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(-) Description

Title :  RHCC COCRYSTALLIZED WITH CAPB
 
Authors :  J. Stetefeld
Date :  21 Dec 04  (Deposition) - 18 Jan 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.45
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Right Hand Coiled Coil, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Ozbek, J. F. Muller, E. Figgemeier, J. Stetefeld
Favourable Mediation Of Crystal Contacts By Cocoamidopropylbetaine (Capb).
Acta Crystallogr. , Sect. D V. 61 477 2005
PubMed-ID: 15805603  |  Reference-DOI: 10.1107/S0907444905001204
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TETRABRACHION
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: STAPHYLOTHERMUS MARINUS
    Organism Taxid: 2280

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1BEQ1Ligand/IonN-(CARBOXYMETHYL)-N,N-DIMETHYL-3-[(1-OXODODECYL)AMINO]-1-PROPANAMINIUM INNER SALT
2SO43Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER D:25 , ASN D:28 , HOH D:607 , HOH D:619 , HOH D:674BINDING SITE FOR RESIDUE SO4 D 601
2AC2SOFTWARESER A:25 , ASN A:28 , HOH A:604 , HOH A:610 , HOH A:662 , HOH A:682BINDING SITE FOR RESIDUE SO4 A 602
3AC3SOFTWAREGLY A:1 , ASN A:5 , GLU A:6 , HOH A:719 , HOH A:725 , HOH A:733 , ARG B:36 , HOH B:699BINDING SITE FOR RESIDUE SO4 B 603
4AC4SOFTWAREARG A:36 , MET A:39 , ILE A:40 , HOH A:622 , SER C:25 , ASN C:28 , LEU C:29 , LEU C:32 , ARG C:33 , HOH C:703 , HOH C:718 , HOH C:724BINDING SITE FOR RESIDUE BEQ C 701

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1YBK)

(-) 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:52
 aligned with Q54436_STAMA | Q54436 from UniProtKB/TrEMBL  Length:1524

    Alignment length:66
                                  1231      1241      1251      1261      1271      1281      
        Q54436_STAMA   1222 GTLLFYMTANEQRLEGIINETADDIVYRLTVIIDDRYESLKNLITLRADRLEMIINDNVSTILASI 1287
               SCOP domains d              1ybka_ A: automated matches                         SCOP domains
               CATH domains 1              ybkA00 A:1-52 Tetrabrachion                         CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author .--------------hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                1ybk A    1 G--------------SIINETADDIVYRLTVIIDDRYESLKNLITLRADRLEMIINDNVSTILASI   52
                            |        -     |   6        16        26        36        46      
                            |              2                                                  
                            1                                                                 


Chain B from PDB  Type:PROTEIN  Length:52
 aligned with Q54436_STAMA | Q54436 from UniProtKB/TrEMBL  Length:1524

    Alignment length:66
                                  1231      1241      1251      1261      1271      1281      
        Q54436_STAMA   1222 GTLLFYMTANEQRLEGIINETADDIVYRLTVIIDDRYESLKNLITLRADRLEMIINDNVSTILASI 1287
               SCOP domains d              1ybkb_ B: automated matches                         SCOP domains
               CATH domains 1              ybkB00 B:1-52 Tetrabrachion                         CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author .--------------hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                1ybk B    1 G--------------SIINETADDIVYRLTVIIDDRYESLKNLITLRADRLEMIINDNVSTILASI   52
                            |        -     |   6        16        26        36        46      
                            1              2                                                  


Chain C from PDB  Type:PROTEIN  Length:49
 aligned with Q54436_STAMA | Q54436 from UniProtKB/TrEMBL  Length:1524

    Alignment length:49
                                  1248      1258      1268      1278         
        Q54436_STAMA   1239 INETADDIVYRLTVIIDDRYESLKNLITLRADRLEMIINDNVSTILASI 1287
               SCOP domains d1ybkc_ C: automated matches                      SCOP domains
               CATH domains 1ybkC00 C:4-52 Tetrabrachion                      CATH domains
               Pfam domains ------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------- Transcript
                1ybk C    4 INETADDIVYRLTVIIDDRYESLKNLITLRADRLEMIINDNVSTILASI   52
                                    13        23        33        43         


Chain D from PDB  Type:PROTEIN  Length:52
 aligned with Q54436_STAMA | Q54436 from UniProtKB/TrEMBL  Length:1524

    Alignment length:66
                                  1231      1241      1251      1261      1271      1281      
        Q54436_STAMA   1222 GTLLFYMTANEQRLEGIINETADDIVYRLTVIIDDRYESLKNLITLRADRLEMIINDNVSTILASI 1287
               SCOP domains d              1ybkd_ D: automated matches                         SCOP domains
               CATH domains 1              ybkD00 D:1-52 Tetrabrachion                         CATH domains
           Pfam domains (1) ----------------Tetrabrachion-1ybkD01 D:3-51                     - Pfam domains (1)
           Pfam domains (2) ----------------Tetrabrachion-1ybkD02 D:3-51                     - Pfam domains (2)
           Pfam domains (3) ----------------Tetrabrachion-1ybkD03 D:3-51                     - Pfam domains (3)
           Pfam domains (4) ----------------Tetrabrachion-1ybkD04 D:3-51                     - Pfam domains (4)
         Sec.struct. author .--------------hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                1ybk D    1 G--------------SIINETADDIVYRLTVIIDDRYESLKNLITLRADRLEMIINDNVSTILASI   52
                            |        -     |   6        16        26        36        46      
                            1              2
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → 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  (1, 4)

Asymmetric/Biological Unit
(-)
Class: Coiled coil proteins (689)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (1, 4)

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

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (Q54436_STAMA | Q54436)
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

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

UniProtKB/Swiss-Prot
        Q54436_STAMA | Q54436: 5jr5
UniProtKB/TrEMBL
        Q54436_STAMA | Q54436: 1fe6

(-) Related Entries Specified in the PDB File

1fe6