2HB9 - JenaLib

Title :   CRYSTAL STRUCTURE OF THE ZINC-BETA-LACTAMASE L1 FROM STENOTROPHOMONAS MALTOPHILIA (INHIBITOR 3)

Authors :   L. Nauton, G. Garau, R. Kahn, O. Dideberg

Date :   14 Jun 06 (Deposition) - 29 May 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.75

Chains :   Asym. Unit : A
Biol. Unit 1: A  (4x)

Keywords :   Hydrolase, Metallo, Zn, Lactamase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. Nauton, R. Kahn, G. Garau, J. F. Hernandez, O. Dideberg
Structural Insights Into The Design Of Inhibitors For The L Metallo-Beta-Lactamase From Stenotrophomonas Maltophilia.
J. Mol. Biol. V. 375 257 2008
PubMed-ID: 17999929 | Reference-DOI: 10.1016/J.JMB.2007.10.036
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 6)

Sites (6, 6)

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:116 , HIS A:118 , HIS A:196 , L13 A:500	BINDING SITE FOR RESIDUE ZN A 401
2	AC2	SOFTWARE	ASP A:120 , HIS A:121 , HIS A:263 , L13 A:500	BINDING SITE FOR RESIDUE ZN A 402
3	AC3	SOFTWARE	ARG A:172 , VAL A:179 , ILE A:180 , THR A:181 , HOH A:593 , HOH A:667	BINDING SITE FOR RESIDUE SO4 A 1
4	AC4	SOFTWARE	TRP A:53 , ARG A:102 , GLY A:211 , HOH A:718	BINDING SITE FOR RESIDUE SO4 A 2
5	AC5	SOFTWARE	TRP A:39 , HIS A:116 , HIS A:118 , ASP A:120 , HIS A:121 , PHE A:156 , ILE A:162 , HIS A:196 , HIS A:263 , ZN A:401 , ZN A:402	BINDING SITE FOR RESIDUE L13 A 500
6	AC6	SOFTWARE	ARG A:107 , ARG A:110 , LYS A:129 , ARG A:130 , THR A:132 , GLY A:133 , LYS A:135 , HOH A:617 , HOH A:671	BINDING SITE FOR RESIDUE L13 A 501

SS Bonds (1, 1)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

Exons (0, 0)

Sequences/Alignments

Asymmetric 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
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Chain A from PDB  Type:PROTEIN  Length:266
 aligned with BLA1_STEMA | P52700 from UniProtKB/Swiss-Prot  Length:290

    Alignment length:266
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282      
           BLA1_STEMA    23 EVPLPQLRAYTVDASWLQPMAPLQIADHTWQIGTEDLTALLVQTPDGAVLLDGGMPQMASHLLDNMKARGVTPRDLRLILLSHAHADHAGPVAELKRRTGAKVAANAESAVLLARGGSDDLHFGDGITYPPANADRIVMDGEVITVGGIVFTAHFMAGHTPGSTAWTWTDTRNGKPVRIAYADSLSAPGYQLQGNPRYPHLIEDYRRSFATVRALPCDVLLTPHPGASNWDYAAGARAGAKALTCKAYADAAEQKFDGQLAKETAG 288
               SCOP domains d2hb9a_ A: Zn metallo-beta-lactamase                                                                                                                                                                                                                                       SCOP domains
               CATH domains 2hb9A00 A:24-317 Metallo-beta-lactamase, chain A                                                                                                                                                                                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhh....ee....eee........eeeee..eeeee...hhhhhhhhhhhhhhh..hhh.eeeee....hhhhhhhhhhhhhhh..eeeehhhhhhhhhh....................ee.....eeee..eeeeeee........eeeeeeeee..eeeeeee..................hhhhhhhhhhhhhhh....eee..hhhhhh....hhhhh.....hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------BETA_LACTAMASE_B_1   ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2hb9 A  24 EVPLPQLRAYTVDASWLQPMAPLQIADHTWQIGTEDLTALLVQTPDGAVLLDGGMPQMASHLLDNMKARGVTPRDLRLILLSHAHADHAGPVAELKRRTGAKVAANAESAVLLARGGSDDLHFGDGITYPPANADRIVMDGEVITVGGIVFTAHFMAGHTPGSTAWTWTDTRNGKPVRIAYADSLSAPGYQLQGNPRYPHLIEDYRRSFATVRALPCDVLLTPHPGASNWDYAAGARAGAKALTCKAYADAAEQKFDGQLAKETAG 317
                                    33        43        53   ||   72        82    ||  93       103       113       123       133       143       153   ||  165||     176       186    || 197       207       217    || 229       239       249       259       269      |291       301       311      
                                                            57|                  87|                                                                 157|   166|                    191|                          222|                                                276|                            
                                                             67                   89                                                                  160    168                     193                           225                                                 289

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 (1, 1)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (7, 7)

Asymmetric Unit(hide GO term definitions)

Chain A (BLA1_STEMA | P52700)

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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