HEADER FLUORESCENT PROTEIN 05-NOV-10 3PIB TITLE CRYSTAL STRUCTURE OF RED FLUORESCENT PROTEIN EQFP578 CRYSTALLIZED AT TITLE 2 PH 5.5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: EQFP578 FLUORESCENT PROTEIN; 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 RED FLUORESCENT PROTEIN, BETA-BARREL, BIOMARKER, MET-TYR-GLY KEYWDS 2 CHROMOPHORE, SEA ANEMONE, FLUORESCENT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.PLETNEV,N.V.PLETNEVA,V.Z.PLETNEV REVDAT 3 22-FEB-12 3PIB 1 REMARK VERSN REVDAT 2 06-JUL-11 3PIB 1 JRNL REVDAT 1 25-MAY-11 3PIB 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. 1.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.91 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 3 NUMBER OF REFLECTIONS : 314461 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.155 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.176 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.020 REMARK 3 FREE R VALUE TEST SET COUNT : 3201 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 35.9321 - 3.2811 0.99 14765 159 0.1684 0.1855 REMARK 3 2 3.2811 - 2.6045 1.00 14665 145 0.1681 0.1966 REMARK 3 3 2.6045 - 2.2754 1.00 14677 152 0.1511 0.1442 REMARK 3 4 2.2754 - 2.0673 1.00 14593 152 0.1427 0.1582 REMARK 3 5 2.0673 - 1.9192 1.00 14626 149 0.1345 0.1351 REMARK 3 6 1.9192 - 1.8060 1.00 14586 168 0.1379 0.1587 REMARK 3 7 1.8060 - 1.7156 1.00 14508 149 0.1257 0.1438 REMARK 3 8 1.7156 - 1.6409 1.00 14581 158 0.1175 0.1592 REMARK 3 9 1.6409 - 1.5777 0.99 14465 132 0.1134 0.1687 REMARK 3 10 1.5777 - 1.5233 0.99 14427 172 0.1141 0.1272 REMARK 3 11 1.5233 - 1.4757 0.99 14489 145 0.1245 0.1656 REMARK 3 12 1.4757 - 1.4335 0.99 14459 152 0.1373 0.2006 REMARK 3 13 1.4335 - 1.3957 0.99 14471 141 0.1475 0.1943 REMARK 3 14 1.3957 - 1.3617 0.98 14318 157 0.1521 0.2057 REMARK 3 15 1.3617 - 1.3307 0.96 13976 140 0.1489 0.1562 REMARK 3 16 1.3307 - 1.3024 0.94 13620 150 0.1555 0.2026 REMARK 3 17 1.3024 - 1.2764 0.90 13148 125 0.1547 0.1989 REMARK 3 18 1.2764 - 1.2523 0.86 12619 106 0.1597 0.2162 REMARK 3 19 1.2523 - 1.2299 0.83 12110 118 0.1644 0.2278 REMARK 3 20 1.2299 - 1.2091 0.79 11437 116 0.1596 0.1764 REMARK 3 21 1.2091 - 1.1896 0.75 10861 110 0.1689 0.2273 REMARK 3 22 1.1896 - 1.1712 0.72 10400 112 0.1676 0.2429 REMARK 3 23 1.1712 - 1.1540 0.65 9459 93 0.1884 0.2233 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.42 REMARK 3 B_SOL : 25.79 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.120 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.77090 REMARK 3 B22 (A**2) : -2.77090 REMARK 3 B33 (A**2) : 5.54180 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.013 8018 REMARK 3 ANGLE : 1.681 10920 REMARK 3 CHIRALITY : 0.093 1138 REMARK 3 PLANARITY : 0.009 1423 REMARK 3 DIHEDRAL : 17.439 3092 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3PIB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-NOV-10. REMARK 100 THE RCSB ID CODE IS RCSB062405. 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 : 5.5 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 : 314590 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.150 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.6 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 59.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.48800 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 (%): 46.12 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% W/V PEG 3350, 0.2 M AMMONIUM REMARK 280 ACETATE, 0.1 M BIS-TRIS PH 5.5., VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 80.62350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 80.62350 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 37.84100 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 80.62350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 18.92050 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 80.62350 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 56.76150 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 80.62350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 80.62350 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 37.84100 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 80.62350 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 56.76150 REMARK 290 SMTRY1 8 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 80.62350 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 18.92050 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 GLY A 0 REMARK 465 HIS A 230 REMARK 465 ARG A 231 REMARK 465 HIS C -6 REMARK 465 HIS C -5 REMARK 465 HIS C -4 REMARK 465 HIS C -3 REMARK 465 HIS C -2 REMARK 465 HIS C -1 REMARK 465 GLY C 0 REMARK 465 SER C 1 REMARK 465 HIS C 230 REMARK 465 ARG C 231 REMARK 465 HIS D -6 REMARK 465 HIS D -5 REMARK 465 HIS D -4 REMARK 465 HIS D -3 REMARK 465 HIS D -2 REMARK 465 HIS D -1 REMARK 465 GLY D 0 REMARK 465 SER D 1 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 HZ2 LYS B 67 HO2 GOL B 250 1.31 REMARK 500 HG SER B 66 HH TYR B 117 1.32 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 655 O HOH D 659 4554 1.98 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 -106.60 62.56 REMARK 500 SER B 2 65.65 -156.80 REMARK 500 ASN B 20 -90.51 63.80 REMARK 500 ASN B 21 27.45 -147.36 REMARK 500 PHE B 69 53.47 -104.42 REMARK 500 ASN C 21 -16.18 93.16 REMARK 500 PHE C 69 61.52 -102.52 REMARK 500 ASN D 21 -6.94 85.64 REMARK 500 PHE D 69 55.61 -105.42 REMARK 500 LEU D 138 33.76 -140.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 250 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 250 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C 250 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL D 250 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: 3PJ5 RELATED DB: PDB REMARK 900 FAR-RED FLUORESCENT PROTEIN KATUSHKA CRYSTALLIZED AT PH 5.0 REMARK 900 RELATED ID: 3PJ7 RELATED DB: PDB REMARK 900 FAR-RED FLUORESCENT PROTEIN KATUSHKA CRYSTALLIZED AT PH 8.5 REMARK 900 RELATED ID: 3PJB RELATED DB: PDB REMARK 900 FAR-RED FLUORESCENT PROTEIN EQFP578 CRYSTALLIZED AT PH 4.0 DBREF 3PIB A -6 231 PDB 3PIB 3PIB -6 231 DBREF 3PIB B -6 231 PDB 3PIB 3PIB -6 231 DBREF 3PIB C -6 231 PDB 3PIB 3PIB -6 231 DBREF 3PIB D -6 231 PDB 3PIB 3PIB -6 231 SEQRES 1 A 236 HIS HIS HIS HIS HIS HIS GLY SER SER GLU LEU ILE LYS SEQRES 2 A 236 GLU ASN MET HIS MET LYS LEU TYR MET GLU GLY THR VAL SEQRES 3 A 236 ASN ASN HIS HIS PHE LYS CYS THR SER GLU GLY GLU GLY SEQRES 4 A 236 LYS PRO TYR GLU GLY THR GLN THR MET LYS ILE LYS VAL SEQRES 5 A 236 VAL GLU GLY GLY PRO LEU PRO PHE ALA PHE ASP ILE LEU SEQRES 6 A 236 ALA THR SER PHE NRQ SER LYS THR PHE ILE ASN HIS THR SEQRES 7 A 236 GLN GLY ILE PRO ASP PHE PHE LYS GLN SER PHE PRO GLU SEQRES 8 A 236 GLY PHE THR TRP GLU ARG ILE THR THR TYR GLU ASP GLY SEQRES 9 A 236 GLY VAL LEU THR ALA THR GLN ASP THR SER LEU GLN ASN SEQRES 10 A 236 GLY CYS ILE ILE TYR ASN VAL LYS ILE ASN GLY VAL ASN SEQRES 11 A 236 PHE PRO SER ASN GLY SER VAL MET GLN LYS LYS THR LEU SEQRES 12 A 236 GLY TRP GLU ALA ASN THR GLU MET LEU TYR PRO ALA ASP SEQRES 13 A 236 GLY GLY LEU ARG GLY HIS SER GLN MET ALA LEU LYS LEU SEQRES 14 A 236 VAL GLY GLY GLY TYR LEU HIS CYS SER PHE LYS THR THR SEQRES 15 A 236 TYR ARG SER LYS LYS PRO ALA LYS ASN LEU LYS MET PRO SEQRES 16 A 236 GLY PHE HIS PHE VAL ASP HIS ARG LEU GLU ARG ILE LYS SEQRES 17 A 236 GLU ALA ASP LYS GLU THR TYR VAL GLU GLN HIS GLU MET SEQRES 18 A 236 ALA VAL ALA LYS TYR CYS ASP LEU PRO SER LYS LEU GLY SEQRES 19 A 236 HIS ARG SEQRES 1 B 236 HIS HIS HIS HIS HIS HIS GLY SER SER GLU LEU ILE LYS SEQRES 2 B 236 GLU ASN MET HIS MET LYS LEU TYR MET GLU GLY THR VAL SEQRES 3 B 236 ASN ASN HIS HIS PHE LYS CYS THR SER GLU GLY GLU GLY SEQRES 4 B 236 LYS PRO TYR GLU GLY THR GLN THR MET LYS ILE LYS VAL SEQRES 5 B 236 VAL GLU GLY GLY PRO LEU PRO PHE ALA PHE ASP ILE LEU SEQRES 6 B 236 ALA THR SER PHE NRQ SER LYS THR PHE ILE ASN HIS THR SEQRES 7 B 236 GLN GLY ILE PRO ASP PHE PHE LYS GLN SER PHE PRO GLU SEQRES 8 B 236 GLY PHE THR TRP GLU ARG ILE THR THR TYR GLU ASP GLY SEQRES 9 B 236 GLY VAL LEU THR ALA THR GLN ASP THR SER LEU GLN ASN SEQRES 10 B 236 GLY CYS ILE ILE TYR ASN VAL LYS ILE ASN GLY VAL ASN SEQRES 11 B 236 PHE PRO SER ASN GLY SER VAL MET GLN LYS LYS THR LEU SEQRES 12 B 236 GLY TRP GLU ALA ASN THR GLU MET LEU TYR PRO ALA ASP SEQRES 13 B 236 GLY GLY LEU ARG GLY HIS SER GLN MET ALA LEU LYS LEU SEQRES 14 B 236 VAL GLY GLY GLY TYR LEU HIS CYS SER PHE LYS THR THR SEQRES 15 B 236 TYR ARG SER LYS LYS PRO ALA LYS ASN LEU LYS MET PRO SEQRES 16 B 236 GLY PHE HIS PHE VAL ASP HIS ARG LEU GLU ARG ILE LYS SEQRES 17 B 236 GLU ALA ASP LYS GLU THR TYR VAL GLU GLN HIS GLU MET SEQRES 18 B 236 ALA VAL ALA LYS TYR CYS ASP LEU PRO SER LYS LEU GLY SEQRES 19 B 236 HIS ARG SEQRES 1 C 236 HIS HIS HIS HIS HIS HIS GLY SER SER GLU LEU ILE LYS SEQRES 2 C 236 GLU ASN MET HIS MET LYS LEU TYR MET GLU GLY THR VAL SEQRES 3 C 236 ASN ASN HIS HIS PHE LYS CYS THR SER GLU GLY GLU GLY SEQRES 4 C 236 LYS PRO TYR GLU GLY THR GLN THR MET LYS ILE LYS VAL SEQRES 5 C 236 VAL GLU GLY GLY PRO LEU PRO PHE ALA PHE ASP ILE LEU SEQRES 6 C 236 ALA THR SER PHE NRQ SER LYS THR PHE ILE ASN HIS THR SEQRES 7 C 236 GLN GLY ILE PRO ASP PHE PHE LYS GLN SER PHE PRO GLU SEQRES 8 C 236 GLY PHE THR TRP GLU ARG ILE THR THR TYR GLU ASP GLY SEQRES 9 C 236 GLY VAL LEU THR ALA THR GLN ASP THR SER LEU GLN ASN SEQRES 10 C 236 GLY CYS ILE ILE TYR ASN VAL LYS ILE ASN GLY VAL ASN SEQRES 11 C 236 PHE PRO SER ASN GLY SER VAL MET GLN LYS LYS THR LEU SEQRES 12 C 236 GLY TRP GLU ALA ASN THR GLU MET LEU TYR PRO ALA ASP SEQRES 13 C 236 GLY GLY LEU ARG GLY HIS SER GLN MET ALA LEU LYS LEU SEQRES 14 C 236 VAL GLY GLY GLY TYR LEU HIS CYS SER PHE LYS THR THR SEQRES 15 C 236 TYR ARG SER LYS LYS PRO ALA LYS ASN LEU LYS MET PRO SEQRES 16 C 236 GLY PHE HIS PHE VAL ASP HIS ARG LEU GLU ARG ILE LYS SEQRES 17 C 236 GLU ALA ASP LYS GLU THR TYR VAL GLU GLN HIS GLU MET SEQRES 18 C 236 ALA VAL ALA LYS TYR CYS ASP LEU PRO SER LYS LEU GLY SEQRES 19 C 236 HIS ARG SEQRES 1 D 236 HIS HIS HIS HIS HIS HIS GLY SER SER GLU LEU ILE LYS SEQRES 2 D 236 GLU ASN MET HIS MET LYS LEU TYR MET GLU GLY THR VAL SEQRES 3 D 236 ASN ASN HIS HIS PHE LYS CYS THR SER GLU GLY GLU GLY SEQRES 4 D 236 LYS PRO TYR GLU GLY THR GLN THR MET LYS ILE LYS VAL SEQRES 5 D 236 VAL GLU GLY GLY PRO LEU PRO PHE ALA PHE ASP ILE LEU SEQRES 6 D 236 ALA THR SER PHE NRQ SER LYS THR PHE ILE ASN HIS THR SEQRES 7 D 236 GLN GLY ILE PRO ASP PHE PHE LYS GLN SER PHE PRO GLU SEQRES 8 D 236 GLY PHE THR TRP GLU ARG ILE THR THR TYR GLU ASP GLY SEQRES 9 D 236 GLY VAL LEU THR ALA THR GLN ASP THR SER LEU GLN ASN SEQRES 10 D 236 GLY CYS ILE ILE TYR ASN VAL LYS ILE ASN GLY VAL ASN SEQRES 11 D 236 PHE PRO SER ASN GLY SER VAL MET GLN LYS LYS THR LEU SEQRES 12 D 236 GLY TRP GLU ALA ASN THR GLU MET LEU TYR PRO ALA ASP SEQRES 13 D 236 GLY GLY LEU ARG GLY HIS SER GLN MET ALA LEU LYS LEU SEQRES 14 D 236 VAL GLY GLY GLY TYR LEU HIS CYS SER PHE LYS THR THR SEQRES 15 D 236 TYR ARG SER LYS LYS PRO ALA LYS ASN LEU LYS MET PRO SEQRES 16 D 236 GLY PHE HIS PHE VAL ASP HIS ARG LEU GLU ARG ILE LYS SEQRES 17 D 236 GLU ALA ASP LYS GLU THR TYR VAL GLU GLN HIS GLU MET SEQRES 18 D 236 ALA VAL ALA LYS TYR CYS ASP LEU PRO SER LYS LEU GLY SEQRES 19 D 236 HIS ARG MODRES 3PIB NRQ A 63 MET MODRES 3PIB NRQ A 63 TYR MODRES 3PIB NRQ A 63 GLY MODRES 3PIB NRQ B 63 MET MODRES 3PIB NRQ B 63 TYR MODRES 3PIB NRQ B 63 GLY MODRES 3PIB NRQ C 63 MET MODRES 3PIB NRQ C 63 TYR MODRES 3PIB NRQ C 63 GLY MODRES 3PIB NRQ D 63 MET MODRES 3PIB NRQ D 63 TYR MODRES 3PIB NRQ D 63 GLY HET NRQ A 63 23 HET NRQ B 63 23 HET NRQ C 63 23 HET NRQ D 63 23 HET GOL A 250 14 HET GOL B 250 14 HET GOL C 250 14 HET GOL D 250 14 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 HETNAM GOL GLYCEROL HETSYN NRQ CHROMOPHORE (MET-TYR-GLY) HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 NRQ 4(C16 H17 N3 O4 S) FORMUL 5 GOL 4(C3 H8 O3) FORMUL 9 HOH *721(H2 O) HELIX 1 1 ALA A 54 PHE A 62 5 9 HELIX 2 2 PHE A 80 PHE A 84 5 5 HELIX 3 3 PRO A 183 LEU A 187 5 5 HELIX 4 4 HIS B -1 GLU B 3 5 5 HELIX 5 5 ALA B 54 PHE B 62 5 9 HELIX 6 6 PHE B 80 PHE B 84 5 5 HELIX 7 7 PRO B 183 LEU B 187 5 5 HELIX 8 8 ALA C 54 PHE C 62 5 9 HELIX 9 9 PHE C 80 PHE C 84 5 5 HELIX 10 10 PRO C 183 LEU C 187 5 5 HELIX 11 11 ALA D 54 PHE D 62 5 9 HELIX 12 12 PHE D 80 PHE D 84 5 5 HELIX 13 13 PRO D 183 LEU D 187 5 5 SHEET 1 A11 ASN A 71 HIS A 72 0 SHEET 2 A11 TYR A 210 LYS A 220 1 O ALA A 219 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 GLY A 123 N THR A 18 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 PHE A 88 O THR A 108 SHEET 9 A11 TYR A 169 SER A 180 -1 O SER A 173 N THR A 95 SHEET 10 A11 GLY A 153 LEU A 164 -1 N LEU A 154 O TYR A 178 SHEET 11 A11 THR A 137 TRP A 140 -1 N GLY A 139 O LYS A 163 SHEET 1 B 6 ASN A 71 HIS A 72 0 SHEET 2 B 6 TYR A 210 LYS A 220 1 O ALA A 219 N ASN A 71 SHEET 3 B 6 HIS A 193 ALA A 205 -1 N GLU A 200 O HIS A 214 SHEET 4 B 6 ASN 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 GLY A 139 O LYS A 163 SHEET 1 C11 ASN B 71 HIS B 72 0 SHEET 2 C11 TYR B 210 LYS B 220 1 O ALA B 219 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 GLU B 29 O LYS B 42 SHEET 5 C11 MET B 9 VAL B 19 -1 N LEU B 13 O SER B 28 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 TRP B 90 O GLN B 106 SHEET 9 C11 TYR B 169 SER B 180 -1 O SER B 173 N THR B 95 SHEET 10 C11 GLY B 153 LEU B 164 -1 N LEU B 154 O TYR B 178 SHEET 11 C11 THR B 137 TRP B 140 -1 N GLY B 139 O LYS B 163 SHEET 1 D 6 ASN B 71 HIS B 72 0 SHEET 2 D 6 TYR B 210 LYS B 220 1 O ALA B 219 N ASN B 71 SHEET 3 D 6 HIS B 193 ALA B 205 -1 N GLU B 200 O HIS B 214 SHEET 4 D 6 ASN B 143 ALA B 150 -1 N GLU B 145 O VAL B 195 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 GLY B 139 O LYS B 163 SHEET 1 E11 ASN C 71 HIS C 72 0 SHEET 2 E11 TYR C 210 LYS C 220 1 O ALA C 217 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 GLU C 29 O LYS C 42 SHEET 5 E11 MET C 9 VAL C 19 -1 N VAL C 19 O HIS C 22 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 PHE C 88 O THR C 108 SHEET 9 E11 TYR C 169 SER C 180 -1 O SER C 173 N THR C 95 SHEET 10 E11 GLY C 153 LEU C 164 -1 N LEU C 154 O TYR C 178 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 LYS C 220 1 O ALA C 217 N ASN C 71 SHEET 3 F 6 HIS C 193 ALA C 205 -1 N GLU C 200 O HIS C 214 SHEET 4 F 6 ASN C 143 ALA C 150 -1 N GLU C 145 O VAL C 195 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 LYS 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 GLU D 29 O LYS D 42 SHEET 5 G11 MET D 9 VAL D 19 -1 N VAL D 19 O HIS D 22 SHEET 6 G11 CYS D 114 VAL D 124 1 O GLY D 123 N THR D 18 SHEET 7 G11 VAL D 101 GLN D 111 -1 N SER D 109 O ILE D 116 SHEET 8 G11 PHE D 88 TYR D 96 -1 N PHE D 88 O THR D 108 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 154 O TYR D 178 SHEET 11 G11 THR D 137 TRP D 140 -1 N GLY D 139 O LYS D 163 SHEET 1 H 6 ASN D 71 HIS D 72 0 SHEET 2 H 6 TYR D 210 LYS D 220 1 O ALA D 219 N ASN D 71 SHEET 3 H 6 HIS D 193 ALA D 205 -1 N GLU D 200 O HIS D 214 SHEET 4 H 6 ASN D 143 ALA D 150 -1 N GLU D 145 O VAL D 195 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 GLY D 139 O LYS D 163 LINK C PHE A 62 N1 NRQ A 63 1555 1555 1.27 LINK C3 NRQ A 63 N SER A 66 1555 1555 1.30 LINK C PHE B 62 N1 NRQ B 63 1555 1555 1.28 LINK C3 NRQ B 63 N SER B 66 1555 1555 1.34 LINK C PHE C 62 N1 NRQ C 63 1555 1555 1.25 LINK C3 NRQ C 63 N SER C 66 1555 1555 1.33 LINK C PHE D 62 N1 NRQ D 63 1555 1555 1.28 LINK C3 NRQ D 63 N SER D 66 1555 1555 1.30 CISPEP 1 GLY A 49 PRO A 50 0 -8.55 CISPEP 2 PHE A 84 PRO A 85 0 11.51 CISPEP 3 GLY B 49 PRO B 50 0 -6.62 CISPEP 4 PHE B 84 PRO B 85 0 9.50 CISPEP 5 GLY C 49 PRO C 50 0 -4.52 CISPEP 6 PHE C 84 PRO C 85 0 10.44 CISPEP 7 GLY D 49 PRO D 50 0 -8.33 CISPEP 8 PHE D 84 PRO D 85 0 9.33 SITE 1 AC1 9 GLN A 39 NRQ A 63 SER A 66 LYS A 67 SITE 2 AC1 9 PHE A 69 ILE A 70 HIS A 197 GLU A 215 SITE 3 AC1 9 ALA A 217 SITE 1 AC2 10 GLN B 39 NRQ B 63 SER B 66 LYS B 67 SITE 2 AC2 10 PHE B 69 ILE B 70 HIS B 197 GLU B 215 SITE 3 AC2 10 ALA B 217 HOH B 281 SITE 1 AC3 9 GLN C 39 NRQ C 63 SER C 66 LYS C 67 SITE 2 AC3 9 PHE C 69 ILE C 70 HIS C 197 GLU C 215 SITE 3 AC3 9 ALA C 217 SITE 1 AC4 9 GLN D 39 NRQ D 63 SER D 66 LYS D 67 SITE 2 AC4 9 PHE D 69 ILE D 70 HIS D 197 GLU D 215 SITE 3 AC4 9 ALA D 217 CRYST1 161.247 161.247 75.682 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 0.006202 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006202 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013213 0.00000