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(-) Description

Title :  MSRECA Q196A DATP FORM II'
 
Authors :  J. R. Prabu, G. P. Manjunath, N. R. Chandra, K. Muniyappa, M. Vijayan
Date :  27 Aug 08  (Deposition) - 09 Dec 08  (Release) - 09 Dec 08  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Recombination, Reca Mutants, Dna-Repair, Atp-Binding, Cytoplasm, Dna Damage, Dna Recombination, Dna Repair, Dna- Binding, Nucleotide-Binding, Sos Response, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. R. Prabu, G. P. Manjunath, N. R. Chandra, K. Muniyappa, M. Vijayan
Functionally Important Movements In Reca Molecules And Filaments: Studies Involving Mutation And Environmental Changes
Acta Crystallogr. , Sect. D V. 64 1146 2008
PubMed-ID: 19020353  |  Reference-DOI: 10.1107/S0907444908028448
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN RECA
    ChainsA
    EC Number3.4.99.37
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPTHIOA
    Expression System StrainJC10289
    Expression System Taxid562
    Expression System Vector TypePLASMID
    MutationYES
    Organism ScientificMYCOBACTERIUM SMEGMATIS STR. MC2 155
    Organism Taxid246196
    SynonymRECOMBINASE A

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1DTP1Ligand/Ion2'-DEOXYADENOSINE 5'-TRIPHOSPHATE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:69 , GLU A:70 , SER A:71 , SER A:72 , GLY A:73 , LYS A:74 , THR A:75 , THR A:76 , TYR A:105 , ASN A:242BINDING SITE FOR RESIDUE DTP A 600

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2ZRL)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2ZRL)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2ZRL)

(-) PROSITE Motifs  (3, 3)

Asymmetric/Biological Unit (3, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RECA_2PS50162 RecA family profile 1.RECA_MYCS238-197  1A:38-197
2RECA_3PS50163 RecA family profile 2.RECA_MYCS2202-275  1A:212-275
3RECA_1PS00321 recA signature.RECA_MYCS2216-224  1A:216-224

(-) Exons   (0, 0)

(no "Exon" information available for 2ZRL)

(-) 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:305
 aligned with RECA_MYCS2 | Q59560 from UniProtKB/Swiss-Prot  Length:349

    Alignment length:325
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325     
           RECA_MYCS2     6 PDREKALELAMAQIDKNFGKGSVMRLGEEVRQPISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVRSGALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFINQLREKIGVMFGSPETTTGGKALKFYASVRLDVRRIETLKDGTDAVGNRTRVKVVKNKVSPPFKQAEFDILYGQGISREGSLIDMGVEHGFIRKSGSWFTYEGEQLGQGKENARKFLLENTDVANEIEKKIKEKLG 330
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----RecA-2zrlA01 A:10-330                                                                                                                                                                                                                                                                                                             Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh.................ee...hhhhhhhh....ee...eeeee.....hhhhhhhhhhhhhhh....eeee......hhhhhhh...hhhhheee...hhhhhhhhhhhhhhh....eeee.hhhhh.........------....hhhhhhhhhhhhhhhh...eee.....--------------.hhhhhhhhh.eeeeeee............eeeeeeeeee.......eeeeeee...eehhhhhhhhhhhhh...ee...eeee..eeeee....hhhhhh.hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --------------------------------RECA_2  PDB: A:38-197 UniProt: 38-197                                                                                                                           ----RECA_3  PDB: A:212-275 UniProt: 202-275                                   ------------------------------------------------------- PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------RECA_1   ---------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2zrl A   6 PDREKALELAMAQIDKNFGKGSVMRLGEEVRQPISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVRSGALDIIVIDSVAALVPRAEIEGE------GLQARLMSQALRKMTGALNNSGTTAIFINAL--------------TGGKALKFYASVRLDVRRIETLKDGTDAVGNRTRVKVVKNKVSPPFKQAEFDILYGQGISREGSLIDMGVEHGFIRKSGSWFTYEGEQLGQGKENARKFLLENTDVANEIEKKIKEKLG 330
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155    |    - |     175       185       195 |       -      |215       225       235       245       255       265       275       285       295       305       315       325     
                                                                                                                                                                                    160    167                           197            212                                                                                                                      

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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 2ZRL)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2ZRL)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (RECA_MYCS2 | Q59560)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0008094    DNA-dependent ATPase activity    Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction requires the presence of single- or double-stranded DNA, and it drives another reaction.
    GO:0003684    damaged DNA binding    Interacting selectively and non-covalently with damaged DNA.
    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:0003697    single-stranded DNA binding    Interacting selectively and non-covalently with single-stranded DNA.
biological process
    GO:0006259    DNA metabolic process    Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.
    GO:0006310    DNA recombination    Any 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. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Intrachromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.
    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:0009432    SOS response    An error-prone process for repairing damaged microbial DNA.
    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.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/Swiss-Prot
        RECA_MYCS2 | Q595601ubc 1ube 1ubf 1ubg 2g88 2odn 2odw 2oe2 2oep 2oes 2ofo 2zr0 2zr7 2zr9 2zra 2zrb 2zrc 2zrd 2zre 2zrf 2zrg 2zrh 2zri 2zrj 2zrk 2zrm 2zrn 2zro 2zrp

(-) Related Entries Specified in the PDB File

1ubc MSRECA WILD TYPE
2zr0 MSRECA Q196E MUTANT
2zrc MSRECA Q196N MUTANT
2zrh MSRECA Q196A MUTANT