HEADER TRANSFERASE 05-FEB-09 3G5T TITLE CRYSTAL STRUCTURE OF TRANS-ACONITATE 3-METHYLTRANSFERASE FROM YEAST COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANS-ACONITATE 3-METHYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.1.1.145; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: P32643, S000000977, SYGP-ORF63, TAM1, TMT1, YER175C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: B834 P(RARE2); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PVP68K KEYWDS METHYLTRANSFERASE, STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, KEYWDS 2 PSI, CENTER FOR EUKARYOTIC STRUCTURAL GENOMICS, CESG, CYTOPLASM, KEYWDS 3 PHOSPHOPROTEIN, S-ADENOSYL-L-METHIONINE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.S.BURGIE,C.A.BINGMAN,G.E.WESENBERG,G.N.PHILLIPS JR.,CENTER FOR AUTHOR 2 EUKARYOTIC STRUCTURAL GENOMICS (CESG) REVDAT 3 30-OCT-24 3G5T 1 REMARK SEQADV LINK REVDAT 2 01-NOV-17 3G5T 1 REMARK REVDAT 1 03-MAR-09 3G5T 0 JRNL AUTH E.S.BURGIE,C.A.BINGMAN,G.E.WESENBERG,G.N.PHILLIPS JR. JRNL TITL CRYSTAL STRUCTURE OF TRANS-ACONITATE 3-METHYLTRANSFERASE JRNL TITL 2 FROM YEAST JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.12 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0066 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) : 1.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 134502 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 : 0.137 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.019 REMARK 3 FREE R VALUE TEST SET COUNT : 6751 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) : 1.12 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7901 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 83.16 REMARK 3 BIN R VALUE (WORKING SET) : 0.1460 REMARK 3 BIN FREE R VALUE SET COUNT : 439 REMARK 3 BIN FREE R VALUE : 0.1580 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2453 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 75 REMARK 3 SOLVENT ATOMS : 522 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.56 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.16100 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : 0.14200 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): 0.025 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.025 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.000 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.000 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.972 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2767 ; 0.030 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2264 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3710 ; 2.262 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5296 ; 0.880 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 311 ; 7.074 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 143 ;33.672 ;24.476 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 543 ;12.732 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;21.260 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 372 ; 0.154 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2958 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 548 ; 0.001 ; 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): 1546 ; 2.263 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 601 ; 1.103 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2554 ; 3.212 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1221 ; 4.455 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1155 ; 5.801 ; 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): 5031 ; 2.402 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 541 ;15.644 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 4966 ; 6.338 ; 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 PLUS 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. U VALUES: REFINED INDIVIDUALLY. REMARK 4 REMARK 4 3G5T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000051459. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-DEC-08 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 : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97886 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 134803 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.119 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 12.50 REMARK 200 R MERGE (I) : 0.10400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 32.6280 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.3 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : 0.32200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.464 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP, DM 5.0 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN SOLUTION (8 MG/ML MSE PROTEIN, REMARK 280 0.040 M NACL, 0.00024 M TCEP, 0.001 M SAM, 0.008 M TRANS- REMARK 280 ACONITIC ACID, 0.0045 M HEPES PH 7.0) MIXED IN A 1:1 RATIO WITH REMARK 280 THE WELL SOLUTION (24% PEG 8000, 2% DMSO, 0.05 M HEPES PH 7.5). REMARK 280 CRYOPROTECTED WITH 23% PEG 8000, 2% DMSO, 0.001 M SAM, 0.0085 M REMARK 280 TRANS-ACONITATE, 0.05 M HEPES PH 7.5, 19% ETHYLENE GLYCOL, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 18.41700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.13450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.94550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.13450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.41700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.94550 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: 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 SER A 15 CB SER A 15 OG -0.089 REMARK 500 SER A 23 CB SER A 23 OG -0.164 REMARK 500 GLU A 57 CG GLU A 57 CD -0.110 REMARK 500 GLU A 62 CD GLU A 62 OE2 0.066 REMARK 500 SER A 97 CB SER A 97 OG -0.124 REMARK 500 MSE A 116 SE MSE A 116 CE -0.428 REMARK 500 GLU A 167 CG GLU A 167 CD 0.092 REMARK 500 LYS A 172 CE LYS A 172 NZ 0.153 REMARK 500 ARG A 186 CZ ARG A 186 NH1 0.109 REMARK 500 SER A 194 CB SER A 194 OG -0.123 REMARK 500 HIS A 223 C HIS A 223 O -0.174 REMARK 500 LYS A 232 CE LYS A 232 NZ -0.190 REMARK 500 ASP A 241 CB ASP A 241 CG 0.157 REMARK 500 LYS A 257 CB LYS A 257 CG -0.240 REMARK 500 GLU A 262 CG GLU A 262 CD -0.094 REMARK 500 GLU A 271 CB GLU A 271 CG -0.127 REMARK 500 ARG A 275 CG ARG A 275 CD -0.166 REMARK 500 ARG A 275 NE ARG A 275 CZ -0.108 REMARK 500 GLU A 286 CG GLU A 286 CD -0.105 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 13 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG A 13 NE - CZ - NH2 ANGL. DEV. = -5.8 DEGREES REMARK 500 MSE A 116 CG - SE - CE ANGL. DEV. = 14.6 DEGREES REMARK 500 ASP A 163 CB - CG - OD1 ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 184 NE - CZ - NH2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ARG A 186 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 244 NE - CZ - NH1 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG A 244 NE - CZ - NH1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG A 244 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 GLU A 271 OE1 - CD - OE2 ANGL. DEV. = 7.5 DEGREES REMARK 500 ARG A 275 CD - NE - CZ ANGL. DEV. = 9.1 DEGREES REMARK 500 ARG A 275 NH1 - CZ - NH2 ANGL. DEV. = 15.8 DEGREES REMARK 500 ARG A 275 NE - CZ - NH2 ANGL. DEV. = -15.9 DEGREES REMARK 500 ARG A 276 NE - CZ - NH1 ANGL. DEV. = 3.4 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 SER A 20 -168.11 -111.16 REMARK 500 PRO A 47 39.92 -84.61 REMARK 500 CYS A 122 -20.12 -148.95 REMARK 500 LYS A 225 37.46 -163.35 REMARK 500 LYS A 226 73.78 42.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 THR A 224 LYS A 225 -149.32 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 EDO A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE T8N A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 310 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: GO.93235 RELATED DB: TARGETDB DBREF 3G5T A 2 299 UNP P32643 TMT1_YEAST 2 299 SEQADV 3G5T SER A 1 UNP P32643 EXPRESSION TAG SEQRES 1 A 299 SER SER THR PHE SER ALA SER ASP PHE ASN SER GLU ARG SEQRES 2 A 299 TYR SER SER SER ARG PRO SER TYR PRO SER ASP PHE TYR SEQRES 3 A 299 LYS MSE ILE ASP GLU TYR HIS ASP GLY GLU ARG LYS LEU SEQRES 4 A 299 LEU VAL ASP VAL GLY CYS GLY PRO GLY THR ALA THR LEU SEQRES 5 A 299 GLN MSE ALA GLN GLU LEU LYS PRO PHE GLU GLN ILE ILE SEQRES 6 A 299 GLY SER ASP LEU SER ALA THR MSE ILE LYS THR ALA GLU SEQRES 7 A 299 VAL ILE LYS GLU GLY SER PRO ASP THR TYR LYS ASN VAL SEQRES 8 A 299 SER PHE LYS ILE SER SER SER ASP ASP PHE LYS PHE LEU SEQRES 9 A 299 GLY ALA ASP SER VAL ASP LYS GLN LYS ILE ASP MSE ILE SEQRES 10 A 299 THR ALA VAL GLU CYS ALA HIS TRP PHE ASP PHE GLU LYS SEQRES 11 A 299 PHE GLN ARG SER ALA TYR ALA ASN LEU ARG LYS ASP GLY SEQRES 12 A 299 THR ILE ALA ILE TRP GLY TYR ALA ASP PRO ILE PHE PRO SEQRES 13 A 299 ASP TYR PRO GLU PHE ASP ASP LEU MSE ILE GLU VAL PRO SEQRES 14 A 299 TYR GLY LYS GLN GLY LEU GLY PRO TYR TRP GLU GLN PRO SEQRES 15 A 299 GLY ARG SER ARG LEU ARG ASN MSE LEU LYS ASP SER HIS SEQRES 16 A 299 LEU ASP PRO GLU LEU PHE HIS ASP ILE GLN VAL SER TYR SEQRES 17 A 299 PHE CYS ALA GLU ASP VAL ARG ASP LYS VAL LYS LEU HIS SEQRES 18 A 299 GLN HIS THR LYS LYS PRO LEU LEU ILE ARG LYS GLN VAL SEQRES 19 A 299 THR LEU VAL GLU PHE ALA ASP TYR VAL ARG THR TRP SER SEQRES 20 A 299 ALA TYR HIS GLN TRP LYS GLN ASP PRO LYS ASN LYS ASP SEQRES 21 A 299 LYS GLU ASP VAL ALA ASP TRP PHE ILE LYS GLU SER LEU SEQRES 22 A 299 ARG ARG ARG PRO GLU LEU SER THR ASN THR LYS ILE GLU SEQRES 23 A 299 VAL VAL TRP ASN THR PHE TYR LYS LEU GLY LYS ARG VAL MODRES 3G5T MSE A 28 MET SELENOMETHIONINE MODRES 3G5T MSE A 54 MET SELENOMETHIONINE MODRES 3G5T MSE A 73 MET SELENOMETHIONINE MODRES 3G5T MSE A 116 MET SELENOMETHIONINE MODRES 3G5T MSE A 165 MET SELENOMETHIONINE MODRES 3G5T MSE A 190 MET SELENOMETHIONINE HET MSE A 28 23 HET MSE A 54 17 HET MSE A 73 17 HET MSE A 116 20 HET MSE A 165 17 HET MSE A 190 17 HET EDO A 300 4 HET EDO A 301 4 HET EDO A 302 4 HET EDO A 303 4 HET EDO A 304 4 HET EDO A 305 4 HET EDO A 306 4 HET EDO A 307 4 HET SAH A 308 26 HET T8N A 309 13 HET DMS A 310 4 HETNAM MSE SELENOMETHIONINE HETNAM EDO 1,2-ETHANEDIOL HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM T8N (2E)-2-(2-METHOXY-2-OXOETHYL)BUT-2-ENEDIOIC ACID HETNAM DMS DIMETHYL SULFOXIDE HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 2 EDO 8(C2 H6 O2) FORMUL 10 SAH C14 H20 N6 O5 S FORMUL 11 T8N C7 H8 O6 FORMUL 12 DMS C2 H6 O S FORMUL 13 HOH *522(H2 O) HELIX 1 1 SER A 1 ALA A 6 5 6 HELIX 2 2 ASN A 10 ARG A 18 1 9 HELIX 3 3 PRO A 22 HIS A 33 1 12 HELIX 4 4 GLY A 48 LEU A 58 1 11 HELIX 5 5 SER A 70 SER A 84 1 15 HELIX 6 6 PHE A 101 GLY A 105 5 5 HELIX 7 7 CYS A 122 PHE A 126 5 5 HELIX 8 8 ASP A 127 ASN A 138 1 12 HELIX 9 9 TYR A 158 ASP A 162 5 5 HELIX 10 10 ASP A 163 GLY A 171 1 9 HELIX 11 11 LEU A 175 TRP A 179 5 5 HELIX 12 12 PRO A 182 ASN A 189 1 8 HELIX 13 13 CYS A 210 ARG A 215 5 6 HELIX 14 14 ASP A 216 HIS A 223 1 8 HELIX 15 15 THR A 235 ARG A 244 1 10 HELIX 16 16 TRP A 246 ASP A 255 1 10 HELIX 17 17 PRO A 256 LYS A 259 5 4 HELIX 18 18 ASP A 263 ARG A 276 1 14 SHEET 1 A 7 VAL A 91 ILE A 95 0 SHEET 2 A 7 GLN A 63 ASP A 68 1 N GLY A 66 O SER A 92 SHEET 3 A 7 LEU A 39 VAL A 43 1 N ASP A 42 O ILE A 65 SHEET 4 A 7 ILE A 114 VAL A 120 1 O THR A 118 N VAL A 43 SHEET 5 A 7 LEU A 139 ILE A 154 1 O THR A 144 N ILE A 117 SHEET 6 A 7 ILE A 285 ARG A 298 -1 O LYS A 294 N ILE A 147 SHEET 7 A 7 PHE A 201 PHE A 209 -1 N PHE A 209 O THR A 291 SHEET 1 B 7 VAL A 91 ILE A 95 0 SHEET 2 B 7 GLN A 63 ASP A 68 1 N GLY A 66 O SER A 92 SHEET 3 B 7 LEU A 39 VAL A 43 1 N ASP A 42 O ILE A 65 SHEET 4 B 7 ILE A 114 VAL A 120 1 O THR A 118 N VAL A 43 SHEET 5 B 7 LEU A 139 ILE A 154 1 O THR A 144 N ILE A 117 SHEET 6 B 7 ILE A 285 ARG A 298 -1 O LYS A 294 N ILE A 147 SHEET 7 B 7 ARG A 231 VAL A 234 -1 N VAL A 234 O ILE A 285 LINK C LYS A 27 N MSE A 28 1555 1555 1.34 LINK C MSE A 28 N ILE A 29 1555 1555 1.29 LINK C GLN A 53 N MSE A 54 1555 1555 1.36 LINK C MSE A 54 N ALA A 55 1555 1555 1.30 LINK C THR A 72 N MSE A 73 1555 1555 1.32 LINK C MSE A 73 N ILE A 74 1555 1555 1.33 LINK C ASP A 115 N MSE A 116 1555 1555 1.34 LINK C MSE A 116 N ILE A 117 1555 1555 1.32 LINK C LEU A 164 N MSE A 165 1555 1555 1.34 LINK C MSE A 165 N ILE A 166 1555 1555 1.32 LINK C ASN A 189 N MSE A 190 1555 1555 1.32 LINK C MSE A 190 N LEU A 191 1555 1555 1.31 CISPEP 1 GLN A 181 PRO A 182 0 6.26 SITE 1 AC1 9 ASP A 34 TRP A 252 LYS A 253 ASN A 258 SITE 2 AC1 9 LYS A 259 LYS A 261 ASP A 263 HOH A 364 SITE 3 AC1 9 HOH A 452 SITE 1 AC2 9 ALA A 151 ASP A 152 PRO A 153 PRO A 169 SITE 2 AC2 9 ARG A 184 TYR A 242 TRP A 246 T8N A 309 SITE 3 AC2 9 HOH A 363 SITE 1 AC3 7 SER A 17 ARG A 18 PRO A 19 LYS A 232 SITE 2 AC3 7 VAL A 234 GLU A 238 HOH A 591 SITE 1 AC4 6 ARG A 13 HIS A 250 GLN A 254 HOH A 409 SITE 2 AC4 6 HOH A 463 HOH A 644 SITE 1 AC5 6 ARG A 186 LEU A 191 LYS A 192 ASP A 193 SITE 2 AC5 6 SER A 194 HOH A 669 SITE 1 AC6 7 ASP A 24 MSE A 28 LYS A 226 PRO A 227 SITE 2 AC6 7 HOH A 441 HOH A 605 HOH A 651 SITE 1 AC7 4 ASP A 142 HIS A 202 HOH A 456 HOH A 722 SITE 1 AC8 5 ASP A 162 GLU A 212 HOH A 368 HOH A 745 SITE 2 AC8 5 HOH A 784 SITE 1 AC9 25 SER A 1 PHE A 4 TYR A 14 TYR A 21 SITE 2 AC9 25 GLY A 44 CYS A 45 GLY A 46 THR A 49 SITE 3 AC9 25 ASP A 68 LEU A 69 SER A 70 MSE A 73 SITE 4 AC9 25 SER A 97 SER A 98 VAL A 120 GLU A 121 SITE 5 AC9 25 CYS A 122 PHE A 126 T8N A 309 HOH A 328 SITE 6 AC9 25 HOH A 334 HOH A 349 HOH A 402 HOH A 661 SITE 7 AC9 25 HOH A 765 SITE 1 BC1 15 PHE A 4 TYR A 14 ARG A 18 GLU A 121 SITE 2 BC1 15 HIS A 124 TRP A 125 TRP A 179 ARG A 184 SITE 3 BC1 15 LEU A 187 TYR A 242 TRP A 246 SER A 247 SITE 4 BC1 15 EDO A 301 SAH A 308 HOH A 379 SITE 1 BC2 4 ARG A 188 ASN A 189 ASP A 216 HOH A 483 CRYST1 36.834 91.891 104.269 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 0.027149 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010882 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009591 0.00000