6K2D | pdb_00006k2d

The crystal structure of GBP1 with LRR domain of IpaH9.8

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Ras-like P-loop GTPases	8019668	3002022	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	GBP helical domain-like	8019671	3001145	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	GBP helical domain-like	8019672	3001145	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	LRR_8_3	e6k2dB1	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Leucine-rich repeats (From Topology)	T: Leucine-rich repeats	F: LRR_8_3	ECOD (1.6)
A	GBP_C	e6k2dA2	A: alpha bundles	X: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain (From Topology)	H: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain (From Topology)	T: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain	F: GBP_C	ECOD (1.6)
A	GBP	e6k2dA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: GBP	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (utative)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF12468	Type III secretion system leucine rich repeat protein (LRR_TTSS)	Type III secretion system leucine rich repeat protein	-	Repeat
A	PF02263	Guanylate-binding protein, N-terminal domain (GBP)	Guanylate-binding protein, N-terminal domain	Transcription of the anti-viral guanylate-binding protein (GBP) is induced by interferon-gamma during macrophage induction. This family contains GBP1 and GPB2, both GTPases capable of binding GTP, GDP and GMP.	Domain
A	PF02841	Guanylate-binding protein, C-terminal domain (GBP_C)	Guanylate-binding protein, C-terminal domain	Transcription of the anti-viral guanylate-binding protein (GBP) is induced by interferon-gamma during macrophage induction. This family contains GBP1 and GPB2, both GTPases capable of binding GTP, GDP and GMP.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	E3 ubiquitin-protein ligase ipaH9.8	aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity transferase activity catalytic activity ubiquitin-protein transferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity identical protein binding protein binding binding	catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process metabolic process cellular process macromolecule metabolic process protein metabolic process symbiont-mediated perturbation of host defense response catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process metabolic process cellular process macromolecule metabolic process protein metabolic process symbiont-mediated perturbation of host defense response biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host immune response symbiont-mediated suppression of host inflammatory response symbiont-mediated perturbation of host innate immune response symbiont-mediated perturbation of host inflammatory response modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction protein polyubiquitination protein K27-linked ubiquitination protein ubiquitination macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal response to stimulus response to other organism symbiont-mediated perturbation of host defenses symbiont-mediated response to host defenses response to external stimulus response to biotic stimulus symbiont-mediated suppression of host defenses response to host response to external biotic stimulus protein K48-linked ubiquitination symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host NF-kappaB cascade symbiont-mediated perturbation of host cellular process symbiont-mediated perturbation of host signal transduction pathway symbiont-mediated suppression of host NF-kappaB cascade protein autoubiquitination symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response proteasomal protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process	cellular anatomical structure extracellular region host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region host cell nucleus other organism part host intracellular organelle host cell cytoplasm host cell cytosol host cell cytoplasm part
A	Guanylate-binding protein 1	cytoskeletal protein binding spectrin binding protein-containing complex binding protein binding binding pyrophosphatase activity nucleoside diphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity GDP phosphatase activity Hsp90 protein binding heat shock protein binding cytoskeletal protein binding spectrin binding protein-containing complex binding protein binding binding pyrophosphatase activity nucleoside diphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity GDP phosphatase activity Hsp90 protein binding heat shock protein binding lipid binding lipopolysaccharide binding carbohydrate derivative binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding ribonucleotide binding small molecule binding cytokine binding GDP binding identical protein binding protein homodimerization activity protein dimerization activity actin binding GTPase activity G protein activity ribonucleoside triphosphate phosphatase activity molecular function regulator activity enzyme binding	localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization multicellular organismal process regulation of cellular process negative regulation of biological process negative regulation of interleukin-2 production regulation of cytokine production cytokine production negative regulation of cellular process regulation of multicellular organismal process negative regulation of macromolecule metabolic process localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization multicellular organismal process regulation of cellular process negative regulation of biological process negative regulation of interleukin-2 production regulation of cytokine production cytokine production negative regulation of cellular process regulation of multicellular organismal process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of interleukin-2 production regulation of biological process negative regulation of metabolic process biological regulation interleukin-2 production negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process negative regulation of multicellular organismal process regulation of metabolic process regulation of localization cellular localization regulation of protein localization negative regulation of protein localization to plasma membrane regulation of protein localization to membrane negative regulation of protein localization protein localization to cell periphery protein localization to plasma membrane regulation of protein localization to cell periphery localization within membrane protein localization to membrane negative regulation of protein localization to membrane regulation of cellular localization negative regulation of protein localization to cell periphery regulation of protein localization to plasma membrane biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus regulation of cell-substrate adhesion regulation of cell adhesion regulation of substrate adhesion-dependent cell spreading cell-substrate adhesion negative regulation of cell adhesion cell adhesion negative regulation of substrate adhesion-dependent cell spreading substrate adhesion-dependent cell spreading negative regulation of cell-substrate adhesion cellular response to stimulus signaling negative regulation of signaling negative regulation of intracellular signal transduction regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication regulation of intracellular signal transduction intracellular signaling cassette signal transduction regulation of signaling negative regulation of response to stimulus regulation of MAPK cascade negative regulation of signal transduction negative regulation of ERK1 and ERK2 cascade regulation of response to stimulus MAPK cascade regulation of cell communication ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade negative regulation of MAPK cascade defense response to bacterium response to bacterium response to peptide cellular response to tumor necrosis factor response to chemical response to cytokine cellular response to cytokine stimulus response to tumor necrosis factor defense response to protozoan response to protozoan response to type II interferon cellular response to type II interferon immune response-regulating cell surface receptor signaling pathway positive regulation of biological process regulation of antigen receptor-mediated signaling pathway negative regulation of antigen receptor-mediated signaling pathway positive regulation of response to stimulus immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process positive regulation of immune system process cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway regulation of T cell receptor signaling pathway T cell receptor signaling pathway negative regulation of T cell receptor signaling pathway negative regulation of immune system process regulation of immune response antigen receptor-mediated signaling pathway activation of immune response regulation of defense response regulation of response to external stimulus pyroptotic inflammatory response regulation of inflammatory response positive regulation of response to external stimulus positive regulation of inflammatory response regulation of response to stress positive regulation of defense response positive regulation of pyroptotic inflammatory response inflammatory response calcium-mediated signaling regulation of calcium-mediated signaling cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis non-canonical inflammasome complex assembly cytolysis in another organism disruption of cell in another organism disruption of anatomical structure in another organism cytolysis killing of cells of another organism cell killing defense response to virus response to virus cellular response to interleukin-1 response to interleukin-1	intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm cytosol cell periphery plasma membrane membrane other organism part intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm cytosol cell periphery plasma membrane membrane other organism part symbiont cell surface membrane-bounded organelle vesicle membrane vesicle organelle membrane intracellular vesicle intracellular membrane-bounded organelle cytoplasmic vesicle membrane cytoplasmic vesicle Golgi apparatus endomembrane system extracellular region Golgi membrane bounding membrane of organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR051071	Leucine-rich repeat-containing bacterial E3 ubiquitin ligases	Family
B	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
B	IPR032674	LRR-containing bacterial E3 ligase, N-terminal	Domain
B	IPR029487	Novel E3 ligase domain	Domain
A	IPR036543	Guanylate-binding protein, C-terminal domain superfamily	Homologous Superfamily
A	IPR015894	Guanylate-binding protein, N-terminal	Domain
A	IPR003191	Guanylate-binding protein/Atlastin, C-terminal	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR030386	GB1/RHD3-type guanine nucleotide-binding (G) domain	Domain
A	IPR037684	Guanylate-binding protein, C-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P32455	influenza malignant pancreatic neoplasm oligodendroglioma pancreatic ductal adenocarcinoma pilocytic astrocytoma sarcoidosis adenoma tuberculosis Crohn disease dermatomyositis hepatocellular carcinoma interstitial cystitis limb-girdle muscular dystrophy malignant glioma multiple sclerosis influenza malignant pancreatic neoplasm oligodendroglioma pancreatic ductal adenocarcinoma pilocytic astrocytoma sarcoidosis adenoma tuberculosis Crohn disease dermatomyositis hepatocellular carcinoma interstitial cystitis limb-girdle muscular dystrophy malignant glioma multiple sclerosis osteosarcoma pancreatic intraductal papillary-mucinous neoplasm pituitary cancer Sjogren syndrome astrocytic tumor ulcerative colitis cutaneous lupus erythematosus esophageal adenocarcinoma hydrolethalus syndrome invasive ductal breast carcinoma lung cancer malignant mesothelioma nasopharyngeal carcinoma ovarian cancer Pick disease psoriasis subependymal giant cell astrocytoma atopic eczema cystic fibrosis glioblastoma juvenile dermatomyositis malignant ependymoma

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.