ECOD: domain e2waqA3

Domain ID e2waqA3

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A: a+b complex topology
X: second helical domain in RNA-polymerase beta-prime subunit
H: second helical domain in RNA-polymerase beta-prime subunit
T: second helical domain in RNA-polymerase beta-prime subunit
F: RNA_pol_Rpb1_5,RNA_pol_Rpb1_4

UID:	001711583
Type:	Automatic domain
Parent:	e1twfA10
Range:	A:645-879
PDB:	2waq
PDB Description:	DNA-DIRECTED RNA POLYMERASE RPO1N SUBUNIT
UniProt:	B8YB53
Hsap BLAST neighbor:	P24928
Species:	Sulfolobus shibatae

Domains in the same chain:

e2waqA4	A:4-306	N-terminal domain in RNA-polymerase beta-prime subunit	N-terminal domain in RNA-polymerase beta-prime subunit	N-terminal domain in RNA-polymerase beta-prime subunit
e2waqA1	A:307-494	cradle loop barrel	RIFT-related	double psi
e2waqA2	A:495-644	first helical domain in RNA-polymerase beta-prime subunit	first helical domain in RNA-polymerase beta-prime subunit	first helical domain in RNA-polymerase beta-prime subunit
e2waqA3	A:645-879	second helical domain in RNA-polymerase beta-prime subunit	second helical domain in RNA-polymerase beta-prime subunit	second helical domain in RNA-polymerase beta-prime subunit

Domains in the same PDB:

e2waqA4	A:4-306	N-terminal domain in RNA-polymerase beta-prime subunit	N-terminal domain in RNA-polymerase beta-prime subunit	N-terminal domain in RNA-polymerase beta-prime subunit
e2waqA1	A:307-494	cradle loop barrel	RIFT-related	double psi
e2waqA2	A:495-644	first helical domain in RNA-polymerase beta-prime subunit	first helical domain in RNA-polymerase beta-prime subunit	first helical domain in RNA-polymerase beta-prime subunit
e2waqA3	A:645-879	second helical domain in RNA-polymerase beta-prime subunit	second helical domain in RNA-polymerase beta-prime subunit	second helical domain in RNA-polymerase beta-prime subunit
e2waqB3	B:8-170,B:345-475	N-terminal domain in beta subunit of DNA dependent RNA-polymerase	N-terminal domain in beta subunit of DNA dependent RNA-polymerase	N-terminal domain in beta subunit of DNA dependent RNA-polymerase
e2waqB7	B:171-344	insertion domain in beta subunit of DNA dependent RNA-polymerase	insertion domain in beta subunit of DNA dependent RNA-polymerase	insertion domain in beta subunit of DNA dependent RNA-polymerase
e2waqB6	B:476-575	inserted a+b domain in yeast RNA polymerase beta subunit	inserted a+b domain in yeast RNA polymerase beta subunit	inserted a+b domain in yeast RNA polymerase beta subunit
e2waqB1	B:576-715	barrel domain in beta subunit of DNA dependent RNA-polymerase	barrel domain in beta subunit of DNA dependent RNA-polymerase	barrel domain in beta subunit of DNA dependent RNA-polymerase
e2waqB2	B:716-752,B:876-998	cradle loop barrel	RIFT-related	double psi
e2waqB5	B:753-875	alpha/beta-Hammerhead/Barrel-sandwich hybrid	alpha/beta-Hammerhead/Barrel-sandwich hybrid	Single hybrid motif
e2waqB4	B:999-1122	C-terminal domain in beta subunit of DNA dependent RNA-polymerase	C-terminal domain in beta subunit of DNA dependent RNA-polymerase	C-terminal domain in beta subunit of DNA dependent RNA-polymerase
e2waqC1	C:11-65	helical domain in yeast RNA-polymerases	third helical domain in yeast RNA-polymerase II beta-prime subunit	third helical domain in yeast RNA-polymerase II beta-prime subunit
e2waqC2	C:66-115,C:276-394	central helical domain in RNA-polymerase beta-prime subunit	central helical domain in RNA-polymerase beta-prime subunit	central helical domain in RNA-polymerase beta-prime subunit
e2waqC3	C:116-147,C:233-275	ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit	ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit	ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit
e2waqC4	C:148-232	permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit	permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit	permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit
e2waqD1	D:2-36,D:159-264	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e2waqD2	D:37-158	Ribosomal protein TL5/L25 C-terminal domain-like	Insert subdomain of RNA polymerase alpha subunit	Insert subdomain of RNA polymerase alpha subunit
e2waqE2	E:1-78	Dodecin subunit-like	Flavin-binding protein dodecin-like	Flavin-binding protein dodecin-like
e2waqE1	E:79-177	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e2waqF1	F:3-92	HhH/H2TH	SAM/DNA-glycosylase	SAM domain-like
e2waqG1	G:5-117	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e2waqH1	H:9-82	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit
e2waqK1	K:9-94	RPB6/omega subunit-like	RPB6/omega subunit-like	RPB6
e2waqL1	L:1-91	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e2waqN1	N:1-64	HTH	RPB10	RPB10
e2waqP1	P:3-48	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e2waqQ1	Q:38-82	YqgQ-like	YqgQ-like	YqgQ-like

Structural contacts of domain e2waqA3 of H-group "second helical domain in RNA-polymerase beta-prime subunit":

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The domain and its neighboring domains (both within the asymmetric unit and to crystallographic symmetry mates) are represented by spheres and linked by lines. Distances between the center of the domain and interfaces are shown for each contact.

Domain ID	Symmetry operator	H-group	Visualization
e2waqB1	A:X,Y,Z->B:x,y,z	barrel domain in beta subunit of DNA dependent RNA-polymerase	Interaction Interface Pymol
e2waqB4	A:X,Y,Z->B:x,y,z	C-terminal domain in beta subunit of DNA dependent RNA-polymerase	Interaction Interface Pymol
e2waqB7	A:X,Y,Z->B:x,y,z	insertion domain in beta subunit of DNA dependent RNA-polymerase	Interaction Interface Pymol
e2waqB2	A:X,Y,Z->B:x,y,z	RIFT-related	Interaction Interface Pymol
e2waqB3	A:X,Y,Z->B:x,y,z	N-terminal domain in beta subunit of DNA dependent RNA-polymerase	Interaction Interface Pymol
e2waqC1	A:X,Y,Z->C:x,y,z	third helical domain in yeast RNA-polymerase II beta-prime subunit	Interaction Interface Pymol
e2waqC2	A:X,Y,Z->C:x,y,z	central helical domain in RNA-polymerase beta-prime subunit	Interaction Interface Pymol
e2waqC3	A:X,Y,Z->C:x,y,z	ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit	Interaction Interface Pymol
e2waqG1	A:X,Y,Z->G:x,y,z	Nucleic acid-binding proteins	Interaction Interface Pymol
e2waqK1	A:X,Y,Z->K:x,y,z	RPB6/omega subunit-like	Interaction Interface Pymol
e2waqH1	A:X,Y,Z->H:x,y,z	RPB5-like RNA polymerase subunit	Interaction Interface Pymol
e2waqB3	A:x,y,z->B:-X+1/2,Y-1/2,-Z+1	N-terminal domain in beta subunit of DNA dependent RNA-polymerase	Interaction Interface Pymol
e2waqG1	A:-X,-Y,Z->G:x,y,z	Nucleic acid-binding proteins	Interaction Interface Pymol