1ZZJ

Structure of the third KH domain of hnRNP K in complex with 15-mer ssDNA

External Resource: Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C [auth B]	d1zzjb2	Alpha and beta proteins (a+b)	Eukaryotic type KH-domain (KH-domain type I)	Eukaryotic type KH-domain (KH-domain type I)	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth B]	d1zzjb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth A]	d1zzja2	Alpha and beta proteins (a+b)	Eukaryotic type KH-domain (KH-domain type I)	Eukaryotic type KH-domain (KH-domain type I)	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth A]	d1zzja3	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth C]	d1zzjc2	Alpha and beta proteins (a+b)	Eukaryotic type KH-domain (KH-domain type I)	Eukaryotic type KH-domain (KH-domain type I)	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth C]	d1zzjc3	Artifacts	Tags	Tags	Tags	N-terminal Tags	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)
C [auth B]	SCOP2B Superfamily	Eukaryotic type KH-domain (KH-domain type I)	8036456	3001023	SCOP2B (2022-06-29)
B [auth A]	SCOP2B Superfamily	Eukaryotic type KH-domain (KH-domain type I)	8036456	3001023	SCOP2B (2022-06-29)
D [auth C]	SCOP2B Superfamily	Eukaryotic type KH-domain (KH-domain type I)	8036456	3001023	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)
C [auth B]	PF00013	e1zzjB1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: KH-domains	T: Eukaryotic type KH-domain (KH-domain type I)	F: PF00013	ECOD (1.6)
B [auth A]	PF00013	e1zzjA1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: KH-domains	T: Eukaryotic type KH-domain (KH-domain type I)	F: PF00013	ECOD (1.6)
D [auth C]	PF00013	e1zzjC1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: KH-domains	T: Eukaryotic type KH-domain (KH-domain type I)	F: PF00013	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth B]	3.30.1370.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
B [auth A]	3.30.1370.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
D [auth C]	3.30.1370.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth A], C [auth B], D [auth C]	PF00013	KH domain (KH_1)	KH domain	KH motifs bind RNA in vitro. Autoantibodies to Nova, a KH domain protein, cause paraneoplastic opsoclonus ataxia.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth D]	5'-D(TPTPCPCPCPCPTPCPCPCPCPAPTPTP*T)-3'	-	-	-
B [auth A], C [auth B], D [auth C]	Heterogeneous nuclear ribonucleoprotein K	protein binding binding protein domain specific binding RNA binding organic cyclic compound binding nucleic acid binding DNA binding mRNA binding cell adhesion molecule binding cadherin binding identical protein binding	regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription 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 organic cyclic compound metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process negative regulation of biosynthetic process cellular process regulation of mRNA splicing, via spliceosome mRNA processing negative regulation of mRNA splicing, via spliceosome RNA processing negative regulation of mRNA processing negative regulation of gene expression negative regulation of mRNA metabolic process regulation of mRNA processing RNA splicing regulation of RNA splicing mRNA metabolic process negative regulation of RNA splicing RNA splicing, via transesterification reactions mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile regulation of mRNA metabolic process regulation of low-density lipoprotein particle clearance multicellular organismal process plasma lipoprotein particle clearance regulation of lipoprotein particle clearance regulation of multicellular organismal process low-density lipoprotein particle clearance regulation of plasma lipoprotein particle levels negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death negative regulation of apoptotic process apoptotic process programmed cell death cellular response to stimulus response to stimulus signaling signal transduction cell communication regulation of localization import into cell positive regulation of cellular component organization regulation of cellular component organization transport positive regulation of biological process vesicle-mediated transport cellular component organization localization positive regulation of endocytosis cellular component organization or biogenesis positive regulation of receptor-mediated endocytosis positive regulation of cellular process regulation of endocytosis regulation of transport regulation of receptor-mediated endocytosis regulation of vesicle-mediated transport establishment of localization positive regulation of transport endocytosis receptor-mediated endocytosis transcription by RNA polymerase II regulation of transcription by RNA polymerase II positive regulation of molecular function regulation of molecular function positive regulation of low-density lipoprotein receptor activity regulation of cellular response to stress regulation of signal transduction regulation of intrinsic apoptotic signaling pathway in response to DNA damage regulation of intrinsic apoptotic signaling pathway regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator intracellular signal transduction intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator cellular response to stress regulation of intracellular signal transduction response to stress regulation of response to stress regulation of signal transduction by p53 class mediator intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway regulation of signaling signal transduction by p53 class mediator apoptotic signaling pathway regulation of response to stimulus DNA damage response regulation of cell communication intrinsic apoptotic signaling pathway by p53 class mediator regulation of intrinsic apoptotic signaling pathway by p53 class mediator regulation of apoptotic signaling pathway positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of macromolecule metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of cellular metabolic process positive regulation of biosynthetic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process	anchoring junction cell junction cellular anatomical entity focal adhesion cell-substrate junction intracellular anatomical structure cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular organelle organelle intracellular non-membrane-bounded organelle cytoplasm supramolecular complex non-membrane-bounded organelle anchoring junction cell junction cellular anatomical entity focal adhesion cell-substrate junction intracellular anatomical structure cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular organelle organelle intracellular non-membrane-bounded organelle cytoplasm supramolecular complex non-membrane-bounded organelle cytoplasmic stress granule membrane membrane-bounded organelle catalytic step 2 spliceosome protein-containing complex catalytic complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle spliceosomal complex ribonucleoprotein complex podosome cytoskeleton actin cytoskeleton extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen protein-DNA complex chromatin chromosome cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth A], C [auth B], D [auth C]	IPR004087	K Homology domain	Domain
B [auth A], C [auth B], D [auth C]	IPR012987	ROK, N-terminal	Domain
B [auth A], C [auth B], D [auth C]	IPR036612	K Homology domain, type 1 superfamily	Homologous Superfamily
B [auth A], C [auth B], D [auth C]	IPR004088	K Homology domain, type 1	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth A], C [auth B], D [auth C]	Pharos: P61978	neurodevelopmental disorder-craniofacial dysmorphism-cardiac defect-hip dysplasia syndrome due to a point mutation intellectual disability breast carcinoma breast cancer Mammary Neoplasms, Human osteosarcoma polydactyly myopathy ovarian cancer primary cutaneous T-cell non-Hodgkin lymphoma plasma cell myeloma psoriasis

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.