HEADER OXIDOREDUCTASE 15-JUN-18 6A3F TITLE LEVOGLUCOSAN DEHYDROGENASE, APO FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDARTHROBACTER PHENANTHRENIVORANS (STRAIN SOURCE 3 DSM 18606 / JCM 16027 / LMG 23796 / SPHE3); SOURCE 4 ORGANISM_COMMON: ARTHROBACTER PHENANTHRENIVORANS; SOURCE 5 ORGANISM_TAXID: 930171; SOURCE 6 STRAIN: DSM 18606 / JCM 16027 / LMG 23796 / SPHE3; SOURCE 7 GENE: ASPHE3_10730; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: C43 (DE3); SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS NADH-DEPENDENT DEHYDROGENASE, ROSSMANN FOLD, GFO/IDH/MOCA FAMILY, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR M.SUGIURA,C.YAMADA,T.ARAKAWA,S.FUSHINOBU REVDAT 4 22-NOV-23 6A3F 1 REMARK REVDAT 3 21-NOV-18 6A3F 1 JRNL REVDAT 2 03-OCT-18 6A3F 1 JRNL REVDAT 1 26-SEP-18 6A3F 0 JRNL AUTH M.SUGIURA,M.NAKAHARA,C.YAMADA,T.ARAKAWA,M.KITAOKA, JRNL AUTH 2 S.FUSHINOBU JRNL TITL IDENTIFICATION, FUNCTIONAL CHARACTERIZATION, AND CRYSTAL JRNL TITL 2 STRUCTURE DETERMINATION OF BACTERIAL LEVOGLUCOSAN JRNL TITL 3 DEHYDROGENASE. JRNL REF J. BIOL. CHEM. V. 293 17375 2018 JRNL REFN ESSN 1083-351X JRNL PMID 30224354 JRNL DOI 10.1074/JBC.RA118.004963 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.NAKAHARA,Y.KITAMURA,Y.YAMAGISHI,H.SHOUN,T.YASUI REMARK 1 TITL LEVOGLUCOSAN DEHYDROGENASE INVOLVED IN THE ASSIMILATION OF REMARK 1 TITL 2 LEVOGLUCOSAN IN ARTHROBACTER SP. I-552. REMARK 1 REF BIOSCI. BIOTECHNOL. BIOCHEM. V. 58 2193 1994 REMARK 1 REFN ISSN 0916-8451 REMARK 1 PMID 7765713 REMARK 1 DOI 10.1271/BBB.58.2193 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0222 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) : 38.28 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 70139 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) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.202 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3758 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) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5069 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.2100 REMARK 3 BIN FREE R VALUE SET COUNT : 287 REMARK 3 BIN FREE R VALUE : 0.2520 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5851 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 484 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.01000 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): 0.115 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.111 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.080 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.636 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6009 ; 0.013 ; 0.015 REMARK 3 BOND LENGTHS OTHERS (A): 5309 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8158 ; 1.555 ; 1.756 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12406 ; 0.529 ; 1.733 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 760 ; 7.267 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 266 ;33.417 ;20.150 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 814 ;12.565 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 42 ;16.715 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 785 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6894 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1154 ; 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): 3052 ; 2.332 ; 2.702 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3053 ; 2.332 ; 2.704 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3808 ; 3.173 ; 4.034 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3809 ; 3.175 ; 4.036 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2957 ; 3.019 ; 2.947 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2946 ; 2.958 ; 2.936 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4333 ; 4.300 ; 4.302 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6663 ; 5.270 ;32.856 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6570 ; 5.187 ;32.576 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 6A3F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JUN-18. REMARK 100 THE DEPOSITION ID IS D_1300008091. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-MAY-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NUMERICAL LINK TYPE SI(111) REMARK 200 DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 74076 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 : 14.20 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 35.4000 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) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.20 REMARK 200 R MERGE FOR SHELL (I) : 0.69400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 4H3V REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM CACODYLATE, AMMONIUM SULFATE, REMARK 280 PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 85.45600 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 47.82450 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 47.82450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 128.18400 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 47.82450 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 47.82450 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 42.72800 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 47.82450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 47.82450 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 128.18400 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 47.82450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 47.82450 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 42.72800 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 85.45600 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 49640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -151.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 685 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 675 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 SER A 223 REMARK 465 GLY A 224 REMARK 465 GLY A 225 REMARK 465 ALA A 226 REMARK 465 ASP A 227 REMARK 465 ALA A 228 REMARK 465 LEU A 229 REMARK 465 SER A 389 REMARK 465 ALA A 390 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 ASP B 227 REMARK 465 ALA B 228 REMARK 465 LEU B 229 REMARK 465 GLY B 230 REMARK 465 THR B 231 REMARK 465 VAL B 232 REMARK 465 ALA B 390 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 ASP A 243 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP B 384 CB - CG - OD1 ANGL. DEV. = 7.3 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 ARG A 233 27.03 -76.57 REMARK 500 ASN A 272 -61.75 -103.50 REMARK 500 ARG A 307 45.56 -148.16 REMARK 500 TYR A 321 -0.71 69.54 REMARK 500 LEU A 325 -133.31 -114.88 REMARK 500 GLN A 387 67.85 -100.91 REMARK 500 MET B 14 0.91 -68.76 REMARK 500 ASN B 272 -62.60 -99.86 REMARK 500 ASN B 273 50.53 -143.39 REMARK 500 ARG B 307 44.33 -151.02 REMARK 500 LEU B 325 -138.93 -120.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 54 0.08 SIDE CHAIN REMARK 500 ARG A 233 0.10 SIDE CHAIN REMARK 500 ARG A 293 0.09 SIDE CHAIN REMARK 500 ARG B 108 0.11 SIDE CHAIN REMARK 500 ARG B 293 0.11 SIDE CHAIN 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 SO4 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 401 DBREF 6A3F A 1 390 UNP F0M433 F0M433_PSEPM 1 390 DBREF 6A3F B 1 390 UNP F0M433 F0M433_PSEPM 1 390 SEQADV 6A3F MET A -19 UNP F0M433 EXPRESSION TAG SEQADV 6A3F GLY A -18 UNP F0M433 EXPRESSION TAG SEQADV 6A3F SER A -17 UNP F0M433 EXPRESSION TAG SEQADV 6A3F SER A -16 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS A -15 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS A -14 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS A -13 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS A -12 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS A -11 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS A -10 UNP F0M433 EXPRESSION TAG SEQADV 6A3F SER A -9 UNP F0M433 EXPRESSION TAG SEQADV 6A3F SER A -8 UNP F0M433 EXPRESSION TAG SEQADV 6A3F GLY A -7 UNP F0M433 EXPRESSION TAG SEQADV 6A3F LEU A -6 UNP F0M433 EXPRESSION TAG SEQADV 6A3F VAL A -5 UNP F0M433 EXPRESSION TAG SEQADV 6A3F PRO A -4 UNP F0M433 EXPRESSION TAG SEQADV 6A3F ARG A -3 UNP F0M433 EXPRESSION TAG SEQADV 6A3F GLY A -2 UNP F0M433 EXPRESSION TAG SEQADV 6A3F SER A -1 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS A 0 UNP F0M433 EXPRESSION TAG SEQADV 6A3F MET B -19 UNP F0M433 EXPRESSION TAG SEQADV 6A3F GLY B -18 UNP F0M433 EXPRESSION TAG SEQADV 6A3F SER B -17 UNP F0M433 EXPRESSION TAG SEQADV 6A3F SER B -16 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS B -15 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS B -14 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS B -13 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS B -12 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS B -11 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS B -10 UNP F0M433 EXPRESSION TAG SEQADV 6A3F SER B -9 UNP F0M433 EXPRESSION TAG SEQADV 6A3F SER B -8 UNP F0M433 EXPRESSION TAG SEQADV 6A3F GLY B -7 UNP F0M433 EXPRESSION TAG SEQADV 6A3F LEU B -6 UNP F0M433 EXPRESSION TAG SEQADV 6A3F VAL B -5 UNP F0M433 EXPRESSION TAG SEQADV 6A3F PRO B -4 UNP F0M433 EXPRESSION TAG SEQADV 6A3F ARG B -3 UNP F0M433 EXPRESSION TAG SEQADV 6A3F GLY B -2 UNP F0M433 EXPRESSION TAG SEQADV 6A3F SER B -1 UNP F0M433 EXPRESSION TAG SEQADV 6A3F HIS B 0 UNP F0M433 EXPRESSION TAG SEQRES 1 A 410 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 410 LEU VAL PRO ARG GLY SER HIS MET GLN ASN LEU ASN VAL SEQRES 3 A 410 GLY LEU ILE GLY GLY GLY PHE MET GLY LYS ALA HIS SER SEQRES 4 A 410 LEU ALA TYR ALA ALA MET PRO MET PHE PHE TRP PRO ALA SEQRES 5 A 410 PRO ALA LEU PRO VAL ARG LYS VAL ILE ALA GLU ALA ASN SEQRES 6 A 410 PRO GLU LEU ALA ALA GLU ALA ALA ARG ARG PHE GLY PHE SEQRES 7 A 410 GLU ASN SER THR SER ASP TRP ARG SER ILE ILE ASP ASP SEQRES 8 A 410 PRO ASP ILE HIS VAL VAL ASP ILE ALA THR PRO ASN HIS SEQRES 9 A 410 LEU HIS ALA GLU ILE ALA ILE ALA ALA ALA GLU ALA GLY SEQRES 10 A 410 LYS HIS ILE ILE CYS GLU LYS PRO LEU ALA ARG THR GLY SEQRES 11 A 410 GLU GLU SER LYS ALA MET TYR ASP ALA VAL LYS ASP LYS SEQRES 12 A 410 ASN ILE VAL HIS MET VAL ALA PHE ASN TYR ARG ARG THR SEQRES 13 A 410 PRO ALA VAL ALA LEU ALA LYS LYS TYR ILE GLU GLU GLY SEQRES 14 A 410 ALA ILE GLY ARG ILE LEU SER PHE ARG GLY THR TYR LEU SEQRES 15 A 410 GLN ASP TRP SER ALA ASP PRO ASN SER PRO LEU SER TRP SEQRES 16 A 410 ARG PHE GLN LYS SER ILE ALA GLY SER GLY ALA LEU GLY SEQRES 17 A 410 ASP ILE ALA THR HIS VAL ILE ASP MET ALA ARG TYR LEU SEQRES 18 A 410 VAL GLY GLU PHE SER ALA VAL ASN ALA VAL LEU SER THR SEQRES 19 A 410 TRP ILE PRO GLU ARG PRO LEU GLN SER GLY GLY ALA ASP SEQRES 20 A 410 ALA LEU GLY THR VAL ARG GLY GLY GLU GLY PRO LYS GLY SEQRES 21 A 410 PRO VAL ASP VAL ASP ASP GLU VAL MET THR MET ILE ARG SEQRES 22 A 410 PHE ALA ASN GLY ALA VAL GLY SER VAL GLU ALA THR ARG SEQRES 23 A 410 ASN ALA HIS GLY ARG ASN ASN TYR ILE THR PHE GLU ILE SEQRES 24 A 410 HIS GLY THR GLU GLY SER ILE VAL PHE ASN TYR GLU ARG SEQRES 25 A 410 ARG ASP GLU LEU GLN VAL ALA PHE ALA SER ASP GLN ALA SEQRES 26 A 410 ASP ARG ARG GLY PHE ARG THR VAL TYR THR GLY PRO ALA SEQRES 27 A 410 HIS PRO TYR GLY GLU GLY LEU TRP PRO ILE PRO ALA LEU SEQRES 28 A 410 GLY ILE GLY TYR GLY GLU THR LYS ILE ILE GLU ALA HIS SEQRES 29 A 410 ASP PHE PHE LYS ALA ILE ALA GLU GLY GLY SER VAL SER SEQRES 30 A 410 PRO SER PHE ALA ASP GLY TYR GLN VAL ALA LEU ILE ASP SEQRES 31 A 410 ASP ALA ILE VAL GLU SER ALA ALA LYS GLU SER TRP VAL SEQRES 32 A 410 ASP VAL PRO GLN ILE SER ALA SEQRES 1 B 410 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 410 LEU VAL PRO ARG GLY SER HIS MET GLN ASN LEU ASN VAL SEQRES 3 B 410 GLY LEU ILE GLY GLY GLY PHE MET GLY LYS ALA HIS SER SEQRES 4 B 410 LEU ALA TYR ALA ALA MET PRO MET PHE PHE TRP PRO ALA SEQRES 5 B 410 PRO ALA LEU PRO VAL ARG LYS VAL ILE ALA GLU ALA ASN SEQRES 6 B 410 PRO GLU LEU ALA ALA GLU ALA ALA ARG ARG PHE GLY PHE SEQRES 7 B 410 GLU ASN SER THR SER ASP TRP ARG SER ILE ILE ASP ASP SEQRES 8 B 410 PRO ASP ILE HIS VAL VAL ASP ILE ALA THR PRO ASN HIS SEQRES 9 B 410 LEU HIS ALA GLU ILE ALA ILE ALA ALA ALA GLU ALA GLY SEQRES 10 B 410 LYS HIS ILE ILE CYS GLU LYS PRO LEU ALA ARG THR GLY SEQRES 11 B 410 GLU GLU SER LYS ALA MET TYR ASP ALA VAL LYS ASP LYS SEQRES 12 B 410 ASN ILE VAL HIS MET VAL ALA PHE ASN TYR ARG ARG THR SEQRES 13 B 410 PRO ALA VAL ALA LEU ALA LYS LYS TYR ILE GLU GLU GLY SEQRES 14 B 410 ALA ILE GLY ARG ILE LEU SER PHE ARG GLY THR TYR LEU SEQRES 15 B 410 GLN ASP TRP SER ALA ASP PRO ASN SER PRO LEU SER TRP SEQRES 16 B 410 ARG PHE GLN LYS SER ILE ALA GLY SER GLY ALA LEU GLY SEQRES 17 B 410 ASP ILE ALA THR HIS VAL ILE ASP MET ALA ARG TYR LEU SEQRES 18 B 410 VAL GLY GLU PHE SER ALA VAL ASN ALA VAL LEU SER THR SEQRES 19 B 410 TRP ILE PRO GLU ARG PRO LEU GLN SER GLY GLY ALA ASP SEQRES 20 B 410 ALA LEU GLY THR VAL ARG GLY GLY GLU GLY PRO LYS GLY SEQRES 21 B 410 PRO VAL ASP VAL ASP ASP GLU VAL MET THR MET ILE ARG SEQRES 22 B 410 PHE ALA ASN GLY ALA VAL GLY SER VAL GLU ALA THR ARG SEQRES 23 B 410 ASN ALA HIS GLY ARG ASN ASN TYR ILE THR PHE GLU ILE SEQRES 24 B 410 HIS GLY THR GLU GLY SER ILE VAL PHE ASN TYR GLU ARG SEQRES 25 B 410 ARG ASP GLU LEU GLN VAL ALA PHE ALA SER ASP GLN ALA SEQRES 26 B 410 ASP ARG ARG GLY PHE ARG THR VAL TYR THR GLY PRO ALA SEQRES 27 B 410 HIS PRO TYR GLY GLU GLY LEU TRP PRO ILE PRO ALA LEU SEQRES 28 B 410 GLY ILE GLY TYR GLY GLU THR LYS ILE ILE GLU ALA HIS SEQRES 29 B 410 ASP PHE PHE LYS ALA ILE ALA GLU GLY GLY SER VAL SER SEQRES 30 B 410 PRO SER PHE ALA ASP GLY TYR GLN VAL ALA LEU ILE ASP SEQRES 31 B 410 ASP ALA ILE VAL GLU SER ALA ALA LYS GLU SER TRP VAL SEQRES 32 B 410 ASP VAL PRO GLN ILE SER ALA HET SO4 A 401 5 HET SO4 A 402 5 HET SO4 B 401 5 HETNAM SO4 SULFATE ION FORMUL 3 SO4 3(O4 S 2-) FORMUL 6 HOH *484(H2 O) HELIX 1 AA1 GLY A 11 PHE A 13 5 3 HELIX 2 AA2 MET A 14 PHE A 29 1 16 HELIX 3 AA3 ASN A 45 GLY A 57 1 13 HELIX 4 AA4 ASP A 64 ASP A 70 1 7 HELIX 5 AA5 LEU A 85 ALA A 96 1 12 HELIX 6 AA6 THR A 109 LYS A 121 1 13 HELIX 7 AA7 PHE A 131 ARG A 135 5 5 HELIX 8 AA8 THR A 136 GLU A 148 1 13 HELIX 9 AA9 SER A 174 PHE A 177 5 4 HELIX 10 AB1 GLN A 178 GLY A 183 1 6 HELIX 11 AB2 GLY A 185 ILE A 190 1 6 HELIX 12 AB3 ILE A 190 VAL A 202 1 13 HELIX 13 AB4 GLU A 291 ARG A 293 5 3 HELIX 14 AB5 GLN A 304 ARG A 308 5 5 HELIX 15 AB6 TYR A 321 LEU A 325 5 5 HELIX 16 AB7 GLY A 334 GLY A 353 1 20 HELIX 17 AB8 SER A 359 GLU A 380 1 22 HELIX 18 AB9 MET B 14 PHE B 29 1 16 HELIX 19 AC1 ASN B 45 GLY B 57 1 13 HELIX 20 AC2 ASP B 64 ASP B 70 1 7 HELIX 21 AC3 PRO B 82 HIS B 84 5 3 HELIX 22 AC4 LEU B 85 ALA B 96 1 12 HELIX 23 AC5 THR B 109 ASP B 122 1 14 HELIX 24 AC6 PHE B 131 ARG B 135 5 5 HELIX 25 AC7 THR B 136 GLU B 148 1 13 HELIX 26 AC8 SER B 174 PHE B 177 5 4 HELIX 27 AC9 GLN B 178 GLY B 183 1 6 HELIX 28 AD1 GLY B 185 ILE B 190 1 6 HELIX 29 AD2 ILE B 190 VAL B 202 1 13 HELIX 30 AD3 GLU B 291 ARG B 293 5 3 HELIX 31 AD4 TYR B 321 LEU B 325 5 5 HELIX 32 AD5 GLY B 334 GLU B 352 1 19 HELIX 33 AD6 SER B 359 GLU B 380 1 22 SHEET 1 AA1 6 ASN A 60 THR A 62 0 SHEET 2 AA1 6 LEU A 35 ALA A 42 1 N LYS A 39 O ASN A 60 SHEET 3 AA1 6 ASN A 3 ILE A 9 1 N LEU A 4 O LEU A 35 SHEET 4 AA1 6 VAL A 76 ILE A 79 1 O ASP A 78 N ILE A 9 SHEET 5 AA1 6 HIS A 99 CYS A 102 1 O HIS A 99 N VAL A 77 SHEET 6 AA1 6 HIS A 127 VAL A 129 1 O MET A 128 N CYS A 102 SHEET 1 AA2 9 PHE A 310 TYR A 314 0 SHEET 2 AA2 9 GLU A 295 PHE A 300 -1 N LEU A 296 O VAL A 313 SHEET 3 AA2 9 GLY A 284 ASN A 289 -1 N VAL A 287 O GLN A 297 SHEET 4 AA2 9 TYR A 274 GLY A 281 -1 N ILE A 279 O ILE A 286 SHEET 5 AA2 9 ILE A 154 LEU A 162 -1 N LEU A 155 O HIS A 280 SHEET 6 AA2 9 VAL A 259 THR A 265 1 O SER A 261 N GLY A 159 SHEET 7 AA2 9 GLU A 247 PHE A 254 -1 N VAL A 248 O ALA A 264 SHEET 8 AA2 9 PHE A 205 SER A 213 -1 N SER A 206 O ARG A 253 SHEET 9 AA2 9 VAL A 383 ASP A 384 -1 O VAL A 383 N VAL A 208 SHEET 1 AA3 2 GLU A 218 PRO A 220 0 SHEET 2 AA3 2 LYS A 239 PRO A 241 -1 O GLY A 240 N ARG A 219 SHEET 1 AA4 6 ASN B 60 THR B 62 0 SHEET 2 AA4 6 LEU B 35 ALA B 42 1 N LYS B 39 O ASN B 60 SHEET 3 AA4 6 ASN B 3 GLY B 10 1 N VAL B 6 O VAL B 37 SHEET 4 AA4 6 VAL B 76 ALA B 80 1 O ASP B 78 N ILE B 9 SHEET 5 AA4 6 HIS B 99 CYS B 102 1 O HIS B 99 N VAL B 77 SHEET 6 AA4 6 HIS B 127 VAL B 129 1 O MET B 128 N CYS B 102 SHEET 1 AA5 9 ARG B 311 TYR B 314 0 SHEET 2 AA5 9 GLU B 295 PHE B 300 -1 N VAL B 298 O ARG B 311 SHEET 3 AA5 9 GLY B 284 ASN B 289 -1 N VAL B 287 O GLN B 297 SHEET 4 AA5 9 TYR B 274 GLY B 281 -1 N GLY B 281 O GLY B 284 SHEET 5 AA5 9 ILE B 154 LEU B 162 -1 N LEU B 155 O HIS B 280 SHEET 6 AA5 9 VAL B 259 THR B 265 1 O VAL B 259 N LEU B 155 SHEET 7 AA5 9 GLU B 247 PHE B 254 -1 N ILE B 252 O GLY B 260 SHEET 8 AA5 9 PHE B 205 SER B 213 -1 N SER B 206 O ARG B 253 SHEET 9 AA5 9 VAL B 383 ASP B 384 -1 O VAL B 383 N VAL B 208 SHEET 1 AA6 2 GLU B 218 GLN B 222 0 SHEET 2 AA6 2 GLU B 236 PRO B 241 -1 O GLY B 240 N ARG B 219 CISPEP 1 TRP A 30 PRO A 31 0 1.54 CISPEP 2 LYS A 104 PRO A 105 0 -21.27 CISPEP 3 GLY A 234 GLY A 235 0 -0.59 CISPEP 4 SER A 357 PRO A 358 0 5.23 CISPEP 5 TRP B 30 PRO B 31 0 0.24 CISPEP 6 LYS B 104 PRO B 105 0 -18.69 CISPEP 7 SER B 357 PRO B 358 0 -5.70 SITE 1 AC1 6 ASP A 303 GLN A 304 ARG A 307 HOH A 546 SITE 2 AC1 6 HOH A 568 ARG B 311 SITE 1 AC2 5 GLY A 203 GLU A 204 ASN A 256 HOH A 517 SITE 2 AC2 5 HOH A 537 SITE 1 AC3 3 GLY B 12 TRP B 175 ARG B 176 CRYST1 95.649 95.649 170.912 90.00 90.00 90.00 P 43 21 2 16 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 0.010455 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010455 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005851 0.00000