Domain ID e4mexD2

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  • A: beta barrels
  • X: cradle loop barrel
  • H: RIFT-related
  • T: double psi
  • F: RNA_pol_Rpb1_2
UID: 001511603
Type: Automatic domain
Parent: e4ljzD2
Range: D:334-377,D:418-498
Ligands: MG
PDB: 4mex
PDB Description: DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA'
UniProt: P0A8T7
Hsap BLAST neighbor: O14802
Species:

Structure of domain e4mexD2

Domains in the same chain:

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e4mexD3 D:9-333 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
e4mexD2 D:334-377,D:418-498 cradle loop barrel RIFT-related double psi
e4mexD6 D:378-417 inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit
e4mexD8 D:499-638 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
e4mexD1 D:639-810 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
e4mexD5 D:811-894 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
e4mexD4 D:895-932,D:1137-1151,D:1216-1374 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
e4mexD7 D:1152-1215 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif

Domains in the same PDB:

e4mexA2 A:5-52,A:174-231 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4mexA3 A:53-173 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e4mexA1 A:232-324 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e4mexB3 B:6-52,B:179-232 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4mexB1 B:53-178 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e4mexB2 B:252-323 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e4mexC3 C:3-152,C:450-577 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
e4mexC10 C:153-226,C:343-451 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
e4mexC1 C:227-234,C:289-342 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
e4mexC8 C:235-288 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
e4mexC9 C:578-714 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
e4mexC4 C:713-790 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4mexC11 C:791-828,C:1058-1237 cradle loop barrel RIFT-related double psi
e4mexC12 C:828-938 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4mexC5 C:939-1038 Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit
e4mexC2 C:1238-1342 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
e4mexD3 D:9-333 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
e4mexD2 D:334-377,D:418-498 cradle loop barrel RIFT-related double psi
e4mexD6 D:378-417 inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit
e4mexD8 D:499-638 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
e4mexD1 D:639-810 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
e4mexD5 D:811-894 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
e4mexD4 D:895-932,D:1137-1151,D:1216-1374 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
e4mexD7 D:1152-1215 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4mexE1 E:3-91 RPB6/omega subunit-like RPB6/omega subunit-like RNA polymerase omega subunit
e4mexF3 F:95-165,F:210-446 Sigma2 domain-like Sigma2 domain of RNA polymerase sigma factors Sigma2 domain of RNA polymerase sigma factors
e4mexF2 F:447-515 HTH HTH tri-helical
e4mexF1 F:516-612 HTH HTH tri-helical
e4mexG2 G:8-52,G:164-232 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4mexG1 G:53-163 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e4mexH2 H:6-52,H:164-232 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4mexH1 H:53-163 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e4mexI3 I:3-152,I:450-577 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
e4mexI10 I:153-226,I:343-451 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
e4mexI1 I:227-234,I:289-342 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
e4mexI8 I:235-288 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
e4mexI9 I:578-714 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
e4mexI4 I:713-790 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4mexI11 I:791-828,I:1058-1237 cradle loop barrel RIFT-related double psi
e4mexI12 I:828-938 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4mexI5 I:939-1038 Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit
e4mexI2 I:1238-1342 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
e4mexJ5 J:16-333 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
e4mexJ6 J:334-377,J:418-498 cradle loop barrel RIFT-related double psi
e4mexJ3 J:378-417 inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit
e4mexJ8 J:499-638 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
e4mexJ1 J:639-810 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
e4mexJ7 J:811-894 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
e4mexJ9 J:895-932,J:1137-1151,J:1216-1374 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
e4mexJ4 J:1152-1215 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4mexK1 K:3-77 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e4mexL3 L:95-165,L:210-446 Sigma2 domain-like Sigma2 domain of RNA polymerase sigma factors Sigma2 domain of RNA polymerase sigma factors
e4mexL2 L:447-515 HTH HTH tri-helical
e4mexL1 L:516-612 HTH HTH tri-helical

Structural contacts of domain e4mexD2 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
e4mexC11 D:x,y,z->C:X,Y,Z RIFT-related Interaction Interface Pymol
e4mexC2 D:x,y,z->C:X,Y,Z C-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e4mexE1 D:X,Y,Z->E:x,y,z RPB6/omega subunit-like Interaction Interface Pymol
e4mexB3 D:x,y,z->B:X,Y,Z RBP11-like subunits of RNA polymerase Interaction Interface Pymol