Uniprot accession / id : Q920G3  OR   Uniprot accession / id : Q9NYZ4
 
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Entry Information
Entry status  (1)
REL
(5)
 
Experimental methods  (2)
X-ray diffraction
(3)
Solution NMR
(2)
 
Authors  (34)
Schubert M
(5)
Atxabal U
(3)
Coelho H
(3)
Delgado S
(3)
Ereno-Orbea J
(3)
Ereño-Orbea J
(3)
Franconetti A
(3)
Garnica Marroquin CT
(3)
Garnica Marroquín CT
(3)
Jimenez-Barbero J
(3)
Jimenez-Oses G
(3)
Jiménez-Barbero J
(3)
Jiménez-Oses G
(3)
Lenza MP
(3)
Marcelo F
(3)
Nunez-Franco R
(3)
Nycholat C
(3)
Núñez-Franco R
(3)
Oyenarte I
(3)
Paulson JC
(3)
Quintana JI
(3)
Unione L
(3)
Allain FH
(2)
Allain FH-T
(2)
Ernst B
(2)
Proepster JM
(2)
Propster JM
(2)
Pröpster JM
(2)
Rabbani S
(2)
Yang F
(2)
Ereno Orbea J
(1)
Jimenez Barbero J
(1)
Nycholat CM
(1)
Paulson J
(1)
 
Homo / hetero assembly  (2)
homo
(4)
hetero
(1)
 
Assembly composition  (2)
protein structure
(4)
protein/protein complex
(1)
 
Assembly polymer count  (3)
monomer
(3)
dimer
(1)
trimer
(1)
 
Resolution distribution
2.0 - 2.5
(1)
2.5 - 3
(1)
3.0 - 3.5
(1)
 
Release year distribution
2015 - 2020
(2)
2020 - 2025
(3)
 
Journal  (2)
JACS Au
(3)
Proc Natl Acad Sci U S A
(2)
 
Macromolecules
Organism superkingdom  (1)
Eukaryota
(5)
 
Organism name  (1)
Homo sapiens
(5)
 
Molecule name  (4)
SAF-2
(5)
Sialic acid-binding Ig-like lectin 8
(5)
Sialoadhesin family member 2
(5)
Siglec-8
(5)
 
Molecule type  (1)
Protein
(5)
 
Gene names  (2)
SAF2
(5)
SIGLEC8
(5)
 
Interacting Molecules  (1)
Sialic acid-binding immunoglobulin-type lectin
(1)
 
Interacting ligands  (6)
0D8 : 3-aminopropan-1-ol
(1)
F9I : (2~{S},4~{S},5~{R},6~{R})-5-acetamido-2-[(2~{S},3~{R},4~{S},5~{S},6~{R})-2-[(2~{R},3~{S},4~{R},5~{R},6~{R})-5-acetamido-2-(hydroxymethyl)-4,6-bis(oxidanyl)oxan-3-yl]oxy-3,5-bis(oxidanyl)-6-(sulfooxymethyl)oxan-4-yl]oxy-6-[(1~{R},2~{R})-3-(naphthalen-2-ylsulfonylamino)-1,2-bis(oxidanyl)propyl]-4-oxidanyl-oxane-2-carboxylic acid
(1)
FUC : alpha-L-fucopyranose
(1)
G6S : 6-O-sulfo-beta-D-galactopyranose
(1)
NAG : 2-acetamido-2-deoxy-beta-D-glucopyranose
(1)
SIA : N-acetyl-alpha-neuraminic acid
(1)
 
Sequence and Structure classification
CATH class  (1)
Mainly Beta
(2)
 
CATH topology  (1)
Immunoglobulin-like
(2)
 
Pfam accession / name  (3)
PF07686 : V-set
(5)
PF00047 : ig
(1)
PF13927 : Ig_3
(1)
 
Experimental Information
Diffraction protocol  (2)
Single wavelength
(2)
Laue
(1)
 
Diffraction radiation source type  (1)
Synchrotron
(3)
 
Diffraction source  (2)
SLS BEAMLINE X06DA
(2)
ALBA BEAMLINE XALOC
(1)
 
Synchrotron site  (2)
SLS
(2)
ALBA
(1)
 
Diffraction detector type  (1)
Pixel
(3)
 
Refinement software  (1)
PHENIX
(3)
 
NMR
NMR software packages  (7)
ATNOS/CANDID
(2)
Amber
(2)
CYANA
(2)
PROCHECK / PROCHECK-NMR
(2)
Sparky
(2)
TALOS+
(2)
TopSpin
(2)
 
NMR Field Strength
400.0 - 500
(2)
500.0 - 600
(2)
600.0 - 700
(2)
700.0 - 800
(2)
800.0 - 900
(2)
900.0 - 1000
(2)
 
Representative Structures
Representative Structures
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Entries 1 to 5 of 5
Entries 1 to 5 of 5
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Crystal structure of the N-terminal domain of Siglec-8
Lenza MP, Atxabal U, Nycholat CM, Oyenarte I, Paulson JC, Franconetti A, Quintana JI, Unione L, Delgado S, Jimenez-Barbero J, Ereno-Orbea J
JACS Au (2023) [PMID: 36711084  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Assembly name: Sialic acid-binding Ig-like lectin 8 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-192724 (Preferred)   search this ID
PDBe-KB: Q9NYZ4    Q9NYZ4   
X-ray diffraction
2.34Å resolution
Released: 18 Jan 2023
Model geometry
Fit model/data
7qu6
7qu6
7qu6
Siglec-8 in complex with therapeutic Fab AK002.
Lenza MP, Oyenarte I, Jimenez Barbero J, Ereno Orbea J
JACS Au (2023) [PMID: 36711084  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Assembly name: Sialic acid-binding Ig-like lectin 8 and IG-heavy chain and IG-light kappa chain (Preferred)   search this complex
PDBe complex ID: PDB-CPX-226367 (Preferred)   search this ID
PDBe-KB: Q9NYZ4   
X-ray diffraction
2.867Å resolution
Released: 31 May 2023
Model geometry
Fit model/data
7quh
7quh
7quh
Crystal structure of the N-terminal domain of Siglec-8 in complex with sulfonamide sialoside analogue
Lenza MP, Oyenarte I, Atxabal U, Nycholat C, Franconetti A, Quintana JI, Delgado S, Unione L, Paulson J, Jimenez-Barbero J, Ereno-Orbea J
JACS Au (2023) [PMID: 36711084  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: F9I   
Assembly name: Sialic acid-binding Ig-like lectin 8 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-280345 (Preferred)   search this ID
PDBe-KB: Q9NYZ4    Q9NYZ4   
X-ray diffraction
3.352Å resolution
Released: 18 Jan 2023
Model geometry
Fit model/data
7qui
7qui
7qui
Solution structure of the human Siglec-8 lectin domain
Proepster JM, Yang F, Rabbani S, Ernst B, Allain FH-T, Schubert M
Proc Natl Acad Sci U S A (2016) [PMID: 27357658  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Assembly name: Sialic acid-binding Ig-like lectin 8 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-192724 (Preferred)   search this ID
PDBe-KB: Q9NYZ4    Q9NYZ4   
Solution NMR
Released: 6 Jul 2016
Model geometry
Fit model/data
Data not analysed
2n7a
2n7a
2n7a
Solution structure of the human Siglec-8 lectin domain in complex with 6'sulfo sialyl Lewisx
Proepster JM, Yang F, Rabbani S, Ernst B, Allain FH-T, Schubert M
Proc Natl Acad Sci U S A (2016) [PMID: 27357658  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: 0D8    0D8   
Carbohydrate polymer components:
Assembly name: Sialic acid-binding Ig-like lectin 8 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-192724 (Preferred)   search this ID
PDBe-KB: Q9NYZ4    Q9NYZ4   
Solution NMR
Released: 6 Jul 2016
Model geometry
Fit model/data
Data not analysed
2n7b
2n7b
2n7b
Entries 1 to 5 of 5
Entries 1 to 5 of 5