HEADER ONCOPROTEIN 19-NOV-18 6I82 TITLE CRYSTAL STRUCTURE OF PARTIALLY PHOSPHORYLATED RET V804M TYROSINE TITLE 2 KINASE DOMAIN COMPLEXED WITH PDD00018412 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTO-ONCOGENE TYROSINE-PROTEIN KINASE RECEPTOR RET; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CADHERIN FAMILY MEMBER 12,PROTO-ONCOGENE C-RET; COMPND 5 EC: 2.7.10.1; COMPND 6 ENGINEERED: YES; COMPND 7 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: RET, CDHF12, CDHR16, PTC, RET51; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293F; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PCDNA.3 KEYWDS INHIBITOR, KINASE, PROTO-ONCOGENE, ONCOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.BURSCHOWSKY,C.SEEWOORUTHUN,R.BAYLISS,M.D.CARR,A.ECHALIER,A.M.JORDAN REVDAT 3 24-JAN-24 6I82 1 REMARK REVDAT 2 22-APR-20 6I82 1 JRNL REVDAT 1 11-MAR-20 6I82 0 JRNL AUTH R.NEWTON,B.WASZKOWYCZ,C.SEEWOORUTHUN,D.BURSCHOWSKY, JRNL AUTH 2 M.RICHARDS,S.HITCHIN,H.BEGUM,A.WATSON,E.FRENCH,N.HAMILTON, JRNL AUTH 3 S.JONES,L.Y.LIN,I.WADDELL,A.ECHALIER,R.BAYLISS,A.M.JORDAN, JRNL AUTH 4 D.OGILVIE JRNL TITL DISCOVERY AND OPTIMIZATION OF WT-RET/KDR-SELECTIVE JRNL TITL 2 INHIBITORS OF RETV804MKINASE. JRNL REF ACS MED.CHEM.LETT. V. 11 497 2020 JRNL REFN ISSN 1948-5875 JRNL PMID 32292556 JRNL DOI 10.1021/ACSMEDCHEMLETT.9B00615 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 36312 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1876 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.10 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2086 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 74.51 REMARK 3 BIN R VALUE (WORKING SET) : 0.3090 REMARK 3 BIN FREE R VALUE SET COUNT : 92 REMARK 3 BIN FREE R VALUE : 0.3250 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4569 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 116 REMARK 3 SOLVENT ATOMS : 212 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.58000 REMARK 3 B22 (A**2) : -1.03000 REMARK 3 B33 (A**2) : -1.83000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.11000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.201 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.178 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.153 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.999 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4772 ; 0.010 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4561 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6394 ; 1.645 ; 1.645 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10561 ; 1.280 ; 1.583 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 562 ; 6.431 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 241 ;33.956 ;21.328 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 869 ;16.772 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 36 ;21.742 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 568 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5210 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1034 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2263 ; 2.881 ; 3.236 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2264 ; 2.882 ; 3.237 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2820 ; 4.217 ; 4.835 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2821 ; 4.217 ; 4.837 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2509 ; 3.854 ; 3.748 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2480 ; 3.808 ; 3.740 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3575 ; 5.876 ; 5.408 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5432 ; 7.694 ;38.016 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5395 ; 7.686 ;37.928 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 6I82 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-NOV-18. REMARK 100 THE DEPOSITION ID IS D_1200012670. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-FEB-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5-5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97949 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38208 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 45.890 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 75.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : 0.47000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 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: 2IVS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CITRATE PH 4.5-5.5, 2.0 M REMARK 280 SODIUM FORMATE DROP SIZE 500 NL + 500 NL RET AT 3 MG/ML IN 20 MM REMARK 280 TRIS PH 8.0, 100 MM NACL, 1 MM DTT, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 291K 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 40.16800 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 ARG A 820 REMARK 465 LYS A 821 REMARK 465 VAL A 822 REMARK 465 GLY A 823 REMARK 465 PRO A 824 REMARK 465 GLY A 825 REMARK 465 TYR A 826 REMARK 465 LEU A 827 REMARK 465 GLY A 828 REMARK 465 SER A 829 REMARK 465 GLY A 830 REMARK 465 GLY A 831 REMARK 465 SER A 832 REMARK 465 ARG A 833 REMARK 465 ASN A 834 REMARK 465 SER A 835 REMARK 465 SER A 836 REMARK 465 SER A 837 REMARK 465 LEU A 838 REMARK 465 ASP A 839 REMARK 465 HIS A 840 REMARK 465 PRO A 841 REMARK 465 ASP A 842 REMARK 465 GLU A 901 REMARK 465 GLU A 902 REMARK 465 ASP A 903 REMARK 465 SER A 904 REMARK 465 TYR A 905 REMARK 465 VAL A 906 REMARK 465 LYS A 907 REMARK 465 ARG A 908 REMARK 465 SER A 909 REMARK 465 ARG A 1013 REMARK 465 GLY B 700 REMARK 465 PRO B 701 REMARK 465 LEU B 702 REMARK 465 SER B 703 REMARK 465 LEU B 704 REMARK 465 SER B 705 REMARK 465 VAL B 706 REMARK 465 ASP B 707 REMARK 465 ALA B 708 REMARK 465 PHE B 709 REMARK 465 LYS B 710 REMARK 465 ILE B 711 REMARK 465 LEU B 712 REMARK 465 GLU B 713 REMARK 465 SER B 829 REMARK 465 GLY B 830 REMARK 465 GLY B 831 REMARK 465 SER B 832 REMARK 465 ARG B 833 REMARK 465 ASN B 834 REMARK 465 SER B 835 REMARK 465 SER B 836 REMARK 465 SER B 837 REMARK 465 LEU B 838 REMARK 465 ASP B 839 REMARK 465 HIS B 840 REMARK 465 PRO B 841 REMARK 465 ARG B 1013 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 OD1 ASP B 874 O HOH B 1201 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 OD1 ASN B 723 NH2 ARG B 908 1455 2.10 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 ASP A 797 89.25 -155.13 REMARK 500 ARG A 873 -26.34 73.25 REMARK 500 ASP A 892 61.92 67.72 REMARK 500 LYS A1011 41.62 -83.67 REMARK 500 ARG B 873 -22.75 78.60 REMARK 500 GLU B 884 130.79 -38.50 REMARK 500 ASP B 892 72.73 62.79 REMARK 500 GLU B 902 -8.59 94.18 REMARK 500 TYR B 952 56.98 39.70 REMARK 500 ASN B 975 37.59 -94.65 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 H6W A 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1110 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1111 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue H6W B 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 1103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 1104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 1105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 1106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 1107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 1108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 1109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 1110 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 1111 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 1112 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6I83 RELATED DB: PDB REMARK 900 SAME PROTEIN WITH DIFFERENT COMPOUND DBREF 6I82 A 705 1013 UNP P07949 RET_HUMAN 705 1013 DBREF 6I82 B 705 1013 UNP P07949 RET_HUMAN 705 1013 SEQADV 6I82 GLY A 700 UNP P07949 EXPRESSION TAG SEQADV 6I82 PRO A 701 UNP P07949 EXPRESSION TAG SEQADV 6I82 LEU A 702 UNP P07949 EXPRESSION TAG SEQADV 6I82 SER A 703 UNP P07949 EXPRESSION TAG SEQADV 6I82 LEU A 704 UNP P07949 EXPRESSION TAG SEQADV 6I82 MET A 804 UNP P07949 VAL 804 ENGINEERED MUTATION SEQADV 6I82 GLY B 700 UNP P07949 EXPRESSION TAG SEQADV 6I82 PRO B 701 UNP P07949 EXPRESSION TAG SEQADV 6I82 LEU B 702 UNP P07949 EXPRESSION TAG SEQADV 6I82 SER B 703 UNP P07949 EXPRESSION TAG SEQADV 6I82 LEU B 704 UNP P07949 EXPRESSION TAG SEQADV 6I82 MET B 804 UNP P07949 VAL 804 ENGINEERED MUTATION SEQRES 1 A 314 GLY PRO LEU SER LEU SER VAL ASP ALA PHE LYS ILE LEU SEQRES 2 A 314 GLU ASP PRO LYS TRP GLU PHE PRO ARG LYS ASN LEU VAL SEQRES 3 A 314 LEU GLY LYS THR LEU GLY GLU GLY GLU PHE GLY LYS VAL SEQRES 4 A 314 VAL LYS ALA THR ALA PHE HIS LEU LYS GLY ARG ALA GLY SEQRES 5 A 314 TYR THR THR VAL ALA VAL LYS MET LEU LYS GLU ASN ALA SEQRES 6 A 314 SER PRO SER GLU LEU ARG ASP LEU LEU SER GLU PHE ASN SEQRES 7 A 314 VAL LEU LYS GLN VAL ASN HIS PRO HIS VAL ILE LYS LEU SEQRES 8 A 314 TYR GLY ALA CYS SER GLN ASP GLY PRO LEU LEU LEU ILE SEQRES 9 A 314 MET GLU TYR ALA LYS TYR GLY SER LEU ARG GLY PHE LEU SEQRES 10 A 314 ARG GLU SER ARG LYS VAL GLY PRO GLY TYR LEU GLY SER SEQRES 11 A 314 GLY GLY SER ARG ASN SER SER SER LEU ASP HIS PRO ASP SEQRES 12 A 314 GLU ARG ALA LEU THR MET GLY ASP LEU ILE SER PHE ALA SEQRES 13 A 314 TRP GLN ILE SER GLN GLY MET GLN TYR LEU ALA GLU MET SEQRES 14 A 314 LYS LEU VAL HIS ARG ASP LEU ALA ALA ARG ASN ILE LEU SEQRES 15 A 314 VAL ALA GLU GLY ARG LYS MET LYS ILE SER ASP PHE GLY SEQRES 16 A 314 LEU SER ARG ASP VAL TYR GLU GLU ASP SER TYR VAL LYS SEQRES 17 A 314 ARG SER GLN GLY ARG ILE PRO VAL LYS TRP MET ALA ILE SEQRES 18 A 314 GLU SER LEU PHE ASP HIS ILE PTR THR THR GLN SER ASP SEQRES 19 A 314 VAL TRP SER PHE GLY VAL LEU LEU TRP GLU ILE VAL THR SEQRES 20 A 314 LEU GLY GLY ASN PRO TYR PRO GLY ILE PRO PRO GLU ARG SEQRES 21 A 314 LEU PHE ASN LEU LEU LYS THR GLY HIS ARG MET GLU ARG SEQRES 22 A 314 PRO ASP ASN CYS SER GLU GLU MET TYR ARG LEU MET LEU SEQRES 23 A 314 GLN CYS TRP LYS GLN GLU PRO ASP LYS ARG PRO VAL PHE SEQRES 24 A 314 ALA ASP ILE SER LYS ASP LEU GLU LYS MET MET VAL LYS SEQRES 25 A 314 ARG ARG SEQRES 1 B 314 GLY PRO LEU SER LEU SER VAL ASP ALA PHE LYS ILE LEU SEQRES 2 B 314 GLU ASP PRO LYS TRP GLU PHE PRO ARG LYS ASN LEU VAL SEQRES 3 B 314 LEU GLY LYS THR LEU GLY GLU GLY GLU PHE GLY LYS VAL SEQRES 4 B 314 VAL LYS ALA THR ALA PHE HIS LEU LYS GLY ARG ALA GLY SEQRES 5 B 314 TYR THR THR VAL ALA VAL LYS MET LEU LYS GLU ASN ALA SEQRES 6 B 314 SER PRO SER GLU LEU ARG ASP LEU LEU SER GLU PHE ASN SEQRES 7 B 314 VAL LEU LYS GLN VAL ASN HIS PRO HIS VAL ILE LYS LEU SEQRES 8 B 314 TYR GLY ALA CYS SER GLN ASP GLY PRO LEU LEU LEU ILE SEQRES 9 B 314 MET GLU TYR ALA LYS TYR GLY SER LEU ARG GLY PHE LEU SEQRES 10 B 314 ARG GLU SER ARG LYS VAL GLY PRO GLY TYR LEU GLY SER SEQRES 11 B 314 GLY GLY SER ARG ASN SER SER SER LEU ASP HIS PRO ASP SEQRES 12 B 314 GLU ARG ALA LEU THR MET GLY ASP LEU ILE SER PHE ALA SEQRES 13 B 314 TRP GLN ILE SER GLN GLY MET GLN TYR LEU ALA GLU MET SEQRES 14 B 314 LYS LEU VAL HIS ARG ASP LEU ALA ALA ARG ASN ILE LEU SEQRES 15 B 314 VAL ALA GLU GLY ARG LYS MET LYS ILE SER ASP PHE GLY SEQRES 16 B 314 LEU SER ARG ASP VAL TYR GLU GLU ASP SER TYR VAL LYS SEQRES 17 B 314 ARG SER GLN GLY ARG ILE PRO VAL LYS TRP MET ALA ILE SEQRES 18 B 314 GLU SER LEU PHE ASP HIS ILE PTR THR THR GLN SER ASP SEQRES 19 B 314 VAL TRP SER PHE GLY VAL LEU LEU TRP GLU ILE VAL THR SEQRES 20 B 314 LEU GLY GLY ASN PRO TYR PRO GLY ILE PRO PRO GLU ARG SEQRES 21 B 314 LEU PHE ASN LEU LEU LYS THR GLY HIS ARG MET GLU ARG SEQRES 22 B 314 PRO ASP ASN CYS SER GLU GLU MET TYR ARG LEU MET LEU SEQRES 23 B 314 GLN CYS TRP LYS GLN GLU PRO ASP LYS ARG PRO VAL PHE SEQRES 24 B 314 ALA ASP ILE SER LYS ASP LEU GLU LYS MET MET VAL LYS SEQRES 25 B 314 ARG ARG MODRES 6I82 PTR A 928 TYR MODIFIED RESIDUE MODRES 6I82 PTR B 928 TYR MODIFIED RESIDUE HET PTR A 928 16 HET PTR B 928 16 HET H6W A1101 25 HET EDO A1102 4 HET EDO A1103 4 HET FMT A1104 3 HET FMT A1105 3 HET FMT A1106 3 HET FMT A1107 3 HET FMT A1108 3 HET FMT A1109 3 HET FMT A1110 3 HET FMT A1111 3 HET CL B1101 1 HET H6W B1102 25 HET EDO B1103 4 HET EDO B1104 4 HET EDO B1105 4 HET FMT B1106 3 HET FMT B1107 3 HET FMT B1108 3 HET FMT B1109 3 HET FMT B1110 3 HET FMT B1111 3 HET FMT B1112 3 HETNAM PTR O-PHOSPHOTYROSINE HETNAM H6W ~{N}-[3-(1,3-BENZODIOXOL-5-YL)PYRAZOLO[1,5-A]PYRIMIDIN- HETNAM 2 H6W 5-YL]-~{N}',~{N}'-DIMETHYL-PROPANE-1,3-DIAMINE HETNAM EDO 1,2-ETHANEDIOL HETNAM FMT FORMIC ACID HETNAM CL CHLORIDE ION HETSYN PTR PHOSPHONOTYROSINE HETSYN EDO ETHYLENE GLYCOL FORMUL 1 PTR 2(C9 H12 N O6 P) FORMUL 3 H6W 2(C18 H21 N5 O2) FORMUL 4 EDO 5(C2 H6 O2) FORMUL 6 FMT 15(C H2 O2) FORMUL 14 CL CL 1- FORMUL 26 HOH *212(H2 O) HELIX 1 AA1 GLY A 700 GLU A 713 1 14 HELIX 2 AA2 PRO A 720 LYS A 722 5 3 HELIX 3 AA3 LEU A 746 ARG A 749 5 4 HELIX 4 AA4 SER A 765 LYS A 780 1 16 HELIX 5 AA5 SER A 811 GLU A 818 1 8 HELIX 6 AA6 THR A 847 MET A 868 1 22 HELIX 7 AA7 ALA A 876 ARG A 878 5 3 HELIX 8 AA8 PRO A 914 MET A 918 5 5 HELIX 9 AA9 ALA A 919 HIS A 926 1 8 HELIX 10 AB1 THR A 929 THR A 946 1 18 HELIX 11 AB2 PRO A 956 THR A 966 1 11 HELIX 12 AB3 SER A 977 TRP A 988 1 12 HELIX 13 AB4 GLU A 991 ARG A 995 5 5 HELIX 14 AB5 VAL A 997 LYS A 1011 1 15 HELIX 15 AB6 PRO B 720 LYS B 722 5 3 HELIX 16 AB7 SER B 765 LYS B 780 1 16 HELIX 17 AB8 LEU B 812 SER B 819 1 8 HELIX 18 AB9 THR B 847 MET B 868 1 22 HELIX 19 AC1 ALA B 876 ARG B 878 5 3 HELIX 20 AC2 GLU B 884 ARG B 886 5 3 HELIX 21 AC3 PRO B 914 MET B 918 5 5 HELIX 22 AC4 ALA B 919 HIS B 926 1 8 HELIX 23 AC5 THR B 929 THR B 946 1 18 HELIX 24 AC6 PRO B 956 GLU B 958 5 3 HELIX 25 AC7 ARG B 959 THR B 966 1 8 HELIX 26 AC8 SER B 977 TRP B 988 1 12 HELIX 27 AC9 GLU B 991 ARG B 995 5 5 HELIX 28 AD1 VAL B 997 ARG B 1012 1 16 SHEET 1 AA1 5 LEU A 724 GLY A 733 0 SHEET 2 AA1 5 GLY A 736 PHE A 744 -1 O LYS A 740 N GLY A 727 SHEET 3 AA1 5 TYR A 752 MET A 759 -1 O VAL A 757 N VAL A 739 SHEET 4 AA1 5 LEU A 801 GLU A 805 -1 O MET A 804 N ALA A 756 SHEET 5 AA1 5 LEU A 790 CYS A 794 -1 N TYR A 791 O ILE A 803 SHEET 1 AA2 2 LEU A 870 VAL A 871 0 SHEET 2 AA2 2 ARG A 897 ASP A 898 -1 O ARG A 897 N VAL A 871 SHEET 1 AA3 2 ILE A 880 ALA A 883 0 SHEET 2 AA3 2 LYS A 887 ILE A 890 -1 O LYS A 889 N LEU A 881 SHEET 1 AA4 5 LEU B 724 GLY B 733 0 SHEET 2 AA4 5 GLY B 736 PHE B 744 -1 O LYS B 740 N GLY B 727 SHEET 3 AA4 5 TYR B 752 MET B 759 -1 O VAL B 757 N VAL B 739 SHEET 4 AA4 5 LEU B 801 MET B 804 -1 O MET B 804 N ALA B 756 SHEET 5 AA4 5 LEU B 790 CYS B 794 -1 N TYR B 791 O ILE B 803 SHEET 1 AA5 3 GLY B 810 SER B 811 0 SHEET 2 AA5 3 ILE B 880 ALA B 883 -1 O VAL B 882 N GLY B 810 SHEET 3 AA5 3 LYS B 887 ILE B 890 -1 O LYS B 889 N LEU B 881 SHEET 1 AA6 2 GLY B 825 TYR B 826 0 SHEET 2 AA6 2 ALA B 845 LEU B 846 1 O LEU B 846 N GLY B 825 SHEET 1 AA7 2 LEU B 870 VAL B 871 0 SHEET 2 AA7 2 ARG B 897 ASP B 898 -1 O ARG B 897 N VAL B 871 SHEET 1 AA8 2 TYR B 905 VAL B 906 0 SHEET 2 AA8 2 ILE B 927 PTR B 928 -1 O PTR B 928 N TYR B 905 LINK C ILE A 927 N PTR A 928 1555 1555 1.33 LINK C PTR A 928 N THR A 929 1555 1555 1.34 LINK C ILE B 927 N APTR B 928 1555 1555 1.33 LINK C APTR B 928 N THR B 929 1555 1555 1.34 CISPEP 1 GLY B 823 PRO B 824 0 -3.95 SITE 1 AC1 12 LEU A 730 PHE A 735 ALA A 756 GLU A 805 SITE 2 AC1 12 ALA A 807 GLY A 810 ARG A 878 ASN A 879 SITE 3 AC1 12 LEU A 881 ASP A 892 FMT A1110 HOH A1246 SITE 1 AC2 2 LEU A 846 FMT A1111 SITE 1 AC3 2 ARG A 969 GLU A 971 SITE 1 AC4 8 GLY A 700 PRO A 701 LEU A 702 SER A 703 SITE 2 AC4 8 GLN B 910 LEU B 923 PHE B 924 HIS B 926 SITE 1 AC5 6 SER A 703 LEU A 704 HOH A1209 HOH A1262 SITE 2 AC5 6 LYS B 740 EDO B1105 SITE 1 AC6 3 THR A 742 TYR A 752 HOH A1267 SITE 1 AC7 4 ALA A 866 VAL A 997 PHE A 998 ALA A 999 SITE 1 AC8 2 ASN A 723 TYR A 752 SITE 1 AC9 2 SER A 705 ARG A 770 SITE 1 AD1 5 GLU A 775 SER A 891 ASP A 892 PHE A 893 SITE 2 AD1 5 H6W A1101 SITE 1 AD2 6 SER A 819 ARG A 844 ALA A 845 LEU A 846 SITE 2 AD2 6 LEU A 947 EDO A1102 SITE 1 AD3 4 GLU B 775 MET B 804 ASP B 892 H6W B1102 SITE 1 AD4 11 LEU B 730 PHE B 735 VAL B 738 ALA B 756 SITE 2 AD4 11 GLU B 805 ALA B 807 ARG B 878 ASN B 879 SITE 3 AD4 11 LEU B 881 ASP B 892 CL B1101 SITE 1 AD5 7 ARG B 721 CYS B 794 GLN B 796 ASP B 797 SITE 2 AD5 7 GLY B 798 PRO B 799 LEU B 801 SITE 1 AD6 4 ASP B 898 VAL B 899 TYR B 900 GLU B 901 SITE 1 AD7 6 FMT A1105 THR B 754 PHE B 924 ASP B 925 SITE 2 AD7 6 FMT B1111 HOH B1263 SITE 1 AD8 2 ARG B 721 LEU B 726 SITE 1 AD9 7 ARG B 873 LEU B 895 ARG B 897 LYS B 907 SITE 2 AD9 7 GLY B 911 ARG B 912 ILE B 913 SITE 1 AE1 5 THR B 930 GLN B 931 VAL B 997 PHE B 998 SITE 2 AE1 5 HOH B1285 SITE 1 AE2 4 SER B 977 MET B1008 ARG B1012 HOH B1202 SITE 1 AE3 5 LYS B 728 LEU B 730 LYS B 740 TYR B 806 SITE 2 AE3 5 HOH B1204 SITE 1 AE4 3 ILE B 920 ASP B 925 EDO B1105 SITE 1 AE5 2 HIS B 784 GLN B 860 CRYST1 50.675 80.336 79.740 90.00 99.87 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 0.019734 0.000000 0.003434 0.00000 SCALE2 0.000000 0.012448 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012729 0.00000