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5IY5
Biol. Unit 1
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Asym.Unit (1.4 MB)
Biol.Unit 1 (698 KB)
Biol.Unit 2 (698 KB)
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(1)
Title
:
ELECTRON TRANSFER COMPLEX OF CYTOCHROME C AND CYTOCHROME C OXIDASE AT 2.0 ANGSTROM RESOLUTION
Authors
:
S. Shimada, J. Baba, S. Aoe, A. Shimada, E. Yamashita, T. Tsukihara
Date
:
24 Mar 16 (Deposition) - 11 Jan 17 (Release) - 15 Feb 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
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,1,2
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M,1 (1x)
Biol. Unit 2: N,O,P,Q,R,S,T,U,V,W,X,Y,Z,2 (1x)
Keywords
:
Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Shimada, K. Shinzawa-Itoh, J. Baba, S. Aoe, A. Shimada, E. Yamashita, J. Kang, M. Tateno, S. Yoshikawa, T. Tsukihara
Complex Structure Of Cytochrome C-Cytochrome C Oxidase Reveals A Novel Protein-Protein Interaction Mode
Embo J. V. 36 291 2017
[
close entry info
]
Hetero Components
(17, 37)
Info
All Hetero Components
01a: ACETYL GROUP (ACEa)
01b: ACETYL GROUP (ACEb)
02a: CARDIOLIPIN (CDLa)
02b: CARDIOLIPIN (CDLb)
02c: CARDIOLIPIN (CDLc)
02d: CARDIOLIPIN (CDLd)
03a: CHOLIC ACID (CHDa)
03b: CHOLIC ACID (CHDb)
03c: CHOLIC ACID (CHDc)
03d: CHOLIC ACID (CHDd)
03e: CHOLIC ACID (CHDe)
03f: CHOLIC ACID (CHDf)
03g: CHOLIC ACID (CHDg)
03h: CHOLIC ACID (CHDh)
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)
07a: 1,2-ETHANEDIOL (EDOa)
07b: 1,2-ETHANEDIOL (EDOb)
07c: 1,2-ETHANEDIOL (EDOc)
07d: 1,2-ETHANEDIOL (EDOd)
07e: 1,2-ETHANEDIOL (EDOe)
07f: 1,2-ETHANEDIOL (EDOf)
07g: 1,2-ETHANEDIOL (EDOg)
07h: 1,2-ETHANEDIOL (EDOh)
07i: 1,2-ETHANEDIOL (EDOi)
08a: N-FORMYLMETHIONINE (FMEa)
08b: N-FORMYLMETHIONINE (FMEb)
08c: N-FORMYLMETHIONINE (FMEc)
08d: N-FORMYLMETHIONINE (FMEd)
09a: HEME-A (HEAa)
09b: HEME-A (HEAb)
09c: HEME-A (HEAc)
09d: HEME-A (HEAd)
10a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
10b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
11a: MAGNESIUM ION (MGa)
11b: MAGNESIUM ION (MGb)
12a: SODIUM ION (NAa)
12b: SODIUM ION (NAb)
12c: SODIUM ION (NAc)
12d: SODIUM ION (NAd)
13a: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKa)
13b: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)P... (PEKb)
14a: PEROXIDE ION (PERa)
14b: PEROXIDE ION (PERb)
15a: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVa)
15b: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVb)
15c: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVc)
15d: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVd)
15e: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVe)
15f: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVf)
15g: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPY... (PGVg)
16a: (7R,17E,20E)-4-HYDROXY-N,N,N-TRIME... (PSCa)
16b: (7R,17E,20E)-4-HYDROXY-N,N,N-TRIME... (PSCb)
17a: N-ACETYL-SERINE (SACa)
17b: N-ACETYL-SERINE (SACb)
18a: TRISTEAROYLGLYCEROL (TGLa)
18b: TRISTEAROYLGLYCEROL (TGLb)
18c: TRISTEAROYLGLYCEROL (TGLc)
18d: TRISTEAROYLGLYCEROL (TGLd)
18e: TRISTEAROYLGLYCEROL (TGLe)
19a: PHOSPHOTHREONINE (TPOa)
19b: PHOSPHOTHREONINE (TPOb)
20a: UNKNOWN LIGAND (UNLa)
20b: UNKNOWN LIGAND (UNLb)
20c: UNKNOWN LIGAND (UNLc)
20d: UNKNOWN LIGAND (UNLd)
20e: UNKNOWN LIGAND (UNLe)
20f: UNKNOWN LIGAND (UNLf)
20g: UNKNOWN LIGAND (UNLg)
20h: UNKNOWN LIGAND (UNLh)
20i: UNKNOWN LIGAND (UNLi)
20j: UNKNOWN LIGAND (UNLj)
20k: UNKNOWN LIGAND (UNLk)
20l: UNKNOWN LIGAND (UNLl)
20m: UNKNOWN LIGAND (UNLm)
20n: UNKNOWN LIGAND (UNLn)
20o: UNKNOWN LIGAND (UNLo)
21a: ZINC ION (ZNa)
21b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACE
1
Mod. Amino Acid
ACETYL GROUP
2
CDL
2
Ligand/Ion
CARDIOLIPIN
3
CHD
4
Ligand/Ion
CHOLIC ACID
4
CU
-1
Ligand/Ion
COPPER (II) ION
5
CUA
1
Ligand/Ion
DINUCLEAR COPPER ION
6
DMU
1
Ligand/Ion
DECYL-BETA-D-MALTOPYRANOSIDE
7
EDO
6
Ligand/Ion
1,2-ETHANEDIOL
8
FME
2
Mod. Amino Acid
N-FORMYLMETHIONINE
9
HEA
2
Ligand/Ion
HEME-A
10
HEM
1
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
11
MG
-1
Ligand/Ion
MAGNESIUM ION
12
NA
-1
Ligand/Ion
SODIUM ION
13
PEK
1
Ligand/Ion
(1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE
14
PER
1
Ligand/Ion
PEROXIDE ION
15
PGV
4
Ligand/Ion
(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE
16
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
17
SAC
1
Mod. Amino Acid
N-ACETYL-SERINE
18
TGL
3
Ligand/Ion
TRISTEAROYLGLYCEROL
19
TPO
1
Mod. Amino Acid
PHOSPHOTHREONINE
20
UNL
5
Ligand/Ion
UNKNOWN LIGAND
21
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(35, 35)
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: AH8 (SOFTWARE)
33: AH9 (SOFTWARE)
34: AI4 (SOFTWARE)
35: AI5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:240 , HIS A:290 , HIS A:291 , PER A:606
binding site for residue CU A 601
02
AC2
SOFTWARE
HIS A:368 , ASP A:369 , GLU B:198 , HOH B:434 , HOH B:436 , HOH B:531
binding site for residue MG A 602
03
AC3
SOFTWARE
GLU A:40 , GLY A:45 , SER A:441 , HOH A:783
binding site for residue NA A 603
04
AC4
SOFTWARE
ALA A:24 , GLY A:27 , 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 , ILE A:73 , GLY A:125 , TRP A:126 , TYR A:371 , PHE A:377 , HIS A:378 , SER A:382 , VAL A:386 , PHE A:393 , MET A:417 , PHE A:425 , GLN A:428 , ARG A:438 , ARG A:439 , MET A:468 , HOH A:735 , HOH A:740 , HOH A:749
binding site for residue HEA A 604
05
AC5
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 , ALA A:313 , 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 , PER A:606 , HOH A:750 , HOH A:767 , HOH A:772 , HOH A:791 , ILE B:34 , PRO B:69 , ILE B:72
binding site for residue HEA A 605
06
AC6
SOFTWARE
HIS A:240 , VAL A:243 , HIS A:291 , CU A:601 , HEA A:605
binding site for residue PER A 606
07
AC7
SOFTWARE
ASN A:406 , TRP A:409 , HOH A:701 , HOH A:833 , PHE D:87 , PHE K:9 , GLN M:15 , HOH M:216
binding site for residue PGV A 607
08
AC8
SOFTWARE
PHE A:94 , PRO A:95 , ARG A:96 , MET A:97 , HOH A:748 , HOH A:759 , HIS C:9 , ASN C:50 , TRP C:57 , TRP C:58 , GLU C:64 , HIS C:71 , GLY C:82 , PEK C:303 , PGV C:304
binding site for residue PGV A 608
09
AC9
SOFTWARE
ASN A:422 , LEU A:433 , LEU B:28 , PHE B:32 , SER B:35 , SER B:36 , HOH B:465
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
TYR A:447 , ALA B:2 , GLN B:10 , LEU B:136 , PRO B:166 , TYR B:193 , HOH B:471 , HOH B:483
binding site for residue EDO B 303
12
AD3
SOFTWARE
HIS A:233 , ASP A:300 , THR A:301 , TYR A:304 , TRP C:99 , HIS C:103 , PGV C:305 , HOH C:497 , HOH C:500 , CDL T:101
binding site for residue CHD C 301
13
AD4
SOFTWARE
HIS C:148 , HIS C:232 , GLU C:236
binding site for residue NA C 302
14
AD5
SOFTWARE
HIS A:151 , VAL A:155 , PGV A:608 , TYR C:181 , TYR C:182 , ALA C:184 , PHE C:186 , THR C:187 , ILE C:188 , PHE C:198 , GLY C:202 , TRP G:62 , THR G:68 , PHE G:69 , PHE G:70 , HIS G:71 , ASN G:76 , HOH G:226
binding site for residue PEK C 303
15
AD6
SOFTWARE
PGV A:608 , MET C:51 , MET C:54 , VAL C:61 , SER C:65 , THR C:66 , GLU C:90 , ILE C:210 , PHE C:214 , ARG C:221 , HIS C:226 , PHE C:227 , HIS C:231 , PHE C:233 , GLY C:234 , CDL C:306 , HOH C:436 , HOH C:438 , HOH C:485 , HOH F:227
binding site for residue PGV C 304
16
AD7
SOFTWARE
ASP A:298 , HOH B:529 , TRP C:99 , TYR C:102 , HIS C:103 , ALA C:107 , CHD C:301 , HOH C:427 , HOH C:431 , HOH C:502 , ASN H:22 , TRP P:258 , CDL T:101 , HOH T:241
binding site for residue PGV C 305
17
AD8
SOFTWARE
MET C:51 , LEU C:52 , MET C:54 , TYR C:55 , ARG C:59 , ARG C:63 , PHE C:67 , THR C:213 , PHE C:220 , LYS C:224 , HIS C:226 , PGV C:304 , HOH C:401 , HOH C:406 , HOH C:470 , HOH C:471 , HOH C:534 , HOH C:536 , LYS J:8
binding site for residue CDL C 306
18
AD9
SOFTWARE
ARG C:156 , GLN C:161 , PHE C:164 , PHE J:1
binding site for residue CHD C 307
19
AE1
SOFTWARE
GLU C:111 , HOH C:420 , HOH C:506 , HOH H:128
binding site for residue EDO C 311
20
AE2
SOFTWARE
TRP A:334 , MET A:339 , GLY A:343 , LYS B:49 , ARG D:73 , GLU D:77 , TRP D:78 , HOH D:303 , HOH D:306 , HOH D:392 , HIS I:20
binding site for residue TGL D 201
21
AE3
SOFTWARE
PHE A:321 , LEU B:37 , ILE B:41 , HIS B:52 , MET B:56 , ASP B:57 , GLU B:60 , VAL B:61 , TRP B:65 , LEU B:68 , HOH B:554 , HIS E:5 , GLU E:6 , THR E:7 , ASP E:8 , PHE E:11 , HOH I:221
binding site for residue PSC E 201
22
AE4
SOFTWARE
GLU E:102 , HOH E:301 , HOH E:307 , HOH E:391
binding site for residue EDO E 202
23
AE5
SOFTWARE
CYS F:60 , CYS F:62 , CYS F:82 , CYS F:85
binding site for residue ZN F 101
24
AE6
SOFTWARE
HIS C:231 , HOH C:424 , ASP F:9 , GLU F:17 , HOH F:221
binding site for residue EDO F 102
25
AE7
SOFTWARE
VAL C:142 , HOH C:526 , LEU G:23 , SER G:27 , LEU G:30 , CYS G:31 , ASN G:34 , LEU G:37 , HIS G:38 , HOH G:202 , HOH G:244 , TYR N:304 , SER N:307 , ILE N:311 , ALA O:77 , LEU O:78 , LEU O:81 , TYR O:85 , HOH O:465
binding site for residue CDL G 101
26
AE8
SOFTWARE
ARG G:14 , ARG G:17 , GLY G:22 , HOH G:208 , HOH G:216 , MET N:271 , TRP N:275 , GLU O:62 , THR O:63
binding site for residue CHD G 102
27
AE9
SOFTWARE
GLY C:120 , ALA G:46 , PHE G:47 , ILE G:48 , ARG G:54 , HOH G:229
binding site for residue EDO G 103
28
AF1
SOFTWARE
TYR I:54 , ASP I:55 , GLU I:62
binding site for residue EDO I 101
29
AF2
SOFTWARE
TYR J:32 , MET J:36 , THR J:37 , LEU J:40 , HOH J:221
binding site for residue CHD J 101
30
AF3
SOFTWARE
THR A:17 , TRP A:25 , PHE A:400 , PRO L:12 , PHE L:13 , SER L:14 , ARG L:20 , MET L:25 , LEU L:27 , PHE L:28 , PHE L:29 , SER L:31
binding site for residue TGL L 101
31
AF4
SOFTWARE
TRP D:98 , LEU M:28 , GLY M:31 , TRP M:32 , LEU M:34 , TYR M:35 , HIS M:36 , HOH M:211
binding site for residue DMU M 101
32
AH8
SOFTWARE
PHE A:282 , ILE A:286 , ASP A:300 , TYR A:304 , ILE A:311 , HOH A:911 , HOH A:927 , ALA B:70 , ILE B:74 , LEU B:78 , LEU B:81 , HOH B:533 , CHD C:301 , PGV C:305 , LEU P:127 , SER T:27 , CYS T:31 , ASN T:34 , HIS T:38
binding site for residue CDL T 101
33
AH9
SOFTWARE
MET A:271 , TRP A:275 , THR B:63 , THR B:66 , ARG T:14 , ARG T:17 , PHE T:18 , PHE T:21 , GLY T:22 , HOH T:205 , HOH T:215
binding site for residue CHD T 103
34
AI4
SOFTWARE
ASP 1:2 , VAL 1:3 , GLU 1:92 , ASP 1:93 , ALA 1:96
binding site for Di-peptide ACE 1 0 and GLY 1 1
35
AI5
SOFTWARE
PHE 1:10 , LYS 1:13 , ALA 1:15 , GLN 1:16 , CYS 1:17 , HIS 1:18 , THR 1:28 , PRO 1:30 , THR 1:40 , GLY 1:41 , TYR 1:48 , THR 1:49 , ASN 1:52 , TRP 1:59 , TYR 1:67 , LEU 1:68 , THR 1:78 , LYS 1:79 , MET 1:80 , ILE 1:81 , PHE 1:82
binding site for Di-peptide HEM 1 201 and CYS 1 14
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SAPs(SNPs)/Variants
(0, 0)
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(0, 0)
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SCOP Domains
(0, 0)
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Pfam Domains
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