HEADER TRANSCRIPTION REGULATOR 07-MAY-09 3HDV TITLE CRYSTAL STRUCTURE OF RESPONSE REGULATOR RECEIVER PROTEIN FROM TITLE 2 PSEUDOMONAS PUTIDA COMPND MOL_ID: 1; COMPND 2 MOLECULE: RESPONSE REGULATOR; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: RESPONSE REGULATOR; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PUTIDA; SOURCE 3 ORGANISM_TAXID: 160488; SOURCE 4 STRAIN: KT2440; SOURCE 5 GENE: PP_0355, PP0355; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PSGX3(BC) KEYWDS RESPONSE REGULATOR, PSI-II, 11224L, STRUCTURAL GENOMICS, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL KEYWDS 3 GENOMICS, NYSGXRC, TRANSCRIPTION REGULATOR EXPDTA X-RAY DIFFRACTION AUTHOR A.BAGARIA,S.K.BURLEY,S.SWAMINATHAN,NEW YORK SGX RESEARCH CENTER FOR AUTHOR 2 STRUCTURAL GENOMICS (NYSGXRC) REVDAT 4 20-NOV-24 3HDV 1 REMARK REVDAT 3 10-FEB-21 3HDV 1 AUTHOR JRNL LINK REVDAT 2 13-JUL-11 3HDV 1 VERSN REVDAT 1 26-MAY-09 3HDV 0 JRNL AUTH A.BAGARIA,S.K.BURLEY,S.SWAMINATHAN JRNL TITL CRYSTAL STRUCTURE OF RESPONSE REGULATOR RECEIVER PROTEIN JRNL TITL 2 FROM PSEUDOMONAS PUTIDA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.09 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.09 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 43315 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) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2304 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) : 2.09 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.14 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2958 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.33 REMARK 3 BIN R VALUE (WORKING SET) : 0.2520 REMARK 3 BIN FREE R VALUE SET COUNT : 187 REMARK 3 BIN FREE R VALUE : 0.3000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3735 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 243 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.168 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.159 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.113 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.178 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3767 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5095 ; 1.875 ; 2.008 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 480 ; 6.498 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 159 ;29.945 ;24.088 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 712 ;16.856 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;26.637 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 634 ; 0.126 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2711 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1722 ; 0.224 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2570 ; 0.307 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 281 ; 0.225 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 45 ; 0.206 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.176 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2517 ; 1.372 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3858 ; 2.035 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1423 ; 3.449 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1237 ; 4.999 ; 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 : 1.20 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 3HDV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-MAY-09. REMARK 100 THE DEPOSITION ID IS D_1000053012. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9790 REMARK 200 MONOCHROMATOR : SI(111)CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45411 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.090 REMARK 200 RESOLUTION RANGE LOW (A) : 44.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 14.20 REMARK 200 R MERGE (I) : 0.09600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 13.10 REMARK 200 R MERGE FOR SHELL (I) : 0.52000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD, SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH7.5, 0.8M POTASSIUM REMARK 280 SODIUM TARTARATE TETRAHYDRATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 55.38450 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 70.21800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 55.38450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 70.21800 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: TETRAMER 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 MSE A 62 REMARK 465 SER A 63 REMARK 465 LEU A 64 REMARK 465 VAL A 65 REMARK 465 ALA A 66 REMARK 465 ALA A 67 REMARK 465 ILE A 188 REMARK 465 GLY A 189 REMARK 465 GLU A 190 REMARK 465 GLY A 191 REMARK 465 HIS A 192 REMARK 465 HIS A 193 REMARK 465 HIS A 194 REMARK 465 HIS A 195 REMARK 465 HIS A 196 REMARK 465 HIS A 197 REMARK 465 MSE B 62 REMARK 465 GLY B 189 REMARK 465 GLU B 190 REMARK 465 GLY B 191 REMARK 465 HIS B 192 REMARK 465 HIS B 193 REMARK 465 HIS B 194 REMARK 465 HIS B 195 REMARK 465 HIS B 196 REMARK 465 HIS B 197 REMARK 465 MSE C 62 REMARK 465 SER C 63 REMARK 465 LEU C 64 REMARK 465 LEU C 186 REMARK 465 LYS C 187 REMARK 465 ILE C 188 REMARK 465 GLY C 189 REMARK 465 GLU C 190 REMARK 465 GLY C 191 REMARK 465 HIS C 192 REMARK 465 HIS C 193 REMARK 465 HIS C 194 REMARK 465 HIS C 195 REMARK 465 HIS C 196 REMARK 465 HIS C 197 REMARK 465 MSE D 62 REMARK 465 SER D 63 REMARK 465 LEU D 64 REMARK 465 VAL D 65 REMARK 465 ALA D 66 REMARK 465 ALA D 67 REMARK 465 ARG D 68 REMARK 465 LEU D 186 REMARK 465 LYS D 187 REMARK 465 ILE D 188 REMARK 465 GLY D 189 REMARK 465 GLU D 190 REMARK 465 GLY D 191 REMARK 465 HIS D 192 REMARK 465 HIS D 193 REMARK 465 HIS D 194 REMARK 465 HIS D 195 REMARK 465 HIS D 196 REMARK 465 HIS D 197 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 MSE D 123 C GLN D 124 N 0.221 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 122 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG C 122 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG C 122 NE - CZ - NH2 ANGL. DEV. = -6.0 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 ASP A 151 88.18 -160.73 REMARK 500 ARG C 113 -37.20 100.61 REMARK 500 ILE C 114 106.75 -53.51 REMARK 500 ARG D 91 -162.86 -101.49 REMARK 500 GLN D 124 -95.83 -51.61 REMARK 500 VAL D 173 -139.14 -50.93 REMARK 500 ASP D 174 -95.50 -179.95 REMARK 500 LEU D 175 -18.93 147.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-11224L RELATED DB: TARGETDB DBREF 3HDV A 65 189 UNP Q88QX9 Q88QX9_PSEPK 65 189 DBREF 3HDV B 65 189 UNP Q88QX9 Q88QX9_PSEPK 65 189 DBREF 3HDV C 65 189 UNP Q88QX9 Q88QX9_PSEPK 65 189 DBREF 3HDV D 65 189 UNP Q88QX9 Q88QX9_PSEPK 65 189 SEQADV 3HDV MSE A 62 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV SER A 63 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV LEU A 64 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV GLU A 190 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV GLY A 191 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS A 192 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS A 193 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS A 194 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS A 195 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS A 196 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS A 197 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV MSE B 62 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV SER B 63 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV LEU B 64 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV GLU B 190 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV GLY B 191 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS B 192 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS B 193 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS B 194 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS B 195 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS B 196 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS B 197 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV MSE C 62 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV SER C 63 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV LEU C 64 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV GLU C 190 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV GLY C 191 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS C 192 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS C 193 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS C 194 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS C 195 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS C 196 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS C 197 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV MSE D 62 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV SER D 63 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV LEU D 64 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV GLU D 190 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV GLY D 191 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS D 192 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS D 193 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS D 194 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS D 195 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS D 196 UNP Q88QX9 EXPRESSION TAG SEQADV 3HDV HIS D 197 UNP Q88QX9 EXPRESSION TAG SEQRES 1 A 136 MSE SER LEU VAL ALA ALA ARG PRO LEU VAL LEU VAL VAL SEQRES 2 A 136 ASP ASP ASN ALA VAL ASN ARG GLU ALA LEU ILE LEU TYR SEQRES 3 A 136 LEU LYS SER ARG GLY ILE ASP ALA VAL GLY ALA ASP GLY SEQRES 4 A 136 ALA GLU GLU ALA ARG LEU TYR LEU HIS TYR GLN LYS ARG SEQRES 5 A 136 ILE GLY LEU MSE ILE THR ASP LEU ARG MSE GLN PRO GLU SEQRES 6 A 136 SER GLY LEU ASP LEU ILE ARG THR ILE ARG ALA SER GLU SEQRES 7 A 136 ARG ALA ALA LEU SER ILE ILE VAL VAL SER GLY ASP THR SEQRES 8 A 136 ASP VAL GLU GLU ALA VAL ASP VAL MSE HIS LEU GLY VAL SEQRES 9 A 136 VAL ASP PHE LEU LEU LYS PRO VAL ASP LEU GLY LYS LEU SEQRES 10 A 136 LEU GLU LEU VAL ASN LYS GLU LEU LYS ILE GLY GLU GLY SEQRES 11 A 136 HIS HIS HIS HIS HIS HIS SEQRES 1 B 136 MSE SER LEU VAL ALA ALA ARG PRO LEU VAL LEU VAL VAL SEQRES 2 B 136 ASP ASP ASN ALA VAL ASN ARG GLU ALA LEU ILE LEU TYR SEQRES 3 B 136 LEU LYS SER ARG GLY ILE ASP ALA VAL GLY ALA ASP GLY SEQRES 4 B 136 ALA GLU GLU ALA ARG LEU TYR LEU HIS TYR GLN LYS ARG SEQRES 5 B 136 ILE GLY LEU MSE ILE THR ASP LEU ARG MSE GLN PRO GLU SEQRES 6 B 136 SER GLY LEU ASP LEU ILE ARG THR ILE ARG ALA SER GLU SEQRES 7 B 136 ARG ALA ALA LEU SER ILE ILE VAL VAL SER GLY ASP THR SEQRES 8 B 136 ASP VAL GLU GLU ALA VAL ASP VAL MSE HIS LEU GLY VAL SEQRES 9 B 136 VAL ASP PHE LEU LEU LYS PRO VAL ASP LEU GLY LYS LEU SEQRES 10 B 136 LEU GLU LEU VAL ASN LYS GLU LEU LYS ILE GLY GLU GLY SEQRES 11 B 136 HIS HIS HIS HIS HIS HIS SEQRES 1 C 136 MSE SER LEU VAL ALA ALA ARG PRO LEU VAL LEU VAL VAL SEQRES 2 C 136 ASP ASP ASN ALA VAL ASN ARG GLU ALA LEU ILE LEU TYR SEQRES 3 C 136 LEU LYS SER ARG GLY ILE ASP ALA VAL GLY ALA ASP GLY SEQRES 4 C 136 ALA GLU GLU ALA ARG LEU TYR LEU HIS TYR GLN LYS ARG SEQRES 5 C 136 ILE GLY LEU MSE ILE THR ASP LEU ARG MSE GLN PRO GLU SEQRES 6 C 136 SER GLY LEU ASP LEU ILE ARG THR ILE ARG ALA SER GLU SEQRES 7 C 136 ARG ALA ALA LEU SER ILE ILE VAL VAL SER GLY ASP THR SEQRES 8 C 136 ASP VAL GLU GLU ALA VAL ASP VAL MSE HIS LEU GLY VAL SEQRES 9 C 136 VAL ASP PHE LEU LEU LYS PRO VAL ASP LEU GLY LYS LEU SEQRES 10 C 136 LEU GLU LEU VAL ASN LYS GLU LEU LYS ILE GLY GLU GLY SEQRES 11 C 136 HIS HIS HIS HIS HIS HIS SEQRES 1 D 136 MSE SER LEU VAL ALA ALA ARG PRO LEU VAL LEU VAL VAL SEQRES 2 D 136 ASP ASP ASN ALA VAL ASN ARG GLU ALA LEU ILE LEU TYR SEQRES 3 D 136 LEU LYS SER ARG GLY ILE ASP ALA VAL GLY ALA ASP GLY SEQRES 4 D 136 ALA GLU GLU ALA ARG LEU TYR LEU HIS TYR GLN LYS ARG SEQRES 5 D 136 ILE GLY LEU MSE ILE THR ASP LEU ARG MSE GLN PRO GLU SEQRES 6 D 136 SER GLY LEU ASP LEU ILE ARG THR ILE ARG ALA SER GLU SEQRES 7 D 136 ARG ALA ALA LEU SER ILE ILE VAL VAL SER GLY ASP THR SEQRES 8 D 136 ASP VAL GLU GLU ALA VAL ASP VAL MSE HIS LEU GLY VAL SEQRES 9 D 136 VAL ASP PHE LEU LEU LYS PRO VAL ASP LEU GLY LYS LEU SEQRES 10 D 136 LEU GLU LEU VAL ASN LYS GLU LEU LYS ILE GLY GLU GLY SEQRES 11 D 136 HIS HIS HIS HIS HIS HIS MODRES 3HDV MSE A 117 MET SELENOMETHIONINE MODRES 3HDV MSE A 123 MET SELENOMETHIONINE MODRES 3HDV MSE A 161 MET SELENOMETHIONINE MODRES 3HDV MSE B 117 MET SELENOMETHIONINE MODRES 3HDV MSE B 123 MET SELENOMETHIONINE MODRES 3HDV MSE B 161 MET SELENOMETHIONINE MODRES 3HDV MSE C 117 MET SELENOMETHIONINE MODRES 3HDV MSE C 123 MET SELENOMETHIONINE MODRES 3HDV MSE C 161 MET SELENOMETHIONINE MODRES 3HDV MSE D 117 MET SELENOMETHIONINE MODRES 3HDV MSE D 123 MET SELENOMETHIONINE MODRES 3HDV MSE D 161 MET SELENOMETHIONINE HET MSE A 117 8 HET MSE A 123 8 HET MSE A 161 8 HET MSE B 117 8 HET MSE B 123 8 HET MSE B 161 8 HET MSE C 117 8 HET MSE C 123 8 HET MSE C 161 8 HET MSE D 117 8 HET MSE D 123 8 HET MSE D 161 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 5 HOH *243(H2 O) HELIX 1 1 ASN A 77 ARG A 91 1 15 HELIX 2 2 GLY A 100 GLN A 111 1 12 HELIX 3 3 SER A 127 ALA A 137 1 11 HELIX 4 4 ASP A 153 LEU A 163 1 11 HELIX 5 5 ASP A 174 LYS A 187 1 14 HELIX 6 6 ASN B 77 ARG B 91 1 15 HELIX 7 7 GLY B 100 GLN B 111 1 12 HELIX 8 8 SER B 127 ALA B 137 1 11 HELIX 9 9 ASP B 153 LEU B 163 1 11 HELIX 10 10 ASP B 174 LEU B 186 1 13 HELIX 11 11 ASN C 77 SER C 90 1 14 HELIX 12 12 GLY C 100 GLN C 111 1 12 HELIX 13 13 SER C 127 ALA C 137 1 11 HELIX 14 14 ASP C 153 LEU C 163 1 11 HELIX 15 15 ASP C 174 GLU C 185 1 12 HELIX 16 16 ASN D 77 SER D 90 1 14 HELIX 17 17 GLY D 100 GLN D 111 1 12 HELIX 18 18 SER D 127 ALA D 137 1 11 HELIX 19 19 ASP D 153 LEU D 163 1 11 HELIX 20 20 LEU D 175 GLU D 185 1 11 SHEET 1 A 5 ALA A 95 ALA A 98 0 SHEET 2 A 5 LEU A 70 VAL A 74 1 N VAL A 73 O VAL A 96 SHEET 3 A 5 ILE A 114 THR A 119 1 O ILE A 118 N LEU A 72 SHEET 4 A 5 SER A 144 SER A 149 1 O ILE A 146 N MSE A 117 SHEET 5 A 5 ASP A 167 LEU A 170 1 O LEU A 169 N VAL A 147 SHEET 1 B 5 ASP B 94 ALA B 98 0 SHEET 2 B 5 LEU B 70 VAL B 74 1 N VAL B 73 O VAL B 96 SHEET 3 B 5 ILE B 114 THR B 119 1 O ILE B 118 N VAL B 74 SHEET 4 B 5 SER B 144 SER B 149 1 O VAL B 148 N THR B 119 SHEET 5 B 5 ASP B 167 LEU B 170 1 O LEU B 169 N VAL B 147 SHEET 1 C 5 ASP C 94 ALA C 98 0 SHEET 2 C 5 LEU C 70 VAL C 74 1 N VAL C 73 O VAL C 96 SHEET 3 C 5 ILE C 114 THR C 119 1 O ILE C 118 N VAL C 74 SHEET 4 C 5 SER C 144 SER C 149 1 O ILE C 146 N MSE C 117 SHEET 5 C 5 ASP C 167 LEU C 170 1 O LEU C 169 N VAL C 147 SHEET 1 D 5 ALA D 95 ALA D 98 0 SHEET 2 D 5 LEU D 70 VAL D 74 1 N VAL D 73 O VAL D 96 SHEET 3 D 5 ILE D 114 THR D 119 1 O ILE D 118 N VAL D 74 SHEET 4 D 5 SER D 144 SER D 149 1 O VAL D 148 N THR D 119 SHEET 5 D 5 ASP D 167 LEU D 170 1 O ASP D 167 N VAL D 147 LINK C LEU A 116 N MSE A 117 1555 1555 1.33 LINK C MSE A 117 N ILE A 118 1555 1555 1.33 LINK C ARG A 122 N MSE A 123 1555 1555 1.32 LINK C MSE A 123 N GLN A 124 1555 1555 1.33 LINK C VAL A 160 N MSE A 161 1555 1555 1.33 LINK C MSE A 161 N HIS A 162 1555 1555 1.31 LINK C LEU B 116 N MSE B 117 1555 1555 1.33 LINK C MSE B 117 N ILE B 118 1555 1555 1.32 LINK C ARG B 122 N MSE B 123 1555 1555 1.32 LINK C MSE B 123 N GLN B 124 1555 1555 1.34 LINK C VAL B 160 N MSE B 161 1555 1555 1.33 LINK C MSE B 161 N HIS B 162 1555 1555 1.33 LINK C LEU C 116 N MSE C 117 1555 1555 1.33 LINK C MSE C 117 N ILE C 118 1555 1555 1.33 LINK C ARG C 122 N MSE C 123 1555 1555 1.32 LINK C MSE C 123 N GLN C 124 1555 1555 1.32 LINK C VAL C 160 N MSE C 161 1555 1555 1.33 LINK C MSE C 161 N HIS C 162 1555 1555 1.33 LINK C LEU D 116 N MSE D 117 1555 1555 1.34 LINK C MSE D 117 N ILE D 118 1555 1555 1.33 LINK C ARG D 122 N MSE D 123 1555 1555 1.22 LINK C MSE D 123 N GLN D 124 1555 1555 1.56 LINK C VAL D 160 N MSE D 161 1555 1555 1.34 LINK C MSE D 161 N HIS D 162 1555 1555 1.34 CISPEP 1 GLN A 124 PRO A 125 0 5.54 CISPEP 2 LYS A 171 PRO A 172 0 -2.33 CISPEP 3 GLN B 124 PRO B 125 0 3.90 CISPEP 4 LYS B 171 PRO B 172 0 -7.77 CISPEP 5 GLN C 124 PRO C 125 0 1.29 CISPEP 6 LYS C 171 PRO C 172 0 3.20 CISPEP 7 LYS D 171 PRO D 172 0 8.71 CRYST1 110.769 140.436 48.571 90.00 90.00 90.00 P 21 21 2 16 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 0.009028 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007121 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020588 0.00000 CONECT 380 386 CONECT 386 380 387 CONECT 387 386 388 390 CONECT 388 387 389 394 CONECT 389 388 CONECT 390 387 391 CONECT 391 390 392 CONECT 392 391 393 CONECT 393 392 CONECT 394 388 CONECT 427 436 CONECT 436 427 437 CONECT 437 436 438 440 CONECT 438 437 439 444 CONECT 439 438 CONECT 440 437 441 CONECT 441 440 442 CONECT 442 441 443 CONECT 443 442 CONECT 444 438 CONECT 713 718 CONECT 718 713 719 CONECT 719 718 720 722 CONECT 720 719 721 726 CONECT 721 720 CONECT 722 719 723 CONECT 723 722 724 CONECT 724 723 725 CONECT 725 724 CONECT 726 720 CONECT 1343 1349 CONECT 1349 1343 1350 CONECT 1350 1349 1351 1353 CONECT 1351 1350 1352 1357 CONECT 1352 1351 CONECT 1353 1350 1354 CONECT 1354 1353 1355 CONECT 1355 1354 1356 CONECT 1356 1355 CONECT 1357 1351 CONECT 1390 1399 CONECT 1399 1390 1400 CONECT 1400 1399 1401 1403 CONECT 1401 1400 1402 1407 CONECT 1402 1401 CONECT 1403 1400 1404 CONECT 1404 1403 1405 CONECT 1405 1404 1406 CONECT 1406 1405 CONECT 1407 1401 CONECT 1676 1681 CONECT 1681 1676 1682 CONECT 1682 1681 1683 1685 CONECT 1683 1682 1684 1689 CONECT 1684 1683 CONECT 1685 1682 1686 CONECT 1686 1685 1687 CONECT 1687 1686 1688 CONECT 1688 1687 CONECT 1689 1683 CONECT 2300 2306 CONECT 2306 2300 2307 CONECT 2307 2306 2308 2310 CONECT 2308 2307 2309 2314 CONECT 2309 2308 CONECT 2310 2307 2311 CONECT 2311 2310 2312 CONECT 2312 2311 2313 CONECT 2313 2312 CONECT 2314 2308 CONECT 2347 2356 CONECT 2356 2347 2357 CONECT 2357 2356 2358 2360 CONECT 2358 2357 2359 2364 CONECT 2359 2358 CONECT 2360 2357 2361 CONECT 2361 2360 2362 CONECT 2362 2361 2363 CONECT 2363 2362 CONECT 2364 2358 CONECT 2633 2638 CONECT 2638 2633 2639 CONECT 2639 2638 2640 2642 CONECT 2640 2639 2641 2646 CONECT 2641 2640 CONECT 2642 2639 2643 CONECT 2643 2642 2644 CONECT 2644 2643 2645 CONECT 2645 2644 CONECT 2646 2640 CONECT 3204 3210 CONECT 3210 3204 3211 CONECT 3211 3210 3212 3214 CONECT 3212 3211 3213 3218 CONECT 3213 3212 CONECT 3214 3211 3215 CONECT 3215 3214 3216 CONECT 3216 3215 3217 CONECT 3217 3216 CONECT 3218 3212 CONECT 3251 3260 CONECT 3260 3251 3261 CONECT 3261 3260 3262 3264 CONECT 3262 3261 3263 3268 CONECT 3263 3262 CONECT 3264 3261 3265 CONECT 3265 3264 3266 CONECT 3266 3265 3267 CONECT 3267 3266 CONECT 3268 3262 CONECT 3537 3542 CONECT 3542 3537 3543 CONECT 3543 3542 3544 3546 CONECT 3544 3543 3545 3550 CONECT 3545 3544 CONECT 3546 3543 3547 CONECT 3547 3546 3548 CONECT 3548 3547 3549 CONECT 3549 3548 CONECT 3550 3544 MASTER 398 0 12 20 20 0 0 6 3978 4 120 44 END