Domain ID e2pmzA5

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  • A: a+b complex topology
  • X: second helical domain in RNA-polymerase beta-prime subunit
  • H: second helical domain in RNA-polymerase beta-prime subunit
  • T: second helical domain in RNA-polymerase beta-prime subunit
  • F: RNA_pol_Rpb1_5,RNA_pol_Rpb1_4
UID: 001117600
Type: Manual and representative domain
Range: A:645-879
PDB: 2pmz
PDB Description: DNA-directed RNA polymerase subunit A
UniProt: Q980R2
Hsap BLAST neighbor: P24928
Species:

Structure of domain e2pmzA5

Domains in the same chain:

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e2pmzA1 A:4-306 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
e2pmzA2 A:307-347,A:411-494 cradle loop barrel RIFT-related double psi
e2pmzA3 A:348-410 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
e2pmzA4 A:495-644 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
e2pmzA5 A:645-879 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

Domains in the same PDB:

e2pmzA1 A:4-306 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
e2pmzA2 A:307-347,A:411-494 cradle loop barrel RIFT-related double psi
e2pmzA3 A:348-410 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
e2pmzA4 A:495-644 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
e2pmzA5 A:645-879 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
e2pmzB4 B:5-167,B:342-472 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
e2pmzB2 B:168-341 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
e2pmzB1 B:473-572 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
e2pmzB7 B:573-712 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
e2pmzB3 B:713-749,B:873-995 cradle loop barrel RIFT-related double psi
e2pmzB6 B:750-872 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e2pmzB5 B:996-1119 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
e2pmzC2 C:11-65 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
e2pmzC1 C:66-146,C:238-395 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
e2pmzD1 D:2-36,D:159-265 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2pmzD2 D:37-158 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e2pmzE2 E:1-78 Dodecin subunit-like Flavin-binding protein dodecin-like Flavin-binding protein dodecin-like
e2pmzE1 E:79-180 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e2pmzF1 F:1-89 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e2pmzG2 G:11-65 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
e2pmzG1 G:66-146,G:238-395 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
e2pmzH1 H:9-82 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e2pmzK1 K:11-92 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e2pmzL1 L:1-92 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2pmzN1 N:1-64 HTH RPB10 RPB10
e2pmzP1 P:6-48 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e2pmzQ3 Q:4-96,Q:174-306 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
e2pmzQ5 Q:307-347,Q:411-494 cradle loop barrel RIFT-related double psi
e2pmzQ2 Q:348-410 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
e2pmzQ1 Q:495-644 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
e2pmzQ4 Q:645-879 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
e2pmzR6 R:5-167,R:342-472 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
e2pmzR3 R:168-341 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
e2pmzR1 R:473-572 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
e2pmzR2 R:573-712 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
e2pmzR4 R:713-749,R:873-995 cradle loop barrel RIFT-related double psi
e2pmzR7 R:750-872 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e2pmzR5 R:996-1119 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
e2pmzS1 S:2-36,S:159-265 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2pmzS2 S:37-158 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e2pmzT2 T:1-78 Dodecin subunit-like Flavin-binding protein dodecin-like Flavin-binding protein dodecin-like
e2pmzT1 T:79-180 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e2pmzU1 U:1-89 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e2pmzV1 V:9-82 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e2pmzW1 W:11-92 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e2pmzX1 X:1-92 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e2pmzY1 Y:1-64 HTH RPB10 RPB10
e2pmzZ1 Z:6-48 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e2pmzA5 of H-group "second helical 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
e2pmzB1 A:X,Y,Z->B:x,y,z inserted a+b domain in yeast RNA polymerase beta subunit Interaction Interface Pymol
e2pmzB4 A:X,Y,Z->B:x,y,z N-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e2pmzB3 A:X,Y,Z->B:x,y,z RIFT-related Interaction Interface Pymol
e2pmzB2 A:X,Y,Z->B:x,y,z insertion domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e2pmzB5 A:X,Y,Z->B:x,y,z C-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e2pmzB7 A:X,Y,Z->B:x,y,z barrel domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e2pmzC1 A:X,Y,Z->C:x,y,z central helical domain in RNA-polymerase beta-prime subunit Interaction Interface Pymol
e2pmzC2 A:X,Y,Z->C:x,y,z third helical domain in yeast RNA-polymerase II beta-prime subunit Interaction Interface Pymol
e2pmzK1 A:X,Y,Z->K:x,y,z RPB6/omega subunit-like Interaction Interface Pymol
e2pmzR6 A:X,Y,Z->R:x,y,z N-terminal domain in beta subunit of DNA dependent RNA-polymerase Interaction Interface Pymol
e2pmzH1 A:X,Y,Z->H:x,y,z RPB5-like RNA polymerase subunit Interaction Interface Pymol
e2pmzD1 A:X,Y,Z->D:x,y,z RBP11-like subunits of RNA polymerase Interaction Interface Pymol