SUPERFAMILY 1.75 HMM library and genome assignments server

Nop domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Nop domain [ 89123]
Superfamily:   Nop domain [ 89124]
Families:   Nop domain [ 89125] (2)


Superfamily statistics
Genomes (662) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,153 2,457 2
Proteins 2,137 2,450 2


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 0.000001959 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.00003309 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.0003152 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.000001462 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.000006579 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0364 Least Informative Inherited
Biological Process (BP) gene expression 0.000000007148 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.0000000000003143 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.0000008757 Moderately Informative Direct
Biological Process (BP) RNA processing 0.00000036 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 0 Informative Direct
Biological Process (BP) ncRNA metabolic process 0.007535 Informative Inherited
Biological Process (BP) rRNA processing 0 Highly Informative Direct
Biological Process (BP) RNA splicing 0.5529 Highly Informative Inherited
Biological Process (BP) mRNA processing 0.6863 Highly Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.0005415 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00000007133 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.003325 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 0.0000000000001287 Moderately Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.000016 Moderately Informative Direct
Cellular Component (CC) transferase complex 0.00109 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0.4585 Informative Inherited
Cellular Component (CC) small nucleolar ribonucleoprotein complex 0.00000000383 Highly Informative Direct
Cellular Component (CC) nucleolar part 0.0001037 Highly Informative Direct

Document: GO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0Moderately InformativeDirect
Worm Phenotype (WP)sterile progeny0Moderately InformativeDirect
Worm Phenotype (WP)protruding vulva0InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)morphology0Moderately InformativeDirect

Document: YP 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)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ovary0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)gamete0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)skin0InformativeDirect
Xenopus ANatomical entity (XAN)anatomical entity in vitro0InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processRibosome biogenesis0InformativeDirect
Biological processrRNA processing0InformativeDirect
Biological processmRNA splicing0.00000000003929InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentSpliceosome0.00000000001695InformativeDirect
DomainCoiled coil0.0000000003324Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationPhosphoprotein0.00003541Least InformativeDirect
Post-translational modificationAcetylation0.0008012Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · 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 2 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 Nop 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 2 hidden Markov models representing the Nop 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) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]