HEADER FLUORESCENT PROTEIN 08-NOV-10 3PJ7 TITLE CRYSTAL STRUCTURE OF FAR-RED FLUORESCENT PROTEIN KATUSHKA CRYSTALLIZED TITLE 2 AT PH 8.5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RED FLUORESCENT PROTEIN EQFP578; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTACMAEA QUADRICOLOR; SOURCE 3 ORGANISM_COMMON: SEA ANEMONES; SOURCE 4 ORGANISM_TAXID: 6118; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PQE30 KEYWDS KATUSHKA, FAR-RED FLUORESCENT PROTEIN, BETA-BARREL, BIOMARKER, MUTANT KEYWDS 2 VARIANT OF EQFP578, MET-TYR-GLY CHROMOPHORE, FLUORESCENT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.PLETNEV,N.V.PLETNEVA,V.Z.PLETNEV REVDAT 3 22-FEB-12 3PJ7 1 REMARK VERSN REVDAT 2 06-JUL-11 3PJ7 1 JRNL REVDAT 1 25-MAY-11 3PJ7 0 JRNL AUTH N.V.PLETNEVA,V.Z.PLETNEV,I.I.SHEMIAKINA,D.M.CHUDAKOV, JRNL AUTH 2 I.ARTEMYEV,A.WLODAWER,Z.DAUTER,S.PLETNEV JRNL TITL CRYSTALLOGRAPHIC STUDY OF RED FLUORESCENT PROTEIN EQFP578 JRNL TITL 2 AND ITS FAR-RED VARIANT KATUSHKA REVEALS OPPOSITE PH-INDUCED JRNL TITL 3 ISOMERIZATION OF CHROMOPHORE. JRNL REF PROTEIN SCI. V. 20 1265 2011 JRNL REFN ISSN 0961-8368 JRNL PMID 21563226 JRNL DOI 10.1002/PRO.654 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.99 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 79769 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1649 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5842 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.3330 REMARK 3 BIN FREE R VALUE SET COUNT : 121 REMARK 3 BIN FREE R VALUE : 0.4170 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7119 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 462 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.03000 REMARK 3 B22 (A**2) : -0.03000 REMARK 3 B33 (A**2) : 0.06000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.137 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.779 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7362 ; 0.022 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9941 ; 2.139 ; 1.994 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 894 ; 7.570 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 325 ;35.526 ;24.585 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1298 ;16.360 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;20.973 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1036 ; 0.149 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5592 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3345 ; 0.229 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4923 ; 0.319 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 612 ; 0.190 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 24 ; 0.176 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 12 ; 0.109 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 4581 ; 1.284 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7166 ; 1.935 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3232 ; 2.988 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2768 ; 4.321 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3PJ7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-NOV-10. REMARK 100 THE RCSB ID CODE IS RCSB062437. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 88163 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.09600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24% W/V PEG4000, 0.16 M MGCL2, 0.08 M REMARK 280 TRIS HYDROCHLORIDE PH 8.5, 20% V/V GLYCEROL, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y,Z REMARK 290 7555 -Y+1/2,X,Z+3/4 REMARK 290 8555 Y,-X+1/2,Z+1/4 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 80.67650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 80.67650 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 37.24300 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 80.67650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 18.62150 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 80.67650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 55.86450 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 80.67650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 80.67650 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 37.24300 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 -1.000000 0.000000 80.67650 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 55.86450 REMARK 290 SMTRY1 8 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 80.67650 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 18.62150 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -50.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ASP A 1 REMARK 465 SER A 2 REMARK 465 LEU A 228 REMARK 465 GLY A 229 REMARK 465 HIS A 230 REMARK 465 SER A 231 REMARK 465 ASP B 1 REMARK 465 SER B 2 REMARK 465 LEU B 228 REMARK 465 GLY B 229 REMARK 465 HIS B 230 REMARK 465 SER B 231 REMARK 465 ASP C 1 REMARK 465 SER C 2 REMARK 465 GLY C 229 REMARK 465 HIS C 230 REMARK 465 SER C 231 REMARK 465 ASP D 1 REMARK 465 SER D 2 REMARK 465 GLU D 3 REMARK 465 LEU D 228 REMARK 465 GLY D 229 REMARK 465 HIS D 230 REMARK 465 SER D 231 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 C3 NRQ A 63 N SER A 66 1.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN A 20 -115.91 62.54 REMARK 500 PHE A 69 53.17 -102.57 REMARK 500 GLN A 74 18.97 59.38 REMARK 500 LYS A 136 30.57 -97.52 REMARK 500 ASN B 20 -112.48 53.65 REMARK 500 GLN B 39 148.16 -172.36 REMARK 500 PHE B 69 53.17 -98.71 REMARK 500 PRO B 225 152.11 -48.31 REMARK 500 ASN C 20 -112.12 61.62 REMARK 500 PHE C 69 57.03 -95.90 REMARK 500 GLN C 74 17.61 53.74 REMARK 500 ASN C 112 33.29 73.48 REMARK 500 LYS C 136 46.20 -107.54 REMARK 500 ASP C 206 41.07 71.19 REMARK 500 ASN D 20 -108.15 54.55 REMARK 500 PHE D 69 57.27 -94.29 REMARK 500 ALA D 205 149.36 -171.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3BX9 RELATED DB: PDB REMARK 900 MONOMERIC FAR-RED FLUORESCENT PROTEIN MKATE CRYSTALLIZED AT REMARK 900 PH 2.0 REMARK 900 RELATED ID: 3BXA RELATED DB: PDB REMARK 900 MONOMERIC FAR-RED FLUORESCENT PROTEIN MKATE CRYSTALLIZED AT REMARK 900 PH 4.2 REMARK 900 RELATED ID: 3BXB RELATED DB: PDB REMARK 900 MONOMERIC FAR-RED FLUORESCENT PROTEIN MKATE CRYSTALLIZED AT REMARK 900 PH 7.0 REMARK 900 RELATED ID: 3BXC RELATED DB: PDB REMARK 900 MONOMERIC FAR-RED FLUORESCENT PROTEIN MKATE CRYSTALLIZED AT REMARK 900 PH 9.0 REMARK 900 RELATED ID: 3PIB RELATED DB: PDB REMARK 900 FAR-RED FLUORESCENT PROTEIN EQFP578 CRYSTALLIZED AT PH 5.5 REMARK 900 RELATED ID: 3PJ5 RELATED DB: PDB REMARK 900 FAR-RED FLUORESCENT PROTEIN KATUSHKA CRYSTALLIZED AT PH 5.0 REMARK 900 RELATED ID: 3PJB RELATED DB: PDB REMARK 900 FAR-RED FLUORESCENT PROTEIN EQFP578 CRYSTALLIZED AT PH 4.0 DBREF 3PJ7 A 1 231 PDB 3PJ7 3PJ7 1 231 DBREF 3PJ7 B 1 231 PDB 3PJ7 3PJ7 1 231 DBREF 3PJ7 C 1 231 PDB 3PJ7 3PJ7 1 231 DBREF 3PJ7 D 1 231 PDB 3PJ7 3PJ7 1 231 SEQRES 1 A 229 ASP SER GLU LEU ILE SER GLU ASN MET HIS MET LYS LEU SEQRES 2 A 229 TYR MET GLU GLY THR VAL ASN ASP HIS HIS PHE LYS CYS SEQRES 3 A 229 THR SER GLU GLY GLU GLY LYS PRO TYR GLU GLY THR GLN SEQRES 4 A 229 THR MET LYS ILE LYS VAL VAL GLU GLY GLY PRO LEU PRO SEQRES 5 A 229 PHE ALA PHE ASP ILE LEU ALA THR SER PHE NRQ SER LYS SEQRES 6 A 229 THR PHE ILE ASN HIS THR GLN GLY ILE PRO ASP PHE PHE SEQRES 7 A 229 LYS GLN SER PHE PRO GLU GLY PHE THR TRP GLU ARG ILE SEQRES 8 A 229 THR THR TYR GLU ASP GLY GLY VAL LEU THR ALA THR GLN SEQRES 9 A 229 ASP THR SER LEU GLN ASN GLY CYS LEU ILE TYR ASN VAL SEQRES 10 A 229 LYS ILE ASN GLY VAL ASN PHE PRO SER ASN GLY PRO VAL SEQRES 11 A 229 MET GLN LYS LYS THR LEU GLY TRP GLU ALA SER THR GLU SEQRES 12 A 229 MET LEU TYR PRO ALA ASP SER GLY LEU ARG GLY HIS SER SEQRES 13 A 229 GLN MET ALA LEU LYS LEU VAL GLY GLY GLY TYR LEU HIS SEQRES 14 A 229 CYS SER LEU LYS THR THR TYR ARG SER LYS LYS PRO ALA SEQRES 15 A 229 LYS ASN LEU LYS MET PRO GLY PHE TYR PHE VAL ASP ARG SEQRES 16 A 229 LYS LEU GLU ARG ILE LYS GLU ALA ASP LYS GLU THR TYR SEQRES 17 A 229 VAL GLU GLN HIS GLU MET ALA VAL ALA ARG TYR CYS ASP SEQRES 18 A 229 LEU PRO SER LYS LEU GLY HIS SER SEQRES 1 B 229 ASP SER GLU LEU ILE SER GLU ASN MET HIS MET LYS LEU SEQRES 2 B 229 TYR MET GLU GLY THR VAL ASN ASP HIS HIS PHE LYS CYS SEQRES 3 B 229 THR SER GLU GLY GLU GLY LYS PRO TYR GLU GLY THR GLN SEQRES 4 B 229 THR MET LYS ILE LYS VAL VAL GLU GLY GLY PRO LEU PRO SEQRES 5 B 229 PHE ALA PHE ASP ILE LEU ALA THR SER PHE NRQ SER LYS SEQRES 6 B 229 THR PHE ILE ASN HIS THR GLN GLY ILE PRO ASP PHE PHE SEQRES 7 B 229 LYS GLN SER PHE PRO GLU GLY PHE THR TRP GLU ARG ILE SEQRES 8 B 229 THR THR TYR GLU ASP GLY GLY VAL LEU THR ALA THR GLN SEQRES 9 B 229 ASP THR SER LEU GLN ASN GLY CYS LEU ILE TYR ASN VAL SEQRES 10 B 229 LYS ILE ASN GLY VAL ASN PHE PRO SER ASN GLY PRO VAL SEQRES 11 B 229 MET GLN LYS LYS THR LEU GLY TRP GLU ALA SER THR GLU SEQRES 12 B 229 MET LEU TYR PRO ALA ASP SER GLY LEU ARG GLY HIS SER SEQRES 13 B 229 GLN MET ALA LEU LYS LEU VAL GLY GLY GLY TYR LEU HIS SEQRES 14 B 229 CYS SER LEU LYS THR THR TYR ARG SER LYS LYS PRO ALA SEQRES 15 B 229 LYS ASN LEU LYS MET PRO GLY PHE TYR PHE VAL ASP ARG SEQRES 16 B 229 LYS LEU GLU ARG ILE LYS GLU ALA ASP LYS GLU THR TYR SEQRES 17 B 229 VAL GLU GLN HIS GLU MET ALA VAL ALA ARG TYR CYS ASP SEQRES 18 B 229 LEU PRO SER LYS LEU GLY HIS SER SEQRES 1 C 229 ASP SER GLU LEU ILE SER GLU ASN MET HIS MET LYS LEU SEQRES 2 C 229 TYR MET GLU GLY THR VAL ASN ASP HIS HIS PHE LYS CYS SEQRES 3 C 229 THR SER GLU GLY GLU GLY LYS PRO TYR GLU GLY THR GLN SEQRES 4 C 229 THR MET LYS ILE LYS VAL VAL GLU GLY GLY PRO LEU PRO SEQRES 5 C 229 PHE ALA PHE ASP ILE LEU ALA THR SER PHE NRQ SER LYS SEQRES 6 C 229 THR PHE ILE ASN HIS THR GLN GLY ILE PRO ASP PHE PHE SEQRES 7 C 229 LYS GLN SER PHE PRO GLU GLY PHE THR TRP GLU ARG ILE SEQRES 8 C 229 THR THR TYR GLU ASP GLY GLY VAL LEU THR ALA THR GLN SEQRES 9 C 229 ASP THR SER LEU GLN ASN GLY CYS LEU ILE TYR ASN VAL SEQRES 10 C 229 LYS ILE ASN GLY VAL ASN PHE PRO SER ASN GLY PRO VAL SEQRES 11 C 229 MET GLN LYS LYS THR LEU GLY TRP GLU ALA SER THR GLU SEQRES 12 C 229 MET LEU TYR PRO ALA ASP SER GLY LEU ARG GLY HIS SER SEQRES 13 C 229 GLN MET ALA LEU LYS LEU VAL GLY GLY GLY TYR LEU HIS SEQRES 14 C 229 CYS SER LEU LYS THR THR TYR ARG SER LYS LYS PRO ALA SEQRES 15 C 229 LYS ASN LEU LYS MET PRO GLY PHE TYR PHE VAL ASP ARG SEQRES 16 C 229 LYS LEU GLU ARG ILE LYS GLU ALA ASP LYS GLU THR TYR SEQRES 17 C 229 VAL GLU GLN HIS GLU MET ALA VAL ALA ARG TYR CYS ASP SEQRES 18 C 229 LEU PRO SER LYS LEU GLY HIS SER SEQRES 1 D 229 ASP SER GLU LEU ILE SER GLU ASN MET HIS MET LYS LEU SEQRES 2 D 229 TYR MET GLU GLY THR VAL ASN ASP HIS HIS PHE LYS CYS SEQRES 3 D 229 THR SER GLU GLY GLU GLY LYS PRO TYR GLU GLY THR GLN SEQRES 4 D 229 THR MET LYS ILE LYS VAL VAL GLU GLY GLY PRO LEU PRO SEQRES 5 D 229 PHE ALA PHE ASP ILE LEU ALA THR SER PHE NRQ SER LYS SEQRES 6 D 229 THR PHE ILE ASN HIS THR GLN GLY ILE PRO ASP PHE PHE SEQRES 7 D 229 LYS GLN SER PHE PRO GLU GLY PHE THR TRP GLU ARG ILE SEQRES 8 D 229 THR THR TYR GLU ASP GLY GLY VAL LEU THR ALA THR GLN SEQRES 9 D 229 ASP THR SER LEU GLN ASN GLY CYS LEU ILE TYR ASN VAL SEQRES 10 D 229 LYS ILE ASN GLY VAL ASN PHE PRO SER ASN GLY PRO VAL SEQRES 11 D 229 MET GLN LYS LYS THR LEU GLY TRP GLU ALA SER THR GLU SEQRES 12 D 229 MET LEU TYR PRO ALA ASP SER GLY LEU ARG GLY HIS SER SEQRES 13 D 229 GLN MET ALA LEU LYS LEU VAL GLY GLY GLY TYR LEU HIS SEQRES 14 D 229 CYS SER LEU LYS THR THR TYR ARG SER LYS LYS PRO ALA SEQRES 15 D 229 LYS ASN LEU LYS MET PRO GLY PHE TYR PHE VAL ASP ARG SEQRES 16 D 229 LYS LEU GLU ARG ILE LYS GLU ALA ASP LYS GLU THR TYR SEQRES 17 D 229 VAL GLU GLN HIS GLU MET ALA VAL ALA ARG TYR CYS ASP SEQRES 18 D 229 LEU PRO SER LYS LEU GLY HIS SER MODRES 3PJ7 NRQ A 63 MET MODRES 3PJ7 NRQ A 63 TYR MODRES 3PJ7 NRQ A 63 GLY MODRES 3PJ7 NRQ B 63 MET MODRES 3PJ7 NRQ B 63 TYR MODRES 3PJ7 NRQ B 63 GLY MODRES 3PJ7 NRQ C 63 MET MODRES 3PJ7 NRQ C 63 TYR MODRES 3PJ7 NRQ C 63 GLY MODRES 3PJ7 NRQ D 63 MET MODRES 3PJ7 NRQ D 63 TYR MODRES 3PJ7 NRQ D 63 GLY HET NRQ A 63 23 HET NRQ B 63 23 HET NRQ C 63 23 HET NRQ D 63 23 HETNAM NRQ {(4Z)-4-(4-HYDROXYBENZYLIDENE)-2-[3-(METHYLTHIO) HETNAM 2 NRQ PROPANIMIDOYL]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1- HETNAM 3 NRQ YL}ACETIC ACID HETSYN NRQ CHROMOPHORE (MET-TYR-GLY) FORMUL 1 NRQ 4(C16 H17 N3 O4 S) FORMUL 5 HOH *462(H2 O) HELIX 1 1 ALA A 54 PHE A 62 5 9 HELIX 2 2 ASP A 78 SER A 83 1 6 HELIX 3 3 PRO A 183 LEU A 187 5 5 HELIX 4 4 ALA B 54 PHE B 62 5 9 HELIX 5 5 PHE B 80 PHE B 84 5 5 HELIX 6 6 PRO B 183 LEU B 187 5 5 HELIX 7 7 ALA C 54 PHE C 62 5 9 HELIX 8 8 PHE C 80 PHE C 84 5 5 HELIX 9 9 PRO C 183 LEU C 187 5 5 HELIX 10 10 ALA D 54 PHE D 62 5 9 HELIX 11 11 PHE D 80 PHE D 84 5 5 HELIX 12 12 PRO D 183 LEU D 187 5 5 SHEET 1 A11 ASN A 71 HIS A 72 0 SHEET 2 A11 TYR A 210 ARG A 220 1 O ALA A 217 N ASN A 71 SHEET 3 A11 THR A 38 GLU A 47 -1 N ILE A 43 O VAL A 211 SHEET 4 A11 HIS A 22 LYS A 33 -1 N GLU A 29 O LYS A 42 SHEET 5 A11 MET A 9 VAL A 19 -1 N MET A 15 O CYS A 26 SHEET 6 A11 CYS A 114 VAL A 124 1 O LEU A 115 N LYS A 12 SHEET 7 A11 VAL A 101 GLN A 111 -1 N SER A 109 O ILE A 116 SHEET 8 A11 PHE A 88 TYR A 96 -1 N THR A 94 O LEU A 102 SHEET 9 A11 TYR A 169 SER A 180 -1 O ARG A 179 N THR A 89 SHEET 10 A11 GLY A 153 LEU A 164 -1 N LEU A 162 O LEU A 170 SHEET 11 A11 THR A 137 TRP A 140 -1 N LEU A 138 O LYS A 163 SHEET 1 B 6 ASN A 71 HIS A 72 0 SHEET 2 B 6 TYR A 210 ARG A 220 1 O ALA A 217 N ASN A 71 SHEET 3 B 6 TYR A 193 ALA A 205 -1 N GLU A 200 O HIS A 214 SHEET 4 B 6 SER A 143 ALA A 150 -1 N GLU A 145 O VAL A 195 SHEET 5 B 6 GLY A 153 LEU A 164 -1 O ARG A 155 N TYR A 148 SHEET 6 B 6 THR A 137 TRP A 140 -1 N LEU A 138 O LYS A 163 SHEET 1 C11 ASN B 71 HIS B 72 0 SHEET 2 C11 TYR B 210 ARG B 220 1 O ALA B 217 N ASN B 71 SHEET 3 C11 THR B 38 GLU B 47 -1 N ILE B 43 O VAL B 211 SHEET 4 C11 HIS B 22 LYS B 33 -1 N THR B 27 O LYS B 44 SHEET 5 C11 MET B 9 VAL B 19 -1 N MET B 9 O GLY B 32 SHEET 6 C11 CYS B 114 VAL B 124 1 O GLY B 123 N THR B 18 SHEET 7 C11 VAL B 101 GLN B 111 -1 N SER B 109 O ILE B 116 SHEET 8 C11 PHE B 88 TYR B 96 -1 N PHE B 88 O THR B 108 SHEET 9 C11 TYR B 169 SER B 180 -1 O ARG B 179 N THR B 89 SHEET 10 C11 GLY B 153 LEU B 164 -1 N LEU B 162 O LEU B 170 SHEET 11 C11 THR B 137 TRP B 140 -1 N LEU B 138 O LYS B 163 SHEET 1 D 6 ASN B 71 HIS B 72 0 SHEET 2 D 6 TYR B 210 ARG B 220 1 O ALA B 217 N ASN B 71 SHEET 3 D 6 TYR B 193 ALA B 205 -1 N ILE B 202 O GLU B 212 SHEET 4 D 6 SER B 143 ALA B 150 -1 N SER B 143 O ARG B 197 SHEET 5 D 6 GLY B 153 LEU B 164 -1 O ARG B 155 N TYR B 148 SHEET 6 D 6 THR B 137 TRP B 140 -1 N LEU B 138 O LYS B 163 SHEET 1 E11 ASN C 71 HIS C 72 0 SHEET 2 E11 TYR C 210 ARG C 220 1 O ALA C 219 N ASN C 71 SHEET 3 E11 THR C 38 GLU C 47 -1 N ILE C 43 O VAL C 211 SHEET 4 E11 HIS C 22 LYS C 33 -1 N THR C 27 O LYS C 44 SHEET 5 E11 MET C 9 VAL C 19 -1 N MET C 11 O GLY C 30 SHEET 6 E11 CYS C 114 VAL C 124 1 O GLY C 123 N THR C 18 SHEET 7 E11 VAL C 101 GLN C 111 -1 N SER C 109 O ILE C 116 SHEET 8 E11 PHE C 88 TYR C 96 -1 N THR C 94 O LEU C 102 SHEET 9 E11 TYR C 169 SER C 180 -1 O ARG C 179 N THR C 89 SHEET 10 E11 GLY C 153 LEU C 164 -1 N SER C 158 O LEU C 174 SHEET 11 E11 THR C 137 TRP C 140 -1 N LEU C 138 O LYS C 163 SHEET 1 F 6 ASN C 71 HIS C 72 0 SHEET 2 F 6 TYR C 210 ARG C 220 1 O ALA C 219 N ASN C 71 SHEET 3 F 6 TYR C 193 ALA C 205 -1 N GLU C 200 O HIS C 214 SHEET 4 F 6 SER C 143 ALA C 150 -1 N SER C 143 O ARG C 197 SHEET 5 F 6 GLY C 153 LEU C 164 -1 O ARG C 155 N TYR C 148 SHEET 6 F 6 THR C 137 TRP C 140 -1 N LEU C 138 O LYS C 163 SHEET 1 G11 ASN D 71 HIS D 72 0 SHEET 2 G11 TYR D 210 ARG D 220 1 O ALA D 219 N ASN D 71 SHEET 3 G11 THR D 38 GLU D 47 -1 N ILE D 43 O VAL D 211 SHEET 4 G11 HIS D 22 LYS D 33 -1 N THR D 27 O LYS D 44 SHEET 5 G11 MET D 9 VAL D 19 -1 N LEU D 13 O SER D 28 SHEET 6 G11 CYS D 114 VAL D 124 1 O LEU D 115 N LYS D 12 SHEET 7 G11 VAL D 101 GLN D 111 -1 N ASP D 107 O ASN D 118 SHEET 8 G11 PHE D 88 TYR D 96 -1 N THR D 94 O LEU D 102 SHEET 9 G11 TYR D 169 SER D 180 -1 O SER D 173 N THR D 95 SHEET 10 G11 GLY D 153 LEU D 164 -1 N LEU D 162 O LEU D 170 SHEET 11 G11 THR D 137 TRP D 140 -1 N LEU D 138 O LYS D 163 SHEET 1 H 6 ASN D 71 HIS D 72 0 SHEET 2 H 6 TYR D 210 ARG D 220 1 O ALA D 219 N ASN D 71 SHEET 3 H 6 TYR D 193 ALA D 205 -1 N ILE D 202 O GLU D 212 SHEET 4 H 6 SER D 143 ALA D 150 -1 N LEU D 147 O TYR D 193 SHEET 5 H 6 GLY D 153 LEU D 164 -1 O ARG D 155 N TYR D 148 SHEET 6 H 6 THR D 137 TRP D 140 -1 N LEU D 138 O LYS D 163 LINK C PHE A 62 N1 NRQ A 63 1555 1555 1.29 LINK C PHE B 62 N1 NRQ B 63 1555 1555 1.30 LINK C3 NRQ B 63 N SER B 66 1555 1555 1.32 LINK C PHE C 62 N1 NRQ C 63 1555 1555 1.32 LINK C3 NRQ C 63 N SER C 66 1555 1555 1.34 LINK C PHE D 62 N1 NRQ D 63 1555 1555 1.30 LINK C3 NRQ D 63 N SER D 66 1555 1555 1.31 CISPEP 1 GLY A 49 PRO A 50 0 -11.04 CISPEP 2 PHE A 84 PRO A 85 0 4.83 CISPEP 3 GLY B 49 PRO B 50 0 -2.18 CISPEP 4 PHE B 84 PRO B 85 0 8.42 CISPEP 5 GLY C 49 PRO C 50 0 -7.02 CISPEP 6 PHE C 84 PRO C 85 0 8.14 CISPEP 7 GLY D 49 PRO D 50 0 -6.15 CISPEP 8 PHE D 84 PRO D 85 0 -3.73 CRYST1 161.353 161.353 74.486 90.00 90.00 90.00 I 41 32 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.006198 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006198 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013425 0.00000