3P09 - JenaLib

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Title :   CRYSTAL STRUCTURE OF BETA-LACTAMASE FROM FRANCISELLA TULARENSIS

Authors :   Y. Kim, M. Makowska-Grzyska, J. Hasseman, W. F. Anderson, A. Joachimia For Structural Genomics Of Infectious Diseases (Csgid)

Date :   27 Sep 10 (Deposition) - 13 Oct 10 (Release) - 13 Oct 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: A,B  (2x)

Keywords :   Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Alpha-Beta Sandwich, Cytosol, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Kim, M. Makowska-Grzyska, J. Hasseman, W. F. Anderson, A. Joachimiak
Crystal Structure Of Beta-Lactamase From Francisella Tularensis
To Be Published
PubMed: search

Molecule 1 - BETA-LACTAMASE
	Chains	:	A, B
	EC Number	:	3.5.2.6
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG7
	Expression System Strain	:	BL21 MAGIC
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	FTT_0611C
	Organism Scientific	:	FRANCISELLA TULARENSIS SUBSP. TULARENSIS
	Organism Taxid	:	177416
	Strain	:	SCHU S4

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (2x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 12)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	MSE	4	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	7	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 7)

No.	Name	Count	Type	Full Name
1	GOL	-1	Ligand/Ion	GLYCEROL
2	MSE	2	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	5	Ligand/Ion	SULFATE ION

Biological Unit 2 (3, 5)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	MSE	2	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 3 (3, 24)

No.	Name	Count	Type	Full Name
1	GOL	2	Ligand/Ion	GLYCEROL
2	MSE	8	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	14	Ligand/Ion	SULFATE ION

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS A:31 , ASP A:192 , LYS A:193 , ASN B:246	BINDING SITE FOR RESIDUE SO4 A 291
2	AC2	SOFTWARE	TYR A:39 , ASN A:48 , LYS A:50 , LYS A:176 , HOH A:446	BINDING SITE FOR RESIDUE SO4 A 293
3	AC3	SOFTWARE	LEU A:137 , GLN A:138 , HOH A:316	BINDING SITE FOR RESIDUE SO4 A 294
4	AC4	SOFTWARE	SER A:61 , SER A:122 , LYS A:226 , THR A:227 , GLY A:228 , THR A:229 , HOH A:403 , HOH A:500	BINDING SITE FOR RESIDUE SO4 A 288
5	AC5	SOFTWARE	LYS A:35 , HOH A:509 , ASN B:150 , HOH B:309	BINDING SITE FOR RESIDUE SO4 A 289
6	AC6	SOFTWARE	TYR B:39 , ASN B:48 , LYS B:50 , LYS B:176	BINDING SITE FOR RESIDUE SO4 B 292
7	AC7	SOFTWARE	LYS A:95 , SER B:61 , SER B:122 , THR B:227 , GLY B:228 , THR B:229 , HOH B:341 , HOH B:376 , HOH B:442	BINDING SITE FOR RESIDUE SO4 B 288
8	AC8	SOFTWARE	GLY B:136 , LEU B:137 , GLN B:138	BINDING SITE FOR RESIDUE GOL B 294

Asymmetric Unit

No.	Residues
1	A:60	-	A:230
2	B:60	-	B:230

Asymmetric Unit

No.	Residues
1	Glu A:158	-	Pro A:159
2	Glu B:158	-	Pro B:159

(no "SAP(SNP)/Variant" information available for 3P09)

(no "PROSITE Motif" information available for 3P09)

(no "Exon" information available for 3P09)

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
	(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:264
 aligned with Q5NH60_FRATT | Q5NH60 from UniProtKB/TrEMBL  Length:287

    Alignment length:268
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279        
         Q5NH60_FRATT    20 QLDDSFKNLENKYDGKIGIYTLNTDDKTNIKYNESYHFPICSVFKFLLVGAILDYDMHNQGFLDKKIPINQDDIGKLGYAPITAKNVGKTLTISQLNYAAILSDSPASNILVRELGGLQNLNKFIKKLGDNDTIITADEPEINYTQPHSNINKTTPKAITKDIYKLAFGNILDKKHKDIFIKYLQDNNTGANRIAFSMPKDWIIGDKTGTCGQYAATNDVAIIWPKNQQPIALGILYTNPNDKNAPSNEEIIQQAAKLIANDLTNTYK 287
               SCOP domains d3p09a_ A: automated mat    ches                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh.eeeeeee..----..ee.....ee...hhhhhhhhhhhhhhhhh.hhhh.eee.hhhhhh......hhhhh...eeehhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhh........eehhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.....hhhhhh....eeeeeeee......eeeeeeee......eeeeeeee.........hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3p09 A  20 QLDDSFKNLENKYDGKIGIYTLNT----NIKYNESYHFPICSVFKFLLVGAILDYDmHNQGFLDKKIPINQDDIGKLGYAPITAKNVGKTLTISQLNYAAILSDSPASNILVRELGGLQNLNKFIKKLGDNDTIITADEPEINYTQPHSNINKTTPKAITKDIYKLAFGNILDKKHKDIFIKYLQDNNTGANRIAFSmPKDWIIGDKTGTCGQYAATNDVAIIWPKNQQPIALGILYTNPNDKNAPSNEEIIQQAAKLIANDLTNTYK 287
                                    29        39   |    49        59        69      | 79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279        
                                                  43   48                          76-MSE                                                                                                                                      217-MSE

Chain B from PDB  Type:PROTEIN  Length:264
 aligned with Q5NH60_FRATT | Q5NH60 from UniProtKB/TrEMBL  Length:287

    Alignment length:267
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       
         Q5NH60_FRATT    20 QLDDSFKNLENKYDGKIGIYTLNTDDKTNIKYNESYHFPICSVFKFLLVGAILDYDMHNQGFLDKKIPINQDDIGKLGYAPITAKNVGKTLTISQLNYAAILSDSPASNILVRELGGLQNLNKFIKKLGDNDTIITADEPEINYTQPHSNINKTTPKAITKDIYKLAFGNILDKKHKDIFIKYLQDNNTGANRIAFSMPKDWIIGDKTGTCGQYAATNDVAIIWPKNQQPIALGILYTNPNDKNAPSNEEIIQQAAKLIANDLTNTY 286
               SCOP domains d3p09b_ B: automated matc   hes                                                                                                                                                                                                                                             SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------------------Be   ta-lactamase2-3p09B01 B:43-254                                                                                                                                                                                 -------------------------------- Pfam domains (1)
           Pfam domains (2) -----------------------Be   ta-lactamase2-3p09B02 B:43-254                                                                                                                                                                                 -------------------------------- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhh.eeeeeeee..---..ee.....ee...hhhhhhhhhhhhhhhhh.hhhh.eee.hhhhhh.......hhhhh..eeehhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhh........eehhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.....hhhhhh....eeeeeeee......eeeeeeee......eeeeeeee.........hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3p09 B  20 QLDDSFKNLENKYDGKIGIYTLNTD---NIKYNESYHFPICSVFKFLLVGAILDYDmHNQGFLDKKIPINQDDIGKLGYAPITAKNVGKTLTISQLNYAAILSDSPASNILVRELGGLQNLNKFIKKLGDNDTIITADEPEINYTQPHSNINKTTPKAITKDIYKLAFGNILDKKHKDIFIKYLQDNNTGANRIAFSmPKDWIIGDKTGTCGQYAATNDVAIIWPKNQQPIALGILYTNPNDKNAPSNEEIIQQAAKLIANDLTNTY 286
                                    29        39    |   49        59        69      | 79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       
                                                   44  48                          76-MSE                                                                                                                                      217-MSE

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

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

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

Family: automated matches (70)

Protein domain: automated matches (70)

Francisella tularensis [TaxId: 177416] (1)

1a	d3p09a_	A:
1b	d3p09b_	B:

(no "CATH Domain" information available for 3P09)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Beta-lactamase (210)

Family: Beta-lactamase2 (75)

Francisella tularensis subsp. tularensis (1)

1a	Beta-lactamase2-3p09B01	B:43-254
1b	Beta-lactamase2-3p09B02	B:43-254

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q5NH60_FRATT | Q5NH60)

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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	Cis Peptide Bonds
		Glu A:158 - Pro A:159	[ RasMol ]
		Glu B:158 - Pro B:159	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (3, 12)

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SS Bonds (2, 2)

Cis Peptide Bonds (2, 2)

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