5JLT

The crystal structure of the bacteriophage T4 MotA C-terminal domain in complex with dsDNA reveals a novel protein-DNA recognition motif

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)
A	SCOP2B Superfamily	DNA-binding C-terminal domain of the transcription factor MotA	8037972	3000763	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	DNA-binding C-terminal domain of the transcription factor MotA	8037972	3000763	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	DNA-binding C-terminal domain of the transcription factor MotA	8037972	3000763	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	DNA-binding C-terminal domain of the transcription factor MotA	8037972	3000763	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	PF09158	e5jltA1	A: a+b two layers	X: Type III secretory system chaperone-like	H: DNA-binding C-terminal domain of the transcription factor MotA (From Topology)	T: DNA-binding C-terminal domain of the transcription factor MotA	F: PF09158	ECOD (1.6)
B	PF09158	e5jltB1	A: a+b two layers	X: Type III secretory system chaperone-like	H: DNA-binding C-terminal domain of the transcription factor MotA (From Topology)	T: DNA-binding C-terminal domain of the transcription factor MotA	F: PF09158	ECOD (1.6)
C	PF09158	e5jltC1	A: a+b two layers	X: Type III secretory system chaperone-like	H: DNA-binding C-terminal domain of the transcription factor MotA (From Topology)	T: DNA-binding C-terminal domain of the transcription factor MotA	F: PF09158	ECOD (1.6)
D	PF09158	e5jltD1	A: a+b two layers	X: Type III secretory system chaperone-like	H: DNA-binding C-terminal domain of the transcription factor MotA (From Topology)	T: DNA-binding C-terminal domain of the transcription factor MotA	F: PF09158	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.1150.20	Alpha Beta	Alpha-Beta Complex	Aspartate Aminotransferase, domain 1	Transcription regulator MotA, C-terminal domain	CATH (4.3.0)
B	3.90.1150.20	Alpha Beta	Alpha-Beta Complex	Aspartate Aminotransferase, domain 1	Transcription regulator MotA, C-terminal domain	CATH (4.3.0)
C	3.90.1150.20	Alpha Beta	Alpha-Beta Complex	Aspartate Aminotransferase, domain 1	Transcription regulator MotA, C-terminal domain	CATH (4.3.0)
D	3.90.1150.20	Alpha Beta	Alpha-Beta Complex	Aspartate Aminotransferase, domain 1	Transcription regulator MotA, C-terminal domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF09158	Bacteriophage T4 MotA, C-terminal (MotCF)	Bacteriophage T4 MotA, C-terminal	Members of this family adopt a compact alpha/beta structure comprising three alpha-helices and six beta-strands in the order: alpha1-beta1-beta2-beta3-beta4-alpha2-beta5-beta6-alpha3. The beta-strands form a single anti-parallel beta-sheet and the th ...	Members of this family adopt a compact alpha/beta structure comprising three alpha-helices and six beta-strands in the order: alpha1-beta1-beta2-beta3-beta4-alpha2-beta5-beta6-alpha3. The beta-strands form a single anti-parallel beta-sheet and the three alpha-helices pack side-by-side onto one surface of the beta-sheet. In this architecture, the domain's hydrophobic core is at the sheet-helix interface, and the second surface of the beta-sheet is completely exposed. The domain is a DNA-binding motif, with a consensus sequence containing nine base pairs (5'-TTTGCTTTA-3'), that appears to bind to various mot boxes, allowing access to the minor groove towards the 5'-end of this sequence and the major groove towards the 3'-end [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Middle transcription regulatory protein motA	DNA binding binding organic cyclic compound binding nucleic acid binding	-	-
E, H	DNA (5'-D(GPAPAPGPCPTPTPTPGPCPTPTPAPAPTPAPAPTPCPCPAPC)-3')	-	-	-
F, G	DNA (5'-D(GPTPGPGPAPTPTPAPTPTPAPAPGPCPAPAPAPGPCPTPTPC)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036474	Transcription regulator MotA, C-terminal domain superfamily	Homologous Superfamily
A, B, C, D	IPR015241	Transcription regulator MotA, C-terminal	Domain
A, B, C, D	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR015198	Bacteriophage T4, MotA, transcription regulator N-terminal	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.