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.


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 (425) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,046 3,795 7
Proteins 3,961 3,737 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) nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.00000001379 Least Informative Direct
Biological Process (BP) developmental process 0.00000001612 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.000003652 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) response to stimulus 0.001569 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.0048 Least Informative Inherited
Biological Process (BP) reproduction 0 Moderately Informative Direct
Biological Process (BP) immune system process 0.0009253 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) response to organic substance 0 Moderately Informative Direct
Biological Process (BP) gene expression 0.000000000000394 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0000000721 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.0006179 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0000003673 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.00007672 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.0001263 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0.9137 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.697 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.02596 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.9512 Moderately Informative Inherited
Biological Process (BP) tissue development 0.4818 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.02502 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.02149 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) system process 0.8132 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.9288 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.3294 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.5231 Moderately Informative Inherited
Biological Process (BP) immune effector process 0.0001815 Informative Direct
Biological Process (BP) developmental process involved in reproduction 0.00000002707 Informative Direct
Biological Process (BP) RNA processing 0.000003107 Informative Direct
Biological Process (BP) defense response 0.000001959 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0 Informative Direct
Biological Process (BP) negative regulation of gene expression 0 Informative Direct
Biological Process (BP) response to organic cyclic compound 0.000000000000005594 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 0.000000002105 Informative Direct
Biological Process (BP) ncRNA metabolic process 0.000008606 Informative Direct
Biological Process (BP) regulation of system process 0.0001446 Informative Direct
Biological Process (BP) single organism reproductive process 0.00000001313 Informative Direct
Biological Process (BP) cellular process involved in reproduction 0.000000000002574 Informative Direct
Biological Process (BP) chromosome organization 0.0004588 Informative Direct
Biological Process (BP) reproductive system development 0.000009149 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.0000000001178 Informative Direct
Biological Process (BP) cellular response to nitrogen compound 0 Informative Direct
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.01694 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 0.08369 Informative Inherited
Biological Process (BP) DNA metabolic process 0.1767 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.005436 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.01321 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.02459 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.006501 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.007663 Informative Inherited
Biological Process (BP) sexual reproduction 0.03346 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.07664 Informative Inherited
Biological Process (BP) single-organism behavior 0.009114 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.3949 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.00239 Informative Inherited
Biological Process (BP) DNA modification 0 Highly Informative Direct
Biological Process (BP) regulation of translation 0 Highly Informative Direct
Biological Process (BP) spermatogenesis 0.0000002259 Highly Informative Direct
Biological Process (BP) pattern specification process 0.0002937 Highly Informative Direct
Biological Process (BP) learning or memory 0.00008983 Highly Informative Direct
Biological Process (BP) response to virus 0.000000177 Highly Informative Direct
Biological Process (BP) post-embryonic development 0.00000007792 Highly Informative Direct
Biological Process (BP) positive regulation of catabolic process 0.0000007776 Highly Informative Direct
Biological Process (BP) gene silencing 0 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.000002498 Highly Informative Direct
Biological Process (BP) stem cell development 0.00000000001849 Highly Informative Direct
Biological Process (BP) regulation of mRNA processing 0.0002747 Highly Informative Direct
Biological Process (BP) cell division 0.0004209 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0.000000000004446 Highly Informative Direct
Biological Process (BP) RNA phosphodiester bond hydrolysis, endonucleolytic 0 Highly Informative Direct
Biological Process (BP) mRNA processing 0.7721 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.02407 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.7245 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.09001 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.000001678 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0 Moderately Informative Direct
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) nuclease activity 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 0.000006311 Highly Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.00000000002673 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.1909 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) ribonucleoprotein complex 0 Moderately Informative Direct
Cellular Component (CC) cytoplasmic mRNA processing body 0.0000000000005918 Highly Informative Direct

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0Least InformativeDirect

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 morphology0.0001684Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal reproductive system physiology0.0007906Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal gland morphology0.001896Moderately InformativeInherited
Mammalian Phenotype (MP)decreased germ cell number0.000001378InformativeDirect
Mammalian Phenotype (MP)abnormal male germ cell morphology0.000003062InformativeDirect
Mammalian Phenotype (MP)abnormal sex determination0.000003862InformativeDirect
Mammalian Phenotype (MP)abnormal spermatogenesis0.000006016InformativeDirect
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.00001336InformativeDirect
Mammalian Phenotype (MP)abnormal sex gland morphology0.00002788InformativeDirect
Mammalian Phenotype (MP)abnormal meiosis0.000000006152Highly InformativeDirect
Mammalian Phenotype (MP)abnormal testis weight0.00000006931Highly InformativeDirect
Mammalian Phenotype (MP)small testis0.00000145Highly InformativeDirect
Mammalian Phenotype (MP)abnormal male reproductive system physiology0.00004337Highly 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 variant0.0000589Least 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 variant0.000000000000004484InformativeDirect
Worm Phenotype (WP)chromosome segregation variant0.0098InformativeInherited
Worm Phenotype (WP)RNAi response variant0.000000002391Highly 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 defective0.000006805InformativeDirect
Fly Phenotype (FP)modifier of variegation0.00003073InformativeDirect
Fly Phenotype (FP)sterile0.02551InformativeInherited
Fly Phenotype (FP)suppressor of variegation0.00000399Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)cell0.2789Least InformativeInherited
Fly Anatomy (FA)late embryo0.5983Moderately InformativeInherited
Fly Anatomy (FA)extended germ band embryo0.03361InformativeInherited
Fly Anatomy (FA)dorsal closure embryo0.03987InformativeInherited
Fly Anatomy (FA)gastrula embryo0.003882Highly 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 processDifferentiation0.000000000000005966Moderately InformativeDirect
Biological processTranscription regulation0.000002449Moderately InformativeDirect
Biological processMeiosis0InformativeDirect
Biological processTranslation regulation0InformativeDirect
Biological processPlant defense0.0000000000006019InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Biological processSpermatogenesis0.0006958Highly InformativeDirect
Cellular componentNucleus0.0000000004035Least InformativeDirect
Cellular componentCytoplasm0.0004653Least InformativeDirect
DomainRepeat0.00009802Least InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Molecular functionMagnesium0.0000000002138Moderately InformativeDirect
Post-translational modificationHydrolase0.0001409Least InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationRepressor0.00000000000004407Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0.00000001496Moderately InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect
Post-translational modificationHelicase0.00000000000000373InformativeDirect
Post-translational modificationMethylation0.00000000001208Moderately InformativeDirect
Post-translational modificationHydroxylation0.0000002181InformativeDirect

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 ]