Domain ID e4c2mB6

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  • A: a+b complex topology
  • X: alpha/beta-Hammerhead/Barrel-sandwich hybrid
  • H: alpha/beta-Hammerhead/Barrel-sandwich hybrid
  • T: Single hybrid motif
  • F: RNA_pol_Rpb2_6_2nd_1
UID: 001108097
Type: Manual and representative domain
Range: B:799-911
PDB: 4c2m
PDB Description: DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA135
UniProt: P22138
Hsap BLAST neighbor: Q9H9Y6
Species: Saccharomyces cerevisiae

Structure of domain e4c2mB6

Domains in the same chain:

e4c2mB1 B:8-209,B:401-547 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
e4c2mB2 B:210-400 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
e4c2mB3 B:548-646 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
e4c2mB4 B:647-761 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
e4c2mB5 B:762-798,B:912-1040 cradle loop barrel RIFT-related double psi
e4c2mB6 B:799-911 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4c2mB7 B:1041-1203 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

Domains in the same PDB:

e4c2m11 1:27-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4c2m21 2:8-115 triple barrel triple barrel RNA polymerase I subunits A49/A34.5 dimerization domains
e4c2m31 3:25-181 triple barrel triple barrel RNA polymerase I subunits A49/A34.5 dimerization domains
e4c2mA1 A:1-141,A:174-273,A:312-463 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
e4c2mA2 A:464-505,A:581-665 cradle loop barrel RIFT-related double psi
e4c2mA3 A:506-580 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
e4c2mA4 A:666-826 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
e4c2mA5 A:827-1053 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
e4c2mA6 A:1054-1180 helical domain in yeast RNA-polymerases third helical domain in yeast RNA-polymerase I RPA190 subunit third helical domain in yeast RNA-polymerase I RPA190 subunit
e4c2mA7 A:1181-1234,A:1545-1664 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
e4c2mA8 A:1235-1261,A:1498-1544 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
e4c2mA9 A:1262-1349,A:1361-1497 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
e4c2mB1 B:8-209,B:401-547 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
e4c2mB2 B:210-400 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
e4c2mB3 B:548-646 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
e4c2mB4 B:647-761 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
e4c2mB5 B:762-798,B:912-1040 cradle loop barrel RIFT-related double psi
e4c2mB6 B:799-911 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4c2mB7 B:1041-1203 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
e4c2mC1 C:31-75,C:222-335 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4c2mC2 C:76-221 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e4c2mD1 D:12-48,D:80-100 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e4c2mE2 E:4-143 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e4c2mE1 E:144-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e4c2mF1 F:55-154 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e4c2mG3 G:14-126 Dodecin subunit-like Flavin-binding protein dodecin-like Flavin-binding protein dodecin-like
e4c2mG2 G:126-170,G:215-250 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e4c2mH1 H:3-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e4c2mI1 I:2-67 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4c2mI2 I:68-125 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4c2mJ1 J:1-69 HTH RPB10 RPB10
e4c2mK1 K:42-142 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4c2mL1 L:27-70 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4c2mM1 M:8-115 triple barrel triple barrel RNA polymerase I subunits A49/A34.5 dimerization domains
e4c2mN1 N:24-180 triple barrel triple barrel RNA polymerase I subunits A49/A34.5 dimerization domains
e4c2mP19 P:1-141,P:174-273,P:312-457 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
e4c2mP23 P:458-499,P:575-659 cradle loop barrel RIFT-related double psi
e4c2mP24 P:500-574 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
e4c2mP22 P:660-820 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
e4c2mP20 P:821-1047 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
e4c2mP26 P:1048-1168 helical domain in yeast RNA-polymerases third helical domain in yeast RNA-polymerase I RPA190 subunit third helical domain in yeast RNA-polymerase I RPA190 subunit
e4c2mP3 P:1169-1214,P:1509-1664 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
e4c2mP9 P:1215-1262 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
e4c2mP8 P:1262-1395,P:1440-1508 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
e4c2mQ3 Q:8-209,Q:401-547 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
e4c2mQ7 Q:210-400 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
e4c2mQ1 Q:548-646 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
e4c2mQ5 Q:647-761 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
e4c2mQ4 Q:762-798,Q:912-1040 cradle loop barrel RIFT-related double psi
e4c2mQ6 Q:799-911 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Single hybrid motif
e4c2mQ2 Q:1041-1203 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
e4c2mR1 R:31-75,R:222-335 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase
e4c2mR2 R:76-221 Ribosomal protein TL5/L25 C-terminal domain-like Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit
e4c2mS1 S:12-48,S:79-100 HhH/H2TH SAM/DNA-glycosylase SAM domain-like
e4c2mT2 T:4-143 Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain
e4c2mT1 T:144-215 RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit
e4c2mU1 U:55-154 RPB6/omega subunit-like RPB6/omega subunit-like RPB6
e4c2mV1 V:14-126 Dodecin subunit-like Flavin-binding protein dodecin-like Flavin-binding protein dodecin-like
e4c2mV2 V:127-176,V:215-250 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e4c2mW1 W:3-146 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e4c2mX1 X:2-67 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4c2mX2 X:68-125 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e4c2mY1 Y:1-69 HTH RPB10 RPB10
e4c2mZ1 Z:43-142 DCoH-like RBP11-like subunits of RNA polymerase RBP11-like subunits of RNA polymerase

Structural contacts of domain e4c2mB6 of H-group "alpha/beta-Hammerhead/Barrel-sandwich hybrid":

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
e4c2mC2 B:X,Y,Z->C:x,y,z Insert subdomain of RNA polymerase alpha subunit Interaction Interface Pymol
e4c2mL1 B:x,y,z->L:X,Y,Z Rubredoxin-related Interaction Interface Pymol