General information
PDB ID 5NPK
Title 1.98A STRUCTURE OF THIOPHENE1 WITH S.AUREUS DNA GYRASE AND DNA
PDB header ISOMERASE
Date 2017-04-17
Experimental method X-RAY DIFFRACTION
Resolution (A) 1.98
Kind dna
Organism STAPHYLOCOCCUS AUREUS, SYNTHETIC CONSTRUCT
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
 PDIdb 
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb5npk.pdb BDbd EFef 0
Biounits:
5npk.pdb1.pdb BD EF 1
5npk.pdb2.pdb bd ef 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
DNA_topoisoIV Family Q99XG5_33-474 3.2e-156 1 No_clan B 1033 1474 EF   
DNA_topoisoIV Family Q99XG5_33-474 3.2e-156 1 No_clan b 1033 1474 ef   
DNA_gyraseB_C Family P66937_580-634 6.6e-27 1 No_clan B 544 634 F   
DNA_gyraseB_C Family P66937_580-634 6.6e-27 1 No_clan B 544 634 F   
DNA_gyraseB_C Family P66937_580-634 6.6e-27 1 No_clan b 544 634 f   
DNA_gyraseB_C Family P66937_580-634 6.6e-27 1 No_clan b 544 634 f   
Toprim Family P66937_430-542 8.6e-17 1 CL0413 B 430 542 EF   
Toprim Family P66937_430-542 8.6e-17 1 CL0413 B 430 542 EF   
Toprim Family P66937_430-542 8.6e-17 1 CL0413 b 430 542 ef   
Toprim Family P66937_430-542 8.6e-17 1 CL0413 b 430 542 ef   
DNA_topoisoIV Family Q99XG5_33-474 3.2e-156 1 No_clan D 1033 1474 EF   
DNA_topoisoIV Family Q99XG5_33-474 3.2e-156 1 No_clan d 1033 1474 ef   
DNA_gyraseB_C Family P66937_580-634 6.6e-27 1 No_clan D 544 634 E   
DNA_gyraseB_C Family P66937_580-634 6.6e-27 1 No_clan D 544 634 E   
DNA_gyraseB_C Family P66937_580-634 6.6e-27 1 No_clan d 544 634 e   
DNA_gyraseB_C Family P66937_580-634 6.6e-27 1 No_clan d 544 634 e   
Toprim Family P66937_430-542 8.5e-17 1 CL0413 d 430 542 ef   
Toprim Family P66937_430-542 8.5e-17 1 CL0413 d 430 542 ef   
Toprim Family P66937_430-542 8.6e-17 1 CL0413 D 430 542 EF   
Toprim Family P66937_430-542 8.6e-17 1 CL0413 D 430 542 EF   
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
B/D/b/d=2-491 C chromosome
B/D/b/d=2-491 C cytoplasm
B/D/b/d=2-491 F ATP binding
B/D/b/d=2-491 F DNA binding
B/D/b/d=2-491 F DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
B/D/b/d=2-491 P DNA topological change
B/D/b/d=2-491 P DNA-dependent DNA replication
B/D/b/d=2-491 P response to antibiotic
B/D/b/d=409-543, B/D/b/d=580-642 C chromosome
B/D/b/d=409-543, B/D/b/d=580-642 C cytoplasm
B/D/b/d=409-543, B/D/b/d=580-642 F ATP binding
B/D/b/d=409-543, B/D/b/d=580-642 F DNA binding
B/D/b/d=409-543, B/D/b/d=580-642 F DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
B/D/b/d=409-543, B/D/b/d=580-642 F metal ion binding
B/D/b/d=409-543, B/D/b/d=580-642 P DNA topological change
B/D/b/d=409-543, B/D/b/d=580-642 P DNA-dependent DNA replication
Sequences
Download file with secondary structure created by Stride  
5npk.pdb1.pdb:   [ download sequences in FASTA format ]
E (dna): 
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F (dna): 
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B (protein): 
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D (protein): 
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5npk.pdb2.pdb:   [ download sequences in FASTA format ]
e (dna): 
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f (dna): 
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b (protein): 
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d (protein): 
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