1PUG | pdb_00001pug

Structure of E. coli Ybab

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)
D	d1pugd_	Alpha and beta proteins (a+b)	YbaB-like	YbaB-like	YbaB-like	Hypothetical upf0133 protein YbaB	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1pugc_	Alpha and beta proteins (a+b)	YbaB-like	YbaB-like	YbaB-like	Hypothetical upf0133 protein YbaB	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1pugb_	Alpha and beta proteins (a+b)	YbaB-like	YbaB-like	YbaB-like	Hypothetical upf0133 protein YbaB	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1puga_	Alpha and beta proteins (a+b)	YbaB-like	YbaB-like	YbaB-like	Hypothetical upf0133 protein YbaB	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	YbaB-like	8034831	3000386	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	YbaB-like	8034831	3000386	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	YbaB-like	8034831	3000386	SCOP2B (2022-06-29)
A	SCOP2 Family	YbaB-like	8022451	4003186	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	YbaB-like	8034831	3000386	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)
D	YbaB_DNA_bd	e1pugD1	A: a+b two layers	X: Ribonuclease PH domain 2-like	H: YbaB (From Topology)	T: YbaB	F: YbaB_DNA_bd	ECOD (1.6)
C	YbaB_DNA_bd	e1pugC1	A: a+b two layers	X: Ribonuclease PH domain 2-like	H: YbaB (From Topology)	T: YbaB	F: YbaB_DNA_bd	ECOD (1.6)
B	YbaB_DNA_bd	e1pugB1	A: a+b two layers	X: Ribonuclease PH domain 2-like	H: YbaB (From Topology)	T: YbaB	F: YbaB_DNA_bd	ECOD (1.6)
A	YbaB_DNA_bd	e1pugA1	A: a+b two layers	X: Ribonuclease PH domain 2-like	H: YbaB (From Topology)	T: YbaB	F: YbaB_DNA_bd	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.30.1310.10	Alpha Beta	2-Layer Sandwich	Ybab	Chain: A	CATH (4.2.0)
C	3.30.1310.10	Alpha Beta	2-Layer Sandwich	Ybab	Chain: A	CATH (4.2.0)
B	3.30.1310.10	Alpha Beta	2-Layer Sandwich	Ybab	Chain: A	CATH (4.2.0)
A	3.30.1310.10	Alpha Beta	2-Layer Sandwich	Ybab	Chain: A	CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF02575	YbaB/EbfC DNA-binding family (YbaB_DNA_bd)	YbaB/EbfC DNA-binding family	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Hypothetical UPF0133 protein ybaB	DNA binding binding nucleic acid binding	response to stimulus response to stress response to radiation response to abiotic stimulus	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle bacterial nucleoid organelle membraneless organelle intracellular membraneless organelle nucleoid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR004401	Nucleoid-associated protein YbaB/EbfC	Family
A, B, C, D	IPR036894	Nucleoid-associated protein YbaB-like domain superfamily	Homologous Superfamily

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.