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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN NEUTROPHIL ELASTASE IN COMPLEX WITH A DIHYDROPYRIMIDONE INHIBITOR
 
Authors :  F. Vonnussbaum, V. M. Li, D. Meibom, S. Anlauf, M. Bechem, M. Delbeck, M. A. Harrenga, D. Karthaus, D. Lang, K. Lustig, J. Mittendorf, M. Schaef S. Schaefer, J. Schamberger
Date :  17 Jul 15  (Deposition) - 03 Aug 16  (Release) - 21 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Trypsin Family Fold, Protease, Hydrolase, Hydrolase-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Von Nussbaum, V. M. Li, D. Meibom, S. Anlauf, M. Bechem, M. Delbeck, M. Gerisch, A. Harrenga, D. Karthaus, D. Lang, K. Lustig, J. Mittendorf, M. Schafer, S. Schafer, J. Schamberger
Potent And Selective Human Neutrophil Elastase Inhibitors With Novel Equatorial Ring Topology: In Vivo Efficacy Of The Polar Pyrimidopyridazine Bay-8040 In A Pulmonary Arterial Hypertension Rat Model.
Chemmedchem V. 11 199 2016
PubMed-ID: 26333652  |  Reference-DOI: 10.1002/CMDC.201500269

(-) Compounds

Molecule 1 - NEUTROPHIL ELASTASE
    Chains: A
    EC Number: 3.4.21.37
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: BONE MARROW SERINE PROTEASE, ELASTASE-2, HUMAN LEUKOCYTE ELASTASE, HLE, MEDULLASIN, PMN ELASTASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 8)

Asymmetric/Biological Unit (5, 8)
No.NameCountTypeFull Name
1FUC2Ligand/IonALPHA-L-FUCOSE
2MES1Ligand/Ion2-(N-MORPHOLINO)-ETHANESULFONIC ACID
3MLI1Ligand/IonMALONATE ION
4NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
5VBM1Ligand/IonMETHYL {(7R)-6-CYANO-7-(4-CYANOPHENYL)-5-METHYL-4-[3-(TRIFLUOROMETHYL)PHENYL]-4,7-DIHYDRO[1,2,4]TRIAZOLO[1,5-A]PYRIMIDIN-2-YL}CARBAMATE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:57 , TYR A:94 , LEU A:99 , LEU A:100 , ASP A:102 , VAL A:190 , CYS A:191 , PHE A:192 , ASP A:194 , SER A:195 , ALA A:213 , SER A:214 , PHE A:215 , VAL A:216 , ARG A:217 , MLI A:1245 , HOH A:2048 , HOH A:2210BINDING SITE FOR RESIDUE VBM A1001
2AC2SOFTWAREVAL A:120 , ARG A:128 , LEU A:130 , ASN A:202 , LEU A:208 , HIS A:210 , HOH A:2110 , HOH A:2112 , HOH A:2121 , HOH A:2129BINDING SITE FOR RESIDUE MES A1244
3AC3SOFTWAREPHE A:192 , VBM A:1001 , HOH A:2182 , HOH A:2211 , HOH A:2212BINDING SITE FOR RESIDUE MLI A1245
4AC4SOFTWAREARG A:63B , VAL A:64 , VAL A:82 , ALA A:84 , ASN A:109 , HOH A:2059 , HOH A:2097 , HOH A:2208BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG A 411 THROUGH FUC A 412 BOUND TO ASN A 109
5AC5SOFTWARETRP A:27 , GLU A:90 , GLN A:135 , ASN A:159 , VAL A:200 , CYS A:201 , ASN A:202 , GLY A:207 , HOH A:2083 , HOH A:2140 , HOH A:2142 , HOH A:2204 , HOH A:2205 , HOH A:2206 , HOH A:2207BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG A 401 THROUGH NAG A 403 BOUND TO ASN A 159

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:42 -A:58
2A:136 -A:201
3A:168 -A:182
4A:191 -A:220

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5A8Y)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5A8Y)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5A8Y)

(-) Exons   (0, 0)

(no "Exon" information available for 5A8Y)

(-) 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:216
                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee........eeeeee..eeeeeeeeee..eeeehhhhhh..hhhh.eeee............eeeeeeeeee............eeeee..........................eeeeee............eeeeeeee........eeee...............eeee..eeeeeeee...........eeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5a8y A   16 IVGGRRARPHAWPFMVSLQLRGGHFCGATLIAPNFVMSAAHCVANVNVRAVRVVLGAHNLSRREPTRQVFAVQRIFENGYDPVNLLNDIVILQLNGSATINANVQVAQLPAQGRRLGNGVQCLAMGWGLLGRGIASVLQELNVTVVTSLCRRSNVCTLVRGRQAGVCFGDSGSPLVCNGLIHGIASFVRGGCASGLYPDAFAPVAQFVNWIDSIIQ  243
                                    25        35||      46        56       63C        73        83      ||94       104       114       124       134       144||     157       168|      186||     194       208       218  |    227       237      
                                               36|                       63A||                         90|                                                  145|              166||      186A|             202|          220A                       
                                                38                        63B|                          92                                                   149               168|       186B              207                                     
                                                                           63C                                                                                                  177
   Legend:   → Mismatch (orange background)
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  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 5A8Y)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5A8Y)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5A8Y)

(-) Gene Ontology  (40, 40)

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
        ELNE_HUMAN | P08246: 1b0f 1h1b 1hne 1ppf 1ppg 2rg3 2z7f 3q76 3q77 4nzl 4wvp 5a09 5a0a 5a0b 5a0c 5a8x 5a8z 5abw

(-) Related Entries Specified in the PDB File

5a8x CRYSTAL STRUCTURE OF HUMAN NEUTROPHIL ELASTASE IN COMPLEX WITH A DIHYDROPYRIMIDONE INHIBITOR
5a8z CRYSTAL STRUCTURE OF HUMAN NEUTROPHIL ELASTASE IN COMPLEX WITH A DIHYDROPYRIMIDONE INHIBITOR