ECOD: domain e3po3B2

Domain ID e3po3B2

A: a+b complex topology
X: N-terminal domain in beta subunit of DNA dependent RNA-polymerase
H: N-terminal domain in beta subunit of DNA dependent RNA-polymerase
T: N-terminal domain in beta subunit of DNA dependent RNA-polymerase
F: RNA_pol_Rpb2_1,RNA_pol_Rpb2_3

UID:	001510575
Type:	Automatic domain
Parent:	e4by7B1
Range:	B:20-70,B:90-134,B:164-218,B:405-541
PDB:	3po3
PDB Description:	DNA-directed RNA polymerase II subunit RPB2
UniProt:	P08518
Hsap BLAST neighbor:	P30876
Species:	Saccharomyces cerevisiae

Domains in the same chain:

Download Pymol

e3po3B2	B:20-70,B:90-134,B:164-218,B:405-541	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
e3po3B7	B:219-404	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
e3po3B4	B:542-630	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
e3po3B3	B:631-813	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
e3po3B1	B:814-850,B:975-1097	cradle loop barrel	RIFT-related	double psi
e3po3B5	B:851-974	alpha/beta-Hammerhead/Barrel-sandwich hybrid	alpha/beta-Hammerhead/Barrel-sandwich hybrid	Single hybrid motif
e3po3B6	B:1098-1224	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

Domains in the same PDB:

Structural contacts of domain e3po3B2 of H-group "N-terminal domain in beta subunit of DNA dependent RNA-polymerase":

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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
e3po3A4	B:x,y,z->A:X,Y,Z	N-terminal domain in RNA-polymerase beta-prime subunit	Interaction Interface Pymol
e3po3A3	B:x,y,z->A:X,Y,Z	second helical domain in RNA-polymerase beta-prime subunit	Interaction Interface Pymol
e3po3J1	B:X,Y,Z->J:x,y,z	RPB10	Interaction Interface Pymol
e3po3L1	B:X,Y,Z->L:x,y,z	Rubredoxin-related	Interaction Interface Pymol

e3po3A4	A:2-336	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
e3po3A5	A:337-374,A:436-519	cradle loop barrel	RIFT-related	double psi
e3po3A2	A:375-435	MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase
e3po3A9	A:520-662	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
e3po3A3	A:663-871	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
e3po3A7	A:872-1059	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
e3po3A1	A:1060-1102,A:1301-1455	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
e3po3A6	A:1103-1131,A:1243-1300	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
e3po3A8	A:1132-1242	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
e3po3B2	B:20-70,B:90-134,B:164-218,B:405-541	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
e3po3B7	B:219-404	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
e3po3B4	B:542-630	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
e3po3B3	B:631-813	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
e3po3B1	B:814-850,B:975-1097	cradle loop barrel	RIFT-related	double psi
e3po3B5	B:851-974	alpha/beta-Hammerhead/Barrel-sandwich hybrid	alpha/beta-Hammerhead/Barrel-sandwich hybrid	Single hybrid motif
e3po3B6	B:1098-1224	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
e3po3C3	C:3-41,C:173-268	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e3po3C4	C:42-172	Ribosomal protein TL5/L25 C-terminal domain-like	Insert subdomain of RNA polymerase alpha subunit	Insert subdomain of RNA polymerase alpha subunit
e3po3D1	D:4-71,D:131-221	HhH/H2TH	SAM/DNA-glycosylase	SAM domain-like
e3po3E2	E:2-142	Restriction endonuclease-like	Eukaryotic RPB5 N-terminal domain	Eukaryotic RPB5 N-terminal domain
e3po3E1	E:143-215	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit
e3po3F1	F:72-155	RPB6/omega subunit-like	RPB6/omega subunit-like	RPB6
e3po3G4	G:1-68	Dodecin subunit-like	Flavin-binding protein dodecin-like	Flavin-binding protein dodecin-like
e3po3G3	G:69-171	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e3po3H1	H:2-146	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e3po3I1	I:2-49	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e3po3I2	I:50-120	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e3po3J1	J:1-65	HTH	RPB10	RPB10
e3po3K1	K:1-114	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e3po3L1	L:25-70	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e3po3S1	S:144-258	RuvA-C	Elongation factor TFIIS domain 2/ Kix domain of creb binding protein	Elongation factor TFIIS domain 2/ Kix domain of creb binding protein
e3po3S2	S:259-309	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related