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(-) Description

Title :  LYSOBACTER ENZYMOGENES LYSC ENDOPROTEINASE K30R MUTANT COVALENTLY INHIBITED BY TLCK
 
Authors :  P. Asztalos, A. Muller, W. Holke, H. Sobek, M. G. Rudolph
Date :  29 Nov 13  (Deposition) - 23 Apr 14  (Release) - 24 Sep 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  0.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hydrolase, Endoproteinase, Aromatic Stack, Atomic Resolution, Serine Protease, Catalytic Triad, Covalent Inhibition, Tlck; , Hydrolase- Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Asztalos, A. Muller, W. Holke, H. Sobek, M. G. Rudolph
Atomic Resolution Structure Of A Lysine-Specific Endoproteinase From Lysobacter Enzymogenes Suggests A Hydroxyl Group Bound To The Oxyanion Hole.
Acta Crystallogr. , Sect. D V. 70 1832 2014
PubMed-ID: 25004961  |  Reference-DOI: 10.1107/S1399004714008463

(-) Compounds

Molecule 1 - LYSYL ENDOPEPTIDASE
    Chains: A, B
    EC Number: 3.4.21.50
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: LYSOBACTER ENZYMOGENES
    Organism Taxid: 69
    Synonym: LYS-C

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
12OY2Ligand/IonN-[(2S,3S)-7-AMINO-1-CHLORO-2-HYDROXYHEPTAN-3-YL]-4-METHYLBENZENESULFONAMIDE (BOUND FORM)
2CL1Ligand/IonCHLORIDE ION
3SO43Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:57 , TYR A:169 , THR A:189 , PRO A:191 , GLY A:192 , SER A:194 , HIS A:210 , GLY A:211 , GLY A:212 , SER A:214 , ASP A:225 , CL A:303 , HOH A:456 , HOH A:571 , ALA B:110 , TYR B:169 , HIS B:210 , HOH B:527BINDING SITE FOR RESIDUE 2OY A 301
2AC2SOFTWARESER A:85 , SER A:86 , ALA A:251 , HOH A:538 , HOH A:816 , HOH A:848BINDING SITE FOR RESIDUE SO4 A 302
3AC3SOFTWAREHIS A:210 , 2OY A:301 , HIS B:210 , 2OY B:301 , HOH B:722BINDING SITE FOR RESIDUE CL A 303
4AC4SOFTWAREALA A:110 , TYR A:169 , HIS A:210 , CL A:303 , HOH A:609 , HIS B:57 , TYR B:169 , THR B:189 , PRO B:191 , GLY B:192 , SER B:194 , HIS B:210 , GLY B:211 , GLY B:212 , SER B:214 , ASP B:225 , HOH B:472 , HOH B:667BINDING SITE FOR RESIDUE 2OY B 301
5AC5SOFTWARESER B:85 , SER B:86 , HOH B:521 , HOH B:724 , HOH B:811BINDING SITE FOR RESIDUE SO4 B 302
6AC6SOFTWARETHR B:62 , ALA B:63 , HOH B:669 , HOH B:670 , HOH B:795BINDING SITE FOR RESIDUE SO4 B 303

(-) SS Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1A:6 -A:216
2A:12 -A:80
3A:36 -A:58
4B:6 -B:216
5B:12 -B:80
6B:36 -B:58

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NSV)

(-) 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:264
                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......ee..hhhhh...hhhh.eeeeee..eeeeeeee..........eeeee.hhh..hhhhhhh.eee..........................eee.eeeeeee....eeeeee....hhhhh.ee.eee........eeeeehhhhh..eeeee....eeehhhhh....eeeee...............eee....eeeeeeee.......hhhh.eeeeeehhhhhhh..hhhhhhhhhhh.......ee..ee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4nsv A   1 GVSGSCNIDVVCPEGNGHRDVIRSVAAYSRQGTMWCTGSLVNNSANDKKMYFLTANHCGMTTAAIASSMVVYWNYQNSTCRAPGSSSSGANGDGSLAQSQTGAVVRATNAASDFTLLELNTAANPAYNLFWAGWDRRDQNFAGATAIHHPNVAEKRISHSTVATEISGYNGATGTSHLHVFWQASGGVTEPGSSGSPIYSPEKRVLGQLHGGPSSCSATGADRSDYYGRVFTSWTGGGTSATRLSDWLDAAGTGAQFIDGLDST 264
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260    


Chain B from PDB  Type:PROTEIN  Length:264
                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......ee..hhhhh...hhhh.eeeeee..eeeeeeee..........eeeee.hhh..hhhhhhhheee..........................eee.eeeeeee....eeeeee....hhhhh.ee.eee........eeeeehhhhh..eeeee....eeehhhhh....eeeee...............eee....eeeeeeee.......hhhh.eeeeeehhhhhhh..hhhhhhhhhhh.......ee..ee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4nsv B   1 GVSGSCNIDVVCPEGNGHRDVIRSVAAYSRQGTMWCTGSLVNNSANDKKMYFLTANHCGMTTAAIASSMVVYWNYQNSTCRAPGSSSSGANGDGSLAQSQTGAVVRATNAASDFTLLELNTAANPAYNLFWAGWDRRDQNFAGATAIHHPNVAEKRISHSTVATEISGYNGATGTSHLHVFWQASGGVTEPGSSGSPIYSPEKRVLGQLHGGPSSCSATGADRSDYYGRVFTSWTGGGTSATRLSDWLDAAGTGAQFIDGLDST 264
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260
   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 4NSV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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        LYSC_LYSEN | Q7M135: 4nsy

(-) Related Entries Specified in the PDB File

4nsy