Domain ID e2e2iB8

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  • A: beta barrels
  • X: cradle loop barrel
  • H: RIFT-related
  • T: double psi
  • F: RNA_pol_Rpb2_6
UID: 001117579
Type: Manual and representative domain
Range: B:814-850,B:975-1097
Ligands: DGT
PDB: 2e2i
PDB Description: DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE
UniProt: P08518
Hsap BLAST neighbor: P30876
Species: Saccharomyces cerevisiae

Structure of domain e2e2iB8

Domains in the same chain:

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e2e2iB10 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
e2e2iB11 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
e2e2iB14 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
e2e2iB12 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
e2e2iB8 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e2e2iB9 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e2e2iB13 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:

e2e2iA7 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
e2e2iA4 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e2e2iA1 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
e2e2iA3 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
e2e2iA8 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
e2e2iA6 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
e2e2iA5 A:1060-1102,A:1301-1449 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
e2e2iA9 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
e2e2iA2 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
e2e2iB10 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
e2e2iB11 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
e2e2iB14 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
e2e2iB12 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
e2e2iB8 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e2e2iB9 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e2e2iB13 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
e2e2iC1 C:3-37,C:173-268 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2e2iC2 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
e2e2iE2 E:5-143 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e2e2iE1 E:144-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e2e2iF1 F:72-155 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e2e2iH1 H:2-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e2e2iI1 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2e2iI2 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2e2iJ1 J:1-65 HTH RPB10 RPB10
e2e2iK1 K:1-114 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2e2iL1 L:25-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e2e2iB8 of H-group "RIFT-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 IDSymmetry operatorH-groupVisualization
e2e2iA3 B:x,y,z->A:X,Y,Z first helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e2e2iA8 B:x,y,z->A:X,Y,Z second helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e2e2iA4 B:x,y,z->A:X,Y,Z RIFT-related Interaction Interface Pymol
e2e2iC2 B:X,Y,Z->C:x,y,z Insert subdomain of RNA polymerase alpha subunit Interaction Interface Pymol
e2e2iC1 B:X,Y,Z->C:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol
e2e2iJ1 B:X,Y,Z->J:x,y,z RPB10 Interaction Interface Pymol
e2e2iL1 B:X,Y,Z->L:x,y,z Rubredoxin-related Interaction Interface Pymol
e2e2iK1 B:X,Y,Z->K:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol