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(-) Description

Title :  KID TOXIN PROTEIN FROM E.COLI PLASMID R1
 
Authors :  D. Hargreaves, S. Santos-Sierra, R. Giraldo, R. Sabariegos-Jareno, G. De La Cueva-Mendez, R. Boelens, R. Diaz-Orejas, J. B. Rafferty
Date :  19 Jun 02  (Deposition) - 20 Nov 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Toxin-Antitoxin, Plasmid Maintenance, Post Segregational Killing, Dna Replication, Mutational Analysis, Ccdb (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Hargreaves, S. Santos-Sierra, R. Giraldo, R. Sabariegos-Jareno, G. De La Cueva-Mendez, R. Boelens, R. Diaz-Orejas, J. B. Rafferty
Structural And Functional Analysis Of The Kid Toxin Protein From E. Coli Plasmid R1
Structure V. 10 1425 2002
PubMed-ID: 12377128  |  Reference-DOI: 10.1016/S0969-2126(02)00856-0
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - KID TOXIN PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: R1
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1PO41Ligand/IonPHOSPHATE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG B:23 , THR B:46 , SER B:47 , HOH B:162 , HOH B:250BINDING SITE FOR RESIDUE PO4 B 111

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1M1F)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Asp A:12 -Pro A:13
2Asp B:12 -Pro B:13

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1M1F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1M1F)

(-) Exons   (0, 0)

(no "Exon" information available for 1M1F)

(-) 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:107
 aligned with PEMK_ECOLX | P13976 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:110
                                    33        43        53        63        73        83        93       103       113       123       133
           PEMK_ECOLX    24 MERGEIWLVSLDPTAGHEQQGTRPVLIVTPAAFNRVTRLPVVVPVTSGGNFARTAGFAVSLDGVGIRTTGVVRCDQPRTIDMKARGGKRLERVPETIMNEVLGRLSTILT 133
               SCOP domains d1m1fa_ A: Kid toxin protein (ParD)                                                                            SCOP domains
               CATH domains 1m1fA00 A:1-110  [code=2.30.30.110, no name def   ined]                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee...........eeeeee..hhhhhhhhh..eeeeee.---.......eee..........eee....ee.hhhhhh.eeeee.hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 1m1f A   1 MERGEIWLVSLDPTAGHEQQGTRPVLIVTPAAFNRVTRLPVVVPVTS---FARTAGFAVSLDGVGIRTTGVVRCDQPRTIDMKARGGKRLERVPETIMNEVLGRLSTILT 110
                                    10        20        30        40      |  -|       60        70        80        90       100       110
                                                                         47  51                                                           


Chain B from PDB  Type:PROTEIN  Length:105
 aligned with PEMK_ECOLX | P13976 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:110
                                    33        43        53        63        73        83        93       103       113       123       133
           PEMK_ECOLX    24 MERGEIWLVSLDPTAGHEQQGTRPVLIVTPAAFNRVTRLPVVVPVTSGGNFARTAGFAVSLDGVGIRTTGVVRCDQPRTIDMKARGGKRLERVPETIMNEVLGRLSTILT 133
               SCOP domains d1m1fb_ B: Kid toxin protein (ParD)                                                                            SCOP domains
               CATH domains 1m1fB00 B:1-110  [code=2.30.30.110, no name def     ined]                                                      CATH domains
           Pfam domains (1) -PemK-1m1fB01 B:2-109                                                                                        - Pfam domains (1)
           Pfam domains (2) -PemK-1m1fB02 B:2-109                                                                                        - Pfam domains (2)
         Sec.struct. author ....eeeeee...........eeeeee..hhhhhhhhh..eeeeee.-----.....eee..........eee....ee........eeeee.hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 1m1f B   1 MERGEIWLVSLDPTAGHEQQGTRPVLIVTPAAFNRVTRLPVVVPVTS-----RTAGFAVSLDGVGIRTTGVVRCDQPRTIDMKARGGKRLERVPETIMNEVLGRLSTILT 110
                                    10        20        30        40      |  -  |     60        70        80        90       100       110
                                                                         47    53
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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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: PemK] (4)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (PEMK_ECOLX | P13976)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0004519    endonuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids by creating internal breaks.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0004518    nuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids.
biological process
    GO:0090305    nucleic acid phosphodiester bond hydrolysis    The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PEMK_ECOLX | P13976: 2c06

(-) Related Entries Specified in the PDB File

4vub SIGNIFICANT STRUCTURAL HOMOLOGY