General information
PDB ID 4YLO
Title E. COLI TRANSCRIPTION INITIATION COMPLEX - 16-BP SPACER AND 4-NT RNA
PDB header TRANSCRIPTION/DNA/RNA
Date 2015-03-05
Experimental method X-RAY DIFFRACTION
Resolution (A) 6
Kind hybrid
Organism ESCHERICHIA COLI, SYNTHETIC CONSTRUCT
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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:
pdb4ylo.pdb ABCDEFGHIJKLMNOPQR 124578 369 0
Biounits:
4ylo.pdb1.pdb ABCDEF 12 3 1
4ylo.pdb2.pdb GHIJKL 45 6 1
4ylo.pdb3.pdb MNOPQR 78 9 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
RNA_pol_L Domain A7ZSI4_29-228 1.2e-24 1 CL0509 A 29 228   
RNA_pol_A_bac Domain A7ZSI4_58-186 8e-24 1 No_clan A 58 178   
RNA_pol_L Domain A7ZSI4_29-228 1.2e-24 1 CL0509 B 29 228   
RNA_pol_A_bac Domain A7ZSI4_58-186 7.5e-24 1 No_clan B 58 185   
RNA_pol_Rpb2_6 Domain A7ZUK1_717-1264 1.4e-160 1 CL0410 C 717 1264   
RNA_pol_Rpb2_3 Domain A7ZUK1_513-581 1.5e-30 1 No_clan C 513 581 2   
RNA_pol_Rpb2_45 Domain A7ZUK1_591-656 6e-28 1 No_clan C 591 656   
RNA_pol_Rpb2_7 Domain A7ZUK1_1266-1342 1.9e-27 1 No_clan C 1266 1342   
RNA_pol_Rpb2_2 Domain A7ZUK1_329-454 5.4e-15 1 No_clan C 329 454   
RNA_pol_Rpb2_2 Domain A7ZUK1_151-276 2.3e-07 1 No_clan C 151 276 1   
RNA_pol_Rpb1_1 Domain P0A8T7_15-342 9.9e-90 1 No_clan D 15 342   
RNA_pol_Rpb1_5 Domain P0A8T7_766-1317 5.2e-78 1 No_clan D 766 1317 2   
RNA_pol_Rpb1_2 Domain P0A8T7_386-486 3.7e-27 1 No_clan D 386 486 2   
RNA_pol_Rpb1_3 Domain P0A8T7_489-644 4.1e-27 1 No_clan D 489 644   
RNA_pol_Rpb1_4 Domain P0A8T7_673-764 1.8e-18 1 No_clan D 673 764   
RNA_pol_Rpb1_2 Domain P0A8T7_344-401 1.2e-07 1 No_clan D 344 401   
Sigma70_ner Domain P00579_137-348 3e-62 1 CL0123 F 137 348   
Sigma70_r2 Domain P00579_379-449 1.3e-21 1 CL0123 F 379 449 12   
Sigma70_r4 Domain P00579_547-600 4.9e-19 1 CL0123 F 547 600 12   
RNA_pol_L Domain A7ZSI4_29-228 1.2e-24 1 CL0509 G 29 228   
RNA_pol_A_bac Domain A7ZSI4_58-186 8e-24 1 No_clan G 58 178   
RNA_pol_L Domain A7ZSI4_29-228 1.2e-24 1 CL0509 H 29 228   
RNA_pol_A_bac Domain A7ZSI4_58-186 7.5e-24 1 No_clan H 58 185   
RNA_pol_Rpb2_6 Domain A7ZUK1_717-1264 1.4e-160 1 CL0410 I 717 1264   
RNA_pol_Rpb2_3 Domain A7ZUK1_513-581 1.5e-30 1 No_clan I 513 581 45   
RNA_pol_Rpb2_45 Domain A7ZUK1_591-656 6e-28 1 No_clan I 591 656   
RNA_pol_Rpb2_7 Domain A7ZUK1_1266-1342 1.9e-27 1 No_clan I 1266 1342 5   
RNA_pol_Rpb2_2 Domain A7ZUK1_329-454 5.4e-15 1 No_clan I 329 454   
RNA_pol_Rpb2_2 Domain A7ZUK1_151-276 2.3e-07 1 No_clan I 151 276 4   
RNA_pol_Rpb1_1 Domain P0A8T7_15-342 9.9e-90 1 No_clan J 15 342 5   
RNA_pol_Rpb1_5 Domain P0A8T7_766-1317 5.2e-78 1 No_clan J 766 1317 56   
RNA_pol_Rpb1_2 Domain P0A8T7_386-486 3.7e-27 1 No_clan J 386 486 5   
RNA_pol_Rpb1_3 Domain P0A8T7_489-644 4.1e-27 1 No_clan J 489 644   
RNA_pol_Rpb1_4 Domain P0A8T7_673-764 1.8e-18 1 No_clan J 673 764   
RNA_pol_Rpb1_2 Domain P0A8T7_344-401 1.2e-07 1 No_clan J 344 401   
Sigma70_ner Domain P00579_137-348 3e-62 1 CL0123 L 137 348   
Sigma70_r2 Domain P00579_379-449 1.3e-21 1 CL0123 L 379 449 4   
Sigma70_r4 Domain P00579_547-600 4.9e-19 1 CL0123 L 547 600 45   
RNA_pol_L Domain A7ZSI4_29-228 1.2e-24 1 CL0509 M 29 228   
RNA_pol_A_bac Domain A7ZSI4_58-186 8e-24 1 No_clan M 58 178   
RNA_pol_L Domain A7ZSI4_29-228 1.2e-24 1 CL0509 N 29 228   
RNA_pol_A_bac Domain A7ZSI4_58-186 7.5e-24 1 No_clan N 58 185   
RNA_pol_Rpb2_6 Domain A7ZUK1_717-1264 1.4e-160 1 CL0410 O 717 1264   
RNA_pol_Rpb2_3 Domain A7ZUK1_513-581 1.5e-30 1 No_clan O 513 581 78   
RNA_pol_Rpb2_45 Domain A7ZUK1_591-656 6e-28 1 No_clan O 591 656   
RNA_pol_Rpb2_7 Domain A7ZUK1_1266-1342 1.9e-27 1 No_clan O 1266 1342   
RNA_pol_Rpb2_2 Domain A7ZUK1_329-454 5.4e-15 1 No_clan O 329 454   
RNA_pol_Rpb2_2 Domain A7ZUK1_151-276 2.3e-07 1 No_clan O 151 276 7   
RNA_pol_Rpb1_1 Domain P0A8T7_15-342 9.9e-90 1 No_clan P 15 342   
RNA_pol_Rpb1_5 Domain P0A8T7_766-1317 5.2e-78 1 No_clan P 766 1317 89   
RNA_pol_Rpb1_2 Domain P0A8T7_386-486 3.7e-27 1 No_clan P 386 486   
RNA_pol_Rpb1_3 Domain P0A8T7_489-644 4.1e-27 1 No_clan P 489 644   
RNA_pol_Rpb1_4 Domain P0A8T7_673-764 1.8e-18 1 No_clan P 673 764   
RNA_pol_Rpb1_2 Domain P0A8T7_344-401 1.2e-07 1 No_clan P 344 401   
Sigma70_ner Domain P00579_137-348 3e-62 1 CL0123 R 137 348   
Sigma70_r2 Domain P00579_379-449 1.3e-21 1 CL0123 R 379 449 78   
Sigma70_r4 Domain P00579_547-600 4.9e-19 1 CL0123 R 547 600 78   
RNA_pol_Rpb2_1 Family A7ZUK1_26-500 2.3e-58 1 No_clan C 26 500 1   
RNA_pol_Rpb6 Family A7ZTK1_8-60 1.8e-15 1 No_clan E 8 60   
Sigma70_r3 Family P00579_458-535 2.6e-29 1 CL0123 F 458 535 2   
Sigma70_r1_2 Family P00579_96-128 1.4e-12 1 No_clan F 96 128 1   
RNA_pol_Rpb2_1 Family A7ZUK1_26-500 2.3e-58 1 No_clan I 26 500 4   
RNA_pol_Rpb6 Family A7ZTK1_8-60 1.8e-15 1 No_clan K 8 60   
Sigma70_r3 Family P00579_458-535 2.6e-29 1 CL0123 L 458 535 5   
Sigma70_r1_2 Family P00579_96-128 1.4e-12 1 No_clan L 96 128 4   
RNA_pol_Rpb2_1 Family A7ZUK1_26-500 2.3e-58 1 No_clan O 26 500 7   
RNA_pol_Rpb6 Family A7ZTK1_8-60 1.8e-15 1 No_clan Q 8 60   
Sigma70_r3 Family P00579_458-535 2.6e-29 1 CL0123 R 458 535 8   
Sigma70_r1_2 Family P00579_96-128 1.4e-12 1 No_clan R 96 128 7   
SCOP domains
No SCOP domains
GO terms
No GO terms
Sequences
Download file with secondary structure created by Stride  
4ylo.pdb1.pdb:   [ download sequences in FASTA format ]
1 (dna): 
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2 (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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F (protein): 
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3 (rna): 
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4ylo.pdb2.pdb:   [ download sequences in FASTA format ]
4 (dna): 
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5 (dna): 
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G (protein): 
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H (protein): 
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I (protein): 
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J (protein): 
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K (protein): 
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L (protein): 
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6 (rna): 
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4ylo.pdb3.pdb:   [ download sequences in FASTA format ]
7 (dna): 
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8 (dna): 
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M (protein): 
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N (protein): 
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O (protein): 
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P (protein): 
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Q (protein): 
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R (protein): 
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9 (rna): 
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