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(-) Description

Title :  METHYLTHIOADENOSINE PHOSPHORYLASE FROM SCHISTOSOMA MANSONI IN COMPLEX WITH TUBERCIDIN
 
Authors :  J. R. Torini, R. Demarco, J. Brandao-Neto, H. M. Pereira
Date :  10 Jun 13  (Deposition) - 11 Jun 14  (Release) - 21 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
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, Enzyme, Transferase-Antibiotic Complex (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, 12)

Asymmetric Unit (2, 12)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION
2TBN6Ligand/Ion'2-(4-AMINO-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-3,4-DIOL
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1SO43Ligand/IonSULFATE ION
2TBN3Ligand/Ion'2-(4-AMINO-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-3,4-DIOL
Biological Unit 2 (2, 6)
No.NameCountTypeFull Name
1SO43Ligand/IonSULFATE ION
2TBN3Ligand/Ion'2-(4-AMINO-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-3,4-DIOL

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREALA A:88 , CYS A:89 , GLY A:90 , PHE A:187 , ASN A:205 , MET A:206 , THR A:207 , THR A:229 , ASP A:232 , SO4 A:302 , HOH A:409 , HOH A:441 , HIS C:131 , GLN C:289BINDING SITE FOR RESIDUE TBN A 301
02AC2SOFTWAREGLY A:11 , SER A:12 , ARG A:54 , HIS A:55 , ASN A:87 , ALA A:88 , ASN A:205 , THR A:207 , TBN A:301BINDING SITE FOR RESIDUE SO4 A 302
03AC3SOFTWAREGLN A:289 , ALA 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:232 , SO4 B:302 , HOH B:416BINDING SITE FOR RESIDUE TBN B 301
04AC4SOFTWAREGLY B:11 , SER B:12 , ARG B:54 , HIS B:55 , ASN B:87 , ALA B:88 , ASN B:205 , THR B:207 , TBN B:301BINDING SITE FOR RESIDUE SO4 B 302
05AC5SOFTWAREHIS B:131 , PRO C:63 , ALA C:88 , CYS C:89 , GLY C:90 , PHE C:187 , VAL C:204 , ASN C:205 , MET C:206 , THR C:229 , ASP C:232 , SO4 C:302 , HOH C:402BINDING SITE FOR RESIDUE TBN C 301
06AC6SOFTWAREGLY C:11 , SER C:12 , ARG C:54 , HIS C:55 , ASN C:87 , ALA C:88 , ASN C:205 , THR C:207 , TBN C:301 , HOH C:461BINDING SITE FOR RESIDUE SO4 C 302
07AC7SOFTWAREALA D:88 , CYS D:89 , GLY D:90 , PHE D:187 , VAL D:204 , ASN D:205 , MET D:206 , THR D:229 , ASP D:230 , ASP D:232 , SO4 D:302 , HOH D:409 , HIS F:131 , GLN F:289BINDING SITE FOR RESIDUE TBN D 301
08AC8SOFTWAREGLY D:11 , SER D:12 , ARG D:54 , HIS D:55 , ASN D:87 , ALA D:88 , ASN D:205 , THR D:207 , TBN D:301 , HOH D:445BINDING SITE FOR RESIDUE SO4 D 302
09AC9SOFTWAREHIS D:131 , GLN D:289 , PRO E:63 , ALA E:88 , CYS E:89 , GLY E:90 , PHE E:187 , VAL E:204 , ASN E:205 , MET E:206 , ASP E:230 , ASP E:232 , SO4 E:302 , HOH E:404BINDING SITE FOR RESIDUE TBN E 301
10BC1SOFTWAREGLY E:11 , SER E:12 , ARG E:54 , HIS E:55 , ASN E:87 , ALA E:88 , ASN E:205 , THR E:207 , TBN E:301 , HOH E:423BINDING SITE FOR RESIDUE SO4 E 302
11BC2SOFTWAREHIS E:131 , ALA F:88 , CYS F:89 , GLY F:90 , PHE F:187 , VAL F:204 , ASN F:205 , MET F:206 , THR F:229 , ASP F:232 , SO4 F:302 , HOH F:411 , HOH F:472BINDING SITE FOR RESIDUE TBN F 301
12BC3SOFTWAREGLY F:11 , SER F:12 , ARG F:54 , HIS F:55 , ASN F:87 , ALA F:88 , ASN F:205 , THR F:207 , TBN F:301 , HOH F:475BINDING SITE FOR RESIDUE SO4 F 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4L5A)

(-) Cis Peptide Bonds  (20, 20)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4L5A)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4L5A)

(-) Exons   (0, 0)

(no "Exon" information available for 4L5A)

(-) 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:282
                                                                                                                                                                                                                                                                                                                          
               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..eeeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4l5a A   3 KVKVGIIGGSGFDLFKKVGVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTDFDCWKSVCVDMVLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQDL 291
                                    12  ||    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235||     249       259       269       279       289  
                                       15|                                                                                                                                                                                                                      236|                                                  
                                        19                                                                                                                                                                                                                       241                                                  


Chain B from PDB  Type:PROTEIN  Length:279
                                                                                                                                                                                                                                                                                                                       
               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..eeeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l5a B   3 KVKVGIIGGSGFDDPNLFKKVGVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTDFDCWKSVLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQD 290
                                    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         
                                                                                                                                                                                                                                                                   236|                                            
                                                                                                                                                                                                                                                                    246                                            


Chain C from PDB  Type:PROTEIN  Length:284
                                                                                                                                                                                                                                                                                                                            
               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..eeeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l5a C   3 KVKVGIIGGSGFDDPNLFKKVGVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTDFDCWKCVDMVLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQDLL 292
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232  ||   248       258       268       278       288    
                                                                                                                                                                                                                                                                  235|                                                  
                                                                                                                                                                                                                                                                   242                                                  


Chain D from PDB  Type:PROTEIN  Length:283
                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee............................eeeee..eeeeeee........hhhhhhhhhhhhhhhhh...eeeeeeeeee.........eee..eeeee........ee.....ee...........hhhhhhhhhhhhhhh..eee.....hhhhh...eee...eeeee......hhhhhhhhhhh...eee.hhhhhhhhhhhh..eeeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l5a D   3 KVKVGIIGGSGFDDPNLFKKVVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTDFDCWKSCVDMVLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQDL 291
                                    12        22||      33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233  ||   248       258       268       278       288   
                                               23|                                                                                                                                                                                                                236|                                                 
                                                25                                                                                                                                                                                                                 242                                                 


Chain E from PDB  Type:PROTEIN  Length:279
                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.............eee............eeeeee..eeeeeee.............hhhhhhhhhhhh...eeeeeeeeee.........eee..eeeee........ee.....ee...........hhhhhhhhhhhhhhh..eee.....hhhhh...eee...eeeee......hhhhhhhhhhh...eee.hhhhhhhhhhhh..eeeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l5a E   3 KVKVGIIGGSGFDDPNLFKKVGVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTDFDCWKSLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQDL 291
                                    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         
                                                                                                                                                                                                                                                                   236|                                            
                                                                                                                                                                                                                                                                    247                                            


Chain F from PDB  Type:PROTEIN  Length:282
                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee.............eee............eeeeee..eeeeeee.............hhhhhhhhhhhh...eeeeeeeeee.........eee..eeeee........ee.....ee...........hhhhhhhhhhhhhhh..eee.....hhhhh...eee...eeeee......hhhhhhhhhhh...eee....hhhhhhhhh..eeeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4l5a F   3 KVKVGIIGGSGFDDPNLFKKVGVRQVTTPFGKPSDTLVEGFVGDVACVVLPRHGKGHLIPPSEVNYRANVWALKDLGCTHILATNACGSLQEDLVPGDFVVLNQFMDKTWGRENTFYGSKPDSLKGVLHMPMAEPFCERTRQILIQAARNKSINVYDKKTMDKSACIHPCVHAEGSAVTINGPRFSTRCESFIHKAMGLDIVNMTLVPEVSLAREAGLSYASIAIVTDFDCWKDMVLEQFRKSVVHVREILLEAVALIGAEDWTKTIEANKALVMSSRQDLL 292
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232  ||   250       260       270       280       290  
                                                                                                                                                                                                                                                                  235|                                                
                                                                                                                                                                                                                                                                   244
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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 4L5A)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4L5A)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4L5A)

(-) Gene Ontology  (9, 9)

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  Cis Peptide Bonds
    Gly A:184 - Pro A:185   [ RasMol ]  
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    Gly C:184 - Pro C:185   [ RasMol ]  
    Gly D:184 - Pro D:185   [ RasMol ]  
    Gly E:184 - Pro E:185   [ RasMol ]  
    Gly F:184 - Pro F:185   [ RasMol ]  
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    Val A:209 - Pro A:210   [ RasMol ]  
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 Related Entries

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

UniProtKB/TrEMBL
        I0B503_SCHMA | I0B503: 4l5c 4l5y 4l6i 5f73 5f76 5f77 5f78 5f7j 5f7o 5f7x 5f7z 5fak

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4L5A)