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(-) Description

Title :  THYMIDINE PHOSPHORYLASE FROM E.COLI WITH 3'-AZIDO-2'-FLUORO-DIDEOXYURIDINE
 
Authors :  V. I. Timofeev, Y. A. Abramchik, R. S. Esipov, I. P. Kuranova
Date :  22 Mar 12  (Deposition) - 27 Mar 13  (Release) - 27 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Thymidine Phosphorylase, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. I. Timofeev, Y. A. Abramchik, R. S. Esipov, I. P. Kuranova
Thymidine Phosphorylase From E. Coli With 3'-Azido-2'-Fluoro-Dideoxyuridine
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - THYMIDINE PHOSPHORYLASE
    Chains: A
    EC Number: 2.4.2.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PER-THY1.
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: B4382, DEOA, JW4345, TPP, TTG
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: TDRPASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 11)

Asymmetric Unit (3, 11)
No.NameCountTypeFull Name
10NP1Ligand/Ion2',3'-DIDEOXY-2'-FLUORO-3'-TRIAZA-1,2-DIEN-2-IUM-1-YLURIDINE
2GOL4Ligand/IonGLYCEROL
3SO46Ligand/IonSULFATE ION
Biological Unit 1 (3, 22)
No.NameCountTypeFull Name
10NP2Ligand/Ion2',3'-DIDEOXY-2'-FLUORO-3'-TRIAZA-1,2-DIEN-2-IUM-1-YLURIDINE
2GOL8Ligand/IonGLYCEROL
3SO412Ligand/IonSULFATE ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETHR A:87 , TYR A:168 , ARG A:171 , VAL A:177 , ILE A:183 , SER A:186 , ILE A:187 , LYS A:190 , PHE A:210 , LEU A:220 , HOH A:746 , HOH A:966BINDING SITE FOR RESIDUE 0NP A 501
02AC2SOFTWARELYS A:84 , SER A:86 , SER A:95 , SER A:113 , THR A:123 , HOH A:607 , HOH A:624 , HOH A:669 , HOH A:677 , HOH A:729BINDING SITE FOR RESIDUE SO4 A 502
03AC3SOFTWAREARG A:9 , ARG A:12 , ALA A:175 , THR A:176 , VAL A:177 , ASP A:178 , PHE A:210 , HOH A:694 , HOH A:759 , HOH A:768 , HOH A:818BINDING SITE FOR RESIDUE SO4 A 503
04AC4SOFTWAREHIS A:15 , ALA A:16 , HOH A:822 , HOH A:831 , HOH A:882BINDING SITE FOR RESIDUE SO4 A 504
05AC5SOFTWARELEU A:3 , ALA A:4 , GLN A:5 , GLN A:38 , GOL A:509 , HOH A:846 , HOH A:991BINDING SITE FOR RESIDUE GOL A 505
06AC6SOFTWAREARG A:234 , LYS A:288 , HOH A:851BINDING SITE FOR RESIDUE SO4 A 506
07AC7SOFTWAREGLY A:116 , LEU A:117 , GLY A:118 , ARG A:370 , ALA A:373 , HOH A:817 , HOH A:1094BINDING SITE FOR RESIDUE GOL A 507
08AC8SOFTWAREGLN A:372 , ALA A:373 , HOH A:690BINDING SITE FOR RESIDUE GOL A 508
09AC9SOFTWARELEU A:3 , GLN A:5 , GLU A:6 , ARG A:9 , GOL A:505 , HOH A:768BINDING SITE FOR RESIDUE GOL A 509
10BC1SOFTWAREARG A:257 , THR A:336 , MET A:338 , THR A:340 , HIS A:403 , ASP A:406 , GLU A:407 , ASN A:408 , HOH A:770 , HOH A:905 , HOH A:956BINDING SITE FOR RESIDUE SO4 A 510
11BC2SOFTWAREARG A:437 , SER A:439 , HOH A:776 , HOH A:902 , HOH A:952BINDING SITE FOR RESIDUE SO4 A 511

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Leu A:1 -Phe A:2

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4EAD)

(-) Sequences/Alignments

Asymmetric 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:440
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4eada1 A:1-70 Thymidine phosphorylase                                d4eada2 A:71-335 Thymidine phosphorylase                                                                                                                                                                                                                                 d4eada3 A:336-440 Thymidine phosphorylase                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhh....hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh......hhhhh.....eeeee......hhhhhhhhhhhhh...eeee.........hhhhhhh.........hhhhhhhhhhhhheeee......hhhhhhhhhhhh......hhhhhhhhhhhhhhh....eeeeeeee.......hhhhhhhhhhhhhhhhhhh..eeeeeeee........eehhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh....eeeee.....eeeeeehhhhhhhhhhhh...............eee.......ee......eeeee.hhhhhhhhhhhhhhheeee.........eeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ead A   1 LFLAQEIIRKKRDGHALSDEEIRFFINGIRDNTISEGQIAALAMTIFFHDMTMPERVSLTMAMRDSGTVLDWKSLHLNGPIVDKHSTGGVGDVTSLMLGPMVAACGGYIPMISGRGLGHTGGTLDKLESIPGFDIFPDDNRFREIIKDVGVAIIGQTSSLAPADKRFYATRDITATVDSIPLITASILAKKLAEGLDALVMDVKVGSGAFMPTYELSEALAEAIVGVANGAGVRTTALLTDMNQVLASSAGNAVEVREAVQFLTGEYRNPRLFDVTMALCVEMLISGKLAKDDAEARAKLQAVLDNGKAAEVFGRMVAAQKGPTDFVENYAKYLPTAMLTKAVYADTEGFVSEMDTRALGMAVVAMGGGRRQASDTIDYSVGFTDMARLGDQVDGQRPLAVIHAKDENNWQEAAKAVKAAIKLADKAPESTPTVYRRISE 440
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440
   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  (3, 3)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (14, 14)

Asymmetric Unit(hide GO term definitions)

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  4ead
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        TYPH_ECOLI | P07650: 1azy 1otp 1tpt 2tpt 4eaf 4lhm

(-) Related Entries Specified in the PDB File

4eaf