General information
PDB ID 6J9F
Title CRYO-EM STRUCTURE OF XANTHOMONOS ORYZAE TRANSCRIPTION ELONGATION COMPLEX WITH THE BACTERIOPHAGE PROTEIN P7
PDB header TRANSCRIPTION
Date 2019-01-22
Experimental method ELECTRON MICROSCOPY
Resolution (A) 3.95
Kind hybrid
Organism XANTHOMONAS ORYZAE PV. ORYZAE PXO99A, XANTHOMONAS ORYZAE PV. ORYZAE MAFF 311018, SYNTHETIC CONSTRUCT, XANTHOMONAS VIRUS XP10
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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:
pdb6j9f.pdb ABCDEJ GH I 0
Biounits:
6j9f.pdb1.pdb ABCDEJ GH I 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 B2SQT4_58-177 7.4e-25 1 No_clan A 58 177   
RNA_pol_L Domain B2SQT4_29-227 7.4e-23 1 CL0509 A 29 227   
RNA_pol_L Domain B2SQT4_29-227 6.5e-23 1 CL0509 B 29 227   
RNA_pol_A_bac Domain B2SQT4_58-177 4.6e-20 1 No_clan B 58 177   
RNA_pol_Rpb2_6 Domain Q2NZX8_745-1306 2.1e-145 1 CL0410 C 745 1306 G   
RNA_pol_Rpb2_3 Domain Q2NZX8_541-609 3.2e-28 1 No_clan C 541 609 IH  L-Mn 
RNA_pol_Rpb2_7 Domain Q2NZX8_1308-1382 3.3e-26 1 No_clan C 1308 1382 G   
RNA_pol_Rpb2_45 Domain Q2NZX8_619-684 1.5e-21 1 No_clan C 619 684   
RNA_pol_Rpb2_2 Domain Q2NZX8_156-281 1.1e-07 1 No_clan C 156 282 H   
RNA_pol_Rpb2_2 Domain Q2NZX8_439-482 5.1e-06 1 No_clan C 439 482 H   
RNA_pol_Rpb2_2 Domain Q2NZX8_351-428 6.3e-05 1 No_clan C 351 428   
RNA_pol_Rpb1_1 Domain B2SQQ2_14-342 1.4e-83 1 No_clan D 14 342 GIH  H-Mj S-Mj L-Mj 
RNA_pol_Rpb1_5 Domain B2SQQ2_767-1318 2e-67 1 No_clan D 767 1318 G  H-Bb 
RNA_pol_Rpb1_3 Domain B2SQQ2_489-645 8.3e-28 1 No_clan D 489 645   
RNA_pol_Rpb1_2 Domain B2SQQ2_382-486 1.5e-27 1 No_clan D 382 486 IG   
RNA_pol_Rpb1_4 Domain B2SQQ2_674-765 5.1e-19 1 No_clan D 674 765   
RNA_pol_Rpb1_2 Domain B2SQQ2_344-401 3.7e-08 1 No_clan D 344 401 G   
RNA_pol_Rpb2_1 Family Q2NZX8_27-528 3.5e-37 1 No_clan C 27 528 GH   
RNA_pol_Rpb6 Family Q5H3R9_8-62 4.2e-17 1 No_clan E 8 62   
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
A/B=1-332 F DNA binding
A/B=1-332 F DNA-directed 5'-3' RNA polymerase activity
A/B=1-332 F protein dimerization activity
A/B=1-332 P transcription, DNA-templated
C=1-1383 F DNA binding
C=1-1383 F DNA-directed 5'-3' RNA polymerase activity
C=1-1383 F ribonucleoside binding
C=1-1383 P transcription, DNA-templated
D=1-1405 F DNA binding
D=1-1405 F DNA-directed 5'-3' RNA polymerase activity
D=1-1405 F magnesium ion binding
D=1-1405 F zinc ion binding
D=1-1405 P transcription, DNA-templated
E=1-99 F DNA binding
E=1-99 F DNA-directed 5'-3' RNA polymerase activity
E=1-99 P transcription, DNA-templated
Sequences
Download file with secondary structure created by Stride  
6j9f.pdb1.pdb:   [ download sequences in FASTA format ]
G (dna): 
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H (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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J (protein): 
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I (rna): 
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