SUPERFAMILY 1.75 HMM library and genome assignments server

RCC1/BLIP-II superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   7-bladed beta-propeller [ 50964] (14)
Superfamily:   RCC1/BLIP-II [ 50985] (2)
Families:   Regulator of chromosome condensation RCC1 [ 50986]
  beta-lactamase inhibitor protein-II, BLIP-II [ 69315]


Superfamily statistics
Genomes (783) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 11,427 14,030 3
Proteins 9,383 10,579 3


Functional annotation
General category Processes_IC
Detailed category Cell cycle, Apoptosis

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Molecular Function (MF)guanyl-nucleotide exchange factor activity0.000001480Highly InformativeDirect
Cellular Component (CC)membrane0.11651Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.9080.9803Least InformativeInherited
Cellular Component (CC)cytoplasmic part11Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.00041110.07838Least InformativeInherited
Cellular Component (CC)organelle envelope0.018640.06304Moderately InformativeInherited
Cellular Component (CC)nuclear part0.019990.1204Moderately InformativeInherited
Cellular Component (CC)vesicle0.00074820.00799Moderately InformativeInherited
Cellular Component (CC)secretory granule0.0000027660.000003328InformativeDirect
Cellular Component (CC)nuclear envelope0.00054660.01667InformativeInherited
Cellular Component (CC)acrosomal vesicle00.0001324Highly InformativeDirect
Cellular Component (CC)nuclear membrane0.000000016370.00001641Highly InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) single-organism cellular process 0.8256 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.04009 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.3657 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.9205 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 0.5026 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.02556 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.8822 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.01045 Least Informative Inherited
Biological Process (BP) developmental process 0.05419 Least Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.0002542 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.0000001762 Moderately Informative Direct
Biological Process (BP) regulation of phosphorus metabolic process 0.00000001143 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.01496 Moderately Informative Inherited
Biological Process (BP) organ development 0.6484 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.0182 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.2594 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.1234 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.2105 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.4379 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.3125 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.1836 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.01825 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.7596 Moderately Informative Inherited
Biological Process (BP) regulation of nucleoside metabolic process 0 Informative Direct
Biological Process (BP) positive regulation of catabolic process 0.000000002887 Informative Direct
Biological Process (BP) cell projection organization 0.00004618 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 0.00000000000004707 Informative Direct
Biological Process (BP) generation of neurons 0.0000075 Informative Direct
Biological Process (BP) neurological system process 0.0001494 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.0004867 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.0001932 Informative Direct
Biological Process (BP) protein modification by small protein conjugation or removal 0.0006011 Informative Direct
Biological Process (BP) regulation of purine nucleotide metabolic process 0 Informative Direct
Biological Process (BP) positive regulation of phosphate metabolic process 0.4043 Informative Inherited
Biological Process (BP) sensory organ development 0.01026 Informative Inherited
Biological Process (BP) organ morphogenesis 0.009029 Informative Inherited
Biological Process (BP) protein ubiquitination 0.00003329 Highly Informative Direct
Biological Process (BP) eye morphogenesis 0.0003645 Highly Informative Direct
Biological Process (BP) sensory perception 0.037 Highly Informative Inherited
Biological Process (BP) positive regulation of GTPase activity 0.002164 Highly Informative Inherited
Biological Process (BP) regulation of Ras GTPase activity 0.08096 Highly Informative Inherited
Molecular Function (MF) binding 0.3828 Least Informative Inherited
Molecular Function (MF) transferase activity 0.244 Least Informative Inherited
Molecular Function (MF) enzyme regulator activity 0.05517 Moderately Informative Inherited
Molecular Function (MF) enzyme binding 0.00007173 Informative Direct
Molecular Function (MF) protein dimerization activity 0.00005883 Informative Direct
Molecular Function (MF) ubiquitin-protein transferase activity 0.0000003852 Highly Informative Direct
Molecular Function (MF) guanyl-nucleotide exchange factor activity 0 Highly Informative Direct
Molecular Function (MF) Ras GTPase binding 0.0000001432 Highly Informative Direct
Molecular Function (MF) protein kinase regulator activity 0.00001315 Highly Informative Direct
Molecular Function (MF) protein homodimerization activity 0.00000005091 Highly Informative Direct
Molecular Function (MF) kinase binding 0.3648 Highly Informative Inherited
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.9803 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.07838 Least Informative Inherited
Cellular Component (CC) cell projection 0.000001493 Moderately Informative Direct
Cellular Component (CC) organelle envelope 0.06304 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.1204 Moderately Informative Inherited
Cellular Component (CC) vesicle 0.00799 Moderately Informative Inherited
Cellular Component (CC) secretory granule 0.000003328 Informative Direct
Cellular Component (CC) nuclear envelope 0.01667 Informative Inherited
Cellular Component (CC) acrosomal vesicle 0.0001324 Highly Informative Direct
Cellular Component (CC) nuclear membrane 0.00001641 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of head and neck0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of higher mental function0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of pyramidal motor function0InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details) Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)adult0Least InformativeDirect
Fly Anatomy (FA)organ system0Least InformativeDirect
Fly Anatomy (FA)cell0Least InformativeDirect
Fly Anatomy (FA)anatomical group0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0Least InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell cycle0.00000000000004167Moderately InformativeDirect
Biological processMitosis0InformativeDirect
Biological processUbl conjugation pathway0InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm0.136Least InformativeInherited
Cellular componentCytoskeleton0.00000002135Moderately InformativeDirect
Cellular componentCell projection0.000001051Moderately InformativeDirect
Cellular componentCilium0.0000000002108Highly InformativeDirect
DomainRepeat0Least InformativeDirect
Post-translational modificationTransferase0.9605Least InformativeInherited
Post-translational modificationLigase0.000001828Moderately InformativeDirect
Post-translational modificationKinase0.00002009Moderately InformativeDirect
Post-translational modificationReceptor0.0002214Moderately InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0InformativeDirect
Post-translational modificationSerine/threonine-protein kinase0.00000000000003435InformativeDirect
Post-translational modificationPhosphoprotein0.0000006159Least InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)protein ubiquitination0Moderately InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR009091 SSF50985 Protein matches
Abstract

The beta-lactamase-inhibitor protein II (BLIP-II) is a secreted protein produced by the soil bacteria Streptomyces exfoliates SMF19. BLIP-II acts as a potent inhibitor of beta-lactamases such as TEM-1, which is the most widespread resistance enzyme to penicillin antibiotics. BLIP-II binds competitively to TEM-1, but no direct contacts are made with TEM-1 active site residues. BLIP-II shows no sequence similarity with BLIP, even though both bind to and inhibit TEM-1. However, BLIP-II does share significant sequence identity with the regulator of chromosome condensation (RCC1) family of proteins. These two families are clearly related, both having a seven-bladed beta-propeller structure, although they differ in the number of strands per blade, BLIP-II having three antiparallel beta-strands per blade, while RCC1 has four-stranded blades [PubMed11573088]. RCC1 is a eukaryotic nuclear protein that acts as a guanine nucleotide exchange factor for Ran, a member of the Ras GTPase family. RCC1 mediates a Ran-GTP gradient necessary for the regulation of spindle formation and nuclear assembly during mitosis, as well as for the transport of macromolecules across the nuclear membrane during interphase.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 RCC1/BLIP-II 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 RCC1/BLIP-II 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]