Domain ID e2nvxB3

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  • A: beta barrels
  • X: cradle loop barrel
  • H: RIFT-related
  • T: double psi
  • F: RNA_pol_Rpb2_6
UID: 001503554
Type: Automatic domain
Parent: e1twfB1
Range: B:814-850,B:975-1097
Ligands: DUT
PDB: 2nvx
PDB Description: DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE
UniProt: P08518
Hsap BLAST neighbor: P30876
Species: Saccharomyces cerevisiae

Structure of domain e2nvxB3

Domains in the same chain:

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e2nvxB2 B:20-134,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
e2nvxB1 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
e2nvxB7 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
e2nvxB6 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
e2nvxB3 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e2nvxB4 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e2nvxB5 B:1098-1222 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:

e2nvxA3 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
e2nvxA6 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e2nvxA7 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
e2nvxA8 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
e2nvxA2 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
e2nvxA9 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
e2nvxA4 A:1060-1102,A:1301-1445 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
e2nvxA5 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
e2nvxA1 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
e2nvxB2 B:20-134,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
e2nvxB1 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
e2nvxB7 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
e2nvxB6 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
e2nvxB3 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e2nvxB4 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e2nvxB5 B:1098-1222 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
e2nvxC1 C:3-37,C:173-268 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2nvxC2 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
e2nvxE2 E:5-143 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e2nvxE1 E:144-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e2nvxF1 F:72-155 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e2nvxH1 H:2-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e2nvxI1 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2nvxI2 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2nvxJ1 J:1-65 HTH RPB10 RPB10
e2nvxK1 K:1-114 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2nvxL1 L:25-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e2nvxB3 of H-group "RIFT-related":

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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
e2nvxA2 B:x,y,z->A:X,Y,Z second helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e2nvxA8 B:x,y,z->A:X,Y,Z first helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e2nvxA6 B:x,y,z->A:X,Y,Z RIFT-related Interaction Interface Pymol
e2nvxC1 B:X,Y,Z->C:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol
e2nvxC2 B:X,Y,Z->C:x,y,z Insert subdomain of RNA polymerase alpha subunit Interaction Interface Pymol
e2nvxJ1 B:X,Y,Z->J:x,y,z RPB10 Interaction Interface Pymol
e2nvxK1 B:X,Y,Z->K:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol