PDB Short entry for 2PA5 HEADER HYDROLASE 27-MAR-07 2PA5 TITLE CRYSTAL STRUCTURE OF HUMAN PROTEIN TYROSINE PHOSPHATASE PTPN9 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE-PROTEIN PHOSPHATASE NON-RECEPTOR TYPE 9; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: PTPN9: TYROSINE-PROTEIN PHOSPHATASE DOMAIN; COMPND 5 SYNONYM: PROTEIN-TYROSINE PHOSPHATASE MEG2, PTPASE-MEG2; COMPND 6 EC: 3.1.3.48; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PTPN9; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: PHAGE-RESISTANT DERIVATIVE OF BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC-CH KEYWDS PROTEIN TYROSINE PHOSPHATASE, MEG2, PTPN9, STRUCTURAL GENOMICS, KEYWDS 2 STRUCTURAL GENOMICS CONSORTIUM, SGC, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR E.UGOCHUKWU,A.BARR,A.C.W.PIKE,P.SAVITSKY,E.PAPAGRIGORIOU,A.TURNBULL, AUTHOR 2 J.UPPENBERG,G.BUNKOCZI,E.SALAH,S.DAS,F.VON DELFT,M.SUNDSTROM, AUTHOR 3 C.H.ARROWSMITH,J.WEIGELT,A.EDWARDS,S.KNAPP,STRUCTURAL GENOMICS AUTHOR 4 CONSORTIUM (SGC) REVDAT 7 30-AUG-23 2PA5 1 REMARK SEQADV REVDAT 6 18-OCT-17 2PA5 1 REMARK REVDAT 5 13-JUL-11 2PA5 1 VERSN REVDAT 4 09-JUN-09 2PA5 1 REVDAT REVDAT 3 24-FEB-09 2PA5 1 VERSN REVDAT 2 03-FEB-09 2PA5 1 JRNL REVDAT 1 15-MAY-07 2PA5 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. 1.60 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.96 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 68013 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) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3602 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4937 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.07 REMARK 3 BIN R VALUE (WORKING SET) : 0.2090 REMARK 3 BIN FREE R VALUE SET COUNT : 265 REMARK 3 BIN FREE R VALUE : 0.2780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4637 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 405 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 13.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.19000 REMARK 3 B22 (A**2) : 0.07000 REMARK 3 B33 (A**2) : -0.27000 REMARK 3 B12 (A**2) : -0.14000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.13000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.084 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.085 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.057 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.189 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4794 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3264 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6474 ; 1.434 ; 1.941 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7931 ; 1.153 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 580 ; 5.578 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 225 ;31.278 ;23.778 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 814 ;11.354 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;14.843 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 715 ; 0.090 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5282 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1001 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 948 ; 0.225 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3286 ; 0.200 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2409 ; 0.184 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2398 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 307 ; 0.137 ; 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): 22 ; 0.169 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 76 ; 0.239 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 27 ; 0.158 ; 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): 2924 ; 3.055 ; 5.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1188 ; 1.898 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4733 ; 4.264 ; 7.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1870 ; 5.985 ; 9.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1741 ; 8.173 ;11.000 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 278 A 306 5 REMARK 3 1 B 278 B 306 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1681 ; 0.31 ; 0.50 REMARK 3 LOOSE POSITIONAL 1 A (A): 1994 ; 0.60 ; 5.00 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1681 ; 1.78 ; 2.00 REMARK 3 LOOSE THERMAL 1 A (A**2): 1994 ; 3.13 ; 10.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 278 A 581 REMARK 3 ORIGIN FOR THE GROUP (A): 56.1910 59.7636 62.4847 REMARK 3 T TENSOR REMARK 3 T11: -0.0468 T22: -0.0400 REMARK 3 T33: -0.0435 T12: -0.0038 REMARK 3 T13: -0.0029 T23: -0.0015 REMARK 3 L TENSOR REMARK 3 L11: 0.4577 L22: 0.6799 REMARK 3 L33: 0.5482 L12: -0.1048 REMARK 3 L13: -0.0190 L23: -0.0283 REMARK 3 S TENSOR REMARK 3 S11: -0.0016 S12: 0.0349 S13: 0.0108 REMARK 3 S21: -0.0545 S22: 0.0036 S23: 0.0076 REMARK 3 S31: 0.0026 S32: 0.0184 S33: -0.0020 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 278 B 578 REMARK 3 ORIGIN FOR THE GROUP (A): 69.4684 45.3327 92.5664 REMARK 3 T TENSOR REMARK 3 T11: -0.0306 T22: 0.0028 REMARK 3 T33: -0.0296 T12: -0.0100 REMARK 3 T13: -0.0055 T23: 0.0104 REMARK 3 L TENSOR REMARK 3 L11: 0.6307 L22: 0.6425 REMARK 3 L33: 0.5125 L12: -0.3206 REMARK 3 L13: -0.1815 L23: 0.1932 REMARK 3 S TENSOR REMARK 3 S11: -0.0010 S12: -0.1018 S13: -0.0861 REMARK 3 S21: 0.0658 S22: -0.0236 S23: 0.0026 REMARK 3 S31: -0.0201 S32: -0.0084 S33: 0.0245 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 2PA5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAR-07. REMARK 100 THE DEPOSITION ID IS D_1000042158. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-MAR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.15 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) : 0.95370 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 : 71616 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 33.960 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : 0.06300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.3 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : 0.37900 REMARK 200 R SYM FOR SHELL (I) : 0.37900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2HNQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 3350, 0.2 M POTASSIUM REMARK 280 THIOCYANATE, 10% ETHYLENE GLYCOL, 0.1 M BIS-TRIS PROPANE PH 6.15, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 276 REMARK 465 ARG A 349 REMARK 465 SER A 350 REMARK 465 GLY A 351 REMARK 465 HIS A 352 REMARK 465 THR A 353 REMARK 465 ARG A 501 REMARK 465 SER A 502 REMARK 465 LYS A 503 REMARK 465 GLY A 504 REMARK 465 GLN A 505 REMARK 465 CYS A 506 REMARK 465 PRO A 507 REMARK 465 HIS A 585 REMARK 465 HIS A 586 REMARK 465 HIS A 587 REMARK 465 HIS A 588 REMARK 465 HIS A 589 REMARK 465 MET B 276 REMARK 465 PRO B 283 REMARK 465 PRO B 469 REMARK 465 ASP B 470 REMARK 465 TYR B 471 REMARK 465 GLY B 472 REMARK 465 VAL B 473 REMARK 465 GLY B 499 REMARK 465 ALA B 500 REMARK 465 ARG B 501 REMARK 465 SER B 502 REMARK 465 LYS B 503 REMARK 465 GLY B 504 REMARK 465 GLN B 505 REMARK 465 CYS B 506 REMARK 465 SER B 582 REMARK 465 ALA B 583 REMARK 465 HIS B 584 REMARK 465 HIS B 585 REMARK 465 HIS B 586 REMARK 465 HIS B 587 REMARK 465 HIS B 588 REMARK 465 HIS B 589 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 289 CD OE1 NE2 REMARK 470 GLN A 299 CG CD OE1 NE2 REMARK 470 ARG A 311 NE CZ NH1 NH2 REMARK 470 ARG A 312 CD NE CZ NH1 NH2 REMARK 470 VAL A 316 CG1 CG2 REMARK 470 GLU A 329 CD OE1 OE2 REMARK 470 LYS A 330 CE NZ REMARK 470 LYS A 348 CG CD CE NZ REMARK 470 GLN A 354 CG CD OE1 NE2 REMARK 470 GLU A 380 CD OE1 OE2 REMARK 470 ARG A 384 NE CZ NH1 NH2 REMARK 470 LYS A 394 NZ REMARK 470 GLN A 414 CD OE1 NE2 REMARK 470 GLU A 453 OE1 OE2 REMARK 470 LYS A 577 CE NZ REMARK 470 HIS A 584 CG ND1 CD2 CE1 NE2 REMARK 470 HIS B 284 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 300 NZ REMARK 470 GLU B 329 CD OE1 OE2 REMARK 470 ARG B 349 NE CZ NH1 NH2 REMARK 470 LYS B 369 CD CE NZ REMARK 470 GLU B 419 CD OE1 OE2 REMARK 470 ARG B 423 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 438 CG OD1 ND2 REMARK 470 ASN B 440 CG OD1 ND2 REMARK 470 LYS B 443 NZ REMARK 470 GLU B 453 CG CD OE1 OE2 REMARK 470 ARG B 455 CD NE CZ NH1 NH2 REMARK 470 LYS B 457 CE NZ REMARK 470 SER B 479 OG REMARK 470 ARG B 485 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 488 CD NE CZ NH1 NH2 REMARK 470 ASN B 489 CG OD1 ND2 REMARK 470 ASN B 497 CG OD1 ND2 REMARK 470 GLN B 545 CD OE1 NE2 REMARK 470 GLU B 576 CD OE1 OE2 REMARK 470 LYS B 577 CD CE NZ 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 CYS B 338 CB CYS B 338 SG -0.102 REMARK 500 TRP B 468 CB TRP B 468 CG 0.113 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 MET A 439 CG - SD - CE ANGL. DEV. = -13.0 DEGREES REMARK 500 ARG A 551 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 ARG A 551 NE - CZ - NH2 ANGL. DEV. = -3.0 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 GLN A 299 179.73 64.22 REMARK 500 ASP A 421 -5.75 76.44 REMARK 500 ILE A 558 102.69 72.17 REMARK 500 GLN B 299 -172.71 63.30 REMARK 500 ASP B 421 -12.57 81.08 REMARK 500 CYS B 515 -158.68 -144.33 REMARK 500 GLN B 553 -54.31 -120.90 REMARK 500 ILE B 558 102.42 73.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 591 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 590 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 592 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SCN A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 705 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HNQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PROTEIN TYROSINE PHOSPHATASE 1B DBREF 2PA5 A 277 582 UNP P43378 PTN9_HUMAN 277 582 DBREF 2PA5 B 277 582 UNP P43378 PTN9_HUMAN 277 582 SEQADV 2PA5 MET A 276 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 ALA A 583 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS A 584 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS A 585 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS A 586 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS A 587 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS A 588 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS A 589 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 MET B 276 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 ALA B 583 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS B 584 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS B 585 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS B 586 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS B 587 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS B 588 UNP P43378 CLONING ARTIFACT SEQADV 2PA5 HIS B 589 UNP P43378 CLONING ARTIFACT SEQRES 1 A 314 MET SER VAL HIS VAL PRO GLY PRO HIS ALA MET THR ILE SEQRES 2 A 314 GLN GLU LEU VAL ASP TYR VAL ASN ALA ARG GLN LYS GLN SEQRES 3 A 314 GLY ILE TYR GLU GLU TYR GLU ASP ILE ARG ARG GLU ASN SEQRES 4 A 314 PRO VAL GLY THR PHE HIS CYS SER MET SER PRO GLY ASN SEQRES 5 A 314 LEU GLU LYS ASN ARG TYR GLY ASP VAL PRO CYS LEU ASP SEQRES 6 A 314 GLN THR ARG VAL LYS LEU THR LYS ARG SER GLY HIS THR SEQRES 7 A 314 GLN THR ASP TYR ILE ASN ALA SER PHE MET ASP GLY TYR SEQRES 8 A 314 LYS GLN LYS ASN ALA TYR ILE GLY THR GLN GLY PRO LEU SEQRES 9 A 314 GLU ASN THR TYR ARG ASP PHE TRP LEU MET VAL TRP GLU SEQRES 10 A 314 GLN LYS VAL LEU VAL ILE VAL MET THR THR ARG PHE GLU SEQRES 11 A 314 GLU GLY GLY ARG ARG LYS CYS GLY GLN TYR TRP PRO LEU SEQRES 12 A 314 GLU LYS ASP SER ARG ILE ARG PHE GLY PHE LEU THR VAL SEQRES 13 A 314 THR ASN LEU GLY VAL GLU ASN MET ASN HIS TYR LYS LYS SEQRES 14 A 314 THR THR LEU GLU ILE HIS ASN THR GLU GLU ARG GLN LYS SEQRES 15 A 314 ARG GLN VAL THR HIS PHE GLN PHE LEU SER TRP PRO ASP SEQRES 16 A 314 TYR GLY VAL PRO SER SER ALA ALA SER LEU ILE ASP PHE SEQRES 17 A 314 LEU ARG VAL VAL ARG ASN GLN GLN SER LEU ALA VAL SER SEQRES 18 A 314 ASN MET GLY ALA ARG SER LYS GLY GLN CYS PRO GLU PRO SEQRES 19 A 314 PRO ILE VAL VAL HIS CYS SER ALA GLY ILE GLY ARG THR SEQRES 20 A 314 GLY THR PHE CYS SER LEU ASP ILE CYS LEU ALA GLN LEU SEQRES 21 A 314 GLU GLU LEU GLY THR LEU ASN VAL PHE GLN THR VAL SER SEQRES 22 A 314 ARG MET ARG THR GLN ARG ALA PHE SER ILE GLN THR PRO SEQRES 23 A 314 GLU GLN TYR TYR PHE CYS TYR LYS ALA ILE LEU GLU PHE SEQRES 24 A 314 ALA GLU LYS GLU GLY MET VAL SER ALA HIS HIS HIS HIS SEQRES 25 A 314 HIS HIS SEQRES 1 B 314 MET SER VAL HIS VAL PRO GLY PRO HIS ALA MET THR ILE SEQRES 2 B 314 GLN GLU LEU VAL ASP TYR VAL ASN ALA ARG GLN LYS GLN SEQRES 3 B 314 GLY ILE TYR GLU GLU TYR GLU ASP ILE ARG ARG GLU ASN SEQRES 4 B 314 PRO VAL GLY THR PHE HIS CYS SER MET SER PRO GLY ASN SEQRES 5 B 314 LEU GLU LYS ASN ARG TYR GLY ASP VAL PRO CYS LEU ASP SEQRES 6 B 314 GLN THR ARG VAL LYS LEU THR LYS ARG SER GLY HIS THR SEQRES 7 B 314 GLN THR ASP TYR ILE ASN ALA SER PHE MET ASP GLY TYR SEQRES 8 B 314 LYS GLN LYS ASN ALA TYR ILE GLY THR GLN GLY PRO LEU SEQRES 9 B 314 GLU ASN THR TYR ARG ASP PHE TRP LEU MET VAL TRP GLU SEQRES 10 B 314 GLN LYS VAL LEU VAL ILE VAL MET THR THR ARG PHE GLU SEQRES 11 B 314 GLU GLY GLY ARG ARG LYS CYS GLY GLN TYR TRP PRO LEU SEQRES 12 B 314 GLU LYS ASP SER ARG ILE ARG PHE GLY PHE LEU THR VAL SEQRES 13 B 314 THR ASN LEU GLY VAL GLU ASN MET ASN HIS TYR LYS LYS SEQRES 14 B 314 THR THR LEU GLU ILE HIS ASN THR GLU GLU ARG GLN LYS SEQRES 15 B 314 ARG GLN VAL THR HIS PHE GLN PHE LEU SER TRP PRO ASP SEQRES 16 B 314 TYR GLY VAL PRO SER SER ALA ALA SER LEU ILE ASP PHE SEQRES 17 B 314 LEU ARG VAL VAL ARG ASN GLN GLN SER LEU ALA VAL SER SEQRES 18 B 314 ASN MET GLY ALA ARG SER LYS GLY GLN CYS PRO GLU PRO SEQRES 19 B 314 PRO ILE VAL VAL HIS CYS SER ALA GLY ILE GLY ARG THR SEQRES 20 B 314 GLY THR PHE CYS SER LEU ASP ILE CYS LEU ALA GLN LEU SEQRES 21 B 314 GLU GLU LEU GLY THR LEU ASN VAL PHE GLN THR VAL SER SEQRES 22 B 314 ARG MET ARG THR GLN ARG ALA PHE SER ILE GLN THR PRO SEQRES 23 B 314 GLU GLN TYR TYR PHE CYS TYR LYS ALA ILE LEU GLU PHE SEQRES 24 B 314 ALA GLU LYS GLU GLY MET VAL SER ALA HIS HIS HIS HIS SEQRES 25 B 314 HIS HIS HET CL A 590 1 HET CL A 591 1 HET CL A 592 1 HET SCN A 601 3 HET EDO A 703 4 HET EDO A 704 4 HET CL B 590 1 HET EDO B 701 4 HET EDO B 702 4 HET EDO B 705 4 HETNAM CL CHLORIDE ION HETNAM SCN THIOCYANATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 CL 4(CL 1-) FORMUL 6 SCN C N S 1- FORMUL 7 EDO 5(C2 H6 O2) FORMUL 13 HOH *405(H2 O) HELIX 1 1 THR A 287 GLU A 313 1 27 HELIX 2 2 PHE A 319 SER A 324 1 6 HELIX 3 3 ASN A 327 ASN A 331 5 5 HELIX 4 4 LEU A 379 ASN A 381 5 3 HELIX 5 5 THR A 382 GLN A 393 1 12 HELIX 6 6 ALA A 477 GLY A 499 1 23 HELIX 7 7 ILE A 519 GLY A 539 1 21 HELIX 8 8 ASN A 542 ARG A 551 1 10 HELIX 9 9 THR A 560 GLU A 578 1 19 HELIX 10 10 THR B 287 ARG B 312 1 26 HELIX 11 11 SER B 324 ASN B 331 5 8 HELIX 12 12 LEU B 339 GLN B 341 5 3 HELIX 13 13 LEU B 379 ASN B 381 5 3 HELIX 14 14 THR B 382 GLN B 393 1 12 HELIX 15 15 ALA B 477 MET B 498 1 22 HELIX 16 16 GLY B 520 GLY B 539 1 20 HELIX 17 17 ASN B 542 ARG B 551 1 10 HELIX 18 18 THR B 560 GLU B 578 1 19 SHEET 1 A 9 ARG A 343 LYS A 345 0 SHEET 2 A 9 TYR A 357 GLY A 365 -1 O ALA A 360 N VAL A 344 SHEET 3 A 9 GLN A 368 GLN A 376 -1 O GLN A 368 N GLY A 365 SHEET 4 A 9 ILE A 511 CYS A 515 1 O VAL A 513 N ILE A 373 SHEET 5 A 9 VAL A 397 MET A 400 1 N VAL A 399 O VAL A 512 SHEET 6 A 9 GLN A 456 PHE A 465 1 O PHE A 463 N MET A 400 SHEET 7 A 9 TYR A 442 ASN A 451 -1 N ILE A 449 O ARG A 458 SHEET 8 A 9 LEU A 429 ASN A 438 -1 N THR A 430 O HIS A 450 SHEET 9 A 9 ARG A 423 PHE A 426 -1 N PHE A 426 O LEU A 429 SHEET 1 B 2 GLU A 405 GLU A 406 0 SHEET 2 B 2 ARG A 409 ARG A 410 -1 O ARG A 409 N GLU A 406 SHEET 1 C 9 ARG B 343 LYS B 345 0 SHEET 2 C 9 TYR B 357 GLY B 365 -1 O ALA B 360 N VAL B 344 SHEET 3 C 9 GLN B 368 GLN B 376 -1 O GLN B 368 N GLY B 365 SHEET 4 C 9 ILE B 511 CYS B 515 1 O VAL B 513 N ILE B 373 SHEET 5 C 9 VAL B 397 MET B 400 1 N VAL B 399 O VAL B 512 SHEET 6 C 9 GLN B 456 PHE B 465 1 O PHE B 463 N MET B 400 SHEET 7 C 9 TYR B 442 ASN B 451 -1 N THR B 445 O HIS B 462 SHEET 8 C 9 LEU B 429 ASN B 438 -1 N LEU B 434 O THR B 446 SHEET 9 C 9 ARG B 423 PHE B 426 -1 N PHE B 426 O LEU B 429 SHEET 1 D 2 GLU B 405 GLU B 406 0 SHEET 2 D 2 ARG B 409 ARG B 410 -1 O ARG B 409 N GLU B 406 CISPEP 1 GLY A 282 PRO A 283 0 -5.96 SITE 1 AC1 4 THR A 402 LYS A 411 SER A 516 HOH A 761 SITE 1 AC2 3 ARG B 332 ARG B 410 HOH B 764 SITE 1 AC3 1 ARG A 332 SITE 1 AC4 6 ALA A 478 ILE A 481 PHE A 574 LYS A 577 SITE 2 AC4 6 HOH A 750 HOH A 919 SITE 1 AC5 5 SER A 475 ASP B 335 ALA B 517 GLN B 559 SITE 2 AC5 5 HOH B 733 SITE 1 AC6 7 GLY B 365 TYR B 366 GLN B 368 ALA B 371 SITE 2 AC6 7 TYR B 372 ASP B 529 ILE B 530 SITE 1 AC7 7 GLN A 289 ARG A 425 GLY A 427 MET A 580 SITE 2 AC7 7 VAL A 581 SER A 582 HOH A 921 SITE 1 AC8 8 PRO A 474 SER A 475 PHE A 566 LYS A 569 SITE 2 AC8 8 ALA A 570 GLU A 573 HOH A 809 HOH A 845 SITE 1 AC9 5 LEU A 466 ARG B 312 HOH B 771 HOH B 786 SITE 2 AC9 5 HOH B 823 CRYST1 39.965 57.427 66.446 77.44 78.22 80.41 P 1 2 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 0.025022 -0.004228 -0.004495 0.00000 SCALE2 0.000000 0.017660 -0.003420 0.00000 SCALE3 0.000000 0.000000 0.015659 0.00000