HEADER TRANSFERASE 17-OCT-07 2RKP OBSLTE 12-MAY-09 2RKP 3H30 TITLE CRYSTAL STRUCTURE OF THE CATALYTIC SUBUNIT OF HUMAN PROTEIN TITLE 2 KINASE CK2 WITH 5,6-DICHLORO-1-BETA-D- TITLE 3 RIBOFURANOSYLBENZIMIDAZOLE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CASEIN KINASE II SUBUNIT ALPHA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC SUBUNIT; COMPND 5 SYNONYM: CK II; COMPND 6 EC: 2.7.11.1; COMPND 7 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: CSNK2A1 OR CK2A1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PT7-7 KEYWDS PROTEIN KINASE CK2, HUMAN CK2ALPHA, DRB, EUKARYOTIC PROTEIN KEYWDS 2 KINASE FOLD, PROTEIN KINASE INHIBITOR COMPLEX, ALLOSTERIC KEYWDS 3 BINDING SITE, ATP-BINDING, NUCLEOTIDE-BINDING, KEYWDS 4 SERINE/THREONINE-PROTEIN KINASE, TRANSFERASE, WNT SIGNALING KEYWDS 5 PATHWAY EXPDTA X-RAY DIFFRACTION AUTHOR K.NIEFIND,J.RAAF,O.-G.ISSINGER REVDAT 4 12-MAY-09 2RKP 1 OBSLTE REVDAT 3 24-FEB-09 2RKP 1 VERSN REVDAT 2 04-MAR-08 2RKP 1 JRNL REVDAT 1 06-NOV-07 2RKP 0 JRNL AUTH J.RAAF,E.BRUNSTEIN,O.-G.ISSINGER,K.NIEFIND JRNL TITL THE CK2ALPHA/CK2BETA INTERFACE OF HUMAN PROTEIN JRNL TITL 2 KINASE CK2 HARBORS A BINDING POCKET FOR SMALL JRNL TITL 3 MOLECULES JRNL REF CHEM.BIOL. V. 15 111 2008 JRNL REFN ISSN 1074-5521 JRNL PMID 18291315 JRNL DOI 10.1016/J.CHEMBIOL.2007.12.012 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.NIEFIND,C.W.YDE,I.ERMAKOVA,O.-G.ISSINGER REMARK 1 TITL EVOLVED TO BE ACTIVE: SULFATE IONS DEFINE REMARK 1 TITL 2 SUBSTRATE RECOGNITION SITES OF CK2ALPHA AND REMARK 1 TITL 3 EMPHASISE ITS EXCEPTIONAL ROLE WITHIN THE CMGC REMARK 1 TITL 4 FAMILY OF EUKARYOTIC PROTEIN KINASES REMARK 1 REF J.MOL.BIOL. V. 370 427 2007 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 17524418 REMARK 1 DOI 10.1016/J.JMB.2007.04.068 REMARK 1 REFERENCE 2 REMARK 1 AUTH I.ERMAKOVA,B.BOLDYREFF,O.-G.ISSINGER,K.NIEFIND REMARK 1 TITL CRYSTAL STRUCTURE OF A C-TERMINAL DELETION MUTANT REMARK 1 TITL 2 OF HUMAN PROTEIN KINASE CK2 CATALYTIC SUBUNIT REMARK 1 REF J.MOL.BIOL. V. 330 925 2003 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 12860116 REMARK 1 DOI 10.1016/S0022-2836(03)00638-7 REMARK 2 REMARK 2 RESOLUTION. 1.56 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) : 1.56 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 47169 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) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.144 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1464 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) : 1.56 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.60 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3318 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.1360 REMARK 3 BIN FREE R VALUE SET COUNT : 105 REMARK 3 BIN FREE R VALUE : 0.2350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2861 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 56 REMARK 3 SOLVENT ATOMS : 338 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.29000 REMARK 3 B22 (A**2) : -0.29000 REMARK 3 B33 (A**2) : 0.57000 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): 0.101 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.084 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.055 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.322 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2981 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2071 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4044 ; 1.583 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4970 ; 0.972 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 343 ; 5.945 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 160 ;32.094 ;23.188 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 523 ;14.041 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;21.061 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 418 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3302 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 647 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 718 ; 0.229 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2325 ; 0.206 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1493 ; 0.190 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1504 ; 0.091 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 232 ; 0.188 ; 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): 24 ; 0.169 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 95 ; 0.236 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 43 ; 0.194 ; 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): 2196 ; 4.376 ; 6.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 678 ; 2.579 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2765 ; 4.996 ; 9.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1556 ; 4.767 ; 6.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1279 ; 6.211 ; 9.000 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 6364 ; 2.441 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 354 ; 9.770 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 4968 ; 4.150 ; 3.000 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 REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 2RKP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-OCT-07. REMARK 100 THE RCSB ID CODE IS RCSB044976. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-SEP-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X12 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI [111], REMARK 200 HORIZONTALY FOCUSSING REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47228 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.560 REMARK 200 RESOLUTION RANGE LOW (A) : 24.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : 0.06000 REMARK 200 FOR THE DATA SET : 11.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.56 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.62 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 0.60900 REMARK 200 R SYM FOR SHELL (I) : 0.60900 REMARK 200 FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1YMI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5M AMMONIUM SULFATE, 0.2M TRI- REMARK 280 SODIUM CITRATE, 0.2M K/NA TARTRATE PH 5.6, THE ENZYME WAS REMARK 280 PREINCUBATED WITH 5,6-DICHLORO-1-BETA-D- REMARK 280 RIBOFURANOSYLBENZIMIDAZOLE, PH 8.5, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 62.89350 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 35.75200 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 35.75200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 94.34025 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 35.75200 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 35.75200 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 31.44675 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 35.75200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 35.75200 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 94.34025 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 35.75200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 35.75200 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 31.44675 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 62.89350 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: MONOMERIC 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7330 ANGSTROM**2 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 350 BIOMT1 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 62.89350 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 A 679 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 680 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 MET A 1 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLN A 36 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 CG GLU A 114 O HOH A 615 1.87 REMARK 500 OE2 GLU A 320 O HOH A 655 2.04 REMARK 500 O HOH A 581 O HOH A 657 2.05 REMARK 500 OG SER A 194 O HOH A 356 2.13 REMARK 500 NE2 GLN A 36 O LYS A 102 2.16 REMARK 500 O HOH A 587 O HOH A 647 2.17 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 GLN A 36 CB GLN A 36 CG -0.168 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 ARG A 172 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 172 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 228 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 228 NE - CZ - NH2 ANGL. DEV. = -3.6 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 ASN A 118 52.77 -91.12 REMARK 500 ASP A 156 42.91 -147.02 REMARK 500 ASP A 175 78.12 49.46 REMARK 500 ALA A 193 155.03 66.02 REMARK 500 MET A 208 51.48 -93.81 REMARK 500 ASP A 210 -158.12 -150.85 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 CL A 336 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 337 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 338 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 339 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 340 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 341 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 342 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 343 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 344 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 345 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 346 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 347 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 348 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 349 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 350 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 351 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RFZ A 352 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RFZ A 353 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PJK RELATED DB: PDB REMARK 900 ROOM TEMPERATURE STRUCTURE OF THE SAME PROTEIN IN COMPLEX REMARK 900 WITH THE NON-HYDROLYSABLE ATP ANALOGUE ADENYLYL REMARK 900 IMIDODIPHOSPHATE (AMPPNP) REMARK 900 RELATED ID: 1YMI RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH TWO POINT MUTATION NEXT TO THE ATP- REMARK 900 BINDING SITE AND WITH THE NON-HYDROLYSABLE ATP ANALOGUE REMARK 900 ADENYLYL IMIDODIPHOSPHATE (AMPPNP) AS A LIGAND REMARK 900 RELATED ID: 1LP4 RELATED DB: PDB REMARK 900 BINARY COMPLEX OF THE ORTHOLOG ENZYME FROM ZEA MAYS WITH REMARK 900 THE NON-HYDROLYSABLE ATP ANALOGUE ADENYLYL IMIDODIPHOSPHATE REMARK 900 (AMPPNP) REMARK 900 RELATED ID: 1FOQ RELATED DB: PDB REMARK 900 BINARY COMPLEX OF THE ORTHOLOG ENZYME FROM ZEA MAYS WITH REMARK 900 THE ATP-COMPETITIVE INHIBITOR EMODIN REMARK 900 RELATED ID: 2PVR RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH THE NON-HYDROLYSABLE ATP REMARK 900 ANALOGUE ADENYLYL AND WITH TWO SULFATE IONS REMARK 900 RELATED ID: 1JWH RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH A NON-CATALYTIC SUBUNIT: REMARK 900 FULL HETEROTETRAMERIC HOLOENZYME OF HUMAN PROTEIN KINASE CK2 REMARK 900 RELATED ID: 1J91 RELATED DB: PDB REMARK 900 BINARY COMPLEX OF THE ORTHOLOG ENZYME FROM ZEA MAYS WITH REMARK 900 THE ATP-COMPETITIVE INHIBITOR 4,5,6,7- REMARK 900 TETRABROMOBENZIMIDAZOLE REMARK 900 RELATED ID: 1DAY RELATED DB: PDB REMARK 900 BINARY COMPLEX OF THE ORTHOLOG ENZYME FROM ZEA MAYS WITH REMARK 900 THE NON-HYDROLYSABLE GTP ANALOGUE GUANYLYL IMIDODIPHOSPHATE REMARK 900 (GMPPNP) DBREF 2RKP A 1 335 UNP P68400 CSK21_HUMAN 1 335 SEQRES 1 A 335 MET SER GLY PRO VAL PRO SER ARG ALA ARG VAL TYR THR SEQRES 2 A 335 ASP VAL ASN THR HIS ARG PRO ARG GLU TYR TRP ASP TYR SEQRES 3 A 335 GLU SER HIS VAL VAL GLU TRP GLY ASN GLN ASP ASP TYR SEQRES 4 A 335 GLN LEU VAL ARG LYS LEU GLY ARG GLY LYS TYR SER GLU SEQRES 5 A 335 VAL PHE GLU ALA ILE ASN ILE THR ASN ASN GLU LYS VAL SEQRES 6 A 335 VAL VAL LYS ILE LEU LYS PRO VAL LYS LYS LYS LYS ILE SEQRES 7 A 335 LYS ARG GLU ILE LYS ILE LEU GLU ASN LEU ARG GLY GLY SEQRES 8 A 335 PRO ASN ILE ILE THR LEU ALA ASP ILE VAL LYS ASP PRO SEQRES 9 A 335 VAL SER ARG THR PRO ALA LEU VAL PHE GLU HIS VAL ASN SEQRES 10 A 335 ASN THR ASP PHE LYS GLN LEU TYR GLN THR LEU THR ASP SEQRES 11 A 335 TYR ASP ILE ARG PHE TYR MET TYR GLU ILE LEU LYS ALA SEQRES 12 A 335 LEU ASP TYR CYS HIS SER MET GLY ILE MET HIS ARG ASP SEQRES 13 A 335 VAL LYS PRO HIS ASN VAL MET ILE ASP HIS GLU HIS ARG SEQRES 14 A 335 LYS LEU ARG LEU ILE ASP TRP GLY LEU ALA GLU PHE TYR SEQRES 15 A 335 HIS PRO GLY GLN GLU TYR ASN VAL ARG VAL ALA SER ARG SEQRES 16 A 335 TYR PHE LYS GLY PRO GLU LEU LEU VAL ASP TYR GLN MET SEQRES 17 A 335 TYR ASP TYR SER LEU ASP MET TRP SER LEU GLY CYS MET SEQRES 18 A 335 LEU ALA SER MET ILE PHE ARG LYS GLU PRO PHE PHE HIS SEQRES 19 A 335 GLY HIS ASP ASN TYR ASP GLN LEU VAL ARG ILE ALA LYS SEQRES 20 A 335 VAL LEU GLY THR GLU ASP LEU TYR ASP TYR ILE ASP LYS SEQRES 21 A 335 TYR ASN ILE GLU LEU ASP PRO ARG PHE ASN ASP ILE LEU SEQRES 22 A 335 GLY ARG HIS SER ARG LYS ARG TRP GLU ARG PHE VAL HIS SEQRES 23 A 335 SER GLU ASN GLN HIS LEU VAL SER PRO GLU ALA LEU ASP SEQRES 24 A 335 PHE LEU ASP LYS LEU LEU ARG TYR ASP HIS GLN SER ARG SEQRES 25 A 335 LEU THR ALA ARG GLU ALA MET GLU HIS PRO TYR PHE TYR SEQRES 26 A 335 THR VAL VAL LYS ASP GLN ALA ARG MET GLY HET CL A 336 1 HET CL A 337 1 HET CL A 338 1 HET CL A 339 1 HET CL A 340 1 HET CL A 341 1 HET CL A 342 1 HET CL A 343 1 HET CL A 344 1 HET CL A 345 1 HET CL A 346 1 HET CL A 347 1 HET CL A 348 1 HET CL A 349 1 HET CL A 350 1 HET CL A 351 1 HET RFZ A 352 20 HET RFZ A 353 20 HETNAM CL CHLORIDE ION HETNAM RFZ 5,6-DICHLORO-1-BETA-D-RIBOFURANOSYL-1H-BENZIMIDAZOLE FORMUL 2 CL 16(CL 1-) FORMUL 18 RFZ 2(C12 H12 CL2 N2 O4) FORMUL 20 HOH *338(H2 O) HELIX 1 1 PRO A 20 ASP A 25 1 6 HELIX 2 2 TYR A 26 HIS A 29 5 4 HELIX 3 3 ASN A 35 ASP A 37 5 3 HELIX 4 4 LYS A 74 ARG A 89 1 16 HELIX 5 5 PHE A 121 GLN A 126 1 6 HELIX 6 6 THR A 129 MET A 150 1 22 HELIX 7 7 LYS A 158 HIS A 160 5 3 HELIX 8 8 SER A 194 LYS A 198 5 5 HELIX 9 9 GLY A 199 VAL A 204 1 6 HELIX 10 10 TYR A 211 ARG A 228 1 18 HELIX 11 11 ASP A 237 GLY A 250 1 14 HELIX 12 12 GLY A 250 TYR A 261 1 12 HELIX 13 13 ASP A 266 GLY A 274 1 9 HELIX 14 14 ARG A 280 VAL A 285 5 6 HELIX 15 15 ASN A 289 VAL A 293 5 5 HELIX 16 16 SER A 294 LEU A 305 1 12 HELIX 17 17 ASP A 308 ARG A 312 5 5 HELIX 18 18 THR A 314 GLU A 320 1 7 HELIX 19 19 HIS A 321 TYR A 325 5 5 HELIX 20 20 THR A 326 ASP A 330 5 5 SHEET 1 A 5 TYR A 39 ARG A 47 0 SHEET 2 A 5 SER A 51 ASN A 58 -1 O VAL A 53 N GLY A 46 SHEET 3 A 5 LYS A 64 LEU A 70 -1 O VAL A 67 N PHE A 54 SHEET 4 A 5 PRO A 109 GLU A 114 -1 O PHE A 113 N VAL A 66 SHEET 5 A 5 LEU A 97 LYS A 102 -1 N ALA A 98 O VAL A 112 SHEET 1 B 2 ILE A 152 MET A 153 0 SHEET 2 B 2 GLU A 180 PHE A 181 -1 O GLU A 180 N MET A 153 SHEET 1 C 2 VAL A 162 ASP A 165 0 SHEET 2 C 2 LYS A 170 LEU A 173 -1 O ARG A 172 N MET A 163 CISPEP 1 GLU A 230 PRO A 231 0 -4.74 SITE 1 AC1 2 HIS A 148 ALA A 315 SITE 1 AC2 5 LYS A 122 PRO A 159 HIS A 160 HOH A 558 SITE 2 AC2 5 HOH A 609 SITE 1 AC3 3 LYS A 68 ASP A 175 HOH A 595 SITE 1 AC4 5 ARG A 19 LYS A 170 HOH A 420 HOH A 483 SITE 2 AC4 5 HOH A 599 SITE 1 AC5 4 GLN A 40 ARG A 333 GLY A 335 HOH A 664 SITE 1 AC6 2 HOH A 362 HOH A 477 SITE 1 AC7 4 ARG A 278 ARG A 306 TYR A 307 HOH A 450 SITE 1 AC8 6 LYS A 198 ASN A 238 VAL A 293 PRO A 295 SITE 2 AC8 6 HOH A 402 HOH A 535 SITE 1 AC9 5 LYS A 303 HIS A 321 HOH A 401 HOH A 592 SITE 2 AC9 5 HOH A 656 SITE 1 BC1 5 SER A 194 ARG A 195 PRO A 295 HOH A 416 SITE 2 BC1 5 HOH A 658 SITE 1 BC2 4 HIS A 29 GLU A 32 GLU A 86 ILE A 100 SITE 1 BC3 3 LYS A 229 PHE A 232 HIS A 234 SITE 1 BC4 4 GLU A 296 HOH A 531 HOH A 537 HOH A 640 SITE 1 BC5 3 ARG A 80 ARG A 155 ASN A 189 SITE 1 BC6 2 ARG A 155 ASN A 189 SITE 1 BC7 2 LYS A 247 LYS A 329 SITE 1 BC8 11 LEU A 45 GLY A 46 ARG A 47 GLY A 48 SITE 2 BC8 11 VAL A 53 ILE A 95 VAL A 116 ASN A 118 SITE 3 BC8 11 ILE A 174 HOH A 556 HOH A 595 SITE 1 BC9 13 THR A 17 HIS A 18 ARG A 19 PRO A 20 SITE 2 BC9 13 ARG A 21 GLN A 40 LEU A 41 VAL A 101 SITE 3 BC9 13 PRO A 104 ALA A 110 HOH A 474 HOH A 530 SITE 4 BC9 13 HOH A 684 CRYST1 71.504 71.504 125.787 90.00 90.00 90.00 P 43 21 2 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 0.013985 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013985 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007950 0.00000