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(-) Description

Title :  ENHANCING DHFR CATALYSIS BY BINDING OF AN ALLOSTERIC REGULATOR NANOBODY (NB179)
 
Authors :  D. Oyen
Date :  06 Jun 12  (Deposition) - 24 Apr 13  (Release) - 11 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,D
Keywords :  Nanobody, Dihydrofolate Reductase, Allosteric Activator, Reductase, Oxidoreductase-Protein Binding Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Oyen, R. Wechselberger, V. Srinivasan, J. Steyaert, J. N. Barlow
Mechanistic Analysis Of Allosteric And Non-Allosteric Effects Arising From Nanobody Binding To Two Epitopes Of Th Dihyrofolate Reductase Of Escherichia Coli.
Biochim. Biophys. Acta V. 1834 2147 2013
PubMed-ID: 23911607  |  Reference-DOI: 10.1016/J.BBAPAP.2013.07.010

(-) Compounds

Molecule 1 - DIHYDROFOLATE REDUCTASE
    Chains: A
    EC Number: 1.5.1.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: FOLA, TMRA, B0048, JW0047
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
 
Molecule 2 - NB179
    Chains: D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: LAMA GLAMA
    Organism Taxid: 9844

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AD

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1FOL1Ligand/IonFOLIC ACID
2NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:5 , ALA A:6 , ALA A:7 , ASP A:27 , LEU A:28 , PHE A:31 , LYS A:32 , ILE A:50 , ARG A:52 , LEU A:54 , ARG A:57 , ILE A:94 , THR A:113 , NAP A:202BINDING SITE FOR RESIDUE FOL A 201
2AC2SOFTWAREALA A:6 , ALA A:7 , ILE A:14 , MET A:16 , GLY A:43 , ARG A:44 , HIS A:45 , THR A:46 , SER A:49 , LEU A:62 , SER A:63 , SER A:64 , GLN A:65 , LYS A:76 , VAL A:78 , ILE A:94 , GLY A:95 , GLY A:96 , GLY A:97 , ARG A:98 , TYR A:100 , GLN A:102 , THR A:123 , FOL A:201BINDING SITE FOR RESIDUE NAP A 202

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1D:22 -D:96

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:95 -Gly A:96

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FHB)

(-) 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:159
                                                                                                                                                                                               
               SCOP domains d4fhba_ A: Dihydrofolate reductase, prokaryotic type                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeehhh.eee........hhhhhhhhhhhhh...eeeehhhhhhhh.......eeee..........eee.hhhhhhhh......eee..hhhhhhhhhhhh.eeeeeee.......ee........eeeeeeeee.........eeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fhb A   1 MISLIAALAVDRVIGMENAMPWNLPADLAWFKRNTLNKPVIMGRHTWESIGRPLPGRKNIILSSQPGTDDRVTWVKSVDEAIAACGDVPEIMVIGGGRVYEQFLPKAQKLYLTHIDAEVEGDTHFPDYEPDDWESVFSEFHDADAQNSHSYCFEILERR 159
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150         


Chain D from PDB  Type:PROTEIN  Length:125
                                                                                                                                                             
               SCOP domains d4fhbd_ D: automated matches                                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...eee....eeeeeee...hhhhh.eeeeee...eeeeeee......eee.hhhh..eeeeeehhh.eeeeee........eeeeeee.......hhhhhhh.....ee...eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fhb D   3 QLQESGGGLVQAGGSLRLSCEASGRTFSSYAMGWFRQAPERDFVAVISWSGSNTYYADSAKGRFTISRDNAKNTVYLQMNSLKPEDTAIYYCAAPGRPHGSSWSLNKKGQGYDYWGQGTQVTVSS 129
                                    12        22        32        44        54        64        74        84        94       104       114       124     
                                                                 41|                                                                                     
                                                                  44
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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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

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  1.5.1.3
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 Related Entries

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

UniProtKB/Swiss-Prot
        DYR_ECOLI | P0ABQ4: 1ddr 1dds 1dhi 1dhj 1dra 1drb 1dre 1drh 1dyh 1dyi 1dyj 1jol 1jom 1ra1 1ra2 1ra3 1ra8 1ra9 1rb2 1rb3 1rc4 1rd7 1re7 1rf7 1rg7 1rh3 1rx1 1rx2 1rx3 1rx4 1rx5 1rx6 1rx7 1rx8 1rx9 1tdr 2ano 2anq 2d0k 2drc 2inq 3dau 3drc 3k74 3kfy 3och 3ql3 3qyl 3qyo 3r33 4dfr 4eig 4eiz 4ej1 4gh8 4i13 4i1n 4kjj 4kjk 4kjl 4nx6 4nx7 4pdj 4x5f 4x5g 4x5h 4x5i 4x5j 5cc9 5ccc 5dfr 5e8q 5eaj 6dfr 7dfr

(-) Related Entries Specified in the PDB File

3k74