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3F29
Biol. Unit 1
Info
Asym.Unit (223 KB)
Biol.Unit 1 (611 KB)
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(1)
Title
:
STRUCTURE OF THE THIOALKALIVIBRIO NITRATIREDUCENS CYTOCHROME C NITRITE REDUCTASE IN COMPLEX WITH SULFITE
Authors
:
A. A. Trofimov, K. M. Polyakov, K. M. Boyko, A. Slutsky, T. V. Tikhonova, A. N. Antipov, R. A. Zvyagilskaya, A. N. Popov, V. S. Lamzin, G. P. Boure V. O. Popov
Date
:
29 Oct 08 (Deposition) - 09 Dec 08 (Release) - 22 Oct 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (3x)
Keywords
:
Alpha Protein, Eight Hemes C, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. A. Trofimov, K. M. Polyakov, T. V. Tikhonova, V. O. Popov
Binding Of Sulfite By The Thioalkalivibrio Nitratireducens Cytochrome C Nitrite Reductase
To Be Published
[
close entry info
]
Hetero Components
(4, 99)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
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: TETRAETHYLENE GLYCOL (PG4a)
3b: TETRAETHYLENE GLYCOL (PG4b)
3c: TETRAETHYLENE GLYCOL (PG4c)
3d: TETRAETHYLENE GLYCOL (PG4d)
3e: TETRAETHYLENE GLYCOL (PG4e)
3f: TETRAETHYLENE GLYCOL (PG4f)
3g: TETRAETHYLENE GLYCOL (PG4g)
3h: TETRAETHYLENE GLYCOL (PG4h)
3i: TETRAETHYLENE GLYCOL (PG4i)
3j: TETRAETHYLENE GLYCOL (PG4j)
3k: TETRAETHYLENE GLYCOL (PG4k)
4a: 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-ME... (PG6a)
4b: 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-ME... (PG6b)
4c: 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-ME... (PG6c)
5a: SULFITE ION (SO3a)
5b: SULFITE ION (SO3b)
5c: SULFITE ION (SO3c)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
HEC
48
Ligand/Ion
HEME C
3
PG4
33
Ligand/Ion
TETRAETHYLENE GLYCOL
4
PG6
9
Ligand/Ion
1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE
5
SO3
9
Ligand/Ion
SULFITE 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: 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)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:113 , ALA A:114 , ASP A:125 , HIS A:126 , VAL A:129 , ARG A:131 , CYS A:184 , CYS A:187 , LYS A:188 , ARG A:242 , CYS A:299 , HIS A:300 , TYR A:303 , CYS A:305 , HIS A:361 , ASN A:486 , SO3 A:526 , HOH A:536 , HOH A:553 , HOH A:672 , HOH A:673 , HOH A:679 , HOH A:688 , HEC A:1006
BINDING SITE FOR RESIDUE HEC A 1004
02
AC2
SOFTWARE
HIS A:70 , GLN A:73 , LEU A:225 , ASN A:226 , CYS A:227 , CYS A:230 , HIS A:231 , MET A:384 , TYR A:395 , THR A:396 , HIS A:398 , HOH A:646 , HOH A:755 , HOH A:776 , HOH A:939 , HOH A:973 , HEC A:1003 , HEC A:1006 , HOH A:1024
BINDING SITE FOR RESIDUE HEC A 1005
03
AC3
SOFTWARE
SER A:84 , PRO A:116 , ARG A:117 , HIS A:119 , PHE A:121 , MET A:122 , ASP A:125 , CYS A:187 , LYS A:188 , MET A:229 , CYS A:296 , CYS A:299 , HIS A:300 , HIS A:383 , MET A:384 , CA A:528 , HOH A:544 , HOH A:560 , HOH A:667 , HEC A:1004 , HEC A:1005 , HEC A:1007
BINDING SITE FOR RESIDUE HEC A 1006
04
AC4
SOFTWARE
HIS A:300 , GLU A:363 , PHE A:367 , HIS A:372 , ALA A:378 , CYS A:379 , CYS A:382 , HIS A:383 , THR A:402 , ARG A:404 , LYS A:431 , ASN A:486 , PHE A:490 , HIS A:491 , CA A:528 , HOH A:667 , HOH A:668 , HOH A:676 , HOH A:680 , HOH A:867 , HOH A:921 , HEC A:1006
BINDING SITE FOR RESIDUE HEC A 1007
05
AC5
SOFTWARE
ASN A:141 , TRP A:142 , GLN A:143 , VAL A:371 , HIS A:372 , PRO A:403 , ALA A:410 , CYS A:411 , CYS A:414 , HIS A:415 , TRP A:418 , ILE A:427 , PHE A:490 , HOH A:621 , HOH A:953
BINDING SITE FOR RESIDUE HEC A 1008
06
AC6
SOFTWARE
CYS A:14 , PHE A:15 , HIS A:18 , ILE A:21 , HIS A:25 , VAL A:33 , ASN A:34 , CYS A:35 , CYS A:38 , HIS A:39 , LEU A:194 , PHE A:228 , PRO A:233 , HIS A:234 , ARG A:239 , PHE A:274 , ARG A:276 , ARG A:282 , HOH A:613 , HOH A:877 , HOH A:996 , HEC A:1001 , HEC A:1003
BINDING SITE FOR RESIDUE HEC A 1002
07
AC7
SOFTWARE
LYS A:29 , HIS A:30 , HIS A:37 , ALA A:65 , CYS A:66 , THR A:68 , CYS A:69 , HIS A:70 , CYS A:227 , HIS A:231 , ALA A:236 , HOH A:805 , HOH A:841 , HOH A:924 , HOH A:925 , HEC A:1002 , HEC A:1005 , HOH A:1063 , HOH A:1076 , THR B:68
BINDING SITE FOR RESIDUE HEC A 1003
08
AC8
SOFTWARE
GLN A:13 , CYS A:14 , CYS A:17 , HIS A:18 , HIS A:39 , HIS A:44 , VAL A:45 , ALA A:48 , SER A:49 , SER A:50 , ARG A:52 , MET A:53 , ARG A:56 , PRO A:57 , THR A:59 , LEU A:194 , ARG A:276 , GLY A:277 , HOH A:616 , HOH A:644 , HOH A:880 , HOH A:997 , HEC A:1002
BINDING SITE FOR RESIDUE HEC A 1001
09
AC9
SOFTWARE
PHE A:109 , ARG A:131 , TYR A:303 , HIS A:361 , HOH A:536 , HOH A:679 , HOH A:688 , HOH A:984 , HEC A:1004
BINDING SITE FOR RESIDUE SO3 A 526
10
BC1
SOFTWARE
GLU A:302 , TYR A:303 , LYS A:358 , GLN A:360 , HOH A:758 , HOH A:759
BINDING SITE FOR RESIDUE CA A 527
11
BC2
SOFTWARE
PRO A:116 , HOH A:574 , HOH A:867 , HOH A:946 , HEC A:1006 , HEC A:1007
BINDING SITE FOR RESIDUE CA A 528
12
BC3
SOFTWARE
LEU A:311 , GLY A:314 , ARG A:348 , ALA A:355
BINDING SITE FOR RESIDUE PG6 A 529
13
BC4
SOFTWARE
ASP A:428 , LYS A:431 , ASN A:432 , HIS A:435 , HOH A:1031
BINDING SITE FOR RESIDUE PG4 A 530
14
BC5
SOFTWARE
GLN A:138 , PHE A:139 , TRP A:142
BINDING SITE FOR RESIDUE PG4 A 531
15
BC6
SOFTWARE
ARG A:171 , PHE A:172 , LEU A:173 , SER A:174
BINDING SITE FOR RESIDUE PG4 A 532
16
BC7
SOFTWARE
ARG A:60 , ASP A:62
BINDING SITE FOR RESIDUE PG4 A 534
17
BC8
SOFTWARE
ARG A:153
BINDING SITE FOR RESIDUE PG4 A 535
18
BC9
SOFTWARE
HIS B:113 , ALA B:114 , ASP B:125 , HIS B:126 , VAL B:129 , ARG B:131 , CYS B:184 , CYS B:187 , LYS B:188 , ARG B:242 , CYS B:299 , HIS B:300 , TYR B:303 , CYS B:305 , HIS B:361 , ASN B:486 , SO3 B:526 , HOH B:537 , HOH B:668 , HOH B:783 , HOH B:784 , HOH B:790 , HEC B:1006
BINDING SITE FOR RESIDUE HEC B 1004
19
CC1
SOFTWARE
HIS B:70 , GLN B:73 , LEU B:225 , ASN B:226 , CYS B:227 , CYS B:230 , HIS B:231 , MET B:384 , TYR B:395 , THR B:396 , HIS B:398 , HOH B:757 , HOH B:866 , HOH B:887 , HEC B:1003 , HEC B:1006 , HOH B:1056
BINDING SITE FOR RESIDUE HEC B 1005
20
CC2
SOFTWARE
SER B:84 , PRO B:116 , ARG B:117 , HIS B:119 , PHE B:121 , MET B:122 , ASP B:125 , CYS B:187 , LYS B:188 , MET B:229 , CYS B:296 , CYS B:299 , HIS B:300 , HIS B:383 , MET B:384 , CA B:528 , HOH B:659 , HOH B:675 , HOH B:778 , HEC B:1004 , HEC B:1005 , HEC B:1007
BINDING SITE FOR RESIDUE HEC B 1006
21
CC3
SOFTWARE
HIS B:300 , GLU B:363 , PHE B:367 , HIS B:372 , ALA B:378 , CYS B:379 , CYS B:382 , HIS B:383 , THR B:402 , ARG B:404 , LYS B:431 , ASN B:486 , PHE B:490 , HIS B:491 , CA B:528 , HOH B:778 , HOH B:779 , HOH B:787 , HOH B:791 , HOH B:976 , HEC B:1006 , HOH B:1038
BINDING SITE FOR RESIDUE HEC B 1007
22
CC4
SOFTWARE
ASN B:141 , TRP B:142 , GLN B:143 , VAL B:371 , HIS B:372 , PRO B:403 , ALA B:410 , CYS B:411 , CYS B:414 , HIS B:415 , TRP B:418 , ILE B:427 , PHE B:490 , HOH B:564 , HOH B:611 , HOH B:1070
BINDING SITE FOR RESIDUE HEC B 1008
23
CC5
SOFTWARE
CYS B:14 , PHE B:15 , HIS B:18 , ILE B:21 , HIS B:25 , VAL B:33 , ASN B:34 , CYS B:35 , CYS B:38 , HIS B:39 , ILE B:193 , LEU B:194 , PHE B:228 , PRO B:233 , HIS B:234 , ARG B:239 , PHE B:274 , ARG B:276 , ARG B:282 , HOH B:726 , HOH B:986 , HEC B:1001 , HEC B:1003
BINDING SITE FOR RESIDUE HEC B 1002
24
CC6
SOFTWARE
HIS A:37 , THR A:68 , LYS B:29 , HIS B:30 , HIS B:37 , ALA B:65 , CYS B:66 , THR B:68 , CYS B:69 , HIS B:70 , CYS B:227 , HIS B:231 , ALA B:236 , HOH B:551 , HOH B:643 , HOH B:654 , HOH B:916 , HOH B:950 , HEC B:1002 , HEC B:1005 , HOH B:1041 , HOH B:1042
BINDING SITE FOR RESIDUE HEC B 1003
25
CC7
SOFTWARE
GLN B:13 , CYS B:14 , CYS B:17 , HIS B:18 , HIS B:39 , HIS B:44 , VAL B:45 , ALA B:48 , SER B:49 , SER B:50 , ARG B:51 , ARG B:52 , MET B:53 , ARG B:56 , PRO B:57 , THR B:59 , GLN B:275 , ARG B:276 , HOH B:567 , HOH B:583 , HOH B:729 , HOH B:755 , HOH B:986 , HEC B:1002 , HOH B:1015 , HOH B:1085
BINDING SITE FOR RESIDUE HEC B 1001
26
CC8
SOFTWARE
PHE B:109 , ARG B:131 , TYR B:303 , GLN B:360 , HIS B:361 , HOH B:537 , HOH B:790 , HOH B:799 , HEC B:1004
BINDING SITE FOR RESIDUE SO3 B 526
27
CC9
SOFTWARE
GLU B:302 , TYR B:303 , LYS B:358 , GLN B:360 , HOH B:869 , HOH B:870
BINDING SITE FOR RESIDUE CA B 527
28
DC1
SOFTWARE
PRO B:116 , HOH B:688 , HOH B:976 , HEC B:1006 , HEC B:1007 , HOH B:1063
BINDING SITE FOR RESIDUE CA B 528
29
DC2
SOFTWARE
SER B:50 , HOH B:641
BINDING SITE FOR RESIDUE SO3 B 529
30
DC3
SOFTWARE
LEU B:311 , GLY B:314 , ARG B:348
BINDING SITE FOR RESIDUE PG6 B 530
31
DC4
SOFTWARE
HIS B:435
BINDING SITE FOR RESIDUE PG6 B 531
32
DC5
SOFTWARE
GLN B:138 , PHE B:139 , TRP B:142 , HOH B:578 , HOH B:636
BINDING SITE FOR RESIDUE PG4 B 532
33
DC6
SOFTWARE
ARG B:171 , PHE B:172
BINDING SITE FOR RESIDUE PG4 B 533
34
DC7
SOFTWARE
ARG B:60 , ASP B:62
BINDING SITE FOR RESIDUE PG4 B 535
35
DC8
SOFTWARE
PRO B:307 , GLY B:308 , TYR B:309 , ARG B:316
BINDING SITE FOR RESIDUE PG4 B 536
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(1, 6)
Info
All PROSITE Patterns/Profiles
1: MULTIHEME_CYTC (A:9-420,B:9-420)
;
View:
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MULTIHEME_CYTC
PS51008
Multiheme cytochrome c family profile.
NIR_THIND
37-448
6
A:9-420
B:9-420
[
close PROSITE info
]
Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
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CATH Domains
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Pfam Domains
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