HEADER HYDROLASE/HYDROLASE INHIBITOR 04-SEP-18 6MD7 TITLE NON-RECEPTOR PROTEIN TYROSINE PHOSPHATASE SHP2 IN COMPLEX WITH TITLE 2 ALLOSTERIC INHIBITOR PYRIMIDINONE 7 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE-PROTEIN PHOSPHATASE NON-RECEPTOR TYPE 11; COMPND 3 CHAIN: A, B; 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 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: 562 KEYWDS SHP2, PTPN11, PROTEIN TYROSINE PHOSPHATASE, PHOSPHATASE, ALLOSTERIC KEYWDS 2 INHIBITOR, HYDROLASE-HYDROLASE INHIBITOR COMPLEX, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.FODOR,T.STAMS REVDAT 4 11-OCT-23 6MD7 1 REMARK REVDAT 3 25-SEP-19 6MD7 1 REMARK REVDAT 2 13-MAR-19 6MD7 1 JRNL REVDAT 1 13-FEB-19 6MD7 0 JRNL AUTH P.SARVER,M.ACKER,J.T.BAGDANOFF,Z.CHEN,Y.N.CHEN,H.CHAN, JRNL AUTH 2 B.FIRESTONE,M.FODOR,J.FORTANET,H.HAO,M.HENTEMANN,M.KATO, JRNL AUTH 3 R.KOENIG,L.R.LABONTE,G.LIU,S.LIU,C.LIU,E.MCNEILL,M.MOHSENI, JRNL AUTH 4 M.SENDZIK,T.STAMS,S.SPENCE,V.TAMEZ,R.TICHKULE,C.TOWLER, JRNL AUTH 5 H.WANG,P.WANG,S.L.WILLIAMS,B.YU,M.J.LAMARCHE JRNL TITL 6-AMINO-3-METHYLPYRIMIDINONES AS POTENT, SELECTIVE, AND JRNL TITL 2 ORALLY EFFICACIOUS SHP2 INHIBITORS. JRNL REF J. MED. CHEM. V. 62 1793 2019 JRNL REFN ISSN 1520-4804 JRNL PMID 30688459 JRNL DOI 10.1021/ACS.JMEDCHEM.8B01726 REMARK 2 REMARK 2 RESOLUTION. 1.96 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.59 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 75213 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.96 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : NULL REMARK 3 BIN R VALUE (WORKING + TEST SET) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2640 REMARK 3 BIN FREE R VALUE : 0.3320 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7968 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 109 REMARK 3 SOLVENT ATOMS : 732 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : NULL ; NULL ; NULL REMARK 3 BOND ANGLES : NULL ; NULL ; NULL REMARK 3 TORSION ANGLES : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : NULL ; NULL ; NULL REMARK 3 ISOTROPIC THERMAL FACTORS : NULL ; NULL ; NULL REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : NULL ; NULL ; NULL REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : NULL ; NULL ; NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : NULL REMARK 3 OTHER TORSION ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6MD7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-SEP-18. REMARK 100 THE DEPOSITION ID IS D_1000236692. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-MAR-15 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 : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 75358 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.960 REMARK 200 RESOLUTION RANGE LOW (A) : 213.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.96 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.71500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: BUSTER REMARK 200 STARTING MODEL: PDB ENTRY 2SHP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17% PEG3350, 200MM AMMONIUM PHOSPHATE, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 106.79500 REMARK 290 SMTRY3 2 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 SER A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 LYS A 91 REMARK 465 ASP A 156 REMARK 465 LYS A 157 REMARK 465 GLY A 158 REMARK 465 GLU A 159 REMARK 465 SER A 160 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 ASN A 298 REMARK 465 GLU A 299 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 LYS A 324 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 SER B 3 REMARK 465 LYS B 91 REMARK 465 GLY B 154 REMARK 465 ASP B 155 REMARK 465 ASP B 156 REMARK 465 LYS B 157 REMARK 465 GLY B 158 REMARK 465 GLU B 159 REMARK 465 SER B 160 REMARK 465 LEU B 236 REMARK 465 ALA B 237 REMARK 465 GLU B 238 REMARK 465 THR B 239 REMARK 465 THR B 240 REMARK 465 ASP B 241 REMARK 465 LYS B 242 REMARK 465 VAL B 243 REMARK 465 LYS B 244 REMARK 465 ASP B 294 REMARK 465 GLY B 295 REMARK 465 ASP B 296 REMARK 465 PRO B 297 REMARK 465 ASN B 298 REMARK 465 GLU B 299 REMARK 465 PRO B 300 REMARK 465 PHE B 314 REMARK 465 GLU B 315 REMARK 465 THR B 316 REMARK 465 LYS B 317 REMARK 465 CYS B 318 REMARK 465 ASN B 319 REMARK 465 ASN B 320 REMARK 465 SER B 321 REMARK 465 LYS B 322 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 VAL A 181 30.57 -97.44 REMARK 500 TYR A 375 -8.62 76.29 REMARK 500 CYS A 459 -122.93 -134.19 REMARK 500 SER A 460 -69.89 -96.00 REMARK 500 ILE A 463 -37.30 -131.34 REMARK 500 VAL A 505 103.09 77.46 REMARK 500 HIS B 143 78.39 -110.86 REMARK 500 CYS B 367 127.25 -170.48 REMARK 500 TYR B 375 -8.65 72.90 REMARK 500 CYS B 459 -121.67 -133.19 REMARK 500 SER B 460 -71.14 -97.17 REMARK 500 ILE B 463 -37.13 -132.44 REMARK 500 VAL B 505 103.79 83.24 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 B1060 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH B1061 DISTANCE = 6.82 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue JE1 A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue JE1 B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 606 DBREF 6MD7 A 1 525 UNP Q06124 PTN11_HUMAN 1 525 DBREF 6MD7 B 1 525 UNP Q06124 PTN11_HUMAN 1 525 SEQADV 6MD7 SER A 0 UNP Q06124 EXPRESSION TAG SEQADV 6MD7 SER B 0 UNP Q06124 EXPRESSION TAG SEQRES 1 A 526 SER MET THR SER ARG ARG TRP PHE HIS PRO ASN ILE THR SEQRES 2 A 526 GLY VAL GLU ALA GLU ASN LEU LEU LEU THR ARG GLY VAL SEQRES 3 A 526 ASP GLY SER PHE LEU ALA ARG PRO SER LYS SER ASN PRO SEQRES 4 A 526 GLY ASP PHE THR LEU SER VAL ARG ARG ASN GLY ALA VAL SEQRES 5 A 526 THR HIS ILE LYS ILE GLN ASN THR GLY ASP TYR TYR ASP SEQRES 6 A 526 LEU TYR GLY GLY GLU LYS PHE ALA THR LEU ALA GLU LEU SEQRES 7 A 526 VAL GLN TYR TYR MET GLU HIS HIS GLY GLN LEU LYS GLU SEQRES 8 A 526 LYS ASN GLY ASP VAL ILE GLU LEU LYS TYR PRO LEU ASN SEQRES 9 A 526 CYS ALA ASP PRO THR SER GLU ARG TRP PHE HIS GLY HIS SEQRES 10 A 526 LEU SER GLY LYS GLU ALA GLU LYS LEU LEU THR GLU LYS SEQRES 11 A 526 GLY LYS HIS GLY SER PHE LEU VAL ARG GLU SER GLN SER SEQRES 12 A 526 HIS PRO GLY ASP PHE VAL LEU SER VAL ARG THR GLY ASP SEQRES 13 A 526 ASP LYS GLY GLU SER ASN ASP GLY LYS SER LYS VAL THR SEQRES 14 A 526 HIS VAL MET ILE ARG CYS GLN GLU LEU LYS TYR ASP VAL SEQRES 15 A 526 GLY GLY GLY GLU ARG PHE ASP SER LEU THR ASP LEU VAL SEQRES 16 A 526 GLU HIS TYR LYS LYS ASN PRO MET VAL GLU THR LEU GLY SEQRES 17 A 526 THR VAL LEU GLN LEU LYS GLN PRO LEU ASN THR THR ARG SEQRES 18 A 526 ILE ASN ALA ALA GLU ILE GLU SER ARG VAL ARG GLU LEU SEQRES 19 A 526 SER LYS LEU ALA GLU THR THR ASP LYS VAL LYS GLN GLY SEQRES 20 A 526 PHE TRP GLU GLU PHE GLU THR LEU GLN GLN GLN GLU CYS SEQRES 21 A 526 LYS LEU LEU TYR SER ARG LYS GLU GLY GLN ARG GLN GLU SEQRES 22 A 526 ASN LYS ASN LYS ASN ARG TYR LYS ASN ILE LEU PRO PHE SEQRES 23 A 526 ASP HIS THR ARG VAL VAL LEU HIS ASP GLY ASP PRO ASN SEQRES 24 A 526 GLU PRO VAL SER ASP TYR ILE ASN ALA ASN ILE ILE MET SEQRES 25 A 526 PRO GLU PHE GLU THR LYS CYS ASN ASN SER LYS PRO LYS SEQRES 26 A 526 LYS SER TYR ILE ALA THR GLN GLY CYS LEU GLN ASN THR SEQRES 27 A 526 VAL ASN ASP PHE TRP ARG MET VAL PHE GLN GLU ASN SER SEQRES 28 A 526 ARG VAL ILE VAL MET THR THR LYS GLU VAL GLU ARG GLY SEQRES 29 A 526 LYS SER LYS CYS VAL LYS TYR TRP PRO ASP GLU TYR ALA SEQRES 30 A 526 LEU LYS GLU TYR GLY VAL MET ARG VAL ARG ASN VAL LYS SEQRES 31 A 526 GLU SER ALA ALA HIS ASP TYR THR LEU ARG GLU LEU LYS SEQRES 32 A 526 LEU SER LYS VAL GLY GLN GLY ASN THR GLU ARG THR VAL SEQRES 33 A 526 TRP GLN TYR HIS PHE ARG THR TRP PRO ASP HIS GLY VAL SEQRES 34 A 526 PRO SER ASP PRO GLY GLY VAL LEU ASP PHE LEU GLU GLU SEQRES 35 A 526 VAL HIS HIS LYS GLN GLU SER ILE MET ASP ALA GLY PRO SEQRES 36 A 526 VAL VAL VAL HIS CYS SER ALA GLY ILE GLY ARG THR GLY SEQRES 37 A 526 THR PHE ILE VAL ILE ASP ILE LEU ILE ASP ILE ILE ARG SEQRES 38 A 526 GLU LYS GLY VAL ASP CYS ASP ILE ASP VAL PRO LYS THR SEQRES 39 A 526 ILE GLN MET VAL ARG SER GLN ARG SER GLY MET VAL GLN SEQRES 40 A 526 THR GLU ALA GLN TYR ARG PHE ILE TYR MET ALA VAL GLN SEQRES 41 A 526 HIS TYR ILE GLU THR LEU SEQRES 1 B 526 SER MET THR SER ARG ARG TRP PHE HIS PRO ASN ILE THR SEQRES 2 B 526 GLY VAL GLU ALA GLU ASN LEU LEU LEU THR ARG GLY VAL SEQRES 3 B 526 ASP GLY SER PHE LEU ALA ARG PRO SER LYS SER ASN PRO SEQRES 4 B 526 GLY ASP PHE THR LEU SER VAL ARG ARG ASN GLY ALA VAL SEQRES 5 B 526 THR HIS ILE LYS ILE GLN ASN THR GLY ASP TYR TYR ASP SEQRES 6 B 526 LEU TYR GLY GLY GLU LYS PHE ALA THR LEU ALA GLU LEU SEQRES 7 B 526 VAL GLN TYR TYR MET GLU HIS HIS GLY GLN LEU LYS GLU SEQRES 8 B 526 LYS ASN GLY ASP VAL ILE GLU LEU LYS TYR PRO LEU ASN SEQRES 9 B 526 CYS ALA ASP PRO THR SER GLU ARG TRP PHE HIS GLY HIS SEQRES 10 B 526 LEU SER GLY LYS GLU ALA GLU LYS LEU LEU THR GLU LYS SEQRES 11 B 526 GLY LYS HIS GLY SER PHE LEU VAL ARG GLU SER GLN SER SEQRES 12 B 526 HIS PRO GLY ASP PHE VAL LEU SER VAL ARG THR GLY ASP SEQRES 13 B 526 ASP LYS GLY GLU SER ASN ASP GLY LYS SER LYS VAL THR SEQRES 14 B 526 HIS VAL MET ILE ARG CYS GLN GLU LEU LYS TYR ASP VAL SEQRES 15 B 526 GLY GLY GLY GLU ARG PHE ASP SER LEU THR ASP LEU VAL SEQRES 16 B 526 GLU HIS TYR LYS LYS ASN PRO MET VAL GLU THR LEU GLY SEQRES 17 B 526 THR VAL LEU GLN LEU LYS GLN PRO LEU ASN THR THR ARG SEQRES 18 B 526 ILE ASN ALA ALA GLU ILE GLU SER ARG VAL ARG GLU LEU SEQRES 19 B 526 SER LYS LEU ALA GLU THR THR ASP LYS VAL LYS GLN GLY SEQRES 20 B 526 PHE TRP GLU GLU PHE GLU THR LEU GLN GLN GLN GLU CYS SEQRES 21 B 526 LYS LEU LEU TYR SER ARG LYS GLU GLY GLN ARG GLN GLU SEQRES 22 B 526 ASN LYS ASN LYS ASN ARG TYR LYS ASN ILE LEU PRO PHE SEQRES 23 B 526 ASP HIS THR ARG VAL VAL LEU HIS ASP GLY ASP PRO ASN SEQRES 24 B 526 GLU PRO VAL SER ASP TYR ILE ASN ALA ASN ILE ILE MET SEQRES 25 B 526 PRO GLU PHE GLU THR LYS CYS ASN ASN SER LYS PRO LYS SEQRES 26 B 526 LYS SER TYR ILE ALA THR GLN GLY CYS LEU GLN ASN THR SEQRES 27 B 526 VAL ASN ASP PHE TRP ARG MET VAL PHE GLN GLU ASN SER SEQRES 28 B 526 ARG VAL ILE VAL MET THR THR LYS GLU VAL GLU ARG GLY SEQRES 29 B 526 LYS SER LYS CYS VAL LYS TYR TRP PRO ASP GLU TYR ALA SEQRES 30 B 526 LEU LYS GLU TYR GLY VAL MET ARG VAL ARG ASN VAL LYS SEQRES 31 B 526 GLU SER ALA ALA HIS ASP TYR THR LEU ARG GLU LEU LYS SEQRES 32 B 526 LEU SER LYS VAL GLY GLN GLY ASN THR GLU ARG THR VAL SEQRES 33 B 526 TRP GLN TYR HIS PHE ARG THR TRP PRO ASP HIS GLY VAL SEQRES 34 B 526 PRO SER ASP PRO GLY GLY VAL LEU ASP PHE LEU GLU GLU SEQRES 35 B 526 VAL HIS HIS LYS GLN GLU SER ILE MET ASP ALA GLY PRO SEQRES 36 B 526 VAL VAL VAL HIS CYS SER ALA GLY ILE GLY ARG THR GLY SEQRES 37 B 526 THR PHE ILE VAL ILE ASP ILE LEU ILE ASP ILE ILE ARG SEQRES 38 B 526 GLU LYS GLY VAL ASP CYS ASP ILE ASP VAL PRO LYS THR SEQRES 39 B 526 ILE GLN MET VAL ARG SER GLN ARG SER GLY MET VAL GLN SEQRES 40 B 526 THR GLU ALA GLN TYR ARG PHE ILE TYR MET ALA VAL GLN SEQRES 41 B 526 HIS TYR ILE GLU THR LEU HET JE1 A 601 27 HET PO4 A 602 5 HET PO4 A 603 5 HET PO4 A 604 5 HET PO4 A 605 5 HET PO4 A 606 5 HET PO4 A 607 5 HET JE1 B 601 27 HET PO4 B 602 5 HET PO4 B 603 5 HET PO4 B 604 5 HET PO4 B 605 5 HET PO4 B 606 5 HETNAM JE1 2-[4-(AMINOMETHYL)-4-METHYLPIPERIDIN-1-YL]-5-{[2- HETNAM 2 JE1 (TRIFLUOROMETHYL)PYRIDIN-3-YL]SULFANYL}PYRIMIDIN- HETNAM 3 JE1 4(3H)-ONE HETNAM PO4 PHOSPHATE ION FORMUL 3 JE1 2(C17 H20 F3 N5 O S) FORMUL 4 PO4 11(O4 P 3-) FORMUL 16 HOH *732(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 GLY A 130 1 13 HELIX 4 AA4 SER A 189 ASN A 200 1 12 HELIX 5 AA5 GLU A 225 LYS A 235 1 11 HELIX 6 AA6 GLY A 246 GLN A 257 1 12 HELIX 7 AA7 GLU A 258 LEU A 262 5 5 HELIX 8 AA8 LYS A 266 ASN A 277 5 12 HELIX 9 AA9 LEU A 334 ASN A 336 5 3 HELIX 10 AB1 THR A 337 ASN A 349 1 13 HELIX 11 AB2 PRO A 432 ILE A 449 1 18 HELIX 12 AB3 ILE A 463 GLY A 483 1 21 HELIX 13 AB4 ASP A 489 SER A 499 1 11 HELIX 14 AB5 THR A 507 THR A 524 1 18 HELIX 15 AB6 THR B 12 GLY B 24 1 13 HELIX 16 AB7 THR B 73 HIS B 84 1 12 HELIX 17 AB8 SER B 118 LYS B 129 1 12 HELIX 18 AB9 SER B 189 ASN B 200 1 12 HELIX 19 AC1 GLU B 225 LYS B 235 1 11 HELIX 20 AC2 GLY B 246 GLN B 257 1 12 HELIX 21 AC3 GLU B 258 LEU B 262 5 5 HELIX 22 AC4 ARG B 265 ARG B 270 1 6 HELIX 23 AC5 GLN B 271 ASN B 277 5 7 HELIX 24 AC6 LEU B 334 ASN B 336 5 3 HELIX 25 AC7 THR B 337 ASN B 349 1 13 HELIX 26 AC8 PRO B 432 SER B 448 1 17 HELIX 27 AC9 GLY B 464 GLY B 483 1 20 HELIX 28 AD1 ASP B 489 SER B 499 1 11 HELIX 29 AD2 THR B 507 THR B 524 1 18 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 SER A 28 O ARG A 46 SHEET 6 AA1 6 TYR A 100 PRO A 101 1 O TYR A 100 N PHE A 29 SHEET 1 AA2 5 LYS A 178 ASP A 180 0 SHEET 2 AA2 5 LYS A 166 GLN A 175 -1 N ARG A 173 O ASP A 180 SHEET 3 AA2 5 PHE A 147 THR A 153 -1 N PHE A 147 O ILE A 172 SHEET 4 AA2 5 SER A 134 GLU A 139 -1 N ARG A 138 O VAL A 148 SHEET 5 AA2 5 GLN A 214 PRO A 215 1 O GLN A 214 N PHE A 135 SHEET 1 AA3 2 ILE A 221 ASN A 222 0 SHEET 2 AA3 2 ASP A 487 ILE A 488 -1 O ILE A 488 N ILE A 221 SHEET 1 AA4 8 ALA A 307 ILE A 310 0 SHEET 2 AA4 8 TYR A 327 THR A 330 -1 O TYR A 327 N ILE A 310 SHEET 3 AA4 8 VAL A 455 HIS A 458 1 O VAL A 457 N ILE A 328 SHEET 4 AA4 8 VAL A 352 MET A 355 1 N VAL A 354 O VAL A 456 SHEET 5 AA4 8 GLN A 408 PHE A 420 1 O TYR A 418 N ILE A 353 SHEET 6 AA4 8 TYR A 396 LYS A 405 -1 N THR A 397 O HIS A 419 SHEET 7 AA4 8 MET A 383 ALA A 392 -1 N LYS A 389 O GLU A 400 SHEET 8 AA4 8 LEU A 377 TYR A 380 -1 N TYR A 380 O MET A 383 SHEET 1 AA5 2 VAL A 360 GLU A 361 0 SHEET 2 AA5 2 LYS A 364 SER A 365 -1 O LYS A 364 N GLU A 361 SHEET 1 AA6 6 LYS B 70 PHE B 71 0 SHEET 2 AA6 6 TYR B 63 LEU B 65 -1 N TYR B 63 O PHE B 71 SHEET 3 AA6 6 ALA B 50 GLN B 57 -1 N GLN B 57 O ASP B 64 SHEET 4 AA6 6 PHE B 41 ARG B 47 -1 N PHE B 41 O ILE B 56 SHEET 5 AA6 6 SER B 28 PRO B 33 -1 N SER B 28 O ARG B 46 SHEET 6 AA6 6 TYR B 100 PRO B 101 1 O TYR B 100 N PHE B 29 SHEET 1 AA7 5 LYS B 178 ASP B 180 0 SHEET 2 AA7 5 LYS B 166 GLN B 175 -1 N GLN B 175 O LYS B 178 SHEET 3 AA7 5 PHE B 147 THR B 153 -1 N PHE B 147 O ILE B 172 SHEET 4 AA7 5 SER B 134 GLU B 139 -1 N ARG B 138 O VAL B 148 SHEET 5 AA7 5 GLN B 214 PRO B 215 1 O GLN B 214 N PHE B 135 SHEET 1 AA8 2 MET B 202 VAL B 203 0 SHEET 2 AA8 2 VAL B 209 LEU B 210 -1 O LEU B 210 N MET B 202 SHEET 1 AA9 2 ILE B 221 ASN B 222 0 SHEET 2 AA9 2 ASP B 487 ILE B 488 -1 O ILE B 488 N ILE B 221 SHEET 1 AB1 8 ALA B 307 ILE B 310 0 SHEET 2 AB1 8 TYR B 327 THR B 330 -1 O TYR B 327 N ILE B 310 SHEET 3 AB1 8 VAL B 455 HIS B 458 1 O VAL B 457 N ILE B 328 SHEET 4 AB1 8 VAL B 352 MET B 355 1 N VAL B 354 O VAL B 456 SHEET 5 AB1 8 GLN B 408 PHE B 420 1 O TYR B 418 N ILE B 353 SHEET 6 AB1 8 TYR B 396 LYS B 405 -1 N THR B 397 O HIS B 419 SHEET 7 AB1 8 MET B 383 ALA B 392 -1 N ARG B 384 O SER B 404 SHEET 8 AB1 8 LEU B 377 TYR B 380 -1 N TYR B 380 O MET B 383 SHEET 1 AB2 2 VAL B 360 GLU B 361 0 SHEET 2 AB2 2 LYS B 364 SER B 365 -1 O LYS B 364 N GLU B 361 SITE 1 AC1 16 THR A 108 GLU A 110 ARG A 111 PHE A 113 SITE 2 AC1 16 HIS A 114 THR A 218 THR A 219 GLU A 250 SITE 3 AC1 16 THR A 253 LEU A 254 GLN A 257 ASP A 489 SITE 4 AC1 16 LYS A 492 GLN A 495 HOH A 838 HOH A 951 SITE 1 AC2 5 ARG A 32 SER A 34 LYS A 35 SER A 36 SITE 2 AC2 5 THR A 42 SITE 1 AC3 8 GLU A 195 LYS A 198 GLN A 257 LYS A 260 SITE 2 AC3 8 HOH A 717 HOH A 751 HOH A 783 HOH A 857 SITE 1 AC4 7 LYS A 131 ASN A 217 ARG A 220 LYS A 492 SITE 2 AC4 7 HOH A 807 HOH A 815 HOH A 878 SITE 1 AC5 5 PHE A 346 GLN A 347 ASN A 349 ARG A 413 SITE 2 AC5 5 HOH A 799 SITE 1 AC6 6 TYR A 62 LYS A 70 TYR A 279 LYS A 364 SITE 2 AC6 6 LYS A 366 HOH A 848 SITE 1 AC7 4 ARG A 138 SER A 140 GLN A 141 SER A 142 SITE 1 AC8 17 THR B 108 GLU B 110 ARG B 111 PHE B 113 SITE 2 AC8 17 THR B 218 THR B 219 GLU B 250 THR B 253 SITE 3 AC8 17 LEU B 254 GLN B 257 ASP B 489 PRO B 491 SITE 4 AC8 17 LYS B 492 GLN B 495 HOH B 806 HOH B 836 SITE 5 AC8 17 HOH B 842 SITE 1 AC9 6 ARG B 32 SER B 34 LYS B 35 SER B 36 SITE 2 AC9 6 THR B 42 HOH B 751 SITE 1 AD1 9 ARG B 111 GLU B 195 LYS B 198 GLN B 257 SITE 2 AD1 9 LYS B 260 HOH B 720 HOH B 734 HOH B 738 SITE 3 AD1 9 HOH B 850 SITE 1 AD2 5 LYS B 131 ASN B 217 ARG B 220 HOH B 777 SITE 2 AD2 5 HOH B 862 SITE 1 AD3 5 PHE B 346 GLN B 347 ASN B 349 ARG B 413 SITE 2 AD3 5 HOH B 825 SITE 1 AD4 4 ARG B 138 SER B 140 GLN B 141 SER B 142 CRYST1 46.050 213.590 55.910 90.00 96.51 90.00 P 1 21 1 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 0.021716 0.000000 0.002478 0.00000 SCALE2 0.000000 0.004682 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018002 0.00000