HEADER TRANSFERASE 01-AUG-16 5LMK TITLE STRUCTURE OF PHOPSHO-CDK2-CYCLIN A IN COMPLEX WITH AN ATP-COMPETITIVE TITLE 2 INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLIN-DEPENDENT KINASE 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CELL DIVISION PROTEIN KINASE 2,P33 PROTEIN KINASE; COMPND 5 EC: 2.7.11.22; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: CYCLIN-A2; COMPND 9 CHAIN: B, D; COMPND 10 SYNONYM: CYCLIN-A; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: CYCLIN-DEPENDENT KINASE 2; COMPND 14 CHAIN: C; COMPND 15 SYNONYM: CELL DIVISION PROTEIN KINASE 2,P33 PROTEIN KINASE; COMPND 16 EC: 2.7.11.22; COMPND 17 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: CDK2, CDKN2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: CCNA2, CCN1, CCNA; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_COMMON: HUMAN; SOURCE 18 ORGANISM_TAXID: 9606; SOURCE 19 GENE: CDK2, CDKN2; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 21 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CDK2; CYCLIN A, CELL CYCLE, TRANSFERASE, INHIBITOR, COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.ECHALIER REVDAT 4 16-OCT-24 5LMK 1 REMARK REVDAT 3 01-MAY-24 5LMK 1 REMARK REVDAT 2 16-OCT-19 5LMK 1 REMARK REVDAT 1 25-JAN-17 5LMK 0 JRNL AUTH M.HYLSOVA,B.CARBAIN,J.FANFRLIK,L.MUSILOVA,S.HALDAR, JRNL AUTH 2 C.KOPRULUOGLU,H.AJANI,P.S.BRAHMKSHATRIYA,R.JORDA,V.KRYSTOF, JRNL AUTH 3 P.HOBZA,A.ECHALIER,K.PARUCH,M.LEPSIK JRNL TITL EXPLICIT TREATMENT OF ACTIVE-SITE WATERS ENHANCES QUANTUM JRNL TITL 2 MECHANICAL/IMPLICIT SOLVENT SCORING: INHIBITION OF CDK2 BY JRNL TITL 3 NEW PYRAZOLO[1,5-A]PYRIMIDINES. JRNL REF EUR J MED CHEM V. 126 1118 2016 JRNL REFN ISSN 1768-3254 JRNL PMID 28039837 JRNL DOI 10.1016/J.EJMECH.2016.12.023 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0131 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 99.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 55453 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) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.212 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2862 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4107 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE SET COUNT : 198 REMARK 3 BIN FREE R VALUE : 0.3300 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8684 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 79 REMARK 3 SOLVENT ATOMS : 230 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.22 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.14000 REMARK 3 B22 (A**2) : 1.02000 REMARK 3 B33 (A**2) : 0.12000 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): 0.356 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.247 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.191 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.494 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.936 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.909 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 9036 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 12265 ; 1.358 ; 1.987 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1086 ; 5.274 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 388 ;41.290 ;23.814 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1596 ;14.841 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 47 ;15.673 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1383 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6699 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 4323 ; 1.286 ; 3.972 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5398 ; 2.299 ; 5.947 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 4713 ; 1.260 ; 4.085 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 13463 ; 5.021 ;32.576 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5LMK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1200001002. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-MAY-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 253641 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 99.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: CDK2?CYCLIN A STRUCTURE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULPHATE; POTASSIUM CHLORIDE; REMARK 280 SODIUM HEPES PH7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 277K 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 37.23300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 74.74050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 67.19750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 74.74050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.23300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 67.19750 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 THR A 39 REMARK 465 GLU A 40 REMARK 465 THR C 221 REMARK 465 PRO C 222 REMARK 465 ASP C 223 REMARK 465 GLU C 224 REMARK 465 VAL C 225 REMARK 465 VAL C 226 REMARK 465 TRP C 227 REMARK 465 PRO C 228 REMARK 465 GLY C 229 REMARK 465 VAL C 230 REMARK 465 THR C 231 REMARK 465 SER C 232 REMARK 465 MET C 233 REMARK 465 PRO C 234 REMARK 465 ASP C 235 REMARK 465 TYR C 236 REMARK 465 LYS C 237 REMARK 465 PRO C 238 REMARK 465 SER C 239 REMARK 465 PHE C 240 REMARK 465 PRO C 241 REMARK 465 LYS C 242 REMARK 465 TRP C 243 REMARK 465 ALA C 244 REMARK 465 ARG C 245 REMARK 465 GLN C 246 REMARK 465 ASP C 247 REMARK 465 PHE C 248 REMARK 465 SER C 249 REMARK 465 LYS C 250 REMARK 465 VAL C 251 REMARK 465 VAL D 175 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU C 296 CA - CB - CG ANGL. DEV. = 13.8 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 LEU A 37 57.64 -110.29 REMARK 500 GLU A 42 15.30 -140.07 REMARK 500 ASP A 127 38.59 -154.06 REMARK 500 ASP A 145 86.40 58.34 REMARK 500 VAL A 163 141.69 -13.04 REMARK 500 VAL A 164 126.58 70.85 REMARK 500 SER A 181 -149.57 -147.24 REMARK 500 PHE B 304 16.62 59.03 REMARK 500 TRP B 372 107.67 -38.91 REMARK 500 VAL C 7 -61.06 -102.74 REMARK 500 THR C 41 -76.62 -115.76 REMARK 500 ASP C 127 42.33 -152.63 REMARK 500 ASP C 145 88.46 55.40 REMARK 500 VAL C 164 124.67 64.49 REMARK 500 SER C 181 -143.90 -139.39 REMARK 500 HIS C 295 104.61 64.15 REMARK 500 ASN D 431 87.82 56.53 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 ILE C 70 HIS C 71 -149.58 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 MG B 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET B 200 O REMARK 620 2 GLN B 203 O 79.0 REMARK 620 3 ILE B 206 O 98.2 85.0 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6ZK A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SGM B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6ZK C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SGM D 501 DBREF 5LMK A 1 298 UNP P24941 CDK2_HUMAN 1 298 DBREF 5LMK B 175 432 UNP P20248 CCNA2_HUMAN 175 432 DBREF 5LMK C 1 296 UNP P24941 CDK2_HUMAN 1 296 DBREF 5LMK D 175 432 UNP P20248 CCNA2_HUMAN 175 432 SEQADV 5LMK SER A 0 UNP P24941 EXPRESSION TAG SEQADV 5LMK SER C 0 UNP P24941 EXPRESSION TAG SEQRES 1 A 299 SER MET GLU ASN PHE GLN LYS VAL GLU LYS ILE GLY GLU SEQRES 2 A 299 GLY THR TYR GLY VAL VAL TYR LYS ALA ARG ASN LYS LEU SEQRES 3 A 299 THR GLY GLU VAL VAL ALA LEU LYS LYS ILE ARG LEU ASP SEQRES 4 A 299 THR GLU THR GLU GLY VAL PRO SER THR ALA ILE ARG GLU SEQRES 5 A 299 ILE SER LEU LEU LYS GLU LEU ASN HIS PRO ASN ILE VAL SEQRES 6 A 299 LYS LEU LEU ASP VAL ILE HIS THR GLU ASN LYS LEU TYR SEQRES 7 A 299 LEU VAL PHE GLU PHE LEU HIS GLN ASP LEU LYS LYS PHE SEQRES 8 A 299 MET ASP ALA SER ALA LEU THR GLY ILE PRO LEU PRO LEU SEQRES 9 A 299 ILE LYS SER TYR LEU PHE GLN LEU LEU GLN GLY LEU ALA SEQRES 10 A 299 PHE CYS HIS SER HIS ARG VAL LEU HIS ARG ASP LEU LYS SEQRES 11 A 299 PRO GLN ASN LEU LEU ILE ASN THR GLU GLY ALA ILE LYS SEQRES 12 A 299 LEU ALA ASP PHE GLY LEU ALA ARG ALA PHE GLY VAL PRO SEQRES 13 A 299 VAL ARG THR TYR TPO HIS GLU VAL VAL THR LEU TRP TYR SEQRES 14 A 299 ARG ALA PRO GLU ILE LEU LEU GLY CYS LYS TYR TYR SER SEQRES 15 A 299 THR ALA VAL ASP ILE TRP SER LEU GLY CYS ILE PHE ALA SEQRES 16 A 299 GLU MET VAL THR ARG ARG ALA LEU PHE PRO GLY ASP SER SEQRES 17 A 299 GLU ILE ASP GLN LEU PHE ARG ILE PHE ARG THR LEU GLY SEQRES 18 A 299 THR PRO ASP GLU VAL VAL TRP PRO GLY VAL THR SER MET SEQRES 19 A 299 PRO ASP TYR LYS PRO SER PHE PRO LYS TRP ALA ARG GLN SEQRES 20 A 299 ASP PHE SER LYS VAL VAL PRO PRO LEU ASP GLU ASP GLY SEQRES 21 A 299 ARG SER LEU LEU SER GLN MET LEU HIS TYR ASP PRO ASN SEQRES 22 A 299 LYS ARG ILE SER ALA LYS ALA ALA LEU ALA HIS PRO PHE SEQRES 23 A 299 PHE GLN ASP VAL THR LYS PRO VAL PRO HIS LEU ARG LEU SEQRES 1 B 258 VAL PRO ASP TYR HIS GLU ASP ILE HIS THR TYR LEU ARG SEQRES 2 B 258 GLU MET GLU VAL LYS CYS LYS PRO LYS VAL GLY TYR MET SEQRES 3 B 258 LYS LYS GLN PRO ASP ILE THR ASN SER MET ARG ALA ILE SEQRES 4 B 258 LEU VAL ASP TRP LEU VAL GLU VAL GLY GLU GLU TYR LYS SEQRES 5 B 258 LEU GLN ASN GLU THR LEU HIS LEU ALA VAL ASN TYR ILE SEQRES 6 B 258 ASP ARG PHE LEU SER SER MET SER VAL LEU ARG GLY LYS SEQRES 7 B 258 LEU GLN LEU VAL GLY THR ALA ALA MET LEU LEU ALA SER SEQRES 8 B 258 LYS PHE GLU GLU ILE TYR PRO PRO GLU VAL ALA GLU PHE SEQRES 9 B 258 VAL TYR ILE THR ASP ASP THR TYR THR LYS LYS GLN VAL SEQRES 10 B 258 LEU ARG MET GLU HIS LEU VAL LEU LYS VAL LEU THR PHE SEQRES 11 B 258 ASP LEU ALA ALA PRO THR VAL ASN GLN PHE LEU THR GLN SEQRES 12 B 258 TYR PHE LEU HIS GLN GLN PRO ALA ASN CYS LYS VAL GLU SEQRES 13 B 258 SER LEU ALA MET PHE LEU GLY GLU LEU SER LEU ILE ASP SEQRES 14 B 258 ALA ASP PRO TYR LEU LYS TYR LEU PRO SER VAL ILE ALA SEQRES 15 B 258 GLY ALA ALA PHE HIS LEU ALA LEU TYR THR VAL THR GLY SEQRES 16 B 258 GLN SER TRP PRO GLU SER LEU ILE ARG LYS THR GLY TYR SEQRES 17 B 258 THR LEU GLU SER LEU LYS PRO CYS LEU MET ASP LEU HIS SEQRES 18 B 258 GLN THR TYR LEU LYS ALA PRO GLN HIS ALA GLN GLN SER SEQRES 19 B 258 ILE ARG GLU LYS TYR LYS ASN SER LYS TYR HIS GLY VAL SEQRES 20 B 258 SER LEU LEU ASN PRO PRO GLU THR LEU ASN LEU SEQRES 1 C 297 SER MET GLU ASN PHE GLN LYS VAL GLU LYS ILE GLY GLU SEQRES 2 C 297 GLY THR TYR GLY VAL VAL TYR LYS ALA ARG ASN LYS LEU SEQRES 3 C 297 THR GLY GLU VAL VAL ALA LEU LYS LYS ILE ARG LEU ASP SEQRES 4 C 297 THR GLU THR GLU GLY VAL PRO SER THR ALA ILE ARG GLU SEQRES 5 C 297 ILE SER LEU LEU LYS GLU LEU ASN HIS PRO ASN ILE VAL SEQRES 6 C 297 LYS LEU LEU ASP VAL ILE HIS THR GLU ASN LYS LEU TYR SEQRES 7 C 297 LEU VAL PHE GLU PHE LEU HIS GLN ASP LEU LYS LYS PHE SEQRES 8 C 297 MET ASP ALA SER ALA LEU THR GLY ILE PRO LEU PRO LEU SEQRES 9 C 297 ILE LYS SER TYR LEU PHE GLN LEU LEU GLN GLY LEU ALA SEQRES 10 C 297 PHE CYS HIS SER HIS ARG VAL LEU HIS ARG ASP LEU LYS SEQRES 11 C 297 PRO GLN ASN LEU LEU ILE ASN THR GLU GLY ALA ILE LYS SEQRES 12 C 297 LEU ALA ASP PHE GLY LEU ALA ARG ALA PHE GLY VAL PRO SEQRES 13 C 297 VAL ARG THR TYR TPO HIS GLU VAL VAL THR LEU TRP TYR SEQRES 14 C 297 ARG ALA PRO GLU ILE LEU LEU GLY CYS LYS TYR TYR SER SEQRES 15 C 297 THR ALA VAL ASP ILE TRP SER LEU GLY CYS ILE PHE ALA SEQRES 16 C 297 GLU MET VAL THR ARG ARG ALA LEU PHE PRO GLY ASP SER SEQRES 17 C 297 GLU ILE ASP GLN LEU PHE ARG ILE PHE ARG THR LEU GLY SEQRES 18 C 297 THR PRO ASP GLU VAL VAL TRP PRO GLY VAL THR SER MET SEQRES 19 C 297 PRO ASP TYR LYS PRO SER PHE PRO LYS TRP ALA ARG GLN SEQRES 20 C 297 ASP PHE SER LYS VAL VAL PRO PRO LEU ASP GLU ASP GLY SEQRES 21 C 297 ARG SER LEU LEU SER GLN MET LEU HIS TYR ASP PRO ASN SEQRES 22 C 297 LYS ARG ILE SER ALA LYS ALA ALA LEU ALA HIS PRO PHE SEQRES 23 C 297 PHE GLN ASP VAL THR LYS PRO VAL PRO HIS LEU SEQRES 1 D 258 VAL PRO ASP TYR HIS GLU ASP ILE HIS THR TYR LEU ARG SEQRES 2 D 258 GLU MET GLU VAL LYS CYS LYS PRO LYS VAL GLY TYR MET SEQRES 3 D 258 LYS LYS GLN PRO ASP ILE THR ASN SER MET ARG ALA ILE SEQRES 4 D 258 LEU VAL ASP TRP LEU VAL GLU VAL GLY GLU GLU TYR LYS SEQRES 5 D 258 LEU GLN ASN GLU THR LEU HIS LEU ALA VAL ASN TYR ILE SEQRES 6 D 258 ASP ARG PHE LEU SER SER MET SER VAL LEU ARG GLY LYS SEQRES 7 D 258 LEU GLN LEU VAL GLY THR ALA ALA MET LEU LEU ALA SER SEQRES 8 D 258 LYS PHE GLU GLU ILE TYR PRO PRO GLU VAL ALA GLU PHE SEQRES 9 D 258 VAL TYR ILE THR ASP ASP THR TYR THR LYS LYS GLN VAL SEQRES 10 D 258 LEU ARG MET GLU HIS LEU VAL LEU LYS VAL LEU THR PHE SEQRES 11 D 258 ASP LEU ALA ALA PRO THR VAL ASN GLN PHE LEU THR GLN SEQRES 12 D 258 TYR PHE LEU HIS GLN GLN PRO ALA ASN CYS LYS VAL GLU SEQRES 13 D 258 SER LEU ALA MET PHE LEU GLY GLU LEU SER LEU ILE ASP SEQRES 14 D 258 ALA ASP PRO TYR LEU LYS TYR LEU PRO SER VAL ILE ALA SEQRES 15 D 258 GLY ALA ALA PHE HIS LEU ALA LEU TYR THR VAL THR GLY SEQRES 16 D 258 GLN SER TRP PRO GLU SER LEU ILE ARG LYS THR GLY TYR SEQRES 17 D 258 THR LEU GLU SER LEU LYS PRO CYS LEU MET ASP LEU HIS SEQRES 18 D 258 GLN THR TYR LEU LYS ALA PRO GLN HIS ALA GLN GLN SER SEQRES 19 D 258 ILE ARG GLU LYS TYR LYS ASN SER LYS TYR HIS GLY VAL SEQRES 20 D 258 SER LEU LEU ASN PRO PRO GLU THR LEU ASN LEU MODRES 5LMK TPO A 160 THR MODIFIED RESIDUE MODRES 5LMK TPO C 160 THR MODIFIED RESIDUE HET TPO A 160 11 HET TPO C 160 11 HET 6ZK A 301 33 HET SGM B 501 6 HET MG B 502 1 HET 6ZK C 301 33 HET SGM D 501 6 HETNAM TPO PHOSPHOTHREONINE HETNAM 6ZK 4-[4-[3-BROMANYL-7-(PYRIDIN-3-YLMETHYLAMINO)PYRAZOLO[1, HETNAM 2 6ZK 5-A]PYRIMIDIN-5-YL]PHENYL]BENZAMIDE HETNAM SGM MONOTHIOGLYCEROL HETNAM MG MAGNESIUM ION HETSYN TPO PHOSPHONOTHREONINE FORMUL 1 TPO 2(C4 H10 N O6 P) FORMUL 5 6ZK 2(C25 H19 BR N6 O) FORMUL 6 SGM 2(C3 H8 O2 S) FORMUL 7 MG MG 2+ FORMUL 10 HOH *230(H2 O) HELIX 1 AA1 PRO A 45 LEU A 58 1 14 HELIX 2 AA2 LEU A 87 SER A 94 1 8 HELIX 3 AA3 PRO A 100 HIS A 121 1 22 HELIX 4 AA4 LYS A 129 GLN A 131 5 3 HELIX 5 AA5 THR A 165 ARG A 169 5 5 HELIX 6 AA6 ALA A 170 LEU A 175 1 6 HELIX 7 AA7 THR A 182 ARG A 199 1 18 HELIX 8 AA8 SER A 207 GLY A 220 1 14 HELIX 9 AA9 GLY A 229 MET A 233 5 5 HELIX 10 AB1 ASP A 247 VAL A 252 1 6 HELIX 11 AB2 ASP A 256 LEU A 267 1 12 HELIX 12 AB3 SER A 276 LEU A 281 1 6 HELIX 13 AB4 ALA A 282 GLN A 287 5 6 HELIX 14 AB5 TYR B 178 CYS B 193 1 16 HELIX 15 AB6 GLY B 198 GLN B 203 5 6 HELIX 16 AB7 THR B 207 TYR B 225 1 19 HELIX 17 AB8 GLN B 228 SER B 244 1 17 HELIX 18 AB9 LEU B 249 GLY B 251 5 3 HELIX 19 AC1 LYS B 252 GLU B 269 1 18 HELIX 20 AC2 GLU B 274 ILE B 281 1 8 HELIX 21 AC3 THR B 287 LEU B 302 1 16 HELIX 22 AC4 THR B 310 LEU B 320 1 11 HELIX 23 AC5 ASN B 326 ASP B 343 1 18 HELIX 24 AC6 ASP B 343 LEU B 348 1 6 HELIX 25 AC7 LEU B 351 GLY B 369 1 19 HELIX 26 AC8 PRO B 373 GLY B 381 1 9 HELIX 27 AC9 THR B 383 LYS B 400 1 18 HELIX 28 AD1 ALA B 401 HIS B 404 5 4 HELIX 29 AD2 GLN B 407 TYR B 413 1 7 HELIX 30 AD3 LYS B 414 HIS B 419 5 6 HELIX 31 AD4 GLY B 420 LEU B 424 5 5 HELIX 32 AD5 PRO C 45 LEU C 58 1 14 HELIX 33 AD6 LEU C 87 SER C 94 1 8 HELIX 34 AD7 PRO C 100 HIS C 121 1 22 HELIX 35 AD8 LYS C 129 GLN C 131 5 3 HELIX 36 AD9 THR C 165 ARG C 169 5 5 HELIX 37 AE1 ALA C 170 LEU C 175 1 6 HELIX 38 AE2 THR C 182 ARG C 199 1 18 HELIX 39 AE3 SER C 207 GLY C 220 1 14 HELIX 40 AE4 ASP C 256 LEU C 267 1 12 HELIX 41 AE5 SER C 276 LEU C 281 1 6 HELIX 42 AE6 ALA C 282 GLN C 287 5 6 HELIX 43 AE7 TYR D 178 CYS D 193 1 16 HELIX 44 AE8 GLY D 198 GLN D 203 5 6 HELIX 45 AE9 THR D 207 TYR D 225 1 19 HELIX 46 AF1 GLN D 228 MET D 246 1 19 HELIX 47 AF2 LEU D 249 GLY D 251 5 3 HELIX 48 AF3 LYS D 252 GLU D 269 1 18 HELIX 49 AF4 GLU D 274 ILE D 281 1 8 HELIX 50 AF5 THR D 287 LEU D 302 1 16 HELIX 51 AF6 THR D 310 PHE D 319 1 10 HELIX 52 AF7 LEU D 320 GLN D 322 5 3 HELIX 53 AF8 ASN D 326 SER D 340 1 15 HELIX 54 AF9 ASP D 343 LEU D 348 1 6 HELIX 55 AG1 LEU D 351 THR D 368 1 18 HELIX 56 AG2 PRO D 373 GLY D 381 1 9 HELIX 57 AG3 THR D 383 ALA D 401 1 19 HELIX 58 AG4 GLN D 407 TYR D 413 1 7 HELIX 59 AG5 LYS D 414 HIS D 419 5 6 SHEET 1 AA1 5 PHE A 4 GLY A 11 0 SHEET 2 AA1 5 VAL A 17 ASN A 23 -1 O LYS A 20 N VAL A 7 SHEET 3 AA1 5 VAL A 29 ARG A 36 -1 O LEU A 32 N TYR A 19 SHEET 4 AA1 5 LYS A 75 GLU A 81 -1 O PHE A 80 N ALA A 31 SHEET 5 AA1 5 LEU A 66 HIS A 71 -1 N ILE A 70 O TYR A 77 SHEET 1 AA2 3 GLN A 85 ASP A 86 0 SHEET 2 AA2 3 LEU A 133 ILE A 135 -1 O ILE A 135 N GLN A 85 SHEET 3 AA2 3 ILE A 141 LEU A 143 -1 O LYS A 142 N LEU A 134 SHEET 1 AA3 2 VAL A 123 LEU A 124 0 SHEET 2 AA3 2 ARG A 150 ALA A 151 -1 O ARG A 150 N LEU A 124 SHEET 1 AA4 5 PHE C 4 GLY C 11 0 SHEET 2 AA4 5 VAL C 17 ASN C 23 -1 O LYS C 20 N VAL C 7 SHEET 3 AA4 5 VAL C 29 ARG C 36 -1 O VAL C 30 N ALA C 21 SHEET 4 AA4 5 LYS C 75 GLU C 81 -1 O PHE C 80 N ALA C 31 SHEET 5 AA4 5 LEU C 66 HIS C 71 -1 N LEU C 67 O VAL C 79 SHEET 1 AA5 3 GLN C 85 ASP C 86 0 SHEET 2 AA5 3 LEU C 133 ILE C 135 -1 O ILE C 135 N GLN C 85 SHEET 3 AA5 3 ILE C 141 LEU C 143 -1 O LYS C 142 N LEU C 134 SHEET 1 AA6 2 VAL C 123 LEU C 124 0 SHEET 2 AA6 2 ARG C 150 ALA C 151 -1 O ARG C 150 N LEU C 124 LINK C TYR A 159 N TPO A 160 1555 1555 1.34 LINK C TPO A 160 N HIS A 161 1555 1555 1.34 LINK C TYR C 159 N TPO C 160 1555 1555 1.34 LINK C TPO C 160 N HIS C 161 1555 1555 1.33 LINK O MET B 200 MG MG B 502 1555 1555 2.85 LINK O GLN B 203 MG MG B 502 1555 1555 2.46 LINK O ILE B 206 MG MG B 502 1555 1555 2.71 CISPEP 1 VAL A 154 PRO A 155 0 -7.29 CISPEP 2 GLN B 323 PRO B 324 0 -7.50 CISPEP 3 ASP B 345 PRO B 346 0 8.86 CISPEP 4 VAL C 154 PRO C 155 0 -3.66 CISPEP 5 ASP D 345 PRO D 346 0 11.89 SITE 1 AC1 12 ILE A 10 GLU A 12 ALA A 31 PHE A 80 SITE 2 AC1 12 GLU A 81 PHE A 82 LEU A 83 HIS A 84 SITE 3 AC1 12 LYS A 129 GLN A 131 LEU A 134 HOH A 453 SITE 1 AC2 5 MET B 189 LYS B 192 CYS B 193 ARG B 241 SITE 2 AC2 5 ASP B 305 SITE 1 AC3 3 MET B 200 GLN B 203 ILE B 206 SITE 1 AC4 14 ILE C 10 GLU C 12 ALA C 31 PHE C 80 SITE 2 AC4 14 GLU C 81 PHE C 82 LEU C 83 HIS C 84 SITE 3 AC4 14 GLN C 85 ASP C 86 LYS C 89 GLN C 131 SITE 4 AC4 14 LEU C 134 HOH C 425 SITE 1 AC5 4 LYS D 192 CYS D 193 ARG D 241 ASP D 305 CRYST1 74.466 134.395 149.481 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.013429 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007441 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006690 0.00000