General information
PDB ID 5CDN
Title 2.8A STRUCTURE OF ETOPOSIDE WITH S.AUREUS DNA GYRASE AND DNA
PDB header ISOMERASE
Date 2015-07-04
Experimental method X-RAY DIFFRACTION
Resolution (A) 2.79
Kind dna
Organism STAPHYLOCOCCUS AUREUS, STAPHYLOCOCCUS AUREUS (STRAIN N315), SYNTHETIC CONSTRUCT
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb5cdn.pdb ABCDRSTU EGFOVNWP 0
Biounits:
5cdn.pdb1.pdb ABCD EGFO 1
5cdn.pdb2.pdb RSTU VNWP 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 6e-154 1 No_clan A 33 474 FG  H-Bb S-Bb S-Mj S-Mn L-Bb 
DNA_gyraseB_C Family P66937_580-634 9e-28 1 No_clan B 544 634 G  H-Bb 
Toprim Family P66937_430-542 6.2e-18 1 CL0413 B 430 542 FGO  H-Bb S-Bb L-Bb L-Mn 
DNA_topoisoIV Family Q99XG5_33-474 5.9e-154 1 No_clan C 33 474 EO  H-Bb S-Bb S-Mj S-Mn L-Bb 
DNA_gyraseB_C Family P66937_580-634 2.1e-25 1 No_clan D 545 634 O  H-Bb 
Toprim Family P66937_430-542 6.1e-18 1 CL0413 D 430 542 EO  H-Bb S-Bb L-Bb L-Mn 
DNA_topoisoIV Family Q99XG5_33-474 3.4e-153 1 No_clan R 33 474 NW  H-Bb S-Bb S-Mj S-Mn L-Bb 
DNA_gyraseB_C Family P66937_580-634 9e-28 1 No_clan S 544 634 N  H-Bb 
Toprim Family P66937_430-542 6.2e-18 1 CL0413 S 430 542 NPW  H-Bb S-Bb L-Bb L-Mn 
DNA_topoisoIV Family Q99XG5_33-474 6e-154 1 No_clan T 33 474 PV  H-Bb S-Bb S-Mj S-Mn L-Bb 
DNA_gyraseB_C Family P66937_580-634 9.1e-28 1 No_clan U 544 634 P  H-Bb 
Toprim Family P66937_430-542 6.3e-18 1 CL0413 U 430 542 NPV  H-Bb S-Bb L-Bb L-Mn 
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
A/C/R/T=10-490 C chromosome
A/C/R/T=10-490 C cytoplasm
A/C/R/T=10-490 F ATP binding
A/C/R/T=10-490 F DNA binding
A/C/R/T=10-490 F DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
A/C/R/T=10-490 P DNA topological change
A/C/R/T=10-490 P DNA-dependent DNA replication
A/C/R/T=10-490 P response to antibiotic
B/D/S/U=417-543, B/D/S/U=580-639 C chromosome
B/D/S/U=417-543, B/D/S/U=580-639 C cytoplasm
B/D/S/U=417-543, B/D/S/U=580-639 F ATP binding
B/D/S/U=417-543, B/D/S/U=580-639 F DNA binding
B/D/S/U=417-543, B/D/S/U=580-639 F DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
B/D/S/U=417-543, B/D/S/U=580-639 F metal ion binding
B/D/S/U=417-543, B/D/S/U=580-639 P DNA topological change
B/D/S/U=417-543, B/D/S/U=580-639 P DNA-dependent DNA replication
Sequences
Download file with secondary structure created by Stride  
5cdn.pdb1.pdb:   [ download sequences in FASTA format ]
E (dna): 
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F (dna): 
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G (dna): 
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O (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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5cdn.pdb2.pdb:   [ download sequences in FASTA format ]
N (dna): 
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P (dna): 
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V (dna): 
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W (dna): 
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R (protein): 
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S (protein): 
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T (protein): 
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U (protein): 
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