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(-) Description

Title :  C2 CRYSTAL STRUCTURE OF ALA2ILE2-6, A VERSION OF ROP WITH A REPACKED HYDROPHOBIC CORE AND A NEW FOLD.
 
Authors :  M. A. Willis, B. Bishop, L. Regan, A. T. Brunger
Date :  08 Jun 00  (Deposition) - 10 Jan 01  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A,B  (2x)
Keywords :  Rop, Dimer, Homodimer, Helix-Turn-Helix, Transcription Regulation, Hydrophobic Core Packing, Thermodynamic Stability (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Willis, B. Bishop, L. Regan, A. T. Brunger
Dramatic Structural And Thermodynamic Consequences Of Repacking A Protein'S Hydrophobic Core.
Structure Fold. Des. V. 8 1319 2000
PubMed-ID: 11188696  |  Reference-DOI: 10.1016/S0969-2126(00)00544-X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ROP ALA2ILE2-6
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: REGULATORY PROTEIN ROP, ROM

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): AB
Biological Unit 2 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric Unit (2, 5)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION
2MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2MPD2Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:24 , PHE A:56 , ASP A:58 , HOH A:135 , HOH A:136 , HOH A:147BINDING SITE FOR RESIDUE CA A 101
2AC2SOFTWAREGLU A:24 , GLU A:28 , ALA A:54 , ASP A:58 , ASP B:32 , HOH B:113BINDING SITE FOR RESIDUE CA A 102
3AC3SOFTWAREASP A:30 , HOH A:108 , HOH A:123 , HOH A:137 , HOH A:138 , HOH A:139 , HOH A:148BINDING SITE FOR RESIDUE CA A 103
4AC4SOFTWAREHIS B:42 , ASP B:46BINDING SITE FOR RESIDUE CA B 104
5AC5SOFTWAREASN A:10 , ARG A:13 , LEU A:23 , HIS A:42 , TYR A:49BINDING SITE FOR RESIDUE MPD A 104

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1F4N)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1F4N)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1F4N)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1F4N)

(-) Exons   (0, 0)

(no "Exon" information available for 1F4N)

(-) 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:60
 aligned with ROP_ECOLX | P03051 from UniProtKB/Swiss-Prot  Length:63

    Alignment length:60
                                    10        20        30        40        50        60
             ROP_ECOLX    1 MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHADELYRSCLARFGDDG 60
               SCOP domains d1f4na_ A: ROP protein                                       SCOP domains
               CATH domains 1f4nA00 A:1-60  [code=1.10.287.230, no name defined]         CATH domains
               Pfam domains ------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------ Transcript
                  1f4n A  1 GTKQEKTILNMARFIRSQALTILEKANELDADEIADIAESIHDHADEIYRSALARFGDDG 60
                                    10        20        30        40        50        60


Chain B from PDB  Type:PROTEIN  Length:51
 aligned with ROP_ECOLX | P03051 from UniProtKB/Swiss-Prot  Length:63

    Alignment length:51
                                    14        24        34        44        54 
             ROP_ECOLX    5 EKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHADELYRSCLAR 55
               SCOP domains d1f4nb_ B: ROP protein                              SCOP domains
               CATH domains 1f4nB00 B:5-55                                      CATH domains
               Pfam domains --------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------- Transcript
                  1f4n B  5 EKTILNMARFIRSQALTILEKANELDADEIADIAESIHDHADEIYRSALAR 55
                                    14        24        34        44        54
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1F4N)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (ROP_ECOLX | P03051)
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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 Related Entries

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

UniProtKB/Swiss-Prot
        ROP_ECOLX | P03051: 1b6q 1f4m 1gmg 1gto 1nkd 1qx8 1rop 1rpo 1rpr 1yo7 2ghy 2ijh 2iji 2ijj 2ijk 3k79 4do2

(-) Related Entries Specified in the PDB File

1b6q X-RAY STRUCTURE OF A31P ROP MUTANT
1f4m X-RAY STRUCTURE OF ALA2ILE2-6 IN THE P3(2) CRYSTAL FORM
1gto X-RAY STRUCTURE OF D30G ROP MUTANT
1nkd ATOMIC RESOLUTION X-RAY STRUCTURE OF ROP MUTANT <2AA>
1rop X-RAY STRUCTURE OF ROP
1rpo X-RAY STRUCTURE OF ROP MUTANT WITH ALA INSERTED ON EITHER SIDE OF ASP31
1rpr NMR STRUCTURE OF ROP