HEADER HYDROLASE 14-JUN-16 5KH7 TITLE CRYSTAL STRUCTURE OF FRAGMENT (3-[6-OXO-3-(3-PYRIDINYL)-1(6H)- TITLE 2 PYRIDAZINYL]PROPANOIC ACID) BOUND IN THE UBIQUITIN BINDING POCKET OF TITLE 3 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: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) CODON PLUS; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28-LIC KEYWDS HISTONE DEACETYLASE, HDAC, HDAC6, FRAGMENT SCREENING, STRUCTURAL KEYWDS 2 GENOMICS CONSORTIUM, SGC, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR R.J.HARDING,J.WALKER,M.RAVICHANDRAN,R.FERREIRA DE FREITAS,M.SCHAPIRA, AUTHOR 2 C.BOUNTRA,A.M.EDWARDS,V.SANTHAKUMAR,C.M.ARROWSMITH,STRUCTURAL AUTHOR 3 GENOMICS CONSORTIUM (SGC) REVDAT 4 27-SEP-23 5KH7 1 REMARK REVDAT 3 27-FEB-19 5KH7 1 JRNL REVDAT 2 21-MAR-18 5KH7 1 JRNL REMARK REVDAT 1 27-JUL-16 5KH7 0 JRNL AUTH R.J.HARDING,R.FERREIRA DE FREITAS,P.COLLINS,I.FRANZONI, JRNL AUTH 2 M.RAVICHANDRAN,H.OUYANG,K.A.JUAREZ-ORNELAS,M.LAUTENS, JRNL AUTH 3 M.SCHAPIRA,F.VON DELFT,V.SANTHAKUMAR,C.H.ARROWSMITH JRNL TITL SMALL MOLECULE ANTAGONISTS OF THE INTERACTION BETWEEN THE JRNL TITL 2 HISTONE DEACETYLASE 6 ZINC-FINGER DOMAIN AND UBIQUITIN. JRNL REF J. MED. CHEM. V. 60 9090 2017 JRNL REFN ISSN 1520-4804 JRNL PMID 29019676 JRNL DOI 10.1021/ACS.JMEDCHEM.7B00933 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0151 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 10932 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) : 0.148 REMARK 3 R VALUE (WORKING SET) : 0.146 REMARK 3 FREE R VALUE : 0.183 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 544 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 796 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.88 REMARK 3 BIN R VALUE (WORKING SET) : 0.1120 REMARK 3 BIN FREE R VALUE SET COUNT : 37 REMARK 3 BIN FREE R VALUE : 0.1560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 779 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 115 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 9.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 0.49000 REMARK 3 B33 (A**2) : -0.48000 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): 0.093 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.094 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.047 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.340 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 865 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 762 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1189 ; 1.489 ; 1.893 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1748 ; 1.068 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 105 ; 6.388 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 39 ;34.966 ;24.103 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 114 ;11.206 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 1 ;15.452 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 122 ; 0.111 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1084 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 225 ; 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): 417 ; 0.740 ; 0.810 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 418 ; 0.740 ; 0.813 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 524 ; 1.237 ; 1.211 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: AMPLITUDES AND UNMERGED INTENSITIES ARE REMARK 3 INCLUDED WITH THIS DEPOSITION. DIFFRACTION IMAGES WILL BE REMARK 3 DEPOSITED IN A PUBLIC REPOSITORY. GEOMETRY RESTRAINTS FOR THE REMARK 3 FRAGMENT CANDIDATE WERE PREPARED WITH GRADE. REMARK 4 REMARK 4 5KH7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1000222208. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-MAY-16 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 : NULL 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 0.5.25 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13752 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 34.470 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.03000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 43.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 REMARK 200 R MERGE FOR SHELL (I) : 0.09300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 18.20 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: PDBID 3C5K REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.11 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 20.35950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 27.96200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.88800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 27.96200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.35950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 21.88800 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 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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 GLY A 1107 REMARK 465 GLU A 1209 REMARK 465 ASP A 1210 REMARK 465 MET A 1211 REMARK 465 PRO A 1212 REMARK 465 HIS A 1213 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 SER A1108 N CA CB OG REMARK 470 GLU A1141 CD OE1 OE2 REMARK 470 GLY A1208 C O 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 NE2 HIS A 1203 UNK UNX A 1310 2.06 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 N 6T7 A 1304 UNK UNX A 1310 3555 2.04 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 A1135 -65.85 -96.23 REMARK 500 ILE A1157 -100.91 -98.26 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 109.7 REMARK 620 3 CYS A1183 SG 115.6 98.4 REMARK 620 4 CYS A1186 SG 113.7 104.3 113.2 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 109.1 REMARK 620 3 CYS A1153 SG 112.7 115.5 REMARK 620 4 HIS A1160 ND1 106.0 112.6 100.3 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 116.3 REMARK 620 3 HIS A1164 NE2 111.6 100.5 REMARK 620 4 HIS A1170 ND1 108.9 109.2 110.1 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 6T7 A 1304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5KH3 RELATED DB: PDB REMARK 900 RELATED ID: 5KH9 RELATED DB: PDB REMARK 900 RELATED ID: 5B8D RELATED DB: PDB DBREF 5KH7 A 1109 1213 UNP Q9UBN7 HDAC6_HUMAN 1109 1213 SEQADV 5KH7 GLY A 1107 UNP Q9UBN7 EXPRESSION TAG SEQADV 5KH7 SER A 1108 UNP Q9UBN7 EXPRESSION TAG 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 6T7 A1304 18 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 UNX A1313 1 HET UNX A1314 1 HET UNX A1315 1 HET UNX A1316 1 HET UNX A1317 1 HET UNX A1318 1 HET UNX A1319 1 HETNAM ZN ZINC ION HETNAM 6T7 3-(6-OXIDANYLIDENE-3-PYRIDIN-3-YL-PYRIDAZIN-1-YL) HETNAM 2 6T7 PROPANOIC ACID HETNAM UNX UNKNOWN ATOM OR ION FORMUL 2 ZN 3(ZN 2+) FORMUL 5 6T7 C12 H11 N3 O3 FORMUL 6 UNX 15(X) FORMUL 21 HOH *115(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 TYR A1189 -1 O ALA A1188 N CYS A1183 LINK SG CYS A1113 ZN ZN A1303 1555 1555 2.33 LINK ND1 HIS A1115 ZN ZN A1303 1555 1555 2.17 LINK SG CYS A1133 ZN ZN A1302 1555 1555 2.39 LINK SG CYS A1136 ZN ZN A1302 1555 1555 2.30 LINK SG CYS A1145 ZN ZN A1301 1555 1555 2.31 LINK SG CYS A1148 ZN ZN A1301 1555 1555 2.41 LINK SG CYS A1153 ZN ZN A1302 1555 1555 2.32 LINK ND1 HIS A1160 ZN ZN A1302 1555 1555 2.09 LINK NE2 HIS A1164 ZN ZN A1301 1555 1555 2.07 LINK ND1 HIS A1170 ZN ZN A1301 1555 1555 2.13 LINK SG CYS A1183 ZN ZN A1303 1555 1555 2.32 LINK SG CYS A1186 ZN ZN A1303 1555 1555 2.34 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 8 TRP A1143 GLY A1154 ARG A1155 TRP A1182 SITE 2 AC4 8 TYR A1184 TYR A1189 HIS A1203 HOH A1409 CRYST1 40.719 43.776 55.924 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 0.024559 0.000000 0.000000 0.00000 SCALE2 0.000000 0.022844 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017881 0.00000