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(-) Description

Title :  LOW PH CRYSTAL STRUCTURE OF A RECONSTRUCTED KAEDE-TYPE RED FLUORESCENT PROTEIN, LEAST EVOLVED ANCESTOR (LEA)
 
Authors :  H. Kim, T. J. Grunkemeyer, L. Chen, R. Fromme, R. M. Wachter
Date :  19 Aug 12  (Deposition) - 31 Jul 13  (Release) - 05 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.53
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Beta-Barrel, Luminescent Protein, Fluorescent Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Kim, T. J. Grunkemeyer, C. Modi, L. Chen, R. Fromme, M. V. Matz, R. M. Wachter
Acid-Base Catalysis And Crystal Structures Of A Least Evolved Ancestral Gfp-Like Protein Undergoing Green-To-Red Photoconversion.
Biochemistry V. 52 8048 2013
PubMed-ID: 24134825  |  Reference-DOI: 10.1021/BI401000E

(-) Compounds

Molecule 1 - KAEDE-TYPE FLUORESCENT PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEM-T
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Common: ARTIFICIAL GENE
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630

 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
1CR84Mod. Amino Acid2-[1-AMINO-2-(1H-IMIDAZOL-5-YL)ETHYL]-1-(CARBOXYMETHYL)-4-[(4-OXOCYCLOHEXA-2,5-DIEN-1-YLIDENE)METHYL]-1H-IMIDAZOL-5-OLATE

(-) Sites  (0, 0)

(no "Site" information available for 4GOB)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (11, 11)

Asymmetric/Biological Unit
No.Residues
1Ala A:48 -Pro A:49
2Phe A:83 -Pro A:84
3Leu A:219 -Pro A:220
4Ala B:48 -Pro B:49
5Phe B:83 -Pro B:84
6Ala C:48 -Pro C:49
7Phe C:83 -Pro C:84
8Leu C:219 -Pro C:220
9Ala D:48 -Pro D:49
10Phe D:83 -Pro D:84
11Leu D:219 -Pro D:220

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4GOB)

(-) Exons   (0, 0)

(no "Exon" information available for 4GOB)

(-) 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:217
                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeeeeee..eeeeeeeeeeee....eeeeeeeeee.......hhhhhh...............hhhhhh....eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeeee..eeeeeeeeeeee....eeeeeeeeeeee.........eeeeeeeeeeee.hhh.eeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gob A   2 SVIKSDMKIKLRMEGTVNGHKFVIEGEGEGKPYEGTQTMNLKVKEGAPLPFAYDILTTVFhNRVFAKYPKHIPDYFKQSFPEGYSWERSMTFEDGGICTARNDITLEGDCFFNEIRFDGVNFPPNGPVMQKKTLKWEPSTEKMYVRDGVLTGDINMALLLEGGGHYRCDFKTTYKAKKGVQLPDYHFVDHCIEILSHDKDYNNVKLYEHAVAHSGLP 220
                                    11        21        31        41        51        61||      73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       
                                                                                      61||                                                                                                                                                           
                                                                                       63-CR8                                                                                                                                                        
                                                                                        65                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeeee..eeeeeeeeeeee....eeeeeeeeee.......hhhhhh...............hhhhhh....eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeeee..eeeeeeeeeeee....eeeeeeeeeeee.........eeeeeeeeeeee.....eeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gob B   3 VIKSDMKIKLRMEGTVNGHKFVIEGEGEGKPYEGTQTMNLKVKEGAPLPFAYDILTTVFhNRVFAKYPKHIPDYFKQSFPEGYSWERSMTFEDGGICTARNDITLEGDCFFNEIRFDGVNFPPNGPVMQKKTLKWEPSTEKMYVRDGVLTGDINMALLLEGGGHYRCDFKTTYKAKKGVQLPDYHFVDHCIEILSHDKDYNNVKLYEHAVAHSGLPRQ 222
                                    12        22        32        42        52        63|       74        84        94       104       114       124       134       144       154       164       174       184       194       204       214        
                                                                                     61||                                                                                                                                                             
                                                                                      63-CR8                                                                                                                                                          
                                                                                       65                                                                                                                                                             


Chain C from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeeeeee..eeeeeeeeeeee....eeeeeeeeee.......hhhhhh...............hhhhhh....eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeeee..eeeeeeeeeeee....eeeeeeeeeeee.........eeeeeeeeeeee.....eeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gob C   2 SVIKSDMKIKLRMEGTVNGHKFVIEGEGEGKPYEGTQTMNLKVKEGAPLPFAYDILTTVFhNRVFAKYPKHIPDYFKQSFPEGYSWERSMTFEDGGICTARNDITLEGDCFFNEIRFDGVNFPPNGPVMQKKTLKWEPSTEKMYVRDGVLTGDINMALLLEGGGHYRCDFKTTYKAKKGVQLPDYHFVDHCIEILSHDKDYNNVKLYEHAVAHSGLP 220
                                    11        21        31        41        51        61||      73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       
                                                                                      61||                                                                                                                                                           
                                                                                       63-CR8                                                                                                                                                        
                                                                                        65                                                                                                                                                           


Chain D from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeeee..eeeeeeeeeeeehhh.eeeeeeeeee......hhhhh.................hhhhhh....eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeeee..eeeeeeeeeeee....eeeeeeeeeeee.........eeeeeeeeeeee.....eeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gob D   3 VIKSDMKIKLRMEGTVNGHKFVIEGEGEGKPYEGTQTMNLKVKEGAPLPFAYDILTTVFhNRVFAKYPKHIPDYFKQSFPEGYSWERSMTFEDGGICTARNDITLEGDCFFNEIRFDGVNFPPNGPVMQKKTLKWEPSTEKMYVRDGVLTGDINMALLLEGGGHYRCDFKTTYKAKKGVQLPDYHFVDHCIEILSHDKDYNNVKLYEHAVAHSGLPR 221
                                    12        22        32        42        52        63|       74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       
                                                                                     61||                                                                                                                                                            
                                                                                      63-CR8                                                                                                                                                         
                                                                                       65
   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  (0, 0)

(no "SCOP Domain" information available for 4GOB)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4GOB)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4GOB)

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  Cis Peptide Bonds
    Ala A:48 - Pro A:49   [ RasMol ]  
    Ala B:48 - Pro B:49   [ RasMol ]  
    Ala C:48 - Pro C:49   [ RasMol ]  
    Ala D:48 - Pro D:49   [ RasMol ]  
    Leu A:219 - Pro A:220   [ RasMol ]  
    Leu C:219 - Pro C:220   [ RasMol ]  
    Leu D:219 - Pro D:220   [ RasMol ]  
    Phe A:83 - Pro A:84   [ RasMol ]  
    Phe B:83 - Pro B:84   [ RasMol ]  
    Phe C:83 - Pro C:84   [ RasMol ]  
    Phe D:83 - Pro D:84   [ RasMol ]  
 

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 Related Entries

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