3CB6 | pdb_00003cb6

Crystal Structure of the S. pombe Peptidase Homology Domain of FACT complex subunit Spt16 (form B)

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A		e3cb6A1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: Leuk-A4-hydro_C	F:	ECOD (20:10:01)
A		e3cb6A2	A: DP domain	X: DP domain	H: DP domain	T: DUF4982	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.350.10	Alpha Beta	3-Layer(aba) Sandwich	Creatine Amidinohydrolase	Chain A, domain 1	CATH (4.3.0)
A	3.90.230.10	Alpha Beta	Alpha-Beta Complex	Creatine Amidinohydrolase	Creatinase/methionine aminopeptidase superfamily	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00557	Metallopeptidase family M24 (Peptidase_M24)	Metallopeptidase family M24	This family contains metallopeptidases. It also contains non-peptidase homologues such as the N terminal domain of Spt16 which is a histone H3-H4 binding module [3].	Domain
A	PF14826	FACT complex subunit SPT16 N-terminal lobe domain (FACT-Spt16_Nlob)	FACT complex subunit SPT16 N-terminal lobe domain	The FACT or facilitator of chromatin transcription complex binds to and alters the properties of nucleosomes. This family represents the N-terminal lobe of the NTD, or N-terminal domain, and acts as a protein-protein interaction domain presumably wit ...	The FACT or facilitator of chromatin transcription complex binds to and alters the properties of nucleosomes. This family represents the N-terminal lobe of the NTD, or N-terminal domain, and acts as a protein-protein interaction domain presumably with partners outside of the FACT complex [1]. Knockout of the whole NTD domain, 1-450 residues in UniProt:P32558, in yeast serves to tender the cells sensitive to DNA replication stress but is not lethal. The C-terminal half of NTD is structurally similar to aminopeptidases, and the most highly conserved surface residues line a cleft equivalent to the aminopeptidase substrate-binding site, family peptidase_M24, Pfam:PF00557 [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	FACT complex subunit spt16	protein carrier chaperone histone chaperone activity molecular carrier activity protein-containing complex binding chromatin binding binding nucleosome binding H2A-H2B histone complex chaperone activity	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus response to stimulus cellular response to stress DNA damage response response to stress DNA repair nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus response to stimulus cellular response to stress DNA damage response response to stress DNA repair cellular component organization chromatin organization DNA replication-dependent chromatin assembly cellular component organization or biogenesis transcription elongation by RNA polymerase II transcription elongation-coupled chromatin remodeling RNA metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process DNA-templated transcription elongation transcription by RNA polymerase II biosynthetic process chromatin remodeling protein-DNA complex organization protein-containing complex organization nucleosome organization regulation of cellular process negative regulation of biological process cellular component biogenesis cellular component assembly negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process biological regulation heterochromatin organization regulation of macromolecule metabolic process regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process regulation of metabolic process	membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membraneless organelle chromatin chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membraneless organelle chromatin chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure FACT complex nucleoplasm organelle lumen organelle membraneless organelle nuclear lumen euchromatin

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR033825	FACT complex subunit Spt16, peptidase M24-like domain	Domain
A	IPR011993	PH-like domain superfamily	Homologous Superfamily
A	IPR040258	FACT complex subunit Spt16	Family
A	IPR013953	FACT complex subunit SPT16, middle domain	Domain
A	IPR029148	FACT complex subunit SPT16, N-terminal lobe domain	Domain
A	IPR036005	Creatinase/aminopeptidase-like	Homologous Superfamily
A	IPR000994	Peptidase M24	Domain
A	IPR048969	FACT complex subunit SPT16, C-terminal domain	Domain
A	IPR029149	Creatinase/Aminopeptidase P/Spt16, N-terminal	Homologous Superfamily
A	IPR013719	Histone chaperone RTT106/FACT complex subunit SPT16-like, middle domain	Domain
A	IPR056595	FACT complex subunit SPT16, PH-like domain	Domain

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.