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2WW0
Biol. Unit 4
Info
Asym.Unit (964 KB)
Biol.Unit 1 (133 KB)
Biol.Unit 2 (133 KB)
Biol.Unit 3 (132 KB)
Biol.Unit 4 (132 KB)
Biol.Unit 5 (131 KB)
Biol.Unit 6 (130 KB)
Biol.Unit 7 (128 KB)
Biol.Unit 8 (128 KB)
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(1)
Title
:
STRUCTURE OF THE FAMILY GH92 INVERTING MANNOSIDASE BT3990 FROM BACTEROIDES THETAIOTAOMICRON VPI-5482
Authors
:
M. D. L. Suits, A. Thompson, Y. Zhu, H. J. Gilbert, G. J. Davies
Date
:
21 Oct 09 (Deposition) - 29 Dec 09 (Release) - 22 May 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: G (1x)
Biol. Unit 8: H (1x)
Keywords
:
Hydrolase, Gh92, Bt3990, Glycoside Hydrolase Family 92
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Zhu, M. D. L. Suits, A. Thompson, S. Chavan, Z. Dinev, C. Dumon, N. Smith, K. W. Moremen, Y. Xiang, A. Siriwardena, S. J. Williams, H. J. Gilbert, G. J. Davies
Mechanistic Insights Into A Ca2+-Dependent Family Of A-Mannosidases In A Human Gut Symbiont.
Nat. Chem. Biol. V. 6 125 2010
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
2h: GLYCEROL (GOLh)
2i: GLYCEROL (GOLi)
2j: GLYCEROL (GOLj)
2k: GLYCEROL (GOLk)
2l: GLYCEROL (GOLl)
2m: GLYCEROL (GOLm)
2n: GLYCEROL (GOLn)
2o: GLYCEROL (GOLo)
2p: GLYCEROL (GOLp)
2q: GLYCEROL (GOLq)
3a: 1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2... (SWAa)
3b: 1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2... (SWAb)
3c: 1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2... (SWAc)
3d: 1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2... (SWAd)
3e: 1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2... (SWAe)
3f: 1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2... (SWAf)
3g: 1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2... (SWAg)
3h: 1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2... (SWAh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
GOL
3
Ligand/Ion
GLYCEROL
3
SWA
1
Ligand/Ion
1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2A,8B-TRIOL
[
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Sites
(5, 5)
Info
All Sites
1: BC9 (SOFTWARE)
2: CC1 (SOFTWARE)
3: CC2 (SOFTWARE)
4: CC3 (SOFTWARE)
5: CC4 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
BC9
SOFTWARE
ASN D:601 , GLN D:602 , ASP D:644 , SWA D:801 , HOH D:2094
BINDING SITE FOR RESIDUE CA D 800
2
CC1
SOFTWARE
TRP D:88 , TRP D:347 , ASP D:348 , TRP D:385 , MET D:394 , GLU D:533 , ASN D:601 , GLN D:602 , ASP D:644 , CA D:800 , HOH D:2094
BINDING SITE FOR RESIDUE SWA D 801
3
CC2
SOFTWARE
TYR D:126 , GLU D:272
BINDING SITE FOR RESIDUE GOL D 802
4
CC3
SOFTWARE
ASN D:709 , LYS D:725 , GLY D:727 , HOH D:2105
BINDING SITE FOR RESIDUE GOL D 803
5
CC4
SOFTWARE
GLN D:284 , LYS D:288 , SER D:363 , GLU D:684
BINDING SITE FOR RESIDUE GOL D 804
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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
All PROSITE Patterns/Profiles
;
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End label:
Sorry, no Info available
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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
(0, 0)
Info
All SCOP Domains
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Sorry, no Info available
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CATH Domains
(3, 24)
Info
all CATH domains
1a: CATH_2ww0A02 (A:289-312,A:607-631,A:632-748)
1b: CATH_2ww0B02 (B:289-312,B:607-631,B:632-748)
1c: CATH_2ww0C02 (C:289-312,C:607-631,C:632-748)
1d: CATH_2ww0D02 (D:289-312,D:607-631,D:632-748)
1e: CATH_2ww0E02 (E:289-312,E:607-631,E:632-748)
1f: CATH_2ww0F02 (F:289-312,F:607-631,F:632-748)
1g: CATH_2ww0G02 (G:289-312,G:607-631,G:632-748)
1h: CATH_2ww0H02 (H:289-312,H:607-631,H:632-748)
2a: CATH_2ww0A03 (A:344-438)
2b: CATH_2ww0B03 (B:344-438)
2c: CATH_2ww0C03 (C:344-438)
2d: CATH_2ww0D03 (D:344-438)
2e: CATH_2ww0E03 (E:344-438)
2f: CATH_2ww0F03 (F:344-438)
2g: CATH_2ww0G03 (G:344-438)
2h: CATH_2ww0H03 (H:344-438)
3a: CATH_2ww0A01 (A:20-53,A:54-288,A:313-343)
3b: CATH_2ww0B01 (B:20-53,B:54-288,B:313-343)
3c: CATH_2ww0C01 (C:20-53,C:54-288,C:313-343)
3d: CATH_2ww0D01 (D:20-53,D:54-288,D:313-343)
3e: CATH_2ww0E01 (E:20-53,E:54-288,E:313-343)
3f: CATH_2ww0F01 (F:20-53,F:54-288,F:313-343)
3g: CATH_2ww0G01 (G:20-53,G:54-288,G:313-343)
3h: CATH_2ww0H01 (H:20-53,H:54-288,H:313-343)
View:
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Classes
(
)
(
)
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
GH92 mannosidase fold
(8)
Homologous Superfamily
:
GH92 mannosidase domain
(8)
Bacteroides thetaiotaomicron. Organism_taxid: 226186. Strain: vpi-5482.
(8)
1a
2ww0A02
A:289-312,A:607-631,A:632-748
1b
2ww0B02
B:289-312,B:607-631,B:632-748
1c
2ww0C02
C:289-312,C:607-631,C:632-748
1d
2ww0D02
D:289-312,D:607-631,D:632-748
1e
2ww0E02
E:289-312,E:607-631,E:632-748
1f
2ww0F02
F:289-312,F:607-631,F:632-748
1g
2ww0G02
G:289-312,G:607-631,G:632-748
1h
2ww0H02
H:289-312,H:607-631,H:632-748
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
(267)
Homologous Superfamily
:
alpha-1,2-mannosidase
(8)
Bacteroides thetaiotaomicron. Organism_taxid: 226186. Strain: vpi-5482.
(8)
2a
2ww0A03
A:344-438
2b
2ww0B03
B:344-438
2c
2ww0C03
C:344-438
2d
2ww0D03
D:344-438
2e
2ww0E03
E:344-438
2f
2ww0F03
F:344-438
2g
2ww0G03
G:344-438
2h
2ww0H03
H:344-438
Class
:
Mainly Beta
(13760)
Architecture
:
Distorted Sandwich
(506)
Topology
:
Beta-galactosidase; Chain A, domain 5
(250)
Homologous Superfamily
:
[code=2.70.98.10, no name defined]
(116)
Bacteroides thetaiotaomicron. Organism_taxid: 226186. Strain: vpi-5482.
(8)
3a
2ww0A01
A:20-53,A:54-288,A:313-343
3b
2ww0B01
B:20-53,B:54-288,B:313-343
3c
2ww0C01
C:20-53,C:54-288,C:313-343
3d
2ww0D01
D:20-53,D:54-288,D:313-343
3e
2ww0E01
E:20-53,E:54-288,E:313-343
3f
2ww0F01
F:20-53,F:54-288,F:313-343
3g
2ww0G01
G:20-53,G:54-288,G:313-343
3h
2ww0H01
H:20-53,H:54-288,H:313-343
[
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Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Glyco_hydro_92_2ww0H01 (H:228-737)
1b: PFAM_Glyco_hydro_92_2ww0H02 (H:228-737)
1c: PFAM_Glyco_hydro_92_2ww0H03 (H:228-737)
1d: PFAM_Glyco_hydro_92_2ww0H04 (H:228-737)
1e: PFAM_Glyco_hydro_92_2ww0H05 (H:228-737)
1f: PFAM_Glyco_hydro_92_2ww0H06 (H:228-737)
1g: PFAM_Glyco_hydro_92_2ww0H07 (H:228-737)
1h: PFAM_Glyco_hydro_92_2ww0H08 (H:228-737)
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)
(
)
Organisms
(
)
(
)
Clan
:
Pec_lyase
(42)
Family
:
Glyco_hydro_92
(7)
Bacteroides thetaiotaomicron
(7)
1a
Glyco_hydro_92-2ww0H01
H:228-737
1b
Glyco_hydro_92-2ww0H02
H:228-737
1c
Glyco_hydro_92-2ww0H03
H:228-737
1d
Glyco_hydro_92-2ww0H04
H:228-737
1e
Glyco_hydro_92-2ww0H05
H:228-737
1f
Glyco_hydro_92-2ww0H06
H:228-737
1g
Glyco_hydro_92-2ww0H07
H:228-737
1h
Glyco_hydro_92-2ww0H08
H:228-737
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