007947Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal gland morphology0.001906Moderately InformativeInherited
Mammalian Phenotype (MP)decreased germ cell number1.468e-06InformativeDirect
Mammalian Phenotype (MP)abnormal male germ cell morphology3.181e-06InformativeDirect
Mammalian Phenotype (MP)abnormal sex determination4.086e-06InformativeDirect
Mammalian Phenotype (MP)abnormal spermatogenesis6.309e-06InformativeDirect
Mammalian Phenotype (MP)abnormal internal male genitalia morphology1.416e-05InformativeDirect
Mammalian Phenotype (MP)abnormal sex gland morphology2.971e-05InformativeDirect
Mammalian Phenotype (MP)abnormal meiosis6.187e-09Highly InformativeDirect
Mammalian Phenotype (MP)abnormal testis weight7.254e-08Highly InformativeDirect
Mammalian Phenotype (MP)small testis1.492e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal male reproductive system physiology4.209e-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)modifier of variegation3.912e-05InformativeDirect
Fly Phenotype (FP)cell cycle defective0.0001442InformativeDirect
Fly Phenotype (FP)suppressor of variegation5.167e-06Highly InformativeDirect
Fly Phenotype (FP)male sterile0.0005161Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)cell0.2987Least InformativeInherited
Fly Anatomy (FA)late embryo0.6033Moderately InformativeInherited
Fly Anatomy (FA)extended germ band embryo0.04165InformativeInherited
Fly Anatomy (FA)dorsal closure embryo0.04811InformativeInherited
Fly Anatomy (FA)gastrula embryo0.004071Highly 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 processDifferentiation5.51e-15Moderately InformativeDirect
Biological processTranscription regulation2.367e-06Moderately InformativeDirect
Biological processMeiosis0InformativeDirect
Biological processTranslation regulation0InformativeDirect
Biological processPlant defense5.808e-13InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Biological processSpermatogenesis0.0007056Highly InformativeDirect
Cellular componentNucleus4.025e-10Least InformativeDirect
Cellular componentCytoplasm0.0004769Least InformativeDirect
DomainRepeat9.621e-05Least InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Molecular functionMagnesium1.218e-10Moderately InformativeDirect
Post-translational modificationHydrolase0.0001327Least InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationRepressor3.707e-14Moderately InformativeDirect
Post-translational modificationRibonucleoprotein1.576e-08Moderately InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect
Post-translational modificationHelicase3.94e-15InformativeDirect
Post-translational modificationMethylation1.289e-11Moderately InformativeDirect
Post-translational modificationHydroxylation2.224e-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 ]