PDB Short entry for 3IWE HEADER TRANSFERASE 02-SEP-09 3IWE TITLE CRYSTAL STRUCTURE OF HUMAN TYPE-I N-MYRISTOYLTRANSFERASE WITH BOUND TITLE 2 MYRISTOYL-COA AND INHIBITOR DDD85646 CAVEAT 3IWE THERE ARE CHIRALITY ERRORS AT C10 ATOM OF MYA A 1001 AND MYA CAVEAT 2 3IWE B 2001. COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PEPTIDE N-MYRISTOYLTRANSFERASE 1, MYRISTOYL-COA:PROTEIN N- COMPND 5 MYRISTOYLTRANSFERASE 1, NMT 1, TYPE I N-MYRISTOYLTRANSFERASE; COMPND 6 EC: 2.3.1.97; COMPND 7 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: NMT, NMT1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSFERASE, N-MYRISTOYLTRANSFERASE, NMT, ACYLTRANSFERASE, KEYWDS 2 PHOSPHOPROTEIN, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, KEYWDS 3 SGC EXPDTA X-RAY DIFFRACTION AUTHOR W.QIU,A.HUTCHINSON,A.WERNIMONT,Y.-H.LIN,A.KANIA,M.RAVICHANDRAN, AUTHOR 2 I.KOZIERADZKI,D.COSSAR,M.SCHAPIRA,C.H.ARROWSMITH,C.BOUNTRA, AUTHOR 3 J.WEIGELT,A.M.EDWARDS,P.G.WYATT,M.A.J.FERGUSON,J.A.FREARSON, AUTHOR 4 S.Y.BRAND,D.A.ROBINSON,A.BOCHKAREV,R.HUI,STRUCTURAL GENOMICS AUTHOR 5 CONSORTIUM (SGC) REVDAT 4 21-FEB-24 3IWE 1 REMARK SEQADV REVDAT 3 16-NOV-11 3IWE 1 REMARK REVDAT 2 12-OCT-11 3IWE 1 HETATM REMARK REVDAT 1 15-SEP-09 3IWE 0 JRNL AUTH W.QIU,A.HUTCHINSON,A.WERNIMONT,Y.-H.LIN,A.KANIA, JRNL AUTH 2 M.RAVICHANDRAN,I.KOZIERADZKI,D.COSSAR,M.SCHAPIRA, JRNL AUTH 3 C.H.ARROWSMITH,C.BOUNTRA,J.WEIGELT,A.M.EDWARDS,P.G.WYATT, JRNL AUTH 4 M.A.J.FERGUSON,J.A.FREARSON,S.Y.BRAND,D.A.ROBINSON, JRNL AUTH 5 A.BOCHKAREV,R.HUI JRNL TITL CRYSTAL STRUCTURE OF HUMAN TYPE-I N-MYRISTOYLTRANSFERASE JRNL TITL 2 WITH BOUND MYRISTOYL-COA AND INHIBITOR DDD85646 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.79 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 1.79 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.43 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 71471 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3761 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) : 1.79 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.84 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3716 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2890 REMARK 3 BIN FREE R VALUE SET COUNT : 195 REMARK 3 BIN FREE R VALUE : 0.3070 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6221 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 190 REMARK 3 SOLVENT ATOMS : 935 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.01000 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): 0.140 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.129 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.087 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.786 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6815 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9331 ; 1.202 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 821 ; 5.494 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 312 ;36.282 ;23.590 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1152 ;12.309 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 42 ;16.161 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1012 ; 0.089 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5192 ; 0.005 ; 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): 3928 ; 0.493 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6448 ; 0.941 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2887 ; 1.367 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2851 ; 2.287 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER 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 : 1.40 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 3IWE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000054948. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-AUG-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77522 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.790 REMARK 200 RESOLUTION RANGE LOW (A) : 200.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 6.510 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : 0.04300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.9800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.93 REMARK 200 R MERGE FOR SHELL (I) : 0.23300 REMARK 200 R SYM FOR SHELL (I) : 0.27300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.620 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19% PEG3350, 0.2 M DI-AMMONIUM REMARK 280 HYDROGEN CITRATE, PH 5.7, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.82700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 89.78400 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.82700 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 89.78400 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 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 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 GLY A 114 REMARK 465 GLY B 114 REMARK 465 ARG B 115 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 GLU A 130 CG CD OE1 OE2 REMARK 470 LYS A 241 NZ REMARK 470 LYS A 253 CE NZ REMARK 470 LYS A 257 CE NZ REMARK 470 LYS A 289 NZ REMARK 470 ARG A 304 CZ NH1 NH2 REMARK 470 GLU A 308 CD OE1 OE2 REMARK 470 ASN A 317 CG OD1 ND2 REMARK 470 ARG A 328 CZ NH1 NH2 REMARK 470 LYS A 358 CE NZ REMARK 470 ASP A 471 CG OD1 OD2 REMARK 470 LYS A 482 CG CD CE NZ REMARK 470 GLU B 379 CG CD OE1 OE2 REMARK 470 THR B 412 CB OG1 CG2 REMARK 470 LYS B 414 CE NZ 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 TYR A 236 -122.97 48.03 REMARK 500 ILE A 381 -62.55 -128.91 REMARK 500 PHE A 422 -103.50 -108.57 REMARK 500 MET A 456 -134.38 45.71 REMARK 500 TYR B 236 -122.08 48.42 REMARK 500 ASN B 317 49.23 -103.43 REMARK 500 ILE B 381 -62.45 -130.72 REMARK 500 PHE B 422 -103.56 -110.12 REMARK 500 MET B 456 -134.36 44.56 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 MYA A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 646 A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MYA B 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 646 B 2002 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3IU1 RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH MYRISTOYL CO-A REMARK 900 RELATED ID: 3IU2 RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH MYRISTOYL CO-A AND INHIBITOR DDD90096 DBREF 3IWE A 115 496 UNP P30419 NMT1_HUMAN 115 496 DBREF 3IWE B 115 496 UNP P30419 NMT1_HUMAN 115 496 SEQADV 3IWE GLY A 114 UNP P30419 EXPRESSION TAG SEQADV 3IWE GLY B 114 UNP P30419 EXPRESSION TAG SEQRES 1 A 383 GLY ARG SER TYR GLN PHE TRP ASP THR GLN PRO VAL PRO SEQRES 2 A 383 LYS LEU GLY GLU VAL VAL ASN THR HIS GLY PRO VAL GLU SEQRES 3 A 383 PRO ASP LYS ASP ASN ILE ARG GLN GLU PRO TYR THR LEU SEQRES 4 A 383 PRO GLN GLY PHE THR TRP ASP ALA LEU ASP LEU GLY ASP SEQRES 5 A 383 ARG GLY VAL LEU LYS GLU LEU TYR THR LEU LEU ASN GLU SEQRES 6 A 383 ASN TYR VAL GLU ASP ASP ASP ASN MET PHE ARG PHE ASP SEQRES 7 A 383 TYR SER PRO GLU PHE LEU LEU TRP ALA LEU ARG PRO PRO SEQRES 8 A 383 GLY TRP LEU PRO GLN TRP HIS CYS GLY VAL ARG VAL VAL SEQRES 9 A 383 SER SER ARG LYS LEU VAL GLY PHE ILE SER ALA ILE PRO SEQRES 10 A 383 ALA ASN ILE HIS ILE TYR ASP THR GLU LYS LYS MET VAL SEQRES 11 A 383 GLU ILE ASN PHE LEU CYS VAL HIS LYS LYS LEU ARG SER SEQRES 12 A 383 LYS ARG VAL ALA PRO VAL LEU ILE ARG GLU ILE THR ARG SEQRES 13 A 383 ARG VAL HIS LEU GLU GLY ILE PHE GLN ALA VAL TYR THR SEQRES 14 A 383 ALA GLY VAL VAL LEU PRO LYS PRO VAL GLY THR CYS ARG SEQRES 15 A 383 TYR TRP HIS ARG SER LEU ASN PRO ARG LYS LEU ILE GLU SEQRES 16 A 383 VAL LYS PHE SER HIS LEU SER ARG ASN MET THR MET GLN SEQRES 17 A 383 ARG THR MET LYS LEU TYR ARG LEU PRO GLU THR PRO LYS SEQRES 18 A 383 THR ALA GLY LEU ARG PRO MET GLU THR LYS ASP ILE PRO SEQRES 19 A 383 VAL VAL HIS GLN LEU LEU THR ARG TYR LEU LYS GLN PHE SEQRES 20 A 383 HIS LEU THR PRO VAL MET SER GLN GLU GLU VAL GLU HIS SEQRES 21 A 383 TRP PHE TYR PRO GLN GLU ASN ILE ILE ASP THR PHE VAL SEQRES 22 A 383 VAL GLU ASN ALA ASN GLY GLU VAL THR ASP PHE LEU SER SEQRES 23 A 383 PHE TYR THR LEU PRO SER THR ILE MET ASN HIS PRO THR SEQRES 24 A 383 HIS LYS SER LEU LYS ALA ALA TYR SER PHE TYR ASN VAL SEQRES 25 A 383 HIS THR GLN THR PRO LEU LEU ASP LEU MET SER ASP ALA SEQRES 26 A 383 LEU VAL LEU ALA LYS MET LYS GLY PHE ASP VAL PHE ASN SEQRES 27 A 383 ALA LEU ASP LEU MET GLU ASN LYS THR PHE LEU GLU LYS SEQRES 28 A 383 LEU LYS PHE GLY ILE GLY ASP GLY ASN LEU GLN TYR TYR SEQRES 29 A 383 LEU TYR ASN TRP LYS CYS PRO SER MET GLY ALA GLU LYS SEQRES 30 A 383 VAL GLY LEU VAL LEU GLN SEQRES 1 B 383 GLY ARG SER TYR GLN PHE TRP ASP THR GLN PRO VAL PRO SEQRES 2 B 383 LYS LEU GLY GLU VAL VAL ASN THR HIS GLY PRO VAL GLU SEQRES 3 B 383 PRO ASP LYS ASP ASN ILE ARG GLN GLU PRO TYR THR LEU SEQRES 4 B 383 PRO GLN GLY PHE THR TRP ASP ALA LEU ASP LEU GLY ASP SEQRES 5 B 383 ARG GLY VAL LEU LYS GLU LEU TYR THR LEU LEU ASN GLU SEQRES 6 B 383 ASN TYR VAL GLU ASP ASP ASP ASN MET PHE ARG PHE ASP SEQRES 7 B 383 TYR SER PRO GLU PHE LEU LEU TRP ALA LEU ARG PRO PRO SEQRES 8 B 383 GLY TRP LEU PRO GLN TRP HIS CYS GLY VAL ARG VAL VAL SEQRES 9 B 383 SER SER ARG LYS LEU VAL GLY PHE ILE SER ALA ILE PRO SEQRES 10 B 383 ALA ASN ILE HIS ILE TYR ASP THR GLU LYS LYS MET VAL SEQRES 11 B 383 GLU ILE ASN PHE LEU CYS VAL HIS LYS LYS LEU ARG SER SEQRES 12 B 383 LYS ARG VAL ALA PRO VAL LEU ILE ARG GLU ILE THR ARG SEQRES 13 B 383 ARG VAL HIS LEU GLU GLY ILE PHE GLN ALA VAL TYR THR SEQRES 14 B 383 ALA GLY VAL VAL LEU PRO LYS PRO VAL GLY THR CYS ARG SEQRES 15 B 383 TYR TRP HIS ARG SER LEU ASN PRO ARG LYS LEU ILE GLU SEQRES 16 B 383 VAL LYS PHE SER HIS LEU SER ARG ASN MET THR MET GLN SEQRES 17 B 383 ARG THR MET LYS LEU TYR ARG LEU PRO GLU THR PRO LYS SEQRES 18 B 383 THR ALA GLY LEU ARG PRO MET GLU THR LYS ASP ILE PRO SEQRES 19 B 383 VAL VAL HIS GLN LEU LEU THR ARG TYR LEU LYS GLN PHE SEQRES 20 B 383 HIS LEU THR PRO VAL MET SER GLN GLU GLU VAL GLU HIS SEQRES 21 B 383 TRP PHE TYR PRO GLN GLU ASN ILE ILE ASP THR PHE VAL SEQRES 22 B 383 VAL GLU ASN ALA ASN GLY GLU VAL THR ASP PHE LEU SER SEQRES 23 B 383 PHE TYR THR LEU PRO SER THR ILE MET ASN HIS PRO THR SEQRES 24 B 383 HIS LYS SER LEU LYS ALA ALA TYR SER PHE TYR ASN VAL SEQRES 25 B 383 HIS THR GLN THR PRO LEU LEU ASP LEU MET SER ASP ALA SEQRES 26 B 383 LEU VAL LEU ALA LYS MET LYS GLY PHE ASP VAL PHE ASN SEQRES 27 B 383 ALA LEU ASP LEU MET GLU ASN LYS THR PHE LEU GLU LYS SEQRES 28 B 383 LEU LYS PHE GLY ILE GLY ASP GLY ASN LEU GLN TYR TYR SEQRES 29 B 383 LEU TYR ASN TRP LYS CYS PRO SER MET GLY ALA GLU LYS SEQRES 30 B 383 VAL GLY LEU VAL LEU GLN HET MYA A1001 63 HET 646 A1002 32 HET MYA B2001 63 HET 646 B2002 32 HETNAM MYA TETRADECANOYL-COA HETNAM 646 2,6-DICHLORO-4-(2-PIPERAZIN-1-YLPYRIDIN-4-YL)-N-(1,3,5- HETNAM 2 646 TRIMETHYL-1H-PYRAZOL-4-YL)BENZENESULFONAMIDE HETSYN MYA MYRISTOYL-COA FORMUL 3 MYA 2(C35 H62 N7 O17 P3 S) FORMUL 4 646 2(C21 H24 CL2 N6 O2 S) FORMUL 7 HOH *935(H2 O) HELIX 1 1 PHE A 119 GLN A 123 5 5 HELIX 2 2 ASP A 165 TYR A 180 1 16 HELIX 3 3 SER A 193 ARG A 202 1 10 HELIX 4 4 LEU A 207 GLN A 209 5 3 HELIX 5 5 LYS A 252 ARG A 255 5 4 HELIX 6 6 ARG A 258 LEU A 273 1 16 HELIX 7 7 ASN A 302 VAL A 309 1 8 HELIX 8 8 THR A 319 ARG A 328 1 10 HELIX 9 9 GLU A 342 LYS A 344 5 3 HELIX 10 10 ASP A 345 LYS A 358 1 14 HELIX 11 11 SER A 367 TYR A 376 1 10 HELIX 12 12 PRO A 430 LYS A 445 1 16 HELIX 13 13 GLU A 457 PHE A 461 5 5 HELIX 14 14 GLY A 487 VAL A 491 5 5 HELIX 15 15 PHE B 119 GLN B 123 5 5 HELIX 16 16 ASP B 165 TYR B 180 1 16 HELIX 17 17 SER B 193 ARG B 202 1 10 HELIX 18 18 LEU B 207 GLN B 209 5 3 HELIX 19 19 LYS B 252 ARG B 255 5 4 HELIX 20 20 ARG B 258 LEU B 273 1 16 HELIX 21 21 ASN B 302 VAL B 309 1 8 HELIX 22 22 THR B 319 ARG B 328 1 10 HELIX 23 23 GLU B 342 LYS B 344 5 3 HELIX 24 24 ASP B 345 LYS B 358 1 14 HELIX 25 25 SER B 367 TYR B 376 1 10 HELIX 26 26 PRO B 430 LYS B 445 1 16 HELIX 27 27 GLU B 457 PHE B 461 5 5 HELIX 28 28 GLY B 487 VAL B 491 5 5 SHEET 1 A12 PHE A 156 ALA A 160 0 SHEET 2 A12 HIS A 211 VAL A 216 -1 O ARG A 215 N THR A 157 SHEET 3 A12 LEU A 222 ILE A 235 -1 O VAL A 223 N VAL A 214 SHEET 4 A12 THR A 238 VAL A 250 -1 O THR A 238 N ILE A 235 SHEET 5 A12 ALA A 279 ALA A 283 1 O VAL A 280 N VAL A 243 SHEET 6 A12 GLY A 468 TYR A 479 -1 O GLN A 475 N ALA A 283 SHEET 7 A12 GLY A 292 SER A 300 -1 N HIS A 298 O GLY A 468 SHEET 8 A12 VAL A 449 LEU A 453 -1 O ALA A 452 N TRP A 297 SHEET 9 A12 ALA A 418 SER A 421 1 N ALA A 419 O ASN A 451 SHEET 10 A12 VAL A 394 THR A 402 -1 N TYR A 401 O TYR A 420 SHEET 11 A12 ILE A 382 GLU A 388 -1 N VAL A 387 O ASP A 396 SHEET 12 A12 LEU A 338 PRO A 340 -1 N ARG A 339 O VAL A 386 SHEET 1 B 4 PHE A 156 ALA A 160 0 SHEET 2 B 4 HIS A 211 VAL A 216 -1 O ARG A 215 N THR A 157 SHEET 3 B 4 LEU A 222 ILE A 235 -1 O VAL A 223 N VAL A 214 SHEET 4 B 4 LEU A 362 PRO A 364 -1 O THR A 363 N HIS A 234 SHEET 1 C 3 PHE A 188 PHE A 190 0 SHEET 2 C 3 SER A 405 ILE A 407 -1 O THR A 406 N ARG A 189 SHEET 3 C 3 SER A 415 LEU A 416 -1 O LEU A 416 N SER A 405 SHEET 1 D12 PHE B 156 ALA B 160 0 SHEET 2 D12 HIS B 211 VAL B 216 -1 O ARG B 215 N THR B 157 SHEET 3 D12 LEU B 222 ILE B 235 -1 O VAL B 223 N VAL B 214 SHEET 4 D12 THR B 238 VAL B 250 -1 O THR B 238 N ILE B 235 SHEET 5 D12 ALA B 279 ALA B 283 1 O VAL B 280 N VAL B 243 SHEET 6 D12 GLY B 468 TYR B 479 -1 O GLN B 475 N ALA B 283 SHEET 7 D12 GLY B 292 SER B 300 -1 N HIS B 298 O GLY B 468 SHEET 8 D12 VAL B 449 LEU B 453 -1 O ALA B 452 N TRP B 297 SHEET 9 D12 ALA B 418 SER B 421 1 N ALA B 419 O ASN B 451 SHEET 10 D12 VAL B 394 THR B 402 -1 N TYR B 401 O TYR B 420 SHEET 11 D12 ILE B 382 GLU B 388 -1 N PHE B 385 O LEU B 398 SHEET 12 D12 LEU B 338 PRO B 340 -1 N ARG B 339 O VAL B 386 SHEET 1 E 4 PHE B 156 ALA B 160 0 SHEET 2 E 4 HIS B 211 VAL B 216 -1 O ARG B 215 N THR B 157 SHEET 3 E 4 LEU B 222 ILE B 235 -1 O VAL B 223 N VAL B 214 SHEET 4 E 4 LEU B 362 VAL B 365 -1 O THR B 363 N HIS B 234 SHEET 1 F 2 PHE B 188 PHE B 190 0 SHEET 2 F 2 SER B 405 ILE B 407 -1 O THR B 406 N ARG B 189 CISPEP 1 PRO A 288 LYS A 289 0 -14.30 CISPEP 2 PRO B 288 LYS B 289 0 -12.60 SITE 1 AC1 36 HOH A 75 HOH A 83 TYR A 117 GLN A 118 SITE 2 AC1 36 PHE A 119 TRP A 120 ASN A 179 TYR A 180 SITE 3 AC1 36 VAL A 181 PHE A 247 LEU A 248 CYS A 249 SITE 4 AC1 36 VAL A 250 ARG A 255 SER A 256 LYS A 257 SITE 5 AC1 36 ARG A 258 VAL A 259 ALA A 260 PRO A 261 SITE 6 AC1 36 THR A 268 VAL A 271 PHE A 277 TYR A 281 SITE 7 AC1 36 THR A 282 LEU A 287 TYR A 479 HOH A 526 SITE 8 AC1 36 HOH A 529 HOH A 560 HOH A 617 HOH A 618 SITE 9 AC1 36 HOH A 632 HOH A 741 HOH A 752 646 A1002 SITE 1 AC2 19 HOH A 2 VAL A 181 ASP A 183 PHE A 188 SITE 2 AC2 19 PHE A 190 ASN A 246 GLY A 284 TYR A 296 SITE 3 AC2 19 HIS A 298 PHE A 311 SER A 405 TYR A 420 SITE 4 AC2 19 GLY A 472 GLN A 496 HOH A 547 HOH A 753 SITE 5 AC2 19 HOH A 760 HOH A 970 MYA A1001 SITE 1 AC3 37 HOH B 103 TYR B 117 GLN B 118 PHE B 119 SITE 2 AC3 37 TRP B 120 ASN B 179 TYR B 180 VAL B 181 SITE 3 AC3 37 ASN B 246 PHE B 247 LEU B 248 CYS B 249 SITE 4 AC3 37 VAL B 250 ARG B 255 SER B 256 LYS B 257 SITE 5 AC3 37 ARG B 258 VAL B 259 ALA B 260 PRO B 261 SITE 6 AC3 37 THR B 268 PHE B 277 TYR B 281 THR B 282 SITE 7 AC3 37 LEU B 287 TYR B 479 HOH B 548 HOH B 669 SITE 8 AC3 37 HOH B 680 HOH B 725 HOH B 766 HOH B 788 SITE 9 AC3 37 HOH B 789 HOH B 800 HOH B 989 HOH B1010 SITE 10 AC3 37 646 B2002 SITE 1 AC4 21 HOH B 1 TYR B 180 VAL B 181 ASP B 183 SITE 2 AC4 21 PHE B 188 PHE B 190 ASN B 246 THR B 282 SITE 3 AC4 21 GLY B 284 TYR B 296 HIS B 298 PHE B 311 SITE 4 AC4 21 SER B 405 TYR B 420 ASP B 471 GLN B 496 SITE 5 AC4 21 HOH B 529 HOH B 731 HOH B 744 HOH B1068 SITE 6 AC4 21 MYA B2001 CRYST1 58.287 77.654 179.568 90.00 90.00 90.00 P 2 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.017156 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012878 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005569 0.00000