HEADER SIGNALING PROTEIN 26-JAN-16 5HSQ TITLE THE SURFACE ENGINEERED PHOTOSENSORY MODULE (PAS-GAF-PHY) OF THE TITLE 2 BACTERIAL PHYTOCHROME AGP1 (ATBPHP1) IN THE PR FORM, CHROMOPHORE TITLE 3 MODELLED WITH AN ENDOCYCLIC DOUBLE BOND IN PYRROLE RING A. COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACTERIOPHYTOCHROME PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 OTHER_DETAILS: THE RESIDUE NUMBERING IN THE PDB ENTRY DIFFERS FROM COMPND 7 THE ONE SHOWN IN THIS SEQUENCE ALIGNMENT. THE FIRST RESIDUE IN THE COMPND 8 PDB ENTRY IS 'LEU17' IN ACCORDANCE WITH THE SEQUENCE FOR THE ENTRY COMPND 9 AAT99575 (NCBI). THE RESPECTIVE NUMBERING WAS USED IN A NUMBER OF COMPND 10 PUBLICATIONS ON THIS PROTEIN, AND WE DID NOT CHANGE IT IN THIS ENTRY COMPND 11 FOR THE SAKE OF CONSISTENCY WITH PUBLISHED WORK AND BECAUSE THE TRUE COMPND 12 N-TERMINUS HAS NOT YET BEEN IDENTIFIED AT THE PROTEIN LEVEL. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AGROBACTERIUM FABRUM; SOURCE 3 ORGANISM_TAXID: 176299; SOURCE 4 STRAIN: C58 / ATCC 33970; SOURCE 5 GENE: ATU1990; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21B(+) KEYWDS SURFACE MUTATIONS, BILIN CHROMOPHORE, PHOTOISOMERIZATION, SIGNALING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.NAGANO,P.SCHEERER,K.ZUBOW,T.LAMPARTER,N.KRAUSS REVDAT 6 20-NOV-24 5HSQ 1 REMARK REVDAT 5 10-JAN-24 5HSQ 1 LINK REVDAT 4 06-SEP-17 5HSQ 1 REMARK REVDAT 3 05-OCT-16 5HSQ 1 JRNL REVDAT 2 10-AUG-16 5HSQ 1 JRNL REVDAT 1 03-AUG-16 5HSQ 0 JRNL AUTH S.NAGANO,P.SCHEERER,K.ZUBOW,N.MICHAEL,K.INOMATA,T.LAMPARTER, JRNL AUTH 2 N.KRAU JRNL TITL THE CRYSTAL STRUCTURES OF THE N-TERMINAL PHOTOSENSORY CORE JRNL TITL 2 MODULE OF AGROBACTERIUM PHYTOCHROME AGP1 AS PARALLEL AND JRNL TITL 3 ANTI-PARALLEL DIMERS. JRNL REF J.BIOL.CHEM. V. 291 20674 2016 JRNL REFN ESSN 1083-351X JRNL PMID 27466363 JRNL DOI 10.1074/JBC.M116.739136 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.31 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 46971 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) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2528 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) : 3447 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 190 REMARK 3 BIN FREE R VALUE : 0.2980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3715 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 55 REMARK 3 SOLVENT ATOMS : 349 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.93000 REMARK 3 B22 (A**2) : -0.93000 REMARK 3 B33 (A**2) : 1.86000 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): 0.130 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.127 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.098 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.454 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3988 ; 0.020 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3817 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5443 ; 2.048 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8784 ; 1.150 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 525 ; 6.315 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 171 ;35.889 ;23.567 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 656 ;15.131 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;16.785 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 601 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4591 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 911 ; 0.002 ; 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): 1995 ; 1.401 ; 1.818 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1994 ; 1.398 ; 1.817 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2504 ; 2.231 ; 2.718 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2505 ; 2.230 ; 2.719 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1993 ; 1.867 ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1994 ; 1.867 ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2923 ; 2.820 ; 3.654 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4756 ; 7.405 ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4623 ; 7.355 ; 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): 12 ;18.969 ; 5.000 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 : 3 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 17 A 311 REMARK 3 ORIGIN FOR THE GROUP (A): 14.2850 -24.5140 9.0570 REMARK 3 T TENSOR REMARK 3 T11: 0.2207 T22: 0.2102 REMARK 3 T33: 0.0491 T12: -0.0435 REMARK 3 T13: -0.0039 T23: 0.0738 REMARK 3 L TENSOR REMARK 3 L11: 0.9753 L22: 1.1001 REMARK 3 L33: 1.5019 L12: -0.3403 REMARK 3 L13: 0.6519 L23: 0.0418 REMARK 3 S TENSOR REMARK 3 S11: -0.1749 S12: 0.1310 S13: 0.1201 REMARK 3 S21: 0.2132 S22: -0.0038 S23: 0.0819 REMARK 3 S31: -0.2058 S32: 0.1291 S33: 0.1787 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 312 A 504 REMARK 3 ORIGIN FOR THE GROUP (A): 22.7790 -32.3820 -28.7340 REMARK 3 T TENSOR REMARK 3 T11: 0.1982 T22: 0.2546 REMARK 3 T33: 0.0580 T12: -0.0302 REMARK 3 T13: -0.0164 T23: 0.0196 REMARK 3 L TENSOR REMARK 3 L11: 1.1993 L22: 0.4773 REMARK 3 L33: 1.0032 L12: -0.7478 REMARK 3 L13: -0.4197 L23: 0.3492 REMARK 3 S TENSOR REMARK 3 S11: 0.0951 S12: 0.0539 S13: 0.0219 REMARK 3 S21: -0.0821 S22: -0.0183 S23: -0.0144 REMARK 3 S31: -0.0824 S32: 0.1069 S33: -0.0767 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 601 C 601 REMARK 3 ORIGIN FOR THE GROUP (A): 0.0000 0.0000 0.0000 REMARK 3 T TENSOR REMARK 3 T11: 0.1604 T22: 0.0653 REMARK 3 T33: 0.4254 T12: -0.0337 REMARK 3 T13: -0.0952 T23: 0.0101 REMARK 3 L TENSOR REMARK 3 L11: 2.9612 L22: 0.0747 REMARK 3 L33: 0.3159 L12: -0.2022 REMARK 3 L13: -0.1293 L23: -0.1272 REMARK 3 S TENSOR REMARK 3 S11: -0.0530 S12: -0.0504 S13: 1.0718 REMARK 3 S21: 0.0845 S22: 0.0134 S23: -0.1106 REMARK 3 S31: -0.1587 S32: -0.0063 S33: 0.0396 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 5HSQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-JAN-16. REMARK 100 THE DEPOSITION ID IS D_1000217649. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-SEP-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0718 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49518 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 34.670 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.56000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 2)9C, 2VEA (PHY DOMAIN) REMARK 200 REMARK 200 REMARK: BIPYRAMIDAL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.03 M DIETHYLENEGLYCOL, 0.03 M REMARK 280 TRIETHYLENEGLYCOL, 0.03 M TETRAETHYLENEGLYCOL, 0.03 M REMARK 280 PENTAETHYLENEGLYCOL, 20% GLYCEROL, 10% PEG8000, 0.05 M MES, 0.05 REMARK 280 M IMIDAZOLE PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 118.41950 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 34.67400 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 34.67400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 177.62925 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 34.67400 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 34.67400 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 59.20975 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 34.67400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 34.67400 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 177.62925 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 34.67400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 34.67400 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 59.20975 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 118.41950 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.0 KCAL/MOL 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 BIOMT1 2 0.000000 1.000000 0.000000 69.34800 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 -69.34800 REMARK 350 BIOMT3 2 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 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 HIS A 13 REMARK 465 THR A 14 REMARK 465 PRO A 15 REMARK 465 LYS A 16 REMARK 465 LEU A 505 REMARK 465 GLU A 506 REMARK 465 HIS A 507 REMARK 465 HIS A 508 REMARK 465 HIS A 509 REMARK 465 HIS A 510 REMARK 465 HIS A 511 REMARK 465 HIS A 512 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 43 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 60 CG1 CG2 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 ASP A 167 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 192 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 203 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 MET A 304 CG - SD - CE ANGL. DEV. = 12.0 DEGREES REMARK 500 GLN A 310 CB - CA - C ANGL. DEV. = 13.1 DEGREES REMARK 500 ARG A 488 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 488 NE - CZ - NH2 ANGL. DEV. = -4.5 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 ARG A 43 -71.34 -54.73 REMARK 500 SER A 139 -64.78 -96.95 REMARK 500 PRO A 141 -56.04 -13.25 REMARK 500 ASP A 395 -63.77 -129.93 REMARK 500 ASN A 401 77.56 -152.27 REMARK 500 ALA A 416 57.61 -147.59 REMARK 500 SER A 425 -178.84 78.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 602 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 167 OD1 REMARK 620 2 PHE A 168 O 79.3 REMARK 620 3 HOH A 772 O 131.9 135.8 REMARK 620 4 HOH A 801 O 145.7 67.4 73.8 REMARK 620 5 HOH A 869 O 81.0 75.8 79.5 83.3 REMARK 620 6 HOH A 931 O 76.6 150.5 73.7 137.6 116.3 REMARK 620 7 HOH A1004 O 96.7 86.0 114.1 89.0 161.8 80.3 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BLA A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IMD A 604 DBREF 5HSQ A 10 504 UNP Q7CY45 Q7CY45_AGRFC 1 495 SEQADV 5HSQ ALA A 86 UNP Q7CY45 GLU 77 ENGINEERED MUTATION SEQADV 5HSQ ALA A 87 UNP Q7CY45 GLU 78 ENGINEERED MUTATION SEQADV 5HSQ ALA A 336 UNP Q7CY45 GLU 327 ENGINEERED MUTATION SEQADV 5HSQ ALA A 337 UNP Q7CY45 LYS 328 ENGINEERED MUTATION SEQADV 5HSQ LEU A 505 UNP Q7CY45 EXPRESSION TAG SEQADV 5HSQ GLU A 506 UNP Q7CY45 EXPRESSION TAG SEQADV 5HSQ HIS A 507 UNP Q7CY45 EXPRESSION TAG SEQADV 5HSQ HIS A 508 UNP Q7CY45 EXPRESSION TAG SEQADV 5HSQ HIS A 509 UNP Q7CY45 EXPRESSION TAG SEQADV 5HSQ HIS A 510 UNP Q7CY45 EXPRESSION TAG SEQADV 5HSQ HIS A 511 UNP Q7CY45 EXPRESSION TAG SEQADV 5HSQ HIS A 512 UNP Q7CY45 EXPRESSION TAG SEQRES 1 A 503 MET SER SER HIS THR PRO LYS LEU ASP SER CYS GLY ALA SEQRES 2 A 503 GLU PRO ILE HIS ILE PRO GLY ALA ILE GLN GLU HIS GLY SEQRES 3 A 503 ALA LEU LEU VAL LEU SER ALA ARG GLU PHE SER VAL VAL SEQRES 4 A 503 GLN ALA SER ASP ASN LEU ALA ASN TYR ILE GLY VAL ASP SEQRES 5 A 503 LEU PRO ILE GLY ALA VAL ALA THR GLU ALA ASN LEU PRO SEQRES 6 A 503 PHE ILE SER VAL LEU SER ALA TRP TYR SER GLY ALA ALA SEQRES 7 A 503 SER ASN PHE ARG TYR ALA TRP ALA GLU LYS LYS LEU ASP SEQRES 8 A 503 VAL SER ALA HIS ARG SER GLY THR LEU VAL ILE LEU GLU SEQRES 9 A 503 VAL GLU LYS ALA GLY VAL GLY GLU SER ALA GLU LYS LEU SEQRES 10 A 503 MET GLY GLU LEU THR SER LEU ALA LYS TYR LEU ASN SER SEQRES 11 A 503 ALA PRO SER LEU GLU ASP ALA LEU PHE ARG THR ALA GLN SEQRES 12 A 503 LEU VAL SER SER ILE SER GLY HIS ASP ARG THR LEU ILE SEQRES 13 A 503 TYR ASP PHE GLY LEU ASP TRP SER GLY HIS VAL VAL ALA SEQRES 14 A 503 GLU ALA GLY SER GLY ALA LEU PRO SER TYR LEU GLY LEU SEQRES 15 A 503 ARG PHE PRO ALA GLY ASP ILE PRO PRO GLN ALA ARG GLN SEQRES 16 A 503 LEU TYR THR ILE ASN ARG LEU ARG MET ILE PRO ASP VAL SEQRES 17 A 503 ASP TYR LYS PRO VAL PRO ILE ARG PRO GLU VAL ASN ALA SEQRES 18 A 503 GLU THR GLY ALA VAL LEU ASP MET SER PHE SER GLN LEU SEQRES 19 A 503 ARG SER VAL SER PRO VAL HIS LEU GLU TYR MET ARG ASN SEQRES 20 A 503 MET GLY THR ALA ALA SER MET SER VAL SER ILE VAL VAL SEQRES 21 A 503 ASN GLY ALA LEU TRP GLY LEU ILE ALA CYS HIS HIS ALA SEQRES 22 A 503 THR PRO HIS SER VAL SER LEU ALA VAL ARG GLU ALA CYS SEQRES 23 A 503 ASP PHE ALA ALA GLN LEU LEU SER MET ARG ILE ALA MET SEQRES 24 A 503 GLU GLN SER SER GLN ASP ALA SER ARG ARG VAL GLU LEU SEQRES 25 A 503 GLY HIS ILE GLN ALA ARG LEU LEU LYS GLY MET ALA ALA SEQRES 26 A 503 ALA ALA ALA TRP VAL ASP GLY LEU LEU GLY GLY GLU GLY SEQRES 27 A 503 GLU ARG GLU ASP LEU LEU LYS GLN VAL GLY ALA ASP GLY SEQRES 28 A 503 ALA ALA LEU VAL LEU GLY ASP ASP TYR GLU LEU VAL GLY SEQRES 29 A 503 ASN THR PRO SER ARG GLU GLN VAL GLU GLU LEU ILE LEU SEQRES 30 A 503 TRP LEU GLY GLU ARG GLU ILE ALA ASP VAL PHE ALA THR SEQRES 31 A 503 ASP ASN LEU ALA GLY ASN TYR PRO THR ALA ALA ALA TYR SEQRES 32 A 503 ALA SER VAL ALA SER GLY ILE ILE ALA MET ARG VAL SER SEQRES 33 A 503 GLU LEU HIS GLY SER TRP LEU ILE TRP PHE ARG PRO GLU SEQRES 34 A 503 VAL ILE LYS THR VAL ARG TRP GLY GLY ASP PRO HIS LYS SEQRES 35 A 503 THR VAL GLN GLU SER GLY ARG ILE HIS PRO ARG LYS SER SEQRES 36 A 503 PHE GLU ILE TRP LYS GLU GLN LEU ARG ASN THR SER PHE SEQRES 37 A 503 PRO TRP SER GLU PRO GLU LEU ALA ALA ALA ARG GLU LEU SEQRES 38 A 503 ARG GLY ALA ILE ILE GLY ILE VAL LEU ARG LYS THR GLU SEQRES 39 A 503 GLU LEU GLU HIS HIS HIS HIS HIS HIS HET BLA A 601 43 HET CA A 602 1 HET GOL A 603 6 HET IMD A 604 5 HETNAM BLA BILIVERDINE IX ALPHA HETNAM CA CALCIUM ION HETNAM GOL GLYCEROL HETNAM IMD IMIDAZOLE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 BLA C33 H34 N4 O6 FORMUL 3 CA CA 2+ FORMUL 4 GOL C3 H8 O3 FORMUL 5 IMD C3 H5 N2 1+ FORMUL 6 HOH *349(H2 O) HELIX 1 AA1 ASP A 18 GLU A 23 1 6 HELIX 2 AA2 ASN A 53 GLY A 59 1 7 HELIX 3 AA3 PHE A 75 SER A 84 1 10 HELIX 4 AA4 ALA A 95 LYS A 97 5 3 HELIX 5 AA5 SER A 122 ASN A 138 1 17 HELIX 6 AA6 SER A 142 GLY A 159 1 18 HELIX 7 AA7 PRO A 194 ILE A 198 5 5 HELIX 8 AA8 PRO A 199 ASN A 209 1 11 HELIX 9 AA9 SER A 247 GLY A 258 1 12 HELIX 10 AB1 SER A 288 ALA A 335 1 48 HELIX 11 AB2 VAL A 339 GLY A 344 1 6 HELIX 12 AB3 GLY A 345 GLN A 355 1 11 HELIX 13 AB4 SER A 377 GLU A 390 1 14 HELIX 14 AB5 ASN A 401 TYR A 406 1 6 HELIX 15 AB6 PRO A 407 ALA A 411 5 5 HELIX 16 AB7 TYR A 412 SER A 417 1 6 HELIX 17 AB8 SER A 480 GLU A 503 1 24 SHEET 1 AA1 7 ALA A 30 ILE A 31 0 SHEET 2 AA1 7 VAL A 222 ARG A 225 -1 O VAL A 222 N ILE A 31 SHEET 3 AA1 7 VAL A 47 SER A 51 -1 N ALA A 50 O ARG A 225 SHEET 4 AA1 7 GLY A 35 SER A 41 -1 N VAL A 39 O VAL A 48 SHEET 5 AA1 7 LEU A 109 LYS A 116 -1 O LEU A 112 N LEU A 38 SHEET 6 AA1 7 LEU A 99 SER A 106 -1 N SER A 102 O GLU A 113 SHEET 7 AA1 7 ASN A 89 TRP A 94 -1 N TYR A 92 O VAL A 101 SHEET 1 AA2 6 ARG A 192 PHE A 193 0 SHEET 2 AA2 6 GLY A 174 GLY A 181 -1 N GLY A 174 O PHE A 193 SHEET 3 AA2 6 ARG A 162 PHE A 168 -1 N ASP A 167 O HIS A 175 SHEET 4 AA2 6 ALA A 272 HIS A 281 -1 O LEU A 276 N TYR A 166 SHEET 5 AA2 6 ALA A 261 VAL A 269 -1 N MET A 263 O CYS A 279 SHEET 6 AA2 6 LEU A 211 ILE A 214 -1 N ILE A 214 O SER A 262 SHEET 1 AA3 5 ASP A 368 GLY A 373 0 SHEET 2 AA3 5 GLY A 360 LEU A 365 -1 N ALA A 361 O VAL A 372 SHEET 3 AA3 5 TRP A 431 ARG A 436 -1 O TRP A 431 N VAL A 364 SHEET 4 AA3 5 GLY A 418 ARG A 423 -1 N MET A 422 O LEU A 432 SHEET 5 AA3 5 PHE A 397 THR A 399 -1 N PHE A 397 O ALA A 421 SHEET 1 AA4 2 LYS A 441 GLY A 446 0 SHEET 2 AA4 2 ILE A 467 LEU A 472 -1 O TRP A 468 N TRP A 445 SHEET 1 AA5 2 THR A 452 GLU A 455 0 SHEET 2 AA5 2 ARG A 458 PRO A 461 -1 O HIS A 460 N VAL A 453 LINK SG CYS A 20 CBC BLA A 601 1555 1555 1.89 LINK OD1 ASP A 167 CA CA A 602 1555 1555 2.45 LINK O PHE A 168 CA CA A 602 1555 1555 2.35 LINK CA CA A 602 O HOH A 772 1555 1555 2.41 LINK CA CA A 602 O HOH A 801 1555 1555 2.56 LINK CA CA A 602 O HOH A 869 1555 1555 2.24 LINK CA CA A 602 O HOH A 931 1555 1555 2.63 LINK CA CA A 602 O HOH A1004 1555 1555 2.46 CISPEP 1 ARG A 225 PRO A 226 0 -3.85 CISPEP 2 ARG A 225 PRO A 226 0 -9.80 SITE 1 AC1 25 CYS A 20 TYR A 166 PHE A 193 GLY A 196 SITE 2 AC1 25 ASP A 197 ILE A 198 PRO A 199 TYR A 206 SITE 3 AC1 25 ARG A 244 VAL A 246 SER A 247 VAL A 249 SITE 4 AC1 25 HIS A 250 TYR A 253 MET A 257 SER A 262 SITE 5 AC1 25 SER A 264 HIS A 280 ILE A 459 PRO A 461 SITE 6 AC1 25 HOH A 766 HOH A 777 HOH A 883 HOH A 900 SITE 7 AC1 25 HOH A 918 SITE 1 AC2 7 ASP A 167 PHE A 168 HOH A 772 HOH A 801 SITE 2 AC2 7 HOH A 869 HOH A 931 HOH A1004 SITE 1 AC3 8 ARG A 162 ALA A 180 GLY A 181 GLY A 183 SITE 2 AC3 8 LEU A 185 PRO A 186 SER A 187 HOH A 800 SITE 1 AC4 4 GLN A 32 ARG A 212 MET A 213 GLN A 242 CRYST1 69.348 69.348 236.839 90.00 90.00 90.00 P 43 21 2 8 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 0.014420 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014420 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004222 0.00000