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3CK8
Asym. Unit
Info
Asym.Unit (191 KB)
Biol.Unit 1 (95 KB)
Biol.Unit 2 (93 KB)
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(1)
Title
:
B. THETAIOTAOMICRON SUSD WITH BETA-CYCLODEXTRIN
Authors
:
N. M. Koropatkin, E. C. Martens, J. I. Gordon, T. J. Smith
Date
:
14 Mar 08 (Deposition) - 01 Apr 08 (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
:
Tpr Repeat, Carbohydrate Binding, Starch Binding, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. M. Koropatkin, E. C. Martens, J. I. Gordon, T. J. Smith
Starch Catabolism By A Prominent Human Gut Symbiont Is Directed By The Recognition Of Amylose Helices.
Structure V. 16 1105 2008
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Hetero Components
(3, 16)
Info
All Hetero Components
1a: BETA-CYCLODEXTRIN (BCDa)
1b: BETA-CYCLODEXTRIN (BCDb)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
3e: 1,2-ETHANEDIOL (EDOe)
3f: 1,2-ETHANEDIOL (EDOf)
3g: 1,2-ETHANEDIOL (EDOg)
3h: 1,2-ETHANEDIOL (EDOh)
3i: 1,2-ETHANEDIOL (EDOi)
3j: 1,2-ETHANEDIOL (EDOj)
View:
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Label:
No.
Name
Count
Type
Full Name
1
BCD
2
Ligand/Ion
BETA-CYCLODEXTRIN
2
CA
4
Ligand/Ion
CALCIUM ION
3
EDO
10
Ligand/Ion
1,2-ETHANEDIOL
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Sites
(16, 16)
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)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:81 , TRP A:96 , TRP A:98 , ASN A:101 , TYR A:296 , TRP A:320 , SER A:321 , CYS A:322 , GLU B:204 , GLU B:209 , TRP B:224 , LYS B:252
BINDING SITE FOR RESIDUE BCD A 800
02
AC2
SOFTWARE
ARG A:451 , ARG B:81 , TRP B:96 , TRP B:98 , ASN B:101 , TYR B:296 , TRP B:320 , CYS B:322
BINDING SITE FOR RESIDUE BCD B 900
03
AC3
SOFTWARE
ASP A:273 , GLN A:288 , ASP A:430 , ASP A:432
BINDING SITE FOR RESIDUE CA A 600
04
AC4
SOFTWARE
ASP B:273 , GLN B:288 , ASP B:430 , ASP B:432
BINDING SITE FOR RESIDUE CA B 700
05
AC5
SOFTWARE
GLU B:274
BINDING SITE FOR RESIDUE CA B 710
06
AC6
SOFTWARE
GLU A:274
BINDING SITE FOR RESIDUE CA A 720
07
AC7
SOFTWARE
TYR A:52 , GLY A:216 , ARG A:287
BINDING SITE FOR RESIDUE EDO A 730
08
AC8
SOFTWARE
GLU A:274 , ARG A:417 , PRO A:422 , ASP A:430
BINDING SITE FOR RESIDUE EDO A 731
09
AC9
SOFTWARE
ASP A:289 , LYS A:292 , GLY B:40 , PHE B:42
BINDING SITE FOR RESIDUE EDO A 734
10
BC1
SOFTWARE
GLY A:127 , THR A:131 , PRO A:174 , LYS A:176
BINDING SITE FOR RESIDUE EDO A 737
11
BC2
SOFTWARE
ASN B:318 , TRP B:320 , THR B:427 , TYR B:428
BINDING SITE FOR RESIDUE EDO B 741
12
BC3
SOFTWARE
GLY A:40 , PHE A:42 , ASP B:289 , LYS B:292
BINDING SITE FOR RESIDUE EDO B 744
13
BC4
SOFTWARE
ARG A:211 , PHE A:215 , MET A:279
BINDING SITE FOR RESIDUE EDO A 747
14
BC5
SOFTWARE
ARG B:211 , PHE B:215 , MET B:279
BINDING SITE FOR RESIDUE EDO B 748
15
BC6
SOFTWARE
ALA B:328 , GLN B:331 , LEU B:511 , TRP B:512 , ASP B:513
BINDING SITE FOR RESIDUE EDO B 749
16
BC7
SOFTWARE
LYS A:332 , GLN A:479 , ILE A:482 , ASP A:483 , TYR A:510
BINDING SITE FOR RESIDUE EDO A 754
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3ck8a_ (A:)
1b: SCOP_d3ck8b_ (B:)
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)
Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
alpha-alpha superhelix
(690)
Superfamily
:
TPR-like
(83)
Family
:
SusD-like
(7)
Protein domain
:
Starch utilization system protein SusD
(5)
Bacteroides thetaiotaomicron [TaxId: 818]
(5)
1a
d3ck8a_
A:
1b
d3ck8b_
B:
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_3ck8A02 (A:210-307,A:412-490)
1b: CATH_3ck8B02 (B:210-307,B:412-490)
2a: CATH_3ck8A03 (A:308-411)
2b: CATH_3ck8B03 (B:308-411)
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Organisms
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)
Class
:
Mainly Alpha
(13335)
Architecture
:
Alpha Horseshoe
(399)
Topology
:
Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
(320)
Homologous Superfamily
:
[code=1.25.40.10, no name defined]
(42)
Bacteroides thetaiotaomicron vpi-5482. Organism_taxid: 226186. Strain:vpi-5482.
(4)
1a
3ck8A02
A:210-307,A:412-490
1b
3ck8B02
B:210-307,B:412-490
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
TPR-like
(5)
Homologous Superfamily
:
SusD-like
(5)
Bacteroides thetaiotaomicron vpi-5482. Organism_taxid: 226186. Strain:vpi-5482.
(4)
2a
3ck8A03
A:308-411
2b
3ck8B03
B:308-411
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
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Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
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In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
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Show PDB file:
Asym.Unit (191 KB)
Header - Asym.Unit
Biol.Unit 1 (95 KB)
Header - Biol.Unit 1
Biol.Unit 2 (93 KB)
Header - Biol.Unit 2
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