HEADER TRANSFERASE 12-JUN-19 6PAV TITLE STRUCTURE OF HUMAN NMT1 WITH PRODUCTS COA AND MYRISTOYL-LYSINE PEPTIDE TITLE 2 WITH ACETYLATED N-TERMINUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE 1; COMPND 3 CHAIN: B, A; COMPND 4 SYNONYM: MYRISTOYL-COA:PROTEIN N-MYRISTOYLTRANSFERASE 1,TYPE I N- COMPND 5 MYRISTOYLTRANSFERASE,PEPTIDE N-MYRISTOYLTRANSFERASE 1; COMPND 6 EC: 2.3.1.97; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: ACETYL-ARF6 PEPTIDE; COMPND 10 CHAIN: D; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: ARF6 PEPTIDE; COMPND 14 CHAIN: C; COMPND 15 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: NMT1, NMT; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 16 ORGANISM_COMMON: HUMAN; SOURCE 17 ORGANISM_TAXID: 9606 KEYWDS LYSINE, MYRISTOYL, MYRISTOYLATION, N-MYRISTOYL TRANSFERASE, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR I.R.PRICE,H.LIN REVDAT 1 11-MAR-20 6PAV 0 JRNL AUTH T.KOSCIUK,I.R.PRICE,X.ZHANG,C.ZHU,K.N.JOHNSON,S.ZHANG, JRNL AUTH 2 S.L.HALABY,G.P.KOMANIECKI,M.YANG,C.J.DEHART,P.M.THOMAS, JRNL AUTH 3 N.L.KELLEHER,J.CHRISTOPHER FROMME,H.LIN JRNL TITL NMT1 AND NMT2 ARE LYSINE MYRISTOYLTRANSFERASES REGULATING JRNL TITL 2 THE ARF6 GTPASE CYCLE. JRNL REF NAT COMMUN V. 11 1067 2020 JRNL REFN ESSN 2041-1723 JRNL PMID 32103017 JRNL DOI 10.1038/S41467-020-14893-X REMARK 2 REMARK 2 RESOLUTION. 2.52 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.13_2998: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 77.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 27562 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.266 REMARK 3 R VALUE (WORKING SET) : 0.265 REMARK 3 FREE R VALUE : 0.280 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.320 REMARK 3 FREE R VALUE TEST SET COUNT : 1467 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 77.0484 - 5.4287 0.98 2691 149 0.2370 0.2414 REMARK 3 2 5.4287 - 4.3090 0.96 2572 155 0.2059 0.2186 REMARK 3 3 4.3090 - 3.7643 0.98 2633 135 0.2307 0.2363 REMARK 3 4 3.7643 - 3.4201 0.99 2534 170 0.2652 0.2972 REMARK 3 5 3.4201 - 3.1750 0.99 2632 150 0.2861 0.3177 REMARK 3 6 3.1750 - 2.9878 0.99 2627 137 0.3106 0.3370 REMARK 3 7 2.9878 - 2.8382 0.99 2642 120 0.3149 0.3278 REMARK 3 8 2.8382 - 2.7146 0.99 2584 160 0.3456 0.4035 REMARK 3 9 2.7146 - 2.6101 0.99 2619 133 0.3882 0.4021 REMARK 3 10 2.6101 - 2.5200 0.97 2561 158 0.4206 0.4335 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.500 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 34.480 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.013 6608 REMARK 3 ANGLE : 1.575 8973 REMARK 3 CHIRALITY : 0.309 979 REMARK 3 PLANARITY : 0.012 1117 REMARK 3 DIHEDRAL : 24.107 2469 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6PAV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1000242207. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-APR-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27918 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.520 REMARK 200 RESOLUTION RANGE LOW (A) : 77.012 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.30530 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.9800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 1.19600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 7.5 MG/ML IN 25 MM TRIS-HCL PH 7.5, REMARK 280 120 MM NACL, CO-CRYSTALLIZED IN THE PRESENCE OF 0.3 MM MYRISTOYL- REMARK 280 COA AND 0.3 MM ACKVLSKIF USING A WELL SOLUTION OF 18% PEG 8000, REMARK 280 100 MM NACL, 100 MM, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 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 46.18050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.10850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 46.18050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 29.10850 REMARK 290 SMTRY3 4 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D, A, 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 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 B 109 REMARK 465 GLU B 110 REMARK 465 GLU B 111 REMARK 465 ALA B 112 REMARK 465 SER B 113 REMARK 465 LYS B 114 REMARK 465 ARG B 115 REMARK 465 SER B 116 REMARK 465 ARG B 316 REMARK 465 MET A 109 REMARK 465 GLU A 110 REMARK 465 GLU A 111 REMARK 465 ALA A 112 REMARK 465 SER A 113 REMARK 465 LYS A 114 REMARK 465 ARG A 115 REMARK 465 HIS A 410 REMARK 465 PRO A 411 REMARK 465 THR A 412 REMARK 465 HIS A 413 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS B 325 CG CD CE NZ REMARK 470 GLN A 118 CG CD OE1 NE2 REMARK 470 ARG A 166 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 308 CG CD OE1 OE2 REMARK 470 ARG A 316 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 317 CG OD1 ND2 REMARK 470 LYS A 325 CG CD CE NZ REMARK 470 GLY C 2 N 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 NZ LYS D 3 C1 MYR B 504 1.13 REMARK 500 O HIS A 298 H GLY A 468 1.56 REMARK 500 HZ2 LYS D 3 C1 MYR B 504 1.59 REMARK 500 O PHE A 422 O HOH A 601 1.85 REMARK 500 OG SER A 405 O HOH A 604 1.95 REMARK 500 O LYS C 3 O HOH C 201 1.97 REMARK 500 OG SER A 399 O TYR A 423 2.00 REMARK 500 O PHE B 190 O HOH B 601 2.04 REMARK 500 OXT GLN A 496 O HOH A 605 2.12 REMARK 500 OE1 GLN B 147 O HOH B 602 2.12 REMARK 500 OD2 ASP A 143 O HOH A 606 2.14 REMARK 500 NZ LYS D 3 O1 MYR B 504 2.16 REMARK 500 NE1 TRP A 120 O2B COA A 501 2.16 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 OE2 GLU B 148 OE2 GLU B 388 1565 1.96 REMARK 500 OE1 GLU A 148 OE1 GLU A 388 1545 1.99 REMARK 500 NH1 ARG A 146 O GLU A 388 1545 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 LYS D 3 CE LYS D 3 NZ 0.241 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 LYS C 3 CD - CE - NZ ANGL. DEV. = 18.5 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 HIS B 211 75.69 -103.22 REMARK 500 TYR B 236 -109.76 50.43 REMARK 500 SER B 256 26.14 47.87 REMARK 500 ASN B 302 78.94 -112.91 REMARK 500 ILE B 381 -64.97 -131.23 REMARK 500 PHE B 422 -91.82 -111.98 REMARK 500 GLN B 428 -44.31 -133.38 REMARK 500 MET B 456 -122.59 51.99 REMARK 500 TYR A 236 -113.49 48.01 REMARK 500 LYS A 257 33.94 -140.99 REMARK 500 ARG A 258 31.27 72.48 REMARK 500 ILE A 381 -68.92 -127.72 REMARK 500 PHE A 422 -91.79 -114.27 REMARK 500 GLN A 428 -42.50 -134.27 REMARK 500 MET A 456 -128.92 50.43 REMARK 500 LYS C 3 -48.91 64.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 COA B 501 REMARK 610 MYR B 504 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue COA B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MYR B 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue COA A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide MYR C 101 and LYS C REMARK 800 3 DBREF 6PAV B 109 496 UNP P30419 NMT1_HUMAN 29 416 DBREF 6PAV D 2 9 PDB 6PAV 6PAV 2 9 DBREF 6PAV A 109 496 UNP P30419 NMT1_HUMAN 29 416 DBREF 6PAV C 2 9 PDB 6PAV 6PAV 2 9 SEQRES 1 B 388 MET GLU GLU ALA SER LYS ARG SER TYR GLN PHE TRP ASP SEQRES 2 B 388 THR GLN PRO VAL PRO LYS LEU GLY GLU VAL VAL ASN THR SEQRES 3 B 388 HIS GLY PRO VAL GLU PRO ASP LYS ASP ASN ILE ARG GLN SEQRES 4 B 388 GLU PRO TYR THR LEU PRO GLN GLY PHE THR TRP ASP ALA SEQRES 5 B 388 LEU ASP LEU GLY ASP ARG GLY VAL LEU LYS GLU LEU TYR SEQRES 6 B 388 THR LEU LEU ASN GLU ASN TYR VAL GLU ASP ASP ASP ASN SEQRES 7 B 388 MET PHE ARG PHE ASP TYR SER PRO GLU PHE LEU LEU TRP SEQRES 8 B 388 ALA LEU ARG PRO PRO GLY TRP LEU PRO GLN TRP HIS CYS SEQRES 9 B 388 GLY VAL ARG VAL VAL SER SER ARG LYS LEU VAL GLY PHE SEQRES 10 B 388 ILE SER ALA ILE PRO ALA ASN ILE HIS ILE TYR ASP THR SEQRES 11 B 388 GLU LYS LYS MET VAL GLU ILE ASN PHE LEU CYS VAL HIS SEQRES 12 B 388 LYS LYS LEU ARG SER LYS ARG VAL ALA PRO VAL LEU ILE SEQRES 13 B 388 ARG GLU ILE THR ARG ARG VAL HIS LEU GLU GLY ILE PHE SEQRES 14 B 388 GLN ALA VAL TYR THR ALA GLY VAL VAL LEU PRO LYS PRO SEQRES 15 B 388 VAL GLY THR CYS ARG TYR TRP HIS ARG SER LEU ASN PRO SEQRES 16 B 388 ARG LYS LEU ILE GLU VAL LYS PHE SER HIS LEU SER ARG SEQRES 17 B 388 ASN MET THR MET GLN ARG THR MET LYS LEU TYR ARG LEU SEQRES 18 B 388 PRO GLU THR PRO LYS THR ALA GLY LEU ARG PRO MET GLU SEQRES 19 B 388 THR LYS ASP ILE PRO VAL VAL HIS GLN LEU LEU THR ARG SEQRES 20 B 388 TYR LEU LYS GLN PHE HIS LEU THR PRO VAL MET SER GLN SEQRES 21 B 388 GLU GLU VAL GLU HIS TRP PHE TYR PRO GLN GLU ASN ILE SEQRES 22 B 388 ILE ASP THR PHE VAL VAL GLU ASN ALA ASN GLY GLU VAL SEQRES 23 B 388 THR ASP PHE LEU SER PHE TYR THR LEU PRO SER THR ILE SEQRES 24 B 388 MET ASN HIS PRO THR HIS LYS SER LEU LYS ALA ALA TYR SEQRES 25 B 388 SER PHE TYR ASN VAL HIS THR GLN THR PRO LEU LEU ASP SEQRES 26 B 388 LEU MET SER ASP ALA LEU VAL LEU ALA LYS MET LYS GLY SEQRES 27 B 388 PHE ASP VAL PHE ASN ALA LEU ASP LEU MET GLU ASN LYS SEQRES 28 B 388 THR PHE LEU GLU LYS LEU LYS PHE GLY ILE GLY ASP GLY SEQRES 29 B 388 ASN LEU GLN TYR TYR LEU TYR ASN TRP LYS CYS PRO SER SEQRES 30 B 388 MET GLY ALA GLU LYS VAL GLY LEU VAL LEU GLN SEQRES 1 D 8 ACE LYS VAL LEU SER LYS ILE PHE SEQRES 1 A 388 MET GLU GLU ALA SER LYS ARG SER TYR GLN PHE TRP ASP SEQRES 2 A 388 THR GLN PRO VAL PRO LYS LEU GLY GLU VAL VAL ASN THR SEQRES 3 A 388 HIS GLY PRO VAL GLU PRO ASP LYS ASP ASN ILE ARG GLN SEQRES 4 A 388 GLU PRO TYR THR LEU PRO GLN GLY PHE THR TRP ASP ALA SEQRES 5 A 388 LEU ASP LEU GLY ASP ARG GLY VAL LEU LYS GLU LEU TYR SEQRES 6 A 388 THR LEU LEU ASN GLU ASN TYR VAL GLU ASP ASP ASP ASN SEQRES 7 A 388 MET PHE ARG PHE ASP TYR SER PRO GLU PHE LEU LEU TRP SEQRES 8 A 388 ALA LEU ARG PRO PRO GLY TRP LEU PRO GLN TRP HIS CYS SEQRES 9 A 388 GLY VAL ARG VAL VAL SER SER ARG LYS LEU VAL GLY PHE SEQRES 10 A 388 ILE SER ALA ILE PRO ALA ASN ILE HIS ILE TYR ASP THR SEQRES 11 A 388 GLU LYS LYS MET VAL GLU ILE ASN PHE LEU CYS VAL HIS SEQRES 12 A 388 LYS LYS LEU ARG SER LYS ARG VAL ALA PRO VAL LEU ILE SEQRES 13 A 388 ARG GLU ILE THR ARG ARG VAL HIS LEU GLU GLY ILE PHE SEQRES 14 A 388 GLN ALA VAL TYR THR ALA GLY VAL VAL LEU PRO LYS PRO SEQRES 15 A 388 VAL GLY THR CYS ARG TYR TRP HIS ARG SER LEU ASN PRO SEQRES 16 A 388 ARG LYS LEU ILE GLU VAL LYS PHE SER HIS LEU SER ARG SEQRES 17 A 388 ASN MET THR MET GLN ARG THR MET LYS LEU TYR ARG LEU SEQRES 18 A 388 PRO GLU THR PRO LYS THR ALA GLY LEU ARG PRO MET GLU SEQRES 19 A 388 THR LYS ASP ILE PRO VAL VAL HIS GLN LEU LEU THR ARG SEQRES 20 A 388 TYR LEU LYS GLN PHE HIS LEU THR PRO VAL MET SER GLN SEQRES 21 A 388 GLU GLU VAL GLU HIS TRP PHE TYR PRO GLN GLU ASN ILE SEQRES 22 A 388 ILE ASP THR PHE VAL VAL GLU ASN ALA ASN GLY GLU VAL SEQRES 23 A 388 THR ASP PHE LEU SER PHE TYR THR LEU PRO SER THR ILE SEQRES 24 A 388 MET ASN HIS PRO THR HIS LYS SER LEU LYS ALA ALA TYR SEQRES 25 A 388 SER PHE TYR ASN VAL HIS THR GLN THR PRO LEU LEU ASP SEQRES 26 A 388 LEU MET SER ASP ALA LEU VAL LEU ALA LYS MET LYS GLY SEQRES 27 A 388 PHE ASP VAL PHE ASN ALA LEU ASP LEU MET GLU ASN LYS SEQRES 28 A 388 THR PHE LEU GLU LYS LEU LYS PHE GLY ILE GLY ASP GLY SEQRES 29 A 388 ASN LEU GLN TYR TYR LEU TYR ASN TRP LYS CYS PRO SER SEQRES 30 A 388 MET GLY ALA GLU LYS VAL GLY LEU VAL LEU GLN SEQRES 1 C 8 GLY LYS VAL LEU SER LYS ILE PHE HET ACE D 2 3 HET COA B 501 72 HET GOL B 502 10 HET GOL B 503 11 HET MYR B 504 42 HET COA A 501 80 HET GOL A 502 11 HET GOL A 503 10 HET MYR C 101 42 HETNAM ACE ACETYL GROUP HETNAM COA COENZYME A HETNAM GOL GLYCEROL HETNAM MYR MYRISTIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ACE C2 H4 O FORMUL 5 COA 2(C21 H36 N7 O16 P3 S) FORMUL 6 GOL 4(C3 H8 O3) FORMUL 8 MYR 2(C14 H28 O2) FORMUL 13 HOH *82(H2 O) HELIX 1 AA1 PHE B 119 GLN B 123 5 5 HELIX 2 AA2 ASP B 165 TYR B 180 1 16 HELIX 3 AA3 SER B 193 ARG B 202 1 10 HELIX 4 AA4 LEU B 207 GLN B 209 5 3 HELIX 5 AA5 LYS B 252 ARG B 255 5 4 HELIX 6 AA6 ARG B 258 GLU B 274 1 17 HELIX 7 AA7 ASN B 302 VAL B 309 1 8 HELIX 8 AA8 THR B 319 TYR B 327 1 9 HELIX 9 AA9 GLU B 342 LYS B 344 5 3 HELIX 10 AB1 ASP B 345 LEU B 357 1 13 HELIX 11 AB2 LYS B 358 PHE B 360 5 3 HELIX 12 AB3 SER B 367 TYR B 376 1 10 HELIX 13 AB4 PRO B 430 GLY B 446 1 17 HELIX 14 AB5 GLU B 457 LYS B 466 5 10 HELIX 15 AB6 GLY B 487 VAL B 491 5 5 HELIX 16 AB7 ASP A 165 TYR A 180 1 16 HELIX 17 AB8 SER A 193 ARG A 202 1 10 HELIX 18 AB9 LEU A 207 GLN A 209 5 3 HELIX 19 AC1 LYS A 252 ARG A 255 5 4 HELIX 20 AC2 ARG A 258 GLU A 274 1 17 HELIX 21 AC3 ASN A 302 VAL A 309 1 8 HELIX 22 AC4 THR A 319 TYR A 327 1 9 HELIX 23 AC5 GLU A 342 LYS A 344 5 3 HELIX 24 AC6 ASP A 345 LEU A 357 1 13 HELIX 25 AC7 LYS A 358 PHE A 360 5 3 HELIX 26 AC8 SER A 367 TYR A 376 1 10 HELIX 27 AC9 PRO A 430 LYS A 445 1 16 HELIX 28 AD1 GLU A 457 PHE A 461 5 5 HELIX 29 AD2 GLY A 487 VAL A 491 5 5 SHEET 1 AA111 PHE B 156 ALA B 160 0 SHEET 2 AA111 HIS B 211 VAL B 216 -1 O ARG B 215 N THR B 157 SHEET 3 AA111 LEU B 222 ILE B 235 -1 O VAL B 223 N VAL B 214 SHEET 4 AA111 THR B 238 VAL B 250 -1 O THR B 238 N ILE B 235 SHEET 5 AA111 ALA B 279 ALA B 283 1 O VAL B 280 N VAL B 243 SHEET 6 AA111 GLY B 468 TYR B 479 -1 O GLN B 475 N ALA B 283 SHEET 7 AA111 GLY B 292 SER B 300 -1 N TYR B 296 O GLY B 470 SHEET 8 AA111 VAL B 449 LEU B 453 -1 O PHE B 450 N ARG B 299 SHEET 9 AA111 ALA B 418 SER B 421 1 N ALA B 419 O ASN B 451 SHEET 10 AA111 VAL B 394 THR B 402 -1 N TYR B 401 O TYR B 420 SHEET 11 AA111 LEU B 362 PRO B 364 0 SHEET 1 AA211 LEU B 338 PRO B 340 0 SHEET 2 AA211 ILE B 382 GLU B 388 -1 O VAL B 386 N ARG B 339 SHEET 3 AA211 VAL B 394 THR B 402 -1 O LEU B 398 N PHE B 385 SHEET 4 AA211 ALA B 418 SER B 421 -1 O TYR B 420 N TYR B 401 SHEET 5 AA211 VAL B 449 LEU B 453 1 O ASN B 451 N ALA B 419 SHEET 6 AA211 GLY B 292 SER B 300 -1 N ARG B 299 O PHE B 450 SHEET 7 AA211 GLY B 468 TYR B 479 -1 O GLY B 470 N TYR B 296 SHEET 8 AA211 ALA B 279 ALA B 283 -1 N ALA B 283 O GLN B 475 SHEET 9 AA211 THR B 238 VAL B 250 1 N VAL B 243 O VAL B 280 SHEET 10 AA211 LEU B 222 ILE B 235 -1 N ILE B 235 O THR B 238 SHEET 11 AA211 VAL B 425 HIS B 426 0 SHEET 1 AA3 3 PHE B 188 PHE B 190 0 SHEET 2 AA3 3 SER B 405 ILE B 407 -1 O THR B 406 N ARG B 189 SHEET 3 AA3 3 SER B 415 LEU B 416 -1 O LEU B 416 N SER B 405 SHEET 1 AA412 PHE A 156 ALA A 160 0 SHEET 2 AA412 HIS A 211 VAL A 216 -1 O GLY A 213 N ASP A 159 SHEET 3 AA412 LEU A 222 ILE A 235 -1 O VAL A 223 N VAL A 214 SHEET 4 AA412 THR A 238 VAL A 250 -1 O THR A 238 N ILE A 235 SHEET 5 AA412 ALA A 279 ALA A 283 1 O VAL A 280 N VAL A 243 SHEET 6 AA412 GLY A 468 TYR A 479 -1 O GLN A 475 N ALA A 283 SHEET 7 AA412 PRO A 290 SER A 300 -1 N HIS A 298 O GLY A 468 SHEET 8 AA412 VAL A 449 ALA A 452 -1 O ALA A 452 N TRP A 297 SHEET 9 AA412 ALA A 418 SER A 421 1 N ALA A 419 O ASN A 451 SHEET 10 AA412 VAL A 394 THR A 402 -1 N TYR A 401 O TYR A 420 SHEET 11 AA412 ILE A 382 GLU A 388 -1 N PHE A 385 O LEU A 398 SHEET 12 AA412 LEU A 338 PRO A 340 -1 N ARG A 339 O VAL A 386 SHEET 1 AA5 4 PHE A 156 ALA A 160 0 SHEET 2 AA5 4 HIS A 211 VAL A 216 -1 O GLY A 213 N ASP A 159 SHEET 3 AA5 4 LEU A 222 ILE A 235 -1 O VAL A 223 N VAL A 214 SHEET 4 AA5 4 LEU A 362 PRO A 364 -1 O THR A 363 N HIS A 234 SHEET 1 AA6 3 PHE A 188 PHE A 190 0 SHEET 2 AA6 3 SER A 405 ILE A 407 -1 O THR A 406 N ARG A 189 SHEET 3 AA6 3 SER A 415 LEU A 416 -1 O LEU A 416 N SER A 405 LINK C ACE D 2 N LYS D 3 1555 1555 1.35 LINK NZ LYS C 3 C1 MYR C 101 1555 1555 1.33 CISPEP 1 PRO B 288 LYS B 289 0 -24.02 CISPEP 2 PRO A 288 LYS A 289 0 -14.64 SITE 1 AC1 15 TYR B 117 GLN B 118 PHE B 119 TRP B 120 SITE 2 AC1 15 ASN B 179 LEU B 248 VAL B 250 ARG B 255 SITE 3 AC1 15 SER B 256 ARG B 258 ALA B 260 PRO B 261 SITE 4 AC1 15 LEU B 287 MYR B 504 HOH B 624 SITE 1 AC2 6 LYS B 289 VAL B 291 LEU B 478 TRP B 481 SITE 2 AC2 6 LYS B 482 CYS B 483 SITE 1 AC3 6 GLU B 244 PRO B 364 TRP B 374 TYR B 423 SITE 2 AC3 6 LEU B 493 VAL B 494 SITE 1 AC4 9 ASN B 246 PHE B 247 LEU B 248 THR B 268 SITE 2 AC4 9 TYR B 281 THR B 282 TYR B 479 COA B 501 SITE 3 AC4 9 LYS D 3 SITE 1 AC5 18 TYR A 117 GLN A 118 PHE A 119 TRP A 120 SITE 2 AC5 18 ASN A 179 TYR A 180 VAL A 181 LEU A 248 SITE 3 AC5 18 CYS A 249 VAL A 250 ARG A 255 SER A 256 SITE 4 AC5 18 ARG A 258 VAL A 259 ALA A 260 ILE A 264 SITE 5 AC5 18 VAL A 285 MYR C 101 SITE 1 AC6 7 PRO A 126 LYS A 289 VAL A 291 LEU A 478 SITE 2 AC6 7 TRP A 481 LYS A 482 CYS A 483 SITE 1 AC7 6 GLU A 244 PRO A 364 TYR A 423 LEU A 493 SITE 2 AC7 6 VAL A 494 GLN A 496 SITE 1 AC8 17 TRP A 120 TYR A 180 VAL A 181 PHE A 190 SITE 2 AC8 17 ILE A 245 ASN A 246 PHE A 247 LEU A 248 SITE 3 AC8 17 THR A 268 ALA A 279 TYR A 281 THR A 282 SITE 4 AC8 17 TYR A 479 COA A 501 GLY C 2 VAL C 4 SITE 5 AC8 17 HOH C 201 CRYST1 92.361 58.217 154.035 90.00 90.66 90.00 C 1 2 1 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 0.010827 0.000000 0.000125 0.00000 SCALE2 0.000000 0.017177 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006492 0.00000