PDB Short entry for 4ANM HEADER TRANSFERASE 20-MAR-12 4ANM TITLE COMPLEX OF CK2 WITH A CDC7 INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: CASEIN KINASE II SUBUNIT ALPHA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN, RESIDUES 2-332; COMPND 5 SYNONYM: CK II, CK2-ALPHA, CK2; COMPND 6 EC: 2.7.11.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ZEA MAYS; SOURCE 3 ORGANISM_COMMON: MAIZE; SOURCE 4 ORGANISM_TAXID: 4577; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR T.J.STOUT REVDAT 1 23-MAY-12 4ANM 0 JRNL AUTH E.S.KOLTUN,A.L.TSUHAKO,D.S.BROWN,N.AAY,A.ARCALAS,V.CHAN, JRNL AUTH 2 H.DU,S.ENGST,K.FERGUSON,M.FRANZINI,A.GALAN,C.R.HOLST, JRNL AUTH 3 P.HUANG,B.KANE,M.H.KIM,J.LI,D.MARKBY,M.MOHAN,K.NOSON, JRNL AUTH 4 A.PLONOWSKI,S.J.RICHARDS,S.ROBERTSON,K.SHAW,G.STOTT, JRNL AUTH 5 T.J.STOUT,J.YOUNG,P.YU,C.A.ZAHARIA,W.ZHANG,P.ZHOU,J.M.NUSS, JRNL AUTH 6 W.XU,P.C.KEARNEY JRNL TITL DISCOVERY OF XL413, A POTENT AND SELECTIVE CDC7 INHIBITOR. JRNL REF BIOORG.MED.CHEM.LETT. V. 22 3727 2012 JRNL REFN ISSN 0960-894X JRNL PMID 22560567 JRNL DOI 10.1016/J.BMCL.2012.04.024 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : NONE REMARK 3 COMPLETENESS FOR RANGE (%) : 97.99 REMARK 3 NUMBER OF REFLECTIONS : 38012 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) : 0.16636 REMARK 3 R VALUE (WORKING SET) : 0.16444 REMARK 3 FREE R VALUE : 0.20184 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.0 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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) : 1.700 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.744 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2480 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.41 REMARK 3 BIN R VALUE (WORKING SET) : 0.203 REMARK 3 BIN FREE R VALUE SET COUNT : 127 REMARK 3 BIN FREE R VALUE : 0.283 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2747 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 356 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.738 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00 REMARK 3 B22 (A**2) : 0.00 REMARK 3 B33 (A**2) : 0.00 REMARK 3 B12 (A**2) : 0.00 REMARK 3 B13 (A**2) : 0.00 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.100 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.101 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.062 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.839 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2843 ; 0.032 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3850 ; 2.373 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 333 ; 6.054 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 146 ;36.442 ;23.904 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 514 ;13.686 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;17.271 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 405 ; 0.295 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2169 ; 0.015 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1403 ; 0.229 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1949 ; 0.322 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 286 ; 0.178 ; 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): 49 ; 0.403 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 24 ; 0.375 ; 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): 1708 ; 1.821 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2667 ; 2.435 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1385 ; 4.275 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1180 ; 5.840 ; 4.500 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 : BABINET MODEL WITH MASK 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 4ANM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-MAR-12. REMARK 100 THE PDBE ID CODE IS EBI-51794. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-FEB-07 REMARK 200 TEMPERATURE (KELVIN) : 155 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97946 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD(QUANTUM 315R) REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40017 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.70 REMARK 200 RESOLUTION RANGE LOW (A) : 36.71 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NONE REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 3.6 REMARK 200 R MERGE (I) : 0.03 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 31.58 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.1 REMARK 200 R MERGE FOR SHELL (I) : 0.13 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 7.90 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: IN-HOUSE CK2 APO STRUCTURE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG4K, 200 MM NAOAC, 100 MM TRIS, REMARK 280 PH 8.0 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 71.03050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.27450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 71.03050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.27450 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2167 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2322 LIES ON A SPECIAL POSITION. 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 GLY A 5 REMARK 465 ARG A 334 REMARK 465 THR A 335 REMARK 465 ARG A 336 REMARK 465 ALA A 337 REMARK 465 GLU A 338 REMARK 465 PHE A 339 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 NZ LYS A 8 O HOH A 2009 2.10 REMARK 500 OH TYR A 26 O HOH A 2043 2.16 REMARK 500 OE1 GLU A 40 O HOH A 2074 2.06 REMARK 500 OH TYR A 257 O HOH A 2255 1.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NZ LYS A 107 OE2 GLU A 187 4555 2.03 REMARK 500 CD GLN A 325 O HOH A 2012 2555 1.58 REMARK 500 OE1 GLN A 325 O HOH A 2012 2555 1.58 REMARK 500 NE2 GLN A 325 O HOH A 2012 2555 1.98 REMARK 500 O HOH A 2168 O HOH A 2168 2555 1.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 22 CB GLU A 22 CG 0.118 REMARK 500 TYR A 115 CD1 TYR A 115 CE1 -0.144 REMARK 500 TYR A 115 CD2 TYR A 115 CE2 -0.138 REMARK 500 TYR A 115 CE1 TYR A 115 CZ -0.097 REMARK 500 TYR A 115 CE2 TYR A 115 CZ -0.109 REMARK 500 TYR A 115 CG TYR A 115 CD1 -0.084 REMARK 500 TYR A 131 CD2 TYR A 131 CE2 0.104 REMARK 500 GLU A 230 CD GLU A 230 OE2 0.080 REMARK 500 TYR A 261 CD2 TYR A 261 CE2 0.104 REMARK 500 SER A 294 CB SER A 294 OG 0.083 REMARK 500 GLN A 325 CG GLN A 325 CD -0.165 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 14 CB - CG - OD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ASP A 99 CB - CG - OD2 ANGL. DEV. = -5.9 DEGREES REMARK 500 VAL A 123 CG1 - CB - CG2 ANGL. DEV. = 11.0 DEGREES REMARK 500 ARG A 155 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 MET A 221 CG - SD - CE ANGL. DEV. = -10.3 DEGREES REMARK 500 ARG A 228 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 ASP A 237 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP A 302 CB - CG - OD2 ANGL. DEV. = -6.2 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 156 44.21 -154.38 REMARK 500 ASP A 175 71.96 60.52 REMARK 500 ALA A 193 -173.69 57.54 REMARK 500 ASP A 208 59.05 -93.46 REMARK 500 TYR A 234 68.99 -104.59 REMARK 500 VAL A 293 50.51 -92.49 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 VAL A 123 24.5 L L OUTSIDE RANGE 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 WUL A1334 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DAW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A BINARY COMPLEX OF PROTEIN REMARK 900 KINASE CK2(ALPHA-SUBUNIT) AND MG-AMPPNP REMARK 900 RELATED ID: 1DAY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A BINARY COMPLEX OF PROTEIN REMARK 900 KINASE CK2(ALPHA-SUBUNIT) AND MG-GMPPNP REMARK 900 RELATED ID: 1DS5 RELATED DB: PDB REMARK 900 DIMERIC CRYSTAL STRUCTURE OF THE ALPHA SUBUNIT IN REMARK 900 COMPLEXWITH TWO BETA PEPTIDES MIMICKING THE ARCHITECTURE REMARK 900 OF THETETRAMERIC PROTEIN KINASE CK2 HOLOENZYME. REMARK 900 RELATED ID: 1F0Q RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE ALPHA SUBUNIT OF PROTEIN REMARK 900 KINASECK2 IN COMPLEX WITH THE NUCLEOTIDE COMPETITIVE REMARK 900 INHIBITOREMODIN REMARK 900 RELATED ID: 1J91 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF Z. MAYS CK2 KINASE ALPHA SUBUNIT REMARK 900 INCOMPLEX WITH THE ATP-COMPETITIVE INHIBITOR 4,5,6, REMARK 900 7-TETRABROMOBENZOTRIAZOLE REMARK 900 RELATED ID: 1JAM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF APO-FORM OF Z. MAYS CK2 PROTEIN REMARK 900 KINASEALPHA SUBUNIT REMARK 900 RELATED ID: 1LP4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A BINARY COMPLEX OF THE REMARK 900 CATALYTICSUBUNIT OF PROTEIN KINASE CK2 WITH MG-AMPPNP REMARK 900 RELATED ID: 1LPU RELATED DB: PDB REMARK 900 LOW TEMPERATURE CRYSTAL STRUCTURE OF THE APO-FORM OF REMARK 900 THECATALYTIC SUBUNIT OF PROTEIN KINASE CK2 FROM ZEA REMARK 900 MAYS REMARK 900 RELATED ID: 1LR4 RELATED DB: PDB REMARK 900 ROOM TEMPERATURE CRYSTAL STRUCTURE OF THE APO-FORM OF REMARK 900 THECATALYTIC SUBUNIT OF PROTEIN KINASE CK2 FROM ZEA REMARK 900 MAYS REMARK 900 RELATED ID: 1M2P RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 1,8-DI-HYDROXY-4-NITRO- REMARK 900 ANTHRAQUINONE/CK2 KINASE COMPLEX REMARK 900 RELATED ID: 1M2Q RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 1,8-DI-HYDROXY-4-NITRO-XANTEN- REMARK 900 9-ONE/CK2 KINASE COMPLEX REMARK 900 RELATED ID: 1M2R RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 5,8-DI-AMINO-1,4-DI-HYDROXY- REMARK 900 ANTHRAQUINONE/CK2 KINASE COMPLEX REMARK 900 RELATED ID: 1OM1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MAIZE CK2 ALPHA IN COMPLEX WITH REMARK 900 IQA REMARK 900 RELATED ID: 1ZOE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PROTEIN KINASE CK2 IN COMPLEX REMARK 900 WITH TBB-DERIVATIVES INHIBITORS REMARK 900 RELATED ID: 1ZOG RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PROTEIN KINASE CK2 IN COMPLEX REMARK 900 WITH TBB-DERIVATIVES REMARK 900 RELATED ID: 1ZOH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PROTEIN KINASE CK2 IN COMPLEX REMARK 900 WITH TBB-DERIVATIVES INHIBITORS DBREF 4ANM A 7 337 UNP P28523 CSK2A_MAIZE 2 332 SEQADV 4ANM GLY A 5 UNP P28523 EXPRESSION TAG SEQADV 4ANM SER A 6 UNP P28523 EXPRESSION TAG SEQADV 4ANM GLU A 338 UNP P28523 EXPRESSION TAG SEQADV 4ANM PHE A 339 UNP P28523 EXPRESSION TAG SEQRES 1 A 335 GLY SER SER LYS ALA ARG VAL TYR ALA ASP VAL ASN VAL SEQRES 2 A 335 LEU ARG PRO LYS GLU TYR TRP ASP TYR GLU ALA LEU THR SEQRES 3 A 335 VAL GLN TRP GLY GLU GLN ASP ASP TYR GLU VAL VAL ARG SEQRES 4 A 335 LYS VAL GLY ARG GLY LYS TYR SER GLU VAL PHE GLU GLY SEQRES 5 A 335 ILE ASN VAL ASN ASN ASN GLU LYS CYS ILE ILE LYS ILE SEQRES 6 A 335 LEU LYS PRO VAL LYS LYS LYS LYS ILE LYS ARG GLU ILE SEQRES 7 A 335 LYS ILE LEU GLN ASN LEU CYS GLY GLY PRO ASN ILE VAL SEQRES 8 A 335 LYS LEU LEU ASP ILE VAL ARG ASP GLN HIS SER LYS THR SEQRES 9 A 335 PRO SER LEU ILE PHE GLU TYR VAL ASN ASN THR ASP PHE SEQRES 10 A 335 LYS VAL LEU TYR PRO THR LEU THR ASP TYR ASP ILE ARG SEQRES 11 A 335 TYR TYR ILE TYR GLU LEU LEU LYS ALA LEU ASP TYR CYS SEQRES 12 A 335 HIS SER GLN GLY ILE MET HIS ARG ASP VAL LYS PRO HIS SEQRES 13 A 335 ASN VAL MET ILE ASP HIS GLU LEU ARG LYS LEU ARG LEU SEQRES 14 A 335 ILE ASP TRP GLY LEU ALA GLU PHE TYR HIS PRO GLY LYS SEQRES 15 A 335 GLU TYR ASN VAL ARG VAL ALA SER ARG TYR PHE LYS GLY SEQRES 16 A 335 PRO GLU LEU LEU VAL ASP LEU GLN ASP TYR ASP TYR SER SEQRES 17 A 335 LEU ASP MET TRP SER LEU GLY CYS MET PHE ALA GLY MET SEQRES 18 A 335 ILE PHE ARG LYS GLU PRO PHE PHE TYR GLY HIS ASP ASN SEQRES 19 A 335 HIS ASP GLN LEU VAL LYS ILE ALA LYS VAL LEU GLY THR SEQRES 20 A 335 ASP GLY LEU ASN VAL TYR LEU ASN LYS TYR ARG ILE GLU SEQRES 21 A 335 LEU ASP PRO GLN LEU GLU ALA LEU VAL GLY ARG HIS SER SEQRES 22 A 335 ARG LYS PRO TRP LEU LYS PHE MET ASN ALA ASP ASN GLN SEQRES 23 A 335 HIS LEU VAL SER PRO GLU ALA ILE ASP PHE LEU ASP LYS SEQRES 24 A 335 LEU LEU ARG TYR ASP HIS GLN GLU ARG LEU THR ALA LEU SEQRES 25 A 335 GLU ALA MET THR HIS PRO TYR PHE GLN GLN VAL ARG ALA SEQRES 26 A 335 ALA GLU ASN SER ARG THR ARG ALA GLU PHE HET WUL A1334 22 HETNAM WUL 8-BROMANYL-2-[[(3S)-3-OXIDANYLPYRROLIDIN-1- HETNAM 2 WUL YL]METHYL]-3H-[1]BENZOFURO[3,2-D]PYRIMIDIN-4- HETNAM 3 WUL ONE HETSYN WUL (S)-8-BROMO-2-((3-HYDROXYPYRROLIDIN-1-YL) HETSYN 2 WUL METHYL) FORMUL 2 WUL C15 H14 BR N3 O3 FORMUL 3 HOH *356(H2 O) HELIX 1 1 ASP A 14 ARG A 19 1 6 HELIX 2 2 PRO A 20 ASP A 25 1 6 HELIX 3 3 TYR A 26 LEU A 29 5 4 HELIX 4 4 GLU A 35 ASP A 37 5 3 HELIX 5 5 LYS A 74 CYS A 89 1 16 HELIX 6 6 ASP A 120 TYR A 125 1 6 HELIX 7 7 PRO A 126 LEU A 128 5 3 HELIX 8 8 THR A 129 GLN A 150 1 22 HELIX 9 9 LYS A 158 HIS A 160 5 3 HELIX 10 10 SER A 194 LYS A 198 5 5 HELIX 11 11 GLY A 199 VAL A 204 1 6 HELIX 12 12 TYR A 211 ARG A 228 1 18 HELIX 13 13 ASP A 237 GLY A 250 1 14 HELIX 14 14 GLY A 250 TYR A 261 1 12 HELIX 15 15 ASP A 266 GLY A 274 1 9 HELIX 16 16 PRO A 280 MET A 285 5 6 HELIX 17 17 ASN A 289 VAL A 293 5 5 HELIX 18 18 SER A 294 LEU A 305 1 12 HELIX 19 19 ASP A 308 ARG A 312 5 5 HELIX 20 20 THR A 314 THR A 320 1 7 HELIX 21 21 HIS A 321 TYR A 323 5 3 HELIX 22 22 PHE A 324 SER A 333 1 10 SHEET 1 AA 5 TYR A 39 GLY A 48 0 SHEET 2 AA 5 SER A 51 ASN A 58 -1 O SER A 51 N GLY A 48 SHEET 3 AA 5 LYS A 64 LEU A 70 -1 O CYS A 65 N GLY A 56 SHEET 4 AA 5 PRO A 109 PHE A 113 -1 O PRO A 109 N LEU A 70 SHEET 5 AA 5 LEU A 97 ARG A 102 -1 N LEU A 98 O ILE A 112 SHEET 1 AB 2 ILE A 152 MET A 153 0 SHEET 2 AB 2 GLU A 180 PHE A 181 -1 O GLU A 180 N MET A 153 SHEET 1 AC 2 VAL A 162 ASP A 165 0 SHEET 2 AC 2 LYS A 170 LEU A 173 -1 O LYS A 170 N ASP A 165 CISPEP 1 GLU A 230 PRO A 231 0 -10.89 SITE 1 AC1 12 ARG A 47 VAL A 53 ILE A 66 LYS A 68 SITE 2 AC1 12 VAL A 116 HIS A 160 ASN A 161 ILE A 174 SITE 3 AC1 12 ASP A 175 HOH A2223 HOH A2231 HOH A2356 CRYST1 142.061 60.549 44.747 90.00 102.92 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 0.007039 0.000000 0.001615 0.00000 SCALE2 0.000000 0.016516 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022928 0.00000