HEADER HYDROLASE 14-OCT-19 6UO2 TITLE CRYSTAL STRUCTURE OF DANIO RERIO HISTONE DEACETYLASE 6 CATALYTIC TITLE 2 DOMAIN 1 (CD1) COMPLEXED WITH TRICHOSTATIN A COMPND MOL_ID: 1; COMPND 2 MOLECULE: HDAC6; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DANIO RERIO; SOURCE 3 ORGANISM_COMMON: ZEBRAFISH; SOURCE 4 ORGANISM_TAXID: 7955; SOURCE 5 GENE: HDAC6; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HISTONE DEACETYLASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.D.OSKO,D.W.CHRISTIANSON REVDAT 3 11-OCT-23 6UO2 1 LINK REVDAT 2 18-DEC-19 6UO2 1 JRNL REVDAT 1 04-DEC-19 6UO2 0 JRNL AUTH J.D.OSKO,D.W.CHRISTIANSON JRNL TITL STRUCTURAL BASIS OF CATALYSIS AND INHIBITION OF HDAC6 CD1, JRNL TITL 2 THE ENIGMATIC CATALYTIC DOMAIN OF HISTONE DEACETYLASE 6. JRNL REF BIOCHEMISTRY V. 58 4912 2019 JRNL REFN ISSN 0006-2960 JRNL PMID 31755702 JRNL DOI 10.1021/ACS.BIOCHEM.9B00934 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.11.1_2575 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.68 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.351 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 77846 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.091 REMARK 3 FREE R VALUE TEST SET COUNT : 3963 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 50.6847 - 5.0089 1.00 2697 159 0.1542 0.1829 REMARK 3 2 5.0089 - 3.9762 0.98 2648 131 0.1390 0.1621 REMARK 3 3 3.9762 - 3.4737 1.00 2660 142 0.1594 0.2028 REMARK 3 4 3.4737 - 3.1562 1.00 2657 176 0.1844 0.2137 REMARK 3 5 3.1562 - 2.9300 1.00 2667 123 0.1956 0.2157 REMARK 3 6 2.9300 - 2.7572 1.00 2731 99 0.1951 0.2392 REMARK 3 7 2.7572 - 2.6192 1.00 2681 124 0.1918 0.2243 REMARK 3 8 2.6192 - 2.5051 0.99 2630 141 0.1992 0.2538 REMARK 3 9 2.5051 - 2.4087 0.97 2580 136 0.1982 0.2368 REMARK 3 10 2.4087 - 2.3256 0.99 2646 149 0.1956 0.2229 REMARK 3 11 2.3256 - 2.2529 0.99 2667 134 0.1924 0.2234 REMARK 3 12 2.2529 - 2.1885 0.99 2651 113 0.1947 0.2024 REMARK 3 13 2.1885 - 2.1309 0.99 2667 114 0.1954 0.2105 REMARK 3 14 2.1309 - 2.0789 0.99 2632 141 0.1984 0.2136 REMARK 3 15 2.0789 - 2.0316 0.99 2620 148 0.2021 0.2437 REMARK 3 16 2.0316 - 1.9884 0.99 2661 151 0.2068 0.2660 REMARK 3 17 1.9884 - 1.9486 1.00 2642 153 0.2084 0.2230 REMARK 3 18 1.9486 - 1.9118 0.99 2617 149 0.2168 0.2901 REMARK 3 19 1.9118 - 1.8777 0.99 2652 169 0.2131 0.2761 REMARK 3 20 1.8777 - 1.8459 1.00 2606 143 0.2169 0.2508 REMARK 3 21 1.8459 - 1.8161 1.00 2642 157 0.2158 0.2712 REMARK 3 22 1.8161 - 1.7881 0.99 2623 129 0.2237 0.2696 REMARK 3 23 1.7881 - 1.7618 0.97 2599 155 0.2300 0.2921 REMARK 3 24 1.7618 - 1.7370 0.98 2575 147 0.2352 0.2757 REMARK 3 25 1.7370 - 1.7135 0.99 2611 151 0.2452 0.2826 REMARK 3 26 1.7135 - 1.6913 0.98 2593 152 0.2607 0.3075 REMARK 3 27 1.6913 - 1.6701 0.99 2674 135 0.2678 0.3083 REMARK 3 28 1.6701 - 1.6500 0.98 2554 142 0.2719 0.3053 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) : 0.187 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.925 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.29 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.38 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 5656 REMARK 3 ANGLE : 0.801 7711 REMARK 3 CHIRALITY : 0.052 850 REMARK 3 PLANARITY : 0.005 1011 REMARK 3 DIHEDRAL : 15.853 3317 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 6UO2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-OCT-19. REMARK 100 THE DEPOSITION ID IS D_1000244931. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUL-19 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 : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77846 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 50.685 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.54600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 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: 5EEF REMARK 200 REMARK 200 REMARK: PERFECT DIAMOND SHAPE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 MG/ML HDAC6 CD1 2 MM INHIBITOR 0.2 REMARK 280 M AMMONIUM TARTRATE DIBASIC (PH 7.0) 20% PEG 3350 1:1 PROTEIN REMARK 280 PRECIPITANT DROP RATIO, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K 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 62.13050 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: MONOMERIC 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 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 54 REMARK 465 ASN A 55 REMARK 465 ALA A 56 REMARK 465 GLY A 57 REMARK 465 GLY A 58 REMARK 465 SER A 59 REMARK 465 ALA A 60 REMARK 465 PHE A 418 REMARK 465 GLU A 419 REMARK 465 SER B 54 REMARK 465 ASN B 55 REMARK 465 ALA B 56 REMARK 465 GLY B 57 REMARK 465 GLY B 58 REMARK 465 SER B 59 REMARK 465 ALA B 60 REMARK 465 PHE B 418 REMARK 465 GLU B 419 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 THR A 61 OG1 CG2 REMARK 470 SER A 81 OG REMARK 470 GLU A 109 CD OE1 OE2 REMARK 470 GLU A 115 CG CD OE1 OE2 REMARK 470 LYS A 124 CG CD CE NZ REMARK 470 GLU A 125 CG CD OE1 OE2 REMARK 470 GLU A 128 CD OE1 OE2 REMARK 470 LYS A 131 CE NZ REMARK 470 MET A 136 CG SD CE REMARK 470 THR A 137 OG1 CG2 REMARK 470 GLU A 139 CG CD OE1 OE2 REMARK 470 GLU A 140 CG CD OE1 OE2 REMARK 470 LYS A 142 CG CD CE NZ REMARK 470 THR A 143 OG1 CG2 REMARK 470 GLU A 146 CG CD OE1 OE2 REMARK 470 LYS A 147 CE NZ REMARK 470 LYS A 174 CE NZ REMARK 470 LYS A 217 CD CE NZ REMARK 470 ARG A 218 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 288 CD CE NZ REMARK 470 GLN A 301 CG CD OE1 NE2 REMARK 470 LYS A 330 CG CD CE NZ REMARK 470 LEU A 387 CD1 CD2 REMARK 470 LYS A 399 CD CE NZ REMARK 470 LYS A 403 CE NZ REMARK 470 LYS A 413 CE NZ REMARK 470 THR A 417 OG1 CG2 REMARK 470 THR B 61 OG1 CG2 REMARK 470 LEU B 77 CG CD1 CD2 REMARK 470 SER B 81 OG REMARK 470 GLN B 107 CD OE1 NE2 REMARK 470 GLU B 109 CD OE1 OE2 REMARK 470 LYS B 124 CG CD CE NZ REMARK 470 GLU B 125 CG CD OE1 OE2 REMARK 470 GLU B 128 CD OE1 OE2 REMARK 470 THR B 137 OG1 CG2 REMARK 470 GLU B 139 CD OE1 OE2 REMARK 470 LYS B 142 CG CD CE NZ REMARK 470 ARG B 181 CZ NH1 NH2 REMARK 470 LYS B 217 CD CE NZ REMARK 470 GLU B 242 CD OE1 OE2 REMARK 470 ILE B 326 CD1 REMARK 470 LYS B 330 CG CD CE NZ REMARK 470 GLU B 395 CD OE1 OE2 REMARK 470 LYS B 413 CG CD CE NZ REMARK 470 GLN B 416 CG CD OE1 NE2 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 ARG A 73 32.08 -92.23 REMARK 500 VAL A 121 -39.57 -135.55 REMARK 500 ASN A 182 -179.84 -173.03 REMARK 500 TYR A 255 -53.92 -131.70 REMARK 500 LEU A 303 -61.72 -124.96 REMARK 500 GLU A 360 -113.65 -113.10 REMARK 500 ASP B 79 92.78 -162.16 REMARK 500 VAL B 121 -37.65 -133.41 REMARK 500 TYR B 255 -55.26 -136.39 REMARK 500 LEU B 303 -63.59 -125.44 REMARK 500 ARG B 354 94.68 -69.35 REMARK 500 GLU B 360 -114.65 -112.86 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 K A 503 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 228 O REMARK 620 2 ASP A 228 OD1 69.6 REMARK 620 3 ASP A 230 O 101.4 97.9 REMARK 620 4 HIS A 232 O 161.9 92.3 78.9 REMARK 620 5 SER A 251 OG 87.6 108.3 153.8 100.0 REMARK 620 6 VAL A 252 O 77.4 140.3 67.3 118.5 91.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 230 OD1 REMARK 620 2 HIS A 232 ND1 103.8 REMARK 620 3 ASP A 323 OD2 109.4 98.6 REMARK 620 4 TSN A 504 O1 89.9 105.5 144.4 REMARK 620 5 TSN A 504 O2 163.3 82.8 84.3 73.5 REMARK 620 6 TSN A 504 N1 112.0 83.3 136.7 28.1 52.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 502 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE A 241 O REMARK 620 2 ASP A 244 O 75.8 REMARK 620 3 VAL A 247 O 121.3 73.1 REMARK 620 4 TYR A 280 O 155.5 117.6 83.0 REMARK 620 5 HOH A 630 O 70.8 146.5 123.5 94.5 REMARK 620 6 HOH A 644 O 79.9 94.2 149.8 78.8 82.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 503 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 228 O REMARK 620 2 ASP B 228 OD1 69.7 REMARK 620 3 ASP B 230 O 101.5 98.3 REMARK 620 4 HIS B 232 O 162.5 92.8 80.0 REMARK 620 5 SER B 251 OG 88.4 108.0 153.7 97.9 REMARK 620 6 VAL B 252 O 78.9 142.1 67.3 117.1 91.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 230 OD1 REMARK 620 2 ASP B 230 OD2 53.2 REMARK 620 3 HIS B 232 ND1 102.4 155.3 REMARK 620 4 ASP B 323 OD2 109.0 90.1 95.7 REMARK 620 5 TSN B 504 O1 87.8 76.0 110.0 145.7 REMARK 620 6 TSN B 504 O2 161.5 120.0 84.3 87.1 73.8 REMARK 620 7 TSN B 504 N1 109.0 104.7 85.7 140.7 29.1 53.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 502 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE B 241 O REMARK 620 2 ASP B 244 O 73.5 REMARK 620 3 VAL B 247 O 122.6 71.1 REMARK 620 4 TYR B 280 O 155.9 119.8 81.5 REMARK 620 5 HOH B 636 O 80.0 96.4 146.8 78.6 REMARK 620 6 HOH B 653 O 70.3 143.3 125.1 96.3 83.5 REMARK 620 N 1 2 3 4 5 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TSN A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TSN B 504 DBREF 6UO2 A 60 419 UNP F8W4B7 F8W4B7_DANRE 60 419 DBREF 6UO2 B 60 419 UNP F8W4B7 F8W4B7_DANRE 60 419 SEQADV 6UO2 SER A 54 UNP F8W4B7 EXPRESSION TAG SEQADV 6UO2 ASN A 55 UNP F8W4B7 EXPRESSION TAG SEQADV 6UO2 ALA A 56 UNP F8W4B7 EXPRESSION TAG SEQADV 6UO2 GLY A 57 UNP F8W4B7 EXPRESSION TAG SEQADV 6UO2 GLY A 58 UNP F8W4B7 EXPRESSION TAG SEQADV 6UO2 SER A 59 UNP F8W4B7 EXPRESSION TAG SEQADV 6UO2 SER B 54 UNP F8W4B7 EXPRESSION TAG SEQADV 6UO2 ASN B 55 UNP F8W4B7 EXPRESSION TAG SEQADV 6UO2 ALA B 56 UNP F8W4B7 EXPRESSION TAG SEQADV 6UO2 GLY B 57 UNP F8W4B7 EXPRESSION TAG SEQADV 6UO2 GLY B 58 UNP F8W4B7 EXPRESSION TAG SEQADV 6UO2 SER B 59 UNP F8W4B7 EXPRESSION TAG SEQRES 1 A 366 SER ASN ALA GLY GLY SER ALA THR GLY THR GLY LEU VAL SEQRES 2 A 366 TYR VAL ASP ALA PHE THR ARG PHE HIS CYS LEU TRP ASP SEQRES 3 A 366 ALA SER HIS PRO GLU CYS PRO ALA ARG VAL SER THR VAL SEQRES 4 A 366 MET GLU MET LEU GLU THR GLU GLY LEU LEU GLY ARG CYS SEQRES 5 A 366 VAL GLN VAL GLU ALA ARG ALA VAL THR GLU ASP GLU LEU SEQRES 6 A 366 LEU LEU VAL HIS THR LYS GLU TYR VAL GLU LEU MET LYS SEQRES 7 A 366 SER THR GLN ASN MET THR GLU GLU GLU LEU LYS THR LEU SEQRES 8 A 366 ALA GLU LYS TYR ASP SER VAL TYR LEU HIS PRO GLY PHE SEQRES 9 A 366 PHE SER SER ALA CYS LEU SER VAL GLY SER VAL LEU GLN SEQRES 10 A 366 LEU VAL ASP LYS VAL MET THR SER GLN LEU ARG ASN GLY SEQRES 11 A 366 PHE SER ILE ASN ARG PRO PRO GLY HIS HIS ALA GLN ALA SEQRES 12 A 366 ASP LYS MET ASN GLY PHE CYS MET PHE ASN ASN LEU ALA SEQRES 13 A 366 ILE ALA ALA ARG TYR ALA GLN LYS ARG HIS ARG VAL GLN SEQRES 14 A 366 ARG VAL LEU ILE VAL ASP TRP ASP VAL HIS HIS GLY GLN SEQRES 15 A 366 GLY ILE GLN TYR ILE PHE GLU GLU ASP PRO SER VAL LEU SEQRES 16 A 366 TYR PHE SER VAL HIS ARG TYR GLU ASP GLY SER PHE TRP SEQRES 17 A 366 PRO HIS LEU LYS GLU SER ASP SER SER SER VAL GLY SER SEQRES 18 A 366 GLY ALA GLY GLN GLY TYR ASN ILE ASN LEU PRO TRP ASN SEQRES 19 A 366 LYS VAL GLY MET GLU SER GLY ASP TYR ILE THR ALA PHE SEQRES 20 A 366 GLN GLN LEU LEU LEU PRO VAL ALA TYR GLU PHE GLN PRO SEQRES 21 A 366 GLN LEU VAL LEU VAL ALA ALA GLY PHE ASP ALA VAL ILE SEQRES 22 A 366 GLY ASP PRO LYS GLY GLY MET GLN VAL SER PRO GLU CYS SEQRES 23 A 366 PHE SER ILE LEU THR HIS MET LEU LYS GLY VAL ALA GLN SEQRES 24 A 366 GLY ARG LEU VAL LEU ALA LEU GLU GLY GLY TYR ASN LEU SEQRES 25 A 366 GLN SER THR ALA GLU GLY VAL CYS ALA SER MET ARG SER SEQRES 26 A 366 LEU LEU GLY ASP PRO CYS PRO HIS LEU PRO SER SER GLY SEQRES 27 A 366 ALA PRO CYS GLU SER ALA LEU LYS SER ILE SER LYS THR SEQRES 28 A 366 ILE SER ASP LEU TYR PRO PHE TRP LYS SER LEU GLN THR SEQRES 29 A 366 PHE GLU SEQRES 1 B 366 SER ASN ALA GLY GLY SER ALA THR GLY THR GLY LEU VAL SEQRES 2 B 366 TYR VAL ASP ALA PHE THR ARG PHE HIS CYS LEU TRP ASP SEQRES 3 B 366 ALA SER HIS PRO GLU CYS PRO ALA ARG VAL SER THR VAL SEQRES 4 B 366 MET GLU MET LEU GLU THR GLU GLY LEU LEU GLY ARG CYS SEQRES 5 B 366 VAL GLN VAL GLU ALA ARG ALA VAL THR GLU ASP GLU LEU SEQRES 6 B 366 LEU LEU VAL HIS THR LYS GLU TYR VAL GLU LEU MET LYS SEQRES 7 B 366 SER THR GLN ASN MET THR GLU GLU GLU LEU LYS THR LEU SEQRES 8 B 366 ALA GLU LYS TYR ASP SER VAL TYR LEU HIS PRO GLY PHE SEQRES 9 B 366 PHE SER SER ALA CYS LEU SER VAL GLY SER VAL LEU GLN SEQRES 10 B 366 LEU VAL ASP LYS VAL MET THR SER GLN LEU ARG ASN GLY SEQRES 11 B 366 PHE SER ILE ASN ARG PRO PRO GLY HIS HIS ALA GLN ALA SEQRES 12 B 366 ASP LYS MET ASN GLY PHE CYS MET PHE ASN ASN LEU ALA SEQRES 13 B 366 ILE ALA ALA ARG TYR ALA GLN LYS ARG HIS ARG VAL GLN SEQRES 14 B 366 ARG VAL LEU ILE VAL ASP TRP ASP VAL HIS HIS GLY GLN SEQRES 15 B 366 GLY ILE GLN TYR ILE PHE GLU GLU ASP PRO SER VAL LEU SEQRES 16 B 366 TYR PHE SER VAL HIS ARG TYR GLU ASP GLY SER PHE TRP SEQRES 17 B 366 PRO HIS LEU LYS GLU SER ASP SER SER SER VAL GLY SER SEQRES 18 B 366 GLY ALA GLY GLN GLY TYR ASN ILE ASN LEU PRO TRP ASN SEQRES 19 B 366 LYS VAL GLY MET GLU SER GLY ASP TYR ILE THR ALA PHE SEQRES 20 B 366 GLN GLN LEU LEU LEU PRO VAL ALA TYR GLU PHE GLN PRO SEQRES 21 B 366 GLN LEU VAL LEU VAL ALA ALA GLY PHE ASP ALA VAL ILE SEQRES 22 B 366 GLY ASP PRO LYS GLY GLY MET GLN VAL SER PRO GLU CYS SEQRES 23 B 366 PHE SER ILE LEU THR HIS MET LEU LYS GLY VAL ALA GLN SEQRES 24 B 366 GLY ARG LEU VAL LEU ALA LEU GLU GLY GLY TYR ASN LEU SEQRES 25 B 366 GLN SER THR ALA GLU GLY VAL CYS ALA SER MET ARG SER SEQRES 26 B 366 LEU LEU GLY ASP PRO CYS PRO HIS LEU PRO SER SER GLY SEQRES 27 B 366 ALA PRO CYS GLU SER ALA LEU LYS SER ILE SER LYS THR SEQRES 28 B 366 ILE SER ASP LEU TYR PRO PHE TRP LYS SER LEU GLN THR SEQRES 29 B 366 PHE GLU HET ZN A 501 1 HET K A 502 1 HET K A 503 1 HET TSN A 504 44 HET ZN B 501 1 HET K B 502 1 HET K B 503 1 HET TSN B 504 44 HETNAM ZN ZINC ION HETNAM K POTASSIUM ION HETNAM TSN TRICHOSTATIN A HETSYN TSN 7-[4-(DIMETHYLAMINO)PHENYL]-N-HYDROXY-4,6-DIMETHYL-7- HETSYN 2 TSN OXO-2,4-HEPTADIENAMIDE FORMUL 3 ZN 2(ZN 2+) FORMUL 4 K 4(K 1+) FORMUL 6 TSN 2(C17 H22 N2 O3) FORMUL 11 HOH *193(H2 O) HELIX 1 AA1 VAL A 68 ARG A 73 5 6 HELIX 2 AA2 PRO A 86 GLU A 99 1 14 HELIX 3 AA3 LEU A 101 CYS A 105 5 5 HELIX 4 AA4 THR A 114 LEU A 120 1 7 HELIX 5 AA5 THR A 123 SER A 132 1 10 HELIX 6 AA6 THR A 133 MET A 136 5 4 HELIX 7 AA7 THR A 137 GLU A 146 1 10 HELIX 8 AA8 GLY A 156 THR A 177 1 22 HELIX 9 AA9 ASN A 206 ARG A 220 1 15 HELIX 10 AB1 GLY A 234 PHE A 241 1 8 HELIX 11 AB2 GLU A 256 SER A 259 5 4 HELIX 12 AB3 LEU A 264 ASP A 268 5 5 HELIX 13 AB4 SER A 274 GLN A 278 5 5 HELIX 14 AB5 GLU A 292 LEU A 303 1 12 HELIX 15 AB6 LEU A 303 GLN A 312 1 10 HELIX 16 AB7 GLU A 338 LYS A 348 1 11 HELIX 17 AB8 GLY A 349 GLY A 353 5 5 HELIX 18 AB9 ASN A 364 LEU A 380 1 17 HELIX 19 AC1 CYS A 394 TYR A 409 1 16 HELIX 20 AC2 PRO A 410 GLN A 416 5 7 HELIX 21 AC3 VAL B 68 ARG B 73 5 6 HELIX 22 AC4 PRO B 86 GLU B 99 1 14 HELIX 23 AC5 LEU B 101 CYS B 105 5 5 HELIX 24 AC6 THR B 114 LEU B 119 1 6 HELIX 25 AC7 THR B 123 THR B 133 1 11 HELIX 26 AC8 GLN B 134 MET B 136 5 3 HELIX 27 AC9 THR B 137 GLU B 146 1 10 HELIX 28 AD1 GLY B 156 THR B 177 1 22 HELIX 29 AD2 ASN B 206 ARG B 220 1 15 HELIX 30 AD3 GLY B 234 PHE B 241 1 8 HELIX 31 AD4 GLU B 256 SER B 259 5 4 HELIX 32 AD5 LEU B 264 ASP B 268 5 5 HELIX 33 AD6 SER B 274 GLN B 278 5 5 HELIX 34 AD7 GLU B 292 LEU B 303 1 12 HELIX 35 AD8 LEU B 303 GLN B 312 1 10 HELIX 36 AD9 SER B 336 LYS B 348 1 13 HELIX 37 AE1 GLY B 349 GLY B 353 5 5 HELIX 38 AE2 ASN B 364 LEU B 380 1 17 HELIX 39 AE3 CYS B 394 TYR B 409 1 16 HELIX 40 AE4 PRO B 410 GLN B 416 5 7 SHEET 1 AA1 8 VAL A 106 GLN A 107 0 SHEET 2 AA1 8 THR A 63 VAL A 66 1 N THR A 63 O VAL A 106 SHEET 3 AA1 8 ASN A 182 SER A 185 1 O ASN A 182 N GLY A 64 SHEET 4 AA1 8 LEU A 355 LEU A 359 1 O LEU A 357 N SER A 185 SHEET 5 AA1 8 LEU A 315 ALA A 320 1 N VAL A 318 O VAL A 356 SHEET 6 AA1 8 VAL A 224 ASP A 228 1 N VAL A 227 O LEU A 317 SHEET 7 AA1 8 VAL A 247 ARG A 254 1 O LEU A 248 N ILE A 226 SHEET 8 AA1 8 ASN A 281 TRP A 286 1 O LEU A 284 N SER A 251 SHEET 1 AA2 8 VAL B 106 GLN B 107 0 SHEET 2 AA2 8 THR B 63 VAL B 66 1 N THR B 63 O VAL B 106 SHEET 3 AA2 8 ASN B 182 SER B 185 1 O ASN B 182 N GLY B 64 SHEET 4 AA2 8 LEU B 355 LEU B 359 1 O LEU B 357 N SER B 185 SHEET 5 AA2 8 LEU B 315 ALA B 320 1 N VAL B 318 O VAL B 356 SHEET 6 AA2 8 VAL B 224 ASP B 228 1 N VAL B 227 O ALA B 319 SHEET 7 AA2 8 VAL B 247 ARG B 254 1 O LEU B 248 N ILE B 226 SHEET 8 AA2 8 ASN B 281 TRP B 286 1 O LEU B 284 N SER B 251 LINK O ASP A 228 K K A 503 1555 1555 2.87 LINK OD1 ASP A 228 K K A 503 1555 1555 2.75 LINK OD1 ASP A 230 ZN ZN A 501 1555 1555 2.02 LINK O ASP A 230 K K A 503 1555 1555 2.58 LINK ND1 HIS A 232 ZN ZN A 501 1555 1555 2.06 LINK O HIS A 232 K K A 503 1555 1555 2.77 LINK O PHE A 241 K K A 502 1555 1555 2.69 LINK O ASP A 244 K K A 502 1555 1555 2.92 LINK O VAL A 247 K K A 502 1555 1555 2.63 LINK OG SER A 251 K K A 503 1555 1555 2.74 LINK O VAL A 252 K K A 503 1555 1555 2.86 LINK O TYR A 280 K K A 502 1555 1555 2.95 LINK OD2 ASP A 323 ZN ZN A 501 1555 1555 2.08 LINK ZN ZN A 501 O1 TSN A 504 1555 1555 1.83 LINK ZN ZN A 501 O2 TSN A 504 1555 1555 2.38 LINK ZN ZN A 501 N1 TSN A 504 1555 1555 2.64 LINK K K A 502 O HOH A 630 1555 1555 2.95 LINK K K A 502 O HOH A 644 1555 1555 2.72 LINK O ASP B 228 K K B 503 1555 1555 2.83 LINK OD1 ASP B 228 K K B 503 1555 1555 2.78 LINK OD1 ASP B 230 ZN ZN B 501 1555 1555 2.01 LINK OD2 ASP B 230 ZN ZN B 501 1555 1555 2.68 LINK O ASP B 230 K K B 503 1555 1555 2.58 LINK ND1 HIS B 232 ZN ZN B 501 1555 1555 2.12 LINK O HIS B 232 K K B 503 1555 1555 2.75 LINK O PHE B 241 K K B 502 1555 1555 2.68 LINK O ASP B 244 K K B 502 1555 1555 3.01 LINK O VAL B 247 K K B 502 1555 1555 2.67 LINK OG SER B 251 K K B 503 1555 1555 2.79 LINK O VAL B 252 K K B 503 1555 1555 2.80 LINK O TYR B 280 K K B 502 1555 1555 2.94 LINK OD2 ASP B 323 ZN ZN B 501 1555 1555 2.02 LINK ZN ZN B 501 O1 TSN B 504 1555 1555 1.87 LINK ZN ZN B 501 O2 TSN B 504 1555 1555 2.39 LINK ZN ZN B 501 N1 TSN B 504 1555 1555 2.60 LINK K K B 502 O HOH B 636 1555 1555 2.67 LINK K K B 502 O HOH B 653 1555 1555 2.99 CISPEP 1 ARG A 188 PRO A 189 0 3.71 CISPEP 2 TRP A 261 PRO A 262 0 10.82 CISPEP 3 ARG B 188 PRO B 189 0 6.82 CISPEP 4 TRP B 261 PRO B 262 0 10.48 SITE 1 AC1 4 ASP A 230 HIS A 232 ASP A 323 TSN A 504 SITE 1 AC2 6 PHE A 241 ASP A 244 VAL A 247 TYR A 280 SITE 2 AC2 6 HOH A 630 HOH A 644 SITE 1 AC3 5 ASP A 228 ASP A 230 HIS A 232 SER A 251 SITE 2 AC3 5 VAL A 252 SITE 1 AC4 15 TRP A 78 SER A 150 HIS A 192 HIS A 193 SITE 2 AC4 15 GLY A 201 PHE A 202 ASP A 230 HIS A 232 SITE 3 AC4 15 ASP A 323 TYR A 363 ZN A 501 ASP B 257 SITE 4 AC4 15 GLY B 258 SER B 259 HIS B 263 SITE 1 AC5 4 ASP B 230 HIS B 232 ASP B 323 TSN B 504 SITE 1 AC6 6 PHE B 241 ASP B 244 VAL B 247 TYR B 280 SITE 2 AC6 6 HOH B 636 HOH B 653 SITE 1 AC7 5 ASP B 228 ASP B 230 HIS B 232 SER B 251 SITE 2 AC7 5 VAL B 252 SITE 1 AC8 14 ASP A 257 GLY A 258 SER A 259 HIS A 263 SITE 2 AC8 14 TRP B 78 SER B 150 HIS B 192 HIS B 193 SITE 3 AC8 14 PHE B 202 ASP B 230 HIS B 232 ASP B 323 SITE 4 AC8 14 TYR B 363 ZN B 501 CRYST1 53.030 124.261 55.520 90.00 114.09 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 0.018857 0.000000 0.008431 0.00000 SCALE2 0.000000 0.008048 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019730 0.00000