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2WCD
Asym. Unit
Info
Asym.Unit (2.3 MB)
Biol.Unit 1, α-C (2.3 MB)
Biol.Unit 1 (2.3 MB)
Biol.Unit 2, α-C (1.2 MB)
Biol.Unit 2 (1.2 MB)
Biol.Unit 3, α-C (1.2 MB)
Biol.Unit 3 (1.2 MB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE ASSEMBLED CYTOLYSIN A PORE
Authors
:
M. Mueller, U. Grauschopf, T. Maier, R. Glockshuber, N. Ban
Date
:
11 Mar 09 (Deposition) - 05 May 09 (Release) - 25 Aug 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.29
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X (1x)
Biol. Unit 2: A,B,C,D,E,F,G,H,I,J,K,L (1x)
Biol. Unit 3: M,N,O,P,Q,R,S,T,U,V,W,X (1x)
Keywords
:
Cytolytic Protein, Pore-Forming Toxin, Transmembrane Pore, Toxin, Membrane, Secreted, Cytolysis, Periplasm, Hemolysis, Transmembrane, Disulfide Bond
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Mueller, U. Grauschopf, T. Maier, R. Glockshuber, N. Ban
The Structure Of A Cytolytic Alpha-Helical Toxin Pore Reveals Its Assembly Mechanism
Nature V. 459 726 2009
[
close entry info
]
Hetero Components
(1, 48)
Info
All Hetero Components
1a: ETHYL MERCURY ION (EMCa)
1aa: ETHYL MERCURY ION (EMCaa)
1ab: ETHYL MERCURY ION (EMCab)
1ac: ETHYL MERCURY ION (EMCac)
1ad: ETHYL MERCURY ION (EMCad)
1ae: ETHYL MERCURY ION (EMCae)
1af: ETHYL MERCURY ION (EMCaf)
1ag: ETHYL MERCURY ION (EMCag)
1ah: ETHYL MERCURY ION (EMCah)
1ai: ETHYL MERCURY ION (EMCai)
1aj: ETHYL MERCURY ION (EMCaj)
1ak: ETHYL MERCURY ION (EMCak)
1al: ETHYL MERCURY ION (EMCal)
1am: ETHYL MERCURY ION (EMCam)
1an: ETHYL MERCURY ION (EMCan)
1ao: ETHYL MERCURY ION (EMCao)
1ap: ETHYL MERCURY ION (EMCap)
1aq: ETHYL MERCURY ION (EMCaq)
1ar: ETHYL MERCURY ION (EMCar)
1as: ETHYL MERCURY ION (EMCas)
1at: ETHYL MERCURY ION (EMCat)
1au: ETHYL MERCURY ION (EMCau)
1av: ETHYL MERCURY ION (EMCav)
1b: ETHYL MERCURY ION (EMCb)
1c: ETHYL MERCURY ION (EMCc)
1d: ETHYL MERCURY ION (EMCd)
1e: ETHYL MERCURY ION (EMCe)
1f: ETHYL MERCURY ION (EMCf)
1g: ETHYL MERCURY ION (EMCg)
1h: ETHYL MERCURY ION (EMCh)
1i: ETHYL MERCURY ION (EMCi)
1j: ETHYL MERCURY ION (EMCj)
1k: ETHYL MERCURY ION (EMCk)
1l: ETHYL MERCURY ION (EMCl)
1m: ETHYL MERCURY ION (EMCm)
1n: ETHYL MERCURY ION (EMCn)
1o: ETHYL MERCURY ION (EMCo)
1p: ETHYL MERCURY ION (EMCp)
1q: ETHYL MERCURY ION (EMCq)
1r: ETHYL MERCURY ION (EMCr)
1s: ETHYL MERCURY ION (EMCs)
1t: ETHYL MERCURY ION (EMCt)
1u: ETHYL MERCURY ION (EMCu)
1v: ETHYL MERCURY ION (EMCv)
1w: ETHYL MERCURY ION (EMCw)
1x: ETHYL MERCURY ION (EMCx)
1y: ETHYL MERCURY ION (EMCy)
1z: ETHYL MERCURY ION (EMCz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EMC
48
Ligand/Ion
ETHYL MERCURY ION
[
close Hetero Component info
]
Sites
(48, 48)
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)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TRP A:86 , CYS A:87 , THR A:91 , LEU A:94 , MET A:281 , CYS A:285
BINDING SITE FOR RESIDUE EMC A 304
02
AC2
SOFTWARE
CYS A:285
BINDING SITE FOR RESIDUE EMC A 305
03
AC3
SOFTWARE
TRP B:86 , CYS B:87 , THR B:91 , LEU B:94 , MET B:281 , CYS B:285
BINDING SITE FOR RESIDUE EMC B 304
04
AC4
SOFTWARE
CYS B:285
BINDING SITE FOR RESIDUE EMC B 305
05
AC5
SOFTWARE
TRP C:86 , CYS C:87 , ALA C:90 , THR C:91 , LEU C:94 , MET C:281 , CYS C:285
BINDING SITE FOR RESIDUE EMC C 304
06
AC6
SOFTWARE
CYS C:285
BINDING SITE FOR RESIDUE EMC C 305
07
AC7
SOFTWARE
TRP D:86 , CYS D:87 , THR D:91 , LEU D:94 , MET D:281 , CYS D:285
BINDING SITE FOR RESIDUE EMC D 304
08
AC8
SOFTWARE
THR D:91 , CYS D:285
BINDING SITE FOR RESIDUE EMC D 305
09
AC9
SOFTWARE
TRP E:86 , CYS E:87 , THR E:91 , LEU E:94 , MET E:281 , CYS E:285
BINDING SITE FOR RESIDUE EMC E 304
10
BC1
SOFTWARE
CYS E:285
BINDING SITE FOR RESIDUE EMC E 305
11
BC2
SOFTWARE
TRP F:86 , CYS F:87 , ALA F:90 , THR F:91 , LEU F:94 , MET F:281 , CYS F:285
BINDING SITE FOR RESIDUE EMC F 304
12
BC3
SOFTWARE
CYS F:285
BINDING SITE FOR RESIDUE EMC F 305
13
BC4
SOFTWARE
TRP G:86 , CYS G:87 , ALA G:90 , THR G:91 , LEU G:94 , MET G:281 , CYS G:285
BINDING SITE FOR RESIDUE EMC G 304
14
BC5
SOFTWARE
CYS G:285
BINDING SITE FOR RESIDUE EMC G 305
15
BC6
SOFTWARE
TRP H:86 , CYS H:87 , ALA H:90 , THR H:91 , LEU H:94 , MET H:281 , CYS H:285
BINDING SITE FOR RESIDUE EMC H 304
16
BC7
SOFTWARE
CYS H:285
BINDING SITE FOR RESIDUE EMC H 305
17
BC8
SOFTWARE
TRP I:86 , CYS I:87 , THR I:91 , LEU I:94 , MET I:281 , CYS I:285
BINDING SITE FOR RESIDUE EMC I 304
18
BC9
SOFTWARE
CYS I:285
BINDING SITE FOR RESIDUE EMC I 305
19
CC1
SOFTWARE
TRP J:86 , CYS J:87 , ALA J:90 , THR J:91 , LEU J:94 , MET J:281 , CYS J:285
BINDING SITE FOR RESIDUE EMC J 304
20
CC2
SOFTWARE
CYS J:285
BINDING SITE FOR RESIDUE EMC J 305
21
CC3
SOFTWARE
TRP K:86 , CYS K:87 , ALA K:90 , THR K:91 , LEU K:94 , MET K:281 , CYS K:285
BINDING SITE FOR RESIDUE EMC K 304
22
CC4
SOFTWARE
CYS K:285
BINDING SITE FOR RESIDUE EMC K 305
23
CC5
SOFTWARE
TRP L:86 , CYS L:87 , ALA L:90 , THR L:91 , LEU L:94 , MET L:281 , CYS L:285
BINDING SITE FOR RESIDUE EMC L 304
24
CC6
SOFTWARE
THR L:91 , CYS L:285
BINDING SITE FOR RESIDUE EMC L 305
25
CC7
SOFTWARE
TRP M:86 , CYS M:87 , THR M:91 , LEU M:94 , MET M:281 , CYS M:285
BINDING SITE FOR RESIDUE EMC M 304
26
CC8
SOFTWARE
CYS M:285
BINDING SITE FOR RESIDUE EMC M 305
27
CC9
SOFTWARE
TRP N:86 , CYS N:87 , THR N:91 , LEU N:94 , MET N:281 , CYS N:285
BINDING SITE FOR RESIDUE EMC N 304
28
DC1
SOFTWARE
CYS N:285
BINDING SITE FOR RESIDUE EMC N 305
29
DC2
SOFTWARE
TRP O:86 , CYS O:87 , ALA O:90 , THR O:91 , LEU O:94 , MET O:281 , CYS O:285
BINDING SITE FOR RESIDUE EMC O 304
30
DC3
SOFTWARE
CYS O:285
BINDING SITE FOR RESIDUE EMC O 305
31
DC4
SOFTWARE
TRP P:86 , CYS P:87 , THR P:91 , LEU P:94 , MET P:281 , CYS P:285
BINDING SITE FOR RESIDUE EMC P 304
32
DC5
SOFTWARE
CYS P:285
BINDING SITE FOR RESIDUE EMC P 305
33
DC6
SOFTWARE
TRP Q:86 , CYS Q:87 , THR Q:91 , LEU Q:94 , MET Q:281 , CYS Q:285
BINDING SITE FOR RESIDUE EMC Q 304
34
DC7
SOFTWARE
CYS Q:285
BINDING SITE FOR RESIDUE EMC Q 305
35
DC8
SOFTWARE
TRP R:86 , CYS R:87 , THR R:91 , LEU R:94 , MET R:281 , CYS R:285
BINDING SITE FOR RESIDUE EMC R 304
36
DC9
SOFTWARE
CYS R:285
BINDING SITE FOR RESIDUE EMC R 305
37
EC1
SOFTWARE
TRP S:86 , CYS S:87 , ALA S:90 , THR S:91 , LEU S:94 , MET S:281 , CYS S:285
BINDING SITE FOR RESIDUE EMC S 304
38
EC2
SOFTWARE
CYS S:285
BINDING SITE FOR RESIDUE EMC S 305
39
EC3
SOFTWARE
TRP T:86 , CYS T:87 , ALA T:90 , THR T:91 , LEU T:94 , MET T:281 , CYS T:285
BINDING SITE FOR RESIDUE EMC T 304
40
EC4
SOFTWARE
THR T:91 , CYS T:285
BINDING SITE FOR RESIDUE EMC T 305
41
EC5
SOFTWARE
TRP U:86 , CYS U:87 , ALA U:90 , THR U:91 , LEU U:94 , MET U:281 , CYS U:285
BINDING SITE FOR RESIDUE EMC U 304
42
EC6
SOFTWARE
CYS U:285
BINDING SITE FOR RESIDUE EMC U 305
43
EC7
SOFTWARE
TRP V:86 , CYS V:87 , THR V:91 , LEU V:94 , MET V:281 , CYS V:285
BINDING SITE FOR RESIDUE EMC V 304
44
EC8
SOFTWARE
CYS V:285
BINDING SITE FOR RESIDUE EMC V 305
45
EC9
SOFTWARE
TRP W:86 , CYS W:87 , THR W:91 , LEU W:94 , MET W:281 , CYS W:285
BINDING SITE FOR RESIDUE EMC W 304
46
FC1
SOFTWARE
THR W:91 , CYS W:285
BINDING SITE FOR RESIDUE EMC W 305
47
FC2
SOFTWARE
TRP X:86 , CYS X:87 , THR X:91 , LEU X:94 , MET X:281 , CYS X:285
BINDING SITE FOR RESIDUE EMC X 304
48
FC3
SOFTWARE
CYS X:285
BINDING SITE FOR RESIDUE EMC X 305
[
close Site info
]
SAPs(SNPs)/Variants
(2, 48)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_HLYE_ECOLI_001 (K175R, chain A/B/C/D/E/F/G/H/I/J/K/L/M/N/O/P/Q/R/S/T/U/V/W/X, )
2: VAR_HLYE_ECOLI_002 (G201A, chain A/B/C/D/E/F/G/H/I/J/K/L/M/N/O/P/Q/R/S/T/U/V/W/X, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_HLYE_ECOLI_001
*
K
175
R
HLYE_ECOLI
---
---
A/B/C/D/E/F/G/H/I/J/K/L/M/N/O/P/Q/R/S/T/U/V/W/X
K
175
R
2
UniProt
VAR_HLYE_ECOLI_002
*
G
201
A
HLYE_ECOLI
---
---
A/B/C/D/E/F/G/H/I/J/K/L/M/N/O/P/Q/R/S/T/U/V/W/X
G
201
A
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 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.
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(1, 24)
Info
all CATH domains
1a: CATH_2wcdA00 (A:8-292)
1b: CATH_2wcdB00 (B:8-292)
1c: CATH_2wcdK00 (K:8-292)
1d: CATH_2wcdL00 (L:8-292)
1e: CATH_2wcdM00 (M:8-292)
1f: CATH_2wcdN00 (N:8-292)
1g: CATH_2wcdO00 (O:8-292)
1h: CATH_2wcdP00 (P:8-292)
1i: CATH_2wcdQ00 (Q:8-292)
1j: CATH_2wcdR00 (R:8-292)
1k: CATH_2wcdS00 (S:8-292)
1l: CATH_2wcdT00 (T:8-292)
1m: CATH_2wcdC00 (C:8-292)
1n: CATH_2wcdU00 (U:8-292)
1o: CATH_2wcdV00 (V:8-292)
1p: CATH_2wcdW00 (W:8-292)
1q: CATH_2wcdX00 (X:8-292)
1r: CATH_2wcdD00 (D:8-292)
1s: CATH_2wcdE00 (E:8-292)
1t: CATH_2wcdF00 (F:8-292)
1u: CATH_2wcdG00 (G:8-292)
1v: CATH_2wcdH00 (H:8-292)
1w: CATH_2wcdI00 (I:8-292)
1x: CATH_2wcdJ00 (J:8-292)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Hemolysin E; Chain: A;
(3)
Homologous Superfamily
:
[code=1.20.1170.10, no name defined]
(3)
Escherichia coli. Organism_taxid: 83333. Strain: k12.
(1)
1a
2wcdA00
A:8-292
1b
2wcdB00
B:8-292
1c
2wcdK00
K:8-292
1d
2wcdL00
L:8-292
1e
2wcdM00
M:8-292
1f
2wcdN00
N:8-292
1g
2wcdO00
O:8-292
1h
2wcdP00
P:8-292
1i
2wcdQ00
Q:8-292
1j
2wcdR00
R:8-292
1k
2wcdS00
S:8-292
1l
2wcdT00
T:8-292
1m
2wcdC00
C:8-292
1n
2wcdU00
U:8-292
1o
2wcdV00
V:8-292
1p
2wcdW00
W:8-292
1q
2wcdX00
X:8-292
1r
2wcdD00
D:8-292
1s
2wcdE00
E:8-292
1t
2wcdF00
F:8-292
1u
2wcdG00
G:8-292
1v
2wcdH00
H:8-292
1w
2wcdI00
I:8-292
1x
2wcdJ00
J:8-292
[
close CATH info
]
Pfam Domains
(1, 24)
Info
all PFAM domains
1a: PFAM_HlyE_2wcdX01 (X:8-292)
1b: PFAM_HlyE_2wcdX02 (X:8-292)
1c: PFAM_HlyE_2wcdX03 (X:8-292)
1d: PFAM_HlyE_2wcdX04 (X:8-292)
1e: PFAM_HlyE_2wcdX05 (X:8-292)
1f: PFAM_HlyE_2wcdX06 (X:8-292)
1g: PFAM_HlyE_2wcdX07 (X:8-292)
1h: PFAM_HlyE_2wcdX08 (X:8-292)
1i: PFAM_HlyE_2wcdX09 (X:8-292)
1j: PFAM_HlyE_2wcdX10 (X:8-292)
1k: PFAM_HlyE_2wcdX11 (X:8-292)
1l: PFAM_HlyE_2wcdX12 (X:8-292)
1m: PFAM_HlyE_2wcdX13 (X:8-292)
1n: PFAM_HlyE_2wcdX14 (X:8-292)
1o: PFAM_HlyE_2wcdX15 (X:8-292)
1p: PFAM_HlyE_2wcdX16 (X:8-292)
1q: PFAM_HlyE_2wcdX17 (X:8-292)
1r: PFAM_HlyE_2wcdX18 (X:8-292)
1s: PFAM_HlyE_2wcdX19 (X:8-292)
1t: PFAM_HlyE_2wcdX20 (X:8-292)
1u: PFAM_HlyE_2wcdX21 (X:8-292)
1v: PFAM_HlyE_2wcdX22 (X:8-292)
1w: PFAM_HlyE_2wcdX23 (X:8-292)
1x: PFAM_HlyE_2wcdX24 (X:8-292)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: HlyE]
(2)
Family
:
HlyE
(2)
Escherichia coli (strain K12)
(2)
1a
HlyE-2wcdX01
X:8-292
1b
HlyE-2wcdX02
X:8-292
1c
HlyE-2wcdX03
X:8-292
1d
HlyE-2wcdX04
X:8-292
1e
HlyE-2wcdX05
X:8-292
1f
HlyE-2wcdX06
X:8-292
1g
HlyE-2wcdX07
X:8-292
1h
HlyE-2wcdX08
X:8-292
1i
HlyE-2wcdX09
X:8-292
1j
HlyE-2wcdX10
X:8-292
1k
HlyE-2wcdX11
X:8-292
1l
HlyE-2wcdX12
X:8-292
1m
HlyE-2wcdX13
X:8-292
1n
HlyE-2wcdX14
X:8-292
1o
HlyE-2wcdX15
X:8-292
1p
HlyE-2wcdX16
X:8-292
1q
HlyE-2wcdX17
X:8-292
1r
HlyE-2wcdX18
X:8-292
1s
HlyE-2wcdX19
X:8-292
1t
HlyE-2wcdX20
X:8-292
1u
HlyE-2wcdX21
X:8-292
1v
HlyE-2wcdX22
X:8-292
1w
HlyE-2wcdX23
X:8-292
1x
HlyE-2wcdX24
X:8-292
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
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Nucleic
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All Atoms
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Protein & NOT PROSITE
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Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
Chain I
Chain J
Chain K
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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
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set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
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show bonds with a radius of 100 units (=0.4Å)
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