PDB Short entry for 3LXN HEADER TRANSFERASE 25-FEB-10 3LXN TITLE STRUCTURAL AND THERMODYNAMIC CHARACTERIZATION OF THE TYK2 AND JAK3 TITLE 2 KINASE DOMAINS IN COMPLEX WITH CP-690550 AND CMP-6 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NON-RECEPTOR TYROSINE-PROTEIN KINASE TYK2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN; COMPND 5 EC: 2.7.10.2; 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: TYK2; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SF21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS TYK2, JAK3, INFLAMMATION, CANCER, PAN INHIBITOR, ATP-BINDING, KINASE, KEYWDS 2 NUCLEOTIDE-BINDING, PHOSPHOPROTEIN, SH2 DOMAIN, TRANSFERASE, KEYWDS 3 TYROSINE-PROTEIN KINASE EXPDTA X-RAY DIFFRACTION AUTHOR J.E.CHRENCIK,T.E.BENSON REVDAT 5 22-NOV-23 3LXN 1 REMARK REVDAT 4 06-SEP-23 3LXN 1 REMARK REVDAT 3 13-OCT-21 3LXN 1 REMARK SEQADV LINK REVDAT 2 28-JUL-10 3LXN 1 JRNL REVDAT 1 02-JUN-10 3LXN 0 JRNL AUTH J.E.CHRENCIK,A.PATNY,I.K.LEUNG,B.KORNISKI,T.L.EMMONS,T.HALL, JRNL AUTH 2 R.A.WEINBERG,J.A.GORMLEY,J.M.WILLIAMS,J.E.DAY,J.L.HIRSCH, JRNL AUTH 3 J.R.KIEFER,J.W.LEONE,H.D.FISCHER,C.D.SOMMERS,H.C.HUANG, JRNL AUTH 4 E.J.JACOBSEN,R.E.TENBRINK,A.G.TOMASSELLI,T.E.BENSON JRNL TITL STRUCTURAL AND THERMODYNAMIC CHARACTERIZATION OF THE TYK2 JRNL TITL 2 AND JAK3 KINASE DOMAINS IN COMPLEX WITH CP-690550 AND CMP-6. JRNL REF J.MOL.BIOL. V. 400 413 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20478313 JRNL DOI 10.1016/J.JMB.2010.05.020 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.58 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 10002 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) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.286 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 502 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 711 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.07 REMARK 3 BIN R VALUE (WORKING SET) : 0.2670 REMARK 3 BIN FREE R VALUE SET COUNT : 31 REMARK 3 BIN FREE R VALUE : 0.3960 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2238 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 88 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.19000 REMARK 3 B22 (A**2) : -0.15000 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): 1.118 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.353 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.224 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.604 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.910 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.881 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2321 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1519 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3161 ; 1.405 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3697 ; 1.300 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 286 ; 9.547 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 96 ;38.183 ;23.229 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 355 ;18.891 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;20.479 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 346 ; 0.171 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2597 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 479 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 510 ; 0.208 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1553 ; 0.193 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1129 ; 0.192 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1186 ; 0.090 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 75 ; 0.146 ; 0.200 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): 9 ; 0.117 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 36 ; 0.220 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.187 ; 0.200 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): 1477 ; 0.626 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 580 ; 0.085 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2286 ; 1.081 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 988 ; 1.189 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 875 ; 1.870 ; 4.500 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3LXN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-MAR-10. REMARK 100 THE DEPOSITION ID IS D_1000057858. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10002 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 18.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 31.8700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.10200 REMARK 200 R SYM FOR SHELL (I) : 0.19000 REMARK 200 <I/SIGMA(I)> 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: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1YVJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% ETHANOL, 0.1 M TRIS, 0.3 M REMARK 280 MAGNESIUM CHLORIDE, PH 8.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 18.15300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.23000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.13100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.23000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.15300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.13100 REMARK 290 SMTRY3 4 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 MET A 865 REMARK 465 ALA A 866 REMARK 465 HIS A 867 REMARK 465 HIS A 868 REMARK 465 HIS A 869 REMARK 465 HIS A 870 REMARK 465 HIS A 871 REMARK 465 HIS A 872 REMARK 465 HIS A 873 REMARK 465 HIS A 874 REMARK 465 HIS A 875 REMARK 465 HIS A 876 REMARK 465 GLY A 877 REMARK 465 ALA A 878 REMARK 465 LEU A 879 REMARK 465 GLU A 880 REMARK 465 VAL A 881 REMARK 465 LEU A 882 REMARK 465 PHE A 883 REMARK 465 GLN A 884 REMARK 465 GLY A 885 REMARK 465 PRO A 886 REMARK 465 GLY A 887 REMARK 465 ARG A 1058 REMARK 465 GLU A 1059 REMARK 465 ASP A 1060 REMARK 465 GLN A 1179 REMARK 465 ALA A 1180 REMARK 465 PRO A 1181 REMARK 465 SER A 1182 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 ASP A 888 CG OD1 OD2 REMARK 470 LYS A 898 CG CD CE NZ REMARK 470 GLU A 905 OE1 OE2 REMARK 470 HIS A 907 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 910 CG CD CE NZ REMARK 470 THR A 923 OG1 CG2 REMARK 470 LYS A 933 CG CD CE NZ REMARK 470 ASP A 935 CG OD1 OD2 REMARK 470 GLN A 939 CG CD OE1 NE2 REMARK 470 HIS A 940 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 961 CE NZ REMARK 470 LYS A 963 NZ REMARK 470 GLU A 967 CG CD OE1 OE2 REMARK 470 ARG A 987 NE CZ NH1 NH2 REMARK 470 SER A 994 OG REMARK 470 GLN A 999 CG CD OE1 NE2 REMARK 470 ASP A1032 OD1 OD2 REMARK 470 ARG A1035 NE CZ NH1 NH2 REMARK 470 GLU A1050 CG CD OE1 OE2 REMARK 470 GLU A1053 CG CD OE1 OE2 REMARK 470 ARG A1056 CG CD NE CZ NH1 NH2 REMARK 470 ASP A1062 OD1 OD2 REMARK 470 LYS A1074 CE NZ REMARK 470 LYS A1077 CE NZ REMARK 470 GLN A1102 OE1 NE2 REMARK 470 ARG A1123 CZ NH1 NH2 REMARK 470 ASP A1138 CG OD1 OD2 REMARK 470 LYS A1170 CE NZ REMARK 470 LYS A1175 CE NZ 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 GLU A1153 CB GLU A1153 CG -0.158 REMARK 500 GLU A1153 CG GLU A1153 CD -0.091 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 HIS A 907 N - CA - CB ANGL. DEV. = 11.1 DEGREES REMARK 500 ASP A 921 N - CA - C ANGL. DEV. = 17.6 DEGREES REMARK 500 ASN A1033 CB - CA - C ANGL. DEV. = -12.2 DEGREES REMARK 500 ASP A1034 CB - CG - OD2 ANGL. DEV. = -8.8 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 PRO A 889 -71.27 -119.38 REMARK 500 HIS A 907 -78.59 -108.12 REMARK 500 LYS A 933 174.61 -56.59 REMARK 500 ILE A 960 131.11 -39.77 REMARK 500 SER A 994 98.20 -68.28 REMARK 500 HIS A1018 43.14 70.90 REMARK 500 ASP A1023 35.24 -154.89 REMARK 500 ASP A1034 -62.05 68.23 REMARK 500 GLU A1155 109.93 -53.29 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 888 PRO A 889 -45.47 REMARK 500 ALA A 969 GLY A 970 79.86 REMARK 500 ASN A 1033 ASP A 1034 118.80 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 MI1 A 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LXK RELATED DB: PDB REMARK 900 RELATED ID: 3LXL RELATED DB: PDB REMARK 900 RELATED ID: 3LXP RELATED DB: PDB REMARK 900 RELATED ID: 3FUP RELATED DB: PDB REMARK 900 RELATED ID: 3EYG RELATED DB: PDB REMARK 900 RELATED ID: 3EYH RELATED DB: PDB REMARK 900 RELATED ID: 2B7A RELATED DB: PDB REMARK 900 RELATED ID: 1YVJ RELATED DB: PDB DBREF 3LXN A 888 1182 UNP P29597 TYK2_HUMAN 888 1182 SEQADV 3LXN MET A 865 UNP P29597 EXPRESSION TAG SEQADV 3LXN ALA A 866 UNP P29597 EXPRESSION TAG SEQADV 3LXN HIS A 867 UNP P29597 EXPRESSION TAG SEQADV 3LXN HIS A 868 UNP P29597 EXPRESSION TAG SEQADV 3LXN HIS A 869 UNP P29597 EXPRESSION TAG SEQADV 3LXN HIS A 870 UNP P29597 EXPRESSION TAG SEQADV 3LXN HIS A 871 UNP P29597 EXPRESSION TAG SEQADV 3LXN HIS A 872 UNP P29597 EXPRESSION TAG SEQADV 3LXN HIS A 873 UNP P29597 EXPRESSION TAG SEQADV 3LXN HIS A 874 UNP P29597 EXPRESSION TAG SEQADV 3LXN HIS A 875 UNP P29597 EXPRESSION TAG SEQADV 3LXN HIS A 876 UNP P29597 EXPRESSION TAG SEQADV 3LXN GLY A 877 UNP P29597 EXPRESSION TAG SEQADV 3LXN ALA A 878 UNP P29597 EXPRESSION TAG SEQADV 3LXN LEU A 879 UNP P29597 EXPRESSION TAG SEQADV 3LXN GLU A 880 UNP P29597 EXPRESSION TAG SEQADV 3LXN VAL A 881 UNP P29597 EXPRESSION TAG SEQADV 3LXN LEU A 882 UNP P29597 EXPRESSION TAG SEQADV 3LXN PHE A 883 UNP P29597 EXPRESSION TAG SEQADV 3LXN GLN A 884 UNP P29597 EXPRESSION TAG SEQADV 3LXN GLY A 885 UNP P29597 EXPRESSION TAG SEQADV 3LXN PRO A 886 UNP P29597 EXPRESSION TAG SEQADV 3LXN GLY A 887 UNP P29597 EXPRESSION TAG SEQADV 3LXN ALA A 936 UNP P29597 CYS 936 ENGINEERED MUTATION SEQADV 3LXN ALA A 969 UNP P29597 GLN 969 ENGINEERED MUTATION SEQADV 3LXN ALA A 971 UNP P29597 GLU 971 ENGINEERED MUTATION SEQADV 3LXN ALA A 972 UNP P29597 LYS 972 ENGINEERED MUTATION SEQADV 3LXN ALA A 1142 UNP P29597 CYS 1142 ENGINEERED MUTATION SEQRES 1 A 318 MET ALA HIS HIS HIS HIS HIS HIS HIS HIS HIS HIS GLY SEQRES 2 A 318 ALA LEU GLU VAL LEU PHE GLN GLY PRO GLY ASP PRO THR SEQRES 3 A 318 VAL PHE HIS LYS ARG TYR LEU LYS LYS ILE ARG ASP LEU SEQRES 4 A 318 GLY GLU GLY HIS PHE GLY LYS VAL SER LEU TYR CYS TYR SEQRES 5 A 318 ASP PRO THR ASN ASP GLY THR GLY GLU MET VAL ALA VAL SEQRES 6 A 318 LYS ALA LEU LYS ALA ASP ALA GLY PRO GLN HIS ARG SER SEQRES 7 A 318 GLY TRP LYS GLN GLU ILE ASP ILE LEU ARG THR LEU TYR SEQRES 8 A 318 HIS GLU HIS ILE ILE LYS TYR LYS GLY CYS CYS GLU ASP SEQRES 9 A 318 ALA GLY ALA ALA SER LEU GLN LEU VAL MET GLU TYR VAL SEQRES 10 A 318 PRO LEU GLY SER LEU ARG ASP TYR LEU PRO ARG HIS SER SEQRES 11 A 318 ILE GLY LEU ALA GLN LEU LEU LEU PHE ALA GLN GLN ILE SEQRES 12 A 318 CYS GLU GLY MET ALA TYR LEU HIS ALA GLN HIS TYR ILE SEQRES 13 A 318 HIS ARG ASP LEU ALA ALA ARG ASN VAL LEU LEU ASP ASN SEQRES 14 A 318 ASP ARG LEU VAL LYS ILE GLY ASP PHE GLY LEU ALA LYS SEQRES 15 A 318 ALA VAL PRO GLU GLY HIS GLU PTR TYR ARG VAL ARG GLU SEQRES 16 A 318 ASP GLY ASP SER PRO VAL PHE TRP TYR ALA PRO GLU CYS SEQRES 17 A 318 LEU LYS GLU TYR LYS PHE TYR TYR ALA SER ASP VAL TRP SEQRES 18 A 318 SER PHE GLY VAL THR LEU TYR GLU LEU LEU THR HIS CYS SEQRES 19 A 318 ASP SER SER GLN SER PRO PRO THR LYS PHE LEU GLU LEU SEQRES 20 A 318 ILE GLY ILE ALA GLN GLY GLN MET THR VAL LEU ARG LEU SEQRES 21 A 318 THR GLU LEU LEU GLU ARG GLY GLU ARG LEU PRO ARG PRO SEQRES 22 A 318 ASP LYS CYS PRO ALA GLU VAL TYR HIS LEU MET LYS ASN SEQRES 23 A 318 CYS TRP GLU THR GLU ALA SER PHE ARG PRO THR PHE GLU SEQRES 24 A 318 ASN LEU ILE PRO ILE LEU LYS THR VAL HIS GLU LYS TYR SEQRES 25 A 318 GLN GLY GLN ALA PRO SER MODRES 3LXN PTR A 1054 TYR O-PHOSPHOTYROSINE HET PTR A1054 16 HET MI1 A 1 23 HETNAM PTR O-PHOSPHOTYROSINE HETNAM MI1 3-{(3R,4R)-4-METHYL-3-[METHYL(7H-PYRROLO[2,3- HETNAM 2 MI1 D]PYRIMIDIN-4-YL)AMINO]PIPERIDIN-1-YL}-3- HETNAM 3 MI1 OXOPROPANENITRILE HETSYN PTR PHOSPHONOTYROSINE HETSYN MI1 CP-690,550 FORMUL 1 PTR C9 H12 N O6 P FORMUL 2 MI1 C16 H20 N6 O FORMUL 3 HOH *88(H2 O) HELIX 1 1 HIS A 893 ARG A 895 5 3 HELIX 2 2 GLY A 937 LEU A 954 1 18 HELIX 3 3 SER A 985 LEU A 990 1 6 HELIX 4 4 PRO A 991 HIS A 993 5 3 HELIX 5 5 GLY A 996 GLN A 1017 1 22 HELIX 6 6 ALA A 1025 ARG A 1027 5 3 HELIX 7 7 PRO A 1064 TYR A 1068 5 5 HELIX 8 8 ALA A 1069 GLU A 1075 1 7 HELIX 9 9 TYR A 1080 THR A 1096 1 17 HELIX 10 10 ASP A 1099 GLN A 1102 5 4 HELIX 11 11 SER A 1103 GLY A 1113 1 11 HELIX 12 12 GLN A 1116 GLN A 1118 5 3 HELIX 13 13 MET A 1119 ARG A 1130 1 12 HELIX 14 14 PRO A 1141 TRP A 1152 1 12 HELIX 15 15 GLU A 1155 ARG A 1159 5 5 HELIX 16 16 THR A 1161 GLY A 1178 1 18 SHEET 1 A 6 THR A 890 VAL A 891 0 SHEET 2 A 6 TYR A 962 ASP A 968 1 O CYS A 965 N THR A 890 SHEET 3 A 6 SER A 973 GLU A 979 -1 O VAL A 977 N GLY A 964 SHEET 4 A 6 GLU A 925 LEU A 932 -1 N LYS A 930 O LEU A 976 SHEET 5 A 6 GLY A 909 TYR A 916 -1 N TYR A 916 O GLU A 925 SHEET 6 A 6 LEU A 897 GLU A 905 -1 N LYS A 898 O CYS A 915 SHEET 1 B 2 TYR A1019 ILE A1020 0 SHEET 2 B 2 LYS A1046 ALA A1047 -1 O LYS A1046 N ILE A1020 SHEET 1 C 2 VAL A1029 ASN A1033 0 SHEET 2 C 2 LEU A1036 ILE A1039 -1 O LYS A1038 N LEU A1030 SHEET 1 D 2 PTR A1054 ARG A1056 0 SHEET 2 D 2 LYS A1077 TYR A1079 -1 O PHE A1078 N TYR A1055 LINK C GLU A1053 N PTR A1054 1555 1555 1.33 LINK C PTR A1054 N TYR A1055 1555 1555 1.33 SITE 1 AC1 16 LEU A 903 GLY A 904 GLU A 905 GLY A 906 SITE 2 AC1 16 GLY A 909 VAL A 911 ALA A 928 LYS A 930 SITE 3 AC1 16 GLU A 979 TYR A 980 VAL A 981 ARG A1027 SITE 4 AC1 16 ASN A1028 LEU A1030 GLY A1040 ASP A1041 CRYST1 36.306 74.262 106.460 90.00 90.00 90.00 P 21 21 21 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 0.027544 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013466 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009393 0.00000