PDB Short entry for 3O0G HEADER TRANSFERASE/TRANSFERASE ACTIVATOR 19-JUL-10 3O0G TITLE CRYSTAL STRUCTURE OF CDK5:P25 IN COMPLEX WITH AN ATP ANALOGUE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELL DIVISION PROTEIN KINASE 5; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CYCLIN-DEPENDENT KINASE 5, TAU PROTEIN KINASE II CATALYTIC COMPND 5 SUBUNIT, TPKII CATALYTIC SUBUNIT, SERINE/THREONINE-PROTEIN KINASE COMPND 6 PSSALRE; COMPND 7 EC: 2.7.11.22; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: CYCLIN-DEPENDENT KINASE 5 ACTIVATOR 1; COMPND 11 CHAIN: D, E; COMPND 12 FRAGMENT: UNP RESIDUES 146-293; COMPND 13 SYNONYM: CDK5 ACTIVATOR 1, CYCLIN-DEPENDENT KINASE 5 REGULATORY COMPND 14 SUBUNIT 1, TPKII REGULATORY SUBUNIT, CYCLIN-DEPENDENT KINASE 5 COMPND 15 ACTIVATOR 1, P25, P25, TAU PROTEIN KINASE II 23 KDA SUBUNIT, P23; COMPND 16 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: CDK5; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: BACULOVIRUS; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: P25; SOURCE 16 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 17 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 19 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 20 EXPRESSION_SYSTEM_VECTOR: BACULOVIRUS KEYWDS KINASE, KINASE ACTIVATOR COMPLEX, KINASE INHIBITOR COMPLEX, KEYWDS 2 TRANSFERASE-TRANSFERASE ACTIVATOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.MAPELLI REVDAT 3 06-SEP-23 3O0G 1 REMARK SEQADV REVDAT 2 17-JUL-19 3O0G 1 REMARK REVDAT 1 26-JAN-11 3O0G 0 JRNL AUTH J.S.AHN,M.L.RADHAKRISHNAN,M.MAPELLI,S.CHOI,B.TIDOR,G.D.CUNY, JRNL AUTH 2 A.MUSACCHIO,L.YEH,S.K.KOSIK JRNL TITL DEFINING CDK5 LIGAND CHEMICAL SPACE WITH SMALL MOLECULE JRNL TITL 2 INHIBITORS OF TAU PHOSPHORYLATION JRNL REF CHEM.BIOL. V. 12 811 2005 JRNL REFN ISSN 1074-5521 JRNL PMID 16039528 JRNL DOI 10.1016/J.CHEMBIOL.2005.05.011 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.96 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 84271 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) : 0.226 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4474 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5433 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2630 REMARK 3 BIN FREE R VALUE SET COUNT : 284 REMARK 3 BIN FREE R VALUE : 0.2890 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6846 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 234 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.38000 REMARK 3 B22 (A**2) : 0.38000 REMARK 3 B33 (A**2) : -0.56000 REMARK 3 B12 (A**2) : 0.19000 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): 0.160 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.104 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.598 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.933 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7033 ; 0.010 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9523 ; 1.180 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 844 ; 5.117 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1060 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5282 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3350 ; 0.216 ; 0.200 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): 312 ; 0.163 ; 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): 68 ; 0.209 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 22 ; 0.208 ; 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): 4260 ; 0.523 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6889 ; 1.000 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2773 ; 1.654 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2634 ; 2.490 ; 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 : 5 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 82 REMARK 3 RESIDUE RANGE : A 83 A 289 REMARK 3 ORIGIN FOR THE GROUP (A): 46.8287 30.3596 33.2754 REMARK 3 T TENSOR REMARK 3 T11: 0.0023 T22: 0.0559 REMARK 3 T33: 0.0502 T12: 0.0017 REMARK 3 T13: -0.0101 T23: 0.0073 REMARK 3 L TENSOR REMARK 3 L11: 1.1724 L22: 2.2639 REMARK 3 L33: 1.7777 L12: -0.4923 REMARK 3 L13: -0.4366 L23: 0.7346 REMARK 3 S TENSOR REMARK 3 S11: -0.0159 S12: -0.0979 S13: -0.0400 REMARK 3 S21: -0.0593 S22: 0.0231 S23: -0.1552 REMARK 3 S31: 0.1415 S32: 0.1101 S33: -0.0072 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 6 B 82 REMARK 3 RESIDUE RANGE : B 83 B 288 REMARK 3 ORIGIN FOR THE GROUP (A): -18.0573 60.7312 69.4907 REMARK 3 T TENSOR REMARK 3 T11: 0.0607 T22: 0.1520 REMARK 3 T33: 0.0789 T12: -0.0958 REMARK 3 T13: 0.0033 T23: 0.0027 REMARK 3 L TENSOR REMARK 3 L11: 3.0163 L22: 2.7103 REMARK 3 L33: 3.0111 L12: 1.4407 REMARK 3 L13: -0.6260 L23: -0.8550 REMARK 3 S TENSOR REMARK 3 S11: -0.2152 S12: 0.3751 S13: -0.1418 REMARK 3 S21: -0.2875 S22: 0.1363 S23: -0.1696 REMARK 3 S31: 0.2433 S32: -0.0462 S33: 0.0789 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 145 D 293 REMARK 3 ORIGIN FOR THE GROUP (A): 48.0973 1.0458 43.2710 REMARK 3 T TENSOR REMARK 3 T11: 0.0878 T22: 0.0562 REMARK 3 T33: 0.0483 T12: -0.0331 REMARK 3 T13: 0.0040 T23: 0.0352 REMARK 3 L TENSOR REMARK 3 L11: 1.1738 L22: 4.1318 REMARK 3 L33: 1.9025 L12: -1.3233 REMARK 3 L13: 0.6584 L23: -0.5969 REMARK 3 S TENSOR REMARK 3 S11: -0.0473 S12: -0.1325 S13: -0.0022 REMARK 3 S21: 0.1836 S22: 0.1190 S23: 0.2509 REMARK 3 S31: 0.0057 S32: -0.1438 S33: -0.0716 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : E 145 E 293 REMARK 3 ORIGIN FOR THE GROUP (A): -13.3354 28.3530 68.4874 REMARK 3 T TENSOR REMARK 3 T11: 0.6211 T22: 0.4852 REMARK 3 T33: 0.6763 T12: -0.0410 REMARK 3 T13: 0.1049 T23: -0.1356 REMARK 3 L TENSOR REMARK 3 L11: 3.5588 L22: 8.8314 REMARK 3 L33: 4.2762 L12: -2.7600 REMARK 3 L13: 0.4958 L23: -1.0023 REMARK 3 S TENSOR REMARK 3 S11: 0.0463 S12: 0.0565 S13: -0.8237 REMARK 3 S21: -0.1492 S22: 0.1196 S23: -0.3913 REMARK 3 S31: 0.9066 S32: 0.6305 S33: -0.1659 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : M 1 M 1 REMARK 3 ORIGIN FOR THE GROUP (A): -5.9496 60.1960 60.8667 REMARK 3 T TENSOR REMARK 3 T11: 0.2260 T22: 0.2229 REMARK 3 T33: 0.2216 T12: 0.0002 REMARK 3 T13: 0.0062 T23: -0.0026 REMARK 3 L TENSOR REMARK 3 L11: 29.8146 L22: 21.5039 REMARK 3 L33: 18.9353 L12: 4.8610 REMARK 3 L13: -14.0546 L23: 12.8622 REMARK 3 S TENSOR REMARK 3 S11: -0.3519 S12: 0.0911 S13: -0.7526 REMARK 3 S21: -0.3009 S22: -0.4604 S23: -1.0075 REMARK 3 S31: 0.2956 S32: -0.3071 S33: 0.8123 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: NULL REMARK 4 REMARK 4 3O0G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000060508. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JAN-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 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) : NULL 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 : DENZO REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 88794 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 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) : 0.29000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800 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: 1H4L REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, KI, BIS-TRIS PROPANE, PH 7, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 103.73267 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 51.86633 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 51.86633 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 103.73267 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E 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 CYS A 290 REMARK 465 PRO A 291 REMARK 465 PRO A 292 REMARK 465 MET B 1 REMARK 465 GLN B 2 REMARK 465 LYS B 3 REMARK 465 TYR B 4 REMARK 465 GLU B 5 REMARK 465 GLY B 11 REMARK 465 GLU B 12 REMARK 465 GLY B 13 REMARK 465 THR B 14 REMARK 465 TYR B 15 REMARK 465 LYS B 22 REMARK 465 ASN B 23 REMARK 465 ARG B 24 REMARK 465 GLU B 25 REMARK 465 THR B 26 REMARK 465 HIS B 27 REMARK 465 LEU B 37 REMARK 465 ASP B 38 REMARK 465 ASP B 39 REMARK 465 ASP B 40 REMARK 465 ASP B 41 REMARK 465 GLU B 42 REMARK 465 GLY B 43 REMARK 465 VAL B 44 REMARK 465 PHE B 289 REMARK 465 CYS B 290 REMARK 465 PRO B 291 REMARK 465 PRO B 292 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 GLN D 145 CG CD OE1 NE2 REMARK 470 GLN E 145 CG CD OE1 NE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 CB ASN A 135 O HOH A 384 2.06 REMARK 500 O TYR A 15 O HOH A 379 2.18 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 ASP A 68 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP A 84 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 288 CB - CG - OD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 ASP D 182 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP B 210 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP E 278 CB - CG - OD2 ANGL. DEV. = 5.5 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 ASP A 38 56.55 -93.90 REMARK 500 ASP A 73 -131.84 64.36 REMARK 500 ASP A 126 41.76 -147.88 REMARK 500 ASN A 144 76.52 61.32 REMARK 500 GLU A 161 58.68 -93.47 REMARK 500 VAL A 163 127.92 70.83 REMARK 500 SER A 180 -156.46 -119.64 REMARK 500 ASN A 197 -100.51 -125.77 REMARK 500 TRP A 227 73.76 -152.64 REMARK 500 LEU A 267 49.43 -92.05 REMARK 500 ASP A 288 56.84 -100.46 REMARK 500 LEU B 7 -131.01 -104.35 REMARK 500 ILE B 29 62.14 70.92 REMARK 500 HIS B 71 74.74 -117.89 REMARK 500 ASP B 73 -120.14 64.54 REMARK 500 ASP B 126 39.15 -150.80 REMARK 500 ASN B 144 84.26 62.66 REMARK 500 PRO B 154 109.08 -45.40 REMARK 500 VAL B 163 128.42 72.19 REMARK 500 SER B 180 -154.17 -121.26 REMARK 500 ASN B 197 -95.78 -132.19 REMARK 500 LEU B 267 58.91 -90.39 REMARK 500 ALA E 146 39.00 -88.99 REMARK 500 HIS E 168 34.39 -73.52 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 3O0 B 293 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3O0S RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CDK5:P25 IN COMPLEX WITH AN ATP ANALOGUE DBREF 3O0G A 1 292 UNP Q00535 CDK5_HUMAN 1 292 DBREF 3O0G D 145 293 UNP Q15078 CD5R1_HUMAN 145 293 DBREF 3O0G B 1 292 UNP Q00535 CDK5_HUMAN 1 292 DBREF 3O0G E 145 293 UNP Q15078 CD5R1_HUMAN 145 293 SEQADV 3O0G ASN A 144 UNP Q00535 ASP 144 ENGINEERED MUTATION SEQADV 3O0G ASN B 144 UNP Q00535 ASP 144 ENGINEERED MUTATION SEQRES 1 A 292 MET GLN LYS TYR GLU LYS LEU GLU LYS ILE GLY GLU GLY SEQRES 2 A 292 THR TYR GLY THR VAL PHE LYS ALA LYS ASN ARG GLU THR SEQRES 3 A 292 HIS GLU ILE VAL ALA LEU LYS ARG VAL ARG LEU ASP ASP SEQRES 4 A 292 ASP ASP GLU GLY VAL PRO SER SER ALA LEU ARG GLU ILE SEQRES 5 A 292 CYS LEU LEU LYS GLU LEU LYS HIS LYS ASN ILE VAL ARG SEQRES 6 A 292 LEU HIS ASP VAL LEU HIS SER ASP LYS LYS LEU THR LEU SEQRES 7 A 292 VAL PHE GLU PHE CYS ASP GLN ASP LEU LYS LYS TYR PHE SEQRES 8 A 292 ASP SER CYS ASN GLY ASP LEU ASP PRO GLU ILE VAL LYS SEQRES 9 A 292 SER PHE LEU PHE GLN LEU LEU LYS GLY LEU GLY PHE CYS SEQRES 10 A 292 HIS SER ARG ASN VAL LEU HIS ARG ASP LEU LYS PRO GLN SEQRES 11 A 292 ASN LEU LEU ILE ASN ARG ASN GLY GLU LEU LYS LEU ALA SEQRES 12 A 292 ASN PHE GLY LEU ALA ARG ALA PHE GLY ILE PRO VAL ARG SEQRES 13 A 292 CYS TYR SER ALA GLU VAL VAL THR LEU TRP TYR ARG PRO SEQRES 14 A 292 PRO ASP VAL LEU PHE GLY ALA LYS LEU TYR SER THR SER SEQRES 15 A 292 ILE ASP MET TRP SER ALA GLY CYS ILE PHE ALA GLU LEU SEQRES 16 A 292 ALA ASN ALA GLY ARG PRO LEU PHE PRO GLY ASN ASP VAL SEQRES 17 A 292 ASP ASP GLN LEU LYS ARG ILE PHE ARG LEU LEU GLY THR SEQRES 18 A 292 PRO THR GLU GLU GLN TRP PRO SER MET THR LYS LEU PRO SEQRES 19 A 292 ASP TYR LYS PRO TYR PRO MET TYR PRO ALA THR THR SER SEQRES 20 A 292 LEU VAL ASN VAL VAL PRO LYS LEU ASN ALA THR GLY ARG SEQRES 21 A 292 ASP LEU LEU GLN ASN LEU LEU LYS CYS ASN PRO VAL GLN SEQRES 22 A 292 ARG ILE SER ALA GLU GLU ALA LEU GLN HIS PRO TYR PHE SEQRES 23 A 292 SER ASP PHE CYS PRO PRO SEQRES 1 D 149 GLN ALA SER THR SER GLU LEU LEU ARG CYS LEU GLY GLU SEQRES 2 D 149 PHE LEU CYS ARG ARG CYS TYR ARG LEU LYS HIS LEU SER SEQRES 3 D 149 PRO THR ASP PRO VAL LEU TRP LEU ARG SER VAL ASP ARG SEQRES 4 D 149 SER LEU LEU LEU GLN GLY TRP GLN ASP GLN GLY PHE ILE SEQRES 5 D 149 THR PRO ALA ASN VAL VAL PHE LEU TYR MET LEU CYS ARG SEQRES 6 D 149 ASP VAL ILE SER SER GLU VAL GLY SER ASP HIS GLU LEU SEQRES 7 D 149 GLN ALA VAL LEU LEU THR CYS LEU TYR LEU SER TYR SER SEQRES 8 D 149 TYR MET GLY ASN GLU ILE SER TYR PRO LEU LYS PRO PHE SEQRES 9 D 149 LEU VAL GLU SER CYS LYS GLU ALA PHE TRP ASP ARG CYS SEQRES 10 D 149 LEU SER VAL ILE ASN LEU MET SER SER LYS MET LEU GLN SEQRES 11 D 149 ILE ASN ALA ASP PRO HIS TYR PHE THR GLN VAL PHE SER SEQRES 12 D 149 ASP LEU LYS ASN GLU SER SEQRES 1 B 292 MET GLN LYS TYR GLU LYS LEU GLU LYS ILE GLY GLU GLY SEQRES 2 B 292 THR TYR GLY THR VAL PHE LYS ALA LYS ASN ARG GLU THR SEQRES 3 B 292 HIS GLU ILE VAL ALA LEU LYS ARG VAL ARG LEU ASP ASP SEQRES 4 B 292 ASP ASP GLU GLY VAL PRO SER SER ALA LEU ARG GLU ILE SEQRES 5 B 292 CYS LEU LEU LYS GLU LEU LYS HIS LYS ASN ILE VAL ARG SEQRES 6 B 292 LEU HIS ASP VAL LEU HIS SER ASP LYS LYS LEU THR LEU SEQRES 7 B 292 VAL PHE GLU PHE CYS ASP GLN ASP LEU LYS LYS TYR PHE SEQRES 8 B 292 ASP SER CYS ASN GLY ASP LEU ASP PRO GLU ILE VAL LYS SEQRES 9 B 292 SER PHE LEU PHE GLN LEU LEU LYS GLY LEU GLY PHE CYS SEQRES 10 B 292 HIS SER ARG ASN VAL LEU HIS ARG ASP LEU LYS PRO GLN SEQRES 11 B 292 ASN LEU LEU ILE ASN ARG ASN GLY GLU LEU LYS LEU ALA SEQRES 12 B 292 ASN PHE GLY LEU ALA ARG ALA PHE GLY ILE PRO VAL ARG SEQRES 13 B 292 CYS TYR SER ALA GLU VAL VAL THR LEU TRP TYR ARG PRO SEQRES 14 B 292 PRO ASP VAL LEU PHE GLY ALA LYS LEU TYR SER THR SER SEQRES 15 B 292 ILE ASP MET TRP SER ALA GLY CYS ILE PHE ALA GLU LEU SEQRES 16 B 292 ALA ASN ALA GLY ARG PRO LEU PHE PRO GLY ASN ASP VAL SEQRES 17 B 292 ASP ASP GLN LEU LYS ARG ILE PHE ARG LEU LEU GLY THR SEQRES 18 B 292 PRO THR GLU GLU GLN TRP PRO SER MET THR LYS LEU PRO SEQRES 19 B 292 ASP TYR LYS PRO TYR PRO MET TYR PRO ALA THR THR SER SEQRES 20 B 292 LEU VAL ASN VAL VAL PRO LYS LEU ASN ALA THR GLY ARG SEQRES 21 B 292 ASP LEU LEU GLN ASN LEU LEU LYS CYS ASN PRO VAL GLN SEQRES 22 B 292 ARG ILE SER ALA GLU GLU ALA LEU GLN HIS PRO TYR PHE SEQRES 23 B 292 SER ASP PHE CYS PRO PRO SEQRES 1 E 149 GLN ALA SER THR SER GLU LEU LEU ARG CYS LEU GLY GLU SEQRES 2 E 149 PHE LEU CYS ARG ARG CYS TYR ARG LEU LYS HIS LEU SER SEQRES 3 E 149 PRO THR ASP PRO VAL LEU TRP LEU ARG SER VAL ASP ARG SEQRES 4 E 149 SER LEU LEU LEU GLN GLY TRP GLN ASP GLN GLY PHE ILE SEQRES 5 E 149 THR PRO ALA ASN VAL VAL PHE LEU TYR MET LEU CYS ARG SEQRES 6 E 149 ASP VAL ILE SER SER GLU VAL GLY SER ASP HIS GLU LEU SEQRES 7 E 149 GLN ALA VAL LEU LEU THR CYS LEU TYR LEU SER TYR SER SEQRES 8 E 149 TYR MET GLY ASN GLU ILE SER TYR PRO LEU LYS PRO PHE SEQRES 9 E 149 LEU VAL GLU SER CYS LYS GLU ALA PHE TRP ASP ARG CYS SEQRES 10 E 149 LEU SER VAL ILE ASN LEU MET SER SER LYS MET LEU GLN SEQRES 11 E 149 ILE ASN ALA ASP PRO HIS TYR PHE THR GLN VAL PHE SER SEQRES 12 E 149 ASP LEU LYS ASN GLU SER HET 3O0 B 293 25 HETNAM 3O0 {4-AMINO-2-[(4-CHLOROPHENYL)AMINO]-1,3-THIAZOL-5-YL}(3- HETNAM 2 3O0 NITROPHENYL)METHANONE FORMUL 5 3O0 C16 H11 CL N4 O3 S FORMUL 6 HOH *234(H2 O) HELIX 1 1 GLY A 43 LYS A 56 1 14 HELIX 2 2 LEU A 87 CYS A 94 1 8 HELIX 3 3 ASP A 99 ARG A 120 1 22 HELIX 4 4 LYS A 128 GLN A 130 5 3 HELIX 5 5 THR A 164 ARG A 168 5 5 HELIX 6 6 PRO A 169 PHE A 174 1 6 HELIX 7 7 THR A 181 ALA A 196 1 16 HELIX 8 8 ASP A 207 GLY A 220 1 14 HELIX 9 9 SER A 229 LEU A 233 5 5 HELIX 10 10 ASN A 256 LEU A 267 1 12 HELIX 11 11 ASN A 270 ARG A 274 5 5 HELIX 12 12 SER A 276 GLN A 282 1 7 HELIX 13 13 HIS A 283 SER A 287 5 5 HELIX 14 14 SER D 147 CYS D 163 1 17 HELIX 15 15 PRO D 171 GLN D 188 1 18 HELIX 16 16 THR D 197 ILE D 212 1 16 HELIX 17 17 SER D 218 GLY D 238 1 21 HELIX 18 18 LEU D 245 LEU D 249 5 5 HELIX 19 19 CYS D 253 ASP D 278 1 26 HELIX 20 20 ASP D 278 ASN D 291 1 14 HELIX 21 21 PRO B 45 LYS B 56 1 12 HELIX 22 22 LEU B 87 CYS B 94 1 8 HELIX 23 23 ASP B 99 ARG B 120 1 22 HELIX 24 24 LYS B 128 GLN B 130 5 3 HELIX 25 25 THR B 164 ARG B 168 5 5 HELIX 26 26 PRO B 169 PHE B 174 1 6 HELIX 27 27 THR B 181 ALA B 196 1 16 HELIX 28 28 ASP B 207 GLY B 220 1 14 HELIX 29 29 TRP B 227 LEU B 233 5 7 HELIX 30 30 ASN B 256 LEU B 267 1 12 HELIX 31 31 ASN B 270 ARG B 274 5 5 HELIX 32 32 SER B 276 GLN B 282 1 7 HELIX 33 33 HIS B 283 SER B 287 5 5 HELIX 34 34 SER E 147 CYS E 163 1 17 HELIX 35 35 PRO E 171 GLY E 189 1 19 HELIX 36 36 THR E 197 ILE E 212 1 16 HELIX 37 37 SER E 218 GLY E 238 1 21 HELIX 38 38 LEU E 245 LEU E 249 5 5 HELIX 39 39 LYS E 254 ASP E 278 1 25 HELIX 40 40 ASP E 278 ASN E 291 1 14 SHEET 1 A 5 TYR A 4 GLU A 12 0 SHEET 2 A 5 THR A 17 ASN A 23 -1 O LYS A 20 N LEU A 7 SHEET 3 A 5 ILE A 29 ARG A 36 -1 O LEU A 32 N PHE A 19 SHEET 4 A 5 LYS A 75 GLU A 81 -1 O PHE A 80 N ALA A 31 SHEET 5 A 5 LEU A 66 SER A 72 -1 N HIS A 67 O VAL A 79 SHEET 1 B 3 GLN A 85 ASP A 86 0 SHEET 2 B 3 LEU A 132 ILE A 134 -1 O ILE A 134 N GLN A 85 SHEET 3 B 3 LEU A 140 LEU A 142 -1 O LYS A 141 N LEU A 133 SHEET 1 C 2 VAL A 122 LEU A 123 0 SHEET 2 C 2 ARG A 149 ALA A 150 -1 O ARG A 149 N LEU A 123 SHEET 1 D 4 THR B 17 ALA B 21 0 SHEET 2 D 4 VAL B 30 VAL B 35 -1 O LEU B 32 N PHE B 19 SHEET 3 D 4 LYS B 75 GLU B 81 -1 O LEU B 76 N VAL B 35 SHEET 4 D 4 LEU B 66 SER B 72 -1 N ASP B 68 O VAL B 79 SHEET 1 E 3 GLN B 85 ASP B 86 0 SHEET 2 E 3 LEU B 132 ILE B 134 -1 O ILE B 134 N GLN B 85 SHEET 3 E 3 LEU B 140 LEU B 142 -1 O LYS B 141 N LEU B 133 SHEET 1 F 2 VAL B 122 LEU B 123 0 SHEET 2 F 2 ARG B 149 ALA B 150 -1 O ARG B 149 N LEU B 123 SITE 1 AC1 11 VAL B 18 ALA B 31 LYS B 33 VAL B 64 SITE 2 AC1 11 GLU B 81 CYS B 83 ASP B 84 GLN B 85 SITE 3 AC1 11 LEU B 133 ASN B 144 HOH B 311 CRYST1 117.124 117.124 155.599 90.00 90.00 120.00 P 32 2 1 12 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 0.008538 0.004929 0.000000 0.00000 SCALE2 0.000000 0.009859 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006427 0.00000