HEADER FLUORESCENT PROTEIN 11-JAN-08 3BX9 TITLE MONOMERIC FAR-RED FLUORESCENT PROTEIN MKATE CRYSTALLIZED AT PH 2.0 COMPND MOL_ID: 1; COMPND 2 MOLECULE: FAR-RED FLUORESCENT PROTEIN MKATE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTACMAEA QUADRICOLOR; SOURCE 3 ORGANISM_TAXID: 6118; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: XL1 BLUE; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PQE30 KEYWDS FAR-RED FLUORESCENT PROTEIN, E. QUADRICOLOR, CHROMOPHORE STRUCTURE, KEYWDS 2 PH-INDUCED CIS-TRANS IZOMERIZATION, FLUORESCENT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.PLETNEV,N.PLETNEVA,V.PLETNEV REVDAT 6 15-NOV-23 3BX9 1 REMARK REVDAT 5 30-AUG-23 3BX9 1 REMARK DBREF LINK REVDAT 4 13-JUL-11 3BX9 1 VERSN REVDAT 3 24-FEB-09 3BX9 1 VERSN REVDAT 2 11-NOV-08 3BX9 1 JRNL REVDAT 1 22-JUL-08 3BX9 0 JRNL AUTH S.PLETNEV,D.SHCHERBO,D.M.CHUDAKOV,N.PLETNEVA,E.M.MERZLYAK, JRNL AUTH 2 A.WLODAWER,Z.DAUTER,V.PLETNEV JRNL TITL A CRYSTALLOGRAPHIC STUDY OF BRIGHT FAR-RED FLUORESCENT JRNL TITL 2 PROTEIN MKATE REVEALS PH-INDUCED CIS-TRANS ISOMERIZATION OF JRNL TITL 3 THE CHROMOPHORE. JRNL REF J.BIOL.CHEM. V. 283 28980 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18682399 JRNL DOI 10.1074/JBC.M800599200 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 52642 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1150 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3739 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.2810 REMARK 3 BIN FREE R VALUE SET COUNT : 86 REMARK 3 BIN FREE R VALUE : 0.3260 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3582 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 90 REMARK 3 SOLVENT ATOMS : 259 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.15000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : -0.22000 REMARK 3 B12 (A**2) : 0.07000 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): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.099 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.224 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3803 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5147 ; 1.773 ; 2.019 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 456 ; 7.181 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 165 ;35.238 ;24.364 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 652 ;13.917 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;20.984 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 534 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2912 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1739 ; 0.210 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2541 ; 0.305 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 296 ; 0.151 ; 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): 87 ; 0.217 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 32 ; 0.166 ; 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): 2341 ; 1.140 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3664 ; 1.695 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1683 ; 2.657 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1483 ; 3.913 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3BX9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-JAN-08. REMARK 100 THE DEPOSITION ID IS D_1000046070. 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 : 2.0 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 : NULL 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 : 52642 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.430 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 14.10 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL 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 (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 14.40 REMARK 200 R MERGE FOR SHELL (I) : 0.55600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.630 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: PDB ENTRY 1UIS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% W/V PEG 3350, 0.2M AMMONIUM REMARK 280 CITRATE TRIBASIC, 0.4M CITRIC ACID, PH 2.0, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 275.35333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 137.67667 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 206.51500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 68.83833 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 344.19167 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 275.35333 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 137.67667 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 68.83833 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 206.51500 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 344.19167 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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: 6210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 68.83833 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 MET A -11 REMARK 465 ARG A -10 REMARK 465 GLY A -9 REMARK 465 SER A -8 REMARK 465 HIS A -7 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 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 GLY A 229 REMARK 465 HIS A 230 REMARK 465 LYS A 231 REMARK 465 LEU A 232 REMARK 465 ASN A 233 REMARK 465 MET B -11 REMARK 465 ARG B -10 REMARK 465 GLY B -9 REMARK 465 SER B -8 REMARK 465 HIS B -7 REMARK 465 HIS B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 GLY B 229 REMARK 465 HIS B 230 REMARK 465 LYS B 231 REMARK 465 LEU B 232 REMARK 465 ASN B 233 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 323 O HOH B 270 6554 2.18 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 PHE A 69 55.42 -101.99 REMARK 500 PHE B 69 51.36 -97.31 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 CIT A 234 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CIT B 234 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CIT B 235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CIT A 235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CIT A 236 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CIT B 236 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 237 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 237 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1UIS RELATED DB: PDB REMARK 900 RED FLUORESCENT PROTEIN EQFP611 REMARK 900 RELATED ID: 3BXA RELATED DB: PDB REMARK 900 MONOMERIC FAR-RED FLUORESCENT PROTEIN MKATE CRYSTALLIZED AT PH 4.2 REMARK 900 RELATED ID: 3BXB RELATED DB: PDB REMARK 900 MONOMERIC FAR-RED FLUORESCENT PROTEIN MKATE CRYSTALLIZED AT PH 7.0 REMARK 900 RELATED ID: 3BXC RELATED DB: PDB REMARK 900 MONOMERIC FAR-RED FLUORESCENT PROTEIN MKATE CRYSTALLIZED AT PH 9.0 DBREF 3BX9 A -11 233 PDB 3BX9 3BX9 -11 233 DBREF 3BX9 B -11 233 PDB 3BX9 3BX9 -11 233 SEQRES 1 A 243 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER MET SEQRES 2 A 243 SER GLU LEU ILE THR GLU ASN MET HIS MET LYS LEU TYR SEQRES 3 A 243 MET GLU GLY THR VAL ASN ASN HIS HIS PHE LYS CYS THR SEQRES 4 A 243 SER GLU GLY GLU GLY LYS PRO TYR GLU GLY THR GLN THR SEQRES 5 A 243 MET ARG ILE LYS VAL VAL GLU GLY GLY PRO LEU PRO PHE SEQRES 6 A 243 ALA PHE ASP ILE LEU ALA THR SER PHE NRQ SER LYS THR SEQRES 7 A 243 PHE ILE ASN HIS THR GLN GLY ILE PRO ASP PHE PHE LYS SEQRES 8 A 243 GLN SER PHE PRO GLU GLY PHE THR TRP GLU ARG VAL THR SEQRES 9 A 243 THR TYR GLU ASP GLY GLY VAL LEU THR ALA THR GLN ASP SEQRES 10 A 243 THR SER LEU GLN ASP GLY CYS LEU ILE TYR ASN VAL LYS SEQRES 11 A 243 ILE ARG GLY VAL ASN PHE PRO SER ASN GLY PRO VAL MET SEQRES 12 A 243 GLN LYS LYS THR LEU GLY TRP GLU ALA SER THR GLU MET SEQRES 13 A 243 LEU TYR PRO ALA ASP GLY GLY LEU GLU GLY ARG SER ASP SEQRES 14 A 243 MET ALA LEU LYS LEU VAL GLY GLY GLY HIS LEU ILE CYS SEQRES 15 A 243 ASN LEU LYS THR THR TYR ARG SER LYS LYS PRO ALA LYS SEQRES 16 A 243 ASN LEU LYS MET PRO GLY VAL TYR TYR VAL ASP ARG ARG SEQRES 17 A 243 LEU GLU ARG ILE LYS GLU ALA ASP LYS GLU THR TYR VAL SEQRES 18 A 243 GLU GLN HIS GLU VAL ALA VAL ALA ARG TYR CYS ASP LEU SEQRES 19 A 243 PRO SER LYS LEU GLY HIS LYS LEU ASN SEQRES 1 B 243 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER MET SEQRES 2 B 243 SER GLU LEU ILE THR GLU ASN MET HIS MET LYS LEU TYR SEQRES 3 B 243 MET GLU GLY THR VAL ASN ASN HIS HIS PHE LYS CYS THR SEQRES 4 B 243 SER GLU GLY GLU GLY LYS PRO TYR GLU GLY THR GLN THR SEQRES 5 B 243 MET ARG ILE LYS VAL VAL GLU GLY GLY PRO LEU PRO PHE SEQRES 6 B 243 ALA PHE ASP ILE LEU ALA THR SER PHE NRQ SER LYS THR SEQRES 7 B 243 PHE ILE ASN HIS THR GLN GLY ILE PRO ASP PHE PHE LYS SEQRES 8 B 243 GLN SER PHE PRO GLU GLY PHE THR TRP GLU ARG VAL THR SEQRES 9 B 243 THR TYR GLU ASP GLY GLY VAL LEU THR ALA THR GLN ASP SEQRES 10 B 243 THR SER LEU GLN ASP GLY CYS LEU ILE TYR ASN VAL LYS SEQRES 11 B 243 ILE ARG GLY VAL ASN PHE PRO SER ASN GLY PRO VAL MET SEQRES 12 B 243 GLN LYS LYS THR LEU GLY TRP GLU ALA SER THR GLU MET SEQRES 13 B 243 LEU TYR PRO ALA ASP GLY GLY LEU GLU GLY ARG SER ASP SEQRES 14 B 243 MET ALA LEU LYS LEU VAL GLY GLY GLY HIS LEU ILE CYS SEQRES 15 B 243 ASN LEU LYS THR THR TYR ARG SER LYS LYS PRO ALA LYS SEQRES 16 B 243 ASN LEU LYS MET PRO GLY VAL TYR TYR VAL ASP ARG ARG SEQRES 17 B 243 LEU GLU ARG ILE LYS GLU ALA ASP LYS GLU THR TYR VAL SEQRES 18 B 243 GLU GLN HIS GLU VAL ALA VAL ALA ARG TYR CYS ASP LEU SEQRES 19 B 243 PRO SER LYS LEU GLY HIS LYS LEU ASN MODRES 3BX9 NRQ A 63 MET MODRES 3BX9 NRQ A 63 TYR MODRES 3BX9 NRQ A 63 GLY MODRES 3BX9 NRQ B 63 MET MODRES 3BX9 NRQ B 63 TYR MODRES 3BX9 NRQ B 63 GLY HET NRQ A 63 23 HET NRQ B 63 23 HET CIT A 234 13 HET CIT A 235 13 HET CIT A 236 13 HET GOL A 237 6 HET CIT B 234 13 HET CIT B 235 13 HET CIT B 236 13 HET GOL B 237 6 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 CIT CITRIC ACID HETNAM GOL GLYCEROL HETSYN NRQ CHROMOPHORE (MET-TYR-GLY) HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 NRQ 2(C16 H17 N3 O4 S) FORMUL 3 CIT 6(C6 H8 O7) FORMUL 6 GOL 2(C3 H8 O3) FORMUL 11 HOH *259(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 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 SHEET 1 A11 ASN A 71 HIS A 72 0 SHEET 2 A11 TYR A 210 ARG 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 ARG 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 VAL A 119 N TYR A 14 SHEET 7 A11 VAL A 101 GLN A 111 -1 N THR A 103 O ARG A 122 SHEET 8 A11 PHE A 88 TYR A 96 -1 N TRP A 90 O GLN A 106 SHEET 9 A11 HIS A 169 SER A 180 -1 O THR A 177 N GLU A 91 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 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 219 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 LEU A 147 O TYR A 193 SHEET 5 B 6 GLY A 153 LEU A 164 -1 O GLU 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 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 THR B 27 O LYS B 44 SHEET 5 C11 MET B 9 VAL B 19 -1 N MET B 15 O CYS B 26 SHEET 6 C11 CYS B 114 VAL B 124 1 O TYR B 117 N LYS B 12 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 THR B 94 O LEU B 102 SHEET 9 C11 HIS B 169 SER B 180 -1 O THR B 177 N GLU B 91 SHEET 10 C11 GLY B 153 LEU B 164 -1 N SER B 158 O LEU B 174 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 ARG B 220 1 O ALA B 219 N ASN B 71 SHEET 3 D 6 TYR B 193 ALA B 205 -1 N GLU B 200 O HIS B 214 SHEET 4 D 6 SER 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 GLU 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 LINK C PHE A 62 N1 NRQ A 63 1555 1555 1.30 LINK C3 NRQ A 63 N SER A 66 1555 1555 1.33 LINK C PHE B 62 N1 NRQ B 63 1555 1555 1.30 LINK C3 NRQ B 63 N SER B 66 1555 1555 1.33 CISPEP 1 GLY A 49 PRO A 50 0 -3.77 CISPEP 2 PHE A 84 PRO A 85 0 9.50 CISPEP 3 GLY B 49 PRO B 50 0 1.26 CISPEP 4 PHE B 84 PRO B 85 0 8.99 SITE 1 AC1 16 ASN A 20 ASN A 21 ASN A 125 PHE A 126 SITE 2 AC1 16 SER A 128 HOH A 279 HOH A 317 HOH A 318 SITE 3 AC1 16 HOH A 320 ALA B 150 ASP B 151 GLU B 155 SITE 4 AC1 16 THR B 177 ARG B 179 HOH B 240 HOH B 310 SITE 1 AC2 7 ASN B 8 GLU B 31 GLY B 32 LYS B 33 SITE 2 AC2 7 THR B 38 THR B 40 HIS B 214 SITE 1 AC3 12 ASP A 151 GLU A 155 THR A 177 ARG A 179 SITE 2 AC3 12 ASN B 20 ASN B 21 ASN B 125 PHE B 126 SITE 3 AC3 12 HOH B 264 HOH B 277 HOH B 323 HOH B 332 SITE 1 AC4 9 ASN A 71 THR A 73 ASP A 196 HOH A 283 SITE 2 AC4 9 HOH A 356 HOH A 363 ASP B 223 LEU B 224 SITE 3 AC4 9 HOH B 266 SITE 1 AC5 9 GLU A 31 LYS A 33 THR A 38 GLN A 39 SITE 2 AC5 9 THR A 40 HIS A 214 HOH A 350 SER B 226 SITE 3 AC5 9 HOH B 361 SITE 1 AC6 9 TYR A 14 LYS A 25 THR A 27 PRO B 85 SITE 2 AC6 9 LEU B 110 ASP B 112 GLY B 113 HOH B 272 SITE 3 AC6 9 HOH B 326 SITE 1 AC7 7 ASP B 98 ASN B 129 GLY B 130 PRO B 131 SITE 2 AC7 7 HOH B 295 HOH B 344 HOH B 365 SITE 1 AC8 6 ASP A 98 GLY A 130 PRO A 131 HOH A 292 SITE 2 AC8 6 HOH A 299 HOH A 346 CRYST1 67.852 67.852 413.030 90.00 90.00 120.00 P 65 2 2 24 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 0.014738 0.008509 0.000000 0.00000 SCALE2 0.000000 0.017018 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002421 0.00000