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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   THE CRYSTAL STRUCTURE OF FATTY ACID AMP LIGASE FROM LEGIONELLA PNEUMOPHILA

Authors :   Z. Zhang, S. K. Burley, S. Swaminathan, New York Sgx Research Cente Structural Genomics (Nysgxrc)

Date :   04 Dec 09 (Deposition) - 16 Mar 10 (Release) - 16 Feb 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.85

Chains :   Asym./Biol. Unit : A

Keywords :   Fatty Acid Amp Ligase, Sgx, Acyl Adenylate, Structural Genomics, Psi- 2, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Z. Zhang, R. Zhou, J. M. Sauder, P. J. Tonge, S. K. Burley, S. Swaminatha
Structural And Functional Studies Of Fatty Acyl Adenylate Ligases From E. Coli And L. Pneumophila.
J. Mol. Biol. V. 406 313 2011
PubMed-ID: 21185305 | Reference-DOI: 10.1016/J.JMB.2010.12.011

Molecule 1 - SAFRAMYCIN MX1 SYNTHETASE B
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	BC - PSGX3 (BC)
	Expression System Strain	:	BL21 (DE3) - CODON + RIL - STRATAGENE
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	LPG2229
	Organism Scientific	:	LEGIONELLA PNEUMOPHILA SUBSP. PNEUMOPHILA
	Organism Taxid	:	272624
	Strain	:	STRAIN PHILADELPHIA 1 / ATCC 33152 / DSM 7513
	Synonym	:	FATTY ACID AMP LIGASE

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 14)

No.	Name	Count	Type	Full Name
1	1ZZ	1	Ligand/Ion	5'-O-[(S)-(DODECANOYLOXY)(HYDROXY)PHOSPHORYL]ADENOSINE
2	MSE	13	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PHE A:201 , HIS A:217 , ASP A:218 , GLY A:223 , PHE A:293 , ALA A:296 , GLU A:297 , PRO A:298 , VAL A:299 , CYS A:324 , GLY A:326 , LEU A:327 , ALA A:328 , LEU A:332 , SER A:374 , ASP A:440 , VAL A:451 , HOH A:620 , HOH A:651 , HOH A:674 , HOH A:829 , HOH A:868 , HOH A:938	BINDING SITE FOR RESIDUE 1ZZ A 589

(no "SS Bond" information available for 3KXW)

(no "Cis Peptide Bond" information available for 3KXW)

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

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

(no "Exon" information available for 3KXW)

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:572
 aligned with Q5ZTD3_LEGPH | Q5ZTD3 from UniProtKB/TrEMBL  Length:581

    Alignment length:580
                             1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
                             |       9        19        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       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579
         Q5ZTD3_LEGPH     - -MKKEYLQCQSLVDVVRLRALHSPNKKSCTFLNKELEETMTYEQLDQHAKAIAATLQAEGAKPGDRVLLLFAPGLPLIQAFLGCLYAGCIAVPIYPPAQEKLLDKAQRIVTNSKPVIVLMIADHIKKFTADELNTNPKFLKIPAIALESIELNRSSSWQPTSIKSNDIAFLQYTSGSTMHPKGVMVSHHNLLDNLNKIFTSFHMNDETIIFSWLPPHHDMGLIGCILTPIYGGIQAIMMSPFSFLQNPLSWLKHITKYKATISGSPNFAYDYCVKRIREEKKEGLDLSSWVTAFNGAEPVREETMEHFYQAFKEFGFRKEAFYPCYGLAEATLLVTGGTPGSSYKTLTLAKEQFQDHRVHFADDNSPGSYKLVSSGNPIQEVKIIDPDTLIPCDFDQVGEIWVQSNSVAKGYWNQPEETRHAFAGKIKDDERSAIYLRTGDLGFLHENELYVTGRIKDLIIIYGKNHYPQDIEFSLMHSPLHHVLGKCAAFVIQEEHEYKLTVMCEVKNRFMDDVAQDNLFNEIFELVYENHQLEVHTIVLIPLKAMPHTTSGKIRRNFCRKHLLDKTLPIVATWQLNKI 579
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------AMP-binding-3kxwA01 A:40-482                                                                                                                                                                                                                                                                                                                                                                                                                               ------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh..hhhhhhhhhhhhh...eeeeeee..eeeeeehhhhhhhhhhhhhhhhhh......eeeee...hhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhhh..eeeehhhhhhhhh.-----..ee..eeeee.hhhhhhhhhhh.........eeeeee.........eeeeehhhhhhhhhhhhhhh......eeee.....hhhhhhh.hhhhhhhh.eeee.hhhhhhhhhhhhhhhhhhhh..eeee.hhhhhhhhhhhhhhhhh........eeee.....hhhhhhhhhhhhhhhh.hhh.eeeeee.hhhh.eeee........eeee....................eeee...ee..eeeee.............eeeeee..........hhhhhhhhhh......---...eeeeeeeeee..eeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee..eeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhh....eeeeee........hhhhhhhhhhhhhhhh.....eeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kxw A   0 SLKKEYLQCQSLVDVVRLRALHSPNKKSCTFLNKELEETmTYEQLDQHAKAIAATLQAEGAKPGDRVLLLFAPGLPLIQAFLGCLYAGCIAVPIYPPAQEKLLDKAQRIVTNSKPVIVLmIADHIKKFTA-----NPKFLKIPAIALESIELNRSSSWQPTSIKSNDIAFLQYTSGSTmHPKGVmVSHHNLLDNLNKIFTSFHmNDETIIFSWLPPHHDmGLIGCILTPIYGGIQAImmSPFSFLQNPLSWLKHITKYKATISGSPNFAYDYCVKRIREEKKEGLDLSSWVTAFNGAEPVREETmEHFYQAFKEFGFRKEAFYPCYGLAEATLLVTGGTPGSSYKTLTLAKEQFQDHRVHFADDNSPGSYKLVSSGNPIQEVKIIDPDTLIPCDFDQVGEIWVQSNSVAKGYWNQPEETRHAFAGKIKDD---AIYLRTGDLGFLHENELYVTGRIKDLIIIYGKNHYPQDIEFSLmHSPLHHVLGKCAAFVIQEEHEYKLTVmCEVKNRFmDDVAQDNLFNEIFELVYENHQLEVHTIVLIPLKAmPHTTSGKIRRNFCRKHLLDKTLPIVATWQLNKI 579
                                     9        19        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       289       299    |  309       319       329       339       349       359       369       379       389       399       409       419       429   |   439       449       459       469      |479       489       499   |   509 |     519       529       539      |549       559       569       579
                                                                  39-MSE                                                                         119-MSE   129   135                                        178-MSE |                203-MSE         219-MSE           237-MSE                                                            304-MSE                                                                                                                      429 433                                        476-MSE                    503-MSE 511-MSE                            546-MSE                             
                                                                                                                                                                                                                  184-MSE                                               238-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 '\|'

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

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

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: ANL (32)

Family: AMP-binding (32)

Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513) (2)

AMP-binding-3kxwA01

A:40-482

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (Q5ZTD3_LEGPH | Q5ZTD3)

molecular function
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
biological process
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

Asymmetric/Biological Unit
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 14)

Sites (1, 1)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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SAPs(SNPs)/Variants (0, 0)

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