General information
PDB ID 2O5J
Title CRYSTAL STRUCTURE OF THE T. THERMOPHILUS RNAP POLYMERASE ELONGATION COMPLEX WITH THE NTP SUBSTRATE ANALOG
PDB header TRANSFERASE/DNA-RNA HYBRID
Date 2006-12-06
Experimental method X-RAY DIFFRACTION
Resolution (A) 3
Kind hybrid
Organism THERMUS THERMOPHILUS
Download
complex
View in
Jmol
Quick Links
PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
PRIDB
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb2o5j.pdb ABCDEKLMNO GIXZ HY 0
Biounits:
2o5j.pdb1.pdb ABCDE GI H 1
2o5j.pdb2.pdb KLMNO XZ Y 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
RNA_pol_A_bac Domain Q5SHR6_52-180 1.8e-25 1 No_clan A 52 180   
RNA_pol_L Domain Q5SHR6_26-222 1.8e-24 1 CL0509 A 26 222   
RNA_pol_A_bac Domain Q5SHR6_52-180 1.8e-25 1 No_clan B 52 180   
RNA_pol_L Domain Q5SHR6_26-222 1.8e-24 1 CL0509 B 26 222   
RNA_pol_Rpb2_6 Domain Q8RQE9_596-1026 6.9e-152 1 CL0410 C 596 1026 H   
RNA_pol_Rpb2_3 Domain Q8RQE9_393-461 4.1e-29 1 No_clan C 393 461 GHI  L-Mj L-Mn 
RNA_pol_Rpb2_7 Domain Q8RQE9_1028-1104 5.2e-26 1 No_clan C 1028 1104 G   
RNA_pol_Rpb2_45 Domain Q8RQE9_471-535 1.3e-24 1 No_clan C 471 535   
RNA_pol_Rpb2_2 Domain Q8RQE9_142-334 0.000000000058 1 No_clan C 142 334   
RNA_pol_Rpb1_1 Domain 2.8e-83 1 No_clan D 2 618 GH
RNA_pol_Rpb1_5 Domain Q8RQE8_1064-1271 3.1e-43 1 No_clan D 1064 1330 GI  H-Bb L-Bb 
RNA_pol_Rpb1_2 Domain Q8RQE8_620-765 9.5e-36 1 No_clan D 620 765 GH   
RNA_pol_Rpb1_3 Domain Q8RQE8_768-954 7e-29 1 No_clan D 768 954   
RNA_pol_Rpb1_4 Domain Q8RQE8_983-1069 0.000000000000083 1 No_clan D 983 1068   
RNA_pol_Rpb1_5 Domain Q8RQE8_1266-1432 0.0000000000084 1 No_clan D 1266 1432 I  H-Bb 
RNA_pol_A_bac Domain Q5SHR6_52-180 1.8e-25 1 No_clan K 52 180   
RNA_pol_L Domain Q5SHR6_26-222 1.8e-24 1 CL0509 K 26 222   
RNA_pol_A_bac Domain Q5SHR6_52-180 1.8e-25 1 No_clan L 52 180   
RNA_pol_L Domain Q5SHR6_26-222 1.8e-24 1 CL0509 L 26 222   
RNA_pol_Rpb2_6 Domain Q8RQE9_596-1026 6.9e-152 1 CL0410 M 596 1026 YX   
RNA_pol_Rpb2_3 Domain Q8RQE9_393-461 4.1e-29 1 No_clan M 393 461 XYZ  L-Mn 
RNA_pol_Rpb2_7 Domain Q8RQE9_1028-1104 5.2e-26 1 No_clan M 1028 1104 X   
RNA_pol_Rpb2_45 Domain Q8RQE9_471-535 1.3e-24 1 No_clan M 471 535   
RNA_pol_Rpb2_2 Domain Q8RQE9_142-334 0.000000000058 1 No_clan M 142 334   
RNA_pol_Rpb1_1 Domain 2.8e-83 1 No_clan N 2 618 XY
RNA_pol_Rpb1_5 Domain Q8RQE8_1064-1271 3.1e-43 1 No_clan N 1064 1330 XZ  H-Bb 
RNA_pol_Rpb1_2 Domain Q8RQE8_620-765 9.5e-36 1 No_clan N 620 765 XY   
RNA_pol_Rpb1_3 Domain Q8RQE8_768-954 7e-29 1 No_clan N 768 954   
RNA_pol_Rpb1_4 Domain Q8RQE8_983-1069 0.000000000000083 1 No_clan N 983 1068   
RNA_pol_Rpb1_5 Domain Q8RQE8_1266-1432 0.0000000000084 1 No_clan N 1266 1432 Z  H-Bb 
RNA_pol_Rpb2_1 Family Q8RQE9_17-380 1.6e-37 1 No_clan C 17 380   
RNA_pol_Rpb6 Family Q8RQE7_8-75 0.00000036 1 No_clan E 8 75   
RNA_pol_Rpb2_1 Family Q8RQE9_17-380 1.6e-37 1 No_clan M 17 380   
RNA_pol_Rpb6 Family Q8RQE7_8-75 0.00000036 1 No_clan O 8 75   
SCOP domains
Classification: Protein: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Class: Multi-domain proteins (alpha and beta)
  Fold: beta and beta-prime subunits of DNA dependent RNA-polymerase
    Superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase
      Family: RNA-polymerase beta
RNA-polymerase beta C 1 1119 GHI -
Class: Multi-domain proteins (alpha and beta)
  Fold: beta and beta-prime subunits of DNA dependent RNA-polymerase
    Superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase
      Family: RNA-polymerase beta-prime
RNA-polymerase beta-prime D 2 1505 GHI -
Class: Multi-domain proteins (alpha and beta)
  Fold: beta and beta-prime subunits of DNA dependent RNA-polymerase
    Superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase
      Family: RNA-polymerase beta
RNA-polymerase beta M 1 1119 XYZ -
Class: Multi-domain proteins (alpha and beta)
  Fold: beta and beta-prime subunits of DNA dependent RNA-polymerase
    Superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase
      Family: RNA-polymerase beta-prime
RNA-polymerase beta-prime N 2 1505 XYZ -
GO terms
Protein chains: GO type: GO description:
A/B/K/L=1-315 P DNA repair
C/M=1-1119 F DNA-directed RNA polymerase activity
C/M=1-1119 F ribonucleoside binding
C/M=1-1119 F DNA binding
C/M=1-1119 P transcription, DNA-dependent
E/O=1-99 C RNA polymerase complex
Sequences
Download file with secondary structure created by Stride  
2o5j.pdb1.pdb:   [ download sequences in FASTA format ]
G (dna): 
Click "SHOW" for view sequence
I (dna): 
Click "SHOW" for view sequence
A (protein): 
Click "SHOW" for view sequence
B (protein): 
Click "SHOW" for view sequence
C (protein): 
Click "SHOW" for view sequence
D (protein): 
Click "SHOW" for view sequence
E (protein): 
Click "SHOW" for view sequence
H (rna): 
Click "SHOW" for view sequence
2o5j.pdb2.pdb:   [ download sequences in FASTA format ]
X (dna): 
Click "SHOW" for view sequence
Z (dna): 
Click "SHOW" for view sequence
K (protein): 
Click "SHOW" for view sequence
L (protein): 
Click "SHOW" for view sequence
M (protein): 
Click "SHOW" for view sequence
N (protein): 
Click "SHOW" for view sequence
O (protein): 
Click "SHOW" for view sequence
Y (rna): 
Click "SHOW" for view sequence
© NPIDB team 2003 - 2019

text