1K07 - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   NATIVE FEZ-1 METALLO-BETA-LACTAMASE FROM LEGIONELLA GORMANII

Authors :   I. Garcia-Saez, P. S. Mercuri, R. Kahn, C. Papamicael, J. M. Frere, M. Ga O. Dideberg

Date :   18 Sep 01 (Deposition) - 21 Jan 03 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.65

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)

Keywords :   Monomer With Alpha-Beta/Beta-Alpha Fold. Two Monomers Per Assymmetric Unit. , Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   I. Garcia-Saez, P. S. Mercuri, C. Papamicael, R. Kahn, J. M. Frere, M. Galleni, G. M. Rossolini, O. Dideberg
Three-Dimensional Structure Of Fez-1, A Monomeric Subclass B3 Metallo-[Beta]-Lactamase From Fluoribacter Gormanii, In Native Form And In Complex With -Captopril
J. Mol. Biol. V. 325 651 2003
PubMed-ID: 12507470 | Reference-DOI: 10.1016/S0022-2836(02)01271-8

Molecule 1 - FEZ-1 BETA-LACTAMASE
	Chains	:	A, B
	EC Number	:	3.5.2.6
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PDML1810
	Expression System Strain	:	BL21(DE3)(PLYSS)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 20-282
	Gene	:	BLAFEZ-1
	Organism Scientific	:	FLUORIBACTER GORMANII
	Organism Taxid	:	464

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 15)

No.	Name	Count	Type	Full Name
1	ACT	3	Ligand/Ion	ACETATE ION
2	GOL	4	Ligand/Ion	GLYCEROL
3	SO4	4	Ligand/Ion	SULFATE ION
4	ZN	4	Ligand/Ion	ZINC ION

Biological Unit 1 (3, 6)

No.	Name	Count	Type	Full Name
1	ACT	2	Ligand/Ion	ACETATE ION
2	GOL	2	Ligand/Ion	GLYCEROL
3	SO4	2	Ligand/Ion	SULFATE ION
4	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (3, 5)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	GOL	2	Ligand/Ion	GLYCEROL
3	SO4	2	Ligand/Ion	SULFATE ION
4	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ZN A:2 , HIS A:116 , HIS A:118 , HIS A:196 , GOL A:1502	BINDING SITE FOR RESIDUE ZN A 1
02	AC2	SOFTWARE	ZN A:1 , ASP A:120 , HIS A:121 , HIS A:263 , GOL A:1502 , HOH A:1588	BINDING SITE FOR RESIDUE ZN A 2
03	AC3	SOFTWARE	ZN B:4 , HIS B:116 , HIS B:118 , HIS B:196 , GOL B:1503	BINDING SITE FOR RESIDUE ZN B 3
04	AC4	SOFTWARE	ZN B:3 , ASP B:120 , HIS B:121 , HIS B:263 , GOL B:1503 , HOH B:1565	BINDING SITE FOR RESIDUE ZN B 4
05	AC5	SOFTWARE	LYS A:100 , LYS A:105 , PHE A:106 , SER A:107 , HOH A:1632 , HOH A:1661 , HOH A:1664 , HOH B:1624	BINDING SITE FOR RESIDUE SO4 A 1005
06	AC6	SOFTWARE	LYS B:100 , LYS B:105 , PHE B:106 , SER B:107 , HOH B:1563 , HOH B:1657 , HOH B:1691	BINDING SITE FOR RESIDUE SO4 B 1006
07	AC7	SOFTWARE	LYS A:212 , TYR A:214 , HOH A:1626 , LYS B:291	BINDING SITE FOR RESIDUE SO4 A 1007
08	AC8	SOFTWARE	GLU B:178 , ARG B:179	BINDING SITE FOR RESIDUE SO4 B 1008
09	AC9	SOFTWARE	GLU A:178 , ARG A:179	BINDING SITE FOR RESIDUE ACT A 1009
10	BC1	SOFTWARE	ARG A:78 , HIS A:155 , HOH A:1555	BINDING SITE FOR RESIDUE ACT A 1010
11	BC2	SOFTWARE	ARG B:78 , HIS B:155 , HOH B:1717	BINDING SITE FOR RESIDUE ACT B 1011
12	BC3	SOFTWARE	MET A:137 , LYS A:172 , ARG A:179 , VAL A:180 , GLU A:181 , HOH A:1629 , HOH A:1725	BINDING SITE FOR RESIDUE GOL A 1500
13	BC4	SOFTWARE	MET B:137 , LYS B:172 , ARG B:179 , VAL B:180 , GLU B:181 , HOH B:1636	BINDING SITE FOR RESIDUE GOL B 1501
14	BC5	SOFTWARE	ZN A:1 , ZN A:2 , HIS A:116 , HIS A:118 , ASP A:120 , HIS A:121 , HIS A:196 , ASN A:225 , HIS A:263 , HOH A:1588	BINDING SITE FOR RESIDUE GOL A 1502
15	BC6	SOFTWARE	ZN B:3 , ZN B:4 , HIS B:116 , HIS B:118 , ASP B:120 , HIS B:121 , HIS B:196 , ASN B:225 , HIS B:263 , HOH B:1565	BINDING SITE FOR RESIDUE GOL B 1503

Asymmetric Unit

No.	Residues
1	A:256	-	A:290
2	B:256	-	B:290

(no "Cis Peptide Bond" information available for 1K07)

(no "SAP(SNP)/Variant" information available for 1K07)

(no "PROSITE Motif" information available for 1K07)

(no "Exon" information available for 1K07)

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:262
 aligned with Q9K578_9GAMM | Q9K578 from UniProtKB/TrEMBL  Length:282

    Alignment length:262
                                    30        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  
         Q9K578_9GAMM    21 YPMPNPFPPFRIAGNLYYVGTDDLASYLIVTPRGNILINSDLEANVPMIKASIKKLGFKFSDTKILLISHAHFDHAAGSELIKQQTKAKYMVMDEDVSVILSGGKSDFHYANDSSTYFTQSTVDKVLHDGERVELGGTVLTAHLTPGHTRGCTTWTMKLKDHGKQYQAVIIGSIGVNPGYKLVDNITYPKIAEDYKHSIKVLESMRCDIFLGSHAGMFDLKNKYVLLQKGQNNPFVDPTGCKNYIEQKANDFYTELKKQETA 282
               SCOP domains d1k07a_ A: Zn metallo-beta-lactamase                                                                                                                                                                                                                                   SCOP domains
               CATH domains 1k07A00 A:36-311 Metallo-beta-lactamase, chain A                                                                                                                                                                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeee..eee........eeeee..eeeee...hhhhhhhhhhhhhhh..hhh.eeeee....hhhhhhhhhhhhhhhh.eeeee..hhhhhhh..........hhhhh.......eee....eeee..eeeeeee........eeeeeeeee..eeeeeeee..................hhhhhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1k07 A  36 YPMPNPFPPFRIAGNLYYVGTDDLASYLIVTPRGNILINSDLEANVPMIKASIKKLGFKFSDTKILLISHAHFDHAAGSELIKQQTKAKYMVMDEDVSVILSGGKSDFHYANDSSTYFTQSTVDKVLHDGERVELGGTVLTAHLTPGHTRGCTTWTMKLKDHGKQYQAVIIGSIGVNPGYKLVDNITYPKIAEDYKHSIKVLESMRCDIFLGSHAGMFDLKNKYVLLSKGQNNPFVDPTGCKNYIEQKANDFYTELKKQETG 311
                                    45|       56||      74 ||     85 ||     96       106       116       126       136       146       156 ||    167       177       187    || 198       208       218       228       238       248   ||  259       269       279       289       299       309  
                                    45|        57|        76|       87|                                                                  158|                             192|                                                       252|                                                         
                                     47         66         78        89                                                                   160                              194                                                        254

Chain B from PDB  Type:PROTEIN  Length:262
 aligned with Q9K578_9GAMM | Q9K578 from UniProtKB/TrEMBL  Length:282

    Alignment length:262
                                    30        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  
         Q9K578_9GAMM    21 YPMPNPFPPFRIAGNLYYVGTDDLASYLIVTPRGNILINSDLEANVPMIKASIKKLGFKFSDTKILLISHAHFDHAAGSELIKQQTKAKYMVMDEDVSVILSGGKSDFHYANDSSTYFTQSTVDKVLHDGERVELGGTVLTAHLTPGHTRGCTTWTMKLKDHGKQYQAVIIGSIGVNPGYKLVDNITYPKIAEDYKHSIKVLESMRCDIFLGSHAGMFDLKNKYVLLQKGQNNPFVDPTGCKNYIEQKANDFYTELKKQETA 282
               SCOP domains d1k07b_ B: Zn metallo-beta-lactamase                                                                                                                                                                                                                                   SCOP domains
               CATH domains 1k07B00 B:36-311 Metallo-beta-lactamase, chain A                                                                                                                                                                                                                       CATH domains
           Pfam domains (1) ------------------Lactamase_B-1k07B01 B:55-263                                                                                                                                                                        ------------------------------------------------ Pfam domains (1)
           Pfam domains (2) ------------------Lactamase_B-1k07B02 B:55-263                                                                                                                                                                        ------------------------------------------------ Pfam domains (2)
         Sec.struct. author .........eeee..eee........eeeee..eeeee...hhhhhhhhhhhhhhh..hhh.eeeee....hhhhhhhhhhhhhhhh.eeeee..hhhhhhhh.........hhhhh.......eee....eeee..eeeeeee........eeeeeeeee..eeeeeeee..................hhhhhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1k07 B  36 YPMPNPFPPFRIAGNLYYVGTDDLASYLIVTPRGNILINSDLEANVPMIKASIKKLGFKFSDTKILLISHAHFDHAAGSELIKQQTKAKYMVMDEDVSVILSGGKSDFHYANDSSTYFTQSTVDKVLHDGERVELGGTVLTAHLTPGHTRGCTTWTMKLKDHGKQYQAVIIGSIGVNPGYKLVDNITYPKIAEDYKHSIKVLESMRCDIFLGSHAGMFDLKNKYVLLSKGQNNPFVDPTGCKNYIEQKANDFYTELKKQETG 311
                                    45|       56||      74 ||     85 ||     96       106       116       126       136       146       156 ||    167       177       187    || 198       208       218       228       238       248   ||  259       269       279       289       299       309  
                                    45|        57|        76|       87|                                                                  158|                             192|                                                       252|                                                         
                                     47         66         78        89                                                                   160                              194                                                        254

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 Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: Metallo-hydrolase/oxidoreductase (184)

Superfamily: Metallo-hydrolase/oxidoreductase (184)

Family: Zn metallo-beta-lactamase (93)

Protein domain: Zn metallo-beta-lactamase (63)

Fluoribacter gormanii, (Legionella gormanii) FEZ-1 [TaxId: 464] (3)

1a	d1k07a_	A:
1b	d1k07b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 4-Layer Sandwich (459)

Topology: Metallo-beta-lactamase; Chain A (92)

Homologous Superfamily: Metallo-beta-lactamase, chain A (92)

Fluoribacter gormanii. Organism_taxid: 464. (3)

1a	1k07A00	A:36-311
1b	1k07B00	B:36-311

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Metallo-HOrase (67)

Family: Lactamase_B (53)

Fluoribacter gormanii (3)

1a	Lactamase_B-1k07B01	B:55-263
1b	Lactamase_B-1k07B02	B:55-263

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q9K578_9GAMM | Q9K578)


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.

Asymmetric Unit
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	1k07
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	3.5.2.6
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	Q9K578_9GAMM \| Q9K578	:	1jt1 1l9y

1jt1	1JT1 CONTAINS THE SAME PROTEIN WITH D-CAPTOPRIL

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 15)

Sites (15, 15)

SS Bonds (2, 2)

Cis Peptide Bonds (0, 0)

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