HEADER HYDROLASE 22-JUN-05 2BV5 TITLE CRYSTAL STRUCTURE OF THE HUMAN PROTEIN TYROSINE PHOSPHATASE PTPN5 AT TITLE 2 1.8A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE-PROTEIN PHOSPHATASE, NON-RECEPTOR TYPE 5; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 256-537; COMPND 5 SYNONYM: HUMAN PROTEIN TYROSINE PHOSPHATASE PTPN5; COMPND 6 EC: 3.1.3.48; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 ORGAN: BRAIN; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: T7; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PLIC SGC KEYWDS PTPN5, STEP, PHOSPHATASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.E.DEBRECZENI,A.J.BARR,J.ESWARAN,C.SMEE,N.BURGESS,O.GILEADI,F.VON AUTHOR 2 DELFT,M.SUNDSTROM,C.ARROWSMITH,A.EDWARDS,S.KNAPP REVDAT 10 13-DEC-23 2BV5 1 REMARK REVDAT 9 23-OCT-19 2BV5 1 SEQADV REVDAT 8 08-MAY-19 2BV5 1 REMARK LINK REVDAT 7 28-FEB-18 2BV5 1 SOURCE JRNL REVDAT 6 24-JAN-18 2BV5 1 AUTHOR REVDAT 5 13-JUL-11 2BV5 1 VERSN REVDAT 4 02-JUN-09 2BV5 1 AUTHOR REVDAT 3 24-FEB-09 2BV5 1 VERSN REVDAT 2 13-MAY-08 2BV5 1 VERSN AUTHOR JRNL REMARK REVDAT 2 2 1 FORMUL REVDAT 1 14-JUL-05 2BV5 0 JRNL AUTH J.ESWARAN,J.P.VON KRIES,B.MARSDEN,E.LONGMAN,J.E.DEBRECZENI, JRNL AUTH 2 E.UGOCHUKWU,A.TURNBULL,W.H.LEE,S.KNAPP,A.J.BARR JRNL TITL CRYSTAL STRUCTURES AND INHIBITOR IDENTIFICATION FOR PTPN5, JRNL TITL 2 PTPRR AND PTPN7: A FAMILY OF HUMAN MAPK-SPECIFIC PROTEIN JRNL TITL 3 TYROSINE PHOSPHATASES. JRNL REF BIOCHEM. J. V. 395 483 2006 JRNL REFN ESSN 1470-8728 JRNL PMID 16441242 JRNL DOI 10.1042/BJ20051931 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 68.04 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 31160 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) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1665 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2086 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2370 REMARK 3 BIN FREE R VALUE SET COUNT : 132 REMARK 3 BIN FREE R VALUE : 0.2610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2239 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 11 REMARK 3 SOLVENT ATOMS : 271 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) : 17.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.36000 REMARK 3 B22 (A**2) : -0.41000 REMARK 3 B33 (A**2) : 0.04000 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): 0.107 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.107 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.070 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.362 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.947 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2390 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2132 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3267 ; 1.322 ; 1.957 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4967 ; 0.783 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 300 ; 5.503 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 116 ;34.983 ;23.879 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 390 ;12.096 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;12.622 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 359 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2661 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 475 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 500 ; 0.253 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2261 ; 0.183 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1166 ; 0.178 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1383 ; 0.082 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 189 ; 0.190 ; 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): 15 ; 0.270 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 58 ; 0.304 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.191 ; 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): 1510 ; 0.715 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2368 ; 1.122 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1024 ; 1.773 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 889 ; 2.662 ; 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 256 A 537 REMARK 3 ORIGIN FOR THE GROUP (A): 1.2560 -9.2830 -19.2380 REMARK 3 T TENSOR REMARK 3 T11: -0.0748 T22: -0.0394 REMARK 3 T33: -0.0498 T12: -0.0029 REMARK 3 T13: 0.0185 T23: 0.0074 REMARK 3 L TENSOR REMARK 3 L11: 0.8479 L22: 1.7696 REMARK 3 L33: 1.0521 L12: -0.1540 REMARK 3 L13: 0.2624 L23: 0.2367 REMARK 3 S TENSOR REMARK 3 S11: -0.0297 S12: -0.1131 S13: 0.0053 REMARK 3 S21: 0.2053 S22: -0.0333 S23: 0.0769 REMARK 3 S31: -0.0045 S32: -0.0148 S33: 0.0630 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2BV5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-JUN-05. REMARK 100 THE DEPOSITION ID IS D_1290024606. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-MAR-05 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 : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL 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 : 32877 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 39.960 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.37000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 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 2BIJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SITTING DROP, 25% PEG3350, 0.2M REMARK 280 LI2SO4, 100MM BIS TRIS PROPANE PH 5.5, VAPOR DIFFUSION, SITTING REMARK 280 DROP 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 19.97850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.07450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.00500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.07450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.97850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.00500 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: 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, ALA 257 TO PRO 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 GLU A 264 CG CD OE1 OE2 REMARK 470 LYS A 291 CG CD CE NZ REMARK 470 ASP A 294 CG OD1 OD2 REMARK 470 LYS A 305 CD CE NZ REMARK 470 ASN A 381 CG OD1 ND2 REMARK 470 GLU A 382 CG CD OE1 OE2 REMARK 470 LYS A 383 CG CD CE NZ REMARK 470 GLU A 390 CG CD OE1 OE2 REMARK 470 GLU A 391 CG CD OE1 OE2 REMARK 470 LYS A 419 CG CD CE NZ REMARK 470 THR A 422 OG1 CG2 REMARK 470 GLU A 424 CD OE1 OE2 REMARK 470 LYS A 533 CE NZ 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 A 2198 O HOH A 2261 1.97 REMARK 500 N SER A 256 O HOH A 2002 2.06 REMARK 500 O SER A 319 NH1 ARG A 361 2.09 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 HIS A 471 C SCY A 472 N 0.228 REMARK 500 SCY A 472 C SER A 473 N 0.152 REMARK 500 SCY A 472 C SER A 473 N -0.405 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 SCY A 472 O - C - N ANGL. DEV. = 11.5 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 ILE A 374 75.70 -117.71 REMARK 500 GLU A 391 -61.04 -129.80 REMARK 500 SCY A 472 -111.24 -142.58 REMARK 500 SER A 473 -70.95 -25.00 REMARK 500 ILE A 515 93.79 64.62 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 A2105 DISTANCE = 6.30 ANGSTROMS REMARK 525 HOH A2161 DISTANCE = 5.86 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1538 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1539 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BIJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HUMAN PROTEIN TYROSINE PHOSPHATASE PTPN5 REMARK 900 (STEP, STRIATUM ENRICHED ENRICHED PHOSPHATASE) REMARK 900 RELATED ID: 2CJZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE C472S MUTANT OF HUMAN PROTEIN TYROSINE REMARK 900 PHOSPHATASE PTPN5 (STEP , STRIATUM ENRICHED PHOSPHATASE) IN COMPLEX REMARK 900 WITH PHOSPHOTYROSINE REMARK 999 REMARK 999 SEQUENCE REMARK 999 ASP A 289, LEU A 298, VAL A 299, THR A 517 ARE VARIANT REMARK 999 MUTATIONS, SEE ALSO PREVIOUS DEPOSITION 2BIJ DBREF 2BV5 A 256 537 UNP P54829 PTN5_HUMAN 256 537 SEQADV 2BV5 PRO A 257 UNP P54829 ALA 257 ENGINEERED MUTATION SEQADV 2BV5 ASP A 289 UNP P54829 VAL 289 VARIANT SEQADV 2BV5 LEU A 298 UNP P54829 ARG 298 VARIANT SEQADV 2BV5 VAL A 299 UNP P54829 CYS 299 VARIANT SEQADV 2BV5 THR A 517 UNP P54829 HIS 517 VARIANT SEQRES 1 A 282 SER PRO SER ARG VAL LEU GLN ALA GLU GLU LEU HIS GLU SEQRES 2 A 282 LYS ALA LEU ASP PRO PHE LEU LEU GLN ALA GLU PHE PHE SEQRES 3 A 282 GLU ILE PRO MET ASN PHE VAL ASP PRO LYS GLU TYR ASP SEQRES 4 A 282 ILE PRO GLY LEU VAL ARG LYS ASN ARG TYR LYS THR ILE SEQRES 5 A 282 LEU PRO ASN PRO HIS SER ARG VAL CYS LEU THR SER PRO SEQRES 6 A 282 ASP PRO ASP ASP PRO LEU SER SER TYR ILE ASN ALA ASN SEQRES 7 A 282 TYR ILE ARG GLY TYR GLY GLY GLU GLU LYS VAL TYR ILE SEQRES 8 A 282 ALA THR GLN GLY PRO ILE VAL SER THR VAL ALA ASP PHE SEQRES 9 A 282 TRP ARG MET VAL TRP GLN GLU HIS THR PRO ILE ILE VAL SEQRES 10 A 282 MET ILE THR ASN ILE GLU GLU MET ASN GLU LYS CYS THR SEQRES 11 A 282 GLU TYR TRP PRO GLU GLU GLN VAL ALA TYR ASP GLY VAL SEQRES 12 A 282 GLU ILE THR VAL GLN LYS VAL ILE HIS THR GLU ASP TYR SEQRES 13 A 282 ARG LEU ARG LEU ILE SER LEU LYS SER GLY THR GLU GLU SEQRES 14 A 282 ARG GLY LEU LYS HIS TYR TRP PHE THR SER TRP PRO ASP SEQRES 15 A 282 GLN LYS THR PRO ASP ARG ALA PRO PRO LEU LEU HIS LEU SEQRES 16 A 282 VAL ARG GLU VAL GLU GLU ALA ALA GLN GLN GLU GLY PRO SEQRES 17 A 282 HIS CYS ALA PRO ILE ILE VAL HIS SCY SER ALA GLY ILE SEQRES 18 A 282 GLY ARG THR GLY CYS PHE ILE ALA THR SER ILE CYS CYS SEQRES 19 A 282 GLN GLN LEU ARG GLN GLU GLY VAL VAL ASP ILE LEU LYS SEQRES 20 A 282 THR THR CYS GLN LEU ARG GLN ASP ARG GLY GLY MET ILE SEQRES 21 A 282 GLN THR CYS GLU GLN TYR GLN PHE VAL HIS HIS VAL MET SEQRES 22 A 282 SER LEU TYR GLU LYS GLN LEU SER HIS MODRES 2BV5 SCY A 472 CYS S-ACETYL-CYSTEINE HET SCY A 472 18 HET SO4 A1538 5 HET GOL A1539 6 HETNAM SCY S-ACETYL-CYSTEINE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 SCY C5 H9 N O3 S FORMUL 2 SO4 O4 S 2- FORMUL 3 GOL C3 H8 O3 FORMUL 4 HOH *271(H2 O) HELIX 1 1 GLN A 262 LEU A 271 1 10 HELIX 2 2 ASP A 272 PHE A 281 1 10 HELIX 3 3 ASP A 289 ASP A 294 5 6 HELIX 4 4 GLY A 297 ASN A 302 5 6 HELIX 5 5 ASN A 310 HIS A 312 5 3 HELIX 6 6 GLY A 337 GLU A 341 5 5 HELIX 7 7 ILE A 352 SER A 354 5 3 HELIX 8 8 THR A 355 GLU A 366 1 12 HELIX 9 9 ASN A 376 MET A 380 5 5 HELIX 10 10 THR A 440 ASP A 442 5 3 HELIX 11 11 ARG A 443 GLN A 460 1 18 HELIX 12 12 ILE A 476 GLY A 496 1 21 HELIX 13 13 ASP A 499 ARG A 511 1 13 HELIX 14 14 THR A 517 HIS A 537 1 21 SHEET 1 AA 9 ARG A 314 CYS A 316 0 SHEET 2 AA 9 TYR A 329 ILE A 335 -1 N ILE A 330 O VAL A 315 SHEET 3 AA 9 TYR A 345 THR A 348 -1 O TYR A 345 N ILE A 335 SHEET 4 AA 9 ILE A 468 HIS A 471 1 O ILE A 468 N ILE A 346 SHEET 5 AA 9 ILE A 370 ILE A 374 1 O ILE A 370 N ILE A 469 SHEET 6 AA 9 GLU A 423 PHE A 432 1 O LYS A 428 N ILE A 371 SHEET 7 AA 9 ARG A 412 SER A 420 -1 O ARG A 412 N TRP A 431 SHEET 8 AA 9 VAL A 398 HIS A 407 -1 O GLU A 399 N LYS A 419 SHEET 9 AA 9 GLN A 392 TYR A 395 -1 O VAL A 393 N ILE A 400 LINK C HIS A 471 N ASCY A 472 1555 1555 1.56 LINK C HIS A 471 N BSCY A 472 1555 1555 1.72 LINK C ASCY A 472 N ASER A 473 1555 1555 1.49 CISPEP 1 SER A 319 PRO A 320 0 -1.17 SITE 1 AC1 7 TRP A 435 LYS A 439 ARG A 478 GLN A 520 SITE 2 AC1 7 HOH A2256 HOH A2270 HOH A2271 SITE 1 AC2 5 PHE A 280 PHE A 281 ILE A 283 ARG A 508 SITE 2 AC2 5 HOH A2235 CRYST1 39.957 64.010 136.149 90.00 90.00 90.00 P 21 21 21 4 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 0.025027 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015623 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007345 0.00000