HEADER TRANSFERASE 01-JUL-24 9CH5 TITLE STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM) AND RIPP PRECURSOR TITLE 2 (SONA-L63D) HETEROMERIC COMPLEX (BOUND TO SAM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: TP-METHYLASE FAMILY PROTEIN; COMPND 3 CHAIN: A, C; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: EXTRADIOL RING-CLEAVAGE DIOXYGENASE LIGAB LIGA SUBUNIT COMPND 7 DOMAIN-CONTAINING PROTEIN; COMPND 8 CHAIN: B, D; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SHEWANELLA ONEIDENSIS; SOURCE 3 ORGANISM_TAXID: 70863; SOURCE 4 GENE: SO_1478; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: SHEWANELLA ONEIDENSIS; SOURCE 9 ORGANISM_TAXID: 70863; SOURCE 10 GENE: SO_1479; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ALPHA-N-METHYLTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.K.CRONE,J.W.LABONTE,M.ELIAS,M.F.FREEMAN REVDAT 1 29-JAN-25 9CH5 0 JRNL AUTH K.K.CRONE,J.W.LABONTE,M.H.ELIAS,M.F.FREEMAN JRNL TITL ALPHA-N-METHYLTRANSFERASE REGIOSPECIFICITY IS MEDIATED BY JRNL TITL 2 PROXIMAL, REDUNDANT ENZYME-SUBSTRATE INTERACTIONS. JRNL REF PROTEIN SCI. V. 34 70021 2025 JRNL REFN ESSN 1469-896X JRNL PMID 39840790 JRNL DOI 10.1002/PRO.70021 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.20.1_4487: ???) 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.3 REMARK 3 NUMBER OF REFLECTIONS : 40198 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.242 REMARK 3 R VALUE (WORKING SET) : 0.240 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.940 REMARK 3 FREE R VALUE TEST SET COUNT : 1987 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 19.9000 - 4.8000 0.97 2958 166 0.2721 0.2759 REMARK 3 2 4.8000 - 3.8200 0.93 2812 161 0.2488 0.3302 REMARK 3 3 3.8200 - 3.3400 0.86 2581 129 0.2704 0.3264 REMARK 3 4 3.3400 - 3.0300 0.99 2991 156 0.2709 0.3047 REMARK 3 5 3.0300 - 2.8200 0.98 2954 145 0.2578 0.2624 REMARK 3 6 2.8200 - 2.6500 0.96 2900 183 0.2366 0.2834 REMARK 3 7 2.6500 - 2.5200 0.96 2890 152 0.2328 0.2585 REMARK 3 8 2.5200 - 2.4100 0.98 2952 135 0.2080 0.2308 REMARK 3 9 2.4100 - 2.3200 0.98 2967 166 0.1797 0.2275 REMARK 3 10 2.3200 - 2.2400 0.69 2096 106 0.1737 0.2181 REMARK 3 11 2.2400 - 2.1700 0.97 2881 146 0.1762 0.2243 REMARK 3 12 2.1700 - 2.1100 0.98 2968 131 0.1968 0.2475 REMARK 3 13 2.1100 - 2.0500 0.42 1272 60 0.2151 0.2186 REMARK 3 14 2.0500 - 2.0000 0.99 2989 151 0.1983 0.2506 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.880 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 : 0.007 NULL REMARK 3 ANGLE : 1.041 NULL REMARK 3 CHIRALITY : 0.058 782 REMARK 3 PLANARITY : 0.007 902 REMARK 3 DIHEDRAL : 11.424 702 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 9CH5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JUL-24. REMARK 100 THE DEPOSITION ID IS D_1000285508. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-NOV-21 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 : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.033167 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 : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 75115 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 19.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 85.6 REMARK 200 DATA REDUNDANCY : 2.290 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.1900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 240 MM SODIUM MALONATE PH 5.5 WITH 2% REMARK 280 PEG 3350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 54.19000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -65.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 MET B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 SER B 54 REMARK 465 GLY B 55 REMARK 465 ASP B 56 REMARK 465 SER B 57 REMARK 465 SER B 58 REMARK 465 TYR B 59 REMARK 465 GLN B 60 REMARK 465 SER B 61 REMARK 465 TYR B 62 REMARK 465 ASP B 63 REMARK 465 VAL B 64 REMARK 465 ILE B 65 REMARK 465 SER B 66 REMARK 465 HIS B 67 REMARK 465 GLY B 68 REMARK 465 ASN B 69 REMARK 465 GLY B 70 REMARK 465 ASP B 71 REMARK 465 MET C 1 REMARK 465 MET D -6 REMARK 465 HIS D -5 REMARK 465 HIS D -4 REMARK 465 HIS D -3 REMARK 465 HIS D -2 REMARK 465 HIS D -1 REMARK 465 HIS D 0 REMARK 465 MET D 1 REMARK 465 SER D 2 REMARK 465 GLY D 3 REMARK 465 GLY D 55 REMARK 465 ASP D 56 REMARK 465 SER D 57 REMARK 465 SER D 58 REMARK 465 TYR D 59 REMARK 465 GLN D 60 REMARK 465 SER D 61 REMARK 465 SER D 66 REMARK 465 HIS D 67 REMARK 465 GLY D 68 REMARK 465 ASN D 69 REMARK 465 GLY D 70 REMARK 465 ASP D 71 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 NH1 ARG A 67 O HOH A 401 2.10 REMARK 500 O HOH A 465 O HOH A 564 2.11 REMARK 500 OH TYR C 71 O VAL D 64 2.12 REMARK 500 O GLY C 85 O HOH C 401 2.15 REMARK 500 OE2 GLU C 72 O HOH C 402 2.19 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 C 243 CE LYS C 243 NZ 0.365 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 243 CB - CG - CD ANGL. DEV. = 34.3 DEGREES REMARK 500 LYS C 243 CD - CE - NZ ANGL. DEV. = -27.9 DEGREES REMARK 500 LYS C 243 CA - C - N ANGL. DEV. = -14.8 DEGREES REMARK 500 GLU C 260 CA - CB - CG ANGL. DEV. = 17.6 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 ALA A 14 -41.14 75.01 REMARK 500 ALA C 14 -41.08 74.79 REMARK 500 ASP D 63 -52.60 73.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 GLN D 16 0.10 SIDE CHAIN 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 LYS C 243 12.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 603 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH A 604 DISTANCE = 6.13 ANGSTROMS REMARK 525 HOH A 605 DISTANCE = 6.98 ANGSTROMS REMARK 525 HOH A 606 DISTANCE = 8.57 ANGSTROMS REMARK 525 HOH A 607 DISTANCE = 10.42 ANGSTROMS REMARK 525 HOH C 592 DISTANCE = 5.85 ANGSTROMS REMARK 525 HOH C 593 DISTANCE = 6.09 ANGSTROMS REMARK 525 HOH C 594 DISTANCE = 6.58 ANGSTROMS REMARK 525 HOH C 595 DISTANCE = 7.09 ANGSTROMS REMARK 525 HOH C 596 DISTANCE = 7.39 ANGSTROMS REMARK 525 HOH C 597 DISTANCE = 9.08 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 9CH3 RELATED DB: PDB REMARK 900 STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM) AND RIPP REMARK 900 PRECURSOR (SONA-L63D) HETEROMERIC COMPLEX (BOUND TO SAH) REMARK 900 RELATED ID: 9CH2 RELATED DB: PDB REMARK 900 STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM) AND RIPP REMARK 900 PRECURSOR (SONA-L63D) HETEROMERIC COMPLEX REMARK 900 RELATED ID: 9CH1 RELATED DB: PDB REMARK 900 STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM) AND RIPP REMARK 900 PRECURSOR (SONA-I65W) HETEROMERIC COMPLEX (BOUND TO SAM) REMARK 900 RELATED ID: 9CH0 RELATED DB: PDB REMARK 900 STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM) AND RIPP REMARK 900 PRECURSOR (SONA-I65W) HETEROMERIC COMPLEX (BOUND TO SAH) REMARK 900 RELATED ID: 9CGW RELATED DB: PDB REMARK 900 STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM) AND RIPP REMARK 900 PRECURSOR (SONA-I65W) HETEROMERIC COMPLEX (NO COFACTOR) REMARK 900 RELATED ID: 7LTE RELATED DB: PDB REMARK 900 STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM) AND RIPP REMARK 900 PRECURSOR (SONA) HETEROMERIC COMPLEX (WITH SAH) REMARK 900 RELATED ID: 7LTF RELATED DB: PDB REMARK 900 STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM MUTANT Y58F) AND REMARK 900 RIPP PRECURSOR (SONA) HETEROMERIC COMPLEX (NO COFACTOR) REMARK 900 RELATED ID: 7LTH RELATED DB: PDB REMARK 900 STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM MUTANT Y93F) AND REMARK 900 RIPP PRECURSOR (SONA) HETEROMERIC COMPLEX (NO COFACTOR) REMARK 900 RELATED ID: 7LTR RELATED DB: PDB REMARK 900 STRUCTURE OF THE HETEROMERIC COMPLEX BETWEEN THE ALPHA-N- REMARK 900 METHYLTRANSFERASE (SONM) AND A TRUNCATED CONSTRUCT OF THE RIPP REMARK 900 PRECURSOR (SONA) (WITH SAM) REMARK 900 RELATED ID: 7LTS RELATED DB: PDB REMARK 900 STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM MUTANT R67A) AND REMARK 900 RIPP PRECURSOR (SONA) HETEROMERIC COMPLEX (WITH SAH) REMARK 900 RELATED ID: 8T1T RELATED DB: PDB REMARK 900 STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM) AND RIPP REMARK 900 PRECURSOR (SONA WITH QSY DELETION) HETEROMERIC COMPLEX (BOUND TO REMARK 900 SAM) REMARK 900 RELATED ID: 8T1S RELATED DB: PDB REMARK 900 STRUCTURE OF THE ALPHA-N-METHYLTRANSFERASE (SONM) AND RIPP REMARK 900 PRECURSOR (SONA WITH QSY DELETION) HETEROMERIC COMPLEX (BOUND TO REMARK 900 SAH) DBREF 9CH5 A 1 263 UNP Q8EGW3 Q8EGW3_SHEON 1 263 DBREF 9CH5 B 1 71 UNP Q8EGW2 Q8EGW2_SHEON 1 71 DBREF 9CH5 C 1 263 UNP Q8EGW3 Q8EGW3_SHEON 1 263 DBREF 9CH5 D 1 71 UNP Q8EGW2 Q8EGW2_SHEON 1 71 SEQADV 9CH5 MET B -6 UNP Q8EGW2 INITIATING METHIONINE SEQADV 9CH5 HIS B -5 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 HIS B -4 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 HIS B -3 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 HIS B -2 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 HIS B -1 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 HIS B 0 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 ASP B 63 UNP Q8EGW2 LEU 63 ENGINEERED MUTATION SEQADV 9CH5 MET D -6 UNP Q8EGW2 INITIATING METHIONINE SEQADV 9CH5 HIS D -5 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 HIS D -4 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 HIS D -3 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 HIS D -2 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 HIS D -1 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 HIS D 0 UNP Q8EGW2 EXPRESSION TAG SEQADV 9CH5 ASP D 63 UNP Q8EGW2 LEU 63 ENGINEERED MUTATION SEQRES 1 A 263 MET GLY SER LEU VAL CYS VAL GLY THR GLY LEU GLN LEU SEQRES 2 A 263 ALA GLY GLN ILE SER VAL LEU SER ARG SER TYR ILE GLU SEQRES 3 A 263 HIS ALA ASP ILE VAL PHE SER LEU LEU PRO ASP GLY PHE SEQRES 4 A 263 SER GLN ARG TRP LEU THR LYS LEU ASN PRO ASN VAL ILE SEQRES 5 A 263 ASN LEU GLN GLN PHE TYR ALA GLN ASN GLY GLU VAL LYS SEQRES 6 A 263 ASN ARG ARG ASP THR TYR GLU GLN MET VAL ASN ALA ILE SEQRES 7 A 263 LEU ASP ALA VAL ARG ALA GLY LYS LYS THR VAL CYS ALA SEQRES 8 A 263 LEU TYR GLY HIS PRO GLY VAL PHE ALA CYS VAL SER HIS SEQRES 9 A 263 MET ALA ILE THR ARG ALA LYS ALA GLU GLY PHE SER ALA SEQRES 10 A 263 LYS MET GLU PRO GLY ILE SER ALA GLU ALA CYS LEU TRP SEQRES 11 A 263 ALA ASP LEU GLY ILE ASP PRO GLY ASN SER GLY HIS GLN SEQRES 12 A 263 SER PHE GLU ALA SER GLN PHE MET PHE PHE ASN HIS VAL SEQRES 13 A 263 PRO ASP PRO THR THR HIS LEU LEU LEU TRP GLN ILE ALA SEQRES 14 A 263 ILE ALA GLY GLU HIS THR LEU THR GLN PHE HIS THR SER SEQRES 15 A 263 SER ASP ARG LEU GLN ILE LEU VAL GLU GLN LEU ASN GLN SEQRES 16 A 263 TRP TYR PRO LEU ASP HIS GLU VAL VAL ILE TYR GLU ALA SEQRES 17 A 263 ALA ASN LEU PRO ILE GLN ALA PRO ARG ILE GLU ARG LEU SEQRES 18 A 263 PRO LEU ALA ASN LEU PRO GLN ALA HIS LEU MET PRO ILE SEQRES 19 A 263 SER THR LEU LEU ILE PRO PRO ALA LYS LYS LEU GLU TYR SEQRES 20 A 263 ASN TYR ALA ILE LEU ALA LYS LEU GLY ILE GLY PRO GLU SEQRES 21 A 263 ASP LEU GLY SEQRES 1 B 78 MET HIS HIS HIS HIS HIS HIS MET SER GLY LEU SER ASP SEQRES 2 B 78 PHE PHE THR GLN LEU GLY GLN ASP ALA GLN LEU MET GLU SEQRES 3 B 78 ASP TYR LYS GLN ASN PRO GLU ALA VAL MET ARG ALA HIS SEQRES 4 B 78 GLY LEU THR ASP GLU GLN ILE ASN ALA VAL MET THR GLY SEQRES 5 B 78 ASP MET GLU LYS LEU LYS THR LEU SER GLY ASP SER SER SEQRES 6 B 78 TYR GLN SER TYR ASP VAL ILE SER HIS GLY ASN GLY ASP SEQRES 1 C 263 MET GLY SER LEU VAL CYS VAL GLY THR GLY LEU GLN LEU SEQRES 2 C 263 ALA GLY GLN ILE SER VAL LEU SER ARG SER TYR ILE GLU SEQRES 3 C 263 HIS ALA ASP ILE VAL PHE SER LEU LEU PRO ASP GLY PHE SEQRES 4 C 263 SER GLN ARG TRP LEU THR LYS LEU ASN PRO ASN VAL ILE SEQRES 5 C 263 ASN LEU GLN GLN PHE TYR ALA GLN ASN GLY GLU VAL LYS SEQRES 6 C 263 ASN ARG ARG ASP THR TYR GLU GLN MET VAL ASN ALA ILE SEQRES 7 C 263 LEU ASP ALA VAL ARG ALA GLY LYS LYS THR VAL CYS ALA SEQRES 8 C 263 LEU TYR GLY HIS PRO GLY VAL PHE ALA CYS VAL SER HIS SEQRES 9 C 263 MET ALA ILE THR ARG ALA LYS ALA GLU GLY PHE SER ALA SEQRES 10 C 263 LYS MET GLU PRO GLY ILE SER ALA GLU ALA CYS LEU TRP SEQRES 11 C 263 ALA ASP LEU GLY ILE ASP PRO GLY ASN SER GLY HIS GLN SEQRES 12 C 263 SER PHE GLU ALA SER GLN PHE MET PHE PHE ASN HIS VAL SEQRES 13 C 263 PRO ASP PRO THR THR HIS LEU LEU LEU TRP GLN ILE ALA SEQRES 14 C 263 ILE ALA GLY GLU HIS THR LEU THR GLN PHE HIS THR SER SEQRES 15 C 263 SER ASP ARG LEU GLN ILE LEU VAL GLU GLN LEU ASN GLN SEQRES 16 C 263 TRP TYR PRO LEU ASP HIS GLU VAL VAL ILE TYR GLU ALA SEQRES 17 C 263 ALA ASN LEU PRO ILE GLN ALA PRO ARG ILE GLU ARG LEU SEQRES 18 C 263 PRO LEU ALA ASN LEU PRO GLN ALA HIS LEU MET PRO ILE SEQRES 19 C 263 SER THR LEU LEU ILE PRO PRO ALA LYS LYS LEU GLU TYR SEQRES 20 C 263 ASN TYR ALA ILE LEU ALA LYS LEU GLY ILE GLY PRO GLU SEQRES 21 C 263 ASP LEU GLY SEQRES 1 D 78 MET HIS HIS HIS HIS HIS HIS MET SER GLY LEU SER ASP SEQRES 2 D 78 PHE PHE THR GLN LEU GLY GLN ASP ALA GLN LEU MET GLU SEQRES 3 D 78 ASP TYR LYS GLN ASN PRO GLU ALA VAL MET ARG ALA HIS SEQRES 4 D 78 GLY LEU THR ASP GLU GLN ILE ASN ALA VAL MET THR GLY SEQRES 5 D 78 ASP MET GLU LYS LEU LYS THR LEU SER GLY ASP SER SER SEQRES 6 D 78 TYR GLN SER TYR ASP VAL ILE SER HIS GLY ASN GLY ASP HET SAH A 301 26 HET SAH C 301 26 HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE FORMUL 5 SAH 2(C14 H20 N6 O5 S) FORMUL 7 HOH *487(H2 O) HELIX 1 AA1 SER A 18 ALA A 28 1 11 HELIX 2 AA2 ASP A 37 ASN A 48 1 12 HELIX 3 AA3 GLN A 55 TYR A 58 5 4 HELIX 4 AA4 ASN A 66 GLY A 85 1 20 HELIX 5 AA5 CYS A 101 GLU A 113 1 13 HELIX 6 AA6 SER A 124 GLY A 134 1 11 HELIX 7 AA7 ALA A 147 PHE A 153 1 7 HELIX 8 AA8 GLN A 167 ALA A 171 5 5 HELIX 9 AA9 SER A 182 ASN A 194 1 13 HELIX 10 AB1 ALA A 224 ALA A 229 5 6 HELIX 11 AB2 ASN A 248 LEU A 255 1 8 HELIX 12 AB3 GLY A 258 LEU A 262 5 5 HELIX 13 AB4 LEU B 4 ASP B 14 1 11 HELIX 14 AB5 ASP B 14 ASN B 24 1 11 HELIX 15 AB6 ASN B 24 HIS B 32 1 9 HELIX 16 AB7 THR B 35 GLY B 45 1 11 HELIX 17 AB8 ASP B 46 LEU B 53 1 8 HELIX 18 AB9 SER C 18 ALA C 28 1 11 HELIX 19 AC1 ASP C 37 ASN C 48 1 12 HELIX 20 AC2 GLN C 55 TYR C 58 5 4 HELIX 21 AC3 ASN C 66 GLY C 85 1 20 HELIX 22 AC4 CYS C 101 GLU C 113 1 13 HELIX 23 AC5 SER C 124 GLY C 134 1 11 HELIX 24 AC6 ALA C 147 PHE C 153 1 7 HELIX 25 AC7 GLN C 167 ALA C 171 5 5 HELIX 26 AC8 SER C 182 ASN C 194 1 13 HELIX 27 AC9 ALA C 224 ALA C 229 5 6 HELIX 28 AD1 ASN C 248 LEU C 255 1 8 HELIX 29 AD2 GLY C 258 LEU C 262 5 5 HELIX 30 AD3 SER D 5 ASP D 14 1 10 HELIX 31 AD4 ASP D 14 ASN D 24 1 11 HELIX 32 AD5 ASN D 24 HIS D 32 1 9 HELIX 33 AD6 THR D 35 GLY D 45 1 11 HELIX 34 AD7 ASP D 46 SER D 54 1 9 SHEET 1 AA1 5 VAL A 51 ASN A 53 0 SHEET 2 AA1 5 ILE A 30 LEU A 34 1 N VAL A 31 O ILE A 52 SHEET 3 AA1 5 LYS A 87 LEU A 92 1 O ALA A 91 N PHE A 32 SHEET 4 AA1 5 SER A 3 GLY A 8 1 N VAL A 7 O CYS A 90 SHEET 5 AA1 5 SER A 116 MET A 119 1 O SER A 116 N LEU A 4 SHEET 1 AA210 ARG A 217 PRO A 222 0 SHEET 2 AA210 GLU A 202 GLU A 207 -1 N VAL A 203 O LEU A 221 SHEET 3 AA210 THR A 236 ILE A 239 -1 O LEU A 238 N VAL A 204 SHEET 4 AA210 HIS A 162 TRP A 166 -1 N LEU A 163 O ILE A 239 SHEET 5 AA210 HIS A 142 GLU A 146 1 N PHE A 145 O TRP A 166 SHEET 6 AA210 HIS C 142 GLU C 146 -1 O SER C 144 N HIS A 142 SHEET 7 AA210 HIS C 162 TRP C 166 1 O LEU C 164 N GLN C 143 SHEET 8 AA210 THR C 236 ILE C 239 -1 O ILE C 239 N LEU C 163 SHEET 9 AA210 GLU C 202 GLU C 207 -1 N VAL C 204 O LEU C 238 SHEET 10 AA210 ARG C 217 PRO C 222 -1 O LEU C 221 N VAL C 203 SHEET 1 AA3 5 VAL C 51 ASN C 53 0 SHEET 2 AA3 5 ILE C 30 LEU C 34 1 N VAL C 31 O ILE C 52 SHEET 3 AA3 5 LYS C 87 LEU C 92 1 O ALA C 91 N PHE C 32 SHEET 4 AA3 5 SER C 3 GLY C 8 1 N VAL C 7 O CYS C 90 SHEET 5 AA3 5 SER C 116 MET C 119 1 O SER C 116 N LEU C 4 CRYST1 52.480 108.380 59.150 90.00 93.67 90.00 P 1 21 1 4 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 0.019055 0.000000 0.001222 0.00000 SCALE2 0.000000 0.009227 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016941 0.00000