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(-) Description

Title :  STRUCTURE OF A PROTEIN-DNA COMPLEX ESSENTIAL FOR DNA PROTECTION IN SPORE OF BACILLUS SPECIES
 
Authors :  K. S. Lee, M. J. Jedrzejas
Date :  08 Jun 07  (Deposition) - 12 Feb 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B,C,D,E
Keywords :  Alpha/Beta-Type Sasp, Bacillus Subtils Spore, Protein-Dna Complex, Dna Binding Protein/Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. S. Lee, M. J. Jedrzejas
Structure Of A Protein-Dna Complex Essential For Dna Protection In Spore Of Bacillus Species
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SMALL, ACID-SOLUBLE SPORE PROTEIN C
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PPS708
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PET11D
    Fragment: ALPHA/BETA-TYPE
    Gene: SSPC
    Mutation: YES
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Synonym: SASP
 
Molecule 2 - 5'-D(*GP*GP*GP*GP*GP*GP*GP*GP*GP*GP*A)-3'
    Chains: D
    Engineered: YES
    Synthetic: YES
 
Molecule 3 - 5'-D(*CP*CP*CP*CP*CP*CP*CP*CP*CP*CP*A)-3'
    Chains: E
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345
Asymmetric/Biological Unit : ABCDE

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2Z3X)

(-) Sites  (0, 0)

(no "Site" information available for 2Z3X)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2Z3X)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2Z3X)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2Z3X)

(-) PROSITE Motifs  (2, 6)

Asymmetric/Biological Unit (2, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SASP_1PS00304 Small, acid-soluble spore proteins, alpha/beta type, signature 1.SSPC_BACSU28-37
 
 		  3A:17-26
B:17-26
C:17-26
2SASP_2PS00684 Small, acid-soluble spore proteins, alpha/beta type, signature 2.SSPC_BACSU46-60
 
 		  3A:35-49
B:35-49
C:35-49

(-) Exons   (0, 0)

(no "Exon" information available for 2Z3X)

(-) 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:56
 aligned with SSPC_BACSU | P02958 from UniProtKB/Swiss-Prot  Length:72

    Alignment length:67
                                    11        21        31        41        51        61       
            SSPC_BACSU    2 AQQSRSRSNNNNDLLIPQAASAIEQMKLEIASEFGVQLGAETTSRANGSVGGEITKRLVRLAQQNMG 68
               SCOP domains ------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..-----------..hhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------SASP_1    --------SASP_2         -------- PROSITE
                 Transcript ------------------------------------------------------------------- Transcript
                  2z3x A  2 AK-----------LLIPQAASAIEQMKLEIASEFGVQLGAETTSRANGSVGGEITKRLVRLAQQNMG 57
                             |       -   |    10        20        30        40        50       
                             3           4                                                     


Chain B from PDB  Type:PROTEIN  Length:56
 aligned with SSPC_BACSU | P02958 from UniProtKB/Swiss-Prot  Length:72

    Alignment length:67
                                    11        21        31        41        51        61       
            SSPC_BACSU    2 AQQSRSRSNNNNDLLIPQAASAIEQMKLEIASEFGVQLGAETTSRANGSVGGEITKRLVRLAQQNMG 68
               SCOP domains ------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..-----------..hhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------SASP_1    --------SASP_2         -------- PROSITE
                 Transcript ------------------------------------------------------------------- Transcript
                  2z3x B  2 AK-----------LLIPQAASAIEQMKLEIASEFGVQLGAETTSRANGSVGGEITKRLVRLAQQNMG 57
                             |       -   |    10        20        30        40        50       
                             3           4                                                     


Chain C from PDB  Type:PROTEIN  Length:56
 aligned with SSPC_BACSU | P02958 from UniProtKB/Swiss-Prot  Length:72

    Alignment length:67
                                    11        21        31        41        51        61       
            SSPC_BACSU    2 AQQSRSRSNNNNDLLIPQAASAIEQMKLEIASEFGVQLGAETTSRANGSVGGEITKRLVRLAQQNMG 68
               SCOP domains ------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------SASP-2z3xC01 C:4-57                                    Pfam domains (1)
           Pfam domains (2) -------------SASP-2z3xC02 C:4-57                                    Pfam domains (2)
           Pfam domains (3) -------------SASP-2z3xC03 C:4-57                                    Pfam domains (3)
         Sec.struct. author ..-----------..hhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------SASP_1    --------SASP_2         -------- PROSITE
                 Transcript ------------------------------------------------------------------- Transcript
                  2z3x C  2 AK-----------LLIPQAASAIEQMKLEIASEFGVQLGAETTSRANGSVGGEITKRLVRLAQQNMG 57
                             |       -   |    10        20        30        40        50       
                             3           4                                                     


Chain D from PDB  Type:DNA  Length:11
                                          
                  2z3x D  1 GGGGGGGGGGA 11
                                    10 


Chain E from PDB  Type:DNA  Length:11
                                          
                  2z3x E 12 CCCCCCCCCCA 22
                                    21
   Legend:   → Mismatch (orange background)
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    → 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 2Z3X)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2Z3X)

(-) Pfam Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: SASP] (1)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (SSPC_BACSU | P02958)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003690    double-stranded DNA binding    Interacting selectively and non-covalently with double-stranded DNA.
biological process
    GO:0006265    DNA topological change    The process in which a transformation is induced in the topological structure of a double-stranded DNA helix, resulting in a change in linking number.
    GO:0030435    sporulation resulting in formation of a cellular spore    The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction.

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