HEADER OXIDOREDUCTASE 05-APR-17 5XEG TITLE THE STRUCTURE OF OSALKBH1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: OXIDOREDUCTASE, 2OG-FE OXYGENASE FAMILY PROTEIN, PUTATIVE, COMPND 3 EXPRESSED; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: UNP RESIDUES 141-371; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYZA SATIVA SUBSP. JAPONICA; SOURCE 3 ORGANISM_COMMON: RICE; SOURCE 4 ORGANISM_TAXID: 39947; SOURCE 5 GENE: LOC_OS03G60190, OSJ_13105; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OSALKBH1 FE(II)- AND-KETOGLUTARATE-DEPENDENT DIOXYGENASES, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR C.WANG,Y.GUO,Z.ZENG REVDAT 3 22-NOV-23 5XEG 1 REMARK REVDAT 2 19-DEC-18 5XEG 1 JRNL REVDAT 1 13-JUN-18 5XEG 0 JRNL AUTH C.ZHOU,C.WANG,H.LIU,Q.ZHOU,Q.LIU,Y.GUO,T.PENG,J.SONG, JRNL AUTH 2 J.ZHANG,L.CHEN,Y.ZHAO,Z.ZENG,D.X.ZHOU JRNL TITL IDENTIFICATION AND ANALYSIS OF ADENINE N6-METHYLATION SITES JRNL TITL 2 IN THE RICE GENOME. JRNL REF NAT PLANTS V. 4 554 2018 JRNL REFN ESSN 2055-0278 JRNL PMID 30061746 JRNL DOI 10.1038/S41477-018-0214-X REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 19808 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 979 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.84 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1399 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.21 REMARK 3 BIN R VALUE (WORKING SET) : 0.1610 REMARK 3 BIN FREE R VALUE SET COUNT : 71 REMARK 3 BIN FREE R VALUE : 0.2670 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1710 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 11 REMARK 3 SOLVENT ATOMS : 210 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.24000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 1.18000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.02000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.118 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.119 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.076 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.420 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1756 ; 0.020 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1698 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2366 ; 2.051 ; 1.991 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3928 ; 1.107 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 216 ; 6.672 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 76 ;33.979 ;24.079 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 310 ;12.794 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;12.448 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 254 ; 0.163 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1963 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 384 ; 0.002 ; 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): 873 ; 2.087 ; 2.079 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 872 ; 1.999 ; 2.077 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1086 ; 2.537 ; 3.102 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1087 ; 2.537 ; 3.103 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 883 ; 3.289 ; 2.479 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 879 ; 3.294 ; 2.482 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1277 ; 4.989 ; 3.566 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2017 ; 7.338 ;27.169 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2015 ; 7.341 ;27.167 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 REMARK 4 REMARK 4 5XEG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-APR-17. REMARK 100 THE DEPOSITION ID IS D_1300003385. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JAN-17 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 : 17-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20894 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : 0.03000 REMARK 200 FOR THE DATA SET : 32.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 1.80 REMARK 200 R MERGE FOR SHELL (I) : 0.17000 REMARK 200 R SYM FOR SHELL (I) : 0.10600 REMARK 200 FOR SHELL : 6.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 3KHB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MPD(2-METHYL-1,3-PROPANEDIOL), HEPES REMARK 280 SODIUM, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 25.07500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.86450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 25.07500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 33.86450 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: 520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 657 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 709 LIES ON A SPECIAL POSITION. 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 LYS A 141 REMARK 465 GLU A 142 REMARK 465 ALA A 143 REMARK 465 ALA A 144 REMARK 465 PRO A 145 REMARK 465 LEU A 146 REMARK 465 ASN A 207 REMARK 465 SER A 208 REMARK 465 ARG A 209 REMARK 465 PRO A 250 REMARK 465 ALA A 251 REMARK 465 HIS A 371 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 ASP A 163 CG OD1 OD2 REMARK 470 ARG A 249 CG CD NE CZ NH1 NH2 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 N SER A 210 O HOH A 501 1.66 REMARK 500 O GLN A 370 O HOH A 502 1.69 REMARK 500 C ARG A 249 O HOH A 660 2.04 REMARK 500 O HOH A 506 O HOH A 527 2.09 REMARK 500 OE1 GLU A 356 O HOH A 503 2.11 REMARK 500 O HOH A 509 O HOH A 640 2.13 REMARK 500 O HOH A 527 O HOH A 675 2.13 REMARK 500 O HOH A 531 O HOH A 665 2.16 REMARK 500 OE1 GLN A 147 O HOH A 504 2.17 REMARK 500 OE1 GLN A 165 O HOH A 505 2.17 REMARK 500 O HOH A 668 O HOH A 690 2.18 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 188 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 PRO A 206 C - N - CA ANGL. DEV. = 10.0 DEGREES REMARK 500 PRO A 206 C - N - CD ANGL. DEV. = -14.1 DEGREES REMARK 500 ARG A 363 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 369 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 369 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 GLN A 370 N - CA - CB ANGL. DEV. = 11.8 DEGREES REMARK 500 GLN A 370 CA - CB - CG ANGL. DEV. = 15.4 DEGREES REMARK 500 GLN A 370 N - CA - C ANGL. DEV. = -18.2 DEGREES 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 MN A 402 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 279 NE2 REMARK 620 2 ASP A 281 OD1 95.7 REMARK 620 3 HIS A 339 NE2 91.9 92.4 REMARK 620 4 AKG A 401 O1 94.3 103.8 162.0 REMARK 620 5 AKG A 401 O5 90.6 173.5 88.9 74.2 REMARK 620 6 HOH A 524 O 172.6 91.7 88.8 82.9 82.0 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AKG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 402 DBREF 5XEG A 141 371 UNP Q10BI6 Q10BI6_ORYSJ 141 371 SEQRES 1 A 231 LYS GLU ALA ALA PRO LEU GLN TYR LEU ARG PRO GLY MET SEQRES 2 A 231 VAL LEU LEU LYS LYS PHE LEU LYS HIS ASP ASP GLN VAL SEQRES 3 A 231 ASP ILE ILE ARG ARG CYS GLN LYS LEU GLY ILE GLY SER SEQRES 4 A 231 GLY GLY PHE TYR THR PRO GLY TYR ARG ASP GLY GLY LYS SEQRES 5 A 231 LEU SER LEU GLN MET MET CYS LEU GLY LYS ASN TRP ASP SEQRES 6 A 231 PRO ASN SER ARG SER TYR GLY ASP THR ARG PRO PHE ASP SEQRES 7 A 231 GLY ALA GLN PRO PRO SER ILE PRO GLU VAL PHE SER LYS SEQRES 8 A 231 ILE VAL LYS ASP ALA ILE GLN ALA SER ASN GLU PHE LEU SEQRES 9 A 231 ARG GLN LYS ALA ARG PRO ALA ASN ASP VAL GLU GLU LEU SEQRES 10 A 231 PRO PRO LEU SER PRO ASP ILE CYS LEU VAL ASN PHE TYR SEQRES 11 A 231 THR SER SER GLY LYS LEU GLY LEU HIS GLN ASP LYS ASP SEQRES 12 A 231 GLU THR LYS PRO SER LEU HIS LYS GLY LEU PRO VAL VAL SEQRES 13 A 231 SER PHE SER LEU GLY ASP THR ALA GLU PHE LEU TYR GLY SEQRES 14 A 231 ASP VAL ASN ASP VAL ASP LYS ALA SER LYS VAL ASP LEU SEQRES 15 A 231 GLU SER GLY ASP VAL LEU ILE PHE GLY GLY LYS SER ARG SEQRES 16 A 231 LEU ILE PHE HIS GLY VAL SER ARG ILE LYS PRO LYS THR SEQRES 17 A 231 ALA PRO ASN TRP LEU THR ASP GLU ALA LYS LEU ARG PRO SEQRES 18 A 231 GLY ARG LEU ASN LEU THR PHE ARG GLN HIS HET AKG A 401 10 HET MN A 402 1 HETNAM AKG 2-OXOGLUTARIC ACID HETNAM MN MANGANESE (II) ION FORMUL 2 AKG C5 H6 O5 FORMUL 3 MN MN 2+ FORMUL 4 HOH *210(H2 O) HELIX 1 AA1 LYS A 161 GLY A 178 1 18 HELIX 2 AA2 PRO A 226 ALA A 248 1 23 HELIX 3 AA3 THR A 285 GLY A 292 1 8 HELIX 4 AA4 ASP A 313 ALA A 317 5 5 HELIX 5 AA5 GLY A 332 ARG A 335 5 4 HELIX 6 AA6 PRO A 350 LYS A 358 1 9 SHEET 1 AA1 7 TYR A 148 ARG A 150 0 SHEET 2 AA1 7 MET A 153 LEU A 156 -1 O MET A 153 N LEU A 149 SHEET 3 AA1 7 VAL A 327 PHE A 330 -1 O VAL A 327 N LEU A 156 SHEET 4 AA1 7 VAL A 295 GLY A 301 -1 N SER A 297 O LEU A 328 SHEET 5 AA1 7 ARG A 363 ARG A 369 -1 O LEU A 366 N PHE A 298 SHEET 6 AA1 7 ILE A 264 HIS A 279 -1 N LEU A 266 O THR A 367 SHEET 7 AA1 7 LYS A 192 GLY A 201 -1 N GLN A 196 O PHE A 269 SHEET 1 AA2 9 TYR A 148 ARG A 150 0 SHEET 2 AA2 9 MET A 153 LEU A 156 -1 O MET A 153 N LEU A 149 SHEET 3 AA2 9 VAL A 327 PHE A 330 -1 O VAL A 327 N LEU A 156 SHEET 4 AA2 9 VAL A 295 GLY A 301 -1 N SER A 297 O LEU A 328 SHEET 5 AA2 9 ARG A 363 ARG A 369 -1 O LEU A 366 N PHE A 298 SHEET 6 AA2 9 ILE A 264 HIS A 279 -1 N LEU A 266 O THR A 367 SHEET 7 AA2 9 PHE A 338 ILE A 344 -1 O VAL A 341 N LEU A 276 SHEET 8 AA2 9 ALA A 304 GLY A 309 -1 N GLU A 305 O ARG A 343 SHEET 9 AA2 9 SER A 318 LEU A 322 -1 O SER A 318 N TYR A 308 SHEET 1 AA3 2 ASN A 203 TRP A 204 0 SHEET 2 AA3 2 TYR A 211 GLY A 212 -1 O GLY A 212 N ASN A 203 LINK NE2 HIS A 279 MN MN A 402 1555 1555 2.29 LINK OD1 ASP A 281 MN MN A 402 1555 1555 2.19 LINK NE2 HIS A 339 MN MN A 402 1555 1555 2.22 LINK O1 AKG A 401 MN MN A 402 1555 1555 2.25 LINK O5 AKG A 401 MN MN A 402 1555 1555 2.29 LINK MN MN A 402 O HOH A 524 1555 1555 2.20 SITE 1 AC1 17 ARG A 188 LEU A 266 ASN A 268 TYR A 270 SITE 2 AC1 17 LEU A 276 HIS A 279 ASP A 281 HIS A 339 SITE 3 AC1 17 VAL A 341 ARG A 363 ASN A 365 THR A 367 SITE 4 AC1 17 ARG A 369 MN A 402 HOH A 524 HOH A 525 SITE 5 AC1 17 HOH A 622 SITE 1 AC2 5 HIS A 279 ASP A 281 HIS A 339 AKG A 401 SITE 2 AC2 5 HOH A 524 CRYST1 50.150 67.729 67.967 90.00 99.89 90.00 C 1 2 1 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 0.019940 0.000000 0.003475 0.00000 SCALE2 0.000000 0.014765 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014935 0.00000