PDB Short entry for 2XKD HEADER TRANSFERASE 07-JUL-10 2XKD TITLE STRUCTURE OF NEK2 BOUND TO AMINOPYRAZINE COMPOUND 12 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE NEK2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 1-271; COMPND 5 SYNONYM: NEK2, NEVER IN MITOSIS A-RELATED KINASE 2, NIMA-RELATED COMPND 6 PROTEIN KINASE 2, NIMA-LIKE PROTEIN KINASE 1, HSPK 21; COMPND 7 EC: 2.7.11.1; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSFERASE, CENTROSOME, MITOSIS EXPDTA X-RAY DIFFRACTION AUTHOR C.MAS-DROUX,R.BAYLISS REVDAT 4 20-DEC-23 2XKD 1 REMARK REVDAT 3 25-MAY-11 2XKD 1 JRNL REMARK REVDAT 2 03-NOV-10 2XKD 1 TITLE REMARK REVDAT 1 27-OCT-10 2XKD 0 JRNL AUTH D.K.WHELLIGAN,S.SOLANKI,D.TAYLOR,D.W.THOMSON,K.M.CHEUNG, JRNL AUTH 2 K.BOXALL,C.MAS-DROUX,C.BARILLARI,S.BURNS,C.G.GRUMMITT, JRNL AUTH 3 I.COLLINS,R.L.VAN MONTFORT,G.W.AHERNE,R.BAYLISS,S.HOELDER JRNL TITL AMINOPYRAZINE INHIBITORS BINDING TO AN UNUSUAL INACTIVE JRNL TITL 2 CONFORMATION OF THE MITOTIC KINASE NEK2: SAR AND STRUCTURAL JRNL TITL 3 CHARACTERIZATION. JRNL REF J.MED.CHEM. V. 53 7682 2010 JRNL REFN ISSN 0022-2623 JRNL PMID 20936789 JRNL DOI 10.1021/JM1008727 REMARK 2 REMARK 2 RESOLUTION. 1.96 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.29 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.030 REMARK 3 COMPLETENESS FOR RANGE (%) : 85.5 REMARK 3 NUMBER OF REFLECTIONS : 20398 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1031 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 31.2931 - 3.7476 0.92 3048 167 0.1784 0.1997 REMARK 3 2 3.7476 - 2.9753 0.87 2810 155 0.1758 0.2068 REMARK 3 3 2.9753 - 2.5994 0.86 2780 153 0.1787 0.2334 REMARK 3 4 2.5994 - 2.3618 0.99 3200 173 0.1746 0.2101 REMARK 3 5 2.3618 - 2.1926 0.64 2069 102 0.1902 0.2140 REMARK 3 6 2.1926 - 2.0634 0.80 2570 125 0.1707 0.2012 REMARK 3 7 2.0634 - 1.9600 0.90 2890 156 0.1774 0.2354 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.35 REMARK 3 B_SOL : 45.76 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.690 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.13 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.87010 REMARK 3 B22 (A**2) : -5.48220 REMARK 3 B33 (A**2) : 10.35230 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 3.81890 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 2097 REMARK 3 ANGLE : 0.983 2833 REMARK 3 CHIRALITY : 0.067 309 REMARK 3 PLANARITY : 0.005 360 REMARK 3 DIHEDRAL : 18.370 785 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 3:63) REMARK 3 ORIGIN FOR THE GROUP (A): 29.0051 -0.6636 9.7474 REMARK 3 T TENSOR REMARK 3 T11: 0.1933 T22: 0.2724 REMARK 3 T33: 0.2091 T12: -0.0240 REMARK 3 T13: 0.0380 T23: 0.0788 REMARK 3 L TENSOR REMARK 3 L11: 1.6186 L22: 0.7593 REMARK 3 L33: 2.1005 L12: -0.4107 REMARK 3 L13: -1.1134 L23: -0.6219 REMARK 3 S TENSOR REMARK 3 S11: -0.0260 S12: 0.5062 S13: 0.3834 REMARK 3 S21: -0.1249 S22: -0.1045 S23: -0.3476 REMARK 3 S31: 0.2364 S32: -0.1733 S33: 0.1117 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 64:157) REMARK 3 ORIGIN FOR THE GROUP (A): 17.9254 -7.9652 19.9185 REMARK 3 T TENSOR REMARK 3 T11: 0.1067 T22: 0.1463 REMARK 3 T33: 0.1233 T12: -0.0168 REMARK 3 T13: -0.0006 T23: 0.0064 REMARK 3 L TENSOR REMARK 3 L11: 1.4676 L22: 0.5643 REMARK 3 L33: 0.4035 L12: 0.5356 REMARK 3 L13: 0.1629 L23: -0.0371 REMARK 3 S TENSOR REMARK 3 S11: -0.0712 S12: 0.1017 S13: 0.0500 REMARK 3 S21: -0.0115 S22: 0.0411 S23: -0.0488 REMARK 3 S31: -0.0182 S32: 0.1379 S33: 0.0403 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 158:279) REMARK 3 ORIGIN FOR THE GROUP (A): 6.1158 -21.0604 18.9292 REMARK 3 T TENSOR REMARK 3 T11: 0.1231 T22: 0.1148 REMARK 3 T33: 0.0943 T12: -0.0243 REMARK 3 T13: -0.0087 T23: -0.0017 REMARK 3 L TENSOR REMARK 3 L11: 0.5678 L22: 1.5728 REMARK 3 L33: 0.5575 L12: 0.2687 REMARK 3 L13: 0.0804 L23: -0.2420 REMARK 3 S TENSOR REMARK 3 S11: -0.0809 S12: 0.1016 S13: 0.0219 REMARK 3 S21: -0.0949 S22: 0.0858 S23: 0.0512 REMARK 3 S31: 0.0842 S32: 0.0461 S33: -0.0082 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN B AND RESID 1) REMARK 3 ORIGIN FOR THE GROUP (A): 25.5896 -8.6760 18.8651 REMARK 3 T TENSOR REMARK 3 T11: 0.2236 T22: 0.1485 REMARK 3 T33: 0.3100 T12: -0.0432 REMARK 3 T13: -0.0017 T23: 0.0157 REMARK 3 L TENSOR REMARK 3 L11: 2.0894 L22: 0.5082 REMARK 3 L33: 9.0086 L12: -0.2037 REMARK 3 L13: 1.4254 L23: 1.5062 REMARK 3 S TENSOR REMARK 3 S11: -0.0615 S12: 0.0378 S13: -0.4832 REMARK 3 S21: -0.1465 S22: 0.2565 S23: -0.1540 REMARK 3 S31: 0.8240 S32: -0.0019 S33: -0.1508 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2XKD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1290044551. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21360 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.960 REMARK 200 RESOLUTION RANGE LOW (A) : 49.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 6.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.6 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.96 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.23900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.400 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: PDB ENTRY 2WQO REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z 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 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 50.14000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.53000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 50.14000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 28.53000 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 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 1 REMARK 465 PRO A 2 REMARK 465 GLY A 17 REMARK 465 SER A 18 REMARK 465 TYR A 19 REMARK 465 ASP A 132 REMARK 465 GLY A 133 REMARK 465 GLY A 134 REMARK 465 HIS A 135 REMARK 465 THR A 136 REMARK 465 VAL A 137 REMARK 465 LEU A 138 REMARK 465 HIS A 139 REMARK 465 ARG A 140 REMARK 465 GLY A 161 REMARK 465 LEU A 162 REMARK 465 ALA A 163 REMARK 465 ARG A 164 REMARK 465 ILE A 165 REMARK 465 LEU A 166 REMARK 465 ASN A 167 REMARK 465 HIS A 168 REMARK 465 ASP A 169 REMARK 465 THR A 170 REMARK 465 SER A 171 REMARK 465 PHE A 172 REMARK 465 ALA A 173 REMARK 465 LYS A 174 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 GLU A 46 CG CD OE1 OE2 REMARK 470 LEU A 58 CG CD1 CD2 REMARK 470 ARG A 60 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 61 CG CD OE1 OE2 REMARK 470 ARG A 77 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 79 OD1 ND2 REMARK 470 LYS A 103 CG CD CE NZ REMARK 470 ARG A 105 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 130 NE CZ NH1 NH2 REMARK 470 ASP A 141 CG OD1 OD2 REMARK 470 THR A 175 OG1 CG2 REMARK 470 MET A 191 CG SD CE REMARK 470 TYR A 193 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 222 CG CD CE NZ REMARK 470 ARG A 229 NE CZ NH1 NH2 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 ASP A 159 77.20 42.92 REMARK 500 VAL A 177 -54.62 73.57 REMARK 500 ARG A 190 111.66 -162.50 REMARK 500 ASN A 194 111.57 -162.08 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 A2017 DISTANCE = 6.88 ANGSTROMS REMARK 525 HOH A2024 DISTANCE = 5.88 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE T3M A 1280 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1282 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2W5B RELATED DB: PDB REMARK 900 HUMAN NEK2 KINASE ATPGAMMAS-BOUND REMARK 900 RELATED ID: 2XKC RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO AMINOPYRAZINE COMPOUND 14 REMARK 900 RELATED ID: 2XNP RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO CCT244858 REMARK 900 RELATED ID: 2WQO RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO THE AMINOPYRIDINE CCT241950 REMARK 900 RELATED ID: 2JAV RELATED DB: PDB REMARK 900 HUMAN KINASE WITH PYRROLE-INDOLINONE LIGAND REMARK 900 RELATED ID: 2XKE RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO AMINIPYRAZINE COMPOUND 5 REMARK 900 RELATED ID: 2W5H RELATED DB: PDB REMARK 900 HUMAN NEK2 KINASE APO REMARK 900 RELATED ID: 2XK7 RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO AMINOPYRAZINE COMPOUND 23 REMARK 900 RELATED ID: 2XKF RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO AMINOPYRAZINE COMPOUND 2 REMARK 900 RELATED ID: 2XK8 RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO AMINOPYRAZINE COMPOUND 15 REMARK 900 RELATED ID: 2XNO RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO CCT243779 REMARK 900 RELATED ID: 2XK6 RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO AMINOPYRAZINE COMPOUND 36 REMARK 900 RELATED ID: 2XNN RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO CCT242430 REMARK 900 RELATED ID: 2XK4 RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO AMINOPYRAZINE COMPOUND 17 REMARK 900 RELATED ID: 2XK3 RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO AMINOPYRAZINE COMPOUND 35 REMARK 900 RELATED ID: 2XNM RELATED DB: PDB REMARK 900 STRUCTURE OF NEK2 BOUND TO CCT REMARK 900 RELATED ID: 2W5A RELATED DB: PDB REMARK 900 HUMAN NEK2 KINASE ADP-BOUND DBREF 2XKD A 1 271 UNP P51955 NEK2_HUMAN 1 271 SEQADV 2XKD LEU A 272 UNP P51955 EXPRESSION TAG SEQADV 2XKD GLU A 273 UNP P51955 EXPRESSION TAG SEQADV 2XKD HIS A 274 UNP P51955 EXPRESSION TAG SEQADV 2XKD HIS A 275 UNP P51955 EXPRESSION TAG SEQADV 2XKD HIS A 276 UNP P51955 EXPRESSION TAG SEQADV 2XKD HIS A 277 UNP P51955 EXPRESSION TAG SEQADV 2XKD HIS A 278 UNP P51955 EXPRESSION TAG SEQADV 2XKD HIS A 279 UNP P51955 EXPRESSION TAG SEQRES 1 A 279 MET PRO SER ARG ALA GLU ASP TYR GLU VAL LEU TYR THR SEQRES 2 A 279 ILE GLY THR GLY SER TYR GLY ARG CYS GLN LYS ILE ARG SEQRES 3 A 279 ARG LYS SER ASP GLY LYS ILE LEU VAL TRP LYS GLU LEU SEQRES 4 A 279 ASP TYR GLY SER MET THR GLU ALA GLU LYS GLN MET LEU SEQRES 5 A 279 VAL SER GLU VAL ASN LEU LEU ARG GLU LEU LYS HIS PRO SEQRES 6 A 279 ASN ILE VAL ARG TYR TYR ASP ARG ILE ILE ASP ARG THR SEQRES 7 A 279 ASN THR THR LEU TYR ILE VAL MET GLU TYR CYS GLU GLY SEQRES 8 A 279 GLY ASP LEU ALA SER VAL ILE THR LYS GLY THR LYS GLU SEQRES 9 A 279 ARG GLN TYR LEU ASP GLU GLU PHE VAL LEU ARG VAL MET SEQRES 10 A 279 THR GLN LEU THR LEU ALA LEU LYS GLU CYS HIS ARG ARG SEQRES 11 A 279 SER ASP GLY GLY HIS THR VAL LEU HIS ARG ASP LEU LYS SEQRES 12 A 279 PRO ALA ASN VAL PHE LEU ASP GLY LYS GLN ASN VAL LYS SEQRES 13 A 279 LEU GLY ASP PHE GLY LEU ALA ARG ILE LEU ASN HIS ASP SEQRES 14 A 279 THR SER PHE ALA LYS THR PHE VAL GLY THR PRO TYR TYR SEQRES 15 A 279 MET SER PRO GLU GLN MET ASN ARG MET SER TYR ASN GLU SEQRES 16 A 279 LYS SER ASP ILE TRP SER LEU GLY CYS LEU LEU TYR GLU SEQRES 17 A 279 LEU CYS ALA LEU MET PRO PRO PHE THR ALA PHE SER GLN SEQRES 18 A 279 LYS GLU LEU ALA GLY LYS ILE ARG GLU GLY LYS PHE ARG SEQRES 19 A 279 ARG ILE PRO TYR ARG TYR SER ASP GLU LEU ASN GLU ILE SEQRES 20 A 279 ILE THR ARG MET LEU ASN LEU LYS ASP TYR HIS ARG PRO SEQRES 21 A 279 SER VAL GLU GLU ILE LEU GLU ASN PRO LEU ILE LEU GLU SEQRES 22 A 279 HIS HIS HIS HIS HIS HIS HET T3M A1280 28 HET CL A1281 1 HET CL A1282 1 HET CL A1283 1 HETNAM T3M 4-[3-AMINO-6-(3,4,5-TRIMETHOXYPHENYL)PYRAZIN-2- HETNAM 2 T3M YL]BENZOIC ACID HETNAM CL CHLORIDE ION FORMUL 2 T3M C20 H19 N3 O5 FORMUL 3 CL 3(CL 1-) FORMUL 6 HOH *157(H2 O) HELIX 1 1 ARG A 4 GLU A 6 5 3 HELIX 2 2 THR A 45 LEU A 62 1 18 HELIX 3 3 LEU A 94 ARG A 105 1 12 HELIX 4 4 ASP A 109 SER A 131 1 23 HELIX 5 5 LYS A 143 ALA A 145 5 3 HELIX 6 6 SER A 184 ARG A 190 1 7 HELIX 7 7 ASN A 194 LEU A 212 1 19 HELIX 8 8 SER A 220 GLY A 231 1 12 HELIX 9 9 SER A 241 LEU A 252 1 12 HELIX 10 10 LYS A 255 ARG A 259 5 5 HELIX 11 11 SER A 261 GLU A 267 1 7 HELIX 12 12 LEU A 272 HIS A 276 5 5 SHEET 1 AA 5 TYR A 8 GLY A 15 0 SHEET 2 AA 5 ARG A 21 ARG A 27 -1 O CYS A 22 N ILE A 14 SHEET 3 AA 5 LYS A 32 ASP A 40 -1 O LYS A 32 N ARG A 27 SHEET 4 AA 5 THR A 81 GLU A 87 -1 O LEU A 82 N LEU A 39 SHEET 5 AA 5 TYR A 70 ASP A 76 -1 N TYR A 71 O VAL A 85 SHEET 1 AB 3 GLY A 92 ASP A 93 0 SHEET 2 AB 3 VAL A 147 LEU A 149 -1 N LEU A 149 O GLY A 92 SHEET 3 AB 3 VAL A 155 LEU A 157 -1 O LYS A 156 N PHE A 148 SITE 1 AC1 12 CYS A 22 LYS A 37 TYR A 70 MET A 86 SITE 2 AC1 12 GLU A 87 TYR A 88 CYS A 89 GLY A 92 SITE 3 AC1 12 SER A 96 PHE A 148 ASP A 159 HOH A2157 SITE 1 AC2 2 ASN A 154 HIS A 277 CRYST1 100.280 57.060 73.760 90.00 127.61 90.00 C 1 2 1 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 0.009972 0.000000 0.007682 0.00000 SCALE2 0.000000 0.017525 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017114 0.00000