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(-) Description

Title :  CRYSTAL STRUCTURE OF CA(2+)- DISCHARGED Y138F OBELIN MUTANT FROM OBELIA LONGISSIMA AT 1.30 ANGSTROM RESOLUTION
 
Authors :  P. V. Natashin, W. Ding, E. V. Eremeeva, S. V. Markova, J. Lee, E. S. Vysot Z. J. Liu
Date :  17 Sep 13  (Deposition) - 12 Mar 14  (Release) - 12 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.30
Chains :  Asym./Biol. Unit :  A
Keywords :  Luminescent Protein, Calcium Binding, Ef-Hand (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. V. Natashin, W. Ding, E. V. Eremeeva, S. V. Markova, J. Lee, E. S. Vysotski, Z. J. Liu
Structures Of The Ca2+-Regulated Photoprotein Obelin Y138F Mutant Before And After Bioluminescence Support The Catalytic Function Of A Water Molecule In The Reaction
Acta Crystallogr. , Sect. D V. 70 720 2014
PubMed: search  |  Reference-DOI: 10.1107/S1399004713032434

(-) Compounds

Molecule 1 - OBELIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: POL-138F
    Expression System Strain: BL21 GOLD
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: OBELIA LONGISSIMA
    Organism Taxid: 32570
    Synonym: OBL

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1CA3Ligand/IonCALCIUM ION
2CEI1Ligand/IonN-[3-BENZYL-5-(4-HYDROXYPHENYL)PYRAZIN-2-YL]-2-(4-HYDROXYPHENYL)ACETAMIDE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:22 , MET A:25 , LEU A:29 , PHE A:72 , PHE A:88 , TRP A:92 , TRP A:114 , GLY A:115 , VAL A:118 , ILE A:141 , MET A:171 , HIS A:175 , TRP A:179 , TYR A:190 , HOH A:301 , HOH A:302BINDING SITE FOR RESIDUE CEI A 201
2AC2SOFTWAREASP A:30 , ASN A:32 , ASN A:34 , LYS A:36 , GLU A:41 , HOH A:370BINDING SITE FOR RESIDUE CA A 202
3AC3SOFTWAREASP A:159 , ASP A:161 , SER A:163 , ASP A:165 , GLU A:170 , HOH A:418BINDING SITE FOR RESIDUE CA A 203
4AC4SOFTWAREASP A:123 , ASP A:125 , SER A:127 , THR A:129 , GLU A:134 , HOH A:481BINDING SITE FOR RESIDUE CA A 204

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4MRY)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4MRY)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4MRY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4MRY)

(-) Exons   (0, 0)

(no "Exon" information available for 4MRY)

(-) 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    
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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:187
                                                                                                                                                                                                                           
               SCOP domains d4mrya_ A: automated matches                                                                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhh.....eehhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh........eehhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh......eehhhhhhhhhh.....hhhhhhhhhhhhh.....eehhhhhhhhhhhhhh..hhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mry A   9 LKTDFDNPRWIKRHKHMFDFLDINGNGKITLDEIVSKASDDICAKLEATPEQTKRHQVCVEAFFRGCGMEYGKEIAFPQFLDGWKQLATSELKKWARNEPTLIREWGDAVFDIFDKDGSGTITLDEWKAFGKISGISPSQEDCEATFRHCDLDNSGDLDVDEMTRQHLGFWYTLDPEADGLYGNGVP 195
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188
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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/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4MRY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4MRY)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)

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  OBL_OBELO | Q27709
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 Related Entries

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

UniProtKB/Swiss-Prot
        OBL_OBELO | Q27709: 1el4 1jf0 1jf2 1qv0 1qv1 1s36 1sl7 1sl9 2f8p 4mrx 4n1f 4n1g

(-) Related Entries Specified in the PDB File

1ej3 CRYSTAL STRUCTURE OF AEQUORIN
1jf2 CRYSTAL STRUCTURE OF W92F OBELIN MUTANT FROM OBELIA LONGISSIMA AT 1.72 ANGSTROM RESOLUTION
1qv0 ATOMIC RESOLUTION STRUCTURE OF OBELIN FROM OBELIA LONGISSIMA
1s36 CRYSTAL STRUCTURE OF A CA2+-DISCHARGED PHOTOPROTEIN: IMPLICATIONS FOR THE MECHANISMS OF THE CALCIUM TRIGGER AND THE BIOLUMINESCENCE
1sl7 CRYSTAL STRUCTURE OF CALCIUM-LOADED APO-OBELIN FROM OBELIA LONGISSIMA
2f8p CRYSTAL STRUCTURE OF OBELIN FOLLOWING CA2+ TRIGGERED BIOLUMINESCENCE SUGGESTS NEUTRAL COELENTERAMIDE AS THE PRIMARY EXCITED STATE
4mrx