ECOD: domain e4bbsD2

Domain ID e4bbsD2

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

UID:	001301224
Type:	Automatic domain
Parent:	e1go3F1
Range:	D:3-71,D:131-221
PDB:	4bbs
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

e4bbsD2	D:3-71,D:131-221	HhH/H2TH	SAM/DNA-glycosylase	SAM domain-like

Domains in the same PDB:

Structural contacts of domain e4bbsD2 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
e4bbsG3	D:X,Y,Z->G:x,y,z	Nucleic acid-binding proteins	Interaction Interface Pymol
e4bbsG4	D:X,Y,Z->G:x,y,z	Flavin-binding protein dodecin-like	Interaction Interface Pymol
e4bbsA3	D:x,y,z->A:-X,Y,-Z-1/2	N-terminal domain in RNA-polymerase beta-prime subunit	Interaction Interface Pymol
e4bbsB3	D:x,y,z->B:X,Y,Z	C-terminal domain in beta subunit of DNA dependent RNA-polymerase	Interaction Interface Pymol
e4bbsA3	D:x,y,z->A:X,Y,Z	N-terminal domain in RNA-polymerase beta-prime subunit	Interaction Interface Pymol

e4bbsA3	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
e4bbsA6	A:337-374,A:436-519	cradle loop barrel	RIFT-related	double psi
e4bbsA7	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
e4bbsA8	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
e4bbsA2	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
e4bbsA9	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
e4bbsA4	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
e4bbsA5	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
e4bbsA1	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
e4bbsB2	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
e4bbsB7	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
e4bbsB1	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
e4bbsB6	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
e4bbsB4	B:814-850,B:975-1097	cradle loop barrel	RIFT-related	double psi
e4bbsB5	B:851-974	alpha/beta-Hammerhead/Barrel-sandwich hybrid	alpha/beta-Hammerhead/Barrel-sandwich hybrid	Single hybrid motif
e4bbsB3	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
e4bbsC3	C:3-41,C:173-268	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e4bbsC4	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
e4bbsD2	D:3-71,D:131-221	HhH/H2TH	SAM/DNA-glycosylase	SAM domain-like
e4bbsE2	E:1-141	Restriction endonuclease-like	Eukaryotic RPB5 N-terminal domain	Eukaryotic RPB5 N-terminal domain
e4bbsE1	E:142-213	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit	RPB5-like RNA polymerase subunit
e4bbsF1	F:69-155	RPB6/omega subunit-like	RPB6/omega subunit-like	RPB6
e4bbsG4	G:1-68	Dodecin subunit-like	Flavin-binding protein dodecin-like	Flavin-binding protein dodecin-like
e4bbsG3	G:69-171	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e4bbsH2	H:2-146	OB-fold	Nucleic acid-binding proteins	Nucleic acid-binding proteins
e4bbsI3	I:2-49	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4bbsI4	I:50-120	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4bbsJ1	J:1-65	HTH	RPB10	RPB10
e4bbsK1	K:1-114	DCoH-like	RBP11-like subunits of RNA polymerase	RBP11-like subunits of RNA polymerase
e4bbsL1	L:1-44	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4bbsM1	M:22-79	Rubredoxin-like	Rubredoxin-related	Rubredoxin-related
e4bbsM2	M:80-213	HTH	HTH	Cyclin-like