4DKY | pdb_00004dky

Crystal structure Analysis of N terminal region containing the dimerization domain and DNA binding domain of HU protein(Histone like protein-DNA binding) from Mycobacterium tuberculosis [H37Ra]

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4dkya_	All alpha proteins	IHF-like DNA-binding proteins	IHF-like DNA-binding proteins	automated matches	automated matches	(Mycobacterium tuberculosis H37Ra ) [TaxId: 419947 ],	SCOPe (2.08)
B	d4dkyb1	All alpha proteins	IHF-like DNA-binding proteins	IHF-like DNA-binding proteins	automated matches	automated matches	(Mycobacterium tuberculosis H37Ra ) [TaxId: 419947 ],	SCOPe (2.08)
B	d4dkyb2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Mycobacterium tuberculosis H37Ra ) [TaxId: 419947 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Prokaryotic DNA-bending protein	8072015	4001007	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	IHF-like DNA-binding proteins	8072016	3000426	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)
A	FtsJ	e4dkyA1	A: a/b three-layered sandwiches	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: FtsJ	ECOD (v294.1)
B	PHP	e4dkyB1	A: a/b three-layered sandwiches	X: Ribonuclease H-like	H: Ribonuclease H-like	T: Ribonuclease H-like	F: PHP	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	4.10.520.10	Few Secondary Structures	Irregular	HU Protein	Chain A	CATH (4.3.0)
B	4.10.520.10	Few Secondary Structures	Irregular	HU Protein	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00216	Bacterial DNA-binding protein (Bac_DNA_binding)	Bacterial DNA-binding protein		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	DNA-binding protein HU homolog	DNA binding binding nucleic acid binding cation binding ferric iron binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding oxidoreductase activity, acting on metal ions oxidoreductase activity ferroxidase activity oxidoreductase activity, acting on metal ions, oxygen as acceptor DNA binding binding nucleic acid binding cation binding ferric iron binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding oxidoreductase activity, acting on metal ions oxidoreductase activity ferroxidase activity oxidoreductase activity, acting on metal ions, oxygen as acceptor catalytic activity structural molecule activity structural constituent of chromatin	intracellular iron ion homeostasis inorganic ion homeostasis cellular homeostasis chemical homeostasis homeostatic process intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis cell aggregation biofilm formation biofilm matrix assembly extracellular matrix organization intracellular iron ion homeostasis inorganic ion homeostasis cellular homeostasis chemical homeostasis homeostatic process intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis cell aggregation biofilm formation biofilm matrix assembly extracellular matrix organization aggregation of unicellular organisms cellular component organization cellular component biogenesis cellular component assembly biofilm matrix organization cellular process cellular component organization or biogenesis extracellular matrix assembly extracellular structure organization external encapsulating structure organization organelle organization chromosome condensation chromosome organization	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol nucleoid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR020816	Histone-like DNA-binding protein, conserved site	Conserved Site
A, B	IPR010992	Integration host factor (IHF)-like DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR000119	Histone-like DNA-binding protein	Family

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.