HEADER CHAPERONE 10-AUG-16 5SY4 TITLE ATOMIC RESOLUTION STRUCTURE OF REDUCED E. COLI YAJL COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHAPERONE YAJL; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DJ-1 FAMILY PROTEIN,OXIDATIVE-STRESS-RESISTANCE CHAPERONE; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: THIJ, ACU57_11870, AM266_04520, ERS085365_02411, SOURCE 5 ERS085416_01937, ERS139211_01908, ERS150873_01827, PU15_11320, SOURCE 6 PU38_04800, SK85_00449; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS DJ-1/PFPI SUPERFAMILY NUCLEOPHILE ELBOW, CHAPERONE EXPDTA X-RAY DIFFRACTION AUTHOR M.A.WILSON,J.LIN REVDAT 6 04-OCT-23 5SY4 1 LINK REVDAT 5 25-DEC-19 5SY4 1 REMARK REVDAT 4 13-SEP-17 5SY4 1 REMARK REVDAT 3 01-FEB-17 5SY4 1 JRNL REVDAT 2 04-JAN-17 5SY4 1 JRNL REVDAT 1 28-DEC-16 5SY4 0 JRNL AUTH J.LIN,E.POZHARSKI,M.A.WILSON JRNL TITL SHORT CARBOXYLIC ACID-CARBOXYLATE HYDROGEN BONDS CAN HAVE JRNL TITL 2 FULLY LOCALIZED PROTONS. JRNL REF BIOCHEMISTRY V. 56 391 2017 JRNL REFN ISSN 1520-4995 JRNL PMID 27989121 JRNL DOI 10.1021/ACS.BIOCHEM.6B00906 REMARK 2 REMARK 2 RESOLUTION. 0.98 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 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) : 0.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 61.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 3 NUMBER OF REFLECTIONS : 187313 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) : 0.114 REMARK 3 R VALUE (WORKING SET) : 0.114 REMARK 3 FREE R VALUE : 0.127 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3842 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) : 0.98 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.01 REMARK 3 REFLECTION IN BIN (WORKING SET) : 13412 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.21 REMARK 3 BIN R VALUE (WORKING SET) : 0.2940 REMARK 3 BIN FREE R VALUE SET COUNT : 287 REMARK 3 BIN FREE R VALUE : 0.2900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2902 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 426 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : -0.10000 REMARK 3 B33 (A**2) : 0.06000 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): 0.018 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.018 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.015 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.663 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.985 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.984 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3635 ; 0.018 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3553 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5001 ; 1.937 ; 1.980 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8232 ; 1.183 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 504 ; 6.254 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 135 ;33.298 ;24.593 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 616 ;10.834 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;14.352 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 583 ; 0.164 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4287 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 760 ; 0.003 ; 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): 1911 ; 1.059 ; 0.953 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1910 ; 1.049 ; 0.953 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2447 ; 1.448 ; 1.435 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2448 ; 1.449 ; 1.436 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1724 ; 1.797 ; 1.239 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1721 ; 1.745 ; 1.236 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2554 ; 2.119 ; 1.766 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4106 ; 3.171 ;13.114 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4005 ; 2.487 ;12.445 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 7188 ; 3.449 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 274 ;38.477 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 7249 ; 8.706 ; 5.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 2 196 B 2 196 14130 0.12 0.05 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 : 1.30 REMARK 3 ION PROBE RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 1.00 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5SY4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1000223323. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JUN-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.73 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : RH COATED COLLIMATING MIRRORS, K REMARK 200 -B FOCUSING MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 191363 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.980 REMARK 200 RESOLUTION RANGE LOW (A) : 38.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 10.20 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.50 REMARK 200 R MERGE FOR SHELL (I) : 2.39300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 2AB0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: POLYETHYLENE GLYCOL 4000, TRIS HCL, REMARK 280 MAGNESIUM CHLORIDE, PH 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 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 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 21.93750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.71700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.15650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.71700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.93750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.15650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2850 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 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 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 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 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 B 333 O HOH B 377 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 90 CG GLU A 90 CD 0.090 REMARK 500 GLU A 90 CD GLU A 90 OE2 0.109 REMARK 500 ARG A 175 CZ ARG A 175 NH1 0.091 REMARK 500 GLU A 176 CD GLU A 176 OE1 0.093 REMARK 500 GLN A 184 CD GLN A 184 OE1 0.154 REMARK 500 GLU A 196 CD GLU A 196 OE1 0.088 REMARK 500 TYR B 195 C GLU B 196 N 0.199 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 97 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG A 100 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 LYS A 142 CD - CE - NZ ANGL. DEV. = -14.6 DEGREES REMARK 500 ARG A 175 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 175 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 GLU A 196 C - N - CA ANGL. DEV. = 24.5 DEGREES REMARK 500 LEU B 25 CB - CG - CD2 ANGL. DEV. = 10.9 DEGREES REMARK 500 TYR B 195 O - C - N ANGL. DEV. = -12.5 DEGREES REMARK 500 GLU B 196 C - N - CA ANGL. DEV. = -25.7 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 GLU A 66 46.57 -99.55 REMARK 500 CYS A 106 -120.01 71.86 REMARK 500 CYS A 106 -103.74 56.58 REMARK 500 GLU B 66 39.02 -84.19 REMARK 500 CYS B 106 -119.14 72.21 REMARK 500 CYS B 106 -107.73 58.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 TYR B 195 18.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 507 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH B 519 DISTANCE = 5.93 ANGSTROMS 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 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 308 O REMARK 620 2 HOH A 414 O 90.6 REMARK 620 3 HOH A 468 O 90.3 95.2 REMARK 620 4 HOH A 481 O 91.1 99.3 165.5 REMARK 620 5 HOH A 492 O 90.4 172.2 92.6 73.0 REMARK 620 6 HOH A 500 O 177.4 91.6 88.1 89.9 87.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 332 O REMARK 620 2 HOH B 372 O 178.7 REMARK 620 3 HOH B 373 O 90.8 90.0 REMARK 620 4 HOH B 487 O 87.3 91.5 94.3 REMARK 620 5 HOH B 490 O 90.6 90.5 88.2 176.9 REMARK 620 6 HOH B 516 O 89.4 89.9 176.2 89.6 88.0 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 201 DBREF 5SY4 A 1 196 UNP W8T6D9 W8T6D9_ECOLX 1 196 DBREF 5SY4 B 1 196 UNP W8T6D9 W8T6D9_ECOLX 1 196 SEQADV 5SY4 GLY A -2 UNP W8T6D9 EXPRESSION TAG SEQADV 5SY4 SER A -1 UNP W8T6D9 EXPRESSION TAG SEQADV 5SY4 HIS A 0 UNP W8T6D9 EXPRESSION TAG SEQADV 5SY4 GLY B -2 UNP W8T6D9 EXPRESSION TAG SEQADV 5SY4 SER B -1 UNP W8T6D9 EXPRESSION TAG SEQADV 5SY4 HIS B 0 UNP W8T6D9 EXPRESSION TAG SEQRES 1 A 199 GLY SER HIS MET SER ALA SER ALA LEU VAL CYS LEU ALA SEQRES 2 A 199 PRO GLY SER GLU GLU THR GLU ALA VAL THR THR ILE ASP SEQRES 3 A 199 LEU LEU VAL ARG GLY GLY ILE LYS VAL THR THR ALA SER SEQRES 4 A 199 VAL ALA SER ASP GLY ASN LEU ALA ILE THR CYS SER ARG SEQRES 5 A 199 GLY VAL LYS LEU LEU ALA ASP ALA PRO LEU VAL GLU VAL SEQRES 6 A 199 ALA ASP GLY GLU TYR ASP VAL ILE VAL LEU PRO GLY GLY SEQRES 7 A 199 ILE LYS GLY ALA GLU CYS PHE ARG ASP SER THR LEU LEU SEQRES 8 A 199 VAL GLU THR VAL LYS GLN PHE HIS ARG SER GLY ARG ILE SEQRES 9 A 199 VAL ALA ALA ILE CYS ALA ALA PRO ALA THR VAL LEU VAL SEQRES 10 A 199 PRO HIS ASP ILE PHE PRO ILE GLY ASN MET THR GLY PHE SEQRES 11 A 199 PRO THR LEU LYS ASP LYS ILE PRO ALA GLU GLN TRP LEU SEQRES 12 A 199 ASP LYS ARG VAL VAL TRP ASP ALA ARG VAL LYS LEU LEU SEQRES 13 A 199 THR SER GLN GLY PRO GLY THR ALA ILE ASP PHE GLY LEU SEQRES 14 A 199 LYS ILE ILE ASP LEU LEU VAL GLY ARG GLU LYS ALA HIS SEQRES 15 A 199 GLU VAL ALA SER GLN LEU VAL MET ALA ALA GLY ILE TYR SEQRES 16 A 199 ASN TYR TYR GLU SEQRES 1 B 199 GLY SER HIS MET SER ALA SER ALA LEU VAL CYS LEU ALA SEQRES 2 B 199 PRO GLY SER GLU GLU THR GLU ALA VAL THR THR ILE ASP SEQRES 3 B 199 LEU LEU VAL ARG GLY GLY ILE LYS VAL THR THR ALA SER SEQRES 4 B 199 VAL ALA SER ASP GLY ASN LEU ALA ILE THR CYS SER ARG SEQRES 5 B 199 GLY VAL LYS LEU LEU ALA ASP ALA PRO LEU VAL GLU VAL SEQRES 6 B 199 ALA ASP GLY GLU TYR ASP VAL ILE VAL LEU PRO GLY GLY SEQRES 7 B 199 ILE LYS GLY ALA GLU CYS PHE ARG ASP SER THR LEU LEU SEQRES 8 B 199 VAL GLU THR VAL LYS GLN PHE HIS ARG SER GLY ARG ILE SEQRES 9 B 199 VAL ALA ALA ILE CYS ALA ALA PRO ALA THR VAL LEU VAL SEQRES 10 B 199 PRO HIS ASP ILE PHE PRO ILE GLY ASN MET THR GLY PHE SEQRES 11 B 199 PRO THR LEU LYS ASP LYS ILE PRO ALA GLU GLN TRP LEU SEQRES 12 B 199 ASP LYS ARG VAL VAL TRP ASP ALA ARG VAL LYS LEU LEU SEQRES 13 B 199 THR SER GLN GLY PRO GLY THR ALA ILE ASP PHE GLY LEU SEQRES 14 B 199 LYS ILE ILE ASP LEU LEU VAL GLY ARG GLU LYS ALA HIS SEQRES 15 B 199 GLU VAL ALA SER GLN LEU VAL MET ALA ALA GLY ILE TYR SEQRES 16 B 199 ASN TYR TYR GLU HET MG A 201 1 HET MG B 201 1 HETNAM MG MAGNESIUM ION FORMUL 3 MG 2(MG 2+) FORMUL 5 HOH *426(H2 O) HELIX 1 AA1 GLU A 14 GLY A 28 1 15 HELIX 2 AA2 LEU A 59 ALA A 63 1 5 HELIX 3 AA3 GLY A 75 SER A 85 1 11 HELIX 4 AA4 SER A 85 SER A 98 1 14 HELIX 5 AA5 ALA A 107 LEU A 113 1 7 HELIX 6 AA6 PHE A 127 ILE A 134 5 8 HELIX 7 AA7 GLY A 157 GLY A 159 5 3 HELIX 8 AA8 THR A 160 VAL A 173 1 14 HELIX 9 AA9 GLY A 174 GLN A 184 1 11 HELIX 10 AB1 GLU B 14 GLY B 28 1 15 HELIX 11 AB2 LEU B 59 ALA B 63 1 5 HELIX 12 AB3 GLY B 75 SER B 85 1 11 HELIX 13 AB4 SER B 85 SER B 98 1 14 HELIX 14 AB5 ALA B 107 VAL B 112 1 6 HELIX 15 AB6 PHE B 127 ILE B 134 5 8 HELIX 16 AB7 GLY B 157 GLY B 159 5 3 HELIX 17 AB8 THR B 160 VAL B 173 1 14 HELIX 18 AB9 GLY B 174 GLN B 184 1 11 SHEET 1 AA1 7 ALA A 57 PRO A 58 0 SHEET 2 AA1 7 LYS A 31 SER A 36 1 N SER A 36 O ALA A 57 SHEET 3 AA1 7 SER A 4 LEU A 9 1 N VAL A 7 O THR A 33 SHEET 4 AA1 7 VAL A 69 LEU A 72 1 O VAL A 71 N LEU A 6 SHEET 5 AA1 7 ILE A 101 ILE A 105 1 O ALA A 103 N LEU A 72 SHEET 6 AA1 7 LEU A 152 SER A 155 1 O LEU A 153 N VAL A 102 SHEET 7 AA1 7 VAL A 144 ASP A 147 -1 N ASP A 147 O LEU A 152 SHEET 1 AA2 2 ALA A 44 THR A 46 0 SHEET 2 AA2 2 LYS A 52 LEU A 54 -1 O LEU A 53 N ILE A 45 SHEET 1 AA3 7 ALA B 57 PRO B 58 0 SHEET 2 AA3 7 LYS B 31 SER B 36 1 N SER B 36 O ALA B 57 SHEET 3 AA3 7 SER B 4 LEU B 9 1 N LEU B 9 O ALA B 35 SHEET 4 AA3 7 VAL B 69 LEU B 72 1 O VAL B 71 N LEU B 6 SHEET 5 AA3 7 ILE B 101 ILE B 105 1 O ALA B 103 N LEU B 72 SHEET 6 AA3 7 LEU B 152 SER B 155 1 O LEU B 153 N VAL B 102 SHEET 7 AA3 7 VAL B 144 ASP B 147 -1 N VAL B 145 O THR B 154 SHEET 1 AA4 2 ALA B 44 THR B 46 0 SHEET 2 AA4 2 LYS B 52 LEU B 54 -1 O LEU B 53 N ILE B 45 LINK MG MG A 201 O HOH A 308 1555 1555 1.96 LINK MG MG A 201 O HOH A 414 1555 1555 1.99 LINK MG MG A 201 O HOH A 468 1555 1555 1.96 LINK MG MG A 201 O HOH A 481 1555 1555 2.16 LINK MG MG A 201 O HOH A 492 1555 1555 2.18 LINK MG MG A 201 O HOH A 500 1555 1555 1.98 LINK MG MG B 201 O HOH B 332 1555 1555 2.01 LINK MG MG B 201 O HOH B 372 1555 1555 2.05 LINK MG MG B 201 O HOH B 373 1555 1555 2.04 LINK MG MG B 201 O HOH B 487 1555 1555 2.05 LINK MG MG B 201 O HOH B 490 1555 1555 2.14 LINK MG MG B 201 O HOH B 516 1555 1555 2.10 SITE 1 AC1 6 HOH A 308 HOH A 414 HOH A 468 HOH A 481 SITE 2 AC1 6 HOH A 492 HOH A 500 SITE 1 AC2 6 HOH B 332 HOH B 372 HOH B 373 HOH B 487 SITE 2 AC2 6 HOH B 490 HOH B 516 CRYST1 43.875 78.313 99.434 90.00 90.00 90.00 P 21 21 21 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 0.022792 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012769 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010057 0.00000