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.
3PVO
Biol. Unit 3
Info
Asym.Unit (672 KB)
Biol.Unit 1 (173 KB)
Biol.Unit 2 (173 KB)
Biol.Unit 3 (173 KB)
Biol.Unit 4 (174 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
MONOCLINIC FORM OF HUMAN C-REACTIVE PROTEIN
Authors
:
C. Guillon, U. Mavoungou Bigouagou, P. Jeannin, Y. Delneste, P. Gouet
Date
:
07 Dec 10 (Deposition) - 11 Jan 12 (Release) - 18 Mar 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T
Biol. Unit 1: A,B,C,D,E (1x)
Biol. Unit 2: F,G,H,I,J (1x)
Biol. Unit 3: K,L,M,N,O (1x)
Biol. Unit 4: P,Q,R,S,T (1x)
Keywords
:
Pentraxin Family, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Guillon, U. M. Bigouagou, C. Folio, P. Jeannin, Y. Delneste, P. Goue
A Staggered Decameric Assembly Of Human C-Reactive Protein Stabilized By Zinc Ions Revealed By X-Ray Crystallography.
Protein Pept. Lett. V. 22 248 2014
[
close entry info
]
Hetero Components
(0, 0)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1aa: CALCIUM ION (CAaa)
1ab: CALCIUM ION (CAab)
1ac: CALCIUM ION (CAac)
1ad: CALCIUM ION (CAad)
1ae: CALCIUM ION (CAae)
1af: CALCIUM ION (CAaf)
1ag: CALCIUM ION (CAag)
1ah: CALCIUM ION (CAah)
1ai: CALCIUM ION (CAai)
1aj: CALCIUM ION (CAaj)
1ak: CALCIUM ION (CAak)
1al: CALCIUM ION (CAal)
1am: CALCIUM ION (CAam)
1an: CALCIUM ION (CAan)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
1k: CALCIUM ION (CAk)
1l: CALCIUM ION (CAl)
1m: CALCIUM ION (CAm)
1n: CALCIUM ION (CAn)
1o: CALCIUM ION (CAo)
1p: CALCIUM ION (CAp)
1q: CALCIUM ION (CAq)
1r: CALCIUM ION (CAr)
1s: CALCIUM ION (CAs)
1t: CALCIUM ION (CAt)
1u: CALCIUM ION (CAu)
1v: CALCIUM ION (CAv)
1w: CALCIUM ION (CAw)
1x: CALCIUM ION (CAx)
1y: CALCIUM ION (CAy)
1z: CALCIUM ION (CAz)
View:
Select:
Label:
Sorry, no Info available
[
close Hetero component info
]
Sites
(10, 10)
Info
All Sites
01: CC3 (SOFTWARE)
02: CC4 (SOFTWARE)
03: CC5 (SOFTWARE)
04: CC6 (SOFTWARE)
05: CC7 (SOFTWARE)
06: CC8 (SOFTWARE)
07: CC9 (SOFTWARE)
08: DC1 (SOFTWARE)
09: DC2 (SOFTWARE)
10: DC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
CC3
SOFTWARE
ASP K:60 , ASN K:61 , GLU K:138 , GLN K:139 , ASP K:140
BINDING SITE FOR RESIDUE CA K 5021
02
CC4
SOFTWARE
GLU K:138 , ASP K:140 , GLU K:147 , GLN K:150
BINDING SITE FOR RESIDUE CA K 5022
03
CC5
SOFTWARE
ASP L:60 , ASN L:61 , GLU L:138 , GLN L:139 , ASP L:140
BINDING SITE FOR RESIDUE CA L 5023
04
CC6
SOFTWARE
GLU L:138 , ASP L:140 , GLU L:147 , GLN L:150
BINDING SITE FOR RESIDUE CA L 5024
05
CC7
SOFTWARE
ASP M:60 , ASN M:61 , GLU M:138 , GLN M:139 , ASP M:140
BINDING SITE FOR RESIDUE CA M 5025
06
CC8
SOFTWARE
GLU M:138 , ASP M:140 , ASN M:145 , GLU M:147 , GLN M:150
BINDING SITE FOR RESIDUE CA M 5026
07
CC9
SOFTWARE
ASP N:60 , ASN N:61 , GLU N:138 , GLN N:139 , ASP N:140
BINDING SITE FOR RESIDUE CA N 5027
08
DC1
SOFTWARE
GLU N:138 , ASP N:140 , GLU N:147 , GLN N:150 , HOH N:208
BINDING SITE FOR RESIDUE CA N 5028
09
DC2
SOFTWARE
ASP O:60 , ASN O:61 , GLU O:138 , GLN O:139 , ASP O:140 , HOH O:516 , CA O:5030
BINDING SITE FOR RESIDUE CA O 5029
10
DC3
SOFTWARE
GLU O:138 , ASP O:140 , GLU O:147 , GLN O:150 , CA O:5029
BINDING SITE FOR RESIDUE CA O 5030
[
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
(2, 10)
Info
All PROSITE Patterns/Profiles
1: PTX_2 (K:5-206,L:5-206,M:5-206,N:5-206,O:...)
2: PTX_1 (K:95-102,L:95-102,M:95-102,N:95-10...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PTX_2
PS51828
Pentraxin (PTX) domain profile.
CRP_HUMAN
23-224
5
-
-
-
-
-
-
-
-
-
-
K:5-206
L:5-206
M:5-206
N:5-206
O:5-206
-
-
-
-
-
2
PTX_1
PS00289
Pentraxin domain signature.
CRP_HUMAN
113-120
5
-
-
-
-
-
-
-
-
-
-
K:95-102
L:95-102
M:95-102
N:95-102
O:95-102
-
-
-
-
-
[
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
(1, 20)
Info
All SCOP Domains
1a: SCOP_d3pvoa_ (A:)
1b: SCOP_d3pvob_ (B:)
1c: SCOP_d3pvoc_ (C:)
1d: SCOP_d3pvod_ (D:)
1e: SCOP_d3pvoe_ (E:)
1f: SCOP_d3pvof_ (F:)
1g: SCOP_d3pvog_ (G:)
1h: SCOP_d3pvoh_ (H:)
1i: SCOP_d3pvoi_ (I:)
1j: SCOP_d3pvoj_ (J:)
1k: SCOP_d3pvok_ (K:)
1l: SCOP_d3pvol_ (L:)
1m: SCOP_d3pvom_ (M:)
1n: SCOP_d3pvon_ (N:)
1o: SCOP_d3pvoo_ (O:)
1p: SCOP_d3pvop_ (P:)
1q: SCOP_d3pvoq_ (Q:)
1r: SCOP_d3pvor_ (R:)
1s: SCOP_d3pvos_ (S:)
1t: SCOP_d3pvot_ (T:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Concanavalin A-like lectins/glucanases
(797)
Superfamily
:
Concanavalin A-like lectins/glucanases
(797)
Family
:
Pentraxin (pentaxin)
(18)
Protein domain
:
C-reactive protein (CRP)
(6)
Human (Homo sapiens) [TaxId: 9606]
(6)
1a
d3pvoa_
A:
1b
d3pvob_
B:
1c
d3pvoc_
C:
1d
d3pvod_
D:
1e
d3pvoe_
E:
1f
d3pvof_
F:
1g
d3pvog_
G:
1h
d3pvoh_
H:
1i
d3pvoi_
I:
1j
d3pvoj_
J:
1k
d3pvok_
K:
1l
d3pvol_
L:
1m
d3pvom_
M:
1n
d3pvon_
N:
1o
d3pvoo_
O:
1p
d3pvop_
P:
1q
d3pvoq_
Q:
1r
d3pvor_
R:
1s
d3pvos_
S:
1t
d3pvot_
T:
[
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 K
Chain L
Chain M
Chain N
Chain O
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 (672 KB)
Header - Asym.Unit
Biol.Unit 1 (173 KB)
Header - Biol.Unit 1
Biol.Unit 2 (173 KB)
Header - Biol.Unit 2
Biol.Unit 3 (173 KB)
Header - Biol.Unit 3
Biol.Unit 4 (174 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
3PVO
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
