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2C5E
Asym. Unit
Info
Asym.Unit (284 KB)
Biol.Unit 1 (277 KB)
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(1)
Title
:
GDP-MANNOSE-3', 5' -EPIMERASE (ARABIDOPSIS THALIANA), K217A, WITH GDP-ALPHA-D-MANNOSE BOUND IN THE ACTIVE SITE.
Authors
:
L. L. Major, B. A. Wolucka, J. H. Naismith
Date
:
26 Oct 05 (Deposition) - 14 Nov 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
3' 5'-Epimerase, Short Chain Dehydratase/Reductase, Gdp- Mannose, Gdp-Gulose, Gdp-Galactose, Keto Intermediate, Vitamin C, Ascorbate Biosynthesis, Isomerase, Nad
(Keyword Search:
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Reference
:
L. L. Major, B. A. Wolucka, J. H. Naismith
Structure And Function Of Gdp-Mannose-3', 5'- Epimerase: An Enzyme Which Performs Three Chemical Reactions At The Same Active Site.
J. Am. Chem. Soc. V. 127 18309 2005
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Hetero Components
(3, 14)
Info
All Hetero Components
1a: FORMIC ACID (FMTa)
1b: FORMIC ACID (FMTb)
1c: FORMIC ACID (FMTc)
1d: FORMIC ACID (FMTd)
1e: FORMIC ACID (FMTe)
1f: FORMIC ACID (FMTf)
1g: FORMIC ACID (FMTg)
1h: FORMIC ACID (FMTh)
1i: FORMIC ACID (FMTi)
1j: FORMIC ACID (FMTj)
2a: GUANOSINE-5'-DIPHOSPHATE-ALPHA-D-M... (GDDa)
2b: GUANOSINE-5'-DIPHOSPHATE-ALPHA-D-M... (GDDb)
3a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
3b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
FMT
10
Ligand/Ion
FORMIC ACID
2
GDD
2
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE-ALPHA-D-MANNOSE
3
NAD
2
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
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Sites
(14, 14)
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)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
MET A:102 , GLY A:103 , GLY A:104 , MET A:105 , ILE A:108 , SER A:143 , ALA A:144 , CYS A:145 , TYR A:174 , PHE A:201 , HIS A:202 , ASN A:203 , GLU A:216 , ALA A:217 , ALA A:218 , ALA A:221 , PHE A:222 , LYS A:225 , TRP A:236 , GLN A:241 , ARG A:243 , MET A:277 , PRO A:300 , GLU A:301 , SER A:356 , NAD A:1381 , HOH A:2381 , HOH A:2382 , HOH A:2383
BINDING SITE FOR RESIDUE GDD A1375
02
AC2
SOFTWARE
GLY A:34 , GLY A:36 , GLY A:37 , PHE A:38 , ILE A:39 , ASP A:58 , TRP A:59 , LYS A:60 , VAL A:77 , ASP A:78 , LEU A:79 , ARG A:80 , LEU A:98 , ALA A:99 , ALA A:100 , MET A:102 , ILE A:122 , ALA A:141 , SER A:142 , SER A:143 , TYR A:174 , LYS A:178 , PHE A:201 , ASN A:203 , ILE A:204 , GDD A:1375 , HOH A:2210 , HOH A:2388 , HOH A:2389 , HOH A:2390 , HOH A:2391 , HOH A:2392 , HOH A:2393 , HOH A:2394 , HOH A:2395 , HOH A:2396
BINDING SITE FOR RESIDUE NAD A1381
03
AC3
SOFTWARE
MET B:102 , GLY B:103 , GLY B:104 , MET B:105 , ILE B:108 , SER B:143 , ALA B:144 , CYS B:145 , TYR B:174 , PHE B:201 , HIS B:202 , ASN B:203 , GLU B:216 , ALA B:217 , ALA B:218 , ALA B:221 , PHE B:222 , LYS B:225 , MET B:235 , TRP B:236 , GLN B:241 , ARG B:243 , MET B:277 , PRO B:300 , GLU B:301 , SER B:356 , NAD B:1373 , HOH B:2270 , HOH B:2452 , HOH B:2453 , HOH B:2461
BINDING SITE FOR RESIDUE GDD B1372
04
AC4
SOFTWARE
GLY B:34 , GLY B:36 , GLY B:37 , PHE B:38 , ILE B:39 , ASP B:58 , TRP B:59 , LYS B:60 , VAL B:77 , ASP B:78 , LEU B:79 , ARG B:80 , LEU B:98 , ALA B:99 , ALA B:100 , MET B:102 , ILE B:122 , ALA B:141 , SER B:142 , SER B:143 , TYR B:174 , LYS B:178 , PHE B:201 , ASN B:203 , ILE B:204 , ARG B:371 , GDD B:1372 , HOH B:2139 , HOH B:2263 , HOH B:2454 , HOH B:2455 , HOH B:2456 , HOH B:2457 , HOH B:2458 , HOH B:2459 , HOH B:2460 , HOH B:2461
BINDING SITE FOR RESIDUE NAD B1373
05
AC5
SOFTWARE
ASN A:157 , VAL A:158 , SER A:159 , MET A:274 , ASN A:307 , HOH A:2384 , HOH A:2385
BINDING SITE FOR RESIDUE FMT A1376
06
AC6
SOFTWARE
TRP A:335 , GLU A:338
BINDING SITE FOR RESIDUE FMT A1377
07
AC7
SOFTWARE
VAL A:77 , ASP A:78 , ASN A:84 , GLY A:368 , SER A:369 , HOH A:2386 , HOH A:2387 , HIS B:295
BINDING SITE FOR RESIDUE FMT A1378
08
AC8
SOFTWARE
TYR A:14 , LYS A:15 , GLU A:16 , ARG B:330
BINDING SITE FOR RESIDUE FMT A1379
09
AC9
SOFTWARE
ARG A:19 , ARG A:46 , ASP A:249 , VAL A:252 , HOH A:2036
BINDING SITE FOR RESIDUE FMT A1380
10
BC1
SOFTWARE
GLN B:109 , SER B:110 , HOH B:2462 , HOH B:2463 , HOH B:2464 , HOH B:2465 , HOH B:2466 , HOH B:2467
BINDING SITE FOR RESIDUE FMT B1374
11
BC2
SOFTWARE
LYS B:212 , GLY B:213 , LEU B:352 , TYR B:353 , SER B:355 , LYS B:357 , HOH B:2271 , HOH B:2415
BINDING SITE FOR RESIDUE FMT B1375
12
BC3
SOFTWARE
GLU B:183 , LYS B:186 , HIS B:187 , LYS B:190
BINDING SITE FOR RESIDUE FMT B1376
13
BC4
SOFTWARE
GLU B:162 , SER B:163 , HOH B:2469 , HOH B:2470 , HOH B:2471
BINDING SITE FOR RESIDUE FMT B1377
14
BC5
SOFTWARE
THR B:210 , TRP B:211 , LYS B:212 , HOH B:2076 , HOH B:2472 , HOH B:2474
BINDING SITE FOR RESIDUE FMT B1378
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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
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2c5eb_ (B:)
2a: SCOP_d2c5ea1 (A:13-375)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Tyrosine-dependent oxidoreductases
(503)
Protein domain
:
automated matches
(114)
Thale cress (Arabidopsis thaliana) [TaxId: 3702]
(5)
1a
d2c5eb_
B:
Protein domain
:
GDP-mannose-3', 5'-epimerase
(4)
Thale cress (Arabidopsis thaliana) [TaxId: 3702]
(4)
2a
d2c5ea1
A:13-375
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CATH Domains
(0, 0)
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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'
select 5-10
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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