HEADER TRANSFERASE 30-JUN-19 6PL4 TITLE TRK-A IN COMPLEX WITH LIGAND 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIGH AFFINITY NERVE GROWTH FACTOR RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN; 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 KEYWDS TRK-A KINASE DOMAIN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR G.SUBRAMANIAN,D.G.BROWN REVDAT 3 30-OCT-24 6PL4 1 REMARK REVDAT 2 03-NOV-21 6PL4 1 JRNL REMARK REVDAT 1 01-JUL-20 6PL4 0 JRNL AUTH G.SUBRAMANIAN,B.DUCLOS,P.D.JOHNSON,T.WILLIAMS,J.T.ROSS, JRNL AUTH 2 S.J.BOWEN,Y.ZHU,J.A.WHITE,C.HEDKE,D.HUCZEK,W.COLLARD, JRNL AUTH 3 C.JAVENS,R.VAIRAGOUNDAR,T.RESPONDEK,T.ZACHARY,T.MADDUX, JRNL AUTH 4 M.R.COX,S.KAMERLING,A.J.GONZALES JRNL TITL IN PURSUIT OF AN ALLOSTERIC HUMAN TROPOMYOSIN KINASE A JRNL TITL 2 (HTRKA) INHIBITOR FOR CHRONIC PAIN JRNL REF ACS MED.CHEM.LETT. 2021 JRNL REFN ISSN 1948-5875 JRNL DOI 10.1021/ACSMEDCHEMLETT.1C00483 REMARK 2 REMARK 2 RESOLUTION. 2.06 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) : 2.06 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.08 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 20215 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1729 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) : 2.06 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.11 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1483 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.2780 REMARK 3 BIN FREE R VALUE SET COUNT : 102 REMARK 3 BIN FREE R VALUE : 0.3020 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2386 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 35 REMARK 3 SOLVENT ATOMS : 110 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.31000 REMARK 3 B22 (A**2) : 0.31000 REMARK 3 B33 (A**2) : -1.01000 REMARK 3 B12 (A**2) : 0.16000 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): 0.207 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.178 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.142 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.152 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.938 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2423 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2286 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3299 ; 1.287 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5203 ; 0.948 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 303 ; 5.552 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 99 ;32.381 ;22.222 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 367 ;12.009 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;16.640 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 356 ; 0.073 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2759 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 587 ; 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): 1212 ; 3.447 ; 3.691 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1211 ; 3.438 ; 3.687 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1515 ; 4.720 ; 6.201 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1516 ; 4.719 ; 6.206 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1209 ; 4.646 ; 4.102 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1210 ; 4.644 ; 4.102 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1785 ; 6.176 ; 6.742 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2728 ; 8.198 ;16.951 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2695 ; 8.145 ;16.814 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 485 A 592 REMARK 3 ORIGIN FOR THE GROUP (A): 27.0720 -28.0770 -17.1830 REMARK 3 T TENSOR REMARK 3 T11: 0.0525 T22: 0.1653 REMARK 3 T33: 0.0739 T12: 0.0327 REMARK 3 T13: 0.0190 T23: -0.0122 REMARK 3 L TENSOR REMARK 3 L11: 4.8075 L22: 4.8033 REMARK 3 L33: 6.7997 L12: -1.6642 REMARK 3 L13: -0.6521 L23: -1.3713 REMARK 3 S TENSOR REMARK 3 S11: -0.0332 S12: 0.2809 S13: 0.0481 REMARK 3 S21: -0.2128 S22: 0.0119 S23: -0.2571 REMARK 3 S31: 0.1286 S32: 0.4527 S33: 0.0212 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 785 REMARK 3 ORIGIN FOR THE GROUP (A): 2.9550 -16.7850 -20.8030 REMARK 3 T TENSOR REMARK 3 T11: 0.1136 T22: 0.0921 REMARK 3 T33: 0.0372 T12: 0.1021 REMARK 3 T13: -0.0381 T23: -0.0320 REMARK 3 L TENSOR REMARK 3 L11: 3.7478 L22: 3.2424 REMARK 3 L33: 2.9033 L12: 0.3200 REMARK 3 L13: 0.9835 L23: 0.5375 REMARK 3 S TENSOR REMARK 3 S11: -0.0282 S12: -0.0015 S13: 0.3057 REMARK 3 S21: -0.1947 S22: -0.1497 S23: 0.1301 REMARK 3 S31: -0.2369 S32: -0.2044 S33: 0.1778 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 6PL4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JUL-19. REMARK 100 THE DEPOSITION ID IS D_1000242705. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-OCT-16 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 : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9999 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 : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21952 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.060 REMARK 200 RESOLUTION RANGE LOW (A) : 75.970 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.06 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.44300 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.55 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 8.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 1 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -Y,-X,-Z+2/3 REMARK 290 5555 -X+Y,Y,-Z+1/3 REMARK 290 6555 X,X-Y,-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 -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 75.97233 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 151.94467 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 151.94467 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 75.97233 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 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 ILE A 491 REMARK 465 GLU A 492 REMARK 465 ASN A 493 REMARK 465 PRO A 494 REMARK 465 GLN A 495 REMARK 465 TYR A 496 REMARK 465 PHE A 497 REMARK 465 SER A 498 REMARK 465 ASP A 499 REMARK 465 LYS A 609 REMARK 465 LEU A 610 REMARK 465 LEU A 611 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLN A 487 CD OE1 NE2 REMARK 480 ILE A 490 CD1 REMARK 480 ARG A 508 NE CZ NH1 NH2 REMARK 480 PHE A 521 CG CD1 CD2 CE1 CE2 CZ REMARK 480 GLU A 535 CG CD OE1 OE2 REMARK 480 GLN A 536 CD OE1 NE2 REMARK 480 ASP A 537 CG OD1 OD2 REMARK 480 LYS A 538 CE NZ REMARK 480 LYS A 547 CG CD CE NZ REMARK 480 GLU A 548 CG CD OE1 OE2 REMARK 480 GLU A 551 CG CD OE1 OE2 REMARK 480 ARG A 554 CD NE CZ NH1 NH2 REMARK 480 GLN A 555 CG CD OE1 NE2 REMARK 480 GLN A 558 CD OE1 NE2 REMARK 480 ARG A 559 CD NE CZ NH1 NH2 REMARK 480 LEU A 563 CD1 CD2 REMARK 480 MET A 566 SD CE REMARK 480 GLN A 570 CD OE1 NE2 REMARK 480 LEU A 644 CD1 CD2 REMARK 480 ARG A 686 CG CD NE CZ NH1 NH2 REMARK 480 LYS A 703 CE NZ REMARK 480 LYS A 725 CD CE NZ REMARK 480 GLU A 747 CD OE1 OE2 REMARK 480 ARG A 750 CD NE CZ NH1 NH2 REMARK 480 GLU A 755 CG CD OE1 OE2 REMARK 480 ARG A 761 CZ NH1 NH2 REMARK 480 GLU A 767 CD OE1 OE2 REMARK 480 GLN A 769 CG CD OE1 NE2 REMARK 480 GLN A 770 CD OE1 NE2 REMARK 480 LYS A 775 CE NZ 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 ALA A 549 59.44 -98.12 REMARK 500 ARG A 649 -11.19 81.67 REMARK 500 ASP A 650 42.76 -143.59 REMARK 500 TYR A 676 54.35 -117.51 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 OO7 A 801 DBREF 6PL4 A 485 795 UNP P04629 NTRK1_HUMAN 387 697 SEQRES 1 A 311 GLY LEU GLN GLY HIS ILE ILE GLU ASN PRO GLN TYR PHE SEQRES 2 A 311 SER ASP ALA CYS VAL HIS HIS ILE LYS ARG ARG ASP ILE SEQRES 3 A 311 VAL LEU LYS TRP GLU LEU GLY GLU GLY ALA PHE GLY LYS SEQRES 4 A 311 VAL PHE LEU ALA GLU CYS HIS ASN LEU LEU PRO GLU GLN SEQRES 5 A 311 ASP LYS MET LEU VAL ALA VAL LYS ALA LEU LYS GLU ALA SEQRES 6 A 311 SER GLU SER ALA ARG GLN ASP PHE GLN ARG GLU ALA GLU SEQRES 7 A 311 LEU LEU THR MET LEU GLN HIS GLN HIS ILE VAL ARG PHE SEQRES 8 A 311 PHE GLY VAL CYS THR GLU GLY ARG PRO LEU LEU MET VAL SEQRES 9 A 311 PHE GLU TYR MET ARG HIS GLY ASP LEU ASN ARG PHE LEU SEQRES 10 A 311 ARG SER HIS GLY PRO ASP ALA LYS LEU LEU ALA GLY GLY SEQRES 11 A 311 GLU ASP VAL ALA PRO GLY PRO LEU GLY LEU GLY GLN LEU SEQRES 12 A 311 LEU ALA VAL ALA SER GLN VAL ALA ALA GLY MET VAL TYR SEQRES 13 A 311 LEU ALA GLY LEU HIS PHE VAL HIS ARG ASP LEU ALA THR SEQRES 14 A 311 ARG ASN CYS LEU VAL GLY GLN GLY LEU VAL VAL LYS ILE SEQRES 15 A 311 GLY ASP PHE GLY MET SER ARG ASP ILE TYR SEP THR ASP SEQRES 16 A 311 TYR TYR ARG VAL GLY GLY ARG THR MET LEU PRO ILE ARG SEQRES 17 A 311 TRP MET PRO PRO GLU SER ILE LEU TYR ARG LYS PHE THR SEQRES 18 A 311 THR GLU SER ASP VAL TRP SER PHE GLY VAL VAL LEU TRP SEQRES 19 A 311 GLU ILE PHE THR TYR GLY LYS GLN PRO TRP TYR GLN LEU SEQRES 20 A 311 SER ASN THR GLU ALA ILE ASP CYS ILE THR GLN GLY ARG SEQRES 21 A 311 GLU LEU GLU ARG PRO ARG ALA CYS PRO PRO GLU VAL TYR SEQRES 22 A 311 ALA ILE MET ARG GLY CYS TRP GLN ARG GLU PRO GLN GLN SEQRES 23 A 311 ARG HIS SER ILE LYS ASP VAL HIS ALA ARG LEU GLN ALA SEQRES 24 A 311 LEU ALA GLN ALA PRO PRO VAL TYR LEU ASP VAL LEU MODRES 6PL4 SEP A 677 SER MODIFIED RESIDUE HET SEP A 677 10 HET OO7 A 801 35 HETNAM SEP PHOSPHOSERINE HETNAM OO7 N-{[5-(METHOXYMETHYL)-2-(TRIFLUOROMETHOXY) HETNAM 2 OO7 PHENYL]METHYL}-N'-(8-METHYL-2-PHENYLIMIDAZO[1,2- HETNAM 3 OO7 A]PYRAZIN-3-YL)UREA HETSYN SEP PHOSPHONOSERINE FORMUL 1 SEP C3 H8 N O6 P FORMUL 2 OO7 C24 H22 F3 N5 O3 FORMUL 3 HOH *110(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 LEU A 597 SER A 603 1 7 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 GLN A 660 LEU A 662 5 3 HELIX 7 AA7 MET A 671 TYR A 676 1 6 HELIX 8 AA8 SEP A 677 TYR A 680 5 4 HELIX 9 AA9 PRO A 690 MET A 694 5 5 HELIX 10 AB1 PRO A 695 ARG A 702 1 8 HELIX 11 AB2 THR A 705 THR A 722 1 18 HELIX 12 AB3 SER A 732 GLN A 742 1 11 HELIX 13 AB4 PRO A 753 TRP A 764 1 12 HELIX 14 AB5 GLU A 767 ARG A 771 5 5 HELIX 15 AB6 SER A 773 GLN A 786 1 14 HELIX 16 AB7 PRO A 788 VAL A 794 1 7 SHEET 1 AA1 5 ILE A 510 GLU A 518 0 SHEET 2 AA1 5 GLY A 522 HIS A 530 -1 O LEU A 526 N LYS A 513 SHEET 3 AA1 5 LYS A 538 LEU A 546 -1 O VAL A 543 N PHE A 525 SHEET 4 AA1 5 LEU A 586 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 3 GLY A 595 ASP A 596 0 SHEET 2 AA2 3 CYS A 656 VAL A 658 -1 O VAL A 658 N GLY A 595 SHEET 3 AA2 3 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 -2.33 SITE 1 AC1 16 GLY A 485 LEU A 486 GLU A 560 LEU A 564 SITE 2 AC1 16 LEU A 567 ILE A 572 MET A 587 PHE A 589 SITE 3 AC1 16 LEU A 641 PHE A 646 HIS A 648 ILE A 666 SITE 4 AC1 16 GLY A 667 ASP A 668 PHE A 669 GLY A 670 CRYST1 52.052 52.052 227.917 90.00 90.00 120.00 P 31 1 2 6 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 0.019212 0.011092 0.000000 0.00000 SCALE2 0.000000 0.022184 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004388 0.00000