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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) - 01 Mar 17  (Release) - 17 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.99
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dihydrodipicolinate Synthase, Kinetics, Acetopyruvate Modification, Hydrolase (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: 561
    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  (3, 14)

Asymmetric/Biological Unit (3, 14)
No.NameCountTypeFull Name
174P2Mod. Amino Acid(E)-N~6~-(1-CARBOXY-3-OXOBUTYLIDENE)-L-LYSINE
2LYS2Mod. Amino AcidLYSINE
3NA10Ligand/IonSODIUM ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:48 , ALA A:49 , LEU A:51 , HIS A:53 , HIS A:56 , TYR A:106 , HOH A:433 , HOH A:556 , HOH A:561 , ASN B:80 , GLU B:84binding site for residue LYS A 301
02AC2SOFTWARESER A:185 , ASP A:187 , SER A:190 , PHE A:194 , HOH A:518binding site for residue NA A 302
03AC3SOFTWARETHR A:77 , THR A:89 , CYS A:100 , ILE A:122 , GLN A:130 , HOH A:452binding site for residue NA A 303
04AC4SOFTWAREALA A:152 , VAL A:154 , LYS A:155 , ILE A:157 , HOH A:403 , HOH A:611binding site for residue NA A 304
05AC5SOFTWAREASP A:265 , PRO A:273 , ILE A:274 , HOH A:507 , HOH A:627binding site for residue NA A 305
06AC6SOFTWAREARG A:21 , ALA A:22 , HOH A:692 , HOH A:711binding site for residue NA A 306
07AC7SOFTWAREASN A:80 , GLU A:84 , SER B:48 , ALA B:49 , LEU B:51 , HIS B:56 , TYR B:106 , HOH B:409 , HOH B:549 , HOH B:577binding site for residue LYS B 301
08AC8SOFTWAREALA B:152 , VAL B:154 , LYS B:155 , ILE B:157 , HOH B:652 , HOH B:671binding site for residue NA B 302
09AC9SOFTWARELEU B:144 , PRO B:145 , GLU B:146binding site for residue NA B 303
10AD1SOFTWARESER B:111 , GLN B:112 , GLU B:113 , HOH B:594 , HOH B:683 , HOH B:711binding site for residue NA B 304
11AD2SOFTWAREPRO B:110 , SER B:111 , GLN B:112 , HOH B:540 , HOH B:707binding site for residue NA B 305
12AD3SOFTWAREARG B:21 , ALA B:22binding site for residue NA B 306

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5T25)

(-) 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 5T25)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5T25)

(-) Exons   (0, 0)

(no "Exon" information available for 5T25)

(-) 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:294
                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeee...........hhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhhhhhhhhhhh....eeee....hhhhhhhhhhhhh.....eeeee.......hhhhhhhhhhhhhh.....eeeeehhhhhh...hhhhhhhhhh...eeeeee.....hhhhhhhh......eeee.hhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh...............hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5t25 A   0 HMFTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVSVGTTGESATLNHDEHADVVMMTLDLADGRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPSQEGLYQHFKAIAEHTDLPQILYNVPSRTGCDLLPETVGRLAKVKNIIGIkEATGNLTRVNQIKELVSDDFVLLSGDDASALDFMQLGGHGVISVTANVAARDMAQMCKLAAEGHFAEARVINQRLMPLHNKLFVEPNPIPVKWACKELGLVATDTLRLPMTPITDSGRETVRAALKHAGLLK 301
                                     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                                                                                                                            292|
                                                                                                                                                                                                                                                                                                                               301


Chain B 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....hhhhhhhhhhhh......eeeee.......hhhhhhhhhhhhhh.....eeeeehhhhhh...hhhhhhhhhh...eeeeee.....hhhhhhhh......eeee.hhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh...............hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t25 B   1 MFTGSIVAIVTPMDEKGNVCRASLKKLIDYHVASGTSAIVSVGTTGESATLNHDEHADVVMMTLDLADGRIPVIAGTGANATAEAISLTQRFNDSGIVGCLTVTPYYNRPSQEGLYQHFKAIAEHTDLPQILYNVPSRTGCDLLPETVGRLAKVKNIIGIkEATGNLTRVNQIKELVSDDFVLLSGDDASALDFMQLGGHGVISVTANVAARDMAQMCKLAAEGHFAEARVINQRLMPLHNKLFVEPNPIPVKWACKELGLVATDTLRLPMTPITDSGRETVRAALKHAGLLK 301
                                    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       270       280       290 ||
                                                                                                                                                                                          161-74P                                                                                                                            292|
                                                                                                                                                                                                                                                                                                                              301
   Legend:   → Mismatch (orange background)
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    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 5T25)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5T25)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5T25)

(-) 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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 Related Entries

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

UniProtKB/Swiss-Prot
        DAPA_ECO8A | B7M7I1: 5t26
        DAPA_ECOLI | P0A6L2: 1dhp 1s5t 1s5v 1s5w 1yxc 1yxd 2a6l 2a6n 2ats 2ojp 2pur 3c0j 3den 3du0 3i7q 3i7r 3i7s 4eou 5t26

(-) Related Entries Specified in the PDB File

5t26