HEADER NUCLEAR PROTEIN 25-AUG-20 7CV8 TITLE RNA METHYLTRANSFERASE METTL4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: METHYLTRANSFERASE-LIKE PROTEIN 2; COMPND 3 CHAIN: A; COMPND 4 EC: 2.1.1.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: AT1G19340, F18O14.6; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS RNA METHYLTRANSFERASE, NUCLEAR PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Q.LUO,J.MA REVDAT 3 29-MAY-24 7CV8 1 REMARK REVDAT 2 12-OCT-22 7CV8 1 JRNL REVDAT 1 01-SEP-21 7CV8 0 JRNL AUTH Q.LUO,J.MO,H.CHEN,Z.HU,B.WANG,J.WU,Z.LIANG,W.XIE,K.DU, JRNL AUTH 2 M.PENG,Y.LI,T.LI,Y.ZHANG,X.SHI,W.H.SHEN,Y.SHI,A.DONG,H.WANG, JRNL AUTH 3 J.MA JRNL TITL STRUCTURAL INSIGHTS INTO MOLECULAR MECHANISM FOR JRNL TITL 2 N6-ADENOSINE METHYLATION BY MT-A70 FAMILY METHYLTRANSFERASE JRNL TITL 3 METTL4 JRNL REF NAT COMMUN V. 13 5636 2022 JRNL REFN ESSN 2041-1723 JRNL DOI 10.1038/S41467-022-33277-X REMARK 2 REMARK 2 RESOLUTION. 2.37 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0253 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) : 2.37 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 3 NUMBER OF REFLECTIONS : 15806 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) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 862 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.37 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.43 REMARK 3 REFLECTION IN BIN (WORKING SET) : 839 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 70.49 REMARK 3 BIN R VALUE (WORKING SET) : 0.3540 REMARK 3 BIN FREE R VALUE SET COUNT : 40 REMARK 3 BIN FREE R VALUE : 0.5750 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2786 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 45 REMARK 3 SOLVENT ATOMS : 61 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 25.33000 REMARK 3 B22 (A**2) : -12.70000 REMARK 3 B33 (A**2) : -12.63000 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): 0.085 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.059 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.132 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.389 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2908 ; 0.015 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2657 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3935 ; 1.438 ; 1.654 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6159 ; 1.221 ; 1.580 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 331 ; 8.447 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 160 ;35.353 ;22.125 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 482 ;18.742 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;21.749 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 358 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3171 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 659 ; 0.003 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 414 REMARK 3 ORIGIN FOR THE GROUP (A): 9.0771 -13.8904 -25.0065 REMARK 3 T TENSOR REMARK 3 T11: 0.0389 T22: 0.0170 REMARK 3 T33: 0.0114 T12: -0.0234 REMARK 3 T13: -0.0048 T23: -0.0024 REMARK 3 L TENSOR REMARK 3 L11: 0.3716 L22: 1.5447 REMARK 3 L33: 1.0789 L12: 0.2067 REMARK 3 L13: 0.2821 L23: 0.1353 REMARK 3 S TENSOR REMARK 3 S11: 0.0659 S12: -0.0301 S13: -0.0369 REMARK 3 S21: -0.0970 S22: 0.0431 S23: -0.0019 REMARK 3 S31: 0.0173 S32: 0.0400 S33: -0.1090 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 7CV8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-AUG-20. REMARK 100 THE DEPOSITION ID IS D_1300018100. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-16 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 : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97776 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 : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17743 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 46.960 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 11.80 REMARK 200 R MERGE (I) : 0.18000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.5 REMARK 200 DATA REDUNDANCY IN SHELL : 8.60 REMARK 200 R MERGE FOR SHELL (I) : 0.60800 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: SAD REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1M LITHIUM CHLORIDE 0.1M HEPES PH 7.0 REMARK 280 10% PEG6000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K 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 26.04600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.96200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.20200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.96200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.04600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.20200 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 TOTAL BURIED SURFACE AREA: 310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL 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 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 SER A 53 REMARK 465 LYS A 54 REMARK 465 GLN A 55 REMARK 465 LEU A 56 REMARK 465 ASN A 57 REMARK 465 GLN A 58 REMARK 465 HIS A 59 REMARK 465 SER A 60 REMARK 465 SER A 61 REMARK 465 GLU A 62 REMARK 465 SER A 63 REMARK 465 ASN A 64 REMARK 465 PRO A 65 REMARK 465 LYS A 66 REMARK 465 LYS A 67 REMARK 465 ARG A 68 REMARK 465 LYS A 69 REMARK 465 ARG A 70 REMARK 465 LYS A 71 REMARK 465 GLN A 72 REMARK 465 LYS A 73 REMARK 465 ASN A 74 REMARK 465 SER A 75 REMARK 465 SER A 76 REMARK 465 PHE A 77 REMARK 465 HIS A 78 REMARK 465 LEU A 79 REMARK 465 PRO A 80 REMARK 465 SER A 81 REMARK 465 VAL A 82 REMARK 465 GLY A 83 REMARK 465 GLU A 84 REMARK 465 GLN A 85 REMARK 465 ALA A 86 REMARK 465 SER A 87 REMARK 465 SER A 119 REMARK 465 ASP A 120 REMARK 465 ASP A 121 REMARK 465 ASN A 122 REMARK 465 ASP A 123 REMARK 465 ASP A 124 REMARK 465 ASP A 125 REMARK 465 ASP A 126 REMARK 465 SER A 127 REMARK 465 SER A 128 REMARK 465 LEU A 129 REMARK 465 LEU A 130 REMARK 465 ASN A 131 REMARK 465 LYS A 132 REMARK 465 CYS A 133 REMARK 465 CYS A 134 REMARK 465 ASP A 135 REMARK 465 LEU A 160 REMARK 465 HIS A 161 REMARK 465 CYS A 162 REMARK 465 ASP A 163 REMARK 465 ASN A 164 REMARK 465 GLU A 165 REMARK 465 GLY A 166 REMARK 465 GLU A 167 REMARK 465 SER A 168 REMARK 465 CYS A 169 REMARK 465 ASN A 170 REMARK 465 ALA A 239 REMARK 465 SER A 240 REMARK 465 ALA A 241 REMARK 465 HIS A 242 REMARK 465 GLN A 243 REMARK 465 LYS A 244 REMARK 465 THR A 334 REMARK 465 GLU A 335 REMARK 465 LEU A 336 REMARK 465 ALA A 337 REMARK 465 GLY A 338 REMARK 465 SER A 339 REMARK 465 GLU A 340 REMARK 465 LYS A 341 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 HIS A 320 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 322 CG CD CE NZ 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 GLY A 359 C GLY A 359 O -0.096 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 389 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 389 NE - CZ - NH2 ANGL. DEV. = -4.4 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 ASN A 22 38.95 77.82 REMARK 500 TYR A 47 57.98 -110.69 REMARK 500 GLU A 108 60.85 -112.16 REMARK 500 ASN A 277 64.24 -66.52 REMARK 500 GLU A 401 54.44 -157.16 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 SFG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 504 DBREF 7CV8 A 1 414 UNP Q8LFA9 METL2_ARATH 1 414 SEQRES 1 A 414 MET ALA LYS THR ASP LYS LEU ALA GLN PHE LEU ASP SER SEQRES 2 A 414 GLY ILE TYR GLU SER ASP GLU PHE ASN TRP PHE PHE LEU SEQRES 3 A 414 ASP THR VAL ARG ILE THR ASN ARG SER TYR THR ARG PHE SEQRES 4 A 414 LYS VAL SER PRO SER ALA TYR TYR SER ARG PHE PHE ASN SEQRES 5 A 414 SER LYS GLN LEU ASN GLN HIS SER SER GLU SER ASN PRO SEQRES 6 A 414 LYS LYS ARG LYS ARG LYS GLN LYS ASN SER SER PHE HIS SEQRES 7 A 414 LEU PRO SER VAL GLY GLU GLN ALA SER ASN LEU ARG HIS SEQRES 8 A 414 GLN GLU ALA ARG LEU PHE LEU SER LYS ALA HIS GLU SER SEQRES 9 A 414 PHE LEU LYS GLU ILE GLU LEU LEU SER LEU THR LYS GLY SEQRES 10 A 414 LEU SER ASP ASP ASN ASP ASP ASP ASP SER SER LEU LEU SEQRES 11 A 414 ASN LYS CYS CYS ASP ASP GLU VAL SER PHE ILE GLU LEU SEQRES 12 A 414 GLY GLY VAL TRP GLN ALA PRO PHE TYR GLU ILE THR LEU SEQRES 13 A 414 SER PHE ASN LEU HIS CYS ASP ASN GLU GLY GLU SER CYS SEQRES 14 A 414 ASN GLU GLN ARG VAL PHE GLN VAL PHE ASN ASN LEU VAL SEQRES 15 A 414 VAL ASN GLU ILE GLY GLU GLU VAL GLU ALA GLU PHE SER SEQRES 16 A 414 ASN ARG ARG TYR ILE MET PRO ARG ASN SER CYS PHE TYR SEQRES 17 A 414 MET SER ASP LEU HIS HIS ILE ARG ASN LEU VAL PRO ALA SEQRES 18 A 414 LYS SER GLU GLU GLY TYR ASN LEU ILE VAL ILE ASP PRO SEQRES 19 A 414 PRO TRP GLU ASN ALA SER ALA HIS GLN LYS SER LYS TYR SEQRES 20 A 414 PRO THR LEU PRO ASN GLN TYR PHE LEU SER LEU PRO ILE SEQRES 21 A 414 LYS GLN LEU ALA HIS ALA GLU GLY ALA LEU VAL ALA LEU SEQRES 22 A 414 TRP VAL THR ASN ARG GLU LYS LEU LEU SER PHE VAL GLU SEQRES 23 A 414 LYS GLU LEU PHE PRO ALA TRP GLY ILE LYS TYR VAL ALA SEQRES 24 A 414 THR MET TYR TRP LEU LYS VAL LYS PRO ASP GLY THR LEU SEQRES 25 A 414 ILE CYS ASP LEU ASP LEU VAL HIS HIS LYS PRO TYR GLU SEQRES 26 A 414 TYR LEU LEU LEU GLY TYR HIS PHE THR GLU LEU ALA GLY SEQRES 27 A 414 SER GLU LYS ARG SER ASP PHE LYS LEU LEU ASP LYS ASN SEQRES 28 A 414 GLN ILE ILE MET SER ILE PRO GLY ASP PHE SER ARG LYS SEQRES 29 A 414 PRO PRO ILE GLY ASP ILE LEU LEU LYS HIS THR PRO GLY SEQRES 30 A 414 SER GLN PRO ALA ARG CYS LEU GLU LEU PHE ALA ARG GLU SEQRES 31 A 414 MET ALA ALA GLY TRP THR SER TRP GLY ASN GLU PRO LEU SEQRES 32 A 414 HIS PHE GLN ASP SER ARG TYR PHE LEU LYS VAL HET SFG A 501 27 HET GOL A 502 6 HET GOL A 503 6 HET GOL A 504 6 HETNAM SFG SINEFUNGIN HETNAM GOL GLYCEROL HETSYN SFG ADENOSYL-ORNITHINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 SFG C15 H23 N7 O5 FORMUL 3 GOL 3(C3 H8 O3) FORMUL 6 HOH *61(H2 O) HELIX 1 AA1 MET A 1 GLY A 14 1 14 HELIX 2 AA2 ASP A 27 ARG A 34 1 8 HELIX 3 AA3 SER A 42 TYR A 47 1 6 HELIX 4 AA4 SER A 48 ASN A 52 5 5 HELIX 5 AA5 LEU A 89 LYS A 107 1 19 HELIX 6 AA6 GLU A 108 SER A 113 1 6 HELIX 7 AA7 SER A 139 GLY A 144 1 6 HELIX 8 AA8 GLN A 148 PHE A 151 5 4 HELIX 9 AA9 ASP A 211 VAL A 219 5 9 HELIX 10 AB1 PRO A 251 LEU A 258 5 8 HELIX 11 AB2 PRO A 259 ALA A 264 1 6 HELIX 12 AB3 ARG A 278 GLU A 288 1 11 HELIX 13 AB4 GLU A 288 GLY A 294 1 7 HELIX 14 AB5 ILE A 367 LEU A 372 1 6 HELIX 15 AB6 LYS A 373 THR A 375 5 3 HELIX 16 AB7 LEU A 403 ARG A 409 5 7 SHEET 1 AA111 ILE A 15 GLU A 17 0 SHEET 2 AA111 TRP A 23 LEU A 26 -1 O PHE A 25 N TYR A 16 SHEET 3 AA111 GLN A 352 SER A 356 1 O MET A 355 N PHE A 24 SHEET 4 AA111 LYS A 296 LYS A 305 1 N LEU A 304 O ILE A 354 SHEET 5 AA111 TYR A 324 HIS A 332 -1 O LEU A 329 N ALA A 299 SHEET 6 AA111 ALA A 269 VAL A 275 -1 N VAL A 271 O GLY A 330 SHEET 7 AA111 LEU A 229 ILE A 232 1 N ILE A 230 O ALA A 272 SHEET 8 AA111 CYS A 383 LEU A 386 1 O LEU A 386 N VAL A 231 SHEET 9 AA111 TRP A 395 GLY A 399 1 O TRP A 398 N GLU A 385 SHEET 10 AA111 SER A 205 MET A 209 1 N CYS A 206 O SER A 397 SHEET 11 AA111 VAL A 182 ASN A 184 -1 N ASN A 184 O SER A 205 SHEET 1 AA2 2 PHE A 39 VAL A 41 0 SHEET 2 AA2 2 PHE A 411 LYS A 413 -1 O LEU A 412 N LYS A 40 SHEET 1 AA3 4 GLN A 172 GLN A 176 0 SHEET 2 AA3 4 GLU A 153 SER A 157 -1 N ILE A 154 O PHE A 175 SHEET 3 AA3 4 VAL A 190 PHE A 194 -1 O GLU A 191 N SER A 157 SHEET 4 AA3 4 ARG A 197 MET A 201 -1 O ARG A 197 N PHE A 194 CISPEP 1 GLN A 379 PRO A 380 0 -5.80 SITE 1 AC1 20 ILE A 141 ASP A 211 LEU A 212 ASP A 233 SITE 2 AC1 20 PRO A 235 PRO A 248 LEU A 250 SER A 362 SITE 3 AC1 20 ARG A 363 LYS A 364 PHE A 387 ARG A 389 SITE 4 AC1 20 TRP A 398 ASN A 400 GLU A 401 HOH A 602 SITE 5 AC1 20 HOH A 613 HOH A 617 HOH A 622 HOH A 631 SITE 1 AC2 6 PRO A 366 ILE A 367 GLY A 368 GLU A 385 SITE 2 AC2 6 TRP A 395 HOH A 647 SITE 1 AC3 6 GLU A 224 GLU A 225 GLY A 226 HIS A 265 SITE 2 AC3 6 ALA A 266 HOH A 601 SITE 1 AC4 3 PHE A 97 LYS A 350 ASN A 351 CRYST1 52.092 84.404 93.924 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 0.019197 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011848 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010647 0.00000 CONECT 2788 2789 CONECT 2789 2788 2790 2793 CONECT 2790 2789 2791 2792 CONECT 2791 2790 CONECT 2792 2790 CONECT 2793 2789 2794 CONECT 2794 2793 2795 CONECT 2795 2794 2796 2797 CONECT 2796 2795 CONECT 2797 2795 2798 CONECT 2798 2797 2799 2800 CONECT 2799 2798 2804 CONECT 2800 2798 2801 2802 CONECT 2801 2800 CONECT 2802 2800 2803 2804 CONECT 2803 2802 CONECT 2804 2799 2802 2805 CONECT 2805 2804 2806 2814 CONECT 2806 2805 2807 CONECT 2807 2806 2808 CONECT 2808 2807 2809 2814 CONECT 2809 2808 2810 2811 CONECT 2810 2809 CONECT 2811 2809 2812 CONECT 2812 2811 2813 CONECT 2813 2812 2814 CONECT 2814 2805 2808 2813 CONECT 2815 2816 2817 CONECT 2816 2815 CONECT 2817 2815 2818 2819 CONECT 2818 2817 CONECT 2819 2817 2820 CONECT 2820 2819 CONECT 2821 2822 2823 CONECT 2822 2821 CONECT 2823 2821 2824 2825 CONECT 2824 2823 CONECT 2825 2823 2826 CONECT 2826 2825 CONECT 2827 2828 2829 CONECT 2828 2827 CONECT 2829 2827 2830 2831 CONECT 2830 2829 CONECT 2831 2829 2832 CONECT 2832 2831 MASTER 427 0 4 16 17 0 10 6 2892 1 45 32 END