PDB Short entry for 2NZ6 HEADER HYDROLASE 22-NOV-06 2NZ6 TITLE CRYSTAL STRUCTURE OF THE PTPRJ INACTIVATING MUTANT C1239S COMPND MOL_ID: 1; COMPND 2 MOLECULE: RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE ETA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: TYROSINE-PROTEIN PHOSPHATASE; COMPND 5 SYNONYM: PROTEIN-TYROSINE PHOSPHATASE ETA, R-PTP-ETA, HPTP ETA, COMPND 6 PROTEIN- TYROSINE PHOSPHATASE RECEPTOR TYPE J, DENSITY-ENHANCED COMPND 7 PHOSPHATASE 1, DEP-1, CD148 ANTIGEN; COMPND 8 EC: 3.1.3.48; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PTPRJ; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); 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: PNIC28-BSA4 KEYWDS HYDROLASE RECEPTOR TYPE TYROSINE PHOSPHATASE J, PTPRJ, GLYCOPROTEIN, KEYWDS 2 PROTEIN PHOSPHATASE, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 3 CONSORTIUM, SGC, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR E.UGOCHUKWU,A.BARR,P.SAVITSKY,A.C.W.PIKE,G.BUNKOCZI,M.SUNDSTROM, AUTHOR 2 J.WEIGELT,C.H.ARROWSMITH,A.EDWARDS,F.VON DELFT,S.KNAPP,STRUCTURAL AUTHOR 3 GENOMICS CONSORTIUM (SGC) REVDAT 8 30-AUG-23 2NZ6 1 REMARK REVDAT 7 20-OCT-21 2NZ6 1 REMARK SEQADV LINK REVDAT 6 18-OCT-17 2NZ6 1 REMARK REVDAT 5 13-JUL-11 2NZ6 1 VERSN REVDAT 4 09-JUN-09 2NZ6 1 REVDAT REVDAT 3 24-FEB-09 2NZ6 1 VERSN REVDAT 2 03-FEB-09 2NZ6 1 JRNL REVDAT 1 12-DEC-06 2NZ6 0 JRNL AUTH A.J.BARR,E.UGOCHUKWU,W.H.LEE,O.N.KING,P.FILIPPAKOPOULOS, JRNL AUTH 2 I.ALFANO,P.SAVITSKY,N.A.BURGESS-BROWN,S.MULLER,S.KNAPP JRNL TITL LARGE-SCALE STRUCTURAL ANALYSIS OF THE CLASSICAL HUMAN JRNL TITL 2 PROTEIN TYROSINE PHOSPHATOME. JRNL REF CELL(CAMBRIDGE,MASS.) V. 136 352 2009 JRNL REFN ISSN 0092-8674 JRNL PMID 19167335 JRNL DOI 10.1016/J.CELL.2008.11.038 REMARK 2 REMARK 2 RESOLUTION. 2.30 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.98 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 14581 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 738 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 968 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.2270 REMARK 3 BIN FREE R VALUE SET COUNT : 57 REMARK 3 BIN FREE R VALUE : 0.3840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2380 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 11 REMARK 3 SOLVENT ATOMS : 94 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.31000 REMARK 3 B22 (A**2) : 0.31000 REMARK 3 B33 (A**2) : -0.47000 REMARK 3 B12 (A**2) : 0.16000 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): 0.315 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.221 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.158 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.948 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.912 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2458 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1594 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3345 ; 1.291 ; 1.929 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3880 ; 1.314 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 292 ; 6.569 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 125 ;38.257 ;24.240 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 392 ;14.494 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;16.095 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 366 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2736 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 511 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 444 ; 0.199 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1603 ; 0.198 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1202 ; 0.175 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1217 ; 0.087 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 106 ; 0.147 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.042 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 39 ; 0.180 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 38 ; 0.173 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.078 ; 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): 1533 ; 0.596 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 592 ; 0.107 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2398 ; 0.978 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1087 ; 1.391 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 947 ; 1.901 ; 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A -21 A 1303 REMARK 3 ORIGIN FOR THE GROUP (A): -7.3409 29.3880 -13.9498 REMARK 3 T TENSOR REMARK 3 T11: -0.0848 T22: -0.1260 REMARK 3 T33: -0.1298 T12: -0.0195 REMARK 3 T13: 0.0105 T23: 0.0067 REMARK 3 L TENSOR REMARK 3 L11: 0.9952 L22: 1.9150 REMARK 3 L33: 1.4601 L12: -0.2978 REMARK 3 L13: -0.1515 L23: -0.6791 REMARK 3 S TENSOR REMARK 3 S11: -0.0626 S12: -0.1023 S13: -0.1365 REMARK 3 S21: 0.1607 S22: 0.0587 S23: 0.0983 REMARK 3 S31: 0.1221 S32: -0.0931 S33: 0.0039 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 2NZ6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-NOV-06. REMARK 100 THE DEPOSITION ID IS D_1000040484. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-MAY-06 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 : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15274 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 46.980 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.08900 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) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.38700 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: NULL REMARK 200 STARTING MODEL: PDB ENTRY 2CFV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.01M NICL2, 0.1M TRIS, PH 8.5, 1M REMARK 280 LI2SO4, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.26050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 25.55381 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 39.65000 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 44.26050 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 25.55381 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 39.65000 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 44.26050 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 25.55381 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 39.65000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 51.10762 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 79.30000 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 51.10762 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 79.30000 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 51.10762 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 79.30000 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 10470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 36090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -168.0 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 -0.500000 -0.866025 0.000000 44.26050 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 76.66143 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -44.26050 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 76.66143 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 NI NI A 201 LIES ON A SPECIAL POSITION. REMARK 375 NI NI A 206 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -22 REMARK 465 CYS A 1141 REMARK 465 VAL A 1142 REMARK 465 GLU A 1143 REMARK 465 GLN A 1144 REMARK 465 GLY A 1145 REMARK 465 ARG A 1146 REMARK 465 THR A 1147 REMARK 465 LYS A 1148 REMARK 465 CYS A 1149 REMARK 465 GLU A 1150 REMARK 465 LYS A 1227 REMARK 465 GLN A 1228 REMARK 465 SER A 1229 REMARK 465 PRO A 1230 REMARK 465 PRO A 1231 REMARK 465 ASP A 1304 REMARK 465 SER A 1305 REMARK 465 LYS A 1306 REMARK 465 VAL A 1307 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 GLN A -2 CG CD OE1 NE2 REMARK 470 ARG A1022 NE CZ NH1 NH2 REMARK 470 LYS A1031 CE NZ REMARK 470 LYS A1032 CE NZ REMARK 470 SER A1037 OG REMARK 470 GLU A1043 CD OE1 OE2 REMARK 470 GLU A1046 CD OE1 OE2 REMARK 470 LYS A1049 CD CE NZ REMARK 470 ARG A1066 NE CZ NH1 NH2 REMARK 470 LYS A1083 CE NZ REMARK 470 LYS A1121 CE NZ REMARK 470 TYR A1133 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A1140 CD CE NZ REMARK 470 GLU A1151 OE1 OE2 REMARK 470 LYS A1156 CG CD CE NZ REMARK 470 GLU A1176 CG CD OE1 OE2 REMARK 470 ILE A1187 CG1 CG2 CD1 REMARK 470 ASP A1224 OD1 OD2 REMARK 470 GLU A1232 CG CD OE1 OE2 REMARK 470 LYS A1303 CG CD CE NZ 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 LYS A1057 48.36 -148.80 REMARK 500 SER A1155 -42.79 -133.72 REMARK 500 SER A1190 -0.76 79.43 REMARK 500 VAL A1243 -55.76 -127.23 REMARK 500 VAL A1282 90.73 64.44 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 NI A 204 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A -21 N REMARK 620 2 HIS A -20 N 85.8 REMARK 620 3 HIS A -20 ND1 176.5 97.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 205 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A -21 NE2 REMARK 620 2 HIS A -19 NE2 85.2 REMARK 620 3 HIS A -17 NE2 88.7 100.6 REMARK 620 4 LYS A1106 NZ 103.9 80.0 167.3 REMARK 620 5 HIS A1277 NE2 102.7 164.7 92.7 85.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 206 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A -20 NE2 REMARK 620 2 HIS A -20 NE2 97.4 REMARK 620 3 HIS A -20 NE2 100.7 97.9 REMARK 620 4 HOH A 96 O 94.8 154.4 101.9 REMARK 620 5 HOH A 96 O 98.9 90.6 157.4 65.3 REMARK 620 6 HOH A 96 O 157.9 97.3 93.5 65.6 64.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 201 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A -18 NE2 REMARK 620 2 HIS A -18 NE2 92.8 REMARK 620 3 HIS A -18 NE2 92.8 92.8 REMARK 620 4 HIS A -16 NE2 87.0 88.8 178.4 REMARK 620 5 HIS A -16 NE2 178.3 87.0 88.9 91.3 REMARK 620 6 HIS A -16 NE2 88.8 178.4 87.1 91.3 91.4 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 NI A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 207 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2CFV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PROTEIN TYROSINE PHOSPHATASE RECEPTOR REMARK 900 TYPE J DBREF 2NZ6 A 1019 1311 UNP Q12913 PTPRJ_HUMAN 1019 1311 SEQADV 2NZ6 MET A -22 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 HIS A -21 UNP Q12913 EXPRESSION TAG SEQADV 2NZ6 HIS A -20 UNP Q12913 EXPRESSION TAG SEQADV 2NZ6 HIS A -19 UNP Q12913 EXPRESSION TAG SEQADV 2NZ6 HIS A -18 UNP Q12913 EXPRESSION TAG SEQADV 2NZ6 HIS A -17 UNP Q12913 EXPRESSION TAG SEQADV 2NZ6 HIS A -16 UNP Q12913 EXPRESSION TAG SEQADV 2NZ6 SER A -15 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 SER A -14 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 GLY A -13 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 VAL A -12 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 ASP A -11 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 LEU A -10 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 GLY A -9 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 THR A -8 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 GLU A -7 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 ASN A -6 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 LEU A -5 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 TYR A -4 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 PHE A -3 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 GLN A -2 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 SER A -1 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 MET A 0 UNP Q12913 CLONING ARTIFACT SEQADV 2NZ6 SER A 1239 UNP Q12913 CYS 1239 ENGINEERED MUTATION SEQRES 1 A 316 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 316 GLY THR GLU ASN LEU TYR PHE GLN SER MET LYS LEU ILE SEQRES 3 A 316 ARG VAL GLU ASN PHE GLU ALA TYR PHE LYS LYS GLN GLN SEQRES 4 A 316 ALA ASP SER ASN CYS GLY PHE ALA GLU GLU TYR GLU ASP SEQRES 5 A 316 LEU LYS LEU VAL GLY ILE SER GLN PRO LYS TYR ALA ALA SEQRES 6 A 316 GLU LEU ALA GLU ASN ARG GLY LYS ASN ARG TYR ASN ASN SEQRES 7 A 316 VAL LEU PRO TYR ASP ILE SER ARG VAL LYS LEU SER VAL SEQRES 8 A 316 GLN THR HIS SER THR ASP ASP TYR ILE ASN ALA ASN TYR SEQRES 9 A 316 MET PRO GLY TYR HIS SER LYS LYS ASP PHE ILE ALA THR SEQRES 10 A 316 GLN GLY PRO LEU PRO ASN THR LEU LYS ASP PHE TRP ARG SEQRES 11 A 316 MET VAL TRP GLU LYS ASN VAL TYR ALA ILE ILE MET LEU SEQRES 12 A 316 THR LYS CYS VAL GLU GLN GLY ARG THR LYS CYS GLU GLU SEQRES 13 A 316 TYR TRP PRO SER LYS GLN ALA GLN ASP TYR GLY ASP ILE SEQRES 14 A 316 THR VAL ALA MET THR SER GLU ILE VAL LEU PRO GLU TRP SEQRES 15 A 316 THR ILE ARG ASP PHE THR VAL LYS ASN ILE GLN THR SER SEQRES 16 A 316 GLU SER HIS PRO LEU ARG GLN PHE HIS PHE THR SER TRP SEQRES 17 A 316 PRO ASP HIS GLY VAL PRO ASP THR THR ASP LEU LEU ILE SEQRES 18 A 316 ASN PHE ARG TYR LEU VAL ARG ASP TYR MET LYS GLN SER SEQRES 19 A 316 PRO PRO GLU SER PRO ILE LEU VAL HIS SER SER ALA GLY SEQRES 20 A 316 VAL GLY ARG THR GLY THR PHE ILE ALA ILE ASP ARG LEU SEQRES 21 A 316 ILE TYR GLN ILE GLU ASN GLU ASN THR VAL ASP VAL TYR SEQRES 22 A 316 GLY ILE VAL TYR ASP LEU ARG MET HIS ARG PRO LEU MET SEQRES 23 A 316 VAL GLN THR GLU ASP GLN TYR VAL PHE LEU ASN GLN CYS SEQRES 24 A 316 VAL LEU ASP ILE VAL ARG SER GLN LYS ASP SER LYS VAL SEQRES 25 A 316 ASP LEU ILE TYR HET NI A 201 1 HET NI A 203 1 HET NI A 204 1 HET NI A 205 1 HET NI A 206 1 HET PO4 A 207 5 HET CL A 208 1 HETNAM NI NICKEL (II) ION HETNAM PO4 PHOSPHATE ION HETNAM CL CHLORIDE ION FORMUL 2 NI 5(NI 2+) FORMUL 7 PO4 O4 P 3- FORMUL 8 CL CL 1- FORMUL 9 HOH *94(H2 O) HELIX 1 1 ASP A -11 GLN A -2 1 10 HELIX 2 2 VAL A 1023 LEU A 1048 1 26 HELIX 3 3 LEU A 1062 ASN A 1069 5 8 HELIX 4 4 HIS A 1089 TYR A 1094 5 6 HELIX 5 5 THR A 1119 LYS A 1130 1 12 HELIX 6 6 THR A 1211 MET A 1226 1 16 HELIX 7 7 VAL A 1243 GLU A 1262 1 20 HELIX 8 8 ASP A 1266 MET A 1276 1 11 HELIX 9 9 THR A 1284 LYS A 1303 1 20 SHEET 1 A 2 ILE A1021 ARG A1022 0 SHEET 2 A 2 THR A1264 VAL A1265 -1 O VAL A1265 N ILE A1021 SHEET 1 B 8 ALA A1097 MET A1100 0 SHEET 2 B 8 PHE A1109 GLN A1113 -1 O ALA A1111 N ASN A1098 SHEET 3 B 8 ILE A1235 SER A1239 1 O VAL A1237 N ILE A1110 SHEET 4 B 8 ALA A1134 LEU A1138 1 N ILE A1136 O LEU A1236 SHEET 5 B 8 SER A1192 PHE A1200 1 O PHE A1198 N ILE A1135 SHEET 6 B 8 TRP A1177 ASN A1186 -1 N ARG A1180 O GLN A1197 SHEET 7 B 8 ILE A1164 VAL A1173 -1 N THR A1169 O ASP A1181 SHEET 8 B 8 GLN A1159 TYR A1161 -1 N TYR A1161 O ILE A1164 LINK N HIS A -21 NI NI A 204 1555 1555 2.10 LINK NE2 HIS A -21 NI NI A 205 2665 1555 2.11 LINK N HIS A -20 NI NI A 204 1555 1555 2.02 LINK ND1 HIS A -20 NI NI A 204 1555 1555 1.91 LINK NE2 HIS A -20 NI NI A 206 1555 1555 2.04 LINK NE2 HIS A -20 NI NI A 206 2665 1555 2.13 LINK NE2 HIS A -20 NI NI A 206 3565 1555 2.02 LINK NE2 HIS A -19 NI NI A 205 1555 1555 2.39 LINK NE2 HIS A -18 NI NI A 201 1555 1555 2.28 LINK NE2 HIS A -18 NI NI A 201 2665 1555 2.28 LINK NE2 HIS A -18 NI NI A 201 3565 1555 2.28 LINK NE2 HIS A -17 NI NI A 205 1555 1555 2.22 LINK NE2 HIS A -16 NI NI A 201 1555 1555 2.16 LINK NE2 HIS A -16 NI NI A 201 2665 1555 2.16 LINK NE2 HIS A -16 NI NI A 201 3565 1555 2.16 LINK O HOH A 96 NI NI A 206 1555 1555 2.55 LINK O HOH A 96 NI NI A 206 2665 1555 2.62 LINK O HOH A 96 NI NI A 206 3565 1555 2.60 LINK NI NI A 203 NE2 HIS A1206 1555 1555 2.28 LINK NI NI A 205 NZ LYS A1106 1555 3565 2.09 LINK NI NI A 205 NE2 HIS A1277 1555 3565 2.29 SITE 1 AC1 2 HIS A -18 HIS A -16 SITE 1 AC2 1 HIS A1206 SITE 1 AC3 3 HIS A -19 HIS A -20 HIS A -21 SITE 1 AC4 5 HIS A -21 HIS A -19 HIS A -17 LYS A1106 SITE 2 AC4 5 HIS A1277 SITE 1 AC5 2 HIS A -20 HOH A 96 SITE 1 AC6 10 HOH A 45 ASP A1205 SER A1239 SER A1240 SITE 2 AC6 10 ALA A1241 GLY A1242 VAL A1243 GLY A1244 SITE 3 AC6 10 ARG A1245 TYR A1311 CRYST1 88.521 88.521 118.950 90.00 90.00 120.00 H 3 9 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 0.011297 0.006522 0.000000 0.00000 SCALE2 0.000000 0.013044 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008407 0.00000