General information
PDB ID 5I2D
Title CRYSTAL STRUCTURE OF T. THERMOPHILUS TTHB099 CLASS II TRANSCRIPTION ACTIVATION COMPLEX: TAP-RPO
PDB header TRANSCRIPTION/DNA/RNA
Date 2016-02-08
Experimental method X-RAY DIFFRACTION
Resolution (A) 4.41
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:
pdb5i2d.pdb ABCDEFGHLMNOPQRS IJTU KV 0
Biounits:
5i2d.pdb1.pdb ABCDEFGH IJ K 1
5i2d.pdb2.pdb LMNOPQRS TU V 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 3e-25 1 No_clan A 52 180   
RNA_pol_L Domain Q5SHR6_26-222 3.7e-24 1 CL0509 A 26 222   
RNA_pol_A_CTD Domain Q5SHR6_253-308 8.5e-17 1 CL0198 A 225 308   
RNA_pol_A_bac Domain Q5SHR6_52-180 2.9e-25 1 No_clan B 52 180   
RNA_pol_L Domain Q5SHR6_26-222 3.5e-24 1 CL0509 B 26 222   
RNA_pol_A_CTD Domain Q5SHR6_253-308 1e-16 1 CL0198 B 224 308   
RNA_pol_Rpb2_6 Domain Q8RQE9_596-1026 6.8e-152 1 CL0410 C 596 1026   
RNA_pol_Rpb2_3 Domain Q8RQE9_393-461 4.1e-29 1 No_clan C 393 461 IJ   
RNA_pol_Rpb2_7 Domain Q8RQE9_1028-1104 5.2e-26 1 No_clan C 1028 1104   
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 0.000000000057 1 No_clan C 142 334 I   
RNA_pol_Rpb1_1 Domain 8.5e-82 1 No_clan D 3 618
RNA_pol_Rpb1_2 Domain Q8RQE8_620-765 1e-35 1 No_clan D 620 765 J   
RNA_pol_Rpb1_5 Domain Q8RQE8_1064-1296 4.1e-33 1 No_clan D 1064 1254   
RNA_pol_Rpb1_3 Domain Q8RQE8_768-954 7.8e-29 1 No_clan D 768 954   
RNA_pol_Rpb1_5 Domain Q8RQE8_1266-1432 0.000000000000051 1 No_clan D 1258 1432   
RNA_pol_Rpb1_4 Domain Q8RQE8_983-1069 0.000000000000091 1 No_clan D 983 1068   
Sigma70_r2 Domain Q5SKW1_187-257 3e-20 1 CL0123 F 187 257 J   
Sigma70_r4 Domain Q5SKW1_357-410 1.7e-18 1 CL0123 F 357 410 J   
HTH_Crp_2 Domain Q53W63_114-187 0.0000000000000014 1 CL0123 G 114 187 J   
cNMP_binding Domain Q53W63_1-90 0.0000000000000028 1 CL0029 G 1 91   
HTH_Crp_2 Domain Q53W63_114-187 0.0000000000000014 1 CL0123 H 114 187 J   
cNMP_binding Domain Q53W63_1-90 0.0000000000000028 1 CL0029 H 1 91   
RNA_pol_A_bac Domain Q5SHR6_52-180 3e-25 1 No_clan L 52 180   
RNA_pol_L Domain Q5SHR6_26-222 3.7e-24 1 CL0509 L 26 222   
RNA_pol_A_CTD Domain Q5SHR6_253-308 8.5e-17 1 CL0198 L 225 308   
RNA_pol_A_bac Domain Q5SHR6_52-180 2.9e-25 1 No_clan M 52 180   
RNA_pol_L Domain Q5SHR6_26-222 3.5e-24 1 CL0509 M 26 222   
RNA_pol_A_CTD Domain Q5SHR6_253-308 1e-16 1 CL0198 M 224 308   
RNA_pol_Rpb2_6 Domain Q8RQE9_596-1026 6.8e-152 1 CL0410 N 596 1026   
RNA_pol_Rpb2_3 Domain Q8RQE9_393-461 4.1e-29 1 No_clan N 393 461 TU   
RNA_pol_Rpb2_7 Domain Q8RQE9_1028-1104 5.2e-26 1 No_clan N 1028 1104   
RNA_pol_Rpb2_45 Domain Q8RQE9_471-535 1.3e-24 1 No_clan N 471 535   
RNA_pol_Rpb2_2 Domain Q8RQE9_142-334 0.000000000057 1 No_clan N 142 334 T   
RNA_pol_Rpb1_1 Domain 8.5e-82 1 No_clan O 3 618
RNA_pol_Rpb1_2 Domain Q8RQE8_620-765 1e-35 1 No_clan O 620 765 U   
RNA_pol_Rpb1_5 Domain Q8RQE8_1064-1296 4.1e-33 1 No_clan O 1064 1254   
RNA_pol_Rpb1_3 Domain Q8RQE8_768-954 7.8e-29 1 No_clan O 768 954   
RNA_pol_Rpb1_5 Domain Q8RQE8_1266-1432 0.000000000000051 1 No_clan O 1258 1432   
RNA_pol_Rpb1_4 Domain Q8RQE8_983-1069 0.000000000000091 1 No_clan O 983 1068   
Sigma70_r2 Domain Q5SKW1_187-257 3e-20 1 CL0123 Q 187 257 U   
Sigma70_r4 Domain Q5SKW1_357-410 1.7e-18 1 CL0123 Q 357 410 U   
HTH_Crp_2 Domain Q53W63_114-187 0.0000000000000014 1 CL0123 R 114 187 U   
cNMP_binding Domain Q53W63_1-90 0.0000000000000028 1 CL0029 R 1 91   
HTH_Crp_2 Domain Q53W63_114-187 0.0000000000000014 1 CL0123 S 114 187 U   
cNMP_binding Domain Q53W63_1-90 0.0000000000000028 1 CL0029 S 1 91   
RNA_pol_Rpb2_1 Family Q8RQE9_17-380 6.5e-39 1 No_clan C 17 380 I   
RNA_pol_Rpb6 Family Q8RQE7_8-75 0.00000035 1 No_clan E 8 75   
Sigma70_r3 Family Q5SKW1_266-345 2.5e-26 1 CL0123 F 266 345 J   
Sigma70_r1_2 Family Q5SKW1_79-112 8.7e-17 1 No_clan F 79 112   
RNA_pol_Rpb2_1 Family Q8RQE9_17-380 6.5e-39 1 No_clan N 17 380 T   
RNA_pol_Rpb6 Family Q8RQE7_8-75 0.00000035 1 No_clan P 8 75   
Sigma70_r3 Family Q5SKW1_266-345 2.5e-26 1 CL0123 Q 266 345 U   
Sigma70_r1_2 Family Q5SKW1_79-112 8.7e-17 1 No_clan Q 79 112   
SCOP domains
No SCOP domains
GO terms
No GO terms
Sequences
Download file with secondary structure created by Stride  
5i2d.pdb1.pdb:   [ download sequences in FASTA format ]
I (dna): 
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J (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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G (protein): 
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H (protein): 
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K (rna): 
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5i2d.pdb2.pdb:   [ download sequences in FASTA format ]
T (dna): 
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U (dna): 
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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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P (protein): 
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Q (protein): 
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R (protein): 
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S (protein): 
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V (rna): 
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