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Asym./Biol. Unit (Jmol Viewer)

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Title :   STRUCTURE OF THE BETA-LACTAMASE OF ENTEROBACTER CLOACAE GC1

Authors :   G. V. Crichlow, A. P. Kuzin, M. Nukaga, T. Sawai, J. R. Knox

Date :   17 May 99 (Deposition) - 27 Aug 99 (Release) - 16 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym./Biol. Unit : A

Keywords :   Beta-Lactam Hydrolase, Cephalosporinase, Drug Design, Extended- Spectrum Beta- Lactamase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. V. Crichlow, A. P. Kuzin, M. Nukaga, K. Mayama, T. Sawai, J. R. Knox
Structure Of The Extended-Spectrum Class C Beta-Lactamase O Enterobacter Cloacae Gc1, A Natural Mutant With A Tandem Tripeptide Insertion.
Biochemistry V. 38 10256 1999
PubMed-ID: 10441119 | Reference-DOI: 10.1021/BI9908787

Molecule 1 - BETA-LACTAMASE
	Cellular Location	:	PERIPLASM
	Chains	:	A
	EC Number	:	3.5.2.6
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Gene	:	BLAC
	Expression System Plasmid	:	PTTQ18K-GC1
	Expression System Strain	:	AS226-51
	Expression System Taxid	:	562
	Expression System Vector	:	PTTQ18
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	ENTEROBACTER CLOACAE
	Organism Taxid	:	550
	Strain	:	GC1
	Synonym	:	CEPHALOSPORINASE

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1GCE)

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	ASA	AUTHOR	SER A:64 , LYS A:67 , TYR A:150 , LYS A:318	CATALYTIC SITE

(no "SS Bond" information available for 1GCE)

Asymmetric/Biological Unit

No.	Residues
1	Trp A:279	-	Pro A:280
2	Asn A:305	-	Pro A:306

Asymmetric/Biological Unit (8, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_AMPC_ENTCL_003 *	T	21	A	AMPC_ENTCL	---	---	A	T	1	A
2	UniProt	VAR_AMPC_ENTCL_004 *	I	36	V	AMPC_ENTCL	---	---	A	V	16	V
3	UniProt	VAR_AMPC_ENTCL_005 *	P	58	S	AMPC_ENTCL	---	---	A	P	38	S
4	UniProt	VAR_AMPC_ENTCL_006 *	A	108	P	AMPC_ENTCL	---	---	A	P	88	P
5	UniProt	VAR_AMPC_ENTCL_007 *	L	152	V	AMPC_ENTCL	---	---	A	L	132	V
6	UniProt	VAR_AMPC_ENTCL_008 *	N	262	K	AMPC_ENTCL	---	---	A	N	245	K
7	UniProt	VAR_AMPC_ENTCL_009 *	A	319	V	AMPC_ENTCL	---	---	A	A	302	V
8	UniProt	VAR_AMPC_ENTCL_010 *	T	362	K	AMPC_ENTCL	---	---	A	T	345	K
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric/Biological Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	BETA_LACTAMASE_C	PS00336	Beta-lactamase class-C active site.	AMPC_ENTCL	80-87	1	A:60-67

(no "Exon" information available for 1GCE)

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:362
 aligned with AMPC_ENTCL | P05364 from UniProtKB/Swiss-Prot  Length:381

    Alignment length:362
                                                                                                                                                                                                                                                234                                                                                                                                                   
                                                                                                                                                                                                                                              233 |                                                                                                                                                   
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230  | |  239       249       259       269       279       289       299       309       319       329       339       349       359       369       379  
           AMPC_ENTCL    21 TPVSEKQLAEVVANTITPLMKAQSVPGMAVAVIYQGKPHYYTFGKADIAANKPVTPQTLFELGSISKTFTGVLGGDAIARGEISLDDAVTRYWPQLTGKQWQGIRMLDLATYTAGGLPLQVPDEVTDNASLLRFYQNWQPQWKPGTTRLYANASIGLFGALAVKPSGMPYEQAMTTRVLKPLKLDHTWINVPKAEEAHYAWGYRDGKAVRVSP-GMLDAQAYGVKTNVQDMANWVMANMAPENVADASLKQGIALAQSRYWRIGSMYQGLGWEMLNWPVEANTVVEGSDSKVALAPLPVAEVNPPAPPVKASWVHKTGSTGGFGSYVAFIPEKQIGIVMLANTSYPNPARVEAAYHILEALQ 381
               SCOP domains d1gcea_ A: AMPC beta-Lactamase, class C                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains 1gceA00 A:1-364 DD-peptidase/beta-lactamase superfamily                                                                                                                                                                                                                                                                                                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhh...eeeeeeee..eeeeeeeeeee....ee......ee...hhhhhhhhhhhhhhhh........hhhh.....hhhhh..hhhhhhh...............hhhhhhhhhhhh........ee..hhhhhhhhhhhhh.....hhhhhhhhhh........ee...hhhhh.....eee..eee.......hhhhhhh.eehhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.eeeee..eee....eeee...hhhhhhhhhhhhhhh..ee.eeeeeee.....eeeeeeee....eeeeeee....eeeeeee....hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) A--------------V---------------------S-------------------------------------------------P-------------------------------------------V--------------------------------------------------------------------------------------------------------------K--------------------------------------------------------V------------------------------------------K------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------BETA_LAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gce A   1 TPVSEKQLAEVVANTVTPLMKAQSVPGMAVAVIYQGKPHYYTFGKADIAANKPVTPQTLFELGSISKTFTGVLGGDAIARGEISLDDPVTRYWPQLTGKQWQGIRMLDLATYTAGGLPLQVPDEVTDNASLLRFYQNWQPQWKPGTTRLYANASIGLFGALAVKPSGMPYEQAMTTRVLKPLKLDHTWINVPKAEEAHYAWGYRDGKAVRAVRPGMLDAQAYGVKTNVQDMANWVMANMAPENVADASLKQGIALAQSRYWRIGSMYQGLGWEMLNWPVEANTVVEGSDSKVALAPLPVAEVNPPAPPVKASWVHKTGSTGGFGSYVAFIPEKQIGIVMLANTSYPNPARVEAAYHILEALQ 364
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210  ||   222       232       242       252       262       272       282       292       302       312       322       332       342       352       362  
                                                                                                                                                                                                                                              213|                                                                                                                                                    
                                                                                                                                                                                                                                               216

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

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Multi-domain proteins (alpha and beta) (2421)

Fold: beta-lactamase/transpeptidase-like (515)

Superfamily: beta-lactamase/transpeptidase-like (515)

Family: beta-Lactamase/D-ala carboxypeptidase (411)

Protein domain: AMPC beta-Lactamase, class C (85)

Enterobacter cloacae, P99, cephalosporinase [TaxId: 550] (9)

d1gcea_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Beta-lactamase (339)

Homologous Superfamily: DD-peptidase/beta-lactamase superfamily (335)

Enterobacter cloacae. Organism_taxid: 550. Strain: gc1. (1)

1gceA00

A:1-364

(no "Pfam Domain" information available for 1GCE)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (AMPC_ENTCL | P05364)

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: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:0030288	outer membrane-bounded periplasmic space	The region between the inner (cytoplasmic or plasma) membrane and outer membrane of organisms with two membranes such as Gram negative bacteria. These periplasmic spaces are relatively thick and contain a thin peptidoglycan layer (PGL), also referred to as a thin cell wall.
	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).

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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	Sites
		ASA	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Asn A:305 - Pro A:306	[ RasMol ]
		Trp A:279 - Pro A:280	[ RasMol ]

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	3.5.2.6
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	AMPC_ENTCL \| P05364	:	1bls 1rgz 1xx2 1y54 2q9m 2q9n 3s4x 4xux 5hai

2blt	THE HOMOLOGOUS P99 BETA-LACTAMASE.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (1, 1)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (8, 8)

PROSITE Motifs (1, 1)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 1)

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Gene Ontology (6, 6)

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