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(-) Description

Title :  HUMAN GAR TRANSFORMYLASE IN COMPLEX WITH GAR AND N-({5-[(2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDIN-6-YL)BUTYL]THIOPHEN-2-YL}CARBONYL)-L-GLUTAMIC ACID (AGF71)
 
Authors :  S. M. Deis, C. E. Dann Iii
Date :  22 May 14  (Deposition) - 20 Apr 16  (Release) - 22 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym./Biol. Unit :  A
Keywords :  Gar Transformylase, Antifolate, Transferase, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. M. Deis, A. Doshi, Z. Hou, L. H. Matherly, A. Gangjee, C. E. Dann
Structural And Enzymatic Analysis Of Tumor-Targeted Antifolates That Inhibit Glycinamide Ribonucleotide Formyltransferase.
Biochemistry V. 55 4574 2016
PubMed-ID: 27439469  |  Reference-DOI: 10.1021/ACS.BIOCHEM.6B00412

(-) Compounds

Molecule 1 - TRIFUNCTIONAL PURINE BIOSYNTHETIC PROTEIN ADENOSINE-3
    Chains: A
    EC Number: 2.1.2.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B
    Expression System Strain: ROSETTA(DE3)PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: GAR TRANSFORMYLASE DOMAIN (UNP RESIDUES 808-1010)
    Gene: GART, PGFT, PRGS
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1G711Ligand/IonN-({5-[4-(2-AMINO-4-OXO-4,7-DIHYDRO-1H-PYRROLO[2,3-D]PYRIMIDIN-6-YL)BUTYL]THIOPHEN-2-YL}CARBONYL)-L-GLUTAMIC ACID
2GAR1Ligand/IonGLYCINAMIDE RIBONUCLEOTIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:817 , GLY A:818 , SER A:819 , ASN A:820 , GLY A:894 , MET A:896 , HIS A:915 , PRO A:916 , GLY A:924 , LYS A:977 , GLU A:980 , G71 A:1102 , HOH A:1201 , HOH A:1224 , HOH A:1230 , HOH A:1233 , HOH A:1240 , HOH A:1253 , HOH A:1255binding site for residue GAR A 1101
2AC2SOFTWARELYS A:844 , ARG A:871 , PHE A:895 , MET A:896 , ARG A:897 , ILE A:898 , LEU A:899 , VAL A:904 , HIS A:944 , VAL A:946 , ALA A:947 , GLU A:948 , VAL A:950 , ASP A:951 , GAR A:1101 , HOH A:1204binding site for residue G71 A 1102

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:919 -Pro A:920

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ZYV)

(-) 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)
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(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:201
                                                                                                                                                                                                                                          
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...hhhhhhhhhhhh......eeeeeee....hhhhhhhhhh...eee.hhhhh.hhhhhhhhhhhhhhhh...eeee.......hhhhhhhh...eeeee..........hhhhhhhhhh..eeeeeeee.........eeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh..ee.......ee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4zyv A  808 ARVAVLISGTGSNLQALIDSTREPNSSAQIDIVISNKAAVAGLDKAERAGIPTRVINHKLYKNRVEFDSAIDLVLEEFSIDIVCLAGFMRILSGPFVQKWNGKMLNIHPSLLPSFKGSNAHEQALETGVTVTGCTVHFVAEDVDAGQIILQEAVPVKRGDTVATLSERVKLAEHKIFPAALQLVASGTVQLGENGKICWVK 1008
                                   817       827       837       847       857       867       877       887       897       907       917       927       937       947       957       967       977       987       997      1007
   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 4ZYV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (27, 27)

Asymmetric/Biological Unit(hide GO term definitions)

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  4zyv
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  2.1.2.2
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 Related Entries

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

UniProtKB/Swiss-Prot
        PUR2_HUMAN | P22102: 1mej 1men 1meo 1njs 1rbm 1rbq 1rby 1rbz 1rc0 1rc1 1zlx 1zly 2qk4 2v9y 4ew1 4ew2 4ew3 4zyt 4zyu 4zyw 4zyx 4zyy 4zyz 4zz0 4zz1 4zz2 4zz3 5j9f

(-) Related Entries Specified in the PDB File

1mej 1MEJ IS THE SAME PROTEIN IN APO FORM AT PH 8.5
1men 1MEN IS THE SAME PROTEIN COMPLEXED WITH BETA-GAR
1meo 1MEO IS THE SAME PROTEIN IN APO FORM AT PH 4.2
1njs 1NJS IS THE SAME PROTEIN COMPLEXED WITH HYDROLYZED FORM OF 10- TRIFLUOROACETYL-5,10-DIDEAZA-ACYCLIC-5,6,7,8-TETRAHYDROFOLIC ACID
1rbm 1RBM IS THE SAME PROTEIN COMPLEXED WITH POLYGLUTAMATED 10- (TRIFLUOROACETYL)-5,10-DIDEAZAACYCLIC-5,6,7,8-TETRAHYDROFOLIC ACID
1rbq 1RBQ IS THE SAME PROTEIN COMPLEXED WITH 10-(TRIFLUOROACETYL)-5,10- DIDEAZAACYCLIC-5,6,7,8-TETRAHYDROFOLIC ACID
1rby 1RBY IS THE SAME PROTEIN COMPLEXED WITH 10-(TRIFLUOROACETYL)-5,10- DIDEAZAACYCLIC-5,6,7,8-TETRAHYDROFOLIC ACID AND BETA-GAR
1rbz 1RBZ IS THE SAME PROTEIN COMPLEXED WITH POLYGLUTAMATED 10- (TRIFLUOROACETYL)-5,10-DIDEAZAACYCLIC-5,6,7,8-TETRAHYDROFOLIC ACID
1rc0 1RC0 IS THE SAME PROTEIN COMPLEXED WITH POLYGLUTAMATED 10- (TRIFLUOROACETYL)-5,10-DIDEAZAACYCLIC-5,6,7,8-TETRAHYDROFOLIC ACID
1rc1 1RC1 IS THE SAME PROTEIN COMPLEXED WITH POLYGLUTAMATED 10- (TRIFLUOROACETYL)-5,10-DIDEAZAACYCLIC-5,6,7,8-TETRAHYDROFOLIC ACID
4ew2 4EW2 IS THE SAME PROTEIN COMPLEXED WITH 10S-METHYLTHIO-DDATHF
4ew3 4EW3 IS THE SAME PROTEIN COMPLEXED WITH 10R-METHYLTHIO-DDATHF
4pn5
4zyt
4zyu
4zyw
4zyx
4zyy
4zyz
4zz0
4zz1
4zz2
4zz3