HEADER TRANSCRIPTION/TRANSCRIPTION INHIBITOR 17-FEB-15 4YAT TITLE CRYSTAL STRUCTURE OF TRIM24 PHD-BROMODOMAIN COMPLEXED WITH N-(1,3- TITLE 2 DIMETHYL-2-OXO-2,3-DIHYDRO-1H-1,3-BENZODIAZOL-5-YL)-4-METHOXYBENZENE- TITLE 3 1-SULFONAMIDE (5B) COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTION INTERMEDIARY FACTOR 1-ALPHA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: BROMODOMAIN (UNP RESIDUES 824-1006); COMPND 5 SYNONYM: TIF1-ALPHA,E3 UBIQUITIN-PROTEIN LIGASE TRIM24,RING FINGER COMPND 6 PROTEIN 82,TRIPARTITE MOTIF-CONTAINING PROTEIN 24; COMPND 7 EC: 6.3.2.-; COMPND 8 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: TRIM24, RNF82, TIF1, TIF1A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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: PRSFDUET-1 KEYWDS CENTER FOR BIOMOLECULAR STRUCTURE AND FUNCTION, BROMODOMAIN, TRIM24, KEYWDS 2 INHIBITOR, TRANSCRIPTION-TRANSCRIPTION INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR G.PONCET-MONTANGE,W.PALMER,P.JONES REVDAT 3 27-SEP-23 4YAT 1 JRNL REMARK REVDAT 2 09-MAR-16 4YAT 1 JRNL REVDAT 1 24-JUN-15 4YAT 0 JRNL AUTH W.S.PALMER,G.PONCET-MONTANGE,G.LIU,A.PETROCCHI,N.REYNA, JRNL AUTH 2 G.SUBRAMANIAN,J.THEROFF,A.YAU,M.KOST-ALIMOVA, JRNL AUTH 3 J.P.BARDENHAGEN,E.LEO,H.E.SHEPARD,T.N.TIEU,X.SHI,Y.ZHAN, JRNL AUTH 4 S.ZHAO,M.C.BARTON,G.DRAETTA,C.TONIATTI,P.JONES,M.GECK DO, JRNL AUTH 5 J.N.ANDERSEN JRNL TITL STRUCTURE-GUIDED DESIGN OF IACS-9571, A SELECTIVE JRNL TITL 2 HIGH-AFFINITY DUAL TRIM24-BRPF1 BROMODOMAIN INHIBITOR. JRNL REF J.MED.CHEM. V. 59 1440 2016 JRNL REFN ISSN 0022-2623 JRNL PMID 26061247 JRNL DOI 10.1021/ACS.JMEDCHEM.5B00405 REMARK 2 REMARK 2 RESOLUTION. 2.18 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 2.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 62.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 20798 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) : 0.115 REMARK 3 R VALUE (WORKING SET) : 0.112 REMARK 3 FREE R VALUE : 0.165 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1090 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) : 2.18 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.24 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1492 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.36 REMARK 3 BIN R VALUE (WORKING SET) : 0.1110 REMARK 3 BIN FREE R VALUE SET COUNT : 70 REMARK 3 BIN FREE R VALUE : 0.2010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2806 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 332 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.25000 REMARK 3 B22 (A**2) : 0.06000 REMARK 3 B33 (A**2) : -0.48000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.12000 REMARK 3 B23 (A**2) : 0.28000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.170 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.109 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.138 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.981 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2925 ; 0.017 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 2730 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3960 ; 1.702 ; 2.008 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6342 ; 0.903 ; 3.004 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 339 ; 6.459 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 136 ;39.255 ;25.294 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 519 ;15.069 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ; 8.218 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 423 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3203 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 627 ; 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): 1374 ; 2.593 ; 3.410 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1373 ; 2.581 ; 3.409 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1707 ; 3.735 ; 5.091 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.30 REMARK 3 ION PROBE RADIUS : 0.70 REMARK 3 SHRINKAGE RADIUS : 0.70 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 4 REMARK 4 4YAT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-FEB-15. REMARK 100 THE DEPOSITION ID IS D_1000207137. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-APR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1159 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.3.11 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21176 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.180 REMARK 200 RESOLUTION RANGE LOW (A) : 62.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 200 DATA REDUNDANCY : 2.100 REMARK 200 R MERGE (I) : 0.11100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 3.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : 0.37300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3O34 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.2-2.4M AMMONIUM SULFATE, 0.1M HEPES REMARK 280 BUFFER PH 7.5, 2% PEG400 AND 8-9% GLYCEROL, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 SER A 823 REMARK 465 CYS A 882 REMARK 465 ASP A 883 REMARK 465 ALA A 884 REMARK 465 PRO A 885 REMARK 465 SER A 886 REMARK 465 HIS A 887 REMARK 465 ASN A 888 REMARK 465 SER A 889 REMARK 465 GLU A 890 REMARK 465 TYR A 956 REMARK 465 SER B 823 REMARK 465 PRO B 824 REMARK 465 ALA B 884 REMARK 465 PRO B 885 REMARK 465 SER B 886 REMARK 465 HIS B 887 REMARK 465 ASN B 888 REMARK 465 SER B 889 REMARK 465 GLU B 890 REMARK 465 LYS B 891 REMARK 465 ASP B 955 REMARK 465 TYR B 956 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 B 1202 O HOH B 1302 2.13 REMARK 500 N GLY A 863 O HOH A 1201 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH B 1223 O HOH B 1285 1455 2.07 REMARK 500 O HOH A 1235 O HOH B 1253 1455 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 B 871 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG B 871 NE - CZ - NH2 ANGL. DEV. = -3.2 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 GLN A 833 29.96 49.33 REMARK 500 ASN A 941 77.29 -114.27 REMARK 500 ASN B 941 76.04 -114.20 REMARK 500 ASP B 983 17.89 86.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASP B 983 SER B 984 147.85 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 A1360 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH A1361 DISTANCE = 6.32 ANGSTROMS REMARK 525 HOH A1362 DISTANCE = 6.50 ANGSTROMS REMARK 525 HOH A1363 DISTANCE = 6.99 ANGSTROMS REMARK 525 HOH A1364 DISTANCE = 9.15 ANGSTROMS REMARK 525 HOH A1365 DISTANCE = 9.27 ANGSTROMS REMARK 525 HOH B1357 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH B1358 DISTANCE = 6.00 ANGSTROMS REMARK 525 HOH B1359 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH B1360 DISTANCE = 6.58 ANGSTROMS REMARK 525 HOH B1361 DISTANCE = 6.58 ANGSTROMS REMARK 525 HOH B1362 DISTANCE = 6.85 ANGSTROMS REMARK 525 HOH B1363 DISTANCE = 7.05 ANGSTROMS REMARK 525 HOH B1364 DISTANCE = 7.11 ANGSTROMS REMARK 525 HOH B1365 DISTANCE = 7.24 ANGSTROMS REMARK 525 HOH B1366 DISTANCE = 7.65 ANGSTROMS REMARK 525 HOH B1367 DISTANCE = 10.16 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 A1101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 829 SG REMARK 620 2 CYS A 832 SG 117.2 REMARK 620 3 HIS A 849 ND1 103.6 90.1 REMARK 620 4 CYS A 852 SG 112.9 118.9 110.1 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 841 SG REMARK 620 2 CYS A 844 SG 106.6 REMARK 620 3 CYS A 867 SG 109.7 109.5 REMARK 620 4 CYS A 870 SG 114.0 100.1 116.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 829 SG REMARK 620 2 CYS B 832 SG 110.4 REMARK 620 3 HIS B 849 ND1 106.1 92.8 REMARK 620 4 CYS B 852 SG 109.7 117.0 119.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1102 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 841 SG REMARK 620 2 CYS B 844 SG 110.5 REMARK 620 3 CYS B 867 SG 111.0 109.1 REMARK 620 4 CYS B 870 SG 114.0 100.7 111.1 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 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 4A8 A 1103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 4A8 B 1103 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4YAB RELATED DB: PDB REMARK 900 RELATED ID: 4YAD RELATED DB: PDB REMARK 900 RELATED ID: 4YAX RELATED DB: PDB REMARK 900 RELATED ID: 4YBM RELATED DB: PDB REMARK 900 RELATED ID: 4YBS RELATED DB: PDB REMARK 900 RELATED ID: 4YBT RELATED DB: PDB DBREF 4YAT A 824 1006 UNP O15164 TIF1A_HUMAN 824 1006 DBREF 4YAT B 824 1006 UNP O15164 TIF1A_HUMAN 824 1006 SEQADV 4YAT SER A 823 UNP O15164 EXPRESSION TAG SEQADV 4YAT SER B 823 UNP O15164 EXPRESSION TAG SEQRES 1 A 184 SER PRO ASN GLU ASP TRP CYS ALA VAL CYS GLN ASN GLY SEQRES 2 A 184 GLY GLU LEU LEU CYS CYS GLU LYS CYS PRO LYS VAL PHE SEQRES 3 A 184 HIS LEU SER CYS HIS VAL PRO THR LEU THR ASN PHE PRO SEQRES 4 A 184 SER GLY GLU TRP ILE CYS THR PHE CYS ARG ASP LEU SER SEQRES 5 A 184 LYS PRO GLU VAL GLU TYR ASP CYS ASP ALA PRO SER HIS SEQRES 6 A 184 ASN SER GLU LYS LYS LYS THR GLU GLY LEU VAL LYS LEU SEQRES 7 A 184 THR PRO ILE ASP LYS ARG LYS CYS GLU ARG LEU LEU LEU SEQRES 8 A 184 PHE LEU TYR CYS HIS GLU MET SER LEU ALA PHE GLN ASP SEQRES 9 A 184 PRO VAL PRO LEU THR VAL PRO ASP TYR TYR LYS ILE ILE SEQRES 10 A 184 LYS ASN PRO MET ASP LEU SER THR ILE LYS LYS ARG LEU SEQRES 11 A 184 GLN GLU ASP TYR SER MET TYR SER LYS PRO GLU ASP PHE SEQRES 12 A 184 VAL ALA ASP PHE ARG LEU ILE PHE GLN ASN CYS ALA GLU SEQRES 13 A 184 PHE ASN GLU PRO ASP SER GLU VAL ALA ASN ALA GLY ILE SEQRES 14 A 184 LYS LEU GLU ASN TYR PHE GLU GLU LEU LEU LYS ASN LEU SEQRES 15 A 184 TYR PRO SEQRES 1 B 184 SER PRO ASN GLU ASP TRP CYS ALA VAL CYS GLN ASN GLY SEQRES 2 B 184 GLY GLU LEU LEU CYS CYS GLU LYS CYS PRO LYS VAL PHE SEQRES 3 B 184 HIS LEU SER CYS HIS VAL PRO THR LEU THR ASN PHE PRO SEQRES 4 B 184 SER GLY GLU TRP ILE CYS THR PHE CYS ARG ASP LEU SER SEQRES 5 B 184 LYS PRO GLU VAL GLU TYR ASP CYS ASP ALA PRO SER HIS SEQRES 6 B 184 ASN SER GLU LYS LYS LYS THR GLU GLY LEU VAL LYS LEU SEQRES 7 B 184 THR PRO ILE ASP LYS ARG LYS CYS GLU ARG LEU LEU LEU SEQRES 8 B 184 PHE LEU TYR CYS HIS GLU MET SER LEU ALA PHE GLN ASP SEQRES 9 B 184 PRO VAL PRO LEU THR VAL PRO ASP TYR TYR LYS ILE ILE SEQRES 10 B 184 LYS ASN PRO MET ASP LEU SER THR ILE LYS LYS ARG LEU SEQRES 11 B 184 GLN GLU ASP TYR SER MET TYR SER LYS PRO GLU ASP PHE SEQRES 12 B 184 VAL ALA ASP PHE ARG LEU ILE PHE GLN ASN CYS ALA GLU SEQRES 13 B 184 PHE ASN GLU PRO ASP SER GLU VAL ALA ASN ALA GLY ILE SEQRES 14 B 184 LYS LEU GLU ASN TYR PHE GLU GLU LEU LEU LYS ASN LEU SEQRES 15 B 184 TYR PRO HET ZN A1101 1 HET ZN A1102 1 HET 4A8 A1103 24 HET ZN B1101 1 HET ZN B1102 1 HET 4A8 B1103 24 HETNAM ZN ZINC ION HETNAM 4A8 N-(1,3-DIMETHYL-2-OXO-2,3-DIHYDRO-1H-BENZIMIDAZOL-5- HETNAM 2 4A8 YL)-4-METHOXYBENZENESULFONAMIDE FORMUL 3 ZN 4(ZN 2+) FORMUL 5 4A8 2(C16 H17 N3 O4 S) FORMUL 9 HOH *332(H2 O) HELIX 1 AA1 THR A 901 CYS A 917 1 17 HELIX 2 AA2 HIS A 918 GLN A 925 5 8 HELIX 3 AA3 ASP A 934 ILE A 939 1 6 HELIX 4 AA4 ASP A 944 GLU A 954 1 11 HELIX 5 AA5 LYS A 961 ASN A 980 1 20 HELIX 6 AA6 SER A 984 TYR A 1005 1 22 HELIX 7 AA7 THR B 901 CYS B 917 1 17 HELIX 8 AA8 HIS B 918 GLN B 925 5 8 HELIX 9 AA9 ASP B 934 ILE B 939 1 6 HELIX 10 AB1 ASP B 944 GLU B 954 1 11 HELIX 11 AB2 LYS B 961 ASN B 980 1 20 HELIX 12 AB3 SER B 984 TYR B 1005 1 22 SHEET 1 AA1 2 LEU A 839 CYS A 840 0 SHEET 2 AA1 2 VAL A 847 PHE A 848 -1 O PHE A 848 N LEU A 839 SHEET 1 AA2 2 LEU B 839 CYS B 840 0 SHEET 2 AA2 2 VAL B 847 PHE B 848 -1 O PHE B 848 N LEU B 839 LINK SG CYS A 829 ZN ZN A1101 1555 1555 2.22 LINK SG CYS A 832 ZN ZN A1101 1555 1555 2.29 LINK SG CYS A 841 ZN ZN A1102 1555 1555 2.25 LINK SG CYS A 844 ZN ZN A1102 1555 1555 2.43 LINK ND1 HIS A 849 ZN ZN A1101 1555 1555 2.41 LINK SG CYS A 852 ZN ZN A1101 1555 1555 2.21 LINK SG CYS A 867 ZN ZN A1102 1555 1555 2.40 LINK SG CYS A 870 ZN ZN A1102 1555 1555 2.26 LINK SG CYS B 829 ZN ZN B1101 1555 1555 2.34 LINK SG CYS B 832 ZN ZN B1101 1555 1555 2.39 LINK SG CYS B 841 ZN ZN B1102 1555 1555 2.23 LINK SG CYS B 844 ZN ZN B1102 1555 1555 2.44 LINK ND1 HIS B 849 ZN ZN B1101 1555 1555 2.25 LINK SG CYS B 852 ZN ZN B1101 1555 1555 2.22 LINK SG CYS B 867 ZN ZN B1102 1555 1555 2.49 LINK SG CYS B 870 ZN ZN B1102 1555 1555 2.37 CISPEP 1 VAL A 854 PRO A 855 0 -7.68 CISPEP 2 VAL B 854 PRO B 855 0 -5.68 SITE 1 AC1 4 CYS A 829 CYS A 832 HIS A 849 CYS A 852 SITE 1 AC2 4 CYS A 841 CYS A 844 CYS A 867 CYS A 870 SITE 1 AC3 9 LEU A 922 ALA A 923 VAL A 928 PRO A 929 SITE 2 AC3 9 VAL A 932 ASN A 980 HOH A1226 HOH A1273 SITE 3 AC3 9 LEU B 930 SITE 1 AC4 4 CYS B 829 CYS B 832 HIS B 849 CYS B 852 SITE 1 AC5 4 CYS B 841 CYS B 844 CYS B 867 CYS B 870 SITE 1 AC6 9 ALA B 923 VAL B 928 PRO B 929 VAL B 932 SITE 2 AC6 9 TYR B 935 PHE B 979 ASN B 980 HOH B1201 SITE 3 AC6 9 HOH B1250 CRYST1 36.990 49.236 65.770 107.78 90.00 112.06 P 1 2 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 0.027034 0.010956 0.003823 0.00000 SCALE2 0.000000 0.021915 0.007648 0.00000 SCALE3 0.000000 0.000000 0.016104 0.00000