Domain ID e4jk1B4

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  • A: a+b two layers
  • X: DCoH-like
  • H: RBP11-like subunits of RNA polymerase
  • T: RBP11-like subunits of RNA polymerase
  • F: RNA_pol_L
UID: 001224570
Type: Automatic domain
Parent: e1bdfA1
Range: B:6-52,B:174-236
PDB: 4jk1
PDB Description: Escherichia coli RNA polymerase alpha subunit
UniProt: P0A7Z4
Species:

Structure of domain e4jk1B4

Domains in the same chain:

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e4jk1B4 B:6-52,B:174-236 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4jk1B3 B:53-173 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit

Domains in the same PDB:

e4jk1A9 A:3-52,A:179-234 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4jk1A7 A:53-178 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e4jk1A8 A:235-325 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e4jk1B4 B:6-52,B:174-236 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4jk1B3 B:53-173 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e4jk1C3 C:8-152,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
e4jk1C10 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
e4jk1C1 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
e4jk1C8 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
e4jk1C9 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
e4jk1C4 C:713-790 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jk1C11 C:791-828,C:1058-1237 cradle loop barrel RIFT-related double psi
e4jk1C12 C:828-938 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jk1C5 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
e4jk1C2 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
e4jk1D5 D:8-333 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
e4jk1D2 D:334-377,D:418-498 cradle loop barrel RIFT-related double psi
e4jk1D4 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
e4jk1D6 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
e4jk1D8 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
e4jk1D1 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
e4jk1D3 D:895-931,D:1135-1151,D:1216-1376 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
e4jk1D7 D:1152-1215 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jk1E1 E:2-91 RPB6/omega subunit-like RPB6/omega subunit-like RNA polymerase omega subunit
e4jk1F4 F:6-52,F:174-234 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4jk1F3 F:53-173 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e4jk1G4 G:6-52,G:174-232 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4jk1G3 G:53-173 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e4jk1H3 H:8-152,H: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
e4jk1H10 H:153-226,H: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
e4jk1H1 H:227-234,H: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
e4jk1H8 H: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
e4jk1H9 H: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
e4jk1H4 H:713-790 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jk1H11 H:791-828,H:1058-1237 cradle loop barrel RIFT-related double psi
e4jk1H12 H:828-938 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jk1H5 H: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
e4jk1H2 H: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
e4jk1I2 I:8-333 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
e4jk1I7 I:334-377,I:418-498 cradle loop barrel RIFT-related double psi
e4jk1I8 I: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
e4jk1I1 I: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
e4jk1I3 I: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
e4jk1I6 I: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
e4jk1I4 I:895-931,I:1135-1151,I:1216-1376 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
e4jk1I5 I:1152-1215 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jk1J1 J:2-77 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e4jk1X1 X:6-64 RNA polymerase sigma factor rpoD N-terminal domain RNA polymerase sigma factor rpoD N-terminal domain RNA polymerase sigma factor rpoD N-terminal domain
e4jk1X2 X:95-154,X:212-446 Sigma2 domain-like Sigma2 domain of RNA polymerase sigma factors Sigma2 domain of RNA polymerase sigma factors
e4jk1X4 X:447-507 HTH HTH tri-helical
e4jk1X3 X:508-609 HTH HTH tri-helical
e4jk1Y2 Y:95-154,Y:212-446 Sigma2 domain-like Sigma2 domain of RNA polymerase sigma factors Sigma2 domain of RNA polymerase sigma factors
e4jk1Y1 Y:447-507 HTH HTH tri-helical
e4jk1Y3 Y:508-609 HTH HTH tri-helical

Structural contacts of domain e4jk1B4 of H-group "RBP11-like subunits of RNA polymerase":

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
e4jk1A7 B:x,y,z->A:X,Y,Z Insert subdomain of RNA polymerase alpha subunit Interaction Interface Pymol
e4jk1A9 B:x,y,z->A:X,Y,Z RBP11-like subunits of RNA polymerase Interaction Interface Pymol
e4jk1A8 B:x,y,z->A:X,Y,Z SAM/DNA-glycosylase Interaction Interface Pymol
e4jk1D2 B:X,Y,Z->D:x,y,z RIFT-related Interaction Interface Pymol
e4jk1D6 B:X,Y,Z->D:x,y,z first helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e4jk1D4 B:X,Y,Z->D:x,y,z inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit Interaction Interface Pymol
e4jk1H8 B:x,y,z->H:-X-1/2,-Y,Z-1/2 MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase Interaction Interface Pymol
e4jk1H9 B:x,y,z->H:-X-1/2,-Y,Z-1/2 barrel domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e4jk1H10 B:x,y,z->H:-X-1/2,-Y,Z-1/2 insertion domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e4jk1C11 B:X,Y,Z->C:x,y,z RIFT-related Interaction Interface Pymol