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(-) Description

Title :  METHYLTHIOADENOSINE PHOSPHORYLASE FROM SCHISTOSOMA MANSONI IN COMPLEX WITH ADENINE
 
Authors :  J. R. Torini, R. Demarco, J. Brandao-Neto, H. M. Pereira
Date :  12 Jun 13  (Deposition) - 25 Jun 14  (Release) - 21 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D,E,F  (1x)
Keywords :  Transferase, Phosphorylase, Nucleoside Phosphorylase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. R. Torini, J. Brandao-Neto, R. Demarco, H. D. Pereira
Crystal Structure Of Schistosoma Mansoni Adenosine Phosphorylase/5'-Methylthioadenosine Phosphorylase And Its Importance On Adenosine Salvage Pathway.
Plos Negl Trop Dis V. 10 05178 2016
PubMed-ID: 27935959  |  Reference-DOI: 10.1371/JOURNAL.PNTD.0005178

(-) Compounds

Molecule 1 - S-METHYL-5'-THIOADENOSINE PHOSPHORYLASE
    Chains: A, B, C, D, E, F
    EC Number: 2.4.2.28
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: SMMTAP
    Gene: SMMTAP
    Organism Common: BLOOD FLUKE
    Organism Scientific: SCHISTOSOMA MANSONI
    Organism Taxid: 6183
    Strain: BH
    Synonym: 5'-METHYLTHIOADENOSINE PHOSPHORYLASE

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): ABC   
Biological Unit 2 (1x):    DEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1ADE4Ligand/IonADENINE
2SO44Ligand/IonSULFATE ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1ADE2Ligand/IonADENINE
2SO42Ligand/IonSULFATE ION
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1ADE2Ligand/IonADENINE
2SO42Ligand/IonSULFATE ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:88 , CYS A:89 , GLY A:90 , VAL A:204 , ASN A:205 , MET A:206 , THR A:229 , ASP A:230 , ASP A:232 , HOH A:416BINDING SITE FOR RESIDUE ADE A 301
2AC2SOFTWAREALA B:88 , CYS B:89 , GLY B:90 , PHE B:187 , VAL B:204 , ASN B:205 , MET B:206 , THR B:229 , ASP B:230 , ASP B:232 , VAL B:246 , HOH B:403BINDING SITE FOR RESIDUE ADE B 301
3AC3SOFTWAREGLY B:11 , SER B:12 , ARG B:54 , HIS B:55 , THR B:86 , ASN B:87 , ALA B:88 , THR B:207 , HOH B:420 , HOH B:442BINDING SITE FOR RESIDUE SO4 B 302
4AC4SOFTWAREGLY C:11 , SER C:12 , ARG C:54 , HIS C:55 , ASN C:87 , ALA C:88 , THR C:207 , HOH C:462 , HOH C:488BINDING SITE FOR RESIDUE SO4 C 301
5AC5SOFTWAREALA D:88 , CYS D:89 , GLY D:90 , PHE D:187 , ASN D:205 , THR D:229 , ASP D:230 , ASP D:232 , HOH D:404BINDING SITE FOR RESIDUE ADE D 301
6AC6SOFTWAREALA E:88 , CYS E:89 , GLY E:90 , PHE E:187 , VAL E:204 , ASN E:205 , MET E:206 , THR E:229 , ASP E:230 , ASP E:232 , VAL E:241 , VAL E:246 , HOH E:403BINDING SITE FOR RESIDUE ADE E 301
7AC7SOFTWAREGLY E:11 , SER E:12 , ARG E:54 , HIS E:55 , THR E:86 , ASN E:87 , ALA E:88 , THR E:207 , HOH E:458 , HOH E:488BINDING SITE FOR RESIDUE SO4 E 302
8AC8SOFTWAREGLY F:11 , SER F:12 , ARG F:54 , HIS F:55 , ASN F:87 , ALA F:88 , THR F:207 , HOH F:447 , HOH F:478 , HOH F:495BINDING SITE FOR RESIDUE SO4 F 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4L6I)

(-) Cis Peptide Bonds  (21, 21)

Asymmetric Unit
No.Residues
1His A:170 -Pro A:171
2Gly A:184 -Pro A:185
3Val A:209 -Pro A:210
4Met B:1 -Ser B:2
5Lys B:3 -Val B:4
6His B:170 -Pro B:171
7Gly B:184 -Pro B:185
8Val B:209 -Pro B:210
9His C:170 -Pro C:171
10Gly C:184 -Pro C:185
11Val C:209 -Pro C:210
12Lys D:57 -Gly D:58
13His D:170 -Pro D:171
14Gly D:184 -Pro D:185
15Val D:209 -Pro D:210
16His E:170 -Pro E:171
17Gly E:184 -Pro E:185
18Val E:209 -Pro E:210
19His F:170 -Pro F:171
20Gly F:184 -Pro F:185
21Val F:209 -Pro F:210

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4L6I)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4L6I)

(-) Exons   (0, 0)

(no "Exon" information available for 4L6I)

(-) 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:289
                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.............eee............eeeeee..eeeeeee........hhhhhhhhhhhhhhhhh...eeeeeeeeee.........eee..eeeee........ee.....ee...........hhhhhhhhhhhhhhh..eee.....hhhhh...eee...eeeee......hhhhhhhhhhh...eee....hhhhhhhhh..eeeeeeeeee.....hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l6i A   3 KVKVGIIGGSGFDDPNLFKKVGVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTDFDCWKSEEEHVCVDMVLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQDL 291
                                    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         


Chain B from PDB  Type:PROTEIN  Length:290
                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee.............eee............eeeeee..eeeeeee........hhhhhhhhhhhhhhhhh...eeeeeeeeee.........eee..eeeee........ee.....ee...........hhhhhhhhhhhhhhh..eee.....hhhhh...eee...eeeee......hhhhhhhhhhh...eee....hhhhhhhhh..eeeeeeeeee.....hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l6i B   1 MSKVKVGIIGGSGFDDPNLFKKVGVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTDFDCWKSEEEHVCVDMVLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQD 290
                                    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


Chain C from PDB  Type:PROTEIN  Length:277
                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.............eee............eeeeee..eeeeeee........hhhhhhhhhhhhhhhhhh..eeeeeeeeee.........eee..eeeee........ee.....ee...........hhhhhhhhhhhhhhh..eee.....hhhhh...eee...eeeee......hhhhhhhhhhh...eee.hhhhhhhhhhhh..eeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l6i C   3 KVKVGIIGGSGFDDPNLFKKVGVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTVDMVLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQDLL 292
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222      |245       255       265       275       285       
                                                                                                                                                                                                                                                            229|                                                 
                                                                                                                                                                                                                                                             243                                                 


Chain D from PDB  Type:PROTEIN  Length:286
                                                                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.......eeeeee............eeeeee..eeeeeee........hhhhhhhhhhhhhhhhh...eeeeeeeeee.........eee..eeeee........ee.....ee...........hhhhhhhhhhhhhhh..eee.....hhhhh...eee...eeeee......hhhhhhhhhhh...eee....hhhhhhhhh..eeeeeeeeee.....hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l6i D   4 VKVGIIGGSGPNLFKKVGVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTDFDCWKSEEEHVCVDMVLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQDLL 292
                                    13|       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      
                                    13|                                                                                                                                                                                                                                                                                   
                                     17                                                                                                                                                                                                                                                                                   


Chain E from PDB  Type:PROTEIN  Length:288
                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee.............eee............eeeeee..eeeeeee........hhhhhhhhhhhhhhhhh...eeeeeeeeee.........eee..eeeee........ee.....ee...........hhhhhhhhhhhhhhh..eee.....hhhhh...eee...eeeee......hhhhhhhhhhhh..eee....hhhhhhhhh..eeeeeeeeee.....hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4l6i E   3 KVKVGIIGGSGFDDPNLFKKVGVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTDFDCWKSEEEHVCVDMVLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQD 290
                                    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        


Chain F from PDB  Type:PROTEIN  Length:288
                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee.............eee............eeeeee..eeeeeee........hhhhhhhhhhhhhhhhh...eeeeeeeeee.........eee..eeeee........ee.....ee...........hhhhhhhhhhhhhhh..eee.....hhhhh...eee...eeeee......hhhhhhhhhhh...eee....hhhhhhhhh..eeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4l6i F   3 KVKVGIIGGSGFDDPNLFKKVGVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTDFDCVDMVLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQDLLHQGSNDK 299
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232|      251       261       271       281       291        
                                                                                                                                                                                                                                                               232|                                                         
                                                                                                                                                                                                                                                                242
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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  (0, 0)

(no "SCOP Domain" information available for 4L6I)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4L6I)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4L6I)

(-) Gene Ontology  (9, 9)

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 Related Entries

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

UniProtKB/TrEMBL
        I0B503_SCHMA | I0B503: 4l5a 4l5c 4l5y 5f73 5f76 5f77 5f78 5f7j 5f7o 5f7x 5f7z 5fak

(-) Related Entries Specified in the PDB File

4l5a METHYLTHIOADENOSINE PHOSPHORYLASE FROM SCHISTOSOMA MANSONI IN COMPLEX WITH TUBERCIDIN
4l5c METHYLTHIOADENOSINE PHOSPHORYLASE FROM SCHISTOSOMA MANSONI IN COMPLEX WITH ADENINE AND GLYCEROL
4l5y METHYLTHIOADENOSINE PHOSPHORYLASE FROM SCHISTOSOMA MANSONI IN APO FORM