HEADER LYASE 06-DEC-12 4IAE TITLE CRYSTAL STRUCTURE OF BAY 60-2770 BOUND TO NOSTOC H-NOX DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALR2278 PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: HNOX DOMAIN; COMPND 5 EC: 4.6.1.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: SIMILAR TO SOLUBLE GUANYLYL CYCLASE BETA SUBUNIT SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOSTOC SP.; SOURCE 3 ORGANISM_TAXID: 103690; SOURCE 4 STRAIN: PCC 7120; SOURCE 5 GENE: ALR2278; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS ACTIVATION, HNOX DOMAIN, HEME BINDING, NO BINDING, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR V.KUMAR,F.VAN DEN AKKER,F.MARTIN REVDAT 3 20-SEP-23 4IAE 1 REMARK SEQADV REVDAT 2 18-DEC-13 4IAE 1 JRNL REVDAT 1 20-NOV-13 4IAE 0 JRNL AUTH V.KUMAR,F.MARTIN,M.G.HAHN,M.SCHAEFER,J.S.STAMLER,J.P.STASCH, JRNL AUTH 2 F.VAN DEN AKKER JRNL TITL INSIGHTS INTO BAY 60-2770 ACTIVATION AND JRNL TITL 2 S-NITROSYLATION-DEPENDENT DESENSITIZATION OF SOLUBLE JRNL TITL 3 GUANYLYL CYCLASE VIA CRYSTAL STRUCTURES OF HOMOLOGOUS NOSTOC JRNL TITL 4 H-NOX DOMAIN COMPLEXES. JRNL REF BIOCHEMISTRY V. 52 3601 2013 JRNL REFN ISSN 0006-2960 JRNL PMID 23614626 JRNL DOI 10.1021/BI301657W REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 86.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.720 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 36251 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1850 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) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.10 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2668 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.66 REMARK 3 BIN R VALUE (WORKING SET) : 0.1620 REMARK 3 BIN FREE R VALUE SET COUNT : 120 REMARK 3 BIN FREE R VALUE : 0.2350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2864 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 111 REMARK 3 SOLVENT ATOMS : 155 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.026 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.025 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.036 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.359 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.957 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3058 ; 0.010 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4136 ; 1.563 ; 1.992 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 366 ; 6.252 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 142 ;40.413 ;24.789 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 497 ;17.896 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;23.975 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 431 ; 0.121 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2358 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1804 ; 2.225 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2883 ; 3.130 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1254 ; 5.040 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1251 ; 6.761 ; 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 : 1.40 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 4IAE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-DEC-12. REMARK 100 THE DEPOSITION ID IS D_1000076505. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97945 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36251 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 86.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04800 REMARK 200 FOR THE DATA SET : 19.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2O09 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.8M SODIUM MALONATE, PH 7.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+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 60.95650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.95650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 60.95650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 60.95650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 60.95650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 60.95650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 60.95650 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 60.95650 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 60.95650 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 60.95650 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 60.95650 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 60.95650 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 60.95650 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 60.95650 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 60.95650 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 60.95650 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 60.95650 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 60.95650 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4, 5 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 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 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: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 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 0.000000 -1.000000 60.95650 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 1.000000 0.000000 60.95650 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 0.000000 1.000000 -60.95650 REMARK 350 BIOMT3 3 -1.000000 0.000000 0.000000 60.95650 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 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 BIOMT1 2 0.000000 0.000000 -1.000000 60.95650 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 1.000000 0.000000 60.95650 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 0.000000 1.000000 -60.95650 REMARK 350 BIOMT3 3 -1.000000 0.000000 0.000000 60.95650 REMARK 350 REMARK 350 BIOMOLECULE: 5 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 43480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -54.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 BIOMT1 2 0.000000 0.000000 -1.000000 60.95650 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 1.000000 0.000000 60.95650 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 0.000000 1.000000 -60.95650 REMARK 350 BIOMT3 3 -1.000000 0.000000 0.000000 60.95650 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 ASP A 183 REMARK 465 SER A 184 REMARK 465 ASN A 185 REMARK 465 LEU A 186 REMARK 465 TYR A 187 REMARK 465 ASP A 188 REMARK 465 ASP A 189 REMARK 465 ASP B 183 REMARK 465 SER B 184 REMARK 465 ASN B 185 REMARK 465 LEU B 186 REMARK 465 TYR B 187 REMARK 465 ASP B 188 REMARK 465 ASP B 189 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 ND1 HIS B 16 O9 MLI B 202 2.16 REMARK 500 OD1 ASP A 33 O HOH A 335 2.17 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 MET B 130 CG - SD - CE ANGL. DEV. = -10.9 DEGREES 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 1DX A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1DX B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI B 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3L6J RELATED DB: PDB REMARK 900 STRUCTURE OF CINACIGUAT (BAY 58-2667) BOUND TO NOSTOC H-NOX DOMAIN REMARK 900 RELATED ID: 2O09 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE H-NOX DOMAIN FROM NOSTOC SP. PCC 7120 REMARK 900 RELATED ID: 2O0C RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE H-NOX DOMAIN FROM NOSTOC SP. PCC 7120 REMARK 900 COMPLEXED TO NO REMARK 900 RELATED ID: 2O0G RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE H-NOX DOMAIN FROM NOSTOC SP. PCC 7120 REMARK 900 COMPLEXED TO CO REMARK 900 RELATED ID: 4IAH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BAY 60-2770 BOUND C139A H-NOX DOMAIN WITH S- REMARK 900 NITROSYLATED CONSERVED C122 REMARK 900 RELATED ID: 4IAM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE C139A MUTANT OF NOSTOC H-NOX DOMAIN DBREF 4IAE A 1 189 UNP Q8YUQ7 Q8YUQ7_NOSS1 1 189 DBREF 4IAE B 1 189 UNP Q8YUQ7 Q8YUQ7_NOSS1 1 189 SEQADV 4IAE ALA A 139 UNP Q8YUQ7 CYS 139 ENGINEERED MUTATION SEQADV 4IAE ALA B 139 UNP Q8YUQ7 CYS 139 ENGINEERED MUTATION SEQRES 1 A 189 MET TYR GLY LEU VAL ASN LYS ALA ILE GLN ASP MET ILE SEQRES 2 A 189 SER LYS HIS HIS GLY GLU ASP THR TRP GLU ALA ILE LYS SEQRES 3 A 189 GLN LYS ALA GLY LEU GLU ASP ILE ASP PHE PHE VAL GLY SEQRES 4 A 189 MET GLU ALA TYR SER ASP ASP VAL THR TYR HIS LEU VAL SEQRES 5 A 189 GLY ALA ALA SER GLU VAL LEU GLY LYS PRO ALA GLU GLU SEQRES 6 A 189 LEU LEU ILE ALA PHE GLY GLU TYR TRP VAL THR TYR THR SEQRES 7 A 189 SER GLU GLU GLY TYR GLY GLU LEU LEU ALA SER ALA GLY SEQRES 8 A 189 ASP SER LEU PRO GLU PHE MET GLU ASN LEU ASP ASN LEU SEQRES 9 A 189 HIS ALA ARG VAL GLY LEU SER PHE PRO GLN LEU ARG PRO SEQRES 10 A 189 PRO ALA PHE GLU CYS GLN HIS THR SER SER LYS SER MET SEQRES 11 A 189 GLU LEU HIS TYR GLN SER THR ARG ALA GLY LEU ALA PRO SEQRES 12 A 189 MET VAL LEU GLY LEU LEU HIS GLY LEU GLY LYS ARG PHE SEQRES 13 A 189 GLN THR LYS VAL GLU VAL THR GLN THR ALA PHE ARG GLU SEQRES 14 A 189 THR GLY GLU ASP HIS ASP ILE PHE SER ILE LYS TYR GLU SEQRES 15 A 189 ASP SER ASN LEU TYR ASP ASP SEQRES 1 B 189 MET TYR GLY LEU VAL ASN LYS ALA ILE GLN ASP MET ILE SEQRES 2 B 189 SER LYS HIS HIS GLY GLU ASP THR TRP GLU ALA ILE LYS SEQRES 3 B 189 GLN LYS ALA GLY LEU GLU ASP ILE ASP PHE PHE VAL GLY SEQRES 4 B 189 MET GLU ALA TYR SER ASP ASP VAL THR TYR HIS LEU VAL SEQRES 5 B 189 GLY ALA ALA SER GLU VAL LEU GLY LYS PRO ALA GLU GLU SEQRES 6 B 189 LEU LEU ILE ALA PHE GLY GLU TYR TRP VAL THR TYR THR SEQRES 7 B 189 SER GLU GLU GLY TYR GLY GLU LEU LEU ALA SER ALA GLY SEQRES 8 B 189 ASP SER LEU PRO GLU PHE MET GLU ASN LEU ASP ASN LEU SEQRES 9 B 189 HIS ALA ARG VAL GLY LEU SER PHE PRO GLN LEU ARG PRO SEQRES 10 B 189 PRO ALA PHE GLU CYS GLN HIS THR SER SER LYS SER MET SEQRES 11 B 189 GLU LEU HIS TYR GLN SER THR ARG ALA GLY LEU ALA PRO SEQRES 12 B 189 MET VAL LEU GLY LEU LEU HIS GLY LEU GLY LYS ARG PHE SEQRES 13 B 189 GLN THR LYS VAL GLU VAL THR GLN THR ALA PHE ARG GLU SEQRES 14 B 189 THR GLY GLU ASP HIS ASP ILE PHE SER ILE LYS TYR GLU SEQRES 15 B 189 ASP SER ASN LEU TYR ASP ASP HET 1DX A 201 45 HET MLI A 202 7 HET MLI A 203 7 HET 1DX B 201 45 HET MLI B 202 7 HETNAM 1DX 4-({(4-CARBOXYBUTYL)[2-(5-FLUORO-2-{[4'- HETNAM 2 1DX (TRIFLUOROMETHYL)BIPHENYL-4-YL]METHOXY}PHENYL) HETNAM 3 1DX ETHYL]AMINO}METHYL)BENZOIC ACID HETNAM MLI MALONATE ION FORMUL 3 1DX 2(C35 H33 F4 N O5) FORMUL 4 MLI 3(C3 H2 O4 2-) FORMUL 8 HOH *155(H2 O) HELIX 1 1 TYR A 2 GLY A 18 1 17 HELIX 2 2 GLY A 18 GLY A 30 1 13 HELIX 3 3 SER A 44 GLY A 60 1 17 HELIX 4 4 PRO A 62 GLU A 81 1 20 HELIX 5 5 TYR A 83 ALA A 90 1 8 HELIX 6 6 SER A 93 PHE A 112 1 20 HELIX 7 7 LEU A 141 PHE A 156 1 16 HELIX 8 8 PHE A 167 GLY A 171 5 5 HELIX 9 9 TYR B 2 GLY B 18 1 17 HELIX 10 10 GLY B 18 ALA B 29 1 12 HELIX 11 11 SER B 44 GLY B 60 1 17 HELIX 12 12 PRO B 62 GLU B 81 1 20 HELIX 13 13 TYR B 83 ALA B 90 1 8 HELIX 14 14 SER B 93 PHE B 112 1 20 HELIX 15 15 LEU B 141 PHE B 156 1 16 HELIX 16 16 PHE B 167 GLY B 171 5 5 SHEET 1 A 4 ALA A 119 HIS A 124 0 SHEET 2 A 4 SER A 129 GLN A 135 -1 O GLN A 135 N ALA A 119 SHEET 3 A 4 ASP A 175 TYR A 181 -1 O PHE A 177 N LEU A 132 SHEET 4 A 4 VAL A 160 ALA A 166 -1 N THR A 163 O SER A 178 SHEET 1 B 4 ALA B 119 SER B 126 0 SHEET 2 B 4 SER B 129 GLN B 135 -1 O GLN B 135 N ALA B 119 SHEET 3 B 4 ASP B 175 TYR B 181 -1 O PHE B 177 N LEU B 132 SHEET 4 B 4 VAL B 160 ALA B 166 -1 N GLU B 161 O LYS B 180 SITE 1 AC1 21 MET A 1 TYR A 2 LEU A 4 GLY A 39 SITE 2 AC1 21 TRP A 74 TYR A 83 PHE A 97 LEU A 101 SITE 3 AC1 21 HIS A 105 VAL A 108 PHE A 112 LEU A 115 SITE 4 AC1 21 ARG A 116 PRO A 118 TYR A 134 SER A 136 SITE 5 AC1 21 ARG A 138 LEU A 141 LEU A 148 HOH A 312 SITE 6 AC1 21 HOH A 334 SITE 1 AC2 2 GLN A 157 LYS A 159 SITE 1 AC3 4 MET A 12 HIS A 16 HIS A 17 LYS A 61 SITE 1 AC4 19 MET B 1 TYR B 2 LEU B 4 VAL B 5 SITE 2 AC4 19 GLY B 39 TRP B 74 TYR B 83 PHE B 97 SITE 3 AC4 19 LEU B 101 HIS B 105 PHE B 112 ARG B 116 SITE 4 AC4 19 PRO B 118 TYR B 134 SER B 136 ARG B 138 SITE 5 AC4 19 MET B 144 LEU B 148 HOH B 302 SITE 1 AC5 6 MET B 12 HIS B 16 HIS B 17 LYS B 61 SITE 2 AC5 6 LEU B 66 ALA B 69 CRYST1 121.913 121.913 121.913 90.00 90.00 90.00 P 21 3 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 0.008203 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008203 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008203 0.00000