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.
3ABL
Biol. Unit 2
Info
Asym.Unit (680 KB)
Biol.Unit 1 (335 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 AT THE FULLY OXIDIZED STATE (15-S X-RAY EXPOSURE DATASET)
Authors
:
H. Aoyama, K. Muramoto, K. Shinzawa-Itoh, E. Yamashita, T. Tsukihara, T. Ogura, S. Yoshikawa
Date
:
16 Dec 09 (Deposition) - 19 Jan 10 (Release) - 19 Jan 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
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
:
H. Aoyama, K. Muramoto, K. Shinzawa-Itoh, K. Hirata, E. Yamashita, T. Tsukihara, T. Ogura, S. Yoshikawa
A Peroxide Bridge Between Fe And Cu Ions In The O2 Reduction Site Of Fully Oxidized Cytochrome C Oxidase Could Suppress The Proton Pump
Proc. Natl. Acad. Sci. Usa V. 106 2165 2009
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(13, 27)
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)
04a: DINUCLEAR COPPER ION (CUAa)
04b: DINUCLEAR COPPER ION (CUAb)
03a: COPPER (II) ION (CUa)
04b: COPPER (II) ION (CUb)
05a: DECYL-BETA-D-MALTOPYRANOSIDE (DMUa)
05b: DECYL-BETA-D-MALTOPYRANOSIDE (DMUb)
05c: DECYL-BETA-D-MALTOPYRANOSIDE (DMUc)
05d: DECYL-BETA-D-MALTOPYRANOSIDE (DMUd)
06a: N-FORMYLMETHIONINE (FMEa)
06b: N-FORMYLMETHIONINE (FMEb)
06c: N-FORMYLMETHIONINE (FMEc)
06d: N-FORMYLMETHIONINE (FMEd)
07a: HEME-A (HEAa)
07b: HEME-A (HEAb)
07c: HEME-A (HEAc)
07d: HEME-A (HEAd)
08a: MAGNESIUM ION (MGa)
08b: MAGNESIUM ION (MGb)
09a: SODIUM ION (NAa)
09b: SODIUM ION (NAb)
10a: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKa)
10b: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKb)
10c: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKc)
10d: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKd)
10e: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKe)
10f: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKf)
11a: PEROXIDE ION (PERa)
11b: PEROXIDE ION (PERb)
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: TRISTEAROYLGLYCEROL (TGLa)
14b: TRISTEAROYLGLYCEROL (TGLb)
14c: TRISTEAROYLGLYCEROL (TGLc)
14d: TRISTEAROYLGLYCEROL (TGLd)
14e: TRISTEAROYLGLYCEROL (TGLe)
14f: TRISTEAROYLGLYCEROL (TGLf)
15a: PHOSPHOTHREONINE (TPOa)
15b: PHOSPHOTHREONINE (TPOb)
16a: UNKNOWN ATOM OR ION (UNXa)
16b: UNKNOWN ATOM OR ION (UNXb)
17a: ZINC ION (ZNa)
17b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CDL
2
Ligand/Ion
CARDIOLIPIN
2
CHD
4
Ligand/Ion
CHOLIC ACID
3
CU
-1
Ligand/Ion
COPPER (II) ION
4
CUA
1
Ligand/Ion
DINUCLEAR COPPER ION
5
DMU
2
Ligand/Ion
DECYL-BETA-D-MALTOPYRANOSIDE
6
FME
2
Mod. Amino Acid
N-FORMYLMETHIONINE
7
HEA
2
Ligand/Ion
HEME-A
8
MG
-1
Ligand/Ion
MAGNESIUM ION
9
NA
-1
Ligand/Ion
SODIUM ION
10
PEK
3
Ligand/Ion
(1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE
11
PER
1
Ligand/Ion
PEROXIDE ION
12
PGV
4
Ligand/Ion
(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE
13
PSC
1
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
TGL
3
Ligand/Ion
TRISTEAROYLGLYCEROL
15
TPO
1
Mod. Amino Acid
PHOSPHOTHREONINE
16
UNX
1
Ligand/Ion
UNKNOWN ATOM OR ION
17
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(31, 31)
Info
All Sites
01: BC3 (SOFTWARE)
02: CC4 (SOFTWARE)
03: CC5 (SOFTWARE)
04: CC6 (SOFTWARE)
05: DC1 (SOFTWARE)
06: DC2 (SOFTWARE)
07: DC3 (SOFTWARE)
08: DC4 (SOFTWARE)
09: DC5 (SOFTWARE)
10: DC6 (SOFTWARE)
11: DC7 (SOFTWARE)
12: DC8 (SOFTWARE)
13: DC9 (SOFTWARE)
14: EC1 (SOFTWARE)
15: EC2 (SOFTWARE)
16: EC3 (SOFTWARE)
17: EC4 (SOFTWARE)
18: EC5 (SOFTWARE)
19: EC6 (SOFTWARE)
20: EC7 (SOFTWARE)
21: EC8 (SOFTWARE)
22: EC9 (SOFTWARE)
23: FC1 (SOFTWARE)
24: FC2 (SOFTWARE)
25: FC3 (SOFTWARE)
26: FC4 (SOFTWARE)
27: FC5 (SOFTWARE)
28: FC6 (SOFTWARE)
29: FC7 (SOFTWARE)
30: FC8 (SOFTWARE)
31: FC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
BC3
SOFTWARE
MET A:271 , GLN B:59 , GLU B:62 , THR B:63 , THR B:66 , HOH B:2372 , PEK P:1265 , ARG T:14 , ARG T:17 , PHE T:18 , GLY T:22 , HOH T:3300
BINDING SITE FOR RESIDUE CHD B 1086
02
CC4
SOFTWARE
LYS C:157 , HIS C:158 , ARG G:17 , PHE G:21 , CDL G:269 , SER N:279 , GLN O:59 , CHD O:229
BINDING SITE FOR RESIDUE PEK G 265
03
CC5
SOFTWARE
LEU C:127 , LEU C:131 , SER C:135 , SER G:27 , LEU G:30 , CYS G:31 , ASN G:34 , LEU G:37 , HIS G:38 , PEK G:265 , HOH G:4638 , HOH G:4784 , ASP N:300 , SER N:307 , ILE N:311 , ALA O:77 , LEU O:81 , TYR O:85
BINDING SITE FOR RESIDUE CDL G 269
04
CC6
SOFTWARE
SER G:2 , ALA G:3 , LYS G:5 , GLY G:6 , HIS G:8 , LYS P:77 , ARG P:80 , TYR P:81 , ILE P:84 , LEU P:85 , TRP P:240 , PHE P:244
BINDING SITE FOR RESIDUE PEK G 1263
05
DC1
SOFTWARE
HIS N:240 , HIS N:290 , HIS N:291 , PER N:520
BINDING SITE FOR RESIDUE CU N 517
06
DC2
SOFTWARE
HIS N:240 , VAL N:243 , HIS N:291 , HEA N:516 , CU N:517
BINDING SITE FOR RESIDUE PER N 520
07
DC3
SOFTWARE
HIS N:368 , ASP N:369 , GLU O:198 , HOH O:3031 , HOH O:3032 , HOH O:3033
BINDING SITE FOR RESIDUE MG N 1518
08
DC4
SOFTWARE
GLU N:40 , GLY N:45 , SER N:441 , HOH N:3026
BINDING SITE FOR RESIDUE NA N 1519
09
DC5
SOFTWARE
GLY N:27 , MET N:28 , THR N:31 , 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:393 , PHE N:425 , GLN N:428 , ARG N:438 , ARG N:439 , MET N:468 , HOH N:3005 , HOH N:3036 , HOH N:3045
BINDING SITE FOR RESIDUE HEA N 515
10
DC6
SOFTWARE
TRP N:126 , TRP N:236 , VAL N:243 , TYR N:244 , HIS N:290 , HIS N:291 , ALA N:313 , 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 , PER N:520 , HOH N:3007 , HOH N:3016 , HOH N:3034 , HOH N:3044 , ILE O:72
BINDING SITE FOR RESIDUE HEA N 516
11
DC7
SOFTWARE
PHE N:346 , ASN N:422 , PHE N:426 , PHE N:430 , LEU N:433 , LEU O:7 , LEU O:28 , PHE O:32 , LEU O:39 , HOH Q:4417
BINDING SITE FOR RESIDUE TGL N 1521
12
DC8
SOFTWARE
THR N:17 , LEU N:18 , LEU N:20 , TRP N:81 , PRO N:106 , LEU N:113 , PHE N:400 , HOH N:4536 , ILE Y:11 , PRO Y:12 , PHE Y:13 , SER Y:14 , MET Y:24 , PHE Y:28 , PHE Y:29 , HOH Y:4688
BINDING SITE FOR RESIDUE TGL N 1522
13
DC9
SOFTWARE
ASN N:406 , THR N:408 , TRP N:409 , ALA Q:84 , PHE Q:87 , PHE X:9 , PRO Z:12 , GLN Z:15 , LEU Z:19 , SER Z:20
BINDING SITE FOR RESIDUE PGV N 1524
14
EC1
SOFTWARE
PHE N:94 , PRO N:95 , ARG N:96 , MET N:97 , MET N:100 , HOH N:3138 , HOH N:3226 , HIS P:9 , ALA P:24 , ASN P:50 , TRP P:57 , TRP P:58 , GLU P:64 , HIS P:71 , LEU P:79 , GLY P:82 , PEK P:1264 , HOH P:4798
BINDING SITE FOR RESIDUE PGV N 1266
15
EC2
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
16
EC3
SOFTWARE
ARG G:14 , ARG G:17 , PHE G:21 , GLY G:22 , PEK G:265 , HOH G:2300 , MET N:271 , GLU O:62 , THR O:63 , HOH O:3372
BINDING SITE FOR RESIDUE CHD O 229
17
EC4
SOFTWARE
PHE N:321 , ALA N:325 , HIS N:328 , ILE O:41 , HIS O:52 , ASP O:57 , GLU O:60 , TRP O:65 , GLU R:6 , ASP R:8 , PHE R:11 , ARG V:10 , ALA V:14 , HOH V:4333
BINDING SITE FOR RESIDUE PSC O 1230
18
EC5
SOFTWARE
TRP P:34 , MET P:40 , SER T:61 , TRP T:62 , GLY T:63 , PHE T:69
BINDING SITE FOR RESIDUE DMU P 1272
19
EC6
SOFTWARE
HIS N:233 , ASP N:300 , THR N:301 , TYR N:304 , TRP P:99 , HIS P:103 , PGV P:1268 , HOH P:3378
BINDING SITE FOR RESIDUE CHD P 1525
20
EC7
SOFTWARE
VAL N:155 , PGV N:1266 , TYR P:181 , TYR P:182 , ALA P:184 , PHE P:186 , THR P:187 , ILE P:188 , PHE P:198 , THR T:68 , PHE T:69 , PHE T:70 , HIS T:71 , ASN T:76 , HOH T:3254
BINDING SITE FOR RESIDUE PEK P 1264
21
EC8
SOFTWARE
SER A:279 , GLN B:59 , THR B:66 , CHD B:1086 , LYS P:157 , HIS P:158 , THR P:168 , TYR P:172 , ARG T:17 , GLY T:22 , CDL T:1269
BINDING SITE FOR RESIDUE PEK P 1265
22
EC9
SOFTWARE
MET P:54 , TRP P:58 , VAL P:61 , SER P:65 , THR P:66 , HIS P:71 , HIS P:207 , ILE P:210 , PHE P:214 , ARG P:221 , HIS P:226 , PHE P:227 , HIS P:231 , PHE P:233 , GLY P:234 , CDL P:1270 , HOH P:3214 , HOH P:3348 , HOH S:3130 , HOH S:4558
BINDING SITE FOR RESIDUE PGV P 1267
23
FC1
SOFTWARE
ASP N:298 , HIS P:103 , CHD P:1525 , HOH P:4224 , HOH P:4575 , HOH P:4599 , ASN U:24
BINDING SITE FOR RESIDUE PGV P 1268
24
FC2
SOFTWARE
MET P:51 , LEU P:52 , TYR P:55 , TRP P:58 , ARG P:59 , ARG P:63 , PHE P:67 , ILE P:216 , PHE P:220 , ARG P:221 , LYS P:224 , HIS P:226 , PGV P:1267 , HOH P:3164 , HOH P:4321 , HOH P:4782 , LYS W:8 , THR W:27
BINDING SITE FOR RESIDUE CDL P 1270
25
FC3
SOFTWARE
ARG P:156 , PHE P:164 , LEU P:223 , PHE W:1
BINDING SITE FOR RESIDUE CHD P 1271
26
FC4
SOFTWARE
TRP N:334 , PHE N:414 , THR O:47 , LYS O:49 , HOH O:3351 , ARG Q:73 , SER Q:74 , GLU Q:77 , TRP Q:78 , VAL Q:81 , HOH Q:4431 , HOH Q:4865
BINDING SITE FOR RESIDUE TGL Q 1523
27
FC5
SOFTWARE
CYS S:60 , CYS S:62 , CYS S:82 , CYS S:85
BINDING SITE FOR RESIDUE ZN S 99
28
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 , HIS T:8 , HOH T:4844
BINDING SITE FOR RESIDUE PEK T 263
29
FC7
SOFTWARE
ASP A:300 , TYR A:304 , SER A:307 , ILE A:311 , LEU B:78 , LEU B:81 , ARG B:82 , TYR B:85 , LEU P:127 , LEU P:131 , TYR P:253 , VAL P:254 , PEK P:1265 , SER T:27 , LEU T:30 , CYS T:31 , ASN T:34 , LEU T:37 , HIS T:38
BINDING SITE FOR RESIDUE CDL T 1269
30
FC8
SOFTWARE
TYR W:32 , ARG W:33 , THR W:37
BINDING SITE FOR RESIDUE CHD W 1060
31
FC9
SOFTWARE
LEU N:35 , TRP Q:98 , LEU Z:27 , LEU Z:28 , GLY Z:31 , TRP Z:32 , 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 only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(9, 9)
Info
All PROSITE Patterns/Profiles
1: COX2_TM (O:1-91)
2: COX1 (N:1-514)
3: COX3 (P:4-261)
4: CHCH (U:26-72)
5: COX6A (T:55-72)
6: COX2_CUA (O:92-225)
7: COX5B_1 (S:69-91)
8: COX2 (O:159-207)
9: COX1_CUB (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
1
-
O:1-91
2
COX1
PS50855
Cytochrome oxidase subunit I profile.
COX1_BOVIN
1-514
1
-
N:1-514
3
COX3
PS50253
Heme-copper oxidase subunit III family profile.
COX3_BOVIN
4-261
1
-
P:4-261
4
CHCH
PS51808
Coiled coil-helix-coiled coil-helix (CHCH) domain profile.
CX6B1_BOVIN
27-73
1
-
U:26-72
5
COX6A
PS01329
Cytochrome c oxidase subunit VIa signature.
CX6A2_BOVIN
67-84
1
-
T:55-72
6
COX2_CUA
PS50857
Cytochrome oxidase subunit II copper A binding domain profile.
COX2_BOVIN
92-225
1
-
O:92-225
7
COX5B_1
PS00848
Cytochrome c oxidase subunit Vb, zinc binding region signature.
COX5B_BOVIN
100-122
1
-
S:69-91
8
COX2
PS00078
CO II and nitrous oxide reductase dinuclear copper centers signature.
COX2_BOVIN
159-207
1
-
O:159-207
9
COX1_CUB
PS00077
Heme-copper oxidase catalytic subunit, copper B binding region signature.
COX1_BOVIN
236-291
1
-
N:236-291
[
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
(14, 28)
Info
All SCOP Domains
01a: SCOP_d3able_ (E:)
01b: SCOP_d3ablr_ (R:)
02a: SCOP_d3ablh_ (H:)
02b: SCOP_d3ablu_ (U:)
03a: SCOP_d3ablb2 (B:91-227)
03b: SCOP_d3ablo2 (O:91-227)
04a: SCOP_d3abla_ (A:)
04b: SCOP_d3abln_ (N:)
05a: SCOP_d3ablc_ (C:)
05b: SCOP_d3ablp_ (P:)
06a: SCOP_d3abld_ (D:)
06b: SCOP_d3ablq_ (Q:)
07a: SCOP_d3ablg_ (G:)
07b: SCOP_d3ablt_ (T:)
08a: SCOP_d3abli_ (I:)
08b: SCOP_d3ablv_ (V:)
09a: SCOP_d3ablj_ (J:)
09b: SCOP_d3ablw_ (W:)
10a: SCOP_d3ablk_ (K:)
10b: SCOP_d3ablx_ (X:)
11a: SCOP_d3abll_ (L:)
11b: SCOP_d3ably_ (Y:)
12a: SCOP_d3ablm_ (M:)
12b: SCOP_d3ablz_ (Z:)
13a: SCOP_d3ablb1 (B:1-90)
13b: SCOP_d3ablo1 (O:1-90)
14a: SCOP_d3ablf_ (F:)
14b: SCOP_d3abls_ (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
d3able_
E:
01b
d3ablr_
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
d3ablh_
H:
02b
d3ablu_
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
d3ablb2
B:91-227
03b
d3ablo2
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
d3abla_
A:
04b
d3abln_
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
d3ablc_
C:
05b
d3ablp_
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
d3abld_
D:
06b
d3ablq_
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
d3ablg_
G:
07b
d3ablt_
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
d3abli_
I:
08b
d3ablv_
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
d3ablj_
J:
09b
d3ablw_
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
d3ablk_
K:
10b
d3ablx_
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
d3abll_
L:
11b
d3ably_
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
d3ablm_
M:
12b
d3ablz_
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
d3ablb1
B:1-90
13b
d3ablo1
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
d3ablf_
F:
14b
d3abls_
S:
[
close SCOP info
]
CATH Domains
(15, 30)
Info
all CATH domains
01a: CATH_3ablG00 (G:1-84)
01b: CATH_3ablT00 (T:1-84)
02a: CATH_3ablI00 (I:3-73)
02b: CATH_3ablV00 (V:3-73)
03a: CATH_3ablJ00 (J:1-57)
03b: CATH_3ablW00 (W:1-57)
04a: CATH_3ablK00 (K:6-54)
04b: CATH_3ablX00 (X:6-54)
05a: CATH_3ablL00 (L:2-47)
05b: CATH_3ablY00 (Y:2-47)
06a: CATH_3ablM00 (M:1-43)
06b: CATH_3ablZ00 (Z:1-43)
07a: CATH_3ablE00 (E:6-109)
07b: CATH_3ablR00 (R:6-109)
08a: CATH_3ablH00 (H:11-85)
08b: CATH_3ablU00 (U:11-85)
09a: CATH_3ablD00 (D:4-147)
09b: CATH_3ablQ00 (Q:4-147)
10a: CATH_3ablC01 (C:3-70)
10b: CATH_3ablP01 (P:3-70)
11a: CATH_3ablB01 (B:2-91)
11b: CATH_3ablO01 (O:2-91)
12a: CATH_3ablA00 (A:2-514)
12b: CATH_3ablN00 (N:2-514)
13a: CATH_3ablC02 (C:71-261)
13b: CATH_3ablP02 (P:71-261)
14a: CATH_3ablF00 (F:4-96)
14b: CATH_3ablS00 (S:4-96)
15a: CATH_3ablB02 (B:92-227)
15b: CATH_3ablO02 (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
3ablG00
G:1-84
01b
3ablT00
T:1-84
Topology
:
Cytochrome C Oxidase; Chain I
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain I
(22)
Bovine (Bos taurus)
(7)
02a
3ablI00
I:3-73
02b
3ablV00
V:3-73
Topology
:
Cytochrome C Oxidase; Chain J
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain J
(22)
Bovine (Bos taurus)
(7)
03a
3ablJ00
J:1-57
03b
3ablW00
W:1-57
Topology
:
Cytochrome C Oxidase; Chain K
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain K
(22)
Bovine (Bos taurus)
(7)
04a
3ablK00
K:6-54
04b
3ablX00
X:6-54
Topology
:
Cytochrome C Oxidase; Chain L
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain L
(22)
Bovine (Bos taurus)
(7)
05a
3ablL00
L:2-47
05b
3ablY00
Y:2-47
Topology
:
Cytochrome C Oxidase; Chain M
(30)
Homologous Superfamily
:
Cytochrome C Oxidase, chain M
(29)
Bovine (Bos taurus)
(7)
06a
3ablM00
M:1-43
06b
3ablZ00
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
3ablE00
E:6-109
07b
3ablR00
R:6-109
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
Cytochrome C oxidase subunit h
(22)
Bovine (Bos taurus)
(7)
08a
3ablH00
H:11-85
08b
3ablU00
U:11-85
Topology
:
Cytochrome C Oxidase; Chain D
(22)
Homologous Superfamily
:
Cytochrome C Oxidase, chain D
(22)
Bovine (Bos taurus)
(7)
09a
3ablD00
D:4-147
09b
3ablQ00
Q:4-147
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.70, no name defined]
(106)
Bovine (Bos taurus)
(7)
10a
3ablC01
C:3-70
10b
3ablP01
P:3-70
Homologous Superfamily
:
[code=1.10.287.90, no name defined]
(33)
Bovine (Bos taurus)
(7)
11a
3ablB01
B:2-91
11b
3ablO01
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
3ablA00
A:2-514
12b
3ablN00
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
3ablC02
C:71-261
13b
3ablP02
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
3ablF00
F:4-96
14b
3ablS00
S:4-96
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Cupredoxins - blue copper proteins
(420)
Bovine (Bos taurus)
(7)
15a
3ablB02
B:92-227
15b
3ablO02
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 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 (680 KB)
Header - Asym.Unit
Biol.Unit 1 (335 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
3ABL
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
