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2RDG
Asym. Unit
Info
Asym.Unit (48 KB)
Biol.Unit 1 (42 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF STAPHYLOCOCCAL SUPERANTIGEN-LIKE PROTEIN 11 IN COMPLEX WITH SIALYL LEWIS X
Authors
:
M. C. Chung, B. D. Wines, H. Baker, R. J. Langley, E. N. Baker, J. D. Fraser
Date
:
24 Sep 07 (Deposition) - 18 Dec 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Ob Fold, Beta Grasp, Protein-Carbohydrate Complex, Toxin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. C. Chung, B. D. Wines, H. Baker, R. J. Langley, E. N. Baker, J. D. Frase
The Crystal Structure Of Staphylococcal Superantigen-Like Protein 11 In Complex With Sialyl Lewis X Reveals The Mechanism For Cell Binding And Immune Inhibition
Mol. Microbiol. V. 66 1342 2007
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Hetero Components
(6, 8)
Info
All Hetero Components
1a: CITRIC ACID (CITa)
2a: ALPHA-L-FUCOSE (FUCa)
3a: BETA-D-GALACTOSE (GALa)
4a: POTASSIUM ION (Ka)
4b: POTASSIUM ION (Kb)
4c: POTASSIUM ION (Kc)
5a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
6a: O-SIALIC ACID (SIAa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CIT
1
Ligand/Ion
CITRIC ACID
2
FUC
1
Ligand/Ion
ALPHA-L-FUCOSE
3
GAL
1
Ligand/Ion
BETA-D-GALACTOSE
4
K
3
Ligand/Ion
POTASSIUM ION
5
NDG
1
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
6
SIA
1
Ligand/Ion
O-SIALIC ACID
[
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:6 , GLN A:8 , GLN A:11 , LEU A:130 , PHE A:166 , TYR A:167 , THR A:168 , ARG A:179 , ASP A:182 , GAL A:602 , HOH A:623 , HOH A:646 , HOH A:649 , HOH A:721
BINDING SITE FOR RESIDUE SIA A 601
2
AC2
SOFTWARE
ARG A:6 , HIS A:178 , ARG A:179 , GAL A:602 , FUC A:604 , HOH A:619 , HOH A:662 , HOH A:750 , HOH A:764 , HOH A:788 , HOH A:947
BINDING SITE FOR RESIDUE NDG A 603
3
AC3
SOFTWARE
ARG A:6 , GLN A:11 , GLU A:170 , GLN A:176 , SIA A:601 , NDG A:603 , FUC A:604 , HOH A:623 , HOH A:630 , HOH A:649 , HOH A:676
BINDING SITE FOR RESIDUE GAL A 602
4
AC4
SOFTWARE
GLN A:11 , GLU A:170 , LYS A:173 , GAL A:602 , NDG A:603 , HOH A:662 , HOH A:697 , HOH A:704 , HOH A:768 , HOH A:802 , HOH A:903
BINDING SITE FOR RESIDUE FUC A 604
5
AC5
SOFTWARE
GLN A:99 , ASN A:100 , HOH A:664 , HOH A:832 , HOH A:859 , HOH A:944
BINDING SITE FOR RESIDUE K A 605
6
AC6
SOFTWARE
GLN A:8 , GLN A:11 , CIT A:608 , HOH A:649 , HOH A:676 , HOH A:854
BINDING SITE FOR RESIDUE K A 606
7
AC7
SOFTWARE
SER A:108 , GLY A:110 , GLN A:111 , THR A:113 , HOH A:752
BINDING SITE FOR RESIDUE K A 607
8
AC8
SOFTWARE
GLN A:8 , ARG A:91 , THR A:92 , HIS A:94 , LYS A:156 , ARG A:158 , K A:606 , HOH A:806 , HOH A:821 , HOH A:841 , HOH A:854 , HOH A:902
BINDING SITE FOR RESIDUE CIT A 608
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
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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.
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2rdga1 (A:5-93)
2a: SCOP_d2rdga2 (A:94-196)
View:
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Classes
(
)
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Folds
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)
Superfamilies
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)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
OB-fold
(1179)
Superfamily
:
Bacterial enterotoxins
(188)
Family
:
automated matches
(12)
Protein domain
:
automated matches
(12)
Staphylococcus aureus [TaxId: 1280]
(6)
1a
d2rdga1
A:5-93
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
beta-Grasp (ubiquitin-like)
(1032)
Superfamily
:
Superantigen toxins, C-terminal domain
(103)
Family
:
automated matches
(9)
Protein domain
:
automated matches
(9)
Staphylococcus aureus [TaxId: 1280]
(5)
2a
d2rdga2
A:94-196
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CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_2rdgA01 (A:5-18,A:90-196)
2a: CATH_2rdgA02 (A:19-89)
View:
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Classes
(
)
(
)
Architectures
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)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
Ubiquitin-like (UB roll)
(674)
Homologous Superfamily
:
[code=3.10.20.120, no name defined]
(91)
Staphylococcus aureus. Organism_taxid: 1280. Strain: us6610.
(2)
1a
2rdgA01
A:5-18,A:90-196
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
OB fold (Dihydrolipoamide Acetyltransferase, E2P)
(1040)
Homologous Superfamily
:
[code=2.40.50.110, no name defined]
(136)
Staphylococcus aureus. Organism_taxid: 1280. Strain: us6610.
(2)
2a
2rdgA02
A:19-89
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Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_Stap_Strp_tox_C_2rdgA01 (A:99-196)
2a: PFAM_DUF1954_2rdgA02 (A:11-90)
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Clans
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Families
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Organisms
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)
Clan
:
Ant-toxin_C
(48)
Family
:
Stap_Strp_tox_C
(48)
Staphylococcus aureus
(41)
1a
Stap_Strp_tox_C-2rdgA01
A:99-196
Clan
:
no clan defined [family: DUF1954]
(9)
Family
:
DUF1954
(9)
Staphylococcus aureus
(8)
2a
DUF1954-2rdgA02
A:11-90
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Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (48 KB)
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