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...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
3U0Y
Asym. Unit
Info
Asym.Unit (221 KB)
Biol.Unit 1 (208 KB)
Biol.Unit 2 (209 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 FUCOSYLGALACTOSIDE ALPHA N-ACETYLGALACTOSAMINYLTRANSFERASE (GTA, CISAB MUTANT L266G, G268A) IN COMPLEX WITH COMPOUND 382 AND UDP
Authors
:
M. M. Palcic, R. Jorgensen
Date
:
29 Sep 11 (Deposition) - 24 Oct 12 (Release) - 12 Nov 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Biol. Unit 2: A,B (1x)
Keywords
:
Rossmann Fold, "Semi Closed" Conformation, Glycosyltransferase, Transferase Gtb, Abo, Blood Group Antigen, Glycoprotein, Metal- Binding, Manganese, Udp-Gal, H-Antigen Acceptor, Membrane, Transferase, Transferase-Transferase Inhibitor Complex
(Keyword Search:
[
Reference
:
R. Jorgensen, L. L. Grimm, N. Sindhuwinata, T. Peters, M. M. Palcic
A Novel Compound From A Molecular Fragment Library Screen Inhibits Glycosyltransferases By Displacing The Metal Ion And Interfering With Substrate Binding
To Be Published
[
close entry info
]
Hetero Components
(5, 11)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
2a: 1-(3-PHENYL-1,2,4-THIADIAZOL-5-YL)... (GTIa)
2b: 1-(3-PHENYL-1,2,4-THIADIAZOL-5-YL)... (GTIb)
3a: MANGANESE (II) ION (MNa)
3b: MANGANESE (II) ION (MNb)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
5a: URIDINE-5'-DIPHOSPHATE (UDPa)
5b: URIDINE-5'-DIPHOSPHATE (UDPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
3
Ligand/Ion
GLYCEROL
2
GTI
2
Ligand/Ion
1-(3-PHENYL-1,2,4-THIADIAZOL-5-YL)PIPERAZINE
3
MN
2
Ligand/Ion
MANGANESE (II) ION
4
SO4
2
Ligand/Ion
SULFATE ION
5
UDP
2
Ligand/Ion
URIDINE-5'-DIPHOSPHATE
[
close Hetero Component info
]
Sites
(11, 11)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:211 , ASP A:213 , MET A:214 , HIS A:233 , PRO A:234 , ASP A:326 , UDP A:402 , GOL A:403 , MN A:405
BINDING SITE FOR RESIDUE GTI A 401
02
AC2
SOFTWARE
PHE A:121 , ALA A:122 , ILE A:123 , TYR A:126 , ARG A:188 , ASP A:211 , VAL A:212 , ASP A:213 , GTI A:401 , MN A:405 , HOH A:520
BINDING SITE FOR RESIDUE UDP A 402
03
AC3
SOFTWARE
HIS A:233 , PHE A:236 , THR A:245 , TRP A:300 , GLU A:303 , GTI A:401
BINDING SITE FOR RESIDUE GOL A 403
04
AC4
SOFTWARE
ARG A:176 , TYR A:178 , LYS A:179 , HOH A:652 , LYS B:125
BINDING SITE FOR RESIDUE SO4 A 404
05
AC5
SOFTWARE
ASP A:211 , ASP A:213 , GTI A:401 , UDP A:402
BINDING SITE FOR RESIDUE MN A 405
06
AC6
SOFTWARE
PHE B:121 , ALA B:122 , ILE B:123 , TYR B:126 , VAL B:184 , ARG B:188 , ASP B:211 , VAL B:212 , ASP B:213 , GTI B:401 , MN B:403 , HOH B:530 , HOH B:691
BINDING SITE FOR RESIDUE UDP B 402
07
AC7
SOFTWARE
THR A:166 , GLY A:167 , HOH A:727 , HOH A:728 , ARG B:110 , ASN B:113 , ARG B:146 , HOH B:588
BINDING SITE FOR RESIDUE SO4 A 406
08
AC8
SOFTWARE
ASP B:211 , ASP B:213 , GTI B:401 , UDP B:402
BINDING SITE FOR RESIDUE MN B 403
09
AC9
SOFTWARE
ASP B:211 , ASP B:213 , MET B:214 , PRO B:234 , TRP B:325 , ASP B:326 , UDP B:402 , MN B:403 , HOH B:544
BINDING SITE FOR RESIDUE GTI B 401
10
BC1
SOFTWARE
HIS B:233 , PHE B:236 , THR B:245 , TRP B:300 , GLU B:303 , HOH B:596 , HOH B:710
BINDING SITE FOR RESIDUE GOL B 404
11
BC2
SOFTWARE
GLN B:112 , ASN B:113 , ASP B:205 , HOH B:552 , HOH B:571
BINDING SITE FOR RESIDUE GOL B 405
[
close Site info
]
SAPs(SNPs)/Variants
(21, 41)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_019149 (M63H, chain A, )
02: VAR_019150 (P74S, chain A/B, )
03: VAR_003409 (P156L, chain A/B, )
04: VAR_019151 (R161H, chain A/B, )
05: VAR_036738 (T163M, chain A/B, )
06: VAR_003410 (R176G, chain A/B, )
07: VAR_036739 (R198W, chain A/B, )
08: VAR_019152 (R199C, chain A/B, )
09: VAR_036740 (M214R, chain A/B, )
10: VAR_019153 (F216I, chain A/B, )
11: VAR_036741 (E223D, chain A/B, )
12: VAR_055227 (G230R, chain A/B, )
13: VAR_072628 (P234A, chain A/B, )
14: VAR_003411 (G235S, chain A/B, )
15: VAR_033540 (P257L, chain A/B, )
16: VAR_003412 (G266M, chain A/B, )
17: VAR_003413 (A268A, chain A/B, )
18: VAR_033541 (A268R, chain A/B, )
19: VAR_019154 (V277M, chain A/B, )
20: VAR_036742 (M288R, chain A/B, )
21: VAR_036743 (D291N, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_019149
R
63
H
BGAT_HUMAN
Polymorphism
549446
A
M
63
H
02
UniProt
VAR_019150
P
74
S
BGAT_HUMAN
Polymorphism
512770
A/B
P
74
S
03
UniProt
VAR_003409
P
156
L
BGAT_HUMAN
Polymorphism
1053878
A/B
P
156
L
04
UniProt
VAR_019151
R
161
H
BGAT_HUMAN
Polymorphism
8176738
A/B
R
161
H
05
UniProt
VAR_036738
T
163
M
BGAT_HUMAN
Polymorphism
55756402
A/B
T
163
M
06
UniProt
VAR_003410
R
176
G
BGAT_HUMAN
Polymorphism
7853989
A/B
R
176
G
07
UniProt
VAR_036739
R
198
W
BGAT_HUMAN
Polymorphism
56223957
A/B
R
198
W
08
UniProt
VAR_019152
R
199
C
BGAT_HUMAN
Polymorphism
8176739
A/B
R
199
C
09
UniProt
VAR_036740
M
214
R
BGAT_HUMAN
Polymorphism
55827808
A/B
M
214
R
10
UniProt
VAR_019153
F
216
I
BGAT_HUMAN
Polymorphism
8176740
A/B
F
216
I
11
UniProt
VAR_036741
E
223
D
BGAT_HUMAN
Polymorphism
---
A/B
E
223
D
12
UniProt
VAR_055227
G
230
R
BGAT_HUMAN
Unclassified
---
A/B
G
230
R
13
UniProt
VAR_072628
P
234
A
BGAT_HUMAN
Polymorphism
---
A/B
P
234
A
14
UniProt
VAR_003411
G
235
S
BGAT_HUMAN
Polymorphism
8176743
A/B
G
235
S
15
UniProt
VAR_033540
P
257
L
BGAT_HUMAN
Polymorphism
8176745
A/B
P
257
L
16
UniProt
VAR_003412
L
266
M
BGAT_HUMAN
Polymorphism
8176746
A/B
G
266
M
17
UniProt
VAR_003413
G
268
A
BGAT_HUMAN
Polymorphism
8176747
A/B
A
268
A
18
UniProt
VAR_033541
G
268
R
BGAT_HUMAN
Polymorphism
8176747
A/B
A
268
R
19
UniProt
VAR_019154
V
277
M
BGAT_HUMAN
Polymorphism
8176748
A/B
V
277
M
20
UniProt
VAR_036742
M
288
R
BGAT_HUMAN
Polymorphism
---
A/B
M
288
R
21
UniProt
VAR_036743
D
291
N
BGAT_HUMAN
Polymorphism
---
A/B
D
291
N
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3u0ya_ (A:)
1b: SCOP_d3u0yb_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Nucleotide-diphospho-sugar transferases
(408)
Superfamily
:
Nucleotide-diphospho-sugar transferases
(408)
Family
:
alpha-1,3-galactosyltransferase-like
(125)
Protein domain
:
Glycosyltransferase A catalytic domain
(52)
Human (Homo sapiens) [TaxId: 9606]
(52)
1a
d3u0ya_
A:
1b
d3u0yb_
B:
[
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
Chain B
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 (221 KB)
Header - Asym.Unit
Biol.Unit 1 (208 KB)
Header - Biol.Unit 1
Biol.Unit 2 (209 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
3U0Y
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
