HEADER TRANSFERASE 27-JUN-08 3DLC TITLE CRYSTAL STRUCTURE OF A PUTATIVE S-ADENOSYL-L-METHIONINE-DEPENDENT TITLE 2 METHYLTRANSFERASE (MMP1179) FROM METHANOCOCCUS MARIPALUDIS AT 1.15 A TITLE 3 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE S-ADENOSYL-L-METHIONINE-DEPENDENT COMPND 3 METHYLTRANSFERASE; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCOCCUS MARIPALUDIS; SOURCE 3 ORGANISM_COMMON: ARCHAEA; SOURCE 4 ORGANISM_TAXID: 39152; SOURCE 5 STRAIN: JJ [DSM 2067]; SOURCE 6 ATCC: 43000; SOURCE 7 GENE: NP_988299.1, MMP1179; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, PSI-2, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 7 01-FEB-23 3DLC 1 REMARK SEQADV REVDAT 6 24-JUL-19 3DLC 1 REMARK LINK REVDAT 5 25-OCT-17 3DLC 1 REMARK REVDAT 4 13-JUL-11 3DLC 1 VERSN REVDAT 3 23-MAR-11 3DLC 1 TITLE KEYWDS REVDAT 2 24-FEB-09 3DLC 1 VERSN REVDAT 1 26-AUG-08 3DLC 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF A PUTATIVE JRNL TITL 2 S-ADENOSYL-L-METHIONINE-DEPENDENT METHYLTRANSFERASE JRNL TITL 3 (NP_988299.1) FROM METHANOCOCCUS MARIPALUDIS JJ (DSM 2067) JRNL TITL 4 AT 1.15 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0067 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.26 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 67971 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) : 0.121 REMARK 3 R VALUE (WORKING SET) : 0.120 REMARK 3 FREE R VALUE : 0.138 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3439 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) : 1.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4598 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.25 REMARK 3 BIN R VALUE (WORKING SET) : 0.1780 REMARK 3 BIN FREE R VALUE SET COUNT : 245 REMARK 3 BIN FREE R VALUE : 0.1750 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1722 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 328 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 7.89 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 9.09 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.62000 REMARK 3 B22 (A**2) : 0.16000 REMARK 3 B33 (A**2) : -0.77000 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): 0.032 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.031 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.020 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.958 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.982 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.979 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2033 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1435 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2786 ; 1.723 ; 1.978 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3547 ; 1.342 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 285 ; 4.988 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 101 ;35.038 ;24.950 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 394 ;11.665 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;17.480 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 305 ; 0.114 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2326 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 412 ; 0.004 ; 0.020 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): 1208 ; 1.776 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 492 ; 0.856 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1985 ; 2.575 ; 4.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 825 ; 3.919 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 769 ; 5.120 ; 8.000 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): 3468 ; 2.217 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 338 ; 7.559 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3404 ; 3.369 ; 3.000 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 : BABINET MODEL WITH 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: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 2. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY REMARK 3 OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 REMARK 3 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. REMARK 3 3. S-ADENOSYLMETHIONINE (SAM), ACETATE (ACT) AND GLYCEROL (GOL) REMARK 3 MOLECULES FROM THE CRYSTALLIZATION SOLUTION ARE MODELED. REMARK 4 REMARK 4 3DLC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1000048181. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837,0.97947 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 68022 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.150 REMARK 200 RESOLUTION RANGE LOW (A) : 29.260 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.03700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.4300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.37800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.17M AMMONIUM ACETATE, 15.0% REMARK 280 GLYCEROL, 25.5% POLYETHYLENE GLYCOL 4000, 0.1M SODIUM ACETATE PH REMARK 280 4.6, ADDITIVE - 1MM S-ADENOSYLMETHIONINE, NANODROP, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 19.80500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 37.72000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.75000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 37.72000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.80500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.75000 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 300 REMARK: AUTHORS STATE THAT CRYSTAL PACKING ANALYSIS SUPPORTS THE REMARK 300 ASSIGNMENT OF A MONOMER AS THE SIGNIFICANT OLIGOMERIZATION STATE. 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 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 A 175 CG CD CE NZ REMARK 470 GLU A 180 CG CD OE1 OE2 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 OG SER A 159 O HOH A 502 2.05 REMARK 500 O HOH A 299 O HOH A 538 2.09 REMARK 500 O HOH A 230 O HOH A 499 2.14 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 ARG A 38 NE - CZ - NH1 ANGL. DEV. = 3.3 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 THR A 22 -97.72 -123.11 REMARK 500 ASN A 103 72.82 -161.07 REMARK 500 ASP A 125 66.44 36.32 REMARK 500 TYR A 144 87.16 -152.18 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 ACT A 219 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAM A 220 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 221 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 222 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 387106 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. THE STRAIN REMARK 999 CLONED, METHANOCOCCUS MARIPALUDIS JJ, DIFFERS FROM THE DATABASE REMARK 999 SEQUENCE STRAIN, METHANOCOCCUS MARIPALUDIS S2. DNA SEQUENCING OF REMARK 999 THE CLONED CONSTRUCT SHOWS THE CONSTRUCT HAS THE FOLLOWING SEQUENCE REMARK 999 DIFFERENCES WHEN COMPARED TO THE DATABASE SEQUENCE: N45T, D89N, REMARK 999 T127A, V194I AND E202G. THESE SEQUENCE DIFFERENCES ARE SUPPORTED BY REMARK 999 THE ELECTRON DENSITY. DBREF 3DLC A 1 218 UNP Q6LY14 Q6LY14_METMP 1 218 SEQADV 3DLC GLY A 0 UNP Q6LY14 EXPRESSION TAG SEQADV 3DLC THR A 45 UNP Q6LY14 ASN 45 SEE REMARK 999 SEQADV 3DLC ASN A 89 UNP Q6LY14 ASP 89 SEE REMARK 999 SEQADV 3DLC ALA A 127 UNP Q6LY14 THR 127 SEE REMARK 999 SEQADV 3DLC ILE A 194 UNP Q6LY14 VAL 194 SEE REMARK 999 SEQADV 3DLC GLY A 202 UNP Q6LY14 GLU 202 SEE REMARK 999 SEQRES 1 A 219 GLY MSE SER GLU ASN LYS LYS LYS PHE ASP LYS LYS GLY SEQRES 2 A 219 ALA LYS ASN MSE ASP GLU ILE SER LYS THR LEU PHE ALA SEQRES 3 A 219 PRO ILE TYR PRO ILE ILE ALA GLU ASN ILE ILE ASN ARG SEQRES 4 A 219 PHE GLY ILE THR ALA GLY THR CYS ILE ASP ILE GLY SER SEQRES 5 A 219 GLY PRO GLY ALA LEU SER ILE ALA LEU ALA LYS GLN SER SEQRES 6 A 219 ASP PHE SER ILE ARG ALA LEU ASP PHE SER LYS HIS MSE SEQRES 7 A 219 ASN GLU ILE ALA LEU LYS ASN ILE ALA ASP ALA ASN LEU SEQRES 8 A 219 ASN ASP ARG ILE GLN ILE VAL GLN GLY ASP VAL HIS ASN SEQRES 9 A 219 ILE PRO ILE GLU ASP ASN TYR ALA ASP LEU ILE VAL SER SEQRES 10 A 219 ARG GLY SER VAL PHE PHE TRP GLU ASP VAL ALA THR ALA SEQRES 11 A 219 PHE ARG GLU ILE TYR ARG ILE LEU LYS SER GLY GLY LYS SEQRES 12 A 219 THR TYR ILE GLY GLY GLY PHE GLY ASN LYS GLU LEU ARG SEQRES 13 A 219 ASP SER ILE SER ALA GLU MSE ILE ARG LYS ASN PRO ASP SEQRES 14 A 219 TRP LYS GLU PHE ASN ARG LYS ASN ILE SER GLN GLU ASN SEQRES 15 A 219 VAL GLU ARG PHE GLN ASN VAL LEU ASP GLU ILE GLY ILE SEQRES 16 A 219 SER SER TYR GLU ILE ILE LEU GLY ASP GLU GLY PHE TRP SEQRES 17 A 219 ILE ILE ILE SER LYS THR ASP GLN GLU VAL ILE MODRES 3DLC MSE A 1 MET SELENOMETHIONINE MODRES 3DLC MSE A 16 MET SELENOMETHIONINE MODRES 3DLC MSE A 77 MET SELENOMETHIONINE MODRES 3DLC MSE A 162 MET SELENOMETHIONINE HET MSE A 1 13 HET MSE A 16 8 HET MSE A 77 8 HET MSE A 162 13 HET ACT A 219 4 HET SAM A 220 27 HET GOL A 221 6 HET GOL A 222 6 HETNAM MSE SELENOMETHIONINE HETNAM ACT ACETATE ION HETNAM SAM S-ADENOSYLMETHIONINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 2 ACT C2 H3 O2 1- FORMUL 3 SAM C15 H22 N6 O5 S FORMUL 4 GOL 2(C3 H8 O3) FORMUL 6 HOH *328(H2 O) HELIX 1 1 ASP A 9 THR A 22 1 14 HELIX 2 2 PRO A 26 GLY A 40 1 15 HELIX 3 3 GLY A 54 SER A 64 1 11 HELIX 4 4 SER A 74 ALA A 88 1 15 HELIX 5 5 SER A 119 TRP A 123 5 5 HELIX 6 6 ASP A 125 ILE A 136 1 12 HELIX 7 7 ASN A 151 ASN A 166 1 16 HELIX 8 8 ASP A 168 ILE A 177 1 10 HELIX 9 9 SER A 178 GLY A 193 1 16 SHEET 1 A 7 ILE A 94 GLN A 98 0 SHEET 2 A 7 ASP A 65 ASP A 72 1 N ALA A 70 O VAL A 97 SHEET 3 A 7 ALA A 43 ILE A 49 1 N GLY A 44 O SER A 67 SHEET 4 A 7 ALA A 111 ARG A 117 1 O VAL A 115 N ILE A 47 SHEET 5 A 7 LEU A 137 GLY A 147 1 O GLY A 146 N SER A 116 SHEET 6 A 7 GLY A 205 ILE A 210 -1 O ILE A 208 N ILE A 145 SHEET 7 A 7 TYR A 197 GLY A 202 -1 N GLU A 198 O ILE A 209 LINK C GLY A 0 N MSE A 1 1555 1555 1.33 LINK C MSE A 1 N SER A 2 1555 1555 1.30 LINK C ASN A 15 N MSE A 16 1555 1555 1.33 LINK C MSE A 16 N ASP A 17 1555 1555 1.33 LINK C HIS A 76 N MSE A 77 1555 1555 1.32 LINK C MSE A 77 N ASN A 78 1555 1555 1.33 LINK C GLU A 161 N MSE A 162 1555 1555 1.33 LINK C MSE A 162 N ILE A 163 1555 1555 1.32 SITE 1 AC1 3 ARG A 184 HOH A 275 HOH A 289 SITE 1 AC2 19 PHE A 8 TYR A 28 GLY A 50 SER A 51 SITE 2 AC2 19 GLY A 52 ASP A 72 PHE A 73 SER A 74 SITE 3 AC2 19 GLY A 99 ASP A 100 ARG A 117 GLY A 118 SITE 4 AC2 19 SER A 119 TRP A 123 GLU A 216 ILE A 218 SITE 5 AC2 19 HOH A 239 HOH A 268 HOH A 297 SITE 1 AC3 9 ILE A 19 LYS A 165 ASN A 166 ILE A 192 SITE 2 AC3 9 GLY A 193 GLN A 215 HOH A 228 HOH A 354 SITE 3 AC3 9 HOH A 357 SITE 1 AC4 8 PHE A 8 PRO A 29 PHE A 73 SER A 74 SITE 2 AC4 8 HOH A 321 HOH A 375 HOH A 470 HOH A 489 CRYST1 39.610 63.500 75.440 90.00 90.00 90.00 P 21 21 21 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 0.025246 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015748 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013256 0.00000