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(-) Description

Title :  STRUCTURE OF THE C-TERMINAL DOMAIN OF THE SACCHAROMYCES CEREVISIAE MUTL ALPHA (MLH1/PMS1) HETERODIMER BOUND TO A FRAGMENT OF NTG2
 
Authors :  E. Gueneau, P. Legrand, J. B. Charbonnier
Date :  18 Jun 12  (Deposition) - 20 Feb 13  (Release) - 28 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.69
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Mismatch Repair, Mutl, Endonuclease, Zn-Binding Protein, Dna Damage, Dna Repair, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Gueneau, C. Dherin, P. Legrand, C. Tellier-Lebegue, B. Gilquin, P. Bonnesoeur, F. Londino, C. Quemener, M. H. Le Du, J. A. Marquez, M. Moutiez, M. Gondry, S. Boiteux, J. B. Charbonnier
Structure Of The Mutl Alpha C-Terminal Domain Reveals How Mlh1 Contributes To Pms1 Endonuclease Site.
Nat. Struct. Mol. Biol. V. 20 461 2013
PubMed-ID: 23435383  |  Reference-DOI: 10.1038/NSMB.2511

(-) Compounds

Molecule 1 - DNA MISMATCH REPAIR PROTEIN MLH1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 483-769
    Gene: MLH1, PMS2, YMR167W, YM8520.16
    Organism Common: YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: MUTL PROTEIN HOMOLOG 1, POST MEIOTIC SEGREGATION PROTEIN 2
 
Molecule 2 - DNA MISMATCH REPAIR PROTEIN PMS1
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 635-873
    Gene: PMS1, YNL082W, N2317
    Organism Common: YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: POSTMEIOTIC SEGREGATION PROTEIN 1
 
Molecule 3 - DNA REPAIR PEPTIDE
    Chains: C
    Engineered: YES
    Fragment: UNP RESIDUES 22-29
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Other Details: SYNTHETIC PEPTIDE
    Synonym: NTG2 (DNA N-GLYCOSYLASE AND APURINIC OR APYRIMIDINIC LYASE)
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 14)

Asymmetric/Biological Unit (4, 14)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2EDO6Ligand/Ion1,2-ETHANEDIOL
3GOL5Ligand/IonGLYCEROL
4ZN2Ligand/IonZINC ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELEU A:656 , CYS A:738 , ARG A:741 , ARG A:742BINDING SITE FOR RESIDUE GOL A 801
02AC2SOFTWAREASP A:594 , ILE A:595 , VAL A:596 , ASN A:599 , LEU A:600 , GLU A:603 , HOH A:974BINDING SITE FOR RESIDUE GOL A 802
03AC3SOFTWAREASN A:590 , ASP A:593 , HOH A:930 , HOH A:986 , ASN B:681BINDING SITE FOR RESIDUE GOL A 803
04AC4SOFTWAREILE A:525 , ARG A:527 , GLU A:528 , ARG A:747 , HOH B:1015BINDING SITE FOR RESIDUE GOL A 804
05AC5SOFTWARETYR A:567 , GLU A:568 , TYR A:571 , ASP A:687 , ARG A:691 , HIS A:748 , EDO A:808BINDING SITE FOR RESIDUE GOL A 805
06AC6SOFTWAREASP A:522 , THR A:576BINDING SITE FOR RESIDUE EDO A 806
07AC7SOFTWAREASP A:700 , MET A:701 , HOH A:927 , TYR B:871BINDING SITE FOR RESIDUE EDO A 807
08AC8SOFTWARELEU A:517 , LYS A:520 , VAL A:521 , TYR A:571 , GOL A:805 , HOH A:985BINDING SITE FOR RESIDUE EDO A 808
09AC9SOFTWAREILE A:532 , HOH A:947BINDING SITE FOR RESIDUE EDO A 809
10BC1SOFTWAREGLU A:755 , ILE A:756 , ALA A:757 , ASN A:758BINDING SITE FOR RESIDUE EDO A 810
11BC2SOFTWARECYS A:769 , HIS B:703 , GLU B:707 , CYS B:817 , ZN B:902BINDING SITE FOR RESIDUE ZN B 901
12BC3SOFTWARECYS A:769 , GLU B:707 , CYS B:848 , HIS B:850 , ZN B:901BINDING SITE FOR RESIDUE ZN B 902
13BC4SOFTWARELYS A:751BINDING SITE FOR RESIDUE EDO B 903

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Asp B:795 -Gly B:796

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FMN)

(-) 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:265
                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee....eeeeee..eeeeeehhhhhhhhhhhhhhhhh...eeee....hhhhh.hhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhh.eeee.....hhh.eeeeeeee..........hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh.eeeeeehhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fmn A 505 ERVNVNLTSIKKLREKVDDSIHRELTDIFANLNYVGVVDEERRLAAIQHDLKLFLIDYGSVCYELFYQIGLTDFANFGKINLQSTNVSDDIVLYNLLSEFDELNDDASKEKIISKIWDMSSMLNEYYSIELVNDGLDNDLKSVKLKSLPLLLKGYIPSLVKLPFFIYRLGKEVDWEDEQECLDGILREIALLYIPDMVPKVDTSDASLSEDEKAQFINRKEHISSLLEHVLFPCIKRRFLAPRHILKDVVEIANLPDLYKVFERC 769
                                   514       524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764     


Chain B from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhh.eeeeee...eeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhh...eeeeeeeeee....hhhhh..hhhhhh........eeeeeee.......hhhhhhhhhhhhh...........hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhh............eeeeee.......hhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fmn B 651 ELEDFEQGEKYLTLTVSKNDFKKMEVVGQFNLGFIIVTRKVDNKYDLFIVDQHASDEKYNFETLQAVTVFKSQKLIIPQPVELSELVVLDNLPVFEKNGFKLKISRVKLLSLPTSKQTLFDLGDFNELIHLIKEDGGLRRDNIRCSKIRSMFAMRACRSSIMIGKPLNKKTMTRVVHNLSELDKPWNCPHGRPTMRHLMELRDWSSFSKDYEI 873
                                   660       670       680       690       700       710       720       730   ||  743       753   ||  770       780       790       800       810       820       830       840       850       860       870   
                                                                                                             734|                757|                                                                                                            
                                                                                                              738                 765                                                                                                            


Chain C from PDB  Type:PROTEIN  Length:8
                                        
               SCOP domains -------- SCOP domains
               CATH domains -------- CATH domains
               Pfam domains -------- Pfam domains
         Sec.struct. author ........ Sec.struct. author
                 SAPs(SNPs) -------- SAPs(SNPs)
                    PROSITE -------- PROSITE
                 Transcript -------- Transcript
                 4fmn C  21 xVRSKYFK  28
                            |       
                           21-ACE
   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 4FMN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (36, 55)

Asymmetric/Biological Unit(hide GO term definitions)

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    Asp B:795 - Gly B:796   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        MLH1_YEAST | P38920: 4e4w 4fmo
        PMS1_YEAST | P14242: 3h4l 4e4w 4fmo

(-) Related Entries Specified in the PDB File

4e4w 4fmo