Domain ID e3wodD5

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  • A: a+b complex topology
  • X: N-terminal domain in RNA-polymerase beta-prime subunit
  • H: N-terminal domain in RNA-polymerase beta-prime subunit
  • T: N-terminal domain in RNA-polymerase beta-prime subunit
  • F: RNA_pol_Rpb1_1
UID: 001295856
Type: Manual and representative domain
Range: D:2-165,D:448-621
PDB: 3wod
PDB Description: DNA-directed RNA polymerase subunit beta'
UniProt: Q8RQE8
Hsap BLAST neighbor: P24928
Species:

Structure of domain e3wodD5

Domains in the same chain:

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e3wodD5 D:2-165,D:448-621 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
e3wodD4 D:166-208,D:389-395 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3wodD3 D:209-216,D:341-388 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3wodD2 D:217-340 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Duplicated hybrid motif
e3wodD1 D:396-447 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3wodD6 D:622-653,D:697-777 cradle loop barrel RIFT-related double psi
e3wodD7 D:654-696 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
e3wodD8 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
e3wodD9 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
e3wodD10 D:1110-1200 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
e3wodD11 D:1201-1269,D:1331-1505 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
e3wodD12 D:1270-1330 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif

Domains in the same PDB:

e3wodA1 A:6-49,A:173-230 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e3wodA2 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
e3wodB1 B:4-49,B:173-235 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e3wodB2 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
e3wodC8 C:1-142,C:332-457 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
e3wodC10 C:143-331 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
e3wodC14 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
e3wodC9 C:592-662 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3wodC7 C:664-700,C:827-999 cradle loop barrel RIFT-related double psi
e3wodC6 C:699-832 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3wodC13 C:1000-1118 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
e3wodD5 D:2-165,D:448-621 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
e3wodD4 D:166-208,D:389-395 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3wodD3 D:209-216,D:341-388 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3wodD2 D:217-340 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Duplicated hybrid motif
e3wodD1 D:396-447 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3wodD6 D:622-653,D:697-777 cradle loop barrel RIFT-related double psi
e3wodD7 D:654-696 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
e3wodD8 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
e3wodD9 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
e3wodD10 D:1110-1200 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
e3wodD11 D:1201-1269,D:1331-1505 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
e3wodD12 D:1270-1330 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3wodE1 E:2-96 RPB6/omega subunit-like RPB6/omega subunit-like RNA polymerase omega subunit
e3wodF1 F:74-255 Sigma2 domain-like Sigma2 domain of RNA polymerase sigma factors Sigma2 domain of RNA polymerase sigma factors
e3wodF2 F:312-412 HTH HTH tri-helical
e3wodG1 G:4-138 Cystatin-like Thermus phage P23-45 gp39 Thermus phage P23-45 gp39
e3wodH1 H:5-107 Cystatin-like Thermus phage P23-45 gp39 Thermus phage P23-45 gp39

Structural contacts of domain e3wodD5 of H-group "N-terminal domain in RNA-polymerase beta-prime subunit":

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
e3wodC13 D:x,y,z->C:X,Y,Z C-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e3wodC6 D:x,y,z->C:X,Y,Z alpha/beta-Hammerhead/Barrel-sandwich hybrid Interaction Interface Pymol
e3wodF1 D:X,Y,Z->F:x,y,z Sigma2 domain of RNA polymerase sigma factors Interaction Interface Pymol
e3wodF2 D:X,Y,Z->F:x,y,z HTH Interaction Interface Pymol
e3wodD2 D:x,y,z->D:X-Y,-Y,-Z-2/3 alpha/beta-Hammerhead/Barrel-sandwich hybrid Interaction Interface Pymol
e3wodD2 D:X-Y,-Y,-Z-2/3->D:x,y,z alpha/beta-Hammerhead/Barrel-sandwich hybrid Interaction Interface Pymol