PDB Short entry for 3S7Q HEADER FLUORESCENT PROTEIN 26-MAY-11 3S7Q TITLE CRYSTAL STRUCTURE OF A MONOMERIC INFRARED FLUORESCENT DEINOCOCCUS TITLE 2 RADIODURANS BACTERIOPHYTOCHROME CHROMOPHORE BINDING DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACTERIOPHYTOCHROME; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MONOMERIC CHROMOPHORE BINIDNG DOMAIN (UNP RESIDUES 1-321); COMPND 5 SYNONYM: PHYTOCHROME-LIKE PROTEIN; COMPND 6 EC: 2.7.13.3; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DEINOCOCCUS RADIODURANS; SOURCE 3 ORGANISM_TAXID: 1299; SOURCE 4 GENE: BPHP, DR_A0050; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS BILIVERDIN, PAS, GAF, PHYTOCHROME, BACTERIOPHYTOCHROME, KEYWDS 2 PHOTORECEPTOR, FLUORESCENT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.E.AULDRIDGE,K.A.SATYSHUR,K.T.FOREST REVDAT 3 13-SEP-23 3S7Q 1 COMPND REMARK SEQADV HETNAM REVDAT 3 2 1 LINK REVDAT 2 28-NOV-12 3S7Q 1 JRNL REVDAT 1 11-JAN-12 3S7Q 0 JRNL AUTH M.E.AULDRIDGE,K.A.SATYSHUR,D.M.ANSTROM,K.T.FOREST JRNL TITL STRUCTURE-GUIDED ENGINEERING ENHANCES A PHYTOCHROME-BASED JRNL TITL 2 INFRARED FLUORESCENT PROTEIN. JRNL REF J.BIOL.CHEM. V. 287 7000 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22210774 JRNL DOI 10.1074/JBC.M111.295121 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 34609 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1822 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) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.79 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2268 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.79 REMARK 3 BIN R VALUE (WORKING SET) : 0.1990 REMARK 3 BIN FREE R VALUE SET COUNT : 113 REMARK 3 BIN FREE R VALUE : 0.2250 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2364 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 103 REMARK 3 SOLVENT ATOMS : 316 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 0.04000 REMARK 3 B33 (A**2) : -0.04000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.10000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.116 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.110 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.064 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.572 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2563 ; 0.008 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 1727 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3519 ; 1.552 ; 1.999 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4214 ; 0.965 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 328 ; 6.188 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 109 ;38.417 ;23.119 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 390 ;12.202 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;15.036 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 396 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2863 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 508 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1583 ; 0.640 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 627 ; 0.062 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2559 ; 1.199 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 978 ; 1.420 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 947 ; 2.416 ; 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 7 A 130 REMARK 3 ORIGIN FOR THE GROUP (A): -9.1902 36.4105 21.4264 REMARK 3 T TENSOR REMARK 3 T11: 0.1131 T22: 0.0456 REMARK 3 T33: 0.0328 T12: -0.0243 REMARK 3 T13: -0.0180 T23: 0.0051 REMARK 3 L TENSOR REMARK 3 L11: 0.6631 L22: 0.4440 REMARK 3 L33: 1.2653 L12: -0.4752 REMARK 3 L13: -0.0584 L23: 0.3933 REMARK 3 S TENSOR REMARK 3 S11: -0.0818 S12: -0.0957 S13: -0.0217 REMARK 3 S21: -0.0203 S22: 0.0704 S23: 0.0181 REMARK 3 S31: -0.1996 S32: -0.0002 S33: 0.0114 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 138 A 334 REMARK 3 ORIGIN FOR THE GROUP (A): -20.4423 20.7547 10.5859 REMARK 3 T TENSOR REMARK 3 T11: 0.0761 T22: 0.0539 REMARK 3 T33: 0.0640 T12: -0.0301 REMARK 3 T13: -0.0026 T23: 0.0012 REMARK 3 L TENSOR REMARK 3 L11: 0.6475 L22: 0.4338 REMARK 3 L33: 0.4227 L12: 0.3956 REMARK 3 L13: 0.4450 L23: 0.1350 REMARK 3 S TENSOR REMARK 3 S11: 0.0816 S12: -0.1015 S13: 0.0486 REMARK 3 S21: 0.0185 S22: -0.0605 S23: 0.0873 REMARK 3 S31: 0.0483 S32: -0.0584 S33: -0.0210 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL PARAMETERS FOR MASK CACLULATION 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 3S7Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JUL-11. REMARK 100 THE DEPOSITION ID IS D_1000065866. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAR-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9785 REMARK 200 MONOCHROMATOR : SI(111) 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 : 36431 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.748 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.22500 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.4 REMARK 200 STARTING MODEL: PDB ENTRY 2O9C REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3% V/V PEG 1000, 20% V/V ETHANOL, 6% REMARK 280 V/V GLYCEROL, 0.1M PHOSPHATE CITRATE, PH 4.2, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 47.56450 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.53600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 47.56450 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.53600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 -13 REMARK 465 ALA A -12 REMARK 465 SER A -11 REMARK 465 MET A -10 REMARK 465 THR A -9 REMARK 465 GLY A -8 REMARK 465 GLY A -7 REMARK 465 GLN A -6 REMARK 465 GLN A -5 REMARK 465 MET A -4 REMARK 465 GLY A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 ARG A 3 REMARK 465 ASP A 4 REMARK 465 PRO A 5 REMARK 465 LEU A 6 REMARK 465 ALA A 131 REMARK 465 TRP A 132 REMARK 465 ASP A 133 REMARK 465 SER A 134 REMARK 465 THR A 135 REMARK 465 GLY A 136 REMARK 465 PRO A 137 REMARK 465 HIS A 324 REMARK 465 HIS A 325 REMARK 465 HIS A 326 REMARK 465 HIS A 327 REMARK 465 HIS A 328 REMARK 465 HIS A 329 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 O HOH A 347 O HOH A 464 2.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 CYS A 24 CA - CB - SG ANGL. DEV. = 7.0 DEGREES 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 23 34.74 -146.01 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 LBV A 330 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LBW A 331 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 332 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 333 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 334 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2O9C RELATED DB: PDB REMARK 900 DRCBD Y307S REMARK 900 RELATED ID: 2O9B RELATED DB: PDB REMARK 900 SAME AS 2O9C AT LOWER RESOLUTION REMARK 900 RELATED ID: 1ZTU RELATED DB: PDB REMARK 900 SAME AS 2O9C BUT WITH A PRO TO THR SUBSTITUTION AT POSITION 240 AND REMARK 900 TYROSINE AT POSITION 307 REMARK 900 RELATED ID: 3S7N RELATED DB: PDB REMARK 900 RELATED ID: 3S7O RELATED DB: PDB REMARK 900 RELATED ID: 3S7P RELATED DB: PDB DBREF 3S7Q A 1 321 UNP Q9RZA4 BPHY_DEIRA 1 321 SEQADV 3S7Q MET A -13 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q ALA A -12 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q SER A -11 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q MET A -10 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q THR A -9 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q GLY A -8 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q GLY A -7 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q GLN A -6 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q GLN A -5 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q MET A -4 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q GLY A -3 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q ARG A -2 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q GLY A -1 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q SER A 0 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q SER A 145 UNP Q9RZA4 PHE 145 ENGINEERED MUTATION SEQADV 3S7Q HIS A 207 UNP Q9RZA4 ASP 207 ENGINEERED MUTATION SEQADV 3S7Q PHE A 263 UNP Q9RZA4 TYR 263 ENGINEERED MUTATION SEQADV 3S7Q GLU A 311 UNP Q9RZA4 LEU 311 ENGINEERED MUTATION SEQADV 3S7Q GLU A 314 UNP Q9RZA4 LEU 314 ENGINEERED MUTATION SEQADV 3S7Q LEU A 322 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q GLU A 323 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q HIS A 324 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q HIS A 325 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q HIS A 326 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q HIS A 327 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q HIS A 328 UNP Q9RZA4 EXPRESSION TAG SEQADV 3S7Q HIS A 329 UNP Q9RZA4 EXPRESSION TAG SEQRES 1 A 343 MET ALA SER MET THR GLY GLY GLN GLN MET GLY ARG GLY SEQRES 2 A 343 SER MET SER ARG ASP PRO LEU PRO PHE PHE PRO PRO LEU SEQRES 3 A 343 TYR LEU GLY GLY PRO GLU ILE THR THR GLU ASN CYS GLU SEQRES 4 A 343 ARG GLU PRO ILE HIS ILE PRO GLY SER ILE GLN PRO HIS SEQRES 5 A 343 GLY ALA LEU LEU THR ALA ASP GLY HIS SER GLY GLU VAL SEQRES 6 A 343 LEU GLN MET SER LEU ASN ALA ALA THR PHE LEU GLY GLN SEQRES 7 A 343 GLU PRO THR VAL LEU ARG GLY GLN THR LEU ALA ALA LEU SEQRES 8 A 343 LEU PRO GLU GLN TRP PRO ALA LEU GLN ALA ALA LEU PRO SEQRES 9 A 343 PRO GLY CYS PRO ASP ALA LEU GLN TYR ARG ALA THR LEU SEQRES 10 A 343 ASP TRP PRO ALA ALA GLY HIS LEU SER LEU THR VAL HIS SEQRES 11 A 343 ARG VAL GLY GLU LEU LEU ILE LEU GLU PHE GLU PRO THR SEQRES 12 A 343 GLU ALA TRP ASP SER THR GLY PRO HIS ALA LEU ARG ASN SEQRES 13 A 343 ALA MET SER ALA LEU GLU SER ALA PRO ASN LEU ARG ALA SEQRES 14 A 343 LEU ALA GLU VAL ALA THR GLN THR VAL ARG GLU LEU THR SEQRES 15 A 343 GLY PHE ASP ARG VAL MET LEU TYR LYS PHE ALA PRO ASP SEQRES 16 A 343 ALA THR GLY GLU VAL ILE ALA GLU ALA ARG ARG GLU GLY SEQRES 17 A 343 LEU HIS ALA PHE LEU GLY HIS ARG PHE PRO ALA SER HIS SEQRES 18 A 343 ILE PRO ALA GLN ALA ARG ALA LEU TYR THR ARG HIS LEU SEQRES 19 A 343 LEU ARG LEU THR ALA ASP THR ARG ALA ALA ALA VAL PRO SEQRES 20 A 343 LEU ASP PRO VAL LEU ASN PRO GLN THR ASN ALA PRO THR SEQRES 21 A 343 PRO LEU GLY GLY ALA VAL LEU ARG ALA THR SER PRO MET SEQRES 22 A 343 HIS MET GLN PHE LEU ARG ASN MET GLY VAL GLY SER SER SEQRES 23 A 343 LEU SER VAL SER VAL VAL VAL GLY GLY GLN LEU TRP GLY SEQRES 24 A 343 LEU ILE ALA CYS HIS HIS GLN THR PRO TYR VAL LEU PRO SEQRES 25 A 343 PRO ASP LEU ARG THR THR LEU GLU TYR LEU GLY ARG GLU SEQRES 26 A 343 LEU SER GLU GLN VAL GLN VAL LYS GLU ALA LEU GLU HIS SEQRES 27 A 343 HIS HIS HIS HIS HIS HET LBV A 330 77 HET LBW A 331 77 HET GOL A 332 14 HET GOL A 333 14 HET PO4 A 334 5 HETNAM LBV 3-[2-[(Z)-[3-(2-CARBOXYETHYL)-5-[(Z)-(4-ETHENYL-3- HETNAM 2 LBV METHYL-5-OXIDANYLIDENE-PYRROL-2-YLIDENE)METHYL]-4- HETNAM 3 LBV METHYL-PYRROL-1-IUM -2-YLIDENE]METHYL]-5-[(Z)-[(3E)-3- HETNAM 4 LBV ETHYLIDENE-4-METHYL-5-OXIDANYLIDENE-PYRROLIDIN-2- HETNAM 5 LBV YLIDENE]METHYL]-4-METHYL-1H-PYRROL-3- YL]PROPANOIC HETNAM 6 LBV ACID HETNAM LBW 3-[2-[(Z)-[5-[(Z)-(4-ETHENYL-3-METHYL-5-OXIDANYLIDENE- HETNAM 2 LBW PYRROL-2-YLIDENE)METHYL]-3-(3-HYDROXY-3-OXOPROPYL)-4- HETNAM 3 LBW METHYL-PYRROL-1-IUM-2-YLIDENE]METHYL]-5-[(Z)-[(3E,4R)- HETNAM 4 LBW 3-ETHYLIDENE-4-METHYL-5-OXIDANYLIDENE-PYRROLIDIN-2- HETNAM 5 LBW YLIDENE]METHYL]-4-METHYL-1H-PYRROL-3-YL]PROPANOIC ACID HETNAM GOL GLYCEROL HETNAM PO4 PHOSPHATE ION HETSYN LBV 2(R),3(E)- PHYTOCHROMOBILIN HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 LBV C33 H37 N4 O6 1+ FORMUL 3 LBW C33 H37 N4 O6 1+ FORMUL 4 GOL 2(C3 H8 O3) FORMUL 6 PO4 O4 P 3- FORMUL 7 HOH *316(H2 O) HELIX 1 1 PRO A 11 GLY A 15 5 5 HELIX 2 2 ASN A 23 GLU A 27 5 5 HELIX 3 3 ASN A 57 GLY A 63 1 7 HELIX 4 4 GLU A 65 ARG A 70 1 6 HELIX 5 5 THR A 73 LEU A 78 1 6 HELIX 6 6 GLN A 81 LEU A 89 1 9 HELIX 7 7 ALA A 139 ALA A 150 1 12 HELIX 8 8 ASN A 152 GLY A 169 1 18 HELIX 9 9 PRO A 204 ILE A 208 5 5 HELIX 10 10 PRO A 209 HIS A 219 1 11 HELIX 11 11 SER A 257 MET A 267 1 11 HELIX 12 12 PRO A 298 GLU A 323 1 26 SHEET 1 A 7 SER A 34 ILE A 35 0 SHEET 2 A 7 VAL A 232 ASP A 235 -1 O VAL A 232 N ILE A 35 SHEET 3 A 7 VAL A 51 SER A 55 -1 N MET A 54 O ASP A 235 SHEET 4 A 7 ALA A 40 ASP A 45 -1 N THR A 43 O LEU A 52 SHEET 5 A 7 LEU A 121 PRO A 128 -1 O LEU A 124 N LEU A 42 SHEET 6 A 7 GLY A 109 VAL A 118 -1 N SER A 112 O GLU A 127 SHEET 7 A 7 TYR A 99 TRP A 105 -1 N TRP A 105 O GLY A 109 SHEET 1 B 6 ARG A 202 PHE A 203 0 SHEET 2 B 6 GLY A 184 ARG A 191 -1 N GLY A 184 O PHE A 203 SHEET 3 B 6 ARG A 172 PHE A 178 -1 N LYS A 177 O GLU A 185 SHEET 4 B 6 GLN A 282 HIS A 291 -1 O ALA A 288 N MET A 174 SHEET 5 B 6 SER A 271 VAL A 279 -1 N LEU A 273 O CYS A 289 SHEET 6 B 6 LEU A 221 THR A 224 -1 N THR A 224 O SER A 272 LINK SG CYS A 24 CBAALBV A 330 1555 1555 1.82 LINK SG CYS A 24 CBABLBW A 331 1555 1555 1.82 CISPEP 1 ASP A 235 PRO A 236 0 -10.57 SITE 1 AC1 23 CYS A 24 MET A 174 TYR A 176 PHE A 203 SITE 2 AC1 23 HIS A 207 ILE A 208 PRO A 209 TYR A 216 SITE 3 AC1 23 ARG A 254 THR A 256 SER A 257 MET A 259 SITE 4 AC1 23 HIS A 260 PHE A 263 SER A 272 SER A 274 SITE 5 AC1 23 HIS A 290 HOH A 335 HOH A 341 HOH A 342 SITE 6 AC1 23 HOH A 350 HOH A 352 HOH A 468 SITE 1 AC2 24 CYS A 24 MET A 174 TYR A 176 PHE A 203 SITE 2 AC2 24 SER A 206 HIS A 207 ILE A 208 PRO A 209 SITE 3 AC2 24 TYR A 216 ARG A 254 THR A 256 SER A 257 SITE 4 AC2 24 MET A 259 HIS A 260 PHE A 263 SER A 272 SITE 5 AC2 24 SER A 274 HIS A 290 HOH A 335 HOH A 341 SITE 6 AC2 24 HOH A 342 HOH A 350 HOH A 352 HOH A 468 SITE 1 AC3 8 ARG A 172 LEU A 195 HIS A 196 MET A 267 SITE 2 AC3 8 GLY A 268 HIS A 290 GLN A 292 HOH A 518 SITE 1 AC4 8 LEU A 215 HIS A 219 PRO A 247 LEU A 248 SITE 2 AC4 8 GLY A 249 GLY A 250 HOH A 343 HOH A 628 SITE 1 AC5 5 ARG A 165 GLU A 193 ARG A 202 HOH A 545 SITE 2 AC5 5 HOH A 644 CRYST1 95.129 55.072 69.969 90.00 92.23 90.00 C 1 2 1 4 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 0.010512 0.000000 0.000409 0.00000 SCALE2 0.000000 0.018158 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014303 0.00000