Domain ID e4jkrF1

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  • A: alpha arrays
  • X: HTH
  • H: HTH
  • T: tri-helical
  • F: Sigma70_r4
UID: 001393299
Type: Automatic domain
Parent: e2a6eF2
Range: F:516-613
Ligands: SR
PDB: 4jkr
PDB Description: RNA polymerase sigma factor RpoD
UniProt: P00579
Species:

Structure of domain e4jkrF1

Domains in the same chain:

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e4jkrF3 F:95-171,F:210-446 Sigma2 domain-like Sigma2 domain of RNA polymerase sigma factors Sigma2 domain of RNA polymerase sigma factors
e4jkrF2 F:447-515 HTH HTH tri-helical
e4jkrF1 F:516-613 HTH HTH tri-helical

Domains in the same PDB:

e4jkrA4 A:6-52,A:174-232 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4jkrA3 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
e4jkrB4 B:6-52,B:174-232 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4jkrB3 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
e4jkrC4 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
e4jkrC10 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
e4jkrC2 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
e4jkrC8 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
e4jkrC9 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
e4jkrC5 C:713-790 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jkrC11 C:791-828,C:1060-1237 cradle loop barrel RIFT-related double psi
e4jkrC12 C:828-938,C:1039-1059 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jkrC1 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
e4jkrC3 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
e4jkrD1 D:10-341 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
e4jkrD6 D:334-498 cradle loop barrel RIFT-related double psi
e4jkrD5 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
e4jkrD2 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
e4jkrD7 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
e4jkrD3 D:895-931,D:1214-1376 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
e4jkrD9 D:944-1022 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jkrD8 D:1023-1128 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jkrD10 D:1136-1215 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jkrE1 E:2-91 RPB6/omega subunit-like RPB6/omega subunit-like RNA polymerase omega subunit
e4jkrF3 F:95-171,F:210-446 Sigma2 domain-like Sigma2 domain of RNA polymerase sigma factors Sigma2 domain of RNA polymerase sigma factors
e4jkrF2 F:447-515 HTH HTH tri-helical
e4jkrF1 F:516-613 HTH HTH tri-helical
e4jkrG4 G:6-52,G:174-232 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4jkrG3 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
e4jkrH4 H:6-52,H:174-232 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4jkrH3 H:53-173 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e4jkrI10 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
e4jkrI12 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
e4jkrI13 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
e4jkrI16 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
e4jkrI4 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
e4jkrI1 I:713-790 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jkrI8 I:791-828,I:1058-1237 cradle loop barrel RIFT-related double psi
e4jkrI9 I:828-938 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jkrI18 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
e4jkrI17 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
e4jkrJ1 J:14-341 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
e4jkrJ5 J:334-498 cradle loop barrel RIFT-related double psi
e4jkrJ4 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
e4jkrJ2 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
e4jkrJ7 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
e4jkrJ3 J:895-931,J:1214-1376 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
e4jkrJ8 J:944-1022 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jkrJ6 J:1023-1128 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jkrJ9 J:1136-1215 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4jkrK1 K:2-91 RPB6/omega subunit-like RPB6/omega subunit-like RNA polymerase omega subunit
e4jkrL3 L:95-171,L:210-446 Sigma2 domain-like Sigma2 domain of RNA polymerase sigma factors Sigma2 domain of RNA polymerase sigma factors
e4jkrL1 L:447-515 HTH HTH tri-helical
e4jkrL2 L:516-613 HTH HTH tri-helical

Structural contacts of domain e4jkrF1 of H-group "HTH":

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
e4jkrD6 F:x,y,z->D:X,Y,Z RIFT-related Interaction Interface Pymol
e4jkrD1 F:x,y,z->D:X,Y,Z N-terminal domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e4jkrC12 F:x,y,z->C:X,Y,Z alpha/beta-Hammerhead/Barrel-sandwich hybrid Interaction Interface Pymol
e4jkrC3 F:x,y,z->C:X,Y,Z C-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e4jkrC4 F:x,y,z->C:X-1/2,-Y+1/2,-Z N-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e4jkrC9 F:x,y,z->C:X-1/2,-Y+1/2,-Z barrel domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e4jkrC5 F:x,y,z->C:X-1/2,-Y+1/2,-Z alpha/beta-Hammerhead/Barrel-sandwich hybrid Interaction Interface Pymol