Structure of PDB 2ajd Chain A Binding Site BS01

Receptor Information
>2ajd Chain A (length=728) Species: 9823 (Sus scrofa) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SRRTYTLTDYLKSTFRVKFYTLQWISDHEYLYKQENNILLFNAEYGNSSI
FLENSTFDELGYSTNDYSVSPDRQFILFEYNYVKQWRHSYTASYDIYDLN
KRQLITEERIPNNTQWITWSPVGHKLAYVWNNDIYVKNEPNLSSQRITWT
GKENVIYNGVTDWVYEEEVFSAYSALWWSPNGTFLAYAQFNDTEVPLIEY
SFYSDESLQYPKTVRIPYPKAGAENPTVKFFVVDTRTLSPNASVTSYQIV
PPASVLIGDHYLCGVTWVTEERISLQWIRRAQNYSIIDICDYDESTGRWI
SSVARQHIEISTTGWVGRFRPAEPHFTSDGNSFYKIISNEEGYKHICHFQ
TDKSNCTFITKGAWEVIGIEALTSDYLYYISNEHKGMPGGRNLYRIQLND
YTKVTCLSCELNPERCQYYSASFSNKAKYYQLRCFGPGLPLYTLHSSSSD
KELRVLEDNSALDKMLQDVQMPSKKLDVINLHGTKFWYQMILPPHFDKSK
KYPLLIEVYAGPCSQKVDTVFRLSWATYLASTENIIVASFDGRGSGYQGD
KIMHAINRRLGTFEVEDQIEATRQFSKMGFVDDKRIAIWGWSYGGYVTSM
VLGAGSGVFKCGIAVAPVSKWEYYDSVYTERYMGLPTPEDNLDYYRNSTV
MSRAENFKQVEYLLIHGTADDNVHFQQSAQLSKALVDAGVDFQTMWYTDE
DHGIASNMAHQHIYTHMSHFLKQCFSLP
Ligand information
Ligand IDBPR
InChIInChI=1S/C9H17BN2O3/c13-9(7-3-1-5-11-7)12-6-2-4-8(12)10(14)15/h7-8,11,14-15H,1-6H2/t7-,8-/m0/s1
InChIKeyXSBZZZGVAIXJLD-YUMQZZPRSA-N
SMILES
SoftwareSMILES
CACTVS 3.341OB(O)[CH]1CCCN1C(=O)[CH]2CCCN2
ACDLabs 10.04O=C(N1C(B(O)O)CCC1)C2NCCC2
OpenEye OEToolkits 1.5.0B(C1CCCN1C(=O)C2CCCN2)(O)O
OpenEye OEToolkits 1.5.0B([C@@H]1CCCN1C(=O)[C@@H]2CCCN2)(O)O
CACTVS 3.341OB(O)[C@@H]1CCCN1C(=O)[C@@H]2CCCN2
FormulaC9 H17 B N2 O3
Name(2R)-N-[(2R)-2-(DIHYDROXYBORYL)-1-L-PROLYLPYRROLIDIN-2-YL]-N-[(5R)-5-(DIHYDROXYBORYL)-1-L-PROLYLPYRROLIDIN-2-YL]-L-PROLINAMIDE
ChEMBLCHEMBL63895
DrugBankDB07482
ZINCZINC000169748497
PDB chain2ajd Chain A Residue 801 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB2ajd Rigidity and flexibility of dipeptidyl peptidase IV: crystal structures of and docking experiments with DPIV.
Resolution2.56 Å
Binding residue
(original residue number in PDB)		E205 E206 Y547 S630 Y631 Y662 Y666 H740
Binding residue
(residue number reindexed from 1)		E167 E168 Y509 S592 Y593 Y624 Y628 H702
Annotation score1
Binding affinityPDBbind-CN: -logKd/Ki=10.80,Ki=16pM
Enzymatic activity
Catalytic site (original residue number in PDB) Y547 S630 Y631 D708 H740
Catalytic site (residue number reindexed from 1) Y509 S592 Y593 D670 H702
Enzyme Commision number 3.4.14.5: dipeptidyl-peptidase IV.
Gene Ontology
Molecular Function
GO:0002020 protease binding
GO:0004177 aminopeptidase activity
GO:0004252 serine-type endopeptidase activity
GO:0005102 signaling receptor binding
GO:0008236 serine-type peptidase activity
GO:0008239 dipeptidyl-peptidase activity
GO:0042803 protein homodimerization activity
Biological Process
GO:0006508 proteolysis
GO:0007155 cell adhesion
GO:0008284 positive regulation of cell population proliferation
GO:0010716 negative regulation of extracellular matrix disassembly
GO:0031295 T cell costimulation
GO:0043542 endothelial cell migration
Cellular Component
GO:0005576 extracellular region
GO:0005886 plasma membrane
GO:0009986 cell surface
GO:0016324 apical plasma membrane
GO:0030027 lamellipodium
GO:0030139 endocytic vesicle
GO:0031258 lamellipodium membrane
GO:0042995 cell projection
GO:0045121 membrane raft
GO:0070161 anchoring junction

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:2ajd, PDBe:2ajd, PDBj:2ajd
PDBsum2ajd
PubMed16330047
UniProtP22411|DPP4_PIG Dipeptidyl peptidase 4 (Gene Name=DPP4)

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