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(-) Description

Title :  CRYSTAL STRUCTURE OF P. FALCIPARUM ARGINASE COMPLEXED WITH 2-AMINO-6-BORONO-2-METHYLHEXANOIC ACID
 
Authors :  D. P. Dowling, M. Ilies, D. W. Christianson
Date :  23 Jun 11  (Deposition) - 20 Jul 11  (Release) - 20 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Biol. Unit 2:  A  (6x)
Keywords :  Metallohydrolase, Arginase Fold, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Ilies, L. Di Costanzo, D. P. Dowling, K. J. Thorn, D. W. Christianso
Binding Of Alpha, Alpha-Disubstituted Amino Acids To Arginas Suggests New Avenues For Inhibitor Design
J. Med. Chem. 2011
PubMed-ID: 21728378  |  Reference-DOI: 10.1021/JM200443B

(-) Compounds

Molecule 1 - ARGINASE
    Chains: A
    EC Number: 3.5.3.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21 CODONPLUSTM(DE3) RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 22-411
    Gene: PFI0320W
    Organism Scientific: PLASMODIUM FALCIPARUM
    Organism Taxid: 36329
    Strain: 3D7

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A
Biological Unit 2 (6x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1FB61Ligand/Ion6-(DIHYDROXYBORANYL)-2-METHYL-L-NORLEUCINE
2MN2Ligand/IonMANGANESE (II) ION
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1FB63Ligand/Ion6-(DIHYDROXYBORANYL)-2-METHYL-L-NORLEUCINE
2MN-1Ligand/IonMANGANESE (II) ION
Biological Unit 2 (1, 6)
No.NameCountTypeFull Name
1FB66Ligand/Ion6-(DIHYDROXYBORANYL)-2-METHYL-L-NORLEUCINE
2MN-1Ligand/IonMANGANESE (II) ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:216 , HIS A:218 , ASP A:323 , ASP A:325 , MN A:413 , FB6 A:414BINDING SITE FOR RESIDUE MN A 412
2AC2SOFTWAREHIS A:193 , ASP A:216 , ASP A:220 , ASP A:323 , MN A:412 , FB6 A:414 , HOH A:593BINDING SITE FOR RESIDUE MN A 413
3AC3SOFTWAREASP A:216 , HIS A:218 , ASP A:220 , ASN A:222 , SER A:229 , HIS A:233 , GLY A:234 , ASP A:274 , ASP A:323 , ASP A:325 , HIS A:381 , MN A:412 , MN A:413 , HOH A:425 , HOH A:471 , HOH A:477 , HOH A:485 , HOH A:525 , HOH A:593BINDING SITE FOR RESIDUE FB6 A 414

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3SL1)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:190 -Gly A:191
2Asp A:377 -Lys A:378

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3SL1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3SL1)

(-) Exons   (0, 0)

(no "Exon" information available for 3SL1)

(-) Sequences/Alignments

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:308
 aligned with Q8I384_PLAF7 | Q8I384 from UniProtKB/TrEMBL  Length:411

    Alignment length:390
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411
         Q8I384_PLAF7    22 KNVSIIGSPLAAGQPLGGVQLACDDLRKLGLHNVIDVLGWKYEDIGNIDNGDNEMKQEKKTNNYINNNDNNNDNNNDNNNDNNNNCYIPNGVIKEKKHDLSNNKMNGYVNHNFYGNYEENNVISTNDKYKNNCYYDNIRNIKEIGIFSKNLFDTMSNELRKKNFVLNIGGDHGVAFSSILSSLQMYQNLRVIWIDAHGDINIPETSPSGNYHGMTLAHTLGLFKKKVPYFEWSENLTYLKPENTAIIGIRDIDAYEKIILKKCNINYYTIFDIEKNGIYNTICTALEKIDPNSNCPIHISLDIDSVDNVFAPGTGTVAKGGLNYREINLLMKILAETKRVVSMDLVEYNPSLDEVDKKVHGDSLPILDNATKTGKLCLELIARVLGYDIV 411
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee.........hhhhhhhhhhhhhhhhhhhhh..eeeeeee...----------------------------------------------------------------------------------.......hhhhhhhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhhhhh...eeeee...............hhhhhhhhhhh.........hhhhh.....hhh.eeeeee...hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhh......eeeeee.hhh................hhhhhhhhhhhhhhhh.eeeeeee..hhhhh.................hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3sl1 A  22 KNVSIIGSPLAAGQPLGGVQLACDDLRKLGLHNVIDVLGWKYEDIGNIDN----------------------------------------------------------------------------------CYYDNIRNIKEIGIFSKNLFDTMSNELRKKNFVLNIGGDHGVAFSSILSSLQMYQNLRVIWIDAHGDINIPETSPSGNYHGMTLAHTLGLFKKKVPYFEWSENLTYLKPENTAIIGIRDIDAYEKIILKKCNINYYTIFDIEKNGIYNTICTALEKIDPNSNCPIHISLDIDSVDNVFAPGTGTVAKGGLNYREINLLMKILAETKRVVSMDLVEYNPSLDEVDKKVHGDSLPILDNATKTGKLCLELIARVLGYDIV 411
                                    31        41        51        61        71         -         -         -         -         -         -         -         -  |    161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411
                                                                            71                                                                                154
   Legend:   → Mismatch (orange background)
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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 3SL1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3SL1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3SL1)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q8I384_PLAF7 | Q8I384)
molecular function
    GO:0004053    arginase activity    Catalysis of the reaction: L-arginine + H2O = L-ornithine + urea.
    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.

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 Related Entries

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

UniProtKB/TrEMBL
        Q8I384_PLAF7 | Q8I384: 3mmr 3sl0

(-) Related Entries Specified in the PDB File

3gmz HUMAN ARGINASE IN COMPLEX WITH L-ORNITHINE
3gn0 HUMAN ARGINASE I IN COMPLEX WITH DIFLUOROMETHYLORNITHINE (DFMO)
3mmr P. FALCIPARUM ARGINASE COMPLEXED WITH ABH
3sjt HUMAN ARGINASE I IN COMPLEX WITH THE INHIBITOR ME-ABH
3skk HUMAN ARGINASE I IN COMPLEX WITH THE INHIBITOR FABH
3sl0 P. FALCIPARUM ARGINASE COMPLEXED WITH 2-AMINO-6-BORONO-2- (DIFLUOROMETHYL)HEXANOIC ACID