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.
5J51
Asym. Unit
Info
Asym.Unit (220 KB)
Biol.Unit 1 (108 KB)
Biol.Unit 2 (107 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF TETRAMERIC JACALIN COMPLEXED WITH GAL ALPHA-(1,4) GAL
Authors
:
K. V. Abhinav, K. Sharma, A. Surolia, M. Vijayan
Date
:
01 Apr 16 (Deposition) - 14 Dec 16 (Release) - 14 Dec 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.67
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Plant Lectins, Sugar Binding Protein, Galactose Specific Lectin, Beta-Prism I Fold, Post Translational Proteolysis, T-Antigen Binding Protein, Reducing, Non-Reducing Sugars
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. V. Abhinav, K. Sharma, A. Surolia, M. Vijayan
Effect Of Linkage On The Location Of Reducing And Nonreducing Sugars Bound To Jacalin.
Iubmb Life V. 68 971 2016
[
close entry info
]
Hetero Components
(4, 39)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1aa: 1,2-ETHANEDIOL (EDOaa)
1ab: 1,2-ETHANEDIOL (EDOab)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
1j: 1,2-ETHANEDIOL (EDOj)
1k: 1,2-ETHANEDIOL (EDOk)
1l: 1,2-ETHANEDIOL (EDOl)
1m: 1,2-ETHANEDIOL (EDOm)
1n: 1,2-ETHANEDIOL (EDOn)
1o: 1,2-ETHANEDIOL (EDOo)
1p: 1,2-ETHANEDIOL (EDOp)
1q: 1,2-ETHANEDIOL (EDOq)
1r: 1,2-ETHANEDIOL (EDOr)
1s: 1,2-ETHANEDIOL (EDOs)
1t: 1,2-ETHANEDIOL (EDOt)
1u: 1,2-ETHANEDIOL (EDOu)
1v: 1,2-ETHANEDIOL (EDOv)
1w: 1,2-ETHANEDIOL (EDOw)
1x: 1,2-ETHANEDIOL (EDOx)
1y: 1,2-ETHANEDIOL (EDOy)
1z: 1,2-ETHANEDIOL (EDOz)
2a: ALPHA D-GALACTOSE (GLAa)
2b: ALPHA D-GALACTOSE (GLAb)
2c: ALPHA D-GALACTOSE (GLAc)
2d: ALPHA D-GALACTOSE (GLAd)
3a: ISOPROPYL ALCOHOL (IPAa)
3b: ISOPROPYL ALCOHOL (IPAb)
3c: ISOPROPYL ALCOHOL (IPAc)
3d: ISOPROPYL ALCOHOL (IPAd)
3e: ISOPROPYL ALCOHOL (IPAe)
3f: ISOPROPYL ALCOHOL (IPAf)
4a: DI(HYDROXYETHYL)ETHER (PEGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
28
Ligand/Ion
1,2-ETHANEDIOL
2
GLA
4
Ligand/Ion
ALPHA D-GALACTOSE
3
IPA
6
Ligand/Ion
ISOPROPYL ALCOHOL
4
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
[
close Hetero Component info
]
Sites
(37, 37)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
22: AE4 (SOFTWARE)
23: AE5 (SOFTWARE)
24: AE6 (SOFTWARE)
25: AE7 (SOFTWARE)
26: AE8 (SOFTWARE)
27: AE9 (SOFTWARE)
28: AF1 (SOFTWARE)
29: AF2 (SOFTWARE)
30: AF3 (SOFTWARE)
31: AF4 (SOFTWARE)
32: AF5 (SOFTWARE)
33: AF6 (SOFTWARE)
34: AF7 (SOFTWARE)
35: AF8 (SOFTWARE)
36: AF9 (SOFTWARE)
37: AG1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ALA A:3 , PHE A:4 , LYS A:117 , GLY A:118 , TYR A:126
binding site for residue EDO A 201
02
AC2
SOFTWARE
ASN A:16 , ASN A:43
binding site for residue EDO A 202
03
AC3
SOFTWARE
SER A:46 , PHE A:47 , THR A:49
binding site for residue EDO A 203
04
AC4
SOFTWARE
IPA A:205 , THR C:23 , SER C:76 , TRP C:123
binding site for residue IPA A 204
05
AC5
SOFTWARE
IPA A:204 , SER C:76 , TRP C:123 , IPA C:211
binding site for residue IPA A 205
06
AC6
SOFTWARE
ARG A:13
binding site for residue IPA A 206
07
AC7
SOFTWARE
TYR A:78 , VAL A:80 , GLY A:121 , TYR A:122 , TRP A:123 , ASP A:125 , HOH A:345 , HOH A:393
binding site for residue PEG A 207
08
AC8
SOFTWARE
HOH B:204
binding site for residue IPA B 101
09
AC9
SOFTWARE
GLN B:8 , ASN C:110 , LEU C:112 , LEU C:133 , EDO C:202
binding site for residue EDO C 201
10
AD1
SOFTWARE
TYR C:64 , ASN C:110 , GLY C:111 , LEU C:112 , EDO C:201 , SER H:4
binding site for residue EDO C 202
11
AD2
SOFTWARE
TYR C:64
binding site for residue EDO C 203
12
AD3
SOFTWARE
PHE C:4 , ASP C:5 , ASP C:6 , GLN C:42 , HIS C:44
binding site for residue EDO C 204
13
AD4
SOFTWARE
ASP C:27 , ASN C:43 , LYS C:45 , PRO C:53 , HOH C:320 , VAL E:40 , EDO E:206
binding site for residue EDO C 205
14
AD5
SOFTWARE
TYR C:19 , LYS C:21 , THR C:52 , HOH C:312
binding site for residue EDO C 206
15
AD6
SOFTWARE
PRO E:53
binding site for residue EDO C 207
16
AD7
SOFTWARE
GLN C:42 , ASN C:43 , GLN E:42 , ASN E:43
binding site for residue EDO C 208
17
AD8
SOFTWARE
LYS C:55 , TYR C:96
binding site for residue EDO C 209
18
AD9
SOFTWARE
HOH C:310
binding site for residue EDO C 210
19
AE1
SOFTWARE
GLU A:14 , LYS A:55 , IPA A:205
binding site for residue IPA C 211
20
AE2
SOFTWARE
ALA A:8 , THR A:10 , ALA E:8 , THR E:10
binding site for residue EDO E 201
21
AE3
SOFTWARE
GLY E:1 , ALA E:3 , SER E:119 , TYR E:126
binding site for residue EDO E 202
22
AE4
SOFTWARE
LYS C:55 , HOH C:303 , GLU E:14 , VAL E:31 , HOH E:303 , HOH E:338
binding site for residue EDO E 203
23
AE5
SOFTWARE
VAL C:40 , HOH C:354 , LEU E:17 , ASP E:27 , ASN E:43 , PRO E:53 , HOH E:335
binding site for residue EDO E 204
24
AE6
SOFTWARE
ARG E:13 , PHE E:60 , HOH E:306 , HOH E:321
binding site for residue EDO E 205
25
AE7
SOFTWARE
ASP C:27 , LYS C:45 , EDO C:205 , HOH C:346 , VAL E:40
binding site for residue EDO E 206
26
AE8
SOFTWARE
PHE E:51 , THR E:52 , HOH E:391 , TYR G:39
binding site for residue EDO E 207
27
AE9
SOFTWARE
ASP A:6 , PHE A:9 , TYR A:39 , LEU E:34 , ASN E:35 , SER E:37 , EDO E:210
binding site for residue EDO E 208
28
AF1
SOFTWARE
GLY E:73 , ASN E:74 , ARG E:82 , SER E:100
binding site for residue EDO E 209
29
AF2
SOFTWARE
PHE C:51 , PRO C:53 , SER E:37 , EDO E:208
binding site for residue EDO E 210
30
AF3
SOFTWARE
SER E:132 , LEU E:133 , HOH E:337 , HOH E:374 , LEU G:133
binding site for residue EDO E 211
31
AF4
SOFTWARE
SER B:4 , TYR E:64 , ASN E:110 , GLY E:111 , LEU E:112 , HOH E:333
binding site for residue IPA E 212
32
AF5
SOFTWARE
ALA C:8 , THR C:10 , ALA G:8 , PHE G:9 , THR G:10 , HOH G:357 , HOH G:374
binding site for residue EDO G 201
33
AF6
SOFTWARE
LYS G:55 , HOH G:324
binding site for residue EDO G 202
34
AF7
SOFTWARE
GLY G:73 , ASN G:74 , ARG G:82 , SER G:100
binding site for residue EDO G 203
35
AF8
SOFTWARE
GLN D:3 , SER D:4 , TYR G:64 , ASN G:110 , GLY G:111
binding site for residue EDO G 204
36
AF9
SOFTWARE
GLY E:1 , SER E:76 , TYR E:78 , GLY E:121 , TYR E:122 , TRP E:123 , ASP E:125 , HOH E:304 , HOH E:340
binding site for Poly-Saccharide residues GLA E 213 through GLA E 214
37
AG1
SOFTWARE
GLY C:1 , TYR C:78 , VAL C:79 , ASP C:125 , HOH C:331 , HOH C:362 , GLY G:1 , SER G:76 , TYR G:78 , GLY G:121 , TYR G:122 , TRP G:123 , ASP G:125 , HOH G:366 , HOH G:371
binding site for Poly-Saccharide residues GLA G 205 through GLA G 206
[
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
Chain B
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
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 (220 KB)
Header - Asym.Unit
Biol.Unit 1 (108 KB)
Header - Biol.Unit 1
Biol.Unit 2 (107 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
5J51
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help