3EQ5 | pdb_00003eq5

Crystal structure of fragment 137 to 238 of the human Ski-like protein

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)
L	d3eq5l_	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
K	d3eq5k_	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
J	d3eq5j_	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
I	d3eq5i_	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
H	d3eq5h_	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G	d3eq5g_	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F	d3eq5f_	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d3eq5e_	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d3eq5d_	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d3eq5c_	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3eq5b_	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3eq5a1	All alpha proteins	Putative DNA-binding domain	Putative DNA-binding domain	Dachshund-homology domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3eq5a2	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)
L	SCOP2B Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2B (2022-06-29)
A	SCOP2 Family	Dachshund-homology domain	8077136	4001901	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Putative DNA-binding domain	8077137	3000158	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
L	Ski_Sno	e3eq5L1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)
K	Ski_Sno	e3eq5K1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)
J	Ski_Sno	e3eq5J1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)
I	Ski_Sno	e3eq5I1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)
H	Ski_Sno	e3eq5H1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)
G	Ski_Sno	e3eq5G1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)
F	Ski_Sno	e3eq5F1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)
E	Ski_Sno	e3eq5E1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)
D	Ski_Sno	e3eq5D1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)
C	Ski_Sno	e3eq5C1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)
B	Ski_Sno	e3eq5B1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)
A	Ski_Sno	e3eq5A1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: Ski_Sno	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)
K	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)
J	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)
I	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)
H	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)
G	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)
F	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)
E	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)
D	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)
C	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)
B	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)
A	3.10.260.20	Alpha Beta	Roll	Mlu1-box Binding Protein	DNA-binding Domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF02437	SKI/SNO/DAC Dachshund homology domain (Ski_Sno_DHD)	SKI/SNO/DAC Dachshund homology domain	This entry represents a domain known as the Dachshund homology domain (DHD) that is about 100 amino acids long and found in members of Ski/Sno family. This domain contains a conserved CLPQ motif. The c-ski proto-oncogene has been shown to influence p ...	This entry represents a domain known as the Dachshund homology domain (DHD) that is about 100 amino acids long and found in members of Ski/Sno family. This domain contains a conserved CLPQ motif. The c-ski proto-oncogene has been shown to influence proliferation, morphological transformation and myogenic differentiation [1]. Sno, a Ski proto-oncogene homologue, is expressed in two isoforms and plays a role in the response to proliferation stimuli. Dachshund also contains this domain. It is involved in various aspects of development [2,3]. The SKI-DHD adopts a mixed alpha/beta structure which includes features found in the forkhead/winged-helix family of DNA binding proteins, although SKI-DHD is not a DNA binding domain [5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	Ski-like protein	protein binding binding protein domain specific binding DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription repressor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription repressor activity DNA-binding transcription factor activity 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 protein binding binding protein domain specific binding DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription repressor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription repressor activity DNA-binding transcription factor activity 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 SMAD binding protein-containing complex binding identical protein binding	developmental process multicellular organismal process chordate embryonic development embryo development in utero embryonic development multicellular organism development anatomical structure morphogenesis blastocyst formation embryo development ending in birth or egg hatching anatomical structure development anatomical structure formation involved in morphogenesis blastocyst development epithelium development cellular developmental process developmental process multicellular organismal process chordate embryonic development embryo development in utero embryonic development multicellular organism development anatomical structure morphogenesis blastocyst formation embryo development ending in birth or egg hatching anatomical structure development anatomical structure formation involved in morphogenesis blastocyst development epithelium development cellular developmental process sensory organ development eye development animal organ development visual system development tissue development epithelial cell differentiation cell differentiation camera-type eye development lens fiber cell differentiation cellular process sensory system development lens development in camera-type eye system development cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of cellular response to stress regulation of signal transduction regulation of intrinsic apoptotic signaling pathway in response to DNA damage regulation of programmed cell death regulation of intrinsic apoptotic signaling pathway intracellular signal transduction cell communication positive regulation of apoptotic signaling pathway positive regulation of response to stimulus cellular response to stress regulation of intracellular signal transduction response to stress regulation of response to stress intrinsic apoptotic signaling pathway in response to DNA damage signal transduction intrinsic apoptotic signaling pathway positive regulation of cellular process regulation of biological process regulation of signaling positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage positive regulation of programmed cell death regulation of apoptotic process biological regulation positive regulation of intracellular signal transduction cell death positive regulation of apoptotic process apoptotic signaling pathway DNA damage response regulation of response to stimulus regulation of cell communication positive regulation of intrinsic apoptotic signaling pathway apoptotic process programmed cell death regulation of apoptotic signaling pathway positive regulation of signaling spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation response to chemical response to antibiotic positive regulation of nervous system development axonogenesis cell projection organization regulation of cell differentiation regulation of neurogenesis neuron projection development regulation of cell development positive regulation of developmental process cell projection morphogenesis neuron differentiation neuron projection morphogenesis positive regulation of cell projection organization regulation of cell projection organization positive regulation of cell development nervous system development generation of neurons positive regulation of multicellular organismal process regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization regulation of developmental process plasma membrane bounded cell projection morphogenesis cell development cell morphogenesis cellular component organization regulation of nervous system development neurogenesis positive regulation of cell differentiation regulation of axonogenesis positive regulation of neurogenesis regulation of multicellular organismal process cellular component organization or biogenesis positive regulation of axonogenesis regulation of anatomical structure morphogenesis regulation of multicellular organismal development plasma membrane bounded cell projection organization axon development cell morphogenesis involved in neuron differentiation neuron development regulation of plasma membrane bounded cell projection organization multicellular organismal-level homeostasis leukocyte homeostasis homeostatic process immune system process homeostasis of number of cells lymphocyte homeostasis muscle structure development skeletal muscle organ development skeletal muscle tissue development muscle tissue development muscle organ development striated muscle tissue development cell surface receptor protein serine/threonine kinase signaling pathway cellular response to growth factor stimulus negative regulation of signaling regulation of transmembrane receptor protein serine/threonine kinase signaling pathway negative regulation of biological process negative regulation of cellular response to growth factor stimulus negative regulation of BMP signaling pathway negative regulation of cell communication cellular response to endogenous stimulus negative regulation of cellular process BMP signaling pathway enzyme-linked receptor protein signaling pathway cellular response to BMP stimulus cell surface receptor signaling pathway regulation of BMP signaling pathway negative regulation of response to stimulus response to endogenous stimulus regulation of cellular response to growth factor stimulus negative regulation of signal transduction response to BMP transforming growth factor beta receptor superfamily signaling pathway response to growth factor negative regulation of transmembrane receptor protein serine/threonine kinase signaling pathway response to peptide response to cytokine extrinsic apoptotic signaling pathway via death domain receptors extrinsic apoptotic signaling pathway positive regulation of extrinsic apoptotic signaling pathway via death domain receptors positive regulation of extrinsic apoptotic signaling pathway regulation of extrinsic apoptotic signaling pathway regulation of extrinsic apoptotic signaling pathway via death domain receptors negative regulation of transforming growth factor beta receptor signaling pathway cellular response to transforming growth factor beta stimulus regulation of transforming growth factor beta receptor signaling pathway regulation of cellular response to transforming growth factor beta stimulus response to transforming growth factor beta transforming growth factor beta receptor signaling pathway negative regulation of developmental process negative regulation of cell differentiation cell cycle regulation of cell cycle RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule 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	protein-containing complex transcription regulator complex cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle protein-containing complex transcription regulator complex cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen acrosomal vesicle intracellular vesicle endomembrane system cytoplasmic vesicle secretory granule secretory vesicle vesicle intracellular membraneless organelle nuclear body membraneless organelle PML body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR009061	Putative DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR010919	SAND-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR037000	Ski-like, DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR023216	Transcription regulator SKI/SnoN	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR003380	SKI/SNO/DAC domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR014890	c-SKI SMAD4-binding domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	Pharos: P12757	Arsenic Poisoning pulmonary fibrosis pancreatic ductal adenocarcinoma Pick disease prostate carcinoma Sjogren syndrome adrenoleukodystrophy tuberculosis breast cancer gastric cancer lung carcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pituitary cancer skin disease ulcerative colitis Arsenic Poisoning pulmonary fibrosis pancreatic ductal adenocarcinoma Pick disease prostate carcinoma Sjogren syndrome adrenoleukodystrophy tuberculosis breast cancer gastric cancer lung carcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pituitary cancer skin disease ulcerative colitis gastric carcinoma idiopathic interstitial pneumonia malignant colon neoplasm osteosarcoma progressive supranuclear palsy sinusitis subependymal giant cell astrocytoma B-cell chronic lymphocytic leukemia diabetes mellitus glioblastoma lung cancer malignant pancreatic neoplasm

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.