HEADER HYDROLASE/HYDROLASE INHIBITOR 24-JUN-18 6DVL TITLE CRYSTAL STRUCTURE OF DANIO RERIO HISTONE DEACETYLASE 6 CATALYTIC TITLE 2 DOMAIN 2 IN COMPLEX WITH DDK-115 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 DEACETYLAASE, METALLOHYDROLASE, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.J.PORTER,D.W.CHRISTIANSON REVDAT 4 11-OCT-23 6DVL 1 REMARK LINK REVDAT 3 18-DEC-19 6DVL 1 REMARK REVDAT 2 26-SEP-18 6DVL 1 JRNL REVDAT 1 29-AUG-18 6DVL 0 JRNL AUTH N.J.PORTER,J.D.OSKO,D.DIEDRICH,T.KURZ,J.M.HOOKER,F.K.HANSEN, JRNL AUTH 2 D.W.CHRISTIANSON JRNL TITL HISTONE DEACETYLASE 6-SELECTIVE INHIBITORS AND THE INFLUENCE JRNL TITL 2 OF CAPPING GROUPS ON HYDROXAMATE-ZINC DENTICITY. JRNL REF J. MED. CHEM. V. 61 8054 2018 JRNL REFN ISSN 1520-4804 JRNL PMID 30118224 JRNL DOI 10.1021/ACS.JMEDCHEM.8B01013 REMARK 2 REMARK 2 RESOLUTION. 2.10 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 60.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 45551 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 2270 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 60.2303 - 5.2907 0.99 2781 162 0.1530 0.1503 REMARK 3 2 5.2907 - 4.1997 0.97 2688 128 0.1360 0.1419 REMARK 3 3 4.1997 - 3.6689 1.00 2716 152 0.1398 0.1495 REMARK 3 4 3.6689 - 3.3335 1.00 2727 174 0.1507 0.1769 REMARK 3 5 3.3335 - 3.0946 0.99 2698 144 0.1749 0.1913 REMARK 3 6 3.0946 - 2.9121 1.00 2744 130 0.1768 0.2376 REMARK 3 7 2.9121 - 2.7663 1.00 2686 152 0.1802 0.2334 REMARK 3 8 2.7663 - 2.6459 0.96 2655 130 0.1942 0.2069 REMARK 3 9 2.6459 - 2.5440 0.98 2659 142 0.1906 0.2446 REMARK 3 10 2.5440 - 2.4562 0.99 2684 143 0.2012 0.2304 REMARK 3 11 2.4562 - 2.3794 0.99 2710 126 0.1962 0.2655 REMARK 3 12 2.3794 - 2.3114 0.99 2692 147 0.2055 0.2416 REMARK 3 13 2.3114 - 2.2505 0.99 2726 125 0.2080 0.2648 REMARK 3 14 2.2505 - 2.1956 1.00 2681 155 0.2109 0.2232 REMARK 3 15 2.1956 - 2.1457 0.99 2743 136 0.2181 0.2897 REMARK 3 16 2.1457 - 2.1000 0.99 2691 124 0.2322 0.2744 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.200 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 5749 REMARK 3 ANGLE : 0.594 7821 REMARK 3 CHIRALITY : 0.042 853 REMARK 3 PLANARITY : 0.004 1022 REMARK 3 DIHEDRAL : 17.243 3408 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 6DVL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUN-18. REMARK 100 THE DEPOSITION ID IS D_1000235303. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-AUG-17 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) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45551 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 60.210 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.23600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.26600 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5EEM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 400 MM NAF; 15% PEG 3,350, VAPOR REMARK 280 DIFFUSION, SITTING DROP, 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 41.30050 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 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 PRO A 442 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 SER B 441 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 LYS A 518 CG CD CE NZ REMARK 470 ARG A 524 CD NE CZ NH1 NH2 REMARK 470 LYS A 577 CD CE NZ REMARK 470 LYS A 658 CG CD CE NZ REMARK 470 ARG A 708 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 497 CG CD OE1 OE2 REMARK 470 ARG B 520 NE CZ NH1 NH2 REMARK 470 ARG B 524 CD NE CZ NH1 NH2 REMARK 470 LYS B 658 CG CD CE NZ REMARK 470 LYS B 672 CE NZ REMARK 470 ARG B 708 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 770 CG OD1 OD2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 SER B 755 CA CB OG REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 TRP B 794 C TRP B 794 O -0.119 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 66.18 60.47 REMARK 500 THR A 600 -79.31 -122.93 REMARK 500 LEU A 685 -61.62 -124.08 REMARK 500 GLN A 716 42.04 -140.93 REMARK 500 GLU A 742 -105.44 -114.12 REMARK 500 SER B 531 70.14 61.52 REMARK 500 CYS B 581 140.57 -170.40 REMARK 500 THR B 600 -79.97 -119.88 REMARK 500 TYR B 637 -50.56 -121.65 REMARK 500 LEU B 685 -57.94 -126.19 REMARK 500 SER B 701 87.04 -69.49 REMARK 500 GLU B 742 -111.06 -116.13 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 71.3 REMARK 620 3 ASP A 612 O 100.8 94.5 REMARK 620 4 HIS A 614 O 165.1 93.9 78.3 REMARK 620 5 SER A 633 OG 83.5 110.5 154.5 103.9 REMARK 620 6 LEU A 634 O 74.9 136.8 66.2 117.3 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 801 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 612 OD1 REMARK 620 2 HIS A 614 ND1 104.9 REMARK 620 3 ASP A 705 OD2 96.0 100.8 REMARK 620 4 HBG A 804 N28 172.6 80.0 88.4 REMARK 620 5 HBG A 804 O29 144.5 110.6 78.5 31.0 REMARK 620 6 HOH A 930 O 97.0 101.6 150.2 76.4 75.3 REMARK 620 N 1 2 3 4 5 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 75.9 REMARK 620 3 VAL A 629 O 118.9 76.1 REMARK 620 4 TYR A 662 O 151.8 121.7 88.2 REMARK 620 5 HOH A 969 O 78.1 89.2 152.9 80.3 REMARK 620 6 HOH A 982 O 70.5 145.5 127.8 87.0 76.4 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 71.8 REMARK 620 3 ASP B 612 O 99.4 95.0 REMARK 620 4 HIS B 614 O 163.9 92.6 77.4 REMARK 620 5 SER B 633 OG 84.4 111.3 153.1 105.7 REMARK 620 6 LEU B 634 O 76.3 138.3 64.3 115.2 91.2 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 ASP B 612 OD2 53.7 REMARK 620 3 HIS B 614 ND1 103.8 157.4 REMARK 620 4 ASP B 705 OD2 99.4 84.3 99.2 REMARK 620 5 HBG B 804 N28 173.5 123.8 78.9 85.8 REMARK 620 6 HBG B 804 O29 147.6 93.9 108.6 74.9 30.5 REMARK 620 7 HOH B 914 O 98.3 80.3 108.0 142.7 75.2 72.5 REMARK 620 N 1 2 3 4 5 6 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 74.3 REMARK 620 3 VAL B 629 O 116.1 78.6 REMARK 620 4 TYR B 662 O 153.2 120.7 89.7 REMARK 620 5 HOH B 952 O 78.9 86.4 154.3 80.1 REMARK 620 6 HOH B 964 O 68.8 142.4 124.6 91.1 79.4 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 HBG A 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HBG B 804 DBREF 6DVL A 440 798 UNP A7YT55 A7YT55_DANRE 288 646 DBREF 6DVL B 440 798 UNP A7YT55 A7YT55_DANRE 288 646 SEQADV 6DVL SER A 435 UNP A7YT55 EXPRESSION TAG SEQADV 6DVL ASN A 436 UNP A7YT55 EXPRESSION TAG SEQADV 6DVL ALA A 437 UNP A7YT55 EXPRESSION TAG SEQADV 6DVL GLY A 438 UNP A7YT55 EXPRESSION TAG SEQADV 6DVL GLY A 439 UNP A7YT55 EXPRESSION TAG SEQADV 6DVL SER B 435 UNP A7YT55 EXPRESSION TAG SEQADV 6DVL ASN B 436 UNP A7YT55 EXPRESSION TAG SEQADV 6DVL ALA B 437 UNP A7YT55 EXPRESSION TAG SEQADV 6DVL GLY B 438 UNP A7YT55 EXPRESSION TAG SEQADV 6DVL 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 HBG A 804 32 HET ZN B 801 1 HET K B 802 1 HET K B 803 1 HET HBG B 804 32 HETNAM ZN ZINC ION HETNAM K POTASSIUM ION HETNAM HBG N-[2-(CYCLOHEXYLAMINO)-2-OXOETHYL]-N-{[4- HETNAM 2 HBG (HYDROXYCARBAMOYL)PHENYL]METHYL}-3,5-DIMETHYLBENZAMIDE FORMUL 3 ZN 2(ZN 2+) FORMUL 4 K 4(K 1+) FORMUL 6 HBG 2(C25 H31 N3 O4) FORMUL 11 HOH *433(H2 O) HELIX 1 AA1 ASP A 449 LEU A 454 5 6 HELIX 2 AA2 PRO A 467 LEU A 480 1 14 HELIX 3 AA3 THR A 495 ALA A 500 1 6 HELIX 4 AA4 SER A 504 SER A 514 1 11 HELIX 5 AA5 GLU A 515 MET A 517 5 3 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 THR A 600 1 14 HELIX 9 AA9 GLY A 616 PHE A 623 1 8 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 LEU B 454 5 6 HELIX 21 AC3 PRO B 467 LEU B 480 1 14 HELIX 22 AC4 THR B 495 ALA B 500 1 6 HELIX 23 AC5 SER B 504 SER B 514 1 11 HELIX 24 AC6 GLU B 515 MET B 517 5 3 HELIX 25 AC7 LYS B 518 GLU B 528 1 11 HELIX 26 AC8 GLU B 537 THR B 558 1 22 HELIX 27 AC9 ASN B 587 THR B 600 1 14 HELIX 28 AD1 GLY B 616 PHE B 623 1 8 HELIX 29 AD2 GLU B 638 ALA B 641 5 4 HELIX 30 AD3 SER B 646 ASN B 650 5 5 HELIX 31 AD4 LEU B 656 ARG B 660 5 5 HELIX 32 AD5 GLY B 674 LEU B 685 1 12 HELIX 33 AD6 LEU B 685 ALA B 694 1 10 HELIX 34 AD7 THR B 718 MET B 730 1 13 HELIX 35 AD8 SER B 731 GLY B 735 5 5 HELIX 36 AD9 ASN B 746 LEU B 762 1 17 HELIX 37 AE1 LYS B 776 ALA B 791 1 16 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 ALA A 702 O ILE A 740 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 ILE A 666 N SER A 633 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 ILE B 740 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 2.87 LINK OD1 ASP A 610 K K A 802 1555 1555 2.91 LINK OD1 ASP A 612 ZN ZN A 801 1555 1555 2.04 LINK O ASP A 612 K K A 802 1555 1555 2.60 LINK ND1 HIS A 614 ZN ZN A 801 1555 1555 2.11 LINK O HIS A 614 K K A 802 1555 1555 2.71 LINK O PHE A 623 K K A 803 1555 1555 2.65 LINK O ASP A 626 K K A 803 1555 1555 2.89 LINK O VAL A 629 K K A 803 1555 1555 2.67 LINK OG SER A 633 K K A 802 1555 1555 2.81 LINK O LEU A 634 K K A 802 1555 1555 2.70 LINK O TYR A 662 K K A 803 1555 1555 2.76 LINK OD2 ASP A 705 ZN ZN A 801 1555 1555 1.99 LINK ZN ZN A 801 N28 HBG A 804 1555 1555 2.63 LINK ZN ZN A 801 O29 HBG A 804 1555 1555 2.12 LINK ZN ZN A 801 O HOH A 930 1555 1555 2.10 LINK K K A 803 O HOH A 969 1555 1555 2.79 LINK K K A 803 O HOH A 982 1555 1555 3.06 LINK O ASP B 610 K K B 802 1555 1555 2.79 LINK OD1 ASP B 610 K K B 802 1555 1555 2.87 LINK OD1 ASP B 612 ZN ZN B 801 1555 1555 2.07 LINK OD2 ASP B 612 ZN ZN B 801 1555 1555 2.65 LINK O ASP B 612 K K B 802 1555 1555 2.63 LINK ND1 HIS B 614 ZN ZN B 801 1555 1555 2.16 LINK O HIS B 614 K K B 802 1555 1555 2.78 LINK O PHE B 623 K K B 803 1555 1555 2.67 LINK O ASP B 626 K K B 803 1555 1555 2.89 LINK O VAL B 629 K K B 803 1555 1555 2.69 LINK OG SER B 633 K K B 802 1555 1555 2.76 LINK O LEU B 634 K K B 802 1555 1555 2.73 LINK O TYR B 662 K K B 803 1555 1555 2.78 LINK OD2 ASP B 705 ZN ZN B 801 1555 1555 1.99 LINK ZN ZN B 801 N28 HBG B 804 1555 1555 2.66 LINK ZN ZN B 801 O29 HBG B 804 1555 1555 2.16 LINK ZN ZN B 801 O HOH B 914 1555 1555 2.09 LINK K K B 803 O HOH B 952 1555 1555 2.76 LINK K K B 803 O HOH B 964 1555 1555 3.00 CISPEP 1 ARG A 569 PRO A 570 0 0.80 CISPEP 2 PHE A 643 PRO A 644 0 6.22 CISPEP 3 ARG B 569 PRO B 570 0 0.88 CISPEP 4 PHE B 643 PRO B 644 0 5.39 SITE 1 AC1 5 ASP A 612 HIS A 614 ASP A 705 HBG A 804 SITE 2 AC1 5 HOH A 930 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 969 HOH A 982 SITE 1 AC4 16 HIS A 463 PRO A 464 HIS A 574 GLY A 582 SITE 2 AC4 16 PHE A 583 ASP A 612 HIS A 614 PHE A 643 SITE 3 AC4 16 ASN A 645 ASP A 705 GLY A 743 TYR A 745 SITE 4 AC4 16 ZN A 801 HOH A 908 HOH A 930 HOH A 937 SITE 1 AC5 5 ASP B 612 HIS B 614 ASP B 705 HBG B 804 SITE 2 AC5 5 HOH B 914 SITE 1 AC6 5 ASP B 610 ASP B 612 HIS B 614 SER B 633 SITE 2 AC6 5 LEU B 634 SITE 1 AC7 6 PHE B 623 ASP B 626 VAL B 629 TYR B 662 SITE 2 AC7 6 HOH B 952 HOH B 964 SITE 1 AC8 14 HIS B 463 PRO B 464 HIS B 574 GLY B 582 SITE 2 AC8 14 PHE B 583 ASP B 612 HIS B 614 PHE B 643 SITE 3 AC8 14 ASP B 705 GLY B 743 TYR B 745 ZN B 801 SITE 4 AC8 14 HOH B 906 HOH B 914 CRYST1 54.982 82.601 88.910 90.00 98.49 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 0.018188 0.000000 0.002715 0.00000 SCALE2 0.000000 0.012106 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011372 0.00000