HEADER TRANSFERASE 11-APR-19 6RCH TITLE CRYSTAL STRUCTURE OF CASEIN KINASE I ISOFORM DELTA (CK1 DELTA) TITLE 2 COMPLEXED WITH SR4133 INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: CASEIN KINASE I ISOFORM DELTA; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CKID,TAU-PROTEIN KINASE CSNK1D; COMPND 5 EC: 2.7.11.1,2.7.11.26; COMPND 6 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: CSNK1D, HCKID; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-R3-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS CK1 DELTA, CK1D, KINASE INHIBITOR, STRUCTURAL GENOMICS, STRUCTURAL KEYWDS 2 GENOMICS CONSORTIUM, SGC, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.CHAIKUAD,C.H.ARROWSMITH,A.M.EDWARDS,C.BOUNTRA,W.R.ROUSH,S.KNAPP, AUTHOR 2 STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 2 24-JAN-24 6RCH 1 LINK REVDAT 1 25-MAR-20 6RCH 0 JRNL AUTH A.CHAIKUAD,C.H.ARROWSMITH,A.M.EDWARDS,C.BOUNTRA,W.R.ROUSH, JRNL AUTH 2 S.KNAPP,STRUCTURAL GENOMICS CONSORTIUM (SGC) JRNL TITL CRYSTAL STRUCTURE OF CASEIN KINASE I ISOFORM DELTA (CK1 JRNL TITL 2 DELTA) COMPLEXED WITH SR4133 INHIBITOR JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0123 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 86.62 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 103364 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) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 5329 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7352 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.76 REMARK 3 BIN R VALUE (WORKING SET) : 0.2050 REMARK 3 BIN FREE R VALUE SET COUNT : 368 REMARK 3 BIN FREE R VALUE : 0.2050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4775 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 99 REMARK 3 SOLVENT ATOMS : 776 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.17000 REMARK 3 B22 (A**2) : 0.20000 REMARK 3 B33 (A**2) : -0.04000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.04000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.062 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.062 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.040 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.069 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5141 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4915 ; 0.010 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6942 ; 1.615 ; 1.967 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11308 ; 1.521 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 632 ; 5.947 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 247 ;33.689 ;22.672 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 940 ;12.230 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 47 ;15.896 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 722 ; 0.101 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5961 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1276 ; 0.008 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 2 292 B 2 292 34218 0.160 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 17 REMARK 3 ORIGIN FOR THE GROUP (A): -12.6530 66.7350 10.6160 REMARK 3 T TENSOR REMARK 3 T11: 0.0553 T22: 0.1840 REMARK 3 T33: 0.0685 T12: -0.0622 REMARK 3 T13: 0.0085 T23: 0.0211 REMARK 3 L TENSOR REMARK 3 L11: 3.7657 L22: 6.8960 REMARK 3 L33: 12.5626 L12: -2.8695 REMARK 3 L13: -2.9900 L23: 6.9685 REMARK 3 S TENSOR REMARK 3 S11: -0.0591 S12: 0.2023 S13: 0.3997 REMARK 3 S21: -0.2382 S22: 0.5396 S23: -0.3507 REMARK 3 S31: -0.5492 S32: 0.9357 S33: -0.4805 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 18 A 294 REMARK 3 ORIGIN FOR THE GROUP (A): -27.2370 61.0440 30.9450 REMARK 3 T TENSOR REMARK 3 T11: 0.0151 T22: 0.0247 REMARK 3 T33: 0.0149 T12: 0.0025 REMARK 3 T13: 0.0040 T23: 0.0015 REMARK 3 L TENSOR REMARK 3 L11: 0.3227 L22: 0.1074 REMARK 3 L33: 0.1849 L12: -0.0029 REMARK 3 L13: 0.0400 L23: -0.0211 REMARK 3 S TENSOR REMARK 3 S11: -0.0036 S12: 0.0058 S13: -0.0207 REMARK 3 S21: 0.0030 S22: 0.0179 S23: -0.0090 REMARK 3 S31: -0.0159 S32: 0.0025 S33: -0.0143 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 : B 1 B 70 REMARK 3 ORIGIN FOR THE GROUP (A): -15.5790 105.0790 2.3430 REMARK 3 T TENSOR REMARK 3 T11: 0.0446 T22: 0.0558 REMARK 3 T33: 0.0115 T12: -0.0170 REMARK 3 T13: -0.0044 T23: 0.0023 REMARK 3 L TENSOR REMARK 3 L11: 0.3537 L22: 0.8801 REMARK 3 L33: 2.9793 L12: 0.5382 REMARK 3 L13: -0.3024 L23: -0.8600 REMARK 3 S TENSOR REMARK 3 S11: -0.0157 S12: -0.0583 S13: 0.0231 REMARK 3 S21: 0.0015 S22: -0.0962 S23: 0.0153 REMARK 3 S31: -0.2376 S32: 0.1957 S33: 0.1119 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 : B 71 B 293 REMARK 3 ORIGIN FOR THE GROUP (A): -29.7420 97.6830 19.4730 REMARK 3 T TENSOR REMARK 3 T11: 0.0215 T22: 0.0261 REMARK 3 T33: 0.0019 T12: -0.0053 REMARK 3 T13: -0.0022 T23: 0.0018 REMARK 3 L TENSOR REMARK 3 L11: 0.3870 L22: 0.2364 REMARK 3 L33: 0.2741 L12: -0.0092 REMARK 3 L13: -0.0082 L23: 0.0551 REMARK 3 S TENSOR REMARK 3 S11: -0.0099 S12: 0.0088 S13: 0.0186 REMARK 3 S21: -0.0132 S22: 0.0121 S23: 0.0069 REMARK 3 S31: -0.0098 S32: 0.0246 S33: -0.0021 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES : WITH TLS ADDED HYDROGENS REMARK 3 HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 4 REMARK 4 6RCH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-APR-19. REMARK 100 THE DEPOSITION ID IS D_1292101789. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUL-15 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97949 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.22 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 108708 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 86.622 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.17100 REMARK 200 FOR THE DATA SET : 6.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.1 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 0.43900 REMARK 200 R SYM FOR SHELL (I) : 0.43900 REMARK 200 FOR SHELL : 3.100 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: 4HNF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG3350, 0.2M SODIUM SULFATE, 0.1M REMARK 280 CITRATE PH 5.9, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 37.03600 REMARK 290 SMTRY3 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -98.0 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 SER A -1 REMARK 465 MET A 0 REMARK 465 MET A 1 REMARK 465 SER B -1 REMARK 465 MET B 0 REMARK 465 LYS B 294 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 GLU A 2 CG CD OE1 OE2 REMARK 470 LYS B 43 CG CD CE NZ REMARK 470 LYS B 45 CG CD CE NZ REMARK 470 HIS B 46 CG ND1 CD2 CE1 NE2 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 238 CD GLU A 238 OE2 0.107 REMARK 500 GLU B 189 CD GLU B 189 OE2 -0.072 REMARK 500 GLU B 238 CD GLU B 238 OE2 -0.078 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 227 NE - CZ - NH1 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG B 115 CG - CD - NE ANGL. DEV. = -13.1 DEGREES REMARK 500 ARG B 115 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 GLU B 189 OE1 - CD - OE2 ANGL. DEV. = -9.1 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 GLN A 48 -5.67 -147.57 REMARK 500 ASN A 123 11.69 86.91 REMARK 500 ASP A 128 48.36 -149.74 REMARK 500 ASP A 149 109.19 82.29 REMARK 500 PHE B 20 41.20 -143.72 REMARK 500 GLN B 48 -1.46 -145.49 REMARK 500 ASN B 123 13.32 81.39 REMARK 500 ASP B 128 54.26 -149.29 REMARK 500 ASP B 149 96.11 76.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 309 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 194 O REMARK 620 2 SER A 198 OG 75.5 REMARK 620 3 HOH A 515 O 91.8 159.7 REMARK 620 4 HOH A 520 O 111.7 95.0 104.5 REMARK 620 5 HOH A 712 O 134.0 85.2 92.9 111.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 306 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR B 286 O REMARK 620 2 ASN B 291 OD1 89.9 REMARK 620 3 HOH B 474 O 143.4 99.1 REMARK 620 4 HOH B 673 O 139.7 83.0 76.8 REMARK 620 5 HOH B 674 O 75.2 117.2 69.1 142.4 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K0B A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 306 DBREF 6RCH A 1 294 UNP P48730 KC1D_HUMAN 1 294 DBREF 6RCH B 1 294 UNP P48730 KC1D_HUMAN 1 294 SEQADV 6RCH SER A -1 UNP P48730 EXPRESSION TAG SEQADV 6RCH MET A 0 UNP P48730 EXPRESSION TAG SEQADV 6RCH SER B -1 UNP P48730 EXPRESSION TAG SEQADV 6RCH MET B 0 UNP P48730 EXPRESSION TAG SEQRES 1 A 296 SER MET MET GLU LEU ARG VAL GLY ASN ARG TYR ARG LEU SEQRES 2 A 296 GLY ARG LYS ILE GLY SER GLY SER PHE GLY ASP ILE TYR SEQRES 3 A 296 LEU GLY THR ASP ILE ALA ALA GLY GLU GLU VAL ALA ILE SEQRES 4 A 296 LYS LEU GLU CYS VAL LYS THR LYS HIS PRO GLN LEU HIS SEQRES 5 A 296 ILE GLU SER LYS ILE TYR LYS MET MET GLN GLY GLY VAL SEQRES 6 A 296 GLY ILE PRO THR ILE ARG TRP CYS GLY ALA GLU GLY ASP SEQRES 7 A 296 TYR ASN VAL MET VAL MET GLU LEU LEU GLY PRO SER LEU SEQRES 8 A 296 GLU ASP LEU PHE ASN PHE CYS SER ARG LYS PHE SER LEU SEQRES 9 A 296 LYS THR VAL LEU LEU LEU ALA ASP GLN MET ILE SER ARG SEQRES 10 A 296 ILE GLU TYR ILE HIS SER LYS ASN PHE ILE HIS ARG ASP SEQRES 11 A 296 VAL LYS PRO ASP ASN PHE LEU MET GLY LEU GLY LYS LYS SEQRES 12 A 296 GLY ASN LEU VAL TYR ILE ILE ASP PHE GLY LEU ALA LYS SEQRES 13 A 296 LYS TYR ARG ASP ALA ARG THR HIS GLN HIS ILE PRO TYR SEQRES 14 A 296 ARG GLU ASN LYS ASN LEU THR GLY THR ALA ARG TYR ALA SEQRES 15 A 296 SER ILE ASN THR HIS LEU GLY ILE GLU GLN SER ARG ARG SEQRES 16 A 296 ASP ASP LEU GLU SER LEU GLY TYR VAL LEU MET TYR PHE SEQRES 17 A 296 ASN LEU GLY SER LEU PRO TRP GLN GLY LEU LYS ALA ALA SEQRES 18 A 296 THR LYS ARG GLN LYS TYR GLU ARG ILE SER GLU LYS LYS SEQRES 19 A 296 MET SER THR PRO ILE GLU VAL LEU CYS LYS GLY TYR PRO SEQRES 20 A 296 SER GLU PHE ALA THR TYR LEU ASN PHE CYS ARG SER LEU SEQRES 21 A 296 ARG PHE ASP ASP LYS PRO ASP TYR SER TYR LEU ARG GLN SEQRES 22 A 296 LEU PHE ARG ASN LEU PHE HIS ARG GLN GLY PHE SER TYR SEQRES 23 A 296 ASP TYR VAL PHE ASP TRP ASN MET LEU LYS SEQRES 1 B 296 SER MET MET GLU LEU ARG VAL GLY ASN ARG TYR ARG LEU SEQRES 2 B 296 GLY ARG LYS ILE GLY SER GLY SER PHE GLY ASP ILE TYR SEQRES 3 B 296 LEU GLY THR ASP ILE ALA ALA GLY GLU GLU VAL ALA ILE SEQRES 4 B 296 LYS LEU GLU CYS VAL LYS THR LYS HIS PRO GLN LEU HIS SEQRES 5 B 296 ILE GLU SER LYS ILE TYR LYS MET MET GLN GLY GLY VAL SEQRES 6 B 296 GLY ILE PRO THR ILE ARG TRP CYS GLY ALA GLU GLY ASP SEQRES 7 B 296 TYR ASN VAL MET VAL MET GLU LEU LEU GLY PRO SER LEU SEQRES 8 B 296 GLU ASP LEU PHE ASN PHE CYS SER ARG LYS PHE SER LEU SEQRES 9 B 296 LYS THR VAL LEU LEU LEU ALA ASP GLN MET ILE SER ARG SEQRES 10 B 296 ILE GLU TYR ILE HIS SER LYS ASN PHE ILE HIS ARG ASP SEQRES 11 B 296 VAL LYS PRO ASP ASN PHE LEU MET GLY LEU GLY LYS LYS SEQRES 12 B 296 GLY ASN LEU VAL TYR ILE ILE ASP PHE GLY LEU ALA LYS SEQRES 13 B 296 LYS TYR ARG ASP ALA ARG THR HIS GLN HIS ILE PRO TYR SEQRES 14 B 296 ARG GLU ASN LYS ASN LEU THR GLY THR ALA ARG TYR ALA SEQRES 15 B 296 SER ILE ASN THR HIS LEU GLY ILE GLU GLN SER ARG ARG SEQRES 16 B 296 ASP ASP LEU GLU SER LEU GLY TYR VAL LEU MET TYR PHE SEQRES 17 B 296 ASN LEU GLY SER LEU PRO TRP GLN GLY LEU LYS ALA ALA SEQRES 18 B 296 THR LYS ARG GLN LYS TYR GLU ARG ILE SER GLU LYS LYS SEQRES 19 B 296 MET SER THR PRO ILE GLU VAL LEU CYS LYS GLY TYR PRO SEQRES 20 B 296 SER GLU PHE ALA THR TYR LEU ASN PHE CYS ARG SER LEU SEQRES 21 B 296 ARG PHE ASP ASP LYS PRO ASP TYR SER TYR LEU ARG GLN SEQRES 22 B 296 LEU PHE ARG ASN LEU PHE HIS ARG GLN GLY PHE SER TYR SEQRES 23 B 296 ASP TYR VAL PHE ASP TRP ASN MET LEU LYS HET SO4 A 301 5 HET SO4 A 302 5 HET SO4 A 303 5 HET EDO A 304 4 HET EDO A 305 4 HET EDO A 306 4 HET EDO A 307 4 HET EDO A 308 8 HET NA A 309 1 HET K0B A 310 38 HET SO4 B 301 5 HET SO4 B 302 5 HET SO4 B 303 5 HET SO4 B 304 5 HET EDO B 305 4 HET NA B 306 1 HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM NA SODIUM ION HETNAM K0B ~{N}-[[4,5-BIS(FLUORANYL)-1~{H}-BENZIMIDAZOL-2- HETNAM 2 K0B YL]METHYL]-2-MORPHOLIN-4-YL-9-NAPHTHALEN-2-YL-PURIN-6- HETNAM 3 K0B AMINE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 SO4 7(O4 S 2-) FORMUL 6 EDO 6(C2 H6 O2) FORMUL 11 NA 2(NA 1+) FORMUL 12 K0B C27 H22 F2 N8 O FORMUL 19 HOH *776(H2 O) HELIX 1 AA1 GLN A 48 GLN A 60 1 13 HELIX 2 AA2 SER A 88 CYS A 96 1 9 HELIX 3 AA3 SER A 101 LYS A 122 1 22 HELIX 4 AA4 LYS A 130 ASP A 132 5 3 HELIX 5 AA5 LEU A 138 GLY A 142 5 5 HELIX 6 AA6 THR A 176 ALA A 180 5 5 HELIX 7 AA7 SER A 181 LEU A 186 1 6 HELIX 8 AA8 SER A 191 GLY A 209 1 19 HELIX 9 AA9 THR A 220 THR A 235 1 16 HELIX 10 AB1 PRO A 236 CYS A 241 1 6 HELIX 11 AB2 PRO A 245 LEU A 258 1 14 HELIX 12 AB3 ASP A 265 GLN A 280 1 16 HELIX 13 AB4 PHE A 288 LEU A 293 5 6 HELIX 14 AB5 GLN B 48 GLN B 60 1 13 HELIX 15 AB6 SER B 88 CYS B 96 1 9 HELIX 16 AB7 SER B 101 LYS B 122 1 22 HELIX 17 AB8 LYS B 130 ASP B 132 5 3 HELIX 18 AB9 LEU B 138 GLY B 142 5 5 HELIX 19 AC1 THR B 176 ALA B 180 5 5 HELIX 20 AC2 SER B 181 LEU B 186 1 6 HELIX 21 AC3 SER B 191 GLY B 209 1 19 HELIX 22 AC4 THR B 220 THR B 235 1 16 HELIX 23 AC5 PRO B 236 CYS B 241 1 6 HELIX 24 AC6 PRO B 245 LEU B 258 1 14 HELIX 25 AC7 ASP B 265 GLN B 280 1 16 HELIX 26 AC8 PHE B 288 LEU B 293 5 6 SHEET 1 AA1 6 ARG A 4 VAL A 5 0 SHEET 2 AA1 6 TYR A 9 GLY A 18 -1 O TYR A 9 N VAL A 5 SHEET 3 AA1 6 GLY A 21 ASP A 28 -1 O LEU A 25 N GLY A 12 SHEET 4 AA1 6 GLU A 33 CYS A 41 -1 O GLU A 33 N ASP A 28 SHEET 5 AA1 6 TYR A 77 GLU A 83 -1 O MET A 82 N ALA A 36 SHEET 6 AA1 6 ILE A 68 GLU A 74 -1 N TRP A 70 O VAL A 81 SHEET 1 AA2 2 PHE A 124 ILE A 125 0 SHEET 2 AA2 2 LYS A 154 LYS A 155 -1 O LYS A 154 N ILE A 125 SHEET 1 AA3 2 PHE A 134 MET A 136 0 SHEET 2 AA3 2 VAL A 145 ILE A 147 -1 O TYR A 146 N LEU A 135 SHEET 1 AA4 6 ARG B 4 VAL B 5 0 SHEET 2 AA4 6 TYR B 9 GLY B 18 -1 O TYR B 9 N VAL B 5 SHEET 3 AA4 6 GLY B 21 ASP B 28 -1 O LEU B 25 N GLY B 12 SHEET 4 AA4 6 GLU B 33 CYS B 41 -1 O GLU B 33 N ASP B 28 SHEET 5 AA4 6 TYR B 77 MET B 82 -1 O ASN B 78 N GLU B 40 SHEET 6 AA4 6 ILE B 68 GLU B 74 -1 N GLU B 74 O TYR B 77 SHEET 1 AA5 2 PHE B 124 ILE B 125 0 SHEET 2 AA5 2 LYS B 154 LYS B 155 -1 O LYS B 154 N ILE B 125 SHEET 1 AA6 2 PHE B 134 MET B 136 0 SHEET 2 AA6 2 VAL B 145 ILE B 147 -1 O TYR B 146 N LEU B 135 LINK O ASP A 194 NA NA A 309 1555 1555 2.72 LINK OG SER A 198 NA NA A 309 1555 1555 2.39 LINK NA NA A 309 O HOH A 515 1555 1555 2.24 LINK NA NA A 309 O HOH A 520 1555 1555 2.44 LINK NA NA A 309 O HOH A 712 1555 1555 2.33 LINK O TYR B 286 NA NA B 306 1555 1555 2.20 LINK OD1 ASN B 291 NA NA B 306 1555 1555 2.46 LINK NA NA B 306 O HOH B 474 1555 2445 2.25 LINK NA NA B 306 O HOH B 673 1555 1555 2.74 LINK NA NA B 306 O HOH B 674 1555 1555 2.95 SITE 1 AC1 7 ARG A 178 GLN A 214 GLY A 215 LYS A 224 SITE 2 AC1 7 HOH A 488 HOH A 525 HOH A 564 SITE 1 AC2 5 ARG A 127 LYS A 154 GLU A 189 EDO A 306 SITE 2 AC2 5 HOH A 669 SITE 1 AC3 7 ARG A 157 ARG A 192 LYS A 263 HOH A 426 SITE 2 AC3 7 HOH A 450 HOH A 609 HOH A 655 SITE 1 AC4 9 LYS A 43 THR A 44 LYS A 45 PHE A 100 SITE 2 AC4 9 LEU A 102 ASN A 207 HOH A 412 HOH A 415 SITE 3 AC4 9 HOH A 645 SITE 1 AC5 5 PHE A 277 TYR A 284 HOH A 418 HOH A 607 SITE 2 AC5 5 HOH A 613 SITE 1 AC6 5 LYS A 171 ASN A 172 THR A 174 SO4 A 302 SITE 2 AC6 5 HOH A 519 SITE 1 AC7 4 TYR A 167 HOH A 438 HOH A 452 HOH A 614 SITE 1 AC8 7 ARG A 168 LYS A 171 HOH A 425 HOH A 453 SITE 2 AC8 7 HOH A 462 HOH A 465 HOH A 482 SITE 1 AC9 5 ASP A 194 SER A 198 HOH A 515 HOH A 520 SITE 2 AC9 5 HOH A 712 SITE 1 AD1 19 ARG A 13 ILE A 15 GLY A 16 ILE A 23 SITE 2 AD1 19 LEU A 25 ALA A 36 GLU A 52 TYR A 56 SITE 3 AD1 19 MET A 82 GLU A 83 LEU A 84 LEU A 85 SITE 4 AD1 19 GLY A 86 LEU A 135 ASP A 149 HOH A 411 SITE 5 AD1 19 HOH A 424 HOH A 695 HOH A 775 SITE 1 AD2 9 ARG B 178 GLN B 214 GLY B 215 LYS B 224 SITE 2 AD2 9 HOH B 409 HOH B 442 HOH B 553 HOH B 566 SITE 3 AD2 9 HOH B 664 SITE 1 AD3 4 ARG B 127 LYS B 154 LYS B 171 HOH B 669 SITE 1 AD4 4 ARG B 157 HIS B 162 LYS B 263 HOH B 591 SITE 1 AD5 3 SER B 267 ARG B 270 ARG B 274 SITE 1 AD6 4 GLU B 33 THR B 67 ILE B 68 GLU B 83 SITE 1 AD7 5 ASN B 143 TYR B 286 ASN B 291 HOH B 673 SITE 2 AD7 5 HOH B 674 CRYST1 49.106 74.072 88.967 90.00 103.18 90.00 P 1 21 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 0.020364 0.000000 0.004771 0.00000 SCALE2 0.000000 0.013500 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011544 0.00000