1GK6 | pdb_00001gk6

Human vimentin coil 2B fragment linked to GCN4 leucine zipper (Z2B)

External Resource: Annotation

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

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1gk6a_	Coiled coil proteins	Parallel coiled-coil	Intermediate filament protein, coiled coil region	Intermediate filament protein, coiled coil region	Vimentin coil	BAKER'S YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ], HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1gk6b_	Coiled coil proteins	Parallel coiled-coil	Intermediate filament protein, coiled coil region	Intermediate filament protein, coiled coil region	Vimentin coil	BAKER'S YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ], HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Leucine zipper-like	8037025	3001609	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Leucine zipper-like	8037025	3001609	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)
A	Penicil_amidase	e1gk6A01	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Penicil_amidase	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.5.170	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
B	1.20.5.170	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	VIMENTIN	TFIID-class transcription factor complex binding transcription factor binding basal transcription machinery binding protein-containing complex binding protein binding binding basal RNA polymerase II transcription machinery binding general transcription initiation factor binding RNA polymerase II general transcription initiation factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding DNA binding sequence-specific DNA binding double-stranded DNA binding TFIID-class transcription factor complex binding transcription factor binding basal transcription machinery binding protein-containing complex binding protein binding binding basal RNA polymerase II transcription machinery binding general transcription initiation factor binding RNA polymerase II general transcription initiation factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding DNA binding sequence-specific DNA binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding chromatin binding transcription regulator activity DNA-binding transcription factor activity mediator complex binding DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity identical protein binding protein domain specific binding RNA binding double-stranded RNA binding scaffold protein binding keratin filament binding intermediate filament binding structural molecule activity structural constituent of eye lens structural constituent of cytoskeleton molecular adaptor activity	response to nutrient levels response to stimulus response to stress response to amino acid starvation response to starvation cellular response to stimulus cellular response to nutrient levels cellular process positive regulation of cellular response to amino acid starvation regulation of response to nutrient levels regulation of cellular process positive regulation of biological process regulation of cellular response to stress cellular response to amino acid starvation response to nutrient levels response to stimulus response to stress response to amino acid starvation response to starvation cellular response to stimulus cellular response to nutrient levels cellular process positive regulation of cellular response to amino acid starvation regulation of response to nutrient levels regulation of cellular process positive regulation of biological process regulation of cellular response to stress cellular response to amino acid starvation positive regulation of response to stimulus cellular response to stress regulation of response to stress positive regulation of cellular process regulation of biological process biological regulation cellular response to starvation regulation of response to stimulus regulation of cellular response to amino acid starvation positive regulation of response to nutrient levels transcription preinitiation complex assembly positive regulation of macromolecule biosynthetic process regulation of primary metabolic process cellular component biogenesis nucleobase-containing compound metabolic process DNA-templated transcription positive regulation of metabolic process regulation of DNA-templated transcription initiation regulation of RNA metabolic process cellular component assembly transcription by RNA polymerase II positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process transcription initiation at RNA polymerase II promoter regulation of transcription by RNA polymerase II primary metabolic process positive regulation of transcription by RNA polymerase II positive regulation of DNA-templated transcription initiation positive regulation of RNA metabolic process regulation of gene expression biosynthetic process RNA polymerase II preinitiation complex assembly metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process regulation of RNA polymerase II transcription preinitiation complex assembly positive regulation of cellular component organization regulation of cellular component organization positive regulation of DNA-templated transcription RNA metabolic process cellular component organization protein-DNA complex organization RNA biosynthetic process nucleic acid biosynthetic process positive regulation of protein-containing complex assembly regulation of protein-containing complex assembly positive regulation of biosynthetic process protein-containing complex assembly cellular component organization or biogenesis regulation of RNA biosynthetic process regulation of biosynthetic process positive regulation of RNA polymerase II transcription preinitiation complex assembly protein-containing complex organization positive regulation of cellular component biogenesis positive regulation of transcription initiation by RNA polymerase II protein-DNA complex assembly regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression regulation of cellular component biogenesis macromolecule biosynthetic process DNA-templated transcription initiation nucleic acid metabolic process positive regulation of RNA biosynthetic process regulation of transcription initiation by RNA polymerase II localization protein localization to organelle macromolecule localization protein localization to nuclear periphery protein localization to nucleus intracellular protein localization amino acid biosynthetic process amino acid metabolic process signaling signal transduction intracellular signal transduction cell communication negative regulation of biological process negative regulation of RNA biosynthetic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process regulation of ribosomal protein gene transcription by RNA polymerase II negative regulation of ribosomal protein gene transcription by RNA polymerase II developmental process multicellular organismal process epithelium development cellular developmental process sensory organ development eye development animal organ development cell development visual system development tissue development lens fiber cell development epithelial cell differentiation multicellular organism development epithelial cell development cell differentiation anatomical structure development camera-type eye development lens fiber cell differentiation sensory system development lens development in camera-type eye system development catabolic process macromolecule catabolic process post-transcriptional regulation of gene expression regulation of mRNA catabolic process regulation of biological quality RNA catabolic process mRNA catabolic process regulation of catabolic process mRNA metabolic process nucleobase-containing compound catabolic process regulation of mRNA stability negative regulation of gene expression regulation of RNA stability nucleic acid catabolic process regulation of mRNA metabolic process positive regulation of gene expression biological process involved in interspecies interaction between organisms response to lipid response to other organism cellular response to lipopolysaccharide response to oxygen-containing compound response to external stimulus cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound response to biotic stimulus cellular response to biotic stimulus cellular response to chemical stimulus response to chemical response to bacterium cellular response to lipid response to external biotic stimulus response to molecule of bacterial origin regulation of neuron projection development cell projection organization neuron projection development neurogenesis neuron differentiation negative regulation of cell projection organization plasma membrane bounded cell projection organization negative regulation of cellular component organization regulation of cell projection organization nervous system development negative regulation of neuron projection development generation of neurons neuron development regulation of plasma membrane bounded cell projection organization astrocyte differentiation glial cell development astrocyte development central nervous system development gliogenesis glial cell differentiation cellular response to nitrogen compound cellular response to muramyl dipeptide response to muramyl dipeptide response to nitrogen compound Bergmann glial cell differentiation immune response defense response response to type II interferon response to cytokine defense response to symbiont cellular response to type II interferon response to peptide immune system process defense response to other organism innate immune response cellular response to cytokine stimulus collagen biosynthetic process regulation of collagen biosynthetic process regulation of collagen metabolic process positive regulation of collagen metabolic process positive regulation of collagen biosynthetic process collagen metabolic process intermediate filament organization intermediate filament-based process organelle organization supramolecular fiber organization cytoskeleton organization intermediate filament cytoskeleton organization	RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle membrane-enclosed lumen intracellular organelle lumen organelle lumen RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle membrane-enclosed lumen intracellular organelle lumen organelle lumen nuclear lumen nuclear matrix anchoring junction cell junction focal adhesion cell-substrate junction extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle polymeric cytoskeletal fiber intracellular membraneless organelle intermediate filament cytoskeleton cytoskeleton membraneless organelle intermediate filament supramolecular fiber supramolecular polymer supramolecular complex cytoplasm cytosol cell leading edge intracellular vesicle phagocytic vesicle cytoplasmic vesicle endocytic vesicle cell periphery plasma membrane membrane peroxisome microbody microtubule organizing center microtubule cytoskeleton axon cell projection neuron projection plasma membrane bounded cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR004827	Basic-leucine zipper domain	Domain
A, B	IPR050946	AP-1 Transcription Factor bZIP	Family
A, B	IPR046347	Basic-leucine zipper domain superfamily	Homologous Superfamily
A, B	IPR018039	Intermediate filament protein, conserved site	Conserved Site
A, B	IPR050405	Intermediate filament structural protein	Family
A, B	IPR039008	Intermediate filament, rod domain	Domain
A, B	IPR006821	Intermediate filament head, DNA-binding domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P08670	cataract 30 synovial sarcoma cataract pulverulent cataract cirrhosis of liver motor neuron disease Neoplasm Metastasis acute coronary syndrome lateral sclerosis breast carcinoma carcinosarcoma retinal disease nephrosis amyotrophic lateral sclerosis type 1 prostate cancer cataract 30 synovial sarcoma cataract pulverulent cataract cirrhosis of liver motor neuron disease Neoplasm Metastasis acute coronary syndrome lateral sclerosis breast carcinoma carcinosarcoma retinal disease nephrosis amyotrophic lateral sclerosis type 1 prostate cancer malignant mesothelioma Sjogren syndrome ulcerative colitis Duchenne muscular dystrophy neurodegenerative disease glioblastoma osteoarthritis susceptibility 1 astrocytic tumor invasive ductal breast carcinoma ovarian cancer breast cancer pancreatic intraductal papillary-mucinous neoplasm cancer pituitary cancer malignant ependymoma cystic fibrosis subependymal giant cell astrocytoma myopathy Emery-Dreifuss muscular dystrophy atypical teratoid rhabdoid tumor ischemia reperfusion injury pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia lung cancer primitive neuroectodermal tumor malignant glioma malignant pancreatic neoplasm medulloblastoma Down syndrome drug-induced liver injury essential tremor gastric carcinoma osteoarthritis anterior horn disease osteosarcoma Becker muscular dystrophy juvenile dermatomyositis pancreatic intraductal papillary-mucinous carcinoma breast fibroadenoma limb-girdle muscular dystrophy peritoneal neoplasm pilocytic astrocytoma lung carcinoma

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.