Annotations: 6YXK

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF07654	e6yxkA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
A	PF07686	e6yxkA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
B	PF07654	e6yxkB2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
B	PF07686	e6yxkB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B	Light Chain	IGKV4	Kappa	citrullinated vimentin (59-74)	SAbDab (2024-04-26)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C	PF04732	Intermediate filament head (DNA binding) region (Filament_head)	Intermediate filament head (DNA binding) region	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	ACPA 3F3 Fab fragment - heavy chain	-	-	-
B	ACPA 3F3 Fab fragment - light chain	-	-	-
C	Citrullinated Vimentin (59-74)	protein binding binding protein domain specific binding RNA binding double-stranded RNA binding organic cyclic compound binding nucleic acid 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 protein binding binding protein domain specific binding RNA binding double-stranded RNA binding organic cyclic compound binding nucleic acid 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 identical protein binding	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 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 cellular process sensory system development lens development in camera-type eye system development regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA catabolic process regulation of biological process cellular metabolic process negative regulation of metabolic process primary metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process nucleobase-containing compound catabolic process organic cyclic compound metabolic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process nucleic acid catabolic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process catabolic process cellular biosynthetic process RNA metabolic process macromolecule catabolic process regulation of mRNA catabolic process organic substance metabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process regulation of catabolic process gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound catabolic process regulation of mRNA stability regulation of cellular biosynthetic process negative regulation of biosynthetic process regulation of RNA stability regulation of mRNA metabolic process organic substance catabolic process positive regulation of biological process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process positive regulation of gene expression positive regulation of cellular biosynthetic process cellular response to stimulus response to organic substance biological process involved in interspecies interaction between organisms response to stimulus 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 cellular response to organic substance response to external biotic stimulus response to molecule of bacterial origin regulation of neuron projection development regulation of cellular component organization cell projection organization neuron projection development cellular component organization neurogenesis neuron differentiation cellular component organization or biogenesis 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 response to organonitrogen compound response to endogenous stimulus cellular response to muramyl dipeptide response to muramyl dipeptide response to nitrogen compound cellular response to endogenous stimulus cellular response to organonitrogen compound Bergmann glial cell differentiation response to type II interferon response to cytokine cellular response to type II interferon response to stress innate immune response cellular response to cytokine stimulus immune response defense response defense response to symbiont immune system process defense response to other organism 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	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle organelle lumen organelle nuclear periphery nuclear lumen nuclear matrix anchoring junction membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle organelle lumen organelle nuclear periphery 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 intermediate filament cytoskeleton cytoskeleton intracellular non-membrane-bounded organelle intermediate filament supramolecular fiber supramolecular polymer supramolecular complex non-membrane-bounded organelle 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
C	IPR018039	Intermediate filament protein, conserved site	Conserved Site
C	IPR039008	Intermediate filament, rod domain	Domain
C	IPR006821	Intermediate filament head, DNA-binding domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C	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 malignant mesothelioma 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 malignant mesothelioma prostate cancer Sjogren syndrome ulcerative colitis Duchenne muscular dystrophy neurodegenerative disease glioblastoma osteoarthritis susceptibility 1 invasive ductal breast carcinoma ovarian cancer astrocytic tumor pancreatic intraductal papillary-mucinous neoplasm breast cancer cancer malignant ependymoma pituitary cancer cystic fibrosis subependymal giant cell astrocytoma myopathy Emery-Dreifuss muscular dystrophy ischemia reperfusion injury pancreatic ductal adenocarcinoma atypical teratoid rhabdoid tumor pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia lung cancer malignant glioma primitive neuroectodermal tumor malignant pancreatic neoplasm medulloblastoma Down syndrome drug-induced liver injury essential tremor gastric carcinoma osteoarthritis osteosarcoma anterior horn disease juvenile dermatomyositis pancreatic intraductal papillary-mucinous carcinoma Becker muscular dystrophy limb-girdle muscular dystrophy peritoneal neoplasm breast fibroadenoma lung carcinoma pilocytic astrocytoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
C	CIR	Parent Component: ARG RESID: AA0214 PSI-MOD : L-citrulline MOD:00219

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 R01GM133198.