HEADER HYDROLASE/HYDROLASE INHIBITOR 29-JUN-17 5WBN TITLE CRYSTAL STRUCTURE OF FRAGMENT 3-(3-BENZYL-2-OXO-2H-[1,2,4]TRIAZINO[2, TITLE 2 3-C]QUINAZOLIN-6-YL)PROPANOIC ACID BOUND IN THE UBIQUITIN BINDING TITLE 3 POCKET OF THE HDAC6 ZINC-FINGER DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE DEACETYLASE 6; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HD6; COMPND 5 EC: 3.5.1.98; COMPND 6 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: HDAC6, KIAA0901, JM21; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS(DE3)-RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28-LIC KEYWDS HISTONE DEACETYLASE, HDAC, HDAC6, FRAGMENT SCREENING, STRUCTURAL KEYWDS 2 GENOMICS CONSORTIUM, SGC, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.J.HARDING,J.R.WALKER,R.FERREIRA DE FREITAS,M.RAVICHANDRAN, AUTHOR 2 V.SANTHAKUMAR,M.SCHAPIRA,C.BOUNTRA,A.M.EDWARDS,C.H.ARROWSMITH REVDAT 2 13-MAR-24 5WBN 1 REMARK REVDAT 1 02-AUG-17 5WBN 0 JRNL AUTH R.J.HARDING,J.R.WALKER,R.FERREIRA DE FREITAS,M.RAVICHANDRAN, JRNL AUTH 2 V.SANTHAKUMAR,M.SCHAPIRA,C.BOUNTRA,A.M.EDWARDS, JRNL AUTH 3 C.H.ARROWSMITH JRNL TITL CRYSTAL STRUCTURE OF FRAGMENT JRNL TITL 2 3-(3-BENZYL-2-OXO-2H-[1,2,4]TRIAZINO[2,3-C]QUINAZOLIN-6-YL) JRNL TITL 3 PROPANOIC ACID BOUND IN THE UBIQUITIN BINDING POCKET OF THE JRNL TITL 4 HDAC6 ZINC-FINGER DOMAIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.64 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 1.64 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.44 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.6 REMARK 3 NUMBER OF REFLECTIONS : 11278 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) : 0.134 REMARK 3 R VALUE (WORKING SET) : 0.132 REMARK 3 FREE R VALUE : 0.168 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 564 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 227 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 26.22 REMARK 3 BIN R VALUE (WORKING SET) : 0.1820 REMARK 3 BIN FREE R VALUE SET COUNT : 14 REMARK 3 BIN FREE R VALUE : 0.1710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 801 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 56 REMARK 3 SOLVENT ATOMS : 148 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 9.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.09000 REMARK 3 B22 (A**2) : 0.51000 REMARK 3 B33 (A**2) : -0.41000 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): 0.086 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.087 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.050 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.449 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 917 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 754 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1256 ; 1.697 ; 1.926 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1751 ; 1.159 ; 3.009 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 110 ; 6.274 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 40 ;41.779 ;24.750 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 119 ;11.288 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 1 ;21.354 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 124 ; 0.118 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1163 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 186 ; 0.003 ; 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): 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): 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 : 1.20 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5WBN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1000228744. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : A200 REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN A200 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.31 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11842 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.640 REMARK 200 RESOLUTION RANGE LOW (A) : 32.620 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.69 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.36100 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: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M NA-FORMATE, 0.2M NA-ACETATE PH4.6, REMARK 280 5% ETHYLENE GLYCOL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 20.42500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 27.88000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.87000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 27.88000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.42500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 21.87000 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 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 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 ASP A 1210 REMARK 465 MET A 1211 REMARK 465 PRO A 1212 REMARK 465 HIS A 1213 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 A1135 -67.08 -90.85 REMARK 500 ILE A1157 -99.83 -96.64 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 A1303 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1113 SG REMARK 620 2 HIS A1115 ND1 111.6 REMARK 620 3 CYS A1183 SG 113.5 96.7 REMARK 620 4 CYS A1186 SG 113.1 104.8 115.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1133 SG REMARK 620 2 CYS A1136 SG 107.7 REMARK 620 3 CYS A1153 SG 114.8 116.9 REMARK 620 4 HIS A1160 ND1 105.4 111.2 100.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1145 SG REMARK 620 2 CYS A1148 SG 117.2 REMARK 620 3 HIS A1164 NE2 113.6 97.0 REMARK 620 4 HIS A1170 ND1 107.6 113.7 107.1 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 1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 9ZV A 1304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1313 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1314 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1315 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 1316 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 1317 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 1318 DBREF 5WBN A 1108 1213 UNP Q9UBN7 HDAC6_HUMAN 1108 1213 SEQADV 5WBN GLY A 1107 UNP Q9UBN7 EXPRESSION TAG SEQADV 5WBN SER A 1108 UNP Q9UBN7 THR 1108 CONFLICT SEQRES 1 A 107 GLY SER PRO LEU PRO TRP CYS PRO HIS LEU VAL ALA VAL SEQRES 2 A 107 CYS PRO ILE PRO ALA ALA GLY LEU ASP VAL THR GLN PRO SEQRES 3 A 107 CYS GLY ASP CYS GLY THR ILE GLN GLU ASN TRP VAL CYS SEQRES 4 A 107 LEU SER CYS TYR GLN VAL TYR CYS GLY ARG TYR ILE ASN SEQRES 5 A 107 GLY HIS MET LEU GLN HIS HIS GLY ASN SER GLY HIS PRO SEQRES 6 A 107 LEU VAL LEU SER TYR ILE ASP LEU SER ALA TRP CYS TYR SEQRES 7 A 107 TYR CYS GLN ALA TYR VAL HIS HIS GLN ALA LEU LEU ASP SEQRES 8 A 107 VAL LYS ASN ILE ALA HIS GLN ASN LYS PHE GLY GLU ASP SEQRES 9 A 107 MET PRO HIS HET ZN A1301 1 HET ZN A1302 1 HET ZN A1303 1 HET 9ZV A1304 27 HET UNX A1305 1 HET UNX A1306 1 HET UNX A1307 1 HET UNX A1308 1 HET UNX A1309 1 HET UNX A1310 1 HET UNX A1311 1 HET UNX A1312 1 HET FMT A1313 3 HET FMT A1314 3 HET FMT A1315 3 HET CL A1316 1 HET ACT A1317 4 HET ACT A1318 4 HETNAM ZN ZINC ION HETNAM 9ZV 3-(3-BENZYL-2-OXO-2H-[1,2,4]TRIAZINO[2,3-C]QUINAZOLIN- HETNAM 2 9ZV 6-YL)PROPANOIC ACID HETNAM UNX UNKNOWN ATOM OR ION HETNAM FMT FORMIC ACID HETNAM CL CHLORIDE ION HETNAM ACT ACETATE ION FORMUL 2 ZN 3(ZN 2+) FORMUL 5 9ZV C20 H16 N4 O3 FORMUL 6 UNX 8(X) FORMUL 14 FMT 3(C H2 O2) FORMUL 17 CL CL 1- FORMUL 18 ACT 2(C2 H3 O2 1-) FORMUL 20 HOH *148(H2 O) HELIX 1 AA1 HIS A 1115 VAL A 1119 5 5 HELIX 2 AA2 GLY A 1159 GLY A 1169 1 11 HELIX 3 AA3 HIS A 1192 ALA A 1194 5 3 HELIX 4 AA4 LEU A 1195 GLY A 1208 1 14 SHEET 1 AA1 5 VAL A1151 CYS A1153 0 SHEET 2 AA1 5 ASN A1142 CYS A1145 -1 N TRP A1143 O TYR A1152 SHEET 3 AA1 5 LEU A1172 SER A1175 -1 O LEU A1174 N VAL A1144 SHEET 4 AA1 5 ALA A1181 CYS A1183 -1 O TRP A1182 N VAL A1173 SHEET 5 AA1 5 ALA A1188 VAL A1190 -1 O ALA A1188 N CYS A1183 LINK SG CYS A1113 ZN ZN A1303 1555 1555 2.29 LINK ND1 HIS A1115 ZN ZN A1303 1555 1555 2.16 LINK SG CYS A1133 ZN ZN A1302 1555 1555 2.32 LINK SG CYS A1136 ZN ZN A1302 1555 1555 2.31 LINK SG CYS A1145 ZN ZN A1301 1555 1555 2.32 LINK SG CYS A1148 ZN ZN A1301 1555 1555 2.35 LINK SG CYS A1153 ZN ZN A1302 1555 1555 2.33 LINK ND1 HIS A1160 ZN ZN A1302 1555 1555 2.09 LINK NE2 HIS A1164 ZN ZN A1301 1555 1555 1.99 LINK ND1 HIS A1170 ZN ZN A1301 1555 1555 2.04 LINK SG CYS A1183 ZN ZN A1303 1555 1555 2.30 LINK SG CYS A1186 ZN ZN A1303 1555 1555 2.32 SITE 1 AC1 4 CYS A1145 CYS A1148 HIS A1164 HIS A1170 SITE 1 AC2 4 CYS A1133 CYS A1136 CYS A1153 HIS A1160 SITE 1 AC3 4 CYS A1113 HIS A1115 CYS A1183 CYS A1186 SITE 1 AC4 16 TRP A1143 GLY A1154 ARG A1155 TRP A1182 SITE 2 AC4 16 TYR A1184 TYR A1189 LEU A1196 ASN A1200 SITE 3 AC4 16 GLN A1204 GLU A1209 HOH A1423 HOH A1427 SITE 4 AC4 16 HOH A1429 HOH A1444 HOH A1450 HOH A1451 SITE 1 AC5 6 TRP A1143 ILE A1177 HOH A1419 HOH A1423 SITE 2 AC5 6 HOH A1424 HOH A1491 SITE 1 AC6 7 PRO A1109 SER A1180 TYR A1189 HIS A1191 SITE 2 AC6 7 HOH A1418 HOH A1445 HOH A1475 SITE 1 AC7 6 GLU A1141 TYR A1156 HIS A1191 HIS A1192 SITE 2 AC7 6 LEU A1195 LYS A1199 SITE 1 AC8 3 ALA A1124 ALA A1125 HOH A1490 SITE 1 AC9 3 TRP A1112 HOH A1431 HOH A1452 SITE 1 AD1 7 ASP A1135 TYR A1152 HIS A1160 GLN A1163 SITE 2 AD1 7 HIS A1164 ASN A1167 HOH A1407 CRYST1 40.850 43.740 55.760 90.00 90.00 90.00 P 21 21 21 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 0.024480 0.000000 0.000000 0.00000 SCALE2 0.000000 0.022862 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017934 0.00000