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(-)Asym./Biol. Unit
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(-) Description

Title :  CRYSTAL STRUCTURE OF A NOVEL GREEN FLUORESCENT PROTEIN FROM MARINE COPEPOD PONTELLINA PLUMATA
 
Authors :  A. G. Evdokimov, M. E. Pokross, D. M. Chudakov
Date :  26 Feb 06  (Deposition) - 28 Mar 06  (Release) - 08 Sep 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Green Fluorescent Protein, Natural Chromophore, Rapid Maturation, Beta Can, Luminescent Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. G. Evdokimov, M. E. Pokross, N. S. Egorov, A. G. Zaraisky, I. V. Yampolsky, E. M. Merzlyak, A. N. Shkoporov, I. Sander, K. A. Lukyanov, D. M. Chudakov
Structural Basis For The Fast Maturation Of Arthropoda Green Fluorescent Protein.
Embo Rep. V. 7 1006 2006
PubMed-ID: 16936637  |  Reference-DOI: 10.1038/SJ.EMBOR.7400787
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GREEN FLUORESCENT PROTEIN 2
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE30
    Expression System Strain: XL1BLUE
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PPLUGFP2
    Mutation: YES
    Organism Scientific: PONTELLINA PLUMATA
    Organism Taxid: 239963

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1CR24Mod. Amino Acid{(4Z)-2-(AMINOMETHYL)-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC ACID

(-) Sites  (0, 0)

(no "Site" information available for 2G6X)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2G6X)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2G6X)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2G6X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2G6X)

(-) Exons   (0, 0)

(no "Exon" information available for 2G6X)

(-) 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:214
 aligned with Q6WV12_9MAXI | Q6WV12 from UniProtKB/TrEMBL  Length:222

    Alignment length:216
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212      
         Q6WV12_9MAXI     3 AMKIECRITGTLNGVEFELVGGGEGTPEQGRMTNKMKSTKGALTFSPYLLSHVMGYGFYHFGTYPSGYENPFLHAINNGGYTNTRIEKYEDGGVLHVSFSYRYEAGRVIGDFKVVGTGFPEDSVIFTDKIIRSNATVEHLHPMGDNVLVGSFARTFSLRDGGYYSFVVDSHMHFKSAIHPSILQNGGPMFAFRRVEELHSNTELGIVEYQHAFKTP 218
               SCOP domains d2g6xa_ A: automated matches                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeee..eeeeeeeeeeeehhh.eeeeeeee.......hhhhhh...--.............hhhhhhhhhh.eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee.....hhhhh..eeee..eeeeeee....eeeeeeeeeeee..eeeeeeeeeeeeee....hhhhhh....eeeeeeeeeee...eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2g6x A   3 AMEIECRITGTLNGVEFELVGGGEGTPEQGRMTNKMKSTKGALTFSPYLLSHVM--gFYHFGTYPSGYENPFLHAINNGGYTNTRIEKYEDGGVLHVSFSYRYEAGRVIGDFKVMGTGFPEDSVIFTDKIIRSNATVEHLHPMGDNDLDGSFTRTFSLRDGGYYSSVVDSHMHFKSAIHPSILQNGGPMFAFRRVEEDHSNTELGIVEYQHAFKTP 218
                                    12        22        32        42        52   |  ||62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212      
                                                                                56  ||                                                                                                                                                              
                                                                                   58-CR2                                                                                                                                                           
                                                                                    60                                                                                                                                                              


Chain B from PDB  Type:PROTEIN  Length:216
 aligned with Q6WV12_9MAXI | Q6WV12 from UniProtKB/TrEMBL  Length:222

    Alignment length:218
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210        
         Q6WV12_9MAXI     1 MPAMKIECRITGTLNGVEFELVGGGEGTPEQGRMTNKMKSTKGALTFSPYLLSHVMGYGFYHFGTYPSGYENPFLHAINNGGYTNTRIEKYEDGGVLHVSFSYRYEAGRVIGDFKVVGTGFPEDSVIFTDKIIRSNATVEHLHPMGDNVLVGSFARTFSLRDGGYYSFVVDSHMHFKSAIHPSILQNGGPMFAFRRVEELHSNTELGIVEYQHAFKTP 218
               SCOP domains d2g6xb_ B: automated matches                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeee..eeeeeeeeeeeehhh.eeeeeeee.......hhhhhh...--.hhhhh.......hhhhhhhhh..eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee.....hhhhh..eeee..eeeeeee....eeeeeeeeeeee....eeeeeeeeeeee....hhhhhh....eeeeeeeee.....eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2g6x B   1 LPAMEIECRITGTLNGVEFELVGGGEGTPEQGRMTNKMKSTKGALTFSPYLLSHVM--gFYHFGTYPSGYENPFLHAINNGGYTNTRIEKYEDGGVLHVSFSYRYEAGRVIGDFKVMGTGFPEDSVIFTDKIIRSNATVEHLHPMGDNDLDGSFTRTFSLRDGGYYSSVVDSHMHFKSAIHPSILQNGGPMFAFRRVEEDHSNTELGIVEYQHAFKTP 218
                                    10        20        30        40        50     |  60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210        
                                                                                  56  ||                                                                                                                                                              
                                                                                     58-CR2                                                                                                                                                           
                                                                                      60                                                                                                                                                              


Chain C from PDB  Type:PROTEIN  Length:216
 aligned with Q6WV12_9MAXI | Q6WV12 from UniProtKB/TrEMBL  Length:222

    Alignment length:218
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211        
         Q6WV12_9MAXI     2 PAMKIECRITGTLNGVEFELVGGGEGTPEQGRMTNKMKSTKGALTFSPYLLSHVMGYGFYHFGTYPSGYENPFLHAINNGGYTNTRIEKYEDGGVLHVSFSYRYEAGRVIGDFKVVGTGFPEDSVIFTDKIIRSNATVEHLHPMGDNVLVGSFARTFSLRDGGYYSFVVDSHMHFKSAIHPSILQNGGPMFAFRRVEELHSNTELGIVEYQHAFKTPI 219
               SCOP domains d2g6xc_ C: automated matches                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeee..eeeeeeeeeeeehhh.eeeeeeee.......hhhhhh...--.hhhhh.......hhhhhhhhh..eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee.....hhhhh..eeee..eeeeeee....eeeeeeeeeeee....eeeeeeeeeeee....hhhhhh....eeeeeeeee.....eeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2g6x C   2 PAMEIECRITGTLNGVEFELVGGGEGTPEQGRMTNKMKSTKGALTFSPYLLSHVM--gFYHFGTYPSGYENPFLHAINNGGYTNTRIEKYEDGGVLHVSFSYRYEAGRVIGDFKVMGTGFPEDSVIFTDKIIRSNATVEHLHPMGDNDLDGSFTRTFSLRDGGYYSSVVDSHMHFKSAIHPSILQNGGPMFAFRRVEEDHSNTELGIVEYQHAFKTPD 219
                                    11        21        31        41        51    |  |61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211        
                                                                                 56  ||                                                                                                                                                               
                                                                                    58-CR2                                                                                                                                                            
                                                                                     60                                                                                                                                                               


Chain D from PDB  Type:PROTEIN  Length:215
 aligned with Q6WV12_9MAXI | Q6WV12 from UniProtKB/TrEMBL  Length:222

    Alignment length:217
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       
         Q6WV12_9MAXI     3 AMKIECRITGTLNGVEFELVGGGEGTPEQGRMTNKMKSTKGALTFSPYLLSHVMGYGFYHFGTYPSGYENPFLHAINNGGYTNTRIEKYEDGGVLHVSFSYRYEAGRVIGDFKVVGTGFPEDSVIFTDKIIRSNATVEHLHPMGDNVLVGSFARTFSLRDGGYYSFVVDSHMHFKSAIHPSILQNGGPMFAFRRVEELHSNTELGIVEYQHAFKTPI 219
               SCOP domains d2g6xd_ D: automated matches                                                                                                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeee..eeeeeeeeeeee....eeeeeeee.......hhhhhh...--.hhhhh.......hhhhhh.....eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee.....hhhhh..eeee..eeeeeeee...eeeeeeeeeeee....eeeeeeeeeeee....hhhhhh....eeeeeeeee.....eeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2g6x D   3 AMEIECRITGTLNGVEFELVGGGEGTPEQGRMTNKMKSTKGALTFSPYLLSHVM--gFYHFGTYPSGYENPFLHAINNGGYTNTRIEKYEDGGVLHVSFSYRYEAGRVIGDFKVMGTGFPEDSVIFTDKIIRSNATVEHLHPMGDNDLDGSFTRTFSLRDGGYYSSVVDSHMHFKSAIHPSILQNGGPMFAFRRVEEDHSNTELGIVEYQHAFKTPD 219
                                    12        22        32        42        52   |  ||62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       
                                                                                56  ||                                                                                                                                                               
                                                                                   58-CR2                                                                                                                                                            
                                                                                    60
   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: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2G6X)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2G6X)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (Q6WV12_9MAXI | Q6WV12)
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/TrEMBL
        Q6WV12_9MAXI | Q6WV12: 2g3o 2g6y

(-) Related Entries Specified in the PDB File

2g6y CRYSTAL STRUCTURE OF THE NOVEL GREEN FLUORESCENT PROTEIN FROM MARINE COPEPOD PONTELLINA PLUMATA