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.
5B1A
Asym. Unit
Info
Asym.Unit (1.4 MB)
Biol.Unit 1 (697 KB)
Biol.Unit 2 (701 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 FULLY OXIDIZED STATE AT 1.5 ANGSTROM RESOLUTION
Authors
:
N. Yano, K. Muramoto, A. Shimada, S. Takemura, J. Baba, H. Fujisawa, M. M K. Shinzawa-Itoh, E. Yamashita, T. Tsukihara, S. Yoshikawa
Date
:
01 Dec 15 (Deposition) - 14 Sep 16 (Release) - 23 Nov 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.50
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, Proton Pump, Heme, Respiratory Chain
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Yano, K. Muramoto, A. Shimada, S. Takemura, J. Baba, H. Fujisawa, M. Mochizuki, K. Shinzawa-Itoh, E. Yamashita, T. Tsukihara, S. Yoshikawa
The Mg2+-Containing Water Cluster Of Mammalian Cytochrome C Oxidase Collects Four Pumping Proton Equivalents In Each Catalytic Cycle.
J. Biol. Chem. V. 291 23882 2016
[
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)
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: 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
CU
2
Ligand/Ion
COPPER (II) ION
4
CUA
2
Ligand/Ion
DINUCLEAR COPPER ION
5
DMU
4
Ligand/Ion
DECYL-BETA-D-MALTOPYRANOSIDE
6
FME
4
Mod. Amino Acid
N-FORMYLMETHIONINE
7
HEA
4
Ligand/Ion
HEME-A
8
MG
2
Ligand/Ion
MAGNESIUM ION
9
NA
2
Ligand/Ion
SODIUM ION
10
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
11
PER
2
Ligand/Ion
PEROXIDE ION
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
(55, 55)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
22: AE4 (SOFTWARE)
23: AE5 (SOFTWARE)
24: AE6 (SOFTWARE)
25: AE7 (SOFTWARE)
26: AE8 (SOFTWARE)
27: AE9 (SOFTWARE)
28: AF1 (SOFTWARE)
29: AF2 (SOFTWARE)
30: AF3 (SOFTWARE)
31: AF4 (SOFTWARE)
32: AF5 (SOFTWARE)
33: AF6 (SOFTWARE)
34: AF7 (SOFTWARE)
35: AF8 (SOFTWARE)
36: AF9 (SOFTWARE)
37: AG1 (SOFTWARE)
38: AG2 (SOFTWARE)
39: AG3 (SOFTWARE)
40: AG4 (SOFTWARE)
41: AG5 (SOFTWARE)
42: AG6 (SOFTWARE)
43: AG7 (SOFTWARE)
44: AG8 (SOFTWARE)
45: AG9 (SOFTWARE)
46: AH1 (SOFTWARE)
47: AH2 (SOFTWARE)
48: AH3 (SOFTWARE)
49: AH4 (SOFTWARE)
50: AH5 (SOFTWARE)
51: AH6 (SOFTWARE)
52: AH7 (SOFTWARE)
53: AH8 (SOFTWARE)
54: AH9 (SOFTWARE)
55: AI1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
MET A:28 , 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 , GLY A:125 , TRP A:126 , TYR A:371 , PHE A:377 , HIS A:378 , SER A:382 , PHE A:393 , MET A:417 , PHE A:425 , GLN A:428 , ARG A:438 , ARG A:439 , SER A:458 , MET A:468 , HOH A:729 , HOH A:731 , HOH A:784
binding site for residue HEA A 601
02
AC2
SOFTWARE
TRP A:126 , TRP A:236 , VAL A:243 , TYR A:244 , HIS A:290 , HIS A:291 , THR A:309 , ILE A:312 , THR A:316 , GLY A:317 , GLY A:352 , LEU A:353 , 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 , PER A:606 , HOH A:721 , HOH A:741 , HOH A:817 , HOH A:831 , ILE B:34
binding site for residue HEA A 602
03
AC3
SOFTWARE
HIS A:240 , HIS A:290 , HIS A:291 , PER A:606
binding site for residue CU A 603
04
AC4
SOFTWARE
HIS A:368 , ASP A:369 , GLU B:198 , HOH B:447 , HOH B:486 , HOH B:521
binding site for residue MG A 604
05
AC5
SOFTWARE
GLU A:40 , GLY A:45 , SER A:441 , HOH A:877
binding site for residue NA A 605
06
AC6
SOFTWARE
HIS A:240 , VAL A:243 , HIS A:291 , HEA A:602 , CU A:603
binding site for residue PER A 606
07
AC7
SOFTWARE
PHE A:94 , PRO A:95 , ARG A:96 , MET A:97 , HOH A:767 , HIS C:9 , GLY C:20 , ASN C:50 , MET C:54 , TRP C:57 , TRP C:58 , GLU C:64 , HIS C:71 , GLY C:82 , HOH C:489 , PEK G:101
binding site for residue PGV A 607
08
AC8
SOFTWARE
ASN A:406 , THR A:408 , HOH A:702 , HOH A:785 , HOH A:830 , HOH A:881 , HOH A:886 , HOH A:930 , PHE D:87 , HIS K:10 , GLN M:15 , LEU M:19 , SER M:20 , HOH M:225
binding site for residue PGV A 608
09
AC9
SOFTWARE
ASN A:422 , PHE A:430 , LEU A:433 , LEU B:7 , LEU B:28 , VAL B:31 , PHE B:32 , SER B:35 , SER B:36 , HOH B:589 , HOH I:173
binding site for residue TGL B 301
10
AD1
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 302
11
AD2
SOFTWARE
MET A:271 , TRP A:275 , GLN B:59 , GLU B:62 , THR B:63 , HOH B:419 , HOH B:444 , HOH B:468 , PEK P:308 , ARG T:14 , ARG T:17 , GLY T:22
binding site for residue CHD B 303
12
AD3
SOFTWARE
PHE A:321 , HIS B:52 , THR B:55 , MET B:56 , ASP B:57 , GLU B:60 , HOH B:405 , HOH B:538 , GLU E:6 , ASP E:8 , PHE E:11 , HOH E:275 , HOH E:280 , ARG I:10 , LEU I:17
binding site for residue PSC B 304
13
AD4
SOFTWARE
MET C:51 , MET C:54 , TRP C:58 , VAL C:61 , SER C:65 , THR C:66 , HIS C:71 , ILE C:210 , PHE C:214 , ARG C:221 , HIS C:226 , PHE C:227 , THR C:228 , HIS C:231 , HIS C:232 , PHE C:233 , GLY C:234 , CDL C:303 , HOH C:426 , HOH C:439 , HOH C:446 , HOH C:510
binding site for residue PGV C 302
14
AD5
SOFTWARE
THR C:48 , MET C:51 , TYR C:55 , TRP C:58 , ARG C:59 , ILE C:62 , ARG C:63 , PHE C:67 , THR C:174 , THR C:213 , VAL C:217 , PHE C:220 , LYS C:224 , HIS C:226 , PGV C:302 , HOH C:412 , LYS J:8 , LEU J:31
binding site for residue CDL C 303
15
AD6
SOFTWARE
ARG C:156 , GLN C:161 , PHE C:164 , PHE C:219 , LEU C:223 , HOH C:461 , PHE J:1
binding site for residue CHD C 304
16
AD7
SOFTWARE
HIS A:233 , ASP A:300 , THR A:301 , TYR A:304 , HOH A:723 , TRP C:99 , HIS C:103 , HOH C:415 , HOH C:418 , HOH C:432 , HOH C:506 , HOH C:508 , HOH C:520 , LEU P:127
binding site for residue CHD C 305
17
AD8
SOFTWARE
LYS C:157 , HIS C:158 , GLN C:161 , TYR C:172 , HOH C:425 , HOH C:481 , ALA F:1 , ARG G:17 , PHE G:21 , GLY G:22 , CDL G:102 , SER N:279 , ILE N:311 , GLN O:59 , CHD O:302
binding site for residue PEK C 306
18
AD9
SOFTWARE
HOH A:836 , TRP C:99 , TYR C:102 , HIS C:103 , ALA C:107 , HOH C:460 , HOH C:476 , HOH C:514 , HOH C:558 , ASN H:24 , HOH H:120
binding site for residue PGV C 307
19
AE1
SOFTWARE
TRP A:334 , PHE A:414 , PHE A:418 , HOH A:964 , ILE B:42 , LYS B:49 , HOH B:566 , HOH B:576 , ARG D:73 , THR D:75 , GLU D:77 , TRP D:78 , HOH D:419 , HOH D:452 , ARG I:16 , HIS I:20
binding site for residue TGL D 201
20
AE2
SOFTWARE
CYS F:60 , CYS F:62 , CYS F:82 , CYS F:85
binding site for residue ZN F 101
21
AE3
SOFTWARE
HIS A:151 , VAL A:155 , ILE A:158 , PGV A:607 , TRP C:34 , TYR C:181 , TYR C:182 , ALA C:184 , PHE C:186 , THR C:187 , ILE C:188 , PHE C:198 , GLY C:202 , PHE C:203 , TRP G:62 , THR G:68 , PHE G:69 , PHE G:70 , HIS G:71 , ASN G:76 , HOH G:239
binding site for residue PEK G 101
22
AE4
SOFTWARE
LEU C:127 , LEU C:131 , TYR C:253 , VAL C:254 , TRP C:258 , PEK C:306 , SER G:27 , LEU G:30 , CYS G:31 , ASN G:34 , LEU G:37 , HIS G:38 , PEK G:103 , HOH G:205 , HOH G:209 , HOH G:258 , HOH G:267 , PHE N:282 , ILE N:286 , SER N:307 , ILE N:311 , ILE O:74 , ALA O:77 , LEU O:78 , HOH O:488
binding site for residue CDL G 102
23
AE5
SOFTWARE
SER G:2 , ALA G:3 , LYS G:5 , GLY G:6 , HIS G:8 , CDL G:102 , LYS P:77 , ARG P:80 , TYR P:81 , THR P:95 , PHE P:98 , TRP P:240 , VAL P:247
binding site for residue PEK G 103
24
AE6
SOFTWARE
LEU C:25 , MET C:33 , PHE C:37 , SER J:46 , TYR J:48 , CYS J:49 , LEU J:50 , TRP J:52 , HOH J:204
binding site for residue DMU J 101
25
AE7
SOFTWARE
TYR J:32 , ARG J:33 , MET J:36 , THR J:37 , LEU J:40
binding site for residue CHD J 102
26
AE8
SOFTWARE
THR A:17 , LEU A:21 , PHE A:22 , TRP A:25 , LEU A:113 , PHE A:393 , 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 101
27
AE9
SOFTWARE
TRP D:98 , LEU M:27 , LEU M:28 , GLY M:31 , TRP M:32 , TYR M:35 , HIS M:36 , HOH M:210
binding site for residue DMU M 101
28
AF1
SOFTWARE
ALA N:24 , MET N:28 , 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 , VAL N:70 , GLY N:125 , TRP N:126 , TYR N:371 , PHE N:377 , HIS N:378 , SER N:382 , VAL N:386 , MET N:417 , PHE N:425 , GLN N:428 , ARG N:438 , ARG N:439 , HOH N:718 , HOH N:739 , HOH N:776
binding site for residue HEA N 601
29
AF2
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 , PER N:606 , HOH N:706 , HOH N:747 , HOH N:771 , HOH N:787
binding site for residue HEA N 602
30
AF3
SOFTWARE
HIS N:240 , HIS N:290 , HIS N:291 , PER N:606
binding site for residue CU N 603
31
AF4
SOFTWARE
HIS N:368 , ASP N:369 , GLU O:198 , HOH O:439 , HOH O:479 , HOH O:548
binding site for residue MG N 604
32
AF5
SOFTWARE
GLU N:40 , GLY N:45 , SER N:441 , HOH N:835
binding site for residue NA N 605
33
AF6
SOFTWARE
HIS N:240 , VAL N:243 , HIS N:291 , HEA N:602 , CU N:603
binding site for residue PER N 606
34
AF7
SOFTWARE
PHE N:94 , PRO N:95 , ARG N:96 , MET N:97 , HOH N:728 , HIS P:9 , GLY P:20 , ASN P:50 , MET P:54 , TRP P:57 , TRP P:58 , GLU P:64 , HIS P:71 , GLY P:82 , SER P:89 , HOH P:486 , PEK T:101
binding site for residue PGV N 607
35
AF8
SOFTWARE
ASN N:422 , PHE N:426 , PHE N:430 , LEU N:433 , HOH N:866 , LEU O:7 , LEU O:28 , PHE O:32 , SER O:35 , ARG V:43
binding site for residue TGL N 608
36
AF9
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 301
37
AG1
SOFTWARE
PEK C:306 , ARG G:14 , ARG G:17 , GLY G:22 , MET N:271 , GLU O:62 , THR O:63 , HOH O:425 , HOH O:431 , HOH O:451 , HOH O:459 , HOH O:471
binding site for residue CHD O 302
38
AG2
SOFTWARE
PHE N:321 , HIS N:328 , MET O:56 , ASP O:57 , GLU O:60 , TRP O:65 , HOH O:532 , GLU R:6 , ASP R:8 , ARG V:10 , HOH V:170
binding site for residue PSC O 303
39
AG3
SOFTWARE
ALA G:1 , PHE N:237 , ASP N:298 , TRP P:99 , HIS P:103 , ALA P:107 , CHD P:307 , HOH P:403 , HOH P:412 , HOH P:523 , ASN U:24 , HOH U:135
binding site for residue PGV P 301
40
AG4
SOFTWARE
VAL P:61 , SER P:65 , THR P:66 , ILE P:210 , PHE P:214 , ARG P:221 , HIS P:226 , PHE P:227 , THR P:228 , HIS P:231 , PHE P:233 , GLY P:234 , CDL P:304 , HOH P:427 , HOH P:444 , HOH P:448 , HOH P:509
binding site for residue PGV P 303
41
AG5
SOFTWARE
THR P:48 , MET P:51 , MET P:54 , TYR P:55 , ARG P:59 , ILE P:62 , ARG P:63 , PHE P:67 , PHE P:220 , LYS P:224 , HIS P:226 , PGV P:303 , HOH P:408 , HOH P:502 , HOH P:515
binding site for residue CDL P 304
42
AG6
SOFTWARE
ARG P:156 , LEU P:160 , GLN P:161 , PHE P:164 , PHE P:219 , LEU P:223 , HOH P:510 , HOH P:571 , PHE W:1
binding site for residue CHD P 305
43
AG7
SOFTWARE
LEU N:110 , MET P:33 , PHE P:37 , HOH P:404 , SER W:46 , TYR W:48 , CYS W:49 , TRP W:52
binding site for residue DMU P 306
44
AG8
SOFTWARE
HIS N:233 , ASP N:300 , THR N:301 , TYR N:304 , HOH N:741 , HOH N:913 , TRP P:99 , HIS P:103 , PGV P:301 , HOH P:442 , HOH P:447 , HOH P:513 , HOH P:523
binding site for residue CHD P 307
45
AG9
SOFTWARE
SER A:279 , ILE A:311 , THR B:66 , CHD B:303 , LYS P:157 , HIS P:158 , GLN P:161 , THR P:168 , TYR P:172 , HOH P:436 , HOH P:441 , HOH P:476 , ALA S:1 , ARG T:17 , PHE T:21 , GLY T:22 , CDL T:103
binding site for residue PEK P 308
46
AH1
SOFTWARE
ASN N:406 , THR N:408 , TRP N:409 , ILE N:412 , PHE Q:87 , HOH Q:406 , HIS X:10 , HOH X:116 , GLN Z:15 , LEU Z:19 , SER Z:20
binding site for residue PGV Q 201
47
AH2
SOFTWARE
TRP N:334 , PHE N:414 , HOH N:707 , ILE O:42 , THR O:47 , HOH O:571 , ARG Q:73 , THR Q:75 , GLU Q:77 , TRP Q:78 , ARG V:16 , HIS V:20
binding site for residue TGL Q 202
48
AH3
SOFTWARE
CYS S:60 , CYS S:62 , CYS S:82 , CYS S:85
binding site for residue ZN S 101
49
AH4
SOFTWARE
HIS N:151 , ALA N:203 , PGV N:607 , TRP P:34 , TYR P:181 , TYR P:182 , ALA P:184 , PHE P:186 , THR P:187 , ILE P:188 , PHE P:198 , GLY P:205 , TRP T:62 , THR T:68 , PHE T:69 , PHE T:70 , HIS T:71 , ASN T:76 , HOH T:237
binding site for residue PEK T 101
50
AH5
SOFTWARE
LYS C:77 , ARG C:80 , TYR C:81 , PHE C:98 , TRP C:240 , VAL C:247 , SER T:2 , ALA T:3 , LYS T:5 , GLY T:6 , CDL T:103
binding site for residue PEK T 102
51
AH6
SOFTWARE
ILE A:286 , ASP A:300 , SER A:307 , ILE A:311 , HOH A:730 , ALA B:70 , ALA B:77 , TYR B:85 , HOH B:476 , LEU P:127 , LEU P:131 , SER P:135 , LEU P:138 , PEK P:308 , SER T:27 , LEU T:30 , CYS T:31 , ASN T:34 , LEU T:37 , HIS T:38 , PEK T:102 , HOH T:210 , HOH T:244
binding site for residue CDL T 103
52
AH7
SOFTWARE
PHE N:8 , TYR W:32 , ARG W:33 , THR W:37
binding site for residue CHD W 101
53
AH8
SOFTWARE
THR N:17 , LEU N:18 , PHE N:22 , TRP N:25 , LEU N:113 , PHE N:400 , PRO Y:12 , PHE Y:13 , SER Y:14 , ARG Y:20 , MET Y:24 , PHE Y:28 , PHE Y:29 , SER Y:31 , HOH Y:221 , HOH Y:225
binding site for residue TGL Y 101
54
AH9
SOFTWARE
TRP Q:98 , LEU Z:28 , GLY Z:31 , TRP Z:32 , TYR Z:35 , HIS Z:36 , HOH Z:206 , HOH Z:225
binding site for residue DMU Z 101
55
AI1
SOFTWARE
TRP N:236 , PHE N:238 , GLY N:239 , PRO N:241 , GLU N:242 , VAL N:243 , ILE N:245 , LEU N:246 , ILE N:247 , LEU N:248 , ILE N:280 , GLY N:284 , VAL N:287 , HIS N:290 , ILE N:312 , HEA N:602 , CU N:603 , PER N:606
binding site for Di-peptide HIS N 240 and TYR N 244
[
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
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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.
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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 (1.4 MB)
Header - Asym.Unit
Biol.Unit 1 (697 KB)
Header - Biol.Unit 1
Biol.Unit 2 (701 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
5B1A
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help