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(-) Description

Title :  CRYSTAL STRUCTURE OF AN N-TERMINAL 40KD FRAGMENT OF E. COLI DNA MISMATCH REPAIR PROTEIN MUTL
 
Authors :  W. Yang, C. Ban
Date :  09 Jul 98  (Deposition) - 11 May 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dna Repair, Atpase, Dna Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Ban, W. Yang
Crystal Structure And Atpase Activity Of Mutl: Implications For Dna Repair And Mutagenesis.
Cell(Cambridge, Mass. ) V. 95 541 1998
PubMed-ID: 9827806  |  Reference-DOI: 10.1016/S0092-8674(00)81621-9
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MUTL
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Gene: MUTL
    Expression System Plasmid: PTX418
    Expression System Strain: HMS174 (LAMBDA DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: N-TERMINAL 40KD FRAGMENT
    Gene: MUTL
    Organism Scientific: ESCHERICHIA COLI K12
    Organism Taxid: 83333
    Strain: K-12

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1BKN)

(-) Sites  (0, 0)

(no "Site" information available for 1BKN)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1BKN)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1BKN)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1BKN)

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1DNA_MISMATCH_REPAIR_1PS00058 DNA mismatch repair proteins mutL / hexB / PMS1 signature.MUTL_ECOLI93-99
 		  2A:93-99
B:493-499

(-) Exons   (0, 0)

(no "Exon" information available for 1BKN)

(-) 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:272
 aligned with MUTL_ECOLI | P23367 from UniProtKB/Swiss-Prot  Length:615

    Alignment length:312
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329  
           MUTL_ECOLI    20 VERPASVVKELVENSLDAGATRIDIDIERGGAKLIRIRDNGCGIKKDELALALARHATSKIASLDDLEAIISLGFRGEALASISSVSRLTLTSRTAEQQEAWQAYAEGRDMNVTVKPAAHPVGTTLEVLDLFYNTPARRKFLRTEKTEFNHIDEIIRRIALARFDVTINLSHNGKIVRQYRAVPEGGQKERRLGAICGTAFLEQALAIEWQHGDLTLRGWVADPNHTTPALAEIQYCYVNGRMMRDRLINHAIRQACEDKLGADQQPAFVLYLEIDPHQVDVNVHPAKHEVRFHQSRLVHDFIYQGVLSVLQ 331
               SCOP domains d1bkna2 A:20-216 DNA mismatch repair protein MutL                                                                                                                                                    d1bkna1 A:217-331 DNA mismatch repair protein MutL                                                                  SCOP domains
               CATH domains 1bknA01 A:20-216  [code=3.30.565.10, no name defined]                                                                                                                                                1bknA02 A:217-326  [code=3.30.230.10, no name defined]                                                        ----- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh....eeeeeee.....eeeeee......hhhhhhhh.------.hhhhhh...hhh.hhhhhhhhhhhh...eeee.......eee...------...eee.....eeee...-------------...hhhhhhhhhhhhhhhh....eeeeee..eeeeee........hhhhhhhhhhhhhhhheeeeeeee..eeeeeeee.hhh....hhh.eeeee..eee..hhhhhhhhhhhhhh........eeeeee......---------------.hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------DNA_MIS---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1bkn A  20 VERPASVVKELVENSLDAGATRIDIDIERGGAKLIRIRDNGCGIKKDELALALA------IASLDDLEAIISLGFRGEALASISSVSRLTLTSRTAEQQEAWQAYA------VTVKPAAHPVGTTLEVLD-------------TEKTEFNHIDEIIRRIALARFDVTINLSHNGKIVRQYRAVPEGGQKERRLGAICGTAFLEQALAIEWQHGDLTLRGWVADPNHTTPALAEIQYCYVNGRMMRDRLINHAIRQACEDKLGADQQPAFVLYLEIDPHQV---------------SRLVHDFIYQGVLSVLQ 331
                                    29        39        49        59        69   |     -|       89        99       109       119     |   -  |    139       149         -   |   169       179       189       199       209       219       229       239       249       259       269       279       289       299         -     | 319       329  
                                                                                73     80                                          125    132              149           163                                                                                                                                     299             315                


Chain B from PDB  Type:PROTEIN  Length:271
 aligned with MUTL_ECOLI | P23367 from UniProtKB/Swiss-Prot  Length:615

    Alignment length:312
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329  
           MUTL_ECOLI    20 VERPASVVKELVENSLDAGATRIDIDIERGGAKLIRIRDNGCGIKKDELALALARHATSKIASLDDLEAIISLGFRGEALASISSVSRLTLTSRTAEQQEAWQAYAEGRDMNVTVKPAAHPVGTTLEVLDLFYNTPARRKFLRTEKTEFNHIDEIIRRIALARFDVTINLSHNGKIVRQYRAVPEGGQKERRLGAICGTAFLEQALAIEWQHGDLTLRGWVADPNHTTPALAEIQYCYVNGRMMRDRLINHAIRQACEDKLGADQQPAFVLYLEIDPHQVDVNVHPAKHEVRFHQSRLVHDFIYQGVLSVLQ 331
               SCOP domains d1bknb2 B:420-616 DNA mismatch repair protein MutL                                                                                                                                                   d1bknb1 B:617-731 DNA mismatch repair protein MutL                                                                  SCOP domains
               CATH domains 1bknB01 B:420-616  [code=3.30.565.10, no name defined]                                                                                                                                               1bknB02 B:617-726  [code=3.30.230.10, no name defined]                                                        ----- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh....eeeeeee.....eeeeee......hhhhhhhh.-------------...hhh.hhhhhhhhhhhh...eeeee......eee..-----.....eee....eeeee....----------....hhhhhhhhhhhhhhhhh....eeeeee..eeeeee........hhhhhhhhhhhhhhhheeeeeeee..eeeeeeee.hhh....hhh.eeeee..eee..hhhhhhhhhhhhhh........eeeeee......-------------...hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------DNA_MIS---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1bkn B 420 VERPASVVKELVENSLDAGATRIDIDIERGGAKLIRIRDNGCGIKKDELALALA-------------EAIISLGFRGEALASISSVSRLTLTSRTAEQQEAWQAY-----MNVTVKPAAHPVGTTLEVLDL----------LRTEKTEFNHIDEIIRRIALARFDVTINLSHNGKIVRQYRAVPEGGQKERRLGAICGTAFLEQALAIEWQHGDLTLRGWVADPNHTTPALAEIQYCYVNGRMMRDRLINHAIRQACEDKLGADQQPAFVLYLEIDPHQV-------------HQSRLVHDFIYQGVLSVLQ 731
                                   429       439       449       459       469   |     -       489       499       509       519    |    -|      539       549|        - |     569       579       589       599       609       619       629       639       649       659       669       679       689       699         -   |   719       729  
                                                                               473           487                                  524   530                 550        561                                                                                                                                       699           713
   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  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1BKN)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (MUTL_ECOLI | P23367)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0016887    ATPase activity    Catalysis of the reaction: ATP + H2O = ADP + phosphate + 2 H+. May or may not be coupled to another reaction.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0030983    mismatched DNA binding    Interacting selectively and non-covalently with double-stranded DNA containing one or more mismatches.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0003697    single-stranded DNA binding    Interacting selectively and non-covalently with single-stranded DNA.
biological process
    GO:0006281    DNA repair    The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
    GO:0006974    cellular response to DNA damage stimulus    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
    GO:0006298    mismatch repair    A system for the correction of errors in which an incorrect base, which cannot form hydrogen bonds with the corresponding base in the parent strand, is incorporated into the daughter strand. The mismatch repair system promotes genomic fidelity by repairing base-base mismatches, insertion-deletion loops and heterologies generated during DNA replication and recombination.
    GO:0000018    regulation of DNA recombination    Any process that modulates the frequency, rate or extent of DNA recombination, a DNA metabolic process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents.
cellular component
    GO:0032300    mismatch repair complex    Any complex formed of proteins that act in mismatch repair.

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  1bkn
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 Related Entries

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

UniProtKB/Swiss-Prot
        MUTL_ECOLI | P23367: 1b62 1b63 1nhh 1nhi 1nhj 1x9z 5akb 5akc 5akd

(-) Related Entries Specified in the PDB File

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