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.
5DJQ
Asym. Unit
Info
Asym.Unit (1.4 MB)
Biol.Unit 1 (346 KB)
Biol.Unit 2 (355 KB)
Biol.Unit 3 (348 KB)
Biol.Unit 4 (351 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
THE STRUCTURE OF CBB3 CYTOCHROME OXIDASE.
Authors
:
S. Buschmann, E. Warkentin, H. Xie, M. Kohlstaedt, J. D. Langer, U. Erml H. Michel
Date
:
02 Sep 15 (Deposition) - 13 Jan 16 (Release) - 27 Jul 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,K,L,M,N,O,P,Q
Biol. Unit 1: A,B,C,N (1x)
Biol. Unit 2: D,E,F,O (1x)
Biol. Unit 3: G,H,I,P (1x)
Biol. Unit 4: K,L,M,Q (1x)
Keywords
:
Oxidoreductase, Cbb3-Cytochrome C Oxidase, Pseudomonas_stutzeri
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Buschmann, E. Warkentin, H. Xie, J. D. Langer, U. Ermler, H. Michel
The Structure Of Cbb3 Cytochrome Oxidase Provides Insights Into Proton Pumping.
Science V. 329 327 2010
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(7, 44)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
2a: COPPER (II) ION (CUa)
2b: COPPER (II) ION (CUb)
2c: COPPER (II) ION (CUc)
2d: COPPER (II) ION (CUd)
3a: HEXACYANOFERRATE(3-) (FC6a)
3b: HEXACYANOFERRATE(3-) (FC6b)
3c: HEXACYANOFERRATE(3-) (FC6c)
3d: HEXACYANOFERRATE(3-) (FC6d)
4a: HEME C (HECa)
4b: HEME C (HECb)
4c: HEME C (HECc)
4d: HEME C (HECd)
4e: HEME C (HECe)
4f: HEME C (HECf)
4g: HEME C (HECg)
4h: HEME C (HECh)
4i: HEME C (HECi)
4j: HEME C (HECj)
4k: HEME C (HECk)
4l: HEME C (HECl)
5a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
5b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
5c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
5d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
5e: PROTOPORPHYRIN IX CONTAINING FE (HEMe)
5f: PROTOPORPHYRIN IX CONTAINING FE (HEMf)
5g: PROTOPORPHYRIN IX CONTAINING FE (HEMg)
5h: PROTOPORPHYRIN IX CONTAINING FE (HEMh)
6a: HYDROGEN PEROXIDE (PEOa)
6b: HYDROGEN PEROXIDE (PEOb)
6c: HYDROGEN PEROXIDE (PEOc)
6d: HYDROGEN PEROXIDE (PEOd)
7a: PHOSPHATE ION (PO4a)
7b: PHOSPHATE ION (PO4b)
7c: PHOSPHATE ION (PO4c)
7d: PHOSPHATE ION (PO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
8
Ligand/Ion
CALCIUM ION
2
CU
4
Ligand/Ion
COPPER (II) ION
3
FC6
4
Ligand/Ion
HEXACYANOFERRATE(3-)
4
HEC
12
Ligand/Ion
HEME C
5
HEM
8
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
6
PEO
4
Ligand/Ion
HYDROGEN PEROXIDE
7
PO4
4
Ligand/Ion
PHOSPHATE ION
[
close Hetero Component info
]
Sites
(53, 53)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:122 , TYR A:123 , TRP A:203 , VAL A:210 , TYR A:251 , HIS A:257 , HIS A:258 , LEU A:279 , SER A:283 , GLY A:324 , PRO A:325 , MET A:327 , ALA A:328 , ASN A:333 , HIS A:337 , HIS A:345 , VAL A:346 , GLY A:349 , HEM A:502 , PEO A:505 , CA A:507 , SER B:102
binding site for residue HEM A 501
02
AC2
SOFTWARE
MET A:29 , GLY A:32 , VAL A:33 , ALA A:36 , ARG A:57 , HIS A:60 , VAL A:64 , ILE A:65 , GLU A:122 , TYR A:123 , ASP A:340 , ILE A:343 , VAL A:346 , HIS A:347 , ALA A:350 , LEU A:351 , TYR A:395 , ARG A:437 , GLY A:441 , PHE A:444 , HEM A:501 , CA A:507 , LYS B:103
binding site for residue HEM A 502
03
AC3
SOFTWARE
HIS A:207 , HIS A:257 , HIS A:258 , PEO A:505
binding site for residue CU A 503
04
AC4
SOFTWARE
ALA A:124 , LEU A:126 , ASP A:131 , ASN A:179
binding site for residue CA A 504
05
AC5
SOFTWARE
HIS A:207 , VAL A:210 , HIS A:258 , HEM A:501 , CU A:503
binding site for residue PEO A 505
06
AC6
SOFTWARE
MET A:273 , ILE A:329 , LYS A:330 , THR A:331 , TYR C:72
binding site for residue PO4 A 506
07
AC7
SOFTWARE
ARG A:57 , GLU A:122 , HEM A:501 , HEM A:502 , SER B:102
binding site for residue CA A 507
08
AC8
SOFTWARE
PHE A:53 , LEU A:427 , GLU B:63 , CYS B:65 , CYS B:68 , HIS B:69 , THR B:105 , GLY B:106 , PRO B:107 , LEU B:109 , TYR B:116 , HIS B:121 , HIS B:124 , LEU B:125 , VAL B:132 , SER B:135 , LYS B:136 , MET B:137 , PRO B:138 , TYR B:140 , MET B:188
binding site for residue HEC B 301
09
AC9
SOFTWARE
ARG C:166 , ALA C:184 , ALA C:185 , MET C:186 , PRO C:187 , TRP C:189 , THR C:232 , CYS C:233 , CYS C:236 , HIS C:237 , LEU C:247 , GLY C:248 , PRO C:250 , TRP C:258 , ILE C:259 , TYR C:260 , LEU C:267 , THR C:270 , ILE C:271 , GLY C:277 , HEC C:402 , ILE I:183
binding site for residue HEC C 401
10
AD1
SOFTWARE
TYR B:116 , TYR C:142 , CYS C:143 , CYS C:146 , HIS C:147 , GLY C:156 , PHE C:157 , PRO C:158 , LEU C:160 , TRP C:165 , ARG C:166 , TRP C:167 , ILE C:174 , SER C:177 , ILE C:178 , ALA C:184 , GLY C:277 , GLN C:278 , MET C:279 , PRO C:280 , GLN C:282 , HEC C:401
binding site for residue HEC C 402
11
AD2
SOFTWARE
GLY C:265 , GLN C:266 , GLN C:269 , ARG C:275 , ARG M:206 , PRO M:215 , SER M:263 , LEU M:264
binding site for residue FC6 C 403
12
AD3
SOFTWARE
GLU D:122 , TYR D:123 , TRP D:203 , VAL D:210 , TYR D:251 , HIS D:257 , HIS D:258 , LEU D:279 , SER D:283 , SER D:320 , GLY D:324 , PRO D:325 , MET D:327 , ALA D:328 , ASN D:333 , HIS D:337 , HIS D:345 , VAL D:346 , HEM D:502 , PEO D:506 , CA D:507 , SER E:102
binding site for residue HEM D 501
13
AD4
SOFTWARE
MET D:29 , GLY D:32 , VAL D:33 , ALA D:36 , ARG D:57 , HIS D:60 , VAL D:64 , ILE D:65 , GLU D:122 , TYR D:123 , ASP D:340 , ILE D:343 , VAL D:346 , HIS D:347 , ALA D:350 , LEU D:351 , TYR D:395 , ARG D:437 , GLY D:441 , PHE D:444 , HEM D:501 , CA D:507 , LYS E:103
binding site for residue HEM D 502
14
AD5
SOFTWARE
HIS D:207 , HIS D:257 , HIS D:258 , PEO D:506
binding site for residue CU D 503
15
AD6
SOFTWARE
SER D:119 , ALA D:124 , LEU D:126 , ASP D:131 , ASN D:179
binding site for residue CA D 504
16
AD7
SOFTWARE
MET D:273 , ILE D:329 , LYS D:330 , THR D:331 , TYR F:72
binding site for residue PO4 D 505
17
AD8
SOFTWARE
HIS D:207 , VAL D:210 , HIS D:258 , HEM D:501 , CU D:503
binding site for residue PEO D 506
18
AD9
SOFTWARE
ARG D:57 , GLU D:122 , HEM D:501 , HEM D:502 , SER E:102
binding site for residue CA D 507
19
AE1
SOFTWARE
TYR F:260 , GLY F:265 , GLN F:266 , GLN F:269 , ARG F:275 , ARG I:206 , PRO I:215 , SER I:263 , LEU I:264
binding site for residue FC6 F 403
20
AE2
SOFTWARE
GLU G:122 , TYR G:123 , TRP G:203 , VAL G:210 , TYR G:251 , HIS G:257 , HIS G:258 , LEU G:279 , SER G:283 , SER G:320 , GLY G:324 , PRO G:325 , MET G:327 , ALA G:328 , ASN G:333 , HIS G:337 , HIS G:345 , VAL G:346 , HEM G:502 , PEO G:505 , CA G:507 , SER H:102
binding site for residue HEM G 501
21
AE3
SOFTWARE
MET G:29 , GLY G:32 , VAL G:33 , ILE G:35 , ALA G:36 , ARG G:57 , HIS G:60 , VAL G:64 , ILE G:65 , GLU G:122 , TYR G:123 , ASP G:340 , THR G:342 , ILE G:343 , VAL G:346 , HIS G:347 , ALA G:350 , LEU G:351 , TYR G:395 , ARG G:437 , GLY G:441 , PHE G:444 , HEM G:501 , CA G:507 , LYS H:103
binding site for residue HEM G 502
22
AE4
SOFTWARE
HIS G:207 , HIS G:257 , HIS G:258 , PEO G:505
binding site for residue CU G 503
23
AE5
SOFTWARE
SER G:119 , ALA G:124 , LEU G:126 , ASP G:131 , ASN G:179
binding site for residue CA G 504
24
AE6
SOFTWARE
HIS G:207 , VAL G:210 , HIS G:258 , HEM G:501 , CU G:503
binding site for residue PEO G 505
25
AE7
SOFTWARE
MET G:273 , ILE G:329 , LYS G:330 , THR G:331 , TYR I:72
binding site for residue PO4 G 506
26
AE8
SOFTWARE
ARG G:57 , GLU G:122 , HEM G:501 , HEM G:502 , SER H:102
binding site for residue CA G 507
27
AE9
SOFTWARE
ARG F:206 , PRO F:215 , SER F:263 , LEU F:264 , GLY I:265 , GLN I:266 , GLN I:269 , ARG I:275
binding site for residue FC6 I 401
28
AF1
SOFTWARE
GLU K:122 , TYR K:123 , TRP K:203 , VAL K:210 , LEU K:214 , HIS K:257 , LEU K:279 , SER K:283 , SER K:320 , GLY K:324 , PRO K:325 , MET K:327 , ALA K:328 , ASN K:333 , HIS K:337 , THR K:342 , HIS K:345 , VAL K:346 , GLY K:349 , HEM K:502 , CU K:503 , CA K:504 , PEO K:507 , SER L:102
binding site for residue HEM K 501
29
AF2
SOFTWARE
MET K:29 , GLY K:32 , VAL K:33 , ILE K:35 , ALA K:36 , LEU K:39 , ARG K:57 , HIS K:60 , THR K:61 , VAL K:64 , ILE K:65 , GLU K:122 , TYR K:123 , ASP K:340 , ILE K:343 , VAL K:346 , HIS K:347 , ALA K:350 , LEU K:351 , TYR K:395 , ARG K:437 , GLY K:441 , PHE K:444 , HEM K:501 , CA K:504 , LYS L:103
binding site for residue HEM K 502
30
AF3
SOFTWARE
HIS K:207 , HIS K:257 , HIS K:258 , HEM K:501 , PEO K:507
binding site for residue CU K 503
31
AF4
SOFTWARE
ARG K:57 , GLU K:122 , HEM K:501 , HEM K:502 , SER L:102
binding site for residue CA K 504
32
AF5
SOFTWARE
ALA K:124 , LEU K:126 , ASP K:131 , ASN K:179
binding site for residue CA K 505
33
AF6
SOFTWARE
MET K:273 , ILE K:329 , LYS K:330 , THR K:331 , TYR M:72
binding site for residue PO4 K 506
34
AF7
SOFTWARE
HIS K:207 , VAL K:210 , HIS K:258 , HEM K:501 , CU K:503
binding site for residue PEO K 507
35
AF8
SOFTWARE
ARG C:206 , PRO C:215 , SER C:263 , LEU C:264 , GLY M:265 , GLN M:266 , GLN M:269 , ARG M:275
binding site for residue FC6 M 401
36
AF9
SOFTWARE
PHE D:53 , LEU D:427 , TYR E:60 , GLU E:63 , GLY E:64 , VAL E:66 , GLY E:67 , CYS E:68 , HIS E:69 , THR E:105 , GLY E:106 , PRO E:107 , LEU E:109 , TYR E:116 , TRP E:120 , HIS E:121 , HIS E:124 , LEU E:125 , VAL E:132 , SER E:135 , MET E:137 , PRO E:138 , TYR E:140 , MET E:188 , ILE F:145
binding site for Di-peptide HEC E 301 and CYS E 65
37
AG1
SOFTWARE
PHE D:53 , LEU D:427 , GLU E:63 , CYS E:65 , VAL E:66 , GLY E:67 , HIS E:69 , LYS E:103 , ARG E:104 , THR E:105 , GLY E:106 , PRO E:107 , LEU E:109 , TYR E:116 , TRP E:120 , HIS E:121 , HIS E:124 , LEU E:125 , VAL E:132 , SER E:135 , MET E:137 , PRO E:138 , TYR E:140 , MET E:188 , ILE F:145
binding site for Di-peptide HEC E 301 and CYS E 68
38
AG2
SOFTWARE
ARG F:166 , ALA F:184 , ALA F:185 , MET F:186 , PRO F:187 , TRP F:189 , TYR F:229 , THR F:232 , ALA F:234 , VAL F:235 , CYS F:236 , HIS F:237 , LEU F:247 , GLY F:248 , ALA F:249 , PRO F:250 , TRP F:258 , ILE F:259 , TYR F:260 , LEU F:267 , THR F:270 , ILE F:271 , GLY F:277 , HEC F:402
binding site for Di-peptide HEC F 401 and CYS F 233
39
AG3
SOFTWARE
ARG F:166 , ALA F:184 , ALA F:185 , MET F:186 , PRO F:187 , TRP F:189 , THR F:232 , CYS F:233 , ALA F:234 , VAL F:235 , HIS F:237 , GLY F:238 , MET F:244 , LEU F:247 , GLY F:248 , ALA F:249 , PRO F:250 , TRP F:258 , ILE F:259 , TYR F:260 , LEU F:267 , THR F:270 , ILE F:271 , GLY F:277 , HEC F:402
binding site for Di-peptide HEC F 401 and CYS F 236
40
AG4
SOFTWARE
TYR E:116 , SER E:117 , PHE F:139 , TYR F:142 , SER F:144 , ILE F:145 , CYS F:146 , HIS F:147 , GLY F:156 , PRO F:158 , LEU F:160 , TRP F:165 , ARG F:166 , TRP F:167 , SER F:177 , ILE F:178 , ALA F:184 , GLY F:277 , GLN F:278 , MET F:279 , PRO F:280 , GLN F:282 , HEC F:401
binding site for Di-peptide HEC F 402 and CYS F 143
41
AG5
SOFTWARE
TYR E:116 , SER E:117 , CYS F:143 , SER F:144 , ILE F:145 , HIS F:147 , GLY F:148 , GLY F:156 , PHE F:157 , PRO F:158 , LEU F:160 , TRP F:165 , ARG F:166 , TRP F:167 , SER F:177 , ILE F:178 , ALA F:184 , GLY F:277 , GLN F:278 , MET F:279 , PRO F:280 , GLN F:282 , HEC F:401
binding site for Di-peptide HEC F 402 and CYS F 146
42
AG6
SOFTWARE
PHE G:53 , LEU G:427 , GLU H:63 , CYS H:65 , VAL H:66 , GLY H:67 , HIS H:69 , LYS H:103 , ARG H:104 , THR H:105 , GLY H:106 , PRO H:107 , LEU H:109 , TYR H:116 , TRP H:120 , HIS H:121 , HIS H:124 , LEU H:125 , VAL H:132 , SER H:135 , LYS H:136 , MET H:137 , PRO H:138 , TYR H:140 , MET H:188 , ILE I:145
binding site for Di-peptide HEC H 301 and CYS H 68
43
AG7
SOFTWARE
PHE G:53 , LEU G:427 , TYR H:60 , GLU H:63 , GLY H:64 , VAL H:66 , GLY H:67 , CYS H:68 , HIS H:69 , THR H:105 , GLY H:106 , PRO H:107 , LEU H:109 , TYR H:116 , TRP H:120 , HIS H:121 , HIS H:124 , LEU H:125 , VAL H:132 , SER H:135 , LYS H:136 , MET H:137 , PRO H:138 , TYR H:140 , MET H:188 , ILE I:145
binding site for Di-peptide HEC H 301 and CYS H 65
44
AG8
SOFTWARE
ILE C:183 , ARG I:166 , ALA I:184 , ALA I:185 , MET I:186 , PRO I:187 , TRP I:189 , TYR I:229 , THR I:232 , ALA I:234 , VAL I:235 , CYS I:236 , HIS I:237 , LEU I:247 , GLY I:248 , PRO I:250 , LEU I:252 , TRP I:258 , ILE I:259 , TYR I:260 , GLY I:261 , LEU I:267 , THR I:270 , ILE I:271 , GLY I:277 , HEC I:403
binding site for Di-peptide HEC I 402 and CYS I 233
45
AG9
SOFTWARE
ILE C:183 , ARG I:166 , ALA I:184 , ALA I:185 , MET I:186 , PRO I:187 , TRP I:189 , THR I:232 , CYS I:233 , ALA I:234 , VAL I:235 , HIS I:237 , GLY I:238 , MET I:244 , LEU I:247 , GLY I:248 , ALA I:249 , PRO I:250 , LEU I:252 , TRP I:258 , ILE I:259 , TYR I:260 , GLY I:261 , LEU I:267 , THR I:270 , ILE I:271 , GLY I:277 , HEC I:403
binding site for Di-peptide HEC I 402 and CYS I 236
46
AH1
SOFTWARE
TYR H:116 , TRP H:120 , TYR I:142 , CYS I:143 , SER I:144 , ILE I:145 , HIS I:147 , GLY I:148 , GLY I:156 , PHE I:157 , PRO I:158 , TRP I:165 , ARG I:166 , TRP I:167 , ILE I:174 , SER I:177 , ILE I:178 , ALA I:184 , GLY I:277 , GLN I:278 , MET I:279 , PRO I:280 , GLN I:282 , HEC I:402
binding site for Di-peptide HEC I 403 and CYS I 146
47
AH2
SOFTWARE
TYR H:116 , PHE I:139 , TYR I:142 , SER I:144 , ILE I:145 , CYS I:146 , HIS I:147 , GLY I:156 , PRO I:158 , TRP I:165 , ARG I:166 , TRP I:167 , ILE I:174 , SER I:177 , ILE I:178 , ALA I:184 , GLY I:277 , GLN I:278 , MET I:279 , PRO I:280 , GLN I:282 , HEC I:402
binding site for Di-peptide HEC I 403 and CYS I 143
48
AH3
SOFTWARE
PHE K:53 , LEU K:427 , GLU L:63 , CYS L:65 , VAL L:66 , GLY L:67 , HIS L:69 , LYS L:103 , ARG L:104 , THR L:105 , GLY L:106 , PRO L:107 , TYR L:116 , TRP L:120 , HIS L:121 , HIS L:124 , VAL L:132 , SER L:135 , MET L:137 , PRO L:138 , TYR L:140 , MET L:188
binding site for Di-peptide HEC L 301 and CYS L 68
49
AH4
SOFTWARE
PHE K:53 , LEU K:427 , TYR L:60 , GLU L:63 , GLY L:64 , VAL L:66 , GLY L:67 , CYS L:68 , HIS L:69 , THR L:105 , GLY L:106 , PRO L:107 , TYR L:116 , TRP L:120 , HIS L:121 , HIS L:124 , VAL L:132 , SER L:135 , MET L:137 , PRO L:138 , TYR L:140 , MET L:188
binding site for Di-peptide HEC L 301 and CYS L 65
50
AH5
SOFTWARE
ARG M:166 , ILE M:183 , ALA M:184 , ALA M:185 , MET M:186 , PRO M:187 , TRP M:189 , VAL M:205 , TYR M:229 , THR M:232 , ALA M:234 , VAL M:235 , CYS M:236 , HIS M:237 , LEU M:247 , GLY M:248 , PRO M:250 , LEU M:252 , TRP M:258 , ILE M:259 , TYR M:260 , GLY M:261 , LEU M:267 , THR M:270 , ILE M:271 , GLY M:277 , HEC M:403
binding site for Di-peptide HEC M 402 and CYS M 233
51
AH6
SOFTWARE
ARG M:166 , ILE M:183 , ALA M:184 , ALA M:185 , MET M:186 , PRO M:187 , TRP M:189 , VAL M:205 , THR M:232 , CYS M:233 , ALA M:234 , VAL M:235 , HIS M:237 , GLY M:238 , MET M:244 , LEU M:247 , GLY M:248 , ALA M:249 , PRO M:250 , LEU M:252 , TRP M:258 , ILE M:259 , TYR M:260 , GLY M:261 , LEU M:267 , THR M:270 , ILE M:271 , GLY M:277 , HEC M:403
binding site for Di-peptide HEC M 402 and CYS M 236
52
AH7
SOFTWARE
TYR L:116 , TYR M:142 , CYS M:143 , SER M:144 , ILE M:145 , HIS M:147 , GLY M:148 , GLY M:156 , PHE M:157 , PRO M:158 , LEU M:160 , TRP M:165 , ARG M:166 , TRP M:167 , ILE M:174 , SER M:177 , ILE M:178 , ALA M:184 , GLY M:277 , GLN M:278 , MET M:279 , PRO M:280 , GLN M:282 , HEC M:402
binding site for Di-peptide HEC M 403 and CYS M 146
53
AH8
SOFTWARE
TYR L:116 , PHE M:139 , TYR M:142 , SER M:144 , ILE M:145 , CYS M:146 , HIS M:147 , GLY M:156 , PRO M:158 , LEU M:160 , TRP M:165 , ARG M:166 , TRP M:167 , ILE M:174 , SER M:177 , ILE M:178 , ALA M:184 , GLY M:277 , GLN M:278 , MET M:279 , PRO M:280 , GLN M:282 , HEC M:402
binding site for Di-peptide HEC M 403 and CYS M 143
[
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 K
Chain L
Chain M
Chain N
Chain O
Chain P
Chain Q
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 (346 KB)
Header - Biol.Unit 1
Biol.Unit 2 (355 KB)
Header - Biol.Unit 2
Biol.Unit 3 (348 KB)
Header - Biol.Unit 3
Biol.Unit 4 (351 KB)
Header - Biol.Unit 4
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
5DJQ
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
