HEADER TRANSFERASE 18-AUG-19 6KQQ TITLE NSD1 SET DOMAIN IN COMPLEX WITH BT3 AND SAM COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE-LYSINE N-METHYLTRANSFERASE, H3 LYSINE-36 AND H4 COMPND 3 LYSINE-20 SPECIFIC; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: ANDROGEN RECEPTOR COACTIVATOR 267 KDA PROTEIN,ANDROGEN COMPND 6 RECEPTOR-ASSOCIATED PROTEIN OF 267 KDA,H3-K36-HMTASE,H4-K20-HMTASE, COMPND 7 LYSINE N-METHYLTRANSFERASE 3B,NUCLEAR RECEPTOR-BINDING SET DOMAIN- COMPND 8 CONTAINING PROTEIN 1,NR-BINDING SET DOMAIN-CONTAINING PROTEIN; COMPND 9 EC: 2.1.1.43; 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: NSD1, ARA267, KMT3B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HISTONE-METHYLTRANSFERASE, SAM, INHIBITOR COMPLEX, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR H.J.CHO,T.CIERPICKI REVDAT 4 23-MAR-22 6KQQ 1 REMARK REVDAT 3 02-DEC-20 6KQQ 1 JRNL REVDAT 2 16-SEP-20 6KQQ 1 JRNL REVDAT 1 02-SEP-20 6KQQ 0 JRNL AUTH H.HUANG,C.A.HOWARD,S.ZARI,H.J.CHO,S.SHUKLA,H.LI,J.NDOJ, JRNL AUTH 2 P.GONZALEZ-ALONSO,C.NIKOLAIDIS,J.ABBOTT,D.S.ROGAWSKI, JRNL AUTH 3 M.A.POTOPNYK,K.KEMPINSKA,H.MIAO,T.PUROHIT,A.HENDERSON, JRNL AUTH 4 A.MAPP,M.L.SULIS,A.FERRANDO,J.GREMBECKA,T.CIERPICKI JRNL TITL COVALENT INHIBITION OF NSD1 HISTONE METHYLTRANSFERASE. JRNL REF NAT.CHEM.BIOL. V. 16 1403 2020 JRNL REFN ESSN 1552-4469 JRNL PMID 32868895 JRNL DOI 10.1038/S41589-020-0626-6 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.35 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.970 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 50623 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 2518 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 30.3500 - 4.7200 0.98 2692 142 0.1678 0.2059 REMARK 3 2 4.7200 - 3.7500 0.98 2685 159 0.1342 0.1603 REMARK 3 3 3.7500 - 3.2800 0.97 2708 142 0.1464 0.1999 REMARK 3 4 3.2800 - 2.9800 0.98 2709 134 0.1638 0.1806 REMARK 3 5 2.9800 - 2.7600 0.98 2701 133 0.1634 0.1851 REMARK 3 6 2.7600 - 2.6000 0.98 2690 146 0.1670 0.2260 REMARK 3 7 2.6000 - 2.4700 0.97 2703 141 0.1685 0.2156 REMARK 3 8 2.4700 - 2.3600 0.97 2704 129 0.1622 0.1952 REMARK 3 9 2.3600 - 2.2700 0.97 2678 125 0.1720 0.2143 REMARK 3 10 2.2700 - 2.1900 0.97 2732 122 0.1574 0.2092 REMARK 3 11 2.1900 - 2.1200 0.97 2661 129 0.1650 0.2248 REMARK 3 12 2.1200 - 2.0600 0.97 2666 149 0.1718 0.2332 REMARK 3 13 2.0600 - 2.0100 0.97 2636 154 0.1796 0.2322 REMARK 3 14 2.0100 - 1.9600 0.96 2662 148 0.1757 0.2043 REMARK 3 15 1.9600 - 1.9200 0.96 2666 150 0.1757 0.2160 REMARK 3 16 1.9200 - 1.8800 0.96 2649 157 0.1899 0.2294 REMARK 3 17 1.8800 - 1.8400 0.95 2588 126 0.2049 0.2147 REMARK 3 18 1.8400 - 1.8000 0.92 2575 132 0.2166 0.2527 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.305 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.11 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 3707 REMARK 3 ANGLE : 1.004 5025 REMARK 3 CHIRALITY : 0.060 525 REMARK 3 PLANARITY : 0.006 659 REMARK 3 DIHEDRAL : 7.846 3091 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6KQQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-AUG-19. REMARK 100 THE DEPOSITION ID IS D_1300013479. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 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-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97856 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50805 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 47.680 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 2.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08900 REMARK 200 FOR THE DATA SET : 17.4200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.33500 REMARK 200 FOR SHELL : 2.360 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 (%): 57.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% PEG 8000, 100MM SODIUM CACODYLATE, REMARK 280 PH 6.5, 200MM CALCIUM ACETATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 290K 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 80 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 80 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL 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 ASN B 1863 REMARK 465 ASP B 1864 REMARK 465 LYS B 1865 REMARK 465 LYS B 1866 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 A1891 CG CD OE1 OE2 REMARK 470 ARG A1894 CG CD NE CZ NH1 NH2 REMARK 470 GLU A1902 CG CD OE1 OE2 REMARK 470 LYS B2003 CD CE NZ REMARK 470 GLN B2024 CD OE1 NE2 REMARK 470 LEU B2060 CG CD1 CD2 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 NE2 GLN A 2024 O HOH A 2201 1.95 REMARK 500 NH2 ARG A 1881 O HOH A 2202 2.01 REMARK 500 O HOH A 2205 O HOH A 2265 2.05 REMARK 500 O HOH A 2315 O HOH A 2427 2.08 REMARK 500 O HOH A 2202 O HOH A 2341 2.12 REMARK 500 O HOH B 2360 O HOH B 2368 2.12 REMARK 500 O HOH B 2297 O HOH B 2382 2.18 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 CYS B1911 128.95 -31.82 REMARK 500 ASN B2014 -157.75 -119.96 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 A2106 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1895 SG REMARK 620 2 CYS A1897 SG 105.6 REMARK 620 3 CYS A1905 SG 107.8 100.0 REMARK 620 4 CYS A1911 SG 113.1 112.0 116.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A2105 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1905 SG REMARK 620 2 CYS A1920 SG 113.3 REMARK 620 3 CYS A1925 SG 98.9 111.2 REMARK 620 4 CYS A1931 SG 111.8 105.3 116.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A2107 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A1910 OE1 REMARK 620 2 HOH A2282 O 87.9 REMARK 620 3 GLU B1978 OE1 138.0 66.4 REMARK 620 4 GLU B1978 OE2 136.4 66.1 1.7 REMARK 620 5 LYS B2003 O 137.8 66.9 0.7 1.4 REMARK 620 6 HOH B2285 O 108.3 74.8 96.7 98.1 97.4 REMARK 620 7 HOH B2304 O 84.2 81.2 60.3 58.7 59.8 152.2 REMARK 620 8 HOH B2305 O 87.0 142.0 93.7 93.1 93.0 141.9 60.9 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A2108 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A1978 OE1 REMARK 620 2 GLU A1978 OE2 52.4 REMARK 620 3 LYS A2003 O 87.5 81.9 REMARK 620 4 HOH A2298 O 124.7 72.4 88.0 REMARK 620 5 HOH A2401 O 80.7 132.4 89.7 154.4 REMARK 620 6 HOH B2216 O 164.5 141.7 100.3 69.4 85.9 REMARK 620 7 HOH B2290 O 80.5 80.3 162.1 88.0 101.3 94.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A2104 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A2023 SG REMARK 620 2 CYS A2070 SG 115.2 REMARK 620 3 CYS A2072 SG 108.1 105.7 REMARK 620 4 CYS A2077 SG 108.1 108.6 111.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B2105 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B1895 SG REMARK 620 2 CYS B1897 SG 105.8 REMARK 620 3 CYS B1905 SG 107.0 100.8 REMARK 620 4 CYS B1911 SG 113.2 112.6 116.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B2104 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B1905 SG REMARK 620 2 CYS B1920 SG 115.6 REMARK 620 3 CYS B1925 SG 101.6 115.0 REMARK 620 4 CYS B1931 SG 109.7 102.5 112.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B2106 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B2023 SG REMARK 620 2 CYS B2070 SG 117.3 REMARK 620 3 CYS B2072 SG 105.0 107.1 REMARK 620 4 CYS B2077 SG 106.8 108.4 112.3 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 SAM A 2101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DQL A 2102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DW9 A 2103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 2104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 2105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 2106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 2107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 2108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAM B 2101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 2103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 2104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 2105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 2106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide DQL B 2102 and CYS B REMARK 800 2062 DBREF 6KQQ A 1863 2085 UNP Q96L73 NSD1_HUMAN 1863 2085 DBREF 6KQQ B 1863 2085 UNP Q96L73 NSD1_HUMAN 1863 2085 SEQRES 1 A 223 ASN ASP LYS LYS PRO PRO PRO TYR LYS HIS ILE LYS VAL SEQRES 2 A 223 ASN ARG PRO ILE GLY ARG VAL GLN ILE PHE THR ALA ASP SEQRES 3 A 223 LEU SER GLU ILE PRO ARG CYS ASN CYS LYS ALA THR ASP SEQRES 4 A 223 GLU ASN PRO CYS GLY ILE ASP SER GLU CYS ILE ASN ARG SEQRES 5 A 223 MET LEU LEU TYR GLU CYS HIS PRO THR VAL CYS PRO ALA SEQRES 6 A 223 GLY GLY ARG CYS GLN ASN GLN CYS PHE SER LYS ARG GLN SEQRES 7 A 223 TYR PRO GLU VAL GLU ILE PHE ARG THR LEU GLN ARG GLY SEQRES 8 A 223 TRP GLY LEU ARG THR LYS THR ASP ILE LYS LYS GLY GLU SEQRES 9 A 223 PHE VAL ASN GLU TYR VAL GLY GLU LEU ILE ASP GLU GLU SEQRES 10 A 223 GLU CYS ARG ALA ARG ILE ARG TYR ALA GLN GLU HIS ASP SEQRES 11 A 223 ILE THR ASN PHE TYR MET LEU THR LEU ASP LYS ASP ARG SEQRES 12 A 223 ILE ILE ASP ALA GLY PRO LYS GLY ASN TYR ALA ARG PHE SEQRES 13 A 223 MET ASN HIS CYS CYS GLN PRO ASN CYS GLU THR GLN LYS SEQRES 14 A 223 TRP SER VAL ASN GLY ASP THR ARG VAL GLY LEU PHE ALA SEQRES 15 A 223 LEU SER ASP ILE LYS ALA GLY THR GLU LEU THR PHE ASN SEQRES 16 A 223 TYR ASN LEU GLU CYS LEU GLY ASN GLY LYS THR VAL CYS SEQRES 17 A 223 LYS CYS GLY ALA PRO ASN CYS SER GLY PHE LEU GLY VAL SEQRES 18 A 223 ARG PRO SEQRES 1 B 223 ASN ASP LYS LYS PRO PRO PRO TYR LYS HIS ILE LYS VAL SEQRES 2 B 223 ASN ARG PRO ILE GLY ARG VAL GLN ILE PHE THR ALA ASP SEQRES 3 B 223 LEU SER GLU ILE PRO ARG CYS ASN CYS LYS ALA THR ASP SEQRES 4 B 223 GLU ASN PRO CYS GLY ILE ASP SER GLU CYS ILE ASN ARG SEQRES 5 B 223 MET LEU LEU TYR GLU CYS HIS PRO THR VAL CYS PRO ALA SEQRES 6 B 223 GLY GLY ARG CYS GLN ASN GLN CYS PHE SER LYS ARG GLN SEQRES 7 B 223 TYR PRO GLU VAL GLU ILE PHE ARG THR LEU GLN ARG GLY SEQRES 8 B 223 TRP GLY LEU ARG THR LYS THR ASP ILE LYS LYS GLY GLU SEQRES 9 B 223 PHE VAL ASN GLU TYR VAL GLY GLU LEU ILE ASP GLU GLU SEQRES 10 B 223 GLU CYS ARG ALA ARG ILE ARG TYR ALA GLN GLU HIS ASP SEQRES 11 B 223 ILE THR ASN PHE TYR MET LEU THR LEU ASP LYS ASP ARG SEQRES 12 B 223 ILE ILE ASP ALA GLY PRO LYS GLY ASN TYR ALA ARG PHE SEQRES 13 B 223 MET ASN HIS CYS CYS GLN PRO ASN CYS GLU THR GLN LYS SEQRES 14 B 223 TRP SER VAL ASN GLY ASP THR ARG VAL GLY LEU PHE ALA SEQRES 15 B 223 LEU SER ASP ILE LYS ALA GLY THR GLU LEU THR PHE ASN SEQRES 16 B 223 TYR ASN LEU GLU CYS LEU GLY ASN GLY LYS THR VAL CYS SEQRES 17 B 223 LYS CYS GLY ALA PRO ASN CYS SER GLY PHE LEU GLY VAL SEQRES 18 B 223 ARG PRO HET SAM A2101 27 HET DQL A2102 12 HET DW9 A2103 24 HET ZN A2104 1 HET ZN A2105 1 HET ZN A2106 1 HET CA A2107 1 HET CA A2108 1 HET SAM B2101 27 HET DQL B2102 12 HET GOL B2103 6 HET ZN B2104 1 HET ZN B2105 1 HET ZN B2106 1 HETNAM SAM S-ADENOSYLMETHIONINE HETNAM DQL 2-AZANYL-6-SULFANYL-1,3-BENZOTHIAZOL-4-OL HETNAM DW9 2-AZANYL-6-[(2-AZANYL-4-OXIDANYL-1,3-BENZOTHIAZOL-6- HETNAM 2 DW9 YL)DISULFANYL]-1,3-BENZOTHIAZOL-4-OL HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 SAM 2(C15 H22 N6 O5 S) FORMUL 4 DQL 2(C7 H6 N2 O S2) FORMUL 5 DW9 C14 H10 N4 O2 S4 FORMUL 6 ZN 6(ZN 2+) FORMUL 9 CA 2(CA 2+) FORMUL 13 GOL C3 H8 O3 FORMUL 17 HOH *513(H2 O) HELIX 1 AA1 PRO A 1868 HIS A 1872 5 5 HELIX 2 AA2 ASP A 1888 ILE A 1892 5 5 HELIX 3 AA3 CYS A 1911 LEU A 1916 1 6 HELIX 4 AA4 ALA A 1927 CYS A 1931 5 5 HELIX 5 AA5 GLN A 1934 ARG A 1939 1 6 HELIX 6 AA6 ASP A 1977 HIS A 1991 1 15 HELIX 7 AA7 ASN A 2014 MET A 2019 5 6 HELIX 8 AA8 ASN A 2057 LEU A 2060 5 4 HELIX 9 AA9 ASP B 1888 ILE B 1892 5 5 HELIX 10 AB1 CYS B 1911 LEU B 1917 1 7 HELIX 11 AB2 ALA B 1927 CYS B 1931 5 5 HELIX 12 AB3 GLN B 1934 ARG B 1939 1 6 HELIX 13 AB4 ASP B 1977 HIS B 1991 1 15 HELIX 14 AB5 TYR B 2015 MET B 2019 5 5 HELIX 15 AB6 ASN B 2057 LEU B 2060 5 4 SHEET 1 AA1 5 ARG A1877 PRO A1878 0 SHEET 2 AA1 5 GLU A1974 ILE A1976 1 O LEU A1975 N ARG A1877 SHEET 3 AA1 5 ARG A2005 ASP A2008 -1 O ASP A2008 N GLU A1974 SHEET 4 AA1 5 MET A1998 ASP A2002 -1 N LEU A1999 O ILE A2007 SHEET 5 AA1 5 CYS A2062 LEU A2063 -1 O LEU A2063 N MET A1998 SHEET 1 AA2 2 VAL A1944 ARG A1948 0 SHEET 2 AA2 2 TRP A1954 THR A1958 -1 O GLY A1955 N PHE A1947 SHEET 1 AA3 3 PHE A1967 GLU A1970 0 SHEET 2 AA3 3 ASP A2037 ALA A2044 -1 O LEU A2042 N VAL A1968 SHEET 3 AA3 3 CYS A2027 VAL A2034 -1 N VAL A2034 O ASP A2037 SHEET 1 AA4 2 ASN A2020 HIS A2021 0 SHEET 2 AA4 2 THR A2055 PHE A2056 1 O PHE A2056 N ASN A2020 SHEET 1 AA5 2 THR A2068 VAL A2069 0 SHEET 2 AA5 2 PHE A2080 LEU A2081 -1 O LEU A2081 N THR A2068 SHEET 1 AA6 4 LYS B1871 HIS B1872 0 SHEET 2 AA6 4 ILE B2006 GLY B2013 1 O GLY B2013 N LYS B1871 SHEET 3 AA6 4 GLY B1973 ILE B1976 -1 N GLU B1974 O ASP B2008 SHEET 4 AA6 4 ARG B1877 PRO B1878 1 N ARG B1877 O LEU B1975 SHEET 1 AA7 4 LYS B1871 HIS B1872 0 SHEET 2 AA7 4 ILE B2006 GLY B2013 1 O GLY B2013 N LYS B1871 SHEET 3 AA7 4 MET B1998 THR B2000 -1 N LEU B1999 O ILE B2007 SHEET 4 AA7 4 CYS B2062 LEU B2063 -1 O LEU B2063 N MET B1998 SHEET 1 AA8 2 VAL B1944 ARG B1948 0 SHEET 2 AA8 2 TRP B1954 THR B1958 -1 O GLY B1955 N PHE B1947 SHEET 1 AA9 3 PHE B1967 GLU B1970 0 SHEET 2 AA9 3 ASP B2037 ALA B2044 -1 O LEU B2042 N VAL B1968 SHEET 3 AA9 3 CYS B2027 VAL B2034 -1 N VAL B2034 O ASP B2037 SHEET 1 AB1 2 ASN B2020 HIS B2021 0 SHEET 2 AB1 2 THR B2055 PHE B2056 1 O PHE B2056 N ASN B2020 SHEET 1 AB2 2 THR B2068 VAL B2069 0 SHEET 2 AB2 2 PHE B2080 LEU B2081 -1 O LEU B2081 N THR B2068 LINK SG CYS A2062 SAC DQL A2102 1555 1555 2.02 LINK SG CYS B2062 SAC DQL B2102 1555 1555 2.01 LINK SG CYS A1895 ZN ZN A2106 1555 1555 2.17 LINK SG CYS A1897 ZN ZN A2106 1555 1555 2.42 LINK SG CYS A1905 ZN ZN A2105 1555 1555 2.39 LINK SG CYS A1905 ZN ZN A2106 1555 1555 2.36 LINK OE1 GLU A1910 CA CA A2107 1555 1555 2.34 LINK SG CYS A1911 ZN ZN A2106 1555 1555 2.35 LINK SG CYS A1920 ZN ZN A2105 1555 1555 2.32 LINK SG CYS A1925 ZN ZN A2105 1555 1555 2.40 LINK SG CYS A1931 ZN ZN A2105 1555 1555 2.32 LINK OE1 GLU A1978 CA CA A2108 1555 1555 2.59 LINK OE2 GLU A1978 CA CA A2108 1555 1555 2.40 LINK O LYS A2003 CA CA A2108 1555 1555 2.39 LINK SG CYS A2023 ZN ZN A2104 1555 1555 2.39 LINK SG CYS A2070 ZN ZN A2104 1555 1555 2.31 LINK SG CYS A2072 ZN ZN A2104 1555 1555 2.28 LINK SG CYS A2077 ZN ZN A2104 1555 1555 2.36 LINK CA CA A2107 O HOH A2282 1555 1555 2.53 LINK CA CA A2107 OE1 GLU B1978 1565 1555 2.76 LINK CA CA A2107 OE2 GLU B1978 1565 1555 3.19 LINK CA CA A2107 O LYS B2003 1565 1555 2.37 LINK CA CA A2107 O HOH B2285 1555 1545 2.42 LINK CA CA A2107 O HOH B2304 1555 1545 2.64 LINK CA CA A2107 O HOH B2305 1555 1545 2.48 LINK CA CA A2108 O HOH A2298 1555 1555 2.35 LINK CA CA A2108 O HOH A2401 1555 1555 2.32 LINK CA CA A2108 O HOH B2216 1555 1555 2.45 LINK CA CA A2108 O HOH B2290 1555 1555 2.44 LINK SG CYS B1895 ZN ZN B2105 1555 1555 2.32 LINK SG CYS B1897 ZN ZN B2105 1555 1555 2.39 LINK SG CYS B1905 ZN ZN B2104 1555 1555 2.34 LINK SG CYS B1905 ZN ZN B2105 1555 1555 2.38 LINK SG CYS B1911 ZN ZN B2105 1555 1555 2.32 LINK SG CYS B1920 ZN ZN B2104 1555 1555 2.33 LINK SG CYS B1925 ZN ZN B2104 1555 1555 2.30 LINK SG CYS B1931 ZN ZN B2104 1555 1555 2.33 LINK SG CYS B2023 ZN ZN B2106 1555 1555 2.37 LINK SG CYS B2070 ZN ZN B2106 1555 1555 2.25 LINK SG CYS B2072 ZN ZN B2106 1555 1555 2.30 LINK SG CYS B2077 ZN ZN B2106 1555 1555 2.42 SITE 1 AC1 20 ARG A1952 TRP A1954 THR A1994 ASN A1995 SITE 2 AC1 20 PHE A1996 TYR A1997 ARG A2017 MET A2019 SITE 3 AC1 20 ASN A2020 HIS A2021 TYR A2058 VAL A2069 SITE 4 AC1 20 CYS A2070 LYS A2071 LEU A2081 DQL A2102 SITE 5 AC1 20 HOH A2219 HOH A2232 HOH A2266 HOH A2378 SITE 1 AC2 12 THR A1994 PHE A1996 TYR A2058 CYS A2062 SITE 2 AC2 12 LEU A2063 ASN A2065 GLY A2066 THR A2068 SITE 3 AC2 12 GLY A2082 SAM A2101 HOH A2230 HOH A2377 SITE 1 AC3 20 ASP A1864 LYS A1865 LYS A1866 PRO A1867 SITE 2 AC3 20 LYS A1871 ILE A1946 GLY A2010 PRO A2011 SITE 3 AC3 20 LYS A2012 ASN A2014 TYR A2015 ARG A2017 SITE 4 AC3 20 PHE A2018 HOH A2206 HOH A2231 HOH A2287 SITE 5 AC3 20 HOH A2316 HOH A2331 HOH A2387 HOH A2390 SITE 1 AC4 4 CYS A2023 CYS A2070 CYS A2072 CYS A2077 SITE 1 AC5 4 CYS A1905 CYS A1920 CYS A1925 CYS A1931 SITE 1 AC6 4 CYS A1895 CYS A1897 CYS A1905 CYS A1911 SITE 1 AC7 7 GLU A1910 HOH A2282 GLU B1978 LYS B2003 SITE 2 AC7 7 HOH B2285 HOH B2304 HOH B2305 SITE 1 AC8 6 GLU A1978 LYS A2003 HOH A2298 HOH A2401 SITE 2 AC8 6 HOH B2216 HOH B2290 SITE 1 AC9 19 ARG B1952 TRP B1954 THR B1994 ASN B1995 SITE 2 AC9 19 PHE B1996 TYR B1997 ARG B2017 ASN B2020 SITE 3 AC9 19 HIS B2021 TYR B2058 VAL B2069 CYS B2070 SITE 4 AC9 19 LYS B2071 LEU B2081 DQL B2102 HOH B2211 SITE 5 AC9 19 HOH B2260 HOH B2271 HOH B2292 SITE 1 AD1 10 PRO A1869 LYS A2067 SER B1890 ILE B1892 SITE 2 AD1 10 PRO B1893 ARG B1894 HOH B2210 HOH B2255 SITE 3 AD1 10 HOH B2273 HOH B2311 SITE 1 AD2 4 CYS B1905 CYS B1920 CYS B1925 CYS B1931 SITE 1 AD3 4 CYS B1895 CYS B1897 CYS B1905 CYS B1911 SITE 1 AD4 4 CYS B2023 CYS B2070 CYS B2072 CYS B2077 SITE 1 AD5 13 THR B1994 PHE B1996 MET B1998 TYR B2058 SITE 2 AD5 13 GLU B2061 LEU B2063 GLY B2064 GLY B2066 SITE 3 AD5 13 THR B2068 GLY B2082 ARG B2084 SAM B2101 SITE 4 AD5 13 HOH B2221 CRYST1 40.469 60.811 64.255 101.18 107.76 93.59 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 0.024710 0.001548 0.008475 0.00000 SCALE2 0.000000 0.016477 0.003789 0.00000 SCALE3 0.000000 0.000000 0.016768 0.00000