HEADER DNA BINDING PROTEIN 26-NOV-24 9KQL TITLE THE CRYSTAL STRUCTURE OF MORC2_CC3 DOMAIN AT 3.1 ANGSTROMS RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATPASE MORC2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MORC FAMILY CW-TYPE ZINC FINGER PROTEIN 2,ZINC FINGER CW- COMPND 5 TYPE COILED-COIL DOMAIN PROTEIN 1; COMPND 6 EC: 3.6.1.-; COMPND 7 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: MORC2, KIAA0852, ZCWCC1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS DIMER, REGULATION, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.S.ZHANG,W.Y.XU,C.D.HUANG,C.WANG REVDAT 1 03-DEC-25 9KQL 0 JRNL AUTH Y.S.ZHANG,W.Y.XU,C.D.HUANG,C.WANG JRNL TITL THE CRYSTAL STRUCTURE OF MORC2_CC3 DOMAIN AT 3.1 ANGSTROMS JRNL TITL 2 RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.19.2_4158: ???) 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) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.56 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 6429 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.430 REMARK 3 FREE R VALUE TEST SET COUNT : 349 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 32.5600 - 3.9000 1.00 3088 170 0.1761 0.2327 REMARK 3 2 3.9000 - 3.1000 1.00 2992 179 0.2383 0.2726 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) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.570 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 : 0.004 1691 REMARK 3 ANGLE : 0.627 2271 REMARK 3 CHIRALITY : 0.039 255 REMARK 3 PLANARITY : 0.006 293 REMARK 3 DIHEDRAL : 3.776 225 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 9KQL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 29-NOV-24. REMARK 100 THE DEPOSITION ID IS D_1300040927. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JAN-21 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 : SSRF REMARK 200 BEAMLINE : BL18U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6774 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.050 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.60 REMARK 200 R MERGE (I) : 0.11200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.50 REMARK 200 R MERGE FOR SHELL (I) : 1.21400 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: SAD 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 (%): 65.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M CITRIC ACID(PH 3.5) 25% W/V PEG REMARK 280 3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y,Z REMARK 290 7555 -Y+1/2,X,Z+3/4 REMARK 290 8555 Y,-X+1/2,Z+1/4 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 65.12650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 65.12650 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 20.44750 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 65.12650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 10.22375 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 65.12650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 30.67125 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 65.12650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 65.12650 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 20.44750 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 -1.000000 0.000000 65.12650 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 30.67125 REMARK 290 SMTRY1 8 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 65.12650 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 10.22375 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: 4470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -53.0 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 897 REMARK 465 PRO A 898 REMARK 465 GLY A 899 REMARK 465 ILE A 1001 REMARK 465 VAL A 1002 REMARK 465 ALA A 1003 REMARK 465 GLY B 897 REMARK 465 PRO B 898 REMARK 465 GLY B 899 REMARK 465 SER B 900 REMARK 465 ALA B 1003 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 B 902 -57.04 69.89 REMARK 500 GLN B 966 33.28 -91.89 REMARK 500 REMARK 500 REMARK: NULL DBREF 9KQL A 901 1003 UNP Q9Y6X9 MORC2_HUMAN 901 1003 DBREF 9KQL B 901 1003 UNP Q9Y6X9 MORC2_HUMAN 901 1003 SEQADV 9KQL GLY A 897 UNP Q9Y6X9 EXPRESSION TAG SEQADV 9KQL PRO A 898 UNP Q9Y6X9 EXPRESSION TAG SEQADV 9KQL GLY A 899 UNP Q9Y6X9 EXPRESSION TAG SEQADV 9KQL SER A 900 UNP Q9Y6X9 EXPRESSION TAG SEQADV 9KQL GLY B 897 UNP Q9Y6X9 EXPRESSION TAG SEQADV 9KQL PRO B 898 UNP Q9Y6X9 EXPRESSION TAG SEQADV 9KQL GLY B 899 UNP Q9Y6X9 EXPRESSION TAG SEQADV 9KQL SER B 900 UNP Q9Y6X9 EXPRESSION TAG SEQRES 1 A 107 GLY PRO GLY SER LEU SER THR ASN HIS GLU THR ILE ASP SEQRES 2 A 107 LEU LEU VAL GLN ILE LEU ARG ASN CYS LEU ARG TYR PHE SEQRES 3 A 107 LEU PRO PRO SER PHE PRO ILE SER LYS LYS GLN LEU SER SEQRES 4 A 107 ALA MSE ASN SER ASP GLU LEU ILE SER PHE PRO LEU LYS SEQRES 5 A 107 GLU TYR PHE LYS GLN TYR GLU VAL GLY LEU GLN ASN LEU SEQRES 6 A 107 CYS ASN SER TYR GLN SER ARG ALA ASP SER ARG ALA LYS SEQRES 7 A 107 ALA SER GLU GLU SER LEU ARG THR SER GLU ARG LYS LEU SEQRES 8 A 107 ARG GLU THR GLU GLU LYS LEU GLN LYS LEU ARG THR ASN SEQRES 9 A 107 ILE VAL ALA SEQRES 1 B 107 GLY PRO GLY SER LEU SER THR ASN HIS GLU THR ILE ASP SEQRES 2 B 107 LEU LEU VAL GLN ILE LEU ARG ASN CYS LEU ARG TYR PHE SEQRES 3 B 107 LEU PRO PRO SER PHE PRO ILE SER LYS LYS GLN LEU SER SEQRES 4 B 107 ALA MSE ASN SER ASP GLU LEU ILE SER PHE PRO LEU LYS SEQRES 5 B 107 GLU TYR PHE LYS GLN TYR GLU VAL GLY LEU GLN ASN LEU SEQRES 6 B 107 CYS ASN SER TYR GLN SER ARG ALA ASP SER ARG ALA LYS SEQRES 7 B 107 ALA SER GLU GLU SER LEU ARG THR SER GLU ARG LYS LEU SEQRES 8 B 107 ARG GLU THR GLU GLU LYS LEU GLN LYS LEU ARG THR ASN SEQRES 9 B 107 ILE VAL ALA MODRES 9KQL MSE A 937 MET MODIFIED RESIDUE MODRES 9KQL MSE B 937 MET MODIFIED RESIDUE HET MSE A 937 8 HET MSE B 937 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 2(C5 H11 N O2 SE) FORMUL 3 HOH *2(H2 O) HELIX 1 AA1 SER A 900 PHE A 922 1 23 HELIX 2 AA2 SER A 930 MSE A 937 1 8 HELIX 3 AA3 ASN A 938 SER A 944 1 7 HELIX 4 AA4 PRO A 946 ASN A 1000 1 55 HELIX 5 AA5 SER B 902 PHE B 922 1 21 HELIX 6 AA6 SER B 930 ALA B 936 1 7 HELIX 7 AA7 ASN B 938 SER B 944 1 7 HELIX 8 AA8 PRO B 946 GLN B 966 1 21 HELIX 9 AA9 GLN B 966 ILE B 1001 1 36 LINK C ALA A 936 N MSE A 937 1555 1555 1.33 LINK C MSE A 937 N ASN A 938 1555 1555 1.33 LINK C ALA B 936 N MSE B 937 1555 1555 1.33 LINK C MSE B 937 N ASN B 938 1555 1555 1.33 CRYST1 130.253 130.253 40.895 90.00 90.00 90.00 I 41 16 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 0.007677 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007677 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024453 0.00000 CONECT 296 299 CONECT 299 296 300 CONECT 300 299 301 303 CONECT 301 300 302 307 CONECT 302 301 CONECT 303 300 304 CONECT 304 303 305 CONECT 305 304 306 CONECT 306 305 CONECT 307 301 CONECT 1120 1123 CONECT 1123 1120 1124 CONECT 1124 1123 1125 1127 CONECT 1125 1124 1126 1131 CONECT 1126 1125 CONECT 1127 1124 1128 CONECT 1128 1127 1129 CONECT 1129 1128 1130 CONECT 1130 1129 CONECT 1131 1125 MASTER 246 0 2 9 0 0 0 6 1669 2 20 18 END