PDB Short entry for 2J16 HEADER HYDROLASE 09-AUG-06 2J16 TITLE APO & SULPHATE BOUND FORMS OF SDP-1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE-PROTEIN PHOSPHATASE YIL113W; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 17-198; COMPND 5 SYNONYM: SDP-1; COMPND 6 EC: 3.1.3.48; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: TYROSINE-PROTEIN PHOSPHATASE YIL113W; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: RESIDUES 17-198; COMPND 12 SYNONYM: SDP-1; COMPND 13 EC: 3.1.3.48; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 STRAIN: S288C / AB972; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: FB810; SOURCE 9 EXPRESSION_SYSTEM_VARIANT: PLYSS; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET14B; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 13 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 14 ORGANISM_TAXID: 4932; SOURCE 15 STRAIN: S288C / AB972; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: FB810; SOURCE 19 EXPRESSION_SYSTEM_VARIANT: PLYSS; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET14B KEYWDS HYDROLASE, PROTEIN PHOSPHATASE, HYPOTHETICAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.C.BRIGGS,N.Q.MCDONALD REVDAT 5 08-MAY-19 2J16 1 REMARK LINK REVDAT 4 28-FEB-18 2J16 1 JRNL REVDAT 3 24-FEB-09 2J16 1 VERSN REVDAT 2 29-MAY-07 2J16 1 JRNL REVDAT 1 22-MAY-07 2J16 0 JRNL AUTH G.C.FOX,M.SHAFIQ,D.C.BRIGGS,P.P.KNOWLES,M.COLLISTER, JRNL AUTH 2 M.J.DIDMON,V.MAKRANTONI,R.J.DICKINSON,S.HANRAHAN,N.TOTTY, JRNL AUTH 3 M.J.STARK,S.M.KEYSE,N.Q.MCDONALD JRNL TITL REDOX-MEDIATED SUBSTRATE RECOGNITION BY SDP1 DEFINES A NEW JRNL TITL 2 GROUP OF TYROSINE PHOSPHATASES. JRNL REF NATURE V. 447 487 2007 JRNL REFN ESSN 1476-4687 JRNL PMID 17495930 JRNL DOI 10.1038/NATURE05804 REMARK 2 REMARK 2 RESOLUTION. 2.70 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 12583 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) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.230 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 652 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 897 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3020 REMARK 3 BIN FREE R VALUE SET COUNT : 47 REMARK 3 BIN FREE R VALUE : 0.3110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2179 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 41 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.16000 REMARK 3 B22 (A**2) : 0.16000 REMARK 3 B33 (A**2) : -0.31000 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): 0.498 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.299 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.224 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.719 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.922 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.903 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2247 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3069 ; 1.196 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 273 ; 5.635 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 89 ;39.411 ;24.270 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 374 ;16.249 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;18.589 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 361 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1647 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1002 ; 0.194 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1505 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 70 ; 0.111 ; 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): 30 ; 0.162 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 1 ; 0.131 ; 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): 1429 ; 0.571 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2251 ; 1.037 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 937 ; 0.869 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 818 ; 1.425 ; 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. DISORDERED REGIONS AND SIDECHAIN ATOMS WERE OMMITTED. REMARK 4 REMARK 4 2J16 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1290029202. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-SEP-00 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93 REMARK 200 MONOCHROMATOR : SI CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13396 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.37000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: ENSEMBLE MODEL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5M MGSO4, 0.1M HEPES, PH 7.5 7MG/ML REMARK 280 PROTEIN 1:1 SITTING DROP VAPOUR DIFFUSION, VAPOR DIFFUSION, REMARK 280 SITTING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 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 76.44250 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 38.67100 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 38.67100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 38.22125 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 38.67100 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 38.67100 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 114.66375 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 38.67100 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.67100 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 38.22125 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 38.67100 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.67100 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 114.66375 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 76.44250 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: PQS 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 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 17 REMARK 465 GLY A 18 REMARK 465 GLN A 19 REMARK 465 ARG A 20 REMARK 465 PRO A 21 REMARK 465 SER A 22 REMARK 465 LEU A 23 REMARK 465 PRO A 24 REMARK 465 MET A 25 REMARK 465 LEU A 26 REMARK 465 ALA A 27 REMARK 465 THR A 28 REMARK 465 ASP A 29 REMARK 465 GLU A 30 REMARK 465 ARG A 31 REMARK 465 SER A 32 REMARK 465 THR A 33 REMARK 465 ASP A 34 REMARK 465 LYS A 35 REMARK 465 GLU A 36 REMARK 465 SER A 37 REMARK 465 PRO A 38 REMARK 465 ASN A 39 REMARK 465 GLU A 40 REMARK 465 ASP A 41 REMARK 465 ARG A 42 REMARK 465 GLU A 43 REMARK 465 PHE A 44 REMARK 465 VAL A 45 REMARK 465 PRO A 46 REMARK 465 CYS A 47 REMARK 465 SER A 48 REMARK 465 SER A 49 REMARK 465 LEU A 50 REMARK 465 ASP A 51 REMARK 465 VAL A 52 REMARK 465 ARG A 53 REMARK 465 ARG A 54 REMARK 465 ILE A 55 REMARK 465 ASN A 93 REMARK 465 ASP A 94 REMARK 465 LEU A 95 REMARK 465 ARG A 96 REMARK 465 MET A 97 REMARK 465 GLN A 98 REMARK 465 VAL A 99 REMARK 465 PRO A 100 REMARK 465 THR A 198 REMARK 465 SER B 17 REMARK 465 GLY B 18 REMARK 465 GLN B 19 REMARK 465 ARG B 20 REMARK 465 PRO B 21 REMARK 465 SER B 22 REMARK 465 LEU B 23 REMARK 465 PRO B 24 REMARK 465 MET B 25 REMARK 465 LEU B 26 REMARK 465 ALA B 27 REMARK 465 THR B 28 REMARK 465 ASP B 29 REMARK 465 GLU B 30 REMARK 465 ARG B 31 REMARK 465 SER B 32 REMARK 465 THR B 33 REMARK 465 ASP B 34 REMARK 465 LYS B 35 REMARK 465 GLU B 36 REMARK 465 SER B 37 REMARK 465 PRO B 38 REMARK 465 ASN B 39 REMARK 465 GLU B 40 REMARK 465 ASP B 41 REMARK 465 ARG B 42 REMARK 465 GLU B 43 REMARK 465 PHE B 44 REMARK 465 VAL B 45 REMARK 465 PRO B 46 REMARK 465 CYS B 47 REMARK 465 SER B 48 REMARK 465 SER B 49 REMARK 465 LEU B 50 REMARK 465 ASP B 51 REMARK 465 VAL B 52 REMARK 465 ARG B 53 REMARK 465 THR B 198 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 TYR A 56 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 58 CD CE NZ REMARK 470 GLU A 73 CG CD OE1 OE2 REMARK 470 VAL A 76 CG1 CG2 REMARK 470 LYS A 77 CG CD CE NZ REMARK 470 ARG A 108 CD NE CZ NH1 NH2 REMARK 470 GLU A 110 CG CD OE1 OE2 REMARK 470 GLN A 141 CG CD OE1 NE2 REMARK 470 CYS A 142 SG REMARK 470 ARG A 164 CD NE CZ NH1 NH2 REMARK 470 LYS A 197 CA C O CB CG CD CE REMARK 470 LYS A 197 NZ REMARK 470 ARG B 54 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 58 CD CE NZ REMARK 470 LYS B 77 CG CD CE NZ REMARK 470 ARG B 133 CZ NH1 NH2 REMARK 470 ARG B 164 NE CZ NH1 NH2 REMARK 470 LYS B 176 CD CE NZ REMARK 470 LYS B 197 CA C O CB CG CD CE REMARK 470 LYS B 197 NZ 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 PRO A 57 C - N - CA ANGL. DEV. = 14.3 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 PRO A 57 -150.73 -21.22 REMARK 500 LYS A 58 31.64 174.62 REMARK 500 TYR A 71 -167.71 -165.50 REMARK 500 GLU A 73 71.14 47.93 REMARK 500 VAL A 102 -89.78 -93.36 REMARK 500 CSD A 140 -153.99 -123.17 REMARK 500 GLN A 141 118.70 -160.23 REMARK 500 LEU A 144 29.31 46.94 REMARK 500 ASN A 160 59.32 35.62 REMARK 500 GLU B 66 30.37 -76.51 REMARK 500 SER B 72 -155.45 -82.21 REMARK 500 CYS B 140 -135.46 -119.63 REMARK 500 ASN B 178 68.92 -159.42 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 B1197 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SO4 B1199 O2 REMARK 620 2 SO4 B1199 O3 56.5 REMARK 620 3 SO4 B1199 O1 18.3 55.1 REMARK 620 4 ASN B 93 OD1 90.4 146.8 92.9 REMARK 620 5 SO4 B1199 O2 47.5 45.3 31.1 112.0 REMARK 620 6 SO4 B1199 S 30.1 30.3 24.8 117.4 27.3 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 B1197 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1198 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1199 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1200 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2J17 RELATED DB: PDB REMARK 900 PTYR BOUND FORM OF SDP-1 DBREF 2J16 A 17 198 UNP P40479 YIL3_YEAST 17 198 DBREF 2J16 B 17 198 UNP P40479 YIL3_YEAST 17 198 SEQRES 1 A 182 SER GLY GLN ARG PRO SER LEU PRO MET LEU ALA THR ASP SEQRES 2 A 182 GLU ARG SER THR ASP LYS GLU SER PRO ASN GLU ASP ARG SEQRES 3 A 182 GLU PHE VAL PRO CYS SER SER LEU ASP VAL ARG ARG ILE SEQRES 4 A 182 TYR PRO LYS GLY PRO LEU LEU VAL LEU PRO GLU LYS ILE SEQRES 5 A 182 TYR LEU TYR SER GLU PRO THR VAL LYS GLU LEU LEU PRO SEQRES 6 A 182 PHE ASP VAL VAL ILE ASN VAL ALA GLU GLU ALA ASN ASP SEQRES 7 A 182 LEU ARG MET GLN VAL PRO ALA VAL GLU TYR HIS HIS TYR SEQRES 8 A 182 ARG TRP GLU HIS ASP SER GLN ILE ALA LEU ASP LEU PRO SEQRES 9 A 182 SER LEU THR SER ILE ILE HIS ALA ALA THR THR LYS ARG SEQRES 10 A 182 GLU LYS ILE LEU ILE HIS CSD GLN CYS GLY LEU SER ARG SEQRES 11 A 182 SER ALA THR LEU ILE ILE ALA TYR ILE MET LYS TYR HIS SEQRES 12 A 182 ASN LEU SER LEU ARG HIS SER TYR ASP LEU LEU LYS SER SEQRES 13 A 182 ARG ALA ASP LYS ILE ASN PRO SER ILE GLY LEU ILE PHE SEQRES 14 A 182 GLN LEU MET GLU TRP GLU VAL ALA LEU ASN ALA LYS THR SEQRES 1 B 182 SER GLY GLN ARG PRO SER LEU PRO MET LEU ALA THR ASP SEQRES 2 B 182 GLU ARG SER THR ASP LYS GLU SER PRO ASN GLU ASP ARG SEQRES 3 B 182 GLU PHE VAL PRO CYS SER SER LEU ASP VAL ARG ARG ILE SEQRES 4 B 182 TYR PRO LYS GLY PRO LEU LEU VAL LEU PRO GLU LYS ILE SEQRES 5 B 182 TYR LEU TYR SER GLU PRO THR VAL LYS GLU LEU LEU PRO SEQRES 6 B 182 PHE ASP VAL VAL ILE ASN VAL ALA GLU GLU ALA ASN ASP SEQRES 7 B 182 LEU ARG MET GLN VAL PRO ALA VAL GLU TYR HIS HIS TYR SEQRES 8 B 182 ARG TRP GLU HIS ASP SER GLN ILE ALA LEU ASP LEU PRO SEQRES 9 B 182 SER LEU THR SER ILE ILE HIS ALA ALA THR THR LYS ARG SEQRES 10 B 182 GLU LYS ILE LEU ILE HIS CYS GLN CYS GLY LEU SER ARG SEQRES 11 B 182 SER ALA THR LEU ILE ILE ALA TYR ILE MET LYS TYR HIS SEQRES 12 B 182 ASN LEU SER LEU ARG HIS SER TYR ASP LEU LEU LYS SER SEQRES 13 B 182 ARG ALA ASP LYS ILE ASN PRO SER ILE GLY LEU ILE PHE SEQRES 14 B 182 GLN LEU MET GLU TRP GLU VAL ALA LEU ASN ALA LYS THR MODRES 2J16 CSD A 140 CYS 3-SULFINOALANINE HET CSD A 140 8 HET MG B1197 1 HET SO4 B1198 5 HET SO4 B1199 5 HET SO4 B1200 5 HETNAM CSD 3-SULFINOALANINE HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETSYN CSD S-CYSTEINESULFINIC ACID; S-SULFINOCYSTEINE FORMUL 1 CSD C3 H7 N O4 S FORMUL 3 MG MG 2+ FORMUL 4 SO4 3(O4 S 2-) FORMUL 7 HOH *41(H2 O) HELIX 1 1 HIS A 111 LEU A 117 5 7 HELIX 2 2 ASP A 118 LYS A 132 1 15 HELIX 3 3 SER A 145 HIS A 159 1 15 HELIX 4 4 SER A 162 ALA A 174 1 13 HELIX 5 5 SER A 180 ALA A 196 1 17 HELIX 6 6 THR B 75 LEU B 80 1 6 HELIX 7 7 LEU B 95 VAL B 99 5 5 HELIX 8 8 ASP B 118 LYS B 132 1 15 HELIX 9 9 SER B 145 HIS B 159 1 15 HELIX 10 10 SER B 162 ALA B 174 1 13 HELIX 11 11 SER B 180 ALA B 196 1 17 SHEET 1 AA 5 LEU A 61 LEU A 64 0 SHEET 2 AA 5 ILE A 68 LEU A 70 -1 O ILE A 68 N VAL A 63 SHEET 3 AA 5 ILE A 136 HIS A 139 1 O ILE A 136 N TYR A 69 SHEET 4 AA 5 VAL A 84 ASN A 87 1 O VAL A 84 N LEU A 137 SHEET 5 AA 5 GLU A 103 HIS A 106 1 O GLU A 103 N VAL A 85 SHEET 1 BA 5 LEU B 61 LEU B 64 0 SHEET 2 BA 5 ILE B 68 TYR B 71 -1 O ILE B 68 N VAL B 63 SHEET 3 BA 5 ILE B 136 HIS B 139 1 O ILE B 136 N TYR B 69 SHEET 4 BA 5 VAL B 84 ASN B 87 1 O VAL B 84 N LEU B 137 SHEET 5 BA 5 GLU B 103 HIS B 106 1 O GLU B 103 N VAL B 85 LINK C HIS A 139 N CSD A 140 1555 1555 1.34 LINK C CSD A 140 N GLN A 141 1555 1555 1.33 LINK MG MG B1197 O2 SO4 B1199 1555 7555 2.00 LINK MG MG B1197 O3 SO4 B1199 1555 7555 2.80 LINK MG MG B1197 O1 SO4 B1199 1555 1555 2.35 LINK MG MG B1197 OD1 ASN B 93 1555 1555 2.34 LINK MG MG B1197 O2 SO4 B1199 7555 1555 2.00 LINK MG MG B1197 S SO4 B1199 1555 7555 2.79 CISPEP 1 ALA A 101 VAL A 102 0 -14.42 CISPEP 2 GLN A 141 CYS A 142 0 10.60 CISPEP 3 CYS A 142 GLY A 143 0 13.15 SITE 1 AC1 2 ASN B 93 SO4 B1199 SITE 1 AC2 7 CYS B 140 GLN B 141 CYS B 142 GLY B 143 SITE 2 AC2 7 LEU B 144 SER B 145 ARG B 146 SITE 1 AC3 5 ASN B 93 ASP B 94 HIS B 106 ARG B 108 SITE 2 AC3 5 MG B1197 SITE 1 AC4 1 ARG B 96 CRYST1 77.342 77.342 152.885 90.00 90.00 90.00 P 41 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 0.012930 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012930 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006541 0.00000 MTRIX1 1 -0.749000 0.662500 0.004000 16.57780 1 MTRIX2 1 0.661600 0.748200 -0.049600 -5.18410 1 MTRIX3 1 -0.035800 -0.034500 -0.998800 47.33580 1