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(-) Description

Title :  E. COLI MAZF IN COMPLEX WITH SINGLE STRAND DNA SUBSTRATE ANALOG
 
Authors :  V. Zorzini, R. Loris
Date :  22 Jul 15  (Deposition) - 06 Apr 16  (Release) - 08 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,D,E  (1x)
Biol. Unit 2:  C,F  (2x)
Keywords :  Toxin-Antitoxin, Mrna Interferase, Ribonuclease, Persistence, Bacterial Stress Response, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Zorzini, A. Mernik, J. Lah, Y. G. Sterckx, N. De Jonge, A. Garcia-Pino, H. De Greve, W. Versees, R. Loris
Substrate Recognition And Activity Regulation Of The Escherichia Coli Mrna Endonuclease Mazf.
J. Biol. Chem. V. 291 10950 2016
PubMed-ID: 27026704  |  Reference-DOI: 10.1074/JBC.M116.715912

(-) Compounds

Molecule 1 - ENDORIBONUCLEASE MAZF
    Chains: A, B, C
    EC Number: 3.1.27.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: MAZF, CHPA, CHPAK, B2782, JW2753
    Organism Scientific: ESCHERICHIA COLI (STRAIN K12)
    Organism Taxid: 83333
    Strain: K12
    Synonym: TOXIN MAZF,MRNA INTERFERASE MAZF
 
Molecule 2 - SSDNA SUBSTRATE ANALOG
    Chains: D, E, F
    Engineered: YES
    Organism Scientific: ENTEROBACTERIA PHAGE MS2
    Organism Taxid: 329852
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB DE 
Biological Unit 2 (2x):   C  F

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1DU4Mod. Residue
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1DU-1Mod. Residue
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1DU-1Mod. Residue

(-) Sites  (0, 0)

(no "Site" information available for 5CR2)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5CR2)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Asp A:18 -Pro A:19
2Asp B:18 -Pro B:19
3Asp C:18 -Pro C:19

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5CR2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5CR2)

(-) Exons   (0, 0)

(no "Exon" information available for 5CR2)

(-) Sequences/Alignments

Asymmetric 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:111
                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeee...........eeeeee..hhhhhhhhheeeeeeee........eeee......eeee....eeeehhhhh.eeeee.hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------- Transcript
                 5cr2 A   2 VSRYVPDMGDLIWVDFDPTKGSEQAGHRPAVVLSPFMYNNKTGMCLCVPCTTQSKGYPFEVVLSGQERDGVALADQVKSIAWRARGATKKGTVAPEELQLIKAKINVLIGH 112
                                    11        21        31        41        51        61        71        81        91       101       111 


Chain B from PDB  Type:PROTEIN  Length:108
                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeeeee...........ee.eee..hhhhhhhhheeeeeeee........eee........eee....eeeehhhhh.eeeee.hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------ Transcript
                 5cr2 B   4 RYVPDMGDLIWVDFDPTKGSEQAGHRPAVVLSPFMYNNKTGMCLCVPCTTQSKGYPFEVVLSGQERDGVALADQVKSIAWRARGATKKGTVAPEELQLIKAKINVLIG 111
                                    13        23        33        43        53        63        73        83        93       103        


Chain C from PDB  Type:PROTEIN  Length:110
                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeee...........eeeeee..hhhhhhhhheeeeeeee........eee........eee....eeee......eeeee.hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 5cr2 C   3 SRYVPDMGDLIWVDFDPTKGSEQAGHRPAVVLSPFMYNNKTGMCLCVPCTTQSKGYPFEVVLSGQERDGVALADQVKSIAWRARGATKKGTVAPEELQLIKAKINVLIGH 112
                                    12        22        32        42        52        62        72        82        92       102       112


Chain D from PDB  Type:DNA  Length:7
                                       
                 5cr2 D   1 AxACAxA   7
                             |   | 
                             2-DU| 
                                 6-DU


Chain E from PDB  Type:DNA  Length:3
                                   
                 5cr2 E   1 AxA   3
                             | 
                             | 
                             2-DU


Chain F from PDB  Type:DNA  Length:3
                                   
                 5cr2 F   1 AxA   3
                             | 
                             | 
                             2-DU
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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 5CR2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5CR2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5CR2)

(-) Gene Ontology  (17, 17)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  5cr2
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 Related Entries

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

UniProtKB/Swiss-Prot
        MAZF_ECOLI | P0AE70: 1ub4 3nfc 5ck9 5ckb 5ckd 5cke 5ckf 5ckh 5co7 5cqx 5cqy

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5CR2)