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 (254) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,366 1,407 1
Proteins 1,335 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 process0.010261.491e-10Least InformativeInherited
Biological Process (BP)response to stimulus0.0046886.641e-10Least InformativeInherited
Biological Process (BP)immune system process1.337e-050Moderately InformativeDirect
Biological Process (BP)cellular response to chemical stimulus3.08e-050Moderately InformativeDirect
Biological Process (BP)response to organic substance4.787e-050Moderately InformativeDirect
Biological Process (BP)response to cytokine stimulus7.188e-080InformativeDirect
Biological Process (BP)immune response1.477e-060InformativeDirect
Biological Process (BP)defense response8.317e-060InformativeDirect
Biological Process (BP)innate immune response3.587e-070Highly 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 6.641e-10 Least Informative Direct
Biological Process (BP) single-organism cellular process 1.491e-10 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.03859 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) nitrogen compound metabolic process 0.03504 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.007495 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.01607 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.008693 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.02492 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 1.114e-13 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 2.285e-08 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 3.587e-08 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 2.982e-07 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 4.618e-07 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 2.599e-06 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 1.451e-05 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 5.308e-05 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 0.0002251 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 0.9357 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.0783 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.3778 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.4148 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.2072 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) protein oligomerization 0 Informative Direct
Biological Process (BP) biological adhesion 0 Informative Direct
Biological Process (BP) response to bacterium 0 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 4.288e-12 Informative Direct
Biological Process (BP) organophosphate catabolic process 9.357e-12 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 1.65e-11 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 3.119e-11 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 3.485e-11 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 5.161e-10 Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 2.606e-09 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.4228 Informative Inherited
Biological Process (BP) cell projection organization 0.3724 Informative Inherited
Biological Process (BP) generation of neurons 0.03982 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.0281 Informative Inherited
Biological Process (BP) response to lipid 0.2665 Informative Inherited
Biological Process (BP) innate immune response 0 Highly Informative Direct
Biological Process (BP) protein homooligomerization 0 Highly Informative Direct
Biological Process (BP) guanosine-containing compound metabolic process 0 Highly Informative Direct
Biological Process (BP) interaction with host 0 Highly Informative Direct
Biological Process (BP) response to lipopolysaccharide 0 Highly Informative Direct
Biological Process (BP) ribonucleoside triphosphate catabolic process 8.566e-13 Highly Informative Direct
Biological Process (BP) purine nucleoside triphosphate catabolic process 9.724e-13 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 1.516e-12 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 1.828e-12 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate metabolic process 1.979e-12 Highly Informative Direct
Biological Process (BP) cellular response to biotic stimulus 1.048e-11 Highly Informative Direct
Biological Process (BP) defense response to bacterium 9.948e-07 Highly Informative Direct
Biological Process (BP) neuron projection development 0.002143 Highly Informative Inherited
Biological Process (BP) cell part morphogenesis 0.002686 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.006232 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0.0007234 Least Informative Direct
Molecular Function (MF) binding 0.04065 Least Informative Inherited
Molecular Function (MF) anion binding 1.025e-06 Moderately Informative Direct
Molecular Function (MF) purine ribonucleoside binding 2.175e-10 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 1.253e-09 Informative Direct
Molecular Function (MF) nucleotide binding 8.957e-09 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0.001966 Informative Inherited
Cellular Component (CC) cytoplasmic part 1.589e-15 Least Informative Direct
Cellular Component (CC) membrane 0.1062 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 6.153e-14 Moderately Informative Direct
Cellular Component (CC) extracellular region part 7.396e-11 Moderately Informative Direct
Cellular Component (CC) intrinsic to membrane 1.163e-07 Moderately Informative Direct
Cellular Component (CC) endoplasmic reticulum 2.031e-06 Moderately Informative Direct
Cellular Component (CC) endomembrane system 0.003872 Moderately Informative Inherited
Cellular Component (CC) organelle membrane 0.05465 Moderately Informative Inherited
Cellular Component (CC) extracellular membrane-bounded organelle 7.77e-14 Informative Direct
Cellular Component (CC) endoplasmic reticulum membrane 7.872e-05 Informative Direct
Cellular Component (CC) Golgi apparatus 0.01477 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 defense5.811e-12Highly InformativeDirect
Cellular componentMembrane6.73e-14Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentCell projection8.638e-08Moderately InformativeDirect
DomainTransmembrane3.614e-05Least InformativeDirect
DomainCoiled coil2.878e-13Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Post-translational modificationHydrolase1.383e-05Least InformativeDirect
Post-translational modificationAntimicrobial1.763e-10InformativeDirect
Post-translational modificationMethylation1.171e-06Moderately 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 ]