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3RGD
Asym. Unit
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Asym.Unit (706 KB)
Biol.Unit 1 (697 KB)
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(1)
Title
:
IRON LOADED FROG M FERRITIN. SHORT SOAKING TIME
Authors
:
I. Bertini, D. Lalli, S. Mangani, C. Pozzi, C. Rosa, E. C. Theil, P. Turan
Date
:
08 Apr 11 (Deposition) - 11 Apr 12 (Release) - 24 Jul 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.89
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)
Keywords
:
Eukaryotic Ferritin, Four-Helix Bundle, Ferroxidase, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. Bertini, D. Lalli, S. Mangani, C. Pozzi, C. Rosa, E. C. Theil, P. Turano
Structural Insights Into The Ferroxidase Site Of Ferritins From Higher Eukaryotes.
J. Am. Chem. Soc. V. 134 6169 2012
[
close entry info
]
Hetero Components
(1, 62)
Info
All Hetero Components
1a: FE (III) ION (FEa)
1aa: FE (III) ION (FEaa)
1ab: FE (III) ION (FEab)
1ac: FE (III) ION (FEac)
1ad: FE (III) ION (FEad)
1ae: FE (III) ION (FEae)
1af: FE (III) ION (FEaf)
1ag: FE (III) ION (FEag)
1ah: FE (III) ION (FEah)
1ai: FE (III) ION (FEai)
1aj: FE (III) ION (FEaj)
1ak: FE (III) ION (FEak)
1al: FE (III) ION (FEal)
1am: FE (III) ION (FEam)
1an: FE (III) ION (FEan)
1ao: FE (III) ION (FEao)
1ap: FE (III) ION (FEap)
1aq: FE (III) ION (FEaq)
1ar: FE (III) ION (FEar)
1as: FE (III) ION (FEas)
1at: FE (III) ION (FEat)
1au: FE (III) ION (FEau)
1av: FE (III) ION (FEav)
1aw: FE (III) ION (FEaw)
1ax: FE (III) ION (FEax)
1ay: FE (III) ION (FEay)
1az: FE (III) ION (FEaz)
1b: FE (III) ION (FEb)
1ba: FE (III) ION (FEba)
1bb: FE (III) ION (FEbb)
1bc: FE (III) ION (FEbc)
1bd: FE (III) ION (FEbd)
1be: FE (III) ION (FEbe)
1bf: FE (III) ION (FEbf)
1bg: FE (III) ION (FEbg)
1bh: FE (III) ION (FEbh)
1bi: FE (III) ION (FEbi)
1bj: FE (III) ION (FEbj)
1c: FE (III) ION (FEc)
1d: FE (III) ION (FEd)
1e: FE (III) ION (FEe)
1f: FE (III) ION (FEf)
1g: FE (III) ION (FEg)
1h: FE (III) ION (FEh)
1i: FE (III) ION (FEi)
1j: FE (III) ION (FEj)
1k: FE (III) ION (FEk)
1l: FE (III) ION (FEl)
1m: FE (III) ION (FEm)
1n: FE (III) ION (FEn)
1o: FE (III) ION (FEo)
1p: FE (III) ION (FEp)
1q: FE (III) ION (FEq)
1r: FE (III) ION (FEr)
1s: FE (III) ION (FEs)
1t: FE (III) ION (FEt)
1u: FE (III) ION (FEu)
1v: FE (III) ION (FEv)
1w: FE (III) ION (FEw)
1x: FE (III) ION (FEx)
1y: FE (III) ION (FEy)
1z: FE (III) ION (FEz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FE
62
Ligand/Ion
FE (III) ION
[
close Hetero Component info
]
Sites
(62, 62)
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)
49: FC4 (SOFTWARE)
50: FC5 (SOFTWARE)
51: FC6 (SOFTWARE)
52: FC7 (SOFTWARE)
53: FC8 (SOFTWARE)
54: FC9 (SOFTWARE)
55: GC1 (SOFTWARE)
56: GC2 (SOFTWARE)
57: GC3 (SOFTWARE)
58: GC4 (SOFTWARE)
59: GC5 (SOFTWARE)
60: GC6 (SOFTWARE)
61: GC7 (SOFTWARE)
62: GC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:24 , GLU A:59 , HIS A:62
BINDING SITE FOR RESIDUE FE A 180
02
AC2
SOFTWARE
GLU A:59 , GLU A:104 , GLN A:138 , ASP A:141 , HOH A:900
BINDING SITE FOR RESIDUE FE A 181
03
AC3
SOFTWARE
GLU B:24 , GLU B:59 , HIS B:62 , GLN B:138
BINDING SITE FOR RESIDUE FE B 180
04
AC4
SOFTWARE
HIS B:55 , GLU B:59 , GLU B:104 , ASP B:141
BINDING SITE FOR RESIDUE FE B 181
05
AC5
SOFTWARE
GLU B:131 , GLU E:131 , GLU V:131 , HOH V:270
BINDING SITE FOR RESIDUE FE B 183
06
AC6
SOFTWARE
GLU C:24 , GLU C:59 , HIS C:62 , GLN C:138
BINDING SITE FOR RESIDUE FE C 180
07
AC7
SOFTWARE
HIS C:55 , GLU C:59 , GLU C:104 , HOH C:905
BINDING SITE FOR RESIDUE FE C 181
08
AC8
SOFTWARE
GLU C:131 , HOH C:741 , GLU S:131
BINDING SITE FOR RESIDUE FE C 183
09
AC9
SOFTWARE
HIS C:170 , HIS F:170 , HIS M:170 , HIS V:170
BINDING SITE FOR RESIDUE FE C 184
10
BC1
SOFTWARE
GLU D:24 , GLU D:59 , HIS D:62 , GLN D:138 , FE D:181
BINDING SITE FOR RESIDUE FE D 180
11
BC2
SOFTWARE
GLU D:59 , GLU D:104 , GLN D:138 , ASP D:141 , FE D:180
BINDING SITE FOR RESIDUE FE D 181
12
BC3
SOFTWARE
GLU D:131 , GLU I:131 , GLU W:131
BINDING SITE FOR RESIDUE FE D 183
13
BC4
SOFTWARE
HIS D:170 , HIS K:170 , HIS Q:170 , HIS X:170
BINDING SITE FOR RESIDUE FE D 184
14
BC5
SOFTWARE
GLU E:24 , GLU E:59 , HIS E:62 , GLN E:138
BINDING SITE FOR RESIDUE FE E 180
15
BC6
SOFTWARE
HIS E:55 , GLU E:59 , GLU E:104 , ASP E:141 , HOH E:907
BINDING SITE FOR RESIDUE FE E 181
16
BC7
SOFTWARE
HIS E:170 , HIS L:170 , HIS P:170 , HIS W:170 , HOH W:185
BINDING SITE FOR RESIDUE FE E 184
17
BC8
SOFTWARE
GLU F:24 , GLU F:59 , HIS F:62 , GLN F:138 , FE F:181
BINDING SITE FOR RESIDUE FE F 180
18
BC9
SOFTWARE
GLU F:59 , GLU F:104 , GLN F:138 , ASP F:141 , FE F:180 , HOH F:908
BINDING SITE FOR RESIDUE FE F 181
19
CC1
SOFTWARE
GLU F:131 , GLU G:131 , GLU O:131
BINDING SITE FOR RESIDUE FE F 183
20
CC2
SOFTWARE
GLU G:24 , GLU G:59 , HIS G:62 , GLN G:138 , FE G:181
BINDING SITE FOR RESIDUE FE G 180
21
CC3
SOFTWARE
HIS G:55 , GLU G:59 , GLU G:104 , ASP G:141 , FE G:180
BINDING SITE FOR RESIDUE FE G 181
22
CC4
SOFTWARE
GLU A:131 , GLU H:131 , HOH H:733 , GLU X:131
BINDING SITE FOR RESIDUE FE H 183
23
CC5
SOFTWARE
GLU H:24 , GLU H:59 , HIS H:62 , GLN H:138
BINDING SITE FOR RESIDUE FE H 180
24
CC6
SOFTWARE
GLU H:59 , GLU H:104 , GLN H:138 , ASP H:141 , HOH H:909
BINDING SITE FOR RESIDUE FE H 181
25
CC7
SOFTWARE
HIS B:170 , HIS G:170 , HIS H:170 , HIS I:170
BINDING SITE FOR RESIDUE FE I 184
26
CC8
SOFTWARE
GLU I:24 , GLU I:59 , HIS I:62 , GLN I:138 , FE I:181
BINDING SITE FOR RESIDUE FE I 180
27
CC9
SOFTWARE
HIS I:55 , GLU I:59 , GLU I:104 , ASP I:141 , FE I:180 , HOH I:910 , HOH I:911
BINDING SITE FOR RESIDUE FE I 181
28
DC1
SOFTWARE
GLU J:24 , GLU J:59 , HIS J:62 , FE J:181
BINDING SITE FOR RESIDUE FE J 180
29
DC2
SOFTWARE
HIS J:55 , GLU J:59 , GLU J:104 , GLN J:138 , ASP J:141 , FE J:180
BINDING SITE FOR RESIDUE FE J 181
30
DC3
SOFTWARE
GLU J:131 , GLU N:131 , HOH Q:797
BINDING SITE FOR RESIDUE FE J 183
31
DC4
SOFTWARE
GLU K:24 , GLU K:59 , HIS K:62 , GLN K:138
BINDING SITE FOR RESIDUE FE K 180
32
DC5
SOFTWARE
GLU K:59 , GLU K:104 , GLN K:138 , ASP K:141
BINDING SITE FOR RESIDUE FE K 181
33
DC6
SOFTWARE
GLU K:131 , GLU P:131 , GLU U:131
BINDING SITE FOR RESIDUE FE K 183
34
DC7
SOFTWARE
GLU L:24 , GLU L:59 , HIS L:62 , HOH L:912
BINDING SITE FOR RESIDUE FE L 180
35
DC8
SOFTWARE
HIS L:55 , GLU L:59 , GLU L:104 , ASP L:141 , HOH L:426
BINDING SITE FOR RESIDUE FE L 181
36
DC9
SOFTWARE
GLU M:24 , GLU M:59 , HIS M:62 , GLN M:138 , HOH M:913
BINDING SITE FOR RESIDUE FE M 180
37
EC1
SOFTWARE
GLU M:59 , GLU M:104 , GLN M:138 , ASP M:141 , HOH M:913
BINDING SITE FOR RESIDUE FE M 181
38
EC2
SOFTWARE
GLU N:24 , GLU N:59 , HIS N:62 , GLN N:138
BINDING SITE FOR RESIDUE FE N 180
39
EC3
SOFTWARE
HIS N:55 , GLU N:58 , GLU N:59 , GLU N:104 , ASP N:141
BINDING SITE FOR RESIDUE FE N 181
40
EC4
SOFTWARE
HIS N:170 , HIS S:170 , HIS T:170 , HIS U:170
BINDING SITE FOR RESIDUE FE N 184
41
EC5
SOFTWARE
HIS A:170 , HIS J:170 , HIS O:170 , HIS R:170 , HOH R:182
BINDING SITE FOR RESIDUE FE O 184
42
EC6
SOFTWARE
GLU O:24 , GLU O:59 , HIS O:62 , GLN O:138
BINDING SITE FOR RESIDUE FE O 180
43
EC7
SOFTWARE
HIS O:55 , GLU O:59 , GLU O:104 , ASP O:141
BINDING SITE FOR RESIDUE FE O 181
44
EC8
SOFTWARE
GLU P:24 , GLU P:59 , HIS P:62 , HOH P:914
BINDING SITE FOR RESIDUE FE P 180
45
EC9
SOFTWARE
GLU P:59 , GLU P:104 , ASP P:141
BINDING SITE FOR RESIDUE FE P 181
46
FC1
SOFTWARE
GLU Q:24 , GLU Q:59 , HIS Q:62 , GLN Q:138
BINDING SITE FOR RESIDUE FE Q 180
47
FC2
SOFTWARE
GLU Q:59 , GLU Q:104 , GLN Q:138 , ASP Q:141
BINDING SITE FOR RESIDUE FE Q 181
48
FC3
SOFTWARE
GLU R:24 , GLU R:59 , HIS R:62 , GLN R:138
BINDING SITE FOR RESIDUE FE R 180
49
FC4
SOFTWARE
GLU R:59 , GLU R:104 , ASP R:141 , HOH R:916
BINDING SITE FOR RESIDUE FE R 181
50
FC5
SOFTWARE
GLU S:24 , GLU S:59 , HIS S:62 , HOH S:917
BINDING SITE FOR RESIDUE FE S 180
51
FC6
SOFTWARE
HIS S:55 , GLU S:59 , GLU S:104 , ASP S:141
BINDING SITE FOR RESIDUE FE S 181
52
FC7
SOFTWARE
GLU L:131 , GLU M:131 , GLU T:131 , HOH T:342
BINDING SITE FOR RESIDUE FE T 183
53
FC8
SOFTWARE
GLU T:24 , GLU T:59 , HIS T:62 , GLN T:138 , HOH T:410
BINDING SITE FOR RESIDUE FE T 180
54
FC9
SOFTWARE
HIS T:55 , GLU T:59 , GLU T:104 , ASP T:141
BINDING SITE FOR RESIDUE FE T 181
55
GC1
SOFTWARE
GLU U:24 , GLU U:59 , HIS U:62 , GLN U:138
BINDING SITE FOR RESIDUE FE U 180
56
GC2
SOFTWARE
GLU U:59 , GLU U:104 , ASP U:141 , HOH U:918
BINDING SITE FOR RESIDUE FE U 181
57
GC3
SOFTWARE
GLU V:24 , GLU V:59 , HIS V:62 , GLN V:138
BINDING SITE FOR RESIDUE FE V 180
58
GC4
SOFTWARE
GLU V:59 , GLU V:104 , ASP V:141
BINDING SITE FOR RESIDUE FE V 181
59
GC5
SOFTWARE
GLU W:24 , GLU W:59 , HIS W:62 , GLN W:138 , FE W:181
BINDING SITE FOR RESIDUE FE W 180
60
GC6
SOFTWARE
HIS W:55 , GLU W:59 , GLU W:104 , GLN W:138 , ASP W:141 , FE W:180
BINDING SITE FOR RESIDUE FE W 181
61
GC7
SOFTWARE
GLU X:24 , GLU X:59 , HIS X:62 , GLN X:138
BINDING SITE FOR RESIDUE FE X 180
62
GC8
SOFTWARE
HIS X:55 , GLU X:59 , GLU X:104 , ASP X:141
BINDING SITE FOR RESIDUE FE X 181
[
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
(3, 72)
Info
All PROSITE Patterns/Profiles
1: FERRITIN_LIKE (A:7-156,B:7-156,C:7-156,D:7-156,E:...)
2: FERRITIN_1 (A:58-76,B:58-76,C:58-76,D:58-76,E:...)
3: FERRITIN_2 (A:123-143,B:123-143,C:123-143,D:12...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FERRITIN_LIKE
PS50905
Ferritin-like diiron domain profile.
FRI2_LITCT
7-156
24
A:7-156
B:7-156
C:7-156
D:7-156
E:7-156
F:7-156
G:7-156
H:7-156
I:7-156
J:7-156
K:7-156
L:7-156
M:7-156
N:7-156
O:7-156
P:7-156
Q:7-156
R:7-156
S:7-156
T:7-156
U:7-156
V:7-156
W:7-156
X:7-156
2
FERRITIN_1
PS00540
Ferritin iron-binding regions signature 1.
FRI2_LITCT
58-76
24
A:58-76
B:58-76
C:58-76
D:58-76
E:58-76
F:58-76
G:58-76
H:58-76
I:58-76
J:58-76
K:58-76
L:58-76
M:58-76
N:58-76
O:58-76
P:58-76
Q:58-76
R:58-76
S:58-76
T:58-76
U:58-76
V:58-76
W:58-76
X:58-76
3
FERRITIN_2
PS00204
Ferritin iron-binding regions signature 2.
FRI2_LITCT
123-143
24
A:123-143
B:123-143
C:123-143
D:123-143
E:123-143
F:123-143
G:123-143
H:123-143
I:123-143
J:123-143
K:123-143
L:123-143
M:123-143
N:123-143
O:123-143
P:123-143
Q:123-143
R:123-143
S:123-143
T:123-143
U:123-143
V:123-143
W:123-143
X:123-143
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 24)
Info
All SCOP Domains
1a: SCOP_d3rgdf_ (F:)
1b: SCOP_d3rgdg_ (G:)
1c: SCOP_d3rgdh_ (H:)
1d: SCOP_d3rgdi_ (I:)
1e: SCOP_d3rgdn_ (N:)
1f: SCOP_d3rgdr_ (R:)
1g: SCOP_d3rgds_ (S:)
1h: SCOP_d3rgdt_ (T:)
1i: SCOP_d3rgdx_ (X:)
2a: SCOP_d3rgda_ (A:)
2b: SCOP_d3rgdb_ (B:)
2c: SCOP_d3rgdc_ (C:)
2d: SCOP_d3rgdd_ (D:)
2e: SCOP_d3rgde_ (E:)
2f: SCOP_d3rgdj_ (J:)
2g: SCOP_d3rgdk_ (K:)
2h: SCOP_d3rgdl_ (L:)
2i: SCOP_d3rgdm_ (M:)
2j: SCOP_d3rgdo_ (O:)
2k: SCOP_d3rgdp_ (P:)
2l: SCOP_d3rgdq_ (Q:)
2m: SCOP_d3rgdu_ (U:)
2n: SCOP_d3rgdv_ (V:)
2o: SCOP_d3rgdw_ (W:)
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Protein Domains
(
)
(
)
Organisms
(
)
(
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Class
:
All alpha proteins
(14657)
Fold
:
Ferritin-like
(533)
Superfamily
:
Ferritin-like
(489)
Family
:
Ferritin
(232)
Protein domain
:
(Apo)ferritin
(68)
Bullfrog (Rana catesbeiana) [TaxId: 8400]
(8)
1a
d3rgdf_
F:
1b
d3rgdg_
G:
1c
d3rgdh_
H:
1d
d3rgdi_
I:
1e
d3rgdn_
N:
1f
d3rgdr_
R:
1g
d3rgds_
S:
1h
d3rgdt_
T:
1i
d3rgdx_
X:
Protein domain
:
automated matches
(70)
Bullfrog (Rana catesbeiana) [TaxId: 8400]
(12)
2a
d3rgda_
A:
2b
d3rgdb_
B:
2c
d3rgdc_
C:
2d
d3rgdd_
D:
2e
d3rgde_
E:
2f
d3rgdj_
J:
2g
d3rgdk_
K:
2h
d3rgdl_
L:
2i
d3rgdm_
M:
2j
d3rgdo_
O:
2k
d3rgdp_
P:
2l
d3rgdq_
Q:
2m
d3rgdu_
U:
2n
d3rgdv_
V:
2o
d3rgdw_
W:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
[
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Atom Selection
(currently selected atoms:
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)
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Solvent
All Atoms
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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
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Chain P
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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
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)
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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") .
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