HEADER OXIDOREDUCTASE 26-SEP-08 3EOF TITLE CRYSTAL STRUCTURE OF PUTATIVE OXIDOREDUCTASE (YP_213212.1) FROM TITLE 2 BACTEROIDES FRAGILIS NCTC 9343 AT 1.99 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE OXIDOREDUCTASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES FRAGILIS NCTC 9343; SOURCE 3 ORGANISM_TAXID: 272559; SOURCE 4 GENE: YP_213212.1, BF3618; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS YP_213212.1, PUTATIVE OXIDOREDUCTASE, STRUCTURAL GENOMICS, JOINT KEYWDS 2 CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, KEYWDS 3 PSI-2, UNKNOWN FUNCTION, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 01-FEB-23 3EOF 1 REMARK SEQADV REVDAT 5 24-JUL-19 3EOF 1 REMARK LINK REVDAT 4 25-OCT-17 3EOF 1 REMARK REVDAT 3 13-JUL-11 3EOF 1 VERSN REVDAT 2 24-FEB-09 3EOF 1 VERSN REVDAT 1 14-OCT-08 3EOF 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE OXIDOREDUCTASE (YP_213212.1) JRNL TITL 2 FROM BACTEROIDES FRAGILIS NCTC 9343 AT 1.99 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.99 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.99 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.76 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 39318 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) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1974 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) : 1.99 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2666 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.61 REMARK 3 BIN R VALUE (WORKING SET) : 0.2440 REMARK 3 BIN FREE R VALUE SET COUNT : 127 REMARK 3 BIN FREE R VALUE : 0.3210 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3972 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 364 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 23.86 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.67000 REMARK 3 B22 (A**2) : -1.59000 REMARK 3 B33 (A**2) : -2.08000 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): 0.163 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.157 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.127 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.153 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4148 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2803 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5639 ; 1.660 ; 1.995 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6860 ; 0.989 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 502 ; 3.737 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 196 ;33.150 ;24.490 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 733 ;13.138 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;11.900 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 633 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4537 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 807 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 955 ; 0.208 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3204 ; 0.205 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2100 ; 0.186 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2221 ; 0.089 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 361 ; 0.162 ; 0.200 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): 3 ; 0.078 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 15 ; 0.249 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.190 ; 0.200 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): 2667 ; 2.211 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 986 ; 0.584 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4064 ; 2.941 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1878 ; 5.687 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1570 ; 7.282 ;11.000 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 2 A 247 6 REMARK 3 1 B 2 B 247 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 1 A (A): 3302 ; 0.220 ; 5.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 3302 ; 1.830 ;10.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 0 A 247 REMARK 3 ORIGIN FOR THE GROUP (A): 28.5122 5.1030 9.3630 REMARK 3 T TENSOR REMARK 3 T11: -0.0438 T22: -0.0206 REMARK 3 T33: -0.0478 T12: -0.0163 REMARK 3 T13: -0.0087 T23: 0.0154 REMARK 3 L TENSOR REMARK 3 L11: 0.2530 L22: 0.7939 REMARK 3 L33: 0.6126 L12: -0.0960 REMARK 3 L13: 0.0334 L23: 0.1628 REMARK 3 S TENSOR REMARK 3 S11: 0.0076 S12: 0.0599 S13: 0.0431 REMARK 3 S21: -0.0769 S22: 0.0043 S23: -0.0438 REMARK 3 S31: 0.0274 S32: 0.0279 S33: -0.0120 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 247 REMARK 3 ORIGIN FOR THE GROUP (A): 17.9923 1.5964 21.4583 REMARK 3 T TENSOR REMARK 3 T11: -0.0226 T22: -0.0258 REMARK 3 T33: -0.0338 T12: -0.0158 REMARK 3 T13: 0.0077 T23: 0.0005 REMARK 3 L TENSOR REMARK 3 L11: 0.2114 L22: 0.7086 REMARK 3 L33: 0.3301 L12: -0.1152 REMARK 3 L13: 0.0686 L23: 0.0813 REMARK 3 S TENSOR REMARK 3 S11: -0.0076 S12: 0.0108 S13: 0.0079 REMARK 3 S21: 0.1200 S22: -0.0103 S23: 0.0703 REMARK 3 S31: 0.0502 S32: -0.0641 S33: 0.0179 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: REMARK 3 1.HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 2.ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 3 3.A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY REMARK 3 OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 REMARK 3 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION REMARK 3 4. ENDOGENOUS COFACTOR FMN WAS FOUND BOUND TO THE PROTEIN. REMARK 4 REMARK 4 3EOF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-SEP-08. REMARK 100 THE DEPOSITION ID IS D_1000049574. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-AUG-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97845 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39369 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.990 REMARK 200 RESOLUTION RANGE LOW (A) : 28.760 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 200 DATA REDUNDANCY : 4.840 REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.1200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.01 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.65700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10.0000% ISO-PROPANOL, 20.0000% PEG REMARK 280 -4000, 0.1M HEPES PH 7.5, NANODROP, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 277K 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 34.68500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.73500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.41000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.73500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.68500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.41000 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 300 REMARK: AUTHORS STATE THAT THE PROTOMER MAY FORM A DIMER BASED ON REMARK 300 CRYSTAL PACKING ANALYSIS. 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -86.0 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 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 GLY B 0 REMARK 465 MSE B 1 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 GLU A 52 CD OE1 OE2 REMARK 470 LYS B 238 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 HOH B 330 O HOH B 474 2.14 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 82 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 82 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG B 82 NE - CZ - NH1 ANGL. DEV. = 3.1 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 GLN A 41 74.93 57.12 REMARK 500 ILE A 153 -62.96 -94.49 REMARK 500 GLU A 180 -39.79 75.71 REMARK 500 VAL A 222 -56.88 -121.45 REMARK 500 GLN B 41 74.27 49.98 REMARK 500 ASN B 136 52.03 -119.85 REMARK 500 GLU B 180 -35.90 67.94 REMARK 500 VAL B 222 -58.47 -120.79 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 FMN A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN B 300 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 391632 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3EOF A 1 247 UNP Q5L9C9 Q5L9C9_BACFN 1 247 DBREF 3EOF B 1 247 UNP Q5L9C9 Q5L9C9_BACFN 1 247 SEQADV 3EOF GLY A 0 UNP Q5L9C9 EXPRESSION TAG SEQADV 3EOF GLY B 0 UNP Q5L9C9 EXPRESSION TAG SEQRES 1 A 248 GLY MSE MSE ASP THR VAL LYS ASN ARG ARG THR ILE ARG SEQRES 2 A 248 LYS TYR GLN GLN LYS ASP ILE THR PRO ASP LEU LEU ASN SEQRES 3 A 248 ASP LEU LEU GLU THR SER PHE ARG ALA SER THR MSE GLY SEQRES 4 A 248 GLY MSE GLN LEU TYR SER VAL VAL VAL THR ARG ASP ALA SEQRES 5 A 248 GLU LYS LYS GLU ILE LEU SER PRO ALA HIS PHE ASN GLN SEQRES 6 A 248 PRO MSE VAL LYS GLU ALA PRO VAL VAL LEU THR PHE CYS SEQRES 7 A 248 ALA ASP PHE ARG ARG PHE CYS LYS TYR CYS GLN GLU ARG SEQRES 8 A 248 ASN ALA VAL PRO GLY TYR GLY ASN LEU MSE SER PHE LEU SEQRES 9 A 248 ASN ALA ALA MSE ASP THR LEU LEU VAL ALA GLN THR PHE SEQRES 10 A 248 CYS THR LEU ALA GLU GLU ALA GLY LEU GLY ILE CYS TYR SEQRES 11 A 248 LEU GLY THR THR THR TYR ASN PRO GLN MSE ILE ILE ASP SEQRES 12 A 248 ALA LEU HIS LEU PRO GLU LEU VAL PHE PRO ILE THR THR SEQRES 13 A 248 VAL THR VAL GLY TYR PRO ALA GLU SER PRO LYS GLN VAL SEQRES 14 A 248 ASP ARG LEU PRO ILE GLU GLY ILE ILE HIS GLU GLU SER SEQRES 15 A 248 TYR HIS ASP TYR THR ALA GLU ASP ILE ASN ARG LEU TYR SEQRES 16 A 248 ALA TYR LYS GLU SER LEU PRO GLU ASN LYS LEU PHE ILE SEQRES 17 A 248 GLU GLU ASN GLN LYS GLU THR LEU PRO GLN VAL PHE THR SEQRES 18 A 248 ASP VAL ARG TYR THR LYS LYS ASP ASN GLU PHE MSE SER SEQRES 19 A 248 GLU ASN LEU LEU LYS VAL LEU ARG ARG GLN GLY PHE MSE SEQRES 20 A 248 ASP SEQRES 1 B 248 GLY MSE MSE ASP THR VAL LYS ASN ARG ARG THR ILE ARG SEQRES 2 B 248 LYS TYR GLN GLN LYS ASP ILE THR PRO ASP LEU LEU ASN SEQRES 3 B 248 ASP LEU LEU GLU THR SER PHE ARG ALA SER THR MSE GLY SEQRES 4 B 248 GLY MSE GLN LEU TYR SER VAL VAL VAL THR ARG ASP ALA SEQRES 5 B 248 GLU LYS LYS GLU ILE LEU SER PRO ALA HIS PHE ASN GLN SEQRES 6 B 248 PRO MSE VAL LYS GLU ALA PRO VAL VAL LEU THR PHE CYS SEQRES 7 B 248 ALA ASP PHE ARG ARG PHE CYS LYS TYR CYS GLN GLU ARG SEQRES 8 B 248 ASN ALA VAL PRO GLY TYR GLY ASN LEU MSE SER PHE LEU SEQRES 9 B 248 ASN ALA ALA MSE ASP THR LEU LEU VAL ALA GLN THR PHE SEQRES 10 B 248 CYS THR LEU ALA GLU GLU ALA GLY LEU GLY ILE CYS TYR SEQRES 11 B 248 LEU GLY THR THR THR TYR ASN PRO GLN MSE ILE ILE ASP SEQRES 12 B 248 ALA LEU HIS LEU PRO GLU LEU VAL PHE PRO ILE THR THR SEQRES 13 B 248 VAL THR VAL GLY TYR PRO ALA GLU SER PRO LYS GLN VAL SEQRES 14 B 248 ASP ARG LEU PRO ILE GLU GLY ILE ILE HIS GLU GLU SER SEQRES 15 B 248 TYR HIS ASP TYR THR ALA GLU ASP ILE ASN ARG LEU TYR SEQRES 16 B 248 ALA TYR LYS GLU SER LEU PRO GLU ASN LYS LEU PHE ILE SEQRES 17 B 248 GLU GLU ASN GLN LYS GLU THR LEU PRO GLN VAL PHE THR SEQRES 18 B 248 ASP VAL ARG TYR THR LYS LYS ASP ASN GLU PHE MSE SER SEQRES 19 B 248 GLU ASN LEU LEU LYS VAL LEU ARG ARG GLN GLY PHE MSE SEQRES 20 B 248 ASP MODRES 3EOF MSE A 1 MET SELENOMETHIONINE MODRES 3EOF MSE A 2 MET SELENOMETHIONINE MODRES 3EOF MSE A 37 MET SELENOMETHIONINE MODRES 3EOF MSE A 40 MET SELENOMETHIONINE MODRES 3EOF MSE A 66 MET SELENOMETHIONINE MODRES 3EOF MSE A 100 MET SELENOMETHIONINE MODRES 3EOF MSE A 107 MET SELENOMETHIONINE MODRES 3EOF MSE A 139 MET SELENOMETHIONINE MODRES 3EOF MSE A 232 MET SELENOMETHIONINE MODRES 3EOF MSE A 246 MET SELENOMETHIONINE MODRES 3EOF MSE B 2 MET SELENOMETHIONINE MODRES 3EOF MSE B 37 MET SELENOMETHIONINE MODRES 3EOF MSE B 40 MET SELENOMETHIONINE MODRES 3EOF MSE B 66 MET SELENOMETHIONINE MODRES 3EOF MSE B 100 MET SELENOMETHIONINE MODRES 3EOF MSE B 107 MET SELENOMETHIONINE MODRES 3EOF MSE B 139 MET SELENOMETHIONINE MODRES 3EOF MSE B 232 MET SELENOMETHIONINE MODRES 3EOF MSE B 246 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 2 8 HET MSE A 37 8 HET MSE A 40 8 HET MSE A 66 8 HET MSE A 100 8 HET MSE A 107 8 HET MSE A 139 8 HET MSE A 232 8 HET MSE A 246 8 HET MSE B 2 8 HET MSE B 37 8 HET MSE B 40 8 HET MSE B 66 8 HET MSE B 100 8 HET MSE B 107 8 HET MSE B 139 8 HET MSE B 232 8 HET MSE B 246 8 HET FMN A 300 31 HET FMN B 300 31 HETNAM MSE SELENOMETHIONINE HETNAM FMN FLAVIN MONONUCLEOTIDE HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 1 MSE 19(C5 H11 N O2 SE) FORMUL 3 FMN 2(C17 H21 N4 O9 P) FORMUL 5 HOH *364(H2 O) HELIX 1 1 GLY A 0 ASN A 7 1 8 HELIX 2 2 THR A 20 PHE A 32 1 13 HELIX 3 3 THR A 36 MSE A 40 5 5 HELIX 4 4 ASP A 50 SER A 58 1 9 HELIX 5 5 PRO A 65 ALA A 70 1 6 HELIX 6 6 PHE A 80 GLU A 89 1 10 HELIX 7 7 ASN A 98 ALA A 123 1 26 HELIX 8 8 GLY A 131 TYR A 135 5 5 HELIX 9 9 ASN A 136 HIS A 145 1 10 HELIX 10 10 PRO A 172 GLY A 175 5 4 HELIX 11 11 THR A 186 LEU A 200 1 15 HELIX 12 12 LEU A 200 GLU A 209 1 10 HELIX 13 13 THR A 214 VAL A 222 1 9 HELIX 14 14 THR A 225 GLN A 243 1 19 HELIX 15 15 MSE B 2 ASN B 7 1 6 HELIX 16 16 THR B 20 PHE B 32 1 13 HELIX 17 17 THR B 36 MSE B 40 5 5 HELIX 18 18 ASP B 50 SER B 58 1 9 HELIX 19 19 PRO B 59 PHE B 62 5 4 HELIX 20 20 PRO B 65 ALA B 70 1 6 HELIX 21 21 PHE B 80 GLU B 89 1 10 HELIX 22 22 ASN B 98 ALA B 123 1 26 HELIX 23 23 GLY B 131 TYR B 135 5 5 HELIX 24 24 ASN B 136 HIS B 145 1 10 HELIX 25 25 PRO B 172 GLY B 175 5 4 HELIX 26 26 THR B 186 LEU B 200 1 15 HELIX 27 27 LEU B 200 GLU B 209 1 10 HELIX 28 28 THR B 214 VAL B 222 1 9 HELIX 29 29 THR B 225 GLN B 243 1 19 SHEET 1 A 5 GLY A 126 LEU A 130 0 SHEET 2 A 5 VAL A 150 GLY A 159 -1 O GLY A 159 N GLY A 126 SHEET 3 A 5 VAL A 72 ASP A 79 -1 N LEU A 74 O VAL A 156 SHEET 4 A 5 TYR A 43 THR A 48 -1 N SER A 44 O CYS A 77 SHEET 5 A 5 ILE B 177 GLU B 179 1 O HIS B 178 N VAL A 47 SHEET 1 B 5 ILE A 177 GLU A 179 0 SHEET 2 B 5 TYR B 43 THR B 48 1 O VAL B 47 N HIS A 178 SHEET 3 B 5 VAL B 72 ASP B 79 -1 O CYS B 77 N SER B 44 SHEET 4 B 5 VAL B 150 GLY B 159 -1 O VAL B 156 N LEU B 74 SHEET 5 B 5 GLY B 126 LEU B 130 -1 N GLY B 126 O GLY B 159 LINK C GLY A 0 N MSE A 1 1555 1555 1.34 LINK C MSE A 1 N MSE A 2 1555 1555 1.33 LINK C MSE A 2 N ASP A 3 1555 1555 1.32 LINK C THR A 36 N MSE A 37 1555 1555 1.34 LINK C MSE A 37 N GLY A 38 1555 1555 1.33 LINK C GLY A 39 N MSE A 40 1555 1555 1.33 LINK C MSE A 40 N GLN A 41 1555 1555 1.33 LINK C PRO A 65 N MSE A 66 1555 1555 1.32 LINK C MSE A 66 N VAL A 67 1555 1555 1.33 LINK C LEU A 99 N MSE A 100 1555 1555 1.32 LINK C MSE A 100 N SER A 101 1555 1555 1.33 LINK C ALA A 106 N MSE A 107 1555 1555 1.31 LINK C MSE A 107 N ASP A 108 1555 1555 1.33 LINK C GLN A 138 N MSE A 139 1555 1555 1.33 LINK C MSE A 139 N ILE A 140 1555 1555 1.30 LINK C PHE A 231 N MSE A 232 1555 1555 1.31 LINK C MSE A 232 N SER A 233 1555 1555 1.32 LINK C PHE A 245 N MSE A 246 1555 1555 1.31 LINK C MSE A 246 N ASP A 247 1555 1555 1.33 LINK C MSE B 2 N ASP B 3 1555 1555 1.33 LINK C THR B 36 N MSE B 37 1555 1555 1.32 LINK C MSE B 37 N GLY B 38 1555 1555 1.33 LINK C GLY B 39 N MSE B 40 1555 1555 1.34 LINK C MSE B 40 N GLN B 41 1555 1555 1.33 LINK C PRO B 65 N MSE B 66 1555 1555 1.33 LINK C MSE B 66 N VAL B 67 1555 1555 1.33 LINK C LEU B 99 N MSE B 100 1555 1555 1.33 LINK C MSE B 100 N SER B 101 1555 1555 1.33 LINK C ALA B 106 N MSE B 107 1555 1555 1.32 LINK C MSE B 107 N ASP B 108 1555 1555 1.33 LINK C GLN B 138 N MSE B 139 1555 1555 1.32 LINK C MSE B 139 N ILE B 140 1555 1555 1.33 LINK C PHE B 231 N MSE B 232 1555 1555 1.33 LINK C MSE B 232 N SER B 233 1555 1555 1.32 LINK C PHE B 245 N MSE B 246 1555 1555 1.32 LINK C MSE B 246 N ASP B 247 1555 1555 1.32 SITE 1 AC1 21 ARG A 8 ARG A 9 THR A 10 ARG A 12 SITE 2 AC1 21 GLN A 64 MSE A 66 CYS A 128 TYR A 129 SITE 3 AC1 21 LEU A 130 GLY A 131 VAL A 168 ARG A 170 SITE 4 AC1 21 HOH A 547 HOH A 548 HOH A 549 HOH A 595 SITE 5 AC1 21 SER B 35 THR B 36 MSE B 37 GLY B 39 SITE 6 AC1 21 LEU B 111 SITE 1 AC2 21 SER A 35 THR A 36 MSE A 37 LEU A 111 SITE 2 AC2 21 ARG B 8 ARG B 9 THR B 10 ARG B 12 SITE 3 AC2 21 GLN B 64 MSE B 66 CYS B 128 TYR B 129 SITE 4 AC2 21 LEU B 130 GLY B 131 VAL B 168 ARG B 170 SITE 5 AC2 21 HOH B 324 HOH B 339 HOH B 390 HOH B 402 SITE 6 AC2 21 HOH B 428 CRYST1 69.370 80.820 101.470 90.00 90.00 90.00 P 21 21 21 8 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 0.014415 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012373 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009855 0.00000