Domain ID e3po3A9

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  • A: a+b complex topology
  • X: first helical domain in RNA-polymerase beta-prime subunit
  • H: first helical domain in RNA-polymerase beta-prime subunit
  • T: first helical domain in RNA-polymerase beta-prime subunit
  • F: RNA_pol_Rpb1_3
UID: 001387528
Type: Automatic domain
Parent: e1twfA6
Range: A:520-662
PDB: 3po3
PDB Description: DNA-directed RNA polymerase II subunit RPB1
UniProt: P04050
Hsap BLAST neighbor: P24928
Species: Saccharomyces cerevisiae

Structure of domain e3po3A9

Domains in the same chain:

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e3po3A4 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
e3po3A5 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e3po3A2 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
e3po3A9 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
e3po3A3 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
e3po3A7 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
e3po3A1 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
e3po3A6 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
e3po3A8 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

Domains in the same PDB:

e3po3A4 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
e3po3A5 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e3po3A2 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
e3po3A9 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
e3po3A3 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
e3po3A7 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
e3po3A1 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
e3po3A6 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
e3po3A8 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
e3po3B2 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
e3po3B7 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
e3po3B4 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
e3po3B3 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
e3po3B1 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e3po3B5 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3po3B6 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
e3po3C3 C:3-41,C:173-268 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e3po3C4 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
e3po3D1 D:4-71,D:131-221 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e3po3E2 E:2-142 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e3po3E1 E:143-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e3po3F1 F:72-155 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e3po3G4 G:1-68 Dodecin subunit-like Flavin-binding protein dodecin-like Flavin-binding protein dodecin-like
e3po3G3 G:69-171 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e3po3H1 H:2-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e3po3I1 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e3po3I2 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e3po3J1 J:1-65 HTH RPB10 RPB10
e3po3K1 K:1-114 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e3po3L1 L:25-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e3po3S1 S:144-258 RuvA-C Elongation factor TFIIS domain 2/ Kix domain of creb binding protein Elongation factor TFIIS domain 2/ Kix domain of creb binding protein
e3po3S2 S:259-309 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e3po3A9 of H-group "first helical domain in RNA-polymerase beta-prime subunit":

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
e3po3B1 A:X,Y,Z->B:x,y,z RIFT-related Interaction Interface Pymol
e3po3H1 A:X,Y,Z->H:x,y,z Nucleic acid-binding proteins Interaction Interface Pymol
e3po3K1 A:X,Y,Z->K:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol
e3po3C3 A:X,Y,Z->C:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol