Structure of PDB 5jsd Chain B Binding Site BS02

Receptor Information
>5jsd Chain B (length=548) Species: 38018 (Bacteriophage sp.) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QTQYYLKYFNPEIVYPKNARIMLDNGDIVRSTVVNNTSNPNVDMTGWVKV
SSVSQIFDETYNITQSVINGNLITVDNFGAKGDGVTDDSAAFQAYCDSAL
TGQNLYLGAKGRYILKNQVDLKGKGLVGNGCGKVSEFYYNLGCIDVDGSS
PDLQGKTAFINCGPTIQNLTARCSNGAGKQVSFIEIDGYLANIDHITLIN
FYNQIVVKQALVGFNFTNAWLYYSQNAGIYCEDPLNRVSTTGTFHNIYFQ
LGDGHAMIFDRDVHGCDFDNIIFESMNGGIKARTVAHCGFGKFWCENLKT
ATSKDWLEVTGANSCYGNSFTGYVKLLGGWTSKTSPTLDSLPTNNYGGVS
VSAEGISIVNAGNKAKMLMLPSGFKTGNATIDETHISSSTVTPLVKRRVI
GADSSGAQYLASDTYTKLSRKWGTYNHGSNNAGAFYAPMMLTYDQSFSTP
QNNNGWKIVKESTGVYRVERVSGNTSVITNGHIVVGSPLMGSRLGTGTGA
THGIQMIETYAGSWTSYTEAAGFKVFWRDSSNALVDPHRFTVAFTATS
Ligand information
Ligand ID1GN
InChIInChI=1S/C6H13NO5/c7-3-5(10)4(9)2(1-8)12-6(3)11/h2-6,8-11H,1,7H2/t2-,3-,4+,5-,6-/m1/s1
InChIKeyMSWZFWKMSRAUBD-VFUOTHLCSA-N
SMILES
SoftwareSMILES
CACTVS 3.341N[C@H]1[C@H](O)O[C@H](CO)[C@H](O)[C@@H]1O
CACTVS 3.341N[CH]1[CH](O)O[CH](CO)[CH](O)[CH]1O
OpenEye OEToolkits 1.5.0C(C1C(C(C(C(O1)O)N)O)O)O
OpenEye OEToolkits 1.5.0C([C@@H]1[C@@H]([C@@H]([C@H]([C@@H](O1)O)N)O)O)O
ACDLabs 10.04OC1C(O)C(OC(O)C1N)CO
FormulaC6 H13 N O5
Name2-amino-2-deoxy-beta-D-galactopyranose;
beta-D-galactosamine;
2-amino-2-deoxy-beta-D-galactose;
2-amino-2-deoxy-D-galactose;
2-amino-2-deoxy-galactose;
2-DEOXY-2-AMINOGALACTOSE
ChEMBL
DrugBankDB02678
ZINCZINC000003861073
PDB chain5jsd Chain F Residue 1 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5jsd Structural basis for fragmenting the exopolysaccharide of Acinetobacter baumannii by bacteriophage Phi AB6 tailspike protein
Resolution1.48 Å
Binding residue
(original residue number in PDB)		R254 V255
Binding residue
(residue number reindexed from 1)		R237 V238
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Biological Process
GO:0046718 symbiont entry into host cell
GO:0098994 symbiont entry into host cell via disruption of host cell envelope
GO:0098996 symbiont entry into host cell via disruption of host cell glycocalyx
Cellular Component
GO:0098015 virus tail

View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5jsd, PDBe:5jsd, PDBj:5jsd
PDBsum5jsd
PubMed28209973
UniProtA0A159BDB5

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