HEADER TRANSFERASE 04-FEB-20 6LVK TITLE CRYSTAL STRUCTURE OF FGFR2 IN COMPLEX WITH 1,3,5-TRIAZINE DERIVATIVE COMPND MOL_ID: 1; COMPND 2 MOLECULE: FIBROBLAST GROWTH FACTOR RECEPTOR 2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: FGFR-2,K-SAM,KGFR,KERATINOCYTE GROWTH FACTOR RECEPTOR; COMPND 5 EC: 2.7.10.1; COMPND 6 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: FGFR2, BEK, KGFR, KSAM; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN KINASE, SIGNALING PROTEIN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.ECHIZEN,Y.AMANO,Y.TATEISHI REVDAT 3 29-NOV-23 6LVK 1 REMARK REVDAT 2 29-APR-20 6LVK 1 JRNL REVDAT 1 08-APR-20 6LVK 0 JRNL AUTH I.KURIWAKI,M.KAMEDA,H.HISAMICHI,S.KIKUCHI,K.IIKUBO, JRNL AUTH 2 Y.KAWAMOTO,H.MORITOMO,Y.KONDOH,Y.AMANO,Y.TATEISHI,Y.ECHIZEN, JRNL AUTH 3 Y.IWAI,A.NODA,H.TOMIYAMA,T.SUZUKI,M.HIRANO JRNL TITL STRUCTURE-BASED DRUG DESIGN OF 1,3,5-TRIAZINE AND PYRIMIDINE JRNL TITL 2 DERIVATIVES AS NOVEL FGFR3 INHIBITORS WITH HIGH SELECTIVITY JRNL TITL 3 OVER VEGFR2. JRNL REF BIOORG.MED.CHEM. V. 28 15453 2020 JRNL REFN ESSN 1464-3391 JRNL PMID 32278710 JRNL DOI 10.1016/J.BMC.2020.115453 REMARK 2 REMARK 2 RESOLUTION. 2.29 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0253 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) : 2.29 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 34404 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) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1775 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) : 2.29 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.35 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2453 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.2570 REMARK 3 BIN FREE R VALUE SET COUNT : 133 REMARK 3 BIN FREE R VALUE : 0.3120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4584 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 104 REMARK 3 SOLVENT ATOMS : 122 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.68 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.51000 REMARK 3 B22 (A**2) : -0.47000 REMARK 3 B33 (A**2) : -0.04000 REMARK 3 B12 (A**2) : 0.00000 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): 0.267 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.215 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.164 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.897 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.917 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4790 ; 0.010 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6480 ; 1.735 ; 1.683 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 570 ; 6.755 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 237 ;32.508 ;22.574 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 857 ;18.653 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;19.079 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 596 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3714 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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: U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6LVK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-FEB-20. REMARK 100 THE DEPOSITION ID IS D_1300015567. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-AUG-10 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS VII REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36222 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.290 REMARK 200 RESOLUTION RANGE LOW (A) : 48.060 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.29 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.44200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3B2T REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRIS, AMMONIUM SULFATE, PEG 8000, PH REMARK 280 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 X,-Y,-Z REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.78550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.13000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 52.78550 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 58.13000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL 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 GLY A 456 REMARK 465 SER A 457 REMARK 465 HIS A 458 REMARK 465 MET A 459 REMARK 465 LEU A 460 REMARK 465 ALA A 461 REMARK 465 GLY A 462 REMARK 465 VAL A 463 REMARK 465 SER A 464 REMARK 465 GLU A 465 REMARK 465 TYR A 466 REMARK 465 GLU A 467 REMARK 465 MET A 584 REMARK 465 GLU A 585 REMARK 465 TYR A 586 REMARK 465 SER A 587 REMARK 465 TYR A 588 REMARK 465 ASP A 589 REMARK 465 ILE A 590 REMARK 465 ASN A 591 REMARK 465 ARG A 592 REMARK 465 VAL A 593 REMARK 465 PRO A 594 REMARK 465 GLU A 767 REMARK 465 GLU A 768 REMARK 465 GLY B 456 REMARK 465 SER B 457 REMARK 465 HIS B 458 REMARK 465 MET B 459 REMARK 465 LEU B 460 REMARK 465 ALA B 461 REMARK 465 GLY B 462 REMARK 465 VAL B 463 REMARK 465 SER B 464 REMARK 465 GLU B 465 REMARK 465 TYR B 466 REMARK 465 GLU B 467 REMARK 465 GLY B 583 REMARK 465 MET B 584 REMARK 465 GLU B 585 REMARK 465 TYR B 586 REMARK 465 SER B 587 REMARK 465 TYR B 588 REMARK 465 ASP B 589 REMARK 465 ILE B 590 REMARK 465 ASN B 591 REMARK 465 ARG B 592 REMARK 465 VAL B 593 REMARK 465 PRO B 594 REMARK 465 ASN B 766 REMARK 465 GLU B 767 REMARK 465 GLU B 768 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 LYS A 714 CG CD CE NZ REMARK 470 LYS A 717 CG CD CE NZ REMARK 470 LYS B 543 CG CD CE NZ 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 O4 SO4 B 802 O HOH B 901 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 LEU A 560 C LEU A 560 O -0.114 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU A 560 O - C - N ANGL. DEV. = -18.8 DEGREES REMARK 500 PTR A 561 O - C - N ANGL. DEV. = -19.1 DEGREES REMARK 500 ARG A 579 CB - CA - C ANGL. DEV. = 14.4 DEGREES REMARK 500 ARG A 579 CG - CD - NE ANGL. DEV. = 20.2 DEGREES 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 LYS A 507 58.18 -98.54 REMARK 500 PRO A 508 0.81 -65.98 REMARK 500 ARG A 625 -4.17 75.66 REMARK 500 ASP A 626 42.22 -140.73 REMARK 500 ASP A 644 76.62 55.34 REMARK 500 ASN A 653 55.32 -115.95 REMARK 500 TYR A 657 -3.44 83.52 REMARK 500 ASN A 727 -2.12 80.71 REMARK 500 ARG B 625 -4.75 75.98 REMARK 500 ASP B 626 41.83 -142.85 REMARK 500 ASP B 644 79.21 46.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASP A 504 LYS A 505 145.46 REMARK 500 CYS B 491 PHE B 492 148.07 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 EVC A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EVC B 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 804 DBREF 6LVK A 459 768 UNP P21802 FGFR2_HUMAN 459 768 DBREF 6LVK B 459 768 UNP P21802 FGFR2_HUMAN 459 768 SEQADV 6LVK GLY A 456 UNP P21802 EXPRESSION TAG SEQADV 6LVK SER A 457 UNP P21802 EXPRESSION TAG SEQADV 6LVK HIS A 458 UNP P21802 EXPRESSION TAG SEQADV 6LVK GLY B 456 UNP P21802 EXPRESSION TAG SEQADV 6LVK SER B 457 UNP P21802 EXPRESSION TAG SEQADV 6LVK HIS B 458 UNP P21802 EXPRESSION TAG SEQRES 1 A 313 GLY SER HIS MET LEU ALA GLY VAL SER GLU TYR GLU LEU SEQRES 2 A 313 PRO GLU ASP PRO LYS TRP GLU PHE PRO ARG ASP LYS LEU SEQRES 3 A 313 THR LEU GLY LYS PRO LEU GLY GLU GLY CYS PHE GLY GLN SEQRES 4 A 313 VAL VAL MET ALA GLU ALA VAL GLY ILE ASP LYS ASP LYS SEQRES 5 A 313 PRO LYS GLU ALA VAL THR VAL ALA VAL LYS MET LEU LYS SEQRES 6 A 313 ASP ASP ALA THR GLU LYS ASP LEU SER ASP LEU VAL SER SEQRES 7 A 313 GLU MET GLU MET MET LYS MET ILE GLY LYS HIS LYS ASN SEQRES 8 A 313 ILE ILE ASN LEU LEU GLY ALA CYS THR GLN ASP GLY PRO SEQRES 9 A 313 LEU PTR VAL ILE VAL GLU TYR ALA SER LYS GLY ASN LEU SEQRES 10 A 313 ARG GLU TYR LEU ARG ALA ARG ARG PRO PRO GLY MET GLU SEQRES 11 A 313 TYR SER TYR ASP ILE ASN ARG VAL PRO GLU GLU GLN MET SEQRES 12 A 313 THR PHE LYS ASP LEU VAL SER CYS THR TYR GLN LEU ALA SEQRES 13 A 313 ARG GLY MET GLU TYR LEU ALA SER GLN LYS CYS ILE HIS SEQRES 14 A 313 ARG ASP LEU ALA ALA ARG ASN VAL LEU VAL THR GLU ASN SEQRES 15 A 313 ASN VAL MET LYS ILE ALA ASP PHE GLY LEU ALA ARG ASP SEQRES 16 A 313 ILE ASN ASN ILE ASP TYR TYR LYS LYS THR THR ASN GLY SEQRES 17 A 313 ARG LEU PRO VAL LYS TRP MET ALA PRO GLU ALA LEU PHE SEQRES 18 A 313 ASP ARG VAL TYR THR HIS GLN SER ASP VAL TRP SER PHE SEQRES 19 A 313 GLY VAL LEU MET TRP GLU ILE PHE THR LEU GLY GLY SER SEQRES 20 A 313 PRO TYR PRO GLY ILE PRO VAL GLU GLU LEU PHE LYS LEU SEQRES 21 A 313 LEU LYS GLU GLY HIS ARG MET ASP LYS PRO ALA ASN CYS SEQRES 22 A 313 THR ASN GLU LEU TYR MET MET MET ARG ASP CYS TRP HIS SEQRES 23 A 313 ALA VAL PRO SER GLN ARG PRO THR PHE LYS GLN LEU VAL SEQRES 24 A 313 GLU ASP LEU ASP ARG ILE LEU THR LEU THR THR ASN GLU SEQRES 25 A 313 GLU SEQRES 1 B 313 GLY SER HIS MET LEU ALA GLY VAL SER GLU TYR GLU LEU SEQRES 2 B 313 PRO GLU ASP PRO LYS TRP GLU PHE PRO ARG ASP LYS LEU SEQRES 3 B 313 THR LEU GLY LYS PRO LEU GLY GLU GLY CYS PHE GLY GLN SEQRES 4 B 313 VAL VAL MET ALA GLU ALA VAL GLY ILE ASP LYS ASP LYS SEQRES 5 B 313 PRO LYS GLU ALA VAL THR VAL ALA VAL LYS MET LEU LYS SEQRES 6 B 313 ASP ASP ALA THR GLU LYS ASP LEU SER ASP LEU VAL SER SEQRES 7 B 313 GLU MET GLU MET MET LYS MET ILE GLY LYS HIS LYS ASN SEQRES 8 B 313 ILE ILE ASN LEU LEU GLY ALA CYS THR GLN ASP GLY PRO SEQRES 9 B 313 LEU PTR VAL ILE VAL GLU TYR ALA SER LYS GLY ASN LEU SEQRES 10 B 313 ARG GLU TYR LEU ARG ALA ARG ARG PRO PRO GLY MET GLU SEQRES 11 B 313 TYR SER TYR ASP ILE ASN ARG VAL PRO GLU GLU GLN MET SEQRES 12 B 313 THR PHE LYS ASP LEU VAL SER CYS THR TYR GLN LEU ALA SEQRES 13 B 313 ARG GLY MET GLU TYR LEU ALA SER GLN LYS CYS ILE HIS SEQRES 14 B 313 ARG ASP LEU ALA ALA ARG ASN VAL LEU VAL THR GLU ASN SEQRES 15 B 313 ASN VAL MET LYS ILE ALA ASP PHE GLY LEU ALA ARG ASP SEQRES 16 B 313 ILE ASN ASN ILE ASP TYR TYR LYS LYS THR THR ASN GLY SEQRES 17 B 313 ARG LEU PRO VAL LYS TRP MET ALA PRO GLU ALA LEU PHE SEQRES 18 B 313 ASP ARG VAL TYR THR HIS GLN SER ASP VAL TRP SER PHE SEQRES 19 B 313 GLY VAL LEU MET TRP GLU ILE PHE THR LEU GLY GLY SER SEQRES 20 B 313 PRO TYR PRO GLY ILE PRO VAL GLU GLU LEU PHE LYS LEU SEQRES 21 B 313 LEU LYS GLU GLY HIS ARG MET ASP LYS PRO ALA ASN CYS SEQRES 22 B 313 THR ASN GLU LEU TYR MET MET MET ARG ASP CYS TRP HIS SEQRES 23 B 313 ALA VAL PRO SER GLN ARG PRO THR PHE LYS GLN LEU VAL SEQRES 24 B 313 GLU ASP LEU ASP ARG ILE LEU THR LEU THR THR ASN GLU SEQRES 25 B 313 GLU MODRES 6LVK PTR A 561 TYR MODIFIED RESIDUE MODRES 6LVK PTR B 561 TYR MODIFIED RESIDUE HET PTR A 561 16 HET PTR B 561 16 HET EVC A 801 42 HET SO4 A 802 5 HET EVC B 801 42 HET SO4 B 802 5 HET SO4 B 803 5 HET SO4 B 804 5 HETNAM PTR O-PHOSPHOTYROSINE HETNAM EVC N-ETHYL-2-[[4-[[4-(4-METHYLPIPERAZIN-1-YL)-3-(2- HETNAM 2 EVC MORPHOLIN-4-YLETHOXY)PHENYL]AMINO]-1,3,5-TRIAZIN-2- HETNAM 3 EVC YL]AMINO]BENZENESULFONAMIDE HETNAM SO4 SULFATE ION HETSYN PTR PHOSPHONOTYROSINE FORMUL 1 PTR 2(C9 H12 N O6 P) FORMUL 3 EVC 2(C28 H39 N9 O4 S) FORMUL 4 SO4 4(O4 S 2-) FORMUL 9 HOH *122(H2 O) HELIX 1 AA1 PRO A 477 ASP A 479 5 3 HELIX 2 AA2 THR A 524 ILE A 541 1 18 HELIX 3 AA3 ASN A 571 ALA A 578 1 8 HELIX 4 AA4 THR A 599 GLN A 620 1 22 HELIX 5 AA5 ALA A 628 ARG A 630 5 3 HELIX 6 AA6 ASP A 644 ALA A 648 5 5 HELIX 7 AA7 PRO A 666 MET A 670 5 5 HELIX 8 AA8 ALA A 671 ASP A 677 1 7 HELIX 9 AA9 THR A 681 THR A 698 1 18 HELIX 10 AB1 PRO A 708 GLU A 718 1 11 HELIX 11 AB2 THR A 729 TRP A 740 1 12 HELIX 12 AB3 VAL A 743 ARG A 747 5 5 HELIX 13 AB4 THR A 749 ASN A 766 1 18 HELIX 14 AB5 PRO B 477 ASP B 479 5 3 HELIX 15 AB6 THR B 524 GLY B 542 1 19 HELIX 16 AB7 ASN B 571 ARG B 579 1 9 HELIX 17 AB8 THR B 599 GLN B 620 1 22 HELIX 18 AB9 ALA B 628 ARG B 630 5 3 HELIX 19 AC1 ASP B 644 ALA B 648 5 5 HELIX 20 AC2 PRO B 666 MET B 670 5 5 HELIX 21 AC3 ALA B 671 ASP B 677 1 7 HELIX 22 AC4 THR B 681 THR B 698 1 18 HELIX 23 AC5 PRO B 708 GLU B 718 1 11 HELIX 24 AC6 THR B 729 TRP B 740 1 12 HELIX 25 AC7 VAL B 743 ARG B 747 5 5 HELIX 26 AC8 THR B 749 THR B 765 1 17 SHEET 1 AA1 5 LEU A 481 GLU A 489 0 SHEET 2 AA1 5 GLN A 494 VAL A 501 -1 O VAL A 495 N LEU A 487 SHEET 3 AA1 5 ALA A 511 MET A 518 -1 O VAL A 516 N VAL A 496 SHEET 4 AA1 5 PTR A 561 GLU A 565 -1 O VAL A 564 N ALA A 515 SHEET 5 AA1 5 LEU A 550 CYS A 554 -1 N LEU A 551 O ILE A 563 SHEET 1 AA2 2 CYS A 622 ILE A 623 0 SHEET 2 AA2 2 ARG A 649 ASP A 650 -1 O ARG A 649 N ILE A 623 SHEET 1 AA3 2 VAL A 632 VAL A 634 0 SHEET 2 AA3 2 MET A 640 ILE A 642 -1 O LYS A 641 N LEU A 633 SHEET 1 AA4 5 LEU B 481 GLY B 490 0 SHEET 2 AA4 5 GLY B 493 VAL B 501 -1 O MET B 497 N GLY B 484 SHEET 3 AA4 5 ALA B 511 MET B 518 -1 O VAL B 516 N VAL B 496 SHEET 4 AA4 5 PTR B 561 GLU B 565 -1 O VAL B 562 N LYS B 517 SHEET 5 AA4 5 LEU B 550 CYS B 554 -1 N GLY B 552 O ILE B 563 SHEET 1 AA5 2 CYS B 622 ILE B 623 0 SHEET 2 AA5 2 ARG B 649 ASP B 650 -1 O ARG B 649 N ILE B 623 SHEET 1 AA6 2 VAL B 632 VAL B 634 0 SHEET 2 AA6 2 MET B 640 ILE B 642 -1 O LYS B 641 N LEU B 633 LINK C LEU A 560 N PTR A 561 1555 1555 1.25 LINK C PTR A 561 N VAL A 562 1555 1555 1.25 LINK C LEU B 560 N PTR B 561 1555 1555 1.34 LINK C PTR B 561 N VAL B 562 1555 1555 1.34 CISPEP 1 LYS A 505 ASP A 506 0 20.75 SITE 1 AC1 16 LYS A 485 LEU A 487 VAL A 495 ALA A 515 SITE 2 AC1 16 LYS A 517 GLU A 565 TYR A 566 ALA A 567 SITE 3 AC1 16 SER A 568 GLY A 570 GLU A 574 ARG A 630 SITE 4 AC1 16 LEU A 633 HOH A 912 HOH A 915 HOH A 921 SITE 1 AC2 4 ARG A 625 ARG A 649 THR A 660 ARG A 664 SITE 1 AC3 18 LYS B 485 LEU B 487 PHE B 492 ALA B 515 SITE 2 AC3 18 LYS B 517 GLU B 565 TYR B 566 ALA B 567 SITE 3 AC3 18 SER B 568 GLY B 570 GLU B 574 ARG B 630 SITE 4 AC3 18 ASN B 631 LEU B 633 ALA B 643 HOH B 911 SITE 5 AC3 18 HOH B 912 HOH B 934 SITE 1 AC4 7 ARG B 625 ARG B 649 ARG B 664 HOH B 901 SITE 2 AC4 7 HOH B 902 HOH B 903 HOH B 918 SITE 1 AC5 4 VAL A 743 PRO A 744 SER A 745 ARG B 737 SITE 1 AC6 4 THR B 635 GLU B 636 ASN B 637 VAL B 639 CRYST1 64.272 105.571 116.260 90.00 90.00 90.00 P 2 21 21 8 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 0.015559 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009472 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008601 0.00000