PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
1JT6
Asym. Unit
Info
Asym.Unit (140 KB)
Biol.Unit 1 (69 KB)
Biol.Unit 2 (67 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF THE MULTIDRUG BINDING PROTEIN QACR BOUND TO DEQUALINIUM
Authors
:
M. A. Schumacher, M. C. Miller, S. Grkovic, M. H. Brown, R. A. Skurray, R. G. Brennan
Date
:
20 Aug 01 (Deposition) - 12 Dec 01 (Release) - 02 Jun 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.54
Chains
:
Asym. Unit : A,B,D,E
Biol. Unit 1: A,B (1x)
Biol. Unit 2: D,E (1x)
Keywords
:
Mutlidrug Binding Recognition, Qacr, Mulitdrug Resistance, S. Aureus, Transcription
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. A. Schumacher, M. C. Miller, S. Grkovic, M. H. Brown, R. A. Skurray, R. G. Brennan
Structural Mechanisms Of Qacr Induction And Multidrug Recognition.
Science V. 294 2158 2001
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 29)
Info
All Hetero Components
1a: DEQUALINIUM (DEQa)
2a: SULFATE ION (SO4a)
2aa: SULFATE ION (SO4aa)
2ab: SULFATE ION (SO4ab)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
2j: SULFATE ION (SO4j)
2k: SULFATE ION (SO4k)
2l: SULFATE ION (SO4l)
2m: SULFATE ION (SO4m)
2n: SULFATE ION (SO4n)
2o: SULFATE ION (SO4o)
2p: SULFATE ION (SO4p)
2q: SULFATE ION (SO4q)
2r: SULFATE ION (SO4r)
2s: SULFATE ION (SO4s)
2t: SULFATE ION (SO4t)
2u: SULFATE ION (SO4u)
2v: SULFATE ION (SO4v)
2w: SULFATE ION (SO4w)
2x: SULFATE ION (SO4x)
2y: SULFATE ION (SO4y)
2z: SULFATE ION (SO4z)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DEQ
1
Ligand/Ion
DEQUALINIUM
2
SO4
28
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(28, 28)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:2 , ASP A:5 , LYS A:6
BINDING SITE FOR RESIDUE SO4 A 599
02
AC2
SOFTWARE
LYS B:12 , ILE B:56 , GLU B:57 , LYS B:60
BINDING SITE FOR RESIDUE SO4 B 600
03
AC3
SOFTWARE
LYS A:4 , HIS A:42 , HOH A:835 , HOH A:845
BINDING SITE FOR RESIDUE SO4 A 299
04
AC4
SOFTWARE
THR D:25 , TYR D:40 , THR D:45 , LYS D:46 , SO4 D:999
BINDING SITE FOR RESIDUE SO4 D 899
05
AC5
SOFTWARE
THR E:24 , THR E:25 , GLY E:26 , LYS E:36
BINDING SITE FOR RESIDUE SO4 E 900
06
AC6
SOFTWARE
LYS B:66 , ASN D:2 , LEU D:3 , LYS D:4 , HIS D:42
BINDING SITE FOR RESIDUE SO4 D 269
07
AC7
SOFTWARE
THR D:24 , GLY D:26 , GLU D:27
BINDING SITE FOR RESIDUE SO4 D 270
08
AC8
SOFTWARE
LYS E:36 , TYR E:40 , THR E:45 , LYS E:46
BINDING SITE FOR RESIDUE SO4 E 249
09
AC9
SOFTWARE
LYS A:36 , LYS E:60
BINDING SITE FOR RESIDUE SO4 A 699
10
BC1
SOFTWARE
TYR D:20 , LYS D:46 , GLU D:105 , TYR D:106 , SO4 D:899
BINDING SITE FOR RESIDUE SO4 D 999
11
BC2
SOFTWARE
HIS B:128 , LYS B:132 , TYR D:41
BINDING SITE FOR RESIDUE SO4 B 219
12
BC3
SOFTWARE
LYS E:12 , ILE E:53 , ILE E:56 , GLU E:57 , HOH E:924
BINDING SITE FOR RESIDUE SO4 E 399
13
BC4
SOFTWARE
LYS A:36 , TYR A:40 , HOH A:842 , ASN E:2 , ASP E:5
BINDING SITE FOR RESIDUE SO4 A 799
14
BC5
SOFTWARE
THR A:23 , THR A:24 , THR A:25 , LYS A:46
BINDING SITE FOR RESIDUE SO4 A 800
15
BC6
SOFTWARE
LYS E:4 , TYR E:41 , HIS E:42
BINDING SITE FOR RESIDUE SO4 E 289
16
BC7
SOFTWARE
GLN B:64 , GLU B:90 , TYR B:91 , GLN D:64 , GLU D:90 , TYR D:91
BINDING SITE FOR RESIDUE SO4 B 199
17
BC8
SOFTWARE
LYS B:67 , LYS D:60 , GLU D:90 , TYR D:91
BINDING SITE FOR RESIDUE SO4 B 499
18
BC9
SOFTWARE
ASN B:2
BINDING SITE FOR RESIDUE SO4 B 700
19
CC1
SOFTWARE
THR B:24 , THR B:25
BINDING SITE FOR RESIDUE SO4 B 1000
20
CC2
SOFTWARE
LYS A:132
BINDING SITE FOR RESIDUE SO4 A 801
21
CC3
SOFTWARE
ASN A:2 , LEU A:3 , LYS A:4 , ASN A:38 , HIS A:42 , HOH A:845
BINDING SITE FOR RESIDUE SO4 A 279
22
CC4
SOFTWARE
ILE B:70 , LYS B:73 , HIS D:164 , GLU D:165 , TYR E:107
BINDING SITE FOR RESIDUE SO4 D 280
23
CC5
SOFTWARE
HIS E:128 , LYS E:132
BINDING SITE FOR RESIDUE SO4 E 239
24
CC6
SOFTWARE
GLU D:13 , LYS D:30 , GLU D:33 , HOH D:1004
BINDING SITE FOR RESIDUE SO4 D 779
25
CC7
SOFTWARE
ASN A:2
BINDING SITE FOR RESIDUE SO4 A 601
26
CC8
SOFTWARE
LYS D:173 , ASP E:144 , ALA E:147
BINDING SITE FOR RESIDUE SO4 D 639
27
CC9
SOFTWARE
HIS D:128 , LYS D:132
BINDING SITE FOR RESIDUE SO4 D 400
28
DC1
SOFTWARE
GLU A:57 , TRP A:61 , THR A:89 , TYR A:93 , TYR A:103 , MET A:116 , HOH A:825 , ASN B:97 , THR B:161 , PHE B:162
BINDING SITE FOR RESIDUE DEQ A 201
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: HTH_TETR_1 (A:19-49,B:19-49,D:19-49,E:19-49)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HTH_TETR_1
PS01081
TetR-type HTH domain signature.
QACR_STAAU
19-49
4
A:19-49
B:19-49
D:19-49
E:19-49
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 8)
Info
All SCOP Domains
1a: SCOP_d1jt6a1 (A:2-72)
1b: SCOP_d1jt6b1 (B:2-72)
1c: SCOP_d1jt6d1 (D:2-72)
1d: SCOP_d1jt6e1 (E:2-72)
2a: SCOP_d1jt6a2 (A:73-187)
2b: SCOP_d1jt6b2 (B:73-187)
2c: SCOP_d1jt6d2 (D:73-187)
2d: SCOP_d1jt6e2 (E:73-187)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
DNA/RNA-binding 3-helical bundle
(1299)
Superfamily
:
Homeodomain-like
(373)
Family
:
Tetracyclin repressor-like, N-terminal domain
(97)
Protein domain
:
Multidrug binding protein QacR
(24)
Staphylococcus aureus [TaxId: 1280]
(24)
1a
d1jt6a1
A:2-72
1b
d1jt6b1
B:2-72
1c
d1jt6d1
D:2-72
1d
d1jt6e1
E:2-72
Fold
:
Tetracyclin repressor-like, C-terminal domain
(116)
Superfamily
:
Tetracyclin repressor-like, C-terminal domain
(116)
Family
:
Tetracyclin repressor-like, C-terminal domain
(114)
Protein domain
:
Multidrug binding protein QacR
(24)
Staphylococcus aureus [TaxId: 1280]
(24)
2a
d1jt6a2
A:73-187
2b
d1jt6b2
B:73-187
2c
d1jt6d2
D:73-187
2d
d1jt6e2
E:73-187
[
close SCOP info
]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1jt6A01 (A:2-50)
1b: CATH_1jt6B01 (B:2-50)
1c: CATH_1jt6D01 (D:2-50)
1d: CATH_1jt6E01 (E:2-50)
2a: CATH_1jt6A02 (A:51-187)
2b: CATH_1jt6B02 (B:51-187)
2c: CATH_1jt6D02 (D:51-187)
2d: CATH_1jt6E02 (E:51-187)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
Homeodomain-like
(288)
Staphylococcus aureus. Organism_taxid: 1280.
(6)
1a
1jt6A01
A:2-50
1b
1jt6B01
B:2-50
1c
1jt6D01
D:2-50
1d
1jt6E01
E:2-50
Topology
:
Tetracycline Repressor; domain 2
(126)
Homologous Superfamily
:
Tetracycline Repressor, domain 2
(124)
Staphylococcus aureus. Organism_taxid: 1280.
(6)
2a
1jt6A02
A:51-187
2b
1jt6B02
B:51-187
2c
1jt6D02
D:51-187
2d
1jt6E02
E:51-187
[
close CATH info
]
Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_TetR_N_1jt6E01 (E:7-53)
1b: PFAM_TetR_N_1jt6E02 (E:7-53)
1c: PFAM_TetR_N_1jt6E03 (E:7-53)
1d: PFAM_TetR_N_1jt6E04 (E:7-53)
2a: PFAM_TetR_C_5_1jt6E05 (E:57-187)
2b: PFAM_TetR_C_5_1jt6E06 (E:57-187)
2c: PFAM_TetR_C_5_1jt6E07 (E:57-187)
2d: PFAM_TetR_C_5_1jt6E08 (E:57-187)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
HTH
(544)
Family
:
TetR_N
(84)
Staphylococcus aureus
(11)
1a
TetR_N-1jt6E01
E:7-53
1b
TetR_N-1jt6E02
E:7-53
1c
TetR_N-1jt6E03
E:7-53
1d
TetR_N-1jt6E04
E:7-53
Clan
:
TetR_C
(33)
Family
:
TetR_C_5
(11)
Staphylococcus aureus
(11)
2a
TetR_C_5-1jt6E05
E:57-187
2b
TetR_C_5-1jt6E06
E:57-187
2c
TetR_C_5-1jt6E07
E:57-187
2d
TetR_C_5-1jt6E08
E:57-187
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain D
Chain E
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (140 KB)
Header - Asym.Unit
Biol.Unit 1 (69 KB)
Header - Biol.Unit 1
Biol.Unit 2 (67 KB)
Header - Biol.Unit 2
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
1JT6
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help