Domain ID e2nvyI1

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  • A: few secondary structure elements
  • X: Rubredoxin-like
  • H: Rubredoxin-related
  • T: Rubredoxin-related
  • F: RNA_POL_M_15KD
UID: 000088716
Type: Automatic domain
Parent: e1twfI1
Range: I:2-49
Ligands: ZN
PDB: 2nvy
PDB Description: DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9
UniProt: P27999
Hsap BLAST neighbor: P36954
Species: Saccharomyces cerevisiae

Structure of domain e2nvyI1

Domains in the same chain:

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e2nvyI1 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2nvyI2 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Domains in the same PDB:

e2nvyA6 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
e2nvyA5 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e2nvyA1 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
e2nvyA9 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
e2nvyA7 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
e2nvyA2 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
e2nvyA3 A:1060-1112,A:1331-1450 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
e2nvyA4 A:1113-1141,A:1273-1330 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
e2nvyA8 A:1142-1272 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
e2nvyB5 B:18-138,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
e2nvyB6 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
e2nvyB2 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
e2nvyB4 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
e2nvyB3 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e2nvyB7 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e2nvyB1 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
e2nvyC1 C:3-37,C:173-268 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2nvyC2 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
e2nvyE2 E:5-143 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e2nvyE1 E:144-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e2nvyF1 F:72-155 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e2nvyH1 H:2-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e2nvyI1 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2nvyI2 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2nvyJ1 J:1-65 HTH RPB10 RPB10
e2nvyK1 K:1-114 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2nvyL1 L:25-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e2nvyI1 of H-group "Rubredoxin-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
e2nvyA8 I:x,y,z->A:X,Y,Z permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit Interaction Interface Pymol
e2nvyB6 I:x,y,z->B:X,Y,Z insertion domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e2nvyA2 I:x,y,z->A:-X+3/2,Y-1/2,-Z+1/2 third helical domain in yeast RNA-polymerase II beta-prime subunit Interaction Interface Pymol