Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF MOUSE AUTOTAXIN IN COMPLEX WITH 18:3-LPA
 
Authors :  H. Nishimasu, R. Ishitani, E. Mihara, J. Takagi, J. Aoki, O. Nureki
Date :  20 Jun 10  (Deposition) - 19 Jan 11  (Release) - 19 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Lysophospholipase D, Autotaxin, Enpp2, Lysophosphatidic Acid, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Nishimasu, S. Okudaira, K. Hama, E. Mihara, N. Dohmae, A. Inoue, R. Ishitani, J. Takagi, J. Aoki, O. Nureki
Crystal Structure Of Autotaxin And Insight Into Gpcr Activation By Lipid Mediators
Nat. Struct. Mol. Biol. V. 18 205 2011
PubMed-ID: 21240269  |  Reference-DOI: 10.1038/NSMB.1998

(-) Compounds

Molecule 1 - ECTONUCLEOTIDE PYROPHOSPHATASE/PHOSPHODIESTERASE FAMILY MEMBER 2
    Chains: A
    EC Number: 3.1.4.39
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293S GNT1-
    Expression System Common: HUMAN
    Expression System Plasmid: PCD-CW
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Gene: ENPP2, NPPS2, PDNP2
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: ATX, E-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, 40)

Asymmetric/Biological Unit (10, 40)
No.NameCountTypeFull Name
1BMA1Ligand/IonBETA-D-MANNOSE
2CA1Ligand/IonCALCIUM ION
3EDO21Ligand/Ion1,2-ETHANEDIOL
4K1Ligand/IonPOTASSIUM ION
5MAN3Ligand/IonALPHA-D-MANNOSE
6NA1Ligand/IonSODIUM ION
7NAG6Ligand/IonN-ACETYL-D-GLUCOSAMINE
8NKQ2Ligand/Ion(2R)-2-HYDROXY-3-(PHOSPHONOOXY)PROPYL (9E,12Z,15Z)-OCTADECA-9,12,15-TRIENOATE
9SCN2Ligand/IonTHIOCYANATE ION
10ZN2Ligand/IonZINC ION

(-) Sites  (40, 40)

Asymmetric Unit (40, 40)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:53 , SER A:55 , NAG A:899BINDING SITE FOR RESIDUE NAG A 898
02AC2SOFTWARENAG A:898BINDING SITE FOR RESIDUE NAG A 899
03AC3SOFTWAREHOH A:28 , LEU A:220 , PRO A:522 , ASN A:524 , HIS A:827 , NAG A:901 , HOH A:933 , HOH A:994 , HOH A:1061 , HOH A:1094 , HOH A:1483 , HOH A:1546BINDING SITE FOR RESIDUE NAG A 900
04AC4SOFTWARESER A:224 , NAG A:900 , BMA A:902 , MAN A:903 , MAN A:905 , HOH A:1200 , HOH A:1438 , HOH A:1477BINDING SITE FOR RESIDUE NAG A 901
05AC5SOFTWARENAG A:901 , MAN A:903BINDING SITE FOR RESIDUE BMA A 902
06AC6SOFTWARENAG A:901 , BMA A:902 , MAN A:904 , HOH A:1200 , HOH A:1451BINDING SITE FOR RESIDUE MAN A 903
07AC7SOFTWAREHOH A:19 , SER A:224 , GLY A:255 , MAN A:903 , MAN A:905 , EDO A:1030 , HOH A:1505BINDING SITE FOR RESIDUE MAN A 904
08AC8SOFTWAREGLU A:223 , SER A:224 , ASN A:436 , ASN A:437 , HOH A:869 , NAG A:901 , MAN A:904 , EDO A:1030 , HOH A:1042 , HOH A:1299 , HOH A:1477BINDING SITE FOR RESIDUE MAN A 905
09AC9SOFTWARELEU A:376 , THR A:377 , ASN A:410 , NAG A:908 , HOH A:941 , HOH A:1043 , HOH A:1210 , HOH A:1469BINDING SITE FOR RESIDUE NAG A 907
10BC1SOFTWARETHR A:377 , NAG A:907 , HOH A:1210 , HOH A:1229 , HOH A:1324 , HOH A:1453 , HOH A:1555BINDING SITE FOR RESIDUE NAG A 908
11BC2SOFTWAREASP A:171 , THR A:209 , ASP A:358 , HIS A:359BINDING SITE FOR RESIDUE ZN A 1001
12BC3SOFTWAREASP A:311 , HIS A:315 , HIS A:474 , NKQ A:1006BINDING SITE FOR RESIDUE ZN A 1002
13BC4SOFTWAREASP A:735 , ASN A:737 , ASN A:739 , LEU A:741 , ASP A:743 , HOH A:967BINDING SITE FOR RESIDUE CA A 1003
14BC5SOFTWAREASN A:797 , SER A:800 , SER A:803 , HOH A:1033 , HOH A:1419BINDING SITE FOR RESIDUE NA A 1004
15BC6SOFTWARETYR A:665 , ASP A:668 , MET A:671BINDING SITE FOR RESIDUE K A 1005
16BC7SOFTWARETHR A:209 , PHE A:210 , ASN A:230 , PHE A:273 , TYR A:306 , ASP A:311 , HIS A:315 , HIS A:474 , ZN A:1002 , HOH A:1036 , HOH A:1083 , HOH A:1091BINDING SITE FOR RESIDUE NKQ A 1006
17BC8SOFTWARETRP A:254 , HOH A:1567BINDING SITE FOR RESIDUE NKQ A 1007
18BC9SOFTWAREGLY A:229 , ASN A:230 , ARG A:391 , HOH A:1157BINDING SITE FOR RESIDUE SCN A 1008
19CC1SOFTWAREMET A:232 , ARG A:393 , HOH A:1396BINDING SITE FOR RESIDUE SCN A 1009
20CC2SOFTWAREARG A:823 , GLU A:826 , ASP A:832 , TYR A:841 , LEU A:845 , LYS A:848BINDING SITE FOR RESIDUE EDO A 1010
21CC3SOFTWAREILE A:151 , CYS A:194 , GLY A:195 , GLY A:491 , LYS A:495 , TYR A:496 , HOH A:974 , HOH A:995BINDING SITE FOR RESIDUE EDO A 1011
22CC4SOFTWAREGLY A:674 , PHE A:675 , PRO A:679 , TYR A:680 , TRP A:708 , GLN A:712 , HOH A:1088BINDING SITE FOR RESIDUE EDO A 1012
23CC5SOFTWARETYR A:601 , PHE A:621 , PHE A:734 , ARG A:742 , ASP A:743 , HOH A:937 , HOH A:1315BINDING SITE FOR RESIDUE EDO A 1013
24CC6SOFTWAREARG A:192 , HIS A:197 , LYS A:499BINDING SITE FOR RESIDUE EDO A 1014
25CC7SOFTWARETYR A:701 , TYR A:736 , GLN A:750 , VAL A:759 , PRO A:760 , THR A:761 , HIS A:793 , HOH A:1345BINDING SITE FOR RESIDUE EDO A 1015
26CC8SOFTWAREHOH A:21 , LEU A:446 , GLU A:448 , HOH A:953 , HOH A:1308 , HOH A:1490BINDING SITE FOR RESIDUE EDO A 1016
27CC9SOFTWARELYS A:180 , VAL A:184BINDING SITE FOR RESIDUE EDO A 1017
28DC1SOFTWAREPRO A:520 , ALA A:521 , PRO A:522 , ASN A:523 , HOH A:939 , HOH A:1155 , HOH A:1282BINDING SITE FOR RESIDUE EDO A 1018
29DC2SOFTWAREILE A:620 , GLU A:745 , TYR A:751 , SER A:756 , PRO A:758 , HOH A:1428BINDING SITE FOR RESIDUE EDO A 1019
30DC3SOFTWARESER A:785 , VAL A:786 , LEU A:847 , TYR A:850 , HOH A:1249BINDING SITE FOR RESIDUE EDO A 1020
31DC4SOFTWARELEU A:600 , ARG A:742 , GLY A:830 , HOH A:1060BINDING SITE FOR RESIDUE EDO A 1021
32DC5SOFTWAREGLY A:267 , ASN A:374 , HOH A:1180BINDING SITE FOR RESIDUE EDO A 1022
33DC6SOFTWAREHIS A:281 , SER A:307 , ILE A:331 , THR A:334 , HOH A:1516BINDING SITE FOR RESIDUE EDO A 1023
34DC7SOFTWAREARG A:835 , LYS A:836 , HOH A:1298 , HOH A:1513BINDING SITE FOR RESIDUE EDO A 1024
35DC8SOFTWAREPRO A:702 , ALA A:703 , ARG A:706 , HOH A:914 , HOH A:965 , HOH A:1064BINDING SITE FOR RESIDUE EDO A 1025
36DC9SOFTWAREPRO A:783 , LEU A:784 , ARG A:839 , GLU A:843 , HOH A:1220BINDING SITE FOR RESIDUE EDO A 1026
37EC1SOFTWARELYS A:495 , TYR A:496 , ARG A:535 , HOH A:1140BINDING SITE FOR RESIDUE EDO A 1027
38EC2SOFTWAREPHE A:704 , PRO A:792 , ARG A:794 , ASP A:796 , ASN A:797 , HOH A:891BINDING SITE FOR RESIDUE EDO A 1028
39EC3SOFTWAREHOH A:21 , HOH A:22 , GLU A:799 , SER A:800 , GLU A:813 , HOH A:951 , HOH A:985BINDING SITE FOR RESIDUE EDO A 1029
40EC4SOFTWAREHOH A:19 , GLY A:226 , ASN A:437 , ARG A:439 , HOH A:869 , MAN A:904 , MAN A:905BINDING SITE FOR RESIDUE EDO A 1030

(-) SS Bonds  (15, 15)

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:366 -A:468
12A:413 -A:801
13A:566 -A:662
14A:568 -A:647
15A:770 -A:780

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Pro A:70 -Pro A:71
2Tyr A:205 -Pro A:206
3Gln A:309 -Pro A:310
4Gly A:585 -Ser A:586

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3NKQ)

(-) PROSITE Motifs  (2, 4)

Asymmetric/Biological Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SMB_2PS50958 Somatomedin B (SMB) domain profile.ENPP2_MOUSE54-97
98-142		  2A:54-97
A:98-142
2SMB_1PS00524 Somatomedin B domain (SMB) signature.ENPP2_MOUSE73-93
117-137		  2A:73-93
A:117-137

(-) Exons   (0, 0)

(no "Exon" information available for 3NKQ)

(-) 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:782
 aligned with ENPP2_MOUSE | Q9R1E6 from UniProtKB/Swiss-Prot  Length:862

    Alignment length:809
                                    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         
          ENPP2_MOUSE    51 WTNTSGSCKGRCFELQEVGPPDCRCDNLCKSYSSCCHDFDELCLKTARGWECTKDRCGEVRNEENACHCSEDCLSRGDCCTNYQVVCKGESHWVDDDCEEIRVPECPAGFVRPPLIIFSVDGFRASYMKKGSKVMPNIEKLRSCGTHAPYMRPVYPTKTFPNLYTLATGLYPESHGIVGNSMYDPVFDATFHLRGREKFNHRWWGGQPLWITATKQGVRAGTFFWSVSIPHERRILTILQWLSLPDNERPSVYAFYSEQPDFSGHKYGPFGPEMTNPLREIDKTVGQLMDGLKQLKLHRCVNVIFVGDHGMEDVTCDRTEFLSNYLTNVDDITLVPGTLGRIRPKIPNNLKYDPKAIIANLTCKKPDQHFKPYMKQHLPKRLHYANNRRIEDLHLLVERRWHVARKPLDVYKKPSGKCFFQGDHGFDNKVNSMQTVFVGYGPTFKYRTKVPPFENIELYNVMCDLLGLKPAPNNGTHGSLNHLLRTNTFRPTLPEEVSRPNYPGIMYLQSDFDLGCTCDDKVEPKNKLEELNKRLHTKGSTEERHLLYGRPAVLYRTSYDILYHTDFESGYSEIFLMPLWTSYTISKQAEVSSIPEHLTNCVRPDVRVSPGFSQNCLAYKNDKQMSYGFLFPPYLSSSPEAKYDAFLVTNMVPMYPAFKRVWTYFQRVLVKKYASERNGVNVISGPIFDYNYNGLRDIEDEIKQYVEGSSIPVPTHYYSIITSCLDFTQPADKCDGPLSVSSFILPHRPDNDESCNSSEDESKWVEELMKMHTARVRDIEHLTGLDFYRKTSRSYSEILTLKTYLHTYE 859
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ------------------------------------------------Somatomedin_B-3nkqA04 A:99-142              ----------------------------------------------------------------------------------------------------------------------------------------Phosphodiest-3nkqA01 A:279-477                                                                                                                                                                         ---------------------------------------------------------------------------------------------                  ------------------------Endonuclease_NS-3nkqA03 A:609-840                                                                                                                                                                                                       --------------- Pfam domains (1)
           Pfam domains (2) ------------------------------------------------Somatomedin_B-3nkqA05 A:99-142              ----------------------------------------------------------------------------------------------------------------------------------------Phosphodiest-3nkqA02 A:279-477                                                                                                                                                                         ---------------------------------------------------------------------------------------------                  ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author .........................hhhhhhhh....hhhhhhh........hhhhh..............hhhhhh....hhhhhhh...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....---------....ee......hhhhh..eeee.......ee...ee..hhhhhhhhhh.............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 (1) ---SMB_2  PDB: A:54-97 UniProt: 54-97          SMB_2  PDB: A:98-142 UniProt: 98-142         --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) ----------------------SMB_1  PDB: A:73-93  -----------------------SMB_1  PDB: A:117-137-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3nkq A  51 WTNTSGSCKGRCFELQEVGPPDCRCDNLCKSYSSCCHDFDELCLKTARGWECTKDRCGEVRNEENACHCSEDCLSRGDCCTNYQVVCKGESHWVDDDCEEIRVPECPAGFVRPPLIIFSVDGFRASYMKKGSKVMPNIEKLRSCGTHAPYMRPVYPTKTFPNLYTLATGLYPESHGIVGNSMYDPVFDATFHLRGREKFNHRWWGGQPLWITATKQGVRAGTFFWSVSIPHERRILTILQWLSLPDNERPSVYAFYSEQPDFSGHKYGPFGPEMTNPLREIDKTVGQLMDGLKQLKLHRCVNVIFVGDHGMEDVTCDRTEFLSNYLTNVDDITLVPGTLGRIRPKIPNNLKYDPKAIIANLTCKKPDQHFKPYMKQHLPKRLHYANNRRIEDLHLLVERRWHVARKPL---------CFFQGDHGFDNKVNSMQTVFVGYGPTFKYRTKVPPFENIELYNVMCDLLGLKPAPNNGTHGSLNHLLRTNTFRPTLPEEVSRPNYPGIMYLQSDFDLGCTCDD------------------GSTEERHLLYGRPAVLYRTSYDILYHTDFESGYSEIFLMPLWTSYTISKQAEVSSIPEHLTNCVRPDVRVSPGFSQNCLAYKNDKQMSYGFLFPPYLSSSPEAKYDAFLVTNMVPMYPAFKRVWTYFQRVLVKKYASERNGVNVISGPIFDYNYNGLRDIEDEIKQYVEGSSIPVPTHYYSIITSCLDFTQPADKCDGPLSVSSFILPHRPDNDESCNSSEDESKWVEELMKMHTARVRDIEHLTGLDFYRKTSRSYSEILTLKTYLHTYE 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       | -       470       480       490       500       510       520       530       540       550       560       570         -       586       596       606       616       626       636       646       656       666       676       686       696       706       716       726       736       746       756       766       776       786       796       806       816       826       836       846         
                                                                                                                                                                                                                                                                                                                                                                                                                                                 458       468                                                                                                   570                585
   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 3NKQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3NKQ)

(-) Pfam Domains  (3, 5)

Asymmetric/Biological Unit
(-)
Clan: Alk_phosphatase (47)
(-)
Clan: His-Me_finger (38)
(-)
Clan: no clan defined [family: Somatomedin_B] (13)

(-) Gene Ontology  (29, 29)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (ENPP2_MOUSE | Q9R1E6)
molecular function
    GO:0047391    alkylglycerophosphoethanolamine phosphodiesterase activity    Catalysis of the reaction: H2O + 1-alkyl-sn-glycero-3-phosphoethanolamine = ethanolamine + 1-alkyl-sn-glycerol 3-phosphate.
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0004622    lysophospholipase activity    Catalysis of the reaction: 2-lysophosphatidylcholine + H2O = glycerophosphocholine + a carboxylate.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
    GO:0004551    nucleotide diphosphatase activity    Catalysis of the reaction: a dinucleotide + H2O = 2 mononucleotides.
    GO:0004528    phosphodiesterase I activity    Catalysis of the sequential hydrolytic removal of 5'-nucleotides from the 3'-hydroxy termini of 3'-hydroxy-terminated oligonucleotides.
    GO:0030247    polysaccharide binding    Interacting selectively and non-covalently with any polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.
    GO:0005044    scavenger receptor activity    Combining with any modified low-density lipoprotein (LDL) or other polyanionic ligand and delivering the ligand into the cell via endocytosis. Ligands include acetylated and oxidized LDL, Gram-positive and Gram-negative bacteria, apoptotic cells, amyloid-beta fibrils, and advanced glycation end products (AGEs).
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0006935    chemotaxis    The directed movement of a motile cell or organism, or the directed growth of a cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis).
    GO:0006955    immune response    Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
    GO:0016042    lipid catabolic process    The chemical reactions and pathways resulting in the breakdown of lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
    GO:0006629    lipid metabolic process    The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0090305    nucleic acid phosphodiester bond hydrolysis    The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.
    GO:0034638    phosphatidylcholine catabolic process    The chemical reactions and pathways resulting in the breakdown of phosphatidylcholines, any of a class of glycerophospholipids in which the phosphatidyl group is esterified to the hydroxyl group of choline.
    GO:0009395    phospholipid catabolic process    The chemical reactions and pathways resulting in the breakdown of phospholipids, any lipid containing phosphoric acid as a mono- or diester.
    GO:0010634    positive regulation of epithelial cell migration    Any process that activates or increases the frequency, rate or extent of epithelial cell migration.
    GO:2000394    positive regulation of lamellipodium morphogenesis    Any process that activates or increases the frequency, rate or extent of lamellipodium morphogenesis.
    GO:0050731    positive regulation of peptidyl-tyrosine phosphorylation    Any process that activates or increases the frequency, rate or extent of the phosphorylation of peptidyl-tyrosine.
    GO:0006898    receptor-mediated endocytosis    An endocytosis process in which cell surface receptors ensure specificity of transport. A specific receptor on the cell surface binds tightly to the extracellular macromolecule (the ligand) that it recognizes; the plasma-membrane region containing the receptor-ligand complex then undergoes endocytosis, forming a transport vesicle containing the receptor-ligand complex and excluding most other plasma-membrane proteins. Receptor-mediated endocytosis generally occurs via clathrin-coated pits and vesicles.
    GO:0045765    regulation of angiogenesis    Any process that modulates the frequency, rate or extent of angiogenesis.
    GO:0030334    regulation of cell migration    Any process that modulates the frequency, rate or extent of cell migration.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    GO:0005887    integral component of plasma membrane    The component of the plasma membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    BMA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    CA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    EDO  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    K  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    MAN  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    NA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    NAG  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    NKQ  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SCN  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    ZN  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    BC1  [ RasMol ]  +environment [ RasMol ]
    BC2  [ RasMol ]  +environment [ RasMol ]
    BC3  [ RasMol ]  +environment [ RasMol ]
    BC4  [ RasMol ]  +environment [ RasMol ]
    BC5  [ RasMol ]  +environment [ RasMol ]
    BC6  [ RasMol ]  +environment [ RasMol ]
    BC7  [ RasMol ]  +environment [ RasMol ]
    BC8  [ RasMol ]  +environment [ RasMol ]
    BC9  [ RasMol ]  +environment [ RasMol ]
    CC1  [ RasMol ]  +environment [ RasMol ]
    CC2  [ RasMol ]  +environment [ RasMol ]
    CC3  [ RasMol ]  +environment [ RasMol ]
    CC4  [ RasMol ]  +environment [ RasMol ]
    CC5  [ RasMol ]  +environment [ RasMol ]
    CC6  [ RasMol ]  +environment [ RasMol ]
    CC7  [ RasMol ]  +environment [ RasMol ]
    CC8  [ RasMol ]  +environment [ RasMol ]
    CC9  [ RasMol ]  +environment [ RasMol ]
    DC1  [ RasMol ]  +environment [ RasMol ]
    DC2  [ RasMol ]  +environment [ RasMol ]
    DC3  [ RasMol ]  +environment [ RasMol ]
    DC4  [ RasMol ]  +environment [ RasMol ]
    DC5  [ RasMol ]  +environment [ RasMol ]
    DC6  [ RasMol ]  +environment [ RasMol ]
    DC7  [ RasMol ]  +environment [ RasMol ]
    DC8  [ RasMol ]  +environment [ RasMol ]
    DC9  [ RasMol ]  +environment [ RasMol ]
    EC1  [ RasMol ]  +environment [ RasMol ]
    EC2  [ RasMol ]  +environment [ RasMol ]
    EC3  [ RasMol ]  +environment [ RasMol ]
    EC4  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Gln A:309 - Pro A:310   [ RasMol ]  
    Gly A:585 - Ser A:586   [ RasMol ]  
    Pro A:70 - Pro A:71   [ RasMol ]  
    Tyr A:205 - Pro A:206   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  3nkq
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  ENPP2_MOUSE | Q9R1E6
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  3.1.4.39
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  ENPP2_MOUSE | Q9R1E6
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        ENPP2_MOUSE | Q9R1E6: 3nkm 3nkn 3nko 3nkp 3nkr 3wav 3waw 3wax 3way 4gtw 4gtx 4gty 4gtz 5hrt 5inh 5jvg 5lia

(-) Related Entries Specified in the PDB File

3nkm 3nkn 3nko 3nkp 3nkr