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(-) Description

Title :  PROTEIN STRUCTURE OF USP FROM L. MAJOR BOUND TO URIDINE-5'-DIPHOSPHATE-GALACTURONIC ACID
 
Authors :  A. Dickmanns, S. Damerow, P. Neumann, E. -C. Schulz, A. Lamerz, F. Routi R. Ficner
Date :  17 Aug 10  (Deposition) - 17 Nov 10  (Release) - 16 Mar 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.18
Chains :  Asym./Biol. Unit :  A
Keywords :  Left Handed Beta Helix, Rossmann Fold, Udp Sugar Pyrophosphorylase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Dickmanns, S. Damerow, P. Neumann, E. C. Schulz, A. C. Lamerz, F. H. Routier, R. Ficner
Structural Basis For The Broad Substrate Range Of The Udp-Sugar Pyrophosphorylase From Leishmania Major.
J. Mol. Biol. V. 405 461 2011
PubMed-ID: 21073876  |  Reference-DOI: 10.1016/J.JMB.2010.10.057

(-) Compounds

Molecule 1 - UDP-SUGAR PYROPHOSPHORYLASE
    Chains: A
    EC Number: 2.7.7.64
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: USP
    Organism Scientific: LEISHMANIA MAJOR
    Organism Taxid: 5664
    Strain: 5ASKH

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2UGB1Ligand/Ion(2S,3R,4S,5R,6R)-6-[[[(2R,3S,4R,5R)-5-(2,4-DIOXOPYRIMIDIN-1-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHOXY-HYDROXY-PHOSPHORYL]OXY-HYDROXY-PHOSPHORYL]OXY-3,4,5-TRIHYDROXY-OXANE-2-CARBOXYLICACID

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:120 , ALA A:121 , GLY A:122 , GLY A:123 , MET A:168 , GLN A:196 , PRO A:221 , GLY A:223 , HIS A:224 , GLN A:270 , ASP A:271 , ILE A:307 , ASN A:325 , SER A:358 , VAL A:359 , ASN A:360 , GLN A:407 , TYR A:430 , LYS A:434 , HOH A:764 , HOH A:766 , HOH A:829BINDING SITE FOR RESIDUE UGB A 642
2AC2SOFTWAREGLN A:156 , LYS A:161 , HOH A:680BINDING SITE FOR RESIDUE GOL A 643
3AC3SOFTWARESER A:478 , SER A:479 , GLN A:480 , LYS A:601 , THR A:603BINDING SITE FOR RESIDUE GOL A 644

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OH1)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Phe A:495 -Pro A:496

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OH1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OH1)

(-) Exons   (0, 0)

(no "Exon" information available for 3OH1)

(-) 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:582
 aligned with D3G6S4_LEIMA | D3G6S4 from UniProtKB/TrEMBL  Length:630

    Alignment length:608
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602        
         D3G6S4_LEIMA     3 NPSNSNLQALREELCTPGLDQGHLFEGWPETVDECNERQIALLTDLYMFSNMYPGGVAQYIRNGHELLARESEEVDFAALEMPPLIFEAPSLHRRTAERTALENAGTAMLCKTVFVLVAGGLGERLGYSSIKVSLPVETATNTTYLAYYLRWAQRVGGKEVPFVIMTSDDTHDRTLQLLRELQLEVPNLHVLKQGQVFCFADSAAHLALDETGKLLRKPHGHGDVHSLIYNATVKRDVVPDSGDGTATAQPLVNDWLAAGYESIVFIQDTNAGATITIPISLALSAEHSLDMNFTCIPRVPKEPIGLLCRTKKNSGDPWLVANVEYNVFAEVSRALNKDGGDEVSDPTGFSPFPGSVNTLVFKLSSYVDRLRESHGIVPEFINPKYSDETRRSFKKPARIESLMQDIALLFSEDDYRVGGTVFERFSYQPVKNSLEEAAGLVAQGNGAYCAATGEAAFYELQRRRLKAIGLPLFYSSQPEVTVAKDAFGVRLFPIIVLDTVCASSGSLDDLARVFPTPEKVHIDQHSTLIVEGRVIIESLELYGALTIRGPTDSMALPHVVRNAVVRNAGWSVHAILSLCAGRDSRLSEVDRIRGFVLKKTAMAVMDC 610
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------UDPGP-3oh1A01 A:60-236                                                                                                                                                           -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh.....hhhhh..........hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.......eee....eee.......hhhhhhhhhhhhhhh..eeeeee............hhhhh........hhhhhhhhhhhhhhh....eeeeee..hhhhhhhhhhhh......eeeeee.eee..................eee.hhhhhhhhhhhh..--------------..hhhhhhhhh...eeeee.....hhhhhhhhhhhhhhhh...eeeeee.........eeeeee.......eeeeehhhhhhhhhhhh------------......eeeeeeeeehhhhhhhhhhhh.....ee.................ee.hhhhhhhhh......eeeee.hhhhh.....hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh...........eee....eee....eeeehhhhhh..hhhhhhhhh.hhh.eee....eeeee..eee..eeee.eeeee.........eee..eeee....eeee............hhhhhh..eeee....eee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oh1 A   3 NPSNSNLQALREELCTPGLDQGHLFEGWPETVDECNERQIALLTDLYMFSNMYPGGVAQYIRNGHELLARESEEVDFAALEMPPLIFEAPSLHRRTAERTALENAGTAMLCKTVFVLVAGGLGERLGYSSIKVSLPVETATNTTYLAYYLRWAQRVGGKEVPFVIMTSDDTHDRTLQLLRELQLEVPNLHVLKQGQVFCFADSAAHLALDETGKLLRKPHGHGDVHSLIYNATV--------------AQPLVNDWLAAGYESIVFIQDTNAGATITIPISLALSAEHSLDMNFTCIPRVPKEPIGLLCRTKKNSGDPWLVANVEYNVFAEVSRAL------------GFSPFPGSVNTLVFKLSSYVDRLRESHGIVPEFINPKYSDETRRSFKKPARIESLMQDIALLFSEDDYRVGGTVFERFSYQPVKNSLEEAAGLVAQGNGAYCAATGEAAFYELQRRRLKAIGLPLFYSSQPEVTVAKDAFGVRLFPIIVLDTVCASSGSLDDLARVFPTPEKVHIDQHSTLIVEGRVIIESLELYGALTIRGPTDSMALPHVVRNAVVRNAGWSVHAILSLCAGRDSRLSEVDRIRGFVLKKTAMAVMDC 610
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232   |     -       252       262       272       282       292       302       312       322       332     |   -       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602        
                                                                                                                                                                                                                                                                   236            251                                                                                    338          351
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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 3OH1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OH1)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: GT-A (172)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (D3G6S4_LEIMA | D3G6S4)
molecular function
    GO:0070569    uridylyltransferase activity    Catalysis of the transfer of an uridylyl group to an acceptor.
biological process
    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.

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 Related Entries

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        D3G6S4_LEIMA | D3G6S4: 3ogz 3oh0 3oh2 3oh3 3oh4

(-) Related Entries Specified in the PDB File

3ogz 3oh0 3oh2 3oh3 3oh4