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(-) Description

Title :  A GFP-LIKE PROTEIN FROM MARINE COPEPOD, CHIRIDIUS POPPEI
 
Authors :  K. Suto, H. Masuda, Y. Takenaka, H. Mizuno
Date :  23 Jan 06  (Deposition) - 23 Jan 07  (Release) - 30 Jun 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Keywords :  Fluorescent Protein, Luminescent Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Suto, H. Masuda, Y. Takenaka, F. I. Tsuji, H. Mizuno
Structural Basis For Red-Shifted Emission Of A Gfp-Like Protein From The Marine Copepod Chiridius Poppei
Genes Cells V. 14 727 2009
PubMed-ID: 19469881  |  Reference-DOI: 10.1111/J.1365-2443.2009.01305.X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GREEN FLUORESCENT PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-101
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: CHIRIDIUS POPPEI
    Organism Taxid: 286301
    Synonym: YELLOWISH-GREEN FLUORESCENT PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): A 
Biological Unit 2 (2x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2CR22Mod. Amino Acid{(4Z)-2-(AMINOMETHYL)-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC ACID
3CXS1Ligand/Ion3-CYCLOHEXYL-1-PROPYLSULFONIC ACID
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2CR22Mod. Amino Acid{(4Z)-2-(AMINOMETHYL)-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC ACID
3CXS-1Ligand/Ion3-CYCLOHEXYL-1-PROPYLSULFONIC ACID
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2CR22Mod. Amino Acid{(4Z)-2-(AMINOMETHYL)-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC ACID
3CXS2Ligand/Ion3-CYCLOHEXYL-1-PROPYLSULFONIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:18 , HOH A:1199BINDING SITE FOR RESIDUE CL A 502
2AC2SOFTWAREPRO A:124 , LYS A:127 , THR A:129 , SER A:144 , LEU A:158 , ASP A:160 , SER A:162 , HOH A:1123 , HOH A:1279 , GLU B:90 , PRO B:124BINDING SITE FOR RESIDUE CXS B 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2DD7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2DD7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2DD7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2DD7)

(-) Exons   (0, 0)

(no "Exon" information available for 2DD7)

(-) 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:215
 aligned with Q2MHN7_9MAXI | Q2MHN7 from UniProtKB/TrEMBL  Length:219

    Alignment length:217
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       
         Q2MHN7_9MAXI     2 TTFKIESRIHGNLNGEKFELVGGGVGEEGRLEIEMKTKDKPLAFSPFLLSHCMGYGFYHFASFPKGTKNIYLHAATNGGYTNTRKEIYEDGGILEVNFRYTYEFNKIIGDVECIGHGFPSQSPIFKDTIVKSCPTVDLMLPMSGNIIASSYARAFQLKDGSFYTAEVKNNIDFKNPIHESFSKSGPMFTHRRVEETHTKENLAMVEYQQVFNSAPRD 218
               SCOP domains d2dd7a_ A: automated matches                                                                                                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeee..eeeeeeeeeeee..eeeeeeee.......hhhhhhhhh--.hhh.ee......hhhhhhhh...eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee.....hhhhhh.eeee..eeeeeeee...eeeeeeeeeeee....eeeeeeeeeeee.............eeeeeeeeeee...eeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2dd7 A   2 TTFKIESRIHGNLNGEKFELVGGGVGEEGRLEIEMKTKDKPLAFSPFLLSHCM--gFYHFASFPKGTKNIYLHAATNGGYTNTRKEIYEDGGILEVNFRYTYEFNKIIGDVECIGHGFPSQSPIFKDTIVKSCPTVDLMLPMSGNIIASSYARAFQLKDGSFYTAEVKNNIDFKNPIHESFSKSGPMFTHRRVEETHTKENLAMVEYQQVFNSAPRD 218
                                    11        21        31        41        51  |  || 61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       
                                                                               54  ||                                                                                                                                                                
                                                                                  56-CR2                                                                                                                                                             
                                                                                   58                                                                                                                                                                


Chain B from PDB  Type:PROTEIN  Length:214
 aligned with Q2MHN7_9MAXI | Q2MHN7 from UniProtKB/TrEMBL  Length:219

    Alignment length:216
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211      
         Q2MHN7_9MAXI     2 TTFKIESRIHGNLNGEKFELVGGGVGEEGRLEIEMKTKDKPLAFSPFLLSHCMGYGFYHFASFPKGTKNIYLHAATNGGYTNTRKEIYEDGGILEVNFRYTYEFNKIIGDVECIGHGFPSQSPIFKDTIVKSCPTVDLMLPMSGNIIASSYARAFQLKDGSFYTAEVKNNIDFKNPIHESFSKSGPMFTHRRVEETHTKENLAMVEYQQVFNSAPR 217
               SCOP domains d2dd7b_ B: automated matches                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeeeeeee..eeeeeeeeeeee..eeeeeeee.......hhhhhhhhh--.hhh.ee......hhhhhhhh...eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee.....hhhhh..eeee..eeeeeee....eeeeeeeeeeee....eeeeeeeeeeee.............eeeeeeeeeee...eeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2dd7 B   2 TTFKIESRIHGNLNGEKFELVGGGVGEEGRLEIEMKTKDKPLAFSPFLLSHCM--gFYHFASFPKGTKNIYLHAATNGGYTNTRKEIYEDGGILEVNFRYTYEFNKIIGDVECIGHGFPSQSPIFKDTIVKSCPTVDLMLPMSGNIIASSYARAFQLKDGSFYTAEVKNNIDFKNPIHESFSKSGPMFTHRRVEETHTKENLAMVEYQQVFNSAPR 217
                                    11        21        31        41        51  |  || 61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211      
                                                                               54  ||                                                                                                                                                               
                                                                                  56-CR2                                                                                                                                                            
                                                                                   58
   Legend:   → Mismatch (orange background)
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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, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2DD7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2DD7)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q2MHN7_9MAXI | Q2MHN7)
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
        Q2MHN7_9MAXI | Q2MHN7: 2dd9

(-) Related Entries Specified in the PDB File

2dd9 THE SAME PROTEIN, H52T MUTANT