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(-) Description

Title :  STRUCTURE OF IRISFP AT 100 K.
 
Authors :  J. P. Colletier, F. X. Gallat, N. Coquelle, M. Weik
Date :  07 Feb 16  (Deposition) - 11 Jan 17  (Release) - 11 Jan 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Fluorescent Protein, Flurescent Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Colletier, M. Sliwa, F. Gallat, M. Sugahara, V. Guillon, G. Schiro, N. Coquelle, J. Woodhouse, L. Roux, G. Gotthard, A. Royant, L. M. Uriarte, C. Ruckebusch, Y. Joti, M. Byrdin, E. Mizohata, E. Nango T. Tanaka, K. Tono, M. Yabashi, V. Adam, M. Cammarata, I. Schlichting, D. Bourgeois, M. Weik
Serial Femtosecond Crystallography And Ultrafast Absorption Spectroscopy Of The Photoswitchable Fluorescent Protein Irisfp.
J. Phys. Chem. Lett V. 7 882 2016
PubMed-ID: 26866390  |  Reference-DOI: 10.1021/ACS.JPCLETT.5B02789

(-) Compounds

Molecule 1 - GREEN TO RED PHOTOCONVERTIBLE GFP-LIKE PROTEIN EOSFP
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: LOBED BRAIN CORAL
    Organism Scientific: LOBOPHYLLIA HEMPRICHII
    Organism Taxid: 46758
    Synonym: IRISFP, A GREEN TO RED PHOTOCONVERTIBLE GPF-LIKE PROTEIN EO SFP, GREEN TO RED PHOTOCONVERTIBLE GPF-LIKE PROTEIN EOSFP

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 23)

Asymmetric/Biological Unit (2, 23)
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
2SO419Ligand/IonSULFATE ION

(-) Sites  (19, 19)

Asymmetric Unit (19, 19)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:202 , LYS A:203BINDING SITE FOR RESIDUE SO4 A1224
02AC2SOFTWAREARG A:149 , ASP A:150 , HOH A:2175 , HOH A:2181 , HOH A:2230 , ALA D:167BINDING SITE FOR RESIDUE SO4 A1225
03AC3SOFTWARELYS A:85 , GLU A:181 , LYS A:182BINDING SITE FOR RESIDUE SO4 A1226
04AC4SOFTWAREASN A:17 , HIS A:22 , ARG B:104 , HOH B:2109BINDING SITE FOR RESIDUE SO4 A1227
05AC5SOFTWAREARG A:119 , HOH A:2139 , ASN B:17BINDING SITE FOR RESIDUE SO4 A1228
06AC6SOFTWARELYS A:182 , GLY A:183 , HOH A:2110 , HOH A:2199BINDING SITE FOR RESIDUE SO4 A1229
07AC7SOFTWAREGLY A:47 , HOH A:2059BINDING SITE FOR RESIDUE SO4 A1230
08AC8SOFTWAREGLY B:47 , HOH B:2039BINDING SITE FOR RESIDUE SO4 B1224
09AC9SOFTWAREALA B:167 , HOH B:2147 , VAL C:148 , ASP C:150 , HOH C:2143 , HOH C:2183BINDING SITE FOR RESIDUE SO4 C1224
10BC1SOFTWAREASN C:17 , HIS C:22 , HIS C:121 , HOH C:2017 , HOH C:2111 , HOH C:2186 , ARG D:119 , HOH D:2107BINDING SITE FOR RESIDUE SO4 C1226
11BC2SOFTWAREGLU C:46 , GLY C:47 , HOH C:2041BINDING SITE FOR RESIDUE SO4 C1227
12BC3SOFTWARELYS C:182 , HOH C:2159 , HOH C:2161 , HOH C:2165 , HOH C:2166BINDING SITE FOR RESIDUE SO4 C1228
13BC4SOFTWAREALA A:167 , HOH A:2189 , ARG D:149 , ASP D:150 , HOH D:2134 , HOH D:2171BINDING SITE FOR RESIDUE SO4 D1224
14BC5SOFTWAREARG C:119 , HOH C:2112 , ASN D:17 , HIS D:22 , HIS D:121BINDING SITE FOR RESIDUE SO4 D1225
15BC6SOFTWARELYS D:203 , HOH D:2172BINDING SITE FOR RESIDUE SO4 D1226
16BC7SOFTWARELYS D:45 , GLY D:47 , HOH D:2042 , HOH D:2043 , HOH D:2173BINDING SITE FOR RESIDUE SO4 D1227
17BC8SOFTWARETYR D:211 , HOH D:2174BINDING SITE FOR RESIDUE SO4 D1228
18BC9SOFTWARELYS D:182 , GLY D:183 , HOH D:2083 , HOH D:2146BINDING SITE FOR RESIDUE SO4 D1230
19CC1SOFTWAREHOH D:2114 , HOH D:2119 , HOH D:2166BINDING SITE FOR RESIDUE SO4 D1231

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5FVG)

(-) Cis Peptide Bonds  (12, 12)

Asymmetric/Biological Unit
No.Residues
1Gly A:48 -Pro A:49
2Phe A:83 -Pro A:84
3Leu A:220 -Pro A:221
4Gly B:48 -Pro B:49
5Phe B:83 -Pro B:84
6Leu B:220 -Pro B:221
7Gly C:48 -Pro C:49
8Phe C:83 -Pro C:84
9Leu C:220 -Pro C:221
10Gly D:48 -Pro D:49
11Phe D:83 -Pro D:84
12Leu D:220 -Pro D:221

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5FVG)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5FVG)

(-) Exons   (0, 0)

(no "Exon" information available for 5FVG)

(-) 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:221
                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeeeeee..eeeeeeeeeeeehhh.eeeeeeeeee......hhhhhhhhh...............hhhhh...eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeeee..eeeeeeeeeeee....eeeeeeeeeeee..........eeeeeeeeeeee.....eeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fvg A   1 MSAIKPDMKINLRMEGNVNGHHFVIDGDGTGKPFEGKQSMDLEVKEGGPLPFAFDILTTAFhNRVFAEYPDHIQDYFKQSFPKGYSWERSLTFEDGGICIARNDITMEGDTFYNKVRFHGVNFPANGPVMQKKTLKWEPSTEKMYVRDGVLTGDITMALLLEGNAHYRCDSRTTYKAKEKGVKLPGYHLVDHCIEILSHDKDYNKVKLYEHAVAHSGLPDN 223
                                    10        20        30        40        50        60||      72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222 
                                                                                       61|                                                                                                                                                               
                                                                                        64-CR8                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:223
                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeeeeeee..eeeeeeeeeeee....eeeeeeeeee......hhhhhh..................hhhhh...eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeeee..eeeeeeeeeeee...eeeeeeeeeeeee..........eeeeeeeeeeee.....eeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fvg B  -1 HHMSAIKPDMKINLRMEGNVNGHHFVIDGDGTGKPFEGKQSMDLEVKEGGPLPFAFDILTTAFhNRVFAEYPDHIQDYFKQSFPKGYSWERSLTFEDGGICIARNDITMEGDTFYNKVRFHGVNFPANGPVMQKKTLKWEPSTEKMYVRDGVLTGDITMALLLEGNAHYRCDSRTTYKAKEKGVKLPGYHLVDHCIEILSHDKDYNKVKLYEHAVAHSGLPDN 223
                                     8        18        28        38        48        58  ||    70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220   
                                                                                         61|                                                                                                                                                               
                                                                                          64-CR8                                                                                                                                                           


Chain C from PDB  Type:PROTEIN  Length:223
                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeeeeeee..eeeeeeeeeeee....eeeeeeeeee......hhhhhhhhh.............hhhhhh....eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeeee..eeeeeeeeeeee....eeeeeeeeeeee..........eeeeeeeeeeee.....eeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fvg C  -1 HHMSAIKPDMKINLRMEGNVNGHHFVIDGDGTGKPFEGKQSMDLEVKEGGPLPFAFDILTTAFhNRVFAEYPDHIQDYFKQSFPKGYSWERSLTFEDGGICIARNDITMEGDTFYNKVRFHGVNFPANGPVMQKKTLKWEPSTEKMYVRDGVLTGDITMALLLEGNAHYRCDSRTTYKAKEKGVKLPGYHLVDHCIEILSHDKDYNKVKLYEHAVAHSGLPDN 223
                                     8        18        28        38        48        58  ||    70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220   
                                                                                         61|                                                                                                                                                               
                                                                                          64-CR8                                                                                                                                                           


Chain D from PDB  Type:PROTEIN  Length:221
                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeeeeee..eeeeeeeeeeeehhh.eeeeeeeeee......hhhhhhhhh...............hhhhh...eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeeee..eeeeeeeeeeee...eeeeeeeeeeeee..........eeeeeeeeeeee.....eeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fvg D   1 MSAIKPDMKINLRMEGNVNGHHFVIDGDGTGKPFEGKQSMDLEVKEGGPLPFAFDILTTAFhNRVFAEYPDHIQDYFKQSFPKGYSWERSLTFEDGGICIARNDITMEGDTFYNKVRFHGVNFPANGPVMQKKTLKWEPSTEKMYVRDGVLTGDITMALLLEGNAHYRCDSRTTYKAKEKGVKLPGYHLVDHCIEILSHDKDYNKVKLYEHAVAHSGLPDN 223
                                    10        20        30        40        50        60||      72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222 
                                                                                       61|                                                                                                                                                               
                                                                                        64-CR8
   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 5FVG)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5FVG)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5FVG)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gly A:48 - Pro A:49   [ RasMol ]  
    Gly B:48 - Pro B:49   [ RasMol ]  
    Gly C:48 - Pro C:49   [ RasMol ]  
    Gly D:48 - Pro D:49   [ RasMol ]  
    Leu A:220 - Pro A:221   [ RasMol ]  
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    Phe A:83 - Pro A:84   [ RasMol ]  
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 Related Entries

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

UniProtKB/TrEMBL
        Q5S6Z9_LOBHE | Q5S6Z9: 1zux 2btj 2vvh 2vvi 2vvj 3p8u 3s05 3tmr 3tmt 4ljb 4ljc 4ljd 4oy4 4r6b 5dtl 5fvf 5fvi

(-) Related Entries Specified in the PDB File

5fvf ROOM TEMPERATURE STRUCTURE OF IRISFP DETERMINED BY SERIAL FEMTOSECOND CRYSTALLOGRAPHY.
5fvi STRUCTURE OF IRISFP IN MINERAL GREASE AT 100 K.