HEADER TRANSFERASE 03-FEB-23 8G2E TITLE PKM2 BOUND TO COMPOUND 2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRUVATE KINASE PKM; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CYTOSOLIC THYROID HORMONE-BINDING PROTEIN,CTHBP,OPA- COMPND 5 INTERACTING PROTEIN 3,OIP-3,PYRUVATE KINASE 2/3,PYRUVATE KINASE COMPND 6 MUSCLE ISOZYME,THYROID HORMONE-BINDING PROTEIN 1,THBP1,TUMOR M2-PK, COMPND 7 P58; COMPND 8 EC: 2.7.1.40; COMPND 9 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: PKM, OIP3, PK2, PK3, PKM2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ACTIVATOR, SMALL MOLECULE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.A.STUCKEY REVDAT 2 07-JUN-23 8G2E 1 JRNL REVDAT 1 17-MAY-23 8G2E 0 JRNL AUTH T.J.WUBBEN,S.CHAUDHURY,B.T.WATCH,J.A.STUCKEY,E.WEH, JRNL AUTH 2 R.FERNANDO,M.GOSWAMI,M.PAWAR,J.C.RECH,C.G.BESIRLI JRNL TITL DEVELOPMENT OF NOVEL SMALL-MOLECULE ACTIVATORS OF PYRUVATE JRNL TITL 2 KINASE MUSCLE ISOZYME 2, PKM2, TO REDUCE PHOTORECEPTOR JRNL TITL 3 APOPTOSIS. JRNL REF PHARMACEUTICALS V. 16 2023 JRNL REFN ESSN 1424-8247 JRNL PMID 37242488 JRNL DOI 10.3390/PH16050705 REMARK 2 REMARK 2 RESOLUTION. 1.84 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.84 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.66 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.8 REMARK 3 NUMBER OF REFLECTIONS : 53262 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 2709 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 51 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.84 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.85 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 72.89 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 1066 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.1939 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1005 REMARK 3 BIN R VALUE (WORKING SET) : 0.1946 REMARK 3 BIN FREE R VALUE : 0.1836 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.72 REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3901 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 96 REMARK 3 SOLVENT ATOMS : 533 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.42360 REMARK 3 B22 (A**2) : 0.06770 REMARK 3 B33 (A**2) : 0.35600 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.200 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.120 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.109 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.111 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.104 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.947 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4132 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 5627 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1446 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 750 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4114 ; 10.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 555 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 4131 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 0.89 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.21 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 14.18 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS WERE FULLY REFINED REMARK 3 WITH ZERO OCCUPANCY AT NUCLEAR POSITION. REMARK 4 REMARK 4 8G2E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-FEB-23. REMARK 100 THE DEPOSITION ID IS D_1000272091. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUN-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.12723 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53268 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.838 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.03800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 29.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.84 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.87 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.13800 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM AMMONIUM SULFATE AND 20% REMARK 280 POLYETHYLENE GLYCOL 3350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 42.40500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 57.98250 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 65.92050 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 42.40500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 57.98250 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 65.92050 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 42.40500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 57.98250 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 65.92050 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 42.40500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 57.98250 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 65.92050 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 29590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 70310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -603.0 KCAL/MOL 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 C10 YII A 601 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 963 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 969 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 -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 SER A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 SER A -8 REMARK 465 SER A -7 REMARK 465 GLY A -6 REMARK 465 LEU A -5 REMARK 465 VAL A -4 REMARK 465 PRO A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 LYS A 3 REMARK 465 PRO A 4 REMARK 465 HIS A 5 REMARK 465 SER A 6 REMARK 465 GLU A 7 REMARK 465 ALA A 8 REMARK 465 GLY A 9 REMARK 465 THR A 10 REMARK 465 ALA A 11 REMARK 465 PHE A 12 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 ILE A 13 CG1 CG2 CD1 REMARK 470 GLN A 14 CG CD OE1 NE2 REMARK 470 GLN A 16 CG CD OE1 NE2 REMARK 470 GLU A 133 CG CD OE1 OE2 REMARK 470 LYS A 135 CG CD CE NZ REMARK 470 LYS A 136 CG CD CE NZ REMARK 470 LYS A 151 CE NZ REMARK 470 LYS A 162 CG CD CE NZ REMARK 470 LYS A 166 CG CD CE NZ REMARK 470 LYS A 173 CG CD CE NZ REMARK 470 ASP A 178 CG OD1 OD2 REMARK 470 GLN A 187 CG CD OE1 NE2 REMARK 470 LYS A 206 CE NZ REMARK 470 ARG A 246 NE CZ NH1 NH2 REMARK 470 LYS A 261 CD CE NZ REMARK 470 LYS A 336 CD CE NZ REMARK 470 LYS A 337 CD CE NZ REMARK 470 LYS A 367 CE NZ REMARK 470 GLU A 396 CD OE1 OE2 REMARK 470 LEU A 401 CG CD1 CD2 REMARK 470 THR A 405 OG1 CG2 REMARK 470 SER A 406 OG REMARK 470 LYS A 504 CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 980 O HOH A 1123 2.19 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 SER A 55 14.69 -140.79 REMARK 500 LYS A 125 19.13 50.83 REMARK 500 ASP A 177 77.10 63.18 REMARK 500 ASP A 191 27.70 -147.97 REMARK 500 GLU A 198 -61.99 -94.59 REMARK 500 GLU A 272 20.13 -142.59 REMARK 500 THR A 328 122.64 83.73 REMARK 500 SER A 362 -97.88 -112.73 REMARK 500 LEU A 401 34.26 -88.92 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 616 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 272 OE1 REMARK 620 2 ASP A 296 OD2 92.2 REMARK 620 3 OXL A 604 O1 97.9 166.6 REMARK 620 4 OXL A 604 O2 89.8 90.9 80.3 REMARK 620 5 HOH A 703 O 170.9 83.6 87.6 98.3 REMARK 620 6 HOH A 838 O 90.8 99.7 89.0 169.3 82.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 617 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 418 OE1 REMARK 620 2 HOH A1129 O 112.6 REMARK 620 N 1 DBREF 8G2E A 1 531 UNP P14618 KPYM_HUMAN 1 531 SEQADV 8G2E MET A -18 UNP P14618 INITIATING METHIONINE SEQADV 8G2E GLY A -17 UNP P14618 EXPRESSION TAG SEQADV 8G2E SER A -16 UNP P14618 EXPRESSION TAG SEQADV 8G2E SER A -15 UNP P14618 EXPRESSION TAG SEQADV 8G2E HIS A -14 UNP P14618 EXPRESSION TAG SEQADV 8G2E HIS A -13 UNP P14618 EXPRESSION TAG SEQADV 8G2E HIS A -12 UNP P14618 EXPRESSION TAG SEQADV 8G2E HIS A -11 UNP P14618 EXPRESSION TAG SEQADV 8G2E HIS A -10 UNP P14618 EXPRESSION TAG SEQADV 8G2E HIS A -9 UNP P14618 EXPRESSION TAG SEQADV 8G2E SER A -8 UNP P14618 EXPRESSION TAG SEQADV 8G2E SER A -7 UNP P14618 EXPRESSION TAG SEQADV 8G2E GLY A -6 UNP P14618 EXPRESSION TAG SEQADV 8G2E LEU A -5 UNP P14618 EXPRESSION TAG SEQADV 8G2E VAL A -4 UNP P14618 EXPRESSION TAG SEQADV 8G2E PRO A -3 UNP P14618 EXPRESSION TAG SEQADV 8G2E ARG A -2 UNP P14618 EXPRESSION TAG SEQADV 8G2E GLY A -1 UNP P14618 EXPRESSION TAG SEQADV 8G2E SER A 0 UNP P14618 EXPRESSION TAG SEQRES 1 A 550 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 550 LEU VAL PRO ARG GLY SER MET SER LYS PRO HIS SER GLU SEQRES 3 A 550 ALA GLY THR ALA PHE ILE GLN THR GLN GLN LEU HIS ALA SEQRES 4 A 550 ALA MET ALA ASP THR PHE LEU GLU HIS MET CYS ARG LEU SEQRES 5 A 550 ASP ILE ASP SER PRO PRO ILE THR ALA ARG ASN THR GLY SEQRES 6 A 550 ILE ILE CYS THR ILE GLY PRO ALA SER ARG SER VAL GLU SEQRES 7 A 550 THR LEU LYS GLU MET ILE LYS SER GLY MET ASN VAL ALA SEQRES 8 A 550 ARG LEU ASN PHE SER HIS GLY THR HIS GLU TYR HIS ALA SEQRES 9 A 550 GLU THR ILE LYS ASN VAL ARG THR ALA THR GLU SER PHE SEQRES 10 A 550 ALA SER ASP PRO ILE LEU TYR ARG PRO VAL ALA VAL ALA SEQRES 11 A 550 LEU ASP THR LYS GLY PRO GLU ILE ARG THR GLY LEU ILE SEQRES 12 A 550 LYS GLY SER GLY THR ALA GLU VAL GLU LEU LYS LYS GLY SEQRES 13 A 550 ALA THR LEU LYS ILE THR LEU ASP ASN ALA TYR MET GLU SEQRES 14 A 550 LYS CYS ASP GLU ASN ILE LEU TRP LEU ASP TYR LYS ASN SEQRES 15 A 550 ILE CYS LYS VAL VAL GLU VAL GLY SER LYS ILE TYR VAL SEQRES 16 A 550 ASP ASP GLY LEU ILE SER LEU GLN VAL LYS GLN LYS GLY SEQRES 17 A 550 ALA ASP PHE LEU VAL THR GLU VAL GLU ASN GLY GLY SER SEQRES 18 A 550 LEU GLY SER LYS LYS GLY VAL ASN LEU PRO GLY ALA ALA SEQRES 19 A 550 VAL ASP LEU PRO ALA VAL SER GLU LYS ASP ILE GLN ASP SEQRES 20 A 550 LEU LYS PHE GLY VAL GLU GLN ASP VAL ASP MET VAL PHE SEQRES 21 A 550 ALA SER PHE ILE ARG LYS ALA SER ASP VAL HIS GLU VAL SEQRES 22 A 550 ARG LYS VAL LEU GLY GLU LYS GLY LYS ASN ILE LYS ILE SEQRES 23 A 550 ILE SER LYS ILE GLU ASN HIS GLU GLY VAL ARG ARG PHE SEQRES 24 A 550 ASP GLU ILE LEU GLU ALA SER ASP GLY ILE MET VAL ALA SEQRES 25 A 550 ARG GLY ASP LEU GLY ILE GLU ILE PRO ALA GLU LYS VAL SEQRES 26 A 550 PHE LEU ALA GLN LYS MET MET ILE GLY ARG CYS ASN ARG SEQRES 27 A 550 ALA GLY LYS PRO VAL ILE CYS ALA THR GLN MET LEU GLU SEQRES 28 A 550 SER MET ILE LYS LYS PRO ARG PRO THR ARG ALA GLU GLY SEQRES 29 A 550 SER ASP VAL ALA ASN ALA VAL LEU ASP GLY ALA ASP CYS SEQRES 30 A 550 ILE MET LEU SER GLY GLU THR ALA LYS GLY ASP TYR PRO SEQRES 31 A 550 LEU GLU ALA VAL ARG MET GLN HIS LEU ILE ALA ARG GLU SEQRES 32 A 550 ALA GLU ALA ALA ILE TYR HIS LEU GLN LEU PHE GLU GLU SEQRES 33 A 550 LEU ARG ARG LEU ALA PRO ILE THR SER ASP PRO THR GLU SEQRES 34 A 550 ALA THR ALA VAL GLY ALA VAL GLU ALA SER PHE LYS CYS SEQRES 35 A 550 CYS SER GLY ALA ILE ILE VAL LEU THR LYS SER GLY ARG SEQRES 36 A 550 SER ALA HIS GLN VAL ALA ARG TYR ARG PRO ARG ALA PRO SEQRES 37 A 550 ILE ILE ALA VAL THR ARG ASN PRO GLN THR ALA ARG GLN SEQRES 38 A 550 ALA HIS LEU TYR ARG GLY ILE PHE PRO VAL LEU CYS LYS SEQRES 39 A 550 ASP PRO VAL GLN GLU ALA TRP ALA GLU ASP VAL ASP LEU SEQRES 40 A 550 ARG VAL ASN PHE ALA MET ASN VAL GLY LYS ALA ARG GLY SEQRES 41 A 550 PHE PHE LYS LYS GLY ASP VAL VAL ILE VAL LEU THR GLY SEQRES 42 A 550 TRP ARG PRO GLY SER GLY PHE THR ASN THR MET ARG VAL SEQRES 43 A 550 VAL PRO VAL PRO HET YII A 601 44 HET EDO A 602 4 HET EDO A 603 4 HET OXL A 604 6 HET EDO A 605 4 HET SO4 A 606 5 HET SO4 A 607 5 HET SO4 A 608 5 HET SO4 A 609 5 HET SO4 A 610 5 HET SO4 A 611 5 HET SO4 A 612 5 HET SO4 A 613 5 HET SO4 A 614 5 HET SO4 A 615 5 HET MG A 616 1 HET NA A 617 1 HETNAM YII 3-[(3-AMINOPHENYL)METHYL]-5-METHYL-7-[METHYL(OXIDANYL)- HETNAM 2 YII $L^{3}-SULFANYL]PYRIDAZINO[4,5-B]INDOL-4-ONE HETNAM EDO 1,2-ETHANEDIOL HETNAM OXL OXALATE ION HETNAM SO4 SULFATE ION HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 YII C19 H18 N4 O2 S FORMUL 3 EDO 3(C2 H6 O2) FORMUL 5 OXL C2 O4 2- FORMUL 7 SO4 10(O4 S 2-) FORMUL 17 MG MG 2+ FORMUL 18 NA NA 1+ FORMUL 19 HOH *533(H2 O) HELIX 1 AA1 GLN A 17 MET A 22 1 6 HELIX 2 AA2 THR A 25 ARG A 32 1 8 HELIX 3 AA3 SER A 57 GLY A 68 1 12 HELIX 4 AA4 THR A 80 SER A 97 1 18 HELIX 5 AA5 ASP A 145 MET A 149 5 5 HELIX 6 AA6 ASN A 163 VAL A 168 1 6 HELIX 7 AA7 SER A 222 GLN A 235 1 14 HELIX 8 AA8 LYS A 247 GLY A 259 1 13 HELIX 9 AA9 ASN A 273 ARG A 279 1 7 HELIX 10 AB1 ARG A 279 SER A 287 1 9 HELIX 11 AB2 ARG A 294 ILE A 301 1 8 HELIX 12 AB3 PRO A 302 GLU A 304 5 3 HELIX 13 AB4 LYS A 305 GLY A 321 1 17 HELIX 14 AB5 LEU A 331 LYS A 336 5 6 HELIX 15 AB6 THR A 341 GLY A 355 1 15 HELIX 16 AB7 SER A 362 LYS A 367 1 6 HELIX 17 AB8 TYR A 370 ALA A 388 1 19 HELIX 18 AB9 TYR A 390 LEU A 401 1 12 HELIX 19 AC1 ASP A 407 CYS A 423 1 17 HELIX 20 AC2 GLY A 435 ARG A 443 1 9 HELIX 21 AC3 ASN A 456 ALA A 463 1 8 HELIX 22 AC4 HIS A 464 TYR A 466 5 3 HELIX 23 AC5 ALA A 481 ARG A 500 1 20 SHEET 1 AA1 9 GLY A 46 THR A 50 0 SHEET 2 AA1 9 VAL A 71 ASN A 75 1 O VAL A 71 N CYS A 49 SHEET 3 AA1 9 ALA A 109 ASP A 113 1 O ALA A 111 N ALA A 72 SHEET 4 AA1 9 MET A 239 ALA A 242 1 O PHE A 241 N LEU A 112 SHEET 5 AA1 9 LYS A 266 ILE A 271 1 O ILE A 268 N VAL A 240 SHEET 6 AA1 9 GLY A 289 ALA A 293 1 O MET A 291 N ILE A 271 SHEET 7 AA1 9 VAL A 324 ALA A 327 1 O ILE A 325 N VAL A 292 SHEET 8 AA1 9 CYS A 358 LEU A 361 1 O CYS A 358 N CYS A 326 SHEET 9 AA1 9 GLY A 46 THR A 50 1 N ILE A 48 O ILE A 359 SHEET 1 AA2 7 ILE A 119 ARG A 120 0 SHEET 2 AA2 7 GLY A 208 ASN A 210 -1 O VAL A 209 N ILE A 119 SHEET 3 AA2 7 LYS A 173 VAL A 176 -1 N TYR A 175 O ASN A 210 SHEET 4 AA2 7 ILE A 181 LYS A 188 -1 O ILE A 181 N VAL A 176 SHEET 5 AA2 7 PHE A 192 ASN A 199 -1 O VAL A 194 N GLN A 187 SHEET 6 AA2 7 THR A 139 THR A 143 -1 N ILE A 142 O LEU A 193 SHEET 7 AA2 7 ILE A 156 TRP A 158 1 O LEU A 157 N LYS A 141 SHEET 1 AA3 2 VAL A 132 LEU A 134 0 SHEET 2 AA3 2 GLY A 201 LEU A 203 -1 O GLY A 201 N LEU A 134 SHEET 1 AA4 5 ILE A 469 LEU A 473 0 SHEET 2 AA4 5 ILE A 450 THR A 454 1 N ILE A 450 O PHE A 470 SHEET 3 AA4 5 ILE A 428 LEU A 431 1 N VAL A 430 O ILE A 451 SHEET 4 AA4 5 VAL A 508 GLY A 514 1 O ILE A 510 N ILE A 429 SHEET 5 AA4 5 THR A 522 PRO A 529 -1 O VAL A 528 N VAL A 509 LINK OE1 GLU A 272 MG MG A 616 1555 1555 1.94 LINK OD2 ASP A 296 MG MG A 616 1555 1555 1.95 LINK OE1 GLU A 418 NA NA A 617 1555 1555 2.23 LINK O1 OXL A 604 MG MG A 616 1555 1555 1.99 LINK O2 OXL A 604 MG MG A 616 1555 1555 2.07 LINK MG MG A 616 O HOH A 703 1555 1555 1.91 LINK MG MG A 616 O HOH A 838 1555 1555 1.96 LINK NA NA A 617 O HOH A1129 1555 3555 2.24 CRYST1 84.810 115.965 131.841 90.00 90.00 90.00 I 2 2 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 0.011791 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008623 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007585 0.00000