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(-) Description

Title :  CRYSTAL STRUCTURE OF FUMARYLACETOACETATE HYDROLASE COMPLEXED WITH FUMARATE AND ACETOACETATE
 
Authors :  D. E. Timm, H. A. Mueller, P. Bhanumoorthy, J. M. Harp, G. J. Bunick
Date :  17 May 99  (Deposition) - 07 Jun 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Mixed Beta Sandwich Roll, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. E. Timm, H. A. Mueller, P. Bhanumoorthy, J. M. Harp, G. J. Bunick
Crystal Structure And Mechanism Of A Carbon-Carbon Bond Hydrolase.
Structure Fold. Des. V. 7 1023 1999
PubMed-ID: 10508789  |  Reference-DOI: 10.1016/S0969-2126(99)80170-1
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FUMARYLACETOACETATE HYDROLASE
    Chains: A, B
    EC Number: 3.7.1.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX
    Expression System Taxid: 562
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: FAH

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 11)

Asymmetric/Biological Unit (4, 11)
No.NameCountTypeFull Name
1AAE2Ligand/IonACETOACETIC ACID
2CA2Ligand/IonCALCIUM ION
3FUM2Ligand/IonFUMARIC ACID
4NI5Ligand/IonNICKEL (II) ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP B:626 , GLU B:699 , GLU B:701 , ASP B:733 , AAE B:1011BINDING SITE FOR RESIDUE CA B 1001
02AC2SOFTWAREASP A:126 , GLU A:199 , GLU A:201 , ASP A:233 , AAE A:1010BINDING SITE FOR RESIDUE CA A 1002
03AC3SOFTWAREHOH A:1250 , HIS B:654 , HOH B:1202 , HOH B:1203 , HOH B:1226BINDING SITE FOR RESIDUE NI B 1003
04AC4SOFTWAREASP B:511 , HIS B:895 , HOH B:1150 , HOH B:1250 , HOH B:1260 , HOH B:1277BINDING SITE FOR RESIDUE NI B 1004
05AC5SOFTWAREASP A:399 , HIS B:722 , HOH B:1012 , HOH B:1013 , HOH B:1274 , HOH B:1280BINDING SITE FOR RESIDUE NI B 1005
06AC6SOFTWAREASP A:11 , HIS A:395 , HOH A:1121 , HOH A:1238 , HOH A:1260 , HOH A:1270BINDING SITE FOR RESIDUE NI A 1006
07AC7SOFTWAREHIS A:222 , GLY B:499 , HOH B:1035 , HOH B:1271 , HOH B:1278BINDING SITE FOR RESIDUE NI B 1007
08AC8SOFTWARETYR A:128 , VAL A:137 , ARG A:142 , GLN A:240 , TYR A:244 , AAE A:1010 , HOH A:1018 , HOH A:1255 , HOH A:1258 , PRO B:746BINDING SITE FOR RESIDUE FUM A 1008
09AC9SOFTWAREPRO A:246 , TYR B:628 , VAL B:637 , ARG B:642 , GLN B:740 , TYR B:744 , AAE B:1011 , HOH B:1269 , HOH B:1272BINDING SITE FOR RESIDUE FUM B 1009
10BC1SOFTWAREASP A:126 , PHE A:127 , TYR A:128 , HIS A:133 , TYR A:159 , GLU A:199 , GLU A:201 , ASP A:233 , LYS A:253 , GLY A:349 , THR A:350 , CA A:1002 , FUM A:1008 , HOH A:1051BINDING SITE FOR RESIDUE AAE A 1010
11BC2SOFTWAREASP B:626 , PHE B:627 , TYR B:628 , HIS B:633 , TYR B:659 , GLU B:699 , GLU B:701 , ASP B:733 , LYS B:753 , GLY B:849 , THR B:850 , CA B:1001 , FUM B:1009 , HOH B:1055BINDING SITE FOR RESIDUE AAE B 1011

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1QCO)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Val A:245 -Pro A:246
2Asp A:280 -Pro A:281
3Val B:745 -Pro B:746
4Asp B:780 -Pro B:781

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1QCO)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1QCO)

(-) Exons   (0, 0)

(no "Exon" information available for 1QCO)

(-) 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:417
 aligned with FAAA_MOUSE | P35505 from UniProtKB/Swiss-Prot  Length:419

    Alignment length:417
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       
           FAAA_MOUSE     1 MSFIPVAEDSDFPIQNLPYGVFSTQSNPKPRIGVAIGDQILDLSVIKHLFTGPALSKHQHVFDETTLNNFMGLGQAAWKEARASLQNLLSASQARLRDDKELRQRAFTSQASATMHLPATIGDYTDFYSSRQHATNVGIMFRGKENALLPNWLHLPVGYHGRASSIVVSGTPIRRPMGQMRPDNSKPPVYGACRLLDMELEMAFFVGPGNRFGEPIPISKAHEHIFGMVLMNDWSARDIQQWEYVPLGPFLGKSFGTTISPWVVPMDALMPFVVPNPKQDPKPLPYLCHSQPYTFDINLSVSLKGEGMSQAATICRSNFKHMYWTMLQQLTHHSVNGCNLRPGDLLASGTISGSDPESFGSMLELSWKGTKAIDVEQGQTRTFLLDGDEVIITGHCQGDGYRVGFGQCAGKVLPALS 417
               SCOP domains d1qcoa1 A:1-118 Fumarylacetoacetate hydrolase, FAH, N-terminal domain                                                 d1qcoa2 A:119-417 Fumarylacetoacetate hydrolase, FAH, C-terminal domain                                                                                                                                                                                                                                     SCOP domains
               CATH domains -1qcoA01 A:2-114 Fumarylacetoacetate hydrolase, FAH, N-terminal domain.                                           -1qcoA02 A:116-401 Fumarylacetoacetate hydrolase, domain 2                                                                                                                                                                                                                                     ---------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................eeeee.......eeeeee..eeee...hhhhh.......hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhheee.hhheee.......eeee..hhhhhhhhhhhhhhhhhh..........eee................eeee........eeee...ee...................hhhhhh............eehhhhhhhh.....hhhhhh..........hhhhh..ee.........hhhhh.....ee..eeeeeee.......eeeeeee.hhh..hhhhhhhhhhh...................hhhhh.hhhhhh......ee.....ee.................................... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qco A   1 MSFIPVAEDSDFPIQNLPYGVFSTQSNPKPRIGVAIGDQILDLSVIKHLFTGPALSKHQHVFDETTLNNFMGLGQAAWKEARASLQNLLSASQARLRDDKELRQRAFTSQASATMHLPATIGDYTDFYSSRQHATNVGIMFRGKENALLPNWLHLPVGYHGRASSIVVSGTPIRRPMGQMRPDNSKPPVYGACRLLDMELEMAFFVGPGNRFGEPIPISKAHEHIFGMVLMNDWSARDIQQWEYVPLGPFLGKSFGTTISPWVVPMDALMPFVVPNPKQDPKPLPYLCHSQPYTFDINLSVSLKGEGMSQAATICRSNFKHMYWTMLQQLTHHSVNGCNLRPGDLLASGTISGSDPESFGSMLELSWKGTKAIDVGQGQTRTFLLDGDEVIITGHCQGDGYRVGFGQCAGKVLPALS 417
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       


Chain B from PDB  Type:PROTEIN  Length:419
 aligned with FAAA_MOUSE | P35505 from UniProtKB/Swiss-Prot  Length:419

    Alignment length:419
                              1                                                                                                                                                                                                                                                                                                                                                                                                                                
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408         
           FAAA_MOUSE     - --MSFIPVAEDSDFPIQNLPYGVFSTQSNPKPRIGVAIGDQILDLSVIKHLFTGPALSKHQHVFDETTLNNFMGLGQAAWKEARASLQNLLSASQARLRDDKELRQRAFTSQASATMHLPATIGDYTDFYSSRQHATNVGIMFRGKENALLPNWLHLPVGYHGRASSIVVSGTPIRRPMGQMRPDNSKPPVYGACRLLDMELEMAFFVGPGNRFGEPIPISKAHEHIFGMVLMNDWSARDIQQWEYVPLGPFLGKSFGTTISPWVVPMDALMPFVVPNPKQDPKPLPYLCHSQPYTFDINLSVSLKGEGMSQAATICRSNFKHMYWTMLQQLTHHSVNGCNLRPGDLLASGTISGSDPESFGSMLELSWKGTKAIDVEQGQTRTFLLDGDEVIITGHCQGDGYRVGFGQCAGKVLPALS 417
               SCOP domains d1qcob1 B:499-618 Fumarylacetoacetate hydrolase, FAH, N-terminal domain                                                 d1qcob2 B:619-917 Fumarylacetoacetate hydrolase, FAH, C-terminal domain                                                                                                                                                                                                                                     SCOP domains
               CATH domains ---1qcoB01 B:502-614 Fumarylacetoacetate hydrolase, FAH, N-terminal domain.                                         -1qcoB02 B:616-901 Fumarylacetoacetate hydrolase, domain 2                                                                                                                                                                                                                                     ---------------- CATH domains
           Pfam domains (1) ----------------DUF1969-1qcoB03 B:515-618                                                                               ----FAA_hydrolase-1qcoB01 B:623-913                                                                                                                                                                                                                                                                    ---- Pfam domains (1)
           Pfam domains (2) ----------------DUF1969-1qcoB04 B:515-618                                                                               ----FAA_hydrolase-1qcoB02 B:623-913                                                                                                                                                                                                                                                                    ---- Pfam domains (2)
         Sec.struct. author ....................eeeeee......eeeeee..eeeehhhhhhhh.hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhheee...eeee.......eeee..hhhhhhhhhhhhhhhhhh..........eee................eeee........eeee...ee......................hhhh...........eehhhhhhhh.....hhhhhh..........hhhhh..ee.........hhhhh.....ee..eeeeeee.......eeeeeee.hhh..hhhhhhhhhhh...................hhhhh.hhhhhh......eeee..eee.................................... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qco B 499 GSMSFIPVAEDSDFPIQNLPYGVFSTQSNPKPRIGVAIGDQILDLSVIKHLFTGPALSKHQHVFDETTLNNFMGLGQAAWKEARASLQNLLSASQARLRDDKELRQRAFTSQASATMHLPATIGDYTDFYSSRQHATNVGIMFRGKENALLPNWLHLPVGYHGRASSIVVSGTPIRRPMGQMRPDNSKPPVYGACRLLDMELEMAFFVGPGNRFGEPIPISKAHEHIFGMVLMNDWSARDIQQWEYVPLGPFLGKSFGTTISPWVVPMDALMPFVVPNPKQDPKPLPYLCHSQPYTFDINLSVSLKGEGMSQAATICRSNFKHMYWTMLQQLTHHSVNGCNLRPGDLLASGTISGSDPESFGSMLELSWKGTKAIDVGQGQTRTFLLDGDEVIITGHCQGDGYRVGFGQCAGKVLPALS 917
                                   508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908
   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 '|'

 Classification and Annotation

(-) SCOP Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: FAH (11)
(-)
Clan: no clan defined [family: DUF1969] (1)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (FAAA_MOUSE | P35505)
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.
    GO:0004334    fumarylacetoacetase activity    Catalysis of the reaction: 4-fumarylacetoacetate + H(2)O = acetoacetate + fumarate + H(+).
    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.
biological process
    GO:0006559    L-phenylalanine catabolic process    The chemical reactions and pathways resulting in the breakdown of phenylalanine, 2-amino-3-phenylpropanoic acid.
    GO:0006527    arginine catabolic process    The chemical reactions and pathways resulting in the breakdown of arginine, 2-amino-5-(carbamimidamido)pentanoic acid.
    GO:0009072    aromatic amino acid family metabolic process    The chemical reactions and pathways involving aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
    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.
    GO:0006572    tyrosine catabolic process    The chemical reactions and pathways resulting in the breakdown of tyrosine, an aromatic amino acid, 2-amino-3-(4-hydroxyphenyl)propanoic acid.
cellular component
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.

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 Related Entries

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

UniProtKB/Swiss-Prot
        FAAA_MOUSE | P35505: 1hyo 1qcn 1qqj 2hzy

(-) Related Entries Specified in the PDB File

1qcn 1qqj