HEADER TRANSFERASE/TRANSFERASE INHIBITOR 30-NOV-16 5WR7 TITLE CRYSTAL STRUCTURE OF TRK-A COMPLEXED WITH A SELECTIVE INHIBITOR TITLE 2 CH7057288 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIGH AFFINITY NERVE GROWTH FACTOR RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN, UNP RESIDUES 489-792; COMPND 5 SYNONYM: NEUROTROPHIC TYROSINE KINASE RECEPTOR TYPE 1,TRK1- COMPND 6 TRANSFORMING TYROSINE KINASE PROTEIN,TROPOMYOSIN-RELATED KINASE A, COMPND 7 TYROSINE KINASE RECEPTOR,TYROSINE KINASE RECEPTOR A,TRK-A,GP140TRK, COMPND 8 P140-TRKA; COMPND 9 EC: 2.7.10.1; COMPND 10 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: NTRK1, MTC, TRK, TRKA; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS KEYWDS TRK-A, KINASE DOMAIN, HIGH AFFINITY NERVE GROWTH FACTOR RECEPTOR, KEYWDS 2 PROTEROS BIOSTRUCTURES GMBH, TRANSFERASE-TRANSFERASE INHIBITOR KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.TANAKA,M.BLAESSE,M.AUGUSTIN,C.GOESSER REVDAT 2 19-DEC-18 5WR7 1 JRNL REVDAT 1 06-DEC-17 5WR7 0 JRNL AUTH H.TANAKA,H.SASE,T.TSUKAGUCHI,M.HASEGAWA,H.TANIMURA, JRNL AUTH 2 M.YOSHIDA,K.SAKATA,T.FUJII,Y.TACHIBANA,K.TAKANASHI, JRNL AUTH 3 A.HIGASHIDA,K.HASEGAWA,Y.ONO,N.OIKAWA,T.MIO JRNL TITL SELECTIVE TRK INHIBITOR CH7057288 AGAINST TRK FUSION-DRIVEN JRNL TITL 2 CANCER. JRNL REF MOL. CANCER THER. V. 17 2519 2018 JRNL REFN ESSN 1538-8514 JRNL PMID 30242093 JRNL DOI 10.1158/1535-7163.MCT-17-1180 REMARK 2 REMARK 2 RESOLUTION. 2.76 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 2.76 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 82.54 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 10486 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.400 REMARK 3 FREE R VALUE TEST SET COUNT : 721 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) : 2.76 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.83 REMARK 3 REFLECTION IN BIN (WORKING SET) : 765 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2990 REMARK 3 BIN FREE R VALUE SET COUNT : 47 REMARK 3 BIN FREE R VALUE : 0.4400 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2325 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 41 REMARK 3 SOLVENT ATOMS : 28 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.51000 REMARK 3 B22 (A**2) : 0.51000 REMARK 3 B33 (A**2) : -1.65000 REMARK 3 B12 (A**2) : 0.25000 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): 0.946 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.316 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.239 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 24.176 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.921 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.893 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2430 ; 0.007 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2288 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3314 ; 1.197 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5202 ; 2.582 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 300 ; 4.966 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 101 ;33.483 ;22.871 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 369 ;12.634 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;11.790 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 355 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2762 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 578 ; 0.003 ; 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): 1206 ; 1.808 ; 2.690 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1205 ; 1.808 ; 2.689 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1504 ; 3.158 ; 4.532 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1505 ; 3.157 ; 4.534 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1224 ; 2.003 ; 2.823 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1225 ; 2.002 ; 2.823 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1811 ; 3.297 ; 4.657 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2658 ; 4.937 ;11.693 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2659 ; 4.937 ;11.695 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 489 A 592 REMARK 3 ORIGIN FOR THE GROUP (A): -13.6130 -15.6020 14.9990 REMARK 3 T TENSOR REMARK 3 T11: 0.1588 T22: 0.1733 REMARK 3 T33: 0.1382 T12: 0.0390 REMARK 3 T13: -0.0565 T23: 0.0011 REMARK 3 L TENSOR REMARK 3 L11: 1.5377 L22: 4.1309 REMARK 3 L33: 6.5154 L12: -0.6491 REMARK 3 L13: 1.1825 L23: -0.2755 REMARK 3 S TENSOR REMARK 3 S11: -0.1779 S12: 0.1123 S13: 0.3635 REMARK 3 S21: 0.0259 S22: 0.0894 S23: 0.0562 REMARK 3 S31: -0.6199 S32: -0.2142 S33: 0.0886 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 593 A 792 REMARK 3 ORIGIN FOR THE GROUP (A): 1.9090 -35.9590 13.5470 REMARK 3 T TENSOR REMARK 3 T11: 0.0945 T22: 0.0663 REMARK 3 T33: 0.0086 T12: 0.0165 REMARK 3 T13: -0.0023 T23: 0.0008 REMARK 3 L TENSOR REMARK 3 L11: 3.4849 L22: 1.7695 REMARK 3 L33: 2.9550 L12: 0.1909 REMARK 3 L13: -0.4550 L23: -0.7342 REMARK 3 S TENSOR REMARK 3 S11: -0.0204 S12: -0.0770 S13: -0.0429 REMARK 3 S21: 0.0514 S22: 0.0625 S23: -0.0892 REMARK 3 S31: 0.0109 S32: 0.1296 S33: -0.0420 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 5WR7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1300002129. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JAN-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 : CLSI REMARK 200 BEAMLINE : 08ID-1 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 : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11208 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.760 REMARK 200 RESOLUTION RANGE LOW (A) : 82.540 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.11900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.76 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.01 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.43500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC 5.8.0049 REMARK 200 STARTING MODEL: RIGID BODY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.05-0.15M KH2PO4, 0.1M MES PH 6.25, REMARK 280 1.5-2.5M NACL, 0.05-0.15M NAH2PO4, 0.01M TCEP HCL, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 52.13100 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 30.09785 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 67.86967 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 52.13100 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 30.09785 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 67.86967 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 52.13100 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 30.09785 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 67.86967 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 52.13100 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 30.09785 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 67.86967 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 52.13100 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 30.09785 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 67.86967 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 52.13100 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 30.09785 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 67.86967 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 60.19569 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 135.73933 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 60.19569 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 135.73933 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 60.19569 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 135.73933 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 60.19569 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 135.73933 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 60.19569 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 135.73933 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 60.19569 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 135.73933 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 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 685 REMARK 465 ARG A 686 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 HIS A 489 CG ND1 CD2 CE1 NE2 REMARK 470 ILE A 490 CD1 REMARK 470 ILE A 491 CG1 CG2 CD1 REMARK 470 ASN A 493 CG OD1 ND2 REMARK 470 GLN A 495 CD OE1 NE2 REMARK 470 CYS A 501 SG REMARK 470 LYS A 506 CE NZ REMARK 470 ARG A 508 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 518 CD OE1 OE2 REMARK 470 LYS A 523 NZ REMARK 470 GLU A 528 CD OE1 OE2 REMARK 470 GLU A 535 CG CD OE1 OE2 REMARK 470 LYS A 547 CG CD CE NZ REMARK 470 SER A 550 OG REMARK 470 GLU A 551 CG CD OE1 OE2 REMARK 470 ARG A 559 CD NE CZ NH1 NH2 REMARK 470 ARG A 583 NE CZ NH1 NH2 REMARK 470 ARG A 599 NE CZ NH1 NH2 REMARK 470 ASP A 607 CG OD1 OD2 REMARK 470 LYS A 609 CG CD CE NZ REMARK 470 GLU A 615 CD OE1 OE2 REMARK 470 GLN A 660 CD OE1 NE2 REMARK 470 SER A 672 OG REMARK 470 ILE A 675 CD1 REMARK 470 ARG A 682 NE CZ NH1 NH2 REMARK 470 VAL A 683 CG1 CG2 REMARK 470 THR A 687 OG1 CG2 REMARK 470 PHE A 704 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 725 NZ REMARK 470 ARG A 750 NE CZ NH1 NH2 REMARK 470 GLU A 767 CD OE1 OE2 REMARK 470 GLN A 769 CD OE1 NE2 REMARK 470 LYS A 775 NZ REMARK 470 LEU A 792 CG CD1 CD2 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 GLU A 535 10.20 57.18 REMARK 500 ASP A 650 49.99 -155.80 REMARK 500 SER A 672 66.00 60.45 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 RCH A 801 DBREF 5WR7 A 489 792 UNP P04629 NTRK1_HUMAN 489 792 SEQRES 1 A 304 HIS ILE ILE GLU ASN PRO GLN TYR PHE SER ASP ALA CYS SEQRES 2 A 304 VAL HIS HIS ILE LYS ARG ARG ASP ILE VAL LEU LYS TRP SEQRES 3 A 304 GLU LEU GLY GLU GLY ALA PHE GLY LYS VAL PHE LEU ALA SEQRES 4 A 304 GLU CYS HIS ASN LEU LEU PRO GLU GLN ASP LYS MET LEU SEQRES 5 A 304 VAL ALA VAL LYS ALA LEU LYS GLU ALA SER GLU SER ALA SEQRES 6 A 304 ARG GLN ASP PHE GLN ARG GLU ALA GLU LEU LEU THR MET SEQRES 7 A 304 LEU GLN HIS GLN HIS ILE VAL ARG PHE PHE GLY VAL CYS SEQRES 8 A 304 THR GLU GLY ARG PRO LEU LEU MET VAL PHE GLU TYR MET SEQRES 9 A 304 ARG HIS GLY ASP LEU ASN ARG PHE LEU ARG SER HIS GLY SEQRES 10 A 304 PRO ASP ALA LYS LEU LEU ALA GLY GLY GLU ASP VAL ALA SEQRES 11 A 304 PRO GLY PRO LEU GLY LEU GLY GLN LEU LEU ALA VAL ALA SEQRES 12 A 304 SER GLN VAL ALA ALA GLY MET VAL TYR LEU ALA GLY LEU SEQRES 13 A 304 HIS PHE VAL HIS ARG ASP LEU ALA THR ARG ASN CYS LEU SEQRES 14 A 304 VAL GLY GLN GLY LEU VAL VAL LYS ILE GLY ASP PHE GLY SEQRES 15 A 304 MET SER ARG ASP ILE TYR SEP THR ASP TYR TYR ARG VAL SEQRES 16 A 304 GLY GLY ARG THR MET LEU PRO ILE ARG TRP MET PRO PRO SEQRES 17 A 304 GLU SER ILE LEU TYR ARG LYS PHE THR THR GLU SER ASP SEQRES 18 A 304 VAL TRP SER PHE GLY VAL VAL LEU TRP GLU ILE PHE THR SEQRES 19 A 304 TYR GLY LYS GLN PRO TRP TYR GLN LEU SER ASN THR GLU SEQRES 20 A 304 ALA ILE ASP CYS ILE THR GLN GLY ARG GLU LEU GLU ARG SEQRES 21 A 304 PRO ARG ALA CYS PRO PRO GLU VAL TYR ALA ILE MET ARG SEQRES 22 A 304 GLY CYS TRP GLN ARG GLU PRO GLN GLN ARG HIS SER ILE SEQRES 23 A 304 LYS ASP VAL HIS ALA ARG LEU GLN ALA LEU ALA GLN ALA SEQRES 24 A 304 PRO PRO VAL TYR LEU MODRES 5WR7 SEP A 677 SER MODIFIED RESIDUE HET SEP A 677 10 HET RCH A 801 41 HETNAM SEP PHOSPHOSERINE HETNAM RCH N-TERT-BUTYL-2-[2-[6,6-DIMETHYL-8- HETNAM 2 RCH (METHYLSULFONYLAMINO)-11-OXIDANYLIDENE-NAPHTHO[2,3- HETNAM 3 RCH B][1]BENZOFURAN-3-YL]ETHYNYL]-6-METHYL-PYRIDINE-4- HETNAM 4 RCH CARBOXAMIDE HETSYN SEP PHOSPHONOSERINE FORMUL 1 SEP C3 H8 N O6 P FORMUL 2 RCH C32 H31 N3 O5 S FORMUL 3 HOH *28(H2 O) HELIX 1 AA1 LYS A 506 ARG A 508 5 3 HELIX 2 AA2 SER A 550 LEU A 567 1 18 HELIX 3 AA3 ASP A 596 HIS A 604 1 9 HELIX 4 AA4 GLY A 623 LEU A 644 1 22 HELIX 5 AA5 ALA A 652 ARG A 654 5 3 HELIX 6 AA6 PRO A 690 MET A 694 5 5 HELIX 7 AA7 PRO A 695 ARG A 702 1 8 HELIX 8 AA8 THR A 705 THR A 722 1 18 HELIX 9 AA9 SER A 732 GLN A 742 1 11 HELIX 10 AB1 PRO A 753 TRP A 764 1 12 HELIX 11 AB2 GLU A 767 ARG A 771 5 5 HELIX 12 AB3 SER A 773 ALA A 787 1 15 SHEET 1 AA1 5 ILE A 510 GLU A 518 0 SHEET 2 AA1 5 GLY A 522 CYS A 529 -1 O LEU A 526 N TRP A 514 SHEET 3 AA1 5 LEU A 540 LEU A 546 -1 O ALA A 545 N LYS A 523 SHEET 4 AA1 5 LEU A 585 GLU A 590 -1 O PHE A 589 N ALA A 542 SHEET 5 AA1 5 PHE A 575 CYS A 579 -1 N GLY A 577 O VAL A 588 SHEET 1 AA2 2 CYS A 656 VAL A 658 0 SHEET 2 AA2 2 VAL A 664 ILE A 666 -1 O LYS A 665 N LEU A 657 SHEET 1 AA3 2 TYR A 681 ARG A 682 0 SHEET 2 AA3 2 MET A 688 LEU A 689 -1 O LEU A 689 N TYR A 681 LINK C TYR A 676 N SEP A 677 1555 1555 1.33 LINK C SEP A 677 N THR A 678 1555 1555 1.34 CISPEP 1 ARG A 583 PRO A 584 0 5.23 SITE 1 AC1 25 TYR A 496 VAL A 524 ALA A 542 LYS A 544 SITE 2 AC1 25 GLU A 560 LEU A 564 ILE A 572 PHE A 589 SITE 3 AC1 25 GLU A 590 TYR A 591 MET A 592 ARG A 593 SITE 4 AC1 25 GLY A 595 ASP A 596 LEU A 611 ALA A 612 SITE 5 AC1 25 GLY A 613 PRO A 619 PHE A 646 LEU A 657 SITE 6 AC1 25 ILE A 666 GLY A 667 ASP A 668 PHE A 669 SITE 7 AC1 25 HOH A 902 CRYST1 104.262 104.262 203.609 90.00 90.00 120.00 H 3 2 18 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 0.009591 0.005537 0.000000 0.00000 SCALE2 0.000000 0.011075 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004911 0.00000