HEADER HYDROLASE/HYDROLASE INHIBITOR 11-AUG-16 5SYN TITLE COCRYSTAL STRUCTURE OF THE HUMAN ACYL PROTEIN THIOESTERASE 2 WITH AN TITLE 2 ISOFORM-SELECTIVE INHIBITOR, ML349 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACYL-PROTEIN THIOESTERASE 2; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: APT-2,LYSOPHOSPHOLIPASE II,LYSOPLA II; COMPND 5 EC: 3.1.2.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: LYPLA2, APT2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, INHIBITOR, THIOESTERASE, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.A.STUCKEY,K.J.LABBY,J.L.MEAGHER,S.J.WON,B.R.MARTIN REVDAT 6 04-OCT-23 5SYN 1 REMARK REVDAT 5 04-DEC-19 5SYN 1 REMARK REVDAT 4 20-SEP-17 5SYN 1 REMARK REVDAT 3 28-DEC-16 5SYN 1 JRNL REVDAT 2 09-NOV-16 5SYN 1 JRNL REVDAT 1 26-OCT-16 5SYN 0 JRNL AUTH S.J.WON,D.DAVDA,K.J.LABBY,S.Y.HWANG,R.PRICER,J.D.MAJMUDAR, JRNL AUTH 2 K.A.ARMACOST,L.A.RODRIGUEZ,C.L.RODRIGUEZ,F.S.CHONG, JRNL AUTH 3 K.A.TOROSSIAN,J.PALAKURTHI,E.S.HUR,J.L.MEAGHER,C.L.BROOKS, JRNL AUTH 4 J.A.STUCKEY,B.R.MARTIN JRNL TITL MOLECULAR MECHANISM FOR ISOFORM-SELECTIVE INHIBITION OF ACYL JRNL TITL 2 PROTEIN THIOESTERASES 1 AND 2 (APT1 AND APT2). JRNL REF ACS CHEM. BIOL. V. 11 3374 2016 JRNL REFN ESSN 1554-8937 JRNL PMID 27748579 JRNL DOI 10.1021/ACSCHEMBIO.6B00720 REMARK 2 REMARK 2 RESOLUTION. 1.64 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.64 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 55.81 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.2 REMARK 3 NUMBER OF REFLECTIONS : 97049 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : NULL REMARK 3 BIN R VALUE (WORKING + TEST SET) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6547 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 148 REMARK 3 SOLVENT ATOMS : 310 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.55 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : NULL ; NULL ; NULL REMARK 3 BOND ANGLES : NULL ; NULL ; NULL REMARK 3 TORSION ANGLES : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : NULL ; NULL ; NULL REMARK 3 ISOTROPIC THERMAL FACTORS : NULL ; NULL ; NULL REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : NULL ; NULL ; NULL REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : NULL ; NULL ; NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : NULL REMARK 3 OTHER TORSION ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5SYN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1000222867. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-JUN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9786 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 97049 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.640 REMARK 200 RESOLUTION RANGE LOW (A) : 55.810 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.2 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.09500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: BALBES REMARK 200 STARTING MODEL: PDB:1FJ2 CHAIN A REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 MM SODIUM CITRATE PH 5.5, 20-24% REMARK 280 PEG 3350., VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 39.10500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.89500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 39.10500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 39.89500 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, 3, 4 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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 MET A 1 REMARK 465 CYS A 2 REMARK 465 GLY A 3 REMARK 465 ASN A 4 REMARK 465 THR A 5 REMARK 465 MET A 6 REMARK 465 SER A 7 REMARK 465 VAL A 8 REMARK 465 MET B 1 REMARK 465 CYS B 2 REMARK 465 GLY B 3 REMARK 465 ASN B 4 REMARK 465 THR B 5 REMARK 465 MET B 6 REMARK 465 SER B 7 REMARK 465 VAL B 8 REMARK 465 MET C 1 REMARK 465 CYS C 2 REMARK 465 GLY C 3 REMARK 465 ASN C 4 REMARK 465 THR C 5 REMARK 465 MET C 6 REMARK 465 SER C 7 REMARK 465 VAL C 8 REMARK 465 PRO C 9 REMARK 465 ALA C 159 REMARK 465 MET D 1 REMARK 465 CYS D 2 REMARK 465 GLY D 3 REMARK 465 ASN D 4 REMARK 465 THR D 5 REMARK 465 MET D 6 REMARK 465 SER D 7 REMARK 465 VAL D 8 REMARK 465 PRO D 9 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 LEU A 11 CG CD1 CD2 REMARK 470 GLU A 21 OE1 OE2 REMARK 470 LYS A 69 CE NZ REMARK 470 MET A 70 CG SD CE REMARK 470 VAL A 71 CG1 CG2 REMARK 470 LYS A 94 NZ REMARK 470 GLU A 104 CD OE1 OE2 REMARK 470 SER A 162 OG REMARK 470 LYS A 164 CG CD CE NZ REMARK 470 ARG A 182 CD NE CZ NH1 NH2 REMARK 470 LEU A 186 CG CD1 CD2 REMARK 470 SER A 193 OG REMARK 470 THR A 196 OG1 CG2 REMARK 470 GLU A 225 OE1 OE2 REMARK 470 LEU B 11 CD1 CD2 REMARK 470 LYS B 69 CE NZ REMARK 470 ARG B 153 CG CD NE CZ NH1 NH2 REMARK 470 SER B 162 OG REMARK 470 LYS B 164 CE NZ REMARK 470 LEU B 175 CD1 CD2 REMARK 470 ARG B 182 CD NE CZ NH1 NH2 REMARK 470 SER B 193 OG REMARK 470 THR B 196 OG1 CG2 REMARK 470 ARG B 199 CD NE CZ NH1 NH2 REMARK 470 GLU B 225 OE1 OE2 REMARK 470 LEU C 11 CG CD1 CD2 REMARK 470 GLU C 21 OE1 OE2 REMARK 470 ARG C 22 NH1 NH2 REMARK 470 GLU C 23 CG CD OE1 OE2 REMARK 470 LYS C 69 CE NZ REMARK 470 MET C 70 CG SD CE REMARK 470 LYS C 94 NZ REMARK 470 ARG C 153 CG CD NE CZ NH1 NH2 REMARK 470 SER C 162 OG REMARK 470 LYS C 164 CG CD CE NZ REMARK 470 ARG C 182 CD NE CZ NH1 NH2 REMARK 470 THR C 196 OG1 CG2 REMARK 470 ARG C 199 CD NE CZ NH1 NH2 REMARK 470 GLU C 225 OE1 OE2 REMARK 470 LEU D 11 CG CD1 CD2 REMARK 470 GLU D 21 OE1 OE2 REMARK 470 ARG D 22 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 69 CE NZ REMARK 470 ASP D 84 CG OD1 OD2 REMARK 470 GLU D 104 CD OE1 OE2 REMARK 470 SER D 162 OG REMARK 470 LYS D 164 CG CD CE NZ REMARK 470 ARG D 182 CD NE CZ NH1 NH2 REMARK 470 THR D 196 OG1 CG2 REMARK 470 ARG D 199 CD NE CZ NH1 NH2 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 LEU A 66 CD1 REMARK 480 LEU B 66 CD1 REMARK 480 LEU B 81 CD1 REMARK 480 LEU C 66 CD1 REMARK 480 LEU D 66 CD1 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 ASN A 67 46.39 -97.24 REMARK 500 SER A 122 -115.40 46.68 REMARK 500 MET A 209 -140.27 -100.04 REMARK 500 ASN B 67 45.16 -107.63 REMARK 500 SER B 122 -116.67 52.22 REMARK 500 MET B 209 -137.68 -99.89 REMARK 500 SER C 122 -118.76 45.39 REMARK 500 ASP C 165 65.22 -117.42 REMARK 500 MET C 209 -138.66 -99.08 REMARK 500 ASN D 67 44.41 -101.49 REMARK 500 SER D 122 -115.78 48.92 REMARK 500 MET D 209 -136.94 -100.15 REMARK 500 MET D 209 -135.50 -101.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 71T A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 71T B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 71T C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 71T D 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5SYM RELATED DB: PDB DBREF 5SYN A 1 231 UNP O95372 LYPA2_HUMAN 1 231 DBREF 5SYN B 1 231 UNP O95372 LYPA2_HUMAN 1 231 DBREF 5SYN C 1 231 UNP O95372 LYPA2_HUMAN 1 231 DBREF 5SYN D 1 231 UNP O95372 LYPA2_HUMAN 1 231 SEQRES 1 A 231 MET CYS GLY ASN THR MET SER VAL PRO LEU LEU THR ASP SEQRES 2 A 231 ALA ALA THR VAL SER GLY ALA GLU ARG GLU THR ALA ALA SEQRES 3 A 231 VAL ILE PHE LEU HIS GLY LEU GLY ASP THR GLY HIS SER SEQRES 4 A 231 TRP ALA ASP ALA LEU SER THR ILE ARG LEU PRO HIS VAL SEQRES 5 A 231 LYS TYR ILE CYS PRO HIS ALA PRO ARG ILE PRO VAL THR SEQRES 6 A 231 LEU ASN MET LYS MET VAL MET PRO SER TRP PHE ASP LEU SEQRES 7 A 231 MET GLY LEU SER PRO ASP ALA PRO GLU ASP GLU ALA GLY SEQRES 8 A 231 ILE LYS LYS ALA ALA GLU ASN ILE LYS ALA LEU ILE GLU SEQRES 9 A 231 HIS GLU MET LYS ASN GLY ILE PRO ALA ASN ARG ILE VAL SEQRES 10 A 231 LEU GLY GLY PHE SER GLN GLY GLY ALA LEU SER LEU TYR SEQRES 11 A 231 THR ALA LEU THR CYS PRO HIS PRO LEU ALA GLY ILE VAL SEQRES 12 A 231 ALA LEU SER CYS TRP LEU PRO LEU HIS ARG ALA PHE PRO SEQRES 13 A 231 GLN ALA ALA ASN GLY SER ALA LYS ASP LEU ALA ILE LEU SEQRES 14 A 231 GLN CYS HIS GLY GLU LEU ASP PRO MET VAL PRO VAL ARG SEQRES 15 A 231 PHE GLY ALA LEU THR ALA GLU LYS LEU ARG SER VAL VAL SEQRES 16 A 231 THR PRO ALA ARG VAL GLN PHE LYS THR TYR PRO GLY VAL SEQRES 17 A 231 MET HIS SER SER CYS PRO GLN GLU MET ALA ALA VAL LYS SEQRES 18 A 231 GLU PHE LEU GLU LYS LEU LEU PRO PRO VAL SEQRES 1 B 231 MET CYS GLY ASN THR MET SER VAL PRO LEU LEU THR ASP SEQRES 2 B 231 ALA ALA THR VAL SER GLY ALA GLU ARG GLU THR ALA ALA SEQRES 3 B 231 VAL ILE PHE LEU HIS GLY LEU GLY ASP THR GLY HIS SER SEQRES 4 B 231 TRP ALA ASP ALA LEU SER THR ILE ARG LEU PRO HIS VAL SEQRES 5 B 231 LYS TYR ILE CYS PRO HIS ALA PRO ARG ILE PRO VAL THR SEQRES 6 B 231 LEU ASN MET LYS MET VAL MET PRO SER TRP PHE ASP LEU SEQRES 7 B 231 MET GLY LEU SER PRO ASP ALA PRO GLU ASP GLU ALA GLY SEQRES 8 B 231 ILE LYS LYS ALA ALA GLU ASN ILE LYS ALA LEU ILE GLU SEQRES 9 B 231 HIS GLU MET LYS ASN GLY ILE PRO ALA ASN ARG ILE VAL SEQRES 10 B 231 LEU GLY GLY PHE SER GLN GLY GLY ALA LEU SER LEU TYR SEQRES 11 B 231 THR ALA LEU THR CYS PRO HIS PRO LEU ALA GLY ILE VAL SEQRES 12 B 231 ALA LEU SER CYS TRP LEU PRO LEU HIS ARG ALA PHE PRO SEQRES 13 B 231 GLN ALA ALA ASN GLY SER ALA LYS ASP LEU ALA ILE LEU SEQRES 14 B 231 GLN CYS HIS GLY GLU LEU ASP PRO MET VAL PRO VAL ARG SEQRES 15 B 231 PHE GLY ALA LEU THR ALA GLU LYS LEU ARG SER VAL VAL SEQRES 16 B 231 THR PRO ALA ARG VAL GLN PHE LYS THR TYR PRO GLY VAL SEQRES 17 B 231 MET HIS SER SER CYS PRO GLN GLU MET ALA ALA VAL LYS SEQRES 18 B 231 GLU PHE LEU GLU LYS LEU LEU PRO PRO VAL SEQRES 1 C 231 MET CYS GLY ASN THR MET SER VAL PRO LEU LEU THR ASP SEQRES 2 C 231 ALA ALA THR VAL SER GLY ALA GLU ARG GLU THR ALA ALA SEQRES 3 C 231 VAL ILE PHE LEU HIS GLY LEU GLY ASP THR GLY HIS SER SEQRES 4 C 231 TRP ALA ASP ALA LEU SER THR ILE ARG LEU PRO HIS VAL SEQRES 5 C 231 LYS TYR ILE CYS PRO HIS ALA PRO ARG ILE PRO VAL THR SEQRES 6 C 231 LEU ASN MET LYS MET VAL MET PRO SER TRP PHE ASP LEU SEQRES 7 C 231 MET GLY LEU SER PRO ASP ALA PRO GLU ASP GLU ALA GLY SEQRES 8 C 231 ILE LYS LYS ALA ALA GLU ASN ILE LYS ALA LEU ILE GLU SEQRES 9 C 231 HIS GLU MET LYS ASN GLY ILE PRO ALA ASN ARG ILE VAL SEQRES 10 C 231 LEU GLY GLY PHE SER GLN GLY GLY ALA LEU SER LEU TYR SEQRES 11 C 231 THR ALA LEU THR CYS PRO HIS PRO LEU ALA GLY ILE VAL SEQRES 12 C 231 ALA LEU SER CYS TRP LEU PRO LEU HIS ARG ALA PHE PRO SEQRES 13 C 231 GLN ALA ALA ASN GLY SER ALA LYS ASP LEU ALA ILE LEU SEQRES 14 C 231 GLN CYS HIS GLY GLU LEU ASP PRO MET VAL PRO VAL ARG SEQRES 15 C 231 PHE GLY ALA LEU THR ALA GLU LYS LEU ARG SER VAL VAL SEQRES 16 C 231 THR PRO ALA ARG VAL GLN PHE LYS THR TYR PRO GLY VAL SEQRES 17 C 231 MET HIS SER SER CYS PRO GLN GLU MET ALA ALA VAL LYS SEQRES 18 C 231 GLU PHE LEU GLU LYS LEU LEU PRO PRO VAL SEQRES 1 D 231 MET CYS GLY ASN THR MET SER VAL PRO LEU LEU THR ASP SEQRES 2 D 231 ALA ALA THR VAL SER GLY ALA GLU ARG GLU THR ALA ALA SEQRES 3 D 231 VAL ILE PHE LEU HIS GLY LEU GLY ASP THR GLY HIS SER SEQRES 4 D 231 TRP ALA ASP ALA LEU SER THR ILE ARG LEU PRO HIS VAL SEQRES 5 D 231 LYS TYR ILE CYS PRO HIS ALA PRO ARG ILE PRO VAL THR SEQRES 6 D 231 LEU ASN MET LYS MET VAL MET PRO SER TRP PHE ASP LEU SEQRES 7 D 231 MET GLY LEU SER PRO ASP ALA PRO GLU ASP GLU ALA GLY SEQRES 8 D 231 ILE LYS LYS ALA ALA GLU ASN ILE LYS ALA LEU ILE GLU SEQRES 9 D 231 HIS GLU MET LYS ASN GLY ILE PRO ALA ASN ARG ILE VAL SEQRES 10 D 231 LEU GLY GLY PHE SER GLN GLY GLY ALA LEU SER LEU TYR SEQRES 11 D 231 THR ALA LEU THR CYS PRO HIS PRO LEU ALA GLY ILE VAL SEQRES 12 D 231 ALA LEU SER CYS TRP LEU PRO LEU HIS ARG ALA PHE PRO SEQRES 13 D 231 GLN ALA ALA ASN GLY SER ALA LYS ASP LEU ALA ILE LEU SEQRES 14 D 231 GLN CYS HIS GLY GLU LEU ASP PRO MET VAL PRO VAL ARG SEQRES 15 D 231 PHE GLY ALA LEU THR ALA GLU LYS LEU ARG SER VAL VAL SEQRES 16 D 231 THR PRO ALA ARG VAL GLN PHE LYS THR TYR PRO GLY VAL SEQRES 17 D 231 MET HIS SER SER CYS PRO GLN GLU MET ALA ALA VAL LYS SEQRES 18 D 231 GLU PHE LEU GLU LYS LEU LEU PRO PRO VAL HET 71T A 301 53 HET EDO A 302 4 HET 71T B 301 53 HET EDO B 302 4 HET EDO B 303 4 HET EDO B 304 4 HET EDO B 305 4 HET 71T C 301 53 HET EDO C 302 4 HET 71T D 301 53 HETNAM 71T 2-[4-(4-METHOXYPHENYL)PIPERAZINE-1-CARBONYL]- HETNAM 2 71T 5LAMBDA~6~-THIENO[3,2-C][1]BENZOTHIOPYRAN-5,5(4H)- HETNAM 3 71T DIONE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 71T 4(C23 H22 N2 O4 S2) FORMUL 6 EDO 6(C2 H6 O2) FORMUL 15 HOH *310(H2 O) HELIX 1 AA1 GLY A 37 THR A 46 1 10 HELIX 2 AA2 THR A 65 MET A 68 5 4 HELIX 3 AA3 ASP A 88 ASN A 109 1 22 HELIX 4 AA4 PRO A 112 ASN A 114 5 3 HELIX 5 AA5 SER A 122 THR A 134 1 13 HELIX 6 AA6 LEU A 151 PHE A 155 5 5 HELIX 7 AA7 ASN A 160 LEU A 166 5 7 HELIX 8 AA8 PRO A 180 SER A 193 1 14 HELIX 9 AA9 THR A 196 ALA A 198 5 3 HELIX 10 AB1 CYS A 213 LEU A 228 1 16 HELIX 11 AB2 GLY B 37 THR B 46 1 10 HELIX 12 AB3 THR B 65 MET B 68 5 4 HELIX 13 AB4 ASP B 88 ASN B 109 1 22 HELIX 14 AB5 PRO B 112 ASN B 114 5 3 HELIX 15 AB6 SER B 122 THR B 134 1 13 HELIX 16 AB7 LEU B 151 PHE B 155 5 5 HELIX 17 AB8 ASN B 160 LYS B 164 5 5 HELIX 18 AB9 PRO B 180 SER B 193 1 14 HELIX 19 AC1 THR B 196 ALA B 198 5 3 HELIX 20 AC2 CYS B 213 LEU B 228 1 16 HELIX 21 AC3 GLY C 37 THR C 46 1 10 HELIX 22 AC4 ASP C 88 ASN C 109 1 22 HELIX 23 AC5 PRO C 112 ASN C 114 5 3 HELIX 24 AC6 SER C 122 THR C 134 1 13 HELIX 25 AC7 LEU C 151 PHE C 155 5 5 HELIX 26 AC8 PRO C 180 VAL C 195 1 16 HELIX 27 AC9 THR C 196 ALA C 198 5 3 HELIX 28 AD1 CYS C 213 LEU C 228 1 16 HELIX 29 AD2 GLY D 37 THR D 46 1 10 HELIX 30 AD3 THR D 65 MET D 68 5 4 HELIX 31 AD4 ASP D 88 ASN D 109 1 22 HELIX 32 AD5 PRO D 112 ASN D 114 5 3 HELIX 33 AD6 SER D 122 THR D 134 1 13 HELIX 34 AD7 LEU D 151 PHE D 155 5 5 HELIX 35 AD8 ASN D 160 LEU D 166 5 7 HELIX 36 AD9 PRO D 180 ARG D 192 1 13 HELIX 37 AE1 THR D 196 ALA D 198 5 3 HELIX 38 AE2 CYS D 213 LEU D 228 1 16 SHEET 1 AA114 VAL A 200 TYR A 205 0 SHEET 2 AA114 ALA A 167 GLY A 173 1 N GLN A 170 O GLN A 201 SHEET 3 AA114 GLY A 141 LEU A 145 1 N ALA A 144 O LEU A 169 SHEET 4 AA114 ILE A 116 PHE A 121 1 N GLY A 120 O LEU A 145 SHEET 5 AA114 ALA A 25 LEU A 30 1 N ALA A 26 O VAL A 117 SHEET 6 AA114 VAL A 52 PRO A 57 1 O ILE A 55 N VAL A 27 SHEET 7 AA114 LEU A 11 VAL A 17 -1 N VAL A 17 O TYR A 54 SHEET 8 AA114 LEU B 11 VAL B 17 -1 O THR B 12 N THR A 16 SHEET 9 AA114 VAL B 52 PRO B 57 -1 O TYR B 54 N VAL B 17 SHEET 10 AA114 ALA B 25 LEU B 30 1 N VAL B 27 O ILE B 55 SHEET 11 AA114 ILE B 116 PHE B 121 1 O VAL B 117 N ILE B 28 SHEET 12 AA114 GLY B 141 LEU B 145 1 O LEU B 145 N GLY B 120 SHEET 13 AA114 ALA B 167 GLY B 173 1 O LEU B 169 N ILE B 142 SHEET 14 AA114 VAL B 200 TYR B 205 1 O GLN B 201 N ILE B 168 SHEET 1 AA2 2 ARG A 61 PRO A 63 0 SHEET 2 AA2 2 VAL A 71 PRO A 73 -1 O MET A 72 N ILE A 62 SHEET 1 AA3 2 ARG B 61 PRO B 63 0 SHEET 2 AA3 2 VAL B 71 PRO B 73 -1 O MET B 72 N ILE B 62 SHEET 1 AA4 7 ALA C 14 VAL C 17 0 SHEET 2 AA4 7 VAL C 52 PRO C 57 -1 O TYR C 54 N VAL C 17 SHEET 3 AA4 7 ALA C 25 LEU C 30 1 N VAL C 27 O ILE C 55 SHEET 4 AA4 7 ILE C 116 PHE C 121 1 O VAL C 117 N ILE C 28 SHEET 5 AA4 7 GLY C 141 LEU C 145 1 O LEU C 145 N GLY C 120 SHEET 6 AA4 7 ALA C 167 GLY C 173 1 O LEU C 169 N ALA C 144 SHEET 7 AA4 7 VAL C 200 TYR C 205 1 O GLN C 201 N GLN C 170 SHEET 1 AA5 2 ARG C 61 PRO C 63 0 SHEET 2 AA5 2 VAL C 71 PRO C 73 -1 O MET C 72 N ILE C 62 SHEET 1 AA6 7 ALA D 14 VAL D 17 0 SHEET 2 AA6 7 VAL D 52 PRO D 57 -1 O TYR D 54 N VAL D 17 SHEET 3 AA6 7 ALA D 25 LEU D 30 1 N VAL D 27 O ILE D 55 SHEET 4 AA6 7 ILE D 116 PHE D 121 1 O VAL D 117 N ILE D 28 SHEET 5 AA6 7 GLY D 141 LEU D 145 1 O LEU D 145 N GLY D 120 SHEET 6 AA6 7 ALA D 167 GLY D 173 1 O LEU D 169 N ILE D 142 SHEET 7 AA6 7 VAL D 200 TYR D 205 1 O GLN D 201 N ILE D 168 SHEET 1 AA7 2 ARG D 61 PRO D 63 0 SHEET 2 AA7 2 VAL D 71 PRO D 73 -1 O MET D 72 N ILE D 62 CISPEP 1 PHE A 155 PRO A 156 0 5.82 CISPEP 2 PHE B 155 PRO B 156 0 7.42 CISPEP 3 PHE C 155 PRO C 156 0 5.69 CISPEP 4 ASN C 160 GLY C 161 0 -1.65 CISPEP 5 PHE D 155 PRO D 156 0 4.40 SITE 1 AC1 18 LEU A 33 GLY A 80 LEU A 81 SER A 82 SITE 2 AC1 18 PRO A 83 SER A 122 TRP A 148 LEU A 149 SITE 3 AC1 18 HIS A 152 MET A 178 VAL A 179 PHE A 183 SITE 4 AC1 18 LEU A 186 THR A 187 HIS A 210 HOH A 429 SITE 5 AC1 18 HOH A 431 HOH A 452 SITE 1 AC2 5 GLY A 110 HOH A 469 THR B 24 PRO B 112 SITE 2 AC2 5 ARG B 115 SITE 1 AC3 21 LEU B 33 LEU B 66 LEU B 78 GLY B 80 SITE 2 AC3 21 LEU B 81 SER B 82 PRO B 83 GLU B 87 SITE 3 AC3 21 SER B 122 TRP B 148 LEU B 149 HIS B 152 SITE 4 AC3 21 MET B 178 VAL B 179 PHE B 183 LEU B 186 SITE 5 AC3 21 THR B 187 HIS B 210 HOH B 416 HOH B 434 SITE 6 AC3 21 HOH B 443 SITE 1 AC4 4 TRP B 75 ASN B 98 ILE B 99 HOH B 402 SITE 1 AC5 5 MET A 68 SER B 39 TRP B 40 ALA B 43 SITE 2 AC5 5 SER B 212 SITE 1 AC6 4 GLY A 19 GLU B 104 HIS B 105 LYS B 108 SITE 1 AC7 5 SER A 39 TRP A 40 ALA A 43 SER A 212 SITE 2 AC7 5 MET B 68 SITE 1 AC8 19 LEU C 66 GLY C 80 LEU C 81 SER C 82 SITE 2 AC8 19 PRO C 83 GLU C 87 SER C 122 TRP C 148 SITE 3 AC8 19 LEU C 149 HIS C 152 MET C 178 VAL C 179 SITE 4 AC8 19 PHE C 183 LEU C 186 THR C 187 HIS C 210 SITE 5 AC8 19 HOH C 406 HOH C 414 HOH C 420 SITE 1 AC9 5 SER C 39 TRP C 40 SER C 212 HOH C 410 SITE 2 AC9 5 MET D 68 SITE 1 AD1 19 LEU D 33 LEU D 78 GLY D 80 LEU D 81 SITE 2 AD1 19 SER D 82 PRO D 83 SER D 122 TRP D 148 SITE 3 AD1 19 LEU D 149 HIS D 152 MET D 178 VAL D 179 SITE 4 AD1 19 PHE D 183 LEU D 186 THR D 187 HIS D 210 SITE 5 AD1 19 HOH D 412 HOH D 413 HOH D 420 CRYST1 78.210 79.790 138.610 90.00 93.30 90.00 C 1 2 1 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 0.012786 0.000000 0.000737 0.00000 SCALE2 0.000000 0.012533 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007226 0.00000