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(-) Description

Title :  CRYSTAL STRUCTURE OF RED FLUORESCENT PROTEIN LANRFPDAM EXPOSED TO PROLONGED X-RAY IRRADIATION
 
Authors :  V. Z. Pletnev, N. V. Pletneva, S. V. Pletnev
Date :  27 Feb 13  (Deposition) - 18 Sep 13  (Release) - 18 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.35
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Lanrfp, Red Fluorescent Protein, Beta-Barrel, Gly-Tyr-Gly Chromophore, Cephalochordate, Fluorescent Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Z. Pletnev, N. V. Pletneva, K. A. Lukyanov, E. A. Souslova, A. F. Fradkov, D. M. Chudakov, T. Chepurnykh, I. V. Yampolsky, A. Wlodawer, Z. Dauter, S. Pletnev
Structure Of The Red Fluorescent Protein From A Lancelet (Branchiostoma Lanceolatum): A Novel Gyg Chromophore Covalently Bound To A Nearby Tyrosine.
Acta Crystallogr. , Sect. D V. 69 1850 2013
PubMed-ID: 23999308  |  Reference-DOI: 10.1107/S0907444913015424

(-) Compounds

Molecule 1 - RED FLUORESCENT PROTEIN BLFP-R5
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE30
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BLFP-R5
    Mutation: YES
    Organism Common: COMMON LANCELET
    Organism Scientific: BRANCHIOSTOMA LANCEOLATUM
    Organism Taxid: 7740

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1CR22Mod. Amino Acid{(4Z)-2-(AMINOMETHYL)-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC ACID
2GOL1Ligand/IonGLYCEROL
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1CR24Mod. Amino Acid{(4Z)-2-(AMINOMETHYL)-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC ACID
2GOL2Ligand/IonGLYCEROL

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY B:17 , SER B:83 , TYR B:85 , PHE B:178 , GLY B:179BINDING SITE FOR RESIDUE GOL B 301

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Val A:54 -Pro A:55
2Gln A:190 -Pro A:191
3Val B:54 -Pro B:55
4Gln B:190 -Pro B:191

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 4JEO)

(-) 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:218
                                                                                                                                                                                                                                                          
               SCOP domains d4jeoa_ A: automated matches                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeee..eeeeeeeeeee.....eeeeeeee.......hhhhhh....hhhhh.hhhhh.hhhhhhhhh...eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeeeee..eeeeeeeeeeee.....eeeeeeeeeee....hhhhhh...eeeeeeeeeee...eeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jeo A   1 SPLPATHDLHISGSINGHEFDLEGSGKGNAKEGYQELHLKSNKGDLSFSPWILVPNIgFYQYLPFPDGAMSPYQAAMHDGSGYVMHRSMQFEDGAMLHSDHRYIYKGNHIKGEFRLTGSGFPADGPVMTNSLTAADWCVDKLLYPNDNTIIGKFDWTYTTTSGKRYQSDVQTNVTFGKPIAADILKKQPMFVFRKVELKHTKTELNFKQWQKAFQDIA 220
                                    10        20        30        40        50       |62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212        
                                                                                    58-CR2                                                                                                                                                            
                                                                                     61                                                                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                          
               SCOP domains d4jeob_ B: automated matches                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeee..eeeeeeeeeeee....eeeeeeee.......hhhhhh....hhhhh.hhhhh.hhhhhhhhh...eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeeeee..eeeeeeeeeeee.....eeeeeeeeeee....hhhhhh...eeeeeeeeeee...eeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jeo B   1 SPLPATHDLHISGSINGHEFDLEGSGKGNAKEGYQELHLKSNKGDLSFSPWILVPNIgFYQYLPFPDGAMSPYQAAMHDGSGYVMHRSMQFEDGAMLHSDHRYIYKGNHIKGEFRLTGSGFPADGPVMTNSLTAADWCVDKLLYPNDNTIIGKFDWTYTTTSGKRYQSDVQTNVTFGKPIAADILKKQPMFVFRKVELKHTKTELNFKQWQKAFQDIA 220
                                    10        20        30        40        50       |62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212        
                                                                                    58-CR2                                                                                                                                                            
                                                                                     61
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 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 4JEO)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

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 Related Entries

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

UniProtKB/TrEMBL
        B1PND0_BRALA | B1PND0: 4jf9 4jge

(-) Related Entries Specified in the PDB File

2dd7 MARINE COPEPOD (CHIRIDIUS POPPEI)
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4hvf GREEN FLUORESCENT PROTEIN LANGFP (BRANCHIOSTOMA LANCEOLATUM)
4jf9
4jge