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.
1NCA
Biol. Unit 1
Info
Asym.Unit (142 KB)
Biol.Unit 1 (525 KB)
Biol.Unit 2 (913 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
REFINED CRYSTAL STRUCTURE OF THE INFLUENZA VIRUS N9 NEURAMINIDASE-NC41 FAB COMPLEX
Authors
:
W. R. Tulip, J. N. Varghese, P. M. Colman
Date
:
21 Jan 92 (Deposition) - 31 Jan 94 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : H,L,N
Biol. Unit 1: H,L,N (4x)
Biol. Unit 2: H,L,N (8x)
Keywords
:
Hydrolase(O-Glycosyl)
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. R. Tulip, J. N. Varghese, W. G. Laver, R. G. Webster, P. M. Colman
Refined Crystal Structure Of The Influenza Virus N9 Neuraminidase-Nc41 Fab Complex.
J. Mol. Biol. V. 227 122 1992
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 32)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
2a: CALCIUM ION (CAa)
3a: ALPHA-D-MANNOSE (MANa)
3b: ALPHA-D-MANNOSE (MANb)
3c: ALPHA-D-MANNOSE (MANc)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
4
Ligand/Ion
BETA-D-MANNOSE
2
CA
-1
Ligand/Ion
CALCIUM ION
3
MAN
12
Ligand/Ion
ALPHA-D-MANNOSE
4
NAG
16
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
9: AC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HOH N:72 , ASN N:199 , ASN N:200 , LEU N:453 , GLY N:454 , GLN N:455 , NAG N:470B
BINDING SITE FOR RESIDUE NAG N 469A
2
AC2
SOFTWARE
HOH N:32 , GLN N:392 , GLY N:394 , PHE N:452 , NAG N:469A , BMA N:471C
BINDING SITE FOR RESIDUE NAG N 470B
3
AC3
SOFTWARE
HOH N:69 , LEU N:377 , THR N:391 , GLY N:394 , NAG N:470B , MAN N:472D
BINDING SITE FOR RESIDUE BMA N 471C
4
AC4
SOFTWARE
ARG N:364 , GLU N:375 , BMA N:471C , MAN N:473E , MAN N:474F
BINDING SITE FOR RESIDUE MAN N 472D
5
AC5
SOFTWARE
ASP N:330 , LYS N:389 , PRO N:390 , MAN N:472D , MAN N:474F
BINDING SITE FOR RESIDUE MAN N 473E
6
AC6
SOFTWARE
ARG N:327 , ASN N:329 , ASP N:330 , ARG N:364 , ILE N:366 , ILE N:368 , MAN N:472D , MAN N:473E
BINDING SITE FOR RESIDUE MAN N 474F
7
AC7
SOFTWARE
ASN N:86 , HIS N:233 , ASN N:234
BINDING SITE FOR RESIDUE NAG N 475A
8
AC8
SOFTWARE
ASN N:146
BINDING SITE FOR RESIDUE NAG N 476A
9
AC9
SOFTWARE
ASP N:293 , GLY N:297 , ASP N:324 , ASN N:347
BINDING SITE FOR RESIDUE CA N 1
[
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
(5, 5)
Info
All SCOP Domains
1a: SCOP_d1ncan_ (N:)
2a: SCOP_d1ncah2 (H:114-227)
3a: SCOP_d1ncal2 (L:109-214)
4a: SCOP_d1ncah1 (H:1-113)
5a: SCOP_d1ncal1 (L:1-108)
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
:
Influenza neuraminidase
(78)
Influenza A virus, different strains [TaxId: 11320]
(61)
1a
d1ncan_
N:
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma
(608)
Mouse (Mus musculus) [TaxId: 10090]
(414)
2a
d1ncah2
H:114-227
Protein domain
:
Immunoglobulin light chain kappa constant domain, CL-kappa
(495)
Mouse (Mus musculus) [TaxId: 10090]
(345)
3a
d1ncal2
L:109-214
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
Immunoglobulin heavy chain variable domain, VH
(658)
Mouse (Mus musculus), cluster 4 [TaxId: 10090]
(34)
4a
d1ncah1
H:1-113
Protein domain
:
Immunoglobulin light chain kappa variable domain, VL-kappa
(616)
Mouse (Mus musculus), cluster 4 [TaxId: 10090]
(211)
5a
d1ncal1
L:1-108
[
close SCOP info
]
CATH Domains
(2, 5)
Info
all CATH domains
1a: CATH_1ncaN00 (N:81-468)
2a: CATH_1ncaL02 (L:109-211)
2b: CATH_1ncaH01 (H:1-114)
2c: CATH_1ncaL01 (L:1-108)
2d: CATH_1ncaH02 (H:115-227)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
6 Propellor
(215)
Topology
:
Neuraminidase
(215)
Homologous Superfamily
:
[code=2.120.10.10, no name defined]
(150)
Influenza a virus (a/tern/australia/g70c/1975(h11n9)). Organism_taxid:384509. Strain: (a/tern/australia/g70c/1975(h11n9)). Mus musculus. House mouse. Organism_taxid: 10090.
(3)
1a
1ncaN00
N:81-468
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Influenza a virus (a/tern/australia/g70c/1975(h11n9)). Organism_taxid:384509. Strain: (a/tern/australia/g70c/1975(h11n9)). Mus musculus. House mouse. Organism_taxid: 10090.
(3)
2a
1ncaL02
L:109-211
2b
1ncaH01
H:1-114
2c
1ncaL01
L:1-108
2d
1ncaH02
H:115-227
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Neur_1ncaN01 (N:81-466)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Sialidase
(56)
Family
:
Neur
(42)
Influenza A virus (strain A/Tern/Australia/G70C/1975 H11N9)
(23)
1a
Neur-1ncaN01
N:81-466
[
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 H
Chain L
Chain N
Asymmetric Unit 1
Asymmetric Unit 2
Asymmetric Unit 3
Asymmetric Unit 4
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 (142 KB)
Header - Asym.Unit
Biol.Unit 1 (525 KB)
Header - Biol.Unit 1
Biol.Unit 2 (913 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
1NCA
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
