HEADER HYDROLASE 23-MAR-16 5G0Y TITLE PSEUDOMONAS AERUGINOSA HDAH UNLIGANDED. COMPND MOL_ID: 1; COMPND 2 MOLECULE: HDAH; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 208964; SOURCE 4 STRAIN: PA01; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET21 KEYWDS HYDROLASE, HDAH, HDAC, HDLP EXPDTA X-RAY DIFFRACTION AUTHOR A.KRAEMER,F.J.MEYER-ALMES,O.YILDIZ REVDAT 3 10-JAN-24 5G0Y 1 REMARK LINK REVDAT 2 01-MAR-17 5G0Y 1 JRNL REVDAT 1 07-DEC-16 5G0Y 0 JRNL AUTH A.KRAMER,T.WAGNER,O.YILDIZ,F.J.MEYER-ALMES JRNL TITL CRYSTAL STRUCTURE OF A HISTONE DEACETYLASE HOMOLOGUE FROM JRNL TITL 2 PSEUDOMONAS AERUGINOSA. JRNL REF BIOCHEMISTRY V. 55 6858 2016 JRNL REFN ISSN 1520-4995 JRNL PMID 27951649 JRNL DOI 10.1021/ACS.BIOCHEM.6B00613 REMARK 2 REMARK 2 RESOLUTION. 2.29 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.29 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 75.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 30090 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1565 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.29 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.35 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2192 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.2540 REMARK 3 BIN FREE R VALUE SET COUNT : 103 REMARK 3 BIN FREE R VALUE : 0.3060 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5700 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 223 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.49000 REMARK 3 B22 (A**2) : -1.49000 REMARK 3 B33 (A**2) : 2.98000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.421 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.235 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.186 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.748 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5871 ; 0.009 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5498 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7931 ; 1.359 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12577 ; 0.999 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 747 ; 5.859 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 283 ;37.835 ;22.650 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 866 ;15.126 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 60 ;16.519 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 844 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6818 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1430 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2994 ; 1.166 ; 2.395 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2993 ; 1.165 ; 2.393 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3739 ; 2.019 ; 3.584 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3740 ; 2.019 ; 3.586 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2877 ; 1.483 ; 2.563 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2876 ; 1.483 ; 2.565 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4193 ; 2.566 ; 3.780 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 27182 ; 5.675 ;22.397 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 27141 ; 5.662 ;22.395 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5G0Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-MAR-16. REMARK 100 THE DEPOSITION ID IS D_1290066567. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-OCT-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00001 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31717 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.290 REMARK 200 RESOLUTION RANGE LOW (A) : 75.670 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.200 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.23000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.29 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.97000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1ZZ0 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 101.61000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 40.76500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 40.76500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 50.80500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 40.76500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 40.76500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 152.41500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 40.76500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 40.76500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 50.80500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 40.76500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 40.76500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 152.41500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 101.61000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 44980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -240.5 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 101.61000 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 THR A 2 REMARK 465 PRO A 375 REMARK 465 LEU A 376 REMARK 465 GLN A 377 REMARK 465 ALA A 378 REMARK 465 ALA A 379 REMARK 465 ARG A 380 REMARK 465 THR B 2 REMARK 465 ARG B 380 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 O HOH B 2069 O HOH B 2070 1.54 REMARK 500 O HIS A 16 NH2 ARG A 139 2.10 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 LEU A 23 -104.56 56.64 REMARK 500 ALA A 36 -73.65 -117.02 REMARK 500 ALA A 37 -94.88 -52.17 REMARK 500 ALA A 93 34.21 -91.45 REMARK 500 SER A 214 -64.01 -106.66 REMARK 500 ASP A 222 -115.49 43.87 REMARK 500 ILE A 249 -54.42 -120.10 REMARK 500 GLU A 310 -112.98 -123.48 REMARK 500 ALA A 373 -117.18 64.22 REMARK 500 LEU B 23 -104.18 58.28 REMARK 500 ALA B 36 -73.57 -116.61 REMARK 500 ALA B 37 -95.71 -55.09 REMARK 500 ALA B 93 33.46 -93.24 REMARK 500 SER B 214 -63.44 -105.99 REMARK 500 ASP B 222 -116.32 44.97 REMARK 500 GLU B 310 -110.72 -122.88 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 A1376 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 179 OD1 REMARK 620 2 ASP A 179 O 69.0 REMARK 620 3 ASP A 181 O 88.9 95.7 REMARK 620 4 HIS A 183 O 98.8 166.3 77.4 REMARK 620 5 SER A 202 OG 114.8 91.9 156.3 99.1 REMARK 620 6 LEU A 203 O 138.6 77.1 71.1 110.9 88.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1375 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 181 OD1 REMARK 620 2 ASP A 181 OD2 53.6 REMARK 620 3 HIS A 183 ND1 104.9 156.9 REMARK 620 4 ASP A 269 OD2 108.9 87.8 93.0 REMARK 620 5 HOH A2045 O 87.2 88.8 99.1 156.7 REMARK 620 6 HOH A2054 O 132.8 90.9 111.8 98.0 59.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A1377 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 192 O REMARK 620 2 ARG A 195 O 78.4 REMARK 620 3 VAL A 198 O 120.7 78.7 REMARK 620 4 PHE A 227 O 156.6 112.5 82.4 REMARK 620 5 HOH A2059 O 70.3 147.6 124.4 94.3 REMARK 620 6 HOH A2062 O 84.2 87.8 147.9 76.0 81.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B1382 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 179 OD1 REMARK 620 2 ASP B 179 O 68.6 REMARK 620 3 ASP B 181 O 88.1 94.5 REMARK 620 4 HIS B 183 O 98.8 166.0 78.7 REMARK 620 5 SER B 202 OG 115.2 92.6 156.6 98.4 REMARK 620 6 LEU B 203 O 139.1 77.6 72.0 111.2 87.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1380 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 181 OD1 REMARK 620 2 HIS B 183 ND1 107.1 REMARK 620 3 ASP B 269 OD2 105.5 93.9 REMARK 620 4 HOH B2047 O 99.3 93.7 150.6 REMARK 620 5 HOH B2060 O 138.7 107.6 93.8 56.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B1381 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR B 192 O REMARK 620 2 ARG B 195 O 77.3 REMARK 620 3 VAL B 198 O 121.2 78.4 REMARK 620 4 PHE B 227 O 156.2 114.9 82.2 REMARK 620 5 HOH B2065 O 67.4 144.6 121.9 97.5 REMARK 620 6 HOH B2071 O 83.3 91.5 149.6 76.2 82.3 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 1375 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 1376 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 1377 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1380 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K B 1381 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K B 1382 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5G0X RELATED DB: PDB REMARK 900 PSEUDOMONAS AERUGINOSA HDAH BOUND TO ACETATE. REMARK 900 RELATED ID: 5G10 RELATED DB: PDB REMARK 900 PSEUDOMONAS AERUGINOSA HDAH BOUND TO 9,9,9 TRIFLUORO- 8,8-DIHYDROY- REMARK 900 N-PHENYLNONANAMIDE REMARK 900 RELATED ID: 5G11 RELATED DB: PDB REMARK 900 PSEUDOMONAS AERUGINOSA HDAH BOUND TO PFSAHA. REMARK 900 RELATED ID: 5G12 RELATED DB: PDB REMARK 900 PSEUDOMONAS AERUGINOSA HDAH (Y313F) UNLIGANDED. REMARK 900 RELATED ID: 5G13 RELATED DB: PDB REMARK 900 PSEUDOMONAS AERUGINOSA HDAH (H143A) UNLIGANDED. REMARK 900 RELATED ID: 5G17 RELATED DB: PDB REMARK 900 BORDETELLA ALCALIGENES HDAH (T101A) BOUND TO 9,9,9- TRIFLUORO-8,8- REMARK 900 DIHYDROXY-N-PHENYLNONANAMIDE. REMARK 900 RELATED ID: 5G1A RELATED DB: PDB REMARK 900 BORDETELLA ALCALIGENES HDAH BOUND TO PFSAHA REMARK 900 RELATED ID: 5G1B RELATED DB: PDB REMARK 900 BORDETELLA ALCALIGENES HDAH NATIVE REMARK 900 RELATED ID: 5G1C RELATED DB: PDB REMARK 900 STRUCTURE OF HDAC LIKE PROTEIN FROM BORDETELLA ALCALIGENES BOUND REMARK 900 THE PHOTOSWITCHABLE PYRAZOLE INHIBITOR CEW395 DBREF 5G0Y A 2 380 UNP Q9HXM1 Q9HXM1_PSEAE 2 380 DBREF 5G0Y B 2 380 UNP Q9HXM1 Q9HXM1_PSEAE 2 380 SEQRES 1 A 379 THR ARG ARG THR ALA PHE PHE PHE ASP GLU LEU CYS LEU SEQRES 2 A 379 TRP HIS ALA ALA GLY PRO HIS ALA LEU THR LEU PRO VAL SEQRES 3 A 379 GLY GLY TRP VAL GLN PRO PRO ALA ALA ALA GLY HIS ALA SEQRES 4 A 379 GLU SER PRO GLU THR LYS ARG ARG LEU LYS SER LEU LEU SEQRES 5 A 379 ASP VAL SER GLY LEU THR ALA ARG LEU GLN LEU ARG SER SEQRES 6 A 379 ALA PRO PRO ALA SER ASP GLU ASP LEU LEU ARG VAL HIS SEQRES 7 A 379 PRO ALA HIS TYR LEU GLU ARG PHE LYS ALA LEU SER ASP SEQRES 8 A 379 ALA GLY GLY GLY SER LEU GLY GLN ASP ALA PRO ILE GLY SEQRES 9 A 379 PRO GLY SER TYR GLU ILE ALA ARG LEU SER ALA GLY LEU SEQRES 10 A 379 ALA ILE ALA ALA LEU ASP ALA VAL LEU ALA GLY GLU ALA SEQRES 11 A 379 ASP ASN ALA TYR SER LEU SER ARG PRO PRO GLY HIS HIS SEQRES 12 A 379 CYS LEU PRO ASP GLN ALA MET GLY PHE CYS PHE PHE ALA SEQRES 13 A 379 ASN ILE ALA VAL ALA ILE GLU ALA ALA LYS ALA ARG HIS SEQRES 14 A 379 GLY VAL GLU ARG VAL ALA VAL LEU ASP TRP ASP VAL HIS SEQRES 15 A 379 HIS GLY ASN GLY THR GLN ALA ILE TYR TYR ARG ARG ASP SEQRES 16 A 379 ASP VAL LEU SER ILE SER LEU HIS GLN ASP GLY CYS PHE SEQRES 17 A 379 PRO PRO GLY TYR SER GLY ALA GLU ASP ILE GLY GLU ASP SEQRES 18 A 379 ARG GLY ARG GLY PHE ASN LEU ASN VAL PRO LEU LEU PRO SEQRES 19 A 379 GLY GLY GLY HIS ASP ALA TYR MET GLN ALA MET GLN ARG SEQRES 20 A 379 ILE VAL LEU PRO ALA LEU GLU ARG PHE ARG PRO GLN LEU SEQRES 21 A 379 ILE VAL VAL ALA SER GLY PHE ASP ALA ASN ALA VAL ASP SEQRES 22 A 379 PRO LEU ALA ARG MET GLN LEU HIS SER ASP SER PHE ARG SEQRES 23 A 379 ALA MET THR ALA MET VAL ARG ASP ALA ALA GLU ARG HIS SEQRES 24 A 379 ALA GLY GLY ARG LEU VAL VAL VAL HIS GLU GLY GLY TYR SEQRES 25 A 379 SER GLU ALA TYR VAL PRO PHE CYS GLY LEU ALA VAL ILE SEQRES 26 A 379 GLU GLU LEU SER GLY VAL ARG SER ALA VAL ARG ASP PRO SEQRES 27 A 379 LEU ARG ASP PHE ILE GLU LEU GLN GLN PRO ASN ALA ALA SEQRES 28 A 379 PHE ARG ASP PHE GLN ARG GLN ARG LEU GLU GLU LEU ALA SEQRES 29 A 379 ALA GLN PHE GLY LEU CYS PRO ALA GLN PRO LEU GLN ALA SEQRES 30 A 379 ALA ARG SEQRES 1 B 379 THR ARG ARG THR ALA PHE PHE PHE ASP GLU LEU CYS LEU SEQRES 2 B 379 TRP HIS ALA ALA GLY PRO HIS ALA LEU THR LEU PRO VAL SEQRES 3 B 379 GLY GLY TRP VAL GLN PRO PRO ALA ALA ALA GLY HIS ALA SEQRES 4 B 379 GLU SER PRO GLU THR LYS ARG ARG LEU LYS SER LEU LEU SEQRES 5 B 379 ASP VAL SER GLY LEU THR ALA ARG LEU GLN LEU ARG SER SEQRES 6 B 379 ALA PRO PRO ALA SER ASP GLU ASP LEU LEU ARG VAL HIS SEQRES 7 B 379 PRO ALA HIS TYR LEU GLU ARG PHE LYS ALA LEU SER ASP SEQRES 8 B 379 ALA GLY GLY GLY SER LEU GLY GLN ASP ALA PRO ILE GLY SEQRES 9 B 379 PRO GLY SER TYR GLU ILE ALA ARG LEU SER ALA GLY LEU SEQRES 10 B 379 ALA ILE ALA ALA LEU ASP ALA VAL LEU ALA GLY GLU ALA SEQRES 11 B 379 ASP ASN ALA TYR SER LEU SER ARG PRO PRO GLY HIS HIS SEQRES 12 B 379 CYS LEU PRO ASP GLN ALA MET GLY PHE CYS PHE PHE ALA SEQRES 13 B 379 ASN ILE ALA VAL ALA ILE GLU ALA ALA LYS ALA ARG HIS SEQRES 14 B 379 GLY VAL GLU ARG VAL ALA VAL LEU ASP TRP ASP VAL HIS SEQRES 15 B 379 HIS GLY ASN GLY THR GLN ALA ILE TYR TYR ARG ARG ASP SEQRES 16 B 379 ASP VAL LEU SER ILE SER LEU HIS GLN ASP GLY CYS PHE SEQRES 17 B 379 PRO PRO GLY TYR SER GLY ALA GLU ASP ILE GLY GLU ASP SEQRES 18 B 379 ARG GLY ARG GLY PHE ASN LEU ASN VAL PRO LEU LEU PRO SEQRES 19 B 379 GLY GLY GLY HIS ASP ALA TYR MET GLN ALA MET GLN ARG SEQRES 20 B 379 ILE VAL LEU PRO ALA LEU GLU ARG PHE ARG PRO GLN LEU SEQRES 21 B 379 ILE VAL VAL ALA SER GLY PHE ASP ALA ASN ALA VAL ASP SEQRES 22 B 379 PRO LEU ALA ARG MET GLN LEU HIS SER ASP SER PHE ARG SEQRES 23 B 379 ALA MET THR ALA MET VAL ARG ASP ALA ALA GLU ARG HIS SEQRES 24 B 379 ALA GLY GLY ARG LEU VAL VAL VAL HIS GLU GLY GLY TYR SEQRES 25 B 379 SER GLU ALA TYR VAL PRO PHE CYS GLY LEU ALA VAL ILE SEQRES 26 B 379 GLU GLU LEU SER GLY VAL ARG SER ALA VAL ARG ASP PRO SEQRES 27 B 379 LEU ARG ASP PHE ILE GLU LEU GLN GLN PRO ASN ALA ALA SEQRES 28 B 379 PHE ARG ASP PHE GLN ARG GLN ARG LEU GLU GLU LEU ALA SEQRES 29 B 379 ALA GLN PHE GLY LEU CYS PRO ALA GLN PRO LEU GLN ALA SEQRES 30 B 379 ALA ARG HET ZN A1375 1 HET K A1376 1 HET K A1377 1 HET ZN B1380 1 HET K B1381 1 HET K B1382 1 HETNAM ZN ZINC ION HETNAM K POTASSIUM ION FORMUL 3 ZN 2(ZN 2+) FORMUL 4 K 4(K 1+) FORMUL 9 HOH *223(H2 O) HELIX 1 1 ASP A 10 HIS A 16 5 7 HELIX 2 2 SER A 42 SER A 56 1 15 HELIX 3 3 LEU A 58 LEU A 62 5 5 HELIX 4 4 SER A 71 ARG A 77 1 7 HELIX 5 5 PRO A 80 ALA A 93 1 14 HELIX 6 6 GLY A 107 ALA A 128 1 22 HELIX 7 7 ALA A 157 GLY A 171 1 15 HELIX 8 8 GLY A 185 TYR A 192 1 8 HELIX 9 9 GLU A 221 ARG A 225 5 5 HELIX 10 10 GLY A 238 ILE A 249 1 12 HELIX 11 11 ILE A 249 ARG A 258 1 10 HELIX 12 12 HIS A 282 ALA A 301 1 20 HELIX 13 13 TYR A 317 GLY A 331 1 15 HELIX 14 14 LEU A 340 GLN A 347 1 8 HELIX 15 15 ASN A 350 PHE A 368 1 19 HELIX 16 16 ASP B 10 HIS B 16 5 7 HELIX 17 17 SER B 42 SER B 56 1 15 HELIX 18 18 LEU B 58 LEU B 62 5 5 HELIX 19 19 SER B 71 ARG B 77 1 7 HELIX 20 20 PRO B 80 ALA B 93 1 14 HELIX 21 21 GLY B 107 ALA B 128 1 22 HELIX 22 22 ALA B 157 GLY B 171 1 15 HELIX 23 23 GLY B 185 TYR B 192 1 8 HELIX 24 24 GLU B 221 ARG B 225 5 5 HELIX 25 25 GLY B 238 ILE B 249 1 12 HELIX 26 26 ILE B 249 ARG B 258 1 10 HELIX 27 27 HIS B 282 ALA B 301 1 20 HELIX 28 28 TYR B 317 GLY B 331 1 15 HELIX 29 29 LEU B 340 GLN B 347 1 8 HELIX 30 30 ASN B 350 PHE B 368 1 19 SHEET 1 AA 8 GLN A 63 ARG A 65 0 SHEET 2 AA 8 THR A 5 PHE A 8 1 O THR A 5 N GLN A 63 SHEET 3 AA 8 ASN A 133 SER A 136 1 O ASN A 133 N ALA A 6 SHEET 4 AA 8 LEU A 305 HIS A 309 1 O LEU A 305 N ALA A 134 SHEET 5 AA 8 LEU A 261 SER A 266 1 O ILE A 262 N VAL A 306 SHEET 6 AA 8 VAL A 175 ASP A 179 1 O ALA A 176 N VAL A 263 SHEET 7 AA 8 VAL A 198 GLN A 205 1 O LEU A 199 N VAL A 177 SHEET 8 AA 8 ASN A 228 LEU A 233 1 O LEU A 229 N SER A 202 SHEET 1 AB 2 HIS A 21 ALA A 22 0 SHEET 2 AB 2 LEU A 25 PRO A 26 -1 O LEU A 25 N ALA A 22 SHEET 1 AC 2 GLY A 96 SER A 97 0 SHEET 2 AC 2 PRO A 103 ILE A 104 -1 O ILE A 104 N GLY A 96 SHEET 1 BA 8 GLN B 63 ARG B 65 0 SHEET 2 BA 8 THR B 5 PHE B 8 1 O THR B 5 N GLN B 63 SHEET 3 BA 8 ASN B 133 SER B 136 1 O ASN B 133 N ALA B 6 SHEET 4 BA 8 LEU B 305 HIS B 309 1 O LEU B 305 N ALA B 134 SHEET 5 BA 8 LEU B 261 SER B 266 1 O ILE B 262 N VAL B 306 SHEET 6 BA 8 VAL B 175 ASP B 179 1 O ALA B 176 N VAL B 263 SHEET 7 BA 8 VAL B 198 GLN B 205 1 O LEU B 199 N VAL B 177 SHEET 8 BA 8 ASN B 228 LEU B 233 1 O LEU B 229 N SER B 202 SHEET 1 BB 2 HIS B 21 ALA B 22 0 SHEET 2 BB 2 LEU B 25 PRO B 26 -1 O LEU B 25 N ALA B 22 SHEET 1 BC 2 GLY B 96 SER B 97 0 SHEET 2 BC 2 PRO B 103 ILE B 104 -1 O ILE B 104 N GLY B 96 SHEET 1 BD 2 GLY B 99 GLN B 100 0 SHEET 2 BD 2 ALA B 150 MET B 151 1 O ALA B 150 N GLN B 100 LINK OD1 ASP A 179 K K A1376 1555 1555 2.60 LINK O ASP A 179 K K A1376 1555 1555 2.62 LINK OD1 ASP A 181 ZN ZN A1375 1555 1555 2.02 LINK OD2 ASP A 181 ZN ZN A1375 1555 1555 2.69 LINK O ASP A 181 K K A1376 1555 1555 2.58 LINK ND1 HIS A 183 ZN ZN A1375 1555 1555 2.15 LINK O HIS A 183 K K A1376 1555 1555 2.62 LINK O TYR A 192 K K A1377 1555 1555 2.59 LINK O ARG A 195 K K A1377 1555 1555 2.66 LINK O VAL A 198 K K A1377 1555 1555 2.58 LINK OG SER A 202 K K A1376 1555 1555 2.63 LINK O LEU A 203 K K A1376 1555 1555 2.61 LINK O PHE A 227 K K A1377 1555 1555 2.62 LINK OD2 ASP A 269 ZN ZN A1375 1555 1555 1.97 LINK ZN ZN A1375 O HOH A2045 1555 1555 2.22 LINK ZN ZN A1375 O HOH A2054 1555 1555 2.31 LINK K K A1377 O HOH A2059 1555 1555 2.62 LINK K K A1377 O HOH A2062 1555 1555 2.60 LINK OD1 ASP B 179 K K B1382 1555 1555 2.61 LINK O ASP B 179 K K B1382 1555 1555 2.64 LINK OD1 ASP B 181 ZN ZN B1380 1555 1555 2.02 LINK O ASP B 181 K K B1382 1555 1555 2.58 LINK ND1 HIS B 183 ZN ZN B1380 1555 1555 2.10 LINK O HIS B 183 K K B1382 1555 1555 2.61 LINK O TYR B 192 K K B1381 1555 1555 2.60 LINK O ARG B 195 K K B1381 1555 1555 2.66 LINK O VAL B 198 K K B1381 1555 1555 2.60 LINK OG SER B 202 K K B1382 1555 1555 2.63 LINK O LEU B 203 K K B1382 1555 1555 2.60 LINK O PHE B 227 K K B1381 1555 1555 2.63 LINK OD2 ASP B 269 ZN ZN B1380 1555 1555 2.00 LINK ZN ZN B1380 O HOH B2047 1555 1555 2.39 LINK ZN ZN B1380 O HOH B2060 1555 1555 2.32 LINK K K B1381 O HOH B2065 1555 1555 2.62 LINK K K B1381 O HOH B2071 1555 1555 2.61 CISPEP 1 ARG A 139 PRO A 140 0 4.26 CISPEP 2 PHE A 209 PRO A 210 0 -5.16 CISPEP 3 PRO A 372 ALA A 373 0 -24.46 CISPEP 4 ARG B 139 PRO B 140 0 2.42 CISPEP 5 PHE B 209 PRO B 210 0 -2.31 SITE 1 AC1 5 ASP A 181 HIS A 183 ASP A 269 HOH A2045 SITE 2 AC1 5 HOH A2054 SITE 1 AC2 5 ASP A 179 ASP A 181 HIS A 183 SER A 202 SITE 2 AC2 5 LEU A 203 SITE 1 AC3 6 TYR A 192 ARG A 195 VAL A 198 PHE A 227 SITE 2 AC3 6 HOH A2059 HOH A2062 SITE 1 AC4 5 ASP B 181 HIS B 183 ASP B 269 HOH B2047 SITE 2 AC4 5 HOH B2060 SITE 1 AC5 6 TYR B 192 ARG B 195 VAL B 198 PHE B 227 SITE 2 AC5 6 HOH B2065 HOH B2071 SITE 1 AC6 5 ASP B 179 ASP B 181 HIS B 183 SER B 202 SITE 2 AC6 5 LEU B 203 CRYST1 81.530 81.530 203.220 90.00 90.00 90.00 P 41 21 2 16 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 0.012265 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012265 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004921 0.00000