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 (244) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,295 1,407 1
Proteins 1,267 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)single-organism cellular process0.0092770.000000000152Least InformativeInherited
Biological Process (BP)response to stimulus0.0041290.0000000004542Least InformativeInherited
Biological Process (BP)immune system process0.00001260Moderately InformativeDirect
Biological Process (BP)cellular response to chemical stimulus0.000028150Moderately InformativeDirect
Biological Process (BP)response to organic substance0.000040480Moderately InformativeDirect
Biological Process (BP)response to cytokine stimulus0.000000057590InformativeDirect
Biological Process (BP)immune response0.0000013940InformativeDirect
Biological Process (BP)defense response0.0000073080InformativeDirect
Biological Process (BP)innate immune response0.00000034340Highly 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 0.0000000004542 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.000000000152 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0324 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.08214 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.1333 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.09048 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.2152 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.1714 Least Informative Inherited
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 0.00000000000004724 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.00000003676 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.000002321 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.00000977 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 0.00006592 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.00008959 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 0.9319 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.07204 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.3567 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.3955 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.002724 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.001085 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.007805 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.2053 Moderately Informative Inherited
Biological Process (BP) response to cytokine stimulus 0 Informative Direct
Biological Process (BP) immune response 0 Informative Direct
Biological Process (BP) defense response 0 Informative Direct
Biological Process (BP) biological adhesion 0 Informative Direct
Biological Process (BP) response to other organism 0 Informative Direct
Biological Process (BP) protein complex assembly 0.00000000000421 Informative Direct
Biological Process (BP) glycosyl compound catabolic process 0.0000000135 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 0.00000001758 Informative Direct
Biological Process (BP) organophosphate catabolic process 0.00000003092 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 0.00000004632 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0.00000007758 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 0.00000008605 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.0000006644 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.4178 Informative Inherited
Biological Process (BP) cell projection organization 0.3728 Informative Inherited
Biological Process (BP) generation of neurons 0.03712 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.02838 Informative Inherited
Biological Process (BP) response to lipid 0.2646 Informative Inherited
Biological Process (BP) innate immune response 0 Highly Informative Direct
Biological Process (BP) symbiosis, encompassing mutualism through parasitism 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) guanosine-containing compound metabolic process 0.0000000000004055 Highly Informative Direct
Biological Process (BP) cellular response to biotic stimulus 0.000000000007671 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 0.000000005487 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 0.00000000839 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 0.000000009601 Highly Informative Direct
Biological Process (BP) defense response to bacterium 0.0000007684 Highly Informative Direct
Biological Process (BP) axon development 0.0003916 Highly Informative Direct
Biological Process (BP) cell morphogenesis involved in neuron differentiation 0.0006759 Highly Informative Direct
Biological Process (BP) cell projection morphogenesis 0.002199 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0.000615 Least Informative Direct
Molecular Function (MF) binding 0.03236 Least Informative Inherited
Molecular Function (MF) anion binding 0.0000007887 Moderately Informative Direct
Molecular Function (MF) purine ribonucleoside binding 0.000000000202 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0.000000001146 Informative Direct
Molecular Function (MF) nucleotide binding 0.000000007357 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0.002279 Informative Inherited
Cellular Component (CC) cytoplasmic part 0 Least Informative Direct
Cellular Component (CC) membrane 0.05717 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) vesicle 0.00000000000002355 Moderately Informative Direct
Cellular Component (CC) extracellular region part 0.00000000001771 Moderately Informative Direct
Cellular Component (CC) intrinsic to membrane 0.000000112 Moderately Informative Direct
Cellular Component (CC) endoplasmic reticulum 0.000001938 Moderately Informative Direct
Cellular Component (CC) endomembrane system 0.002921 Moderately Informative Inherited
Cellular Component (CC) organelle membrane 0.05736 Moderately Informative Inherited
Cellular Component (CC) extracellular membrane-bounded organelle 0.00000000000001492 Informative Direct
Cellular Component (CC) endoplasmic reticulum membrane 0.00007493 Informative Direct
Cellular Component (CC) Golgi apparatus 0.0155 Informative Inherited
Cellular Component (CC) host cell part 0 Highly Informative Direct
Cellular Component (CC) organelle subcompartment 0.000001061 Highly Informative Direct

Document: GO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)immune system phenotype0.07653Least InformativeInherited
Mammalian Phenotype (MP)altered susceptibility to infection0.0007947Moderately InformativeDirect
Mammalian Phenotype (MP)increased susceptibility to infection0.0004307InformativeDirect

Document: MP 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 defense0.00000000000519Highly InformativeDirect
Cellular componentMembrane0.00000000000006301Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentCell projection0.00000008384Moderately InformativeDirect
DomainTransmembrane0.00003579Least InformativeDirect
DomainCoiled coil0.0000000000002841Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Post-translational modificationHydrolase0.00001327Least InformativeDirect
Post-translational modificationAntimicrobial0.0000000001788InformativeDirect
Post-translational modificationMethylation0.000001211Moderately 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) · Mouse Phenotype (MP) · 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) · Mouse Phenotype (MP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]