Domain ID e1wcmB5

Download files:
  • A: beta barrels
  • X: cradle loop barrel
  • H: RIFT-related
  • T: double psi
  • F: RNA_pol_Rpb2_6
UID: 001511372
Type: Automatic domain
Parent: e1twfB1
Range: B:814-850,B:975-1097
PDB: 1wcm
PDB Description: DNA-DIRECTED RNA POLYMERASE II SECOND LARGEST SUBUNIT
UniProt: P08518
Hsap BLAST neighbor: P30876
Species: Saccharomyces cerevisiae

Structure of domain e1wcmB5

Domains in the same chain:

Download Pymol

e1wcmB6 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
e1wcmB2 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
e1wcmB3 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
e1wcmB1 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
e1wcmB5 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e1wcmB4 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e1wcmB7 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:

e1wcmA6 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
e1wcmA5 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e1wcmA1 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
e1wcmA9 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
e1wcmA7 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
e1wcmA2 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
e1wcmA3 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
e1wcmA4 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
e1wcmA8 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
e1wcmB6 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
e1wcmB2 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
e1wcmB3 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
e1wcmB1 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
e1wcmB5 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e1wcmB4 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e1wcmB7 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
e1wcmC2 C:3-41,C:173-268 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e1wcmC3 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
e1wcmD1 D:4-221 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e1wcmE2 E:2-142 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e1wcmE1 E:143-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e1wcmF1 F:72-155 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e1wcmG4 G:1-68 Dodecin subunit-like Flavin-binding protein dodecin-like Flavin-binding protein dodecin-like
e1wcmG3 G:69-171 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e1wcmH1 H:2-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e1wcmI3 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e1wcmI4 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e1wcmJ1 J:1-65 HTH RPB10 RPB10
e1wcmK1 K:1-115 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e1wcmL1 L:25-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e1wcmB5 of H-group "RIFT-related":

Sorry, the images are being generated.

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
e1wcmA9 B:x,y,z->A:X,Y,Z first helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e1wcmA7 B:x,y,z->A:X,Y,Z second helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e1wcmA5 B:x,y,z->A:X,Y,Z RIFT-related Interaction Interface Pymol
e1wcmC2 B:X,Y,Z->C:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol
e1wcmC3 B:X,Y,Z->C:x,y,z Insert subdomain of RNA polymerase alpha subunit Interaction Interface Pymol
e1wcmJ1 B:X,Y,Z->J:x,y,z RPB10 Interaction Interface Pymol
e1wcmK1 B:X,Y,Z->K:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol