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.
PLEASE WAIT...
Getting 'Exon' information from database.
3AG2
Asym. Unit
Info
Asym.Unit (684 KB)
Biol.Unit 1 (339 KB)
Biol.Unit 2 (332 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
BOVINE HEART CYTOCHROME C OXIDASE IN THE CARBON MONOXIDE-BOUND FULLY REDUCED STATE AT 100 K
Authors
:
K. Muramoto, K. Ohta, K. Shinzawa-Itoh, K. Kanda, M. Taniguchi, H. Nabe E. Yamashita, T. Tsukihara, S. Yoshikawa
Date
:
19 Mar 10 (Deposition) - 28 Apr 10 (Release) - 19 May 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
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,Y,Z
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M (1x)
Biol. Unit 2: N,O,P,Q,R,S,T,U,V,W,X,Y,Z (1x)
Keywords
:
Oxidoreductase, Copper, Electron Transport, Formylation, Heme, Iron, Membrane, Mitochondrion, Mitochondrion Inner Membrane, Respiratory Chain, Transmembrane, Transport, Acetylation, Transit Peptide, Zinc, Isopeptide Bond, Ubl Conjugation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Muramoto, K. Ohta, K. Shinzawa-Itoh, K. Kanda, M. Taniguchi, H. Nabekura, E. Yamashita, T. Tsukihara, S. Yoshikawa
Bovine Cytochrome C Oxidase Structures Enable O2 Reduction With Minimization Of Reactive Oxygens And Provide A Proton-Pumping Gate
Proc. Natl. Acad. Sci. Usa V. 107 7740 2010
[
close entry info
]
Hetero Components
(18, 64)
Info
All Hetero Components
01a: CARDIOLIPIN (CDLa)
01b: CARDIOLIPIN (CDLb)
01c: CARDIOLIPIN (CDLc)
01d: CARDIOLIPIN (CDLd)
02a: CHOLIC ACID (CHDa)
02b: CHOLIC ACID (CHDb)
02c: CHOLIC ACID (CHDc)
02d: CHOLIC ACID (CHDd)
02e: CHOLIC ACID (CHDe)
02f: CHOLIC ACID (CHDf)
02g: CHOLIC ACID (CHDg)
02h: CHOLIC ACID (CHDh)
03a: CARBON MONOXIDE (CMOa)
03b: CARBON MONOXIDE (CMOb)
05a: DINUCLEAR COPPER ION (CUAa)
05b: DINUCLEAR COPPER ION (CUAb)
04a: COPPER (II) ION (CUa)
05b: COPPER (II) ION (CUb)
06a: DECYL-BETA-D-MALTOPYRANOSIDE (DMUa)
06b: DECYL-BETA-D-MALTOPYRANOSIDE (DMUb)
06c: DECYL-BETA-D-MALTOPYRANOSIDE (DMUc)
06d: DECYL-BETA-D-MALTOPYRANOSIDE (DMUd)
07a: N-FORMYLMETHIONINE (FMEa)
07b: N-FORMYLMETHIONINE (FMEb)
07c: N-FORMYLMETHIONINE (FMEc)
07d: N-FORMYLMETHIONINE (FMEd)
08a: HEME-A (HEAa)
08b: HEME-A (HEAb)
08c: HEME-A (HEAc)
08d: HEME-A (HEAd)
09a: MAGNESIUM ION (MGa)
09b: MAGNESIUM ION (MGb)
10a: SODIUM ION (NAa)
10b: SODIUM ION (NAb)
11a: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKa)
11b: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKb)
11c: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKc)
11d: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKd)
11e: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKe)
11f: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKf)
12a: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVa)
12b: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVb)
12c: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVc)
12d: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVd)
12e: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVe)
12f: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVf)
12g: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVg)
12h: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVh)
13a: (7R,17E,20E)-4-HYDROXY-N,N,N-TRIME... (PSCa)
13b: (7R,17E,20E)-4-HYDROXY-N,N,N-TRIME... (PSCb)
14a: N-ACETYL-SERINE (SACa)
14b: N-ACETYL-SERINE (SACb)
15a: TRISTEAROYLGLYCEROL (TGLa)
15b: TRISTEAROYLGLYCEROL (TGLb)
15c: TRISTEAROYLGLYCEROL (TGLc)
15d: TRISTEAROYLGLYCEROL (TGLd)
15e: TRISTEAROYLGLYCEROL (TGLe)
15f: TRISTEAROYLGLYCEROL (TGLf)
16a: PHOSPHOTHREONINE (TPOa)
16b: PHOSPHOTHREONINE (TPOb)
17a: UNKNOWN ATOM OR ION (UNXa)
17b: UNKNOWN ATOM OR ION (UNXb)
18a: ZINC ION (ZNa)
18b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CDL
4
Ligand/Ion
CARDIOLIPIN
2
CHD
8
Ligand/Ion
CHOLIC ACID
3
CMO
2
Ligand/Ion
CARBON MONOXIDE
4
CU
2
Ligand/Ion
COPPER (II) ION
5
CUA
2
Ligand/Ion
DINUCLEAR COPPER ION
6
DMU
4
Ligand/Ion
DECYL-BETA-D-MALTOPYRANOSIDE
7
FME
4
Mod. Amino Acid
N-FORMYLMETHIONINE
8
HEA
4
Ligand/Ion
HEME-A
9
MG
2
Ligand/Ion
MAGNESIUM ION
10
NA
2
Ligand/Ion
SODIUM ION
11
PEK
6
Ligand/Ion
(1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE
12
PGV
8
Ligand/Ion
(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE
13
PSC
2
Ligand/Ion
(7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE
14
SAC
2
Mod. Amino Acid
N-ACETYL-SERINE
15
TGL
6
Ligand/Ion
TRISTEAROYLGLYCEROL
16
TPO
2
Mod. Amino Acid
PHOSPHOTHREONINE
17
UNX
2
Ligand/Ion
UNKNOWN ATOM OR ION
18
ZN
2
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(54, 54)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:27 , THR A:31 , SER A:34 , ILE A:37 , ARG A:38 , TYR A:54 , VAL A:58 , HIS A:61 , ALA A:62 , MET A:65 , VAL A:70 , ILE A:73 , GLY A:125 , TRP A:126 , TYR A:371 , PHE A:377 , HIS A:378 , SER A:382 , VAL A:386 , MET A:417 , PHE A:425 , GLN A:428 , ARG A:438 , ARG A:439 , TYR A:440 , VAL A:465 , MET A:468 , HOH A:2045 , HOH A:2283 , HOH A:2378 , HOH A:2700
BINDING SITE FOR RESIDUE HEA A 515
02
AC2
SOFTWARE
TRP A:126 , TRP A:236 , VAL A:243 , TYR A:244 , ILE A:247 , HIS A:290 , THR A:309 , ILE A:312 , THR A:316 , GLY A:317 , GLY A:352 , GLY A:355 , ILE A:356 , LEU A:358 , ALA A:359 , ASP A:364 , HIS A:368 , VAL A:373 , HIS A:376 , PHE A:377 , VAL A:380 , LEU A:381 , ARG A:438 , CMO A:520 , HOH A:2081 , HOH A:2183 , HOH A:2272 , HOH A:2341 , ILE B:34 , ILE B:72
BINDING SITE FOR RESIDUE HEA A 516
03
AC3
SOFTWARE
HIS A:240 , HIS A:290 , HIS A:291 , CMO A:520
BINDING SITE FOR RESIDUE CU A 517
04
AC4
SOFTWARE
HIS A:240 , VAL A:243 , HIS A:291 , HEA A:516 , CU A:517
BINDING SITE FOR RESIDUE CMO A 520
05
AC5
SOFTWARE
HIS A:368 , ASP A:369 , GLU B:198 , HOH B:2266 , HOH B:2267 , HOH B:2268
BINDING SITE FOR RESIDUE MG A 518
06
AC6
SOFTWARE
GLU A:40 , GLY A:45 , SER A:441 , HOH A:2258
BINDING SITE FOR RESIDUE NA A 519
07
AC7
SOFTWARE
TRP A:334 , GLY A:343 , PHE A:414 , ILE B:42 , THR B:47 , LYS B:49 , HOH B:2562 , ARG D:73 , TRP D:78 , HOH D:4320 , ARG I:16
BINDING SITE FOR RESIDUE TGL A 523
08
AC8
SOFTWARE
ASN A:406 , THR A:408 , TRP A:409 , HOH A:4457 , PHE D:87 , PHE K:9 , HIS K:10 , GLN M:15 , ALA M:16 , LEU M:19 , SER M:20 , HOH M:2126
BINDING SITE FOR RESIDUE PGV A 524
09
AC9
SOFTWARE
HIS A:233 , ASP A:300 , THR A:301 , TYR A:304 , HOH A:2155 , HOH A:4377 , HOH A:4678 , HOH A:4725 , TRP C:99 , HIS C:103 , CDL T:1269
BINDING SITE FOR RESIDUE CHD A 525
10
BC1
SOFTWARE
PHE A:94 , PRO A:95 , ARG A:96 , MET A:97 , HOH A:2289 , HIS C:9 , ASN C:50 , TRP C:57 , TRP C:58 , GLU C:64 , HIS C:71 , LEU C:79 , GLY C:82 , HOH C:2085 , HOH C:4771
BINDING SITE FOR RESIDUE PGV A 521
11
BC2
SOFTWARE
HIS B:161 , CYS B:196 , GLU B:198 , CYS B:200 , HIS B:204 , MET B:207
BINDING SITE FOR RESIDUE CUA B 228
12
BC3
SOFTWARE
PHE A:426 , HIS A:429 , PHE A:430 , LEU A:433 , LEU B:7 , LEU B:28 , VAL B:31 , SER B:35 , SER B:36 , HOH B:4415 , HOH B:4490
BINDING SITE FOR RESIDUE TGL B 521
13
BC4
SOFTWARE
PHE A:321 , HOH A:4282 , ILE B:41 , HIS B:52 , MET B:56 , ASP B:57 , VAL B:61 , TRP B:65 , HOH B:4287 , HIS E:5 , ASP E:8 , PHE E:11 , LEU E:41 , HOH E:2042 , HOH E:2664 , ARG I:10 , ALA I:14
BINDING SITE FOR RESIDUE PSC B 229
14
BC5
SOFTWARE
MET A:271 , GLN B:59 , GLU B:62 , THR B:63 , THR B:66 , HOH B:2605 , HOH B:4627 , PEK P:1265 , ARG T:14 , ARG T:17 , GLY T:22 , HOH T:3446
BINDING SITE FOR RESIDUE CHD B 1085
15
BC6
SOFTWARE
TYR C:181 , TYR C:182 , ALA C:184 , PHE C:186 , THR C:187 , ILE C:188 , PHE C:198 , GLY C:202 , DMU C:272 , TRP G:62 , THR G:68 , PHE G:69 , PHE G:70 , HIS G:71 , ASN G:76 , HOH G:2350
BINDING SITE FOR RESIDUE PEK C 264
16
BC7
SOFTWARE
TRP C:58 , VAL C:61 , SER C:65 , THR C:66 , PHE C:86 , HIS C:207 , PHE C:214 , ARG C:221 , HIS C:226 , PHE C:227 , HIS C:231 , HIS C:232 , PHE C:233 , GLY C:234 , CDL C:270 , HOH C:2065 , HOH C:2253 , HOH C:2559
BINDING SITE FOR RESIDUE PGV C 267
17
BC8
SOFTWARE
THR C:95 , TRP C:99 , TYR C:102 , HIS C:103 , ALA C:107 , HOH C:4313 , HOH C:4412
BINDING SITE FOR RESIDUE PGV C 268
18
BC9
SOFTWARE
MET C:51 , TYR C:55 , TRP C:58 , ARG C:59 , ARG C:63 , PHE C:67 , THR C:213 , ARG C:221 , LYS C:224 , HIS C:226 , PGV C:267 , HOH C:2144 , HOH C:4277 , LYS J:8
BINDING SITE FOR RESIDUE CDL C 270
19
CC1
SOFTWARE
ARG C:156 , LEU C:160 , GLN C:161 , PHE C:164 , LEU C:223 , PHE J:1
BINDING SITE FOR RESIDUE CHD C 271
20
CC2
SOFTWARE
TRP C:34 , MET C:40 , PEK C:264 , HOH C:4491 , TRP G:62 , GLY G:63
BINDING SITE FOR RESIDUE DMU C 272
21
CC3
SOFTWARE
CYS F:60 , CYS F:62 , CYS F:82 , CYS F:85
BINDING SITE FOR RESIDUE ZN F 99
22
CC4
SOFTWARE
LYS C:157 , HIS C:158 , TYR C:172 , ALA F:1 , ARG G:17 , PHE G:21 , CHD G:86 , CDL G:269 , HOH G:4800 , TRP N:275 , SER N:279 , GLN O:59 , THR O:66
BINDING SITE FOR RESIDUE PEK G 265
23
CC5
SOFTWARE
LEU C:127 , LEU C:131 , SER G:27 , LEU G:30 , CYS G:31 , ASN G:34 , LEU G:37 , HIS G:38 , ARG G:42 , PEK G:265 , HOH G:4837 , PHE N:282 , ASP N:300 , SER N:307 , ILE N:311 , ALA O:77 , LEU O:78 , LEU O:81 , TYR O:85
BINDING SITE FOR RESIDUE CDL G 269
24
CC6
SOFTWARE
ARG G:14 , ARG G:17 , PHE G:21 , GLY G:22 , PEK G:265 , HOH G:2446 , HOH G:3605 , HOH G:4765 , MET N:271 , GLU O:62 , THR O:63 , HOH O:4348
BINDING SITE FOR RESIDUE CHD G 86
25
CC7
SOFTWARE
SER G:2 , ALA G:3 , LYS G:5 , GLY G:6 , HIS G:8 , HOH G:4721 , LYS P:77 , ARG P:80 , ILE P:84 , PHE P:98 , TRP P:240 , VAL P:247
BINDING SITE FOR RESIDUE PEK G 1263
26
CC8
SOFTWARE
ALA G:1 , HOH G:4261 , HOH G:4264 , ASP N:298 , TRP P:99 , HIS P:103 , CHD P:1525 , ASN U:22
BINDING SITE FOR RESIDUE PGV G 1268
27
CC9
SOFTWARE
TYR J:32 , ARG J:33 , MET J:36 , THR J:37 , LEU J:40
BINDING SITE FOR RESIDUE CHD J 60
28
DC1
SOFTWARE
THR A:17 , LEU A:18 , LEU A:21 , TRP A:25 , LEU A:113 , PHE A:400 , ILE L:11 , PRO L:12 , PHE L:13 , SER L:14 , ARG L:20 , PHE L:29 , SER L:31
BINDING SITE FOR RESIDUE TGL L 522
29
DC2
SOFTWARE
TRP D:98 , LEU M:27 , LEU M:28 , TRP M:32 , TYR M:35 , HIS M:36 , HOH M:4885
BINDING SITE FOR RESIDUE DMU M 526
30
DC3
SOFTWARE
THR N:31 , SER N:34 , ILE N:37 , ARG N:38 , TYR N:54 , VAL N:58 , HIS N:61 , ALA N:62 , MET N:65 , ILE N:66 , VAL N:70 , GLY N:125 , TRP N:126 , TYR N:371 , PHE N:377 , HIS N:378 , SER N:382 , VAL N:386 , PHE N:425 , GLN N:428 , ARG N:438 , ARG N:439 , VAL N:465 , HOH N:3045 , HOH N:3283 , HOH N:3700
BINDING SITE FOR RESIDUE HEA N 515
31
DC4
SOFTWARE
TRP N:126 , TRP N:236 , VAL N:243 , TYR N:244 , HIS N:290 , HIS N:291 , THR N:309 , ILE N:312 , THR N:316 , GLY N:317 , GLY N:352 , LEU N:353 , GLY N:355 , ILE N:356 , LEU N:358 , ALA N:359 , ASP N:364 , HIS N:368 , VAL N:373 , HIS N:376 , PHE N:377 , VAL N:380 , LEU N:381 , ARG N:438 , CMO N:520 , HOH N:3081 , HOH N:3183 , HOH N:3272 , HOH N:3341 , ILE O:34 , ILE O:72
BINDING SITE FOR RESIDUE HEA N 516
32
DC5
SOFTWARE
HIS N:240 , HIS N:290 , HIS N:291 , CMO N:520
BINDING SITE FOR RESIDUE CU N 517
33
DC6
SOFTWARE
HIS N:240 , VAL N:243 , HIS N:291 , HEA N:516 , CU N:517
BINDING SITE FOR RESIDUE CMO N 520
34
DC7
SOFTWARE
HIS N:368 , ASP N:369 , GLU O:198 , HOH O:3266 , HOH O:3267 , HOH O:3268
BINDING SITE FOR RESIDUE MG N 518
35
DC8
SOFTWARE
GLU N:40 , GLY N:45 , SER N:441 , HOH N:3258
BINDING SITE FOR RESIDUE NA N 519
36
DC9
SOFTWARE
THR N:17 , LEU N:18 , LEU N:20 , LEU N:21 , PHE N:22 , TRP N:25 , TRP N:81 , LEU N:113 , PHE N:400 , ILE N:472 , ILE Y:11 , PRO Y:12 , PHE Y:13 , SER Y:14 , ARG Y:20 , MET Y:24 , PHE Y:28 , PHE Y:29
BINDING SITE FOR RESIDUE TGL N 1522
37
EC1
SOFTWARE
TRP N:334 , PHE N:414 , ILE O:42 , LYS O:49 , ARG Q:73 , SER Q:74 , GLU Q:77 , TRP Q:78 , VAL Q:81 , HOH V:4759
BINDING SITE FOR RESIDUE TGL N 1523
38
EC2
SOFTWARE
ASN N:406 , THR N:408 , TRP N:409 , HOH N:3126 , HOH N:4276 , PRO Z:12 , GLN Z:15 , LEU Z:19 , SER Z:20
BINDING SITE FOR RESIDUE PGV N 1524
39
EC3
SOFTWARE
PHE N:94 , PRO N:95 , ARG N:96 , MET N:97 , MET N:100 , HOH N:3085 , HOH N:3289 , HIS P:9 , ASN P:50 , TRP P:57 , TRP P:58 , GLU P:64 , HIS P:71 , LEU P:79 , GLY P:82 , SER P:89 , GLU P:90 , HOH P:4757
BINDING SITE FOR RESIDUE PGV N 1266
40
EC4
SOFTWARE
HIS O:161 , CYS O:196 , GLU O:198 , CYS O:200 , HIS O:204 , MET O:207
BINDING SITE FOR RESIDUE CUA O 228
41
EC5
SOFTWARE
PHE N:346 , ASN N:422 , PHE N:426 , PHE N:430 , LEU N:433 , LEU O:7 , LEU O:28 , VAL O:31 , PHE O:32 , SER O:35 , SER O:36 , HOH O:4402
BINDING SITE FOR RESIDUE TGL O 1521
42
EC6
SOFTWARE
PGV G:1268 , HIS N:233 , ASP N:300 , THR N:301 , TYR N:304 , TRP P:99 , HIS P:103 , HOH P:4363 , HOH P:4785
BINDING SITE FOR RESIDUE CHD P 1525
43
EC7
SOFTWARE
HIS N:151 , VAL N:155 , TYR P:181 , TYR P:182 , ALA P:184 , PHE P:186 , THR P:187 , ILE P:188 , PHE P:198 , GLY P:202 , DMU P:1272 , TRP T:62 , THR T:68 , PHE T:69 , PHE T:70 , HIS T:71 , ASN T:76 , HOH T:3350
BINDING SITE FOR RESIDUE PEK P 1264
44
EC8
SOFTWARE
CHD B:1085 , HOH B:4311 , LYS P:157 , HIS P:158 , GLN P:161 , TYR P:172 , ALA S:1 , ARG T:17 , CDL T:1269
BINDING SITE FOR RESIDUE PEK P 1265
45
EC9
SOFTWARE
MET P:54 , TRP P:58 , VAL P:61 , SER P:65 , THR P:66 , HIS P:207 , ILE P:210 , PHE P:214 , ARG P:221 , HIS P:226 , PHE P:227 , HIS P:231 , HIS P:232 , PHE P:233 , GLY P:234 , CDL P:1270 , HOH P:3065 , HOH P:3253 , HOH P:3559
BINDING SITE FOR RESIDUE PGV P 1267
46
FC1
SOFTWARE
MET P:51 , TYR P:55 , TRP P:58 , ARG P:59 , ILE P:62 , ARG P:63 , PHE P:67 , THR P:213 , PHE P:220 , LYS P:224 , HIS P:226 , PGV P:1267 , HOH P:4619 , LYS W:8
BINDING SITE FOR RESIDUE CDL P 1270
47
FC2
SOFTWARE
ARG P:156 , LEU P:160 , PHE P:164 , PHE P:219 , LEU P:223 , PHE W:1
BINDING SITE FOR RESIDUE CHD P 1271
48
FC3
SOFTWARE
TRP P:34 , MET P:40 , PEK P:1264 , HOH P:4191 , SER T:61 , TRP T:62 , GLY T:63
BINDING SITE FOR RESIDUE DMU P 1272
49
FC4
SOFTWARE
PHE N:321 , ILE O:41 , HIS O:52 , MET O:56 , ASP O:57 , TRP O:65 , HIS R:5 , GLU R:6 , ASP R:8 , PHE R:11 , LEU R:41 , HOH R:3664 , ARG V:10 , ALA V:14
BINDING SITE FOR RESIDUE PSC R 1229
50
FC5
SOFTWARE
CYS S:60 , CYS S:62 , CYS S:82 , CYS S:85
BINDING SITE FOR RESIDUE ZN S 99
51
FC6
SOFTWARE
LYS C:77 , ARG C:80 , TYR C:81 , ILE C:84 , THR C:95 , PHE C:98 , TRP C:240 , SER T:2 , ALA T:3 , LYS T:5 , GLY T:6 , HIS T:8 , HOH T:4509 , HOH T:4860
BINDING SITE FOR RESIDUE PEK T 263
52
FC7
SOFTWARE
PHE A:282 , ASP A:300 , TYR A:304 , SER A:307 , ILE A:311 , CHD A:525 , ILE B:74 , ALA B:77 , LEU B:78 , LEU B:81 , LEU P:127 , LEU P:250 , TYR P:253 , VAL P:254 , PEK P:1265 , LEU T:23 , SER T:27 , LEU T:30 , CYS T:31 , LEU T:33 , ASN T:34 , LEU T:37 , HIS T:38 , HOH T:4372 , HOH T:4750
BINDING SITE FOR RESIDUE CDL T 1269
53
FC8
SOFTWARE
ILE N:3 , PHE N:8 , TYR W:32 , ARG W:33 , MET W:36 , THR W:37 , HOH W:4587
BINDING SITE FOR RESIDUE CHD W 1059
54
FC9
SOFTWARE
TRP Q:98 , LEU Z:27 , LEU Z:28 , GLY Z:31 , TRP Z:32 , LEU Z:34 , TYR Z:35 , HIS Z:36
BINDING SITE FOR RESIDUE DMU Z 1526
[
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
(10, 20)
Info
All PROSITE Patterns/Profiles
01: COX2_TM (B:1-91,O:1-91)
02: COX1 (A:1-514,N:1-514)
03: COX3 (C:4-261,P:4-261)
04: CHCH (H:26-72,U:26-72)
05: COX5B_2 (F:1-98,S:1-98)
06: COX6A (G:55-72,T:55-72)
07: COX2_CUA (B:92-225,O:92-225)
08: COX5B_1 (F:69-91,S:69-91)
09: COX2 (B:159-207,O:159-207)
10: COX1_CUB (A:236-291,N:236-291)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
COX2_TM
PS50999
Cytochrome oxidase subunit II transmembrane region profile.
COX2_BOVIN
1-91
2
B:1-91
O:1-91
2
COX1
PS50855
Cytochrome oxidase subunit I profile.
COX1_BOVIN
1-514
2
A:1-514
N:1-514
3
COX3
PS50253
Heme-copper oxidase subunit III family profile.
COX3_BOVIN
4-261
2
C:4-261
P:4-261
4
CHCH
PS51808
Coiled coil-helix-coiled coil-helix (CHCH) domain profile.
CX6B1_BOVIN
27-73
2
H:26-72
U:26-72
5
COX5B_2
PS51359
Cytochrome c oxidase subunit Vb, zinc binding domain profile.
COX5B_BOVIN
32-129
2
F:1-98
S:1-98
6
COX6A
PS01329
Cytochrome c oxidase subunit VIa signature.
CX6A2_BOVIN
67-84
2
G:55-72
T:55-72
7
COX2_CUA
PS50857
Cytochrome oxidase subunit II copper A binding domain profile.
COX2_BOVIN
92-225
2
B:92-225
O:92-225
8
COX5B_1
PS00848
Cytochrome c oxidase subunit Vb, zinc binding region signature.
COX5B_BOVIN
100-122
2
F:69-91
S:69-91
9
COX2
PS00078
CO II and nitrous oxide reductase dinuclear copper centers signature.
COX2_BOVIN
159-207
2
B:159-207
O:159-207
10
COX1_CUB
PS00077
Heme-copper oxidase catalytic subunit, copper B binding region signature.
COX1_BOVIN
236-291
2
A:236-291
N:236-291
[
close PROSITE info
]
Exons
(11, 22)
Info
All Exons
Exon 1.2 (I:1-36 | V:1-36)
Exon 1.3 (I:37-73 | V:37-73)
Exon 2.2 (J:1-13 | W:1-13)
Exon 2.3 (J:14-42 | W:14-42)
Exon 2.4 (J:42-58 | W:42-58)
Exon 3.2 (E:5-32 | R:5-32)
Exon 3.3 (E:32-72 | R:32-72)
Exon 3.4 (E:73-109 | R:73-109)
Exon 4.1 (G:1-13 | T:1-13)
Exon 4.2 (G:13-58 | T:13-58)
Exon 4.3 (G:59-84 | T:59-84)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.1/1.2
02: Boundary 1.2/1.3
03: Boundary 1.3/1.4
04: Boundary 2.1/2.2
05: Boundary 2.2/2.3
06: Boundary 2.3/2.4
07: Boundary 2.4/-
08: Boundary 3.1/3.2
09: Boundary 3.2/3.3
10: Boundary 3.3/3.4
11: Boundary 3.4/3.5
12: Boundary -/4.1
13: Boundary 4.1/4.2
14: Boundary 4.2/4.3
15: Boundary 4.3/-
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
ENSBTAT00000018778
1
ENSBTAE00000392730
chr14:
62538824-62538908
85
COX6C_BOVIN
-
0
0
-
-
1.2
ENSBTAT00000018778
2
ENSBTAE00000152930
chr14:
62539837-62539968
132
COX6C_BOVIN
1-37
37
2
I:1-36
V:1-36
36
36
1.3
ENSBTAT00000018778
3
ENSBTAE00000152932
chr14:
62540912-62541039
128
COX6C_BOVIN
38-74
37
2
I:37-73
V:37-73
37
37
1.4
ENSBTAT00000018778
4
ENSBTAE00000382779
chr14:
62548625-62548744
120
COX6C_BOVIN
-
0
0
-
-
2.1
ENSBTAT00000019808
1
ENSBTAE00000161251
chr18:
46232862-46232802
61
CX7A1_BOVIN
1-5
5
0
-
-
2.2
ENSBTAT00000019808
2
ENSBTAE00000161252
chr18:
46232104-46232018
87
CX7A1_BOVIN
6-34
29
2
J:1-13
W:1-13
13
13
2.3
ENSBTAT00000019808
3
ENSBTAE00000161253
chr18:
46231883-46231799
85
CX7A1_BOVIN
35-63
29
2
J:14-42
W:14-42
29
29
2.4
ENSBTAT00000019808
4
ENSBTAE00000161254
chr18:
46231418-46231281
138
CX7A1_BOVIN
63-80
18
2
J:42-58
W:42-58
17
17
3.1
ENSBTAT00000022949
1
ENSBTAE00000344359
chr21:
33835267-33835426
160
COX5A_BOVIN
1-36
36
0
-
-
3.2
ENSBTAT00000022949
2
ENSBTAE00000187373
chr21:
33840320-33840436
117
COX5A_BOVIN
36-75
40
2
E:5-32
R:5-32
28
28
3.3
ENSBTAT00000022949
3
ENSBTAE00000187374
chr21:
33842603-33842724
122
COX5A_BOVIN
75-115
41
2
E:32-72
R:32-72
41
41
3.4
ENSBTAT00000022949
4
ENSBTAE00000187376
chr21:
33843979-33844143
165
COX5A_BOVIN
116-152
37
2
E:73-109
R:73-109
37
37
3.5
ENSBTAT00000022949
5
ENSBTAE00000187379
chr21:
33846054-33846214
161
COX5A_BOVIN
-
0
0
-
-
4.1
ENSBTAT00000026002
1
ENSBTAE00000425992
chr25:
29305227-29305113
115
CX6A2_BOVIN
1-25
25
2
G:1-13
T:1-13
13
13
4.2
ENSBTAT00000026002
2
ENSBTAE00000211646
chr25:
29304966-29304830
137
CX6A2_BOVIN
25-70
46
2
G:13-58
T:13-58
46
46
4.3
ENSBTAT00000026002
3
ENSBTAE00000211652
chr25:
29304732-29304604
129
CX6A2_BOVIN
71-97
27
2
G:59-84
T:59-84
26
26
[
close EXON info
]
SCOP Domains
(14, 28)
Info
All SCOP Domains
01a: SCOP_d3ag2e_ (E:)
01b: SCOP_d3ag2r_ (R:)
02a: SCOP_d3ag2h_ (H:)
02b: SCOP_d3ag2u_ (U:)
03a: SCOP_d3ag2b2 (B:91-227)
03b: SCOP_d3ag2o2 (O:91-227)
04a: SCOP_d3ag2a_ (A:)
04b: SCOP_d3ag2n_ (N:)
05a: SCOP_d3ag2c_ (C:)
05b: SCOP_d3ag2p_ (P:)
06a: SCOP_d3ag2d_ (D:)
06b: SCOP_d3ag2q_ (Q:)
07a: SCOP_d3ag2g_ (G:)
07b: SCOP_d3ag2t_ (T:)
08a: SCOP_d3ag2i_ (I:)
08b: SCOP_d3ag2v_ (V:)
09a: SCOP_d3ag2j_ (J:)
09b: SCOP_d3ag2w_ (W:)
10a: SCOP_d3ag2k_ (K:)
10b: SCOP_d3ag2x_ (X:)
11a: SCOP_d3ag2l_ (L:)
11b: SCOP_d3ag2y_ (Y:)
12a: SCOP_d3ag2m_ (M:)
12b: SCOP_d3ag2z_ (Z:)
13a: SCOP_d3ag2b1 (B:1-90)
13b: SCOP_d3ag2o1 (O:1-90)
14a: SCOP_d3ag2f_ (F:)
14b: SCOP_d3ag2s_ (S:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
alpha-alpha superhelix
(690)
Superfamily
:
Cytochrome c oxidase subunit E
(25)
Family
:
Cytochrome c oxidase subunit E
(25)
Protein domain
:
Cytochrome c oxidase subunit E
(24)
Cow (Bos taurus) [TaxId: 9913]
(24)
01a
d3ag2e_
E:
01b
d3ag2r_
R:
Fold
:
Cytochrome c oxidase subunit h
(26)
Superfamily
:
Cytochrome c oxidase subunit h
(26)
Family
:
Cytochrome c oxidase subunit h
(26)
Protein domain
:
automated matches
(18)
Cow (Bos taurus) [TaxId: 9913]
(18)
02a
d3ag2h_
H:
02b
d3ag2u_
U:
Class
:
All beta proteins
(24004)
Fold
:
Cupredoxin-like
(545)
Superfamily
:
Cupredoxins
(543)
Family
:
Periplasmic domain of cytochrome c oxidase subunit II
(70)
Protein domain
:
Cytochrome c oxidase
(62)
Cow (Bos taurus) [TaxId: 9913]
(24)
03a
d3ag2b2
B:91-227
03b
d3ag2o2
O:91-227
Class
:
Membrane and cell surface proteins and peptides
(2046)
Fold
:
Cytochrome c oxidase subunit I-like
(65)
Superfamily
:
Cytochrome c oxidase subunit I-like
(65)
Family
:
Cytochrome c oxidase subunit I-like
(65)
Protein domain
:
automated matches
(24)
Cow (Bos taurus) [TaxId: 9913]
(18)
04a
d3ag2a_
A:
04b
d3ag2n_
N:
Fold
:
Cytochrome c oxidase subunit III-like
(29)
Superfamily
:
Cytochrome c oxidase subunit III-like
(29)
Family
:
Cytochrome c oxidase subunit III-like
(29)
Protein domain
:
Mitochondrial cytochrome c oxidase, subunit III
(25)
Cow (Bos taurus) [TaxId: 9913]
(25)
05a
d3ag2c_
C:
05b
d3ag2p_
P:
Fold
:
Single transmembrane helix
(568)
Superfamily
:
Mitochondrial cytochrome c oxidase subunit IV
(26)
Family
:
Mitochondrial cytochrome c oxidase subunit IV
(26)
Protein domain
:
automated matches
(18)
Cow (Bos taurus) [TaxId: 9913]
(18)
06a
d3ag2d_
D:
06b
d3ag2q_
Q:
Superfamily
:
Mitochondrial cytochrome c oxidase subunit VIa
(25)
Family
:
Mitochondrial cytochrome c oxidase subunit VIa
(25)
Protein domain
:
Mitochondrial cytochrome c oxidase subunit VIa
(24)
Cow (Bos taurus) [TaxId: 9913]
(24)
07a
d3ag2g_
G:
07b
d3ag2t_
T:
Superfamily
:
Mitochondrial cytochrome c oxidase subunit VIc
(25)
Family
:
Mitochondrial cytochrome c oxidase subunit VIc
(25)
Protein domain
:
Mitochondrial cytochrome c oxidase subunit VIc
(25)
Cow (Bos taurus) [TaxId: 9913]
(25)
08a
d3ag2i_
I:
08b
d3ag2v_
V:
Superfamily
:
Mitochondrial cytochrome c oxidase subunit VIIa
(25)
Family
:
Mitochondrial cytochrome c oxidase subunit VIIa
(25)
Protein domain
:
Mitochondrial cytochrome c oxidase subunit VIIa
(24)
Cow (Bos taurus) [TaxId: 9913]
(24)
09a
d3ag2j_
J:
09b
d3ag2w_
W:
Superfamily
:
Mitochondrial cytochrome c oxidase subunit VIIb
(26)
Family
:
Mitochondrial cytochrome c oxidase subunit VIIb
(26)
Protein domain
:
automated matches
(18)
Cow (Bos taurus) [TaxId: 9913]
(18)
10a
d3ag2k_
K:
10b
d3ag2x_
X:
Superfamily
:
Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa)
(25)
Family
:
Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa)
(25)
Protein domain
:
Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa)
(24)
Cow (Bos taurus) [TaxId: 9913]
(24)
11a
d3ag2l_
L:
11b
d3ag2y_
Y:
Superfamily
:
Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX)
(26)
Family
:
Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX)
(26)
Protein domain
:
automated matches
(18)
Cow (Bos taurus) [TaxId: 9913]
(18)
12a
d3ag2m_
M:
12b
d3ag2z_
Z:
Fold
:
Transmembrane helix hairpin
(84)
Superfamily
:
Cytochrome c oxidase subunit II-like, transmembrane region
(66)
Family
:
Cytochrome c oxidase subunit II-like, transmembrane region
(57)
Protein domain
:
Mitochondrial cytochrome c oxidase, subunit II
(24)
Cow (Bos taurus) [TaxId: 9913]
(24)
13a
d3ag2b1
B:1-90
13b
d3ag2o1
O:1-90
Class
:
Small proteins
(3458)
Fold
:
Rubredoxin-like
(572)
Superfamily
:
Rubredoxin-like
(127)
Family
:
Cytochrome c oxidase Subunit F
(25)
Protein domain
:
Cytochrome c oxidase Subunit F
(24)
Cow (Bos taurus) [TaxId: 9913]
(24)
14a
d3ag2f_
F:
14b
d3ag2s_
S:
[
close SCOP info
]
CATH Domains
(15, 30)
Info
all CATH domains
01a: CATH_3ag2G00 (G:1-84)
01b: CATH_3ag2T00 (T:1-84)
02a: CATH_3ag2I00 (I:2-73)
02b: CATH_3ag2V00 (V:2-73)
03a: CATH_3ag2J00 (J:1-58)
03b: CATH_3ag2W00 (W:1-58)
04a: CATH_3ag2K00 (K:6-54)
04b: CATH_3ag2X00 (X:6-54)
05a: CATH_3ag2L00 (L:2-47)
05b: CATH_3ag2Y00 (Y:2-47)
06a: CATH_3ag2M00 (M:1-43)
06b: CATH_3ag2Z00 (Z:1-43)
07a: CATH_3ag2E00 (E:5-109)
07b: CATH_3ag2R00 (R:5-109)
08a: CATH_3ag2H00 (H:7-85)
08b: CATH_3ag2U00 (U:7-85)
09a: CATH_3ag2D00 (D:4-147)
09b: CATH_3ag2Q00 (Q:4-147)
10a: CATH_3ag2C01 (C:3-70)
10b: CATH_3ag2P01 (P:3-70)
11a: CATH_3ag2B01 (B:2-91)
11b: CATH_3ag2O01 (O:2-91)
12a: CATH_3ag2A00 (A:2-514)
12b: CATH_3ag2N00 (N:2-514)
13a: CATH_3ag2C02 (C:71-261)
13b: CATH_3ag2P02 (P:71-261)
14a: CATH_3ag2F00 (F:1-98)
14b: CATH_3ag2S00 (S:1-98)
15a: CATH_3ag2B02 (B:92-227)
15b: CATH_3ag2O02 (O:92-227)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Few Secondary Structures
(1120)
Architecture
:
Irregular
(1120)
Topology
:
Cytochrome C Oxidase; Chain G
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain G
(22)
Bovine (Bos taurus)
(7)
01a
3ag2G00
G:1-84
01b
3ag2T00
T:1-84
Topology
:
Cytochrome C Oxidase; Chain I
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain I
(22)
Bovine (Bos taurus)
(7)
02a
3ag2I00
I:2-73
02b
3ag2V00
V:2-73
Topology
:
Cytochrome C Oxidase; Chain J
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain J
(22)
Bovine (Bos taurus)
(7)
03a
3ag2J00
J:1-58
03b
3ag2W00
W:1-58
Topology
:
Cytochrome C Oxidase; Chain K
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain K
(22)
Bovine (Bos taurus)
(7)
04a
3ag2K00
K:6-54
04b
3ag2X00
X:6-54
Topology
:
Cytochrome C Oxidase; Chain L
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain L
(22)
Bovine (Bos taurus)
(7)
05a
3ag2L00
L:2-47
05b
3ag2Y00
Y:2-47
Topology
:
Cytochrome C Oxidase; Chain M
(30)
Homologous Superfamily
:
Cytochrome C Oxidase, chain M
(29)
Bovine (Bos taurus)
(7)
06a
3ag2M00
M:1-43
06b
3ag2Z00
Z:1-43
Class
:
Mainly Alpha
(13335)
Architecture
:
Alpha Horseshoe
(399)
Topology
:
Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
(320)
Homologous Superfamily
:
[code=1.25.40.40, no name defined]
(22)
Bovine (Bos taurus)
(7)
07a
3ag2E00
E:5-109
07b
3ag2R00
R:5-109
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
Cytochrome C oxidase subunit h
(22)
Bovine (Bos taurus)
(7)
08a
3ag2H00
H:7-85
08b
3ag2U00
U:7-85
Topology
:
Cytochrome C Oxidase; Chain D
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain D
(22)
Bovine (Bos taurus)
(7)
09a
3ag2D00
D:4-147
09b
3ag2Q00
Q:4-147
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.70, no name defined]
(106)
Bovine (Bos taurus)
(7)
10a
3ag2C01
C:3-70
10b
3ag2P01
P:3-70
Homologous Superfamily
:
[code=1.10.287.90, no name defined]
(33)
Bovine (Bos taurus)
(7)
11a
3ag2B01
B:2-91
11b
3ag2O01
O:2-91
Architecture
:
Up-down Bundle
(3216)
Topology
:
Cytochrome C Oxidase; Chain A
(41)
Homologous Superfamily
:
Cytochrome C Oxidase, chain A
(41)
Bovine (Bos taurus)
(7)
12a
3ag2A00
A:2-514
12b
3ag2N00
N:2-514
Topology
:
Four Helix Bundle (Hemerythrin (Met), subunit A)
(300)
Homologous Superfamily
:
[code=1.20.120.80, no name defined]
(26)
Bovine (Bos taurus)
(7)
13a
3ag2C02
C:71-261
13b
3ag2P02
P:71-261
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Cytochrome C Oxidase; Chain F
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain F
(22)
Bovine (Bos taurus)
(7)
14a
3ag2F00
F:1-98
14b
3ag2S00
S:1-98
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Cupredoxins - blue copper proteins
(420)
Bovine (Bos taurus)
(7)
15a
3ag2B02
B:92-227
15b
3ag2O02
O:92-227
[
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
Chain U
Chain V
Chain W
Chain X
Chain Y
Chain Z
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 (684 KB)
Header - Asym.Unit
Biol.Unit 1 (339 KB)
Header - Biol.Unit 1
Biol.Unit 2 (332 KB)
Header - Biol.Unit 2
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
3AG2
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
