Domain ID e4kmuY1

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  • A: alpha arrays
  • X: HTH
  • H: HTH
  • T: tri-helical
  • F: Sigma70_r3
UID: 001393551
Type: Automatic domain
Parent: e1ku2A1
Range: Y:447-507
PDB: 4kmu
PDB Description: RNA POLYMERASE SIGMA FACTOR RPOD
UniProt: P00579
Species: Escherichia coli

Structure of domain e4kmuY1

Domains in the same chain:

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e4kmuY2 Y:95-154,Y:212-446 Sigma2 domain-like Sigma2 domain of RNA polymerase sigma factors Sigma2 domain of RNA polymerase sigma factors
e4kmuY1 Y:447-507 HTH HTH tri-helical
e4kmuY3 Y:508-609 HTH HTH tri-helical

Domains in the same PDB:

e4kmuA9 A:3-52,A:179-234 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4kmuA7 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
e4kmuA8 A:235-325 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e4kmuB4 B:6-52,B:174-236 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4kmuB3 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
e4kmuC1 C:8-151,C:452-577 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
e4kmuC2 C:152-225,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
e4kmuC9 C:226-234,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
e4kmuC10 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
e4kmuC4 C:578-712 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
e4kmuC5 C:713-790 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4kmuC7 C:791-827,C:1063-1239 cradle loop barrel RIFT-related double psi
e4kmuC6 C:828-938,C:1045-1062 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4kmuC3 C:939-1044 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
e4kmuC8 C:1240-1342 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
e4kmuD6 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
e4kmuD1 D:334-377,D:418-498 cradle loop barrel RIFT-related double psi
e4kmuD4 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
e4kmuD2 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
e4kmuD7 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
e4kmuD5 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
e4kmuD3 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
e4kmuD8 D:1152-1215 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4kmuE1 E:2-91 RPB6/omega subunit-like RPB6/omega subunit-like RNA polymerase omega subunit
e4kmuF4 F:6-52,F:174-234 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4kmuF3 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
e4kmuG4 G:6-52,G:174-232 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4kmuG3 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
e4kmuH10 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
e4kmuH12 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
e4kmuH13 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
e4kmuH16 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
e4kmuH4 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
e4kmuH1 H:713-790 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4kmuH8 H:791-828,H:1058-1237 cradle loop barrel RIFT-related double psi
e4kmuH9 H:828-938 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4kmuH18 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
e4kmuH17 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
e4kmuI5 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
e4kmuI8 I:334-377,I:418-498 cradle loop barrel RIFT-related double psi
e4kmuI3 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
e4kmuI6 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
e4kmuI1 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
e4kmuI7 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
e4kmuI4 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
e4kmuI2 I:1152-1215 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4kmuJ1 J:2-77 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e4kmuX1 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
e4kmuX2 X:95-154,X:212-446 Sigma2 domain-like Sigma2 domain of RNA polymerase sigma factors Sigma2 domain of RNA polymerase sigma factors
e4kmuX4 X:447-507 HTH HTH tri-helical
e4kmuX3 X:508-609 HTH HTH tri-helical
e4kmuY2 Y:95-154,Y:212-446 Sigma2 domain-like Sigma2 domain of RNA polymerase sigma factors Sigma2 domain of RNA polymerase sigma factors
e4kmuY1 Y:447-507 HTH HTH tri-helical
e4kmuY3 Y:508-609 HTH HTH tri-helical

Structural contacts of domain e4kmuY1 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
e4kmuI5 Y:x,y,z->I:X,Y,Z N-terminal domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e4kmuH10 Y:x,y,z->H:X,Y,Z N-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e4kmuH9 Y:x,y,z->H:X,Y,Z alpha/beta-Hammerhead/Barrel-sandwich hybrid Interaction Interface Pymol