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2XND
Asym. Unit
Info
Asym.Unit (566 KB)
Biol.Unit 1 (556 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF BOVINE F1-C8 SUB-COMPLEX OF ATP SYNTHASE
Authors
:
I. N. Watt, M. G. Montgomery, M. J. Runswick, A. G. W. Leslie, J. E. Walker
Date
:
02 Aug 10 (Deposition) - 15 Sep 10 (Release) - 16 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.50
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q (1x)
Keywords
:
Atp Phosphorylase (H+ Transporting), Atp Synthesis, F1Fo Atp Synthase, Hydrolase, Ion Transport, P-Loop
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. N. Watt, M. G. Montgomery, M. J. Runswick, A. G. W. Leslie, J. E. Walker
Bioenergetic Cost Of Making An Adenosine Triphosphate Molecule In Animal Mitochondria.
Proc. Natl. Acad. Sci. Usa V. 107 16823 2010
[
close entry info
]
Hetero Components
(4, 12)
Info
All Hetero Components
1a: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPa)
1b: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPb)
1c: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPc)
1d: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPd)
1e: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPe)
2a: GLYCEROL (GOLa)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
3e: MAGNESIUM ION (MGe)
4a: SULFATE ION (SO4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ANP
5
Ligand/Ion
PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2
GOL
1
Ligand/Ion
GLYCEROL
3
MG
5
Ligand/Ion
MAGNESIUM ION
4
SO4
1
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:171 , GLN A:172 , THR A:173 , GLY A:174 , LYS A:175 , THR A:176 , SER A:177 , PHE A:357 , ARG A:362 , PRO A:363 , GLN A:430 , GLN A:432 , MG A:601
BINDING SITE FOR RESIDUE ANP A 600
02
AC2
SOFTWARE
THR A:176 , ASP A:269 , ANP A:600
BINDING SITE FOR RESIDUE MG A 601
03
AC3
SOFTWARE
ARG B:171 , GLN B:172 , THR B:173 , GLY B:174 , LYS B:175 , THR B:176 , SER B:177 , PHE B:357 , ARG B:362 , GLN B:430 , GLN B:432 , MG B:601 , ARG E:356 , ASP E:359
BINDING SITE FOR RESIDUE ANP B 600
04
AC4
SOFTWARE
THR B:176 , ANP B:600
BINDING SITE FOR RESIDUE MG B 601
05
AC5
SOFTWARE
MET B:62 , VAL B:129 , TYR B:244 , TYR B:248 , ARG B:304
BINDING SITE FOR RESIDUE GOL B 701
06
AC6
SOFTWARE
ARG C:171 , GLN C:172 , GLY C:174 , LYS C:175 , THR C:176 , SER C:177 , GLU C:328 , PHE C:357 , ARG C:362 , GLN C:430 , GLN C:432 , MG C:601 , TYR F:368
BINDING SITE FOR RESIDUE ANP C 600
07
AC7
SOFTWARE
THR C:176 , ASP C:269 , ANP C:600
BINDING SITE FOR RESIDUE MG C 601
08
AC8
SOFTWARE
SER C:344 , SER C:372 , ARG C:373 , GLY D:157 , ALA D:158 , GLY D:159 , VAL D:160 , GLY D:161 , LYS D:162 , THR D:163 , VAL D:164 , GLU D:188 , ARG D:189 , TYR D:311 , TYR D:345 , ALA D:421 , PHE D:424 , THR D:425 , MG D:601
BINDING SITE FOR RESIDUE ANP D 600
09
AC9
SOFTWARE
THR D:163 , GLU D:188 , ASP D:256 , ANP D:600
BINDING SITE FOR RESIDUE MG D 601
10
BC1
SOFTWARE
ARG A:373 , LYS E:162 , ARG E:189 , ASP E:256 , ARG E:260
BINDING SITE FOR RESIDUE SO4 E 630
11
BC2
SOFTWARE
ILE B:343 , SER B:344 , ARG B:373 , GLY F:157 , ALA F:158 , GLY F:159 , VAL F:160 , GLY F:161 , LYS F:162 , THR F:163 , VAL F:164 , GLU F:188 , ARG F:189 , TYR F:345 , PHE F:418 , ALA F:421 , PHE F:424 , THR F:425 , MG F:601
BINDING SITE FOR RESIDUE ANP F 600
12
BC3
SOFTWARE
THR F:163 , GLU F:188 , ARG F:189 , GLU F:192 , ANP F:600
BINDING SITE FOR RESIDUE MG F 601
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(3, 15)
Info
All PROSITE Patterns/Profiles
1: ATPASE_C (J:37-58,K:37-58,L:37-58,M:37-58,N:...)
2: ATPASE_GAMMA (G:258-271)
3: ATPASE_ALPHA_BETA (D:346-355,E:346-355,F:346-355,A:36...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ATPASE_C
PS00605
ATP synthase c subunit signature.
AT5G1_BOVIN
98-119
8
J:37-58
K:37-58
L:37-58
M:37-58
N:37-58
O:37-58
P:37-58
Q:37-58
2
ATPASE_GAMMA
PS00153
ATP synthase gamma subunit signature.
ATPG_BOVIN
283-296
1
G:258-271
3
ATPASE_ALPHA_BETA
PS00152
ATP synthase alpha and beta subunits signature.
ATPB_BOVIN
396-405
3
D:346-355
E:346-355
F:346-355
ATPA_BOVIN
406-415
3
A:363-372
B:363-372
C:363-372
[
close PROSITE info
]
Exons
(22, 40)
Info
All Exons
Exon 1.1 (H:15-26)
Exon 1.2 (H:27-78)
Exon 1.3 (H:78-107)
Exon 1.4 (H:108-145)
Exon 2.2 (D:9-63 | E:9-63 | F:9-63)
Exon 2.3 (D:63-121 | E:63-121 | F:63-121)
Exon 2.4 (D:121-162 | E:121-162 | F:121-162)
Exon 2.5 (D:162-223 | E:162-223 | F:162-223)
Exon 2.6 (D:224-276 | E:224-276 | F:224-276)
Exon 2.7 (D:277-317 | E:277-317 | F:277-317)
Exon 2.8 (D:318-388 | E:318-388 | F:318-388)
Exon 2.9 (D:389-456 | E:389-456 | F:389-456)
Exon 2.10 (D:456-475 | E:456-474 | F:456-474)
Exon 3.2 (G:1-6)
Exon 3.3 (G:6-50)
Exon 3.4 (G:50-118 (gaps))
Exon 3.5 (G:118-166)
Exon 3.6 (G:166-188)
Exon 3.7 (G:188-240)
Exon 3.8 (G:240-272)
Exon 3.9 (G:272-272)
Exon 4.1 (I:1-47)
View:
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Label:
All Exon Boundaries
01: Boundary -/1.1
02: Boundary 1.1/1.2
03: Boundary 1.2/1.3
04: Boundary 1.3/1.4
05: Boundary 1.4/-
06: Boundary 2.1/2.2
07: Boundary 2.2/2.3
08: Boundary 2.3/2.4
09: Boundary 2.4/2.5
10: Boundary 2.5/2.6
11: Boundary 2.6/2.7
12: Boundary 2.7/2.8
13: Boundary 2.8/2.9
14: Boundary 2.9/2.10
15: Boundary 2.10/-
16: Boundary 3.1/3.2
17: Boundary 3.2/3.3
18: Boundary 3.3/3.4
19: Boundary 3.4/3.5
20: Boundary 3.5/3.6
21: Boundary 3.6/3.7
22: Boundary 3.7/3.8
23: Boundary 3.8/3.9
24: Boundary 3.9/3.10
25: Boundary -/4.1
26: Boundary 4.1/-
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
ENSBTAT00000000721
1
ENSBTAE00000005335
chr7:
42707782-42707968
187
ATPD_BOVIN
1-48
48
1
H:15-26
12
1.2
ENSBTAT00000000721
2
ENSBTAE00000005337
chr7:
42708593-42708746
154
ATPD_BOVIN
49-100
52
1
H:27-78
52
1.3
ENSBTAT00000000721
3
ENSBTAE00000005339
chr7:
42709233-42709321
89
ATPD_BOVIN
100-129
30
1
H:78-107
30
1.4
ENSBTAT00000000721
4
ENSBTAE00000278497
chr7:
42709412-42709954
543
ATPD_BOVIN
130-169
40
1
H:108-145
38
2.1
ENSBTAT00000017710
1
ENSBTAE00000144098
chr5:
61355655-61355808
154
ATPB_BOVIN
1-52
52
0
-
-
2.2
ENSBTAT00000017710
2
ENSBTAE00000144099
chr5:
61356274-61356456
183
ATPB_BOVIN
52-113
62
3
D:9-63
E:9-63
F:9-63
55
55
55
2.3
ENSBTAT00000017710
3
ENSBTAE00000144101
chr5:
61356699-61356873
175
ATPB_BOVIN
113-171
59
3
D:63-121
E:63-121
F:63-121
59
59
59
2.4
ENSBTAT00000017710
4
ENSBTAE00000144103
chr5:
61357390-61357511
122
ATPB_BOVIN
171-212
42
3
D:121-162
E:121-162
F:121-162
42
42
42
2.5
ENSBTAT00000017710
5
ENSBTAE00000144107
chr5:
61357757-61357941
185
ATPB_BOVIN
212-273
62
3
D:162-223
E:162-223
F:162-223
62
62
62
2.6
ENSBTAT00000017710
6
ENSBTAE00000144109
chr5:
61358444-61358602
159
ATPB_BOVIN
274-326
53
3
D:224-276
E:224-276
F:224-276
53
53
53
2.7
ENSBTAT00000017710
7
ENSBTAE00000144110
chr5:
61358693-61358815
123
ATPB_BOVIN
327-367
41
3
D:277-317
E:277-317
F:277-317
41
41
41
2.8
ENSBTAT00000017710
8
ENSBTAE00000144111
chr5:
61359431-61359643
213
ATPB_BOVIN
368-438
71
3
D:318-388
E:318-388
F:318-388
71
71
71
2.9
ENSBTAT00000017710
9
ENSBTAE00000144114
chr5:
61360024-61360225
202
ATPB_BOVIN
439-506
68
3
D:389-456
E:389-456
F:389-456
68
68
68
2.10
ENSBTAT00000017710
10
ENSBTAE00000297207
chr5:
61360774-61361036
263
ATPB_BOVIN
506-537
32
3
D:456-475
E:456-474
F:456-474
20
19
19
3.1
ENSBTAT00000018505
1
ENSBTAE00000150694
chr13:
14893326-14893240
87
ATPG_BOVIN
1-19
19
0
-
-
3.2
ENSBTAT00000018505
2
ENSBTAE00000150697
chr13:
14886562-14886528
35
ATPG_BOVIN
19-31
13
1
G:1-6
6
3.3
ENSBTAT00000018505
3
ENSBTAE00000150700
chr13:
14886029-14885898
132
ATPG_BOVIN
31-75
45
1
G:6-50
45
3.4
ENSBTAT00000018505
4
ENSBTAE00000150704
chr13:
14882864-14882660
205
ATPG_BOVIN
75-143
69
1
G:50-118 (gaps)
69
3.5
ENSBTAT00000018505
5
ENSBTAE00000150705
chr13:
14882083-14881940
144
ATPG_BOVIN
143-191
49
1
G:118-166
49
3.6
ENSBTAT00000018505
6
ENSBTAE00000150706
chr13:
14881819-14881755
65
ATPG_BOVIN
191-213
23
1
G:166-188
23
3.7
ENSBTAT00000018505
7
ENSBTAE00000150707
chr13:
14880753-14880598
156
ATPG_BOVIN
213-265
53
1
G:188-240
53
3.8
ENSBTAT00000018505
8
ENSBTAE00000150708
chr13:
14880202-14880106
97
ATPG_BOVIN
265-297
33
1
G:240-272
33
3.9
ENSBTAT00000018505
9
ENSBTAE00000305670
chr13:
14877783-14877747
37
ATPG_BOVIN
297-298
2
1
G:272-272
1
3.10
ENSBTAT00000018505
10
ENSBTAE00000305668
chr13:
14877118-14876979
140
ATPG_BOVIN
-
0
0
-
-
4.1
ENSBTAT00000035337
1
ENSBTAE00000417791
chr22:
35979709-35980100
392
ATP5E_BOVIN
1-77
77
1
I:1-47
47
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
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Sorry, no Info available
[
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]
CATH Domains
(8, 21)
Info
all CATH domains
1a: CATH_2xndG02 (G:26-231)
2a: CATH_2xndD02 (D:82-357)
2b: CATH_2xndA02 (A:94-379)
2c: CATH_2xndB02 (B:94-379)
2d: CATH_2xndC02 (C:94-379)
2e: CATH_2xndE02 (E:82-357)
2f: CATH_2xndF02 (F:82-357)
3a: CATH_2xndI00 (I:1-47)
4a: CATH_2xndE03 (E:358-474)
4b: CATH_2xndF03 (F:358-474)
4c: CATH_2xndD03 (D:358-475)
5a: CATH_2xndG01 (G:1-25,G:232-272)
6a: CATH_2xndA03 (A:380-510)
6b: CATH_2xndB03 (B:380-510)
6c: CATH_2xndC03 (C:380-510)
7a: CATH_2xndA01 (A:24-93)
7b: CATH_2xndB01 (B:24-93)
7c: CATH_2xndC01 (C:24-93)
8a: CATH_2xndD01 (D:9-81)
8b: CATH_2xndE01 (E:9-81)
8c: CATH_2xndF01 (F:9-81)
View:
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Classes
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)
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)
Architectures
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)
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)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Pyruvate Kinase; Chain: A, domain 1
(36)
Homologous Superfamily
:
[code=3.40.1380.10, no name defined]
(14)
Bovine (Bos taurus)
(12)
1a
2xndG02
G:26-231
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Bovine (Bos taurus)
(17)
2a
2xndD02
D:82-357
2b
2xndA02
A:94-379
2c
2xndB02
B:94-379
2d
2xndC02
C:94-379
2e
2xndE02
E:82-357
2f
2xndF02
F:82-357
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Atp Synthase Epsilon Chain; Chain: I;
(69)
Homologous Superfamily
:
[code=1.10.1620.20, no name defined]
(5)
Bovine (Bos taurus)
(4)
3a
2xndI00
I:1-47
Topology
:
Bovine Mitochondrial F1-ATPase, ATP Synthase Beta Chain; Chain D, domain3
(32)
Homologous Superfamily
:
Bovine Mitochondrial F1-atpase; Atp Synthase Beta Chain; Chain D, domain 3
(32)
Bovine (Bos taurus)
(17)
4a
2xndE03
E:358-474
4b
2xndF03
F:358-474
4c
2xndD03
D:358-475
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.80, no name defined]
(43)
Bovine (Bos taurus)
(13)
5a
2xndG01
G:1-25,G:232-272
Architecture
:
Up-down Bundle
(3216)
Topology
:
Lysin
(39)
Homologous Superfamily
:
[code=1.20.150.20, no name defined]
(33)
Bovine (Bos taurus)
(17)
6a
2xndA03
A:380-510
6b
2xndB03
B:380-510
6c
2xndC03
C:380-510
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Elongation Factor Tu (Ef-tu); domain 3
(323)
Homologous Superfamily
:
[code=2.40.30.20, no name defined]
(40)
Bovine (Bos taurus)
(17)
7a
2xndA01
A:24-93
7b
2xndB01
B:24-93
7c
2xndC01
C:24-93
Topology
:
Thrombin, subunit H
(1535)
Homologous Superfamily
:
[code=2.40.10.170, no name defined]
(33)
Bovine (Bos taurus)
(17)
8a
2xndD01
D:9-81
8b
2xndE01
E:9-81
8c
2xndF01
F:9-81
[
close CATH info
]
Pfam Domains
(7, 29)
Info
all PFAM domains
1a: PFAM_ATP_synt_ab_N_2xndC01 (C:24-92)
1b: PFAM_ATP_synt_ab_N_2xndC02 (C:24-92)
1c: PFAM_ATP_synt_ab_N_2xndC03 (C:24-92)
1d: PFAM_ATP_synt_ab_N_2xndF01 (F:13-79)
1e: PFAM_ATP_synt_ab_N_2xndF02 (F:13-79)
1f: PFAM_ATP_synt_ab_N_2xndF03 (F:13-79)
2a: PFAM_ATP_synt_ab_2xndC04 (C:148-372)
2b: PFAM_ATP_synt_ab_2xndC05 (C:148-372)
2c: PFAM_ATP_synt_ab_2xndC06 (C:148-372)
2d: PFAM_ATP_synt_ab_2xndF04 (F:135-355)
2e: PFAM_ATP_synt_ab_2xndF05 (F:135-355)
2f: PFAM_ATP_synt_ab_2xndF06 (F:135-355)
3a: PFAM_ATP_synt_2xndG01 (G:1-272)
4a: PFAM_ATP_synt_C_2xndQ01 (Q:6-73)
4b: PFAM_ATP_synt_C_2xndQ02 (Q:6-73)
4c: PFAM_ATP_synt_C_2xndQ03 (Q:6-73)
4d: PFAM_ATP_synt_C_2xndQ04 (Q:6-73)
4e: PFAM_ATP_synt_C_2xndQ05 (Q:6-73)
4f: PFAM_ATP_synt_C_2xndQ06 (Q:6-73)
4g: PFAM_ATP_synt_C_2xndQ07 (Q:6-73)
4h: PFAM_ATP_synt_C_2xndQ08 (Q:6-73)
5a: PFAM_ATP_synt_DE_N_2xndH01 (H:16-97)
6a: PFAM_ATP_synt_Eps_2xndI01 (I:2-47)
7a: PFAM_ATP_synt_ab_C_2xndC07 (C:384-488)
7b: PFAM_ATP_synt_ab_C_2xndC08 (C:384-488)
7c: PFAM_ATP_synt_ab_C_2xndC09 (C:384-488)
7d: PFAM_ATP_synt_ab_C_2xndF07 (F:368-474)
7e: PFAM_ATP_synt_ab_C_2xndF08 (F:368-474)
7f: PFAM_ATP_synt_ab_C_2xndF09 (F:368-474)
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Clans
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)
(
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Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
HAS-barrel
(27)
Family
:
ATP-synt_ab_N
(27)
Bos taurus (Bovine)
(14)
1a
ATP-synt_ab_N-2xndC01
C:24-92
1b
ATP-synt_ab_N-2xndC02
C:24-92
1c
ATP-synt_ab_N-2xndC03
C:24-92
1d
ATP-synt_ab_N-2xndF01
F:13-79
1e
ATP-synt_ab_N-2xndF02
F:13-79
1f
ATP-synt_ab_N-2xndF03
F:13-79
Clan
:
P-loop_NTPase
(1112)
Family
:
ATP-synt_ab
(44)
Bos taurus (Bovine)
(14)
2a
ATP-synt_ab-2xndC04
C:148-372
2b
ATP-synt_ab-2xndC05
C:148-372
2c
ATP-synt_ab-2xndC06
C:148-372
2d
ATP-synt_ab-2xndF04
F:135-355
2e
ATP-synt_ab-2xndF05
F:135-355
2f
ATP-synt_ab-2xndF06
F:135-355
Clan
:
no clan defined [family: ATP-synt]
(22)
Family
:
ATP-synt
(22)
Bos taurus (Bovine)
(14)
3a
ATP-synt-2xndG01
G:1-272
Clan
:
no clan defined [family: ATP-synt_C]
(9)
Family
:
ATP-synt_C
(9)
Bos taurus (Bovine)
(1)
4a
ATP-synt_C-2xndQ01
Q:6-73
4b
ATP-synt_C-2xndQ02
Q:6-73
4c
ATP-synt_C-2xndQ03
Q:6-73
4d
ATP-synt_C-2xndQ04
Q:6-73
4e
ATP-synt_C-2xndQ05
Q:6-73
4f
ATP-synt_C-2xndQ06
Q:6-73
4g
ATP-synt_C-2xndQ07
Q:6-73
4h
ATP-synt_C-2xndQ08
Q:6-73
Clan
:
no clan defined [family: ATP-synt_DE_N]
(15)
Family
:
ATP-synt_DE_N
(15)
Bos taurus (Bovine)
(6)
5a
ATP-synt_DE_N-2xndH01
H:16-97
Clan
:
no clan defined [family: ATP-synt_Eps]
(11)
Family
:
ATP-synt_Eps
(11)
Bos taurus (Bovine)
(6)
6a
ATP-synt_Eps-2xndI01
I:2-47
Clan
:
no clan defined [family: ATP-synt_ab_C]
(32)
Family
:
ATP-synt_ab_C
(32)
Bos taurus (Bovine)
(14)
7a
ATP-synt_ab_C-2xndC07
C:384-488
7b
ATP-synt_ab_C-2xndC08
C:384-488
7c
ATP-synt_ab_C-2xndC09
C:384-488
7d
ATP-synt_ab_C-2xndF07
F:368-474
7e
ATP-synt_ab_C-2xndF08
F:368-474
7f
ATP-synt_ab_C-2xndF09
F:368-474
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