7D8T | pdb_00007d8t

MITF bHLHLZ complex with M-box DNA

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)
D [auth B]	SCOP2B Superfamily	Nucleic acid-binding proteins	8039348	3000135	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Nucleic acid-binding proteins	8039348	3000135	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)
D [auth B]	Ion_trans, Ion_trans_2	e7d8tB1	A: a/b three-layered sandwiches	X: CNF1/YfiH-like putative cysteine hydrolases	H: CNF1/YfiH-like putative cysteine hydrolases	T: CNF1/YfiH-like putative cysteine hydrolases	F: Ion_trans, Ion_trans_2	ECOD (v294.1)
C [auth A]	Ion_trans, Ion_trans_2	e7d8tA1	A: a/b three-layered sandwiches	X: CNF1/YfiH-like putative cysteine hydrolases	H: CNF1/YfiH-like putative cysteine hydrolases	T: CNF1/YfiH-like putative cysteine hydrolases	F: Ion_trans, Ion_trans_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth B]	4.10.280.10	Few Secondary Structures	Irregular	MYOD Basic-Helix-Loop-Helix Domain, subunit B	Helix-loop-helix DNA-binding domain	CATH (utative)
D [auth B]	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (utative)
C [auth A]	4.10.280.10	Few Secondary Structures	Irregular	MYOD Basic-Helix-Loop-Helix Domain, subunit B	Helix-loop-helix DNA-binding domain	CATH (utative)
C [auth A]	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth A], D [auth B]	PF00010	Helix-loop-helix DNA-binding domain (HLH)	Helix-loop-helix DNA-binding domain		Domain
C [auth A], D [auth B]	PF01588	Putative tRNA binding domain (tRNA_bind)	Putative tRNA binding domain	This domain is found in prokaryotic methionyl-tRNA synthetases, prokaryotic phenylalanyl tRNA synthetases the yeast GU4 nucleic-binding protein (G4p1 or p42, ARC1) [2], human tyrosyl-tRNA synthetase [1], and endothelial-monocyte activating polypeptid ...	This domain is found in prokaryotic methionyl-tRNA synthetases, prokaryotic phenylalanyl tRNA synthetases the yeast GU4 nucleic-binding protein (G4p1 or p42, ARC1) [2], human tyrosyl-tRNA synthetase [1], and endothelial-monocyte activating polypeptide II. G4p1 binds specifically to tRNA form a complex with methionyl-tRNA synthetases [2]. In human tyrosyl-tRNA synthetase this domain may direct tRNA to the active site of the enzyme [2]. This domain may perform a common function in tRNA aminoacylation [1]. In ARC1, this domain has been shown to have a catalytic activity [3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth A], D [auth B]	Microphthalmia-associated transcription factor,Methionyl-tRNA synthetase beta subunit	ligase activity, forming carbon-oxygen bonds aminoacyl-tRNA ligase activity methionine-tRNA ligase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid catalytic activity, acting on a tRNA catalytic activity ligase activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ligase activity, forming carbon-oxygen bonds aminoacyl-tRNA ligase activity methionine-tRNA ligase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid catalytic activity, acting on a tRNA catalytic activity ligase activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding RNA binding tRNA binding nucleic acid 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 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 E-box binding protein binding protein dimerization activity DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity	amino acid activation tRNA aminoacylation methionyl-tRNA aminoacylation RNA metabolic process primary metabolic process amino acid metabolic process translation gene expression tRNA aminoacylation for protein translation protein biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process biosynthetic process amino acid activation tRNA aminoacylation methionyl-tRNA aminoacylation RNA metabolic process primary metabolic process amino acid metabolic process translation gene expression tRNA aminoacylation for protein translation protein biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process biosynthetic process metabolic process cellular process macromolecule metabolic process protein metabolic process multicellular organismal process tissue remodeling bone remodeling cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis developmental process sensory organ development eye development animal organ development visual system development multicellular organism development camera-type eye development anatomical structure development sensory system development system development regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death regulation of biosynthetic process positive regulation of biological process regulation of macromolecule metabolic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of metabolic process positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process positive regulation of macromolecule metabolic process regulation of metabolic process positive regulation of cellular process pigment cell differentiation pigmentation cellular developmental process cell differentiation developmental pigmentation melanocyte differentiation melanocyte apoptotic process regulation of primary metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process nucleobase-containing compound biosynthetic process DNA-templated transcription regulation of DNA-templated transcription myeloid leukocyte differentiation regulation of leukocyte differentiation regulation of developmental process cell development regulation of cell differentiation regulation of cell development regulation of osteoclast differentiation osteoclast differentiation regulation of immune system process regulation of multicellular organismal process regulation of multicellular organismal development hemopoiesis regulation of myeloid cell differentiation regulation of myeloid leukocyte differentiation myeloid cell differentiation immune system process regulation of hemopoiesis leukocyte differentiation negative regulation of locomotion regulation of cell motility regulation of locomotion regulation of cell migration negative regulation of cell motility cell migration cell motility negative regulation of cell migration locomotion positive regulation of DNA-templated transcription regulation of DNA-templated transcription initiation DNA-templated transcription initiation positive regulation of DNA-templated transcription initiation positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process cell fate commitment cell population proliferation regulation of cell population proliferation cellular response to stimulus cell surface receptor signaling pathway response to stimulus signaling cell communication signal transduction Wnt signaling pathway transcription by RNA polymerase II regulation of transcription by RNA polymerase II negative regulation of RNA biosynthetic 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 positive regulation of transcription by RNA polymerase II	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome protein-containing complex vacuolar membrane membrane lytic vacuole vacuole lytic vacuole membrane bounding membrane of organelle lysosomal membrane organelle membrane lysosome
B [auth D]	DNA (5'-D(TPGPTPAPAPCPAPTPGPTPGPTPCPCPCPC)-3')	-	-	-
A [auth C]	DNA (5'-D(PGPGPGPAPCPAPCPAPTPGPTPTPAPCPAPG)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A], D [auth B]	IPR051270	Tyrosine-tRNA_ligase_regulator	Unknown
C [auth A], D [auth B]	IPR004495	Methionyl-tRNA synthetase, beta subunit, C-terminal	Domain
C [auth A], D [auth B]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
C [auth A], D [auth B]	IPR002547	tRNA-binding domain	Domain
C [auth A], D [auth B]	IPR021802	MiT/TFE transcription factors, C-terminal	Domain
C [auth A], D [auth B]	IPR031867	MiT/TFE transcription factors, N-terminal	Domain
C [auth A], D [auth B]	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain	Domain
C [auth A], D [auth B]	IPR036638	Helix-loop-helix DNA-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth A], D [auth B]	Pharos: O75030	Tietz syndrome melanoma cutaneous melanoma papillary renal cell carcinoma oculocutaneous albinism renal cell carcinoma Waardenburg syndrome type 2A ocular albinism with congenital sensorineural deafness Waardenburg syndrome microphthalmia coloboma, osteopetrosis, microphthalmia, macrocephaly, albinism, and deafness Waardenburg syndrome type 2 MITF-related melanoma and renal cell carcinoma predisposition syndrome Deafness familial melanoma Tietz syndrome melanoma cutaneous melanoma papillary renal cell carcinoma oculocutaneous albinism renal cell carcinoma Waardenburg syndrome type 2A ocular albinism with congenital sensorineural deafness Waardenburg syndrome microphthalmia coloboma, osteopetrosis, microphthalmia, macrocephaly, albinism, and deafness Waardenburg syndrome type 2 MITF-related melanoma and renal cell carcinoma predisposition syndrome Deafness familial melanoma chromophobe renal cell carcinoma osteopetrosis collecting duct carcinoma sarcomatoid renal cell carcinoma ulcerative colitis invasive ductal breast carcinoma adrenal medulla cancer lung cancer benign neoplasm of adrenal gland breast fibroadenoma pancreatic intraductal papillary-mucinous neoplasm cystic fibrosis rheumatoid arthritis skin cancer Ito hypomelanosis Waardenburg syndrome type 2E lung carcinoma medulloblastoma nevus of Ito cancer ocular albinism with late-onset sensorineural deafness clear cell papillary renal cell carcinoma osteosarcoma Crohn disease renal carcinoma ductal breast carcinoma in situ heart disease large cell medulloblastoma malignant mesothelioma non-small cell lung carcinoma clear cell renal carcinoma ovarian cancer

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.