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(-) Description

Title :  STRUCTURE OF MURINE CYTOSOLIC 5'-NUCLEOTIDASE III COMPLEXED WITH THYMIDINE MONOPHOSPHATE
 
Authors :  E. Bitto, C. A. Bingman, C. L. Grobosky
Date :  24 May 13  (Deposition) - 05 Jun 13  (Release) - 05 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Substrate Complex, Had Superfamily, Nucleotidase, Umph-1, Cytosolic 5'-Nucleotidase Iii, P5N-1, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Bitto, C. A. Bingman, C. L. Grobosky
Structure Of Murine Cytosolic 5'-Nucleotidase Iii Complexed With Thymidine Monophosphate
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - CYTOSOLIC 5'-NUCLEOTIDASE 3
    Chains: A
    EC Number: 3.1.3.5
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PVP16-GW
    Expression System Strain: ROSETTA 2
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: CATALYTICALLY INACTIVE CN-III
    Gene: NT5C3
    Mutation: YES
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: CYTOSOLIC 5'-NUCLEOTIDASE III, CN-III, LUPIN, PYRIMIDINE 5'- NUCLEOTIDASE 1, P5'N-1, P5N-1, PN-I

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 9)

Asymmetric/Biological Unit (5, 9)
No.NameCountTypeFull Name
1BME2Ligand/IonBETA-MERCAPTOETHANOL
2DT1Ligand/IonTHYMIDINE-5'-MONOPHOSPHATE
3EDO4Ligand/Ion1,2-ETHANEDIOL
4EPE1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
5MG1Ligand/IonMAGNESIUM ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:49 , PHE A:50 , ASN A:51 , THR A:66 , HIS A:68 , ASN A:69 , GLU A:96 , TRP A:113 , TYR A:114 , SER A:117 , SER A:164 , ALA A:165 , GLY A:166 , LYS A:213 , MG A:302 , EDO A:304 , HOH A:401 , HOH A:402 , HOH A:417 , HOH A:441 , HOH A:501 , HOH A:504 , HOH A:520 , HOH A:551 , HOH A:557BINDING SITE FOR RESIDUE DT A 301
2AC2SOFTWAREASP A:49 , ASN A:51 , ASP A:238 , DT A:301 , HOH A:401 , HOH A:402BINDING SITE FOR RESIDUE MG A 302
3AC3SOFTWARELYS A:24 , PRO A:26 , THR A:27 , ARG A:28 , GLU A:31BINDING SITE FOR RESIDUE EDO A 303
4AC4SOFTWAREARG A:63 , ASN A:69 , LYS A:89 , DT A:301 , HOH A:551 , HOH A:573BINDING SITE FOR RESIDUE EDO A 304
5AC5SOFTWAREGLN A:154 , GLY A:157 , ARG A:176 , SER A:183 , ASN A:184 , HOH A:531BINDING SITE FOR RESIDUE EDO A 305
6AC6SOFTWARECYS A:34 , LYS A:38BINDING SITE FOR RESIDUE BME A 306
7AC7SOFTWARETYR A:59 , LYS A:62 , ARG A:63 , CYS A:64 , ASP A:139BINDING SITE FOR RESIDUE BME A 307
8AC8SOFTWAREGLU A:206 , GLN A:294 , LYS A:295 , LEU A:297 , HOH A:625 , HOH A:626BINDING SITE FOR RESIDUE EPE A 308
9AC9SOFTWAREALA A:41 , ALA A:42 , HIS A:156 , GLY A:157 , ASN A:230 , HOH A:565BINDING SITE FOR RESIDUE EDO A 309

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4KX3)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4KX3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4KX3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4KX3)

(-) Exons   (0, 0)

(no "Exon" information available for 4KX3)

(-) 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    
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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:291
                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4kx3a_ A: Cytosolic 5'-nucleotidase III                                                                                                                                                                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhh..ee..hhhhhhhhhhhhhhhh...eeeee.........ee..ee..hhhhhhhh....hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh......hhhhhhhhhhhh...eeeeeeeehhhhhhhhhhh......eeeeee.eee.....eeee........hhhhhhhhhhhhhhh.....eeeeee.hhhhhhh........eeeeeeee..hhhhhhhhhhhhh.eeee....hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kx3 A   7 AVHLKMMPEFQKSSVRIKNPTRVEEIICGLIKGGAAKLQIITDFNMTLSRFSYNGKRCPTCHNIIDNCKLVTDECRRKLLQLKEQYYAIEVDPVLTVEEKFPYMVEWYTKSHGLLIEQGIPKAKLKEIVADSDVMLKEGYENFFGKLQQHGIPVFIFSAGIGDVLEEVIRQAGVYHSNVKVVSNFMDFDENGVLKGFKGELIHVFNKHDGALKNTDYFSQLKDNSNIILLGDSQGDLRMADGVANVEHILKIGYLNDRVDELLEKYMDSYDIVLVKEESLEVVNSILQKTL 297
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296
   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  (1, 1)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4KX3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4KX3)

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)

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  5NT3A_MOUSE | Q9D020
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 Related Entries

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

UniProtKB/Swiss-Prot
        5NT3A_MOUSE | Q9D020: 2bdu 2g06 2g07 2g08 2g09 2g0a 2q4t 4fe3 4kx5

(-) Related Entries Specified in the PDB File

2g06 CYTOSOLIC 5'-NUCLEOTIDASE III WITH BOUND MAGNESIUM(II) IN AN OPEN FORM
2g09 CYTOSOLIC 5'-NUCLEOTIDASE III COMPLEX WITH PHOSPHATE IN THE ACTIVE SITE
4fe3 CYTOSOLIC 5'-NUCLEOTIDASE III COMPLEXED WITH URIDINE MONOPHOSPHATE
4kx5