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.
4RS3
Asym. Unit
Info
Asym.Unit (118 KB)
Biol.Unit 1 (111 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 CARBOHYDRATE TRANSPORTER A0QYB3 FROM MYCOBACTERIUM SMEGMATIS STR. MC2 155, TARGET EFI-510969, IN COMPLEX WITH XYLITOL
Authors
:
Y. Patskovsky, R. Toro, R. Bhosle, N. Al Obaidi, L. L. Morisco, S. R. Was S. Chamala, J. D. Attonito, A. Scott Glenn, S. Chowdhury, J. Lafleur, B. Hillerich, R. D. Siedel, J. Love, K. L. Whalen, J. A. Gerlt, S. C. Almo Function Initiative (Efi)
Date
:
06 Nov 14 (Deposition) - 19 Nov 14 (Release) - 01 Jun 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.40
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Sugar Transporter, Abc-Type, Enzyme Function Initiative, Efi, Structural Genomics, Transport Protein, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Huang, M. S. Carter, M. W. Vetting, N. Al-Obaidi, Y. Patskovsky, S. C. Almo, J. A. Gerlt
A General Strategy For The Discovery Of Metabolic Pathways: D-Threitol, L-Threitol, And Erythritol Utilization In Mycobacterium Smegmatis.
J. Am. Chem. Soc. V. 137 14570 2015
[
close entry info
]
Hetero Components
(6, 44)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
2f: CHLORIDE ION (CLf)
2g: CHLORIDE ION (CLg)
2h: CHLORIDE ION (CLh)
2i: CHLORIDE ION (CLi)
2j: CHLORIDE ION (CLj)
2k: CHLORIDE ION (CLk)
2l: CHLORIDE ION (CLl)
2m: CHLORIDE ION (CLm)
2n: CHLORIDE ION (CLn)
2o: CHLORIDE ION (CLo)
2p: CHLORIDE ION (CLp)
3a: IMIDAZOLE (IMDa)
3b: IMIDAZOLE (IMDb)
3c: IMIDAZOLE (IMDc)
3d: IMIDAZOLE (IMDd)
4a: SELENOMETHIONINE (MSEa)
4b: SELENOMETHIONINE (MSEb)
4c: SELENOMETHIONINE (MSEc)
4d: SELENOMETHIONINE (MSEd)
4e: SELENOMETHIONINE (MSEe)
4f: SELENOMETHIONINE (MSEf)
4g: SELENOMETHIONINE (MSEg)
4h: SELENOMETHIONINE (MSEh)
5a: D-XYLITOL (XYLa)
6a: ZINC ION (ZNa)
6b: ZINC ION (ZNb)
6c: ZINC ION (ZNc)
6d: ZINC ION (ZNd)
6e: ZINC ION (ZNe)
6f: ZINC ION (ZNf)
6g: ZINC ION (ZNg)
6h: ZINC ION (ZNh)
6i: ZINC ION (ZNi)
6j: ZINC ION (ZNj)
6k: ZINC ION (ZNk)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
4
Ligand/Ion
ACETATE ION
2
CL
16
Ligand/Ion
CHLORIDE ION
3
IMD
4
Ligand/Ion
IMIDAZOLE
4
MSE
8
Mod. Amino Acid
SELENOMETHIONINE
5
XYL
1
Ligand/Ion
D-XYLITOL
6
ZN
11
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(36, 36)
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)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:42 , PHE A:47 , ASN A:121 , ARG A:173 , TRP A:197 , ASN A:224 , ASP A:249 , GLN A:269 , HOH A:501 , HOH A:512 , HOH A:524
BINDING SITE FOR RESIDUE XYL A 401
02
AC2
SOFTWARE
ASP A:43 , ASP A:150 , IMD A:413 , CL A:419
BINDING SITE FOR RESIDUE ZN A 402
03
AC3
SOFTWARE
GLU A:53 , IMD A:414 , CL A:423 , CL A:428
BINDING SITE FOR RESIDUE ZN A 403
04
AC4
SOFTWARE
ASP A:56 , ASP A:186 , CL A:420 , CL A:421
BINDING SITE FOR RESIDUE ZN A 404
05
AC5
SOFTWARE
GLU A:50 , GLU A:252 , CL A:417 , CL A:418
BINDING SITE FOR RESIDUE ZN A 405
06
AC6
SOFTWARE
GLU A:237 , IMD A:416 , ACT A:434 , HOH A:711
BINDING SITE FOR RESIDUE ZN A 406
07
AC7
SOFTWARE
ASP A:200 , CL A:429 , CL A:430 , CL A:432
BINDING SITE FOR RESIDUE ZN A 407
08
AC8
SOFTWARE
ASP A:337 , THR A:347 , HOH A:708
BINDING SITE FOR RESIDUE ZN A 408
09
AC9
SOFTWARE
ASP A:136 , HOH A:665 , HOH A:670 , HOH A:717
BINDING SITE FOR RESIDUE ZN A 409
10
BC1
SOFTWARE
ASP A:128 , ASP A:178 , CL A:422 , ACT A:433
BINDING SITE FOR RESIDUE ZN A 410
11
BC2
SOFTWARE
ASP A:218 , CL A:424 , CL A:425 , ACT A:436
BINDING SITE FOR RESIDUE ZN A 411
12
BC3
SOFTWARE
IMD A:415 , CL A:427 , CL A:431 , HOH A:681
BINDING SITE FOR RESIDUE ZN A 412
13
BC4
SOFTWARE
ASP A:43 , MSE A:44 , GLN A:146 , ASP A:150 , ZN A:402 , IMD A:415 , CL A:419 , CL A:427 , HOH A:635
BINDING SITE FOR RESIDUE IMD A 413
14
BC5
SOFTWARE
GLU A:53 , LYS A:183 , GLU A:252 , ZN A:403 , CL A:423 , CL A:428
BINDING SITE FOR RESIDUE IMD A 414
15
BC6
SOFTWARE
GLN A:143 , ZN A:412 , IMD A:413 , CL A:419 , CL A:426 , CL A:427 , CL A:431 , HOH A:681
BINDING SITE FOR RESIDUE IMD A 415
16
BC7
SOFTWARE
ASP A:136 , GLU A:237 , ZN A:406 , ACT A:434
BINDING SITE FOR RESIDUE IMD A 416
17
BC8
SOFTWARE
GLU A:50 , GLU A:252 , ASP A:253 , ZN A:405
BINDING SITE FOR RESIDUE CL A 417
18
BC9
SOFTWARE
GLU A:50 , GLU A:252 , ZN A:405
BINDING SITE FOR RESIDUE CL A 418
19
CC1
SOFTWARE
ASP A:43 , ASN A:73 , ASP A:150 , LYS A:198 , ZN A:402 , IMD A:413 , IMD A:415
BINDING SITE FOR RESIDUE CL A 419
20
CC2
SOFTWARE
ASP A:56 , LYS A:60 , ASP A:186 , ZN A:404
BINDING SITE FOR RESIDUE CL A 420
21
CC3
SOFTWARE
GLU A:53 , ASP A:56 , ASP A:186 , ZN A:404
BINDING SITE FOR RESIDUE CL A 421
22
CC4
SOFTWARE
ASP A:128 , ILE A:160 , ASP A:178 , ZN A:410 , ACT A:433
BINDING SITE FOR RESIDUE CL A 422
23
CC5
SOFTWARE
GLU A:53 , ARG A:318 , GLN A:319 , ZN A:403 , IMD A:414 , CL A:428
BINDING SITE FOR RESIDUE CL A 423
24
CC6
SOFTWARE
ASP A:218 , ZN A:411 , CL A:425 , ACT A:436
BINDING SITE FOR RESIDUE CL A 424
25
CC7
SOFTWARE
LYS A:155 , ASN A:157 , ASP A:218 , ZN A:411 , CL A:424 , ACT A:436
BINDING SITE FOR RESIDUE CL A 425
26
CC8
SOFTWARE
IMD A:415 , HOH A:549 , HOH A:681
BINDING SITE FOR RESIDUE CL A 426
27
CC9
SOFTWARE
ASP A:200 , ZN A:412 , IMD A:413 , IMD A:415 , CL A:431 , HOH A:681
BINDING SITE FOR RESIDUE CL A 427
28
DC1
SOFTWARE
GLU A:53 , PRO A:105 , ZN A:403 , IMD A:414 , CL A:423
BINDING SITE FOR RESIDUE CL A 428
29
DC2
SOFTWARE
ASP A:200 , ZN A:407
BINDING SITE FOR RESIDUE CL A 429
30
DC3
SOFTWARE
ALA A:139 , ASP A:200 , ZN A:407
BINDING SITE FOR RESIDUE CL A 430
31
DC4
SOFTWARE
ASP A:200 , GLU A:201 , ZN A:412 , IMD A:415 , CL A:427
BINDING SITE FOR RESIDUE CL A 431
32
DC5
SOFTWARE
ASP A:200 , GLN A:233 , ZN A:407
BINDING SITE FOR RESIDUE CL A 432
33
DC6
SOFTWARE
LYS A:111 , ASP A:128 , GLY A:174 , ASP A:178 , LYS A:192 , ZN A:410 , CL A:422 , HOH A:534
BINDING SITE FOR RESIDUE ACT A 433
34
DC7
SOFTWARE
GLU A:237 , VAL A:296 , GLY A:336 , ASP A:337 , ZN A:406 , IMD A:416
BINDING SITE FOR RESIDUE ACT A 434
35
DC8
SOFTWARE
ASP A:56 , LYS A:60 , GLU A:65 , LEU A:66
BINDING SITE FOR RESIDUE ACT A 435
36
DC9
SOFTWARE
PRO A:215 , ASP A:218 , ZN A:411 , CL A:424 , CL A:425
BINDING SITE FOR RESIDUE ACT A 436
[
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
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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
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 (118 KB)
Header - Asym.Unit
Biol.Unit 1 (111 KB)
Header - Biol.Unit 1
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
4RS3
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
