HEADER TRANSFERASE/INHIBITOR 29-JUN-17 5WBV TITLE CRYSTAL STRUCTURE OF THE SET DOMAIN OF HUMAN SUV420H1 IN COMPLEX WITH TITLE 2 INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE-LYSINE N-METHYLTRANSFERASE KMT5B; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: SET DOMAIN, UNP RESIDUES 63-335; COMPND 5 SYNONYM: LYSINE N-METHYLTRANSFERASE 5B,LYSINE-SPECIFIC COMPND 6 METHYLTRANSFERASE 5B,SUPPRESSOR OF VARIEGATION 4-20 HOMOLOG 1,SUV4- COMPND 7 20H1; COMPND 8 EC: 2.1.1.43; 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: KMT5B, SUV420H1, CGI-85; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-V3R-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28-MHL KEYWDS SET DOMAIN, METHYLTRANSFERASE, PROTEIN-INHIBITOR COMPLEX, SGC, KEYWDS 2 STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, TRANSFERASE, KEYWDS 3 TRANSFERASE-INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.HALABELIAN,W.TEMPEL,P.J.BROWN,C.BOUNTRA,A.M.EDWARDS,C.H.ARROWSMITH, AUTHOR 2 STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 2 04-OCT-23 5WBV 1 REMARK REVDAT 1 19-JUL-17 5WBV 0 JRNL AUTH L.HALABELIAN,W.TEMPEL,P.J.BROWN,C.BOUNTRA,A.M.EDWARDS, JRNL AUTH 2 C.H.ARROWSMITH,STRUCTURAL GENOMICS CONSORTIUM (SGC) JRNL TITL CRYSTAL STRUCTURE OF THE SET DOMAIN OF HUMAN SUV420H1 IN JRNL TITL 2 COMPLEX WITH INHIBITOR JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 26949 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) : 0.236 REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1351 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 : 14 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.39 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.94 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2717 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2510 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2587 REMARK 3 BIN R VALUE (WORKING SET) : 0.2490 REMARK 3 BIN FREE R VALUE : 0.2900 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.78 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 130 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3396 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 122 REMARK 3 SOLVENT ATOMS : 31 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 53.33 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.74 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 12.76300 REMARK 3 B22 (A**2) : -4.34880 REMARK 3 B33 (A**2) : -8.41420 REMARK 3 B12 (A**2) : -3.95350 REMARK 3 B13 (A**2) : 3.20260 REMARK 3 B23 (A**2) : -1.10170 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.380 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.271 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.219 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.290 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.228 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 : 0.889 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.867 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 3618 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 4913 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1207 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 85 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 627 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 3618 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 481 ; 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 : 4028 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.13 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.01 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 18.28 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 6.1288 44.1614 7.5616 REMARK 3 T TENSOR REMARK 3 T11: -0.1885 T22: -0.1695 REMARK 3 T33: -0.0551 T12: -0.0031 REMARK 3 T13: 0.0733 T23: -0.0469 REMARK 3 L TENSOR REMARK 3 L11: 2.2627 L22: 2.6140 REMARK 3 L33: 2.2532 L12: 0.1839 REMARK 3 L13: 0.5118 L23: -0.9663 REMARK 3 S TENSOR REMARK 3 S11: -0.0337 S12: -0.2405 S13: 0.0026 REMARK 3 S21: 0.1346 S22: -0.0174 S23: -0.1058 REMARK 3 S31: -0.0369 S32: 0.1160 S33: 0.0511 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): 4.2996 18.4688 -18.0052 REMARK 3 T TENSOR REMARK 3 T11: -0.2482 T22: -0.1871 REMARK 3 T33: -0.0842 T12: -0.0348 REMARK 3 T13: 0.0943 T23: -0.1141 REMARK 3 L TENSOR REMARK 3 L11: 1.9964 L22: 3.8530 REMARK 3 L33: 3.0571 L12: -0.2589 REMARK 3 L13: 0.4856 L23: 1.9128 REMARK 3 S TENSOR REMARK 3 S11: -0.0633 S12: 0.2578 S13: -0.0970 REMARK 3 S21: 0.0004 S22: -0.1731 S23: 0.3387 REMARK 3 S31: -0.0356 S32: -0.1062 S33: 0.2364 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5WBV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1000228753. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-MAY-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN A200 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26973 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 37.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 200 DATA REDUNDANCY : 2.200 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : 0.43500 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 3S8P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8-12% ETOH, 100MM TRIS PH 8.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 GLN A 63 REMARK 465 SER A 64 REMARK 465 ARG A 65 REMARK 465 TYR A 66 REMARK 465 VAL A 67 REMARK 465 PRO A 68 REMARK 465 SER A 69 REMARK 465 SER A 70 REMARK 465 GLY A 71 REMARK 465 THR A 102 REMARK 465 SER A 103 REMARK 465 ALA A 104 REMARK 465 PHE A 105 REMARK 465 PRO A 106 REMARK 465 SER A 107 REMARK 465 ARG A 108 REMARK 465 SER A 109 REMARK 465 SER A 110 REMARK 465 ARG A 111 REMARK 465 HIS A 112 REMARK 465 PHE A 113 REMARK 465 SER A 114 REMARK 465 LYS A 115 REMARK 465 SER A 116 REMARK 465 ASP A 117 REMARK 465 SER A 118 REMARK 465 PHE A 119 REMARK 465 SER A 120 REMARK 465 HIS A 121 REMARK 465 ASN A 122 REMARK 465 ASN A 123 REMARK 465 PRO A 124 REMARK 465 VAL A 125 REMARK 465 ARG A 126 REMARK 465 PHE A 127 REMARK 465 ARG A 128 REMARK 465 PRO A 129 REMARK 465 ILE A 130 REMARK 465 SER A 334 REMARK 465 ARG A 335 REMARK 465 GLN B 63 REMARK 465 SER B 64 REMARK 465 ARG B 65 REMARK 465 TYR B 66 REMARK 465 VAL B 67 REMARK 465 PRO B 68 REMARK 465 SER B 69 REMARK 465 SER B 70 REMARK 465 THR B 102 REMARK 465 SER B 103 REMARK 465 ALA B 104 REMARK 465 PHE B 105 REMARK 465 PRO B 106 REMARK 465 SER B 107 REMARK 465 ARG B 108 REMARK 465 SER B 109 REMARK 465 SER B 110 REMARK 465 ARG B 111 REMARK 465 HIS B 112 REMARK 465 PHE B 113 REMARK 465 SER B 114 REMARK 465 LYS B 115 REMARK 465 SER B 116 REMARK 465 ASP B 117 REMARK 465 SER B 118 REMARK 465 PHE B 119 REMARK 465 SER B 120 REMARK 465 HIS B 121 REMARK 465 ASN B 122 REMARK 465 ASN B 123 REMARK 465 PRO B 124 REMARK 465 VAL B 125 REMARK 465 ARG B 126 REMARK 465 PHE B 127 REMARK 465 ARG B 128 REMARK 465 PRO B 129 REMARK 465 ILE B 130 REMARK 465 GLY B 160 REMARK 465 GLU B 161 REMARK 465 TRP B 162 REMARK 465 ALA B 163 REMARK 465 ARG B 164 REMARK 465 HIS B 165 REMARK 465 TYR B 166 REMARK 465 SER B 334 REMARK 465 ARG B 335 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 75 CG CD CE NZ REMARK 470 GLU A 79 CG CD OE1 OE2 REMARK 470 LYS A 131 CG CD CE NZ REMARK 470 ARG A 133 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 134 CG CD OE1 NE2 REMARK 470 GLU A 135 CG CD OE1 OE2 REMARK 470 GLU A 136 CG CD OE1 OE2 REMARK 470 LYS A 138 CG CD CE NZ REMARK 470 GLU A 139 CG CD OE1 OE2 REMARK 470 ILE A 141 CG1 CG2 CD1 REMARK 470 GLU A 142 CG CD OE1 OE2 REMARK 470 LYS A 146 CG CD CE NZ REMARK 470 GLU A 148 CG CD OE1 OE2 REMARK 470 LEU A 150 CG CD1 CD2 REMARK 470 LYS A 152 CG CD CE NZ REMARK 470 LYS A 155 CD CE NZ REMARK 470 GLU A 161 CG CD OE1 OE2 REMARK 470 TRP A 162 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 162 CZ3 CH2 REMARK 470 ARG A 164 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 165 CG ND1 CD2 CE1 NE2 REMARK 470 TYR A 166 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 PHE A 167 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU A 168 CG CD1 CD2 REMARK 470 ASN A 169 CG OD1 ND2 REMARK 470 LYS A 170 CG CD CE NZ REMARK 470 LYS A 176 CG CD CE NZ REMARK 470 LYS A 179 CG CD CE NZ REMARK 470 GLU A 180 CG CD OE1 OE2 REMARK 470 ASP A 192 CG OD1 OD2 REMARK 470 GLN A 207 CG CD OE1 NE2 REMARK 470 GLU A 217 CG CD OE1 OE2 REMARK 470 LYS A 219 CD CE NZ REMARK 470 LYS A 223 CD CE NZ REMARK 470 GLU A 233 CG CD OE1 OE2 REMARK 470 MET A 241 CG SD CE REMARK 470 ARG A 276 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 286 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 298 CG CD OE1 OE2 REMARK 470 GLU A 314 CG CD OE1 OE2 REMARK 470 PHE A 318 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 327 CG CD NE CZ NH1 NH2 REMARK 470 PHE A 332 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 333 CG CD CE NZ REMARK 470 LYS B 75 CD CE NZ REMARK 470 LYS B 131 CG CD CE NZ REMARK 470 ARG B 133 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 134 CG CD OE1 NE2 REMARK 470 LYS B 138 CG CD CE NZ REMARK 470 LYS B 146 CG CD CE NZ REMARK 470 GLU B 148 CG CD OE1 OE2 REMARK 470 GLU B 151 CG CD OE1 OE2 REMARK 470 LYS B 155 CG CD CE NZ REMARK 470 LEU B 157 CG CD1 CD2 REMARK 470 PHE B 167 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU B 168 CG CD1 CD2 REMARK 470 ASN B 169 OD1 ND2 REMARK 470 LYS B 170 CG CD CE NZ REMARK 470 GLN B 174 CG CD OE1 NE2 REMARK 470 LYS B 176 CG CD CE NZ REMARK 470 LYS B 179 CD CE NZ REMARK 470 ASN B 201 CG OD1 ND2 REMARK 470 GLN B 207 CG CD OE1 NE2 REMARK 470 LYS B 211 CE NZ REMARK 470 GLU B 217 CG CD OE1 OE2 REMARK 470 LYS B 219 CE NZ REMARK 470 ARG B 276 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 286 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 287 CG OD1 OD2 REMARK 470 GLU B 298 CG CD OE1 OE2 REMARK 470 GLU B 314 CG CD OE1 OE2 REMARK 470 ASN B 315 CG OD1 ND2 REMARK 470 PHE B 318 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG B 326 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 327 CG CD NE CZ NH1 NH2 REMARK 470 THR B 329 OG1 CG2 REMARK 470 PHE B 332 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 333 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN A 169 41.90 -89.09 REMARK 500 ASN A 221 -2.19 83.81 REMARK 500 PHE A 312 59.23 -107.40 REMARK 500 GLU B 148 33.84 39.15 REMARK 500 ASN B 169 39.03 -88.06 REMARK 500 ASN B 221 -3.28 82.82 REMARK 500 PHE B 312 53.43 -107.12 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 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 275 SG REMARK 620 2 CYS A 319 SG 113.1 REMARK 620 3 CYS A 321 SG 114.3 97.1 REMARK 620 4 CYS A 324 SG 113.7 103.2 113.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 275 SG REMARK 620 2 CYS B 319 SG 112.1 REMARK 620 3 CYS B 321 SG 112.4 101.8 REMARK 620 4 CYS B 324 SG 112.3 107.1 110.5 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAM A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 9ZY A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAM B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 9ZY B 403 DBREF 5WBV A 63 335 UNP Q4FZB7 KMT5B_HUMAN 63 335 DBREF 5WBV B 63 335 UNP Q4FZB7 KMT5B_HUMAN 63 335 SEQRES 1 A 273 GLN SER ARG TYR VAL PRO SER SER GLY MET SER ALA LYS SEQRES 2 A 273 GLU LEU CYS GLU ASN ASP ASP LEU ALA THR SER LEU VAL SEQRES 3 A 273 LEU ASP PRO TYR LEU GLY PHE GLN THR HIS LYS MET ASN SEQRES 4 A 273 THR SER ALA PHE PRO SER ARG SER SER ARG HIS PHE SER SEQRES 5 A 273 LYS SER ASP SER PHE SER HIS ASN ASN PRO VAL ARG PHE SEQRES 6 A 273 ARG PRO ILE LYS GLY ARG GLN GLU GLU LEU LYS GLU VAL SEQRES 7 A 273 ILE GLU ARG PHE LYS LYS ASP GLU HIS LEU GLU LYS ALA SEQRES 8 A 273 PHE LYS CYS LEU THR SER GLY GLU TRP ALA ARG HIS TYR SEQRES 9 A 273 PHE LEU ASN LYS ASN LYS MET GLN GLU LYS LEU PHE LYS SEQRES 10 A 273 GLU HIS VAL PHE ILE TYR LEU ARG MET PHE ALA THR ASP SEQRES 11 A 273 SER GLY PHE GLU ILE LEU PRO CYS ASN ARG TYR SER SER SEQRES 12 A 273 GLU GLN ASN GLY ALA LYS ILE VAL ALA THR LYS GLU TRP SEQRES 13 A 273 LYS ARG ASN ASP LYS ILE GLU LEU LEU VAL GLY CYS ILE SEQRES 14 A 273 ALA GLU LEU SER GLU ILE GLU GLU ASN MET LEU LEU ARG SEQRES 15 A 273 HIS GLY GLU ASN ASP PHE SER VAL MET TYR SER THR ARG SEQRES 16 A 273 LYS ASN CYS ALA GLN LEU TRP LEU GLY PRO ALA ALA PHE SEQRES 17 A 273 ILE ASN HIS ASP CYS ARG PRO ASN CYS LYS PHE VAL SER SEQRES 18 A 273 THR GLY ARG ASP THR ALA CYS VAL LYS ALA LEU ARG ASP SEQRES 19 A 273 ILE GLU PRO GLY GLU GLU ILE SER CYS TYR TYR GLY ASP SEQRES 20 A 273 GLY PHE PHE GLY GLU ASN ASN GLU PHE CYS GLU CYS TYR SEQRES 21 A 273 THR CYS GLU ARG ARG GLY THR GLY ALA PHE LYS SER ARG SEQRES 1 B 273 GLN SER ARG TYR VAL PRO SER SER GLY MET SER ALA LYS SEQRES 2 B 273 GLU LEU CYS GLU ASN ASP ASP LEU ALA THR SER LEU VAL SEQRES 3 B 273 LEU ASP PRO TYR LEU GLY PHE GLN THR HIS LYS MET ASN SEQRES 4 B 273 THR SER ALA PHE PRO SER ARG SER SER ARG HIS PHE SER SEQRES 5 B 273 LYS SER ASP SER PHE SER HIS ASN ASN PRO VAL ARG PHE SEQRES 6 B 273 ARG PRO ILE LYS GLY ARG GLN GLU GLU LEU LYS GLU VAL SEQRES 7 B 273 ILE GLU ARG PHE LYS LYS ASP GLU HIS LEU GLU LYS ALA SEQRES 8 B 273 PHE LYS CYS LEU THR SER GLY GLU TRP ALA ARG HIS TYR SEQRES 9 B 273 PHE LEU ASN LYS ASN LYS MET GLN GLU LYS LEU PHE LYS SEQRES 10 B 273 GLU HIS VAL PHE ILE TYR LEU ARG MET PHE ALA THR ASP SEQRES 11 B 273 SER GLY PHE GLU ILE LEU PRO CYS ASN ARG TYR SER SER SEQRES 12 B 273 GLU GLN ASN GLY ALA LYS ILE VAL ALA THR LYS GLU TRP SEQRES 13 B 273 LYS ARG ASN ASP LYS ILE GLU LEU LEU VAL GLY CYS ILE SEQRES 14 B 273 ALA GLU LEU SER GLU ILE GLU GLU ASN MET LEU LEU ARG SEQRES 15 B 273 HIS GLY GLU ASN ASP PHE SER VAL MET TYR SER THR ARG SEQRES 16 B 273 LYS ASN CYS ALA GLN LEU TRP LEU GLY PRO ALA ALA PHE SEQRES 17 B 273 ILE ASN HIS ASP CYS ARG PRO ASN CYS LYS PHE VAL SER SEQRES 18 B 273 THR GLY ARG ASP THR ALA CYS VAL LYS ALA LEU ARG ASP SEQRES 19 B 273 ILE GLU PRO GLY GLU GLU ILE SER CYS TYR TYR GLY ASP SEQRES 20 B 273 GLY PHE PHE GLY GLU ASN ASN GLU PHE CYS GLU CYS TYR SEQRES 21 B 273 THR CYS GLU ARG ARG GLY THR GLY ALA PHE LYS SER ARG HET ZN A 401 1 HET SAM A 402 27 HET 9ZY A 403 27 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 ZN B 401 1 HET SAM B 402 27 HET 9ZY B 403 27 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 HETNAM ZN ZINC ION HETNAM SAM S-ADENOSYLMETHIONINE HETNAM 9ZY 2-CHLORO-5-(4-METHYL-6-OXO-3-PHENYLPYRANO[2,3- HETNAM 2 9ZY C]PYRAZOL-1(6H)-YL)BENZOIC ACID HETNAM UNX UNKNOWN ATOM OR ION FORMUL 3 ZN 2(ZN 2+) FORMUL 4 SAM 2(C15 H22 N6 O5 S) FORMUL 5 9ZY 2(C20 H13 CL N2 O4) FORMUL 6 UNX 12(X) FORMUL 21 HOH *31(H2 O) HELIX 1 AA1 SER A 73 LEU A 89 1 17 HELIX 2 AA2 LEU A 89 GLY A 94 1 6 HELIX 3 AA3 GLY A 132 GLU A 148 1 17 HELIX 4 AA4 HIS A 149 THR A 158 1 10 HELIX 5 AA5 GLY A 160 PHE A 167 1 8 HELIX 6 AA6 ASN A 171 MET A 188 1 18 HELIX 7 AA7 SER A 235 LEU A 243 1 9 HELIX 8 AA8 GLY A 266 ILE A 271 5 6 HELIX 9 AA9 GLY A 313 GLU A 317 5 5 HELIX 10 AB1 CYS A 321 ARG A 327 1 7 HELIX 11 AB2 SER B 73 LEU B 89 1 17 HELIX 12 AB3 LEU B 89 GLY B 94 1 6 HELIX 13 AB4 GLY B 132 GLU B 148 1 17 HELIX 14 AB5 HIS B 149 THR B 158 1 10 HELIX 15 AB6 ASN B 171 MET B 188 1 18 HELIX 16 AB7 SER B 235 LEU B 243 1 9 HELIX 17 AB8 GLY B 266 ILE B 271 5 6 HELIX 18 AB9 GLY B 313 GLU B 317 5 5 HELIX 19 AC1 CYS B 321 ARG B 327 1 7 HELIX 20 AC2 THR B 329 LYS B 333 5 5 SHEET 1 AA1 2 PHE A 195 CYS A 200 0 SHEET 2 AA1 2 GLY A 209 ALA A 214 -1 O VAL A 213 N GLU A 196 SHEET 1 AA2 5 VAL A 252 SER A 255 0 SHEET 2 AA2 5 CYS A 260 LEU A 265 -1 O GLN A 262 N MET A 253 SHEET 3 AA2 5 LYS A 223 LEU A 234 -1 N LEU A 234 O ALA A 261 SHEET 4 AA2 5 THR A 288 ALA A 293 -1 O VAL A 291 N ILE A 224 SHEET 5 AA2 5 CYS A 279 SER A 283 -1 N VAL A 282 O CYS A 290 SHEET 1 AA3 2 ASN A 272 HIS A 273 0 SHEET 2 AA3 2 SER A 304 CYS A 305 1 O CYS A 305 N ASN A 272 SHEET 1 AA4 2 PHE B 195 CYS B 200 0 SHEET 2 AA4 2 GLY B 209 ALA B 214 -1 O VAL B 213 N GLU B 196 SHEET 1 AA5 5 VAL B 252 SER B 255 0 SHEET 2 AA5 5 CYS B 260 LEU B 265 -1 O GLN B 262 N MET B 253 SHEET 3 AA5 5 LYS B 223 LEU B 234 -1 N LEU B 234 O ALA B 261 SHEET 4 AA5 5 THR B 288 ALA B 293 -1 O VAL B 291 N ILE B 224 SHEET 5 AA5 5 CYS B 279 SER B 283 -1 N VAL B 282 O CYS B 290 SHEET 1 AA6 2 ASN B 272 HIS B 273 0 SHEET 2 AA6 2 SER B 304 CYS B 305 1 O CYS B 305 N ASN B 272 LINK SG CYS A 275 ZN ZN A 401 1555 1555 2.28 LINK SG CYS A 319 ZN ZN A 401 1555 1555 2.49 LINK SG CYS A 321 ZN ZN A 401 1555 1555 2.36 LINK SG CYS A 324 ZN ZN A 401 1555 1555 2.45 LINK SG CYS B 275 ZN ZN B 401 1555 1555 2.28 LINK SG CYS B 319 ZN ZN B 401 1555 1555 2.32 LINK SG CYS B 321 ZN ZN B 401 1555 1555 2.43 LINK SG CYS B 324 ZN ZN B 401 1555 1555 2.48 SITE 1 AC1 4 CYS A 275 CYS A 319 CYS A 321 CYS A 324 SITE 1 AC2 18 HIS A 98 TYR A 203 SER A 205 GLU A 206 SITE 2 AC2 18 GLY A 209 ALA A 210 PHE A 250 ALA A 269 SITE 3 AC2 18 PHE A 270 ILE A 271 ASN A 272 HIS A 273 SITE 4 AC2 18 TYR A 307 PHE A 312 CYS A 319 GLU A 320 SITE 5 AC2 18 CYS A 321 ARG B 257 SITE 1 AC3 13 GLY A 229 VAL A 252 MET A 253 TRP A 264 SITE 2 AC3 13 ALA A 268 ALA A 269 PHE A 281 ALA A 289 SITE 3 AC3 13 TYR A 307 PHE A 311 HOH A 512 ARG B 244 SITE 4 AC3 13 HIS B 245 SITE 1 AC4 4 CYS B 275 CYS B 319 CYS B 321 CYS B 324 SITE 1 AC5 20 ARG A 257 HOH A 510 HIS B 98 TYR B 203 SITE 2 AC5 20 SER B 205 GLU B 206 GLY B 209 ALA B 210 SITE 3 AC5 20 PHE B 250 ALA B 269 PHE B 270 ILE B 271 SITE 4 AC5 20 ASN B 272 HIS B 273 TYR B 307 PHE B 312 SITE 5 AC5 20 CYS B 319 GLU B 320 CYS B 321 HOH B 508 SITE 1 AC6 12 ARG A 244 HIS A 245 GLY B 229 VAL B 252 SITE 2 AC6 12 MET B 253 TRP B 264 ALA B 268 ALA B 269 SITE 3 AC6 12 PHE B 281 ALA B 289 TYR B 307 PHE B 311 CRYST1 46.324 50.559 74.818 101.26 107.51 89.67 P 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 0.021587 -0.000124 0.006929 0.00000 SCALE2 0.000000 0.019779 0.004099 0.00000 SCALE3 0.000000 0.000000 0.014313 0.00000