3IOF - JenaLib

Title :   CRYSTAL STRUCTURE OF CPHA N220G MUTANT WITH INHIBITOR 10A

Authors :   H. Delbruck, C. Bebrone, K. M. V. Hoffmann

Date :   14 Aug 09 (Deposition) - 23 Jun 10 (Release) - 14 Jan 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.44

Chains :   Asym./Biol. Unit : A

Keywords :   Hydrolase, Antibiotic Resistance, Metal-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Lassaux, M. Hamel, M. Gulea, H. Delbruck, P. S. Mercuri, L. Horsfall D. Dehareng, M. Kupper, J. -M. Frere, K. Hoffmann, M. Galleni, C. Bebrone
Mercaptophosphonate Compounds As Broad-Spectrum Inhibitors Of The Metallo-Beta-Lactamases
J. Med. Chem. V. 53 4862 2010
PubMed-ID: 20527888 | Reference-DOI: 10.1021/JM100213C

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 15)

Sites (15, 15)

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASP A:120 , CYS A:221 , HIS A:263 , IFS A:308	BINDING SITE FOR RESIDUE ZN A 1
02	AC2	SOFTWARE	ZN A:1 , VAL A:67 , THR A:119 , ASP A:120 , ILE A:153 , PHE A:156 , THR A:157 , LEU A:161 , HIS A:196 , ASN A:233 , HIS A:263 , HOH A:333 , HOH A:435	BINDING SITE FOR RESIDUE IFS A 308
03	AC3	SOFTWARE	SER A:104 , LYS A:106 , HOH A:270 , HOH A:332 , HOH A:443	BINDING SITE FOR RESIDUE SO4 A 309
04	AC4	SOFTWARE	ARG A:143 , LYS A:147 , HOH A:508	BINDING SITE FOR RESIDUE SO4 A 2
05	AC5	SOFTWARE	HIS A:176 , ASP A:177 , GLY A:178 , ASP A:179	BINDING SITE FOR RESIDUE SO4 A 3
06	AC6	SOFTWARE	HIS A:289 , GLY A:290 , GLU A:292 , HOH A:395	BINDING SITE FOR RESIDUE SO4 A 4
07	AC7	SOFTWARE	LYS A:129 , VAL A:170 , LEU A:171 , LYS A:302 , HOH A:403 , HOH A:432	BINDING SITE FOR RESIDUE SO4 A 5
08	AC8	SOFTWARE	HOH A:19 , LYS A:97 , ARG A:102 , LYS A:257 , HOH A:324 , HOH A:442	BINDING SITE FOR RESIDUE SO4 A 6
09	AC9	SOFTWARE	ALA A:237 , ASP A:238 , VAL A:239 , LYS A:240 , GLN A:306 , HOH A:337 , HOH A:368	BINDING SITE FOR RESIDUE SO4 A 7
10	BC1	SOFTWARE	LYS A:226 , LEU A:231 , GLY A:232 , HOH A:400 , HOH A:413 , HOH A:500	BINDING SITE FOR RESIDUE SO4 A 8
11	BC2	SOFTWARE	ARG A:140 , HOH A:287 , HOH A:394 , HOH A:482	BINDING SITE FOR RESIDUE SO4 A 9
12	BC3	SOFTWARE	HOH A:66 , ARG A:93 , HOH A:208 , HOH A:493	BINDING SITE FOR RESIDUE SO4 A 10
13	BC4	SOFTWARE	THR A:181 , ARG A:188	BINDING SITE FOR RESIDUE GOL A 310
14	BC5	SOFTWARE	HOH A:37 , HOH A:61 , LYS A:78 , LEU A:182 , GLN A:183 , GLU A:184 , HOH A:286 , HOH A:357 , HOH A:484 , HOH A:505	BINDING SITE FOR RESIDUE GOL A 311
15	BC6	SOFTWARE	HOH A:40 , ASP A:179 , ARG A:188 , PHE A:190 , TYR A:204 , MET A:252 , HOH A:276	BINDING SITE FOR RESIDUE GOL A 312

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 2)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	UniProt sequence: complete aligned part

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Chain A from PDB  Type:PROTEIN  Length:227
 aligned with BLAB_AERHY | P26918 from UniProtKB/Swiss-Prot  Length:254

    Alignment length:227
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       
           BLAB_AERHY    28 AGMSLTQVSGPVYVVEDNYYVQENSMVYFGAKGVTVVGATWTPDTARELHKLIKRVSRKPVLEVINTNYHTDRAGGNAYWKSIGAKVVSTRQTRDLMKSDWAEIVAFTRKGLPEYPDLPLVLPNVVHDGDFTLQEGKVRAFYAGPAHTPDGIFVYFPDEQVLYGNCILKEKLGNLSFADVKAYPQTLERLKAMKLPIKTVIGGHDSPLHGPELIDHYEALIKAAPQS 254
               SCOP domains d3iofa_ A: Zn metallo-beta-lactamase                                                                                                                                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee..eeeeee.....eeeeeee....eeee....hhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhhhhhhh............eee...eee....eeee...........eeee....eee.hhhh............hhhhhhhhhhhhh.....eee......ee.hhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------BETA_LACTAMASE_B_1  ------------------------------------------------------------------------BETA_LACTAMAS---------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3iof A  41 AGMSLTQVSGPVYVVEDNYYVQENSMVYFGAKGVTVVGATWTPDTARELHKLIKRVSRKPVLEVINTNYHTDRAGGNAYWKSIGAKVVSTRQTRDLMKSDWAEIVAFTRKGLPEYPDLPLVLPNVVHDGDFTLQEGKVRAFYAGPAHTPDGIFVYFPDEQVLYGGCILKEKLGNLSFADVKAYPQTLERLKAMKLPIKTVIGGHDSPLHGPELIDHYEALIKAAPQS 307
                                    50        60|       76        86        96   ||  108       118       128  ||   139       149       159       169       179       189       199     ||215       225||     239       249       259       290       300       
                                              60|                              100| 106|                    131|                                                                     205| ||        226|                                 267|                  
                                               67                               102  108                     133                                                                      209 ||         231                                  289                  
                                                                                                                                                                                        211|                                                                   
                                                                                                                                                                                         215

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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 (1, 1)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (BLAB_AERHY | P26918)

molecular function
	GO:0008800	beta-lactamase activity	Catalysis of the reaction: a beta-lactam + H2O = a substituted beta-amino acid.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0017001	antibiotic catabolic process	The chemical reactions and pathways resulting in the breakdown of antibiotic, a substance produced by or derived from certain fungi, bacteria, and other organisms, that can destroy or inhibit the growth of other microorganisms.
	GO:0046677	response to antibiotic	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.
cellular component
	GO:0042597	periplasmic space	The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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