HEADER UNKNOWN FUNCTION 17-FEB-15 4Y9Q OBSLTE 21-DEC-16 4Y9Q 5MF5 TITLE PA3825-EAL MG-CDG STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PA3825-EAL; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA PAO1; SOURCE 3 ORGANISM_TAXID: 208964; SOURCE 4 GENE: PA3825; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS EAL, CYCLIC DI-GMP, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR S.HORRELL,D.BELLINI,R.STRANGE,A.WAGNER,M.WALSH REVDAT 2 21-DEC-16 4Y9Q 1 REVDAT 1 09-MAR-16 4Y9Q 0 JRNL AUTH D.BELLINI,S.HORRELL,A.WAGNER,R.STRANGE,A.HITCHIN,J.S.WEBB, JRNL AUTH 2 I.TEWS,M.A.WALCH JRNL TITL STRUCTURE OF PA3825 FROM P. AERUGINOSA BOUND TO CYCLIC JRNL TITL 2 DI-GMP AND PGPG: NEW INSIGHTS FOR A POTENTIAL THREE-METAL JRNL TITL 3 CATALYTIC MECHANISM OF EAL DOMAINS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.77 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.77 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 27262 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1427 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) : 1.77 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.82 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1940 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.81 REMARK 3 BIN R VALUE (WORKING SET) : 0.2830 REMARK 3 BIN FREE R VALUE SET COUNT : 119 REMARK 3 BIN FREE R VALUE : 0.3210 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1999 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 54 REMARK 3 SOLVENT ATOMS : 179 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.22 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.08000 REMARK 3 B22 (A**2) : 1.08000 REMARK 3 B33 (A**2) : -2.16000 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): 0.125 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.126 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.102 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.281 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2193 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2079 ; 0.005 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3001 ; 2.027 ; 2.015 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4791 ; 0.941 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 275 ; 6.294 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 99 ;35.350 ;23.030 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 365 ;14.337 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;21.314 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 333 ; 0.117 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2491 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 500 ; 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): 1073 ; 3.284 ; 3.043 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1072 ; 3.284 ; 3.042 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1357 ; 4.540 ; 4.541 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1358 ; 4.539 ; 4.541 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1120 ; 4.103 ; 3.477 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1119 ; 4.105 ; 3.478 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1645 ; 6.030 ; 5.034 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2668 ; 8.722 ;25.561 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2668 ; 8.720 ;25.559 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4Y9Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-FEB-15. REMARK 100 THE DEPOSITION ID IS D_1000207109. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.1 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27263 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.770 REMARK 200 RESOLUTION RANGE LOW (A) : 58.320 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.77 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.82 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.70500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 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: 4Y9M REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.8 M SODIUM PHOSPHATE MONOBASIC, 1.2 REMARK 280 M POTASSIUM PHOSPHATE DIBASIC AND 0.1 M SODIUM ACETATE PH 4.5, REMARK 280 0.2 M MAGNESIUM CHLORIDE, PH 7.1, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K 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 67.86500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 32.29500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 32.29500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 101.79750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 32.29500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 32.29500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 33.93250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 32.29500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 32.29500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 101.79750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 32.29500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 32.29500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 33.93250 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 67.86500 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 TOTAL BURIED SURFACE AREA: 1620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 418 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 449 LIES ON A SPECIAL POSITION. 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 SER A 1 REMARK 465 ARG A 2 REMARK 465 ARG A 3 REMARK 465 VAL A 4 REMARK 465 GLY A 262 REMARK 465 ALA A 263 REMARK 465 SER A 264 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 565 O HOH A 579 1.74 REMARK 500 O HOH A 532 O HOH A 579 1.97 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 ARG A 53 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ASP A 178 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ARG A 231 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 231 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 243 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG A 243 NE - CZ - NH2 ANGL. DEV. = -6.0 DEGREES REMARK 500 GLN A 261 N - CA - CB ANGL. DEV. = -15.4 DEGREES REMARK 500 GLN A 261 N - CA - C ANGL. DEV. = 17.4 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 PHE A 57 -22.04 -142.92 REMARK 500 CYS A 104 38.70 -99.81 REMARK 500 ILE A 192 -41.59 -140.94 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 MG A 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 39 OE2 REMARK 620 2 GLU A 130 OE1 85.8 REMARK 620 3 ASP A 160 OD2 159.9 79.5 REMARK 620 4 C2E A 302 O21 96.7 177.4 98.2 REMARK 620 5 HOH A 560 O 84.0 90.9 109.6 88.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 40 O REMARK 620 2 C2E A 302 O6 125.4 REMARK 620 3 HOH A 566 O 146.3 65.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 305 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 161 OD1 REMARK 620 2 ASP A 183 OD1 88.5 REMARK 620 3 C2E A 302 O11 82.7 171.2 REMARK 620 4 HOH A 497 O 157.8 87.6 100.4 REMARK 620 5 HOH A 562 O 69.8 114.8 61.7 92.2 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue C2E A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 305 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Y9M RELATED DB: PDB REMARK 900 4Y9M IS THE SAME PROTEIN WITHOUT METALS OR LIGANDS BOUND. REMARK 900 RELATED ID: 4Y9N RELATED DB: PDB REMARK 900 4Y9N IS THE SAME PROTEIN COCRYSTALLISED WITH MAGNESIUM CHLORIDE REMARK 900 WITH NO METALS OR LIGANDS BOUND. REMARK 900 RELATED ID: 4Y8E RELATED DB: PDB REMARK 900 4Y9N IS THE SAME PROTEIN COCRYSTALLISED WITH CALCIUM CHLORIDE WITH REMARK 900 NO LIGAND BOUND. REMARK 900 RELATED ID: 4Y9O RELATED DB: PDB REMARK 900 4Y9N IS THE SAME PROTEIN COCRYSTALLISED WITH MANGANESE CHLORIDE REMARK 900 WITH NO METALS OR LIGANDS BOUND. REMARK 900 RELATED ID: 4Y9P RELATED DB: PDB REMARK 900 4Y9N IS THE SAME PROTEIN COCRYSTALLISED WITH CALCIUM AND LIGNAD REMARK 900 BOUND. DBREF 4Y9Q A 1 264 UNP Q9HXH7 Q9HXH7_PSEAE 255 517 SEQRES 1 A 263 SER ARG ARG VAL ALA SER PRO SER SER GLU LEU ARG ARG SEQRES 2 A 263 ALA LEU GLU ALA ASN GLU PHE ILE PRO TYR TYR GLN PRO SEQRES 3 A 263 LEU SER PRO GLY GLN GLY GLY ARG TRP ILE GLY VAL GLU SEQRES 4 A 263 VAL LEU MET ARG TRP ARG HIS PRO ARG GLU GLY LEU ILE SEQRES 5 A 263 ARG PRO ASP LEU PHE ILE PRO PHE ALA GLU ARG SER GLY SEQRES 6 A 263 LEU ILE VAL PRO MET THR ARG ALA LEU MET ARG GLN VAL SEQRES 7 A 263 ALA GLU ASP LEU GLY GLY HIS ALA GLY LYS LEU GLU PRO SEQRES 8 A 263 GLY PHE HIS ILE GLY PHE ASN ILE SER ALA THR HIS CYS SEQRES 9 A 263 HIS GLU LEU ALA LEU VAL ASP ASP CYS ARG GLU LEU LEU SEQRES 10 A 263 ALA ALA PHE PRO PRO GLY HIS ILE THR LEU VAL LEU GLU SEQRES 11 A 263 LEU THR GLU ARG GLU LEU ILE GLU SER SER GLU VAL THR SEQRES 12 A 263 ASP ARG LEU PHE ASP GLU LEU HIS ALA LEU GLY VAL LYS SEQRES 13 A 263 ILE ALA ILE ASP ASP PHE GLY THR GLY HIS SER SER LEU SEQRES 14 A 263 ALA TYR LEU ARG LYS PHE GLN VAL ASP CYS LEU LYS ILE SEQRES 15 A 263 ASP GLN SER PHE VAL ALA ARG ILE GLY ILE ASP THR LEU SEQRES 16 A 263 SER GLY HIS ILE LEU ASP SER ILE VAL GLU LEU SER ALA SEQRES 17 A 263 LYS LEU ASP LEU ASP ILE VAL ALA GLU GLY VAL GLU THR SEQRES 18 A 263 PRO GLU GLN ARG ASP TYR LEU ALA ALA ARG GLY VAL ASP SEQRES 19 A 263 TYR LEU GLN GLY TYR LEU ILE GLY ARG PRO MET PRO LEU SEQRES 20 A 263 GLU SER LEU LEU SER SER LEU THR VAL GLN GLU GLY GLN SEQRES 21 A 263 GLY ALA SER HET PO4 A 301 5 HET C2E A 302 46 HET MG A 303 1 HET MG A 304 1 HET MG A 305 1 HETNAM PO4 PHOSPHATE ION HETNAM C2E 9,9'-[(2R,3R,3AS,5S,7AR,9R,10R,10AS,12S,14AR)-3,5,10, HETNAM 2 C2E 12-TETRAHYDROXY-5,12-DIOXIDOOCTAHYDRO-2H,7H-DIFURO[3, HETNAM 3 C2E 2-D:3',2'-J][1,3,7,9,2, HETNAM 4 C2E 8]TETRAOXADIPHOSPHACYCLODODECINE-2,9-DIYL]BIS(2-AMINO- HETNAM 5 C2E 1,9-DIHYDRO-6H-PURIN-6-ONE) HETNAM MG MAGNESIUM ION HETSYN C2E C-DI-GMP, CYCLIC DIGUANOSINE MONOPHOSPHATE FORMUL 2 PO4 O4 P 3- FORMUL 3 C2E C20 H24 N10 O14 P2 FORMUL 4 MG 3(MG 2+) FORMUL 7 HOH *179(H2 O) HELIX 1 AA1 SER A 6 ALA A 17 1 12 HELIX 2 AA2 ARG A 53 LEU A 56 5 4 HELIX 3 AA3 PHE A 57 SER A 64 1 8 HELIX 4 AA4 LEU A 66 GLY A 83 1 18 HELIX 5 AA5 GLY A 84 LEU A 89 5 6 HELIX 6 AA6 SER A 100 GLU A 106 5 7 HELIX 7 AA7 LEU A 107 ALA A 119 1 13 HELIX 8 AA8 SER A 140 GLY A 154 1 15 HELIX 9 AA9 SER A 168 PHE A 175 1 8 HELIX 10 AB1 ASP A 183 ALA A 188 1 6 HELIX 11 AB2 ASP A 193 ASP A 211 1 19 HELIX 12 AB3 THR A 221 ARG A 231 1 11 HELIX 13 AB4 PRO A 246 GLN A 261 1 15 SHEET 1 AA110 GLY A 50 ILE A 52 0 SHEET 2 AA110 GLY A 37 HIS A 46 -1 N TRP A 44 O ILE A 52 SHEET 3 AA110 PHE A 93 ASN A 98 1 O GLY A 96 N VAL A 40 SHEET 4 AA110 ILE A 125 THR A 132 1 O GLU A 130 N PHE A 97 SHEET 5 AA110 LYS A 156 PHE A 162 1 O ALA A 158 N LEU A 129 SHEET 6 AA110 CYS A 179 ILE A 182 1 O LYS A 181 N ILE A 159 SHEET 7 AA110 ASP A 213 ALA A 216 1 O VAL A 215 N ILE A 182 SHEET 8 AA110 TYR A 235 LEU A 236 1 O TYR A 235 N ALA A 216 SHEET 9 AA110 PHE A 20 PRO A 29 -1 N SER A 28 O LEU A 236 SHEET 10 AA110 GLY A 37 HIS A 46 -1 O GLU A 39 N GLN A 25 LINK OE2 GLU A 39 MG MG A 304 1555 1555 2.24 LINK O VAL A 40 MG MG A 303 1555 1555 2.64 LINK OE1 GLU A 130 MG MG A 304 1555 1555 2.13 LINK OD2 ASP A 160 MG MG A 304 1555 1555 2.20 LINK OD1 ASP A 161 MG MG A 305 1555 1555 2.45 LINK OD1 ASP A 183 MG MG A 305 1555 1555 2.51 LINK O6 C2E A 302 MG MG A 303 1555 1555 2.78 LINK O21 C2E A 302 MG MG A 304 1555 1555 2.08 LINK O11 C2E A 302 MG MG A 305 1555 1555 2.63 LINK MG MG A 303 O HOH A 566 1555 1555 2.81 LINK MG MG A 304 O HOH A 560 1555 1555 2.19 LINK MG MG A 305 O HOH A 497 1555 1555 2.35 LINK MG MG A 305 O HOH A 562 1555 1555 2.13 SITE 1 AC1 3 ASP A 193 THR A 194 LEU A 195 SITE 1 AC2 33 GLN A 25 GLU A 39 LEU A 41 MET A 42 SITE 2 AC2 33 ARG A 43 ARG A 53 PRO A 54 ASP A 55 SITE 3 AC2 33 LEU A 74 ASN A 98 ASP A 160 ASP A 161 SITE 4 AC2 33 GLN A 184 GLY A 218 GLU A 220 GLY A 238 SITE 5 AC2 33 TYR A 239 PRO A 244 MG A 303 MG A 304 SITE 6 AC2 33 MG A 305 HOH A 476 HOH A 520 HOH A 521 SITE 7 AC2 33 HOH A 522 HOH A 525 HOH A 530 HOH A 542 SITE 8 AC2 33 HOH A 560 HOH A 562 HOH A 563 HOH A 564 SITE 9 AC2 33 HOH A 566 SITE 1 AC3 5 VAL A 40 PHE A 97 ASN A 98 C2E A 302 SITE 2 AC3 5 HOH A 566 SITE 1 AC4 6 GLU A 39 ASN A 98 GLU A 130 ASP A 160 SITE 2 AC4 6 C2E A 302 HOH A 560 SITE 1 AC5 6 ASP A 161 ASP A 183 GLU A 217 C2E A 302 SITE 2 AC5 6 HOH A 497 HOH A 562 CRYST1 64.590 64.590 135.730 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 0.015482 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015482 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007368 0.00000