HEADER OXIDOREDUCTASE 18-JAN-10 3LFM TITLE CRYSTAL STRUCTURE OF THE FAT MASS AND OBESITY ASSOCIATED (FTO) PROTEIN TITLE 2 REVEALS BASIS FOR ITS SUBSTRATE SPECIFICITY COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN FTO; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 32-505; COMPND 5 SYNONYM: FAT MASS AND OBESITY-ASSOCIATED PROTEIN; COMPND 6 EC: 1.14.11.-; COMPND 7 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: FTO; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS FAT MASS AND OBESITY ASSOCIATED (FTO) PROTEIN, FE2+/2-OXOGLUTARATE KEYWDS 2 (2-OG)-DEPENDENT OXIDATIVE DNA/RNA DEMETHYLASES, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR J.CHAI,Z.HAN REVDAT 3 20-MAR-24 3LFM 1 REMARK SEQADV LINK REVDAT 2 28-APR-10 3LFM 1 JRNL REVDAT 1 07-APR-10 3LFM 0 JRNL AUTH Z.HAN,T.NIU,J.CHANG,X.LEI,M.ZHAO,Q.WANG,W.CHENG,J.WANG, JRNL AUTH 2 Y.FENG,J.CHAI JRNL TITL CRYSTAL STRUCTURE OF THE FTO PROTEIN REVEALS BASIS FOR ITS JRNL TITL 2 SUBSTRATE SPECIFICITY JRNL REF NATURE V. 464 1205 2010 JRNL REFN ISSN 0028-0836 JRNL PMID 20376003 JRNL DOI 10.1038/NATURE08921 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 21671 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 SET) : 0.239 REMARK 3 FREE R VALUE : 0.285 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1084 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3407 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 29 REMARK 3 SOLVENT ATOMS : 0 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.448 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3LFM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000057217. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-OCT-09; 29-OCT-09 REMARK 200 TEMPERATURE (KELVIN) : 298.00; NULL REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY; PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A; AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9; 0.9797 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE-CRYSTAL; SI(111) REMARK 200 DOUBLE-CRYSTAL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210; ADSC QUANTUM REMARK 200 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22011 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.490 REMARK 200 RESOLUTION RANGE LOW (A) : 99.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 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; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% (W/V) PEG 3350, 0.1M TRI-SODIUM REMARK 280 CITRATE DEHYDRATE PH5.6, 5.0MM 3-MET, 3.0MM NOG, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 71.43000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 41.24013 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 27.93333 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 71.43000 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 41.24013 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 27.93333 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 71.43000 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 41.24013 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 27.93333 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 82.48026 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 55.86667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 82.48026 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 55.86667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 82.48026 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 55.86667 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 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 11 REMARK 465 GLY A 12 REMARK 465 SER A 13 REMARK 465 SER A 14 REMARK 465 HIS A 15 REMARK 465 HIS A 16 REMARK 465 HIS A 17 REMARK 465 HIS A 18 REMARK 465 HIS A 19 REMARK 465 HIS A 20 REMARK 465 SER A 21 REMARK 465 SER A 22 REMARK 465 GLY A 23 REMARK 465 LEU A 24 REMARK 465 VAL A 25 REMARK 465 GLY A 122 REMARK 465 SER A 123 REMARK 465 ASN A 124 REMARK 465 ILE A 125 REMARK 465 LYS A 126 REMARK 465 HIS A 127 REMARK 465 THR A 128 REMARK 465 GLU A 129 REMARK 465 LYS A 160 REMARK 465 GLU A 161 REMARK 465 LYS A 162 REMARK 465 ALA A 163 REMARK 465 ASN A 164 REMARK 465 GLU A 165 REMARK 465 ASP A 166 REMARK 465 ALA A 167 REMARK 465 VAL A 168 REMARK 465 PRO A 169 REMARK 465 LEU A 170 REMARK 465 CYS A 171 REMARK 465 MET A 172 REMARK 465 SER A 173 REMARK 465 ALA A 174 REMARK 465 ASP A 175 REMARK 465 PHE A 176 REMARK 465 PRO A 177 REMARK 465 ARG A 178 REMARK 465 VAL A 179 REMARK 465 GLY A 180 REMARK 465 MET A 181 REMARK 465 GLY A 182 REMARK 465 SER A 183 REMARK 465 SER A 184 REMARK 465 TYR A 185 REMARK 465 ASN A 186 REMARK 465 GLY A 187 REMARK 465 GLN A 188 REMARK 465 GLY A 251 REMARK 465 PRO A 252 REMARK 465 GLU A 253 REMARK 465 GLU A 254 REMARK 465 GLU A 255 REMARK 465 SER A 256 REMARK 465 GLU A 257 REMARK 465 ASP A 258 REMARK 465 ASP A 259 REMARK 465 SER A 260 REMARK 465 HIS A 261 REMARK 465 LEU A 262 REMARK 465 GLU A 263 REMARK 465 GLY A 425 REMARK 465 LEU A 426 REMARK 465 PRO A 427 REMARK 465 LEU A 464 REMARK 465 LEU A 500 REMARK 465 LEU A 501 REMARK 465 GLU A 502 REMARK 465 ALA A 503 REMARK 465 LYS A 504 REMARK 465 PRO A 505 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 ARG A 27 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 121 CG CD CE NZ REMARK 470 ASP A 189 CG OD1 OD2 REMARK 470 GLN A 499 CG CD OE1 NE2 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 O GLN A 430 N ASN A 432 2.08 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 VAL A 428 CA VAL A 428 CB -0.262 REMARK 500 VAL A 428 CB VAL A 428 CG1 -0.134 REMARK 500 VAL A 428 CB VAL A 428 CG2 -0.240 REMARK 500 GLU A 429 C GLU A 429 O -0.163 REMARK 500 GLN A 430 C GLN A 430 O -0.126 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 27 N - CA - C ANGL. DEV. = -25.8 DEGREES REMARK 500 VAL A 116 N - CA - C ANGL. DEV. = -18.9 DEGREES REMARK 500 GLU A 429 OE1 - CD - OE2 ANGL. DEV. = -8.0 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 TYR A 46 37.88 -149.47 REMARK 500 SER A 55 1.53 -64.07 REMARK 500 ASN A 110 -2.79 64.67 REMARK 500 PRO A 119 48.38 -47.87 REMARK 500 ASP A 208 -173.12 78.19 REMARK 500 PRO A 209 89.42 -68.33 REMARK 500 GLN A 210 23.24 49.17 REMARK 500 LYS A 211 -10.96 -49.20 REMARK 500 ARG A 239 18.12 57.51 REMARK 500 TRP A 278 -23.64 66.82 REMARK 500 GLN A 291 109.21 -46.57 REMARK 500 ASP A 299 -134.01 59.27 REMARK 500 SER A 318 143.52 -179.55 REMARK 500 THR A 328 15.97 52.41 REMARK 500 ASP A 350 78.95 -101.17 REMARK 500 ASN A 351 -156.66 -127.90 REMARK 500 ASP A 353 54.99 -98.00 REMARK 500 PRO A 361 -34.05 -35.90 REMARK 500 TRP A 378 -60.45 -126.21 REMARK 500 ASN A 387 94.71 -65.64 REMARK 500 ARG A 388 -80.93 -128.17 REMARK 500 LYS A 422 76.55 -111.95 REMARK 500 GLU A 429 -32.03 -147.09 REMARK 500 ARG A 431 24.49 -59.88 REMARK 500 GLN A 457 54.05 -96.31 REMARK 500 CYS A 472 46.24 -91.93 REMARK 500 PHE A 487 27.47 -72.10 REMARK 500 ASP A 488 -109.56 61.47 REMARK 500 LEU A 489 13.67 85.14 REMARK 500 THR A 490 -137.83 90.65 REMARK 500 ASP A 491 -48.76 69.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 A 507 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 231 NE2 REMARK 620 2 ASP A 233 OD1 90.1 REMARK 620 3 HIS A 307 NE2 80.7 111.3 REMARK 620 4 OGA A1550 O2' 80.4 154.4 90.7 REMARK 620 5 OGA A1550 O2 92.8 87.7 159.8 69.3 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3DT A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OGA A 1550 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 A 507 DBREF 3LFM A 32 505 UNP Q9C0B1 FTO_HUMAN 32 505 SEQADV 3LFM MET A 11 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM GLY A 12 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM SER A 13 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM SER A 14 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM HIS A 15 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM HIS A 16 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM HIS A 17 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM HIS A 18 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM HIS A 19 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM HIS A 20 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM SER A 21 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM SER A 22 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM GLY A 23 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM LEU A 24 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM VAL A 25 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM PRO A 26 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM ARG A 27 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM GLY A 28 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM SER A 29 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM HIS A 30 UNP Q9C0B1 EXPRESSION TAG SEQADV 3LFM MET A 31 UNP Q9C0B1 EXPRESSION TAG SEQRES 1 A 495 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 495 LEU VAL PRO ARG GLY SER HIS MET THR PRO LYS ASP ASP SEQRES 3 A 495 GLU PHE TYR GLN GLN TRP GLN LEU LYS TYR PRO LYS LEU SEQRES 4 A 495 ILE LEU ARG GLU ALA SER SER VAL SER GLU GLU LEU HIS SEQRES 5 A 495 LYS GLU VAL GLN GLU ALA PHE LEU THR LEU HIS LYS HIS SEQRES 6 A 495 GLY CYS LEU PHE ARG ASP LEU VAL ARG ILE GLN GLY LYS SEQRES 7 A 495 ASP LEU LEU THR PRO VAL SER ARG ILE LEU ILE GLY ASN SEQRES 8 A 495 PRO GLY CYS THR TYR LYS TYR LEU ASN THR ARG LEU PHE SEQRES 9 A 495 THR VAL PRO TRP PRO VAL LYS GLY SER ASN ILE LYS HIS SEQRES 10 A 495 THR GLU ALA GLU ILE ALA ALA ALA CYS GLU THR PHE LEU SEQRES 11 A 495 LYS LEU ASN ASP TYR LEU GLN ILE GLU THR ILE GLN ALA SEQRES 12 A 495 LEU GLU GLU LEU ALA ALA LYS GLU LYS ALA ASN GLU ASP SEQRES 13 A 495 ALA VAL PRO LEU CYS MET SER ALA ASP PHE PRO ARG VAL SEQRES 14 A 495 GLY MET GLY SER SER TYR ASN GLY GLN ASP GLU VAL ASP SEQRES 15 A 495 ILE LYS SER ARG ALA ALA TYR ASN VAL THR LEU LEU ASN SEQRES 16 A 495 PHE MET ASP PRO GLN LYS MET PRO TYR LEU LYS GLU GLU SEQRES 17 A 495 PRO TYR PHE GLY MET GLY LYS MET ALA VAL SER TRP HIS SEQRES 18 A 495 HIS ASP GLU ASN LEU VAL ASP ARG SER ALA VAL ALA VAL SEQRES 19 A 495 TYR SER TYR SER CYS GLU GLY PRO GLU GLU GLU SER GLU SEQRES 20 A 495 ASP ASP SER HIS LEU GLU GLY ARG ASP PRO ASP ILE TRP SEQRES 21 A 495 HIS VAL GLY PHE LYS ILE SER TRP ASP ILE GLU THR PRO SEQRES 22 A 495 GLY LEU ALA ILE PRO LEU HIS GLN GLY ASP CYS TYR PHE SEQRES 23 A 495 MET LEU ASP ASP LEU ASN ALA THR HIS GLN HIS CYS VAL SEQRES 24 A 495 LEU ALA GLY SER GLN PRO ARG PHE SER SER THR HIS ARG SEQRES 25 A 495 VAL ALA GLU CYS SER THR GLY THR LEU ASP TYR ILE LEU SEQRES 26 A 495 GLN ARG CYS GLN LEU ALA LEU GLN ASN VAL CYS ASP ASP SEQRES 27 A 495 VAL ASP ASN ASP ASP VAL SER LEU LYS SER PHE GLU PRO SEQRES 28 A 495 ALA VAL LEU LYS GLN GLY GLU GLU ILE HIS ASN GLU VAL SEQRES 29 A 495 GLU PHE GLU TRP LEU ARG GLN PHE TRP PHE GLN GLY ASN SEQRES 30 A 495 ARG TYR ARG LYS CYS THR ASP TRP TRP CYS GLN PRO MET SEQRES 31 A 495 ALA GLN LEU GLU ALA LEU TRP LYS LYS MET GLU GLY VAL SEQRES 32 A 495 THR ASN ALA VAL LEU HIS GLU VAL LYS ARG GLU GLY LEU SEQRES 33 A 495 PRO VAL GLU GLN ARG ASN GLU ILE LEU THR ALA ILE LEU SEQRES 34 A 495 ALA SER LEU THR ALA ARG GLN ASN LEU ARG ARG GLU TRP SEQRES 35 A 495 HIS ALA ARG CYS GLN SER ARG ILE ALA ARG THR LEU PRO SEQRES 36 A 495 ALA ASP GLN LYS PRO GLU CYS ARG PRO TYR TRP GLU LYS SEQRES 37 A 495 ASP ASP ALA SER MET PRO LEU PRO PHE ASP LEU THR ASP SEQRES 38 A 495 ILE VAL SER GLU LEU ARG GLY GLN LEU LEU GLU ALA LYS SEQRES 39 A 495 PRO HET 3DT A 506 18 HET OGA A1550 10 HET FE2 A 507 1 HETNAM 3DT 3-METHYLTHYMIDINE HETNAM OGA N-OXALYLGLYCINE HETNAM FE2 FE (II) ION FORMUL 2 3DT C11 H16 N2 O5 FORMUL 3 OGA C4 H5 N O5 FORMUL 4 FE2 FE 2+ HELIX 1 1 ASP A 36 TYR A 46 1 11 HELIX 2 2 GLU A 53 VAL A 57 5 5 HELIX 3 3 SER A 58 HIS A 75 1 18 HELIX 4 4 ARG A 84 LYS A 88 5 5 HELIX 5 5 ALA A 130 ALA A 159 1 30 HELIX 6 6 ASP A 189 ALA A 197 1 9 HELIX 7 7 ASP A 300 THR A 304 1 5 HELIX 8 8 THR A 330 LEU A 342 1 13 HELIX 9 9 GLN A 343 VAL A 345 5 3 HELIX 10 10 GLU A 360 TRP A 378 1 19 HELIX 11 11 TRP A 378 GLN A 385 1 8 HELIX 12 12 ARG A 388 CYS A 392 5 5 HELIX 13 13 TRP A 396 LYS A 422 1 27 HELIX 14 14 ILE A 438 GLN A 457 1 20 HELIX 15 15 ARG A 459 THR A 463 5 5 HELIX 16 16 ASP A 491 LEU A 496 1 6 SHEET 1 A 5 HIS A 30 MET A 31 0 SHEET 2 A 5 GLY A 284 LEU A 289 1 O ALA A 286 N MET A 31 SHEET 3 A 5 TRP A 270 ILE A 276 -1 N TRP A 270 O LEU A 289 SHEET 4 A 5 HIS A 305 LEU A 310 -1 O GLN A 306 N LYS A 275 SHEET 5 A 5 MET A 226 HIS A 231 -1 N ALA A 227 O VAL A 309 SHEET 1 B 7 LEU A 49 ARG A 52 0 SHEET 2 B 7 CYS A 294 MET A 297 -1 O CYS A 294 N ARG A 52 SHEET 3 B 7 VAL A 242 SER A 248 -1 N VAL A 242 O MET A 297 SHEET 4 B 7 ARG A 316 ARG A 322 -1 O PHE A 317 N TYR A 247 SHEET 5 B 7 VAL A 201 MET A 207 -1 N LEU A 203 O THR A 320 SHEET 6 B 7 SER A 95 GLY A 100 -1 N ILE A 99 O THR A 202 SHEET 7 B 7 VAL A 116 PRO A 117 1 O VAL A 116 N LEU A 98 SHEET 1 C 2 LEU A 82 VAL A 83 0 SHEET 2 C 2 LEU A 90 LEU A 91 -1 O LEU A 90 N VAL A 83 SHEET 1 D 2 THR A 105 TYR A 108 0 SHEET 2 D 2 THR A 111 PHE A 114 -1 O THR A 111 N TYR A 108 LINK NE2 HIS A 231 FE FE2 A 507 1555 1555 2.78 LINK OD1 ASP A 233 FE FE2 A 507 1555 1555 2.14 LINK NE2 HIS A 307 FE FE2 A 507 1555 1555 2.68 LINK FE FE2 A 507 O2' OGA A1550 1555 1555 2.17 LINK FE FE2 A 507 O2 OGA A1550 1555 1555 2.72 CISPEP 1 ASP A 208 PRO A 209 0 0.10 CISPEP 2 ARG A 473 PRO A 474 0 0.00 SITE 1 AC1 11 ARG A 96 TYR A 106 TYR A 108 LEU A 109 SITE 2 AC1 11 VAL A 228 HIS A 231 HIS A 232 ASP A 233 SITE 3 AC1 11 GLU A 234 ARG A 322 OGA A1550 SITE 1 AC2 13 ARG A 96 ASN A 205 HIS A 231 ASP A 233 SITE 2 AC2 13 VAL A 244 TYR A 295 HIS A 307 ARG A 316 SITE 3 AC2 13 SER A 318 THR A 320 ARG A 322 3DT A 506 SITE 4 AC2 13 FE2 A 507 SITE 1 AC3 4 HIS A 231 ASP A 233 HIS A 307 OGA A1550 CRYST1 142.860 142.860 83.800 90.00 90.00 120.00 H 3 9 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 0.007000 0.004041 0.000000 0.00000 SCALE2 0.000000 0.008083 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011933 0.00000