The Open Protein Structure Annotation Network
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    Table of contents
    1. 1. Protein Summary
    2. 2. Ligand Summary

    Title Crystal structure of putative acyl-CoA dehydrogenase (YP_295230.1) from RALSTONIA EUTROPHA JMP134 at 2.32 A resolution. To be published
    Site JCSG
    PDB Id 3dxp Target Id 387040
    Molecular Characteristics
    Source Ralstonia eutropha jmp134
    Alias Ids TPS17931,YP_295230.1, 87521 Molecular Weight 40246.73 Da.
    Residues 358 Isoelectric Point 5.90
    Sequence mssnvshfegtrpvadqqrfdtealeawmrqhvegfagplsveqfkggqsnptfklvtpgqtyvmrakp gpkskllpsahaiereyrvmdalagtdvpvakmyalcedesvigrafyimefvsgrvlwdqslpgmspa ertaiydemnrviaamhtvdyqaiglgdygkpgnyfqrqierwtkqyklsetesipamdslmdwlpqhi pqedadltsivhgdyrldnlmfhpteprvlavldwelstlghpmgdfgyhcmswhiapgqfrgiagldh aalgipdeasyrklyeqrtgrpitgdwnfylafsmfriagilqgimkrvvdgtassaqaldagkrarpm aemgweyakkakq
      BLAST   FFAS

    Structure Determination
    Method XRAY Chains 1
    Resolution (Å) 2.32 Rfree 0.287
    Matthews' coefficent 2.47 Rfactor 0.235
    Waters 97 Solvent Content 50.30

    Ligand Information


    Google Scholar output for 3dxp
    1. Aminoglycoside-2 phosphotransferase-IIIa (APH (2)-IIIa) prefers GTP over ATP: Structural templates for nucleotide recognition in the bacterial aminoglycoside-2
    CA Smith, M Toth, H Frase, LJ Byrnes - Journal of Biological , 2012 - ASBMB
    2. Distributed structure determination at the JCSG
    H van den Bedem, G Wolf, Q Xu - Section D: Biological , 2011 - scripts.iucr.org

    Protein Summary

    The gene Reut_A1007 from Ralstonia eutropha jmp134 encodes the protein YP_295230, annotated as an aminoglycoside phosphotransferase (APH) EC: COG3231, and a member of the phosphotransferase enzyme family PF01636.  Alternative names: kanamycin kinase, neomycin-kanamycin phosphotransferase.  The 3dxp structure belongs to the class of alpha and beta (a+b) proteins and adopts a protein kinase-like (PK-like) fold  inside the APH phosphotransferase family SCOP56111.  A Dali search for structural similarity using 3dxp as query provides the homoserine kinase PDB:2ppq as top hit with a 22 Z-score. Next with a Z-score of 20 there are several choline kinase alpha structures like PDB:3f2s, PDB:2cko and PDB:2i7q.


    The APH phosphotransferase family catalyzes the following reaction: ATP + kanamycin <=> ADP + kanamycin 3'-phosphate.  It is also able to act on the following antibiotics: neomycin, paromomycin, neamine, paromamine, vistamycin and gentamicin A.

    Ligand Summary




    No references found.

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