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(-) Description

Title :  CRYSTAL STRUCTURE OF YELLOW FLUORESCENT PROTEIN ZFP538 K66M GREEN MUTANT
 
Authors :  S. J. Remington, R. M. Wachter, D. K. Yarbrough, B. Branchaud, D. C. Ande K. Kallio, K. A. Lukyanov
Date :  25 Aug 04  (Deposition) - 08 Feb 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Fluorescent Protein, Beta-Can, Beta-Barrel, Luminescent Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. J. Remington, R. M. Wachter, D. K. Yarbrough, B. Branchaud, D. C. Anderson, K. Kallio, K. A. Lukyanov
Zfp538, A Yellow-Fluorescent Protein From Zoanthus, Contain A Novel Three-Ring Chromophore.
Biochemistry V. 44 202 2005
PubMed-ID: 15628861  |  Reference-DOI: 10.1021/BI048383R

(-) Compounds

Molecule 1 - FLUORESCENT PROTEIN FP538
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE-30
    Expression System Strain: JM-109(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: ZOANTHUS SP.
    Organism Taxid: 105402

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (4x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1BME1Ligand/IonBETA-MERCAPTOETHANOL
2CH61Mod. Amino Acid{(4Z)-2-[(1S)-1-AMINO-3-(METHYLSULFANYL)PROPYL]-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC ACID
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1BME4Ligand/IonBETA-MERCAPTOETHANOL
2CH64Mod. Amino Acid{(4Z)-2-[(1S)-1-AMINO-3-(METHYLSULFANYL)PROPYL]-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC ACID

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:4 , CYS A:47 , ILE A:49 , ASN A:214BINDING SITE FOR RESIDUE BME A 400

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1XA9)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:52 -Pro A:53
2Cys A:87 -Pro A:88

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1XA9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1XA9)

(-) Exons   (0, 0)

(no "Exon" information available for 1XA9)

(-) 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:225
 aligned with GFPL2_ZOASP | Q9U6Y4 from UniProtKB/Swiss-Prot  Length:231

    Alignment length:227
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       
          GFPL2_ZOASP     4 SKHGLKEEMTMKYHMEGCVNGHKFVITGEGIGYPFKGKQTINLCVIEGGPLPFSEDILSAGFKYGDRIFTEYPQDIVDYFKNSCPAGYTWGRSFLFEDGAVCICNVDITVSVKENCIYHKSIFNGMNFPADGPVMKKMTTNWEASCEKIMPVPKQGILKGDVSMYLLLKDGGRYRCQFDTVYKAKSVPSKMPEWHFIQHKLLREDRSDAKNQKWQLTEHAIAFPSAL 230
               SCOP domains d1xa9a_ A: automated matches                                                                                                                                                                                                        SCOP domains
               CATH domains 1xa9A00 A:4-230 Green Fluorescent Protein                                                                                                                                                                                           CATH domains
               Pfam domains -GFP-1xa9A01 A:5-228                                                                                                                                                                                                             -- Pfam domains
         Sec.struct. author ........eeeeeeeeeee..eeeeeeeeeee.....eeeeeeeeee......hhhhhhhhh.--..............hhhhh...eeeeeeeee....eeeeeeeeeee....eeeeeeeeeee............eeee..eeeeeee.....eeeeeeeeeeee....eeeeeeeeeeee..........eeeeeeeeeee.......eeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xa9 A   4 SKHGLKEEMTMKYHMEGCVNGHKFVITGEGIGYPFKGKQTINLCVIEGGPLPFSEDILSAGFm--DRIFTEYPQDIVDYFKNSCPAGYTWGRSFLFEDGAVCICNVDITVSVKENCIYHKSIFNGMNFPADGPVMKKMTTNWEASCEKIMPVPKQGILKGDVSMYLLLKDGGRYRCQFDTVYKAKSVPSKMPEWHFIQHKLLREDRSDAKNQKWQLTEHAIAFPSAL 230
                                    13        23        33        43        53        63  |  |  73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       
                                                                                         66-CH6
   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, 1)

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

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: GFP (101)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (GFPL2_ZOASP | Q9U6Y4)
biological process
    GO:0008218    bioluminescence    The production of light by certain enzyme-catalyzed reactions in cells.
    GO:0018298    protein-chromophore linkage    The covalent or noncovalent attachment of a chromophore to a protein.

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 Related Entries

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

UniProtKB/Swiss-Prot
        GFPL2_ZOASP | Q9U6Y4: 1xae 2ogr

(-) Related Entries Specified in the PDB File

1xae