General information
PDB ID 2PPB
Title CRYSTAL STRUCTURE OF THE T. THERMOPHILUS RNAP POLYMERASE ELONGATION COMPLEX WITH THE NTP SUBSTRATE ANALOG AND ANTIBIOTIC STREPTOLYDIGIN
PDB header TRANSFERASE/DNA/RNA
Date 2007-04-28
Experimental method X-RAY DIFFRACTION
Resolution (A) 3
Kind hybrid
Organism THERMUS THERMOPHILUS
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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:
pdb2ppb.pdb ABCDEKLMNO GIXZ HY 0
Biounits:
2ppb.pdb1.pdb ABCDE GI H 1
2ppb.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   
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 3.1e-83 1 No_clan D 2 618 GHI
RNA_pol_Rpb1_5 Domain Q8RQE8_1064-1296 5.7e-39 1 No_clan D 1064 1296 GI   
RNA_pol_Rpb1_2 Domain Q8RQE8_620-765 1e-35 1 No_clan D 620 765 GH   
RNA_pol_Rpb1_3 Domain Q8RQE8_768-954 7.4e-29 1 No_clan D 768 954   
RNA_pol_Rpb1_5 Domain Q8RQE8_1266-1432 0.000000000000057 1 No_clan D 1264 1432 I   
RNA_pol_Rpb1_4 Domain Q8RQE8_983-1069 0.000000000000087 1 No_clan D 983 1068   
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-Mj 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 3.1e-83 1 No_clan N 2 618 XY
RNA_pol_Rpb1_5 Domain Q8RQE8_1064-1296 5.7e-39 1 No_clan N 1064 1296 XZ  H-Bb L-Bb 
RNA_pol_Rpb1_2 Domain Q8RQE8_620-765 1e-35 1 No_clan N 620 765 XY   
RNA_pol_Rpb1_3 Domain Q8RQE8_768-954 7.4e-29 1 No_clan N 768 954   
RNA_pol_Rpb1_5 Domain Q8RQE8_1266-1432 0.000000000000057 1 No_clan N 1264 1432 Z  H-Bb 
RNA_pol_Rpb1_4 Domain Q8RQE8_983-1069 0.000000000000087 1 No_clan N 983 1068   
RNA_pol_Rpb2_1 Family Q8RQE9_17-380 1.6e-37 1 No_clan C 17 380 G   
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 X   
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 F DNA-directed RNA polymerase activity
A/B/K/L=1-315 F DNA binding
A/B/K/L=1-315 P transcription, DNA-dependent
A/B/K/L=1-315 P DNA repair
C/M=1-1119 F ribonucleoside binding
E/O=1-99 C RNA polymerase complex
Sequences
Download file with secondary structure created by Stride  
2ppb.pdb1.pdb:   [ download sequences in FASTA format ]
G (dna): 
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I (dna): 
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A (protein): 
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B (protein): 
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C (protein): 
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D (protein): 
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E (protein): 
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H (rna): 
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2ppb.pdb2.pdb:   [ download sequences in FASTA format ]
X (dna): 
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Z (dna): 
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K (protein): 
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L (protein): 
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M (protein): 
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N (protein): 
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O (protein): 
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Y (rna): 
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