HEADER TRANSFERASE 29-SEP-16 5TH7 TITLE COMPLEX OF SETD8 WITH MS453 COMPND MOL_ID: 1; COMPND 2 MOLECULE: N-LYSINE METHYLTRANSFERASE KMT5A; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 234-380; COMPND 5 SYNONYM: H4-K20-HMTASE KMT5A,HISTONE-LYSINE N-METHYLTRANSFERASE COMPND 6 KMT5A,LYSINE N-METHYLTRANSFERASE 5A,LYSINE-SPECIFIC METHYLASE 5A, COMPND 7 PR/SET DOMAIN-CONTAINING PROTEIN 07,PR/SET07,SET DOMAIN-CONTAINING COMPND 8 PROTEIN 8; COMPND 9 EC: 2.1.1.-,2.1.1.43; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: KMT5A, PRSET7, SET07, SET8, SETD8; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-V2R-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28MHL KEYWDS STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR W.YU,W.TEMPEL,N.BABAULT,A.MA,K.V.BUTLER,J.JIN,C.H.ARROWSMITH, AUTHOR 2 C.BOUNTRA,A.M.EDWARDS,P.J.BROWN,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 3 03-APR-24 5TH7 1 LINK REVDAT 2 23-MAY-18 5TH7 1 JRNL REMARK REVDAT 1 09-NOV-16 5TH7 0 JRNL AUTH K.V.BUTLER,A.MA,W.YU,F.LI,W.TEMPEL,N.BABAULT, JRNL AUTH 2 F.PITTELLA-SILVA,J.SHAO,J.WANG,M.LUO,M.VEDADI,P.J.BROWN, JRNL AUTH 3 C.H.ARROWSMITH,J.JIN JRNL TITL STRUCTURE-BASED DESIGN OF A COVALENT INHIBITOR OF THE SET JRNL TITL 2 DOMAIN-CONTAINING PROTEIN 8 (SETD8) LYSINE JRNL TITL 3 METHYLTRANSFERASE. JRNL REF J. MED. CHEM. V. 59 9881 2016 JRNL REFN ISSN 1520-4804 JRNL PMID 27804297 JRNL DOI 10.1021/ACS.JMEDCHEM.6B01244 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER-TNT 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SMART,VONRHEIN,WOMACK, REMARK 3 : MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.51 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 21340 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : THIN SHELLS (SFTOOLS) REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1066 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.000 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 11 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.04 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.32 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2688 REMARK 3 BIN R VALUE (WORKING + TEST SET) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2574 REMARK 3 BIN R VALUE (WORKING SET) : 0.2200 REMARK 3 BIN FREE R VALUE : 0.2450 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.24 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 114 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 : 2142 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 81 REMARK 3 SOLVENT ATOMS : 96 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.03 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.29 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.34000 REMARK 3 B22 (A**2) : 0.65370 REMARK 3 B33 (A**2) : -0.99370 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.79090 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.000 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.166 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.153 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.165 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.154 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 : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 2293 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 3105 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 802 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 53 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 383 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 2293 ; 20.000 ; 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 : 306 ; 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 : 2656 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.05 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.47 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 15.56 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|236 - A|378 } REMARK 3 ORIGIN FOR THE GROUP (A): -18.5484 -3.0160 150.6877 REMARK 3 T TENSOR REMARK 3 T11: -0.0472 T22: -0.0750 REMARK 3 T33: -0.0636 T12: 0.0023 REMARK 3 T13: 0.0136 T23: 0.0112 REMARK 3 L TENSOR REMARK 3 L11: 1.4729 L22: 1.2982 REMARK 3 L33: 2.6899 L12: 0.0391 REMARK 3 L13: 0.6103 L23: 0.6202 REMARK 3 S TENSOR REMARK 3 S11: -0.0590 S12: -0.1172 S13: -0.0753 REMARK 3 S21: 0.1361 S22: 0.0507 S23: -0.0565 REMARK 3 S31: -0.0538 S32: 0.1970 S33: 0.0083 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|236 - B|378 } REMARK 3 ORIGIN FOR THE GROUP (A): -38.0425 -2.7789 128.7814 REMARK 3 T TENSOR REMARK 3 T11: -0.1196 T22: -0.0458 REMARK 3 T33: -0.1539 T12: -0.0376 REMARK 3 T13: -0.0114 T23: 0.0057 REMARK 3 L TENSOR REMARK 3 L11: 5.0858 L22: 2.6305 REMARK 3 L33: 1.4251 L12: 2.0417 REMARK 3 L13: 0.7441 L23: 0.3328 REMARK 3 S TENSOR REMARK 3 S11: -0.2664 S12: 0.7495 S13: 0.0494 REMARK 3 S21: -0.2770 S22: 0.2698 S23: 0.2519 REMARK 3 S31: 0.0209 S32: -0.0796 S33: -0.0034 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: GEOMETRY RESTRAINTS FOR THE COVALENT REMARK 3 INHIBITOR WERE PREPARED WITH PRODRG AND GRADE. REMARK 4 REMARK 4 5TH7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1000221213. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-APR-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794535 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.25 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21342 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 37.510 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.84200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 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: UNPUBLISHED CRYSTALLOGRAPHIC MODEL OF HUMAN SETD8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG-3350, 0.2 M AMMONIUM FLUORIDE, REMARK 280 0.1 M SODIUM CACODYLATE, PH 5.2, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 41.57500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 15.82000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 41.57500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 15.82000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2650 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14230 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 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 GLY A 233 REMARK 465 LYS A 234 REMARK 465 SER A 235 REMARK 465 ASP A 379 REMARK 465 ARG A 380 REMARK 465 GLY B 233 REMARK 465 LYS B 234 REMARK 465 SER B 235 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 LYS A 236 N CB CG CD CE NZ REMARK 470 GLU A 238 CG CD OE1 OE2 REMARK 470 LEU A 239 CG CD1 CD2 REMARK 470 SER A 241 OG REMARK 470 GLU A 242 CG CD OE1 OE2 REMARK 470 GLU A 243 OE1 OE2 REMARK 470 LYS A 245 CG CD CE NZ REMARK 470 ARG A 246 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 249 CD OE1 OE2 REMARK 470 LYS A 255 CE NZ REMARK 470 LYS A 260 CE NZ REMARK 470 LYS A 275 NZ REMARK 470 GLU A 292 CD OE1 OE2 REMARK 470 SER A 320 OG REMARK 470 LYS A 321 CE NZ REMARK 470 ARG A 329 CZ NH1 NH2 REMARK 470 GLU A 330 CD OE1 OE2 REMARK 470 LYS A 342 CE NZ REMARK 470 SER A 343 OG REMARK 470 LYS A 349 CE NZ REMARK 470 GLY A 378 C O REMARK 470 LYS B 236 CG CD CE NZ REMARK 470 GLU B 238 CG CD OE1 OE2 REMARK 470 LEU B 239 CG CD1 CD2 REMARK 470 GLN B 240 CG CD OE1 NE2 REMARK 470 SER B 241 OG REMARK 470 GLU B 243 CG CD OE1 OE2 REMARK 470 ARG B 244 NE CZ NH1 NH2 REMARK 470 LYS B 245 CG CD CE NZ REMARK 470 ARG B 246 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 249 CD OE1 OE2 REMARK 470 LEU B 250 CG CD1 CD2 REMARK 470 GLU B 252 CG CD OE1 OE2 REMARK 470 LYS B 255 CG CD CE NZ REMARK 470 GLU B 257 CG CD OE1 OE2 REMARK 470 LYS B 260 NZ REMARK 470 LEU B 263 CG CD1 CD2 REMARK 470 LYS B 267 CG CD CE NZ REMARK 470 GLU B 292 CD OE1 OE2 REMARK 470 LEU B 302 CG CD1 CD2 REMARK 470 SER B 320 OG REMARK 470 LYS B 321 CE NZ REMARK 470 ARG B 329 NH1 NH2 REMARK 470 GLU B 330 CD OE1 OE2 REMARK 470 ASN B 332 CG OD1 ND2 REMARK 470 LYS B 342 CG CD CE NZ REMARK 470 GLN B 347 CG CD OE1 NE2 REMARK 470 LYS B 349 CE NZ REMARK 470 ARG B 380 C O CB CG CD NE CZ REMARK 470 ARG B 380 NH1 NH2 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 283 -63.71 -103.06 REMARK 500 ALA A 304 25.80 49.78 REMARK 500 LEU A 319 -123.16 61.81 REMARK 500 SER A 320 -10.86 81.76 REMARK 500 LYS B 267 -71.10 -135.82 REMARK 500 THR B 331 -169.50 -109.56 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 EDO B 401 DBREF 5TH7 A 234 380 UNP Q9NQR1 KMT5A_HUMAN 234 380 DBREF 5TH7 B 234 380 UNP Q9NQR1 KMT5A_HUMAN 234 380 SEQADV 5TH7 GLY A 233 UNP Q9NQR1 EXPRESSION TAG SEQADV 5TH7 SER A 343 UNP Q9NQR1 CYS 343 ENGINEERED MUTATION SEQADV 5TH7 GLY B 233 UNP Q9NQR1 EXPRESSION TAG SEQADV 5TH7 SER B 343 UNP Q9NQR1 CYS 343 ENGINEERED MUTATION SEQRES 1 A 148 GLY LYS SER LYS ALA GLU LEU GLN SER GLU GLU ARG LYS SEQRES 2 A 148 ARG ILE ASP GLU LEU ILE GLU SER GLY LYS GLU GLU GLY SEQRES 3 A 148 MET LYS ILE ASP LEU ILE ASP GLY LYS GLY ARG GLY VAL SEQRES 4 A 148 ILE ALA THR LYS GLN PHE SER ARG GLY ASP PHE VAL VAL SEQRES 5 A 148 GLU TYR HIS GLY ASP LEU ILE GLU ILE THR ASP ALA LYS SEQRES 6 A 148 LYS ARG GLU ALA LEU TYR ALA GLN ASP PRO SER THR GLY SEQRES 7 A 148 CYS TYR MET TYR TYR PHE GLN TYR LEU SER LYS THR TYR SEQRES 8 A 148 CYS VAL ASP ALA THR ARG GLU THR ASN ARG LEU GLY ARG SEQRES 9 A 148 LEU ILE ASN HIS SER LYS SER GLY ASN CYS GLN THR LYS SEQRES 10 A 148 LEU HIS ASP ILE ASP GLY VAL PRO HIS LEU ILE LEU ILE SEQRES 11 A 148 ALA SER ARG ASP ILE ALA ALA GLY GLU GLU LEU LEU TYR SEQRES 12 A 148 ASP TYR GLY ASP ARG SEQRES 1 B 148 GLY LYS SER LYS ALA GLU LEU GLN SER GLU GLU ARG LYS SEQRES 2 B 148 ARG ILE ASP GLU LEU ILE GLU SER GLY LYS GLU GLU GLY SEQRES 3 B 148 MET LYS ILE ASP LEU ILE ASP GLY LYS GLY ARG GLY VAL SEQRES 4 B 148 ILE ALA THR LYS GLN PHE SER ARG GLY ASP PHE VAL VAL SEQRES 5 B 148 GLU TYR HIS GLY ASP LEU ILE GLU ILE THR ASP ALA LYS SEQRES 6 B 148 LYS ARG GLU ALA LEU TYR ALA GLN ASP PRO SER THR GLY SEQRES 7 B 148 CYS TYR MET TYR TYR PHE GLN TYR LEU SER LYS THR TYR SEQRES 8 B 148 CYS VAL ASP ALA THR ARG GLU THR ASN ARG LEU GLY ARG SEQRES 9 B 148 LEU ILE ASN HIS SER LYS SER GLY ASN CYS GLN THR LYS SEQRES 10 B 148 LEU HIS ASP ILE ASP GLY VAL PRO HIS LEU ILE LEU ILE SEQRES 11 B 148 ALA SER ARG ASP ILE ALA ALA GLY GLU GLU LEU LEU TYR SEQRES 12 B 148 ASP TYR GLY ASP ARG HET 7BY A 401 28 HET UNX A 402 1 HET UNX A 403 1 HET UNX A 404 1 HET UNX A 405 1 HET UNX A 406 1 HET UNX A 407 1 HET UNX A 408 1 HET UNX A 409 1 HET UNX A 410 1 HET UNX A 411 1 HET UNX A 412 1 HET EDO B 401 4 HET 7BY B 402 28 HET UNX B 403 1 HET UNX B 404 1 HET UNX B 405 1 HET UNX B 406 1 HET UNX B 407 1 HET UNX B 408 1 HET UNX B 409 1 HET UNX B 410 1 HET UNX B 411 1 HET UNX B 412 1 HETNAM 7BY N-(3-{[6,7-DIMETHOXY-2-(PYRROLIDIN-1-YL)QUINAZOLIN-4- HETNAM 2 7BY YL]AMINO}PROPYL)PROPANAMIDE HETNAM UNX UNKNOWN ATOM OR ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 7BY 2(C20 H29 N5 O3) FORMUL 4 UNX 21(X) FORMUL 15 EDO C2 H6 O2 FORMUL 27 HOH *96(H2 O) HELIX 1 AA1 LYS A 236 GLY A 254 1 19 HELIX 2 AA2 ILE A 293 ALA A 304 1 12 HELIX 3 AA3 ASP A 306 GLY A 310 5 5 HELIX 4 AA4 LEU A 334 ILE A 338 5 5 HELIX 5 AA5 ALA B 237 GLU B 252 1 16 HELIX 6 AA6 GLU B 292 ALA B 304 1 13 HELIX 7 AA7 ASP B 306 GLY B 310 5 5 HELIX 8 AA8 LEU B 334 ILE B 338 5 5 SHEET 1 AA1 4 MET A 259 ILE A 264 0 SHEET 2 AA1 4 GLY A 268 ALA A 273 -1 O GLY A 268 N ILE A 264 SHEET 3 AA1 4 GLU A 372 TYR A 375 -1 O LEU A 373 N VAL A 271 SHEET 4 AA1 4 ASN A 339 HIS A 340 1 N ASN A 339 O TYR A 375 SHEET 1 AA2 3 PHE A 282 GLU A 285 0 SHEET 2 AA2 3 VAL A 356 ALA A 363 -1 O LEU A 361 N VAL A 284 SHEET 3 AA2 3 CYS A 346 ILE A 353 -1 N ILE A 353 O VAL A 356 SHEET 1 AA3 3 ASP A 289 GLU A 292 0 SHEET 2 AA3 3 LYS A 321 ASP A 326 -1 O ASP A 326 N ASP A 289 SHEET 3 AA3 3 MET A 313 TYR A 318 -1 N TYR A 318 O LYS A 321 SHEET 1 AA4 2 MET B 259 ILE B 264 0 SHEET 2 AA4 2 GLY B 268 ALA B 273 -1 O ILE B 272 N LYS B 260 SHEET 1 AA5 5 PHE B 282 GLU B 285 0 SHEET 2 AA5 5 VAL B 356 ALA B 363 -1 O LEU B 361 N VAL B 284 SHEET 3 AA5 5 CYS B 346 ILE B 353 -1 N HIS B 351 O HIS B 358 SHEET 4 AA5 5 LEU B 374 ASP B 376 1 O LEU B 374 N CYS B 346 SHEET 5 AA5 5 ASN B 339 HIS B 340 1 N ASN B 339 O TYR B 375 SHEET 1 AA6 3 ASP B 289 ILE B 291 0 SHEET 2 AA6 3 LYS B 321 ASP B 326 -1 O CYS B 324 N ILE B 291 SHEET 3 AA6 3 MET B 313 TYR B 318 -1 N PHE B 316 O TYR B 323 LINK SG CYS A 311 CAA 7BY B 402 1555 1555 1.80 LINK CAA 7BY A 401 SG CYS B 311 1555 1555 1.82 SITE 1 AC1 6 MET A 313 TYR A 315 MET B 313 TYR B 315 SITE 2 AC1 6 HOH B 512 HOH B 540 CRYST1 83.150 31.640 114.890 90.00 105.23 90.00 C 1 2 1 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 0.012026 0.000000 0.003274 0.00000 SCALE2 0.000000 0.031606 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009021 0.00000