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5V7N
Biol. Unit 2
Info
Asym.Unit (439 KB)
Biol.Unit 1 (216 KB)
Biol.Unit 2 (215 KB)
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Title
:
CRYSTAL STRUCTURE OF NADPH-DEPENDENT GLYOXYLATE/HYDROXYPYRUVATE REDUCTASE SMC04462 (SMGHRB) FROM SINORHIZOBIUM MELILOTI IN COMPLEX WITH NADP AND 2-KETO-D-GLUCONIC ACID
Authors
:
I. G. Shabalin, K. B. Handing, C. D. Miks, J. Kutner, D. Matelska, J. Bona S. C. Almo, W. Minor, New York Structural Genomics Research Cons (Nysgrc)
Date
:
20 Mar 17 (Deposition) - 29 Mar 17 (Release) - 29 Mar 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.75
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Nadph-Dependent Glyoxylate/Hydroxypyruvate Reductase, Nadp, Nysgrc, Sinorhizobium Meliloti, Structural Genomics, Psi-Biology, New York Structural Genomics Research Consortium, Oxidoreductase
(Keyword Search:
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Reference
:
I. G. Shabalin, K. B. Handing, W. Minor
Evolutionary, Biochemical, And Structural Studies On D-2-Hydroxyacid Dehydrogenases From Sinorhizium Meliloti 1021 Indicate A Subdivision Of The Glyoxylate/Hydroxypyruvate Reductases
To Be Published
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Hetero Components
(4, 6)
Info
All Hetero Components
1a: 2-KETO-D-GLUCONIC ACID (8YVa)
1b: 2-KETO-D-GLUCONIC ACID (8YVb)
1c: 2-KETO-D-GLUCONIC ACID (8YVc)
1d: 2-KETO-D-GLUCONIC ACID (8YVd)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
2f: CHLORIDE ION (CLf)
2g: CHLORIDE ION (CLg)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
4a: MAGNESIUM ION (MGa)
4b: MAGNESIUM ION (MGb)
4c: MAGNESIUM ION (MGc)
4d: MAGNESIUM ION (MGd)
4e: MAGNESIUM ION (MGe)
4f: MAGNESIUM ION (MGf)
4g: MAGNESIUM ION (MGg)
6a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
6b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
6c: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPc)
6d: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPd)
5a: SODIUM ION (NAa)
5b: SODIUM ION (NAb)
5c: SODIUM ION (NAc)
5d: SODIUM ION (NAd)
7a: DI(HYDROXYETHYL)ETHER (PEGa)
7b: DI(HYDROXYETHYL)ETHER (PEGb)
8a: TETRAETHYLENE GLYCOL (PG4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
8YV
2
Ligand/Ion
2-KETO-D-GLUCONIC ACID
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
GOL
1
Ligand/Ion
GLYCEROL
4
MG
-1
Ligand/Ion
MAGNESIUM ION
5
NA
-1
Ligand/Ion
SODIUM ION
6
NAP
2
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
7
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
8
PG4
-1
Ligand/Ion
TETRAETHYLENE GLYCOL
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Sites
(14, 14)
Info
All Sites
01: AD9 (SOFTWARE)
02: AE1 (SOFTWARE)
03: AE2 (SOFTWARE)
04: AE3 (SOFTWARE)
05: AE4 (SOFTWARE)
06: AE5 (SOFTWARE)
07: AE6 (SOFTWARE)
08: AE7 (SOFTWARE)
09: AE8 (SOFTWARE)
10: AE9 (SOFTWARE)
11: AF1 (SOFTWARE)
12: AF2 (SOFTWARE)
13: AF3 (SOFTWARE)
14: AF4 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AD9
SOFTWARE
VAL C:72 , VAL C:100 , PHE C:148 , GLY C:149 , LEU C:150 , GLY C:151 , ARG C:152 , ILE C:153 , THR C:172 , ARG C:173 , THR C:174 , ILE C:200 , VAL C:201 , PRO C:202 , SER C:206 , THR C:207 , VAL C:228 , GLY C:229 , ARG C:230 , ASP C:254 , HIS C:277 , ALA C:279 , 8YV C:402 , MG C:405 , HOH C:505 , HOH C:506 , HOH C:511 , HOH C:512 , HOH C:529 , HOH C:533 , HOH C:547 , HOH C:550 , HOH C:558 , HOH C:565 , HOH C:598 , HOH C:617 , HOH C:618 , HOH C:626 , HOH C:628 , HOH C:629 , HOH C:654
binding site for residue NAP C 401
02
AE1
SOFTWARE
GLY C:51 , PHE C:70 , GLY C:71 , VAL C:72 , GLY C:73 , LEU C:96 , ARG C:230 , HIS C:277 , SER C:280 , ARG C:286 , MET C:289 , NAP C:401 , HOH C:514 , HOH C:548 , HOH C:602 , HOH C:624
binding site for residue 8YV C 402
03
AE2
SOFTWARE
ALA C:191 , GLU C:192 , VAL C:194 , ALA C:218 , LEU C:219 , HOH C:643
binding site for residue NA C 403
04
AE3
SOFTWARE
ASN C:13 , ARG C:286
binding site for residue CL C 404
05
AE4
SOFTWARE
NAP C:401 , HOH C:533 , HOH C:618 , HOH C:628 , HOH C:716 , HOH C:770
binding site for residue MG C 405
06
AE5
SOFTWARE
VAL D:72 , VAL D:100 , PHE D:148 , LEU D:150 , GLY D:151 , ARG D:152 , ILE D:153 , THR D:172 , ARG D:173 , THR D:174 , ILE D:200 , VAL D:201 , PRO D:202 , SER D:206 , THR D:207 , VAL D:228 , GLY D:229 , ARG D:230 , ASP D:254 , HIS D:277 , ALA D:279 , 8YV D:402 , MG D:408 , HOH D:519 , HOH D:533 , HOH D:535 , HOH D:536 , HOH D:537 , HOH D:550 , HOH D:557 , HOH D:562 , HOH D:566 , HOH D:577 , HOH D:591 , HOH D:620 , HOH D:629 , HOH D:636 , HOH D:651 , HOH D:676 , HOH D:684
binding site for residue NAP D 401
07
AE6
SOFTWARE
SER D:50 , GLY D:51 , PHE D:70 , GLY D:71 , VAL D:72 , GLY D:73 , LEU D:96 , ARG D:230 , HIS D:277 , SER D:280 , ARG D:286 , MET D:289 , NAP D:401 , HOH D:565 , HOH D:609 , HOH D:657
binding site for residue 8YV D 402
08
AE7
SOFTWARE
ALA D:191 , GLU D:192 , VAL D:194 , ALA D:218 , LEU D:219 , HOH D:705
binding site for residue NA D 403
09
AE8
SOFTWARE
VAL C:283 , GLU D:30 , PRO D:137 , LYS D:222 , HOH D:679
binding site for residue PEG D 404
10
AE9
SOFTWARE
ASN D:13 , ARG D:286 , HOH D:707 , HOH D:724
binding site for residue CL D 405
11
AF1
SOFTWARE
ALA D:34
binding site for residue CL D 406
12
AF2
SOFTWARE
VAL D:95 , THR D:285 , ALA D:288 , HOH D:517
binding site for residue GOL D 407
13
AF3
SOFTWARE
NAP D:401 , HOH D:519 , HOH D:620 , HOH D:684 , HOH D:692 , HOH D:770
binding site for residue MG D 408
14
AF4
SOFTWARE
HOH D:597 , HOH D:633 , HOH D:761 , HOH D:771 , HOH D:804
binding site for residue MG D 409
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SAPs(SNPs)/Variants
(0, 0)
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SCOP Domains
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Pfam Domains
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Asymmetric Unit 1
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select chains 'A' and 'C'
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (439 KB)
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Biol.Unit 1 (216 KB)
Header - Biol.Unit 1
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