PDB Short entry for 5XMY HEADER TRANSCRIPTION 16-MAY-17 5XMY TITLE CRYSTAL STRUCTURE OF TAF3 PHD FINGER BOUND TO H3K4ME3Q5SER COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 3; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: PHD FINGER, UNP RESIDUES 853-915; COMPND 5 SYNONYM: 140 KDA TATA BOX-BINDING PROTEIN-ASSOCIATED FACTOR,TBP- COMPND 6 ASSOCIATED FACTOR 3,TRANSCRIPTION INITIATION FACTOR TFIID 140 KDA COMPND 7 SUBUNIT,TAFII140; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: HISTONE PEPTIDE H3(1-15)K4ME3Q5SER; COMPND 12 CHAIN: P, D; COMPND 13 FRAGMENT: H3 PEPTIDE 1-15; COMPND 14 ENGINEERED: YES; COMPND 15 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TAF3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PSUMOH10; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630; SOURCE 15 OTHER_DETAILS: CHEMICALLY SYNTHESIZED H3K4ME3 PEPTIDE KEYWDS ZINC FINGER, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR S.ZHAO,B.ZHANG,H.LI REVDAT 2 22-NOV-23 5XMY 1 REMARK REVDAT 1 28-NOV-18 5XMY 0 JRNL AUTH S.ZHAO,B.ZHANG,H.LI JRNL TITL CRYSTAL STRUCTURE OF TAF3 PHD FINGER BOUND TO H3K4ME3Q5SER JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX DEV_2689 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.27 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 14642 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 729 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 25.2770 - 2.9047 0.99 2829 155 0.1529 0.1829 REMARK 3 2 2.9047 - 2.3060 1.00 2808 145 0.2114 0.2573 REMARK 3 3 2.3060 - 2.0147 0.99 2818 129 0.2071 0.2700 REMARK 3 4 2.0147 - 1.8305 0.99 2759 143 0.2213 0.2840 REMARK 3 5 1.8305 - 1.6993 0.97 2699 157 0.2348 0.2970 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) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.430 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.79 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.37 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 : 0.006 1142 REMARK 3 ANGLE : 0.915 1560 REMARK 3 CHIRALITY : 0.060 148 REMARK 3 PLANARITY : 0.006 202 REMARK 3 DIHEDRAL : 18.568 665 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 855 THROUGH 868 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.1841 5.6723 13.3828 REMARK 3 T TENSOR REMARK 3 T11: 0.2007 T22: 0.2390 REMARK 3 T33: 0.2620 T12: -0.0393 REMARK 3 T13: 0.0016 T23: 0.0630 REMARK 3 L TENSOR REMARK 3 L11: 0.3900 L22: 1.0654 REMARK 3 L33: 0.6134 L12: 0.1163 REMARK 3 L13: -0.4428 L23: -0.2096 REMARK 3 S TENSOR REMARK 3 S11: -0.2766 S12: 0.6089 S13: 0.2630 REMARK 3 S21: 0.2591 S22: 0.2125 S23: 0.0237 REMARK 3 S31: -0.0046 S32: -0.0328 S33: 0.0319 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 869 THROUGH 890 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.1491 -2.4445 22.0763 REMARK 3 T TENSOR REMARK 3 T11: 0.2671 T22: 0.1465 REMARK 3 T33: 0.2613 T12: 0.0019 REMARK 3 T13: -0.0006 T23: 0.0337 REMARK 3 L TENSOR REMARK 3 L11: 1.0806 L22: 0.5247 REMARK 3 L33: 0.4372 L12: -0.2360 REMARK 3 L13: 0.0391 L23: -0.7138 REMARK 3 S TENSOR REMARK 3 S11: 0.0066 S12: -0.2010 S13: -0.0495 REMARK 3 S21: -0.2028 S22: -0.0721 S23: -0.0460 REMARK 3 S31: -0.0360 S32: 0.1110 S33: -0.0575 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 891 THROUGH 897 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.2121 -6.8403 24.1900 REMARK 3 T TENSOR REMARK 3 T11: 0.2591 T22: 0.1415 REMARK 3 T33: 0.2959 T12: 0.0238 REMARK 3 T13: 0.0402 T23: 0.0497 REMARK 3 L TENSOR REMARK 3 L11: 0.5260 L22: 0.2994 REMARK 3 L33: 0.6760 L12: 0.1533 REMARK 3 L13: 0.2202 L23: 0.2001 REMARK 3 S TENSOR REMARK 3 S11: 0.1656 S12: -0.1602 S13: -0.1060 REMARK 3 S21: -0.3469 S22: -0.5036 S23: -0.0373 REMARK 3 S31: 0.3380 S32: -0.0132 S33: -0.2864 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 898 THROUGH 911 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.6937 -7.0901 33.8662 REMARK 3 T TENSOR REMARK 3 T11: 0.3354 T22: 0.3055 REMARK 3 T33: 0.3282 T12: 0.0056 REMARK 3 T13: 0.0202 T23: 0.1051 REMARK 3 L TENSOR REMARK 3 L11: 0.1583 L22: 0.2466 REMARK 3 L33: 0.5363 L12: -0.0740 REMARK 3 L13: 0.1192 L23: -0.0644 REMARK 3 S TENSOR REMARK 3 S11: -0.0947 S12: -0.3643 S13: -0.2096 REMARK 3 S21: 0.3071 S22: 0.1206 S23: 0.0219 REMARK 3 S31: 0.2369 S32: 0.1556 S33: 0.0035 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 912 THROUGH 917 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.9192 0.3539 32.5961 REMARK 3 T TENSOR REMARK 3 T11: 0.3155 T22: 0.5261 REMARK 3 T33: 0.5551 T12: 0.0120 REMARK 3 T13: -0.1073 T23: -0.0014 REMARK 3 L TENSOR REMARK 3 L11: 0.0542 L22: 0.0506 REMARK 3 L33: 0.0067 L12: -0.0743 REMARK 3 L13: -0.0108 L23: 0.0412 REMARK 3 S TENSOR REMARK 3 S11: 0.0719 S12: -0.0991 S13: -1.2739 REMARK 3 S21: -0.0345 S22: 0.3292 S23: -0.4646 REMARK 3 S31: -0.4807 S32: 0.9180 S33: 0.0002 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'P' AND (RESID 1 THROUGH 7 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.8167 -4.7276 24.7273 REMARK 3 T TENSOR REMARK 3 T11: 0.2185 T22: 0.2890 REMARK 3 T33: 0.4126 T12: -0.0220 REMARK 3 T13: -0.0520 T23: 0.0997 REMARK 3 L TENSOR REMARK 3 L11: 0.1156 L22: 1.0829 REMARK 3 L33: 1.1285 L12: -0.3262 REMARK 3 L13: 0.0802 L23: -0.4325 REMARK 3 S TENSOR REMARK 3 S11: 0.2245 S12: -0.1831 S13: -0.2020 REMARK 3 S21: -0.3118 S22: 0.5303 S23: 1.4216 REMARK 3 S31: 0.3261 S32: -1.1859 S33: 0.0329 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 855 THROUGH 868 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.5324 5.0775 13.7015 REMARK 3 T TENSOR REMARK 3 T11: 0.2014 T22: 0.4602 REMARK 3 T33: 0.2953 T12: -0.0390 REMARK 3 T13: 0.0221 T23: -0.0343 REMARK 3 L TENSOR REMARK 3 L11: 0.5076 L22: 1.3105 REMARK 3 L33: 0.5983 L12: -0.7461 REMARK 3 L13: 0.2474 L23: -0.2290 REMARK 3 S TENSOR REMARK 3 S11: -0.1461 S12: 0.4937 S13: 0.1226 REMARK 3 S21: 0.1115 S22: -0.1055 S23: -0.0699 REMARK 3 S31: 0.0983 S32: -0.3866 S33: -0.1267 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 869 THROUGH 915 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.2558 0.7845 -2.4061 REMARK 3 T TENSOR REMARK 3 T11: 0.3546 T22: 0.6440 REMARK 3 T33: 0.2310 T12: -0.0497 REMARK 3 T13: 0.0012 T23: -0.0366 REMARK 3 L TENSOR REMARK 3 L11: 1.1469 L22: 0.7691 REMARK 3 L33: 1.1717 L12: 0.0786 REMARK 3 L13: 0.5395 L23: 0.9377 REMARK 3 S TENSOR REMARK 3 S11: -0.0181 S12: -0.2695 S13: 0.4253 REMARK 3 S21: -0.1337 S22: -0.2389 S23: 0.1279 REMARK 3 S31: 0.3856 S32: -0.7859 S33: -0.0850 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 1 THROUGH 7 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.5783 0.2979 -0.3018 REMARK 3 T TENSOR REMARK 3 T11: 0.3882 T22: 0.6723 REMARK 3 T33: 0.3504 T12: 0.0531 REMARK 3 T13: 0.0164 T23: -0.0562 REMARK 3 L TENSOR REMARK 3 L11: 0.2447 L22: 0.1845 REMARK 3 L33: 0.0850 L12: 0.2168 REMARK 3 L13: -0.0247 L23: 0.0816 REMARK 3 S TENSOR REMARK 3 S11: -0.2379 S12: 0.0214 S13: -0.0750 REMARK 3 S21: 0.2709 S22: -0.2645 S23: -0.4018 REMARK 3 S31: 0.7241 S32: 0.9068 S33: -0.0109 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 5XMY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1300003805. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-MAR-15 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 : SSRF REMARK 200 BEAMLINE : BL17U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL, SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000, HKL REMARK 200 DATA SCALING SOFTWARE : HKL-2000, HKL-2000, HKL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14658 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.699 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 (%) : 99.2 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 5.20 REMARK 200 R MERGE FOR SHELL (I) : 0.85600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 5C13 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.03 M MAGNESIUM CHLORIDE, 0.03 M REMARK 280 CALCIUM CHLORIDE, 0.1 M MES, 0.1 M IMIDAZOLE, PH6.5, 15% PEGMME REMARK 280 550, 15% PEG 20K, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 24.04800 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, P 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 C 916 REMARK 465 LYS C 917 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 O HOH C 1118 O HOH C 1121 2.16 REMARK 500 O HOH C 1128 O HOH C 1130 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 ASP A 887 -70.80 -104.83 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 A1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 870 SG REMARK 620 2 CYS A 873 SG 115.0 REMARK 620 3 HIS A 893 ND1 100.8 95.8 REMARK 620 4 CYS A 896 SG 116.9 113.7 111.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 885 SG REMARK 620 2 CYS A 888 SG 108.5 REMARK 620 3 CYS A 911 SG 108.1 110.8 REMARK 620 4 CYS A 914 SG 110.1 111.1 108.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 870 SG REMARK 620 2 CYS C 873 SG 96.8 REMARK 620 3 HIS C 893 ND1 105.1 99.7 REMARK 620 4 CYS C 896 SG 110.9 118.7 122.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 885 SG REMARK 620 2 CYS C 888 SG 113.3 REMARK 620 3 CYS C 911 SG 98.2 107.3 REMARK 620 4 CYS C 914 SG 116.8 116.2 102.1 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 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Ligand residues M3L D 4 through REMARK 800 GLN D 5 bound to THR D 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Ligand residues M3L P 4 through REMARK 800 GLN P 5 bound to THR P 3 DBREF 5XMY A 855 917 UNP Q5VWG9 TAF3_HUMAN 853 915 DBREF 5XMY P 1 7 PDB 5XMY 5XMY 1 7 DBREF 5XMY C 855 917 UNP Q5VWG9 TAF3_HUMAN 853 915 DBREF 5XMY D 1 7 PDB 5XMY 5XMY 1 7 SEQADV 5XMY MET A 856 UNP Q5VWG9 THR 854 ENGINEERED MUTATION SEQADV 5XMY MET C 856 UNP Q5VWG9 THR 854 ENGINEERED MUTATION SEQRES 1 A 63 SER MET TYR VAL ILE ARG ASP GLU TRP GLY ASN GLN ILE SEQRES 2 A 63 TRP ILE CYS PRO GLY CYS ASN LYS PRO ASP ASP GLY SER SEQRES 3 A 63 PRO MET ILE GLY CYS ASP ASP CYS ASP ASP TRP TYR HIS SEQRES 4 A 63 TRP PRO CYS VAL GLY ILE MET THR ALA PRO PRO GLU GLU SEQRES 5 A 63 MET GLN TRP PHE CYS PRO LYS CYS ALA ASN LYS SEQRES 1 P 7 ALA ARG THR M3L GLN THR ALA SEQRES 1 C 63 SER MET TYR VAL ILE ARG ASP GLU TRP GLY ASN GLN ILE SEQRES 2 C 63 TRP ILE CYS PRO GLY CYS ASN LYS PRO ASP ASP GLY SER SEQRES 3 C 63 PRO MET ILE GLY CYS ASP ASP CYS ASP ASP TRP TYR HIS SEQRES 4 C 63 TRP PRO CYS VAL GLY ILE MET THR ALA PRO PRO GLU GLU SEQRES 5 C 63 MET GLN TRP PHE CYS PRO LYS CYS ALA ASN LYS SEQRES 1 D 7 ALA ARG THR M3L GLN THR ALA HET M3L P 4 12 HET M3L D 4 12 HET ZN A1001 1 HET ZN A1002 1 HET ZN C1001 1 HET ZN C1002 1 HETNAM M3L N-TRIMETHYLLYSINE HETNAM ZN ZINC ION FORMUL 2 M3L 2(C9 H21 N2 O2 1+) FORMUL 5 ZN 4(ZN 2+) FORMUL 9 HOH *107(H2 O) HELIX 1 AA1 PRO A 895 GLY A 898 5 4 HELIX 2 AA2 CYS A 911 ASN A 916 1 6 HELIX 3 AA3 PRO C 895 GLY C 898 5 4 SHEET 1 AA1 2 VAL A 858 ARG A 860 0 SHEET 2 AA1 2 GLN A 866 TRP A 868 -1 O ILE A 867 N ILE A 859 SHEET 1 AA2 3 TRP A 891 HIS A 893 0 SHEET 2 AA2 3 MET A 882 GLY A 884 -1 N ILE A 883 O TYR A 892 SHEET 3 AA2 3 ARG P 2 M3L P 4 -1 O ARG P 2 N GLY A 884 SHEET 1 AA3 3 VAL C 858 ARG C 860 0 SHEET 2 AA3 3 GLN C 866 CYS C 870 -1 O ILE C 867 N ILE C 859 SHEET 3 AA3 3 LYS C 875 PRO C 876 -1 O LYS C 875 N CYS C 870 SHEET 1 AA4 3 TRP C 891 HIS C 893 0 SHEET 2 AA4 3 MET C 882 GLY C 884 -1 N ILE C 883 O TYR C 892 SHEET 3 AA4 3 THR D 3 M3L D 4 -1 O M3L D 4 N MET C 882 LINK C THR P 3 N M3L P 4 1555 1555 1.33 LINK C M3L P 4 N GLN P 5 1555 1555 1.33 LINK C THR D 3 N M3L D 4 1555 1555 1.33 LINK C M3L D 4 N GLN D 5 1555 1555 1.33 LINK SG CYS A 870 ZN ZN A1002 1555 1555 2.31 LINK SG CYS A 873 ZN ZN A1002 1555 1555 2.29 LINK SG CYS A 885 ZN ZN A1001 1555 1555 2.32 LINK SG CYS A 888 ZN ZN A1001 1555 1555 2.33 LINK ND1 HIS A 893 ZN ZN A1002 1555 1555 2.11 LINK SG CYS A 896 ZN ZN A1002 1555 1555 2.29 LINK SG CYS A 911 ZN ZN A1001 1555 1555 2.35 LINK SG CYS A 914 ZN ZN A1001 1555 1555 2.26 LINK SG CYS C 870 ZN ZN C1002 1555 1555 2.27 LINK SG CYS C 873 ZN ZN C1002 1555 1555 2.32 LINK SG CYS C 885 ZN ZN C1001 1555 1555 2.41 LINK SG CYS C 888 ZN ZN C1001 1555 1555 2.39 LINK ND1 HIS C 893 ZN ZN C1002 1555 1555 1.98 LINK SG CYS C 896 ZN ZN C1002 1555 1555 2.27 LINK SG CYS C 911 ZN ZN C1001 1555 1555 2.22 LINK SG CYS C 914 ZN ZN C1001 1555 1555 2.39 SITE 1 AC1 4 CYS A 885 CYS A 888 CYS A 911 CYS A 914 SITE 1 AC2 4 CYS A 870 CYS A 873 HIS A 893 CYS A 896 SITE 1 AC3 4 CYS C 885 CYS C 888 CYS C 911 CYS C 914 SITE 1 AC4 4 CYS C 870 CYS C 873 HIS C 893 CYS C 896 SITE 1 AC5 9 TRP A 863 TRP C 868 ASP C 877 GLY C 879 SITE 2 AC5 9 PRO C 881 MET C 882 TRP C 891 THR D 3 SITE 3 AC5 9 THR D 6 SITE 1 AC6 11 TRP A 868 ASP A 877 GLY A 879 PRO A 881 SITE 2 AC6 11 MET A 882 TRP A 891 TRP C 863 THR P 3 SITE 3 AC6 11 THR P 6 HOH P 102 HOH P 104 CRYST1 26.982 48.096 52.700 90.00 98.16 90.00 P 1 21 1 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 0.037062 0.000000 0.005317 0.00000 SCALE2 0.000000 0.020792 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019170 0.00000