ECOD: domain e3po2A2

Domain ID e3po2A2

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A: a+b complex topology
X: helical domain in yeast RNA-polymerases
H: third helical domain in yeast RNA-polymerase II beta-prime subunit
T: third helical domain in yeast RNA-polymerase II beta-prime subunit
F: RNA_pol_Rpb1_6

UID:	001308761
Type:	Automatic domain
Parent:	e1twfA11
Range:	A:872-1059
Ligands:	ACT
PDB:	3po2
PDB Description:	DNA-directed RNA polymerase II subunit RPB1
UniProt:	P04050
Hsap BLAST neighbor:	P24928
Species:	Saccharomyces cerevisiae

Domains in the same chain:

e3po2A6	A:3-336	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
e3po2A5	A:337-374,A:436-519	cradle loop barrel	RIFT-related	double psi
e3po2A1	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
e3po2A9	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
e3po2A7	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
e3po2A2	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
e3po2A3	A:1060-1102,A:1301-1454	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
e3po2A4	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
e3po2A8	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

Domains in the same PDB:

e3po2A6	A:3-336	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
e3po2A5	A:337-374,A:436-519	cradle loop barrel	RIFT-related	double psi
e3po2A1	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
e3po2A9	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
e3po2A7	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
e3po2A2	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
e3po2A3	A:1060-1102,A:1301-1454	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
e3po2A4	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
e3po2A8	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
e3po2B5	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
e3po2B3	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
e3po2B6	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
e3po2B2	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
e3po2B1	B:814-850,B:975-1097	cradle loop barrel	RIFT-related	double psi
e3po2B4	B:851-974	alpha/beta-Hammerhead/Barrel-sandwich hybrid	alpha/beta-Hammerhead/Barrel-sandwich hybrid	Single hybrid motif
e3po2B7	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
e3po2C3	C:3-41,C:173-268	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e3po2C4	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
e3po2D1	D:1-71,D:131-221	HhH/H2TH	SAM/DNA-glycosylase	SAM domain-like
e3po2E2	E:2-142	Restriction endonuclease-like	Eukaryotic RPB5 N-terminal domain	Eukaryotic RPB5 N-terminal domain
e3po2E1	E:143-215	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit
e3po2F1	F:69-155	RPB6/omega subunit-like	RPB6/omega subunit-like	RPB6
e3po2G4	G:1-68	Dodecin subunit-like	Flavin-binding protein dodecin-like	Flavin-binding protein dodecin-like
e3po2G3	G:69-171	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e3po2H1	H:2-146	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e3po2I1	I:2-49	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e3po2I2	I:50-120	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e3po2J1	J:1-65	HTH	RPB10	RPB10
e3po2K1	K:1-115	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e3po2L1	L:25-70	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related

Structural contacts of domain e3po2A2 of H-group "third helical domain in yeast RNA-polymerase II beta-prime subunit":

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
e3po2E1	A:X,Y,Z->E:x,y,z	RPB5-like RNA polymerase subunit	Interaction Interface Pymol
e3po2F1	A:X,Y,Z->F:x,y,z	RPB6/omega subunit-like	Interaction Interface Pymol
e3po2H1	A:X,Y,Z->H:x,y,z	Nucleic acid-binding proteins	Interaction Interface Pymol
e3po2I1	A:X-1/2,-Y+1/2,-Z->I:x,y,z	Rubredoxin-related	Interaction Interface Pymol