HEADER TRANSFERASE/CELL CYCLE/INHIBITOR 20-JUN-14 4TTH TITLE CRYSTAL STRUCTURE OF A CDK6/VCYCLIN COMPLEX WITH INHIBITOR BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLIN HOMOLOG; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: V-CYCLIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: CYCLIN-DEPENDENT KINASE 6; COMPND 8 CHAIN: B; COMPND 9 SYNONYM: CELL DIVISION PROTEIN KINASE 6,SERINE/THREONINE-PROTEIN COMPND 10 KINASE PLSTIRE; COMPND 11 EC: 2.7.11.22; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SAIMIRIINE HERPESVIRUS 2; SOURCE 3 ORGANISM_COMMON: SAHV-2; SOURCE 4 ORGANISM_TAXID: 10383; SOURCE 5 STRAIN: 11; SOURCE 6 GENE: 72, ECLF2; SOURCE 7 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: CDK6, CDKN6; SOURCE 14 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 7111 KEYWDS KINASE, TRANSFERASE-CELL CYCLE-INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.E.PIPER,N.WALKER,Z.WANG REVDAT 4 27-SEP-23 4TTH 1 REMARK REVDAT 3 22-NOV-17 4TTH 1 SOURCE JRNL REMARK REVDAT 2 01-OCT-14 4TTH 1 JRNL REVDAT 1 06-AUG-14 4TTH 0 SPRSDE 06-AUG-14 4TTH 4P41 JRNL AUTH Z.LI,X.WANG,J.EKSTEROWICZ,M.W.GRIBBLE,G.Q.ALBA,M.AYRES, JRNL AUTH 2 T.J.CARLSON,A.CHEN,X.CHEN,R.CHO,R.V.CONNORS,M.DEGRAFFENREID, JRNL AUTH 3 J.T.DEIGNAN,J.DUQUETTE,P.FAN,B.FISHER,J.FU,J.N.HUARD, JRNL AUTH 4 J.KAIZERMAN,K.S.KEEGAN,C.LI,K.LI,Y.LI,L.LIANG,W.LIU, JRNL AUTH 5 S.E.LIVELY,M.C.LO,J.MA,D.L.MCMINN,J.T.MIHALIC,K.MODI,R.NGO, JRNL AUTH 6 K.PATTABIRAMAN,D.E.PIPER,C.QUEVA,M.L.RAGAINS,J.SUCHOMEL, JRNL AUTH 7 S.THIBAULT,N.WALKER,X.WANG,Z.WANG,M.WANSKA,P.M.WEHN, JRNL AUTH 8 M.F.WEIDNER,A.J.ZHANG,X.ZHAO,A.KAMB,D.WICKRAMASINGHE,K.DAI, JRNL AUTH 9 L.R.MCGEE,J.C.MEDINA JRNL TITL DISCOVERY OF AMG 925, A FLT3 AND CDK4 DUAL KINASE INHIBITOR JRNL TITL 2 WITH PREFERENTIAL AFFINITY FOR THE ACTIVATED STATE OF FLT3. JRNL REF J.MED.CHEM. V. 57 3430 2014 JRNL REFN ISSN 0022-2623 JRNL PMID 24641103 JRNL DOI 10.1021/JM500118J REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.1_1168) 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.68 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 16018 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.240 REMARK 3 R VALUE (WORKING SET) : 0.235 REMARK 3 FREE R VALUE : 0.337 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 805 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 19.6804 - 5.2420 1.00 2781 123 0.2266 0.3297 REMARK 3 2 5.2420 - 4.1738 1.00 2563 131 0.2288 0.3119 REMARK 3 3 4.1738 - 3.6500 1.00 2509 148 0.2198 0.3225 REMARK 3 4 3.6500 - 3.3180 1.00 2481 131 0.2465 0.3488 REMARK 3 5 3.3180 - 3.0812 1.00 2417 136 0.2786 0.4093 REMARK 3 6 3.0812 - 2.9000 1.00 2462 136 0.2786 0.4059 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 : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.500 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 35.030 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.009 3972 REMARK 3 ANGLE : 1.316 5405 REMARK 3 CHIRALITY : 0.081 657 REMARK 3 PLANARITY : 0.005 666 REMARK 3 DIHEDRAL : 17.223 1441 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4TTH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JUN-14. REMARK 100 THE DEPOSITION ID IS D_1000202177. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUL-07 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 : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : XDS, AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16125 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 19.680 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 11.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 28.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 11.20 REMARK 200 R MERGE FOR SHELL (I) : 0.41000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 6.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 2EUF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 MM TRIS PH 7.9, 100 MM CALCIUM REMARK 280 ACETATE, 10 MM DTT, 8-12% PEG 3350, 100 MM NDSB-201, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 299.33000 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 149.66500 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 224.49750 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 74.83250 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 374.16250 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 299.33000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 149.66500 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 74.83250 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 224.49750 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 374.16250 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 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 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 ALA A 2 REMARK 465 ASP A 3 REMARK 465 SER A 4 REMARK 465 PRO A 5 REMARK 465 ASN A 6 REMARK 465 ARG A 7 REMARK 465 CYS A 124 REMARK 465 ASP A 125 REMARK 465 CYS A 126 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 LYS B 3 REMARK 465 ASP B 4 REMARK 465 GLY B 5 REMARK 465 LEU B 6 REMARK 465 CYS B 7 REMARK 465 ARG B 8 REMARK 465 ALA B 9 REMARK 465 ASP B 10 REMARK 465 GLN B 11 REMARK 465 GLN B 12 REMARK 465 TYR B 13 REMARK 465 GLU B 14 REMARK 465 GLY B 22 REMARK 465 ALA B 23 REMARK 465 TYR B 24 REMARK 465 GLY B 25 REMARK 465 GLY B 36 REMARK 465 GLN B 48 REMARK 465 THR B 49 REMARK 465 GLY B 50 REMARK 465 GLU B 51 REMARK 465 VAL B 85 REMARK 465 SER B 86 REMARK 465 ARG B 87 REMARK 465 THR B 88 REMARK 465 ASP B 89 REMARK 465 ARG B 90 REMARK 465 GLU B 91 REMARK 465 ARG B 245 REMARK 465 ASP B 246 REMARK 465 VAL B 247 REMARK 465 ALA B 248 REMARK 465 LEU B 249 REMARK 465 PRO B 250 REMARK 465 ARG B 251 REMARK 465 GLN B 252 REMARK 465 ALA B 253 REMARK 465 PHE B 254 REMARK 465 HIS B 255 REMARK 465 SER B 256 REMARK 465 LYS B 257 REMARK 465 SER B 258 REMARK 465 ALA B 259 REMARK 465 GLN B 260 REMARK 465 VAL B 266 REMARK 465 THR B 267 REMARK 465 ARG B 305 REMARK 465 CYS B 306 REMARK 465 LYS B 307 REMARK 465 GLU B 308 REMARK 465 ASN B 309 REMARK 465 LEU B 310 REMARK 465 ASP B 311 REMARK 465 SER B 312 REMARK 465 HIS B 313 REMARK 465 LEU B 314 REMARK 465 PRO B 315 REMARK 465 PRO B 316 REMARK 465 SER B 317 REMARK 465 GLN B 318 REMARK 465 ASN B 319 REMARK 465 THR B 320 REMARK 465 SER B 321 REMARK 465 GLU B 322 REMARK 465 LEU B 323 REMARK 465 ASN B 324 REMARK 465 THR B 325 REMARK 465 ALA B 326 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 LYS A 36 CG CD CE NZ REMARK 470 GLU A 42 CG CD OE1 OE2 REMARK 470 LYS A 92 CG CD CE NZ REMARK 470 TYR A 121 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASN A 129 CG OD1 ND2 REMARK 470 LEU A 130 CG CD1 CD2 REMARK 470 ASN A 213 CG OD1 ND2 REMARK 470 ARG A 215 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 252 CG CD OE1 OE2 REMARK 470 CYS B 15 SG REMARK 470 GLU B 18 CG CD OE1 OE2 REMARK 470 GLU B 21 CG CD OE1 OE2 REMARK 470 LYS B 26 CG CD CE NZ REMARK 470 LYS B 29 CG CD CE NZ REMARK 470 ARG B 31 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 33 CG CD1 CD2 REMARK 470 LYS B 34 CG CD CE NZ REMARK 470 ARG B 38 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 44 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 46 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 78 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 81 CG OD1 OD2 REMARK 470 ASP B 110 CG OD1 OD2 REMARK 470 VAL B 117 CG1 CG2 REMARK 470 LYS B 216 CG CD CE NZ REMARK 470 LEU B 232 CG CD1 CD2 REMARK 470 ASP B 233 CG OD1 OD2 REMARK 470 ILE B 235 CG1 CG2 CD1 REMARK 470 LEU B 237 CG CD1 CD2 REMARK 470 ASP B 268 CG OD1 OD2 REMARK 470 LYS B 274 CG CD CE NZ 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 O ILE A 43 NE2 GLN A 88 2.12 REMARK 500 O PHE B 135 OG SER B 138 2.16 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 PRO A 188 C - N - CA ANGL. DEV. = 10.3 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 ILE A 43 4.51 -47.68 REMARK 500 GLU A 46 -83.23 -96.79 REMARK 500 GLU A 141 -73.49 -57.37 REMARK 500 ALA A 142 -37.39 -32.09 REMARK 500 LYS A 164 58.33 39.22 REMARK 500 LEU A 185 -14.19 -45.32 REMARK 500 ASN A 213 47.71 -57.77 REMARK 500 CYS A 214 -157.67 -97.98 REMARK 500 ASN A 229 53.02 76.88 REMARK 500 THR A 232 0.13 -55.68 REMARK 500 VAL B 16 -81.06 -127.01 REMARK 500 PHE B 28 -158.12 -82.30 REMARK 500 LYS B 34 -77.32 -68.22 REMARK 500 GLU B 72 64.88 33.54 REMARK 500 LYS B 111 -2.04 -150.43 REMARK 500 THR B 119 -73.25 8.71 REMARK 500 PHE B 135 -82.66 -52.42 REMARK 500 LEU B 136 -72.39 -24.08 REMARK 500 ARG B 144 68.83 -104.34 REMARK 500 ASP B 145 40.69 -171.60 REMARK 500 SER B 156 8.38 -68.14 REMARK 500 ASP B 163 95.63 52.47 REMARK 500 THR B 177 -178.33 -65.44 REMARK 500 VAL B 181 140.58 67.44 REMARK 500 PRO B 188 -88.18 -39.59 REMARK 500 GLU B 189 -32.08 -27.56 REMARK 500 LEU B 192 5.69 -61.66 REMARK 500 ALA B 197 -143.91 -176.38 REMARK 500 ARG B 215 49.03 -39.24 REMARK 500 SER B 222 -14.48 -140.14 REMARK 500 ASP B 233 32.56 -93.15 REMARK 500 VAL B 234 -66.39 -139.59 REMARK 500 LYS B 264 -49.15 -28.19 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 24V B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4P41 RELATED DB: PDB REMARK 900 THIS IS USING THE SAME DATA SET AS WAS USED FOR 4P41, BUT PROCESSED REMARK 900 WITH XDS. THE COMPOUND ELECTRON DENSITY IS SIGNIFICANTLY BETTER. DBREF 4TTH A 1 254 UNP Q01043 CGH2_SHV21 1 254 DBREF 4TTH B 1 326 UNP Q00534 CDK6_HUMAN 1 326 SEQRES 1 A 254 MET ALA ASP SER PRO ASN ARG LEU ASN ARG ALA LYS ILE SEQRES 2 A 254 ASP SER THR THR MET LYS ASP PRO ARG VAL LEU ASN ASN SEQRES 3 A 254 LEU LYS LEU ARG GLU LEU LEU LEU PRO LYS PHE THR SER SEQRES 4 A 254 LEU TRP GLU ILE GLN THR GLU VAL THR VAL ASP ASN ARG SEQRES 5 A 254 THR ILE LEU LEU THR TRP MET HIS LEU LEU CYS GLU SER SEQRES 6 A 254 PHE GLU LEU ASP LYS SER VAL PHE PRO LEU SER VAL SER SEQRES 7 A 254 ILE LEU ASP ARG TYR LEU CYS LYS LYS GLN GLY THR LYS SEQRES 8 A 254 LYS THR LEU GLN LYS ILE GLY ALA ALA CYS VAL LEU ILE SEQRES 9 A 254 GLY SER LYS ILE ARG THR VAL LYS PRO MET THR VAL SER SEQRES 10 A 254 LYS LEU THR TYR LEU SER CYS ASP CYS PHE THR ASN LEU SEQRES 11 A 254 GLU LEU ILE ASN GLN GLU LYS ASP ILE LEU GLU ALA LEU SEQRES 12 A 254 LYS TRP ASP THR GLU ALA VAL LEU ALA THR ASP PHE LEU SEQRES 13 A 254 ILE PRO LEU CYS ASN ALA LEU LYS ILE PRO GLU ASP LEU SEQRES 14 A 254 TRP PRO GLN LEU TYR GLU ALA ALA SER THR THR ILE CYS SEQRES 15 A 254 LYS ALA LEU ILE GLN PRO ASN ILE ALA LEU LEU SER PRO SEQRES 16 A 254 GLY LEU ILE CYS ALA GLY GLY LEU LEU THR THR ILE GLU SEQRES 17 A 254 THR ASP ASN THR ASN CYS ARG PRO TRP THR CYS TYR LEU SEQRES 18 A 254 GLU ASP LEU SER SER ILE LEU ASN PHE SER THR ASN THR SEQRES 19 A 254 VAL ARG THR VAL LYS ASP GLN VAL SER GLU ALA PHE SER SEQRES 20 A 254 LEU TYR ASP LEU GLU ILE LEU SEQRES 1 B 326 MET GLU LYS ASP GLY LEU CYS ARG ALA ASP GLN GLN TYR SEQRES 2 B 326 GLU CYS VAL ALA GLU ILE GLY GLU GLY ALA TYR GLY LYS SEQRES 3 B 326 VAL PHE LYS ALA ARG ASP LEU LYS ASN GLY GLY ARG PHE SEQRES 4 B 326 VAL ALA LEU LYS ARG VAL ARG VAL GLN THR GLY GLU GLU SEQRES 5 B 326 GLY MET PRO LEU SER THR ILE ARG GLU VAL ALA VAL LEU SEQRES 6 B 326 ARG HIS LEU GLU THR PHE GLU HIS PRO ASN VAL VAL ARG SEQRES 7 B 326 LEU PHE ASP VAL CYS THR VAL SER ARG THR ASP ARG GLU SEQRES 8 B 326 THR LYS LEU THR LEU VAL PHE GLU HIS VAL ASP GLN ASP SEQRES 9 B 326 LEU THR THR TYR LEU ASP LYS VAL PRO GLU PRO GLY VAL SEQRES 10 B 326 PRO THR GLU THR ILE LYS ASP MET MET PHE GLN LEU LEU SEQRES 11 B 326 ARG GLY LEU ASP PHE LEU HIS SER HIS ARG VAL VAL HIS SEQRES 12 B 326 ARG ASP LEU LYS PRO GLN ASN ILE LEU VAL THR SER SER SEQRES 13 B 326 GLY GLN ILE LYS LEU ALA ASP PHE GLY LEU ALA ARG ILE SEQRES 14 B 326 TYR SER PHE GLN MET ALA LEU THR SER VAL VAL VAL THR SEQRES 15 B 326 LEU TRP TYR ARG ALA PRO GLU VAL LEU LEU GLN SER SER SEQRES 16 B 326 TYR ALA THR PRO VAL ASP LEU TRP SER VAL GLY CYS ILE SEQRES 17 B 326 PHE ALA GLU MET PHE ARG ARG LYS PRO LEU PHE ARG GLY SEQRES 18 B 326 SER SER ASP VAL ASP GLN LEU GLY LYS ILE LEU ASP VAL SEQRES 19 B 326 ILE GLY LEU PRO GLY GLU GLU ASP TRP PRO ARG ASP VAL SEQRES 20 B 326 ALA LEU PRO ARG GLN ALA PHE HIS SER LYS SER ALA GLN SEQRES 21 B 326 PRO ILE GLU LYS PHE VAL THR ASP ILE ASP GLU LEU GLY SEQRES 22 B 326 LYS ASP LEU LEU LEU LYS CYS LEU THR PHE ASN PRO ALA SEQRES 23 B 326 LYS ARG ILE SER ALA TYR SER ALA LEU SER HIS PRO TYR SEQRES 24 B 326 PHE GLN ASP LEU GLU ARG CYS LYS GLU ASN LEU ASP SER SEQRES 25 B 326 HIS LEU PRO PRO SER GLN ASN THR SER GLU LEU ASN THR SEQRES 26 B 326 ALA HET 24V B 401 31 HETNAM 24V 9-CYCLOPENTYL-N-(5-PIPERAZIN-1-YLPYRIDIN-2-YL)PYRIDO[4, HETNAM 2 24V 5]PYRROLO[1,2-D]PYRIMIDIN-2-AMINE FORMUL 3 24V C23 H26 N8 FORMUL 4 HOH *10(H2 O) HELIX 1 AA1 ASP A 14 LYS A 19 1 6 HELIX 2 AA2 ASP A 20 GLU A 31 1 12 HELIX 3 AA3 LEU A 32 LEU A 34 5 3 HELIX 4 AA4 THR A 48 PHE A 66 1 19 HELIX 5 AA5 SER A 71 LYS A 87 1 17 HELIX 6 AA6 THR A 93 THR A 110 1 18 HELIX 7 AA7 THR A 115 LEU A 122 1 8 HELIX 8 AA8 THR A 128 LEU A 143 1 16 HELIX 9 AA9 LEU A 151 ASP A 154 5 4 HELIX 10 AB1 PHE A 155 LEU A 163 1 9 HELIX 11 AB2 PRO A 166 ASP A 168 5 3 HELIX 12 AB3 LEU A 169 LEU A 185 1 17 HELIX 13 AB4 ILE A 186 ALA A 191 5 6 HELIX 14 AB5 SER A 194 ASN A 211 1 18 HELIX 15 AB6 PRO A 216 CYS A 219 5 4 HELIX 16 AB7 TYR A 220 ASN A 229 1 10 HELIX 17 AB8 SER A 231 LEU A 248 1 18 HELIX 18 AB9 ASP A 250 LEU A 254 5 5 HELIX 19 AC1 PRO B 55 GLU B 69 1 15 HELIX 20 AC2 THR B 70 GLU B 72 5 3 HELIX 21 AC3 LEU B 105 ASP B 110 1 6 HELIX 22 AC4 PRO B 118 HIS B 139 1 22 HELIX 23 AC5 ALA B 187 LEU B 192 1 6 HELIX 24 AC6 THR B 198 ARG B 214 1 17 HELIX 25 AC7 SER B 223 GLY B 236 1 14 HELIX 26 AC8 LEU B 272 CYS B 280 1 9 HELIX 27 AC9 SER B 290 SER B 296 1 7 SHEET 1 AA1 3 VAL B 40 LYS B 43 0 SHEET 2 AA1 3 THR B 95 GLU B 99 -1 O PHE B 98 N ALA B 41 SHEET 3 AA1 3 LEU B 79 CYS B 83 -1 N PHE B 80 O VAL B 97 SHEET 1 AA2 3 GLN B 103 ASP B 104 0 SHEET 2 AA2 3 ILE B 151 VAL B 153 -1 O VAL B 153 N GLN B 103 SHEET 3 AA2 3 ILE B 159 LEU B 161 -1 O LYS B 160 N LEU B 152 SHEET 1 AA3 2 VAL B 141 VAL B 142 0 SHEET 2 AA3 2 ARG B 168 ILE B 169 -1 O ARG B 168 N VAL B 142 CISPEP 1 GLU B 114 PRO B 115 0 4.42 SITE 1 AC1 11 ILE B 19 VAL B 27 ALA B 41 PHE B 98 SITE 2 AC1 11 GLU B 99 VAL B 101 ASP B 102 ASP B 104 SITE 3 AC1 11 THR B 107 GLN B 149 LEU B 152 CRYST1 71.100 71.100 448.995 90.00 90.00 120.00 P 65 2 2 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 0.014065 0.008120 0.000000 0.00000 SCALE2 0.000000 0.016241 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002227 0.00000