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(-) Description

Title :  CRYSTAL STRUCTURE OF INSULIN DEGRADING ENZYME COMPLEXED WITH INHIBITOR
 
Authors :  Y. Wang, S. Guo
Date :  28 Apr 14  (Deposition) - 17 Jun 15  (Release) - 26 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  T. B. Durham, J. L. Toth, V. J. Klimkowski, J. X. Cao, A. M. Siesky, J. Alexander-Chacko, G. Y. Wu, J. T. Dixon, J. E. Mcgee, Y. Wang, S. Y. Guo, R. N. Cavitt, J. Schindler, S. J. Thibodeaux, N. A. Calvert, M. J. Coghlan, D. K. Sindelar, M. Christe, V. V. Kiselyov, M. D. Michael K. W. Sloop
Dual Exosite-Binding Inhibitors Of Insulin-Degrading Enzyme Challenge Its Role As The Primary Mediator Of Insulin Clearance In Vivo.
J. Biol. Chem. V. 290 20044 2015
PubMed-ID: 26085101  |  Reference-DOI: 10.1074/JBC.M115.638205

(-) Compounds

Molecule 1 - INSULIN-DEGRADING ENZYME
    ChainsA, B
    EC Number3.4.24.56
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentUNP RESIDUES 42-1019
    GeneIDE
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymABETA-DEGRADING PROTEASE,INSULIN PROTEASE,INSULINASE, INSULYSIN

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
12Q62Ligand/IonMETHYL [(2S)-2-[4-({5-[4-({(2S)-2-[(3S)-3-AMINO-2-OXOPIPERIDIN-1-YL]-2-CYCLOHEXYLACETYL}AMINO)PHENYL]PENTYL}OXY)PHENYL]-3-(QUINOLIN-3-YL)PROPYL]CARBAMATE
2ZN2Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:202 , GLU A:205 , THR A:208 , TYR A:302 , TYR A:314 , THR A:316 , HIS A:332 , HIS A:336 , GLY A:339 , GLU A:341 , LEU A:359 , VAL A:360 , GLY A:361 , GLN A:363 , LYS A:364 , ILE A:374 , ASN A:376 , ARG A:477 , ALA A:479 , HOH A:1370binding site for residue 2Q6 A 1101
2AC2SOFTWAREHIS A:108 , HIS A:112 , GLU A:189binding site for residue ZN A 1102
3AC3SOFTWAREPHE B:202 , GLU B:205 , TYR B:302 , TYR B:314 , HIS B:332 , GLY B:339 , GLU B:341 , LEU B:359 , VAL B:360 , GLY B:361 , GLN B:363 , LYS B:364 , ILE B:374 , ASN B:376 , ARG B:477 , ALA B:479 , TYR B:609 , HOH B:1350binding site for residue 2Q6 B 1101
4AC4SOFTWAREHIS B:108 , HIS B:112 , GLU B:189binding site for residue ZN B 1102

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4PF9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4PF9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4PF9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4PF9)

(-) Exons   (0, 0)

(no "Exon" information available for 4PF9)

(-) 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:959
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee............eeeeeee....eeeeee.....eeeeeeee............hhhhhhhhhh..........hhhhhhhhhh..eeeeee....eeeeeeee..hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhh....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.eeeeeee..hhhhhhhhhhhhhh.................hhhhh.eeeee.......eeeeeeee..hhhhh..hhhhhhhhhhh.....hhhhhhhhh.....eeeeeeeee..eeeeeeeee.......hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhh..........hhhhhhhhhhhhhhhh.eeeee.hhhh....ee......eeeeee.hhhhhhhhhh.................................eeeee...eeeeeee.......eeeeeeeee.hhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee...eeeeeeeee..hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhh....hhhhhhhhhhhhhhh.eeeeeeee..hhhhhhhhhhhhhhhhhhhhh....hhhhh...........eeeeeeee......eeeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeeeee..eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh.....hhhhhhhhhhhh.hhhhhhhhhhhhh.......eeeeeeee...................eee.hhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4pf9 A   43 NNPAIKRIGNHITKSPEDKREYRGLELANGIKVLLISDPTTDKSSAALDVHIGSLSDPPNIAGLSHFLQHMLFLGTKKYPKENEYSQFLSEHAGSSNAFTSGEHTNYYFDVSHEHLEGALDRFAQFFLSPLFDESAKDREVNAVDSEHEKNVMNDAWRLFQLEKATGNPKHPFSKFGTGNKYTLETRPNQEGIDVRQELLKFHSAYYSSNLMAVVVLGRESLDDLTNLVVKLFSEVENKNVPLPEFPEHPFQEEHLKQLYKIVPIKDIRNLYVTFPIPDLQKYYKSNPGHYLGHLIGHEGPGSLLSELKSKGWVNTLVGGQKEGARGFMFFIINVDLTEEGLLHVEDIILHMFQYIQKLRAEGPQEWVFQELKDLNAVAFRFKDKERPRGYTSKIAGILHYYPLEEVLTAEYLLEEFRPDLIEMVLDKLRPENVRVAIVSKSFEGKTDRTEEWYGTQYKQEAIPDEVIKKWQNADLNGKFKLPTKNEFIPTNFEILPLEKEATPYPALIKDTAMSKLWFKQDDKFFLPKANLNFEFFSPFAYVDPLHSNMAYLYLELLKDSLNEYAYAAELAGLSYDLQNTIYGMYLSVKGYNDKQPILLKKIIEKMATFEIDEKRFEIIKEAYMRSLNNFRAEQPHQHAMYYLRLLMTEVAWTKDELKEALDDVTLPRLKAFIPQLLSRLHIEALLHGNITKQAALGIMQMVEDTLIEHAHTKPLLPSQLVRYREVQLPDRGWFVYQQRNEVHNNSGIEIYYQTDMQSTSENMFLELFAQIISEPAFNTLRTKEQLGYIVFSGPRRANGIQGLRFIIQSEKPPHYLESRVEAFLITMEKSIEDMTEEAFQKHIQALAIRRLDKPKKLSAESAKYWGEIISQQYNFDRDNTEVAYLKTLTKEDIIKFYKEMLAVDAPRRHKVSVHVLAREMDSDINLSQAPALPQPEVIQNMTEFKRGLPLFPLVKPHI 1012
                                    52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732       742       752       762       772       782       792       802       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962  ||   983       993      1003         
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    965|                                   
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     977                                   

Chain B from PDB  Type:PROTEIN  Length:956
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee............eeeeeee....eeeeee.....eeeeeeee..hhhhh.....hhhhhhhhhhh.........hhhhhhhhhh..eeeeee....eeeeeeee..hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.....hhhhh....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.eeeeeee..hhhhhhhhhhhhhh.................hhhhh.eeeee.......eeeeeeee..hhhhh..hhhhhhhhhhh.....hhhhhhhhh.....eeeeeeeee..eeeeeeeee.......hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh...hhhhh..........hhhhhhhhhhhhhhhh.eeeee.hhhh....ee......eeeeee.hhhhhhhhhh.................................eeeee...eeeeeee........eeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee...eeeeeeee...hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhheeeeeeeeee..hhhhhhhhhhhhhhhhhhhhh.ee.hhhhh...........eeeeeeee......eeeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeeeee..eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.....hhhhhhhhhhh..hhhhhhhhhhhhh.......eeeeeeee................ee..hhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4pf9 B   44 NPAIKRIGNHITKSPEDKREYRGLELANGIKVLLISDPTTDKSSAALDVHIGSLSDPPNIAGLSHFLQHMLFLGTKKYPKENEYSQFLSEHAGSSNAFTSGEHTNYYFDVSHEHLEGALDRFAQFFLSPLFDESAKDREVNAVDSEHEKNVMNDAWRLFQLEKATGNPKHPFSKFGTGNKYTLETRPNQEGIDVRQELLKFHSAYYSSNLMAVVVLGRESLDDLTNLVVKLFSEVENKNVPLPEFPEHPFQEEHLKQLYKIVPIKDIRNLYVTFPIPDLQKYYKSNPGHYLGHLIGHEGPGSLLSELKSKGWVNTLVGGQKEGARGFMFFIINVDLTEEGLLHVEDIILHMFQYIQKLRAEGPQEWVFQELKDLNAVAFRFKDKERPRGYTSKIAGILHYYPLEEVLTAEYLLEEFRPDLIEMVLDKLRPENVRVAIVSKSFEGKTDRTEEWYGTQYKQEAIPDEVIKKWQNADLNGKFKLPTKNEFIPTNFEILPLEKEATPYPALIKDTAMSKLWFKQDDKFFLPKANLNFEFFSPFAYVDPLHSNMAYLYLELLKDSLNEYAYAAELAGLSYDLQNTIYGMYLSVKGYNDKQPILLKKIIEKMATFEIDEKRFEIIKEAYMRSLNNFRAEQPHQHAMYYLRLLMTEVAWTKDELKEALDDVTLPRLKAFIPQLLSRLHIEALLHGNITKQAALGIMQMVEDTLIEHAHTKPLLPSQLVRYREVQLPDRGWFVYQQRNEVHNNSGIEIYYQTDMQSTSENMFLELFAQIISEPAFNTLRTKEQLGYIVFSGPRRANGIQGLRFIIQSEKPPHYLESRVEAFLITMEKSIEDMTEEAFQKHIQALAIRRLDKPKKLSAESAKYWGEIISQQYNFDRDNTEVAYLKTLTKEDIIKFYKEMLAVDAPRRHKVSVHVLAREMDSLSQAPALPQPEVIQNMTEFKRGLPLFPLVKPHIN 1013
                                    53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823       833       843       853       863       873       883       893       903       913       923       933       943       953       963 ||    987       997      1007      
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   965|                                 
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    980                                 

   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 4PF9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4PF9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4PF9)

(-) Gene Ontology  (53, 53)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        IDE_HUMAN | P147352g47 2g48 2g49 2g54 2g56 2jbu 2jg4 2wby 2wc0 2wk3 2ypu 3cww 3e4a 3e4z 3e50 3h44 3hgz 3n56 3n57 3ofi 3qz2 4dtt 4dwk 4gs8 4gsc 4gsf 4ifh 4iof 4lte 4m1c 4nxo 4pes 4pf7 4pfc 4q5z 4qia 4ral 4re9 5cjo

(-) Related Entries Specified in the PDB File

4pes 4pf7