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(-) Description

Title :  CRYSTAL STRUCTURE OF 1 IN COMPLEX WITH TAFCPB
 
Authors :  H. Schreuder, A. Liesum, P. Loenze
Date :  28 Sep 16  (Deposition) - 26 Oct 16  (Release) - 21 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.01
Chains :  Asym./Biol. Unit :  A
Keywords :  Tafinized Carboxypeptidase B, Hyrdrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Halland, J. Czech, W. Czechtizky, A. Evers, M. Follmann, M. Kohlmann, H. A. Schreuder, C. Kallus
Sulfamide As Zinc Binding Motif In Small Molecule Inhibitor Of Activated Thrombin Activatable Fibrinolysis Inhibitor (Tafia).
J. Med. Chem. V. 59 9567 2016
PubMed-ID: 27749053  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.6B01276

(-) Compounds

Molecule 1 - CARBOXYPEPTIDASE B
    Chains: A
    EC Number: 3.4.17.2
    Engineered: YES
    Expression System: KOMAGATAELLA PASTORIS CBS 7435
    Expression System Taxid: 981350
    Gene: CPB1, CPB
    Organism Common: PIG
    Organism Scientific: SUS SCROFA
    Organism Taxid: 9823

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
17B61Ligand/Ion(2~{S})-6-AZANYL-2-[[(2~{R})-1-[[(1~{R},2~{S},4~{S})-2-BICYCLO[2.2.1]HEPTANYL]AMINO]-3-CYCLOHEXYL-1-OXIDANYLIDENE-PROPAN-2-YL]CARBAMOYLAMINO]HEXANOIC ACID
2ZN3Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:69 , GLU A:72 , HIS A:196 , 7B6 A:404 , HOH A:552binding site for residue ZN A 401
2AC2SOFTWAREGLU A:85 , ASP A:159 , ASP A:162 , GLU A:291 , HOH A:576binding site for residue ZN A 402
3AC3SOFTWAREHIS A:307binding site for residue ZN A 403
4AC4SOFTWAREHIS A:69 , ARG A:71 , ARG A:127 , ASN A:144 , ARG A:145 , SER A:197 , TYR A:198 , SER A:207 , TYR A:248 , ASP A:255 , GLU A:270 , PHE A:279 , ZN A:401 , HOH A:502 , HOH A:552 , HOH A:555 , HOH A:605 , HOH A:630 , HOH A:640 , HOH A:885binding site for residue 7B6 A 404

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:66 -A:79
2A:138 -A:161
3A:152 -A:166

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Ser A:197 -Tyr A:198
2Pro A:205 -Tyr A:206
3Arg A:272 -Asp A:273

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5LYF)

(-) 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:305
                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhh...eeeeeeee.....eeeeeee........eeeeee.....hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhheeeee...hhhhhhhhhhh...................hhhhh..........................hhhhhhhhhhhhhh...eeeeeeee....eeee..........hhhhhhhhhhhhhhhhh.......eeeehhhhh.....hhhhhhhhh...eeeeee...........hhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5lyf A    6 GHSYEKYNNWETIEAWTKQVTSENPDLISRTAIGTTFLGNNIYLLKVGKPGPNKPAIFMDCGIHAREWISHAFCQWFVREAVLTYGYESHMTEFLNKLDFYVLPVLNIDGYIYTWTKNRMWRKTRSTNAGTTCIGTDPNRNFDAGWCTTGASTDPCDETYCGSAAESEKETKALADFIRNNLSSIKAYLSIHSYSQHIVYPYSYDYKLPENNAELNNLAKAAVKELATLYGTKYTYGPGATTLYLAPGGGDDWAYDQGIKYSFTFELRDKGRYGFILPESQIQATCEETMLAIKYVTNYVLGHLY  309
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185   |   194       204       214       224       234       244       254       264       274       284       294       304     
                                                                                                                                                                                                                188A
   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 5LYF)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Arg A:272 - Asp A:273   [ RasMol ]  
    Pro A:205 - Tyr A:206   [ RasMol ]  
    Ser A:197 - Tyr A:198   [ RasMol ]  
 

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  5lyf
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  CBPB1_PIG | P09955
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 Related Entries

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

UniProtKB/Swiss-Prot
        CBPB1_PIG | P09955: 1nsa 1pba 1z5r 1zg7 1zg8 1zg9 2jew 2piy 2piz 2pj0 2pj1 2pj2 2pj3 2pj4 2pj5 2pj6 2pj7 2pj8 2pj9 2pja 2pjb 2pjc 3glj 3wab 3wc5 3wc6 3wc7 4uia 4uib 4z65 5j1q 5jc6 5lrg 5lrj 5lrk 5lyd 5lyi 5lyl

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5LYF)