Domain ID e4a3dB4

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  • A: beta barrels
  • X: cradle loop barrel
  • H: RIFT-related
  • T: double psi
  • F: RNA_pol_Rpb2_6
UID: 001508515
Type: Automatic domain
Parent: e1twfB1
Range: B:814-850,B:975-1097
PDB: 4a3d
PDB Description: DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2
UniProt: P08518
Hsap BLAST neighbor: P30876
Species: Saccharomyces cerevisiae

Structure of domain e4a3dB4

Domains in the same chain:

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e4a3dB3 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
e4a3dB2 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
e4a3dB6 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
e4a3dB5 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
e4a3dB4 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e4a3dB7 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4a3dB1 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:

e4a3dA3 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
e4a3dA6 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e4a3dA7 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
e4a3dA8 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
e4a3dA2 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
e4a3dA9 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
e4a3dA4 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
e4a3dA5 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
e4a3dA1 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
e4a3dB3 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
e4a3dB2 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
e4a3dB6 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
e4a3dB5 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
e4a3dB4 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e4a3dB7 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4a3dB1 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
e4a3dC3 C:3-41,C:173-268 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4a3dC4 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
e4a3dD1 D:3-71,D:131-221 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e4a3dE2 E:2-142 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e4a3dE1 E:143-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e4a3dF1 F:72-155 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e4a3dG4 G:1-68 Dodecin subunit-like Flavin-binding protein dodecin-like Flavin-binding protein dodecin-like
e4a3dG3 G:69-171 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e4a3dH1 H:2-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e4a3dI1 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4a3dI2 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4a3dJ1 J:1-65 HTH RPB10 RPB10
e4a3dK1 K:1-115 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4a3dL1 L:25-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e4a3dB4 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
e4a3dA6 B:x,y,z->A:X,Y,Z RIFT-related Interaction Interface Pymol
e4a3dA8 B:x,y,z->A:X,Y,Z first helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e4a3dA2 B:x,y,z->A:X,Y,Z second helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e4a3dC4 B:X,Y,Z->C:x,y,z Insert subdomain of RNA polymerase alpha subunit Interaction Interface Pymol
e4a3dC3 B:X,Y,Z->C:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol
e4a3dJ1 B:X,Y,Z->J:x,y,z RPB10 Interaction Interface Pymol
e4a3dK1 B:X,Y,Z->K:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol