HEADER HYDROLASE/HYDROLASE INHIBITOR 11-OCT-18 6MR5 TITLE CRYSTAL STRUCTURE OF DANIO RERIO HISTONE DEACETYLASE 6 CATALYTIC TITLE 2 DOMAIN 2 IN COMPLEX WITH A MERCAPTOACETAMIDE-BASED INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: HDAC6 PROTEIN; 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, ZINC HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.J.PORTER,D.W.CHRISTIANSON REVDAT 4 13-MAR-24 6MR5 1 LINK REVDAT 3 18-DEC-19 6MR5 1 REMARK REVDAT 2 23-JAN-19 6MR5 1 JRNL REVDAT 1 05-DEC-18 6MR5 0 JRNL AUTH N.J.PORTER,S.SHEN,C.BARINKA,A.P.KOZIKOWSKI,D.W.CHRISTIANSON JRNL TITL MOLECULAR BASIS FOR THE SELECTIVE INHIBITION OF HISTONE JRNL TITL 2 DEACETYLASE 6 BY A MERCAPTOACETAMIDE INHIBITOR. JRNL REF ACS MED CHEM LETT V. 9 1301 2018 JRNL REFN ISSN 1948-5875 JRNL PMID 30613344 JRNL DOI 10.1021/ACSMEDCHEMLETT.8B00487 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.12_2829 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.76 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 52282 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2613 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 47.7775 - 4.9349 1.00 2783 137 0.1542 0.1716 REMARK 3 2 4.9349 - 3.9175 0.96 2594 129 0.1410 0.1522 REMARK 3 3 3.9175 - 3.4225 0.99 2663 136 0.1578 0.1837 REMARK 3 4 3.4225 - 3.1096 0.99 2607 150 0.1836 0.2206 REMARK 3 5 3.1096 - 2.8868 0.99 2651 136 0.1953 0.2067 REMARK 3 6 2.8868 - 2.7166 0.99 2647 122 0.1958 0.2306 REMARK 3 7 2.7166 - 2.5806 0.99 2609 133 0.1972 0.2314 REMARK 3 8 2.5806 - 2.4682 0.96 2558 132 0.2051 0.2609 REMARK 3 9 2.4682 - 2.3732 0.97 2548 131 0.2081 0.2308 REMARK 3 10 2.3732 - 2.2913 0.98 2604 140 0.2028 0.2868 REMARK 3 11 2.2913 - 2.2197 0.98 2587 130 0.2060 0.2654 REMARK 3 12 2.2197 - 2.1562 0.99 2577 147 0.2108 0.2658 REMARK 3 13 2.1562 - 2.0995 0.99 2577 154 0.2248 0.2442 REMARK 3 14 2.0995 - 2.0482 0.99 2634 142 0.2341 0.3043 REMARK 3 15 2.0482 - 2.0017 1.00 2600 131 0.2345 0.2703 REMARK 3 16 2.0017 - 1.9591 1.00 2620 142 0.2533 0.3137 REMARK 3 17 1.9591 - 1.9199 1.00 2602 125 0.2650 0.3678 REMARK 3 18 1.9199 - 1.8837 1.00 2583 166 0.2707 0.3333 REMARK 3 19 1.8837 - 1.8500 1.00 2625 130 0.2885 0.3199 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.470 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.48 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.67 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 : 0.003 5760 REMARK 3 ANGLE : 0.663 7832 REMARK 3 CHIRALITY : 0.045 849 REMARK 3 PLANARITY : 0.004 1026 REMARK 3 DIHEDRAL : 18.203 3415 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 6MR5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-OCT-18. REMARK 100 THE DEPOSITION ID IS D_1000237423. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JUN-18 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) : 0.97917 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 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52293 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 84.160 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.69200 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.04 M CITRATE / 0.06 M BIS-TRIS REMARK 280 PROPANE (PH 6.4) 20% PEG 3,350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 79.50500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.23000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 79.50500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.23000 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 435 REMARK 465 ASN A 436 REMARK 465 ALA A 437 REMARK 465 GLY A 438 REMARK 465 GLY A 439 REMARK 465 SER A 440 REMARK 465 SER A 441 REMARK 465 HIS A 771 REMARK 465 LEU A 772 REMARK 465 SER B 435 REMARK 465 ASN B 436 REMARK 465 ALA B 437 REMARK 465 GLY B 438 REMARK 465 GLY B 439 REMARK 465 SER B 440 REMARK 465 HIS B 771 REMARK 465 LEU B 772 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 ILE A 443 CG1 CG2 CD1 REMARK 470 GLU A 497 CG CD OE1 OE2 REMARK 470 SER A 505 OG REMARK 470 LYS A 518 CG CD CE NZ REMARK 470 ARG A 520 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 524 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 527 CG OD1 OD2 REMARK 470 LYS A 672 CG CD CE NZ REMARK 470 ASP A 770 CG OD1 OD2 REMARK 470 THR A 773 OG1 CG2 REMARK 470 LEU A 775 CG CD1 CD2 REMARK 470 ARG B 481 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 506 CE NZ REMARK 470 LYS B 518 CG CD CE NZ REMARK 470 ARG B 520 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 524 CD NE CZ NH1 NH2 REMARK 470 LYS B 577 CG CD CE NZ REMARK 470 GLU B 602 CG CD OE1 OE2 REMARK 470 LYS B 672 CG CD CE NZ REMARK 470 ASP B 770 CG OD1 OD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU A 634 CA - CB - CG ANGL. DEV. = 14.9 DEGREES REMARK 500 LEU B 634 CA - CB - CG ANGL. DEV. = 16.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 SER A 531 73.56 58.12 REMARK 500 THR A 600 -80.95 -127.58 REMARK 500 ALA A 641 63.35 -103.58 REMARK 500 LEU A 685 -61.16 -131.36 REMARK 500 GLN A 716 37.49 -140.51 REMARK 500 GLU A 742 -109.19 -115.73 REMARK 500 CYS B 502 -31.97 -130.07 REMARK 500 SER B 531 66.73 60.06 REMARK 500 THR B 600 -85.57 -131.42 REMARK 500 THR B 600 -85.08 -131.42 REMARK 500 LEU B 685 -63.46 -126.41 REMARK 500 ALA B 694 71.01 56.89 REMARK 500 GLN B 716 36.84 -145.58 REMARK 500 GLU B 742 -109.85 -112.26 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 K A 802 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 610 O REMARK 620 2 ASP A 610 OD1 70.3 REMARK 620 3 ASP A 612 O 98.1 94.5 REMARK 620 4 HIS A 614 O 160.0 90.6 77.0 REMARK 620 5 SER A 633 OG 84.9 116.2 148.0 109.8 REMARK 620 6 LEU A 634 O 78.2 139.0 64.2 115.5 85.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 801 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 612 OD1 REMARK 620 2 HIS A 614 ND1 101.0 REMARK 620 3 ASP A 705 OD2 103.2 93.7 REMARK 620 4 W45 A 804 S04 102.1 125.6 127.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 803 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE A 623 O REMARK 620 2 ASP A 626 O 73.4 REMARK 620 3 VAL A 629 O 114.7 78.7 REMARK 620 4 TYR A 662 O 155.7 118.8 89.0 REMARK 620 5 HOH A 952 O 80.4 84.6 152.6 80.1 REMARK 620 6 HOH A 973 O 68.7 140.1 128.8 92.8 77.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 802 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 610 O REMARK 620 2 ASP B 610 OD1 71.3 REMARK 620 3 ASP B 612 O 99.5 96.4 REMARK 620 4 HIS B 614 O 162.6 92.0 77.1 REMARK 620 5 SER B 633 OG 85.5 113.5 149.5 106.2 REMARK 620 6 LEU B 634 O 77.2 140.4 65.5 115.6 86.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 801 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 612 OD1 REMARK 620 2 HIS B 614 ND1 104.9 REMARK 620 3 ASP B 705 OD2 107.6 97.2 REMARK 620 4 W45 B 804 S04 101.7 120.6 123.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 803 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE B 623 O REMARK 620 2 ASP B 626 O 78.0 REMARK 620 3 VAL B 629 O 116.6 76.7 REMARK 620 4 TYR B 662 O 155.4 117.0 86.7 REMARK 620 5 HOH B 931 O 82.4 85.1 149.5 79.9 REMARK 620 6 HOH B1000 O 68.8 146.3 123.6 92.6 84.6 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 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue W45 A 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue W45 B 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FLC B 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 806 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 807 DBREF 6MR5 A 440 798 UNP A7YT55 A7YT55_DANRE 288 646 DBREF 6MR5 B 440 798 UNP A7YT55 A7YT55_DANRE 288 646 SEQADV 6MR5 SER A 435 UNP A7YT55 EXPRESSION TAG SEQADV 6MR5 ASN A 436 UNP A7YT55 EXPRESSION TAG SEQADV 6MR5 ALA A 437 UNP A7YT55 EXPRESSION TAG SEQADV 6MR5 GLY A 438 UNP A7YT55 EXPRESSION TAG SEQADV 6MR5 GLY A 439 UNP A7YT55 EXPRESSION TAG SEQADV 6MR5 SER B 435 UNP A7YT55 EXPRESSION TAG SEQADV 6MR5 ASN B 436 UNP A7YT55 EXPRESSION TAG SEQADV 6MR5 ALA B 437 UNP A7YT55 EXPRESSION TAG SEQADV 6MR5 GLY B 438 UNP A7YT55 EXPRESSION TAG SEQADV 6MR5 GLY B 439 UNP A7YT55 EXPRESSION TAG SEQRES 1 A 364 SER ASN ALA GLY GLY SER SER PRO ILE THR GLY LEU VAL SEQRES 2 A 364 TYR ASP GLN ARG MET MET LEU HIS HIS ASN MET TRP ASP SEQRES 3 A 364 SER HIS HIS PRO GLU LEU PRO GLN ARG ILE SER ARG ILE SEQRES 4 A 364 PHE SER ARG HIS GLU GLU LEU ARG LEU LEU SER ARG CYS SEQRES 5 A 364 HIS ARG ILE PRO ALA ARG LEU ALA THR GLU GLU GLU LEU SEQRES 6 A 364 ALA LEU CYS HIS SER SER LYS HIS ILE SER ILE ILE LYS SEQRES 7 A 364 SER SER GLU HIS MET LYS PRO ARG ASP LEU ASN ARG LEU SEQRES 8 A 364 GLY ASP GLU TYR ASN SER ILE PHE ILE SER ASN GLU SER SEQRES 9 A 364 TYR THR CYS ALA LEU LEU ALA ALA GLY SER CYS PHE ASN SEQRES 10 A 364 SER ALA GLN ALA ILE LEU THR GLY GLN VAL ARG ASN ALA SEQRES 11 A 364 VAL ALA ILE VAL ARG PRO PRO GLY HIS HIS ALA GLU LYS SEQRES 12 A 364 ASP THR ALA CYS GLY PHE CYS PHE PHE ASN THR ALA ALA SEQRES 13 A 364 LEU THR ALA ARG TYR ALA GLN SER ILE THR ARG GLU SER SEQRES 14 A 364 LEU ARG VAL LEU ILE VAL ASP TRP ASP VAL HIS HIS GLY SEQRES 15 A 364 ASN GLY THR GLN HIS ILE PHE GLU GLU ASP ASP SER VAL SEQRES 16 A 364 LEU TYR ILE SER LEU HIS ARG TYR GLU ASP GLY ALA PHE SEQRES 17 A 364 PHE PRO ASN SER GLU ASP ALA ASN TYR ASP LYS VAL GLY SEQRES 18 A 364 LEU GLY LYS GLY ARG GLY TYR ASN VAL ASN ILE PRO TRP SEQRES 19 A 364 ASN GLY GLY LYS MET GLY ASP PRO GLU TYR MET ALA ALA SEQRES 20 A 364 PHE HIS HIS LEU VAL MET PRO ILE ALA ARG GLU PHE ALA SEQRES 21 A 364 PRO GLU LEU VAL LEU VAL SER ALA GLY PHE ASP ALA ALA SEQRES 22 A 364 ARG GLY ASP PRO LEU GLY GLY PHE GLN VAL THR PRO GLU SEQRES 23 A 364 GLY TYR ALA HIS LEU THR HIS GLN LEU MET SER LEU ALA SEQRES 24 A 364 ALA GLY ARG VAL LEU ILE ILE LEU GLU GLY GLY TYR ASN SEQRES 25 A 364 LEU THR SER ILE SER GLU SER MET SER MET CYS THR SER SEQRES 26 A 364 MET LEU LEU GLY ASP SER PRO PRO SER LEU ASP HIS LEU SEQRES 27 A 364 THR PRO LEU LYS THR SER ALA THR VAL SER ILE ASN ASN SEQRES 28 A 364 VAL LEU ARG ALA HIS ALA PRO PHE TRP SER SER LEU ARG SEQRES 1 B 364 SER ASN ALA GLY GLY SER SER PRO ILE THR GLY LEU VAL SEQRES 2 B 364 TYR ASP GLN ARG MET MET LEU HIS HIS ASN MET TRP ASP SEQRES 3 B 364 SER HIS HIS PRO GLU LEU PRO GLN ARG ILE SER ARG ILE SEQRES 4 B 364 PHE SER ARG HIS GLU GLU LEU ARG LEU LEU SER ARG CYS SEQRES 5 B 364 HIS ARG ILE PRO ALA ARG LEU ALA THR GLU GLU GLU LEU SEQRES 6 B 364 ALA LEU CYS HIS SER SER LYS HIS ILE SER ILE ILE LYS SEQRES 7 B 364 SER SER GLU HIS MET LYS PRO ARG ASP LEU ASN ARG LEU SEQRES 8 B 364 GLY ASP GLU TYR ASN SER ILE PHE ILE SER ASN GLU SER SEQRES 9 B 364 TYR THR CYS ALA LEU LEU ALA ALA GLY SER CYS PHE ASN SEQRES 10 B 364 SER ALA GLN ALA ILE LEU THR GLY GLN VAL ARG ASN ALA SEQRES 11 B 364 VAL ALA ILE VAL ARG PRO PRO GLY HIS HIS ALA GLU LYS SEQRES 12 B 364 ASP THR ALA CYS GLY PHE CYS PHE PHE ASN THR ALA ALA SEQRES 13 B 364 LEU THR ALA ARG TYR ALA GLN SER ILE THR ARG GLU SER SEQRES 14 B 364 LEU ARG VAL LEU ILE VAL ASP TRP ASP VAL HIS HIS GLY SEQRES 15 B 364 ASN GLY THR GLN HIS ILE PHE GLU GLU ASP ASP SER VAL SEQRES 16 B 364 LEU TYR ILE SER LEU HIS ARG TYR GLU ASP GLY ALA PHE SEQRES 17 B 364 PHE PRO ASN SER GLU ASP ALA ASN TYR ASP LYS VAL GLY SEQRES 18 B 364 LEU GLY LYS GLY ARG GLY TYR ASN VAL ASN ILE PRO TRP SEQRES 19 B 364 ASN GLY GLY LYS MET GLY ASP PRO GLU TYR MET ALA ALA SEQRES 20 B 364 PHE HIS HIS LEU VAL MET PRO ILE ALA ARG GLU PHE ALA SEQRES 21 B 364 PRO GLU LEU VAL LEU VAL SER ALA GLY PHE ASP ALA ALA SEQRES 22 B 364 ARG GLY ASP PRO LEU GLY GLY PHE GLN VAL THR PRO GLU SEQRES 23 B 364 GLY TYR ALA HIS LEU THR HIS GLN LEU MET SER LEU ALA SEQRES 24 B 364 ALA GLY ARG VAL LEU ILE ILE LEU GLU GLY GLY TYR ASN SEQRES 25 B 364 LEU THR SER ILE SER GLU SER MET SER MET CYS THR SER SEQRES 26 B 364 MET LEU LEU GLY ASP SER PRO PRO SER LEU ASP HIS LEU SEQRES 27 B 364 THR PRO LEU LYS THR SER ALA THR VAL SER ILE ASN ASN SEQRES 28 B 364 VAL LEU ARG ALA HIS ALA PRO PHE TRP SER SER LEU ARG HET ZN A 801 1 HET K A 802 1 HET K A 803 1 HET W45 A 804 21 HET PEG A 805 7 HET ZN B 801 1 HET K B 802 1 HET K B 803 1 HET W45 B 804 21 HET FLC B 805 13 HET PEG B 806 7 HET EDO B 807 4 HETNAM ZN ZINC ION HETNAM K POTASSIUM ION HETNAM W45 N-[5-(5,6-DICHLORO-1H-INDOL-1-YL)PENTYL]-2- HETNAM 2 W45 SULFANYLACETAMIDE HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM FLC CITRATE ANION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 ZN 2(ZN 2+) FORMUL 4 K 4(K 1+) FORMUL 6 W45 2(C15 H18 CL2 N2 O S) FORMUL 7 PEG 2(C4 H10 O3) FORMUL 12 FLC C6 H5 O7 3- FORMUL 14 EDO C2 H6 O2 FORMUL 15 HOH *323(H2 O) HELIX 1 AA1 ASP A 449 HIS A 455 5 7 HELIX 2 AA2 PRO A 467 LEU A 480 1 14 HELIX 3 AA3 LEU A 482 CYS A 486 5 5 HELIX 4 AA4 THR A 495 ALA A 500 1 6 HELIX 5 AA5 SER A 504 SER A 514 1 11 HELIX 6 AA6 LYS A 518 ASP A 527 1 10 HELIX 7 AA7 GLU A 537 THR A 558 1 22 HELIX 8 AA8 ASN A 587 ILE A 599 1 13 HELIX 9 AA9 GLY A 616 GLU A 624 1 9 HELIX 10 AB1 GLU A 638 ALA A 641 5 4 HELIX 11 AB2 SER A 646 ASN A 650 5 5 HELIX 12 AB3 LEU A 656 ARG A 660 5 5 HELIX 13 AB4 GLY A 674 LEU A 685 1 12 HELIX 14 AB5 LEU A 685 ALA A 694 1 10 HELIX 15 AB6 THR A 718 MET A 730 1 13 HELIX 16 AB7 SER A 731 GLY A 735 5 5 HELIX 17 AB8 ASN A 746 LEU A 762 1 17 HELIX 18 AB9 LYS A 776 ALA A 791 1 16 HELIX 19 AC1 TRP A 794 ARG A 798 5 5 HELIX 20 AC2 ASP B 449 HIS B 455 5 7 HELIX 21 AC3 PRO B 467 LEU B 480 1 14 HELIX 22 AC4 LEU B 482 CYS B 486 5 5 HELIX 23 AC5 THR B 495 ALA B 500 1 6 HELIX 24 AC6 SER B 504 SER B 514 1 11 HELIX 25 AC7 GLU B 515 MET B 517 5 3 HELIX 26 AC8 LYS B 518 GLU B 528 1 11 HELIX 27 AC9 GLU B 537 THR B 558 1 22 HELIX 28 AD1 ASN B 587 ILE B 599 1 13 HELIX 29 AD2 GLY B 616 PHE B 623 1 8 HELIX 30 AD3 GLU B 638 ALA B 641 5 4 HELIX 31 AD4 SER B 646 ASN B 650 5 5 HELIX 32 AD5 LEU B 656 ARG B 660 5 5 HELIX 33 AD6 GLY B 674 LEU B 685 1 12 HELIX 34 AD7 LEU B 685 ALA B 694 1 10 HELIX 35 AD8 THR B 718 MET B 730 1 13 HELIX 36 AD9 SER B 731 GLY B 735 5 5 HELIX 37 AE1 ASN B 746 LEU B 762 1 17 HELIX 38 AE2 LYS B 776 ALA B 791 1 16 HELIX 39 AE3 TRP B 794 ARG B 798 5 5 SHEET 1 AA1 8 HIS A 487 ARG A 488 0 SHEET 2 AA1 8 THR A 444 VAL A 447 1 N THR A 444 O HIS A 487 SHEET 3 AA1 8 ASN A 563 ALA A 566 1 O ASN A 563 N GLY A 445 SHEET 4 AA1 8 VAL A 737 LEU A 741 1 O ILE A 739 N ALA A 566 SHEET 5 AA1 8 LEU A 697 ALA A 702 1 N VAL A 700 O LEU A 738 SHEET 6 AA1 8 VAL A 606 ASP A 610 1 N LEU A 607 O LEU A 699 SHEET 7 AA1 8 VAL A 629 ARG A 636 1 O LEU A 630 N ILE A 608 SHEET 8 AA1 8 ASN A 663 TRP A 668 1 O VAL A 664 N TYR A 631 SHEET 1 AA2 8 HIS B 487 ARG B 488 0 SHEET 2 AA2 8 THR B 444 VAL B 447 1 N THR B 444 O HIS B 487 SHEET 3 AA2 8 ASN B 563 ALA B 566 1 O ASN B 563 N GLY B 445 SHEET 4 AA2 8 VAL B 737 LEU B 741 1 O ILE B 739 N ALA B 566 SHEET 5 AA2 8 LEU B 697 ALA B 702 1 N VAL B 700 O LEU B 738 SHEET 6 AA2 8 VAL B 606 ASP B 610 1 N LEU B 607 O LEU B 699 SHEET 7 AA2 8 VAL B 629 ARG B 636 1 O ILE B 632 N ASP B 610 SHEET 8 AA2 8 ASN B 663 TRP B 668 1 O ILE B 666 N SER B 633 LINK O ASP A 610 K K A 802 1555 1555 2.76 LINK OD1 ASP A 610 K K A 802 1555 1555 2.85 LINK OD1 ASP A 612 ZN ZN A 801 1555 1555 2.10 LINK O ASP A 612 K K A 802 1555 1555 2.65 LINK ND1 HIS A 614 ZN ZN A 801 1555 1555 2.16 LINK O HIS A 614 K K A 802 1555 1555 2.75 LINK O PHE A 623 K K A 803 1555 1555 2.72 LINK O ASP A 626 K K A 803 1555 1555 2.90 LINK O VAL A 629 K K A 803 1555 1555 2.68 LINK OG SER A 633 K K A 802 1555 1555 2.80 LINK O LEU A 634 K K A 802 1555 1555 2.74 LINK O TYR A 662 K K A 803 1555 1555 2.82 LINK OD2 ASP A 705 ZN ZN A 801 1555 1555 1.86 LINK ZN ZN A 801 S04 W45 A 804 1555 1555 2.33 LINK K K A 803 O HOH A 952 1555 1555 2.69 LINK K K A 803 O HOH A 973 1555 1555 2.95 LINK O ASP B 610 K K B 802 1555 1555 2.78 LINK OD1 ASP B 610 K K B 802 1555 1555 2.76 LINK OD1 ASP B 612 ZN ZN B 801 1555 1555 2.04 LINK O ASP B 612 K K B 802 1555 1555 2.62 LINK ND1 HIS B 614 ZN ZN B 801 1555 1555 2.12 LINK O HIS B 614 K K B 802 1555 1555 2.76 LINK O PHE B 623 K K B 803 1555 1555 2.59 LINK O ASP B 626 K K B 803 1555 1555 2.92 LINK O VAL B 629 K K B 803 1555 1555 2.67 LINK OG SER B 633 K K B 802 1555 1555 2.81 LINK O LEU B 634 K K B 802 1555 1555 2.67 LINK O TYR B 662 K K B 803 1555 1555 2.82 LINK OD2 ASP B 705 ZN ZN B 801 1555 1555 1.94 LINK ZN ZN B 801 S04 W45 B 804 1555 1555 2.34 LINK K K B 803 O HOH B 931 1555 1555 2.66 LINK K K B 803 O HOH B1000 1555 1555 3.08 CISPEP 1 ARG A 569 PRO A 570 0 0.10 CISPEP 2 PHE A 643 PRO A 644 0 1.48 CISPEP 3 ARG B 569 PRO B 570 0 -1.57 CISPEP 4 PHE B 643 PRO B 644 0 5.27 SITE 1 AC1 4 ASP A 612 HIS A 614 ASP A 705 W45 A 804 SITE 1 AC2 5 ASP A 610 ASP A 612 HIS A 614 SER A 633 SITE 2 AC2 5 LEU A 634 SITE 1 AC3 6 PHE A 623 ASP A 626 VAL A 629 TYR A 662 SITE 2 AC3 6 HOH A 952 HOH A 973 SITE 1 AC4 16 PRO A 464 SER A 531 HIS A 573 HIS A 574 SITE 2 AC4 16 GLY A 582 PHE A 583 ASP A 612 HIS A 614 SITE 3 AC4 16 PHE A 643 GLY A 743 TYR A 745 ZN A 801 SITE 4 AC4 16 HOH A 982 ARG B 636 GLU B 638 ALA B 641 SITE 1 AC5 10 HIS A 615 ASN A 617 HIS A 621 TYR A 637 SITE 2 AC5 10 PHE A 642 PRO A 644 ASN A 645 SER A 646 SITE 3 AC5 10 ASP A 648 ALA A 649 SITE 1 AC6 4 ASP B 612 HIS B 614 ASP B 705 W45 B 804 SITE 1 AC7 5 ASP B 610 ASP B 612 HIS B 614 SER B 633 SITE 2 AC7 5 LEU B 634 SITE 1 AC8 6 PHE B 623 ASP B 626 VAL B 629 TYR B 662 SITE 2 AC8 6 HOH B 931 HOH B1000 SITE 1 AC9 15 ASP A 460 HIS A 462 HOH A1007 HIS B 463 SITE 2 AC9 15 SER B 531 HIS B 573 HIS B 574 GLY B 582 SITE 3 AC9 15 PHE B 583 ASP B 612 HIS B 614 PHE B 643 SITE 4 AC9 15 GLY B 743 TYR B 745 ZN B 801 SITE 1 AD1 6 ARG B 472 ASN B 746 THR B 748 HOH B 913 SITE 2 AD1 6 HOH B 929 HOH B1026 SITE 1 AD2 5 ASP B 449 GLN B 450 PHE B 474 ARG B 488 SITE 2 AD2 5 HOH B1048 SITE 1 AD3 4 HIS A 683 HIS B 684 SER B 796 HOH B1033 CRYST1 159.010 46.460 96.400 90.00 119.19 90.00 C 1 2 1 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 0.006289 0.000000 0.003513 0.00000 SCALE2 0.000000 0.021524 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011882 0.00000