HEADER OXIDOREDUCTASE 16-APR-20 6YPV TITLE ALPHA-KETOGLUTARATE-DEPENDENT DIOXYGENASE ALKB IN COMPLEX WITH FE AND TITLE 2 AKG AFTER OXYGEN EXPOSURE USING FT-SSX METHODS COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-KETOGLUTARATE-DEPENDENT DIOXYGENASE ALKB; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ALKYLATED DNA REPAIR PROTEIN ALKB,DNA OXIDATIVE DEMETHYLASE COMPND 5 ALKB; COMPND 6 EC: 1.14.11.33; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI (STRAIN K12); SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: ALKB, AIDD, B2212, JW2200; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET24A KEYWDS IRON DEPENDENT DIOXYGENASE, DNA REPAIT, 2-OXOGLUTARATE, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR P.RABE,J.H.BEALE,P.A.LANG,A.S.DIRR,T.M.LEISSING,A.BUTRYN,P.ALLER, AUTHOR 2 J.J.A.G.KAMPS,D.AXFORD,M.A.MCDONOUGH,A.M.ORVILLE,R.OWEN, AUTHOR 3 C.J.SCHOFIELD REVDAT 3 24-JAN-24 6YPV 1 REMARK REVDAT 2 30-SEP-20 6YPV 1 JRNL REVDAT 1 09-SEP-20 6YPV 0 JRNL AUTH P.RABE,J.H.BEALE,A.BUTRYN,P.ALLER,A.DIRR,P.A.LANG, JRNL AUTH 2 D.N.AXFORD,S.B.CARR,T.M.LEISSING,M.A.MCDONOUGH,B.DAVY, JRNL AUTH 3 A.EBRAHIM,J.ORLANS,S.L.S.STORM,A.M.ORVILLE,C.J.SCHOFIELD, JRNL AUTH 4 R.L.OWEN JRNL TITL ANAEROBIC FIXED-TARGET SERIAL CRYSTALLOGRAPHY. JRNL REF IUCRJ V. 7 901 2020 JRNL REFN ESSN 2052-2525 JRNL PMID 32939282 JRNL DOI 10.1107/S2052252520010374 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.35 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.980 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 11819 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.990 REMARK 3 FREE R VALUE TEST SET COUNT : 1181 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 39.3500 - 4.2000 1.00 1332 147 0.1923 0.2069 REMARK 3 2 4.2000 - 3.3300 1.00 1343 149 0.1863 0.2211 REMARK 3 3 3.3300 - 2.9100 1.00 1320 143 0.2162 0.2530 REMARK 3 4 2.9100 - 2.6500 1.00 1308 149 0.2382 0.2601 REMARK 3 5 2.6500 - 2.4600 1.00 1339 146 0.2543 0.3025 REMARK 3 6 2.4600 - 2.3100 1.00 1321 150 0.2509 0.2895 REMARK 3 7 2.3100 - 2.2000 1.00 1316 146 0.2550 0.3485 REMARK 3 8 2.2000 - 2.1000 1.00 1359 151 0.2850 0.2880 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 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) : 0.260 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.351 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.04 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.83 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 : 0.004 1566 REMARK 3 ANGLE : 0.532 2142 REMARK 3 CHIRALITY : 0.043 229 REMARK 3 PLANARITY : 0.003 289 REMARK 3 DIHEDRAL : 14.015 923 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 15 THROUGH 29 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.1327 13.4822 -3.1778 REMARK 3 T TENSOR REMARK 3 T11: 0.1970 T22: 0.1691 REMARK 3 T33: 0.2228 T12: -0.0314 REMARK 3 T13: 0.0011 T23: 0.0890 REMARK 3 L TENSOR REMARK 3 L11: 1.3891 L22: 3.7456 REMARK 3 L33: 7.4714 L12: -0.7457 REMARK 3 L13: 1.8279 L23: 1.0008 REMARK 3 S TENSOR REMARK 3 S11: -0.1112 S12: 0.1484 S13: 0.2367 REMARK 3 S21: -0.0475 S22: 0.1756 S23: -0.1627 REMARK 3 S31: -0.5338 S32: -0.4509 S33: -0.1600 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 30 THROUGH 64 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.5079 -8.0339 -6.8419 REMARK 3 T TENSOR REMARK 3 T11: 0.1736 T22: 0.1302 REMARK 3 T33: 0.1075 T12: 0.0055 REMARK 3 T13: -0.0353 T23: -0.0094 REMARK 3 L TENSOR REMARK 3 L11: 6.2914 L22: 6.5783 REMARK 3 L33: 0.6541 L12: 1.9635 REMARK 3 L13: -0.4208 L23: -0.3511 REMARK 3 S TENSOR REMARK 3 S11: -0.0253 S12: -0.1164 S13: -0.1708 REMARK 3 S21: -0.2779 S22: -0.0083 S23: -0.0128 REMARK 3 S31: 0.0356 S32: 0.0244 S33: 0.0415 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 65 THROUGH 79 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.0688 -12.0560 5.8117 REMARK 3 T TENSOR REMARK 3 T11: 0.3329 T22: 0.2637 REMARK 3 T33: 0.2842 T12: -0.0596 REMARK 3 T13: -0.0693 T23: 0.1151 REMARK 3 L TENSOR REMARK 3 L11: 5.5079 L22: 5.9622 REMARK 3 L33: 7.9108 L12: 1.2170 REMARK 3 L13: -4.4881 L23: -1.1129 REMARK 3 S TENSOR REMARK 3 S11: 0.2078 S12: -0.6983 S13: -0.9239 REMARK 3 S21: 0.5883 S22: -0.1901 S23: 0.0807 REMARK 3 S31: 0.1843 S32: -0.0990 S33: 0.0524 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 80 THROUGH 93 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.8311 -14.1346 -3.1721 REMARK 3 T TENSOR REMARK 3 T11: 0.1472 T22: 0.1558 REMARK 3 T33: 0.2608 T12: 0.0279 REMARK 3 T13: 0.0226 T23: -0.0328 REMARK 3 L TENSOR REMARK 3 L11: 4.5271 L22: 7.6415 REMARK 3 L33: 4.3878 L12: 4.6368 REMARK 3 L13: -2.8994 L23: -5.3309 REMARK 3 S TENSOR REMARK 3 S11: 0.0186 S12: 0.0039 S13: -0.0428 REMARK 3 S21: -0.3830 S22: 0.0010 S23: -0.2504 REMARK 3 S31: 0.0211 S32: -0.0674 S33: 0.0283 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 94 THROUGH 106 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.4255 6.7980 -4.0477 REMARK 3 T TENSOR REMARK 3 T11: 0.1645 T22: 0.2039 REMARK 3 T33: 0.2997 T12: -0.0400 REMARK 3 T13: 0.0116 T23: 0.0203 REMARK 3 L TENSOR REMARK 3 L11: 2.0049 L22: 4.3448 REMARK 3 L33: 7.4808 L12: -1.2576 REMARK 3 L13: -0.6419 L23: 5.4623 REMARK 3 S TENSOR REMARK 3 S11: -0.1374 S12: 0.0914 S13: 0.5675 REMARK 3 S21: -0.4843 S22: 0.4822 S23: -0.8734 REMARK 3 S31: -0.4547 S32: 0.5087 S33: -0.3532 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 107 THROUGH 123 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.9485 1.3879 0.4713 REMARK 3 T TENSOR REMARK 3 T11: 0.1473 T22: 0.1653 REMARK 3 T33: 0.1459 T12: 0.0096 REMARK 3 T13: 0.0179 T23: 0.0244 REMARK 3 L TENSOR REMARK 3 L11: 3.4747 L22: 3.3019 REMARK 3 L33: 1.7087 L12: -1.9488 REMARK 3 L13: -0.5660 L23: -0.8458 REMARK 3 S TENSOR REMARK 3 S11: -0.0008 S12: 0.0432 S13: 0.0372 REMARK 3 S21: 0.3333 S22: 0.0149 S23: -0.4014 REMARK 3 S31: 0.1837 S32: 0.2555 S33: -0.0261 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 124 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.2746 3.8343 1.2950 REMARK 3 T TENSOR REMARK 3 T11: 0.1806 T22: 0.1760 REMARK 3 T33: 0.1746 T12: 0.0025 REMARK 3 T13: 0.0082 T23: 0.0459 REMARK 3 L TENSOR REMARK 3 L11: 2.1532 L22: 1.3358 REMARK 3 L33: 2.0789 L12: -0.0416 REMARK 3 L13: 0.5540 L23: 0.7319 REMARK 3 S TENSOR REMARK 3 S11: -0.0325 S12: -0.2881 S13: 0.0014 REMARK 3 S21: 0.0949 S22: 0.0856 S23: 0.0491 REMARK 3 S31: -0.0103 S32: -0.1750 S33: -0.0433 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 6YPV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-APR-20. REMARK 100 THE DEPOSITION ID IS D_1292105374. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-SEP-19 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.96863 REMARK 200 MONOCHROMATOR : SI111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS 1.8 REMARK 200 DATA SCALING SOFTWARE : DIALS 1.8 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11994 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 39.350 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 25.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 48.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 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 : 8.795 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4JHT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% W/V PEG 3350, 5% V/V GLYCEROL AND REMARK 280 200 MM SODIUM ORMATE, BATCH MODE, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: 550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 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 MET A 1 REMARK 465 LEU A 2 REMARK 465 ASP A 3 REMARK 465 LEU A 4 REMARK 465 PHE A 5 REMARK 465 ALA A 6 REMARK 465 ASP A 7 REMARK 465 ALA A 8 REMARK 465 GLU A 9 REMARK 465 PRO A 10 REMARK 465 TRP A 11 REMARK 465 GLN A 12 REMARK 465 GLU A 13 REMARK 465 PRO A 14 REMARK 465 LYS A 214 REMARK 465 LYS A 215 REMARK 465 GLU A 216 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 LEU A 15 CG CD1 CD2 REMARK 470 ARG A 24 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 35 CD NE CZ NH1 NH2 REMARK 470 TYR A 55 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 73 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 77 CG CD1 CD2 REMARK 470 ASN A 98 CG OD1 ND2 REMARK 470 GLN A 101 CD OE1 NE2 REMARK 470 GLN A 113 CG CD OE1 NE2 REMARK 470 LYS A 127 CD CE NZ REMARK 470 LEU A 130 CG CD1 CD2 REMARK 470 LYS A 134 CE NZ REMARK 470 ARG A 140 CZ NH1 NH2 REMARK 470 LYS A 160 CD CE NZ REMARK 470 ASN A 162 CG OD1 ND2 REMARK 470 LYS A 166 CE NZ REMARK 470 LEU A 184 CD1 CD2 REMARK 470 LYS A 193 CG CD CE NZ 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 ASP A 133 HH12 ARG A 183 1.60 REMARK 500 O HOH A 463 O HOH A 471 2.09 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 ILE A 201 -75.31 72.70 REMARK 500 ASP A 202 23.95 -143.32 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 472 DISTANCE = 5.90 ANGSTROMS 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 FE A 301 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 131 NE2 REMARK 620 2 ASP A 133 OD2 118.5 REMARK 620 3 HIS A 187 NE2 87.8 87.2 REMARK 620 4 AKG A 302 O2 91.9 103.7 167.6 REMARK 620 5 AKG A 302 O5 87.0 154.5 92.0 75.7 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 FE A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AKG A 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4JHT RELATED DB: PDB DBREF 6YPV A 1 216 UNP P05050 ALKB_ECOLI 1 216 SEQRES 1 A 216 MET LEU ASP LEU PHE ALA ASP ALA GLU PRO TRP GLN GLU SEQRES 2 A 216 PRO LEU ALA ALA GLY ALA VAL ILE LEU ARG ARG PHE ALA SEQRES 3 A 216 PHE ASN ALA ALA GLU GLN LEU ILE ARG ASP ILE ASN ASP SEQRES 4 A 216 VAL ALA SER GLN SER PRO PHE ARG GLN MET VAL THR PRO SEQRES 5 A 216 GLY GLY TYR THR MET SER VAL ALA MET THR ASN CYS GLY SEQRES 6 A 216 HIS LEU GLY TRP THR THR HIS ARG GLN GLY TYR LEU TYR SEQRES 7 A 216 SER PRO ILE ASP PRO GLN THR ASN LYS PRO TRP PRO ALA SEQRES 8 A 216 MET PRO GLN SER PHE HIS ASN LEU CYS GLN ARG ALA ALA SEQRES 9 A 216 THR ALA ALA GLY TYR PRO ASP PHE GLN PRO ASP ALA CYS SEQRES 10 A 216 LEU ILE ASN ARG TYR ALA PRO GLY ALA LYS LEU SER LEU SEQRES 11 A 216 HIS GLN ASP LYS ASP GLU PRO ASP LEU ARG ALA PRO ILE SEQRES 12 A 216 VAL SER VAL SER LEU GLY LEU PRO ALA ILE PHE GLN PHE SEQRES 13 A 216 GLY GLY LEU LYS ARG ASN ASP PRO LEU LYS ARG LEU LEU SEQRES 14 A 216 LEU GLU HIS GLY ASP VAL VAL VAL TRP GLY GLY GLU SER SEQRES 15 A 216 ARG LEU PHE TYR HIS GLY ILE GLN PRO LEU LYS ALA GLY SEQRES 16 A 216 PHE HIS PRO LEU THR ILE ASP CYS ARG TYR ASN LEU THR SEQRES 17 A 216 PHE ARG GLN ALA GLY LYS LYS GLU HET FE A 301 1 HET AKG A 302 14 HETNAM FE FE (III) ION HETNAM AKG 2-OXOGLUTARIC ACID FORMUL 2 FE FE 3+ FORMUL 3 AKG C5 H6 O5 FORMUL 4 HOH *72(H2 O) HELIX 1 AA1 ALA A 29 SER A 44 1 16 HELIX 2 AA2 PRO A 93 ALA A 107 1 15 HELIX 3 AA3 GLY A 180 PHE A 185 5 6 SHEET 1 AA1 6 ALA A 19 LEU A 22 0 SHEET 2 AA1 6 VAL A 175 TRP A 178 -1 O VAL A 175 N LEU A 22 SHEET 3 AA1 6 ILE A 143 GLY A 149 -1 N SER A 145 O VAL A 176 SHEET 4 AA1 6 ARG A 204 ARG A 210 -1 O PHE A 209 N VAL A 144 SHEET 5 AA1 6 ALA A 116 TYR A 122 -1 N TYR A 122 O ARG A 204 SHEET 6 AA1 6 ALA A 60 GLY A 65 -1 N THR A 62 O ILE A 119 SHEET 1 AA2 2 GLY A 68 THR A 71 0 SHEET 2 AA2 2 TYR A 76 SER A 79 -1 O LEU A 77 N THR A 70 SHEET 1 AA3 4 LEU A 128 HIS A 131 0 SHEET 2 AA3 4 HIS A 187 ILE A 189 -1 O ILE A 189 N LEU A 128 SHEET 3 AA3 4 ALA A 152 PHE A 156 -1 N GLN A 155 O GLY A 188 SHEET 4 AA3 4 LYS A 166 LEU A 170 -1 O LYS A 166 N PHE A 156 LINK NE2 HIS A 131 FE FE A 301 1555 1555 2.36 LINK OD2 ASP A 133 FE FE A 301 1555 1555 1.97 LINK NE2 HIS A 187 FE FE A 301 1555 1555 2.11 LINK FE FE A 301 O2 AKG A 302 1555 1555 2.23 LINK FE FE A 301 O5 AKG A 302 1555 1555 2.28 SITE 1 AC1 4 HIS A 131 ASP A 133 HIS A 187 AKG A 302 SITE 1 AC2 13 LEU A 118 ASN A 120 TYR A 122 LEU A 128 SITE 2 AC2 13 HIS A 131 ASP A 133 HIS A 187 ILE A 189 SITE 3 AC2 13 ARG A 204 ASN A 206 ARG A 210 FE A 301 SITE 4 AC2 13 HOH A 407 CRYST1 37.037 39.107 40.860 78.14 76.04 66.51 P 1 1 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 0.027000 -0.011734 -0.005310 0.00000 SCALE2 0.000000 0.027881 -0.003452 0.00000 SCALE3 0.000000 0.000000 0.025411 0.00000