2ZQ9 - JenaLib

Title :   CEPHALOTHIN ACYL-INTERMEDIATE STRUCTURE OF CLASS A BETA-LACTAMASE TOHO-1 E166A/R274N/R276N TRIPLE MUTANT

Authors :   Y. Nitanai, T. Shimamura, T. Uchiyama, Y. Ishii, M. Takehira, K. Yutani, H. Matsuzawa, M. Miyano

Date :   07 Aug 08 (Deposition) - 28 Jul 09 (Release) - 28 Jul 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.07

Chains :   Asym./Biol. Unit : A

Keywords :   Extended-Spectrum, Esbl, Beta-Lactamase, Acyl-Enzyme, Complex, Cephalothin, Toho-1, Hydrolase, Antibiotic Resistance, Plasmid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Nitanai, T. Shimamura, T. Uchiyama, Y. Ishii, M. Takehira, K. Yutani, H. Matsuzawa, M. Miyano
Structural Basis Of Extend Spectrum Beta-Lactamase In Correlation Of Enzymatic Kinetics And Thermal Stability Of Acyl-Intermediates
To Be Published
PubMed: search
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 5)

Sites (5, 5)

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TRP A:229 , PRO A:252 , GLU A:254 , ASN A:255 , HIS A:256 , HOH A:562 , HOH A:573 , HOH A:589	BINDING SITE FOR RESIDUE SO4 A 1
2	AC2	SOFTWARE	ALA A:52 , ARG A:178 , HOH A:340 , HOH A:364 , HOH A:428	BINDING SITE FOR RESIDUE SO4 A 3
3	AC3	SOFTWARE	CYS A:69 , SER A:70 , ASN A:104 , TYR A:105 , SER A:130 , ASN A:132 , PRO A:167 , ASN A:170 , LYS A:234 , THR A:235 , GLY A:236 , SER A:237 , ASP A:240 , HOH A:332 , HOH A:381 , HOH A:608 , HOH A:653	BINDING SITE FOR RESIDUE CEO A 301
4	AC4	SOFTWARE	GLY A:41 , GLY A:42 , LYS A:82 , LEU A:155 , GLY A:196 , LYS A:197 , ALA A:198 , LEU A:199 , ALA A:200 , GLN A:267 , PRO A:268 , GLU A:273 , ASN A:274 , ARG A:275 , ASN A:276 , ASP A:277 , HOH A:334 , HOH A:375 , HOH A:394 , HOH A:399 , HOH A:402 , HOH A:426 , HOH A:430 , HOH A:440 , HOH A:443 , HOH A:609 , HOH A:645 , HOH A:650 , HOH A:651	BINDING SITE FOR RESIDUE CLS A 11
5	AC5	SOFTWARE	GLU A:96 , ILE A:97 , ASN A:114 , GLY A:115 , ALA A:140 , HIS A:141 , GLY A:143 , HOH A:438 , HOH A:457 , HOH A:461	BINDING SITE FOR RESIDUE SPA A 21

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

Exons (0, 0)

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
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Chain A from PDB  Type:PROTEIN  Length:259
 aligned with BLT1_ECOLX | Q47066 from UniProtKB/Swiss-Prot  Length:291

    Alignment length:259
                                    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         
           BLT1_ECOLX    31 NSVQQQLEALEKSSGGRLGVALINTADNSQILYRADERFAMCSTSKVMAAAAVLKQSESDKHLLNQRVEIKKSDLVNYNPIAEKHVNGTMTLAELGAAALQYSDNTAMNKLIAHLGGPDKVTAFARSLGDETFRLDRTEPTLNTAIPGDPRDTTTPLAMAQTLKNLTLGKALAETQRAQLVTWLKGNTTGSASIRAGLPKSWVVGDKTGSGDYGTTNDIAVIWPENHAPLVLVTYFTQPEQKAERRRDILAAAAKIVTH 289
               SCOP domains d2zq9a_ A: beta-Lactamase, class A                                                                                                                                                                                                                                  SCOP domains
               CATH domains 2zq9A00 A:27-288 DD-peptidase/beta-lactamase superfamily                                                                                                                                                                                                            CATH domains
               Pfam domains ------------------------Beta-lactamase2-2zq9A01 A:51-263                                                                                                                                                                                  ------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh.eeeeeeee.....eeee.....ee.hhhhhhhhhhhhhhhhh........eee.hhhhh.....hhhhhh..eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhh........eehhhhhhhhhhhhhhh...hhhhhhhhhhhhhh......hhhhhh....eeeeeeeee...eeeeeeeee......eeeeeeee........hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------BETA_LACTAMASE_A------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2zq9 A  27 NSVQQQLEALEKSSGGRLGVALINTADNSQILYRADERFAMCSTSKVMAAAAVLKQSESDKHLLNQRVEIKKSDLVNYNPIAEKHVNGTMTLAELGAAALQYSDNTAMNKLIAHLGGPDKVTAFARSLGDETFRLDRTAPTLNTAIPGDPRDTTTPLAMAQTLKNLTLGKALAETQRAQLVTWLKGNTTGSASIRAGLPKSWVVGDKTGSGDYGTTNDIAVIWPENHAPLVLVTYFTQPEQKAENRNDILAAAAKIVTH 288
                                    36        46        56||      67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237||     248   ||  259       269       279         
                                                         57|                                                                                                                                                                                238|         252|                                  
                                                          59                                                                                                                                                                                 240          254

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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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 (1, 1)

Gene Ontology (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (BLT1_ECOLX | Q47066)

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.
biological process
	GO:0030655	beta-lactam antibiotic catabolic process	The chemical reactions and pathways resulting in the breakdown of a beta-lactam antibiotic, any member of a class of natural or semisynthetic antibiotics whose characteristic feature is a strained, four-membered beta-lactam ring. They include the penicillins and many of the cephalosporins.
	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.

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		Ala A:166 - Pro A:167	[ RasMol ]

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