HEADER TRANSFERASE/TRANSFERASE INHIBITOR 20-JUL-21 7RJ8 TITLE CRYSTAL STRUCTURE OF AP2 ASSOCIATED KINASE 1 ISOFORM 1 COMPLEXED WITH TITLE 2 LIGAND (2R)-2-AMINO-N-[3-(DIFLUOROM ETHOXY)-4-(1,3-OXAZOL-5-YL) TITLE 3 PHENYL]-4-METHYLPENTANAMIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: AP2-ASSOCIATED PROTEIN KINASE 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ADAPTOR-ASSOCIATED KINASE 1; COMPND 5 EC: 2.7.11.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: AAK1, KIAA1048; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS KINASE, AAK1, LIGAND, TRANSFERASE, TRANSFERASE-TRANSFERASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.POKROSS,J.MUCKELBAUER REVDAT 3 03-APR-24 7RJ8 1 REMARK REVDAT 2 23-MAR-22 7RJ8 1 JRNL REVDAT 1 23-FEB-22 7RJ8 0 JRNL AUTH R.A.HARTZ,V.T.AHUJA,S.J.NARA,C.M.V.KUMAR, JRNL AUTH 2 R.K.V.L.P.MANEPALLI,S.K.SARVASIDDHI,S.HONKHAMBE,V.PATANKAR, JRNL AUTH 3 B.DASGUPTA,R.RAJAMANI,J.K.MUCKELBAUER,D.M.CAMAC,K.GHOSH, JRNL AUTH 4 M.POKROSS,S.E.KIEFER,J.M.BROWN,L.HUNIHAN,M.GULIANELLO, JRNL AUTH 5 M.LEWIS,J.S.LIPPY,N.SURTI,B.D.HAMMAN,J.ALLEN,W.A.KOSTICH, JRNL AUTH 6 J.J.BRONSON,J.E.MACOR,C.D.DZIERBA JRNL TITL BICYCLIC HETEROCYCLIC REPLACEMENT OF AN ARYL AMIDE LEADING JRNL TITL 2 TO POTENT AND KINASE-SELECTIVE ADAPTOR PROTEIN 2-ASSOCIATED JRNL TITL 3 KINASE 1 INHIBITORS. JRNL REF J.MED.CHEM. V. 65 4121 2022 JRNL REFN ISSN 0022-2623 JRNL PMID 35171586 JRNL DOI 10.1021/ACS.JMEDCHEM.1C01966 REMARK 2 REMARK 2 RESOLUTION. 2.59 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.11.7 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.28 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 29007 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.940 REMARK 3 FREE R VALUE TEST SET COUNT : 1434 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 15 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.59 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.68 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.99 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2766 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2171 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2631 REMARK 3 BIN R VALUE (WORKING SET) : 0.2123 REMARK 3 BIN FREE R VALUE : 0.3105 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.88 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 135 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4572 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 122 REMARK 3 SOLVENT ATOMS : 283 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 68.77 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.27 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.33670 REMARK 3 B22 (A**2) : -0.33670 REMARK 3 B33 (A**2) : 0.67340 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.293 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.411 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.244 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.362 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.237 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.902 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4890 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 6732 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1629 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 117 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 752 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4890 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 627 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 5700 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.24 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.97 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 18.61 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7RJ8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JUL-21. REMARK 100 THE DEPOSITION ID IS D_1000258352. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100.000 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : KIRKPATRICK-BAEZ MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.3.5 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29229 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.590 REMARK 200 RESOLUTION RANGE LOW (A) : 48.280 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.50 REMARK 200 R MERGE (I) : 0.09400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.59 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.00 REMARK 200 R MERGE FOR SHELL (I) : 0.32100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 7.100 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: IN HOUSE MODEL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.9 M AMMONIUM SULFATE, 0.14 M SODIUM REMARK 280 CHLORIDE, 0.1 M BIS-TRIS PH 5.5, AND 1% PEG 3350, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 158.38000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 37.28500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 37.28500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 79.19000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 37.28500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 37.28500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 237.57000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 37.28500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 37.28500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 79.19000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 37.28500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 37.28500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 237.57000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 158.38000 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 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 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 MET A 13 REMARK 465 HIS A 14 REMARK 465 HIS A 15 REMARK 465 HIS A 16 REMARK 465 HIS A 17 REMARK 465 HIS A 18 REMARK 465 HIS A 19 REMARK 465 LEU A 20 REMARK 465 VAL A 21 REMARK 465 PRO A 22 REMARK 465 ARG A 23 REMARK 465 GLY A 24 REMARK 465 SER A 25 REMARK 465 SER A 26 REMARK 465 SER A 27 REMARK 465 SER A 28 REMARK 465 GLY A 29 REMARK 465 LEU A 30 REMARK 465 GLY A 31 REMARK 465 SER A 32 REMARK 465 PRO A 330 REMARK 465 MET B 13 REMARK 465 HIS B 14 REMARK 465 HIS B 15 REMARK 465 HIS B 16 REMARK 465 HIS B 17 REMARK 465 HIS B 18 REMARK 465 HIS B 19 REMARK 465 LEU B 20 REMARK 465 VAL B 21 REMARK 465 PRO B 22 REMARK 465 ARG B 23 REMARK 465 GLY B 24 REMARK 465 SER B 25 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 PHE A 57 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASN A 67 CG OD1 ND2 REMARK 470 ASN A 79 CG OD1 ND2 REMARK 470 ARG A 95 CZ NH1 NH2 REMARK 470 LYS A 101 CG CD CE NZ REMARK 470 ARG A 130 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 136 CG OD1 ND2 REMARK 470 LEU A 137 CD1 CD2 REMARK 470 GLN A 140 CD OE1 NE2 REMARK 470 LEU A 142 CD1 CD2 REMARK 470 GLN A 143 CG CD OE1 NE2 REMARK 470 THR A 144 OG1 CG2 REMARK 470 LYS A 169 CG CD CE NZ REMARK 470 ARG A 187 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 201 CD CE NZ REMARK 470 ASP A 278 CG OD1 OD2 REMARK 470 ASN A 279 OD1 ND2 REMARK 470 ARG A 281 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 284 CG CD OE1 NE2 REMARK 470 LYS A 300 CE NZ REMARK 470 LYS A 313 CE NZ REMARK 470 LYS A 316 CD CE NZ REMARK 470 LYS A 317 CD CE NZ REMARK 470 GLU A 318 CG CD OE1 OE2 REMARK 470 ILE A 329 CG1 CG2 CD1 REMARK 470 ARG B 37 CG CD NE CZ NH1 NH2 REMARK 470 ILE B 41 CG1 CG2 CD1 REMARK 470 ARG B 43 CD NE CZ NH1 NH2 REMARK 470 GLN B 45 CD OE1 NE2 REMARK 470 SER B 66 OG REMARK 470 ASN B 67 CG OD1 ND2 REMARK 470 VAL B 69 CG1 CG2 REMARK 470 LYS B 70 CE NZ REMARK 470 ARG B 89 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 95 CZ NH1 NH2 REMARK 470 ARG B 130 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 142 CG CD1 CD2 REMARK 470 GLN B 143 CG CD OE1 NE2 REMARK 470 GLN B 153 CD OE1 NE2 REMARK 470 ARG B 164 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 169 CG CD CE NZ REMARK 470 LEU B 184 CG CD1 CD2 REMARK 470 ARG B 187 CG CD NE CZ NH1 NH2 REMARK 470 HIS B 189 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 201 CG CD CE NZ REMARK 470 LYS B 219 CD CE NZ REMARK 470 SER B 273 OG REMARK 470 ASP B 278 CG OD1 OD2 REMARK 470 ASN B 279 CG OD1 ND2 REMARK 470 ARG B 281 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 291 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 313 CD CE NZ REMARK 470 LYS B 316 CD CE NZ REMARK 470 LYS B 317 CD CE NZ REMARK 470 GLU B 318 CG CD OE1 OE2 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 ASN A 200 C - N - CA ANGL. DEV. = 17.6 DEGREES REMARK 500 ARG B 187 C - N - CA ANGL. DEV. = 15.7 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 LEU A 97 43.27 -97.25 REMARK 500 ARG A 175 -0.51 66.63 REMARK 500 ASP A 176 50.44 -143.10 REMARK 500 HIS A 185 -71.88 -86.84 REMARK 500 ASP A 186 -96.82 -83.53 REMARK 500 ARG A 187 103.02 -178.80 REMARK 500 ASP A 194 101.65 53.42 REMARK 500 ASN A 200 -77.29 102.06 REMARK 500 THR A 240 -165.60 -116.78 REMARK 500 SER B 27 -55.58 75.10 REMARK 500 LEU B 97 52.48 -98.77 REMARK 500 SER B 98 -128.01 28.11 REMARK 500 ILE B 107 -61.42 -121.47 REMARK 500 ASP B 176 50.79 -144.77 REMARK 500 ASP B 186 -74.13 157.79 REMARK 500 ARG B 187 82.77 51.84 REMARK 500 HIS B 189 -148.93 -140.09 REMARK 500 ASP B 194 102.41 58.59 REMARK 500 THR B 240 -166.29 -115.68 REMARK 500 SER B 280 -169.05 52.84 REMARK 500 ARG B 281 -164.53 -72.45 REMARK 500 TYR B 282 138.96 70.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 664 DISTANCE = 6.68 ANGSTROMS REMARK 525 HOH A 665 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH A 666 DISTANCE = 7.01 ANGSTROMS REMARK 525 HOH A 667 DISTANCE = 7.04 ANGSTROMS REMARK 525 HOH A 668 DISTANCE = 9.11 ANGSTROMS REMARK 525 HOH A 669 DISTANCE = 9.78 ANGSTROMS REMARK 525 HOH A 670 DISTANCE = 10.08 ANGSTROMS REMARK 525 HOH A 671 DISTANCE = 12.67 ANGSTROMS REMARK 525 HOH A 672 DISTANCE = 13.73 ANGSTROMS REMARK 525 HOH A 673 DISTANCE = 13.91 ANGSTROMS REMARK 525 HOH A 674 DISTANCE = 17.41 ANGSTROMS REMARK 525 HOH B 606 DISTANCE = 6.47 ANGSTROMS REMARK 525 HOH B 607 DISTANCE = 6.54 ANGSTROMS REMARK 525 HOH B 608 DISTANCE = 7.40 ANGSTROMS REMARK 525 HOH B 609 DISTANCE = 9.07 ANGSTROMS DBREF 7RJ8 A 26 330 UNP Q3UHJ0 AAK1_MOUSE 26 330 DBREF 7RJ8 B 26 330 UNP Q3UHJ0 AAK1_MOUSE 26 330 SEQADV 7RJ8 MET A 13 UNP Q3UHJ0 INITIATING METHIONINE SEQADV 7RJ8 HIS A 14 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 HIS A 15 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 HIS A 16 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 HIS A 17 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 HIS A 18 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 HIS A 19 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 LEU A 20 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 VAL A 21 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 PRO A 22 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 ARG A 23 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 GLY A 24 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 SER A 25 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 MET B 13 UNP Q3UHJ0 INITIATING METHIONINE SEQADV 7RJ8 HIS B 14 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 HIS B 15 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 HIS B 16 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 HIS B 17 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 HIS B 18 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 HIS B 19 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 LEU B 20 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 VAL B 21 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 PRO B 22 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 ARG B 23 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 GLY B 24 UNP Q3UHJ0 EXPRESSION TAG SEQADV 7RJ8 SER B 25 UNP Q3UHJ0 EXPRESSION TAG SEQRES 1 A 318 MET HIS HIS HIS HIS HIS HIS LEU VAL PRO ARG GLY SER SEQRES 2 A 318 SER SER SER GLY LEU GLY SER GLY TYR ILE GLY ARG VAL SEQRES 3 A 318 PHE GLY ILE GLY ARG GLN GLN VAL THR VAL ASP GLU VAL SEQRES 4 A 318 LEU ALA GLU GLY GLY PHE ALA LEU VAL PHE LEU VAL ARG SEQRES 5 A 318 THR SER ASN GLY VAL LYS CYS ALA LEU LYS ARG MET PHE SEQRES 6 A 318 VAL ASN ASN GLU HIS ASP LEU GLN VAL CYS LYS ARG GLU SEQRES 7 A 318 ILE GLN ILE MET ARG ASP LEU SER GLY HIS LYS ASN ILE SEQRES 8 A 318 VAL GLY TYR ILE ASP SER SER ILE ASN ASN VAL SER SER SEQRES 9 A 318 GLY ASP VAL TRP GLU VAL LEU ILE LEU MET ASP PHE CYS SEQRES 10 A 318 ARG GLY GLY GLN VAL VAL ASN LEU MET ASN GLN ARG LEU SEQRES 11 A 318 GLN THR GLY PHE THR GLU ASN GLU VAL LEU GLN ILE PHE SEQRES 12 A 318 CYS ASP THR CYS GLU ALA VAL ALA ARG LEU HIS GLN CYS SEQRES 13 A 318 LYS THR PRO ILE ILE HIS ARG ASP LEU LYS VAL GLU ASN SEQRES 14 A 318 ILE LEU LEU HIS ASP ARG GLY HIS TYR VAL LEU CYS ASP SEQRES 15 A 318 PHE GLY SER ALA THR ASN LYS PHE GLN ASN PRO GLN ALA SEQRES 16 A 318 GLU GLY VAL ASN ALA VAL GLU ASP GLU ILE LYS LYS TYR SEQRES 17 A 318 THR THR LEU SER TYR ARG ALA PRO GLU MET VAL ASN LEU SEQRES 18 A 318 TYR SER GLY LYS ILE ILE THR THR LYS ALA ASP ILE TRP SEQRES 19 A 318 ALA LEU GLY CYS LEU LEU TYR LYS LEU CYS TYR PHE THR SEQRES 20 A 318 LEU PRO PHE GLY GLU SER GLN VAL ALA ILE CYS ASP GLY SEQRES 21 A 318 SER PHE THR ILE PRO ASP ASN SER ARG TYR SER GLN ASP SEQRES 22 A 318 MET HIS CYS LEU ILE ARG TYR MET LEU GLU PRO ASP PRO SEQRES 23 A 318 ASP LYS ARG PRO ASP ILE TYR GLN VAL SER TYR PHE SER SEQRES 24 A 318 PHE LYS LEU LEU LYS LYS GLU CYS PRO VAL PRO ASN VAL SEQRES 25 A 318 GLN ASN SER PRO ILE PRO SEQRES 1 B 318 MET HIS HIS HIS HIS HIS HIS LEU VAL PRO ARG GLY SER SEQRES 2 B 318 SER SER SER GLY LEU GLY SER GLY TYR ILE GLY ARG VAL SEQRES 3 B 318 PHE GLY ILE GLY ARG GLN GLN VAL THR VAL ASP GLU VAL SEQRES 4 B 318 LEU ALA GLU GLY GLY PHE ALA LEU VAL PHE LEU VAL ARG SEQRES 5 B 318 THR SER ASN GLY VAL LYS CYS ALA LEU LYS ARG MET PHE SEQRES 6 B 318 VAL ASN ASN GLU HIS ASP LEU GLN VAL CYS LYS ARG GLU SEQRES 7 B 318 ILE GLN ILE MET ARG ASP LEU SER GLY HIS LYS ASN ILE SEQRES 8 B 318 VAL GLY TYR ILE ASP SER SER ILE ASN ASN VAL SER SER SEQRES 9 B 318 GLY ASP VAL TRP GLU VAL LEU ILE LEU MET ASP PHE CYS SEQRES 10 B 318 ARG GLY GLY GLN VAL VAL ASN LEU MET ASN GLN ARG LEU SEQRES 11 B 318 GLN THR GLY PHE THR GLU ASN GLU VAL LEU GLN ILE PHE SEQRES 12 B 318 CYS ASP THR CYS GLU ALA VAL ALA ARG LEU HIS GLN CYS SEQRES 13 B 318 LYS THR PRO ILE ILE HIS ARG ASP LEU LYS VAL GLU ASN SEQRES 14 B 318 ILE LEU LEU HIS ASP ARG GLY HIS TYR VAL LEU CYS ASP SEQRES 15 B 318 PHE GLY SER ALA THR ASN LYS PHE GLN ASN PRO GLN ALA SEQRES 16 B 318 GLU GLY VAL ASN ALA VAL GLU ASP GLU ILE LYS LYS TYR SEQRES 17 B 318 THR THR LEU SER TYR ARG ALA PRO GLU MET VAL ASN LEU SEQRES 18 B 318 TYR SER GLY LYS ILE ILE THR THR LYS ALA ASP ILE TRP SEQRES 19 B 318 ALA LEU GLY CYS LEU LEU TYR LYS LEU CYS TYR PHE THR SEQRES 20 B 318 LEU PRO PHE GLY GLU SER GLN VAL ALA ILE CYS ASP GLY SEQRES 21 B 318 SER PHE THR ILE PRO ASP ASN SER ARG TYR SER GLN ASP SEQRES 22 B 318 MET HIS CYS LEU ILE ARG TYR MET LEU GLU PRO ASP PRO SEQRES 23 B 318 ASP LYS ARG PRO ASP ILE TYR GLN VAL SER TYR PHE SER SEQRES 24 B 318 PHE LYS LEU LEU LYS LYS GLU CYS PRO VAL PRO ASN VAL SEQRES 25 B 318 GLN ASN SER PRO ILE PRO HET 5QI A 401 43 HET PG6 A 402 44 HET SO4 A 403 5 HET SO4 A 404 5 HET SO4 A 405 5 HET YFV B 401 60 HET PG6 B 402 44 HET SO4 B 403 5 HET SO4 B 404 5 HET SO4 B 405 5 HETNAM 5QI N-[3-(DIFLUOROMETHOXY)-4-(1,3-OXAZOL-5-YL)PHENYL]-D- HETNAM 2 5QI LEUCINAMIDE HETNAM PG6 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]- HETNAM 2 PG6 ETHOXY}-ETHANE HETNAM SO4 SULFATE ION HETNAM YFV 5-[(4-AMINOPIPERIDIN-1-YL)METHYL]-N-{3-[5-(PROPAN-2- HETNAM 2 YFV YL)-1,3,4-THIADIAZOL-2-YL]PHENYL}PYRROLO[2,1-F][1,2, HETNAM 3 YFV 4]TRIAZIN-4-AMINE FORMUL 3 5QI C16 H19 F2 N3 O3 FORMUL 4 PG6 2(C12 H26 O6) FORMUL 5 SO4 6(O4 S 2-) FORMUL 8 YFV C23 H28 N8 S FORMUL 13 HOH *283(H2 O) HELIX 1 AA1 ASN A 80 LEU A 97 1 18 HELIX 2 AA2 VAL A 134 ARG A 141 1 8 HELIX 3 AA3 THR A 147 GLN A 167 1 21 HELIX 4 AA4 LYS A 178 GLU A 180 5 3 HELIX 5 AA5 ASN A 204 GLY A 209 1 6 HELIX 6 AA6 GLY A 209 THR A 221 1 13 HELIX 7 AA7 THR A 222 ARG A 226 5 5 HELIX 8 AA8 ALA A 227 ASN A 232 1 6 HELIX 9 AA9 THR A 241 PHE A 258 1 18 HELIX 10 AB1 SER A 265 GLY A 272 1 8 HELIX 11 AB2 SER A 283 LEU A 294 1 12 HELIX 12 AB3 ASP A 303 LYS A 316 1 14 HELIX 13 AB4 LEU B 30 TYR B 34 5 5 HELIX 14 AB5 ASN B 80 LEU B 97 1 18 HELIX 15 AB6 VAL B 134 ARG B 141 1 8 HELIX 16 AB7 THR B 147 GLN B 167 1 21 HELIX 17 AB8 LYS B 178 GLU B 180 5 3 HELIX 18 AB9 ASN B 204 GLY B 209 1 6 HELIX 19 AC1 GLY B 209 THR B 221 1 13 HELIX 20 AC2 THR B 222 ARG B 226 5 5 HELIX 21 AC3 ALA B 227 ASN B 232 1 6 HELIX 22 AC4 THR B 241 PHE B 258 1 18 HELIX 23 AC5 SER B 265 GLY B 272 1 8 HELIX 24 AC6 SER B 283 LEU B 294 1 12 HELIX 25 AC7 ASP B 303 LYS B 316 1 14 SHEET 1 AA1 8 TYR A 106 SER A 115 0 SHEET 2 AA1 8 VAL A 119 ASP A 127 -1 O LEU A 125 N ASP A 108 SHEET 3 AA1 8 LYS A 70 VAL A 78 -1 N ALA A 72 O MET A 126 SHEET 4 AA1 8 ALA A 58 ARG A 64 -1 N PHE A 61 O LEU A 73 SHEET 5 AA1 8 GLN A 44 GLY A 55 -1 N LEU A 52 O VAL A 60 SHEET 6 AA1 8 VAL A 38 ILE A 41 -1 N ILE A 41 O GLN A 44 SHEET 7 AA1 8 VAL B 46 GLY B 55 1 O GLU B 54 N VAL A 38 SHEET 8 AA1 8 VAL B 38 PHE B 39 -1 N PHE B 39 O VAL B 46 SHEET 1 AA211 TYR A 106 SER A 115 0 SHEET 2 AA211 VAL A 119 ASP A 127 -1 O LEU A 125 N ASP A 108 SHEET 3 AA211 LYS A 70 VAL A 78 -1 N ALA A 72 O MET A 126 SHEET 4 AA211 ALA A 58 ARG A 64 -1 N PHE A 61 O LEU A 73 SHEET 5 AA211 GLN A 44 GLY A 55 -1 N LEU A 52 O VAL A 60 SHEET 6 AA211 VAL A 38 ILE A 41 -1 N ILE A 41 O GLN A 44 SHEET 7 AA211 VAL B 46 GLY B 55 1 O GLU B 54 N VAL A 38 SHEET 8 AA211 ALA B 58 THR B 65 -1 O VAL B 60 N LEU B 52 SHEET 9 AA211 LYS B 70 VAL B 78 -1 O ARG B 75 N LEU B 59 SHEET 10 AA211 TRP B 120 ASP B 127 -1 O MET B 126 N ALA B 72 SHEET 11 AA211 TYR B 106 ASN B 113 -1 N ASP B 108 O LEU B 125 SHEET 1 AA3 3 GLY A 132 GLN A 133 0 SHEET 2 AA3 3 ILE A 182 LEU A 184 -1 O LEU A 184 N GLY A 132 SHEET 3 AA3 3 TYR A 190 LEU A 192 -1 O VAL A 191 N LEU A 183 SHEET 1 AA4 3 GLY B 132 GLN B 133 0 SHEET 2 AA4 3 ILE B 182 LEU B 184 -1 O LEU B 184 N GLY B 132 SHEET 3 AA4 3 TYR B 190 LEU B 192 -1 O VAL B 191 N LEU B 183 CISPEP 1 SER A 98 GLY A 99 0 3.41 CISPEP 2 THR A 199 ASN A 200 0 8.32 CISPEP 3 SER B 26 SER B 27 0 6.00 CISPEP 4 ILE B 35 GLY B 36 0 -6.07 CISPEP 5 SER B 98 GLY B 99 0 -7.85 CISPEP 6 ASP B 186 ARG B 187 0 -2.66 CISPEP 7 ARG B 187 GLY B 188 0 -4.25 CISPEP 8 ASP B 278 ASN B 279 0 -0.58 CISPEP 9 ILE B 329 PRO B 330 0 0.63 CRYST1 74.570 74.570 316.760 90.00 90.00 90.00 P 41 21 2 16 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 0.013410 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013410 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003157 0.00000