HEADER TRANSFERASE 30-SEP-09 3K2L TITLE CRYSTAL STRUCTURE OF DUAL-SPECIFICITY TYROSINE PHOSPHORYLATION TITLE 2 REGULATED KINASE 2 (DYRK2) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DUAL SPECIFICITY TYROSINE-PHOSPHORYLATION-REGULATED KINASE COMPND 3 2; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: UNP RESIDUES 146-552; COMPND 6 SYNONYM: DYRK2; COMPND 7 EC: 2.7.12.1; COMPND 8 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: DYRK2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-R3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS DYRK2, DUAL-SPECIFICITY TYROSINE-(Y)-PHOSPHORYLATION REGULATED KINASE KEYWDS 2 2, PSK-H2, KINASE, STRUCTURAL GENOMICS CONSORTIUM, SGC, APOPTOSIS, KEYWDS 3 ATP-BINDING, MAGNESIUM, MANGANESE, NUCLEOTIDE-BINDING, NUCLEUS, KEYWDS 4 PHOSPHOPROTEIN, SERINE/THREONINE-PROTEIN KINASE, TRANSFERASE, KEYWDS 5 TYROSINE-PROTEIN KINASE EXPDTA X-RAY DIFFRACTION AUTHOR P.FILIPPAKOPOULOS,V.MYRIANTHOPOULOS,M.SOUNDARARAJAN,T.KROJER,E.HAPKA, AUTHOR 2 O.FEDOROV,G.BERRIDGE,J.WANG,L.SHRESTHA,A.C.W.PIKE,E.UGOCHUKWU,F.VON AUTHOR 3 DELFT,C.H.ARROWSMITH,A.EDWARDS,J.WEIGELT,C.BOUNTRA,E.MIKROS,S.KNAPP, AUTHOR 4 STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 6 20-NOV-24 3K2L 1 REMARK REVDAT 5 22-NOV-23 3K2L 1 REMARK REVDAT 4 01-NOV-23 3K2L 1 REMARK SEQADV LINK REVDAT 3 26-JUN-13 3K2L 1 JRNL REVDAT 2 13-JUL-11 3K2L 1 VERSN REVDAT 1 13-OCT-09 3K2L 0 JRNL AUTH M.SOUNDARARAJAN,A.K.ROOS,P.SAVITSKY,P.FILIPPAKOPOULOS, JRNL AUTH 2 A.N.KETTENBACH,J.V.OLSEN,S.A.GERBER,J.ESWARAN,S.KNAPP, JRNL AUTH 3 J.M.ELKINS JRNL TITL STRUCTURES OF DOWN SYNDROME KINASES, DYRKS, REVEAL JRNL TITL 2 MECHANISMS OF KINASE ACTIVATION AND SUBSTRATE RECOGNITION. JRNL REF STRUCTURE V. 21 986 2013 JRNL REFN ISSN 0969-2126 JRNL PMID 23665168 JRNL DOI 10.1016/J.STR.2013.03.012 REMARK 2 REMARK 2 RESOLUTION. 2.36 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.36 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.54 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 22694 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) : 0.228 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1160 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) : 2.36 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.42 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1564 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.88 REMARK 3 BIN R VALUE (WORKING SET) : 0.4260 REMARK 3 BIN FREE R VALUE SET COUNT : 76 REMARK 3 BIN FREE R VALUE : 0.5540 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3143 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 13 REMARK 3 SOLVENT ATOMS : 58 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 63.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.53000 REMARK 3 B22 (A**2) : 1.53000 REMARK 3 B33 (A**2) : -3.05000 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): 0.331 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.268 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.218 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 20.305 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.907 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3241 ; 0.014 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2161 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4405 ; 1.602 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5251 ; 0.915 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 404 ; 6.918 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 145 ;34.874 ;23.448 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 514 ;16.034 ;15.088 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;20.908 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 476 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3611 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 666 ; 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): 2025 ; 4.196 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 822 ; 1.248 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3226 ; 6.116 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1216 ;10.724 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1179 ;12.453 ;11.000 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 : 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 62 A 230 REMARK 3 ORIGIN FOR THE GROUP (A): 48.0258 28.3075 23.9966 REMARK 3 T TENSOR REMARK 3 T11: 0.2636 T22: 0.0724 REMARK 3 T33: 0.1156 T12: -0.0404 REMARK 3 T13: -0.0727 T23: 0.0054 REMARK 3 L TENSOR REMARK 3 L11: 7.1617 L22: 1.5067 REMARK 3 L33: 2.6309 L12: -0.0996 REMARK 3 L13: 1.1521 L23: 0.1549 REMARK 3 S TENSOR REMARK 3 S11: -0.1766 S12: 0.5143 S13: -0.0670 REMARK 3 S21: -0.3973 S22: -0.0071 S23: -0.0172 REMARK 3 S31: -0.4128 S32: 0.3443 S33: 0.1837 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 231 A 470 REMARK 3 ORIGIN FOR THE GROUP (A): 13.0262 28.9314 12.9850 REMARK 3 T TENSOR REMARK 3 T11: 0.0842 T22: 0.1529 REMARK 3 T33: 0.0824 T12: 0.0885 REMARK 3 T13: -0.0537 T23: -0.0250 REMARK 3 L TENSOR REMARK 3 L11: 3.1105 L22: 1.8823 REMARK 3 L33: 5.7325 L12: -0.1791 REMARK 3 L13: 1.6526 L23: 0.0005 REMARK 3 S TENSOR REMARK 3 S11: -0.2698 S12: -0.0441 S13: 0.2816 REMARK 3 S21: -0.0622 S22: 0.0205 S23: 0.2726 REMARK 3 S31: -0.4299 S32: -0.7363 S33: 0.2493 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 U VALUES: RESIDUAL ONLY REMARK 4 REMARK 4 3K2L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000055466. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.9 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22801 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.360 REMARK 200 RESOLUTION RANGE LOW (A) : 42.190 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.08200 REMARK 200 R SYM (I) : 0.08200 REMARK 200 FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.36 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 REMARK 200 R MERGE FOR SHELL (I) : 0.89900 REMARK 200 R SYM FOR SHELL (I) : 0.89900 REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.4 REMARK 200 STARTING MODEL: PDB ENTRY 2VX3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.26M (NH4)2SO4, 0.20M LI2SO4, 0.1M REMARK 280 TRIS PH 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 21 2 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 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 0.000000 -1.000000 0.000000 42.14250 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 42.14250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 74.25250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 42.14250 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 42.14250 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 74.25250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 42.14250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 42.14250 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 74.25250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 42.14250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 42.14250 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 74.25250 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 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 50 REMARK 465 HIS A 51 REMARK 465 HIS A 52 REMARK 465 HIS A 53 REMARK 465 HIS A 54 REMARK 465 HIS A 55 REMARK 465 HIS A 56 REMARK 465 SER A 57 REMARK 465 SER A 58 REMARK 465 GLY A 59 REMARK 465 GLN A 71 REMARK 465 SER A 72 REMARK 465 GLY A 123 REMARK 465 THR A 471 REMARK 465 GLY A 472 REMARK 465 GLU A 473 REMARK 465 LYS A 474 REMARK 465 THR A 475 REMARK 465 SER A 476 REMARK 465 VAL A 477 REMARK 465 LYS A 478 REMARK 465 ARG A 479 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 VAL A 60 CG1 CG2 REMARK 470 MET A 73 CG SD CE REMARK 470 LYS A 77 CE NZ REMARK 470 LYS A 88 CG CD CE NZ REMARK 470 GLN A 92 CG CD OE1 NE2 REMARK 470 LYS A 93 CG CD CE NZ REMARK 470 LYS A 116 CD CE NZ REMARK 470 LYS A 117 CG CD CE NZ REMARK 470 ARG A 118 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 134 CD OE1 NE2 REMARK 470 SER A 136 OG REMARK 470 GLN A 139 CG CD OE1 NE2 REMARK 470 LYS A 153 CG CD CE NZ REMARK 470 LYS A 157 CG CD CE NZ REMARK 470 PHE A 160 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN A 162 CG CD OE1 NE2 REMARK 470 ARG A 181 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 182 CG OD1 ND2 REMARK 470 GLU A 183 CG CD OE1 OE2 REMARK 470 LYS A 184 CG CD CE NZ REMARK 470 ARG A 185 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 188 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 189 CD OE1 NE2 REMARK 470 ARG A 195 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 198 CG CD OE1 OE2 REMARK 470 LYS A 205 CG CD CE NZ REMARK 470 ASN A 222 CG OD1 ND2 REMARK 470 LYS A 241 CD CE NZ REMARK 470 LYS A 243 CE NZ REMARK 470 LYS A 268 CG CD CE NZ REMARK 470 GLN A 286 CD OE1 NE2 REMARK 470 GLN A 304 CG CD OE1 NE2 REMARK 470 LYS A 377 CD CE NZ REMARK 470 LYS A 380 CG CD CE NZ REMARK 470 VAL A 383 CG1 CG2 REMARK 470 LYS A 386 CG CD CE NZ REMARK 470 TYR A 388 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 SER A 398 OG REMARK 470 LYS A 428 CD CE NZ REMARK 470 ARG A 463 CD NE CZ NH1 NH2 REMARK 470 ARG A 464 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 465 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 468 CG CD 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 ARG A 148 -49.75 -140.57 REMARK 500 LEU A 231 -163.25 -108.48 REMARK 500 SER A 232 -152.15 -109.99 REMARK 500 CYS A 274 -1.73 75.91 REMARK 500 ASP A 275 39.82 -147.15 REMARK 500 ASP A 295 89.71 61.29 REMARK 500 GLU A 302 -37.66 -37.52 REMARK 500 TPO A 308 -51.50 -130.27 REMARK 500 GLN A 311 164.94 66.37 REMARK 500 ALA A 375 21.82 -72.97 REMARK 500 PRO A 469 -8.53 -51.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 480 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 285 N REMARK 620 2 GLN A 285 O 54.6 REMARK 620 3 ARG A 288 O 124.3 71.0 REMARK 620 4 GLY A 290 O 113.8 145.6 104.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 480 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 481 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 482 DBREF 3K2L A 73 479 UNP Q92630 DYRK2_HUMAN 146 552 SEQADV 3K2L MET A 50 UNP Q92630 INITIATING METHIONINE SEQADV 3K2L HIS A 51 UNP Q92630 EXPRESSION TAG SEQADV 3K2L HIS A 52 UNP Q92630 EXPRESSION TAG SEQADV 3K2L HIS A 53 UNP Q92630 EXPRESSION TAG SEQADV 3K2L HIS A 54 UNP Q92630 EXPRESSION TAG SEQADV 3K2L HIS A 55 UNP Q92630 EXPRESSION TAG SEQADV 3K2L HIS A 56 UNP Q92630 EXPRESSION TAG SEQADV 3K2L SER A 57 UNP Q92630 EXPRESSION TAG SEQADV 3K2L SER A 58 UNP Q92630 EXPRESSION TAG SEQADV 3K2L GLY A 59 UNP Q92630 EXPRESSION TAG SEQADV 3K2L VAL A 60 UNP Q92630 EXPRESSION TAG SEQADV 3K2L ASP A 61 UNP Q92630 EXPRESSION TAG SEQADV 3K2L LEU A 62 UNP Q92630 EXPRESSION TAG SEQADV 3K2L GLY A 63 UNP Q92630 EXPRESSION TAG SEQADV 3K2L THR A 64 UNP Q92630 EXPRESSION TAG SEQADV 3K2L GLU A 65 UNP Q92630 EXPRESSION TAG SEQADV 3K2L ASN A 66 UNP Q92630 EXPRESSION TAG SEQADV 3K2L LEU A 67 UNP Q92630 EXPRESSION TAG SEQADV 3K2L TYR A 68 UNP Q92630 EXPRESSION TAG SEQADV 3K2L PHE A 69 UNP Q92630 EXPRESSION TAG SEQADV 3K2L GLN A 71 UNP Q92630 EXPRESSION TAG SEQADV 3K2L SER A 72 UNP Q92630 EXPRESSION TAG SEQRES 1 A 429 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 429 GLY THR GLU ASN LEU TYR PHE GLN SER MET GLY LYS VAL SEQRES 3 A 429 LYS ALA THR PRO MET THR PRO GLU GLN ALA MET LYS GLN SEQRES 4 A 429 TYR MET GLN LYS LEU THR ALA PHE GLU HIS HIS GLU ILE SEQRES 5 A 429 PHE SER TYR PRO GLU ILE TYR PHE LEU GLY LEU ASN ALA SEQRES 6 A 429 LYS LYS ARG GLN GLY MET THR GLY GLY PRO ASN ASN GLY SEQRES 7 A 429 GLY TYR ASP ASP ASP GLN GLY SER TYR VAL GLN VAL PRO SEQRES 8 A 429 HIS ASP HIS VAL ALA TYR ARG TYR GLU VAL LEU LYS VAL SEQRES 9 A 429 ILE GLY LYS GLY SEP PHE GLY GLN VAL VAL LYS ALA TYR SEQRES 10 A 429 ASP HIS LYS VAL HIS GLN HIS VAL ALA LEU LYS MET VAL SEQRES 11 A 429 ARG ASN GLU LYS ARG PHE HIS ARG GLN ALA ALA GLU GLU SEQRES 12 A 429 ILE ARG ILE LEU GLU HIS LEU ARG LYS GLN ASP LYS ASP SEQRES 13 A 429 ASN THR MET ASN VAL ILE HIS MET LEU GLU ASN PHE THR SEQRES 14 A 429 PHE ARG ASN HIS ILE CYS MET THR PHE GLU LEU LEU SER SEQRES 15 A 429 MET ASN LEU TYR GLU LEU ILE LYS LYS ASN LYS PHE GLN SEQRES 16 A 429 GLY PHE SER LEU PRO LEU VAL ARG LYS PHE ALA HIS SER SEQRES 17 A 429 ILE LEU GLN CYS LEU ASP ALA LEU HIS LYS ASN ARG ILE SEQRES 18 A 429 ILE HIS CYS ASP LEU LYS PRO GLU ASN ILE LEU LEU LYS SEQRES 19 A 429 GLN GLN GLY ARG SER GLY ILE LYS VAL ILE ASP PHE GLY SEQRES 20 A 429 SER SER CYS TYR GLU HIS GLN ARG VAL TYR TPO PTR ILE SEQRES 21 A 429 GLN SER ARG PHE TYR ARG ALA PRO GLU VAL ILE LEU GLY SEQRES 22 A 429 ALA ARG TYR GLY MET PRO ILE ASP MET TRP SER LEU GLY SEQRES 23 A 429 CYS ILE LEU ALA GLU LEU LEU THR GLY TYR PRO LEU LEU SEQRES 24 A 429 PRO GLY GLU ASP GLU GLY ASP GLN LEU ALA CYS MET ILE SEQRES 25 A 429 GLU LEU LEU GLY MET PRO SEP GLN LYS LEU LEU ASP ALA SEQRES 26 A 429 SER LYS ARG ALA LYS ASN PHE VAL SER SEP LYS GLY TYR SEQRES 27 A 429 PRO ARG TYR CYS THR VAL THR THR LEU SER ASP GLY SER SEQRES 28 A 429 VAL VAL LEU ASN GLY GLY ARG SER ARG ARG GLY LYS LEU SEQRES 29 A 429 ARG GLY PRO PRO GLU SER ARG GLU TRP GLY ASN ALA LEU SEQRES 30 A 429 LYS GLY CYS ASP ASP PRO LEU PHE LEU ASP PHE LEU LYS SEQRES 31 A 429 GLN CYS LEU GLU TRP ASP PRO ALA VAL ARG MET THR PRO SEQRES 32 A 429 GLY GLN ALA LEU ARG HIS PRO TRP LEU ARG ARG ARG LEU SEQRES 33 A 429 PRO LYS PRO PRO THR GLY GLU LYS THR SER VAL LYS ARG MODRES 3K2L SEP A 159 SER PHOSPHOSERINE MODRES 3K2L TPO A 308 THR PHOSPHOTHREONINE MODRES 3K2L PTR A 309 TYR O-PHOSPHOTYROSINE MODRES 3K2L SEP A 369 SER PHOSPHOSERINE MODRES 3K2L SEP A 385 SER PHOSPHOSERINE HET SEP A 159 10 HET TPO A 308 11 HET PTR A 309 16 HET SEP A 369 10 HET SEP A 385 10 HET SO4 A 1 5 HET SO4 A 2 5 HET NA A 480 1 HET CL A 481 1 HET CL A 482 1 HETNAM SEP PHOSPHOSERINE HETNAM TPO PHOSPHOTHREONINE HETNAM PTR O-PHOSPHOTYROSINE HETNAM SO4 SULFATE ION HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETSYN SEP PHOSPHONOSERINE HETSYN TPO PHOSPHONOTHREONINE HETSYN PTR PHOSPHONOTYROSINE FORMUL 1 SEP 3(C3 H8 N O6 P) FORMUL 1 TPO C4 H10 N O6 P FORMUL 1 PTR C9 H12 N O6 P FORMUL 2 SO4 2(O4 S 2-) FORMUL 4 NA NA 1+ FORMUL 5 CL 2(CL 1-) FORMUL 7 HOH *58(H2 O) HELIX 1 1 ASP A 61 GLU A 65 5 5 HELIX 2 2 THR A 82 MET A 91 1 10 HELIX 3 3 GLN A 92 LEU A 94 5 3 HELIX 4 4 PHE A 97 ILE A 102 1 6 HELIX 5 5 PHE A 103 TYR A 105 5 3 HELIX 6 6 GLY A 124 TYR A 130 1 7 HELIX 7 7 GLU A 183 LYS A 202 1 20 HELIX 8 8 ASN A 234 ASN A 242 1 9 HELIX 9 9 SER A 248 ASN A 269 1 22 HELIX 10 10 LYS A 277 GLU A 279 5 3 HELIX 11 11 HIS A 303 ARG A 305 5 3 HELIX 12 12 SER A 312 ARG A 316 5 5 HELIX 13 13 ALA A 317 GLY A 323 1 7 HELIX 14 14 MET A 328 GLY A 345 1 18 HELIX 15 15 ASP A 353 GLY A 366 1 14 HELIX 16 16 SEP A 369 ALA A 375 1 7 HELIX 17 17 ARG A 378 VAL A 383 1 6 HELIX 18 18 GLU A 422 LEU A 427 1 6 HELIX 19 19 ASP A 432 LEU A 443 1 12 HELIX 20 20 THR A 452 ARG A 458 1 7 SHEET 1 A 2 ASN A 66 TYR A 68 0 SHEET 2 A 2 LYS A 77 THR A 79 -1 O LYS A 77 N TYR A 68 SHEET 1 B 6 HIS A 144 VAL A 145 0 SHEET 2 B 6 TYR A 149 LYS A 157 -1 O TYR A 149 N VAL A 145 SHEET 3 B 6 GLY A 161 ASP A 168 -1 O TYR A 167 N GLU A 150 SHEET 4 B 6 GLN A 173 VAL A 180 -1 O MET A 179 N GLN A 162 SHEET 5 B 6 HIS A 223 PHE A 228 -1 O MET A 226 N LYS A 178 SHEET 6 B 6 MET A 214 PHE A 220 -1 N LEU A 215 O THR A 227 SHEET 1 C 2 ILE A 271 ILE A 272 0 SHEET 2 C 2 CYS A 300 TYR A 301 -1 O CYS A 300 N ILE A 272 SHEET 1 D 2 ILE A 281 LEU A 283 0 SHEET 2 D 2 ILE A 291 VAL A 293 -1 O LYS A 292 N LEU A 282 SHEET 1 E 2 VAL A 394 THR A 396 0 SHEET 2 E 2 VAL A 402 LEU A 404 -1 O VAL A 403 N THR A 395 SHEET 1 F 2 GLY A 407 ARG A 408 0 SHEET 2 F 2 LEU A 414 ARG A 415 -1 O ARG A 415 N GLY A 407 LINK C GLY A 158 N SEP A 159 1555 1555 1.33 LINK C SEP A 159 N PHE A 160 1555 1555 1.34 LINK C TYR A 307 N TPO A 308 1555 1555 1.33 LINK C TPO A 308 N PTR A 309 1555 1555 1.33 LINK C PTR A 309 N ILE A 310 1555 1555 1.35 LINK C PRO A 368 N SEP A 369 1555 1555 1.34 LINK C SEP A 369 N GLN A 370 1555 1555 1.33 LINK C SER A 384 N SEP A 385 1555 1555 1.32 LINK C SEP A 385 N LYS A 386 1555 1555 1.34 LINK N GLN A 285 NA NA A 480 1555 1555 2.90 LINK O GLN A 285 NA NA A 480 1555 1555 3.01 LINK O ARG A 288 NA NA A 480 1555 1555 2.69 LINK O GLY A 290 NA NA A 480 1555 1555 2.49 CISPEP 1 SER A 398 ASP A 399 0 10.99 CISPEP 2 ASP A 399 GLY A 400 0 1.90 CISPEP 3 GLY A 400 SER A 401 0 -15.07 SITE 1 AC1 2 ARG A 378 ASN A 381 SITE 1 AC2 3 ARG A 421 ASN A 425 ALA A 426 SITE 1 AC3 4 LYS A 284 GLN A 285 ARG A 288 GLY A 290 SITE 1 AC4 1 HIS A 174 SITE 1 AC5 2 ARG A 411 LYS A 413 CRYST1 84.285 84.285 148.505 90.00 90.00 90.00 P 42 21 2 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 0.011865 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011865 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006734 0.00000