Domain ID e3gtmB1

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  • A: a+b complex topology
  • X: alpha/beta-Hammerhead/Barrel-sandwich hybrid
  • H: alpha/beta-Hammerhead/Barrel-sandwich hybrid
  • T: Single hybrid motif
  • F: RNA_pol_Rpb2_6
UID: 001509411
Type: Automatic domain
Parent: e4c2mB6
Range: B:851-974
PDB: 3gtm
PDB Description: DNA-directed RNA polymerase II subunit RPB2
UniProt: P08518
Hsap BLAST neighbor: P30876
Species:

Structure of domain e3gtmB1

Domains in the same chain:

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e3gtmB4 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
e3gtmB5 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
e3gtmB6 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
e3gtmB2 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
e3gtmB3 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e3gtmB1 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3gtmB7 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:

e3gtmA4 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
e3gtmA5 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e3gtmA2 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
e3gtmA9 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
e3gtmA3 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
e3gtmA7 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
e3gtmA1 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
e3gtmA6 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
e3gtmA8 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
e3gtmB4 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
e3gtmB5 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
e3gtmB6 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
e3gtmB2 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
e3gtmB3 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e3gtmB1 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3gtmB7 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
e3gtmC3 C:3-41,C:173-268 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e3gtmC4 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
e3gtmE2 E:2-142 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e3gtmE1 E:143-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e3gtmF1 F:72-155 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e3gtmH1 H:2-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e3gtmI1 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e3gtmI2 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e3gtmJ1 J:1-65 HTH RPB10 RPB10
e3gtmK1 K:1-114 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e3gtmL1 L:25-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e3gtmS1 S:147-258 RuvA-C Elongation factor TFIIS domain 2/ Kix domain of creb binding protein Elongation factor TFIIS domain 2/ Kix domain of creb binding protein
e3gtmS2 S:259-309 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e3gtmB1 of H-group "alpha/beta-Hammerhead/Barrel-sandwich hybrid":

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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
e3gtmA4 B:x,y,z->A:X,Y,Z N-terminal domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e3gtmC4 B:X,Y,Z->C:x,y,z Insert subdomain of RNA polymerase alpha subunit Interaction Interface Pymol
e3gtmL1 B:X,Y,Z->L:x,y,z Rubredoxin-related Interaction Interface Pymol
e3gtmL1 B:-X,Y,-Z->L:x,y,z Rubredoxin-related Interaction Interface Pymol
e3gtmC4 B:-X,Y,-Z->C:x,y,z Insert subdomain of RNA polymerase alpha subunit Interaction Interface Pymol