ECOD: domain e4c2m11

Domain ID e4c2m11

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A: few secondary structure elements
X: Rubredoxin-like
H: Rubredoxin-related
T: Rubredoxin-related
F: DNA_RNApol_7kD

UID:	001108487
Type:	Automatic domain
Parent:	e1twfL1
Range:	1:27-70
Ligands:	ZN
PDB:	4c2m
PDB Description:	DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 4
UniProt:	P40422
Hsap BLAST neighbor:	P53803
Species:	Saccharomyces cerevisiae

Domains in the same chain:

e4c2m11	1:27-70	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related

Domains in the same PDB:

e4c2m11	1:27-70	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4c2m21	2:8-115	triple barrel	triple barrel	RNA polymerase I subunits A49/A34.5 dimerization domains
e4c2m31	3:25-181	triple barrel	triple barrel	RNA polymerase I subunits A49/A34.5 dimerization domains
e4c2mA1	A:1-141,A:174-273,A:312-463	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
e4c2mA2	A:464-505,A:581-665	cradle loop barrel	RIFT-related	double psi
e4c2mA3	A:506-580	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
e4c2mA4	A:666-826	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
e4c2mA5	A:827-1053	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
e4c2mA6	A:1054-1180	helical domain in yeast RNA-polymerases	third helical domain in yeast RNA-polymerase I RPA190 subunit	third helical domain in yeast RNA-polymerase I RPA190 subunit
e4c2mA7	A:1181-1234,A:1545-1664	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
e4c2mA8	A:1235-1261,A:1498-1544	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
e4c2mA9	A:1262-1349,A:1361-1497	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
e4c2mB1	B:8-209,B:401-547	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
e4c2mB2	B:210-400	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
e4c2mB3	B:548-646	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
e4c2mB4	B:647-761	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
e4c2mB5	B:762-798,B:912-1040	cradle loop barrel	RIFT-related	double psi
e4c2mB6	B:799-911	alpha/beta-Hammerhead/Barrel-sandwich hybrid	alpha/beta-Hammerhead/Barrel-sandwich hybrid	Single hybrid motif
e4c2mB7	B:1041-1203	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
e4c2mC1	C:31-75,C:222-335	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e4c2mC2	C:76-221	Ribosomal protein TL5/L25 C-terminal domain-like	Insert subdomain of RNA polymerase alpha subunit	Insert subdomain of RNA polymerase alpha subunit
e4c2mD1	D:12-48,D:80-100	HhH/H2TH	SAM/DNA-glycosylase	SAM domain-like
e4c2mE2	E:4-143	Restriction endonuclease-like	Eukaryotic RPB5 N-terminal domain	Eukaryotic RPB5 N-terminal domain
e4c2mE1	E:144-215	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit
e4c2mF1	F:55-154	RPB6/omega subunit-like	RPB6/omega subunit-like	RPB6
e4c2mG3	G:14-126	Dodecin subunit-like	Flavin-binding protein dodecin-like	Flavin-binding protein dodecin-like
e4c2mG2	G:126-170,G:215-250	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e4c2mH1	H:3-146	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e4c2mI1	I:2-67	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4c2mI2	I:68-125	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4c2mJ1	J:1-69	HTH	RPB10	RPB10
e4c2mK1	K:42-142	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e4c2mL1	L:27-70	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4c2mM1	M:8-115	triple barrel	triple barrel	RNA polymerase I subunits A49/A34.5 dimerization domains
e4c2mN1	N:24-180	triple barrel	triple barrel	RNA polymerase I subunits A49/A34.5 dimerization domains
e4c2mP19	P:1-141,P:174-273,P:312-457	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
e4c2mP23	P:458-499,P:575-659	cradle loop barrel	RIFT-related	double psi
e4c2mP24	P:500-574	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
e4c2mP22	P:660-820	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
e4c2mP20	P:821-1047	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
e4c2mP26	P:1048-1168	helical domain in yeast RNA-polymerases	third helical domain in yeast RNA-polymerase I RPA190 subunit	third helical domain in yeast RNA-polymerase I RPA190 subunit
e4c2mP3	P:1169-1214,P:1509-1664	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
e4c2mP9	P:1215-1262	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
e4c2mP8	P:1262-1395,P:1440-1508	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
e4c2mQ3	Q:8-209,Q:401-547	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
e4c2mQ7	Q:210-400	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
e4c2mQ1	Q:548-646	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
e4c2mQ5	Q:647-761	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
e4c2mQ4	Q:762-798,Q:912-1040	cradle loop barrel	RIFT-related	double psi
e4c2mQ6	Q:799-911	alpha/beta-Hammerhead/Barrel-sandwich hybrid	alpha/beta-Hammerhead/Barrel-sandwich hybrid	Single hybrid motif
e4c2mQ2	Q:1041-1203	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
e4c2mR1	R:31-75,R:222-335	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e4c2mR2	R:76-221	Ribosomal protein TL5/L25 C-terminal domain-like	Insert subdomain of RNA polymerase alpha subunit	Insert subdomain of RNA polymerase alpha subunit
e4c2mS1	S:12-48,S:79-100	HhH/H2TH	SAM/DNA-glycosylase	SAM domain-like
e4c2mT2	T:4-143	Restriction endonuclease-like	Eukaryotic RPB5 N-terminal domain	Eukaryotic RPB5 N-terminal domain
e4c2mT1	T:144-215	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit
e4c2mU1	U:55-154	RPB6/omega subunit-like	RPB6/omega subunit-like	RPB6
e4c2mV1	V:14-126	Dodecin subunit-like	Flavin-binding protein dodecin-like	Flavin-binding protein dodecin-like
e4c2mV2	V:127-176,V:215-250	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e4c2mW1	W:3-146	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e4c2mX1	X:2-67	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4c2mX2	X:68-125	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4c2mY1	Y:1-69	HTH	RPB10	RPB10
e4c2mZ1	Z:43-142	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase

Structural contacts of domain e4c2m11 of H-group "Rubredoxin-related":

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
e4c2mQ3	1:X,Y,Z->Q:x,y,z	N-terminal domain in beta subunit of DNA dependent RNA-polymerase	Interaction Interface Pymol
e4c2mQ6	1:X,Y,Z->Q:x,y,z	alpha/beta-Hammerhead/Barrel-sandwich hybrid	Interaction Interface Pymol
e4c2mR2	1:X,Y,Z->R:x,y,z	Insert subdomain of RNA polymerase alpha subunit	Interaction Interface Pymol
e4c2mY1	1:X,Y,Z->Y:x,y,z	RPB10	Interaction Interface Pymol