Domain ID e3m3yK1

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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_2
UID: 000390935
Type: Automatic domain
Parent: e1xppA1
Range: K:1-114
PDB: 3m3y
PDB Description: DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11
UniProt: P38902
Hsap BLAST neighbor: P52435
Species: Saccharomyces cerevisiae

Structure of domain e3m3yK1

Domains in the same chain:

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e3m3yK1 K:1-114 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase

Domains in the same PDB:

e3m3yA3 A:3-336 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
e3m3yA6 A:337-374,A:436-519 cradle loop barrel RIFT-related double psi
e3m3yA7 A:375-435 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
e3m3yA8 A:520-662 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
e3m3yA2 A:663-871 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
e3m3yA9 A:872-1059 helical domain in yeast RNA-polymerases third helical domain in yeast RNA-polymerase II beta-prime subunit third helical domain in yeast RNA-polymerase II beta-prime subunit
e3m3yA4 A:1060-1102,A:1301-1445 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
e3m3yA5 A:1103-1131,A:1243-1300 ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit
e3m3yA1 A:1132-1242 permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit
e3m3yB7 B:20-70,B:90-134,B:164-218,B:405-541 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
e3m3yB1 B:219-404 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
e3m3yB6 B:542-630 inserted a+b domain in yeast RNA polymerase beta subunit inserted a+b domain in yeast RNA polymerase beta subunit inserted a+b domain in yeast RNA polymerase beta subunit
e3m3yB2 B:631-813 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
e3m3yB3 B:814-850,B:975-1097 cradle loop barrel RIFT-related double psi
e3m3yB4 B:851-974 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e3m3yB5 B:1098-1224 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
e3m3yC3 C:3-41,C:173-268 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e3m3yC4 C:42-172 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e3m3yE2 E:2-142 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e3m3yE1 E:143-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e3m3yF1 F:72-155 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e3m3yH1 H:2-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e3m3yI1 I:2-49 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e3m3yI2 I:50-120 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e3m3yJ1 J:1-65 HTH RPB10 RPB10
e3m3yK1 K:1-114 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e3m3yL1 L:25-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e3m3yK1 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
e3m3yC3 K:x,y,z->C:X,Y,Z RBP11-like subunits of RNA polymerase Interaction Interface Pymol
e3m3yC4 K:x,y,z->C:X,Y,Z Insert subdomain of RNA polymerase alpha subunit Interaction Interface Pymol
e3m3yA6 K:x,y,z->A:X,Y,Z RIFT-related Interaction Interface Pymol
e3m3yA8 K:x,y,z->A:X,Y,Z first helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e3m3yB3 K:x,y,z->B:X,Y,Z RIFT-related Interaction Interface Pymol
e3m3yB5 K:x,y,z->B:X,Y,Z C-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e3m3yH1 K:x,y,z->H:X,Y,Z Nucleic acid-binding proteins Interaction Interface Pymol