2GCJ

Crystal Structure of the Pob3 middle domain

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 Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2gcja1	All beta proteins	PH domain-like barrel	PH domain-like	SSRP1-like	FACT complex subunit POB3, middle domain	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
C	d2gcjc_	All beta proteins	PH domain-like barrel	PH domain-like	SSRP1-like	FACT complex subunit POB3, middle domain	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
B	d2gcjb_	All beta proteins	PH domain-like barrel	PH domain-like	SSRP1-like	FACT complex subunit POB3, middle domain	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
D	d2gcjd_	All beta proteins	PH domain-like barrel	PH domain-like	SSRP1-like	FACT complex subunit POB3, middle domain	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	PH domain-like	8103655	3000134	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PH domain-like	8041841	3000134	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	PH domain-like	8041841	3000134	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	PH domain-like	8103655	3000134	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PH domain-like	8041841	3000134	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PH domain-like	8103655	3000134	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	PH domain-like	8041841	3000134	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	PH domain-like	8103655	3000134	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)
A	Rtt106	e2gcjA2	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: Rtt106	ECOD (1.6)
A	PH1_SSRP1-like	e2gcjA1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH1_SSRP1-like	ECOD (1.6)
C	Rtt106	e2gcjC1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: Rtt106	ECOD (1.6)
C	PH1_SSRP1-like	e2gcjC2	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH1_SSRP1-like	ECOD (1.6)
B	Rtt106	e2gcjB2	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: Rtt106	ECOD (1.6)
B	PH1_SSRP1-like	e2gcjB1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH1_SSRP1-like	ECOD (1.6)
D	Rtt106	e2gcjD1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: Rtt106	ECOD (1.6)
D	PH1_SSRP1-like	e2gcjD2	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH1_SSRP1-like	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.30.29.150	Mainly Beta	Roll	PH-domain like		CATH (4.3.0)
A	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
C	2.30.29.150	Mainly Beta	Roll	PH-domain like		CATH (4.3.0)
C	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
B	2.30.29.150	Mainly Beta	Roll	PH-domain like		CATH (4.3.0)
B	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
D	2.30.29.150	Mainly Beta	Roll	PH-domain like		CATH (4.3.0)
D	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF21103	SSRP1 PH domain (PH1_SSRP1-like)	SSRP1 PH domain	SSRP1 is a component of FACT (facilitator of chromatin transcription), an essential chromatin reorganizing factor. This entry represents the first of two PH-like domains in these proteins.	Domain
A, B, C, D	PF08512	Histone chaperone Rttp106-like, middle domain (Rttp106-like_middle)	Histone chaperone Rttp106-like, middle domain	This Pleckstrin homology (PH) domain is found in the middle region of Rttp106, a histone chaperone involved in heterochromatin-mediated silencing [1]. It is also found in the final part of the middle domain of various FACT (facilitates chromatin tran ...	This Pleckstrin homology (PH) domain is found in the middle region of Rttp106, a histone chaperone involved in heterochromatin-mediated silencing [1]. It is also found in the final part of the middle domain of various FACT (facilitates chromatin transactions) complex subunits, such as Spt16 and either Pob3 (yeast) or the related SSRP1 (higher eukaryotes). This domain plays a role in DNA binding [2-4].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Hypothetical 63.0 kDa protein in DAK1-ORC1 intergenic region	DNA binding binding organic cyclic compound binding nucleic acid binding	cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair DNA-templated DNA replication DNA replication protein-DNA complex organization cellular component organization protein-containing complex organization chromatin organization chromatin remodeling cellular component organization or biogenesis nucleosome organization regulation of cellular process transcription preinitiation complex assembly positive regulation of macromolecule biosynthetic process regulation of primary metabolic process cellular component biogenesis DNA-templated transcription positive regulation of metabolic process regulation of DNA-templated transcription initiation regulation of RNA metabolic process cellular component assembly transcription by RNA polymerase II organic substance biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process transcription initiation at RNA polymerase II promoter regulation of transcription by RNA polymerase II regulation of biological process positive regulation of nucleobase-containing compound metabolic process cellular metabolic process regulation of cellular metabolic process positive regulation of transcription by RNA polymerase II positive regulation of DNA-templated transcription initiation positive regulation of RNA metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process RNA polymerase II preinitiation complex assembly regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process regulation of RNA polymerase II transcription preinitiation complex assembly regulation of cellular component organization positive regulation of cellular component organization cellular biosynthetic process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of cellular metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly positive regulation of biosynthetic process protein-containing complex assembly positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process positive regulation of RNA polymerase II transcription preinitiation complex assembly positive regulation of cellular component biogenesis positive regulation of transcription initiation by RNA polymerase II biological regulation protein-DNA complex assembly regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression regulation of cellular component biogenesis macromolecule biosynthetic process DNA-templated transcription initiation regulation of cellular biosynthetic process positive regulation of RNA biosynthetic process regulation of transcription initiation by RNA polymerase II positive regulation of cellular biosynthetic process regulation of chromatin organization	membrane-bounded organelle replication fork protection complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear replication fork nuclear chromosome chromosome intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle membrane-bounded organelle replication fork protection complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear replication fork nuclear chromosome chromosome intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle replication fork non-membrane-bounded organelle nuclear lumen transcription elongation factor complex protein-DNA complex chromatin FACT complex nucleoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR038167	SSRP1 domain superfamily	Homologous Superfamily
A, B, C, D	IPR035417	FACT complex subunit SSRP1/POB3, N-terminal PH domain	Domain
A, B, C, D	IPR000969	FACT complex subunit SSRP1/POB3	Family
A, B, C, D	IPR011993	PH-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR013719	Histone chaperone RTT106/FACT complex subunit SPT16-like, middle domain	Domain
A, B, C, D	IPR048993	FACT complex subunit SSRP1-like, first PH domain	Domain
A, B, C, D	IPR024954	SSRP1, dimerization domain	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.