4EYA | pdb_00004eya

Crystal Structure of a Plectonemic RNA Supercoil

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	NusB-like	8074900	3000679	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	NusB-like	8074900	3000679	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	NusB-like	8074900	3000679	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	NusB-like	8074900	3000679	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	NusB-like	8074900	3000679	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	NusB-like	8074900	3000679	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	NusB-like	8074900	3000679	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	NusB-like	8074900	3000679	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)
H	V-set	e4eyaH1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
G	V-set	e4eyaG1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
F	V-set	e4eyaF1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
E	V-set	e4eyaE1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
D	V-set	e4eyaD1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
C	V-set	e4eyaC1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
B	V-set	e4eyaB1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
A	Flavi_glycop_C	e4eyaA1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: SH3	T: SH3	F: Flavi_glycop_C	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	1.10.940.10	Mainly Alpha	Orthogonal Bundle	N-utilizing Substance Protein B Homolog	Chain A	CATH (4.3.0)
G	1.10.940.10	Mainly Alpha	Orthogonal Bundle	N-utilizing Substance Protein B Homolog	Chain A	CATH (4.3.0)
F	1.10.940.10	Mainly Alpha	Orthogonal Bundle	N-utilizing Substance Protein B Homolog	Chain A	CATH (4.3.0)
E	1.10.940.10	Mainly Alpha	Orthogonal Bundle	N-utilizing Substance Protein B Homolog	Chain A	CATH (4.3.0)
D	1.10.940.10	Mainly Alpha	Orthogonal Bundle	N-utilizing Substance Protein B Homolog	Chain A	CATH (4.3.0)
C	1.10.940.10	Mainly Alpha	Orthogonal Bundle	N-utilizing Substance Protein B Homolog	Chain A	CATH (4.3.0)
B	1.10.940.10	Mainly Alpha	Orthogonal Bundle	N-utilizing Substance Protein B Homolog	Chain A	CATH (4.3.0)
A	1.10.940.10	Mainly Alpha	Orthogonal Bundle	N-utilizing Substance Protein B Homolog	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H	PF01029	NusB family (NusB)	NusB family	The NusB protein is involved in the regulation of rRNA biosynthesis by transcriptional antitermination.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
AA [auth n], BA [auth l], I [auth a], J [auth c], K [auth e], AA [auth n], BA [auth l], I [auth a], J [auth c], K [auth e], L [auth g], M [auth i], N [auth j], O [auth h], P [auth f], Q [auth d], R [auth b], S [auth k], T [auth m], U [auth o], V [auth q], W [auth s], X [auth t], Y [auth r], Z [auth p]	RNA (5'-R(GPGPCPUPCPCPUPUPGPGPCPA)-3')	-	-	-
A, B, C, D, E A, B, C, D, E, F, G, H	N utilization substance protein B homolog	RNA binding binding nucleic acid binding	negative regulation of termination of DNA-templated transcription regulation of cellular process negative regulation of biological process protein-containing complex disassembly positive regulation of macromolecule biosynthetic process regulation of protein-containing complex disassembly regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of macromolecule metabolic process negative regulation of nucleobase-containing compound metabolic process negative regulation of termination of DNA-templated transcription regulation of cellular process negative regulation of biological process protein-containing complex disassembly positive regulation of macromolecule biosynthetic process regulation of protein-containing complex disassembly regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of macromolecule metabolic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process cellular component disassembly negative regulation of DNA-templated transcription regulation of biological process negative regulation of cellular component organization negative regulation of metabolic process primary metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process regulation of termination of DNA-templated transcription regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process regulation of cellular component organization transcription antitermination positive regulation of biological process RNA metabolic process DNA-templated transcription termination RNA biosynthetic process cellular component organization nucleic acid biosynthetic process positive regulation of biosynthetic process negative regulation of protein-containing complex disassembly negative regulation of cellular process cellular component organization or biogenesis positive regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process protein-containing complex organization biological regulation regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process positive regulation of gene expression negative regulation of biosynthetic process cellular process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR035926	NusB-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR011605	NusB antitermination factor	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR006027	NusB/RsmB/TIM44	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.