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(-) Description

Title :  S1P LYASE BACTERIAL SURROGATE BOUND TO N-(2-((4-METHOXY-2,5-DIMETHYLBENZYL)AMINO)-1-PHENYLETHYL)-5-METHYLISOXAZOLE-3-CARBOXAMIDE
 
Authors :  M. A. Argiriadi, D. Banach, E. Radziejewska, S. Marchie, J. Dimauro, J. E. Dominguez, C. Hutchins, R. A. Judge, K. Queeney, G. Wallace, C. M. Ha
Date :  18 Nov 15  (Deposition) - 16 Mar 16  (Release) - 20 Jul 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.83
Chains :  Asym./Biol. Unit :  A,B
Keywords :  S1P Lyase Bacterial Surrogate, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Argiriadi, D. Banach, E. Radziejewska, S. Marchie, J. Dimauro, J. Dinges, E. Dominguez, C. Hutchins, R. A. Judge, K. Queeney, G. Wallace, C. M. Harris
Creation Of A S1P Lyase Bacterial Surrogate For Structure-Based Drug Design.
Bioorg. Med. Chem. Lett. V. 26 2293 2016
PubMed-ID: 27013389  |  Reference-DOI: 10.1016/J.BMCL.2016.02.084

(-) Compounds

Molecule 1 - PUTATIVE SPHINGOSINE-1-PHOSPHATE LYASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: STH1274
    Mutation: YES
    Organism Scientific: SYMBIOBACTERIUM THERMOPHILUM (STRAIN T / IAM 14863)
    Organism Taxid: 292459
    Strain: T / IAM 14863

 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
15S52Ligand/Ion~{N}-[(1~{S})-2-[(4-METHOXY-2,5-DIMETHYL-PHENYL)METHYLAMINO]-1-PHENYL-ETHYL]-5-METHYL-1,2-OXAZOLE-3-CARBOXAMIDE
2LLP2Mod. Amino Acid(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC ACID
3PO42Ligand/IonPHOSPHATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:127 , PRO A:130 , TRP A:340 , ILE A:344 , TYR A:345 , ALA A:346 , PHE B:249 , ASN B:432 , VAL B:496 , SER B:497 , PHE B:500binding site for residue 5S5 A 601
2AC2SOFTWAREALA A:103 , TYR A:105 , LYS A:317 , ASN B:126 , HIS B:129binding site for residue PO4 A 602
3AC3SOFTWAREASN A:126 , HIS A:129 , ALA B:103 , TYR B:105 , LLP B:311binding site for residue PO4 B 601
4AC4SOFTWAREPHE A:249 , VAL A:496 , PHE A:500 , PRO B:127 , LEU B:128 , PRO B:130 , TRP B:340 , ILE B:344 , TYR B:345 , ALA B:346binding site for residue 5S5 B 602

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5EUE)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Ala A:246 -Pro A:247
2Arg A:436 -Pro A:437
3Ala B:246 -Pro B:247
4Arg B:436 -Pro B:437

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5EUE)

(-) 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:451
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhh.........eeeee.hhhhhhhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhh.eeeee........hhhhhhhhh...eeeeeee..........hhhhhhhhhhhh..eeeee......hhhhhhhh...............eeee............eeeee.hhhhhhh..eee.......eee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....ee......eeeee....hhhhhhhhhhhh....eee....eeeee.hhhhh..hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh.hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5eue A  57 IKPYRDRFPSHARLPRAGLPRAEILAEIAAMGAAESPAWRDGYASGAVYHGDEHHIAFLNEVYALQSQSNPLHPDLWPSTAKFEAEVVAMTAHMLGGDAAGGTVCGTVTSGGTESLLLAMKTYRDWARATKGITAPEAVVPVSAHAAFDKAAQYFGIKLVRTPLDADYRADVAAMREAITPNTVVVAGSAPGFPHGVVDPIPEIAALAAEHGIGCHVDACLGGFILPWAERLGYPVPPFDFRLEGVTSVSADTHkYGYGAKGTSVILYRRPDLLHYQYFIAADWPGGIYASPTFAGSRPGALSATAWAAMLSLGEEGYLDATRRILQAADRLKAGVRAIPSLKILGDPLWVIAVASDELNIYQVMEEMAGRGWRLNGLHRPPAFHVALTLRHTEPGVVDRFLADLQDAVAQVRAHPEKATGMAPVYGMAAAAPPELVRQVSTGFIDLLYEV 507
                                    66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306    |  316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506 
                                                                                                                                                                                                                                                                                        311-LLP                                                                                                                                                                                                


Chain B from PDB  Type:PROTEIN  Length:449
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................hhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh.........eeeee.hhhhhhhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhh.eeeee........hhhhhhhhh...eeeeeee..........hhhhhhhhhhhhh.eeeee......hhhhhhhh...............eeee............eeeee.hhhhhh...eee.......eee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....ee......eeeee....hhhhhhhhhhhhh...eee....eeeee.hhhhhh.hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5eue B  60 YRDRFPSHARLPRAGLPRAEILAEIAAMGAAESPAWRDGYASGAVYHGDEHHIAFLNEVYALQSQSNPLHPDLWPSTAKFEAEVVAMTAHMLGGDAAGGTVCGTVTSGGTESLLLAMKTYRDWARATKGITAPEAVVPVSAHAAFDKAAQYFGIKLVRTPLDADYRADVAAMREAITPNTVVVAGSAPGFPHGVVDPIPEIAALAAEHGIGCHVDACLGGFILPWAERLGYPVPPFDFRLEGVTSVSADTHkYGYGAKGTSVILYRRPDLLHYQYFIAADWPGGIYASPTFAGSRPGALSATAWAAMLSLGEEGYLDATRRILQAADRLKAGVRAIPSLKILGDPLWVIAVASDELNIYQVMEEMAGRGWRLNGLHRPPAFHVALTLRHTEPGVVDRFLADLQDAVAQVRAHPEKATGMAPVYGMAAAAPPELVRQVSTGFIDLLYEVH 508
                                    69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309 |     319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499         
                                                                                                                                                                                                                                                                                     311-LLP
   Legend:   → Mismatch (orange background)
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  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 5EUE)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/TrEMBL
        Q67PY4_SYMTH | Q67PY4: 3mad 3maf 3mau 3mbb 5eud

(-) Related Entries Specified in the PDB File

5eud