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(-) Description

Title :  THE CRYSTAL STRUCTURE OF OBELIN FROM OBELIA GENICULATA AT 1.82 A RESOLUTION
 
Authors :  L. Deng, E. Vysotski, Z. -J. Liu, S. Markova, J. Lee, J. Rose, B. -C. Wang
Date :  19 Jun 01  (Deposition) - 11 Jul 01  (Release) - 19 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.82
Chains :  Asym./Biol. Unit :  A
Keywords :  Bioluminescence, Calcium-Regulated Photoprotein, Obelin, Obelia, Hydroid, Luminescent Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Deng, E. Vysotski, Z. -J. Liu, S. Markova, J. Lee, J. Rose, B. -C. Wang
The Crystal Structure Of Obelin From Obelia Geniculata At 1. 82 Angstrom Resolution
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - OBELIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET19-OG
    Expression System Strain: BL21-GOLD
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: OBELIA LONGISSIMA
    Organism Taxid: 32570

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1CZH1Ligand/IonC2-HYDROPEROXY-COELENTERAZINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:22 , MET A:25 , TYR A:28 , LEU A:29 , ILE A:42 , ILE A:50 , PHE A:88 , TRP A:92 , TRP A:114 , GLY A:115 , TRP A:135 , TYR A:138 , MET A:171 , HIS A:175 , TRP A:179 , TYR A:190 , HOH A:199BINDING SITE FOR RESIDUE CZH A 197

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1JF0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1JF0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1JF0)

(-) PROSITE Motifs  (2, 6)

Asymmetric/Biological Unit (2, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1EF_HAND_2PS50222 EF-hand calcium-binding domain profile.OBL_OBELO17-52
110-145
146-181		  3A:18-51
A:110-145
A:146-181
2EF_HAND_1PS00018 EF-hand calcium-binding domain.OBL_OBELO30-42
123-135
159-171		  3A:30-42
A:123-135
A:159-171

(-) Exons   (0, 0)

(no "Exon" information available for 1JF0)

(-) 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:192
 aligned with OBL_OBELO | Q27709 from UniProtKB/Swiss-Prot  Length:195

    Alignment length:192
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193  
            OBL_OBELO     4 KYAVKLKTDFDNPRWIKRHKHMFDFLDINGNGKITLDEIVSKASDDICAKLEATPEQTKRHQVCVEAFFRGCGMEYGKEIAFPQFLDGWKQLATSELKKWARNEPTLIREWGDAVFDIFDKDGSGTITLDEWKAYGKISGISPSQEDCEATFRHCDLDNSGDLDVDEMTRQHLGFWYTLDPEADGLYGNGVP 195
               SCOP domains d1jf0a_ A: Calcium-regulated photoprotein                                                                                                                                                        SCOP domains
               CATH domains 1jf0A00 A:4-195 EF-hand                                                                                                                                                                          CATH domains
               Pfam domains -------------------EF_hand_3-1jf0A01      -----------------------------------------------EF_hand_5-1jf0A02 A:93-173                                                       ---------------------- Pfam domains
         Sec.struct. author ...........hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhh......eehhhhhhhhhhhhh...hhhhhhhhhhhh.......eehhhhhhhhhhhhh..hhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) -------------EF_HAND_2  PDB: A:18-51             ---------------------------------------------------------EF_HAND_2  PDB: A:110-145           EF_HAND_2  PDB: A:146-181           -------------- PROSITE (1)
                PROSITE (2) --------------------------EF_HAND_1    --------------------------------------------------------------------------------EF_HAND_1    -----------------------EF_HAND_1    ------------------------ PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1jf0 A   4 KYAVKLQTDFDNPKWIKRHKFMFDYLDINGNGQITLDEIVSKASDDICKNLGATPAQTQRHQDCVEAFFRGCGLEYGKETKFPEFLEGWKNLANADLAKWARNEPTLIREWGDAVFDIFDKDGSGTITLDEWKAYGRISGISPSEEDCEKTFQHCDLDNSGELDVDEMTRQHLGFWYTLDPEADGLYGNGVP 195
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (1, 1)

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

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: EF_hand (270)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (OBL_OBELO | Q27709)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0008218    bioluminescence    The production of light by certain enzyme-catalyzed reactions in cells.

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 Related Entries

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

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

(-) Related Entries Specified in the PDB File

1ej3 1EJ3 CONTAINS CALCIUM-REGULATED PHOTOPROTEIN AEQUORIN.
1el4 1EL4 CONTAINS CALCIUM-REGULATED PHOTOPROTEIN OBELIN.