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3LTN
Asym. Unit
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Asym.Unit (500 KB)
Biol.Unit 1 (485 KB)
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(1)
Title
:
INHIBITOR-STABILIZED TOPOISOMERASE IV-DNA CLEAVAGE COMPLEX (S. PNEUMONIAE)
Authors
:
I. Laponogov, X. -S. Pan, D. A. Veselkov, K. E. Mcauley, L. M. Fisher, M. R. Sanderson
Date
:
16 Feb 10 (Deposition) - 05 May 10 (Release) - 14 Jul 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.10
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D,E,F,G,H (1x)
Keywords
:
Topoisomerase, Protein-Dna Cleavage Complex, Streptococcus Pneumoniae, Dna-Binding, Quinolone, Dione, Cleaved Form, Topoisomerase-Dna Complex, Isomerase-Dna Complex
(Keyword Search:
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Reference
:
I. Laponogov, X. -S. Pan, D. A. Veselkov, K. E. Mcauley, L. M. Fisher, M. R. Sanderson
Structural Basis Of Gate-Dna Breakage And Resealing By Type Ii Topoisomerases
Plos One V. 5 E1133 2010
(for further references see the
PDB file header
)
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
2a: 3-AMINO-7-{(3R)-3-[(1S)-1-AMINOETH... (PDQa)
2b: 3-AMINO-7-{(3R)-3-[(1S)-1-AMINOETH... (PDQb)
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No.
Name
Count
Type
Full Name
1
MG
2
Ligand/Ion
MAGNESIUM ION
2
PDQ
2
Ligand/Ion
3-AMINO-7-{(3R)-3-[(1S)-1-AMINOETHYL]PYRROLIDIN-1-YL}-1-CYCLOPROPYL-6-FLUORO-8-METHYLQUINAZOLINE-2,4(1H,3H)-DIONE
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP C:506 , ASP C:508
BINDING SITE FOR RESIDUE MG C 742
2
AC2
SOFTWARE
ASP D:506 , ASP D:508
BINDING SITE FOR RESIDUE MG D 742
3
AC3
SOFTWARE
ARG B:117 , ARG C:456 , GLU C:474 , GLU C:475 , DT E:15 , DC F:4 , DA F:5 , DG H:1
BINDING SITE FOR RESIDUE PDQ F 0
4
AC4
SOFTWARE
ARG A:117 , ARG D:456 , GLU D:475 , DA F:1 , DT G:15 , DT H:4 , DA H:5
BINDING SITE FOR RESIDUE PDQ H 0
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: TOPRIM (C:427-541,D:427-541)
2: TOPOISOMERASE_II (C:431-439,D:431-439)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TOPRIM
PS50880
Toprim domain profile.
PARE_STRPN
427-541
2
C:427-541
D:427-541
2
TOPOISOMERASE_II
PS00177
DNA topoisomerase II signature.
PARE_STRPN
431-439
2
C:431-439
D:431-439
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3ltnc_ (C:)
1b: SCOP_d3ltnd_ (D:)
2a: SCOP_d3ltna_ (A:)
2b: SCOP_d3ltnb_ (B:)
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Protein Domains
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(
)
Organisms
(
)
(
)
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
DNA gyrase B, C-terminal domain-like
(9)
Superfamily
:
DNA gyrase B, C-terminal domain-like
(9)
Family
:
DNA gyrase B, C-terminal domain
(9)
Protein domain
:
DNA gyrase beta-prime domain
(9)
Pneumococcus (Streptococcus pneumoniae) [TaxId: 1313]
(5)
1a
d3ltnc_
C:
1b
d3ltnd_
D:
Fold
:
Type II DNA topoisomerase C-terminal domain-like
(23)
Superfamily
:
Type II DNA topoisomerase C-terminal domain-like
(23)
Family
:
automated matches
(6)
Protein domain
:
automated matches
(6)
Pneumococcus (Streptococcus pneumoniae) [TaxId: 1313]
(3)
2a
d3ltna_
A:
2b
d3ltnb_
B:
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_Toprim_3ltnD01 (D:428-540)
1b: PFAM_Toprim_3ltnD02 (D:428-540)
2a: PFAM_DNA_gyraseB_C_3ltnD03 (D:570-634)
2b: PFAM_DNA_gyraseB_C_3ltnD04 (D:570-634)
3a: PFAM_DNA_topoisoIV_3ltnB01 (B:28-468)
3b: PFAM_DNA_topoisoIV_3ltnB02 (B:28-468)
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Organisms
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)
Clan
:
Toprim-like
(19)
Family
:
Toprim
(19)
Streptococcus pneumoniae
(4)
1a
Toprim-3ltnD01
D:428-540
1b
Toprim-3ltnD02
D:428-540
Clan
:
no clan defined [family: DNA_gyraseB_C]
(7)
Family
:
DNA_gyraseB_C
(7)
Streptococcus pneumoniae
(4)
2a
DNA_gyraseB_C-3ltnD03
D:570-634
2b
DNA_gyraseB_C-3ltnD04
D:570-634
Clan
:
no clan defined [family: DNA_topoisoIV]
(19)
Family
:
DNA_topoisoIV
(19)
Streptococcus pneumoniae
(5)
3a
DNA_topoisoIV-3ltnB01
B:28-468
3b
DNA_topoisoIV-3ltnB02
B:28-468
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