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(-) Description

Title :  THE CRYSTAL STRUCTURE OF FATTY ACYL-ADENYLATE LIGASE FROM L. PNEUMOPHILA IN COMPLEX WITH ACYL ADENYLATE AND PYROPHOSPHATE
 
Authors :  Z. Zhang, S. K. Burley, S. Swaminathan, New York Sgx Research Cente Structural Genomics (Nysgxrc)
Date :  03 Feb 10  (Deposition) - 07 Apr 10  (Release) - 16 Feb 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Structural Genomics, Psi-2, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Biosynthetic Protein (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

(-) Compounds

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: 11191L2, LPG2229
    Organism Scientific: LEGIONELLA PNEUMOPHILA SUBSP. PNEUMOPHILA
    Organism Taxid: 272624
    Strain: PHILADELPHIA 1 / ATCC 33152 / DSM 7513
    Synonym: FATTY ACYL-ADENYLATE LIGASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 15)

Asymmetric/Biological Unit (3, 15)
No.NameCountTypeFull Name
11ZZ1Ligand/Ion5'-O-[(S)-(DODECANOYLOXY)(HYDROXY)PHOSPHORYL]ADENOSINE
2MSE13Mod. Amino AcidSELENOMETHIONINE
3POP1Ligand/IonPYROPHOSPHATE 2-

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:174 , PHE A:201 , MSE A:203 , ASP A:218 , MSE A:219 , GLY A:223 , PHE A:293 , ALA A:296 , GLU A:297 , PRO A:298 , VAL A:299 , CYS A:324 , GLY A:326 , ALA A:328 , LEU A:332 , LEU A:333 , SER A:374 , ASP A:440 , VAL A:451 , ARG A:454 , POP A:590 , HOH A:616 , HOH A:684 , HOH A:820BINDING SITE FOR RESIDUE 1ZZ A 589
2AC2SOFTWARETHR A:173 , SER A:174 , GLY A:175 , SER A:176 , GLU A:329 , ARG A:454 , 1ZZ A:589BINDING SITE FOR RESIDUE POP A 590

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Lys A:427 -Asp A:428

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3LNV)

(-) Sequences/Alignments

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:566
 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-3lnvA01 A:40-482                                                                                                                                                                                                                                                                                                                                                                                                                               ------------------------------------------------------------------  ---------------  ------------ Pfam domains
         Sec.struct. author ..hhhhhh..hhhhhhhhhhhhh...eeeeeee..eeeeeehhhhhhhhhhhhhhhhhh......eeeee...hhhhhhhhhhhhhh..eeeee........hhhhhhhhhhhh..eeeehhhhhhhhh-------.ee..eeeee.hhhhhhhhhhh.........eeeeee.........eeeeehhhhhhhhhhhhhhh......eeee.....hhhhhhh.hhhhhhhh.eeee.hhhhhhhhhhhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhh........eeee.....hhhhhhhhhhhhhhhh.hhh.eeeeee.hhhh.eeee........eeee...............-....eeee...ee..eeeee.............eeeeee..........hhhhhhhhhh......--....eeeeeeeeee..eeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee..eeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhh....eeeeee......--hhhhhhhhhhhhhhh--....eeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lnv A   0 SLKKEYLQCQSLVDVVRLRALHSPNKKSCTFLNKELEETmTYEQLDQHAKAIAATLQAEGAKPGDRVLLLFAPGLPLIQAFLGCLYAGCIAVPIYPPAQEKLLDKAQRIVTNSKPVIVLmIADHIKKFT-------PKFLKIPAIALESIELNRSSSWQPTSIKSNDIAFLQYTSGSTmHPKGVmVSHHNLLDNLNKIFTSFHmNDETIIFSWLPPHHDmGLIGCILTPIYGGIQAImmSPFSFLQNPLSWLKHITKYKATISGSPNFAYDYCVKRIREEKKEGLDLSSWVTAFNGAEPVREETmEHFYQAFKEFGFRKEAFYPCYGLAEATLLVTGGTPGSSYKTLTLAKEQFQDHRVHFADD-SPGSYKLVSSGNPIQEVKIIDPDTLIPCDFDQVGEIWVQSNSVAKGYWNQPEETRHAFAGKIKDD--SAIYLRTGDLGFLHENELYVTGRIKDLIIIYGKNHYPQDIEFSLmHSPLHHVLGKCAAFVIQEEHEYKLTVmCEVKNRFmDDVAQDNLFNEIFELVYENHQLEVHTIVLIPLKAmPH--SGKIRRNFCRKHLLD--LPIVATWQLNKI 579
                                     9        19        29        39        49        59        69        79        89        99       109       119        |-      |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      | |- |     559     | 569       579
                                                                  39-MSE                                                                         119-MSE  128     136                                       178-MSE |                203-MSE         219-MSE           237-MSE                                                            304-MSE                                                    363 |                                                             429  |                                         476-MSE                    503-MSE 511-MSE                            546-MSE|           565  |           
                                                                                                                                                                                                                  184-MSE                                               238-MSE                                                                                                                        365                                                                432                                                                                                                 548  |              568           
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 551
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: ANL (32)

(-) Gene Ontology  (2, 2)

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.

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    Lys A:427 - Asp A:428   [ RasMol ]  
 

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q5ZTD3_LEGPH | Q5ZTD3: 3kxw

(-) Related Entries Specified in the PDB File

3kxw RELATED ID: NYSGXRC-11191L RELATED DB: TARGETDB