HEADER OXIDOREDUCTASE 30-SEP-05 2B67 TITLE CRYSTAL STRUCTURE OF THE NITROREDUCTASE FAMILY PROTEIN FROM TITLE 2 STREPTOCOCCUS PNEUMONIAE TIGR4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: COG0778: NITROREDUCTASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 EC: 1.6.99.3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 170187; SOURCE 4 STRAIN: TIGR4; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS ALPHA-BETA SANDWICH, FMN BINDING POCKET, STRUCTURAL GENOMICS, PSI, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, MIDWEST CENTER FOR STRUCTURAL KEYWDS 3 GENOMICS, MCSG, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.KIM,L.VOLKART,J.ABDULLAH,F.COLLART,A.JOACHIMIAK,MIDWEST CENTER FOR AUTHOR 2 STRUCTURAL GENOMICS (MCSG) REVDAT 4 11-OCT-17 2B67 1 REMARK REVDAT 3 13-JUL-11 2B67 1 VERSN REVDAT 2 24-FEB-09 2B67 1 VERSN REVDAT 1 15-NOV-05 2B67 0 JRNL AUTH Y.KIM,L.VOLKART,J.ABDULLAH,F.COLLART,A.JOACHIMIAK JRNL TITL CRYSTAL STRUCTURE OF THE NITROREDUCTASE FAMILY PROTEIN FROM JRNL TITL 2 STREPTOCOCCUS PNEUMONIAE TIGR4 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 48861 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5450 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) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.11 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3308 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.30 REMARK 3 BIN R VALUE (WORKING SET) : 0.2080 REMARK 3 BIN FREE R VALUE SET COUNT : 355 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6388 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 128 REMARK 3 SOLVENT ATOMS : 753 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.13000 REMARK 3 B22 (A**2) : -0.70000 REMARK 3 B33 (A**2) : 0.75000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.22000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.235 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.206 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.128 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.038 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6776 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9200 ; 1.395 ; 1.996 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 826 ; 5.558 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 317 ;39.671 ;24.448 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1219 ;18.299 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 48 ;17.604 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1030 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5096 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3501 ; 0.226 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4685 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 716 ; 0.176 ; 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): 50 ; 0.183 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 26 ; 0.160 ; 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): 4216 ; 0.925 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6634 ; 1.484 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2992 ; 2.240 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2566 ; 3.610 ; 4.500 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 : 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 : 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: NULL REMARK 4 REMARK 4 2B67 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-OCT-05. REMARK 100 THE DEPOSITION ID IS D_1000034724. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-FEB-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR, REMARK 200 SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SBCCOLLECT REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54339 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 39.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.10900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.2 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.43100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: HKL-3000, SHELXCD, SHELXD, MLPHARE, SOLVE, RESOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, MES, CALCIUM ACETATE, PH REMARK 280 6.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 40.13900 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -46.0 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 REMARK 350 BIOMOLECULE: 2 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: 8310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 SER A -2 REMARK 465 ASN A -1 REMARK 465 ALA A 0 REMARK 465 SER B -2 REMARK 465 ASN B -1 REMARK 465 ALA B 0 REMARK 465 MSE B 1 REMARK 465 SER C -2 REMARK 465 ASN C -1 REMARK 465 ALA C 0 REMARK 465 MSE C 1 REMARK 465 SER D -2 REMARK 465 ASN D -1 REMARK 465 ALA D 0 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 O2P FMN C 803 O HOH C 960 1.81 REMARK 500 O HOH C 996 O HOH D 813 2.19 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 LEU D 134 CA - CB - CG ANGL. DEV. = 18.9 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 43 60.70 37.47 REMARK 500 PRO A 44 49.74 -88.91 REMARK 500 HIS B 40 12.27 59.41 REMARK 500 GLN B 43 57.76 30.44 REMARK 500 PRO B 44 44.67 -82.58 REMARK 500 GLN C 43 59.19 30.74 REMARK 500 GLN D 43 60.49 29.77 REMARK 500 PRO D 44 43.22 -85.70 REMARK 500 LYS D 110 -52.62 -125.10 REMARK 500 LYS D 110 -52.62 -129.54 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 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN C 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN D 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 805 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC80306 RELATED DB: TARGETDB DBREF 2B67 A 1 201 UNP Q97S03 Q97S03_STRPN 1 201 DBREF 2B67 B 1 201 UNP Q97S03 Q97S03_STRPN 1 201 DBREF 2B67 C 1 201 UNP Q97S03 Q97S03_STRPN 1 201 DBREF 2B67 D 1 201 UNP Q97S03 Q97S03_STRPN 1 201 SEQADV 2B67 SER A -2 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 ASN A -1 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 ALA A 0 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 MSE A 1 UNP Q97S03 MET 1 MODIFIED RESIDUE SEQADV 2B67 MSE A 109 UNP Q97S03 MET 109 MODIFIED RESIDUE SEQADV 2B67 MSE A 137 UNP Q97S03 MET 137 MODIFIED RESIDUE SEQADV 2B67 SER B -2 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 ASN B -1 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 ALA B 0 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 MSE B 1 UNP Q97S03 MET 1 MODIFIED RESIDUE SEQADV 2B67 MSE B 109 UNP Q97S03 MET 109 MODIFIED RESIDUE SEQADV 2B67 MSE B 137 UNP Q97S03 MET 137 MODIFIED RESIDUE SEQADV 2B67 SER C -2 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 ASN C -1 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 ALA C 0 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 MSE C 1 UNP Q97S03 MET 1 MODIFIED RESIDUE SEQADV 2B67 MSE C 109 UNP Q97S03 MET 109 MODIFIED RESIDUE SEQADV 2B67 MSE C 137 UNP Q97S03 MET 137 MODIFIED RESIDUE SEQADV 2B67 SER D -2 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 ASN D -1 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 ALA D 0 UNP Q97S03 CLONING ARTIFACT SEQADV 2B67 MSE D 1 UNP Q97S03 MET 1 MODIFIED RESIDUE SEQADV 2B67 MSE D 109 UNP Q97S03 MET 109 MODIFIED RESIDUE SEQADV 2B67 MSE D 137 UNP Q97S03 MET 137 MODIFIED RESIDUE SEQRES 1 A 204 SER ASN ALA MSE LYS PHE LEU GLU LEU ASN LYS LYS ARG SEQRES 2 A 204 HIS ALA THR LYS HIS PHE THR ASP LYS LEU VAL ASP PRO SEQRES 3 A 204 LYS ASP VAL ARG THR ALA ILE GLU ILE ALA THR LEU ALA SEQRES 4 A 204 PRO SER ALA HIS ASN SER GLN PRO TRP LYS PHE VAL VAL SEQRES 5 A 204 VAL ARG GLU LYS ASN ALA GLU LEU ALA LYS LEU ALA TYR SEQRES 6 A 204 GLY SER ASN PHE GLU GLN VAL SER SER ALA PRO VAL THR SEQRES 7 A 204 ILE ALA LEU PHE THR ASP THR ASP LEU ALA LYS ARG ALA SEQRES 8 A 204 ARG LYS ILE ALA ARG VAL GLY GLY ALA ASN ASN PHE SER SEQRES 9 A 204 GLU GLU GLN LEU GLN TYR PHE MSE LYS ASN LEU PRO ALA SEQRES 10 A 204 GLU PHE ALA ARG TYR SER GLU GLN GLN VAL SER ASP TYR SEQRES 11 A 204 LEU ALA LEU ASN ALA GLY LEU VAL ALA MSE ASN LEU VAL SEQRES 12 A 204 LEU ALA LEU THR ASP GLN GLY ILE GLY SER ASN ILE ILE SEQRES 13 A 204 LEU GLY PHE ASP LYS SER LYS VAL ASN GLU VAL LEU GLU SEQRES 14 A 204 ILE GLU ASP ARG PHE ARG PRO GLU LEU LEU ILE THR VAL SEQRES 15 A 204 GLY TYR THR ASP GLU LYS LEU GLU PRO SER TYR ARG LEU SEQRES 16 A 204 PRO VAL ASP GLU ILE ILE GLU LYS ARG SEQRES 1 B 204 SER ASN ALA MSE LYS PHE LEU GLU LEU ASN LYS LYS ARG SEQRES 2 B 204 HIS ALA THR LYS HIS PHE THR ASP LYS LEU VAL ASP PRO SEQRES 3 B 204 LYS ASP VAL ARG THR ALA ILE GLU ILE ALA THR LEU ALA SEQRES 4 B 204 PRO SER ALA HIS ASN SER GLN PRO TRP LYS PHE VAL VAL SEQRES 5 B 204 VAL ARG GLU LYS ASN ALA GLU LEU ALA LYS LEU ALA TYR SEQRES 6 B 204 GLY SER ASN PHE GLU GLN VAL SER SER ALA PRO VAL THR SEQRES 7 B 204 ILE ALA LEU PHE THR ASP THR ASP LEU ALA LYS ARG ALA SEQRES 8 B 204 ARG LYS ILE ALA ARG VAL GLY GLY ALA ASN ASN PHE SER SEQRES 9 B 204 GLU GLU GLN LEU GLN TYR PHE MSE LYS ASN LEU PRO ALA SEQRES 10 B 204 GLU PHE ALA ARG TYR SER GLU GLN GLN VAL SER ASP TYR SEQRES 11 B 204 LEU ALA LEU ASN ALA GLY LEU VAL ALA MSE ASN LEU VAL SEQRES 12 B 204 LEU ALA LEU THR ASP GLN GLY ILE GLY SER ASN ILE ILE SEQRES 13 B 204 LEU GLY PHE ASP LYS SER LYS VAL ASN GLU VAL LEU GLU SEQRES 14 B 204 ILE GLU ASP ARG PHE ARG PRO GLU LEU LEU ILE THR VAL SEQRES 15 B 204 GLY TYR THR ASP GLU LYS LEU GLU PRO SER TYR ARG LEU SEQRES 16 B 204 PRO VAL ASP GLU ILE ILE GLU LYS ARG SEQRES 1 C 204 SER ASN ALA MSE LYS PHE LEU GLU LEU ASN LYS LYS ARG SEQRES 2 C 204 HIS ALA THR LYS HIS PHE THR ASP LYS LEU VAL ASP PRO SEQRES 3 C 204 LYS ASP VAL ARG THR ALA ILE GLU ILE ALA THR LEU ALA SEQRES 4 C 204 PRO SER ALA HIS ASN SER GLN PRO TRP LYS PHE VAL VAL SEQRES 5 C 204 VAL ARG GLU LYS ASN ALA GLU LEU ALA LYS LEU ALA TYR SEQRES 6 C 204 GLY SER ASN PHE GLU GLN VAL SER SER ALA PRO VAL THR SEQRES 7 C 204 ILE ALA LEU PHE THR ASP THR ASP LEU ALA LYS ARG ALA SEQRES 8 C 204 ARG LYS ILE ALA ARG VAL GLY GLY ALA ASN ASN PHE SER SEQRES 9 C 204 GLU GLU GLN LEU GLN TYR PHE MSE LYS ASN LEU PRO ALA SEQRES 10 C 204 GLU PHE ALA ARG TYR SER GLU GLN GLN VAL SER ASP TYR SEQRES 11 C 204 LEU ALA LEU ASN ALA GLY LEU VAL ALA MSE ASN LEU VAL SEQRES 12 C 204 LEU ALA LEU THR ASP GLN GLY ILE GLY SER ASN ILE ILE SEQRES 13 C 204 LEU GLY PHE ASP LYS SER LYS VAL ASN GLU VAL LEU GLU SEQRES 14 C 204 ILE GLU ASP ARG PHE ARG PRO GLU LEU LEU ILE THR VAL SEQRES 15 C 204 GLY TYR THR ASP GLU LYS LEU GLU PRO SER TYR ARG LEU SEQRES 16 C 204 PRO VAL ASP GLU ILE ILE GLU LYS ARG SEQRES 1 D 204 SER ASN ALA MSE LYS PHE LEU GLU LEU ASN LYS LYS ARG SEQRES 2 D 204 HIS ALA THR LYS HIS PHE THR ASP LYS LEU VAL ASP PRO SEQRES 3 D 204 LYS ASP VAL ARG THR ALA ILE GLU ILE ALA THR LEU ALA SEQRES 4 D 204 PRO SER ALA HIS ASN SER GLN PRO TRP LYS PHE VAL VAL SEQRES 5 D 204 VAL ARG GLU LYS ASN ALA GLU LEU ALA LYS LEU ALA TYR SEQRES 6 D 204 GLY SER ASN PHE GLU GLN VAL SER SER ALA PRO VAL THR SEQRES 7 D 204 ILE ALA LEU PHE THR ASP THR ASP LEU ALA LYS ARG ALA SEQRES 8 D 204 ARG LYS ILE ALA ARG VAL GLY GLY ALA ASN ASN PHE SER SEQRES 9 D 204 GLU GLU GLN LEU GLN TYR PHE MSE LYS ASN LEU PRO ALA SEQRES 10 D 204 GLU PHE ALA ARG TYR SER GLU GLN GLN VAL SER ASP TYR SEQRES 11 D 204 LEU ALA LEU ASN ALA GLY LEU VAL ALA MSE ASN LEU VAL SEQRES 12 D 204 LEU ALA LEU THR ASP GLN GLY ILE GLY SER ASN ILE ILE SEQRES 13 D 204 LEU GLY PHE ASP LYS SER LYS VAL ASN GLU VAL LEU GLU SEQRES 14 D 204 ILE GLU ASP ARG PHE ARG PRO GLU LEU LEU ILE THR VAL SEQRES 15 D 204 GLY TYR THR ASP GLU LYS LEU GLU PRO SER TYR ARG LEU SEQRES 16 D 204 PRO VAL ASP GLU ILE ILE GLU LYS ARG MODRES 2B67 MSE A 1 MET SELENOMETHIONINE MODRES 2B67 MSE A 109 MET SELENOMETHIONINE MODRES 2B67 MSE A 137 MET SELENOMETHIONINE MODRES 2B67 MSE B 109 MET SELENOMETHIONINE MODRES 2B67 MSE B 137 MET SELENOMETHIONINE MODRES 2B67 MSE C 109 MET SELENOMETHIONINE MODRES 2B67 MSE C 137 MET SELENOMETHIONINE MODRES 2B67 MSE D 1 MET SELENOMETHIONINE MODRES 2B67 MSE D 109 MET SELENOMETHIONINE MODRES 2B67 MSE D 137 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 109 8 HET MSE A 137 8 HET MSE B 109 8 HET MSE B 137 8 HET MSE C 109 16 HET MSE C 137 8 HET MSE D 1 8 HET MSE D 109 16 HET MSE D 137 8 HET FMN A 801 31 HET ACY A 805 4 HET FMN B 802 31 HET FMN C 803 31 HET FMN D 804 31 HETNAM MSE SELENOMETHIONINE HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM ACY ACETIC ACID HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 1 MSE 10(C5 H11 N O2 SE) FORMUL 5 FMN 4(C17 H21 N4 O9 P) FORMUL 6 ACY C2 H4 O2 FORMUL 10 HOH *753(H2 O) HELIX 1 1 MSE A 1 ARG A 10 1 10 HELIX 2 2 ASP A 22 THR A 34 1 13 HELIX 3 3 SER A 38 SER A 42 5 5 HELIX 4 4 LYS A 53 LYS A 59 1 7 HELIX 5 5 LEU A 60 ALA A 61 5 2 HELIX 6 6 TYR A 62 GLY A 63 5 2 HELIX 7 7 SER A 64 ALA A 72 1 9 HELIX 8 8 ASP A 83 GLY A 96 1 14 HELIX 9 9 ALA A 97 ASN A 99 5 3 HELIX 10 10 SER A 101 LYS A 110 1 10 HELIX 11 11 LYS A 110 ARG A 118 1 9 HELIX 12 12 SER A 120 GLN A 146 1 27 HELIX 13 13 ASP A 157 GLU A 166 1 10 HELIX 14 14 PRO A 193 GLU A 196 5 4 HELIX 15 15 LYS B 2 ARG B 10 1 9 HELIX 16 16 ASP B 22 THR B 34 1 13 HELIX 17 17 SER B 38 SER B 42 5 5 HELIX 18 18 LYS B 53 LYS B 59 1 7 HELIX 19 19 LEU B 60 ALA B 61 5 2 HELIX 20 20 TYR B 62 GLY B 63 5 2 HELIX 21 21 SER B 64 ALA B 72 1 9 HELIX 22 22 ASP B 83 PHE B 100 1 18 HELIX 23 23 SER B 101 LYS B 110 1 10 HELIX 24 24 LYS B 110 TYR B 119 1 10 HELIX 25 25 SER B 120 GLN B 146 1 27 HELIX 26 26 ASP B 157 SER B 159 5 3 HELIX 27 27 LYS B 160 GLU B 166 1 7 HELIX 28 28 PRO B 193 ILE B 197 1 5 HELIX 29 29 LYS C 2 ARG C 10 1 9 HELIX 30 30 ASP C 22 THR C 34 1 13 HELIX 31 31 SER C 38 SER C 42 5 5 HELIX 32 32 LYS C 53 LYS C 59 1 7 HELIX 33 33 LEU C 60 ALA C 61 5 2 HELIX 34 34 TYR C 62 GLY C 63 5 2 HELIX 35 35 SER C 64 ALA C 72 1 9 HELIX 36 36 ASP C 83 PHE C 100 1 18 HELIX 37 37 SER C 101 LYS C 110 1 10 HELIX 38 38 LYS C 110 ARG C 118 1 9 HELIX 39 39 SER C 120 GLN C 146 1 27 HELIX 40 40 ASP C 157 LEU C 165 1 9 HELIX 41 41 PRO C 193 GLU C 196 5 4 HELIX 42 42 MSE D 1 ARG D 10 1 10 HELIX 43 43 ASP D 22 THR D 34 1 13 HELIX 44 44 SER D 38 SER D 42 5 5 HELIX 45 45 LYS D 53 LYS D 59 1 7 HELIX 46 46 LEU D 60 ALA D 61 5 2 HELIX 47 47 TYR D 62 GLY D 63 5 2 HELIX 48 48 SER D 64 ALA D 72 1 9 HELIX 49 49 ASP D 83 GLY D 96 1 14 HELIX 50 50 SER D 101 LYS D 110 1 10 HELIX 51 51 LYS D 110 ALA D 117 1 8 HELIX 52 52 SER D 120 GLN D 146 1 27 HELIX 53 53 ASP D 157 GLU D 166 1 10 HELIX 54 54 PRO D 193 ILE D 197 1 5 SHEET 1 A 5 GLY A 149 ILE A 153 0 SHEET 2 A 5 PHE A 171 GLY A 180 -1 O LEU A 176 N ILE A 153 SHEET 3 A 5 VAL A 74 ASP A 81 -1 N VAL A 74 O VAL A 179 SHEET 4 A 5 TRP A 45 VAL A 50 -1 N VAL A 50 O THR A 75 SHEET 5 A 5 ILE B 198 ARG B 201 1 O GLU B 199 N PHE A 47 SHEET 1 B 5 ILE A 198 ARG A 201 0 SHEET 2 B 5 TRP B 45 VAL B 50 1 O VAL B 49 N GLU A 199 SHEET 3 B 5 VAL B 74 ASP B 81 -1 O ALA B 77 N VAL B 48 SHEET 4 B 5 PHE B 171 GLY B 180 -1 O GLU B 174 N LEU B 78 SHEET 5 B 5 GLY B 149 ILE B 153 -1 N ILE B 153 O LEU B 176 SHEET 1 C 5 GLY C 149 ILE C 153 0 SHEET 2 C 5 PHE C 171 GLY C 180 -1 O LEU C 176 N ILE C 153 SHEET 3 C 5 VAL C 74 ASP C 81 -1 N LEU C 78 O GLU C 174 SHEET 4 C 5 TRP C 45 VAL C 50 -1 N VAL C 48 O ALA C 77 SHEET 5 C 5 ILE D 198 ARG D 201 1 O ARG D 201 N VAL C 49 SHEET 1 D 5 ILE C 198 ARG C 201 0 SHEET 2 D 5 TRP D 45 VAL D 50 1 O VAL D 49 N GLU C 199 SHEET 3 D 5 VAL D 74 ASP D 81 -1 O ALA D 77 N VAL D 48 SHEET 4 D 5 PHE D 171 GLY D 180 -1 O GLU D 174 N LEU D 78 SHEET 5 D 5 GLY D 149 ILE D 153 -1 N ILE D 153 O LEU D 176 LINK C MSE A 1 N LYS A 2 1555 1555 1.34 LINK C PHE A 108 N MSE A 109 1555 1555 1.33 LINK C MSE A 109 N LYS A 110 1555 1555 1.33 LINK C ALA A 136 N MSE A 137 1555 1555 1.33 LINK C MSE A 137 N ASN A 138 1555 1555 1.33 LINK C PHE B 108 N MSE B 109 1555 1555 1.33 LINK C MSE B 109 N LYS B 110 1555 1555 1.33 LINK C ALA B 136 N MSE B 137 1555 1555 1.34 LINK C MSE B 137 N ASN B 138 1555 1555 1.34 LINK C PHE C 108 N BMSE C 109 1555 1555 1.33 LINK C PHE C 108 N AMSE C 109 1555 1555 1.33 LINK C BMSE C 109 N LYS C 110 1555 1555 1.33 LINK C AMSE C 109 N LYS C 110 1555 1555 1.33 LINK C ALA C 136 N MSE C 137 1555 1555 1.33 LINK C MSE C 137 N ASN C 138 1555 1555 1.33 LINK C MSE D 1 N LYS D 2 1555 1555 1.33 LINK C PHE D 108 N BMSE D 109 1555 1555 1.34 LINK C PHE D 108 N AMSE D 109 1555 1555 1.33 LINK C BMSE D 109 N LYS D 110 1555 1555 1.33 LINK C AMSE D 109 N LYS D 110 1555 1555 1.33 LINK C ALA D 136 N MSE D 137 1555 1555 1.34 LINK C MSE D 137 N ASN D 138 1555 1555 1.33 SITE 1 AC1 21 ARG A 10 ALA A 12 LYS A 14 ASN A 65 SITE 2 AC1 21 GLN A 68 ASN A 151 ILE A 152 ILE A 153 SITE 3 AC1 21 LEU A 154 GLY A 155 SER A 189 ARG A 191 SITE 4 AC1 21 HOH A 816 HOH A 828 HOH A 834 PRO B 37 SITE 5 AC1 21 SER B 38 ALA B 39 ASN B 41 LEU B 130 SITE 6 AC1 21 LEU B 134 SITE 1 AC2 22 PRO A 37 SER A 38 ALA A 39 ASN A 41 SITE 2 AC2 22 LEU A 130 LEU A 134 HOH A1022 ARG B 10 SITE 3 AC2 22 ALA B 12 LYS B 14 ASN B 65 GLN B 68 SITE 4 AC2 22 ASN B 151 ILE B 152 ILE B 153 LEU B 154 SITE 5 AC2 22 GLY B 155 SER B 189 ARG B 191 HOH B 829 SITE 6 AC2 22 HOH B 846 HOH B 932 SITE 1 AC3 21 ARG C 10 ALA C 12 LYS C 14 ASN C 65 SITE 2 AC3 21 GLN C 68 ASN C 151 ILE C 152 ILE C 153 SITE 3 AC3 21 LEU C 154 GLY C 155 SER C 189 ARG C 191 SITE 4 AC3 21 HOH C 866 HOH C 960 HOH C1006 PRO D 37 SITE 5 AC3 21 SER D 38 ALA D 39 ASN D 41 LEU D 130 SITE 6 AC3 21 LEU D 134 SITE 1 AC4 20 PRO C 37 SER C 38 ALA C 39 ASN C 41 SITE 2 AC4 20 LEU C 130 LEU C 134 HOH C 884 ARG D 10 SITE 3 AC4 20 ALA D 12 ASN D 65 GLN D 68 ASN D 151 SITE 4 AC4 20 ILE D 152 ILE D 153 LEU D 154 GLY D 155 SITE 5 AC4 20 SER D 189 ARG D 191 HOH D 871 HOH D 913 SITE 1 AC5 5 LYS A 46 LYS A 90 PHE A 171 HOH A 895 SITE 2 AC5 5 HOH A 924 CRYST1 55.400 80.278 103.015 90.00 100.61 90.00 P 1 21 1 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 0.018051 0.000000 0.003380 0.00000 SCALE2 0.000000 0.012457 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009876 0.00000 HETATM 1 N MSE A 1 12.874 27.413 57.545 1.00 43.81 N HETATM 2 CA MSE A 1 12.213 27.086 58.847 1.00 44.02 C HETATM 3 C MSE A 1 10.805 26.485 58.671 1.00 42.88 C HETATM 4 O MSE A 1 10.680 25.265 58.520 1.00 43.27 O HETATM 5 CB MSE A 1 12.224 28.303 59.801 1.00 44.30 C HETATM 6 CG MSE A 1 11.780 29.643 59.180 1.00 45.11 C HETATM 7 SE MSE A 1 13.062 31.087 59.497 0.30 45.49 SE HETATM 8 CE MSE A 1 11.821 32.631 59.474 1.00 45.07 C