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2C5A
Asym. Unit
Info
Asym.Unit (297 KB)
Biol.Unit 1 (289 KB)
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(1)
Title
:
GDP-MANNOSE-3', 5' -EPIMERASE (ARABIDOPSIS THALIANA), Y174F, WITH GDP-BETA-L-GALACTOSE 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
:
1.40
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, Sdr, Ascorbate Biosynthesis, Isomerase, Nad
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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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
(4, 22)
Info
All Hetero Components
1a: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-... (BTBa)
2a: FORMIC ACID (FMTa)
2b: FORMIC ACID (FMTb)
2c: FORMIC ACID (FMTc)
2d: FORMIC ACID (FMTd)
2e: FORMIC ACID (FMTe)
2f: FORMIC ACID (FMTf)
2g: FORMIC ACID (FMTg)
2h: FORMIC ACID (FMTh)
2i: FORMIC ACID (FMTi)
2j: FORMIC ACID (FMTj)
2k: FORMIC ACID (FMTk)
2l: FORMIC ACID (FMTl)
2m: FORMIC ACID (FMTm)
2n: FORMIC ACID (FMTn)
2o: FORMIC ACID (FMTo)
2p: FORMIC ACID (FMTp)
2q: FORMIC ACID (FMTq)
3a: GUANOSINE-5'-DIPHOSPHATE-BETA-L-GA... (GDCa)
3b: GUANOSINE-5'-DIPHOSPHATE-BETA-L-GA... (GDCb)
4a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
4b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BTB
1
Ligand/Ion
2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2
FMT
17
Ligand/Ion
FORMIC ACID
3
GDC
2
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE-BETA-L-GALACTOSE
4
NAD
2
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
[
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Sites
(22, 22)
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)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
View:
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Label:
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 , CYS A:145 , PHE A:174 , PHE A:201 , HIS A:202 , ASN A:203 , GLU A:216 , LYS 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 , ARG A:306 , SER A:356 , HOH A:2438 , HOH A:2439 , HOH A:2440
BINDING SITE FOR RESIDUE GDC A1376
02
AC2
SOFTWARE
GLY A:36 , GLY A:37 , PHE A:38 , ILE A:39 , ASP A:58 , TRP A:59 , 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 , PHE A:174 , LYS A:178 , PHE A:201 , ASN A:203 , ILE A:204 , LYS A:217 , HOH A:2072 , HOH A:2245 , HOH A:2441 , HOH A:2442 , HOH A:2443 , HOH A:2444 , HOH A:2445 , HOH A:2446 , HOH A:2447
BINDING SITE FOR RESIDUE NAD A1378
03
AC3
SOFTWARE
MET B:102 , GLY B:103 , GLY B:104 , MET B:105 , ILE B:108 , SER B:143 , CYS B:145 , PHE B:174 , PHE B:201 , HIS B:202 , ASN B:203 , GLU B:216 , LYS B:217 , ALA B:218 , ALA B:221 , PHE B:222 , LYS B:225 , TRP B:236 , GLN B:241 , ARG B:243 , MET B:277 , PRO B:300 , GLU B:301 , ARG B:306 , SER B:356 , HOH B:2533 , HOH B:2534 , HOH B:2535
BINDING SITE FOR RESIDUE GDC 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 , PHE B:174 , LYS B:178 , PHE B:201 , ASN B:203 , ILE B:204 , LYS B:217 , ARG B:371 , HOH B:2183 , HOH B:2330 , HOH B:2536 , HOH B:2537 , HOH B:2538 , HOH B:2539 , HOH B:2540 , HOH B:2541 , HOH B:2542
BINDING SITE FOR RESIDUE NAD B1374
05
AC5
SOFTWARE
GLU A:169 , PRO A:170 , GLN A:171 , HOH A:2179 , HOH A:2209 , TRP B:166 , GLU B:183 , LYS B:186 , HOH B:2553
BINDING SITE FOR RESIDUE BTB B1380
06
AC6
SOFTWARE
TYR A:14 , LYS A:15 , GLU A:16 , ARG B:330
BINDING SITE FOR RESIDUE FMT A1379
07
AC7
SOFTWARE
VAL A:77 , ASP A:78 , ASN A:84 , GLY A:368 , HOH A:2448 , HOH A:2450 , HIS B:295
BINDING SITE FOR RESIDUE FMT A1380
08
AC8
SOFTWARE
GLY A:360 , THR A:361 , HOH A:2451 , HOH A:2452 , HOH A:2453
BINDING SITE FOR RESIDUE FMT A1381
09
AC9
SOFTWARE
ARG A:19 , ARG A:46 , ASP A:249 , HOH A:2280
BINDING SITE FOR RESIDUE FMT A1382
10
BC1
SOFTWARE
THR A:210 , TRP A:211 , LYS A:212 , HOH A:2454 , HOH A:2455
BINDING SITE FOR RESIDUE FMT A1383
11
BC2
SOFTWARE
GLU A:162 , SER A:163 , HOH A:2200 , HOH A:2456 , HOH A:2457 , HOH A:2458
BINDING SITE FOR RESIDUE FMT A1384
12
BC3
SOFTWARE
ASN A:189 , ARG A:264 , HOH A:2459 , HOH A:2460
BINDING SITE FOR RESIDUE FMT A1385
13
BC4
SOFTWARE
ASN A:157 , HOH A:2194 , HOH A:2461
BINDING SITE FOR RESIDUE FMT A1386
14
BC5
SOFTWARE
ARG A:257 , GLY A:318 , TRP A:319 , HOH A:2462 , HOH A:2463 , LYS B:29 , HOH B:2047
BINDING SITE FOR RESIDUE FMT A1387
15
BC6
SOFTWARE
ASP A:101 , VAL A:114 , ARG A:215 , GLN A:362 , ARG A:371 , HOH A:2418 , HOH A:2464 , HOH A:2465
BINDING SITE FOR RESIDUE FMT A1388
16
BC7
SOFTWARE
ASN A:62 , GLU A:63 , MET A:65 , GLY A:375
BINDING SITE FOR RESIDUE FMT A1389
17
BC8
SOFTWARE
GLY A:213 , ARG A:224 , LEU A:352 , TYR A:353 , SER A:355 , LYS A:357 , HOH A:2260 , HOH A:2404
BINDING SITE FOR RESIDUE FMT A1390
18
BC9
SOFTWARE
ASP B:272 , ASN B:307 , HOH B:2270 , HOH B:2438 , HOH B:2544 , HOH B:2545
BINDING SITE FOR RESIDUE FMT B1375
19
CC1
SOFTWARE
ARG B:19 , ARG B:46 , ASP B:249
BINDING SITE FOR RESIDUE FMT B1376
20
CC2
SOFTWARE
VAL B:77 , ASP B:78 , ASN B:84 , GLY B:368 , LEU B:370 , HOH B:2546 , HOH B:2547
BINDING SITE FOR RESIDUE FMT B1377
21
CC3
SOFTWARE
GLU B:162 , SER B:163 , HOH B:2548 , HOH B:2549 , HOH B:2550
BINDING SITE FOR RESIDUE FMT B1378
22
CC4
SOFTWARE
LYS B:212 , GLY B:213 , ARG B:224 , LEU B:352 , TYR B:353 , SER B:355 , LYS B:357 , HOH B:2496 , HOH B:2552
BINDING SITE FOR RESIDUE FMT B1379
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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Exons
(0, 0)
Info
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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_d2c5ab_ (B:)
2a: SCOP_d2c5aa1 (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
d2c5ab_
B:
Protein domain
:
GDP-mannose-3', 5'-epimerase
(4)
Thale cress (Arabidopsis thaliana) [TaxId: 3702]
(4)
2a
d2c5aa1
A:13-375
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CATH Domains
(0, 0)
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all CATH domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
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Sorry, no Info available
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Asymmetric Unit 1
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