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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN THYMIDYLATE SYNTHASE MUTANT Y202C
 
Authors :  C. Pozzi, S. Mangani
Date :  16 Dec 13  (Deposition) - 21 Jan 15  (Release) - 21 Jan 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.26
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dimer-Dimer Interface Modification, Inactive Conformation, Methyltransferase, Nucleotide Biosynthesis, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Ferrari, S. Mangani, C. Pozzi, M. P. Costi
Tethering The Dimer-Dimer Interface Of Human Thymidylate Synthase
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - THYMIDYLATE SYNTHASE
    Chains: A, B
    EC Number: 2.1.1.45
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE-80L
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: OK/SW-CL.29, TS, TYMS, TYSM
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: TS, TSASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 23)

Asymmetric/Biological Unit (5, 23)
No.NameCountTypeFull Name
1CL3Ligand/IonCHLORIDE ION
2CME4Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
3EDO4Ligand/Ion1,2-ETHANEDIOL
4SCH6Mod. Amino AcidS-METHYL-THIO-CYSTEINE
5SO46Ligand/IonSULFATE ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:78 , ARG A:185 , LEU A:189 , PRO A:305 , THR A:306 , ARG B:176 , HOH B:559BINDING SITE FOR RESIDUE SO4 A 401
02AC2SOFTWAREARG A:50 , ASN A:183 , HIS A:196 , ARG A:215 , SER A:216 , HOH A:552 , ARG B:175BINDING SITE FOR RESIDUE SO4 A 402
03AC3SOFTWAREGLN A:36 , GLN A:62 , ALA A:63 , VAL A:223 , HIS A:250 , LEU A:252 , HOH A:590BINDING SITE FOR RESIDUE EDO A 403
04AC4SOFTWAREASP A:218 , HOH A:555BINDING SITE FOR RESIDUE EDO A 404
05AC5SOFTWAREARG A:274 , HIS A:304 , HOH A:551BINDING SITE FOR RESIDUE SO4 A 406
06AC6SOFTWAREARG A:176 , ARG B:78 , ARG B:185 , LEU B:189 , PRO B:305 , THR B:306BINDING SITE FOR RESIDUE SO4 B 401
07AC7SOFTWAREARG B:274 , HIS B:304 , HOH B:570BINDING SITE FOR RESIDUE SO4 B 402
08AC8SOFTWAREARG A:175 , ASN B:183 , HIS B:196 , ARG B:215 , SER B:216BINDING SITE FOR RESIDUE SO4 B 403
09AC9SOFTWAREGLN B:36 , GLN B:62 , ALA B:63 , VAL B:223 , HIS B:250 , HOH B:588BINDING SITE FOR RESIDUE EDO B 404
10BC1SOFTWAREPHE B:142BINDING SITE FOR RESIDUE EDO B 405
11BC2SOFTWAREASP B:218BINDING SITE FOR RESIDUE CL B 406

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4O1U)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4O1U)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4O1U)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4O1U)

(-) Exons   (0, 0)

(no "Exon" information available for 4O1U)

(-) 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:262
                                                                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhheeee.....eeeeeeeeeeeee.............hhhhhhhhhhhhhh....hhhhhh........hhhhhhhh.................hhhhhhhhhhhhh......eeee.hhhhh.........eeeeeeee..eeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeeeeee..hhhhhhhhh........eeee.....hhhhhhhh.eeee........... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o1u A  27 PHGELQYLGQIQHILRcGVRKDDRTGTGTLSVFGMQARYSLRDEFPLLTTKRVFWKGVLEELLWFIKGSTNAKELSSKGVKDLGPVYGFQWRHFGAEYRDMESDYSGQGVDQLQRVIDTIKTNPDDRRIIMcAWNPRDLPLMALPPcHALcQFcVVNSELSCQLYQRSGDMGLGVPFNIASYALLTYMIAHITGLKPGDFIHTLGDAHIYLNHIEPLKIQLQREPRPFPKLRILRKVEKIDDFKAEDFQIEGYNPHPTIKME 310
                                    36      | 46        56        66        76        86        96       106||     138       148       158       168       178 |     188      |198|  |   208       218       228       238       248       258       268       278       288       298       308  
                                           43-SCH                                                         107|                                               180-SCH        195-SCH  |                                                                                                            
                                                                                                           130                                                                  199-CME                                                                                                           
                                                                                                                                                                                   202-CME                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:259
                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhheeee.....eeeeeeeeeeeee.............hhhhhhhhhhhhhh...hhhhh......hhhhhhhh.................hhhhhhhhhhhhh......eeee.hhhhh.........eeeeeeee..eeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeeeeee..hhhhhhhhh........eeee.....hhhhhhhh.eeee........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o1u B  26 PPHGELQYLGQIQHILRcGVRKDDRTGTGTLSVFGMQARYSLRDEFPLLTTKRVFWKGVLEELLWFIKGSTNAKELSSDLGPVYGFQWRHFGAEYRDMESDYSGQGVDQLQRVIDTIKTNPDDRRIIMcAWNPRDLPLMALPPcHALcQFcVVNSELSCQLYQRSGDMGLGVPFNIASYALLTYMIAHITGLKPGDFIHTLGDAHIYLNHIEPLKIQLQREPRPFPKLRILRKVEKIDDFKAEDFQIEGYNPHPTIKME 310
                                    35       |45        55        65        75        85        95       131       141       151       161       171       181       191   |   201|      211       221       231       241       251       261       271       281       291       301         
                                            43-SCH                                                     103|                                               180-SCH        195-SCH  |                                                                                                            
                                                                                                        130                                                                  199-CME                                                                                                           
                                                                                                                                                                                202-CME
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 4O1U)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4O1U)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4O1U)

(-) Gene Ontology  (52, 52)

Asymmetric/Biological Unit(hide GO term definitions)

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  4o1u
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  TYSY_HUMAN | P04818
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  2.1.1.45
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 Related Entries

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

UniProtKB/Swiss-Prot
        TYSY_HUMAN | P04818: 1hvy 1hw3 1hw4 1hzw 1i00 1ju6 1juj 1ypv 2onb 2rd8 2rda 3eaw 3ebu 3ed7 3edw 3ef9 3egy 3ehi 3ejl 3gg5 3gh0 3gh2 3h9k 3hb8 3n5e 3n5g 3ob7 4e28 4fgt 4g2o 4g6w 4gd7 4gyh 4h1i 4jef 4kpw 4o1x 4up1 5hs3 5wrn 5x4w 5x4x 5x4y 5x5a 5x5d 5x5q 5x66 5x67 5x69

(-) Related Entries Specified in the PDB File

4o1x