HEADER TRANSFERASE 07-MAY-20 6YZH TITLE CRYSTAL STRUCTURE OF P8C9 BOUND TO CK2ALPHA COMPND MOL_ID: 1; COMPND 2 MOLECULE: CASEIN KINASE II SUBUNIT ALPHA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CK II ALPHA; COMPND 5 EC: 2.7.11.1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: P8C9; COMPND 9 CHAIN: D; COMPND 10 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, CK2A1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PHAT4; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BTK, COVALENT FRAGMENTS, SURFACE ENTROPHY REDUCTION, CRYSTAL KEYWDS 2 ENGINEERING, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.ATKINSON,J.IEGRE,P.BREAR,D.BAKER,H.SORE,M.HYVONEN,D.SPRING REVDAT 5 07-FEB-24 6YZH 1 REMARK REVDAT 4 15-NOV-23 6YZH 1 REMARK LINK ATOM REVDAT 3 19-JUL-23 6YZH 1 COMPND SOURCE REMARK SEQRES REVDAT 3 2 1 HET HETNAM FORMUL LINK REVDAT 3 3 1 ATOM REVDAT 2 29-MAR-23 6YZH 1 JRNL REVDAT 1 19-MAY-21 6YZH 0 JRNL AUTH E.L.ATKINSON,J.IEGRE,C.D'AMORE,P.BREAR,M.SALVI,M.HYVONEN, JRNL AUTH 2 D.R.SPRING JRNL TITL DEVELOPMENT OF SMALL CYCLIC PEPTIDES TARGETING THE CK2 ALPHA JRNL TITL 2 / BETA INTERFACE. JRNL REF CHEM.COMMUN.(CAMB.) V. 58 4791 2022 JRNL REFN ESSN 1364-548X JRNL PMID 35343996 JRNL DOI 10.1039/D2CC00707J REMARK 2 REMARK 2 RESOLUTION. 1.19 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 55.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.7 REMARK 3 NUMBER OF REFLECTIONS : 110272 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) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 5925 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) : 1.19 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.22 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4195 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 47.31 REMARK 3 BIN R VALUE (WORKING SET) : 0.3210 REMARK 3 BIN FREE R VALUE SET COUNT : 218 REMARK 3 BIN FREE R VALUE : 0.3310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2958 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 354 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.32 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : -0.70000 REMARK 3 B33 (A**2) : 0.49000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.09000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.041 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.042 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.031 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.732 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.968 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3219 ; 0.014 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2938 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4370 ; 1.812 ; 1.649 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6802 ; 1.476 ; 1.587 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 381 ; 6.891 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 199 ;30.077 ;20.804 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 564 ;14.060 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;19.716 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 386 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3708 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 756 ; 0.002 ; 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 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 : 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6YZH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-MAY-20. REMARK 100 THE DEPOSITION ID IS D_1292108558. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-SEP-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9762 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 116431 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.190 REMARK 200 RESOLUTION RANGE LOW (A) : 55.190 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 200 DATA REDUNDANCY : 14.50 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.19 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 56.4 REMARK 200 DATA REDUNDANCY IN SHELL : 8.20 REMARK 200 R MERGE FOR SHELL (I) : 2.47800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: 5CU6 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12 %V/V PEGSH, 0.1 M MG ACET, 0.1 M REMARK 280 KCL,0.1 M MES, PH 6.2, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K 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 32.50950 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -45.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 -46 REMARK 465 ASN A -45 REMARK 465 THR A -44 REMARK 465 ILE A -43 REMARK 465 HIS A -42 REMARK 465 HIS A -41 REMARK 465 HIS A -40 REMARK 465 HIS A -39 REMARK 465 HIS A -38 REMARK 465 HIS A -37 REMARK 465 ASN A -36 REMARK 465 THR A -35 REMARK 465 SER A -34 REMARK 465 GLY A -33 REMARK 465 SER A -32 REMARK 465 GLY A -31 REMARK 465 GLY A -30 REMARK 465 GLY A -29 REMARK 465 GLY A -21 REMARK 465 SER A -20 REMARK 465 MET A -19 REMARK 465 SER A -18 REMARK 465 GLU A -17 REMARK 465 ASN A -16 REMARK 465 LEU A -15 REMARK 465 TYR A -14 REMARK 465 PHE A -13 REMARK 465 GLN A -12 REMARK 465 GLY A -11 REMARK 465 SER A -10 REMARK 465 MET A -9 REMARK 465 ASP A -8 REMARK 465 ILE A -7 REMARK 465 GLU A -6 REMARK 465 LEU A 332 REMARK 465 TYR A 333 REMARK 465 PHE A 334 REMARK 465 GLN A 335 REMARK 465 GLY A 336 REMARK 465 SER A 337 REMARK 465 SER A 338 REMARK 465 GLY A 339 REMARK 465 SER A 340 REMARK 465 GLY A 341 REMARK 465 SER A 342 REMARK 465 GLY A 343 REMARK 465 SER A 344 REMARK 465 SER A 345 REMARK 465 HIS A 346 REMARK 465 HIS A 347 REMARK 465 HIS A 348 REMARK 465 HIS A 349 REMARK 465 HIS A 350 REMARK 465 HIS A 351 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 PHE A -5 CB CG CD1 CD2 CE1 CE2 CZ REMARK 470 ALA D 95 N CB 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 32 CD GLU A 32 OE1 0.067 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 VAL A 73 149.76 -173.23 REMARK 500 ASP A 156 46.24 -153.04 REMARK 500 ASP A 175 79.34 61.10 REMARK 500 ALA A 193 -168.81 62.95 REMARK 500 ALA A 193 -175.42 62.95 REMARK 500 MET A 208 53.89 -91.72 REMARK 500 HIS A 234 71.80 -103.82 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 MG A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 161 OD1 REMARK 620 2 ASP A 175 OD2 89.5 REMARK 620 3 ADP A 403 O1B 177.1 88.8 REMARK 620 4 ADP A 403 O1A 89.9 93.5 87.8 REMARK 620 5 HOH A 537 O 92.8 85.8 89.5 177.2 REMARK 620 6 HOH A 548 O 88.4 173.8 93.5 92.3 88.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 175 OD1 REMARK 620 2 ASP A 175 OD2 61.2 REMARK 620 3 ADP A 403 O2B 88.4 88.1 REMARK 620 4 HOH A 610 O 87.1 87.6 174.9 REMARK 620 5 HOH A 695 O 160.4 99.9 96.9 86.6 REMARK 620 6 HOH A 705 O 99.7 160.9 91.8 91.3 99.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 405 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 323 O REMARK 620 2 THR A 326 OG1 148.1 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 405 DBREF 6YZH A 3 329 UNP P68400 CSK21_HUMAN 3 329 DBREF 6YZH D 95 104 PDB 6YZH 6YZH 95 104 SEQADV 6YZH MET A -46 UNP P68400 INITIATING METHIONINE SEQADV 6YZH ASN A -45 UNP P68400 EXPRESSION TAG SEQADV 6YZH THR A -44 UNP P68400 EXPRESSION TAG SEQADV 6YZH ILE A -43 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A -42 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A -41 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A -40 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A -39 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A -38 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A -37 UNP P68400 EXPRESSION TAG SEQADV 6YZH ASN A -36 UNP P68400 EXPRESSION TAG SEQADV 6YZH THR A -35 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A -34 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A -33 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A -32 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A -31 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A -30 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A -29 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A -28 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A -27 UNP P68400 EXPRESSION TAG SEQADV 6YZH ARG A -26 UNP P68400 EXPRESSION TAG SEQADV 6YZH LEU A -25 UNP P68400 EXPRESSION TAG SEQADV 6YZH VAL A -24 UNP P68400 EXPRESSION TAG SEQADV 6YZH PRO A -23 UNP P68400 EXPRESSION TAG SEQADV 6YZH ARG A -22 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A -21 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A -20 UNP P68400 EXPRESSION TAG SEQADV 6YZH MET A -19 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A -18 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLU A -17 UNP P68400 EXPRESSION TAG SEQADV 6YZH ASN A -16 UNP P68400 EXPRESSION TAG SEQADV 6YZH LEU A -15 UNP P68400 EXPRESSION TAG SEQADV 6YZH TYR A -14 UNP P68400 EXPRESSION TAG SEQADV 6YZH PHE A -13 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLN A -12 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A -11 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A -10 UNP P68400 EXPRESSION TAG SEQADV 6YZH MET A -9 UNP P68400 EXPRESSION TAG SEQADV 6YZH ASP A -8 UNP P68400 EXPRESSION TAG SEQADV 6YZH ILE A -7 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLU A -6 UNP P68400 EXPRESSION TAG SEQADV 6YZH PHE A -5 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A -4 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLU A -3 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A -2 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLU A -1 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A 0 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A 1 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLU A 2 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A 21 UNP P68400 ARG 21 CONFLICT SEQADV 6YZH GLU A 330 UNP P68400 EXPRESSION TAG SEQADV 6YZH ASN A 331 UNP P68400 EXPRESSION TAG SEQADV 6YZH LEU A 332 UNP P68400 EXPRESSION TAG SEQADV 6YZH TYR A 333 UNP P68400 EXPRESSION TAG SEQADV 6YZH PHE A 334 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLN A 335 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A 336 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A 337 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A 338 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A 339 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A 340 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A 341 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A 342 UNP P68400 EXPRESSION TAG SEQADV 6YZH GLY A 343 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A 344 UNP P68400 EXPRESSION TAG SEQADV 6YZH SER A 345 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A 346 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A 347 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A 348 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A 349 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A 350 UNP P68400 EXPRESSION TAG SEQADV 6YZH HIS A 351 UNP P68400 EXPRESSION TAG SEQRES 1 A 398 MET ASN THR ILE HIS HIS HIS HIS HIS HIS ASN THR SER SEQRES 2 A 398 GLY SER GLY GLY GLY GLY GLY ARG LEU VAL PRO ARG GLY SEQRES 3 A 398 SER MET SER GLU ASN LEU TYR PHE GLN GLY SER MET ASP SEQRES 4 A 398 ILE GLU PHE GLY GLU GLY GLU GLY SER GLU GLY PRO VAL SEQRES 5 A 398 PRO SER ARG ALA ARG VAL TYR THR ASP VAL ASN THR HIS SEQRES 6 A 398 ARG PRO SER GLU TYR TRP ASP TYR GLU SER HIS VAL VAL SEQRES 7 A 398 GLU TRP GLY ASN GLN ASP ASP TYR GLN LEU VAL ARG LYS SEQRES 8 A 398 LEU GLY ARG GLY LYS TYR SER GLU VAL PHE GLU ALA ILE SEQRES 9 A 398 ASN ILE THR ASN ASN GLU LYS VAL VAL VAL LYS ILE LEU SEQRES 10 A 398 LYS PRO VAL LYS LYS LYS LYS ILE LYS ARG GLU ILE LYS SEQRES 11 A 398 ILE LEU GLU ASN LEU ARG GLY GLY PRO ASN ILE ILE THR SEQRES 12 A 398 LEU ALA ASP ILE VAL LYS ASP PRO VAL SER ARG THR PRO SEQRES 13 A 398 ALA LEU VAL PHE GLU HIS VAL ASN ASN THR ASP PHE LYS SEQRES 14 A 398 GLN LEU TYR GLN THR LEU THR ASP TYR ASP ILE ARG PHE SEQRES 15 A 398 TYR MET TYR GLU ILE LEU LYS ALA LEU ASP TYR CYS HIS SEQRES 16 A 398 SER MET GLY ILE MET HIS ARG ASP VAL LYS PRO HIS ASN SEQRES 17 A 398 VAL MET ILE ASP HIS GLU HIS ARG LYS LEU ARG LEU ILE SEQRES 18 A 398 ASP TRP GLY LEU ALA GLU PHE TYR HIS PRO GLY GLN GLU SEQRES 19 A 398 TYR ASN VAL ARG VAL ALA SER ARG TYR PHE LYS GLY PRO SEQRES 20 A 398 GLU LEU LEU VAL ASP TYR GLN MET TYR ASP TYR SER LEU SEQRES 21 A 398 ASP MET TRP SER LEU GLY CYS MET LEU ALA SER MET ILE SEQRES 22 A 398 PHE ARG LYS GLU PRO PHE PHE HIS GLY HIS ASP ASN TYR SEQRES 23 A 398 ASP GLN LEU VAL ARG ILE ALA LYS VAL LEU GLY THR GLU SEQRES 24 A 398 ASP LEU TYR ASP TYR ILE ASP LYS TYR ASN ILE GLU LEU SEQRES 25 A 398 ASP PRO ARG PHE ASN ASP ILE LEU GLY ARG HIS SER ARG SEQRES 26 A 398 LYS ARG TRP GLU ARG PHE VAL HIS SER GLU ASN GLN HIS SEQRES 27 A 398 LEU VAL SER PRO GLU ALA LEU ASP PHE LEU ASP LYS LEU SEQRES 28 A 398 LEU ARG TYR ASP HIS GLN SER ARG LEU THR ALA ARG GLU SEQRES 29 A 398 ALA MET GLU HIS PRO TYR PHE TYR THR VAL VAL LYS GLU SEQRES 30 A 398 ASN LEU TYR PHE GLN GLY SER SER GLY SER GLY SER GLY SEQRES 31 A 398 SER SER HIS HIS HIS HIS HIS HIS SEQRES 1 D 10 ALA ALA ARG LEU TYR GLY PHE LYS Q2E NH2 HET Q2E D 103 16 HET NH2 D 104 1 HET MG A 401 1 HET MG A 402 1 HET ADP A 403 27 HET GOL A 404 6 HET NA A 405 1 HETNAM Q2E (2~{S})-2-AZANYL-3-(2-METHYLSULFANYL-1~{H}-INDOL-3-YL) HETNAM 2 Q2E PROPANAL HETNAM NH2 AMINO GROUP HETNAM MG MAGNESIUM ION HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 Q2E C12 H14 N2 O S FORMUL 2 NH2 H2 N FORMUL 3 MG 2(MG 2+) FORMUL 5 ADP C10 H15 N5 O10 P2 FORMUL 6 GOL C3 H8 O3 FORMUL 7 NA NA 1+ FORMUL 8 HOH *354(H2 O) HELIX 1 AA1 PRO A 20 ASP A 25 1 6 HELIX 2 AA2 ASN A 35 ASP A 37 5 3 HELIX 3 AA3 LYS A 74 ARG A 89 1 16 HELIX 4 AA4 ASP A 120 TYR A 125 1 6 HELIX 5 AA5 GLN A 126 LEU A 128 5 3 HELIX 6 AA6 THR A 129 MET A 150 1 22 HELIX 7 AA7 LYS A 158 HIS A 160 5 3 HELIX 8 AA8 HIS A 166 ARG A 169 5 4 HELIX 9 AA9 SER A 194 LYS A 198 5 5 HELIX 10 AB1 GLY A 199 VAL A 204 1 6 HELIX 11 AB2 TYR A 211 ARG A 228 1 18 HELIX 12 AB3 ASP A 237 GLY A 250 1 14 HELIX 13 AB4 THR A 251 TYR A 261 1 11 HELIX 14 AB5 ARG A 268 LEU A 273 1 6 HELIX 15 AB6 ARG A 280 VAL A 285 5 6 HELIX 16 AB7 ASN A 289 VAL A 293 5 5 HELIX 17 AB8 SER A 294 LEU A 305 1 12 HELIX 18 AB9 ASP A 308 ARG A 312 5 5 HELIX 19 AC1 THR A 314 GLU A 320 1 7 HELIX 20 AC2 HIS A 321 TYR A 323 5 3 HELIX 21 AC3 PHE A 324 ASN A 331 1 8 SHEET 1 AA1 2 ARG A -26 PRO A -23 0 SHEET 2 AA1 2 HIS A 29 GLU A 32 -1 O GLU A 32 N ARG A -26 SHEET 1 AA2 5 TYR A 39 ARG A 47 0 SHEET 2 AA2 5 SER A 51 ASN A 58 -1 O GLU A 55 N VAL A 42 SHEET 3 AA2 5 LYS A 64 LEU A 70 -1 O ILE A 69 N GLU A 52 SHEET 4 AA2 5 PRO A 109 GLU A 114 -1 O LEU A 111 N LYS A 68 SHEET 5 AA2 5 LEU A 97 LYS A 102 -1 N ALA A 98 O VAL A 112 SHEET 1 AA3 2 ILE A 152 MET A 153 0 SHEET 2 AA3 2 GLU A 180 PHE A 181 -1 O GLU A 180 N MET A 153 SHEET 1 AA4 2 VAL A 162 ASP A 165 0 SHEET 2 AA4 2 LYS A 170 LEU A 173 -1 O LYS A 170 N ASP A 165 LINK CB ALA D 96 C9 Q2E D 103 1555 1555 1.58 LINK C LYS D 102 N Q2E D 103 1555 1555 1.34 LINK C Q2E D 103 N NH2 D 104 1555 1555 1.33 LINK OD1 ASN A 161 MG MG A 401 1555 1555 2.13 LINK OD2 ASP A 175 MG MG A 401 1555 1555 2.11 LINK OD1 ASP A 175 MG MG A 402 1555 1555 2.11 LINK OD2 ASP A 175 MG MG A 402 1555 1555 2.16 LINK O TYR A 323 NA NA A 405 1555 1555 2.93 LINK OG1 THR A 326 NA NA A 405 1555 1555 2.26 LINK MG MG A 401 O1B ADP A 403 1555 1555 2.11 LINK MG MG A 401 O1A ADP A 403 1555 1555 2.00 LINK MG MG A 401 O HOH A 537 1555 2544 2.11 LINK MG MG A 401 O HOH A 548 1555 2544 2.06 LINK MG MG A 402 O2B ADP A 403 1555 1555 2.03 LINK MG MG A 402 O HOH A 610 1555 1555 2.13 LINK MG MG A 402 O HOH A 695 1555 2544 2.04 LINK MG MG A 402 O HOH A 705 1555 1555 2.01 CISPEP 1 GLU A 230 PRO A 231 0 -9.08 SITE 1 AC1 3 ASN A 161 ASP A 175 ADP A 403 SITE 1 AC2 4 ASP A 175 ADP A 403 HOH A 610 HOH A 705 SITE 1 AC3 22 SER A 51 VAL A 53 VAL A 66 LYS A 68 SITE 2 AC3 22 ILE A 95 GLU A 114 VAL A 116 HIS A 160 SITE 3 AC3 22 ASN A 161 MET A 163 ILE A 174 ASP A 175 SITE 4 AC3 22 MG A 401 MG A 402 HOH A 528 HOH A 559 SITE 5 AC3 22 HOH A 583 HOH A 589 HOH A 685 HOH A 705 SITE 6 AC3 22 HOH A 721 HOH A 735 SITE 1 AC4 6 THR A 127 ASP A 132 HIS A 166 HOH A 534 SITE 2 AC4 6 HOH A 563 HOH A 588 SITE 1 AC5 6 ARG A 134 TYR A 323 PHE A 324 TYR A 325 SITE 2 AC5 6 THR A 326 VAL A 327 CRYST1 56.374 65.019 59.198 90.00 111.20 90.00 P 1 21 1 2 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 0.017739 0.000000 0.006880 0.00000 SCALE2 0.000000 0.015380 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018119 0.00000