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(-) Description

Title :  CRYSTAL STRUCTURE OF AMPC BETA-LACTAMASE IN COMPLEX WITH COVALENTLY BOUND N-FORMYL 7-AMINOCEPHALOSPORANIC ACID
 
Authors :  B. K. Shoichet, S. Barelier
Date :  23 Jan 14  (Deposition) - 28 May 14  (Release) - 18 Jun 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.71
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Ampc Beta-Lactamase, Class, Cephalosporinase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Barelier, J. A. Cummings, A. M. Rauwerdink, D. S. Hitchcock, J. D. Farelli, S. C. Almo, F. M. Raushel, K. N. Allen, B. K. Shoichet
Substrate Deconstruction And The Nonadditivity Of Enzyme Recognition.
J. Am. Chem. Soc. V. 136 7374 2014
PubMed-ID: 24791931  |  Reference-DOI: 10.1021/JA501354Q

(-) Compounds

Molecule 1 - BETA-LACTAMASE
    Chains: A, B
    EC Number: 3.5.2.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: POGO295
    Expression System Strain: JM109
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: AMPA, AMPC, B4150, JW4111
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: CEPHALOSPORINASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
12TV2Ligand/Ion(2R,5Z)-5-[(ACETYLOXY)METHYLIDENE]-2-[(1R)-1-(FORMYLAMINO)-2-OXOETHYL]-5,6-DIHYDRO-2H-1,3-THIAZINE-4-CARBOXYLIC ACID
2PO41Ligand/IonPHOSPHATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:64 , LEU A:119 , TYR A:150 , ILE A:291 , THR A:316 , GLY A:317 , ALA A:318 , ASN A:346 , HOH A:563 , HOH A:675 , HOH A:677 , HOH A:679 , HOH A:698 , HOH A:704BINDING SITE FOR RESIDUE 2TV A 401
2AC2SOFTWAREHIS A:186 , HOH A:647 , HOH A:689 , HOH A:711 , LYS B:290BINDING SITE FOR RESIDUE PO4 A 402
3AC3SOFTWARESER B:64 , LEU B:119 , TYR B:150 , ASN B:289 , LEU B:293 , GLY B:317 , ALA B:318 , ASN B:346 , HOH B:649 , HOH B:655 , HOH B:680 , HOH B:681 , HOH B:682BINDING SITE FOR RESIDUE 2TV B 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4OLG)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Trp A:276 -Pro A:277
2Thr A:302 -Pro A:303
3Trp B:276 -Pro B:277
4Thr B:302 -Pro B:303

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4OLG)

(-) 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:356
                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh..eeeeeeee..eeeeeeeeeee....ee......ee...hhhhhhhhhhhhhhhh.......hhhhhh....hhhhh..hhhhhhh...............hhhhhhhhhhhh........ee..hhhhhhhhhhhhh.....hhhhhhhhhh........ee...hhhhhhhh..eee..eee......hhhhhh..eehhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.eeeee..eee....eeee...hhhhhhhhhh.....ee.eeeeeee.....eeeeeeee....eeeeeeehhhheeeeeee....hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4olg A   4 APQQINDIVHRTITPLIEQQKIPGMAVAVIYQGKPYYFTWGYADIAKKQPVTQQTLFELGSVSKTFTGVLGGDAIARGEIKLSDPTTKYWPELTAKQWNGITLLHLATYTAGGLPLQVPDEVKSSSDLLRFYQNWQPAWAPGTQRLYANSSIGLFGALAVKPSGLSFEQAMQTRVFQPLKLNHTWINVPPAEEKNYAWGYREGKAVHVSPGALDAEAYGVKSTIEDMARWVQSNLKPLDINEKTLQQGIQLAQSRYWQTGDMYQGLGWEMLDWPVNPDSIINGSDIALAARPVKAITPPTPAVRASWVHKTGATGGFGSYVAFIPEKELGIVMLANKNYPNPARVDAAWQILNALQ 361
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283    || 295       305       315       325       335       345       355      
                                                                                                                                                                                                                                                                                                                      288|                                                                      
                                                                                                                                                                                                                                                                                                                       291                                                                      


Chain B from PDB  Type:PROTEIN  Length:358
                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh..eeeeeeee..eeeeeeeeeee....ee......ee...hhhhhhhhhhhhhhhh.......hhhhhh....hhhhh..hhhhhhh...............hhhhhhhhhhhh........ee..hhhhhhhhhhhhh.....hhhhhhhhhh.............hhhhhhhh..eee..eee......hhhhhhh.eehhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.eeeee..eee....eeee...hhhhhhhhhhhhhhh..ee.eeeeeee.....eeeeeeeee..eeeeeeeehhhheeeeeee....hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4olg B   4 APQQINDIVHRTITPLIEQQKIPGMAVAVIYQGKPYYFTWGYADIAKKQPVTQQTLFELGSVSKTFTGVLGGDAIARGEIKLSDPTTKYWPELTAKQWNGITLLHLATYTAGGLPLQVPDEVKSSSDLLRFYQNWQPAWAPGTQRLYANSSIGLFGALAVKPSGLSFEQAMQTRVFQPLKLNHTWINVPPAEEKNYAWGYREGKAVHVSPGALDAEAYGVKSTIEDMARWVQSNLKPLDINEKTLQQGIQLAQSRYWQTGDMYQGLGWEMLDWPVNPDSIINGSDNKIALAARPVKAITPPTPAVRASWVHKTGATGGFGSYVAFIPEKELGIVMLANKNYPNPARVDAAWQILNALQ 361
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353
   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 4OLG)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)

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  3.5.2.6
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 Related Entries

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

UniProtKB/Swiss-Prot
        AMPC_ECOLI | P00811: 1c3b 1fcm 1fcn 1fco 1fsw 1fsy 1ga9 1i5q 1iel 1iem 1kds 1kdw 1ke0 1ke3 1ke4 1kvl 1kvm 1l0d 1l0e 1l0f 1l0g 1l2s 1ll5 1ll9 1llb 1mxo 1my8 1o07 1pi4 1pi5 1xgi 1xgj 2bls 2ffy 2hdq 2hdr 2hds 2hdu 2i72 2p9v 2pu2 2pu4 2r9w 2r9x 2rcx 3bls 3bm6 3fkv 3fkw 3gqz 3gr2 3grj 3gsg 3gtc 3gv9 3gvb 3iwi 3iwo 3iwq 3ixb 3ixd 3ixg 3ixh 3o86 3o87 3o88 4e3i 4e3j 4e3k 4e3l 4e3m 4e3n 4e3o 4jxg 4jxs 4jxv 4jxw 4ken 4kg2 4kg5 4kg6 4kz3 4kz4 4kz5 4kz6 4kz7 4kz8 4kz9 4kza 4kzb 4lv0 4lv1 4lv2 4lv3 4okp 4old

(-) Related Entries Specified in the PDB File

1kvl 1kvm