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2DBR
Asym. Unit
Info
Asym.Unit (340 KB)
Biol.Unit 1 (115 KB)
Biol.Unit 2 (116 KB)
Biol.Unit 3 (115 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF GLYOXYLATE REDUCTASE (PH0597) FROM PYROCOCCUS HORIKOSHII OT3, COMPLEXED WITH NADP (P1)
Authors
:
S. Yoshikawa, R. Arai, Y. Kinoshita, T. Uchikubo-Kamo, R. Akasaka, T. T M. Shirouzu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
16 Dec 05 (Deposition) - 16 Jun 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.61
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Keywords
:
Glyoxylate Reductase, D-3-Phosphoglycerate Dehydrogenase, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Yoshikawa, R. Arai, Y. Kinoshita, T. Uchikubo-Kamo, T. Wakamatsu, R. Akasaka, R. Masui, T. Terada, S. Kuramitsu, M. Shirouzu, S. Yokoyam
Structure Of Archaeal Glyoxylate Reductase From Pyrococcus Horikoshii Ot3 Complexed With Nicotinamide Adenine Dinucleotide Phosphate.
Acta Crystallogr. , Sect. D V. 63 357 2007
[
close entry info
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Hetero Components
(2, 18)
Info
All Hetero Components
1a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
1b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
1c: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPc)
1d: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPd)
1e: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPe)
1f: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPf)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
2j: SULFATE ION (SO4j)
2k: SULFATE ION (SO4k)
2l: SULFATE ION (SO4l)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NAP
6
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2
SO4
12
Ligand/Ion
SULFATE ION
[
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]
Sites
(18, 18)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:78 , ASN A:95 , ARG A:160 , NAP A:401
BINDING SITE FOR RESIDUE SO4 A 501
02
AC2
SOFTWARE
TYR C:78 , ASN C:95 , ARG C:160
BINDING SITE FOR RESIDUE SO4 C 502
03
AC3
SOFTWARE
TYR B:78 , ASN B:95 , ARG B:160 , NAP B:402 , HOH B:513
BINDING SITE FOR RESIDUE SO4 B 503
04
AC4
SOFTWARE
TYR D:78 , ASN D:95 , ARG D:160 , HOH D:524
BINDING SITE FOR RESIDUE SO4 D 504
05
AC5
SOFTWARE
TYR E:78 , ASN E:95 , ARG E:160 , VAL E:321
BINDING SITE FOR RESIDUE SO4 E 505
06
AC6
SOFTWARE
TYR F:78 , ASN F:95 , ARG F:160
BINDING SITE FOR RESIDUE SO4 F 506
07
AC7
SOFTWARE
LEU A:53 , ALA A:75 , VAL A:76 , GLY A:77 , ARG A:241 , HIS A:288 , NAP A:401
BINDING SITE FOR RESIDUE SO4 A 507
08
AC8
SOFTWARE
LEU C:53 , ALA C:75 , VAL C:76 , GLY C:77 , ARG C:241 , HIS C:288 , NAP C:403
BINDING SITE FOR RESIDUE SO4 C 508
09
AC9
SOFTWARE
LEU B:53 , ALA B:75 , VAL B:76 , GLY B:77 , ARG B:241 , NAP B:402
BINDING SITE FOR RESIDUE SO4 B 509
10
BC1
SOFTWARE
LEU D:53 , ALA D:75 , VAL D:76 , LEU D:100 , ARG D:241 , NAP D:404
BINDING SITE FOR RESIDUE SO4 D 510
11
BC2
SOFTWARE
LEU E:53 , ALA E:75 , VAL E:76 , GLY E:77 , LEU E:100 , ARG E:241 , HIS E:288 , NAP E:405
BINDING SITE FOR RESIDUE SO4 E 511
12
BC3
SOFTWARE
LEU F:53 , ALA F:75 , VAL F:76 , GLY F:77 , ARG F:241 , SER F:291 , NAP F:406
BINDING SITE FOR RESIDUE SO4 F 512
13
BC4
SOFTWARE
VAL A:76 , THR A:104 , LEU A:158 , GLY A:159 , ARG A:160 , ILE A:161 , SER A:180 , ARG A:181 , PRO A:213 , THR A:218 , ILE A:239 , ALA A:240 , ARG A:241 , ASP A:265 , HIS A:288 , GLY A:290 , SER A:291 , SO4 A:501 , SO4 A:507 , HOH A:508 , LYS C:42
BINDING SITE FOR RESIDUE NAP A 401
14
BC5
SOFTWARE
VAL B:76 , GLY B:77 , THR B:104 , LEU B:158 , GLY B:159 , ARG B:160 , ILE B:161 , SER B:180 , ARG B:181 , ALA B:211 , VAL B:212 , PRO B:213 , THR B:218 , ILE B:239 , ALA B:240 , ARG B:241 , ASP B:265 , VAL B:266 , HIS B:288 , GLY B:290 , SER B:291 , SO4 B:503 , SO4 B:509 , HOH B:511 , HOH B:513 , HOH B:520 , LYS D:42
BINDING SITE FOR RESIDUE NAP B 402
15
BC6
SOFTWARE
VAL C:76 , GLY C:77 , THR C:104 , GLY C:157 , LEU C:158 , GLY C:159 , ARG C:160 , ILE C:161 , TYR C:179 , SER C:180 , ARG C:181 , THR C:182 , VAL C:212 , PRO C:213 , THR C:218 , ILE C:239 , ALA C:240 , ARG C:241 , ASP C:265 , HIS C:288 , GLY C:290 , SER C:291 , SO4 C:508 , HOH C:513
BINDING SITE FOR RESIDUE NAP C 403
16
BC7
SOFTWARE
VAL D:76 , LEU D:100 , THR D:104 , LEU D:158 , GLY D:159 , ARG D:160 , ILE D:161 , SER D:180 , ARG D:181 , THR D:182 , PRO D:213 , GLU D:217 , THR D:218 , ILE D:239 , ALA D:240 , ARG D:241 , ASP D:265 , VAL D:266 , HIS D:288 , GLY D:290 , SER D:291 , SO4 D:510 , HOH D:516
BINDING SITE FOR RESIDUE NAP D 404
17
BC8
SOFTWARE
VAL E:76 , GLY E:77 , THR E:104 , GLY E:157 , LEU E:158 , GLY E:159 , ARG E:160 , ILE E:161 , TYR E:179 , SER E:180 , ARG E:181 , THR E:182 , LYS E:184 , ALA E:211 , VAL E:212 , PRO E:213 , THR E:218 , ILE E:239 , ARG E:241 , ASP E:265 , VAL E:266 , HIS E:288 , GLY E:290 , SER E:291 , SO4 E:511 , HOH E:514
BINDING SITE FOR RESIDUE NAP E 405
18
BC9
SOFTWARE
VAL F:76 , THR F:104 , LEU F:158 , GLY F:159 , ARG F:160 , ILE F:161 , SER F:180 , ARG F:181 , THR F:182 , LYS F:184 , ALA F:211 , PRO F:213 , THR F:218 , ILE F:239 , ALA F:240 , ARG F:241 , ASP F:265 , VAL F:266 , HIS F:288 , GLY F:290 , SER F:291 , SO4 F:512 , HOH F:515
BINDING SITE FOR RESIDUE NAP F 406
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 12)
Info
All PROSITE Patterns/Profiles
1: D_2_HYDROXYACID_DH_1 (A:153-180,B:153-180,C:153-180,D:15...)
2: D_2_HYDROXYACID_DH_3 (A:230-246,B:230-246,C:230-246,D:23...)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
D_2_HYDROXYACID_DH_1
PS00065
D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature.
GYAR_PYRHO
153-180
6
A:153-180
B:153-180
C:153-180
D:153-180
E:153-180
F:153-180
2
D_2_HYDROXYACID_DH_3
PS00671
D-isomer specific 2-hydroxyacid dehydrogenases signature 3.
GYAR_PYRHO
230-246
6
A:230-246
B:230-246
C:230-246
D:230-246
E:230-246
F:230-246
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Exons
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