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(-) Description

Title :  CRYSTAL STRUCTURE OF H. SALINARUM DODECIN
 
Authors :  B. Bieger, L. -O. Essen, D. Oesterhelt
Date :  09 Sep 02  (Deposition) - 15 Apr 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (12x)
Keywords :  Binding Site For Dimerized Riboflavin, 23-Symmetric Dodecamer, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Bieger, L. -O. Essen, D. Oesterhelt
Crystal Structure Of Halophilic Dodecin: A Novel, Dodecameric Flavin Binding Protein From Halobacterium Salinarum
Structure V. 11 375 2003
PubMed-ID: 12679016  |  Reference-DOI: 10.1016/S0969-2126(03)00048-0

(-) Compounds

Molecule 1 - DODECIN
    Chains: A
    Fragment: RESIDUES 10-77
    Organism Scientific: HALOBACTERIUM SALINARUM
    Organism Taxid: 2242
    Synonym: VNG1446H

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (12x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 6)

Asymmetric Unit (4, 6)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2MG2Ligand/IonMAGNESIUM ION
3NA1Ligand/IonSODIUM ION
4RBF1Ligand/IonRIBOFLAVIN
Biological Unit 1 (1, 12)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MG-1Ligand/IonMAGNESIUM ION
3NA-1Ligand/IonSODIUM ION
4RBF12Ligand/IonRIBOFLAVIN

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:14 , GLU A:51 , HOH A:207 , HOH A:209 , HOH A:230 , HOH A:239 , HOH A:242BINDING SITE FOR RESIDUE MG A 201
2AC2SOFTWAREASP A:41 , HOH A:273 , HOH A:285 , HOH A:286 , HOH A:289 , HOH A:296BINDING SITE FOR RESIDUE MG A 202
3AC3SOFTWARECL A:204 , HOH A:220 , HOH A:222BINDING SITE FOR RESIDUE NA A 203
4AC4SOFTWAREGLN A:59 , NA A:203 , HOH A:236BINDING SITE FOR RESIDUE CL A 204
5AC5SOFTWARETHR A:17 , HOH A:208 , HOH A:237 , HOH A:264BINDING SITE FOR RESIDUE CL A 205
6AC6SOFTWAREVAL A:35 , TRP A:36 , ALA A:37 , VAL A:44 , GLU A:45 , ALA A:48 , GLN A:55 , HOH A:287 , HOH A:290 , HOH A:296 , HOH A:303BINDING SITE FOR RESIDUE RBF A 200

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 1MOG)

(-) 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:67
 aligned with DODEC_HALS3 | B0R5M0 from UniProtKB/Swiss-Prot  Length:68

    Alignment length:67
                                    11        21        31        41        51        61       
           DODEC_HALS3    2 VFKKVLLTGTSEESFTAAADDAIDRAEDTLDNVVWAEVVDQGVEIGAVEERTYQTEVQVAFELDGSQ 68
               SCOP domains d1moga_ A: Flavin-binding protein dodecin                           SCOP domains
               CATH domains 1mogA00 A:2-68 Flavin-binding protein dodecin                       CATH domains
               Pfam domains Dodecin-1mogA01 A:2-66                                           -- Pfam domains
         Sec.struct. author .eeeeeeeeee..hhhhhhhhhhhhhhhhh..eeeeeeeeeeee.......eeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------- Transcript
                  1mog A  2 VFKKVLLTGTSEESFTAAADDAIDRAEDTLDNVVWAEVVDQGVEIGAVEERTYQTEVQVAFELDGSQ 68
                                    11        21        31        41        51        61       


Chain A from PDB  Type:PROTEIN  Length:67
 aligned with Q9HPW4_HALSA | Q9HPW4 from UniProtKB/TrEMBL  Length:77

    Alignment length:67
                                    20        30        40        50        60        70       
          Q9HPW4_HALSA   11 VFKKVLLTGTSEESFTAAADDAIDRAEDTLDNVVWAEVVDQGVEIGAVEERTYQTEVQVAFELDGSQ 77
               SCOP domains d1moga_ A: Flavin-binding protein dodecin                           SCOP domains
               CATH domains 1mogA00 A:2-68 Flavin-binding protein dodecin                       CATH domains
               Pfam domains Dodecin-1mogA01 A:2-66                                           -- Pfam domains
         Sec.struct. author .eeeeeeeeee..hhhhhhhhhhhhhhhhh..eeeeeeeeeeee.......eeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------- Transcript
                  1mog A  2 VFKKVLLTGTSEESFTAAADDAIDRAEDTLDNVVWAEVVDQGVEIGAVEERTYQTEVQVAFELDGSQ 68
                                    11        21        31        41        51        61
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: SHS2 (26)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q9HPW4_HALSA | Q9HPW4)
molecular function
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.

Chain A   (DODEC_HALS3 | B0R5M0)
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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  1mog
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 Related Entries

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

UniProtKB/Swiss-Prot
        DODEC_HALS3 | B0R5M0: 2cc6 2cc7 2cc8 2cc9 2ccb 2ccc 2cie 2cif 2cjc 2vkf 2vkg 2vx9 4b2h 4b2j 4b2k 4b2m
        Q9HPW4_HALSA | Q9HPW4: 2cc8 2ccb
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        Q9HPW4_HALSA | Q9HPW4: 2cc6 2cc7 2cc9 2ccc 2cie 2cif 2cjc 2vkf 2vkg

(-) Related Entries Specified in the PDB File

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