3WOF

Crystal structure of P23-45 gp39 (6-132) bound to Thermus thermophilus RNA polymerase beta-flap domain

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	RNA_pol_Rpb2_6_2nd	e3wofA1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
C	RNA_pol_Rpb2_6_2nd	e3wofC1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
E	RNA_pol_Rpb2_6_2nd	e3wofE1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
G	RNA_pol_Rpb2_6_2nd	e3wofG1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
I	RNA_pol_Rpb2_6_2nd	e3wofI1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
K	RNA_pol_Rpb2_6_2nd	e3wofK1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
M	RNA_pol_Rpb2_6_2nd	e3wofM1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
O	RNA_pol_Rpb2_6_2nd	e3wofO1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
Q	RNA_pol_Rpb2_6_2nd	e3wofQ1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
S	RNA_pol_Rpb2_6_2nd	e3wofS1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
U	RNA_pol_Rpb2_6_2nd	e3wofU1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
W	RNA_pol_Rpb2_6_2nd	e3wofW1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
B	EUF08295	e3wofB1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)
D	EUF08295	e3wofD1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)
F	EUF08295	e3wofF1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)
H	EUF08295	e3wofH1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)
J	EUF08295	e3wofJ1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)
L	EUF08295	e3wofL1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)
N	EUF08295	e3wofN1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)
P	EUF08295	e3wofP1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)
R	EUF08295	e3wofR1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)
T	EUF08295	e3wofT1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)
V	EUF08295	e3wofV1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)
X	EUF08295	e3wofX1	A: a+b two layers	X: Cystatin-like	H: Thermus phage P23-45 gp39 (From Topology)	T: Thermus phage P23-45 gp39	F: EUF08295	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
C	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
E	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
G	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
I	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
K	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
M	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
O	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
Q	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
S	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
U	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
W	2.40.50.150	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II, Rpb2 subunit, wall domain	CATH (4.3.0)
B	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
D	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
F	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
H	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
J	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
L	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
N	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
P	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
R	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
T	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
V	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
X	2.30.30.1250	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D, F, H, J B, D, F, H, J, L, N, P, R, T, V, X	PF20760	Thermus phage P23-45 gp39, N-terminal domain (P23-45_gp39_N)	Thermus phage P23-45 gp39, N-terminal domain	This domain is found at the N terminus in the protein gp35 from Thermus phage P23-45 and similar sequences from tailed bacteriophages. This protein binds the host's DNA-dependent RNA polymerase (RNAP), inhibiting host gene transcription while allowin ...	This domain is found at the N terminus in the protein gp35 from Thermus phage P23-45 and similar sequences from tailed bacteriophages. This protein binds the host's DNA-dependent RNA polymerase (RNAP), inhibiting host gene transcription while allowing transcription of phage genes. Structural studies show this core domain of the protein binds to the RNA beta-flap domain. It consists of a central beta sheet and a N-terminal helix [1, 2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	DNA-directed RNA polymerase subunit beta	DNA binding binding nucleic acid binding ribonucleoside binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding	-	transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex DNA-directed RNA polymerase complex transferase complex intracellular protein-containing complex
B, D, F, H, J B, D, F, H, J, L, N, P, R, T, V, X	Putative uncharacterized protein	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR007642	RNA polymerase Rpb2, domain 2	Domain
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR015712	DNA-directed RNA polymerase, subunit 2	Family
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR037033	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily	Homologous Superfamily
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR042107	DNA-directed RNA polymerase, beta subunit, external 1 domain superfamily	Homologous Superfamily
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR037034	RNA polymerase Rpb2, domain 2 superfamily	Homologous Superfamily
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR007120	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain	Domain
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR007121	RNA polymerase, beta subunit, conserved site	Conserved Site
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR007645	RNA polymerase Rpb2, domain 3	Domain
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR014724	RNA polymerase Rpb2, OB-fold	Homologous Superfamily
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR019462	DNA-directed RNA polymerase, beta subunit, external 1 domain	Domain
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR010243	DNA-directed RNA polymerase beta subunit, bacterial-type	Family
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR007644	RNA polymerase, beta subunit, protrusion	Domain
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR007641	RNA polymerase Rpb2, domain 7	Domain