HEADER TRANSCRIPTION 08-AUG-16 5SVY TITLE MORC3 CW IN COMPLEX WITH HISTONE H3K4ME1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MORC FAMILY CW-TYPE ZINC FINGER PROTEIN 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 407-455; COMPND 5 SYNONYM: NUCLEAR MATRIX PROTEIN 2,ZINC FINGER CW-TYPE COILED-COIL COMPND 6 DOMAIN PROTEIN 3; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: H3K4ME1; COMPND 10 CHAIN: B; COMPND 11 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: MORC3, KIAA0136, NXP2, ZCWCC3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_TAXID: 9606 KEYWDS READER, HISTONE, CHROMATIN, METHYLATION, METHYLLYSINE, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR Q.TONG,F.H.ANDREWS,T.G.KUTATELADZE REVDAT 1 05-OCT-16 5SVY 0 JRNL AUTH F.H.ANDREWS,Q.TONG,K.D.SULLIVAN,E.M.CORNETT,Y.ZHANG,M.ALI, JRNL AUTH 2 J.AHN,A.PANDEY,A.H.GUO,B.D.STRAHL,J.C.COSTELLO,J.M.ESPINOSA, JRNL AUTH 3 S.B.ROTHBART,T.G.KUTATELADZE JRNL TITL MULTIVALENT CHROMATIN ENGAGEMENT AND INTER-DOMAIN CROSSTALK JRNL TITL 2 REGULATE MORC3 ATPASE. JRNL REF CELL REP V. 16 3195 2016 JRNL REFN ESSN 2211-1247 JRNL PMID 27653685 JRNL DOI 10.1016/J.CELREP.2016.08.050 REMARK 2 REMARK 2 RESOLUTION. 1.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.33 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 51495 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.123 REMARK 3 R VALUE (WORKING SET) : 0.123 REMARK 3 FREE R VALUE : 0.147 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.990 REMARK 3 FREE R VALUE TEST SET COUNT : 1540 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 35.3500 - 2.3350 0.99 4599 147 0.1427 0.1898 REMARK 3 2 2.3350 - 1.8534 1.00 4604 139 0.1164 0.1466 REMARK 3 3 1.8534 - 1.6191 1.00 4603 141 0.1051 0.1016 REMARK 3 4 1.6191 - 1.4711 1.00 4600 144 0.1028 0.1193 REMARK 3 5 1.4711 - 1.3656 1.00 4634 141 0.1139 0.1349 REMARK 3 6 1.3656 - 1.2851 1.00 4602 142 0.1141 0.1482 REMARK 3 7 1.2851 - 1.2208 0.99 4595 140 0.1161 0.1267 REMARK 3 8 1.2208 - 1.1676 0.99 4559 137 0.1200 0.1459 REMARK 3 9 1.1676 - 1.1227 0.99 4632 146 0.1141 0.0986 REMARK 3 10 1.1227 - 1.0839 0.98 4535 140 0.1295 0.1542 REMARK 3 11 1.0839 - 1.0500 0.87 3992 123 0.1621 0.1587 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.060 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 11.400 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.011 601 REMARK 3 ANGLE : 1.334 828 REMARK 3 CHIRALITY : 0.087 81 REMARK 3 PLANARITY : 0.008 117 REMARK 3 DIHEDRAL : 17.646 254 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 5SVY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1000223233. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-SEP-14 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 : ALS REMARK 200 BEAMLINE : 4.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 R CDTE 300K REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60514 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.000 REMARK 200 RESOLUTION RANGE LOW (A) : 35.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.54 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.5 M (NH4)2SO4, 0.1 M SODIUM ACETATE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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+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 15.49500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.33000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 15.49500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.33000 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1380 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 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 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 HOH A 602 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 625 LIES ON A SPECIAL POSITION. 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 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 413 SG REMARK 620 2 CYS A 416 SG 108.8 REMARK 620 3 CYS A 435 SG 105.6 107.8 REMARK 620 4 CYS A 446 SG 108.4 110.9 115.0 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 ACT A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Ligand residues MLZ B 4 through REMARK 800 GLN B 5 bound to THR B 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5SVX RELATED DB: PDB REMARK 900 RELATED ID: 5SVI RELATED DB: PDB DBREF 5SVY A 407 49 UNP Q14149 MORC3_HUMAN 407 455 DBREF 5SVY B 1 11 PDB 5SVY 5SVY 1 11 SEQADV 5SVY SER A 0 UNP Q14149 EXPRESSION TAG SEQRES 1 A 50 SER ASP GLN THR TRP VAL GLN CYS ASP ALA CYS LEU LYS SEQRES 2 A 50 TRP ARG LYS LEU PRO ASP GLY MET ASP GLN LEU PRO GLU SEQRES 3 A 50 LYS TRP TYR CYS SER ASN ASN PRO ASP PRO GLN PHE ARG SEQRES 4 A 50 ASN CYS GLU VAL PRO GLU GLU PRO GLU ASP GLU SEQRES 1 B 11 ALA ARG THR MLZ GLN THR ALA ARG LYS SER THR HET MLZ B 4 24 HET ACT A 501 7 HET ZN A 502 1 HETNAM MLZ N-METHYL-LYSINE HETNAM ACT ACETATE ION HETNAM ZN ZINC ION FORMUL 2 MLZ C7 H16 N2 O2 FORMUL 3 ACT C2 H3 O2 1- FORMUL 4 ZN ZN 2+ FORMUL 5 HOH *108(H2 O) HELIX 1 AA1 TYR A 434 ASN A 438 5 5 HELIX 2 AA2 ASP A 440 ARG A 444 5 5 SHEET 1 AA1 3 TRP A 419 LEU A 422 0 SHEET 2 AA1 3 GLN A 408 GLN A 412 -1 N VAL A 411 O ARG A 420 SHEET 3 AA1 3 THR B 3 THR B 6 -1 O THR B 6 N GLN A 408 LINK SG CYS A 413 ZN ZN A 502 1555 1555 2.36 LINK SG CYS A 416 ZN ZN A 502 1555 1555 2.32 LINK SG CYS A 435 ZN ZN A 502 1555 1555 2.34 LINK SG CYS A 446 ZN ZN A 502 1555 1555 2.31 LINK C THR B 3 N MLZ B 4 1555 1555 1.33 LINK C MLZ B 4 N GLN B 5 1555 1555 1.33 SITE 1 AC1 6 GLN A 412 TRP A 419 HOH A 602 HOH A 616 SITE 2 AC1 6 HOH A 667 ARG B 2 SITE 1 AC2 4 CYS A 413 CYS A 416 CYS A 435 CYS A 446 SITE 1 AC3 13 GLN A 408 THR A 409 TRP A 410 TRP A 419 SITE 2 AC3 13 GLU A 453 HOH A 601 HOH A 638 ARG B 2 SITE 3 AC3 13 THR B 3 THR B 6 HOH B 104 HOH B 105 SITE 4 AC3 13 HOH B 106 CRYST1 30.990 70.660 26.470 90.00 90.00 90.00 P 21 21 2 4 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 0.032268 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014152 0.000000 0.00000 SCALE3 0.000000 0.000000 0.037779 0.00000