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1Z1N
Asym. Unit
Info
Asym.Unit (118 KB)
Biol.Unit 1 (104 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE SIXTEEN HEME CYTOCHROME FROM DESULFOVIBRIO GIGAS
Authors
:
T. Santos-Silva, J. M. Dias, M. J. Romao
Date
:
04 Mar 05 (Deposition) - 04 Apr 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : X
Biol. Unit 1: X (1x)
Keywords
:
Electron Transport
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Santos-Silva, J. M. Dias, M. J. Romao
Crystal Structure Of The Sixteen Heme Cytochrome From Desulfovibrio Gigas
To Be Published
[
close entry info
]
Hetero Components
(5, 26)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
2a: HEME C (HECa)
2b: HEME C (HECb)
2c: HEME C (HECc)
2d: HEME C (HECd)
2e: HEME C (HECe)
2f: HEME C (HECf)
2g: HEME C (HECg)
2h: HEME C (HECh)
2i: HEME C (HECi)
2j: HEME C (HECj)
2k: HEME C (HECk)
2l: HEME C (HECl)
2m: HEME C (HECm)
2n: HEME C (HECn)
2o: HEME C (HECo)
2p: HEME C (HECp)
3a: N-ACETYL-D-ALLOSAMINE (NAAa)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
5c: ZINC ION (ZNc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
5
Ligand/Ion
GLYCEROL
2
HEC
16
Ligand/Ion
HEME C
3
NAA
1
Ligand/Ion
N-ACETYL-D-ALLOSAMINE
4
NAG
1
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
5
ZN
3
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(26, 26)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR X:259 , ASN X:261 , NAA X:901 , HOH X:974 , HOH X:1138 , HOH X:1294
BINDING SITE FOR RESIDUE NAG X 900
02
AC2
SOFTWARE
NAG X:900 , HOH X:1078
BINDING SITE FOR RESIDUE NAA X 901
03
AC3
SOFTWARE
HIS X:454 , HOH X:1034 , HOH X:1035 , HOH X:1036 , HOH X:1229 , HOH X:1264
BINDING SITE FOR RESIDUE ZN X 701
04
AC4
SOFTWARE
GLU X:387 , GLU X:390 , HOH X:1303 , HOH X:1304 , HOH X:1305
BINDING SITE FOR RESIDUE ZN X 702
05
AC5
SOFTWARE
MET X:421 , TRP X:428 , HEC X:616 , HOH X:1046 , HOH X:1311 , HOH X:1312
BINDING SITE FOR RESIDUE ZN X 703
06
AC6
SOFTWARE
ILE X:16 , ILE X:18 , PHE X:34 , HIS X:36 , HIS X:39 , THR X:40 , LEU X:43 , CYS X:50 , CYS X:53 , HIS X:54 , PHE X:63 , LYS X:64 , PHE X:65 , ARG X:67 , TYR X:81 , ARG X:196 , HIS X:200 , VAL X:220 , LEU X:221 , HEC X:602 , HEC X:607 , HOH X:977
BINDING SITE FOR RESIDUE HEC X 601
07
AC7
SOFTWARE
PHE X:34 , LYS X:38 , HIS X:39 , LEU X:43 , CYS X:53 , PHE X:65 , CYS X:85 , CYS X:88 , HIS X:89 , TYR X:96 , PRO X:100 , ARG X:107 , HEC X:601 , HOH X:902 , HOH X:1098
BINDING SITE FOR RESIDUE HEC X 602
08
AC8
SOFTWARE
ILE X:18 , ASP X:19 , THR X:20 , ALA X:21 , LEU X:27 , GLU X:28 , GLN X:29 , VAL X:32 , LYS X:74 , TYR X:81 , HIS X:82 , MET X:86 , ALA X:102 , GLU X:104 , CYS X:105 , CYS X:108 , HIS X:109 , PHE X:487 , GLN X:488 , HOH X:1067 , HOH X:1105
BINDING SITE FOR RESIDUE HEC X 603
09
AC9
SOFTWARE
SER X:124 , LEU X:125 , HIS X:130 , HIS X:133 , SER X:148 , CYS X:149 , CYS X:152 , HIS X:153 , GLU X:170 , GLY X:171 , SER X:172 , CYS X:173 , ARG X:245 , ASN X:289 , CYS X:290 , VAL X:291 , HEC X:605 , HEC X:606 , HOH X:998 , HOH X:1012 , HOH X:1018
BINDING SITE FOR RESIDUE HEC X 604
10
BC1
SOFTWARE
CYS X:152 , HIS X:154 , THR X:155 , TYR X:156 , CYS X:173 , CYS X:176 , HIS X:177 , SER X:184 , ARG X:190 , ALA X:198 , GLU X:201 , SER X:202 , HEC X:604 , HOH X:1026 , HOH X:1137 , HOH X:1232
BINDING SITE FOR RESIDUE HEC X 605
11
BC2
SOFTWARE
LEU X:125 , ARG X:132 , HIS X:133 , ALA X:136 , CYS X:203 , CYS X:206 , HIS X:207 , GLU X:216 , GLY X:218 , PRO X:219 , TRP X:234 , LYS X:235 , HEC X:604 , HOH X:1232 , HOH X:1300
BINDING SITE FOR RESIDUE HEC X 606
12
BC3
SOFTWARE
VAL X:13 , ILE X:16 , HIS X:36 , LYS X:122 , PRO X:123 , THR X:195 , ARG X:196 , SER X:199 , HIS X:200 , CYS X:203 , HIS X:207 , PRO X:219 , VAL X:220 , LEU X:221 , CYS X:222 , CYS X:225 , HIS X:226 , HEC X:601 , HOH X:994 , HOH X:1108 , HOH X:1157 , HOH X:1288
BINDING SITE FOR RESIDUE HEC X 607
13
BC4
SOFTWARE
LEU X:243 , ARG X:245 , GLN X:247 , PRO X:248 , THR X:251 , LEU X:253 , HIS X:280 , HIS X:283 , GLU X:284 , VAL X:287 , ASN X:289 , CYS X:290 , CYS X:293 , HIS X:294 , LEU X:303 , CYS X:306 , LYS X:386 , ARG X:389 , GOL X:804 , HOH X:1013 , HOH X:1147
BINDING SITE FOR RESIDUE HEC X 608
14
BC5
SOFTWARE
GLY X:94 , CYS X:293 , HIS X:294 , HIS X:295 , PRO X:296 , THR X:297 , GLN X:298 , SER X:302 , CYS X:306 , CYS X:310 , HIS X:311 , ASP X:318 , ASN X:320 , SER X:327 , GLN X:330 , THR X:335 , GOL X:805 , HOH X:1096
BINDING SITE FOR RESIDUE HEC X 609
15
BC6
SOFTWARE
VAL X:276 , PHE X:278 , ASP X:279 , HIS X:283 , PHE X:286 , VAL X:287 , THR X:292 , CYS X:293 , THR X:334 , CYS X:337 , CYS X:340 , HIS X:341 , GLN X:344 , ARG X:348 , SER X:449 , PRO X:450 , MET X:451 , HIS X:454 , PHE X:455 , HOH X:973 , HOH X:1011 , HOH X:1014 , HOH X:1196 , HOH X:1252 , HOH X:1264
BINDING SITE FOR RESIDUE HEC X 610
16
BC7
SOFTWARE
GLU X:350 , CYS X:351 , CYS X:354 , HIS X:355 , MET X:358 , SER X:364 , ASN X:366 , SER X:367 , SER X:449 , ALA X:452 , PHE X:455 , HIS X:456 , THR X:461 , MET X:462 , SER X:464 , GLY X:465 , HOH X:1040 , HOH X:1162 , HOH X:1211
BINDING SITE FOR RESIDUE HEC X 611
17
BC8
SOFTWARE
LEU X:253 , VAL X:254 , ALA X:255 , ALA X:270 , PRO X:273 , VAL X:276 , THR X:313 , THR X:324 , ALA X:328 , HIS X:329 , CYS X:337 , LEU X:363 , SER X:364 , SER X:367 , CYS X:368 , CYS X:371 , HIS X:372 , PHE X:455 , GOL X:804 , HOH X:1052 , HOH X:1055
BINDING SITE FOR RESIDUE HEC X 612
18
BC9
SOFTWARE
VAL X:407 , VAL X:412 , PRO X:413 , LEU X:416 , TYR X:420 , PHE X:433 , HIS X:435 , ILE X:438 , TYR X:439 , CYS X:463 , CYS X:466 , HIS X:467 , LEU X:474 , PRO X:476 , LYS X:478 , CYS X:479 , HEC X:615 , HOH X:946 , HOH X:987 , HOH X:1304
BINDING SITE FOR RESIDUE HEC X 613
19
CC1
SOFTWARE
HIS X:468 , ASN X:469 , LYS X:478 , CYS X:479 , CYS X:482 , HIS X:483 , ASN X:493 , ALA X:500 , GLN X:504 , GOL X:803 , HOH X:945 , HOH X:1041 , HOH X:1087
BINDING SITE FOR RESIDUE HEC X 614
20
CC2
SOFTWARE
LEU X:418 , PHE X:433 , PRO X:434 , LYS X:437 , ILE X:438 , LYS X:441 , GLN X:504 , CYS X:505 , CYS X:508 , HIS X:509 , PRO X:516 , HEC X:613 , HOH X:1016 , HOH X:1231
BINDING SITE FOR RESIDUE HEC X 615
21
CC3
SOFTWARE
LEU X:418 , ASN X:419 , TYR X:420 , MET X:421 , ASP X:426 , GLU X:427 , TRP X:428 , LYS X:498 , HIS X:502 , ILE X:506 , HIS X:509 , LYS X:517 , ALA X:518 , CYS X:521 , CYS X:524 , HIS X:525 , ZN X:703 , HOH X:1046 , HOH X:1311 , HOH X:1312
BINDING SITE FOR RESIDUE HEC X 616
22
CC4
SOFTWARE
ASP X:19 , HOH X:1306
BINDING SITE FOR RESIDUE GOL X 801
23
CC5
SOFTWARE
ASN X:346 , LYS X:360 , GLU X:511 , HOH X:1307
BINDING SITE FOR RESIDUE GOL X 802
24
CC6
SOFTWARE
PRO X:357 , HIS X:468 , HEC X:614 , HOH X:1042 , HOH X:1154
BINDING SITE FOR RESIDUE GOL X 803
25
CC7
SOFTWARE
VAL X:254 , GLY X:256 , ARG X:389 , HEC X:608 , HEC X:612
BINDING SITE FOR RESIDUE GOL X 804
26
CC8
SOFTWARE
PRO X:296 , HEC X:609 , HOH X:1228
BINDING SITE FOR RESIDUE GOL X 805
[
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:
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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
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1z1nx_ (X:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Multiheme cytochromes
(149)
Superfamily
:
Multiheme cytochromes
(149)
Family
:
automated matches
(6)
Protein domain
:
automated matches
(6)
Desulfovibrio gigas [TaxId: 879]
(1)
1a
d1z1nx_
X:
[
close SCOP info
]
CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_1z1nX02 (X:117-235)
1b: CATH_1z1nX01 (X:11-109)
1c: CATH_1z1nX04 (X:334-370,X:403-530)
View:
Select:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Cytochrome C3
(62)
Homologous Superfamily
:
Cytochrome C3
(62)
Desulfovibrio gigas. Organism_taxid: 879
(3)
1a
1z1nX02
X:117-235
1b
1z1nX01
X:11-109
1c
1z1nX04
X:334-370,X:403-530
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
[
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Atom Selection
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Protein & NOT Site
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