SUPERFAMILY 1.75 HMM library and genome assignments server

Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain [ 48339]
Superfamily:   Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain [ 48340]
Families:   Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain [ 48341]


Superfamily statistics
Genomes (255) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,367 1,407 1
Proteins 1,336 1,378 1


Functional annotation
General category Processes_EC
Detailed category Immune response

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)response to stimulus0.0046420.0000000006565Least InformativeInherited
Biological Process (BP)defense response0.0000078960Moderately InformativeDirect
Biological Process (BP)immune system process0.000013250Moderately InformativeDirect
Biological Process (BP)cellular response to chemical stimulus0.000030950Moderately InformativeDirect
Biological Process (BP)response to organic substance0.000048290Moderately InformativeDirect
Biological Process (BP)response to cytokine0.00000007120InformativeDirect
Biological Process (BP)immune response0.0000014640InformativeDirect
Biological Process (BP)innate immune response0.00000035670Highly 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) response to stimulus 0.0000000006565 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.03814 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.1871 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.04577 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.01752 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.008302 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.009614 Least Informative Inherited
Biological Process (BP) defense response 0 Moderately Informative Direct
Biological Process (BP) immune system process 0 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0 Moderately Informative Direct
Biological Process (BP) response to organic substance 0 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.0000000001489 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.00000003679 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 0.0000004284 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.0000006854 Moderately Informative Direct
Biological Process (BP) single-organism catabolic process 0.0000009205 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.000002034 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.000002178 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.00001512 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.00005528 Moderately Informative Direct
Biological Process (BP) response to external stimulus 0.00009684 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 0.0003647 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 0.9438 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.07946 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.5882 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.4165 Moderately Informative Inherited
Biological Process (BP) response to cytokine 0 Informative Direct
Biological Process (BP) immune response 0 Informative Direct
Biological Process (BP) protein oligomerization 0 Informative Direct
Biological Process (BP) response to bacterium 0 Informative Direct
Biological Process (BP) biological adhesion 0 Informative Direct
Biological Process (BP) organophosphate catabolic process 0.000000000009063 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 0.00000000001235 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0.0000000000317 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 0.0000000000422 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 0.00000000008374 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.0000000005051 Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 0.000000002594 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.4259 Informative Inherited
Biological Process (BP) cell projection organization 0.009359 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.0474 Informative Inherited
Biological Process (BP) defense response to other organism 0.001783 Informative Inherited
Biological Process (BP) response to lipid 0.2691 Informative Inherited
Biological Process (BP) generation of neurons 0.04046 Informative Inherited
Biological Process (BP) innate immune response 0 Highly Informative Direct
Biological Process (BP) protein homooligomerization 0 Highly Informative Direct
Biological Process (BP) response to lipopolysaccharide 0 Highly Informative Direct
Biological Process (BP) defense response to bacterium 0 Highly Informative Direct
Biological Process (BP) guanosine-containing compound metabolic process 0 Highly Informative Direct
Biological Process (BP) symbiosis, encompassing mutualism through parasitism 0 Highly Informative Direct
Biological Process (BP) ribonucleoside triphosphate catabolic process 0.0000000000008301 Highly Informative Direct
Biological Process (BP) purine nucleoside triphosphate catabolic process 0.0000000000009414 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 0.000000000001467 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 0.00000000000177 Highly Informative Direct
Biological Process (BP) cellular response to biotic stimulus 0.00000000001214 Highly Informative Direct
Biological Process (BP) neuron projection development 0.002192 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.003337 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 0.002496 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0.0007367 Least Informative Direct
Molecular Function (MF) binding 0.04353 Least Informative Inherited
Molecular Function (MF) anion binding 0.000001031 Moderately Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.00000145 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.000005002 Moderately Informative Direct
Molecular Function (MF) purine ribonucleoside binding 0.0000000002183 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0.000000001249 Informative Direct
Molecular Function (MF) nucleotide binding 0.000000008979 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0.001985 Informative Inherited
Cellular Component (CC) cytoplasmic part 0.00000000000000158 Least Informative Direct
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) membrane 0.106 Least Informative Inherited
Cellular Component (CC) vesicle 0.00000000000006922 Moderately Informative Direct
Cellular Component (CC) extracellular region part 0.00000000007552 Moderately Informative Direct
Cellular Component (CC) intrinsic component of membrane 0.0000001413 Moderately Informative Direct
Cellular Component (CC) endoplasmic reticulum 0.000002485 Moderately Informative Direct
Cellular Component (CC) membrane region 0.002657 Moderately Informative Inherited
Cellular Component (CC) bounding membrane of organelle 0.001005 Moderately Informative Inherited
Cellular Component (CC) extracellular membrane-bounded organelle 0.0000000000001586 Informative Direct
Cellular Component (CC) endoplasmic reticulum membrane 0.00006805 Informative Direct
Cellular Component (CC) integral component of membrane 0.0002053 Informative Direct
Cellular Component (CC) Golgi apparatus 0.02566 Informative Inherited

Document: GO annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)seed0Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)root system0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAntiviral defense0.000000000005811Highly InformativeDirect
Cellular componentMembrane0.0000000000000673Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentCell projection0.00000008638Moderately InformativeDirect
DomainTransmembrane0.00003614Least InformativeDirect
DomainCoiled coil0.0000000000002878Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Post-translational modificationHydrolase0.00001383Least InformativeDirect
Post-translational modificationAntimicrobial0.0000000001763InformativeDirect
Post-translational modificationMethylation0.000001171Moderately InformativeDirect
Post-translational modificationPrenylation0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR015900 SSF48340 Protein matches
Abstract

Guanylate-binding protein is a GTPase that is induced by interferon (IFN)-gamma. GTPases induced by IFN-gamma are key to the protective immunity against microbial and viral pathogens. These GTPases are classified into three groups: the small 47-kd GTPases, the Mx proteins, and the large 65- to 67-kd GTPases. Guanylate-binding proteins (GBP) fall into the last class. In humans, there are seven GBPs (hGBP1-7) [PubMed17266443]. Structurally, hGBP1 consists of two domains: a compact globular N-terminal domain harbouring the GTPase function , and an alpha-helical finger-like C-terminal domain. Human GBP1 is secreted from cells without the need of a leader peptide, and has been shown to exhibit antiviral activity against Vesicular stomatitis virus and Encephalomyocarditis virus, as well as being able to regulate the inhibition of proliferation and invasion of endothelial cells in response to IFN-gamma [PubMed16936281].


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) · 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 1 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 Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal 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 1 hidden Markov models representing the Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]