HEADER HYDROLASE/HYDROLASE INHIBITOR 14-OCT-19 6UOB TITLE CRYSTAL STRUCTURE OF DANIO RERIO HISTONE DEACETYLASE 6 CATALYTIC TITLE 2 DOMAIN 1 (CD1) K330L MUTANT COMPLEXED WITH RESMINOSTAT COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE DEACETYLASE 6; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: 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-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.D.OSKO,D.W.CHRISTIANSON REVDAT 3 11-OCT-23 6UOB 1 LINK REVDAT 2 18-DEC-19 6UOB 1 JRNL REVDAT 1 04-DEC-19 6UOB 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. 1.58 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) : 1.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 56.45 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.335 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 106861 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.859 REMARK 3 FREE R VALUE TEST SET COUNT : 5192 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 56.4500 - 4.9084 1.00 3656 185 0.1548 0.1625 REMARK 3 2 4.9084 - 3.8962 1.00 3506 198 0.1333 0.1467 REMARK 3 3 3.8962 - 3.4038 1.00 3430 208 0.1564 0.1868 REMARK 3 4 3.4038 - 3.0926 1.00 3455 186 0.1748 0.2015 REMARK 3 5 3.0926 - 2.8710 1.00 3440 176 0.1829 0.1983 REMARK 3 6 2.8710 - 2.7017 1.00 3419 185 0.1739 0.2267 REMARK 3 7 2.7017 - 2.5664 1.00 3395 192 0.1751 0.1737 REMARK 3 8 2.5664 - 2.4547 1.00 3414 174 0.1787 0.2180 REMARK 3 9 2.4547 - 2.3602 1.00 3449 165 0.1729 0.1758 REMARK 3 10 2.3602 - 2.2787 0.99 3383 164 0.1829 0.2062 REMARK 3 11 2.2787 - 2.2075 0.94 3207 181 0.2573 0.2846 REMARK 3 12 2.2075 - 2.1444 1.00 3348 175 0.1896 0.2063 REMARK 3 13 2.1444 - 2.0879 1.00 3392 172 0.1901 0.2047 REMARK 3 14 2.0879 - 2.0370 1.00 3386 178 0.1928 0.2232 REMARK 3 15 2.0370 - 1.9907 1.00 3428 153 0.1883 0.2392 REMARK 3 16 1.9907 - 1.9483 1.00 3380 174 0.1946 0.2057 REMARK 3 17 1.9483 - 1.9093 0.97 3304 154 0.2657 0.3009 REMARK 3 18 1.9093 - 1.8733 0.99 3360 169 0.2201 0.2757 REMARK 3 19 1.8733 - 1.8398 1.00 3406 157 0.2007 0.2383 REMARK 3 20 1.8398 - 1.8086 1.00 3387 149 0.2072 0.2370 REMARK 3 21 1.8086 - 1.7795 1.00 3366 173 0.2159 0.2595 REMARK 3 22 1.7795 - 1.7521 1.00 3362 182 0.2109 0.2399 REMARK 3 23 1.7521 - 1.7263 1.00 3370 161 0.2075 0.2708 REMARK 3 24 1.7263 - 1.7020 1.00 3411 158 0.2138 0.2561 REMARK 3 25 1.7020 - 1.6790 1.00 3332 181 0.2232 0.2627 REMARK 3 26 1.6790 - 1.6572 0.99 3351 178 0.2282 0.2604 REMARK 3 27 1.6572 - 1.6365 0.97 3288 148 0.2431 0.2724 REMARK 3 28 1.6365 - 1.6168 0.99 3348 169 0.2461 0.2588 REMARK 3 29 1.6168 - 1.5980 0.99 3340 180 0.2530 0.3187 REMARK 3 30 1.5980 - 1.5800 0.99 3356 167 0.2585 0.2782 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) : 0.164 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.668 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.23 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.31 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 5838 REMARK 3 ANGLE : 0.875 7952 REMARK 3 CHIRALITY : 0.055 864 REMARK 3 PLANARITY : 0.005 1038 REMARK 3 DIHEDRAL : 18.248 3441 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 6UOB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-OCT-19. REMARK 100 THE DEPOSITION ID IS D_1000244941. 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 : 106861 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.580 REMARK 200 RESOLUTION RANGE LOW (A) : 56.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.14500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 2.03200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 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: THICK ROD-LIKE SHAPE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 MG/ML HDAC6 CD1 2 MM INHIBITOR 0.1 REMARK 280 M AMMONIUM CITRATE TRIBASIC (PH 7.0) 12% PEG 3350 1:1 RATIO REMARK 280 PROTEIN TO PRECIPITANT, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K 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 33.63500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.45000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.31000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.45000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.63500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.31000 REMARK 290 SMTRY3 4 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 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 THR B 417 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 ARG A 73 CZ NH1 NH2 REMARK 470 GLU A 109 CD OE1 OE2 REMARK 470 GLU A 115 CD OE1 OE2 REMARK 470 LYS A 124 CE NZ REMARK 470 LYS A 131 NZ REMARK 470 GLU A 139 CD OE1 OE2 REMARK 470 LYS A 288 CD CE NZ REMARK 470 LEU A 387 CG CD1 CD2 REMARK 470 SER A 389 OG REMARK 470 GLU A 395 CG CD OE1 OE2 REMARK 470 THR B 61 OG1 CG2 REMARK 470 LYS B 124 CE NZ REMARK 470 LYS B 147 CE NZ REMARK 470 LYS B 174 CE NZ REMARK 470 LYS B 217 CE NZ REMARK 470 ARG B 220 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 288 CD CE NZ REMARK 470 LYS B 413 CD CE NZ 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 ZN ZN B 501 H20 P7D B 504 1.55 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 SER A 150 65.41 60.77 REMARK 500 ASN A 200 138.63 -171.54 REMARK 500 TYR A 255 -57.45 -135.14 REMARK 500 LEU A 303 -61.75 -125.78 REMARK 500 GLU A 360 -114.10 -110.39 REMARK 500 SER A 390 58.23 -91.38 REMARK 500 THR B 61 124.80 61.73 REMARK 500 ASN B 200 138.05 -170.13 REMARK 500 TYR B 255 -54.40 -134.04 REMARK 500 LEU B 303 -61.29 -124.81 REMARK 500 GLU B 360 -115.46 -110.34 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 B 832 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH B 833 DISTANCE = 6.13 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PHE A 501 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 69.2 REMARK 620 3 ASP A 230 O 101.6 96.2 REMARK 620 4 HIS A 232 O 162.8 93.6 79.7 REMARK 620 5 SER A 251 OG 88.3 110.7 153.1 98.2 REMARK 620 6 VAL A 252 O 79.6 141.1 67.4 116.1 90.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 230 OD1 REMARK 620 2 HIS A 232 ND1 103.7 REMARK 620 3 ASP A 323 OD2 107.1 96.6 REMARK 620 4 P7D A 505 N22 114.1 89.8 135.4 REMARK 620 5 P7D A 505 N22 114.4 91.2 134.5 1.5 REMARK 620 6 P7D A 505 O21 162.4 84.6 87.0 49.6 49.1 REMARK 620 7 P7D A 505 O21 161.5 86.0 87.0 49.3 48.8 1.4 REMARK 620 8 P7D A 505 O23 97.0 118.6 130.9 30.0 28.9 65.4 64.5 REMARK 620 9 P7D A 505 O23 98.3 120.6 128.0 31.4 30.2 64.3 63.3 2.9 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 504 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE A 241 O REMARK 620 2 ASP A 244 O 76.2 REMARK 620 3 VAL A 247 O 120.3 72.7 REMARK 620 4 TYR A 280 O 156.2 119.4 82.8 REMARK 620 5 HOH A 661 O 70.4 146.4 121.5 93.6 REMARK 620 6 HOH A 665 O 81.1 95.8 150.6 79.6 83.1 REMARK 620 N 1 2 3 4 5 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 ASP B 228 O REMARK 620 2 ASP B 228 OD1 69.0 REMARK 620 3 ASP B 230 O 101.0 97.9 REMARK 620 4 HIS B 232 O 164.2 95.2 79.0 REMARK 620 5 SER B 251 OG 88.2 107.3 154.8 98.4 REMARK 620 6 VAL B 252 O 78.4 141.4 68.1 115.6 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 HIS B 232 ND1 101.7 REMARK 620 3 ASP B 323 OD2 106.7 95.4 REMARK 620 4 P7D B 504 N22 109.4 99.2 137.0 REMARK 620 5 P7D B 504 O21 157.3 95.4 86.1 52.5 REMARK 620 6 P7D B 504 O23 87.9 126.0 132.7 30.5 69.9 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 PHE B 241 O REMARK 620 2 ASP B 244 O 78.0 REMARK 620 3 VAL B 247 O 124.2 73.9 REMARK 620 4 TYR B 280 O 150.9 119.9 84.3 REMARK 620 5 HOH B 623 O 81.2 96.8 148.5 74.4 REMARK 620 6 HOH B 669 O 68.0 145.8 122.8 92.7 81.7 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 PHE A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN 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 K A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue P7D A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue P7D B 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 506 DBREF 6UOB A 60 419 UNP F8W4B7 F8W4B7_DANRE 60 419 DBREF 6UOB B 60 419 UNP F8W4B7 F8W4B7_DANRE 60 419 SEQADV 6UOB SER A 54 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB ASN A 55 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB ALA A 56 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB GLY A 57 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB GLY A 58 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB SER A 59 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB LEU A 330 UNP F8W4B7 LYS 330 ENGINEERED MUTATION SEQADV 6UOB SER B 54 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB ASN B 55 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB ALA B 56 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB GLY B 57 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB GLY B 58 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB SER B 59 UNP F8W4B7 EXPRESSION TAG SEQADV 6UOB LEU B 330 UNP F8W4B7 LYS 330 ENGINEERED MUTATION 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 LEU 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 LEU 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 PHE A 501 11 HET ZN A 502 1 HET K A 503 1 HET K A 504 1 HET P7D A 505 86 HET EDO A 506 4 HET ZN B 501 1 HET K B 502 1 HET K B 503 1 HET P7D B 504 43 HET EDO B 505 4 HET EDO B 506 4 HETNAM PHE PHENYLALANINE HETNAM ZN ZINC ION HETNAM K POTASSIUM ION HETNAM P7D RESMINOSTAT HETNAM EDO 1,2-ETHANEDIOL HETSYN P7D (2E)-3-[1-({4-[(DIMETHYLAMINO)METHYL]PHENYL}SULFONYL)- HETSYN 2 P7D 1H-PYRROL-3-YL]-N-HYDROXYPROP-2-ENAMIDE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 PHE C9 H11 N O2 FORMUL 4 ZN 2(ZN 2+) FORMUL 5 K 4(K 1+) FORMUL 7 P7D 2(C16 H19 N3 O4 S) FORMUL 8 EDO 3(C2 H6 O2) FORMUL 15 HOH *497(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 119 1 6 HELIX 5 AA5 THR A 123 THR A 133 1 11 HELIX 6 AA6 GLN A 134 MET A 136 5 3 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 GLU A 242 1 9 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 LEU B 264 ASP B 268 5 5 HELIX 32 AD5 SER B 274 GLN B 278 5 5 HELIX 33 AD6 GLU B 292 LEU B 303 1 12 HELIX 34 AD7 LEU B 303 GLN B 312 1 10 HELIX 35 AD8 SER B 336 LYS B 348 1 13 HELIX 36 AD9 GLY B 349 GLY B 353 5 5 HELIX 37 AE1 ASN B 364 LEU B 380 1 17 HELIX 38 AE2 CYS B 394 TYR B 409 1 16 HELIX 39 AE3 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 LEU A 225 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 ILE A 282 N TYR A 249 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 GLY B 183 SHEET 5 AA2 8 LEU B 315 ALA B 320 1 N ALA B 320 O ALA B 358 SHEET 6 AA2 8 VAL B 224 ASP B 228 1 N LEU B 225 O LEU B 317 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 ILE B 282 N TYR B 249 LINK O ASP A 228 K K A 503 1555 1555 2.82 LINK OD1 ASP A 228 K K A 503 1555 1555 2.70 LINK OD1 ASP A 230 ZN ZN A 502 1555 1555 1.97 LINK O ASP A 230 K K A 503 1555 1555 2.56 LINK ND1 HIS A 232 ZN ZN A 502 1555 1555 2.06 LINK O HIS A 232 K K A 503 1555 1555 2.70 LINK O PHE A 241 K K A 504 1555 1555 2.65 LINK O ASP A 244 K K A 504 1555 1555 2.93 LINK O VAL A 247 K K A 504 1555 1555 2.68 LINK OG SER A 251 K K A 503 1555 1555 2.77 LINK O VAL A 252 K K A 503 1555 1555 2.77 LINK O TYR A 280 K K A 504 1555 1555 2.90 LINK OD2 ASP A 323 ZN ZN A 502 1555 1555 1.96 LINK ZN ZN A 502 N22AP7D A 505 1555 1555 2.60 LINK ZN ZN A 502 N22BP7D A 505 1555 1555 2.63 LINK ZN ZN A 502 O21AP7D A 505 1555 1555 2.55 LINK ZN ZN A 502 O21BP7D A 505 1555 1555 2.62 LINK ZN ZN A 502 O23AP7D A 505 1555 1555 1.84 LINK ZN ZN A 502 O23BP7D A 505 1555 1555 1.90 LINK K K A 504 O HOH A 661 1555 1555 3.03 LINK K K A 504 O HOH A 665 1555 1555 2.70 LINK O ASP B 228 K K B 502 1555 1555 2.85 LINK OD1 ASP B 228 K K B 502 1555 1555 2.78 LINK OD1 ASP B 230 ZN ZN B 501 1555 1555 2.02 LINK O ASP B 230 K K B 502 1555 1555 2.59 LINK ND1 HIS B 232 ZN ZN B 501 1555 1555 2.10 LINK O HIS B 232 K K B 502 1555 1555 2.73 LINK O PHE B 241 K K B 503 1555 1555 2.69 LINK O ASP B 244 K K B 503 1555 1555 2.93 LINK O VAL B 247 K K B 503 1555 1555 2.68 LINK OG SER B 251 K K B 502 1555 1555 2.75 LINK O VAL B 252 K K B 502 1555 1555 2.85 LINK O TYR B 280 K K B 503 1555 1555 2.87 LINK OD2 ASP B 323 ZN ZN B 501 1555 1555 1.98 LINK ZN ZN B 501 N22 P7D B 504 1555 1555 2.61 LINK ZN ZN B 501 O21 P7D B 504 1555 1555 2.20 LINK ZN ZN B 501 O23 P7D B 504 1555 1555 1.99 LINK K K B 503 O HOH B 623 1555 1555 2.92 LINK K K B 503 O HOH B 669 1555 1555 2.99 CISPEP 1 ARG A 188 PRO A 189 0 7.13 CISPEP 2 TRP A 261 PRO A 262 0 9.18 CISPEP 3 ARG B 188 PRO B 189 0 5.83 CISPEP 4 TRP B 261 PRO B 262 0 9.83 SITE 1 AC1 3 TYR A 409 GLN A 416 THR A 417 SITE 1 AC2 4 ASP A 230 HIS A 232 ASP A 323 P7D A 505 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 6 PHE A 241 ASP A 244 VAL A 247 TYR A 280 SITE 2 AC4 6 HOH A 661 HOH A 665 SITE 1 AC5 16 PRO A 83 SER A 150 HIS A 192 HIS A 193 SITE 2 AC5 16 PHE A 202 ASP A 230 HIS A 232 TRP A 261 SITE 3 AC5 16 ASP A 323 TYR A 363 ZN A 502 HOH A 642 SITE 4 AC5 16 ASP B 257 GLY B 258 SER B 259 HIS B 263 SITE 1 AC6 6 SER A 178 ARG A 354 HOH A 608 HOH A 640 SITE 2 AC6 6 HOH A 707 PRO B 383 SITE 1 AC7 4 ASP B 230 HIS B 232 ASP B 323 P7D B 504 SITE 1 AC8 5 ASP B 228 ASP B 230 HIS B 232 SER B 251 SITE 2 AC8 5 VAL B 252 SITE 1 AC9 6 PHE B 241 ASP B 244 VAL B 247 TYR B 280 SITE 2 AC9 6 HOH B 623 HOH B 669 SITE 1 AD1 16 ASP A 257 GLY A 258 SER A 259 HIS A 263 SITE 2 AD1 16 PRO B 83 SER B 150 HIS B 192 HIS B 193 SITE 3 AD1 16 PHE B 202 ASP B 230 HIS B 232 TRP B 261 SITE 4 AD1 16 ASP B 323 TYR B 363 ZN B 501 HOH B 611 SITE 1 AD2 7 ALA B 80 SER B 81 HIS B 82 CYS B 85 SITE 2 AD2 7 HOH B 607 HOH B 664 HOH B 666 SITE 1 AD3 6 TRP B 78 HIS B 82 VAL B 151 TYR B 152 SITE 2 AD3 6 HOH B 601 HOH B 732 CRYST1 67.270 102.620 112.900 90.00 90.00 90.00 P 21 21 21 8 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 0.014865 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009745 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008857 0.00000