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(-) Description

Title :  KINETIC, SPECTRAL AND STRUCTURAL CHARACTERIZATION OF THE SLOW BINDING INHIBITOR ACETOPYRUVATE WITH DIHYDRODIPICOLINATE SYNTHASE FROM ESCHERICHIA COLI.
 
Authors :  L. Chooback, L. M. Thomas, W. E. Karsten, C. D. Fleming, P. Seabourn
Date :  23 Aug 16  (Deposition) - 05 Oct 16  (Release) - 17 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dihydrodipicolinate Synthase, Kinetics, Acetopyruvate Modification, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Chooback, L. M. Thomas, W. E. Karsten, C. D. Fleming, P. Seabourn
Kinetic, Spectral And Structural Characterization Of The Slow Binding Inhibitor Acetopyruvate With Dihydrodipicolinate Synthase From Escherichia Coli.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - 4-HYDROXY-TETRAHYDRODIPICOLINATE SYNTHASE
    Chains: A, B
    EC Number: 4.3.3.7
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: DAPA, ECIAI1_2529
    Organism Scientific: ESCHERICHIA COLI O8 (STRAIN IAI1)
    Organism Taxid: 585034
    Strain: IAI1
    Synonym: HTPA SYNTHASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 11)

Asymmetric/Biological Unit (4, 11)
No.NameCountTypeFull Name
174P2Mod. Amino Acid(E)-N~6~-(1-CARBOXY-3-OXOBUTYLIDENE)-L-LYSINE
2GOL1Ligand/IonGLYCEROL
3NA7Ligand/IonSODIUM ION
4TLA1Ligand/IonL(+)-TARTARIC ACID

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:243 , ASN A:248 , PRO A:251 , VAL A:252binding site for residue NA A 301
2AC2SOFTWAREVAL A:10 , THR A:11 , THR A:45 , GLY A:46 , GLU A:47 , LYS A:253binding site for residue NA A 302
3AC3SOFTWARESER A:5 , THR A:36 , ALA A:211 , ALA A:215binding site for residue NA A 303
4AC4SOFTWAREPRO A:105 , TYR A:106 , TYR A:107 , ARG A:109 , THR A:139 , CYS A:141binding site for residue NA A 304
5AC5SOFTWARESER A:185 , SER A:190 , PHE A:194 , HOH A:477binding site for residue NA A 305
6AC6SOFTWAREVAL B:10 , THR B:11 , THR B:45 , GLY B:46 , GLU B:47 , LYS B:253binding site for residue NA B 301
7AC7SOFTWARELEU B:243 , ASN B:248 , PRO B:251 , VAL B:252binding site for residue NA B 302
8AC8SOFTWAREVAL A:231 , ARG A:235 , GLY B:224 , HIS B:225 , PHE B:226 , ALA B:227 , GLU B:228 , HOH B:411 , HOH B:441 , HOH B:461 , HOH B:506binding site for residue TLA B 303
9AC9SOFTWARESER B:48 , ALA B:49 , ASN B:80 , TYR B:106 , TYR B:107binding site for residue GOL B 304

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5T26)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Asn A:248 -Pro A:249
2Leu A:269 -Pro A:270
3Asn B:248 -Pro B:249
4Leu B:269 -Pro B:270

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5T26)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5T26)

(-) Exons   (0, 0)

(no "Exon" information available for 5T26)

(-) 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:293
                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee...........hhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhhhhhhhhhhh....eeee....hhhhhhhhhhh.......eeeee.......hhhhhhhhhhhhhh.....eeeeehhhhhh...hhhhhhhhhh...eeeeee.....hhhhhhhh......eeee.hhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh...............hhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t26 A   0 HMFTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVSVGTTGESATLNHDEHADVVMMTLDLADGRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPSQEGLYQHFKAIAEHTDLPQILYNVPSRTGCDLLPETVGRLAKVKNIIGIkEATGNLTRVNQIKELVSDDFVLLSGDDASALDFMQLGGHGVISVTANVAARDMAQMCKLAAEGHFAEARVINQRLMPLHNKLFVEPNPIPVKWACKELGLVATDTLRLPMTPITDSGRETVRAALKHAGLL 292
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159 |     169       179       189       199       209       219       229       239       249       259       269       279       289   
                                                                                                                                                                                           161-74P                                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:294
                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhheeeee...........hhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhhhhhhhhhhh....eeee....hhhhhhhhhhhhh.....eeeee.......hhhhhhhhhhhhhhh....eeeeehhhhhh...hhhhhhhhhh...eeeeee.....hhhhhhhh......eeee.hhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh...............hhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5t26 B  -1 HHMFTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVSVGTTGESATLNHDEHADVVMMTLDLADGRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPSQEGLYQHFKAIAEHTDLPQILYNVPSRTGCDLLPETVGRLAKVKNIIGIkEATGNLTRVNQIKELVSDDFVLLSGDDASALDFMQLGGHGVISVTANVAARDMAQMCKLAAEGHFAEARVINQRLMPLHNKLFVEPNPIPVKWACKELGLVATDTLRLPMTPITDSGRETVRAALKHAGLL 292
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158  |    168       178       188       198       208       218       228       238       248       258       268       278       288    
                                                                                                                                                                                            161-74P
   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 5T26)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5T26)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5T26)

(-) Gene Ontology  (11, 20)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asn A:248 - Pro A:249   [ RasMol ]  
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  5t26
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 Related Entries

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

UniProtKB/Swiss-Prot
        DAPA_ECO8A | B7M7I1: 5t25
        DAPA_ECOLI | P0A6L2: 1dhp 1s5t 1s5v 1s5w 1yxc 1yxd 2a6l 2a6n 2ats 2ojp 2pur 3c0j 3den 3du0 3i7q 3i7r 3i7s 4eou 5t25

(-) Related Entries Specified in the PDB File

5t25