Domain ID e2b8kA3

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  • A: a+b complex topology
  • X: second helical domain in RNA-polymerase beta-prime subunit
  • H: second helical domain in RNA-polymerase beta-prime subunit
  • T: second helical domain in RNA-polymerase beta-prime subunit
  • F: RNA_pol_Rpb1_5,RNA_pol_Rpb1_4
UID: 001385797
Type: Automatic domain
Parent: e1twfA10
Range: A:663-871
PDB: 2b8k
PDB Description: DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
UniProt: P04050
Hsap BLAST neighbor: P24928
Species: Saccharomyces cerevisiae

Structure of domain e2b8kA3

Domains in the same chain:

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e2b8kA4 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
e2b8kA5 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e2b8kA2 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
e2b8kA9 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
e2b8kA3 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
e2b8kA7 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
e2b8kA1 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
e2b8kA6 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
e2b8kA8 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:

e2b8kA4 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
e2b8kA5 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e2b8kA2 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
e2b8kA9 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
e2b8kA3 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
e2b8kA7 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
e2b8kA1 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
e2b8kA6 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
e2b8kA8 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
e2b8kB2 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
e2b8kB4 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
e2b8kB6 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
e2b8kB3 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
e2b8kB7 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e2b8kB5 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e2b8kB1 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
e2b8kC1 C:3-37,C:173-268 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2b8kC2 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
e2b8kD1 D:4-71,D:131-221 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e2b8kE2 E:5-143 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e2b8kE1 E:144-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e2b8kF1 F:72-155 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e2b8kG2 G:1-80 Dodecin subunit-like Flavin-binding protein dodecin-like Flavin-binding protein dodecin-like
e2b8kG1 G:81-171 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e2b8kH1 H:2-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e2b8kI1 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2b8kI2 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2b8kJ1 J:1-65 HTH RPB10 RPB10
e2b8kK1 K:1-114 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2b8kL1 L:25-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e2b8kA3 of H-group "second 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
e2b8kB1 A:X,Y,Z->B:x,y,z C-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e2b8kB2 A:X,Y,Z->B:x,y,z N-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e2b8kB7 A:X,Y,Z->B:x,y,z RIFT-related Interaction Interface Pymol
e2b8kB4 A:X,Y,Z->B:x,y,z insertion domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e2b8kB3 A:X,Y,Z->B:x,y,z barrel domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e2b8kB6 A:X,Y,Z->B:x,y,z inserted a+b domain in yeast RNA polymerase beta subunit Interaction Interface Pymol
e2b8kE1 A:X,Y,Z->E:x,y,z RPB5-like RNA polymerase subunit Interaction Interface Pymol
e2b8kF1 A:X,Y,Z->F:x,y,z RPB6/omega subunit-like Interaction Interface Pymol
e2b8kI2 A:X,Y,Z->I:x,y,z Rubredoxin-related Interaction Interface Pymol
e2b8kH1 A:X,Y,Z->H:x,y,z Nucleic acid-binding proteins Interaction Interface Pymol
e2b8kC1 A:X,Y,Z->C:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol