Domain ID e2ja6B2

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  • A: a+b complex topology
  • X: barrel domain in beta subunit of DNA dependent RNA-polymerase
  • H: barrel domain in beta subunit of DNA dependent RNA-polymerase
  • T: barrel domain in beta subunit of DNA dependent RNA-polymerase
  • F: RNA_pol_Rpb2_6,RNA_pol_Rpb2_5
UID: 001509881
Type: Automatic domain
Parent: e4by7B4
Range: B:631-813
PDB: 2ja6
PDB Description: DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE
UniProt: P08518
Hsap BLAST neighbor: P30876
Species: Saccharomyces cerevisiae

Structure of domain e2ja6B2

Domains in the same chain:

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e2ja6B6 B:18-70,B:90-133,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
e2ja6B3 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
e2ja6B1 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
e2ja6B2 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
e2ja6B5 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e2ja6B4 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e2ja6B7 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:

e2ja6A6 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
e2ja6A5 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e2ja6A1 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
e2ja6A9 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
e2ja6A7 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
e2ja6A2 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
e2ja6A3 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
e2ja6A4 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
e2ja6A8 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
e2ja6B6 B:18-70,B:90-133,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
e2ja6B3 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
e2ja6B1 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
e2ja6B2 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
e2ja6B5 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e2ja6B4 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e2ja6B7 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
e2ja6C1 C:3-37,C:173-268 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2ja6C2 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
e2ja6D1 D:4-71,D:131-221 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e2ja6E2 E:5-143 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e2ja6E1 E:144-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e2ja6F1 F:72-155 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e2ja6G2 G:1-80 Dodecin subunit-like Flavin-binding protein dodecin-like Flavin-binding protein dodecin-like
e2ja6G1 G:81-171 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e2ja6H1 H:2-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e2ja6I1 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2ja6I2 I:50-117 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2ja6J1 J:1-65 HTH RPB10 RPB10
e2ja6K1 K:1-114 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2ja6L1 L:25-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e2ja6B2 of H-group "barrel 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 IDSymmetry operatorH-groupVisualization
e2ja6A7 B:x,y,z->A:X,Y,Z second helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e2ja6C2 B:X,Y,Z->C:x,y,z Insert subdomain of RNA polymerase alpha subunit Interaction Interface Pymol
e2ja6J1 B:X,Y,Z->J:x,y,z RPB10 Interaction Interface Pymol
e2ja6I2 B:X,Y,Z->I:x,y,z Rubredoxin-related Interaction Interface Pymol