Domain ID e4bbsI3

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  • A: few secondary structure elements
  • X: Rubredoxin-like
  • H: Rubredoxin-related
  • T: Rubredoxin-related
  • F: RNA_POL_M_15KD
UID: 001247338
Type: Automatic domain
Parent: e1twfI1
Range: I:2-49
Ligands: ZN
PDB: 4bbs
PDB Description: DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9
UniProt: P27999
Hsap BLAST neighbor: P36954
Species: Saccharomyces cerevisiae

Structure of domain e4bbsI3

Domains in the same chain:

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e4bbsI3 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4bbsI4 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Domains in the same PDB:

e4bbsA3 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
e4bbsA6 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e4bbsA7 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
e4bbsA8 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
e4bbsA2 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
e4bbsA9 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
e4bbsA4 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
e4bbsA5 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
e4bbsA1 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
e4bbsB2 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
e4bbsB7 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
e4bbsB1 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
e4bbsB6 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
e4bbsB4 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e4bbsB5 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4bbsB3 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
e4bbsC3 C:3-41,C:173-268 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4bbsC4 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
e4bbsD2 D:3-71,D:131-221 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e4bbsE2 E:1-141 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e4bbsE1 E:142-213 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e4bbsF1 F:69-155 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e4bbsG4 G:1-68 Dodecin subunit-like Flavin-binding protein dodecin-like Flavin-binding protein dodecin-like
e4bbsG3 G:69-171 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e4bbsH2 H:2-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e4bbsI3 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4bbsI4 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4bbsJ1 J:1-65 HTH RPB10 RPB10
e4bbsK1 K:1-114 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4bbsL1 L:1-44 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4bbsM1 M:22-79 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4bbsM2 M:80-213 HTH HTH Cyclin-like

Structural contacts of domain e4bbsI3 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
e4bbsA5 I:x,y,z->A:X,Y,Z ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit Interaction Interface Pymol
e4bbsA1 I:x,y,z->A:X,Y,Z permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit Interaction Interface Pymol
e4bbsB7 I:x,y,z->B:X,Y,Z insertion domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e4bbsA9 I:x,y,z->A:X-1/2,-Y+1/2,-Z third helical domain in yeast RNA-polymerase II beta-prime subunit Interaction Interface Pymol