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1RYD
Biol. Unit 1
Info
Asym.Unit (140 KB)
Biol.Unit 1 (266 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF GLUCOSE-FRUCTOSE OXIDOREDUCTASE FROM ZYMOMONAS MOBILIS
Authors
:
Y. Kim, M. Arora, M. Straza, A. Joachimiak
Date
:
22 Dec 03 (Deposition) - 15 Feb 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Oxidoreductase, Glucose, Fructose, Nadp, Zymomonas Mobilis
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
Y. Kim, M. Arora, M. Straza, A. Joachimiak
Crystal Structure Of Glucose-Fructose Oxidoreductase From Zymomonas Mobilis
To Be Published
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close entry info
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Hetero Components
(4, 14)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
2a: BETA-MERCAPTOETHANOL (BMEa)
3a: ALPHA-D-GLUCOSE (GLCa)
4a: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPa)
4b: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ACT
6
Ligand/Ion
ACETATE ION
2
BME
2
Ligand/Ion
BETA-MERCAPTOETHANOL
3
GLC
2
Ligand/Ion
ALPHA-D-GLUCOSE
4
NDP
4
Ligand/Ion
NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE
[
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TYR A:236 , ILE A:254 , GLN A:256 , ALA B:235 , TYR B:236 , ILE B:254 , GLN B:256
BINDING SITE FOR RESIDUE GLC B 601
2
AC2
SOFTWARE
TYR B:21 , ASN B:193 , ARG B:354 , TRP B:373 , GLY B:374 , TYR B:375 , HOH B:706 , HOH B:708
BINDING SITE FOR RESIDUE ACT B 603
3
AC3
SOFTWARE
THR A:133 , GLY A:207 , GLN A:357 , TYR A:360
BINDING SITE FOR RESIDUE ACT A 604
4
AC4
SOFTWARE
MET A:319 , HOH A:740
BINDING SITE FOR RESIDUE ACT A 605
5
AC5
SOFTWARE
VAL A:10 , PRO A:11 , THR A:13 , PRO A:14 , ALA A:15 , GLY A:16 , ARG A:17 , LEU A:39 , GLY A:40 , LYS A:41 , TYR A:42 , SER A:64 , GLY A:65 , LYS A:69 , TYR A:87 , ILE A:105 , LEU A:106 , PRO A:107 , ASN A:108 , LEU A:110 , HIS A:111 , GLU A:128 , LYS A:129 , ARG A:157 , ALA A:196 , TRP A:199 , ARG A:200 , TYR A:217 , TYR A:296 , HOH A:739 , HOH A:766 , HOH A:779 , HOH A:822 , HOH A:853 , HOH A:859 , HOH A:866
BINDING SITE FOR RESIDUE NDP A 700
6
AC6
SOFTWARE
VAL B:10 , PRO B:11 , THR B:13 , PRO B:14 , ALA B:15 , GLY B:16 , ARG B:17 , GLY B:38 , LEU B:39 , GLY B:40 , LYS B:41 , TYR B:42 , SER B:64 , GLY B:65 , LYS B:69 , TYR B:87 , ILE B:105 , LEU B:106 , PRO B:107 , ASN B:108 , LEU B:110 , HIS B:111 , GLU B:128 , LYS B:129 , PRO B:130 , ARG B:157 , ALA B:196 , TRP B:199 , ARG B:200 , TYR B:217 , TYR B:296 , HOH B:711 , HOH B:734 , HOH B:846 , HOH B:854 , HOH B:883 , HOH B:892 , HOH B:918 , HOH B:1045
BINDING SITE FOR RESIDUE NDP B 701
7
AC7
SOFTWARE
PRO B:25 , MET B:26 , GLN B:55 , HOH B:853
BINDING SITE FOR RESIDUE BME B 602
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(, 0)
Info
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;
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1ryda2 (A:161-322)
1b: SCOP_d1rydb2 (B:161-322)
2a: SCOP_d1ryda1 (A:30-160,A:323-381)
2b: SCOP_d1rydb1 (B:30-160,B:323-381)
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)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
FwdE/GAPDH domain-like
(188)
Superfamily
:
Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
(179)
Family
:
Glucose 6-phosphate dehydrogenase-like
(25)
Protein domain
:
Glucose-fructose oxidoreductase
(8)
Zymomonas mobilis [TaxId: 542]
(8)
1a
d1ryda2
A:161-322
1b
d1rydb2
B:161-322
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
:
Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
(179)
Protein domain
:
Glucose-fructose oxidoreductase, N-terminal domain
(8)
Zymomonas mobilis [TaxId: 542]
(8)
2a
d1ryda1
A:30-160,A:323-381
2b
d1rydb1
B:30-160,B:323-381
[
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1rydA02 (A:161-316,A:346-381)
1b: CATH_1rydB02 (B:161-316,B:346-381)
2a: CATH_1rydA01 (A:22-160,A:317-345)
2b: CATH_1rydB01 (B:22-160,B:317-345)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Dihydrodipicolinate Reductase; domain 2
(182)
Homologous Superfamily
:
Dihydrodipicolinate Reductase; domain 2
(178)
Zymomonas mobilis. Organism_taxid: 542.
(7)
1a
1rydA02
A:161-316,A:346-381
1b
1rydB02
B:161-316,B:346-381
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Zymomonas mobilis. Organism_taxid: 542.
(7)
2a
1rydA01
A:22-160,A:317-345
2b
1rydB01
B:22-160,B:317-345
[
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_GFO_IDH_MocA_1rydB01 (B:32-156)
1b: PFAM_GFO_IDH_MocA_1rydB02 (B:32-156)
2a: PFAM_GFO_IDH_MocA_C_1rydB03 (B:168-282)
2b: PFAM_GFO_IDH_MocA_C_1rydB04 (B:168-282)
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)
Organisms
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)
(
)
Clan
:
NADP_Rossmann
(1239)
Family
:
GFO_IDH_MocA
(25)
Zymomonas mobilis
(3)
1a
GFO_IDH_MocA-1rydB01
B:32-156
1b
GFO_IDH_MocA-1rydB02
B:32-156
Clan
:
ox_reductase_C
(19)
Family
:
GFO_IDH_MocA_C
(19)
Zymomonas mobilis
(3)
2a
GFO_IDH_MocA_C-1rydB03
B:168-282
2b
GFO_IDH_MocA_C-1rydB04
B:168-282
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