HEADER OXIDOREDUCTASE 27-FEB-17 5NA1 TITLE NADH:QUINONE OXIDOREDUCTASE (NDH-II) FROM STAPHYLOCOCCUS AUREUS - TITLE 2 HOLOPROTEIN STRUCTURE - 2.32 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: NADH DEHYDROGENASE-LIKE PROTEIN SAOUHSC_00878; COMPND 3 CHAIN: A; COMPND 4 EC: 1.6.99.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS NCTC 8325; SOURCE 3 ORGANISM_TAXID: 93061; SOURCE 4 GENE: SAOUHSC_00878; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OXIDOREDUCTASE, NADH, RESPIRATORY CHAIN, ENERGETIC METABOLISM EXPDTA X-RAY DIFFRACTION AUTHOR J.A.BRITO,D.ATHAYDE,F.M.SOUSA,F.V.SENA,M.M.PEREIRA,M.ARCHER REVDAT 3 02-MAY-18 5NA1 1 REMARK REVDAT 2 17-JAN-18 5NA1 1 JRNL REVDAT 1 10-JAN-18 5NA1 0 SPRSDE 10-JAN-18 5NA1 4XDB JRNL AUTH F.M.SOUSA,F.V.SENA,A.P.BATISTA,D.ATHAYDE,J.A.BRITO,M.ARCHER, JRNL AUTH 2 A.S.F.OLIVEIRA,C.M.SOARES,T.CATARINO,M.M.PEREIRA JRNL TITL THE KEY ROLE OF GLUTAMATE 172 IN THE MECHANISM OF TYPE II JRNL TITL 2 NADH:QUINONE OXIDOREDUCTASE OF STAPHYLOCOCCUS AUREUS. JRNL REF BIOCHIM. BIOPHYS. ACTA V.1858 823 2017 JRNL REFN ISSN 0006-3002 JRNL PMID 28801048 JRNL DOI 10.1016/J.BBABIO.2017.08.002 REMARK 2 REMARK 2 RESOLUTION. 2.32 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 25420 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.440 REMARK 3 FREE R VALUE TEST SET COUNT : 1383 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.000 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 13 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.32 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.42 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2845 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2020 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2686 REMARK 3 BIN R VALUE (WORKING SET) : 0.2020 REMARK 3 BIN FREE R VALUE : 0.2140 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.59 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 159 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3072 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 72 REMARK 3 SOLVENT ATOMS : 112 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 50.65 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.19 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) : 0.00000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.270 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.222 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.176 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 6324 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 11454 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1434 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 87 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 955 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 6324 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 1 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 417 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 6703 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.05 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.35 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 15.01 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 9.9824 11.6322 -23.9794 REMARK 3 T TENSOR REMARK 3 T11: 0.0218 T22: -0.1050 REMARK 3 T33: 0.0748 T12: -0.0155 REMARK 3 T13: 0.0197 T23: 0.0246 REMARK 3 L TENSOR REMARK 3 L11: 0.5510 L22: 0.8350 REMARK 3 L33: 1.0380 L12: -0.0827 REMARK 3 L13: -0.0795 L23: 0.3084 REMARK 3 S TENSOR REMARK 3 S11: 0.0157 S12: -0.0479 S13: -0.0753 REMARK 3 S21: -0.0643 S22: 0.0272 S23: -0.0464 REMARK 3 S31: -0.0810 S32: 0.0931 S33: -0.0428 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5NA1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-FEB-17. REMARK 100 THE DEPOSITION ID IS D_1200003756. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUL-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25557 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.320 REMARK 200 RESOLUTION RANGE LOW (A) : 75.210 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4XDB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.4 M SODIUM MALONATE DIBASIC REMARK 280 MONOHYDRATE PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 3 2 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 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 Y+1/4,X+3/4,-Z+3/4 REMARK 290 14555 -Y+1/4,-X+1/4,-Z+1/4 REMARK 290 15555 Y+3/4,-X+3/4,Z+1/4 REMARK 290 16555 -Y+3/4,X+1/4,Z+3/4 REMARK 290 17555 X+1/4,Z+3/4,-Y+3/4 REMARK 290 18555 -X+3/4,Z+1/4,Y+3/4 REMARK 290 19555 -X+1/4,-Z+1/4,-Y+1/4 REMARK 290 20555 X+3/4,-Z+3/4,Y+1/4 REMARK 290 21555 Z+1/4,Y+3/4,-X+3/4 REMARK 290 22555 Z+3/4,-Y+3/4,X+1/4 REMARK 290 23555 -Z+3/4,Y+1/4,X+3/4 REMARK 290 24555 -Z+1/4,-Y+1/4,-X+1/4 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 75.20900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 75.20900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 75.20900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 75.20900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 75.20900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 75.20900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 75.20900 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 75.20900 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 75.20900 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 75.20900 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 75.20900 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 75.20900 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 75.20900 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 75.20900 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 75.20900 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 75.20900 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 75.20900 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 75.20900 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 37.60450 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 112.81350 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 112.81350 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 37.60450 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 37.60450 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 37.60450 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 112.81350 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 112.81350 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 37.60450 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 112.81350 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 37.60450 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 112.81350 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 37.60450 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 112.81350 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 112.81350 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 112.81350 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 37.60450 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 112.81350 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 37.60450 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 37.60450 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 37.60450 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 112.81350 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 112.81350 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 37.60450 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 37.60450 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 112.81350 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 112.81350 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 112.81350 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 112.81350 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 37.60450 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 112.81350 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 37.60450 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 112.81350 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 37.60450 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 37.60450 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 37.60450 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 GLN A 3 REMARK 465 ASP A 4 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 13 47.88 -105.02 REMARK 500 ALA A 108 50.12 -141.92 REMARK 500 LYS A 154 66.94 63.36 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 FAD A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MLI A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MLI A 1004 DBREF 5NA1 A 1 402 UNP Q2FZV7 Y878_STAA8 1 402 SEQADV 5NA1 HIS A -5 UNP Q2FZV7 EXPRESSION TAG SEQADV 5NA1 HIS A -4 UNP Q2FZV7 EXPRESSION TAG SEQADV 5NA1 HIS A -3 UNP Q2FZV7 EXPRESSION TAG SEQADV 5NA1 HIS A -2 UNP Q2FZV7 EXPRESSION TAG SEQADV 5NA1 HIS A -1 UNP Q2FZV7 EXPRESSION TAG SEQADV 5NA1 HIS A 0 UNP Q2FZV7 EXPRESSION TAG SEQRES 1 A 408 HIS HIS HIS HIS HIS HIS MET ALA GLN ASP ARG LYS LYS SEQRES 2 A 408 VAL LEU VAL LEU GLY ALA GLY TYR ALA GLY LEU GLN THR SEQRES 3 A 408 VAL THR LYS LEU GLN LYS ALA ILE SER THR GLU GLU ALA SEQRES 4 A 408 GLU ILE THR LEU ILE ASN LYS ASN GLU TYR HIS TYR GLU SEQRES 5 A 408 ALA THR TRP LEU HIS GLU ALA SER ALA GLY THR LEU ASN SEQRES 6 A 408 TYR GLU ASP VAL LEU TYR PRO VAL GLU SER VAL LEU LYS SEQRES 7 A 408 LYS ASP LYS VAL ASN PHE VAL GLN ALA GLU VAL THR LYS SEQRES 8 A 408 ILE ASP ARG ASP ALA LYS LYS VAL GLU THR ASN GLN GLY SEQRES 9 A 408 ILE TYR ASP PHE ASP ILE LEU VAL VAL ALA LEU GLY PHE SEQRES 10 A 408 VAL SER GLU THR PHE GLY ILE GLU GLY MET LYS ASP HIS SEQRES 11 A 408 ALA PHE GLN ILE GLU ASN VAL ILE THR ALA ARG GLU LEU SEQRES 12 A 408 SER ARG HIS ILE GLU ASP LYS PHE ALA ASN TYR ALA ALA SEQRES 13 A 408 SER LYS GLU LYS ASP ASP ASN ASP LEU SER ILE LEU VAL SEQRES 14 A 408 GLY GLY ALA GLY PHE THR GLY VAL GLU PHE LEU GLY GLU SEQRES 15 A 408 LEU THR ASP ARG ILE PRO GLU LEU CYS SER LYS TYR GLY SEQRES 16 A 408 VAL ASP GLN ASN LYS VAL LYS ILE THR CYS VAL GLU ALA SEQRES 17 A 408 ALA PRO LYS MET LEU PRO MET PHE SER GLU GLU LEU VAL SEQRES 18 A 408 ASN HIS ALA VAL SER TYR LEU GLU ASP ARG GLY VAL GLU SEQRES 19 A 408 PHE LYS ILE ALA THR PRO ILE VAL ALA CYS ASN GLU LYS SEQRES 20 A 408 GLY PHE VAL VAL GLU VAL ASP GLY GLU LYS GLN GLN LEU SEQRES 21 A 408 ASN ALA GLY THR SER VAL TRP ALA ALA GLY VAL ARG GLY SEQRES 22 A 408 SER LYS LEU MET GLU GLU SER PHE GLU GLY VAL LYS ARG SEQRES 23 A 408 GLY ARG ILE VAL THR LYS GLN ASP LEU THR ILE ASN GLY SEQRES 24 A 408 TYR ASP ASN ILE PHE VAL ILE GLY ASP CYS SER ALA PHE SEQRES 25 A 408 ILE PRO ALA GLY GLU GLU ARG PRO LEU PRO THR THR ALA SEQRES 26 A 408 GLN ILE ALA MET GLN GLN GLY GLU SER VAL ALA LYS ASN SEQRES 27 A 408 ILE LYS ARG ILE LEU ASN GLY GLU SER THR GLU GLU PHE SEQRES 28 A 408 GLU TYR VAL ASP ARG GLY THR VAL CYS SER LEU GLY SER SEQRES 29 A 408 HIS ASP GLY VAL GLY MET VAL PHE GLY LYS PRO ILE ALA SEQRES 30 A 408 GLY LYS LYS ALA ALA PHE MET LYS LYS VAL ILE ASP THR SEQRES 31 A 408 ARG ALA VAL PHE LYS ILE GLY GLY ILE GLY LEU ALA PHE SEQRES 32 A 408 LYS LYS GLY LYS PHE HET FAD A1001 53 HET PO4 A1002 5 HET MLI A1003 7 HET MLI A1004 7 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM PO4 PHOSPHATE ION HETNAM MLI MALONATE ION FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 PO4 O4 P 3- FORMUL 4 MLI 2(C3 H2 O4 2-) FORMUL 6 HOH *112(H2 O) HELIX 1 AA1 GLY A 14 ILE A 28 1 15 HELIX 2 AA2 TRP A 49 GLY A 56 1 8 HELIX 3 AA3 ASN A 59 ASP A 62 5 4 HELIX 4 AA4 GLU A 68 LEU A 71 5 4 HELIX 5 AA5 GLY A 120 ALA A 125 1 6 HELIX 6 AA6 ASN A 130 SER A 151 1 22 HELIX 7 AA7 ASP A 155 ASP A 158 5 4 HELIX 8 AA8 GLY A 167 GLY A 189 1 23 HELIX 9 AA9 ASP A 191 VAL A 195 5 5 HELIX 10 AB1 SER A 211 ARG A 225 1 15 HELIX 11 AB2 LYS A 269 PHE A 275 1 7 HELIX 12 AB3 THR A 318 ASN A 338 1 21 HELIX 13 AB4 GLY A 372 GLY A 400 1 29 SHEET 1 AA1 6 VAL A 76 GLN A 80 0 SHEET 2 AA1 6 ALA A 33 ASN A 39 1 N LEU A 37 O VAL A 79 SHEET 3 AA1 6 LYS A 6 LEU A 11 1 N VAL A 8 O GLU A 34 SHEET 4 AA1 6 ILE A 104 VAL A 107 1 O VAL A 106 N LEU A 11 SHEET 5 AA1 6 TYR A 294 VAL A 299 1 O PHE A 298 N LEU A 105 SHEET 6 AA1 6 THR A 290 ILE A 291 -1 N ILE A 291 O TYR A 294 SHEET 1 AA2 2 TYR A 43 TYR A 45 0 SHEET 2 AA2 2 LEU A 64 PRO A 66 -1 O TYR A 65 N HIS A 44 SHEET 1 AA3 3 VAL A 83 ASP A 87 0 SHEET 2 AA3 3 LYS A 92 THR A 95 -1 O LYS A 92 N ASP A 87 SHEET 3 AA3 3 GLY A 98 ASP A 101 -1 O TYR A 100 N VAL A 93 SHEET 1 AA4 2 PHE A 111 SER A 113 0 SHEET 2 AA4 2 VAL A 265 GLY A 267 -1 O ARG A 266 N VAL A 112 SHEET 1 AA5 4 VAL A 227 LYS A 230 0 SHEET 2 AA5 4 LYS A 196 VAL A 200 1 N CYS A 199 O GLU A 228 SHEET 3 AA5 4 SER A 160 GLY A 164 1 N ILE A 161 O LYS A 196 SHEET 4 AA5 4 THR A 258 TRP A 261 1 O VAL A 260 N GLY A 164 SHEET 1 AA6 3 ILE A 235 ASN A 239 0 SHEET 2 AA6 3 GLY A 242 VAL A 247 -1 O VAL A 244 N ALA A 237 SHEET 3 AA6 3 GLU A 250 ASN A 255 -1 O LEU A 254 N PHE A 243 SHEET 1 AA7 3 VAL A 278 LYS A 279 0 SHEET 2 AA7 3 ARG A 282 VAL A 284 -1 O ARG A 282 N LYS A 279 SHEET 3 AA7 3 SER A 304 ALA A 305 1 O ALA A 305 N ILE A 283 SHEET 1 AA8 3 GLY A 351 SER A 355 0 SHEET 2 AA8 3 GLY A 361 VAL A 365 -1 O VAL A 362 N CYS A 354 SHEET 3 AA8 3 LYS A 368 ALA A 371 -1 O ILE A 370 N GLY A 363 SITE 1 AC1 38 GLY A 12 GLY A 14 TYR A 15 ALA A 16 SITE 2 AC1 38 ASN A 39 LYS A 40 ASN A 41 ALA A 47 SITE 3 AC1 38 THR A 48 HIS A 51 ALA A 81 GLU A 82 SITE 4 AC1 38 VAL A 83 ALA A 108 LEU A 109 GLY A 110 SITE 5 AC1 38 PHE A 111 PHE A 168 THR A 169 GLU A 172 SITE 6 AC1 38 LEU A 270 GLY A 301 ASP A 302 THR A 317 SITE 7 AC1 38 THR A 318 ALA A 319 GLN A 320 LYS A 379 SITE 8 AC1 38 HOH A1104 HOH A1106 HOH A1109 HOH A1116 SITE 9 AC1 38 HOH A1119 HOH A1125 HOH A1138 HOH A1142 SITE 10 AC1 38 HOH A1154 HOH A1161 SITE 1 AC2 6 GLU A 119 GLY A 120 MET A 121 LYS A 122 SITE 2 AC2 6 ASP A 123 HOH A1112 SITE 1 AC3 6 SER A 358 HIS A 359 LYS A 373 PHE A 377 SITE 2 AC3 6 LYS A 380 MLI A1004 SITE 1 AC4 3 ARG A 88 LYS A 373 MLI A1003 CRYST1 150.418 150.418 150.418 90.00 90.00 90.00 P 43 3 2 24 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 0.006648 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006648 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006648 0.00000 MASTER 366 0 4 13 26 0 15 6 0 0 0 32 END