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.
1XMN
Asym. Unit
Info
Asym.Unit (224 KB)
Biol.Unit 1 (213 KB)
Biol.Unit 2 (59 KB)
Biol.Unit 3 (57 KB)
Biol.Unit 4 (56 KB)
Biol.Unit 5 (59 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 THROMBIN BOUND TO HEPARIN
Authors
:
W. J. Carter, E. Cama, J. A. Huntington
Date
:
04 Oct 04 (Deposition) - 23 Nov 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D,E,F,G,H (1x)
Biol. Unit 2: A,B (1x)
Biol. Unit 3: G,H (1x)
Biol. Unit 4: E,F (1x)
Biol. Unit 5: C,D (1x)
Keywords
:
Blood Clotting, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. J. Carter, E. Cama, J. A. Huntington
Crystal Structure Of Thrombin Bound To Heparin
J. Biol. Chem. V. 280 2745 2005
[
close entry info
]
Hetero Components
(9, 38)
Info
All Hetero Components
1a: D-PHENYLALANYL-N-[(2S,3S)-6-{[AMIN... (0G6a)
1b: D-PHENYLALANYL-N-[(2S,3S)-6-{[AMIN... (0G6b)
1c: D-PHENYLALANYL-N-[(2S,3S)-6-{[AMIN... (0G6c)
1d: D-PHENYLALANYL-N-[(2S,3S)-6-{[AMIN... (0G6d)
2a: BETA-D-MANNOSE (BMAa)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
3h: GLYCEROL (GOLh)
4a: 2-O-SULFO-ALPHA-L-IDOPYRANURONIC A... (IDSa)
4b: 2-O-SULFO-ALPHA-L-IDOPYRANURONIC A... (IDSb)
4c: 2-O-SULFO-ALPHA-L-IDOPYRANURONIC A... (IDSc)
4d: 2-O-SULFO-ALPHA-L-IDOPYRANURONIC A... (IDSd)
4e: 2-O-SULFO-ALPHA-L-IDOPYRANURONIC A... (IDSe)
5a: ALPHA-D-MANNOSE (MANa)
5b: ALPHA-D-MANNOSE (MANb)
7a: N-ACETYL-D-GLUCOSAMINE (NAGa)
7b: N-ACETYL-D-GLUCOSAMINE (NAGb)
6a: SODIUM ION (NAa)
6b: SODIUM ION (NAb)
6c: SODIUM ION (NAc)
6d: SODIUM ION (NAd)
8a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
8b: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGb)
8c: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGc)
8d: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGd)
8e: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGe)
8f: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGf)
9a: N,O6-DISULFO-GLUCOSAMINE (SGNa)
9b: N,O6-DISULFO-GLUCOSAMINE (SGNb)
9c: N,O6-DISULFO-GLUCOSAMINE (SGNc)
9d: N,O6-DISULFO-GLUCOSAMINE (SGNd)
9e: N,O6-DISULFO-GLUCOSAMINE (SGNe)
9f: N,O6-DISULFO-GLUCOSAMINE (SGNf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
0G6
4
Ligand/Ion
D-PHENYLALANYL-N-[(2S,3S)-6-{[AMINO(IMINIO)METHYL]AMINO}-1-CHLORO-2-HYDROXYHEXAN-3-YL]-L-PROLINAMIDE
2
BMA
1
Ligand/Ion
BETA-D-MANNOSE
3
GOL
8
Ligand/Ion
GLYCEROL
4
IDS
5
Ligand/Ion
2-O-SULFO-ALPHA-L-IDOPYRANURONIC ACID
5
MAN
2
Ligand/Ion
ALPHA-D-MANNOSE
6
NA
4
Ligand/Ion
SODIUM ION
7
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
8
NDG
6
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
9
SGN
6
Ligand/Ion
N,O6-DISULFO-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(38, 38)
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)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS B:57 , TYR B:60A , TRP B:60D , GLU B:97A , LEU B:99 , ILE B:174 , ASP B:189 , ALA B:190 , GLY B:193 , SER B:195 , SER B:214 , TRP B:215 , GLY B:216 , GLY B:219 , GLY B:226 , HOH B:336 , HOH B:337 , HOH B:479 , HOH B:3006 , HOH B:3048 , HOH B:3049
BINDING SITE FOR RESIDUE 0G6 B 1
02
AC2
SOFTWARE
IDS B:3 , ARG B:165 , GOL B:1008 , HOH B:3109
BINDING SITE FOR RESIDUE SGN B 2
03
AC3
SOFTWARE
SGN B:2 , SGN B:4 , ARG B:126 , PHE B:232 , ARG B:233 , HOH B:3138 , HOH B:3176
BINDING SITE FOR RESIDUE IDS B 3
04
AC4
SOFTWARE
IDS B:3 , IDS B:5 , ARG B:233 , ARG H:93 , TRP H:237 , LYS H:240
BINDING SITE FOR RESIDUE SGN B 4
05
AC5
SOFTWARE
SGN B:4 , SGN B:6
BINDING SITE FOR RESIDUE IDS B 5
06
AC6
SOFTWARE
IDS B:5 , IDS B:7 , HIS B:91 , ARG B:93 , ARG B:101 , LYS B:236 , TRP B:237
BINDING SITE FOR RESIDUE SGN B 6
07
AC7
SOFTWARE
SGN B:6 , PHE H:232 , ARG H:233
BINDING SITE FOR RESIDUE IDS B 7
08
AC8
SOFTWARE
ASN B:60G , NAG B:249
BINDING SITE FOR RESIDUE NDG B 248
09
AC9
SOFTWARE
NDG B:248
BINDING SITE FOR RESIDUE NAG B 249
10
BC1
SOFTWARE
ARG B:221A , LYS B:224 , HOH B:3043 , HOH B:3046 , HOH B:3047 , HOH B:3075
BINDING SITE FOR RESIDUE NA B 3004
11
BC2
SOFTWARE
SER A:11 , GLU A:13 , HOH A:17 , LYS B:202 , ASN B:205 , HOH B:3091 , HOH B:3160
BINDING SITE FOR RESIDUE GOL B 1001
12
BC3
SOFTWARE
SGN B:2 , VAL B:163 , ARG B:165 , PHE B:181 , HOH B:3107 , HOH B:3109
BINDING SITE FOR RESIDUE GOL B 1008
13
BC4
SOFTWARE
HIS D:57 , TYR D:60A , TRP D:60D , GLU D:97A , LEU D:99 , ILE D:174 , ASP D:189 , ALA D:190 , GLY D:193 , SER D:195 , SER D:214 , TRP D:215 , GLY D:216 , GLY D:219 , GLY D:226 , HOH D:3024 , HOH D:3025 , HOH D:3050 , HOH D:3198 , HOH D:3199 , HOH D:3200
BINDING SITE FOR RESIDUE 0G6 D 1
14
BC5
SOFTWARE
IDS D:3 , LYS D:240 , HOH D:3146 , HOH D:3179 , HOH D:3180 , GOL F:1006
BINDING SITE FOR RESIDUE SGN D 2
15
BC6
SOFTWARE
SGN D:2 , SGN D:4 , HOH D:3179 , HOH D:3182
BINDING SITE FOR RESIDUE IDS D 3
16
BC7
SOFTWARE
IDS D:3 , IDS D:5 , HIS D:91 , ARG D:93 , ARG D:101 , LEU D:234 , HOH D:3182
BINDING SITE FOR RESIDUE SGN D 4
17
BC8
SOFTWARE
SGN D:4 , SGN D:6 , ARG D:233 , ARG F:93 , ARG F:101 , HOH F:3113
BINDING SITE FOR RESIDUE IDS D 5
18
BC9
SOFTWARE
IDS D:5 , ARG D:126 , LYS F:236 , TRP F:237 , LYS F:240
BINDING SITE FOR RESIDUE SGN D 6
19
CC1
SOFTWARE
PRO D:60B , ASN D:60G , NDG D:249 , HOH D:3098
BINDING SITE FOR RESIDUE NDG D 248
20
CC2
SOFTWARE
NDG D:248
BINDING SITE FOR RESIDUE NDG D 249
21
CC3
SOFTWARE
ARG D:221A , LYS D:224 , HOH D:3041 , HOH D:3042 , HOH D:3043 , HOH D:3047
BINDING SITE FOR RESIDUE NA D 3001
22
CC4
SOFTWARE
SER C:11 , GLU C:13 , HOH C:22 , LYS D:202 , ASN D:205 , HOH D:3054 , HOH D:3122
BINDING SITE FOR RESIDUE GOL D 1002
23
CC5
SOFTWARE
GLU D:61 , LYS D:87
BINDING SITE FOR RESIDUE GOL D 1004
24
CC6
SOFTWARE
HIS F:57 , TYR F:60A , TRP F:60D , GLU F:97A , LEU F:99 , ASP F:189 , ALA F:190 , GLY F:193 , SER F:195 , SER F:214 , TRP F:215 , GLY F:216 , GLY F:219 , GLY F:226 , HOH F:367 , HOH F:3008 , HOH F:3026 , HOH F:3048 , HOH F:3132
BINDING SITE FOR RESIDUE 0G6 F 1
25
CC7
SOFTWARE
NDG F:6 , ASN F:60G
BINDING SITE FOR RESIDUE NDG F 5
26
CC8
SOFTWARE
NDG F:5
BINDING SITE FOR RESIDUE NDG F 6
27
CC9
SOFTWARE
ARG F:221A , LYS F:224 , HOH F:3018 , HOH F:3027 , HOH F:3040 , HOH F:3046
BINDING SITE FOR RESIDUE NA F 3002
28
DC1
SOFTWARE
SER E:11 , HOH E:47 , HOH E:357 , LYS F:202 , ASN F:205 , HOH F:3072
BINDING SITE FOR RESIDUE GOL F 1003
29
DC2
SOFTWARE
SGN D:2 , HIS F:230 , ARG F:233 , GOL F:1007
BINDING SITE FOR RESIDUE GOL F 1006
30
DC3
SOFTWARE
ILE F:162 , VAL F:163 , ARG F:165 , CYS F:168 , PHE F:181 , CYS F:182 , GOL F:1006
BINDING SITE FOR RESIDUE GOL F 1007
31
DC4
SOFTWARE
HIS H:57 , TYR H:60A , TRP H:60D , GLU H:97A , LEU H:99 , ASP H:189 , ALA H:190 , GLY H:193 , SER H:195 , SER H:214 , TRP H:215 , GLY H:216 , GLY H:219 , GLY H:226 , HOH H:390 , HOH H:391 , HOH H:3030 , HOH H:3062 , HOH H:3153 , HOH H:3154
BINDING SITE FOR RESIDUE 0G6 H 1
32
DC5
SOFTWARE
NAG H:8 , ASN H:60G
BINDING SITE FOR RESIDUE NDG H 7
33
DC6
SOFTWARE
NDG H:7 , BMA H:9 , MAN H:11
BINDING SITE FOR RESIDUE NAG H 8
34
DC7
SOFTWARE
NAG H:8 , MAN H:10 , MAN H:11
BINDING SITE FOR RESIDUE BMA H 9
35
DC8
SOFTWARE
NAG H:8 , BMA H:9
BINDING SITE FOR RESIDUE MAN H 11
36
DC9
SOFTWARE
BMA H:9
BINDING SITE FOR RESIDUE MAN H 10
37
EC1
SOFTWARE
ARG H:221A , LYS H:224 , HOH H:3027 , HOH H:3028 , HOH H:3055 , HOH H:3060
BINDING SITE FOR RESIDUE NA H 3003
38
EC2
SOFTWARE
SER G:11 , GLU G:13 , HOH G:278 , LYS H:202 , ASN H:205 , HOH H:3011
BINDING SITE FOR RESIDUE GOL H 1005
[
close Site info
]
SAPs(SNPs)/Variants
(8, 32)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_006714 (M32T, chain B/D/F/H, )
2: VAR_011782 (P37T, chain B/D/F/H, )
3: VAR_006715 (R67C, chain B/D/F/H, )
4: VAR_006716 (R73H, chain B/D/F/H, )
5: VAR_006717 (R101W, chain B/D/F/H, )
6: VAR_006718 (E146A, chain B/D/F/H, )
7: VAR_068913 (E164Q, chain B/D/F/H, )
8: VAR_006719 (G226V, chain B/D/F/H, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_006714
M
380
T
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
M
32
T
2
UniProt
VAR_011782
P
386
T
THRB_HUMAN
Polymorphism
5897
B/D/F/H
P
37
T
3
UniProt
VAR_006715
R
425
C
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
R
67
C
4
UniProt
VAR_006716
R
431
H
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
R
73
H
5
UniProt
VAR_006717
R
461
W
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
R
101
W
6
UniProt
VAR_006718
E
509
A
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
E
146
A
7
UniProt
VAR_068913
E
532
Q
THRB_HUMAN
Polymorphism
---
B/D/F/H
E
164
Q
8
UniProt
VAR_006719
G
601
V
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
G
226
V
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 12)
Info
All PROSITE Patterns/Profiles
1: TRYPSIN_DOM (B:16-243,D:16-243,F:16-243,H:16-24...)
2: TRYPSIN_HIS (B:53-58,D:53-58,F:53-58,H:53-58)
3: TRYPSIN_SER (B:189-200,D:189-200,F:189-200,H:18...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRYPSIN_DOM
PS50240
Serine proteases, trypsin domain profile.
THRB_HUMAN
364-618
4
B:16-243
D:16-243
F:16-243
H:16-243
2
TRYPSIN_HIS
PS00134
Serine proteases, trypsin family, histidine active site.
THRB_HUMAN
402-407
4
B:53-58
D:53-58
F:53-58
H:53-58
3
TRYPSIN_SER
PS00135
Serine proteases, trypsin family, serine active site.
THRB_HUMAN
562-573
4
B:189-200
D:189-200
F:189-200
H:189-200
[
close PROSITE info
]
Exons
(7, 32)
Info
All Exons
Exon 1.8 (A:1E-1A | - | C:1E-1A | - | E:1C-1...)
Exon 1.9 (A:1A-14L | B:16-29 | C:1A-14M | D:...)
Exon 1.10 (- | B:29-75 | - | D:29-75 | - | F:...)
Exon 1.11b (- | B:75-129B | - | D:75-129B | - ...)
Exon 1.12 (- | B:129B-184 (gaps) | - | D:129B...)
Exon 1.13 (- | B:184-202 | - | D:184-202 | - ...)
Exon 1.14c (- | B:203-246 (gaps) | - | D:203-2...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.7b/1.8
2: Boundary 1.8/1.9
3: Boundary 1.9/1.10
4: Boundary 1.10/1.11b
5: Boundary 1.11b/1.12
6: Boundary 1.12/1.13
7: Boundary 1.13/1.14c
8: Boundary 1.14c/-
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
1.1a
ENST00000311907
1a
ENSE00001931088
chr11:
46740730-46740864
135
THRB_HUMAN
1-27
27
0
-
-
1.2a
ENST00000311907
2a
ENSE00001181543
chr11:
46741252-46741412
161
THRB_HUMAN
27-80
54
0
-
-
1.3
ENST00000311907
3
ENSE00001181538
chr11:
46742073-46742097
25
THRB_HUMAN
81-89
9
0
-
-
1.4
ENST00000311907
4
ENSE00001181532
chr11:
46742340-46742390
51
THRB_HUMAN
89-106
18
0
-
-
1.6a
ENST00000311907
6a
ENSE00001181527
chr11:
46744730-46744835
106
THRB_HUMAN
106-141
36
0
-
-
1.6c
ENST00000311907
6c
ENSE00001181524
chr11:
46744932-46745068
137
THRB_HUMAN
141-187
47
0
-
-
1.7b
ENST00000311907
7b
ENSE00001688723
chr11:
46747409-46747723
315
THRB_HUMAN
187-292
106
0
-
-
1.8
ENST00000311907
8
ENSE00002179953
chr11:
46748048-46748176
129
THRB_HUMAN
292-335
44
4
A:1E-1A
-
C:1E-1A
-
E:1C-1A
-
G:1D-1A
-
5
-
5
-
3
-
4
-
1.9
ENST00000311907
9
ENSE00001770269
chr11:
46748261-46748387
127
THRB_HUMAN
335-377
43
8
A:1A-14L
B:16-29
C:1A-14M
D:16-29
E:1A-14L
F:16-29
G:1A-14M
H:16-29
27
14
28
14
27
14
28
14
1.10
ENST00000311907
10
ENSE00001650441
chr11:
46749546-46749713
168
THRB_HUMAN
377-433
57
4
-
B:29-75
-
D:29-75
-
F:29-75
-
H:29-75
-
57
-
57
-
57
-
57
1.11b
ENST00000311907
11b
ENSE00001657931
chr11:
46750214-46750387
174
THRB_HUMAN
433-491
59
4
-
B:75-129B
-
D:75-129B
-
F:75-129B
-
H:75-129B
-
59
-
59
-
59
-
59
1.12
ENST00000311907
12
ENSE00001646362
chr11:
46750930-46751111
182
THRB_HUMAN
491-552
62
4
-
B:129B-184 (gaps)
-
D:129B-184 (gaps)
-
F:129B-184 (gaps)
-
H:129B-184 (gaps)
-
62
-
62
-
62
-
62
1.13
ENST00000311907
13
ENSE00001680217
chr11:
46760598-46760668
71
THRB_HUMAN
552-575
24
4
-
B:184-202
-
D:184-202
-
F:184-202
-
H:184-202
-
24
-
24
-
24
-
24
1.14c
ENST00000311907
14c
ENSE00001227030
chr11:
46760815-46761056
242
THRB_HUMAN
576-622
47
4
-
B:203-246 (gaps)
-
D:203-246 (gaps)
-
F:203-247 (gaps)
-
H:203-246 (gaps)
-
47
-
47
-
48
-
47
[
close EXON info
]
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1xmn_1 (A:,B:)
1b: SCOP_d1xmn_2 (C:,D:)
1c: SCOP_d1xmn_3 (E:,F:)
1d: SCOP_d1xmn_4 (G:,H:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Trypsin-like serine proteases
(1752)
Superfamily
:
Trypsin-like serine proteases
(1752)
Family
:
Eukaryotic proteases
(1343)
Protein domain
:
Thrombin
(188)
Human (Homo sapiens) [TaxId: 9606]
(169)
1a
d1xmn.1
A:,B:
1b
d1xmn.2
C:,D:
1c
d1xmn.3
E:,F:
1d
d1xmn.4
G:,H:
[
close SCOP info
]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1xmnB02 (B:28-120,B:233-246)
1b: CATH_1xmnF01 (F:16-27,F:121-232)
1c: CATH_1xmnH01 (H:16-27,H:121-232)
1d: CATH_1xmnD01 (D:16-27,D:121-232)
1e: CATH_1xmnB01 (B:16-27,B:121-232)
1f: CATH_1xmnD02 (D:28-120,D:233-246)
1g: CATH_1xmnF02 (F:28-120,F:233-246)
1h: CATH_1xmnH02 (H:28-120,H:233-246)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Thrombin, subunit H
(1535)
Homologous Superfamily
:
Trypsin-like serine proteases
(1488)
Human (Homo sapiens)
(615)
1a
1xmnB02
B:28-120,B:233-246
1b
1xmnF01
F:16-27,F:121-232
1c
1xmnH01
H:16-27,H:121-232
1d
1xmnD01
D:16-27,D:121-232
1e
1xmnB01
B:16-27,B:121-232
1f
1xmnD02
D:28-120,D:233-246
1g
1xmnF02
F:28-120,F:233-246
1h
1xmnH02
H:28-120,H:233-246
[
close CATH info
]
Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_Trypsin_1xmnH01 (H:16-238)
1b: PFAM_Trypsin_1xmnH02 (H:16-238)
1c: PFAM_Trypsin_1xmnH03 (H:16-238)
1d: PFAM_Trypsin_1xmnH04 (H:16-238)
2a: PFAM_Thrombin_light_1xmnG01 (G:1D-14M)
2b: PFAM_Thrombin_light_1xmnG02 (G:1D-14M)
2c: PFAM_Thrombin_light_1xmnG03 (G:1D-14M)
2d: PFAM_Thrombin_light_1xmnG04 (G:1D-14M)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Peptidase_PA
(797)
Family
:
Trypsin
(679)
Homo sapiens (Human)
(339)
1a
Trypsin-1xmnH01
H:16-238
1b
Trypsin-1xmnH02
H:16-238
1c
Trypsin-1xmnH03
H:16-238
1d
Trypsin-1xmnH04
H:16-238
Clan
:
no clan defined [family: Thrombin_light]
(136)
Family
:
Thrombin_light
(136)
Homo sapiens (Human)
(124)
2a
Thrombin_light-1xmnG01
G:1D-14M
2b
Thrombin_light-1xmnG02
G:1D-14M
2c
Thrombin_light-1xmnG03
G:1D-14M
2d
Thrombin_light-1xmnG04
G:1D-14M
[
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 (224 KB)
Header - Asym.Unit
Biol.Unit 1 (213 KB)
Header - Biol.Unit 1
Biol.Unit 2 (59 KB)
Header - Biol.Unit 2
Biol.Unit 3 (57 KB)
Header - Biol.Unit 3
Biol.Unit 4 (56 KB)
Header - Biol.Unit 4
Biol.Unit 5 (59 KB)
Header - Biol.Unit 5
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
1XMN
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help