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.
3TIB
Asym. Unit
Info
Asym.Unit (562 KB)
Biol.Unit 1 (550 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 1957 PANDEMIC H2N2 NEURAMINIDASE COMPLEXED WITH LANINAMIVIR OCTANOATE
Authors
:
C. J. Vavricka, Q. Li, Y. Wu, J. Qi, M. Wang, Y. Liu, F. Gao, J. Liu, E. Feng, J. Wang, H. Liu, H. Jiang, G. F. Gao
Date
:
20 Aug 11 (Deposition) - 16 Nov 11 (Release) - 16 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
6-Bladed Beta-Propeller, Calcium Binding, Glycosylation, Antiviral, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. J. Vavricka, Q. Li, Y. Wu, J. Qi, M. Wang, Y. Liu, F. Gao, J. Liu, E. Feng J. He, J. Wang, H. Liu, H. Jiang, G. F. Gao
Structural And Functional Analysis Of Laninamivir And Its Octanoate Prodrug Reveals Group Specific Mechanisms For Influenza Na Inhibition
Plos Pathog. V. 7 02249 2011
[
close entry info
]
Hetero Components
(5, 32)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
3a: 5-(ACETYLAMINO)-2,6-ANHYDRO-4-CARB... (LVOa)
3b: 5-(ACETYLAMINO)-2,6-ANHYDRO-4-CARB... (LVOb)
3c: 5-(ACETYLAMINO)-2,6-ANHYDRO-4-CARB... (LVOc)
3d: 5-(ACETYLAMINO)-2,6-ANHYDRO-4-CARB... (LVOd)
4a: ALPHA-D-MANNOSE (MANa)
4b: ALPHA-D-MANNOSE (MANb)
4c: ALPHA-D-MANNOSE (MANc)
4d: ALPHA-D-MANNOSE (MANd)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
5e: N-ACETYL-D-GLUCOSAMINE (NAGe)
5f: N-ACETYL-D-GLUCOSAMINE (NAGf)
5g: N-ACETYL-D-GLUCOSAMINE (NAGg)
5h: N-ACETYL-D-GLUCOSAMINE (NAGh)
5i: N-ACETYL-D-GLUCOSAMINE (NAGi)
5j: N-ACETYL-D-GLUCOSAMINE (NAGj)
5k: N-ACETYL-D-GLUCOSAMINE (NAGk)
5l: N-ACETYL-D-GLUCOSAMINE (NAGl)
5m: N-ACETYL-D-GLUCOSAMINE (NAGm)
5n: N-ACETYL-D-GLUCOSAMINE (NAGn)
5o: N-ACETYL-D-GLUCOSAMINE (NAGo)
5p: N-ACETYL-D-GLUCOSAMINE (NAGp)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
4
Ligand/Ion
BETA-D-MANNOSE
2
CA
4
Ligand/Ion
CALCIUM ION
3
LVO
4
Ligand/Ion
5-(ACETYLAMINO)-2,6-ANHYDRO-4-CARBAMIMIDAMIDO-3,4,5-TRIDEOXY-7-O-METHYL-9-O-OCTANOYL-D-GLYCERO-D-GALACTO-NON-2-ENONIC ACID
4
MAN
4
Ligand/Ion
ALPHA-D-MANNOSE
5
NAG
16
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(32, 32)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:293 , GLY A:297 , ASP A:324 , GLY A:345 , GLN A:347 , HOH A:471
BINDING SITE FOR RESIDUE CA A 501
02
AC2
SOFTWARE
ASN A:146 , TRP A:437 , ILE A:469 , NAG A:602 , HOH A:1018
BINDING SITE FOR RESIDUE NAG A 601
03
AC3
SOFTWARE
TRP A:437 , NAG A:601
BINDING SITE FOR RESIDUE NAG A 602
04
AC4
SOFTWARE
ASN A:200 , NAG A:604 , HOH A:887 , HOH A:1040 , TYR C:453 , GLY C:454 , THR C:455 , HOH C:508
BINDING SITE FOR RESIDUE NAG A 603
05
AC5
SOFTWARE
HOH A:534 , NAG A:603 , BMA A:605 , HOH A:667 , HOH A:1363 , ASN C:393 , ARG C:394
BINDING SITE FOR RESIDUE NAG A 604
06
AC6
SOFTWARE
HOH A:580 , NAG A:604 , MAN A:606 , HOH A:1233 , GLN C:391 , VAL C:392 , ARG C:394
BINDING SITE FOR RESIDUE BMA A 605
07
AC7
SOFTWARE
HOH A:559 , BMA A:605 , HOH A:630 , HOH A:800 , HOH A:861 , HOH A:1215 , HOH A:1276 , GLN C:391 , ARG C:394 , HOH C:533
BINDING SITE FOR RESIDUE MAN A 606
08
AC8
SOFTWARE
ARG A:118 , GLU A:119 , ASP A:151 , ARG A:152 , ARG A:156 , TRP A:178 , ILE A:222 , ARG A:224 , GLU A:227 , ALA A:246 , GLU A:276 , ARG A:292 , ARG A:371 , TYR A:406 , HOH A:524 , HOH A:527 , HOH A:567 , HOH A:1141
BINDING SITE FOR RESIDUE LVO A 801
09
AC9
SOFTWARE
ASP B:293 , GLY B:297 , ASP B:324 , GLY B:345 , GLN B:347 , HOH B:470
BINDING SITE FOR RESIDUE CA B 501
10
BC1
SOFTWARE
ASN B:146 , TRP B:437 , ILE B:469 , NAG B:602 , HOH B:618 , HOH B:1116 , HOH B:1144
BINDING SITE FOR RESIDUE NAG B 601
11
BC2
SOFTWARE
NAG B:601
BINDING SITE FOR RESIDUE NAG B 602
12
BC3
SOFTWARE
ASN B:200 , HOH B:547 , NAG B:604 , HOH B:1383 , TYR D:453 , GLY D:454 , THR D:455 , HOH D:515
BINDING SITE FOR RESIDUE NAG B 603
13
BC4
SOFTWARE
NAG B:603 , BMA B:605 , HOH B:614 , HOH B:615 , ASN D:393 , ARG D:394 , HOH D:545
BINDING SITE FOR RESIDUE NAG B 604
14
BC5
SOFTWARE
NAG B:604 , MAN B:606 , HOH B:615 , HOH B:899 , HOH B:1076 , HOH B:1145 , GLN D:391 , VAL D:392 , ARG D:394
BINDING SITE FOR RESIDUE BMA B 605
15
BC6
SOFTWARE
HOH B:472 , HOH B:561 , BMA B:605 , HOH B:620 , HOH B:818 , HOH B:1336 , GLN D:391 , ARG D:394
BINDING SITE FOR RESIDUE MAN B 606
16
BC7
SOFTWARE
ARG B:118 , GLU B:119 , ASP B:151 , ARG B:152 , ARG B:156 , TRP B:178 , ILE B:222 , ARG B:224 , GLU B:227 , ALA B:246 , GLU B:276 , GLU B:277 , ARG B:292 , ARG B:371 , TYR B:406 , HOH B:530 , HOH B:533 , HOH B:582
BINDING SITE FOR RESIDUE LVO B 801
17
BC8
SOFTWARE
ASP C:293 , GLY C:297 , ASP C:324 , GLY C:345 , GLN C:347 , HOH C:470
BINDING SITE FOR RESIDUE CA C 501
18
BC9
SOFTWARE
ASN C:146 , TRP C:437 , HOH C:522 , NAG C:602
BINDING SITE FOR RESIDUE NAG C 601
19
CC1
SOFTWARE
NAG C:601 , HOH C:675 , HOH C:1121
BINDING SITE FOR RESIDUE NAG C 602
20
CC2
SOFTWARE
TYR B:453 , GLY B:454 , THR B:455 , HOH B:525 , ASN C:200 , HOH C:563 , NAG C:604 , HOH C:788 , HOH C:1325
BINDING SITE FOR RESIDUE NAG C 603
21
CC3
SOFTWARE
ASN B:393 , ARG B:394 , HOH B:473 , NAG C:603 , BMA C:605 , HOH C:623 , HOH C:1325
BINDING SITE FOR RESIDUE NAG C 604
22
CC4
SOFTWARE
GLN B:391 , VAL B:392 , ARG B:394 , HOH C:528 , NAG C:604 , MAN C:606 , HOH C:623
BINDING SITE FOR RESIDUE BMA C 605
23
CC5
SOFTWARE
GLN B:391 , ARG B:394 , HOH B:507 , BMA C:605 , HOH C:615 , HOH C:863 , HOH C:1316
BINDING SITE FOR RESIDUE MAN C 606
24
CC6
SOFTWARE
ARG C:118 , GLU C:119 , ASP C:151 , ARG C:152 , ARG C:156 , TRP C:178 , ILE C:222 , ARG C:224 , GLU C:227 , ALA C:246 , GLU C:276 , ARG C:292 , ARG C:371 , TYR C:406 , HOH C:510 , HOH C:532 , HOH C:1097 , HOH C:1189
BINDING SITE FOR RESIDUE LVO C 801
25
CC7
SOFTWARE
ASP D:293 , GLY D:297 , ASP D:324 , GLY D:345 , GLN D:347 , HOH D:470
BINDING SITE FOR RESIDUE CA D 501
26
CC8
SOFTWARE
ASN D:146 , TRP D:437 , HOH D:546 , NAG D:602 , HOH D:828
BINDING SITE FOR RESIDUE NAG D 601
27
CC9
SOFTWARE
NAG D:601 , HOH D:924
BINDING SITE FOR RESIDUE NAG D 602
28
DC1
SOFTWARE
TYR A:453 , GLY A:454 , THR A:455 , HOH A:520 , ASN D:200 , NAG D:604 , HOH D:631 , HOH D:662
BINDING SITE FOR RESIDUE NAG D 603
29
DC2
SOFTWARE
ASN A:393 , ARG A:394 , HOH D:492 , NAG D:603 , BMA D:605 , HOH D:618
BINDING SITE FOR RESIDUE NAG D 604
30
DC3
SOFTWARE
GLN A:391 , VAL A:392 , ARG A:394 , HOH D:549 , HOH D:579 , NAG D:604 , MAN D:606 , HOH D:618
BINDING SITE FOR RESIDUE BMA D 605
31
DC4
SOFTWARE
GLN A:391 , ARG A:394 , HOH D:518 , HOH D:540 , BMA D:605 , HOH D:625 , HOH D:661
BINDING SITE FOR RESIDUE MAN D 606
32
DC5
SOFTWARE
ARG D:118 , GLU D:119 , ASP D:151 , ARG D:152 , ARG D:156 , TRP D:178 , ILE D:222 , ARG D:224 , GLU D:227 , ALA D:246 , GLU D:276 , ARG D:292 , ARG D:371 , TYR D:406 , HOH D:504 , HOH D:536 , HOH D:543
BINDING SITE FOR RESIDUE LVO D 801
[
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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3tiba_ (A:)
1b: SCOP_d3tibb_ (B:)
1c: SCOP_d3tibc_ (C:)
1d: SCOP_d3tibd_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
6-bladed beta-propeller
(327)
Superfamily
:
Sialidases
(238)
Family
:
Sialidases (neuraminidases)
(178)
Protein domain
:
automated matches
(38)
Influenza a virus [TaxId: 382827]
(9)
1a
d3tiba_
A:
1b
d3tibb_
B:
1c
d3tibc_
C:
1d
d3tibd_
D:
[
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
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 (562 KB)
Header - Asym.Unit
Biol.Unit 1 (550 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
3TIB
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help