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2C54
Asym. Unit
Info
Asym.Unit (298 KB)
Biol.Unit 1 (289 KB)
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(1)
Title
:
GDP-MANNOSE-3', 5' -EPIMERASE (ARABIDOPSIS THALIANA), K178R, WITH GDP-BETA-L-GULOSE AND GDP-4-KETO-BETA-L-GULOSE BOUND IN ACTIVE SITE.
Authors
:
L. L. Major, B. A. Wolucka, J. H. Naismith
Date
:
25 Oct 05 (Deposition) - 14 Nov 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.50
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, Isomerase, Ascorbate Biosynthesis, 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
(5, 25)
Info
All Hetero Components
1a: 4-(2-HYDROXYETHYL)-1-PIPERAZINEETH... (EPEa)
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)
2r: FORMIC ACID (FMTr)
3a: GUANOSINE 5'-DIPHOSPHATE-4-KETO-BE... (GKDa)
3b: GUANOSINE 5'-DIPHOSPHATE-4-KETO-BE... (GKDb)
4a: GUANOSINE 5'-DIPHOSPHATE-BETA-L-GU... (GKEa)
4b: GUANOSINE 5'-DIPHOSPHATE-BETA-L-GU... (GKEb)
5a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
5b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EPE
1
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINEETHANESULFONIC ACID
2
FMT
18
Ligand/Ion
FORMIC ACID
3
GKD
2
Ligand/Ion
GUANOSINE 5'-DIPHOSPHATE-4-KETO-BETA-L-GULOSE
4
GKE
2
Ligand/Ion
GUANOSINE 5'-DIPHOSPHATE-BETA-L-GULOSE
5
NAD
2
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
[
close Hetero Component info
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Sites
(25, 25)
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)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:103 , GLY A:104 , MET A:105 , ILE A:108 , SER A:143 , CYS A:145 , TYR 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:2440 , HOH A:2441 , HOH A:2442
BINDING SITE FOR RESIDUE GKE A1372
02
AC2
SOFTWARE
GLY A:103 , GLY A:104 , MET A:105 , SER A:143 , ALA A:144 , TYR 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 , NAD A:1378 , HOH A:2440 , HOH A:2441 , HOH A:2442
BINDING SITE FOR RESIDUE GKD A1374
03
AC3
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 , ARG A:178 , PHE A:201 , ASN A:203 , ILE A:204 , LYS A:217 , GKD A:1374 , HOH A:2139 , HOH A:2443 , HOH A:2444 , HOH A:2445 , HOH A:2446 , HOH A:2447 , HOH A:2448 , HOH A:2449 , HOH A:2450
BINDING SITE FOR RESIDUE NAD A1378
04
AC4
SOFTWARE
GLU A:162 , SER A:163 , TRP A:166 , GLU A:183 , HOH A:2464 , HOH A:2465 , HOH A:2466 , GLU B:169 , PRO B:170 , ASP B:172
BINDING SITE FOR RESIDUE EPE A1390
05
AC5
SOFTWARE
GLY B:103 , GLY B:104 , MET B:105 , ILE B:108 , SER B:143 , CYS B:145 , TYR 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:2292 , HOH B:2457 , HOH B:2458
BINDING SITE FOR RESIDUE GKE B1372
06
AC6
SOFTWARE
GLY B:103 , GLY B:104 , MET B:105 , ILE B:108 , SER B:143 , ALA B:144 , TYR 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 , NAD B:1375 , HOH B:2292 , HOH B:2457 , HOH B:2458
BINDING SITE FOR RESIDUE GKD B1374
07
AC7
SOFTWARE
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 , 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 , ARG B:178 , PHE B:201 , ASN B:203 , ILE B:204 , LYS B:217 , GKD B:1374 , HOH B:2079 , HOH B:2164 , HOH B:2281 , HOH B:2459 , HOH B:2460 , HOH B:2461 , HOH B:2462 , HOH B:2463 , HOH B:2464
BINDING SITE FOR RESIDUE NAD B1375
08
AC8
SOFTWARE
VAL A:77 , ASP A:78 , ASN A:84 , GLY A:368 , SER A:369 , HOH A:2452 , HIS B:295
BINDING SITE FOR RESIDUE FMT A1381
09
AC9
SOFTWARE
GLY A:213 , ARG A:224 , LEU A:352 , TYR A:353 , SER A:355 , HOH A:2259
BINDING SITE FOR RESIDUE FMT A1382
10
BC1
SOFTWARE
THR A:13 , TYR A:14 , LYS A:15 , GLU A:16 , ARG B:330
BINDING SITE FOR RESIDUE FMT A1383
11
BC2
SOFTWARE
GLN A:366 , LEU A:367 , HOH A:2427 , HOH A:2454 , HOH A:2455 , MET B:82 , ILE B:132 , HOH B:2190
BINDING SITE FOR RESIDUE FMT A1384
12
BC3
SOFTWARE
ARG A:19 , ARG A:46 , ASP A:249 , HOH A:2282
BINDING SITE FOR RESIDUE FMT A1385
13
BC4
SOFTWARE
ASN A:157 , HOH A:2199 , HOH A:2456 , HOH A:2457
BINDING SITE FOR RESIDUE FMT A1386
14
BC5
SOFTWARE
ARG A:215 , GLN A:362 , HOH A:2459
BINDING SITE FOR RESIDUE FMT A1387
15
BC6
SOFTWARE
PHE A:150 , HOH A:2460 , PRO B:167
BINDING SITE FOR RESIDUE FMT A1388
16
BC7
SOFTWARE
GLU A:162 , SER A:163 , HOH A:2462 , HOH A:2463
BINDING SITE FOR RESIDUE FMT A1389
17
BC8
SOFTWARE
THR B:210 , TRP B:211 , LYS B:212 , HOH B:2093 , HOH B:2466
BINDING SITE FOR RESIDUE FMT B1378
18
BC9
SOFTWARE
LYS B:212 , GLY B:213 , LEU B:352 , TYR B:353 , SER B:355 , LYS B:357 , HOH B:2291 , HOH B:2423
BINDING SITE FOR RESIDUE FMT B1379
19
CC1
SOFTWARE
GLN B:109 , HIS B:112 , HOH B:2468 , HOH B:2469 , HOH B:2470 , HOH B:2471 , HOH B:2472
BINDING SITE FOR RESIDUE FMT B1380
20
CC2
SOFTWARE
TYR B:22 , TRP B:23 , PRO B:24 , HOH B:2032 , HOH B:2473
BINDING SITE FOR RESIDUE FMT B1381
21
CC3
SOFTWARE
ARG B:215 , GLN B:362 , ARG B:371
BINDING SITE FOR RESIDUE FMT B1382
22
CC4
SOFTWARE
GLU B:67 , ASP B:68 , HOH B:2108
BINDING SITE FOR RESIDUE FMT B1383
23
CC5
SOFTWARE
ARG B:19 , ARG B:46 , ASP B:249 , VAL B:252
BINDING SITE FOR RESIDUE FMT B1384
24
CC6
SOFTWARE
HOH A:2361 , LYS B:48 , HOH B:2474
BINDING SITE FOR RESIDUE FMT B1385
25
CC7
SOFTWARE
SER B:229 , THR B:230 , ASP B:231 , ARG B:232 , HOH B:2477 , HOH B:2478
BINDING SITE FOR RESIDUE FMT B1386
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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
All Exons
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All Exon Boundaries
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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_d2c54b_ (B:)
2a: SCOP_d2c54a1 (A:13-374)
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Protein Domains
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(
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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
d2c54b_
B:
Protein domain
:
GDP-mannose-3', 5'-epimerase
(4)
Thale cress (Arabidopsis thaliana) [TaxId: 3702]
(4)
2a
d2c54a1
A:13-374
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CATH Domains
(0, 0)
Info
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Sorry, no Info available
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Pfam Domains
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Sorry, no Info available
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