HEADER HYDROLASE/HYDROLASE INHIBITOR 06-MAR-18 6CMR TITLE CLOSED STRUCTURE OF ACTIVE SHP2 MUTANT E76D BOUND TO SHP099 INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE-PROTEIN PHOSPHATASE NON-RECEPTOR TYPE 11; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PROTEIN-TYROSINE PHOSPHATASE 1D,PTP-1D,PROTEIN-TYROSINE COMPND 5 PHOSPHATASE 2C,PTP-2C,SH-PTP2,SHP2,SH-PTP3; 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 GENE: PTPN11, PTP2C, SHPTP2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS PROTEIN TYROSINE PHOSPHATASE, SRC HOMOLOGY DOMAIN 2, INACTIVE STATE, KEYWDS 2 ACTIVE MUTANT, HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.A.P.PADUA,Y.SUN,I.MARKO,W.PITSAWONG,D.KERN REVDAT 6 04-OCT-23 6CMR 1 REMARK REVDAT 5 08-JAN-20 6CMR 1 REMARK REVDAT 4 20-NOV-19 6CMR 1 REMARK REVDAT 3 17-APR-19 6CMR 1 REMARK REVDAT 2 20-FEB-19 6CMR 1 REMARK REVDAT 1 14-NOV-18 6CMR 0 JRNL AUTH R.A.P.PADUA,Y.SUN,I.MARKO,W.PITSAWONG,J.B.STILLER,R.OTTEN, JRNL AUTH 2 D.KERN JRNL TITL MECHANISM OF ACTIVATING MUTATIONS AND ALLOSTERIC DRUG JRNL TITL 2 INHIBITION OF THE PHOSPHATASE SHP2. JRNL REF NAT COMMUN V. 9 4507 2018 JRNL REFN ESSN 2041-1723 JRNL PMID 30375376 JRNL DOI 10.1038/S41467-018-06814-W REMARK 2 REMARK 2 RESOLUTION. 2.21 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 52.79 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 25954 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.227 REMARK 3 R VALUE (WORKING SET) : 0.224 REMARK 3 FREE R VALUE : 0.261 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.730 REMARK 3 FREE R VALUE TEST SET COUNT : 3722 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 52.8100 - 6.6300 1.00 1652 140 0.2082 0.2408 REMARK 3 2 6.6300 - 5.2600 1.00 1620 135 0.1881 0.2001 REMARK 3 3 5.2600 - 4.6000 1.00 1646 138 0.1419 0.1641 REMARK 3 4 4.6000 - 4.1800 1.00 1641 138 0.1539 0.1756 REMARK 3 5 4.1800 - 3.8800 0.99 1644 137 0.1721 0.2167 REMARK 3 6 3.8800 - 3.6500 0.99 1646 138 0.1885 0.2321 REMARK 3 7 3.6500 - 3.4700 1.00 1645 139 0.2026 0.2710 REMARK 3 8 3.4700 - 3.3100 1.00 1667 138 0.2191 0.2413 REMARK 3 9 3.3100 - 3.1900 1.00 1619 139 0.2448 0.2735 REMARK 3 10 3.1900 - 3.0800 1.00 1668 141 0.2525 0.2926 REMARK 3 11 3.0800 - 2.9800 1.00 1623 139 0.2705 0.2943 REMARK 3 12 2.9800 - 2.9000 1.00 1657 136 0.2587 0.3888 REMARK 3 13 2.9000 - 2.8200 1.00 1662 137 0.2582 0.2557 REMARK 3 14 2.8200 - 2.7500 1.00 1596 133 0.2644 0.2919 REMARK 3 15 2.7500 - 2.6900 1.00 1714 142 0.2929 0.3547 REMARK 3 16 2.6900 - 2.6300 1.00 1615 134 0.3071 0.4021 REMARK 3 17 2.6300 - 2.5800 1.00 1630 134 0.3057 0.3805 REMARK 3 18 2.5800 - 2.5300 1.00 1672 140 0.2932 0.3198 REMARK 3 19 2.5300 - 2.4800 1.00 1676 141 0.3039 0.3193 REMARK 3 20 2.4800 - 2.4400 1.00 1608 139 0.3055 0.3516 REMARK 3 21 2.4400 - 2.4000 1.00 1653 134 0.3052 0.3351 REMARK 3 22 2.4000 - 2.3700 1.00 1666 132 0.3097 0.3098 REMARK 3 23 2.3700 - 2.3300 1.00 1659 140 0.3170 0.3588 REMARK 3 24 2.3300 - 2.3000 1.00 1602 140 0.3541 0.4204 REMARK 3 25 2.3000 - 2.2700 1.00 1632 139 0.3560 0.3568 REMARK 3 26 2.2700 - 2.2400 1.00 1716 143 0.3586 0.3677 REMARK 3 27 2.2400 - 2.2100 0.99 1617 136 0.3635 0.3736 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.386 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.263 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.34 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.13 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.002 3951 REMARK 3 ANGLE : 0.457 5353 REMARK 3 CHIRALITY : 0.041 590 REMARK 3 PLANARITY : 0.002 693 REMARK 3 DIHEDRAL : 9.916 2339 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 66 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.5874 -5.3184 21.2114 REMARK 3 T TENSOR REMARK 3 T11: 0.3466 T22: 0.6537 REMARK 3 T33: 0.5367 T12: -0.0877 REMARK 3 T13: 0.0057 T23: -0.0251 REMARK 3 L TENSOR REMARK 3 L11: 5.8140 L22: 2.6920 REMARK 3 L33: 7.7442 L12: 0.6709 REMARK 3 L13: 4.3737 L23: 0.6142 REMARK 3 S TENSOR REMARK 3 S11: 0.1932 S12: -0.2660 S13: 0.2629 REMARK 3 S21: 0.0408 S22: -0.2727 S23: 0.5317 REMARK 3 S31: 0.2028 S32: -1.0521 S33: 0.0848 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 67 THROUGH 103 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.2043 -13.8120 19.9972 REMARK 3 T TENSOR REMARK 3 T11: 0.4917 T22: 0.6078 REMARK 3 T33: 0.5879 T12: -0.0612 REMARK 3 T13: -0.0003 T23: -0.0244 REMARK 3 L TENSOR REMARK 3 L11: 6.4226 L22: 5.5136 REMARK 3 L33: 3.6818 L12: -0.8016 REMARK 3 L13: 3.9762 L23: 2.0460 REMARK 3 S TENSOR REMARK 3 S11: 0.4985 S12: 0.6616 S13: -0.8691 REMARK 3 S21: 0.3515 S22: -0.0821 S23: 0.1543 REMARK 3 S31: 1.0094 S32: 0.0050 S33: -0.4449 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 104 THROUGH 245 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.3966 17.8408 10.0231 REMARK 3 T TENSOR REMARK 3 T11: 0.8119 T22: 0.4655 REMARK 3 T33: 0.6100 T12: 0.1228 REMARK 3 T13: -0.0079 T23: 0.0596 REMARK 3 L TENSOR REMARK 3 L11: 0.8026 L22: 1.4166 REMARK 3 L33: 4.8414 L12: 1.0011 REMARK 3 L13: 0.3316 L23: 0.4978 REMARK 3 S TENSOR REMARK 3 S11: -0.1699 S12: 0.0433 S13: 0.1454 REMARK 3 S21: -0.4168 S22: -0.0245 S23: -0.0053 REMARK 3 S31: -0.6070 S32: -0.2624 S33: 0.2102 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 246 THROUGH 528 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.1447 -0.8539 40.9345 REMARK 3 T TENSOR REMARK 3 T11: 0.4082 T22: 0.4247 REMARK 3 T33: 0.3954 T12: -0.0848 REMARK 3 T13: 0.0431 T23: 0.0522 REMARK 3 L TENSOR REMARK 3 L11: 2.5017 L22: 2.3978 REMARK 3 L33: 2.7223 L12: -1.1693 REMARK 3 L13: 1.1551 L23: -0.7055 REMARK 3 S TENSOR REMARK 3 S11: -0.0048 S12: -0.1977 S13: -0.0275 REMARK 3 S21: 0.1684 S22: 0.0968 S23: 0.1526 REMARK 3 S31: 0.0918 S32: -0.2428 S33: -0.0826 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6CMR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAR-18. REMARK 100 THE DEPOSITION ID IS D_1000232625. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-DEC-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99997 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25969 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.210 REMARK 200 RESOLUTION RANGE LOW (A) : 52.790 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.16450 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.8500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.21 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.29 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: PHASER REMARK 200 STARTING MODEL: 4DGP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 20,000 AND 10 MM POTASSIUM REMARK 280 HYDROGEN TARTRATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 X,-Y,-Z REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.18000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 110.76500 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 27.18000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 110.76500 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: PISA 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 GLY A 0 REMARK 465 MET A 1 REMARK 465 LYS A 91 REMARK 465 ASN A 92 REMARK 465 GLY A 93 REMARK 465 LYS A 157 REMARK 465 GLY A 158 REMARK 465 GLU A 159 REMARK 465 LEU A 236 REMARK 465 ALA A 237 REMARK 465 GLU A 238 REMARK 465 THR A 239 REMARK 465 THR A 240 REMARK 465 ASP A 241 REMARK 465 LYS A 242 REMARK 465 VAL A 243 REMARK 465 LYS A 244 REMARK 465 ASP A 294 REMARK 465 GLY A 295 REMARK 465 ASP A 296 REMARK 465 PRO A 297 REMARK 465 ASN A 298 REMARK 465 GLU A 299 REMARK 465 PRO A 300 REMARK 465 VAL A 301 REMARK 465 PHE A 314 REMARK 465 GLU A 315 REMARK 465 THR A 316 REMARK 465 LYS A 317 REMARK 465 CYS A 318 REMARK 465 ASN A 319 REMARK 465 ASN A 320 REMARK 465 SER A 321 REMARK 465 LYS A 322 REMARK 465 PRO A 323 REMARK 465 ILE A 529 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 THR A 2 OG1 CG2 REMARK 470 THR A 12 OG1 CG2 REMARK 470 ARG A 23 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 35 CD CE NZ REMARK 470 ARG A 47 CD NE CZ NH1 NH2 REMARK 470 LYS A 55 CG CD CE NZ REMARK 470 GLU A 83 CG CD OE1 OE2 REMARK 470 HIS A 85 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 89 CE NZ REMARK 470 ASP A 94 CG OD1 OD2 REMARK 470 VAL A 95 CG1 CG2 REMARK 470 HIS A 116 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 120 CG CD CE NZ REMARK 470 LYS A 129 CE NZ REMARK 470 GLN A 141 CG CD OE1 NE2 REMARK 470 ASP A 156 CG OD1 OD2 REMARK 470 SER A 160 OG REMARK 470 ASN A 161 CG OD1 ND2 REMARK 470 LYS A 164 CG CD CE NZ REMARK 470 GLU A 232 CG CD OE1 OE2 REMARK 470 LYS A 235 CG CD CE NZ REMARK 470 GLN A 245 CG CD OE1 NE2 REMARK 470 LEU A 262 CG CD1 CD2 REMARK 470 LYS A 266 CG CD CE NZ REMARK 470 LYS A 274 CG CD CE NZ REMARK 470 HIS A 293 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 313 CG CD OE1 OE2 REMARK 470 LYS A 324 CG CD CE NZ REMARK 470 GLN A 335 CG CD OE1 NE2 REMARK 470 ARG A 362 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 364 CG CD CE NZ REMARK 470 LYS A 366 CE NZ REMARK 470 ASN A 410 CG OD1 ND2 REMARK 470 ARG A 421 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 426 CG ND1 CD2 CE1 NE2 REMARK 470 MET A 450 CG SD CE REMARK 470 ASP A 451 CG OD1 OD2 REMARK 470 LYS A 482 CE NZ REMARK 470 GLN A 526 CG CD OE1 NE2 REMARK 470 ARG A 527 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 528 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 HD22 ASN A 275 OD1 ASP A 485 1545 1.59 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 SER A 3 -68.03 -143.39 REMARK 500 TYR A 62 167.63 178.56 REMARK 500 HIS A 84 68.38 -113.68 REMARK 500 LYS A 131 -166.83 -119.94 REMARK 500 ASN A 161 49.55 -168.88 REMARK 500 ASP A 162 -19.94 -140.74 REMARK 500 LEU A 212 78.31 -111.27 REMARK 500 LYS A 213 -73.44 -70.52 REMARK 500 ARG A 362 17.87 59.19 REMARK 500 TYR A 375 -7.77 76.75 REMARK 500 CYS A 459 -115.74 -138.53 REMARK 500 SER A 460 -77.33 -91.11 REMARK 500 ILE A 463 -32.27 -140.35 REMARK 500 ASP A 485 40.32 -92.48 REMARK 500 VAL A 505 110.68 69.76 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 5OD A 601 DBREF 6CMR A 1 529 UNP Q06124 PTN11_HUMAN 1 529 SEQADV 6CMR GLY A -2 UNP Q06124 EXPRESSION TAG SEQADV 6CMR SER A -1 UNP Q06124 EXPRESSION TAG SEQADV 6CMR GLY A 0 UNP Q06124 EXPRESSION TAG SEQADV 6CMR ASP A 76 UNP Q06124 GLU 76 ENGINEERED MUTATION SEQRES 1 A 532 GLY SER GLY MET THR SER ARG ARG TRP PHE HIS PRO ASN SEQRES 2 A 532 ILE THR GLY VAL GLU ALA GLU ASN LEU LEU LEU THR ARG SEQRES 3 A 532 GLY VAL ASP GLY SER PHE LEU ALA ARG PRO SER LYS SER SEQRES 4 A 532 ASN PRO GLY ASP PHE THR LEU SER VAL ARG ARG ASN GLY SEQRES 5 A 532 ALA VAL THR HIS ILE LYS ILE GLN ASN THR GLY ASP TYR SEQRES 6 A 532 TYR ASP LEU TYR GLY GLY GLU LYS PHE ALA THR LEU ALA SEQRES 7 A 532 ASP LEU VAL GLN TYR TYR MET GLU HIS HIS GLY GLN LEU SEQRES 8 A 532 LYS GLU LYS ASN GLY ASP VAL ILE GLU LEU LYS TYR PRO SEQRES 9 A 532 LEU ASN CYS ALA ASP PRO THR SER GLU ARG TRP PHE HIS SEQRES 10 A 532 GLY HIS LEU SER GLY LYS GLU ALA GLU LYS LEU LEU THR SEQRES 11 A 532 GLU LYS GLY LYS HIS GLY SER PHE LEU VAL ARG GLU SER SEQRES 12 A 532 GLN SER HIS PRO GLY ASP PHE VAL LEU SER VAL ARG THR SEQRES 13 A 532 GLY ASP ASP LYS GLY GLU SER ASN ASP GLY LYS SER LYS SEQRES 14 A 532 VAL THR HIS VAL MET ILE ARG CYS GLN GLU LEU LYS TYR SEQRES 15 A 532 ASP VAL GLY GLY GLY GLU ARG PHE ASP SER LEU THR ASP SEQRES 16 A 532 LEU VAL GLU HIS TYR LYS LYS ASN PRO MET VAL GLU THR SEQRES 17 A 532 LEU GLY THR VAL LEU GLN LEU LYS GLN PRO LEU ASN THR SEQRES 18 A 532 THR ARG ILE ASN ALA ALA GLU ILE GLU SER ARG VAL ARG SEQRES 19 A 532 GLU LEU SER LYS LEU ALA GLU THR THR ASP LYS VAL LYS SEQRES 20 A 532 GLN GLY PHE TRP GLU GLU PHE GLU THR LEU GLN GLN GLN SEQRES 21 A 532 GLU CYS LYS LEU LEU TYR SER ARG LYS GLU GLY GLN ARG SEQRES 22 A 532 GLN GLU ASN LYS ASN LYS ASN ARG TYR LYS ASN ILE LEU SEQRES 23 A 532 PRO PHE ASP HIS THR ARG VAL VAL LEU HIS ASP GLY ASP SEQRES 24 A 532 PRO ASN GLU PRO VAL SER ASP TYR ILE ASN ALA ASN ILE SEQRES 25 A 532 ILE MET PRO GLU PHE GLU THR LYS CYS ASN ASN SER LYS SEQRES 26 A 532 PRO LYS LYS SER TYR ILE ALA THR GLN GLY CYS LEU GLN SEQRES 27 A 532 ASN THR VAL ASN ASP PHE TRP ARG MET VAL PHE GLN GLU SEQRES 28 A 532 ASN SER ARG VAL ILE VAL MET THR THR LYS GLU VAL GLU SEQRES 29 A 532 ARG GLY LYS SER LYS CYS VAL LYS TYR TRP PRO ASP GLU SEQRES 30 A 532 TYR ALA LEU LYS GLU TYR GLY VAL MET ARG VAL ARG ASN SEQRES 31 A 532 VAL LYS GLU SER ALA ALA HIS ASP TYR THR LEU ARG GLU SEQRES 32 A 532 LEU LYS LEU SER LYS VAL GLY GLN GLY ASN THR GLU ARG SEQRES 33 A 532 THR VAL TRP GLN TYR HIS PHE ARG THR TRP PRO ASP HIS SEQRES 34 A 532 GLY VAL PRO SER ASP PRO GLY GLY VAL LEU ASP PHE LEU SEQRES 35 A 532 GLU GLU VAL HIS HIS LYS GLN GLU SER ILE MET ASP ALA SEQRES 36 A 532 GLY PRO VAL VAL VAL HIS CYS SER ALA GLY ILE GLY ARG SEQRES 37 A 532 THR GLY THR PHE ILE VAL ILE ASP ILE LEU ILE ASP ILE SEQRES 38 A 532 ILE ARG GLU LYS GLY VAL ASP CYS ASP ILE ASP VAL PRO SEQRES 39 A 532 LYS THR ILE GLN MET VAL ARG SER GLN ARG SER GLY MET SEQRES 40 A 532 VAL GLN THR GLU ALA GLN TYR ARG PHE ILE TYR MET ALA SEQRES 41 A 532 VAL GLN HIS TYR ILE GLU THR LEU GLN ARG ARG ILE HET 5OD A 601 42 HETNAM 5OD 6-(4-AZANYL-4-METHYL-PIPERIDIN-1-YL)-3-[2,3- HETNAM 2 5OD BIS(CHLORANYL)PHENYL]PYRAZIN-2-AMINE HETSYN 5OD SHP099 FORMUL 2 5OD C16 H19 CL2 N5 FORMUL 3 HOH *79(H2 O) HELIX 1 AA1 THR A 12 GLY A 24 1 13 HELIX 2 AA2 THR A 73 HIS A 84 1 12 HELIX 3 AA3 SER A 118 LYS A 129 1 12 HELIX 4 AA4 SER A 189 ASN A 200 1 12 HELIX 5 AA5 GLU A 225 LEU A 233 1 9 HELIX 6 AA6 GLY A 246 GLN A 256 1 11 HELIX 7 AA7 GLN A 257 LEU A 261 5 5 HELIX 8 AA8 LYS A 266 GLN A 269 5 4 HELIX 9 AA9 ARG A 270 ASN A 275 1 6 HELIX 10 AB1 LEU A 334 ASN A 336 5 3 HELIX 11 AB2 THR A 337 GLU A 348 1 12 HELIX 12 AB3 PRO A 432 SER A 448 1 17 HELIX 13 AB4 GLY A 464 GLY A 483 1 20 HELIX 14 AB5 ASP A 489 SER A 499 1 11 HELIX 15 AB6 THR A 507 ARG A 528 1 22 SHEET 1 AA1 6 LYS A 70 PHE A 71 0 SHEET 2 AA1 6 TYR A 63 LEU A 65 -1 N TYR A 63 O PHE A 71 SHEET 3 AA1 6 ALA A 50 GLN A 57 -1 N GLN A 57 O ASP A 64 SHEET 4 AA1 6 PHE A 41 ARG A 47 -1 N ARG A 47 O ALA A 50 SHEET 5 AA1 6 SER A 28 PRO A 33 -1 N LEU A 30 O SER A 44 SHEET 6 AA1 6 TYR A 100 PRO A 101 1 O TYR A 100 N PHE A 29 SHEET 1 AA2 4 PHE A 135 GLU A 139 0 SHEET 2 AA2 4 PHE A 147 THR A 153 -1 O VAL A 148 N ARG A 138 SHEET 3 AA2 4 LYS A 166 GLN A 175 -1 O ILE A 172 N PHE A 147 SHEET 4 AA2 4 LYS A 178 ASP A 180 -1 O ASP A 180 N ARG A 173 SHEET 1 AA3 2 MET A 202 VAL A 203 0 SHEET 2 AA3 2 VAL A 209 LEU A 210 -1 O LEU A 210 N MET A 202 SHEET 1 AA4 2 ILE A 221 ASN A 222 0 SHEET 2 AA4 2 ASP A 487 ILE A 488 -1 O ILE A 488 N ILE A 221 SHEET 1 AA5 9 ARG A 289 VAL A 291 0 SHEET 2 AA5 9 TYR A 304 ILE A 310 -1 O ALA A 307 N VAL A 290 SHEET 3 AA5 9 TYR A 327 THR A 330 -1 O TYR A 327 N ILE A 310 SHEET 4 AA5 9 VAL A 455 HIS A 458 1 O VAL A 455 N ILE A 328 SHEET 5 AA5 9 VAL A 352 MET A 355 1 N VAL A 354 O VAL A 456 SHEET 6 AA5 9 ARG A 413 PHE A 420 1 O TYR A 418 N ILE A 353 SHEET 7 AA5 9 TYR A 396 LYS A 405 -1 N LEU A 401 O VAL A 415 SHEET 8 AA5 9 MET A 383 ALA A 392 -1 N SER A 391 O LEU A 398 SHEET 9 AA5 9 LEU A 377 TYR A 380 -1 N TYR A 380 O MET A 383 SHEET 1 AA6 2 VAL A 360 GLU A 361 0 SHEET 2 AA6 2 LYS A 364 SER A 365 -1 O LYS A 364 N GLU A 361 SITE 1 AC1 14 THR A 108 GLU A 110 ARG A 111 PHE A 113 SITE 2 AC1 14 HIS A 114 THR A 219 GLU A 249 GLU A 250 SITE 3 AC1 14 THR A 253 LEU A 254 GLN A 257 PRO A 491 SITE 4 AC1 14 LYS A 492 GLN A 495 CRYST1 41.270 54.360 221.530 90.00 90.00 90.00 P 2 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 0.024231 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018396 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004514 0.00000