HEADER OXIDOREDUCTASE 25-FEB-09 3GE6 TITLE CRYSTAL STRUCTURE OF A PUTATIVE NITROREDUCTASE IN COMPLEX WITH FMN TITLE 2 (EXIG_2970) FROM EXIGUOBACTERIUM SIBIRICUM 255-15 AT 1.85 A TITLE 3 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: NITROREDUCTASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: EXIGUOBACTERIUM SIBIRICUM 255-15; SOURCE 3 ORGANISM_TAXID: 262543; SOURCE 4 GENE: EXIG_2970, YP_001815433.1; 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 PUTATIVE NITROREDUCTASE IN COMPLEX WITH FMN, STRUCTURAL GENOMICS, KEYWDS 2 JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE KEYWDS 3 INITIATIVE, PSI-2, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 01-FEB-23 3GE6 1 REMARK SEQADV REVDAT 5 24-JUL-19 3GE6 1 REMARK LINK REVDAT 4 25-OCT-17 3GE6 1 REMARK REVDAT 3 13-JUL-11 3GE6 1 VERSN REVDAT 2 28-JUL-10 3GE6 1 TITLE KEYWDS REVDAT 1 10-MAR-09 3GE6 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE NITROREDUCTASE IN COMPLEX WITH JRNL TITL 2 FMN (YP_001815433.1) FROM EXIGUOBACTERIUM SP. 255-15 AT 1.85 JRNL TITL 3 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.85 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 35802 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 : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1791 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2415 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.68 REMARK 3 BIN R VALUE (WORKING SET) : 0.2310 REMARK 3 BIN FREE R VALUE SET COUNT : 126 REMARK 3 BIN FREE R VALUE : 0.3220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3246 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 459 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 17.09 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.75000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : 0.73000 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): 0.145 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.135 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.097 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.919 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3461 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2299 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4709 ; 1.439 ; 1.992 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5660 ; 1.004 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 435 ; 6.862 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 149 ;35.525 ;25.436 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 611 ;13.810 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;12.261 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 531 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3847 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 627 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 695 ; 0.207 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2458 ; 0.197 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1681 ; 0.175 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1673 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 328 ; 0.146 ; 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): 28 ; 0.298 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 47 ; 0.331 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.155 ; 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): 2246 ; 2.134 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 862 ; 0.577 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3494 ; 2.829 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1445 ; 5.015 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1215 ; 7.131 ;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 3 A 211 6 REMARK 3 1 B 3 B 211 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 1 A (A): 2673 ; 0.410 ; 5.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 2673 ; 1.940 ;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 2 A 211 REMARK 3 ORIGIN FOR THE GROUP (A): 25.9234 79.5675 5.1098 REMARK 3 T TENSOR REMARK 3 T11: -0.0262 T22: -0.0294 REMARK 3 T33: -0.0256 T12: 0.0031 REMARK 3 T13: -0.0017 T23: -0.0055 REMARK 3 L TENSOR REMARK 3 L11: 0.5694 L22: 0.3323 REMARK 3 L33: 0.3463 L12: 0.0304 REMARK 3 L13: 0.1043 L23: 0.1392 REMARK 3 S TENSOR REMARK 3 S11: -0.0232 S12: 0.0215 S13: 0.0042 REMARK 3 S21: -0.0144 S22: 0.0317 S23: -0.0312 REMARK 3 S31: -0.0110 S32: 0.0483 S33: -0.0085 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 211 REMARK 3 ORIGIN FOR THE GROUP (A): 16.1549 88.5870 14.9824 REMARK 3 T TENSOR REMARK 3 T11: -0.0318 T22: -0.0299 REMARK 3 T33: -0.0303 T12: 0.0064 REMARK 3 T13: -0.0038 T23: -0.0021 REMARK 3 L TENSOR REMARK 3 L11: 0.5227 L22: 0.6027 REMARK 3 L33: 0.6320 L12: 0.0160 REMARK 3 L13: 0.1315 L23: 0.3915 REMARK 3 S TENSOR REMARK 3 S11: -0.0402 S12: -0.0271 S13: 0.0548 REMARK 3 S21: -0.0303 S22: 0.0041 S23: 0.0759 REMARK 3 S31: -0.0562 S32: -0.0636 S33: 0.0361 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. ATOM RECORDS CONTAIN RESIDUAL B FACTORS REMARK 3 ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE REMARK 3 ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED REMARK 3 SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. A FLAVIN REMARK 3 MONONUCLEOTIDE (FMN) MOLECULE IS MODELED INTO THE PUTATIVE REMARK 3 ACTIVE SITE ON EACH SUBUNIT. THE FMN RESTRAINTS WERE CHANGED TO REMARK 3 ALLOW BENDING OF THE ISOALLOXAZINE RING ALONG THE N5-N10 VIRTUAL REMARK 3 AXIS RESULTING IN AN IMPROVED FIT BETWEEN THE FMN COORDINATES REMARK 3 AND ELECTRON DENSITY. REMARK 4 REMARK 4 3GE6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000051748. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97982 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : FLAT COLLIMATING MIRROR, TOROID REMARK 200 FOCUSING MIRROR 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 : 35856 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 29.185 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.7900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.57800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2000M NH4H2PO3, 20.0000% PEG-3350, REMARK 280 NO BUFFER PH 4.6, NANODROP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 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 26.98500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.89500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.65000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.89500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.98500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.65000 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: STATIC LIGHT SCATTERING SUPPORTS THE ASSIGNMENT OF A DIMER REMARK 300 AS A SIGNIFICANT OLIGOMERIZATION STATE. 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: 8030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.0 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 A 0 REMARK 465 MSE A 1 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 THR A 2 OG1 CG2 REMARK 470 GLU A 61 CD OE1 OE2 REMARK 470 GLU A 112 CD OE1 OE2 REMARK 470 GLU B 61 CD OE1 OE2 REMARK 470 GLU B 112 CD OE1 OE2 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 ALA A 43 153.57 -46.77 REMARK 500 LYS A 71 -111.66 62.13 REMARK 500 LYS A 71 -122.02 62.13 REMARK 500 PHE A 72 52.15 -112.12 REMARK 500 ARG A 180 -41.15 -130.88 REMARK 500 VAL A 184 -61.76 -103.71 REMARK 500 VAL B 47 25.97 46.01 REMARK 500 LYS B 71 -136.37 54.87 REMARK 500 LYS B 71 -109.95 54.11 REMARK 500 PHE B 72 49.83 -107.39 REMARK 500 ARG B 180 -41.74 -138.61 REMARK 500 VAL B 184 -63.33 -103.29 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA B 70 LYS B 71 122.28 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: 390836 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 FOLLOWED BY THE TARGET SEQUENCE. DBREF 3GE6 A 1 211 UNP B1YG32 B1YG32_EXIS2 1 211 DBREF 3GE6 B 1 211 UNP B1YG32 B1YG32_EXIS2 1 211 SEQADV 3GE6 GLY A 0 UNP B1YG32 EXPRESSION TAG SEQADV 3GE6 GLY B 0 UNP B1YG32 EXPRESSION TAG SEQRES 1 A 212 GLY MSE THR THR GLN THR ALA THR ASP PHE MSE GLU ILE SEQRES 2 A 212 VAL LYS GLY ARG ARG SER ILE ARG ASN TYR ASP THR ASN SEQRES 3 A 212 VAL LYS ILE SER LYS GLU GLU MSE THR GLN ILE LEU GLU SEQRES 4 A 212 GLU ALA THR LEU ALA PRO SER SER VAL ASN MSE GLN PRO SEQRES 5 A 212 TRP ARG PHE LEU VAL ILE ASP SER GLU GLU GLY LYS ALA SEQRES 6 A 212 THR LEU ALA PRO LEU ALA LYS PHE ASN GLN VAL GLN VAL SEQRES 7 A 212 GLU THR SER SER ALA VAL ILE ALA VAL PHE GLY ASP MSE SEQRES 8 A 212 LYS ALA ILE ASP GLN LEU GLU ASN ILE TYR ASP THR ALA SEQRES 9 A 212 VAL GLU LYS GLY LEU MSE PRO GLN GLU VAL ARG ASP ARG SEQRES 10 A 212 GLN VAL PRO ALA ILE GLN GLY MSE TYR GLU ASN VAL PRO SEQRES 11 A 212 ALA SER ALA LEU LYS ASP SER ILE LEU ILE ASP SER GLY SEQRES 12 A 212 LEU VAL SER MSE GLN LEU MSE LEU VAL ALA ARG ALA HIS SEQRES 13 A 212 GLY TYR ASP THR ASN PRO ILE GLY GLY TYR GLU LYS ASP SEQRES 14 A 212 GLN ILE ALA GLU ALA PHE GLY MSE GLU LYS ASP ARG TYR SEQRES 15 A 212 VAL PRO VAL MSE LEU LEU SER ILE GLY LYS ALA VAL ASP SEQRES 16 A 212 ALA GLY TYR PRO SER VAL ARG LEU PRO ILE ASN ASP ILE SEQRES 17 A 212 ALA ASP TRP LYS SEQRES 1 B 212 GLY MSE THR THR GLN THR ALA THR ASP PHE MSE GLU ILE SEQRES 2 B 212 VAL LYS GLY ARG ARG SER ILE ARG ASN TYR ASP THR ASN SEQRES 3 B 212 VAL LYS ILE SER LYS GLU GLU MSE THR GLN ILE LEU GLU SEQRES 4 B 212 GLU ALA THR LEU ALA PRO SER SER VAL ASN MSE GLN PRO SEQRES 5 B 212 TRP ARG PHE LEU VAL ILE ASP SER GLU GLU GLY LYS ALA SEQRES 6 B 212 THR LEU ALA PRO LEU ALA LYS PHE ASN GLN VAL GLN VAL SEQRES 7 B 212 GLU THR SER SER ALA VAL ILE ALA VAL PHE GLY ASP MSE SEQRES 8 B 212 LYS ALA ILE ASP GLN LEU GLU ASN ILE TYR ASP THR ALA SEQRES 9 B 212 VAL GLU LYS GLY LEU MSE PRO GLN GLU VAL ARG ASP ARG SEQRES 10 B 212 GLN VAL PRO ALA ILE GLN GLY MSE TYR GLU ASN VAL PRO SEQRES 11 B 212 ALA SER ALA LEU LYS ASP SER ILE LEU ILE ASP SER GLY SEQRES 12 B 212 LEU VAL SER MSE GLN LEU MSE LEU VAL ALA ARG ALA HIS SEQRES 13 B 212 GLY TYR ASP THR ASN PRO ILE GLY GLY TYR GLU LYS ASP SEQRES 14 B 212 GLN ILE ALA GLU ALA PHE GLY MSE GLU LYS ASP ARG TYR SEQRES 15 B 212 VAL PRO VAL MSE LEU LEU SER ILE GLY LYS ALA VAL ASP SEQRES 16 B 212 ALA GLY TYR PRO SER VAL ARG LEU PRO ILE ASN ASP ILE SEQRES 17 B 212 ALA ASP TRP LYS MODRES 3GE6 MSE A 10 MET SELENOMETHIONINE MODRES 3GE6 MSE A 33 MET SELENOMETHIONINE MODRES 3GE6 MSE A 49 MET SELENOMETHIONINE MODRES 3GE6 MSE A 90 MET SELENOMETHIONINE MODRES 3GE6 MSE A 109 MET SELENOMETHIONINE MODRES 3GE6 MSE A 124 MET SELENOMETHIONINE MODRES 3GE6 MSE A 146 MET SELENOMETHIONINE MODRES 3GE6 MSE A 149 MET SELENOMETHIONINE MODRES 3GE6 MSE A 176 MET SELENOMETHIONINE MODRES 3GE6 MSE A 185 MET SELENOMETHIONINE MODRES 3GE6 MSE B 10 MET SELENOMETHIONINE MODRES 3GE6 MSE B 33 MET SELENOMETHIONINE MODRES 3GE6 MSE B 49 MET SELENOMETHIONINE MODRES 3GE6 MSE B 90 MET SELENOMETHIONINE MODRES 3GE6 MSE B 109 MET SELENOMETHIONINE MODRES 3GE6 MSE B 124 MET SELENOMETHIONINE MODRES 3GE6 MSE B 146 MET SELENOMETHIONINE MODRES 3GE6 MSE B 149 MET SELENOMETHIONINE MODRES 3GE6 MSE B 176 MET SELENOMETHIONINE MODRES 3GE6 MSE B 185 MET SELENOMETHIONINE HET MSE A 10 8 HET MSE A 33 8 HET MSE A 49 8 HET MSE A 90 8 HET MSE A 109 8 HET MSE A 124 8 HET MSE A 146 8 HET MSE A 149 8 HET MSE A 176 8 HET MSE A 185 8 HET MSE B 10 8 HET MSE B 33 8 HET MSE B 49 8 HET MSE B 90 8 HET MSE B 109 8 HET MSE B 124 8 HET MSE B 146 8 HET MSE B 149 8 HET MSE B 176 8 HET MSE B 185 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 20(C5 H11 N O2 SE) FORMUL 3 FMN 2(C17 H21 N4 O9 P) FORMUL 5 HOH *459(H2 O) HELIX 1 1 ASP A 8 GLY A 15 1 8 HELIX 2 2 SER A 29 THR A 41 1 13 HELIX 3 3 SER A 45 MSE A 49 5 5 HELIX 4 4 SER A 59 ALA A 67 1 9 HELIX 5 5 PRO A 68 ALA A 70 5 3 HELIX 6 6 ASN A 73 SER A 80 1 8 HELIX 7 7 LYS A 91 ASP A 94 5 4 HELIX 8 8 GLN A 95 LYS A 106 1 12 HELIX 9 9 PRO A 110 ASN A 127 1 18 HELIX 10 10 PRO A 129 HIS A 155 1 27 HELIX 11 11 GLU A 166 PHE A 174 1 9 HELIX 12 12 PRO A 203 ASP A 206 5 4 HELIX 13 13 ASP B 8 GLY B 15 1 8 HELIX 14 14 SER B 29 THR B 41 1 13 HELIX 15 15 SER B 45 MSE B 49 5 5 HELIX 16 16 SER B 59 ALA B 67 1 9 HELIX 17 17 PRO B 68 ALA B 70 5 3 HELIX 18 18 ASN B 73 SER B 80 1 8 HELIX 19 19 LYS B 91 ASP B 94 5 4 HELIX 20 20 GLN B 95 LYS B 106 1 12 HELIX 21 21 PRO B 110 ASN B 127 1 18 HELIX 22 22 PRO B 129 HIS B 155 1 27 HELIX 23 23 GLU B 166 PHE B 174 1 9 HELIX 24 24 PRO B 203 ASP B 206 5 4 SHEET 1 A 5 ASP A 158 ILE A 162 0 SHEET 2 A 5 TYR A 181 GLY A 190 -1 O LEU A 186 N ILE A 162 SHEET 3 A 5 ALA A 82 ASP A 89 -1 N ILE A 84 O LEU A 187 SHEET 4 A 5 TRP A 52 ILE A 57 -1 N ILE A 57 O VAL A 83 SHEET 5 A 5 ALA B 208 TRP B 210 1 O ASP B 209 N VAL A 56 SHEET 1 B 5 ALA A 208 TRP A 210 0 SHEET 2 B 5 TRP B 52 ILE B 57 1 O VAL B 56 N ASP A 209 SHEET 3 B 5 ALA B 82 ASP B 89 -1 O VAL B 83 N ILE B 57 SHEET 4 B 5 TYR B 181 GLY B 190 -1 O MSE B 185 N VAL B 86 SHEET 5 B 5 ASP B 158 ILE B 162 -1 N ILE B 162 O LEU B 186 LINK C PHE A 9 N MSE A 10 1555 1555 1.33 LINK C MSE A 10 N GLU A 11 1555 1555 1.33 LINK C GLU A 32 N MSE A 33 1555 1555 1.33 LINK C MSE A 33 N THR A 34 1555 1555 1.33 LINK C ASN A 48 N MSE A 49 1555 1555 1.33 LINK C MSE A 49 N GLN A 50 1555 1555 1.34 LINK C ASP A 89 N MSE A 90 1555 1555 1.34 LINK C MSE A 90 N LYS A 91 1555 1555 1.34 LINK C LEU A 108 N MSE A 109 1555 1555 1.33 LINK C MSE A 109 N PRO A 110 1555 1555 1.34 LINK C GLY A 123 N MSE A 124 1555 1555 1.32 LINK C MSE A 124 N TYR A 125 1555 1555 1.32 LINK C SER A 145 N MSE A 146 1555 1555 1.33 LINK C MSE A 146 N GLN A 147 1555 1555 1.32 LINK C LEU A 148 N MSE A 149 1555 1555 1.32 LINK C MSE A 149 N LEU A 150 1555 1555 1.32 LINK C GLY A 175 N MSE A 176 1555 1555 1.34 LINK C MSE A 176 N GLU A 177 1555 1555 1.34 LINK C VAL A 184 N MSE A 185 1555 1555 1.33 LINK C MSE A 185 N LEU A 186 1555 1555 1.34 LINK C PHE B 9 N MSE B 10 1555 1555 1.33 LINK C MSE B 10 N GLU B 11 1555 1555 1.34 LINK C GLU B 32 N MSE B 33 1555 1555 1.34 LINK C MSE B 33 N THR B 34 1555 1555 1.33 LINK C ASN B 48 N MSE B 49 1555 1555 1.33 LINK C MSE B 49 N GLN B 50 1555 1555 1.33 LINK C ASP B 89 N MSE B 90 1555 1555 1.33 LINK C MSE B 90 N LYS B 91 1555 1555 1.34 LINK C LEU B 108 N MSE B 109 1555 1555 1.34 LINK C MSE B 109 N PRO B 110 1555 1555 1.35 LINK C GLY B 123 N MSE B 124 1555 1555 1.33 LINK C MSE B 124 N TYR B 125 1555 1555 1.33 LINK C SER B 145 N MSE B 146 1555 1555 1.33 LINK C MSE B 146 N GLN B 147 1555 1555 1.34 LINK C LEU B 148 N MSE B 149 1555 1555 1.33 LINK C MSE B 149 N LEU B 150 1555 1555 1.33 LINK C GLY B 175 N MSE B 176 1555 1555 1.32 LINK C MSE B 176 N GLU B 177 1555 1555 1.33 LINK C VAL B 184 N MSE B 185 1555 1555 1.32 LINK C MSE B 185 N LEU B 186 1555 1555 1.33 SITE 1 AC1 24 ARG A 16 ARG A 17 SER A 18 ARG A 20 SITE 2 AC1 24 PHE A 72 ASN A 73 GLN A 76 ASN A 160 SITE 3 AC1 24 PRO A 161 ILE A 162 GLY A 163 GLY A 164 SITE 4 AC1 24 SER A 199 ARG A 201 HOH A 232 HOH A 251 SITE 5 AC1 24 HOH A 354 HOH A 483 HOH A 493 PRO B 44 SITE 6 AC1 24 SER B 45 SER B 46 ASN B 48 LEU B 143 SITE 1 AC2 23 PRO A 44 SER A 45 SER A 46 ASN A 48 SITE 2 AC2 23 LEU A 143 ARG B 16 ARG B 17 SER B 18 SITE 3 AC2 23 ARG B 20 ASN B 73 GLN B 76 ASN B 160 SITE 4 AC2 23 PRO B 161 ILE B 162 GLY B 163 GLY B 164 SITE 5 AC2 23 SER B 199 ARG B 201 HOH B 273 HOH B 281 SITE 6 AC2 23 HOH B 366 HOH B 491 HOH B 535 CRYST1 53.970 81.300 93.790 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 0.018529 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012300 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010662 0.00000