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5ADU
Asym. Unit
Info
Asym.Unit (594 KB)
Biol.Unit 1 (584 KB)
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(1)
Title
:
THE MECHANISM OF HYDROGEN ACTIVATION BY NIFE-HYDROGENASES
Authors
:
R. Evans, E. J. Brooke, S. A. Wehlin, E. Nomerotskaia, F. Sargent, S. B. C S. E. V. Phillips, F. A. Armstrong
Date
:
24 Aug 15 (Deposition) - 25 Nov 15 (Release) - 13 Jan 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.10
Chains
:
Asym. Unit : L,M,S,T
Biol. Unit 1: L,M,S,T (1x)
Keywords
:
Oxidoreductase, Nife-Hydrogenase, Hydrogen Lysis,
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. M. Evans, E. J. Brooke, S. A. Wehlin, E. Nomerotskaia, F. Sargent, S. B. Carr, S. E. Phillips, F. A. Armstrong
Mechanism Of Hydrogen Activation By [Nife] Hydrogenases.
Nat. Chem. Biol. V. 12 46 2016
[
close entry info
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Hetero Components
(10, 22)
Info
All Hetero Components
01a: CHLORIDE ION (CLa)
01b: CHLORIDE ION (CLb)
01c: CHLORIDE ION (CLc)
01d: CHLORIDE ION (CLd)
02a: S-HYDROXYCYSTEINE (CSOa)
02b: S-HYDROXYCYSTEINE (CSOb)
03a: FE3-S4 CLUSTER (F3Sa)
03b: FE3-S4 CLUSTER (F3Sb)
04a: CARBONMONOXIDE-(DICYANO) IRON (FCOa)
04b: CARBONMONOXIDE-(DICYANO) IRON (FCOb)
05a: DODECYL-BETA-D-MALTOSIDE (LMTa)
05b: DODECYL-BETA-D-MALTOSIDE (LMTb)
06a: MAGNESIUM ION (MGa)
06b: MAGNESIUM ION (MGb)
07a: NICKEL (II) ION (NIa)
07b: NICKEL (II) ION (NIb)
08a: FE4-S3 CLUSTER (SF3a)
08b: FE4-S3 CLUSTER (SF3b)
09a: IRON/SULFUR CLUSTER (SF4a)
09b: IRON/SULFUR CLUSTER (SF4b)
10a: SULFATE ION (SO4a)
10b: SULFATE ION (SO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
4
Ligand/Ion
CHLORIDE ION
2
CSO
2
Mod. Amino Acid
S-HYDROXYCYSTEINE
3
F3S
2
Ligand/Ion
FE3-S4 CLUSTER
4
FCO
2
Ligand/Ion
CARBONMONOXIDE-(DICYANO) IRON
5
LMT
2
Ligand/Ion
DODECYL-BETA-D-MALTOSIDE
6
MG
2
Ligand/Ion
MAGNESIUM ION
7
NI
2
Ligand/Ion
NICKEL (II) ION
8
SF3
2
Ligand/Ion
FE4-S3 CLUSTER
9
SF4
2
Ligand/Ion
IRON/SULFUR CLUSTER
10
SO4
2
Ligand/Ion
SULFATE ION
[
close Hetero Component info
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Sites
(20, 20)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CSO L:79 , VAL L:82 , HIS L:83 , ALA L:507 , PRO L:508 , ARG L:509 , VAL L:530 , PRO L:531 , THR L:532 , CYS L:579 , NI L:602 , HOH L:2073
BINDING SITE FOR RESIDUE FCO L 601
02
AC2
SOFTWARE
CYS L:76 , CSO L:79 , CYS L:576 , CYS L:579 , FCO L:601 , HOH L:2073
BINDING SITE FOR RESIDUE NI L 602
03
AC3
SOFTWARE
GLU L:57 , CYS L:528 , HIS L:582 , HOH L:2050 , HOH L:2051 , HOH L:2292
BINDING SITE FOR RESIDUE MG L 603
04
AC4
SOFTWARE
CSO M:79 , VAL M:82 , HIS M:83 , ALA M:507 , PRO M:508 , ARG M:509 , VAL M:530 , PRO M:531 , THR M:532 , CYS M:576 , CYS M:579 , NI M:602 , HOH M:2077
BINDING SITE FOR RESIDUE FCO M 601
05
AC5
SOFTWARE
CYS M:76 , CSO M:79 , CYS M:576 , CYS M:579 , FCO M:601 , HOH M:2077
BINDING SITE FOR RESIDUE NI M 602
06
AC6
SOFTWARE
GLU M:57 , CYS M:528 , HIS M:582 , HOH M:2052 , HOH M:2053 , HOH M:2288
BINDING SITE FOR RESIDUE MG M 603
07
AC7
SOFTWARE
ARG M:394 , ARG S:125
BINDING SITE FOR RESIDUE SO4 M 604
08
AC8
SOFTWARE
HIS S:187 , CYS S:190 , ARG S:193 , CYS S:215 , LEU S:216 , CYS S:221
BINDING SITE FOR RESIDUE SF4 S 401
09
AC9
SOFTWARE
THR S:226 , ASN S:228 , CYS S:230 , TRP S:235 , CYS S:249 , LEU S:250 , CYS S:252
BINDING SITE FOR RESIDUE F3S S 402
10
BC1
SOFTWARE
GLU S:16 , CYS S:17 , THR S:18 , CYS S:19 , THR S:114 , CYS S:115 , CYS S:120 , GLY S:148 , CYS S:149
BINDING SITE FOR RESIDUE SF3 S 403
11
BC2
SOFTWARE
ILE S:7 , TRP S:11 , MET S:163 , ASP S:167 , ARG S:168 , HOH S:2048 , HOH S:2145
BINDING SITE FOR RESIDUE LMT S 404
12
BC3
SOFTWARE
CYS S:120 , GLY S:256
BINDING SITE FOR RESIDUE CL S 405
13
BC4
SOFTWARE
ILE S:12 , HIS S:13 , ASP S:46 , LYS S:98 , HOH S:2003
BINDING SITE FOR RESIDUE CL S 406
14
BC5
SOFTWARE
ASN L:481 , LEU L:482 , ALA L:483 , ARG S:211
BINDING SITE FOR RESIDUE SO4 S 407
15
BC6
SOFTWARE
HIS T:187 , CYS T:190 , ARG T:193 , CYS T:215 , LEU T:216 , CYS T:221
BINDING SITE FOR RESIDUE SF4 T 401
16
BC7
SOFTWARE
THR T:226 , ASN T:228 , CYS T:230 , TRP T:235 , PRO T:242 , CYS T:249 , LEU T:250 , CYS T:252
BINDING SITE FOR RESIDUE F3S T 402
17
BC8
SOFTWARE
GLU T:16 , CYS T:17 , CYS T:19 , THR T:114 , CYS T:115 , CYS T:120 , GLY T:148 , CYS T:149
BINDING SITE FOR RESIDUE SF3 T 403
18
BC9
SOFTWARE
ILE T:7 , MET T:163
BINDING SITE FOR RESIDUE LMT T 404
19
CC1
SOFTWARE
CYS T:120 , GLY T:256 , HOH T:2042
BINDING SITE FOR RESIDUE CL T 405
20
CC2
SOFTWARE
ILE T:12 , HIS T:13 , ASP T:46 , LYS T:98
BINDING SITE FOR RESIDUE CL T 406
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
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Info
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Exons
(0, 0)
Info
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
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CATH Domains
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Pfam Domains
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Asymmetric Unit 1
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select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
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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)
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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") .
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Asym.Unit (594 KB)
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