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(-) Description

Title :  CRYSTAL STRUCTURE OF THE HYDROLASE DOMAIN OF 10-FORMYLTETRAHYDROFOLATE DEHYDROGENASE (WILD-TYPE) COMPLEX WITH FORMATE
 
Authors :  C. C. Lin, C. J. Chen, T. F. Fu, P. Chuankhayan, T. T. Kao, W. N. Chang
Date :  03 Sep 14  (Deposition) - 15 Apr 15  (Release) - 15 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A
Keywords :  10-Formyltetrahydrofolate Dehydrogenase, Hydrolase Domain, Catalysis, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. C. Lin, P. Chuankhayan, W. N. Chang, T. T. Kao, H. H. Guan, H. K. Fun, A. Nakagawa, T. F. Fu, C. J. Chen
Structures Of The Hydrolase Domain Of Zebrafish 10-Formyltetrahydrofolate Dehydrogenase And Its Complexes Reveal A Complete Set Of Key Residues For Hydrolysis And Product Inhibition
Acta Crystallogr. , Sect. D V. 71 1006 2015
PubMed: search  |  Reference-DOI: 10.1107/S1399004715002928

(-) Compounds

Molecule 1 - 10-FORMYLTETRAHYDROFOLATE DEHYDROGENASE
    Chains: A
    EC Number: 1.5.1.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 1-311
    Gene: ALDH1L1
    Organism Common: LEOPARD DANIO,ZEBRA DANIO,ZEBRA FISH
    Organism Scientific: DANIO RERIO
    Organism Taxid: 7955

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1BTB1Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2FMT1Ligand/IonFORMIC ACID
3PEG1Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:88 , PHE A:89 , ILE A:90 , ILE A:104 , ASP A:138 , GLY A:140 , ASP A:142 , HOH A:550 , HOH A:569BINDING SITE FOR RESIDUE BTB A 401
2AC2SOFTWARETYR A:164BINDING SITE FOR RESIDUE PEG A 402
3AC3SOFTWAREHIS A:106 , GLY A:115 , ALA A:116 , ASP A:142BINDING SITE FOR RESIDUE FMT A 403

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4R8V)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Lys A:35 -Asp A:36
2Leu A:110 -Pro A:111
3Asp A:228 -Arg A:229
4Val A:230 -Pro A:231
5His A:254 -Phe A:255
6Phe A:255 -Ser A:256

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4R8V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4R8V)

(-) Exons   (0, 0)

(no "Exon" information available for 4R8V)

(-) 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:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.hhhhhhhhhhhhhhhh.eeeeeee........hhhhhhhhhh...eee....ee..eehhhhhhhhhhh...eeeee......hhhhhh.....eeeee..........hhhhhhhhh...eeeeeeee.........eeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhh...................hhhhh......hhhhhhhhhhh.......eeee..eeeeeeeeee..........eee........eeee..eeeee.....eeeeeeee.....eee.hhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r8v A   1 MKIAVIGQSLFGQEVYKELKNEGHMIVGVFTIPDKDGKVDPLAIEAEKDGVPVFKFPRWRLKGKAITEVVDQYKAVGAELNVLPFCSQFIPMEVIDHPKHGSIIYHPSLLPRHRGASAINWTLIHGDKKGGFTVFWADDGLDTGPILLQRECDVEPNDNVNSIYKRFLFPEGVKGMVEAVRLIATGKAPRIKQPEEGATYECIQKKENSKIDWNQPAEAIHNWIRGNDRVPGAWAEIDGKSVSFYGSTLLENDHFSSNGQPLEIPGASRAALVTKNGLVLFGNDGKMLLVKNLQFEDGKMIPGSQYFK 308
                                    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
   Legend:   → Mismatch (orange background)
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  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  (0, 0)

(no "SCOP Domain" information available for 4R8V)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4R8V)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4R8V)

(-) Gene Ontology  (17, 17)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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    His A:254 - Phe A:255   [ RasMol ]  
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    Lys A:35 - Asp A:36   [ RasMol ]  
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    Val A:230 - Pro A:231   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/TrEMBL
        E3NZ06_DANRE | E3NZ06: 4qpc 4qpd 4ts4 4tt8 4tts

(-) Related Entries Specified in the PDB File

4qpc THE MUTANT PROTEIN (Y200A).
4qpd THE SAME PROTEIN COMPLEXED WITH TETRAHYDROFOLATE.
4ts4 THE WILD TYPE PROTEIN.
4tt8 THE SAME PROTEIN COMPLEXED WITH 10-FORMYL-5,8-DIDEAZAFOLATE.
4tts THE MUTANT PROTEIN (Y200A) COMPLEXED WITH 10-FORMYL-5,8- DIDEAZAFOLATE.