Domain ID e1ynnD1

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  • A: beta barrels
  • X: cradle loop barrel
  • H: RIFT-related
  • T: double psi
  • F: RNA_pol_Rpb1_2
UID: 001746098
Type: Automatic domain
Parent: e1twfA1
Range: D:610-777
PDB: 1ynn
PDB Description: DNA-directed RNA polymerase beta' chain
UniProt: Q9KWU6
Hsap BLAST neighbor: O14802
Species: Thermus aquaticus

Structure of domain e1ynnD1

Domains in the same chain:

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e1ynnD4 D:3-157,D:453-616 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
e1ynnD2 D:158-214 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e1ynnD7 D:215-340 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Duplicated hybrid motif
e1ynnD3 D:341-391 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e1ynnD6 D:392-452 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e1ynnD1 D:610-777 cradle loop barrel RIFT-related double psi
e1ynnD5 D:778-948 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
e1ynnD8 D:949-1109 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
e1ynnD9 D:1110-1240 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

Domains in the same PDB:

e1ynnA1 A:6-49,A:173-227 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e1ynnA2 A:50-172 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e1ynnB1 B:6-49,B:173-227 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e1ynnB2 B:50-172 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e1ynnC4 C:1-141,C:331-456 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
e1ynnC5 C:142-330 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
e1ynnC6 C:458-591 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
e1ynnC2 C:592-662 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e1ynnC9 C:664-700,C:827-999 cradle loop barrel RIFT-related double psi
e1ynnC8 C:699-832 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e1ynnC7 C:999-1114 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
e1ynnD4 D:3-157,D:453-616 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
e1ynnD2 D:158-214 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e1ynnD7 D:215-340 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Duplicated hybrid motif
e1ynnD3 D:341-391 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e1ynnD6 D:392-452 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e1ynnD1 D:610-777 cradle loop barrel RIFT-related double psi
e1ynnD5 D:778-948 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
e1ynnD8 D:949-1109 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
e1ynnD9 D:1110-1240 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
e1ynnJ2 J:1253-1269,J:1331-1501 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
e1ynnJ1 J:1270-1330 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e1ynnK1 K:2-95 RPB6/omega subunit-like RPB6/omega subunit-like RNA polymerase omega subunit

Structural contacts of domain e1ynnD1 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
e1ynnC9 D:x,y,z->C:X,Y,Z RIFT-related Interaction Interface Pymol
e1ynnC8 D:x,y,z->C:X,Y,Z alpha/beta-Hammerhead/Barrel-sandwich hybrid Interaction Interface Pymol
e1ynnC7 D:x,y,z->C:X,Y,Z C-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e1ynnJ2 D:X,Y,Z->J:x,y,z central helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e1ynnB1 D:x,y,z->B:X,Y,Z RBP11-like subunits of RNA polymerase Interaction Interface Pymol
e1ynnK1 D:X,Y,Z->K:x,y,z RPB6/omega subunit-like Interaction Interface Pymol