4MO1 | pdb_00004mo1

Crystal structure of antitermination protein Q from bacteriophage lambda. Northeast Structural Genomics Consortium target OR18A.

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)
B	SCOP2B Superfamily	DnaJ/Hsp40 cysteine-rich domain-like	8102245	3001550	SCOP2B (2022-06-29)
A	SCOP2 Family	Antitermination protein-like	8051745	4007496	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	DnaJ/Hsp40 cysteine-rich domain-like	8102245	3001550	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)
B	Antiterm	e4mo1B1	A: alpha arrays	X: Antitermination protein Q helical domain (From Topology)	H: Antitermination protein Q helical domain (From Topology)	T: Antitermination protein Q helical domain	F: Antiterm	ECOD (1.6)
B	Antiterm_like	e4mo1B2	A: few secondary structure elements	X: DnaJ/Hsp40 cysteine-rich domain (From Topology)	H: DnaJ/Hsp40 cysteine-rich domain (From Topology)	T: DnaJ/Hsp40 cysteine-rich domain	F: Antiterm_like	ECOD (1.6)
A	Antiterm	e4mo1A2	A: alpha arrays	X: Antitermination protein Q helical domain (From Topology)	H: Antitermination protein Q helical domain (From Topology)	T: Antitermination protein Q helical domain	F: Antiterm	ECOD (1.6)
A	Antiterm_like	e4mo1A1	A: few secondary structure elements	X: DnaJ/Hsp40 cysteine-rich domain (From Topology)	H: DnaJ/Hsp40 cysteine-rich domain (From Topology)	T: DnaJ/Hsp40 cysteine-rich domain	F: Antiterm_like	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.10.274.110	Mainly Alpha	Orthogonal Bundle	Enzyme I	Chain A, domain 2	CATH (4.3.0)
A	1.10.274.110	Mainly Alpha	Orthogonal Bundle	Enzyme I	Chain A, domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF03589	Antitermination protein Q (Antiterm)	Antitermination protein Q	This entry consists of antitermination proteins found in bacteriophages, such as protein Q from phage lambda, and some bacterial homologues. Protein Q positively regulates expression of the phage late gene operon by binding to the bacterial host RNA ...	This entry consists of antitermination proteins found in bacteriophages, such as protein Q from phage lambda, and some bacterial homologues. Protein Q positively regulates expression of the phage late gene operon by binding to the bacterial host RNA polymerase (RNAP) and modifying it. This protein binds a specific DNA Q-binding element (QBE) and interacts with RNAP. The modified RNAP can read without pausing and through transcription terminators preceding late genes [1,2]. It participates in the lysis-lysogeny decision by activating the expression of the late lytic genes [3]. The structure of Q from bacteriophage 21 revealed that it forms a torus, that narrows and extends the RNAP RNA-exit channel and extrudes the linked RNA, preventing the formation of pause and terminator hairpins [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Antitermination protein Q	DNA binding binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule 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	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR003222	Antitermination protein	Family
A, B	IPR038500	Antitermination protein Q superfamily	Homologous Superfamily
A, B	IPR036410	Heat shock protein DnaJ, cysteine-rich 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.