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1IS8
Asym. Unit
Info
Asym.Unit (466 KB)
Biol.Unit 1 (456 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF RAT GTPCHI/GFRP STIMULATORY COMPLEX PLUS ZN
Authors
:
N. Maita, K. Okada, K. Hatakeyama, T. Hakoshima
Date
:
18 Nov 01 (Deposition) - 20 Feb 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
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,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T (1x)
Keywords
:
Enzyme-Regulatory Protein Complex, Hydrolase/Protein Binding Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Maita, K. Okada, K. Hatakeyama, T. Hakoshima
Crystal Structure Of The Stimulatory Complex Of Gtp Cyclohydrolase I And Its Feedback Regulatory Protein Gfrp.
Proc. Natl. Acad. Sci. Usa V. 99 1212 2002
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 30)
Info
All Hetero Components
1a: POTASSIUM ION (Ka)
1b: POTASSIUM ION (Kb)
1c: POTASSIUM ION (Kc)
1d: POTASSIUM ION (Kd)
1e: POTASSIUM ION (Ke)
1f: POTASSIUM ION (Kf)
1g: POTASSIUM ION (Kg)
1h: POTASSIUM ION (Kh)
1i: POTASSIUM ION (Ki)
1j: POTASSIUM ION (Kj)
2a: PHENYLALANINE (PHEa)
2b: PHENYLALANINE (PHEb)
2c: PHENYLALANINE (PHEc)
2d: PHENYLALANINE (PHEd)
2e: PHENYLALANINE (PHEe)
2f: PHENYLALANINE (PHEf)
2g: PHENYLALANINE (PHEg)
2h: PHENYLALANINE (PHEh)
2i: PHENYLALANINE (PHEi)
2j: PHENYLALANINE (PHEj)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
3e: ZINC ION (ZNe)
3f: ZINC ION (ZNf)
3g: ZINC ION (ZNg)
3h: ZINC ION (ZNh)
3i: ZINC ION (ZNi)
3j: ZINC ION (ZNj)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
K
10
Ligand/Ion
POTASSIUM ION
2
PHE
10
Mod. Amino Acid
PHENYLALANINE
3
ZN
10
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(30, 30)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR R:8 , GLN R:9 , ARG R:11 , VAL R:14 , GLY R:15 , HOH R:2006
BINDING SITE FOR RESIDUE K R 2001
02
AC2
SOFTWARE
THR S:8 , GLN S:9 , ARG S:11 , VAL S:14 , GLY S:15
BINDING SITE FOR RESIDUE K S 2002
03
AC3
SOFTWARE
THR T:8 , GLN T:9 , ARG T:11 , VAL T:14 , GLY T:15 , HOH T:2006
BINDING SITE FOR RESIDUE K T 2003
04
AC4
SOFTWARE
THR P:8 , GLN P:9 , ARG P:11 , VAL P:14 , GLY P:15 , HOH P:2018
BINDING SITE FOR RESIDUE K P 2004
05
AC5
SOFTWARE
THR Q:8 , GLN Q:9 , ARG Q:11 , VAL Q:14 , GLY Q:15 , HOH Q:2007
BINDING SITE FOR RESIDUE K Q 2005
06
AC6
SOFTWARE
THR K:8 , GLN K:9 , ARG K:11 , VAL K:14 , GLY K:15 , HOH K:2014
BINDING SITE FOR RESIDUE K K 2006
07
AC7
SOFTWARE
THR L:8 , GLN L:9 , ARG L:11 , VAL L:14 , GLY L:15
BINDING SITE FOR RESIDUE K L 2007
08
AC8
SOFTWARE
THR M:8 , GLN M:9 , ARG M:11 , VAL M:14 , GLY M:15 , HOH M:2013
BINDING SITE FOR RESIDUE K M 2008
09
AC9
SOFTWARE
THR N:8 , GLN N:9 , ARG N:11 , VAL N:14 , GLY N:15 , HOH N:2012
BINDING SITE FOR RESIDUE K N 2009
10
BC1
SOFTWARE
THR O:8 , GLN O:9 , ARG O:11 , VAL O:14 , GLY O:15 , HOH O:2012
BINDING SITE FOR RESIDUE K O 2010
11
BC2
SOFTWARE
CYS I:132 , HIS I:135 , CYS I:203
BINDING SITE FOR RESIDUE ZN I 3101
12
BC3
SOFTWARE
CYS A:132 , HIS A:135 , CYS A:203 , HOH A:3107
BINDING SITE FOR RESIDUE ZN A 3102
13
BC4
SOFTWARE
CYS G:132 , HIS G:135 , CYS G:203 , HOH G:3104
BINDING SITE FOR RESIDUE ZN G 3103
14
BC5
SOFTWARE
CYS H:132 , HIS H:135 , CYS H:203 , HOH H:3105
BINDING SITE FOR RESIDUE ZN H 3104
15
BC6
SOFTWARE
CYS E:132 , HIS E:135 , CYS E:203 , HOH E:3107
BINDING SITE FOR RESIDUE ZN E 3105
16
BC7
SOFTWARE
CYS J:132 , HIS J:135 , CYS J:203 , HOH J:3107 , HOH J:3117
BINDING SITE FOR RESIDUE ZN J 3106
17
BC8
SOFTWARE
CYS C:132 , HIS C:135 , CYS C:203 , HOH C:3108
BINDING SITE FOR RESIDUE ZN C 3107
18
BC9
SOFTWARE
CYS D:132 , HIS D:135 , CYS D:203 , HOH D:3109
BINDING SITE FOR RESIDUE ZN D 3108
19
CC1
SOFTWARE
CYS B:132 , HIS B:135 , CYS B:203 , HOH B:3110
BINDING SITE FOR RESIDUE ZN B 3109
20
CC2
SOFTWARE
CYS F:132 , HIS F:135 , CYS F:203 , HOH F:3111
BINDING SITE FOR RESIDUE ZN F 3110
21
CC3
SOFTWARE
GLU G:227 , PRO G:229 , ILE Q:10 , GLN Q:75 , HOH Q:2018 , VAL R:73 , GLN R:75 , THR R:76
BINDING SITE FOR RESIDUE PHE Q 1001
22
CC4
SOFTWARE
GLU H:227 , PRO H:229 , ILE R:10 , GLN R:75 , HOH R:2003 , HOH R:2005 , VAL S:73 , GLY S:74 , GLN S:75 , THR S:76
BINDING SITE FOR RESIDUE PHE R 1002
23
CC5
SOFTWARE
GLU F:227 , PRO F:229 , ILE P:10 , GLN P:75 , HOH P:2017 , HOH P:2022 , HOH P:2023 , VAL Q:73 , GLY Q:74 , GLN Q:75 , THR Q:76
BINDING SITE FOR RESIDUE PHE P 1003
24
CC6
SOFTWARE
GLU I:227 , PRO I:229 , ILE S:10 , GLN S:75 , HOH S:2020 , VAL T:73 , GLY T:74 , GLN T:75 , THR T:76
BINDING SITE FOR RESIDUE PHE S 1004
25
CC7
SOFTWARE
GLU J:227 , PRO J:229 , VAL P:73 , GLY P:74 , GLN P:75 , THR P:76 , ILE T:10 , GLN T:75 , HOH T:2009
BINDING SITE FOR RESIDUE PHE T 1005
26
CC8
SOFTWARE
GLU C:227 , PRO C:229 , ILE M:10 , GLN M:75 , VAL N:73 , GLY N:74 , GLN N:75 , THR N:76 , HOH N:2016
BINDING SITE FOR RESIDUE PHE N 1006
27
CC9
SOFTWARE
GLU D:227 , PRO D:229 , GLN N:9 , ILE N:10 , ARG N:11 , GLN N:75 , VAL O:73 , GLY O:74 , GLN O:75 , THR O:76
BINDING SITE FOR RESIDUE PHE N 1007
28
DC1
SOFTWARE
GLU E:227 , PRO E:229 , VAL K:73 , GLY K:74 , GLN K:75 , THR K:76 , GLN O:9 , ILE O:10 , GLN O:75 , HOH O:2022
BINDING SITE FOR RESIDUE PHE O 1008
29
DC2
SOFTWARE
GLU A:227 , PRO A:229 , ILE K:10 , ARG K:11 , GLN K:75 , HOH K:2010 , VAL L:73 , GLN L:75 , THR L:76
BINDING SITE FOR RESIDUE PHE K 1009
30
DC3
SOFTWARE
GLU B:227 , PRO B:229 , ILE L:10 , GLN L:75 , VAL M:73 , GLY M:74 , GLN M:75 , THR M:76 , HOH M:2012
BINDING SITE FOR RESIDUE PHE M 1010
[
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
(2, 20)
Info
All PROSITE Patterns/Profiles
1: GTP_CYCLOHYDROL_1_1 (A:119-135,B:119-135,C:119-135,D:11...)
2: GTP_CYCLOHYDROL_1_2 (A:167-177,B:167-177,C:167-177,D:16...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GTP_CYCLOHYDROL_1_1
PS00859
GTP cyclohydrolase I signature 1.
GCH1_RAT
119-135
10
A:119-135
B:119-135
C:119-135
D:119-135
E:119-135
F:119-135
G:119-135
H:119-135
I:119-135
J:119-135
2
GTP_CYCLOHYDROL_1_2
PS00860
GTP cyclohydrolase I signature 2.
GCH1_RAT
167-177
10
A:167-177
B:167-177
C:167-177
D:167-177
E:167-177
F:167-177
G:167-177
H:167-177
I:167-177
J:167-177
[
close PROSITE info
]
Exons
(6, 60)
Info
All Exons
Exon 1.1 (A:48-106 | B:48-106 | C:48-106 | D...)
Exon 1.2 (A:106-142 | B:106-142 | C:106-142 ...)
Exon 1.3 (A:143-147 | B:143-147 | C:143-147 ...)
Exon 2.1 (K:1-12 | L:1-12 | M:1-12 | N:1-12 ...)
Exon 2.2 (K:13-44 | L:13-44 | M:13-44 | N:13...)
Exon 2.3 (K:44-84 | L:44-84 | M:44-84 | N:44...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/1.2
3: Boundary 1.2/1.3
4: Boundary 1.3/-
5: Boundary -/2.1
6: Boundary 2.1/2.2
7: Boundary 2.2/2.3
8: Boundary 2.3/-
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
ENSRNOT00000014821
1
ENSRNOE00000104184
chr15:
23139794-23139352
443
GCH1_RAT
1-106
106
10
A:48-106
B:48-106
C:48-106
D:48-106
E:48-106
F:48-106
G:48-106
H:48-106
I:48-106
J:48-106
59
59
59
59
59
59
59
59
59
59
1.2
ENSRNOT00000014821
2
ENSRNOE00000104377
chr15:
23120612-23120503
110
GCH1_RAT
106-142
37
10
A:106-142
B:106-142
C:106-142
D:106-142
E:106-142
F:106-142
G:106-142
H:106-142
I:106-142
J:106-142
37
37
37
37
37
37
37
37
37
37
1.3
ENSRNOT00000014821
3
ENSRNOE00000436332
chr15:
23120356-23120339
18
GCH1_RAT
143-147
5
10
A:143-147
B:143-147
C:143-147
D:143-147
E:143-147
F:143-147
G:143-147
H:143-147
I:143-147
J:143-147
5
5
5
5
5
5
5
5
5
5
2.1
ENSRNOT00000016458
1
ENSRNOE00000116851
chr3:
105683288-105683389
102
GFRP_RAT
1-12
12
10
K:1-12
L:1-12
M:1-12
N:1-12
O:1-12
P:1-12
Q:1-12
R:1-12
S:1-12
T:1-12
12
12
12
12
12
12
12
12
12
12
2.2
ENSRNOT00000016458
2
ENSRNOE00000116997
chr3:
105684784-105684878
95
GFRP_RAT
13-44
32
10
K:13-44
L:13-44
M:13-44
N:13-44
O:13-44
P:13-44
Q:13-44
R:13-44
S:13-44
T:13-44
32
32
32
32
32
32
32
32
32
32
2.3
ENSRNOT00000016458
3
ENSRNOE00000117234
chr3:
105686889-105687348
460
GFRP_RAT
44-84
41
10
K:44-84
L:44-84
M:44-84
N:44-84
O:44-84
P:44-84
Q:44-84
R:44-84
S:44-84
T:44-84
41
41
41
41
41
41
41
41
41
41
[
close EXON info
]
SCOP Domains
(2, 20)
Info
All SCOP Domains
1a: SCOP_d1is8k_ (K:)
1b: SCOP_d1is8l_ (L:)
1c: SCOP_d1is8m_ (M:)
1d: SCOP_d1is8n_ (N:)
1e: SCOP_d1is8o_ (O:)
1f: SCOP_d1is8p_ (P:)
1g: SCOP_d1is8q_ (Q:)
1h: SCOP_d1is8r_ (R:)
1i: SCOP_d1is8s_ (S:)
1j: SCOP_d1is8t_ (T:)
2a: SCOP_d1is8a_ (A:)
2b: SCOP_d1is8b_ (B:)
2c: SCOP_d1is8c_ (C:)
2d: SCOP_d1is8d_ (D:)
2e: SCOP_d1is8e_ (E:)
2f: SCOP_d1is8f_ (F:)
2g: SCOP_d1is8g_ (G:)
2h: SCOP_d1is8h_ (H:)
2i: SCOP_d1is8i_ (I:)
2j: SCOP_d1is8j_ (J:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
GTP cyclohydrolase I feedback regulatory protein, GFRP
(4)
Superfamily
:
GTP cyclohydrolase I feedback regulatory protein, GFRP
(4)
Family
:
GTP cyclohydrolase I feedback regulatory protein, GFRP
(4)
Protein domain
:
GTP cyclohydrolase I feedback regulatory protein, GFRP
(4)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(4)
1a
d1is8k_
K:
1b
d1is8l_
L:
1c
d1is8m_
M:
1d
d1is8n_
N:
1e
d1is8o_
O:
1f
d1is8p_
P:
1g
d1is8q_
Q:
1h
d1is8r_
R:
1i
d1is8s_
S:
1j
d1is8t_
T:
Fold
:
T-fold
(116)
Superfamily
:
Tetrahydrobiopterin biosynthesis enzymes-like
(113)
Family
:
GTP cyclohydrolase I
(15)
Protein domain
:
GTP cyclohydrolase I
(14)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(3)
2a
d1is8a_
A:
2b
d1is8b_
B:
2c
d1is8c_
C:
2d
d1is8d_
D:
2e
d1is8e_
E:
2f
d1is8f_
F:
2g
d1is8g_
G:
2h
d1is8h_
H:
2i
d1is8i_
I:
2j
d1is8j_
J:
[
close SCOP info
]
CATH Domains
(3, 30)
Info
all CATH domains
1a: CATH_1is8K00 (K:1-84)
1b: CATH_1is8P00 (P:1-84)
1c: CATH_1is8Q00 (Q:1-84)
1d: CATH_1is8R00 (R:1-84)
1e: CATH_1is8S00 (S:1-84)
1f: CATH_1is8T00 (T:1-84)
1g: CATH_1is8L00 (L:1-84)
1h: CATH_1is8M00 (M:1-84)
1i: CATH_1is8N00 (N:1-84)
1j: CATH_1is8O00 (O:1-84)
2a: CATH_1is8B02 (B:108-240)
2b: CATH_1is8G02 (G:108-240)
2c: CATH_1is8A02 (A:110-240)
2d: CATH_1is8C02 (C:110-240)
2e: CATH_1is8D02 (D:110-240)
2f: CATH_1is8E02 (E:110-240)
2g: CATH_1is8F02 (F:110-240)
2h: CATH_1is8H02 (H:110-240)
2i: CATH_1is8I02 (I:110-240)
2j: CATH_1is8J02 (J:110-240)
3a: CATH_1is8A01 (A:48-107)
3b: CATH_1is8B01 (B:48-107)
3c: CATH_1is8C01 (C:48-107)
3d: CATH_1is8D01 (D:48-107)
3e: CATH_1is8E01 (E:48-107)
3f: CATH_1is8F01 (F:48-107)
3g: CATH_1is8G01 (G:48-107)
3h: CATH_1is8H01 (H:48-107)
3i: CATH_1is8I01 (I:48-107)
3j: CATH_1is8J01 (J:48-107)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Gtp Cyclohydrolase I Feedback Regulatory Protein; Chain: K
(4)
Homologous Superfamily
:
[code=3.30.1410.10, no name defined]
(4)
Norway rat (Rattus norvegicus)
(4)
1a
1is8K00
K:1-84
1b
1is8P00
P:1-84
1c
1is8Q00
Q:1-84
1d
1is8R00
R:1-84
1e
1is8S00
S:1-84
1f
1is8T00
T:1-84
1g
1is8L00
L:1-84
1h
1is8M00
M:1-84
1i
1is8N00
N:1-84
1j
1is8O00
O:1-84
Topology
:
GTP Cyclohydrolase I, domain 2
(31)
Homologous Superfamily
:
[code=3.30.1130.10, no name defined]
(31)
Norway rat (Rattus norvegicus)
(3)
2a
1is8B02
B:108-240
2b
1is8G02
G:108-240
2c
1is8A02
A:110-240
2d
1is8C02
C:110-240
2e
1is8D02
D:110-240
2f
1is8E02
E:110-240
2g
1is8F02
F:110-240
2h
1is8H02
H:110-240
2i
1is8I02
I:110-240
2j
1is8J02
J:110-240
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
GTP Cyclohydrolase I; Chain A, domain 1
(23)
Homologous Superfamily
:
[code=1.10.286.10, no name defined]
(14)
Norway rat (Rattus norvegicus)
(3)
3a
1is8A01
A:48-107
3b
1is8B01
B:48-107
3c
1is8C01
C:48-107
3d
1is8D01
D:48-107
3e
1is8E01
E:48-107
3f
1is8F01
F:48-107
3g
1is8G01
G:48-107
3h
1is8H01
H:48-107
3i
1is8I01
I:48-107
3j
1is8J01
J:48-107
[
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
Chain E
Chain F
Chain G
Chain H
Chain I
Chain J
Chain K
Chain L
Chain M
Chain N
Chain O
Chain P
Chain Q
Chain R
Chain S
Chain T
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...
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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:
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Show PDB file:
Asym.Unit (466 KB)
Header - Asym.Unit
Biol.Unit 1 (456 KB)
Header - Biol.Unit 1
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