HEADER TRANSCRIPTION/DNA 31-MAR-14 4PZI TITLE ZINC FINGER REGION OF MLL2 IN COMPLEX WITH CPG DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE-LYSINE N-METHYLTRANSFERASE 2B; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: LYSINE N-METHYLTRANSFERASE 2B, MYELOID/LYMPHOID OR MIXED- COMPND 5 LINEAGE LEUKEMIA PROTEIN 4, TRITHORAX HOMOLOG 2, WW DOMAIN-BINDING COMPND 6 PROTEIN 7, WBP-7; COMPND 7 EC: 2.1.1.43; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: DNA (5'-D(*GP*CP*CP*AP*CP*CP*GP*GP*TP*GP*GP*C)-3'); COMPND 11 CHAIN: B, C; COMPND 12 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: KMT2B, HRX2, KIAA0304, MLL2, MLL4, TRX2, WBP7; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-V2R-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28-MHL; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 OTHER_DETAILS: SYNTHETIC DNA KEYWDS ZINC FINGER, DNA-BINDING, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR X.CHAO,W.TEMPEL,K.LIU,A.DONG,C.BOUNTRA,J.WEIGELT,C.H.ARROWSMITH, AUTHOR 2 A.M.EDWARDS,J.MIN,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 5 03-APR-24 4PZI 1 REMARK REVDAT 4 28-FEB-24 4PZI 1 REMARK REVDAT 3 24-AUG-22 4PZI 1 JRNL REMARK SEQADV LINK REVDAT 2 03-JAN-18 4PZI 1 JRNL REVDAT 1 04-JUN-14 4PZI 0 JRNL AUTH C.XU,K.LIU,M.LEI,A.YANG,Y.LI,T.R.HUGHES,J.MIN JRNL TITL DNA SEQUENCE RECOGNITION OF HUMAN CXXC DOMAINS AND THEIR JRNL TITL 2 STRUCTURAL DETERMINANTS. JRNL REF STRUCTURE V. 26 85 2018 JRNL REFN ISSN 0969-2126 JRNL PMID 29276034 JRNL DOI 10.1016/J.STR.2017.11.022 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.91 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 8658 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) : 0.228 REMARK 3 R VALUE (WORKING SET) : 0.226 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 398 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 582 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.3430 REMARK 3 BIN FREE R VALUE SET COUNT : 28 REMARK 3 BIN FREE R VALUE : 0.3270 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 441 REMARK 3 NUCLEIC ACID ATOMS : 486 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 8 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 61.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.74000 REMARK 3 B22 (A**2) : -2.17000 REMARK 3 B33 (A**2) : 2.55000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.68000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.226 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.201 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.204 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.511 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1001 ; 0.014 ; 0.015 REMARK 3 BOND LENGTHS OTHERS (A): 697 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1441 ; 1.434 ; 1.499 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1605 ; 1.261 ; 3.010 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 61 ; 5.770 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 17 ;27.206 ;21.765 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 82 ;14.005 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ;12.299 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 134 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 810 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 235 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 245 ; 2.794 ; 3.106 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 244 ; 2.779 ; 3.107 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 305 ; 3.962 ; 4.656 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 956 A 1016 REMARK 3 ORIGIN FOR THE GROUP (A): 83.1871 33.0142 17.1601 REMARK 3 T TENSOR REMARK 3 T11: 0.1359 T22: 0.0763 REMARK 3 T33: 0.1949 T12: -0.0387 REMARK 3 T13: -0.0534 T23: -0.0147 REMARK 3 L TENSOR REMARK 3 L11: 2.6491 L22: 7.2098 REMARK 3 L33: 7.0875 L12: -0.8743 REMARK 3 L13: 0.2544 L23: -0.2396 REMARK 3 S TENSOR REMARK 3 S11: -0.0027 S12: 0.4103 S13: -0.0876 REMARK 3 S21: -0.1508 S22: -0.0679 S23: 0.1314 REMARK 3 S31: 0.3874 S32: -0.0485 S33: 0.0706 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 12 REMARK 3 ORIGIN FOR THE GROUP (A): 83.1718 41.5293 10.8417 REMARK 3 T TENSOR REMARK 3 T11: 0.1412 T22: 0.2501 REMARK 3 T33: 0.1770 T12: -0.0295 REMARK 3 T13: -0.0030 T23: 0.0392 REMARK 3 L TENSOR REMARK 3 L11: 7.2495 L22: 6.7147 REMARK 3 L33: 5.2408 L12: 3.2700 REMARK 3 L13: 0.7484 L23: 0.1571 REMARK 3 S TENSOR REMARK 3 S11: -0.0972 S12: -0.1482 S13: 0.0808 REMARK 3 S21: -0.0863 S22: 0.0367 S23: -0.1079 REMARK 3 S31: -0.2177 S32: 0.1782 S33: 0.0605 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 12 REMARK 3 ORIGIN FOR THE GROUP (A): 81.9260 42.6805 11.0556 REMARK 3 T TENSOR REMARK 3 T11: 0.1165 T22: 0.1694 REMARK 3 T33: 0.2647 T12: -0.0260 REMARK 3 T13: -0.1009 T23: 0.0192 REMARK 3 L TENSOR REMARK 3 L11: 7.9864 L22: 7.4087 REMARK 3 L33: 6.0651 L12: 3.3743 REMARK 3 L13: 1.2389 L23: 0.0093 REMARK 3 S TENSOR REMARK 3 S11: -0.2191 S12: 0.2683 S13: 0.8885 REMARK 3 S21: -0.3505 S22: 0.2244 S23: 0.0801 REMARK 3 S31: -0.3646 S32: 0.0102 S33: -0.0053 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: COOT WAS USED FOR INTERACTIVE MODEL REMARK 3 BUILDING. MODEL GEOMETRY WAS ASSESSED WITH MOLPROBITY. I NOTE REMARK 3 THE POOR SIDE CHAIN FIT OF HIS-957 TO ELECTRON DENSITY. I REMARK 3 ATTEMPTED MODELING AN ALTERNATE CONFORMATION IN WHICH N-TERMINAL REMARK 3 EXTENSION OF MAIN CHAIN AND THIS SIDE CHAIN ARE SWITCHED, BUT REMARK 3 ABANDONED THE ATTEMPT AFTER FAILING TO FIT A GOOD ROTAMER TO THE REMARK 3 DENSITY. REMARK 4 REMARK 4 4PZI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-APR-14. REMARK 100 THE DEPOSITION ID IS D_1000085414. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-AUG-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.2.14 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8659 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 35.360 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.22 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 1.13000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.400 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: STRUCTURE OF ISOMORPHOUS CRYSTAL WAS SOLVED BY REMARK 200 MOLECULAR REPLACEMENT USING CURRENTLY UNPUBLISHED MODELS OF SAME REMARK 200 PROTEIN AND DNA, RESPECTIVELY. REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG-3350, 0.2 M AMMONIUM SULFATE, REMARK 280 0.1 M TRIS, PH 8.5, 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 35.36800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 20.50250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.36800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 20.50250 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 300 REMARK: BIOLOGICAL UNIT HAS NOT BEEN DETERMINED 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: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 954 REMARK 465 SER A 955 REMARK 465 ALA A 1017 REMARK 465 LYS A 1018 REMARK 465 LYS A 1019 REMARK 465 GLY A 1020 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 HIS A 956 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 960 CG CD CE NZ REMARK 470 MET A 961 SD CE REMARK 470 VAL A 975 CG1 CG2 REMARK 470 LYS A 996 NZ REMARK 470 LYS A1007 CE NZ REMARK 470 ARG A1011 CG CD NE CZ NH1 NH2 REMARK 470 LYS A1012 NZ REMARK 470 MET A1013 CG SD CE REMARK 470 GLU A1014 CG CD OE1 OE2 REMARK 470 ARG A1015 CD NE CZ NH1 NH2 REMARK 470 LEU A1016 CG CD1 CD2 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 HIS A 957 55.85 -105.31 REMARK 500 CYS A1000 134.30 -33.03 REMARK 500 ARG A1015 -75.87 -69.19 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 A1101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 966 SG REMARK 620 2 CYS A 969 SG 109.3 REMARK 620 3 CYS A 972 SG 115.5 109.5 REMARK 620 4 CYS A1005 SG 109.0 117.4 95.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1102 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 978 SG REMARK 620 2 CYS A 981 SG 106.8 REMARK 620 3 CYS A 984 SG 118.5 106.2 REMARK 620 4 CYS A1000 SG 104.5 118.6 103.1 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 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1102 DBREF 4PZI A 955 1020 UNP Q9UMN6 KMT2B_HUMAN 955 1020 DBREF 4PZI B 1 12 PDB 4PZI 4PZI 1 12 DBREF 4PZI C 1 12 PDB 4PZI 4PZI 1 12 SEQADV 4PZI GLY A 954 UNP Q9UMN6 EXPRESSION TAG SEQRES 1 A 67 GLY SER HIS HIS GLY LYS LYS MET ARG MET ALA ARG CYS SEQRES 2 A 67 GLY HIS CYS ARG GLY CYS LEU ARG VAL GLN ASP CYS GLY SEQRES 3 A 67 SER CYS VAL ASN CYS LEU ASP LYS PRO LYS PHE GLY GLY SEQRES 4 A 67 PRO ASN THR LYS LYS GLN CYS CYS VAL TYR ARG LYS CYS SEQRES 5 A 67 ASP LYS ILE GLU ALA ARG LYS MET GLU ARG LEU ALA LYS SEQRES 6 A 67 LYS GLY SEQRES 1 B 12 DG DC DC DA DC DC DG DG DT DG DG DC SEQRES 1 C 12 DG DC DC DA DC DC DG DG DT DG DG DC HET ZN A1101 1 HET ZN A1102 1 HET UNX A1103 1 HETNAM ZN ZINC ION HETNAM UNX UNKNOWN ATOM OR ION FORMUL 4 ZN 2(ZN 2+) FORMUL 6 UNX X FORMUL 7 HOH *8(H2 O) HELIX 1 1 CYS A 969 ARG A 974 1 6 HELIX 2 2 CYS A 981 ASP A 986 1 6 HELIX 3 3 LYS A 987 GLY A 991 5 5 HELIX 4 4 CYS A 1000 LYS A 1004 5 5 HELIX 5 5 CYS A 1005 LEU A 1016 1 12 LINK SG CYS A 966 ZN ZN A1101 1555 1555 2.35 LINK SG CYS A 969 ZN ZN A1101 1555 1555 2.35 LINK SG CYS A 972 ZN ZN A1101 1555 1555 2.30 LINK SG CYS A 978 ZN ZN A1102 1555 1555 2.25 LINK SG CYS A 981 ZN ZN A1102 1555 1555 2.37 LINK SG CYS A 984 ZN ZN A1102 1555 1555 2.32 LINK SG CYS A1000 ZN ZN A1102 1555 1555 2.38 LINK SG CYS A1005 ZN ZN A1101 1555 1555 2.35 SITE 1 AC1 4 CYS A 966 CYS A 969 CYS A 972 CYS A1005 SITE 1 AC2 4 CYS A 978 CYS A 981 CYS A 984 CYS A1000 CRYST1 70.736 41.005 55.508 90.00 99.24 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 0.014137 0.000000 0.002300 0.00000 SCALE2 0.000000 0.024387 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018252 0.00000