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...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
1LQ8
Asym. Unit
Info
Asym.Unit (243 KB)
Biol.Unit 1 (63 KB)
Biol.Unit 2 (63 KB)
Biol.Unit 3 (61 KB)
Biol.Unit 4 (64 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 CLEAVED PROTEIN C INHIBITOR
Authors
:
J. A. Huntington, M. Kjellberg, J. Stenflo
Date
:
09 May 02 (Deposition) - 11 Feb 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
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
:
Serpin, Protease, Inhibitor, Heparin, Retinoic Acid, Protein C, Blood Clotting
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. A. Huntington, M. Kjellberg, J. Stenflo
Crystal Structure Of Protein C Inhibitor Provides Insights Into Hormone Binding And Heparin Activation
Structure V. 11 205 2003
[
close entry info
]
Hetero Components
(4, 17)
Info
All Hetero Components
1a: ISOPROPYL ALCOHOL (IPAa)
1b: ISOPROPYL ALCOHOL (IPAb)
1c: ISOPROPYL ALCOHOL (IPAc)
2a: ALPHA-D-MANNOSE (MANa)
2b: ALPHA-D-MANNOSE (MANb)
2c: ALPHA-D-MANNOSE (MANc)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
4b: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGb)
4c: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGc)
4d: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGd)
4e: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGe)
4f: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGf)
4g: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGg)
4h: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
IPA
3
Ligand/Ion
ISOPROPYL ALCOHOL
2
MAN
3
Ligand/Ion
ALPHA-D-MANNOSE
3
NAG
3
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
NDG
8
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
[
close Hetero Component info
]
Sites
(17, 17)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
NDG A:2 , ASP A:228 , ASN A:230 , MET A:274
BINDING SITE FOR RESIDUE NDG A 1
02
AC2
SOFTWARE
NDG A:1
BINDING SITE FOR RESIDUE NDG A 2
03
AC3
SOFTWARE
NAG A:7 , ASN A:243
BINDING SITE FOR RESIDUE NAG A 3
04
AC4
SOFTWARE
NAG A:3 , MAN G:5
BINDING SITE FOR RESIDUE NAG A 7
05
AC5
SOFTWARE
NAG C:9 , ASN C:243 , SER E:84
BINDING SITE FOR RESIDUE NDG C 8
06
AC6
SOFTWARE
NDG C:8 , GLN E:81
BINDING SITE FOR RESIDUE NAG C 9
07
AC7
SOFTWARE
SER C:315 , ASN C:319
BINDING SITE FOR RESIDUE NDG C 10
08
AC8
SOFTWARE
ASN C:230 , LYS C:270
BINDING SITE FOR RESIDUE NDG C 357
09
AC9
SOFTWARE
MAN G:5 , MAN G:6
BINDING SITE FOR RESIDUE MAN G 4
10
BC1
SOFTWARE
NAG A:7 , MAN G:4
BINDING SITE FOR RESIDUE MAN G 5
11
BC2
SOFTWARE
MAN G:4 , ASP G:104 , GLN G:107 , LYS G:162 , LYS G:187 , ARG G:342
BINDING SITE FOR RESIDUE MAN G 6
12
BC3
SOFTWARE
GLN A:81 , LYS A:82 , HOH A:921 , ASN G:243 , NDG G:358 , ASP H:375 , ASN H:376
BINDING SITE FOR RESIDUE NDG G 357
13
BC4
SOFTWARE
GLN A:81 , NDG G:357 , ASN H:376
BINDING SITE FOR RESIDUE NDG G 358
14
BC5
SOFTWARE
ARG G:229 , ASN G:230
BINDING SITE FOR RESIDUE NDG G 359
15
BC6
SOFTWARE
LYS A:187 , ASP A:337 , ARG A:342
BINDING SITE FOR RESIDUE IPA A 901
16
BC7
SOFTWARE
ASP C:337 , ARG C:342
BINDING SITE FOR RESIDUE IPA C 902
17
BC8
SOFTWARE
LYS G:187 , ASP G:337 , GLY G:340 , ARG G:342
BINDING SITE FOR RESIDUE IPA G 903
[
close Site info
]
SAPs(SNPs)/Variants
(7, 28)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_007100 (A36V, chain A/C/E/G, )
2: VAR_013081 (N45N, chain A/C/E/G, )
3: VAR_013082 (G75V, chain A/C/E/G, )
4: VAR_007101 (K86E, chain A/C/E/G, )
5: VAR_013083 (L96P, chain A/C/E/G, )
6: VAR_013900 (P102A, chain A/C/E/G, )
7: VAR_013084 (G198R, chain A/C/E/G, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_007100
A
55
V
IPSP_HUMAN
Polymorphism
6118
A/C/E/G
A
36
V
2
UniProt
VAR_013081
S
64
N
IPSP_HUMAN
Polymorphism
6115
A/C/E/G
N
45
N
3
UniProt
VAR_013082
G
94
V
IPSP_HUMAN
Polymorphism
2069976
A/C/E/G
G
75
V
4
UniProt
VAR_007101
K
105
E
IPSP_HUMAN
Polymorphism
6119
A/C/E/G
K
86
E
5
UniProt
VAR_013083
L
115
P
IPSP_HUMAN
Polymorphism
2069999
A/C/E/G
L
96
P
6
UniProt
VAR_013900
P
121
A
IPSP_HUMAN
Polymorphism
6120
A/C/E/G
P
102
A
7
UniProt
VAR_013084
G
217
R
IPSP_HUMAN
Polymorphism
6114
A/C/E/G
G
198
R
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: SERPIN (B:363-373,D:363-373,F:363-373,H:36...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SERPIN
PS00284
Serpins signature.
IPSP_HUMAN
382-392
4
B:363-373
D:363-373
F:363-373
H:363-373
[
close PROSITE info
]
Exons
(4, 20)
Info
All Exons
Exon 1.3a (A:26-188 | - | C:27-188 | - | E:26...)
Exon 1.4 (A:188-278 | - | C:188-278 | - | E:...)
Exon 1.5 (A:278-327 | - | C:278-327 | - | E:...)
Exon 1.6 (A:328-354 | B:359-387 | C:328-354 ...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.2/1.3a
2: Boundary 1.3a/1.4
3: Boundary 1.4/1.5
4: Boundary 1.5/1.6
5: Boundary 1.6/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENST00000329597
1
ENSE00001765110
chr14:
95047731-95047827
97
IPSP_HUMAN
-
0
0
-
-
1.2
ENST00000329597
2
ENSE00001514145
chr14:
95047952-95048047
96
IPSP_HUMAN
-
0
0
-
-
1.3a
ENST00000329597
3a
ENSE00001382261
chr14:
95053683-95054318
636
IPSP_HUMAN
1-207
207
4
A:26-188
-
C:27-188
-
E:26-188
-
G:26-188
-
163
-
162
-
163
-
163
-
1.4
ENST00000329597
4
ENSE00001098004
chr14:
95056378-95056648
271
IPSP_HUMAN
207-297
91
4
A:188-278
-
C:188-278
-
E:188-278
-
G:188-278
-
91
-
91
-
91
-
91
-
1.5
ENST00000329597
5
ENSE00001098000
chr14:
95057086-95057233
148
IPSP_HUMAN
297-346
50
4
A:278-327
-
C:278-327
-
E:278-327
-
G:278-327
-
50
-
50
-
50
-
50
-
1.6
ENST00000329597
6
ENSE00001376792
chr14:
95058394-95059457
1064
IPSP_HUMAN
347-406
60
8
A:328-354
B:359-387
C:328-354
D:359-387
E:328-354
F:360-387
G:328-355
H:359-387
27
29
27
29
27
28
28
29
[
close EXON info
]
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1lq8_1 (A:,B:)
1b: SCOP_d1lq8_2 (C:,D:)
1c: SCOP_d1lq8_3 (E:,F:)
1d: SCOP_d1lq8_4 (G:,H:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
Serpins
(120)
Superfamily
:
Serpins
(120)
Family
:
Serpins
(100)
Protein domain
:
Protein C inhibitor
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
1a
d1lq8.1
A:,B:
1b
d1lq8.2
C:,D:
1c
d1lq8.3
E:,F:
1d
d1lq8.4
G:,H:
[
close SCOP info
]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1lq8A02 (A:26-189,A:285-338)
1b: CATH_1lq8E02 (E:26-189,E:285-338)
1c: CATH_1lq8G02 (G:26-189,G:285-338)
1d: CATH_1lq8C02 (C:27-189,C:285-338)
2a: CATH_1lq8G01 (G:190-284,G:344-355)
2b: CATH_1lq8A01 (A:190-284,A:344-354)
2c: CATH_1lq8C01 (C:190-284,C:344-354)
2d: CATH_1lq8E01 (E:190-284,E:344-354)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Antithrombin; Chain I, domain 2
(100)
Homologous Superfamily
:
Antithrombin, subunit I, domain 2
(100)
Human (Homo sapiens)
(80)
1a
1lq8A02
A:26-189,A:285-338
1b
1lq8E02
E:26-189,E:285-338
1c
1lq8G02
G:26-189,G:285-338
1d
1lq8C02
C:27-189,C:285-338
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
Alpha-1-antitrypsin; domain 1
(101)
Homologous Superfamily
:
Alpha-1-antitrypsin, domain 1
(101)
Human (Homo sapiens)
(81)
2a
1lq8G01
G:190-284,G:344-355
2b
1lq8A01
A:190-284,A:344-354
2c
1lq8C01
C:190-284,C:344-354
2d
1lq8E01
E:190-284,E:344-354
[
close CATH info
]
Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Serpin_1lq8H01 (H:359-387)
1b: PFAM_Serpin_1lq8H02 (H:359-387)
1c: PFAM_Serpin_1lq8H03 (H:359-387)
1d: PFAM_Serpin_1lq8H04 (H:359-387)
1e: PFAM_Serpin_1lq8H05 (H:359-387)
1f: PFAM_Serpin_1lq8H06 (H:359-387)
1g: PFAM_Serpin_1lq8H07 (H:359-387)
1h: PFAM_Serpin_1lq8H08 (H:359-387)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Serpin]
(63)
Family
:
Serpin
(63)
Homo sapiens (Human)
(41)
1a
Serpin-1lq8H01
H:359-387
1b
Serpin-1lq8H02
H:359-387
1c
Serpin-1lq8H03
H:359-387
1d
Serpin-1lq8H04
H:359-387
1e
Serpin-1lq8H05
H:359-387
1f
Serpin-1lq8H06
H:359-387
1g
Serpin-1lq8H07
H:359-387
1h
Serpin-1lq8H08
H:359-387
[
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 (243 KB)
Header - Asym.Unit
Biol.Unit 1 (63 KB)
Header - Biol.Unit 1
Biol.Unit 2 (63 KB)
Header - Biol.Unit 2
Biol.Unit 3 (61 KB)
Header - Biol.Unit 3
Biol.Unit 4 (64 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
1LQ8
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help