3IT7 - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE LASA VIRULENCE FACTOR FROM PSEUDOMONAS AERUGINOSA

Authors :   J. Spencer, L. M. Murphy, R. Conners, R. B. Sessions, S. J. Gamblin

Date :   27 Aug 09 (Deposition) - 17 Nov 09 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.14

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

Keywords :   Metallopeptidase, M23, Beta-Protein, Cell Membrane, Cell Outer Membrane, Hydrolase, Membrane, Metal-Binding, Metalloprotease, Protease, Zymogen (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Spencer, L. M. Murphy, R. Conners, R. B. Sessions, S. J. Gamblin
Crystal Structure Of The Lasa Virulence Factor From Pseudomonas Aeruginosa: Substrate Specificity And Mechanism Of M23 Metallopeptidases.
J. Mol. Biol. V. 396 908 2010
PubMed-ID: 20026068 | Reference-DOI: 10.1016/J.JMB.2009.12.021

Molecule 1 - PROTEASE LASA
	Chains	:	A, B
	EC Number	:	3.4.24.-
	Fragment	:	UNP RESIDUES 237-418
	Organism Scientific	:	PSEUDOMONAS AERUGINOSA
	Organism Taxid	:	208964
	Strain	:	PAO1
	Synonym	:	STAPHYLOLYTIC PROTEASE

		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 (3, 7)

No.	Name	Count	Type	Full Name
1	GOL	3	Ligand/Ion	GLYCEROL
2	TLA	2	Ligand/Ion	L(+)-TARTARIC ACID
3	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (2, 3)

No.	Name	Count	Type	Full Name
1	GOL	2	Ligand/Ion	GLYCEROL
2	TLA	1	Ligand/Ion	L(+)-TARTARIC ACID
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	TLA	1	Ligand/Ion	L(+)-TARTARIC ACID
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:23 , ASP A:36 , HIS A:122 , TLA A:300	BINDING SITE FOR RESIDUE ZN A 183
2	AC2	SOFTWARE	SER A:4 , HIS A:23 , ASP A:36 , HIS A:81 , SER A:116 , THR A:117 , HIS A:120 , HIS A:122 , TYR A:151 , ZN A:183 , HOH A:195 , HOH A:278 , HOH A:354	BINDING SITE FOR RESIDUE TLA A 300
3	AC3	SOFTWARE	TYR A:15 , TRP A:17 , TYR A:39 , TYR A:49 , GOL A:185 , HOH A:228 , HOH A:229 , ARG B:156	BINDING SITE FOR RESIDUE GOL A 184
4	AC4	SOFTWARE	ARG A:12 , TYR A:15 , TRP A:17 , TYR A:49 , GOL A:184 , HOH A:253	BINDING SITE FOR RESIDUE GOL A 185
5	AC5	SOFTWARE	HIS B:23 , ASP B:36 , HIS B:122 , TLA B:300	BINDING SITE FOR RESIDUE ZN B 183
6	AC6	SOFTWARE	HIS B:23 , ASP B:36 , HIS B:81 , SER B:115 , SER B:116 , THR B:117 , HIS B:120 , HIS B:122 , TYR B:151 , ZN B:183 , HOH B:233 , HOH B:325 , HOH B:357	BINDING SITE FOR RESIDUE TLA B 300
7	AC7	SOFTWARE	GLN A:18 , ASP A:40 , PRO A:174 , ASP B:152 , ASN B:153 , ASP B:154 , ARG B:157	BINDING SITE FOR RESIDUE GOL B 184

Asymmetric Unit

No.	Residues
1	A:65	-	A:111
2	A:155	-	A:170
3	B:65	-	B:111
4	B:155	-	B:170

Asymmetric Unit

No.	Residues
1	Tyr A:30	-	Pro A:31
2	Tyr B:30	-	Pro B:31

(no "SAP(SNP)/Variant" information available for 3IT7)

(no "PROSITE Motif" information available for 3IT7)

(no "Exon" information available for 3IT7)

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:182
 aligned with LASA_PSEAE | P14789 from UniProtKB/Swiss-Prot  Length:418

    Alignment length:182
                                   246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416  
           LASA_PSEAE   237 APPSNLMQLPWRQGYSWQPNGAHSNTGSGYPYSSFDASYDWPRWGSATYSVVAAHAGTVRVLSRCQVRVTHPSGWATNYYHMDQIQVSNGQQVSADTKLGVYAGNINTALCEGGSSTGPHLHFSLLYNGAFVSLQGASFGPYRINVGTSNYDNDCRRYYFYNQSAGTTHCAFRPLYNPGLAL 418
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.........eeee..............eeeee...........eee....eeeeeee..eeeee....eeeeee.ee........ee....eeeee..hhhhhh..........eeeeeee..ee......ee..eeee.............eeee.....ee.....ee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3it7 A   1 APPSNLMQLPWRQGYSWQPNGAHSNTGSGYPYSSFDASYDWPRWGSATYSVVAAHAGTVRVLSRCQVRVTHPSGWATNYYHMDQIQVSNGQQVSADTKLGVYAGNINTALCEGGSSTGPHLHFSLLYNGAFVSLQGASFGPYRINVGTSNYDNDCRRYYFYNQSAGTTHCAFRPLYNPGLAL 182
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180

Chain B from PDB  Type:PROTEIN  Length:182
 aligned with LASA_PSEAE | P14789 from UniProtKB/Swiss-Prot  Length:418

    Alignment length:182
                                   246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416  
           LASA_PSEAE   237 APPSNLMQLPWRQGYSWQPNGAHSNTGSGYPYSSFDASYDWPRWGSATYSVVAAHAGTVRVLSRCQVRVTHPSGWATNYYHMDQIQVSNGQQVSADTKLGVYAGNINTALCEGGSSTGPHLHFSLLYNGAFVSLQGASFGPYRINVGTSNYDNDCRRYYFYNQSAGTTHCAFRPLYNPGLAL 418
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............eeee..............eeeee...........eee....eeeeeee..eeeee....eeeeee.ee........ee....eeeee..hhhhhh..........eeeeeee..ee......ee..eeee.............eeee.....ee.....ee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3it7 B   1 APPSNLMQLPWRQGYSWQPNGAHSNTGSGYPYSSFDASYDWPRWGSATYSVVAAHAGTVRVLSRCQVRVTHPSGWATNYYHMDQIQVSNGQQVSADTKLGVYAGNINTALCEGGSSTGPHLHFSLLYNGAFVSLQGASFGPYRINVGTSNYDNDCRRYYFYNQSAGTTHCAFRPLYNPGLAL 182
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180

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 '\|'

(no "SCOP Domain" information available for 3IT7)

(no "CATH Domain" information available for 3IT7)

(no "Pfam Domain" information available for 3IT7)

Asymmetric Unit(hide GO term definitions)

Chain A,B (LASA_PSEAE | P14789)

molecular function
	GO:0004175	endopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain.
	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:0004222	metalloendopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
	GO:0008237	metallopeptidase activity	Catalysis of the hydrolysis of peptide bonds by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
	GO:0008233	peptidase activity	Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
biological process
	GO:0009405	pathogenesis	The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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	Sites
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	Cis Peptide Bonds
		Tyr A:30 - Pro A:31	[ RasMol ]
		Tyr B:30 - Pro B:31	[ RasMol ]

Biological Units
	Complete Structure
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		Biological Unit 2	[ Jena3D ]

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Access by PDB/NDB ID
	3it7
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	LASA_PSEAE \| P14789
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	3.4.24.-
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	LASA_PSEAE \| P14789	:	3it5

3it5	NATIVE STRUCTURE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 7)

Sites (7, 7)

SS Bonds (4, 4)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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Gene Ontology (9, 9)

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