ECOD: domain e4bbrD1

Domain ID e4bbrD1

A: alpha arrays
X: HhH/H2TH
H: SAM/DNA-glycosylase
T: SAM domain-like
F: RNA_pol_Rpb4

UID:	000153777
Type:	Automatic domain
Parent:	e1go3F1
Range:	D:3-76,D:118-221
PDB:	4bbr
PDB Description:	DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4
UniProt:	P20433
Hsap BLAST neighbor:	O15514
Species:	Saccharomyces cerevisiae

Domains in the same chain:

Download Pymol

e4bbrD1	D:3-76,D:118-221	HhH/H2TH	SAM/DNA-glycosylase	SAM domain-like

Domains in the same PDB:

Structural contacts of domain e4bbrD1 of H-group "SAM/DNA-glycosylase":

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
e4bbrG3	D:X,Y,Z->G:x,y,z	Nucleic acid-binding proteins	Interaction Interface Pymol
e4bbrG4	D:X,Y,Z->G:x,y,z	Flavin-binding protein dodecin-like	Interaction Interface Pymol
e4bbrA6	D:x,y,z->A:-X,Y,-Z-1/2	N-terminal domain in RNA-polymerase beta-prime subunit	Interaction Interface Pymol
e4bbrB2	D:x,y,z->B:X,Y,Z	C-terminal domain in beta subunit of DNA dependent RNA-polymerase	Interaction Interface Pymol
e4bbrA6	D:x,y,z->A:X,Y,Z	N-terminal domain in RNA-polymerase beta-prime subunit	Interaction Interface Pymol

e4bbrA6	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
e4bbrA5	A:337-374,A:436-519	cradle loop barrel	RIFT-related	double psi
e4bbrA1	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
e4bbrA9	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
e4bbrA7	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
e4bbrA2	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
e4bbrA3	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
e4bbrA4	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
e4bbrA8	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
e4bbrB6	B:20-218,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
e4bbrB3	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
e4bbrB1	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
e4bbrB7	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
e4bbrB5	B:814-850,B:975-1097	cradle loop barrel	RIFT-related	double psi
e4bbrB4	B:851-974	alpha/beta-Hammerhead/Barrel-sandwich hybrid	alpha/beta-Hammerhead/Barrel-sandwich hybrid	Single hybrid motif
e4bbrB2	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
e4bbrC2	C:3-41,C:173-268	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e4bbrC3	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
e4bbrD1	D:3-76,D:118-221	HhH/H2TH	SAM/DNA-glycosylase	SAM domain-like
e4bbrE2	E:2-142	Restriction endonuclease-like	Eukaryotic RPB5 N-terminal domain	Eukaryotic RPB5 N-terminal domain
e4bbrE1	E:143-215	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit
e4bbrF1	F:69-155	RPB6/omega subunit-like	RPB6/omega subunit-like	RPB6
e4bbrG4	G:1-68	Dodecin subunit-like	Flavin-binding protein dodecin-like	Flavin-binding protein dodecin-like
e4bbrG3	G:69-171	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e4bbrH1	H:2-146	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e4bbrI3	I:2-49	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4bbrI4	I:50-120	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4bbrJ1	J:1-65	HTH	RPB10	RPB10
e4bbrK1	K:1-114	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e4bbrL1	L:27-70	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4bbrM2	M:22-79	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4bbrM1	M:80-214	HTH	HTH	Cyclin-like