HEADER TRANSCRIPTION 11-JUN-14 4UP0 TITLE TERNARY CRYSTAL STRUCTURE OF THE PYGO2 PHD FINGER IN COMPLEX WITH THE TITLE 2 B9L HD1 DOMAIN AND A H3K4ME2 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYGOPUS HOMOLOG 2, B-CELL CLL/LYMPHOMA 9-LIKE PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PHD FINGER, HD1,RESIDUES 327-387,235-263; COMPND 5 SYNONYM: PYGO2, B9L, B-CELL LYMPHOMA 9-LIKE PROTEIN, BCL9-LIKE COMPND 6 PROTEIN, PROTEIN BCL9-2; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: HISTONE H3.1; COMPND 10 CHAIN: F; COMPND 11 FRAGMENT: RESIDUES 2-16; COMPND 12 ENGINEERED: YES; COMPND 13 OTHER_DETAILS: DIMETHYLATED LYSINE 4 - K4ME2 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: CODONPLUS RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETM11; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_COMMON: HUMAN; SOURCE 15 ORGANISM_TAXID: 9606 KEYWDS TRANSCRIPTION, WNT SIGNALLING, PHD FINGER, BCL9L, HD1 DOMAIN EXPDTA X-RAY DIFFRACTION AUTHOR T.C.R.MILLER,M.FIEDLER,T.J.RUTHERFORD,K.BIRCHALL,J.CHUGH,M.BIENZ REVDAT 3 10-JAN-24 4UP0 1 REMARK LINK REVDAT 2 14-JAN-15 4UP0 1 JRNL REVDAT 1 05-NOV-14 4UP0 0 JRNL AUTH T.C.R.MILLER,T.J.RUTHERFORD,K.BIRCHALL,J.CHUGH,M.FIEDLER, JRNL AUTH 2 M.BIENZ JRNL TITL COMPETITIVE BINDING OF A BENZIMIDAZOLE TO THE JRNL TITL 2 HISTONE-BINDING POCKET OF THE PYGO PHD FINGER. JRNL REF ACS CHEM.BIOL. V. 9 2864 2014 JRNL REFN ISSN 1554-8929 JRNL PMID 25323450 JRNL DOI 10.1021/CB500585S REMARK 2 REMARK 2 RESOLUTION. 1.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0002 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) : 1.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 21476 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) : 0.139 REMARK 3 R VALUE (WORKING SET) : 0.138 REMARK 3 FREE R VALUE : 0.166 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1157 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) : 1.28 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.31 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1403 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.40 REMARK 3 BIN R VALUE (WORKING SET) : 0.2550 REMARK 3 BIN FREE R VALUE SET COUNT : 83 REMARK 3 BIN FREE R VALUE : 0.2990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 692 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 94 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.07000 REMARK 3 B22 (A**2) : 0.07000 REMARK 3 B33 (A**2) : -0.14000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.042 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.041 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.024 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.222 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.971 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 703 ; 0.020 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 954 ; 1.955 ; 1.927 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 88 ; 5.655 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 32 ;36.505 ;24.063 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 102 ;11.258 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ;21.112 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 111 ; 0.133 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 528 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 702 ; 8.079 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 33 ;32.703 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 756 ;19.139 ; 5.000 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 : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS.CHAIN A RESIDUES 383-387 AND 8AA GSGSGSGS LINKER ARE REMARK 3 DISORDERED CHAIN A RESIDUE 1263 IS DISORDERED. CHAIN F RESIDUES REMARK 3 7-15 ARE DISORDERED REMARK 4 REMARK 4 4UP0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-JUN-14. REMARK 100 THE DEPOSITION ID IS D_1290060877. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JAN-11 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 : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976219 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22695 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.280 REMARK 200 RESOLUTION RANGE LOW (A) : 39.470 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.400 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 11.60 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.28 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 12.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 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: PDB ENTRY 2XB1 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1 M SODIUM CITRATE, 0.1 M TRIS PH 7, REMARK 280 0.2 M NACL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 28.97000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 26.95500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 26.95500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 14.48500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 26.95500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 26.95500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 43.45500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 26.95500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 26.95500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 14.48500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 26.95500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 26.95500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 43.45500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 28.97000 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: 2070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.5 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, F 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 LEU A 383 REMARK 465 LYS A 384 REMARK 465 THR A 385 REMARK 465 LYS A 386 REMARK 465 GLU A 387 REMARK 465 GLY A 388 REMARK 465 SER A 389 REMARK 465 GLY A 390 REMARK 465 SER A 391 REMARK 465 GLY A 392 REMARK 465 SER A 393 REMARK 465 GLY A 394 REMARK 465 SER A 395 REMARK 465 GLN A 1263 REMARK 465 ALA F 7 REMARK 465 ARG F 8 REMARK 465 ALY F 9 REMARK 465 SER F 10 REMARK 465 THR F 11 REMARK 465 GLY F 12 REMARK 465 GLY F 13 REMARK 465 LYS F 14 REMARK 465 ALA F 15 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 334 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES 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 SER A 349 -75.29 -156.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2012 DISTANCE = 6.00 ANGSTROMS 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 A1383 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 330 SG REMARK 620 2 CYS A 333 SG 109.1 REMARK 620 3 HIS A 355 ND1 100.6 103.6 REMARK 620 4 CYS A 358 SG 118.6 110.8 112.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1384 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 346 SG REMARK 620 2 CYS A 350 SG 106.0 REMARK 620 3 CYS A 379 SG 114.0 115.3 REMARK 620 4 CYS A 382 SG 114.4 105.1 102.0 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 ZN A 1383 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1384 REMARK 999 REMARK 999 SEQUENCE REMARK 999 GLYCINE (REMNANT OF TEV CLEAVAGE SITE), PYGO2 PHD FINGER ( REMARK 999 AAS 327-387), ARTIFICIAL LINKER (8AA LINKER-GSGSGSGS), B9L REMARK 999 HD1 DOMAIN (AAS 235-263) OF ISOFORM 2 OF Q86UU0 DBREF 4UP0 A 327 387 UNP Q9BRQ0 PYGO2_HUMAN 327 387 DBREF 4UP0 A 1235 1263 UNP Q86UU0 BCL9L_HUMAN 235 263 DBREF 4UP0 F 1 15 UNP P68431 H31_HUMAN 2 16 SEQADV 4UP0 GLY A 388 UNP Q9BRQ0 LINKER SEQADV 4UP0 SER A 389 UNP Q9BRQ0 LINKER SEQADV 4UP0 GLY A 390 UNP Q9BRQ0 LINKER SEQADV 4UP0 SER A 391 UNP Q9BRQ0 LINKER SEQADV 4UP0 GLY A 392 UNP Q9BRQ0 LINKER SEQADV 4UP0 SER A 393 UNP Q9BRQ0 LINKER SEQADV 4UP0 GLY A 394 UNP Q9BRQ0 LINKER SEQADV 4UP0 SER A 395 UNP Q9BRQ0 LINKER SEQRES 1 A 99 GLY VAL TYR PRO CYS GLY ALA CYS ARG SER GLU VAL ASN SEQRES 2 A 99 ASP ASP GLN ASP ALA ILE LEU CYS GLU ALA SER CYS GLN SEQRES 3 A 99 LYS TRP PHE HIS ARG GLU CYS THR GLY MET THR GLU SER SEQRES 4 A 99 ALA TYR GLY LEU LEU THR THR GLU ALA SER ALA VAL TRP SEQRES 5 A 99 ALA CYS ASP LEU CYS LEU LYS THR LYS GLU GLY SER GLY SEQRES 6 A 99 SER GLY SER GLY SER VAL TYR VAL PHE THR THR HIS LEU SEQRES 7 A 99 ALA ASN THR ALA ALA GLU ALA VAL LEU GLN GLY ARG ALA SEQRES 8 A 99 ASP SER ILE LEU ALA TYR HIS GLN SEQRES 1 F 15 ALA ARG THR MLY GLN THR ALA ARG ALY SER THR GLY GLY SEQRES 2 F 15 LYS ALA MODRES 4UP0 MLY F 4 LYS N-DIMETHYL-LYSINE HET MLY F 4 11 HET ZN A1383 1 HET ZN A1384 1 HETNAM MLY N-DIMETHYL-LYSINE HETNAM ZN ZINC ION FORMUL 2 MLY C8 H18 N2 O2 FORMUL 3 ZN 2(ZN 2+) FORMUL 5 HOH *94(H2 O) HELIX 1 1 GLU A 357 THR A 359 5 3 HELIX 2 2 THR A 362 GLU A 372 1 11 HELIX 3 3 THR A 1239 GLN A 1252 1 14 HELIX 4 4 SER A 1257 HIS A 1262 5 6 SHEET 1 AA 2 ALA A 343 LEU A 345 0 SHEET 2 AA 2 TRP A 353 HIS A 355 -1 O PHE A 354 N ILE A 344 SHEET 1 AB 2 ALA A 375 TRP A 377 0 SHEET 2 AB 2 TYR A1236 PHE A1238 1 O TYR A1236 N VAL A 376 LINK C THR F 3 N MLY F 4 1555 1555 1.32 LINK C MLY F 4 N GLN F 5 1555 1555 1.32 LINK SG CYS A 330 ZN ZN A1383 1555 1555 2.34 LINK SG CYS A 333 ZN ZN A1383 1555 1555 2.31 LINK SG CYS A 346 ZN ZN A1384 1555 1555 2.35 LINK SG CYS A 350 ZN ZN A1384 1555 1555 2.32 LINK ND1 HIS A 355 ZN ZN A1383 1555 1555 2.10 LINK SG CYS A 358 ZN ZN A1383 1555 1555 2.30 LINK SG CYS A 379 ZN ZN A1384 1555 1555 2.33 LINK SG CYS A 382 ZN ZN A1384 1555 1555 2.33 SITE 1 AC1 4 CYS A 330 CYS A 333 HIS A 355 CYS A 358 SITE 1 AC2 4 CYS A 346 CYS A 350 CYS A 379 CYS A 382 CRYST1 53.910 53.910 57.940 90.00 90.00 90.00 P 41 21 2 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 0.018549 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018549 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017259 0.00000