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.
1ZHS
Biol. Unit 2
Info
Asym.Unit (188 KB)
Biol.Unit 1 (49 KB)
Biol.Unit 2 (49 KB)
Biol.Unit 3 (49 KB)
Biol.Unit 4 (49 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 MVL BOUND TO MAN3GLCNAC2
Authors
:
D. C. Williams, J. Y. Lee, M. Cai, C. A. Bewley, G. M. Clore
Date
:
26 Apr 05 (Deposition) - 07 Jun 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Keywords
:
Mvl, Hiv-1, Carbohydrate Binding, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. C. Williams, J. Y. Lee, M. Cai, C. A. Bewley, G. M. Clore
Crystal Structures Of The Hiv-1 Inhibitory Cyanobacterial Protein Mvl Free And Bound To Man3Glcnac2: Structural Basis For Specificity And High-Affinity Binding To The Core Pentasaccharide From N-Linked Oligomannoside.
J. Biol. Chem. V. 280 29269 2005
[
close entry info
]
Hetero Components
(4, 25)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
1e: BETA-D-MANNOSE (BMAe)
1f: BETA-D-MANNOSE (BMAf)
1g: BETA-D-MANNOSE (BMAg)
1h: BETA-D-MANNOSE (BMAh)
1i: BETA-D-MANNOSE (BMAi)
1j: BETA-D-MANNOSE (BMAj)
1k: BETA-D-MANNOSE (BMAk)
1l: BETA-D-MANNOSE (BMAl)
1m: BETA-D-MANNOSE (BMAm)
1n: BETA-D-MANNOSE (BMAn)
1o: BETA-D-MANNOSE (BMAo)
1p: BETA-D-MANNOSE (BMAp)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
2n: 1,2-ETHANEDIOL (EDOn)
2o: 1,2-ETHANEDIOL (EDOo)
2p: 1,2-ETHANEDIOL (EDOp)
2q: 1,2-ETHANEDIOL (EDOq)
2r: 1,2-ETHANEDIOL (EDOr)
2s: 1,2-ETHANEDIOL (EDOs)
2t: 1,2-ETHANEDIOL (EDOt)
2u: 1,2-ETHANEDIOL (EDOu)
2v: 1,2-ETHANEDIOL (EDOv)
2w: 1,2-ETHANEDIOL (EDOw)
2x: 1,2-ETHANEDIOL (EDOx)
2y: 1,2-ETHANEDIOL (EDOy)
2z: 1,2-ETHANEDIOL (EDOz)
3a: ALPHA-D-MANNOSE (MANa)
3aa: ALPHA-D-MANNOSE (MANaa)
3ab: ALPHA-D-MANNOSE (MANab)
3ac: ALPHA-D-MANNOSE (MANac)
3ad: ALPHA-D-MANNOSE (MANad)
3ae: ALPHA-D-MANNOSE (MANae)
3af: ALPHA-D-MANNOSE (MANaf)
3b: ALPHA-D-MANNOSE (MANb)
3c: ALPHA-D-MANNOSE (MANc)
3d: ALPHA-D-MANNOSE (MANd)
3e: ALPHA-D-MANNOSE (MANe)
3f: ALPHA-D-MANNOSE (MANf)
3g: ALPHA-D-MANNOSE (MANg)
3h: ALPHA-D-MANNOSE (MANh)
3i: ALPHA-D-MANNOSE (MANi)
3j: ALPHA-D-MANNOSE (MANj)
3k: ALPHA-D-MANNOSE (MANk)
3l: ALPHA-D-MANNOSE (MANl)
3m: ALPHA-D-MANNOSE (MANm)
3n: ALPHA-D-MANNOSE (MANn)
3o: ALPHA-D-MANNOSE (MANo)
3p: ALPHA-D-MANNOSE (MANp)
3q: ALPHA-D-MANNOSE (MANq)
3r: ALPHA-D-MANNOSE (MANr)
3s: ALPHA-D-MANNOSE (MANs)
3t: ALPHA-D-MANNOSE (MANt)
3u: ALPHA-D-MANNOSE (MANu)
3v: ALPHA-D-MANNOSE (MANv)
3w: ALPHA-D-MANNOSE (MANw)
3x: ALPHA-D-MANNOSE (MANx)
3y: ALPHA-D-MANNOSE (MANy)
3z: ALPHA-D-MANNOSE (MANz)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4aa: N-ACETYL-D-GLUCOSAMINE (NAGaa)
4ab: N-ACETYL-D-GLUCOSAMINE (NAGab)
4ac: N-ACETYL-D-GLUCOSAMINE (NAGac)
4ad: N-ACETYL-D-GLUCOSAMINE (NAGad)
4ae: N-ACETYL-D-GLUCOSAMINE (NAGae)
4af: N-ACETYL-D-GLUCOSAMINE (NAGaf)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4g: N-ACETYL-D-GLUCOSAMINE (NAGg)
4h: N-ACETYL-D-GLUCOSAMINE (NAGh)
4i: N-ACETYL-D-GLUCOSAMINE (NAGi)
4j: N-ACETYL-D-GLUCOSAMINE (NAGj)
4k: N-ACETYL-D-GLUCOSAMINE (NAGk)
4l: N-ACETYL-D-GLUCOSAMINE (NAGl)
4m: N-ACETYL-D-GLUCOSAMINE (NAGm)
4n: N-ACETYL-D-GLUCOSAMINE (NAGn)
4o: N-ACETYL-D-GLUCOSAMINE (NAGo)
4p: N-ACETYL-D-GLUCOSAMINE (NAGp)
4q: N-ACETYL-D-GLUCOSAMINE (NAGq)
4r: N-ACETYL-D-GLUCOSAMINE (NAGr)
4s: N-ACETYL-D-GLUCOSAMINE (NAGs)
4t: N-ACETYL-D-GLUCOSAMINE (NAGt)
4u: N-ACETYL-D-GLUCOSAMINE (NAGu)
4v: N-ACETYL-D-GLUCOSAMINE (NAGv)
4w: N-ACETYL-D-GLUCOSAMINE (NAGw)
4x: N-ACETYL-D-GLUCOSAMINE (NAGx)
4y: N-ACETYL-D-GLUCOSAMINE (NAGy)
4z: N-ACETYL-D-GLUCOSAMINE (NAGz)
5a: PHOSPHATE ION (PO4a)
5b: PHOSPHATE ION (PO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
4
Ligand/Ion
BETA-D-MANNOSE
2
EDO
5
Ligand/Ion
1,2-ETHANEDIOL
3
MAN
8
Ligand/Ion
ALPHA-D-MANNOSE
4
NAG
8
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
5
PO4
-1
Ligand/Ion
PHOSPHATE ION
[
close Hetero Component info
]
Sites
(35, 35)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: CC3 (SOFTWARE)
04: CC4 (SOFTWARE)
05: CC5 (SOFTWARE)
06: CC6 (SOFTWARE)
07: CC7 (SOFTWARE)
08: CC8 (SOFTWARE)
09: CC9 (SOFTWARE)
10: DC1 (SOFTWARE)
11: DC2 (SOFTWARE)
12: DC3 (SOFTWARE)
13: DC4 (SOFTWARE)
14: DC5 (SOFTWARE)
15: DC6 (SOFTWARE)
16: DC7 (SOFTWARE)
17: DC8 (SOFTWARE)
18: DC9 (SOFTWARE)
19: EC1 (SOFTWARE)
20: EC2 (SOFTWARE)
21: EC3 (SOFTWARE)
22: EC4 (SOFTWARE)
23: GC3 (SOFTWARE)
24: HC3 (SOFTWARE)
25: HC6 (SOFTWARE)
26: IC3 (SOFTWARE)
27: IC9 (SOFTWARE)
28: JC8 (SOFTWARE)
29: KC4 (SOFTWARE)
30: KC5 (SOFTWARE)
31: KC6 (SOFTWARE)
32: KC7 (SOFTWARE)
33: KC8 (SOFTWARE)
34: LC2 (SOFTWARE)
35: LC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:12 , TRP A:13 , TRP A:37 , THR A:39 , GLU A:42 , SER A:43 , NAG A:202 , HOH A:845 , ILE C:59 , EDO G:807
BINDING SITE FOR RESIDUE NAG A 201
02
AC2
SOFTWARE
SER A:14 , ASN A:15 , TRP A:37 , THR A:38 , THR A:39 , NAG A:201 , BMA A:203 , HOH A:823 , HOH A:827 , HOH A:875 , ILE C:59
BINDING SITE FOR RESIDUE NAG A 202
03
CC3
SOFTWARE
LEU C:12 , TRP C:13 , TRP C:37 , THR C:39 , SER C:43 , SER C:46 , NAG C:202
BINDING SITE FOR RESIDUE NAG C 201
04
CC4
SOFTWARE
SER C:14 , ASN C:15 , TRP C:37 , THR C:38 , THR C:39 , NAG C:201 , BMA C:203 , HOH C:875
BINDING SITE FOR RESIDUE NAG C 202
05
CC5
SOFTWARE
ASN C:15 , GLN C:36 , TRP C:37 , NAG C:202 , MAN C:204 , MAN C:205
BINDING SITE FOR RESIDUE BMA C 203
06
CC6
SOFTWARE
THR C:38 , BMA C:203
BINDING SITE FOR RESIDUE MAN C 204
07
CC7
SOFTWARE
GLY C:35 , GLN C:36 , BMA C:203
BINDING SITE FOR RESIDUE MAN C 205
08
CC8
SOFTWARE
LEU C:71 , TRP C:72 , TRP C:96 , THR C:98 , GLY C:102 , NAG C:212 , HOH C:837 , HOH F:893 , ALA H:16
BINDING SITE FOR RESIDUE NAG C 211
09
CC9
SOFTWARE
ILE B:59 , SER C:73 , ASN C:74 , TRP C:96 , ARG C:97 , THR C:98 , NAG C:211 , BMA C:213 , HOH C:846 , GLU F:55
BINDING SITE FOR RESIDUE NAG C 212
10
DC1
SOFTWARE
ASN C:74 , GLN C:95 , TRP C:96 , NAG C:212 , MAN C:214 , MAN C:215 , HOH C:846
BINDING SITE FOR RESIDUE BMA C 213
11
DC2
SOFTWARE
BMA C:213 , EDO C:814 , HOH C:852 , HOH C:866 , HOH C:892 , HOH C:903 , PRO E:11
BINDING SITE FOR RESIDUE MAN C 214
12
DC3
SOFTWARE
GLY C:94 , GLN C:95 , BMA C:213 , HOH C:865 , HOH C:886
BINDING SITE FOR RESIDUE MAN C 215
13
DC4
SOFTWARE
LEU D:12 , TRP D:13 , TRP D:37 , THR D:39 , SER D:43 , SER D:46 , NAG D:202 , HOH D:861
BINDING SITE FOR RESIDUE NAG D 201
14
DC5
SOFTWARE
SER D:14 , ASN D:15 , TRP D:37 , THR D:38 , THR D:39 , NAG D:201 , BMA D:203 , HOH D:867 , HOH D:875 , HOH D:885
BINDING SITE FOR RESIDUE NAG D 202
15
DC6
SOFTWARE
ASN D:15 , GLN D:36 , TRP D:37 , NAG D:202 , MAN D:204 , MAN D:205 , HOH D:867
BINDING SITE FOR RESIDUE BMA D 203
16
DC7
SOFTWARE
THR D:38 , BMA D:203 , EDO D:816
BINDING SITE FOR RESIDUE MAN D 204
17
DC8
SOFTWARE
GLY D:35 , GLN D:36 , BMA D:203
BINDING SITE FOR RESIDUE MAN D 205
18
DC9
SOFTWARE
LEU D:71 , TRP D:72 , TRP D:96 , THR D:98 , GLU D:101 , GLY D:102 , NAG D:212 , MAN G:214 , EDO G:812
BINDING SITE FOR RESIDUE NAG D 211
19
EC1
SOFTWARE
SER D:73 , ASN D:74 , TRP D:96 , ARG D:97 , THR D:98 , NAG D:211 , BMA D:213 , HOH D:822 , HOH D:837 , HOH D:850 , HOH D:884 , PO4 G:701 , EDO G:812
BINDING SITE FOR RESIDUE NAG D 212
20
EC2
SOFTWARE
ASN D:74 , GLY D:94 , GLN D:95 , TRP D:96 , NAG D:212 , MAN D:214 , MAN D:215 , HOH D:837 , PO4 G:701 , HOH G:870
BINDING SITE FOR RESIDUE BMA D 213
21
EC3
SOFTWARE
ARG D:97 , BMA D:213 , EDO D:815
BINDING SITE FOR RESIDUE MAN D 214
22
EC4
SOFTWARE
ASN D:74 , GLN D:78 , GLY D:94 , GLN D:95 , BMA D:213 , HOH D:880 , HOH D:892 , PHE G:62 , LYS G:63
BINDING SITE FOR RESIDUE MAN D 215
23
GC3
SOFTWARE
GLU C:55 , SER F:73 , ASN F:74 , TRP F:96 , ARG F:97 , THR F:98 , NAG F:211 , BMA F:213 , HOH F:847
BINDING SITE FOR RESIDUE NAG F 212
24
HC3
SOFTWARE
ALA D:16 , LEU G:71 , TRP G:72 , TRP G:96 , THR G:98 , GLU G:101 , GLY G:102 , NAG G:212
BINDING SITE FOR RESIDUE NAG G 211
25
HC6
SOFTWARE
NAG D:211 , BMA G:213 , EDO G:812 , EDO G:826
BINDING SITE FOR RESIDUE MAN G 214
26
IC3
SOFTWARE
HOH C:836 , GLY H:35 , GLN H:36 , BMA H:203
BINDING SITE FOR RESIDUE MAN H 205
27
IC9
SOFTWARE
NAG D:212 , BMA D:213 , HOH D:837 , GLN G:108 , EDO G:812
BINDING SITE FOR RESIDUE PO4 G 701
28
JC8
SOFTWARE
TRP A:13 , NAG A:201 , ILE C:59 , ALA G:1 , GLN G:53 , VAL G:54 , GLU G:55
BINDING SITE FOR RESIDUE EDO G 807
29
KC4
SOFTWARE
NAG D:211 , NAG D:212 , GLN G:95 , GLN G:108 , MAN G:214 , PO4 G:701 , EDO G:826
BINDING SITE FOR RESIDUE EDO G 812
30
KC5
SOFTWARE
GLY D:102 , GLN G:30 , ASN G:32 , GLU G:51 , LEU G:52 , GLN G:53
BINDING SITE FOR RESIDUE EDO G 813
31
KC6
SOFTWARE
ASP C:65 , TRP C:96 , ARG C:97 , GLN C:108 , MAN C:214
BINDING SITE FOR RESIDUE EDO C 814
32
KC7
SOFTWARE
ASP D:65 , GLN D:95 , TRP D:96 , ARG D:97 , MAN D:214
BINDING SITE FOR RESIDUE EDO D 815
33
KC8
SOFTWARE
ASN D:6 , GLN D:36 , TRP D:37 , THR D:38 , GLU D:49 , MAN D:204 , HOH D:890
BINDING SITE FOR RESIDUE EDO D 816
34
LC2
SOFTWARE
HIS C:29 , LEU C:52 , SER C:87 , TYR C:88 , HOH C:826 , HOH C:827
BINDING SITE FOR RESIDUE EDO C 819
35
LC3
SOFTWARE
HIS D:29 , SER D:87 , TYR D:88 , HOH D:830 , HOH D:834
BINDING SITE FOR RESIDUE EDO D 820
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 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.
(no "Exon" information available for biological units yet)
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
(1, 16)
Info
all PFAM domains
1a: PFAM_MVL_1zhsH01 (H:74-110)
1b: PFAM_MVL_1zhsH02 (H:74-110)
1c: PFAM_MVL_1zhsH03 (H:74-110)
1d: PFAM_MVL_1zhsH04 (H:74-110)
1e: PFAM_MVL_1zhsH05 (H:74-110)
1f: PFAM_MVL_1zhsH06 (H:74-110)
1g: PFAM_MVL_1zhsH07 (H:74-110)
1h: PFAM_MVL_1zhsH08 (H:74-110)
1i: PFAM_MVL_1zhsH09 (H:74-110)
1j: PFAM_MVL_1zhsH10 (H:74-110)
1k: PFAM_MVL_1zhsH11 (H:74-110)
1l: PFAM_MVL_1zhsH12 (H:74-110)
1m: PFAM_MVL_1zhsH13 (H:74-110)
1n: PFAM_MVL_1zhsH14 (H:74-110)
1o: PFAM_MVL_1zhsH15 (H:74-110)
1p: PFAM_MVL_1zhsH16 (H:74-110)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: MVL]
(2)
Family
:
MVL
(2)
Microcystis viridis
(2)
1a
MVL-1zhsH01
H:74-110
1b
MVL-1zhsH02
H:74-110
1c
MVL-1zhsH03
H:74-110
1d
MVL-1zhsH04
H:74-110
1e
MVL-1zhsH05
H:74-110
1f
MVL-1zhsH06
H:74-110
1g
MVL-1zhsH07
H:74-110
1h
MVL-1zhsH08
H:74-110
1i
MVL-1zhsH09
H:74-110
1j
MVL-1zhsH10
H:74-110
1k
MVL-1zhsH11
H:74-110
1l
MVL-1zhsH12
H:74-110
1m
MVL-1zhsH13
H:74-110
1n
MVL-1zhsH14
H:74-110
1o
MVL-1zhsH15
H:74-110
1p
MVL-1zhsH16
H:74-110
[
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 C
Chain D
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 (188 KB)
Header - Asym.Unit
Biol.Unit 1 (49 KB)
Header - Biol.Unit 1
Biol.Unit 2 (49 KB)
Header - Biol.Unit 2
Biol.Unit 3 (49 KB)
Header - Biol.Unit 3
Biol.Unit 4 (49 KB)
Header - Biol.Unit 4
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
1ZHS
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
