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...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
2QJK
Biol. Unit 3
Info
Asym.Unit (876 KB)
Biol.Unit 1 (293 KB)
Biol.Unit 2 (294 KB)
Biol.Unit 3 (294 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 ANALYSIS OF MUTANT RHODOBACTER SPHAEROIDES BC1 WITH STIGMATELLIN AND ANTIMYCIN
Authors
:
L. Esser
Date
:
07 Jul 07 (Deposition) - 25 Dec 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.10
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R
Biol. Unit 1: A,B,C,D,E,F (1x)
Biol. Unit 2: G,H,I,J,K,L (1x)
Biol. Unit 3: M,N,O,P,Q,R (1x)
Keywords
:
Cytochrome B, Tm Helices, Cytochrome C1, C-Terminal Tm Helix, Iron-Sulfur-Protein, N-Terminal Tm, Electron Transport, Heme, Membrane, Metal-Binding, Respiratory Chain, Transmembrane, Transport, 2Fe-2S, Inner Membrane, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. Esser, M. Elberry, F. Zhou, C. A. Yu, L. Yu, D. Xia
Inhibitor-Complexed Structures Of The Cytochrome Bc1 From The Photosynthetic Bacterium Rhodobacter Sphaeroides.
J. Biol. Chem. V. 283 2846 2008
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(6, 16)
Info
All Hetero Components
1a: (2R,3S,6S,7R,8R)-3-{[3-(FORMYLAMIN... (ANJa)
1b: (2R,3S,6S,7R,8R)-3-{[3-(FORMYLAMIN... (ANJb)
1c: (2R,3S,6S,7R,8R)-3-{[3-(FORMYLAMIN... (ANJc)
1d: (2R,3S,6S,7R,8R)-3-{[3-(FORMYLAMIN... (ANJd)
1e: (2R,3S,6S,7R,8R)-3-{[3-(FORMYLAMIN... (ANJe)
1f: (2R,3S,6S,7R,8R)-3-{[3-(FORMYLAMIN... (ANJf)
2a: B-2-OCTYLGLUCOSIDE (BGLa)
2b: B-2-OCTYLGLUCOSIDE (BGLb)
2c: B-2-OCTYLGLUCOSIDE (BGLc)
2d: B-2-OCTYLGLUCOSIDE (BGLd)
2e: B-2-OCTYLGLUCOSIDE (BGLe)
2f: B-2-OCTYLGLUCOSIDE (BGLf)
3a: FE2/S2 (INORGANIC) CLUSTER (FESa)
3b: FE2/S2 (INORGANIC) CLUSTER (FESb)
3c: FE2/S2 (INORGANIC) CLUSTER (FESc)
3d: FE2/S2 (INORGANIC) CLUSTER (FESd)
3e: FE2/S2 (INORGANIC) CLUSTER (FESe)
3f: FE2/S2 (INORGANIC) CLUSTER (FESf)
4a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
4b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
4c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
4d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
4e: PROTOPORPHYRIN IX CONTAINING FE (HEMe)
4f: PROTOPORPHYRIN IX CONTAINING FE (HEMf)
4g: PROTOPORPHYRIN IX CONTAINING FE (HEMg)
4h: PROTOPORPHYRIN IX CONTAINING FE (HEMh)
4i: PROTOPORPHYRIN IX CONTAINING FE (HEMi)
4j: PROTOPORPHYRIN IX CONTAINING FE (HEMj)
4k: PROTOPORPHYRIN IX CONTAINING FE (HEMk)
4l: PROTOPORPHYRIN IX CONTAINING FE (HEMl)
4m: PROTOPORPHYRIN IX CONTAINING FE (HEMm)
4n: PROTOPORPHYRIN IX CONTAINING FE (HEMn)
4o: PROTOPORPHYRIN IX CONTAINING FE (HEMo)
4p: PROTOPORPHYRIN IX CONTAINING FE (HEMp)
4q: PROTOPORPHYRIN IX CONTAINING FE (HEMq)
4r: PROTOPORPHYRIN IX CONTAINING FE (HEMr)
5a: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDRO... (LOPa)
5b: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDRO... (LOPb)
5c: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDRO... (LOPc)
5d: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDRO... (LOPd)
5e: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDRO... (LOPe)
5f: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDRO... (LOPf)
6a: STIGMATELLIN A (SMAa)
6b: STIGMATELLIN A (SMAb)
6c: STIGMATELLIN A (SMAc)
6d: STIGMATELLIN A (SMAd)
6e: STIGMATELLIN A (SMAe)
6f: STIGMATELLIN A (SMAf)
7a: STRONTIUM ION (SRa)
7b: STRONTIUM ION (SRb)
7c: STRONTIUM ION (SRc)
7d: STRONTIUM ION (SRd)
7e: STRONTIUM ION (SRe)
7f: STRONTIUM ION (SRf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ANJ
2
Ligand/Ion
(2R,3S,6S,7R,8R)-3-{[3-(FORMYLAMINO)-2-HYDROXYBENZOYL]AMINO}-8-HEXYL-2,6-DIMETHYL-4,9-DIOXO-1,5-DIOXONAN-7-YL (2S)-2-METHYLBUTANOATE
2
BGL
2
Ligand/Ion
B-2-OCTYLGLUCOSIDE
3
FES
2
Ligand/Ion
FE2/S2 (INORGANIC) CLUSTER
4
HEM
6
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
5
LOP
2
Ligand/Ion
(1R)-2-{[(R)-(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(DODECANOYLOXY)METHYL]ETHYL (9Z)-OCTADEC-9-ENOATE
6
SMA
2
Ligand/Ion
STIGMATELLIN A
7
SR
-1
Ligand/Ion
STRONTIUM ION
[
close Hetero Component info
]
Sites
(18, 18)
Info
All Sites
01: AC5 (SOFTWARE)
02: AC6 (SOFTWARE)
03: BC2 (SOFTWARE)
04: BC3 (SOFTWARE)
05: DC2 (SOFTWARE)
06: DC3 (SOFTWARE)
07: DC4 (SOFTWARE)
08: DC5 (SOFTWARE)
09: DC6 (SOFTWARE)
10: DC7 (SOFTWARE)
11: DC8 (SOFTWARE)
12: DC9 (SOFTWARE)
13: EC5 (SOFTWARE)
14: EC6 (SOFTWARE)
15: FC2 (SOFTWARE)
16: FC3 (SOFTWARE)
17: FC8 (SOFTWARE)
18: FC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC5
SOFTWARE
PHE M:269 , GLY N:15 , PRO N:16 , ASN N:123 , GLY N:124 , LYS N:227
BINDING SITE FOR RESIDUE BGL M 431
02
AC6
SOFTWARE
PHE P:269 , PRO Q:16 , ASN Q:123 , LYS Q:227
BINDING SITE FOR RESIDUE BGL Q 257
03
BC2
SOFTWARE
ASP N:8 , VAL N:9 , GLU N:14 , GLU N:129
BINDING SITE FOR RESIDUE SR N 257
04
BC3
SOFTWARE
ASP Q:8 , VAL Q:9 , GLU Q:14 , GLU Q:129
BINDING SITE FOR RESIDUE SR Q 258
05
DC2
SOFTWARE
TRP M:45 , GLY M:48 , LEU M:51 , ALA M:52 , HIS M:111 , ARG M:114 , SER M:120 , ARG M:125 , THR M:128 , TRP M:129 , GLY M:132 , MET M:133 , ILE M:135 , VAL M:209 , HIS M:212 , PHE M:216 , GLY M:220 , ASN M:221 , ASN M:222 , ANJ M:505
BINDING SITE FOR RESIDUE HEM M 501
06
DC3
SOFTWARE
GLN M:58 , GLY M:62 , ILE M:63 , ARG M:94 , HIS M:97 , ALA M:98 , THR M:142 , GLY M:146 , LEU M:149 , PRO M:150 , HIS M:198 , TYR M:199 , PRO M:202
BINDING SITE FOR RESIDUE HEM M 502
07
DC4
SOFTWARE
VAL N:35 , CYS N:36 , CYS N:39 , HIS N:40 , LEU N:94 , ASN N:96 , PRO N:98 , ARG N:107 , TYR N:130 , LEU N:135 , PHE N:160 , ILE N:183 , ALA N:184 , MET N:185 , LEU N:189
BINDING SITE FOR RESIDUE HEM N 301
08
DC5
SOFTWARE
CYS O:129 , HIS O:131 , LEU O:132 , GLY O:133 , CYS O:149 , HIS O:152 , SER O:154
BINDING SITE FOR RESIDUE FES O 200
09
DC6
SOFTWARE
TRP P:45 , GLY P:48 , LEU P:51 , ALA P:52 , HIS P:111 , ARG P:114 , ARG P:125 , THR P:128 , TRP P:129 , GLY P:132 , MET P:133 , ILE P:135 , VAL P:209 , HIS P:212 , PHE P:216 , GLY P:220 , ASN P:222 , ANJ P:505
BINDING SITE FOR RESIDUE HEM P 501
10
DC7
SOFTWARE
GLN P:58 , GLY P:62 , ILE P:63 , ARG P:94 , HIS P:97 , THR P:142 , GLY P:146 , TYR P:147 , LEU P:149 , PRO P:150 , HIS P:198 , TYR P:199 , PRO P:202
BINDING SITE FOR RESIDUE HEM P 502
11
DC8
SOFTWARE
VAL Q:35 , CYS Q:36 , CYS Q:39 , HIS Q:40 , LEU Q:94 , ASN Q:96 , PRO Q:98 , MET Q:103 , ARG Q:107 , TYR Q:130 , LEU Q:135 , PHE Q:160 , ILE Q:183 , ALA Q:184 , MET Q:185 , LEU Q:189
BINDING SITE FOR RESIDUE HEM Q 301
12
DC9
SOFTWARE
CYS R:129 , HIS R:131 , LEU R:132 , GLY R:133 , CYS R:149 , CYS R:151 , HIS R:152 , SER R:154
BINDING SITE FOR RESIDUE FES R 200
13
EC5
SOFTWARE
LEU M:137 , PHE M:144 , MET M:145 , GLY M:158 , VAL M:161 , ILE M:162 , PHE M:194 , VAL M:293 , PRO M:294 , GLU M:295 , PHE M:298 , TYR M:302 , MET M:336 , HIS R:152
BINDING SITE FOR RESIDUE SMA M 503
14
EC6
SOFTWARE
HIS O:152 , PHE P:144 , GLY P:158 , VAL P:161 , ILE P:162 , LEU P:180 , VAL P:293 , PRO P:294 , GLU P:295 , PHE P:298 , TYR P:302 , MET P:336
BINDING SITE FOR RESIDUE SMA P 503
15
FC2
SOFTWARE
MET M:44 , LEU M:103 , PHE M:113 , ARG M:114 , TYR M:117 , TYR M:118 , ARG M:358 , TRP M:368 , PHE M:374
BINDING SITE FOR RESIDUE LOP M 504
16
FC3
SOFTWARE
MET P:44 , LEU P:103 , PHE P:113 , TYR P:117 , TYR P:118 , PHE P:263 , LEU P:274 , ARG P:358 , TRP P:368 , PHE P:374
BINDING SITE FOR RESIDUE LOP P 504
17
FC8
SOFTWARE
THR M:32 , TRP M:45 , VAL M:49 , ALA M:52 , ILE M:213 , PHE M:216 , ASN M:221 , PHE M:244 , ASP M:252 , HEM M:501
BINDING SITE FOR RESIDUE ANJ M 505
18
FC9
SOFTWARE
ALA P:29 , TRP P:45 , VAL P:49 , ALA P:52 , LEU P:55 , ILE P:213 , PHE P:216 , PHE P:244 , PHE P:248 , ASP P:252 , HEM P:501
BINDING SITE FOR RESIDUE ANJ P 505
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(4, 8)
Info
All PROSITE Patterns/Profiles
1: CYTB_NTER (M:15-225,P:15-225)
2: CYTC (N:23-142,Q:23-142)
3: RIESKE (O:117-185,R:117-185)
4: CYTB_CTER (M:234-422,P:234-422)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CYTB_NTER
PS51002
Cytochrome b/b6 N-terminal region profile.
CYB_RHOSH
15-225
2
-
-
-
-
M:15-225
P:15-225
2
CYTC
PS51007
Cytochrome c family profile.
CY1_RHOSH
45-164
2
-
-
-
-
N:23-142
Q:23-142
3
RIESKE
PS51296
Rieske [2Fe-2S] iron-sulfur domain profile.
UCRI_RHOSH
117-185
2
-
-
-
-
O:117-185
R:117-185
4
CYTB_CTER
PS51003
Cytochrome b/b6 C-terminal region profile.
CYB_RHOSH
234-422
2
-
-
-
-
M:234-422
P:234-422
[
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.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(5, 30)
Info
all CATH domains
1a: CATH_2qjkB01 (B:1-221)
1b: CATH_2qjkE01 (E:1-221)
1c: CATH_2qjkH01 (H:1-221)
1d: CATH_2qjkK01 (K:1-221)
1e: CATH_2qjkN01 (N:1-221)
1f: CATH_2qjkQ01 (Q:1-221)
2a: CATH_2qjkA00 (A:3-430)
2b: CATH_2qjkM00 (M:3-430)
2c: CATH_2qjkP00 (P:3-430)
2d: CATH_2qjkD00 (D:3-430)
2e: CATH_2qjkG00 (G:3-430)
2f: CATH_2qjkJ00 (J:3-430)
3a: CATH_2qjkB02 (B:222-256)
3b: CATH_2qjkE02 (E:222-256)
3c: CATH_2qjkH02 (H:222-256)
3d: CATH_2qjkK02 (K:222-256)
3e: CATH_2qjkN02 (N:222-256)
3f: CATH_2qjkQ02 (Q:222-256)
4a: CATH_2qjkC01 (C:9-41)
4b: CATH_2qjkF01 (F:9-41)
4c: CATH_2qjkI01 (I:9-41)
4d: CATH_2qjkL01 (L:9-41)
4e: CATH_2qjkO01 (O:9-41)
4f: CATH_2qjkR01 (R:9-41)
5a: CATH_2qjkC02 (C:42-187)
5b: CATH_2qjkF02 (F:42-187)
5c: CATH_2qjkI02 (I:42-187)
5d: CATH_2qjkL02 (L:42-187)
5e: CATH_2qjkO02 (O:42-187)
5f: CATH_2qjkR02 (R:42-187)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Cytochrome Bc1 Complex; Chain D, domain 2
(279)
Homologous Superfamily
:
Cytochrome c
(279)
Rhodobacter sphaeroides. Organism_taxid: 1063.
(4)
1a
2qjkB01
B:1-221
1b
2qjkE01
E:1-221
1c
2qjkH01
H:1-221
1d
2qjkK01
K:1-221
1e
2qjkN01
N:1-221
1f
2qjkQ01
Q:1-221
Architecture
:
Up-down Bundle
(3216)
Topology
:
Cytochrome Bc1 Complex; Chain C
(51)
Homologous Superfamily
:
Cytochrome Bc1 Complex; Chain C
(51)
Rhodobacter sphaeroides. Organism_taxid: 1063.
(4)
2a
2qjkA00
A:3-430
2b
2qjkM00
M:3-430
2c
2qjkP00
P:3-430
2d
2qjkD00
D:3-430
2e
2qjkG00
G:3-430
2f
2qjkJ00
J:3-430
Topology
:
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(552)
Homologous Superfamily
:
[code=1.20.5.100, no name defined]
(56)
Rhodobacter sphaeroides. Organism_taxid: 1063.
(4)
3a
2qjkB02
B:222-256
3b
2qjkE02
E:222-256
3c
2qjkH02
H:222-256
3d
2qjkK02
K:222-256
3e
2qjkN02
N:222-256
3f
2qjkQ02
Q:222-256
Homologous Superfamily
:
Single helix bin
(16)
Rhodobacter sphaeroides. Organism_taxid: 1063.
(4)
4a
2qjkC01
C:9-41
4b
2qjkF01
F:9-41
4c
2qjkI01
I:9-41
4d
2qjkL01
L:9-41
4e
2qjkO01
O:9-41
4f
2qjkR01
R:9-41
Class
:
Mainly Beta
(13760)
Architecture
:
3-layer Sandwich
(102)
Topology
:
Rieske Iron-sulfur Protein
(99)
Homologous Superfamily
:
'Rieske'-like iron-sulphur domains
(99)
Rhodobacter sphaeroides. Organism_taxid: 1063.
(10)
5a
2qjkC02
C:42-187
5b
2qjkF02
F:42-187
5c
2qjkI02
I:42-187
5d
2qjkL02
L:42-187
5e
2qjkO02
O:42-187
5f
2qjkR02
R:42-187
[
close CATH info
]
Pfam Domains
(5, 30)
Info
all PFAM domains
1a: PFAM_Cytochrom_B_N_2_2qjkP01 (P:102-277)
1b: PFAM_Cytochrom_B_N_2_2qjkP02 (P:102-277)
1c: PFAM_Cytochrom_B_N_2_2qjkP03 (P:102-277)
1d: PFAM_Cytochrom_B_N_2_2qjkP04 (P:102-277)
1e: PFAM_Cytochrom_B_N_2_2qjkP05 (P:102-277)
1f: PFAM_Cytochrom_B_N_2_2qjkP06 (P:102-277)
2a: PFAM_Cytochrom_C1_2qjkQ01 (Q:11-255)
2b: PFAM_Cytochrom_C1_2qjkQ02 (Q:11-255)
2c: PFAM_Cytochrom_C1_2qjkQ03 (Q:11-255)
2d: PFAM_Cytochrom_C1_2qjkQ04 (Q:11-255)
2e: PFAM_Cytochrom_C1_2qjkQ05 (Q:11-255)
2f: PFAM_Cytochrom_C1_2qjkQ06 (Q:11-255)
3a: PFAM_Rieske_2qjkR01 (R:95-180)
3b: PFAM_Rieske_2qjkR02 (R:95-180)
3c: PFAM_Rieske_2qjkR03 (R:95-180)
3d: PFAM_Rieske_2qjkR04 (R:95-180)
3e: PFAM_Rieske_2qjkR05 (R:95-180)
3f: PFAM_Rieske_2qjkR06 (R:95-180)
4a: PFAM_UCR_Fe_S_N_2qjkR07 (R:9-41)
4b: PFAM_UCR_Fe_S_N_2qjkR08 (R:9-41)
4c: PFAM_UCR_Fe_S_N_2qjkR09 (R:9-41)
4d: PFAM_UCR_Fe_S_N_2qjkR10 (R:9-41)
4e: PFAM_UCR_Fe_S_N_2qjkR11 (R:9-41)
4f: PFAM_UCR_Fe_S_N_2qjkR12 (R:9-41)
5a: PFAM_Cytochrom_B_C_2qjkP07 (P:282-416)
5b: PFAM_Cytochrom_B_C_2qjkP08 (P:282-416)
5c: PFAM_Cytochrom_B_C_2qjkP09 (P:282-416)
5d: PFAM_Cytochrom_B_C_2qjkP10 (P:282-416)
5e: PFAM_Cytochrom_B_C_2qjkP11 (P:282-416)
5f: PFAM_Cytochrom_B_C_2qjkP12 (P:282-416)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
2heme_cytochrom
(31)
Family
:
Cytochrom_B_N_2
(27)
Rhodobacter sphaeroides (Rhodopseudomonas sphaeroides)
(3)
1a
Cytochrom_B_N_2-2qjkP01
P:102-277
1b
Cytochrom_B_N_2-2qjkP02
P:102-277
1c
Cytochrom_B_N_2-2qjkP03
P:102-277
1d
Cytochrom_B_N_2-2qjkP04
P:102-277
1e
Cytochrom_B_N_2-2qjkP05
P:102-277
1f
Cytochrom_B_N_2-2qjkP06
P:102-277
Clan
:
Cytochrome-c
(108)
Family
:
Cytochrom_C1
(24)
Rhodobacter sphaeroides (Rhodopseudomonas sphaeroides)
(3)
2a
Cytochrom_C1-2qjkQ01
Q:11-255
2b
Cytochrom_C1-2qjkQ02
Q:11-255
2c
Cytochrom_C1-2qjkQ03
Q:11-255
2d
Cytochrom_C1-2qjkQ04
Q:11-255
2e
Cytochrom_C1-2qjkQ05
Q:11-255
2f
Cytochrom_C1-2qjkQ06
Q:11-255
Clan
:
ISP-domain
(54)
Family
:
Rieske
(53)
Rhodobacter sphaeroides (Rhodopseudomonas sphaeroides)
(8)
3a
Rieske-2qjkR01
R:95-180
3b
Rieske-2qjkR02
R:95-180
3c
Rieske-2qjkR03
R:95-180
3d
Rieske-2qjkR04
R:95-180
3e
Rieske-2qjkR05
R:95-180
3f
Rieske-2qjkR06
R:95-180
Clan
:
TAT
(4)
Family
:
UCR_Fe-S_N
(4)
Rhodobacter sphaeroides (Rhodopseudomonas sphaeroides)
(3)
4a
UCR_Fe-S_N-2qjkR07
R:9-41
4b
UCR_Fe-S_N-2qjkR08
R:9-41
4c
UCR_Fe-S_N-2qjkR09
R:9-41
4d
UCR_Fe-S_N-2qjkR10
R:9-41
4e
UCR_Fe-S_N-2qjkR11
R:9-41
4f
UCR_Fe-S_N-2qjkR12
R:9-41
Clan
:
no clan defined [family: Cytochrom_B_C]
(27)
Family
:
Cytochrom_B_C
(27)
Rhodobacter sphaeroides (Rhodopseudomonas sphaeroides)
(3)
5a
Cytochrom_B_C-2qjkP07
P:282-416
5b
Cytochrom_B_C-2qjkP08
P:282-416
5c
Cytochrom_B_C-2qjkP09
P:282-416
5d
Cytochrom_B_C-2qjkP10
P:282-416
5e
Cytochrom_B_C-2qjkP11
P:282-416
5f
Cytochrom_B_C-2qjkP12
P:282-416
[
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 M
Chain N
Chain O
Chain P
Chain Q
Chain R
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 (876 KB)
Header - Asym.Unit
Biol.Unit 1 (293 KB)
Header - Biol.Unit 1
Biol.Unit 2 (294 KB)
Header - Biol.Unit 2
Biol.Unit 3 (294 KB)
Header - Biol.Unit 3
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
2QJK
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help