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1V3L
Asym. Unit
Info
Asym.Unit (234 KB)
Biol.Unit 1 (118 KB)
Biol.Unit 2 (116 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF F283L MUTANT CYCLODEXTRIN GLYCOSYLTRANSFERASE COMPLEXED WITH A PSEUDO-TETRAOSE DERIVED FROM ACARBOSE
Authors
:
R. Kanai, K. Haga, T. Akiba, K. Yamane, K. Harata
Date
:
03 Nov 03 (Deposition) - 03 Aug 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Cgtase, Cyclodextrin, Acarbose, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
R. Kanai, K. Haga, T. Akiba, K. Yamane, K. Harata
Role Of Phe283 In Enzymatic Reaction Of Cyclodextrin Glycosyltransferase From Alkalophilic Bacillus Sp. 1011: Substrate Binding And Arrangement Of The Catalytic Site
Protein Sci. V. 13 457 2004
(for further references see the
PDB file header
)
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Hetero Components
(5, 12)
Info
All Hetero Components
1a: 6-AMINO-4-HYDROXYMETHYL-CYCLOHEX-4... (ACIa)
1b: 6-AMINO-4-HYDROXYMETHYL-CYCLOHEX-4... (ACIb)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
3a: BETA-D-GALACTOSE (GALa)
4a: ALPHA-D-GLUCOSE (GLCa)
4b: ALPHA-D-GLUCOSE (GLCb)
4c: ALPHA-D-GLUCOSE (GLCc)
5a: 4,6-DIDEOXYGLUCOSE (GLDa)
5b: 4,6-DIDEOXYGLUCOSE (GLDb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACI
2
Ligand/Ion
6-AMINO-4-HYDROXYMETHYL-CYCLOHEX-4-ENE-1,2,3-TRIOL
2
CA
4
Ligand/Ion
CALCIUM ION
3
GAL
1
Ligand/Ion
BETA-D-GALACTOSE
4
GLC
3
Ligand/Ion
ALPHA-D-GLUCOSE
5
GLD
2
Ligand/Ion
4,6-DIDEOXYGLUCOSE
[
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Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:100 , TRP A:101 , LEU A:197 , ASP A:371 , ARG A:375 , ACI A:702 , HOH A:1150 , HOH A:1367
BINDING SITE FOR RESIDUE GLC A 701
02
AC2
SOFTWARE
LEU A:197 , ASP A:229 , GLU A:257 , HIS A:327 , ASP A:328 , ARG A:375 , GLC A:701 , GLD A:703 , HOH A:1420
BINDING SITE FOR RESIDUE ACI A 702
03
AC3
SOFTWARE
TYR A:195 , LYS A:232 , HIS A:233 , GLU A:257 , PHE A:259 , ACI A:702 , GAL A:704 , HOH A:1171 , HOH A:1420
BINDING SITE FOR RESIDUE GLD A 703
04
AC4
SOFTWARE
TYR A:195 , PHE A:259 , ASP A:328 , GLD A:703
BINDING SITE FOR RESIDUE GAL A 704
05
AC5
SOFTWARE
HIS B:98 , TYR B:100 , TRP B:101 , ASP B:371 , ARG B:375 , ACI B:802 , HOH B:1350 , HOH B:1467
BINDING SITE FOR RESIDUE GLC B 801
06
AC6
SOFTWARE
HIS B:140 , LEU B:194 , LEU B:197 , ASP B:229 , GLU B:257 , HIS B:327 , ASP B:328 , GLC B:801 , GLD B:803
BINDING SITE FOR RESIDUE ACI B 802
07
AC7
SOFTWARE
TYR B:195 , HIS B:233 , ACI B:802 , GLC B:804 , HOH B:1215
BINDING SITE FOR RESIDUE GLD B 803
08
AC8
SOFTWARE
TYR B:195 , LYS B:232 , GLD B:803
BINDING SITE FOR RESIDUE GLC B 804
09
AC9
SOFTWARE
ASP A:27 , ASN A:29 , ASN A:32 , ASN A:33 , GLY A:51 , ASP A:53 , HOH A:1281
BINDING SITE FOR RESIDUE CA A 687
10
BC1
SOFTWARE
ASN A:139 , ILE A:190 , ASP A:199 , HIS A:233 , HOH A:1295 , HOH A:1358 , HOH A:1421
BINDING SITE FOR RESIDUE CA A 688
11
BC2
SOFTWARE
ASP B:27 , ASN B:29 , ASN B:32 , ASN B:33 , GLY B:51 , ASP B:53
BINDING SITE FOR RESIDUE CA B 689
12
BC3
SOFTWARE
ASN B:139 , ILE B:190 , ASP B:199 , HIS B:233 , HOH B:1377 , HOH B:1470 , HOH B:1471
BINDING SITE FOR RESIDUE CA B 690
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: CBM20 (A:581-686,B:581-686)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CBM20
PS51166
CBM20 (carbohydrate binding type-20) domain profile.
CDGT_BACS0
608-713
2
A:581-686
B:581-686
[
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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
(4, 8)
Info
All SCOP Domains
1a: SCOP_d1v3la3 (A:407-496)
1b: SCOP_d1v3lb3 (B:407-496)
2a: SCOP_d1v3la1 (A:497-582)
2b: SCOP_d1v3lb1 (B:497-582)
3a: SCOP_d1v3la2 (A:583-686)
3b: SCOP_d1v3lb2 (B:583-686)
4a: SCOP_d1v3la4 (A:1-406)
4b: SCOP_d1v3lb4 (B:1-406)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Glycosyl hydrolase domain
(397)
Superfamily
:
Glycosyl hydrolase domain
(397)
Family
:
alpha-Amylases, C-terminal beta-sheet domain
(272)
Protein domain
:
Cyclodextrin glycosyltransferase
(51)
Bacillus sp., strain 1011 [TaxId: 1409]
(8)
1a
d1v3la3
A:407-496
1b
d1v3lb3
B:407-496
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
E set domains
(509)
Family
:
E-set domains of sugar-utilizing enzymes
(147)
Protein domain
:
Cyclomaltodextrin glycanotransferase, domain D
(49)
Bacillus sp., strain 1011 [TaxId: 1409]
(8)
2a
d1v3la1
A:497-582
2b
d1v3lb1
B:497-582
Fold
:
Prealbumin-like
(433)
Superfamily
:
Starch-binding domain-like
(84)
Family
:
Starch-binding domain
(67)
Protein domain
:
Cyclodextrin glycosyltransferase, C-terminal domain
(51)
Bacillus sp., strain 1011 [TaxId: 1409]
(8)
3a
d1v3la2
A:583-686
3b
d1v3lb2
B:583-686
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
Amylase, catalytic domain
(385)
Protein domain
:
Cyclodextrin glycosyltransferase
(51)
Bacillus sp. 1011, alkaliphilic [TaxId: 1410]
(8)
4a
d1v3la4
A:1-406
4b
d1v3lb4
B:1-406
[
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]
CATH Domains
(3, 8)
Info
all CATH domains
1a: CATH_1v3lA01 (A:1-400)
1b: CATH_1v3lB01 (B:1-400)
2a: CATH_1v3lA02 (A:401-495)
2b: CATH_1v3lB02 (B:401-495)
3a: CATH_1v3lA04 (A:583-685)
3b: CATH_1v3lB04 (B:583-685)
3c: CATH_1v3lA03 (A:496-582)
3d: CATH_1v3lB03 (B:496-582)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Glycosidases
(843)
1011 (Bacillus sp)
(10)
1a
1v3lA01
A:1-400
1b
1v3lB01
B:1-400
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Golgi alpha-mannosidase II
(346)
1011 (Bacillus sp)
(10)
2a
1v3lA02
A:401-495
2b
1v3lB02
B:401-495
Homologous Superfamily
:
Immunoglobulins
(2282)
1011 (Bacillus sp)
(10)
3a
1v3lA04
A:583-685
3b
1v3lB04
B:583-685
3c
1v3lA03
A:496-582
3d
1v3lB03
B:496-582
[
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]
Pfam Domains
(4, 8)
Info
all PFAM domains
1a: PFAM_TIG_1v3lB01 (B:499-581)
1b: PFAM_TIG_1v3lB02 (B:499-581)
2a: PFAM_Alpha_amylase_C_1v3lB03 (B:413-494)
2b: PFAM_Alpha_amylase_C_1v3lB04 (B:413-494)
3a: PFAM_CBM_20_1v3lB05 (B:586-682)
3b: PFAM_CBM_20_1v3lB06 (B:586-682)
4a: PFAM_Alpha_amylase_1v3lB07 (B:52-372)
4b: PFAM_Alpha_amylase_1v3lB08 (B:52-372)
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Clans
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Families
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)
Organisms
(
)
(
)
Clan
:
E-set
(290)
Family
:
TIG
(28)
Bacillus sp. (strain 1011)
(8)
1a
TIG-1v3lB01
B:499-581
1b
TIG-1v3lB02
B:499-581
Clan
:
GHD
(106)
Family
:
Alpha-amylase_C
(82)
Bacillus sp. (strain 1011)
(8)
2a
Alpha-amylase_C-1v3lB03
B:413-494
2b
Alpha-amylase_C-1v3lB04
B:413-494
Family
:
CBM_20
(20)
Bacillus sp. (strain 1011)
(8)
3a
CBM_20-1v3lB05
B:586-682
3b
CBM_20-1v3lB06
B:586-682
Clan
:
Glyco_hydro_tim
(488)
Family
:
Alpha-amylase
(138)
Bacillus sp. (strain 1011)
(8)
4a
Alpha-amylase-1v3lB07
B:52-372
4b
Alpha-amylase-1v3lB08
B:52-372
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Asym.Unit (234 KB)
Header - Asym.Unit
Biol.Unit 1 (118 KB)
Header - Biol.Unit 1
Biol.Unit 2 (116 KB)
Header - Biol.Unit 2
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