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(-) Description

Title :  CRYSTAL STRUCTURE OF MURINE AUTOTAXIN IN COMPLEX WITH A SMALL MOLECULE INHIBITOR
 
Authors :  A. P. Turnbull, P. Shah, A. Cheasty, T. Raynham, L. Pang, P. Owen
Date :  14 Jul 16  (Deposition) - 09 Nov 16  (Release) - 28 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.92
Chains :  Asym./Biol. Unit :  A
Keywords :  Lysophospholipase D, Autotaxin, Enpp2, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  P. Shah, A. Cheasty, C. Foxton, T. Raynham, M. Farooq, I. F. Gutierrez, A. Lejeune, M. Pritchard, A. Turnbull, L. Pang, P. Owen, S. Boyd, A. Stowell, A. Jordan, N. M. Hamilton, J. R. Hitchin, M. Stockley, E. Macdonald, M. J. Quesada, E. Trivier, J. Skeete, H. Ovaa, W. H. Moolenaar, H. Ryder
Discovery Of Potent Inhibitors Of The Lysophospholipase Autotaxin.
Bioorg. Med. Chem. Lett. V. 26 5403 2016
PubMed-ID: 27780639  |  Reference-DOI: 10.1016/J.BMCL.2016.10.036

(-) Compounds

Molecule 1 - ECTONUCLEOTIDE PYROPHOSPHATASE/PHOSPHODIESTERASE FAMILY MEMBER 2
    ChainsA
    EC Number3.1.4.39
    EngineeredYES
    Expression SystemHOMO SAPIENS
    Expression System Cell LineHEK293S GNT1-
    Expression System CommonHUMAN
    Expression System Taxid9606
    Expression System Vector TypePLASMID
    GeneENPP2, NPPS2, PDNP2
    Organism CommonMOUSE
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
    SynonymE-NPP 2,AUTOTAXIN,EXTRACELLULAR LYSOPHOSPHOLIPASE D,LYSOPLD

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (10, 17)

Asymmetric/Biological Unit (10, 17)
No.NameCountTypeFull Name
16XN1Ligand/Ion~{N}-[(1~{S})-1-(4-CHLOROPHENYL)ETHYL]-3-[3-[[4-(TRIFLUOROMETHYLOXY)PHENYL]METHYL]IMIDAZO[4,5-B]PYRIDIN-2-YL]PROPANAMIDE
2BMA1Ligand/IonBETA-D-MANNOSE
3CA1Ligand/IonCALCIUM ION
4EDO3Ligand/Ion1,2-ETHANEDIOL
5K1Ligand/IonPOTASSIUM ION
6MAN3Ligand/IonALPHA-D-MANNOSE
7NA1Ligand/IonSODIUM ION
8NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
9SO41Ligand/IonSULFATE ION
10ZN2Ligand/IonZINC ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREILE A:167 , SER A:169 , LEU A:213 , LEU A:216 , ALA A:217 , LYS A:248 , PHE A:249 , TRP A:254 , PHE A:273 , PHE A:274 , TRP A:275 , TYR A:306 , HOH A:1296binding site for residue 6XN A 908
02AC2SOFTWAREASP A:171 , THR A:209 , ASP A:311 , ASP A:358 , HIS A:359 , SO4 A:911binding site for residue ZN A 909
03AC3SOFTWAREASP A:311 , HIS A:315 , HIS A:474 , SO4 A:911binding site for residue ZN A 910
04AC4SOFTWAREASP A:171 , THR A:209 , ASN A:230 , LEU A:243 , ASP A:311 , HIS A:315 , HIS A:359 , HIS A:474 , LYS A:579 , ZN A:909 , ZN A:910 , HOH A:1003binding site for residue SO4 A 911
05AC5SOFTWAREASP A:735 , ASN A:737 , ASN A:739 , LEU A:741 , ASP A:743 , HOH A:1106binding site for residue CA A 912
06AC6SOFTWAREASN A:797 , SER A:800 , SER A:803 , HOH A:1182 , HOH A:1368binding site for residue NA A 913
07AC7SOFTWARETYR A:665 , ASP A:668 , MET A:671 , HOH A:1312binding site for residue K A 914
08AC8SOFTWAREPHE A:704 , PRO A:792 , ARG A:794 , ASN A:797 , HOH A:1063binding site for residue EDO A 915
09AC9SOFTWAREGLY A:226 , ASN A:437 , ARG A:439 , MAN A:906 , HOH A:1048binding site for residue EDO A 916
10AD1SOFTWAREHIS A:251 , PHE A:274binding site for residue EDO A 917
11AD2SOFTWARELEU A:376 , THR A:377 , ASN A:410binding site for Mono-Saccharide NAG A 901 bound to ASN A 410
12AD3SOFTWARELEU A:220 , GLU A:223 , SER A:224 , HIS A:225 , GLY A:255 , ASN A:436 , ASN A:437 , PRO A:522 , ASN A:524 , LEU A:741 , HIS A:827 , EDO A:916 , HOH A:1034 , HOH A:1048 , HOH A:1064 , HOH A:1068 , HOH A:1094 , HOH A:1112 , HOH A:1118 , HOH A:1167 , HOH A:1227binding site for Poly-Saccharide residues NAG A 902 through MAN A 907 bound to ASN A 524

(-) SS Bonds  (14, 14)

Asymmetric/Biological Unit
No.Residues
1A:58 -A:75
2A:62 -A:93
3A:73 -A:86
4A:79 -A:85
5A:102 -A:119
6A:107 -A:137
7A:117 -A:130
8A:123 -A:129
9A:148 -A:194
10A:156 -A:350
11A:413 -A:801
12A:566 -A:662
13A:568 -A:647
14A:770 -A:780

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5LIA)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5LIA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5LIA)

(-) Exons   (0, 0)

(no "Exon" information available for 5LIA)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:805
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................................hhhhhhh........hhhhh........................hhhhhhhh..hhhhh..................eeeeeee..hhhhhhhhhhhhhhhhhhhhhhee...ee.....hhhhhhhhhhhh.hhhhhh.....eee....eee....hhhhhhhhh...hhhhhhhhh.............hhhhhhhhhhhhhh........eeeeeeeeehhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh......eeeeee....ee.....eee.hhh..hhh.eeee...eeeeee........hhhhhhhhhh.......eeeee.hhhhhhhh.........eeeee....eee.hhhhh...........ee......hhhhh..eeee.......ee...ee..hhhhhhhhhh.............hhhhh.......................hhhhh...........hhhhh.......hhhhhhh.....ee.....eeeee....eeeee....eeeeeeeee.........hhhhh.........hhhhh.hhhhhhhh...eeee..hhhhh....hhhhhhhhh.eeeehhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeee..........hhhhh.............eeeeeeeee.....hhhhh...eeeeeeeee.............hhhhhhhhhhhhheehhhhhhhhhhee.......hhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lia A  51 WTNTSGSCKGRCFELQEVGPPDCRCDNLCKSYSSCCHDFDELCLKTARGWECTKDRCGEVRNEENACHCSEDCLSRGDCCTNYQVVCKGESHWVDDDCEEIRVPECPAGFVRPPLIIFSVDGFRASYMKKGSKVMPNIEKLRSCGTHAPYMRPVYPTKTFPNLYTLATGLYPESHGIVGNSMYDPVFDATFHLRGREKFNHRWWGGQPLWITATKQGVRAGTFFWSVSIPHERRILTILQWLSLPDNERPSVYAFYSEQPDFSGHKYGPFGPEMTNPLREIDKTVGQLMDGLKQLKLHRCVNVIFVGDHGMEDVTCDRTEFLSNYLTNVDDITLVPGTLGRIRPKIPNNLKYDPKAIIANLTCKKPDQHFKPYMKQHLPKRLHYANNRRIEDLHLLVERRWHVARKPLDVYKKPSGKCFFQGDHGFDNKVNSMQTVFVGYGPTFKYRTKVPPFENIELYNVMCDLLGLKPAPNNGTHGSLNHLLRTNTFRPTLPEEVSRPNYPGIMYLQSDFDLGCTCDDKNKLEELNKRLHTKGSTEERHLLYGRPAVLYRTSYDILYHTDFESGYSEIFLMPLWTSYTISKQAEVSSIPEHLTNCVRPDVRVSPGFSQNCLAYKNDKQMSYGFLFPPYLSSSPEAKYDAFLVTNMVPMYPAFKRVWTYFQRVLVKKYASERNGVNVISGPIFDYNYNGLRDIEDEIKQYVEGSSIPVPTHYYSIITSCLDFTQPADKCDGPLSVSSFILPHRPDNDESCNSSEDESKWVEELMKMHTARVRDIEHLTGLDFYRKTSRSYSEILTLKTYLHTYE 855
                                    60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840       850     

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5LIA)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5LIA)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5LIA)

(-) Gene Ontology  (29, 29)

Asymmetric/Biological Unit(hide GO term definitions)

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UniProtKB/Swiss-Prot
        ENPP2_MOUSE | Q9R1E63nkm 3nkn 3nko 3nkp 3nkq 3nkr 3wav 3waw 3wax 3way 4gtw 4gtx 4gty 4gtz 5hrt 5inh 5jvg

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