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2WW2
Asym. Unit
Info
Asym.Unit (403 KB)
Biol.Unit 1 (394 KB)
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(1)
Title
:
STRUCTURE OF THE FAMILY GH92 INVERTING MANNOSIDASE BT2199 FROM BACTEROIDES THETAIOTAOMICRON VPI-5482
Authors
:
M. D. L. Suits, Y. Zhu, A. Thompson, H. J. Gilbert, G. J. Davies
Date
:
21 Oct 09 (Deposition) - 29 Dec 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Hydrolase, Glycoside Hydrolase Family 92, Bt2199
(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
(4, 20)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
1g: GLYCEROL (GOLg)
1h: GLYCEROL (GOLh)
1i: GLYCEROL (GOLi)
1j: GLYCEROL (GOLj)
1k: GLYCEROL (GOLk)
1l: GLYCEROL (GOLl)
1m: GLYCEROL (GOLm)
1n: GLYCEROL (GOLn)
2a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
3d: SODIUM ION (NAd)
4a: 1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2... (SWAa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
14
Ligand/Ion
GLYCEROL
2
MPD
1
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
3
NA
4
Ligand/Ion
SODIUM ION
4
SWA
1
Ligand/Ion
1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2A,8B-TRIOL
[
close Hetero Component info
]
Sites
(20, 20)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:33 , TYR A:77 , GLY A:639 , SER A:640 , HOH A:2019 , HOH A:2151 , HOH A:2152 , HOH A:2782 , HOH A:2784 , HOH A:2785
BINDING SITE FOR RESIDUE MPD A 759
02
AC2
SOFTWARE
HIS A:123 , GLU A:126 , HOH A:2146 , HOH A:2151 , HOH A:2152 , HOH A:2782
BINDING SITE FOR RESIDUE NA A 799
03
AC3
SOFTWARE
SER A:40 , TYR A:643 , GLY A:645 , ASP A:648 , HOH A:2677 , HOH A:2680
BINDING SITE FOR RESIDUE NA A 800
04
AC4
SOFTWARE
GLY A:299 , GLY A:300 , GLN A:304 , ARG A:629 , LEU A:679 , ASN A:700 , HOH A:2786 , HOH A:2787
BINDING SITE FOR RESIDUE GOL A 801
05
AC5
SOFTWARE
PRO A:34 , ASN A:48 , TYR A:50 , TYR A:313 , ARG A:314 , LEU A:317 , HOH A:2043 , HOH A:2421
BINDING SITE FOR RESIDUE GOL A 802
06
AC6
SOFTWARE
SER A:71 , GLY A:72 , TRP A:73 , PRO A:93 , TRP A:94 , ASN A:96 , HOH A:2105 , HOH A:2788 , GLU B:562
BINDING SITE FOR RESIDUE GOL A 803
07
AC7
SOFTWARE
HIS A:46 , PRO A:91 , ASP A:354 , GOL A:805 , HOH A:2037
BINDING SITE FOR RESIDUE GOL A 804
08
AC8
SOFTWARE
PRO A:91 , PHE A:318 , ASP A:349 , ASN A:350 , GLY A:351 , THR A:355 , TRP A:391 , GOL A:804
BINDING SITE FOR RESIDUE GOL A 805
09
AC9
SOFTWARE
ARG A:184 , SER A:210 , ARG A:253 , HOH A:2335 , HOH A:2789
BINDING SITE FOR RESIDUE GOL A 806
10
BC1
SOFTWARE
HIS A:396 , ARG A:397 , GLY A:398 , ILE A:440 , HOH A:2257 , HOH A:2259 , HOH A:2790
BINDING SITE FOR RESIDUE GOL A 807
11
BC2
SOFTWARE
HIS B:123 , GLU B:126 , HOH B:2104 , HOH B:2106 , HOH B:2112 , HOH B:2114
BINDING SITE FOR RESIDUE NA B 800
12
BC3
SOFTWARE
GLY B:299 , GLY B:300 , GLN B:304 , ARG B:629 , LEU B:679 , LYS B:681 , HOH B:2647 , HOH B:2649
BINDING SITE FOR RESIDUE GOL B 801
13
BC4
SOFTWARE
ARG B:184 , PHE B:209 , SER B:210 , ARG B:253
BINDING SITE FOR RESIDUE GOL B 802
14
BC5
SOFTWARE
HIS B:603 , CYS B:644 , HOH B:2650
BINDING SITE FOR RESIDUE GOL B 803
15
BC6
SOFTWARE
VAL B:55 , PRO B:56 , SER B:149 , GLN B:287 , GLU B:321 , HOH B:2316 , HOH B:2651
BINDING SITE FOR RESIDUE GOL B 804
16
BC7
SOFTWARE
SER B:92 , TRP B:353 , ASP B:354 , TRP B:391 , CYS B:399 , MET B:400 , GLU B:537 , ASP B:648 , HOH B:2549 , HOH B:2550
BINDING SITE FOR RESIDUE SWA B 900
17
BC8
SOFTWARE
HIS C:123 , GLU C:126 , HOH C:2115 , HOH C:2119 , HOH C:2124 , HOH C:2125
BINDING SITE FOR RESIDUE NA C 800
18
BC9
SOFTWARE
GLY C:299 , GLY C:300 , GLN C:304 , ARG C:629 , LEU C:679 , LYS C:681 , HOH C:2618 , HOH C:2619
BINDING SITE FOR RESIDUE GOL C 801
19
CC1
SOFTWARE
SER C:92 , TRP C:94 , HOH C:2620 , HOH C:2621 , HOH C:2622
BINDING SITE FOR RESIDUE GOL C 802
20
CC2
SOFTWARE
ASN C:649 , GLY C:650 , GLN C:651 , HOH C:2624 , HOH C:2625 , HOH C:2626 , HOH C:2627
BINDING SITE FOR RESIDUE GOL C 803
[
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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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;
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Exons
(0, 0)
Info
All Exons
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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
(0, 0)
Info
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Sorry, no Info available
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CATH Domains
(3, 9)
Info
all CATH domains
1a: CATH_2ww2A02 (A:295-318,A:611-635,A:636-752)
1b: CATH_2ww2B02 (B:295-318,B:611-635,B:636-752)
1c: CATH_2ww2C02 (C:295-318,C:611-635,C:636-752)
2a: CATH_2ww2A03 (A:350-444)
2b: CATH_2ww2B03 (B:350-444)
2c: CATH_2ww2C03 (C:350-444)
3a: CATH_2ww2A01 (A:22-59,A:60-294,A:319-349)
3b: CATH_2ww2B01 (B:22-59,B:60-294,B:319-349)
3c: CATH_2ww2C01 (C:22-59,C:60-294,C:319-349)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
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
2ww2A02
A:295-318,A:611-635,A:636-752
1b
2ww2B02
B:295-318,B:611-635,B:636-752
1c
2ww2C02
C:295-318,C:611-635,C:636-752
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
2ww2A03
A:350-444
2b
2ww2B03
B:350-444
2c
2ww2C03
C:350-444
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
2ww2A01
A:22-59,A:60-294,A:319-349
3b
2ww2B01
B:22-59,B:60-294,B:319-349
3c
2ww2C01
C:22-59,C:60-294,C:319-349
[
close CATH info
]
Pfam Domains
(1, 3)
Info
all PFAM domains
1a: PFAM_Glyco_hydro_92_2ww2C01 (C:233-741)
1b: PFAM_Glyco_hydro_92_2ww2C02 (C:233-741)
1c: PFAM_Glyco_hydro_92_2ww2C03 (C:233-741)
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(
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Organisms
(
)
(
)
Clan
:
Pec_lyase
(42)
Family
:
Glyco_hydro_92
(7)
Bacteroides thetaiotaomicron
(7)
1a
Glyco_hydro_92-2ww2C01
C:233-741
1b
Glyco_hydro_92-2ww2C02
C:233-741
1c
Glyco_hydro_92-2ww2C03
C:233-741
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