HEADER TRANSFERASE 14-APR-14 4CYN TITLE LEISHMANIA MAJOR N-MYRISTOYLTRANSFERASE IN COMPLEX WITH AN TITLE 2 AMINOACYLPYRROLIDINE INHIBITOR (2B) COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 11-421; COMPND 5 EC: 2.3.1.97; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEISHMANIA MAJOR; SOURCE 3 ORGANISM_TAXID: 5664; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VARIANT: ROSETTA2 PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET15; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: MAC040-B01 KEYWDS TRANSFERASE, MYRISTOYLATION, INHIBITOR, DRUG DESIGN EXPDTA X-RAY DIFFRACTION AUTHOR J.A.HUTTON,V.GONCALVES,J.A.BRANNIGAN,D.PAAPE,T.WAUGH,S.M.ROBERTS, AUTHOR 2 A.S.BELL,A.J.WILKINSON,D.F.SMITH,R.J.LEATHERBARROW,E.W.TATE REVDAT 2 05-NOV-14 4CYN 1 JRNL REVDAT 1 01-OCT-14 4CYN 0 JRNL AUTH J.A.HUTTON,V.GONCALVES,J.A.BRANNIGAN,D.PAAPE,M.H.WRIGHT, JRNL AUTH 2 T.M.WAUGH,S.M.ROBERTS,A.S.BELL,A.J.WILKINSON,D.F.SMITH, JRNL AUTH 3 R.J.LEATHERBARROW,E.W.TATE JRNL TITL STRUCTURE-BASED DESIGN OF POTENT AND SELECTIVE LEISHMANIA JRNL TITL 2 N- MYRISTOYLTRANSFERASE INHIBITORS. JRNL REF J.MED.CHEM. V. 57 8664 2014 JRNL REFN ISSN 0022-2623 JRNL PMID 25238611 JRNL DOI 10.1021/JM5011397 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU, REMARK 3 STEINER,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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.35 REMARK 3 DATA CUTOFF (SIGMA(F)) : NONE REMARK 3 COMPLETENESS FOR RANGE (%) : 98.61 REMARK 3 NUMBER OF REFLECTIONS : 77942 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) : 0.17605 REMARK 3 R VALUE (WORKING SET) : 0.17418 REMARK 3 FREE R VALUE : 0.21226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.0 REMARK 3 FREE R VALUE TEST SET COUNT : 4118 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) : 1.400 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.436 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5718 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.47 REMARK 3 BIN R VALUE (WORKING SET) : 0.325 REMARK 3 BIN FREE R VALUE SET COUNT : 315 REMARK 3 BIN FREE R VALUE : 0.354 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3559 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 91 REMARK 3 SOLVENT ATOMS : 555 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.547 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.52 REMARK 3 B22 (A**2) : 1.14 REMARK 3 B33 (A**2) : -0.17 REMARK 3 B12 (A**2) : 0.00 REMARK 3 B13 (A**2) : -0.49 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.065 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.071 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.056 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.493 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3787 ; 0.026 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5200 ; 2.424 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 475 ; 6.343 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 188 ;36.368 ;23.883 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 638 ;14.946 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;17.174 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 545 ; 0.185 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2971 ; 0.014 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1727 ; 1.800 ; 1.407 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2176 ; 2.586 ; 2.112 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2060 ; 2.772 ; 1.647 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 REMARK 3 RIDING POSITIONS. U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 4CYN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-APR-14. REMARK 100 THE PDBE ID CODE IS EBI-60282. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-MAY-12 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 : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9200 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL (PILATUS) REMARK 200 DETECTOR MANUFACTURER : DECTRIS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 82099 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.40 REMARK 200 RESOLUTION RANGE LOW (A) : 34.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 3.5 REMARK 200 R MERGE (I) : 0.05 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.00 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.3 REMARK 200 R MERGE FOR SHELL (I) : 0.76 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.20 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 1500, 0.2 M NACL, 0.1 M REMARK 280 NA CACODYLATE, PH 5.5 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 45.81900 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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 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 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 CE B LYS A 40 O HOH A 2072 2.00 REMARK 500 NZ B LYS A 40 O HOH A 2072 0.91 REMARK 500 OE2B GLU A 74 O HOH A 2148 1.29 REMARK 500 CD2A TYR A 217 O HOH A 2344 2.07 REMARK 500 CE2A TYR A 217 O HOH A 2344 1.42 REMARK 500 OH B TYR A 217 O HOH A 2345 1.65 REMARK 500 NE2B GLN A 274 NH2B ARG A 277 2.17 REMARK 500 CZ A ARG A 277 O HOH A 2424 2.04 REMARK 500 NH1A ARG A 277 O HOH A 2424 1.43 REMARK 500 NH2A ARG A 277 O HOH A 2424 2.16 REMARK 500 CD1B LEU A 399 O HOH A 2345 1.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NZ A LYS A 40 O HOH A 2401 2647 2.01 REMARK 500 NZ A LYS A 148 O HOH A 2452 1554 1.21 REMARK 500 REMARK 500 REMARK: NULL 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 ASP A 68 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG A 134 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 LYS A 268 CD - CE - NZ ANGL. DEV. = 15.7 DEGREES REMARK 500 ARG A 304 CG - CD - NE ANGL. DEV. = -14.1 DEGREES REMARK 500 ARG A 327 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 LEU A 340 CB - CG - CD1 ANGL. DEV. = 14.5 DEGREES REMARK 500 ARG A 370 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 370 NE - CZ - NH2 ANGL. DEV. = -3.5 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 ASN A 79 -0.09 -142.89 REMARK 500 MET A 135 28.85 -152.00 REMARK 500 ILE A 163 -166.12 -126.61 REMARK 500 VAL A 307 -66.12 -126.38 REMARK 500 HIS A 347 -139.63 -111.32 REMARK 500 GLU A 379 43.46 -79.80 REMARK 500 LEU A 381 -139.02 50.53 REMARK 500 SER A 414 2.85 -67.48 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY A 397 12.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 ASP A 37 22.5 L L OUTSIDE RANGE REMARK 500 ASP A 67 23.9 L L OUTSIDE RANGE REMARK 500 GLN A 238 24.9 L L OUTSIDE RANGE 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 MG A 999 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MYA A1001 O2A REMARK 620 2 LEU A 175 O 156.7 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 999 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE A6M A1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MYA A1001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4CYO RELATED DB: PDB REMARK 900 LEISHMANIA MAJOR N-MYRISTOYLTRANSFERASE IN COMPLEX WITH REMARK 900 A HYBRID INHIBITOR (COMPOUND 21). REMARK 900 RELATED ID: 4CYP RELATED DB: PDB REMARK 900 LEISHMANIA MAJOR N-MYRISTOYLTRANSFERASE IN COMPLEX WITH REMARK 900 A PYRROLIDINE INHIBITOR. REMARK 900 RELATED ID: 4CYQ RELATED DB: PDB REMARK 900 LEISHMANIA MAJOR N-MYRISTOYLTRANSFERASE IN COMPLEX WITH REMARK 900 A HYBRID INHIBITOR (COMPOUND 45). DBREF 4CYN A 11 421 UNP Q4Q5S8 Q4Q5S8_LEIMA 11 421 SEQRES 1 A 411 ALA HIS ALA PHE TRP SER THR GLN PRO VAL PRO GLN THR SEQRES 2 A 411 GLU ASP GLU THR GLU LYS ILE VAL PHE ALA GLY PRO MET SEQRES 3 A 411 ASP GLU PRO LYS THR VAL ALA ASP ILE PRO GLU GLU PRO SEQRES 4 A 411 TYR PRO ILE ALA SER THR PHE GLU TRP TRP THR PRO ASN SEQRES 5 A 411 MET GLU ALA ALA ASP ASP ILE HIS ALA ILE TYR GLU LEU SEQRES 6 A 411 LEU ARG ASP ASN TYR VAL GLU ASP ASP ASP SER MET PHE SEQRES 7 A 411 ARG PHE ASN TYR SER GLU GLU PHE LEU GLN TRP ALA LEU SEQRES 8 A 411 CYS PRO PRO ASN TYR ILE PRO ASP TRP HIS VAL ALA VAL SEQRES 9 A 411 ARG ARG LYS ALA ASP LYS LYS LEU LEU ALA PHE ILE ALA SEQRES 10 A 411 GLY VAL PRO VAL THR LEU ARG MET GLY THR PRO LYS TYR SEQRES 11 A 411 MET LYS VAL LYS ALA GLN GLU LYS GLY GLU GLY GLU GLU SEQRES 12 A 411 ALA ALA LYS TYR ASP GLU PRO ARG HIS ILE CYS GLU ILE SEQRES 13 A 411 ASN PHE LEU CYS VAL HIS LYS GLN LEU ARG GLU LYS ARG SEQRES 14 A 411 LEU ALA PRO ILE LEU ILE LYS GLU ALA THR ARG ARG VAL SEQRES 15 A 411 ASN ARG THR ASN VAL TRP GLN ALA VAL TYR THR ALA GLY SEQRES 16 A 411 VAL LEU LEU PRO THR PRO TYR ALA SER GLY GLN TYR PHE SEQRES 17 A 411 HIS ARG SER LEU ASN PRO GLU LYS LEU VAL GLU ILE ARG SEQRES 18 A 411 PHE SER GLY ILE PRO ALA GLN TYR GLN LYS PHE GLN ASN SEQRES 19 A 411 PRO MET ALA MET LEU LYS ARG ASN TYR GLN LEU PRO SER SEQRES 20 A 411 ALA PRO LYS ASN SER GLY LEU ARG GLU MET LYS PRO SER SEQRES 21 A 411 ASP VAL PRO GLN VAL ARG ARG ILE LEU MET ASN TYR LEU SEQRES 22 A 411 ASP SER PHE ASP VAL GLY PRO VAL PHE SER ASP ALA GLU SEQRES 23 A 411 ILE SER HIS TYR LEU LEU PRO ARG ASP GLY VAL VAL PHE SEQRES 24 A 411 THR TYR VAL VAL GLU ASN ASP LYS LYS VAL THR ASP PHE SEQRES 25 A 411 PHE SER PHE TYR ARG ILE PRO SER THR VAL ILE GLY ASN SEQRES 26 A 411 SER ASN TYR ASN LEU LEU ASN ALA ALA TYR VAL HIS TYR SEQRES 27 A 411 TYR ALA ALA THR SER ILE PRO LEU HIS GLN LEU ILE LEU SEQRES 28 A 411 ASP LEU LEU ILE VAL ALA HIS SER ARG GLY PHE ASP VAL SEQRES 29 A 411 CYS ASN MET VAL GLU ILE LEU ASP ASN ARG SER PHE VAL SEQRES 30 A 411 GLU GLN LEU LYS PHE GLY ALA GLY ASP GLY HIS LEU ARG SEQRES 31 A 411 TYR TYR PHE TYR ASN TRP ALA TYR PRO LYS ILE LYS PRO SEQRES 32 A 411 SER GLN VAL ALA LEU VAL MET LEU HET MG A 999 1 HET A6M A1000 27 HET MYA A1001 63 HETNAM MYA TETRADECANOYL-COA HETNAM A6M (3R)-3-AMINO-4-(4-CHLOROPHENYL)-1-[(3R,4S)-3- HETNAM 2 A6M (4-CHLOROPHENYL)-4-(HYDROXYMETHYL)PYRROLIDIN- HETNAM 3 A6M 1-YL]BUTAN-1-ONE HETNAM MG MAGNESIUM ION HETSYN MYA MYRISTOYL-COA FORMUL 2 MYA C35 H62 N7 O17 P3 S FORMUL 3 A6M C21 H24 CL2 N2 O2 FORMUL 4 MG MG 2+ FORMUL 5 HOH *555(H2 O) HELIX 1 1 PHE A 14 GLN A 18 5 5 HELIX 2 2 THR A 23 LYS A 29 1 7 HELIX 3 3 THR A 41 ILE A 45 5 5 HELIX 4 4 ALA A 65 TYR A 80 1 16 HELIX 5 5 SER A 93 CYS A 102 1 10 HELIX 6 6 ILE A 107 ASP A 109 5 3 HELIX 7 7 PRO A 138 LYS A 148 1 11 HELIX 8 8 GLU A 150 LYS A 156 1 7 HELIX 9 9 LYS A 173 ARG A 176 5 4 HELIX 10 10 ARG A 179 ARG A 194 1 16 HELIX 11 11 ASN A 223 ILE A 230 1 8 HELIX 12 12 PRO A 236 PHE A 242 5 7 HELIX 13 13 ASN A 244 GLN A 254 1 11 HELIX 14 14 LYS A 268 SER A 270 5 3 HELIX 15 15 ASP A 271 ASP A 284 1 14 HELIX 16 16 SER A 293 LEU A 302 1 10 HELIX 17 17 PRO A 355 ARG A 370 1 16 HELIX 18 18 ASP A 382 VAL A 387 5 6 HELIX 19 19 LYS A 412 GLN A 415 5 4 SHEET 1 AA 4 PHE A 56 TRP A 59 0 SHEET 2 AA 4 HIS A 111 ARG A 116 -1 O ALA A 113 N TRP A 59 SHEET 3 AA 4 LEU A 122 ARG A 134 -1 N LEU A 123 O VAL A 114 SHEET 4 AA 4 GLY A 289 PRO A 290 -1 O GLY A 289 N ARG A 134 SHEET 1 AB12 PHE A 56 TRP A 59 0 SHEET 2 AB12 HIS A 111 ARG A 116 -1 O ALA A 113 N TRP A 59 SHEET 3 AB12 LEU A 122 ARG A 134 -1 N LEU A 123 O VAL A 114 SHEET 4 AB12 ARG A 161 VAL A 171 -1 O ARG A 161 N LEU A 133 SHEET 5 AB12 ALA A 200 ALA A 204 1 O VAL A 201 N ILE A 166 SHEET 6 AB12 GLY A 393 TYR A 404 -1 O ARG A 400 N ALA A 204 SHEET 7 AB12 ALA A 213 SER A 221 -1 O ALA A 213 N TYR A 401 SHEET 8 AB12 VAL A 374 VAL A 378 -1 O CYS A 375 N ARG A 220 SHEET 9 AB12 LEU A 340 ALA A 351 1 O ALA A 344 N ASN A 376 SHEET 10 AB12 LYS A 318 VAL A 332 -1 O PHE A 322 N ALA A 350 SHEET 11 AB12 VAL A 308 ASN A 315 -1 O PHE A 309 N PHE A 325 SHEET 12 AB12 LEU A 264 GLU A 266 -1 O ARG A 265 N VAL A 312 SHEET 1 AC11 PHE A 56 TRP A 59 0 SHEET 2 AC11 HIS A 111 ARG A 116 -1 O ALA A 113 N TRP A 59 SHEET 3 AC11 LEU A 122 ARG A 134 -1 N LEU A 123 O VAL A 114 SHEET 4 AC11 ARG A 161 VAL A 171 -1 O ARG A 161 N LEU A 133 SHEET 5 AC11 ALA A 200 ALA A 204 1 O VAL A 201 N ILE A 166 SHEET 6 AC11 GLY A 393 TYR A 404 -1 O ARG A 400 N ALA A 204 SHEET 7 AC11 ALA A 213 SER A 221 -1 O ALA A 213 N TYR A 401 SHEET 8 AC11 VAL A 374 VAL A 378 -1 O CYS A 375 N ARG A 220 SHEET 9 AC11 LEU A 340 ALA A 351 1 O ALA A 344 N ASN A 376 SHEET 10 AC11 LYS A 318 VAL A 332 -1 O PHE A 322 N ALA A 350 SHEET 11 AC11 PHE A 88 PHE A 90 -1 O ARG A 89 N THR A 331 SHEET 1 AD 2 GLY A 289 PRO A 290 0 SHEET 2 AD 2 LEU A 122 ARG A 134 -1 O ARG A 134 N GLY A 289 LINK MG MG A 999 O2A MYA A1001 1555 1555 2.76 LINK MG MG A 999 O LEU A 175 1555 1555 2.67 CISPEP 1 PRO A 209 THR A 210 0 -13.98 SITE 1 AC1 6 LEU A 175 GLU A 177 LYS A 178 ARG A 179 SITE 2 AC1 6 LEU A 180 MYA A1001 SITE 1 AC2 17 TYR A 80 PHE A 90 ASN A 167 THR A 203 SITE 2 AC2 17 TYR A 217 PHE A 218 HIS A 219 TYR A 326 SITE 3 AC2 17 ILE A 328 TYR A 345 ASN A 376 MET A 377 SITE 4 AC2 17 LEU A 399 MET A 420 LEU A 421 MYA A1001 SITE 5 AC2 17 HOH A2299 SITE 1 AC3 37 HIS A 12 ALA A 13 PHE A 14 TRP A 15 SITE 2 AC3 37 ASN A 79 TYR A 80 VAL A 81 PHE A 168 SITE 3 AC3 37 LEU A 169 CYS A 170 VAL A 171 ARG A 176 SITE 4 AC3 37 GLU A 177 LYS A 178 ARG A 179 LEU A 180 SITE 5 AC3 37 ALA A 181 PRO A 182 THR A 189 VAL A 192 SITE 6 AC3 37 TRP A 198 TYR A 202 THR A 203 LEU A 208 SITE 7 AC3 37 TYR A 404 MG A 999 A6M A1000 HOH A2001 SITE 8 AC3 37 HOH A2312 HOH A2318 HOH A2549 HOH A2550 SITE 9 AC3 37 HOH A2551 HOH A2552 HOH A2553 HOH A2554 SITE 10 AC3 37 HOH A2555 CRYST1 47.668 91.638 53.163 90.00 111.82 90.00 P 1 21 1 2 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 0.020978 0.000000 0.008399 0.00000 SCALE2 0.000000 0.010913 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020262 0.00000