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2EHQ
Asym. Unit
Info
Asym.Unit (196 KB)
Biol.Unit 1 (189 KB)
Biol.Unit 2 (561 KB)
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(1)
Title
:
CRYSTAL ANALYSIS OF 1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE FROM THERMUS WITH BOUND NADP
Authors
:
E. Inagaki, K. Sakamoto, S. Yokoyama, Riken Structural Genomics/Pr Initiative (Rsgi)
Date
:
07 Mar 07 (Deposition) - 01 May 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.55
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Biol. Unit 2: A,B (3x)
Keywords
:
Enzyme-Coenzyme Complex, 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
:
E. Inagaki, N. Ohshima, K. Sakamoto, N. D. Babayeva, H. Kato, S. Yokoyama, T. H. Tahirov
New Insights Into The Binding Mode Of Coenzymes: Structure Of Thermus Thermophilus Delta1-Pyrroline-5-Carboxylate Dehydrogenase Complexed With Nadp+.
Acta Crystallogr. , Sect. F V. 63 462 2007
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Hetero Components
(4, 15)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
2a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
2b: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDb)
2c: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDc)
2d: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDd)
2e: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDe)
2f: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDf)
2g: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDg)
4a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
4b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
4
Ligand/Ion
ACETATE ION
2
MPD
7
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
3
NA
2
Ligand/Ion
SODIUM ION
4
NAP
2
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
[
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Sites
(15, 15)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ALA A:245 , GLU A:249 , ILE A:268 , ALA A:271 , NAP A:1518 , HOH A:2034
BINDING SITE FOR RESIDUE ACT A 1519
02
AC2
SOFTWARE
ARG A:462 , PHE A:464 , HIS A:465 , HOH A:1808 , LYS B:510
BINDING SITE FOR RESIDUE ACT A 1520
03
AC3
SOFTWARE
SER A:55 , LEU A:56 , GLU A:123 , ASP A:211 , HOH A:1716 , HOH A:1851
BINDING SITE FOR RESIDUE NA A 1540
04
AC4
SOFTWARE
ALA B:245 , GLU B:249 , ILE B:268 , ALA B:271 , NAP B:2518 , HOH B:3040
BINDING SITE FOR RESIDUE ACT B 2519
05
AC5
SOFTWARE
LYS A:510 , ARG B:462 , PHE B:464 , HIS B:465 , HOH B:2810 , HOH B:2990
BINDING SITE FOR RESIDUE ACT B 2520
06
AC6
SOFTWARE
SER B:55 , LEU B:56 , GLU B:123 , ASP B:211 , HOH B:2790 , HOH B:3019
BINDING SITE FOR RESIDUE NA B 2540
07
AC7
SOFTWARE
ILE A:180 , ALA A:181 , PRO A:182 , TRP A:183 , ASN A:184 , ILE A:189 , LYS A:207 , ALA A:209 , GLU A:210 , GLY A:238 , VAL A:239 , GLY A:240 , GLU A:241 , GLY A:244 , ALA A:245 , PHE A:258 , THR A:259 , GLY A:260 , SER A:261 , VAL A:264 , GLU A:288 , THR A:289 , GLY A:290 , CYS A:322 , GLU A:417 , PHE A:419 , PHE A:485 , ACT A:1519 , HOH A:1612 , HOH A:1627 , HOH A:1633 , HOH A:1822 , HOH A:1848 , HOH A:1940 , HOH A:2009 , HOH A:2078 , HOH A:2080
BINDING SITE FOR RESIDUE NAP A 1518
08
AC8
SOFTWARE
ILE B:180 , ALA B:181 , PRO B:182 , TRP B:183 , ASN B:184 , ILE B:189 , LYS B:207 , ALA B:209 , GLU B:210 , GLY B:238 , VAL B:239 , GLY B:240 , GLY B:244 , ALA B:245 , PHE B:258 , THR B:259 , GLY B:260 , SER B:261 , VAL B:264 , GLU B:288 , THR B:289 , GLY B:290 , CYS B:322 , GLU B:417 , PHE B:419 , LEU B:445 , PHE B:485 , ACT B:2519 , HOH B:2602 , HOH B:2641 , HOH B:2659 , HOH B:2823 , HOH B:2874 , HOH B:2896 , HOH B:2991 , HOH B:3002 , HOH B:3022 , HOH B:3042
BINDING SITE FOR RESIDUE NAP B 2518
09
AC9
SOFTWARE
LEU A:275 , GLN A:279 , HOH A:1654 , HOH A:1934
BINDING SITE FOR RESIDUE MPD A 1531
10
BC1
SOFTWARE
ARG A:151 , TYR A:171 , HOH A:1871 , HOH A:1921
BINDING SITE FOR RESIDUE MPD A 1533
11
BC2
SOFTWARE
ASP A:359 , HOH A:1670
BINDING SITE FOR RESIDUE MPD A 1534
12
BC3
SOFTWARE
ARG B:151 , HOH B:2981 , HOH B:3041
BINDING SITE FOR RESIDUE MPD B 2531
13
BC4
SOFTWARE
GLU A:158 , VAL A:160 , PHE B:6 , TYR B:144 , ALA B:148 , HOH B:2574 , HOH B:2610 , HOH B:2656 , HOH B:2941
BINDING SITE FOR RESIDUE MPD B 2532
14
BC5
SOFTWARE
LEU B:275 , GLN B:279 , HOH B:2645 , HOH B:2934
BINDING SITE FOR RESIDUE MPD B 2533
15
BC6
SOFTWARE
LEU A:27 , TYR A:122 , GLU A:355 , PRO B:353 , GLU B:355 , GLU B:356 , HOH B:2664
BINDING SITE FOR RESIDUE MPD B 2535
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
(0, 0)
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2ehqa_ (A:)
1b: SCOP_d2ehqb_ (B:)
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(
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Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
ALDH-like
(168)
Superfamily
:
ALDH-like
(168)
Family
:
ALDH-like
(76)
Protein domain
:
automated matches
(24)
Thermus thermophilus HB8 [TaxId: 300852]
(15)
1a
d2ehqa_
A:
1b
d2ehqb_
B:
[
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_2ehqA01 (A:1-289,A:480-516)
1b: CATH_2ehqB01 (B:1-289,B:480-516)
2a: CATH_2ehqA02 (A:290-479)
2b: CATH_2ehqB02 (B:290-479)
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aldehyde Dehydrogenase; Chain A, domain 1
(86)
Homologous Superfamily
:
Aldehyde Dehydrogenase; Chain A, domain 1
(86)
Thermus thermophilus hb8. Organism_taxid: 300852. Strain: hb8.
(9)
1a
2ehqA01
A:1-289,A:480-516
1b
2ehqB01
B:1-289,B:480-516
Topology
:
Aldehyde Dehydrogenase; Chain A, domain 2
(89)
Homologous Superfamily
:
Aldehyde Dehydrogenase; Chain A, domain 2
(89)
Thermus thermophilus hb8. Organism_taxid: 300852. Strain: hb8.
(9)
2a
2ehqA02
A:290-479
2b
2ehqB02
B:290-479
[
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (196 KB)
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