HEADER METAL BINDING PROTEIN 02-OCT-19 6L25 TITLE DEOXYRIBONUCLEASE FROM STAPHYLOCOCCUS AUREUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYRIBONUCLEASE YCFH; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: HYDROLASE TATD,HYDROLASE,TATD FAMILY,METAL-DEPENDENT DNASE, COMPND 5 MG-DEPENDENT DNASE,PUTATIVE DEOXYRIBONUCLEASE YCFH,TATD FAMILY COMPND 6 DEOXYRIBONUCLEASE; COMPND 7 EC: 3.1.21.-; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 ATCC: 700699; SOURCE 5 GENE: YABD, TATP, YCFH, YCFH_1, BN1321_120011, C7P97_09010, SOURCE 6 CSC83_12190, CSC87_02770, EP54_03105, EQ90_10980, ERS072840_02446, SOURCE 7 HMPREF3211_00370, M1K003_2676, NCTC10654_00570, NCTC10702_00886, SOURCE 8 NCTC13131_01111, NCTC5664_00191, NCTC7878_00052, RK64_02970, SOURCE 9 SAMEA1708674_03251; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI K-12; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 83333 KEYWDS DNA BINDING PROTEIN, DNASE, RNASE, DNA REPAIR SYSTEM., METAL BINDING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR K.-Y.LEE,D.-G.KIM,B.-J.LEE REVDAT 1 13-MAY-20 6L25 0 JRNL AUTH K.-Y.LEE,S.-H.CHEON,D.-G.KIM,S.J.LEE,B.-J.LEE JRNL TITL A STRUCTURAL STUDY OF TATD FROM STAPHYLOCOCCUS AUREUS JRNL TITL 2 ELUCIDATES A PUTATIVE DNA-BINDING MODE OF A MG2+-DEPENDENT JRNL TITL 3 NUCLEASE. JRNL REF IUCRJ V. 7 509 2020 JRNL REFN ESSN 2052-2525 JRNL DOI 10.1107/S2052252520003917 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 44183 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) : 0.212 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2398 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) : 2917 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2580 REMARK 3 BIN FREE R VALUE SET COUNT : 175 REMARK 3 BIN FREE R VALUE : 0.2990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4088 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 171 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.06000 REMARK 3 B22 (A**2) : -1.15000 REMARK 3 B33 (A**2) : -0.80000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.21000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.159 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.139 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.093 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.007 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4192 ; 0.012 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 3885 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5677 ; 1.769 ; 1.644 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9039 ; 1.381 ; 1.576 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 507 ; 6.534 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 228 ;35.501 ;23.421 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 714 ;15.164 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;16.333 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 545 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4637 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 829 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6L25 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-OCT-19. REMARK 100 THE DEPOSITION ID IS D_1300014029. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 5C (4A) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97930 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47022 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 41.9000 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) : 1.88 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.4 REMARK 200 DATA REDUNDANCY IN SHELL : 7.80 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: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.4 M SODIUM MALONATE, PH 7.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 38.91600 REMARK 290 SMTRY3 2 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 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 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 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 ASN A 256 REMARK 465 SER A 257 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 LEU B 255 REMARK 465 ASN B 256 REMARK 465 SER B 257 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 HIS A 8 60.90 -110.53 REMARK 500 ASP A 17 29.19 -140.96 REMARK 500 SER A 156 15.87 -145.58 REMARK 500 PRO A 212 30.17 -95.96 REMARK 500 HIS B 8 62.73 -101.38 REMARK 500 ASP B 17 28.31 -144.03 REMARK 500 ALA B 132 32.53 -143.71 REMARK 500 ALA B 184 75.37 -69.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 301 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 6 NE2 REMARK 620 2 HIS A 8 NE2 104.0 REMARK 620 3 GLU A 92 OE2 89.0 92.5 REMARK 620 4 ASP A 204 OD1 86.7 89.4 175.6 REMARK 620 5 PO4 A 303 O3 169.3 75.8 80.3 104.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 302 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 92 OE1 REMARK 620 2 HIS A 128 ND1 89.3 REMARK 620 3 HIS A 153 NE2 87.6 111.8 REMARK 620 4 PO4 A 303 O2 94.9 90.5 157.6 REMARK 620 5 PO4 A 304 O2 172.7 93.0 85.2 92.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 301 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 6 NE2 REMARK 620 2 HIS B 8 NE2 100.4 REMARK 620 3 GLU B 92 OE2 91.0 91.6 REMARK 620 4 ASP B 204 OD1 88.5 88.0 179.3 REMARK 620 5 PO4 B 303 O1 170.9 79.6 80.0 100.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 302 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 92 OE1 REMARK 620 2 HIS B 128 ND1 93.2 REMARK 620 3 HIS B 153 NE2 85.2 106.6 REMARK 620 4 PO4 B 303 O2 96.4 88.7 164.6 REMARK 620 5 PO4 B 304 O2 168.4 86.9 83.7 95.1 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 304 DBREF 6L25 A 2 257 UNP W8U6D8 W8U6D8_STAAU 2 257 DBREF 6L25 B 2 257 UNP W8U6D8 W8U6D8_STAAU 2 257 SEQADV 6L25 HIS A -15 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS A -14 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS A -13 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS A -12 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS A -11 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS A -10 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 SER A -9 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 SER A -8 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 GLY A -7 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 LEU A -6 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 VAL A -5 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 PRO A -4 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 ARG A -3 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 GLY A -2 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 SER A -1 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS A 0 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 MSE A 1 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS B -15 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS B -14 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS B -13 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS B -12 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS B -11 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS B -10 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 SER B -9 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 SER B -8 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 GLY B -7 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 LEU B -6 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 VAL B -5 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 PRO B -4 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 ARG B -3 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 GLY B -2 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 SER B -1 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 HIS B 0 UNP W8U6D8 EXPRESSION TAG SEQADV 6L25 MSE B 1 UNP W8U6D8 EXPRESSION TAG SEQRES 1 A 273 HIS HIS HIS HIS HIS HIS SER SER GLY LEU VAL PRO ARG SEQRES 2 A 273 GLY SER HIS MSE LEU ILE ASP THR HIS VAL HIS LEU ASN SEQRES 3 A 273 ASP GLU GLN TYR ASP ASP ASP LEU SER GLU VAL ILE THR SEQRES 4 A 273 ARG ALA ARG GLU ALA GLY VAL ASP ARG MSE PHE VAL VAL SEQRES 5 A 273 GLY PHE ASN LYS SER THR ILE GLU ARG ALA MSE LYS LEU SEQRES 6 A 273 ILE ASP GLU TYR ASP PHE LEU TYR GLY ILE ILE GLY TRP SEQRES 7 A 273 HIS PRO VAL ASP ALA ILE ASP PHE THR GLU GLU HIS LEU SEQRES 8 A 273 GLU TRP ILE GLU SER LEU ALA GLN HIS PRO LYS VAL ILE SEQRES 9 A 273 GLY ILE GLY GLU MSE GLY LEU ASP TYR HIS TRP ASP LYS SEQRES 10 A 273 SER PRO ALA ASP VAL GLN LYS GLU VAL PHE ARG LYS GLN SEQRES 11 A 273 ILE ALA LEU ALA LYS ARG LEU LYS LEU PRO ILE ILE ILE SEQRES 12 A 273 HIS ASN ARG GLU ALA THR GLN ASP CYS ILE ASP ILE LEU SEQRES 13 A 273 LEU GLU GLU HIS ALA GLU GLU VAL GLY GLY ILE MSE HIS SEQRES 14 A 273 SER PHE SER GLY SER PRO GLU ILE ALA ASP ILE VAL THR SEQRES 15 A 273 ASN LYS LEU ASN PHE TYR ILE SER LEU GLY GLY PRO VAL SEQRES 16 A 273 THR PHE LYS ASN ALA LYS GLN PRO LYS GLU VAL ALA LYS SEQRES 17 A 273 HIS VAL SER MSE GLU ARG LEU LEU VAL GLU THR ASP ALA SEQRES 18 A 273 PRO TYR LEU SER PRO HIS PRO TYR ARG GLY LYS ARG ASN SEQRES 19 A 273 GLU PRO ALA ARG VAL THR LEU VAL ALA GLU GLN ILE ALA SEQRES 20 A 273 GLU LEU LYS GLY LEU SER TYR GLU GLU VAL CYS GLU GLN SEQRES 21 A 273 THR THR LYS ASN ALA GLU LYS LEU PHE ASN LEU ASN SER SEQRES 1 B 273 HIS HIS HIS HIS HIS HIS SER SER GLY LEU VAL PRO ARG SEQRES 2 B 273 GLY SER HIS MSE LEU ILE ASP THR HIS VAL HIS LEU ASN SEQRES 3 B 273 ASP GLU GLN TYR ASP ASP ASP LEU SER GLU VAL ILE THR SEQRES 4 B 273 ARG ALA ARG GLU ALA GLY VAL ASP ARG MSE PHE VAL VAL SEQRES 5 B 273 GLY PHE ASN LYS SER THR ILE GLU ARG ALA MSE LYS LEU SEQRES 6 B 273 ILE ASP GLU TYR ASP PHE LEU TYR GLY ILE ILE GLY TRP SEQRES 7 B 273 HIS PRO VAL ASP ALA ILE ASP PHE THR GLU GLU HIS LEU SEQRES 8 B 273 GLU TRP ILE GLU SER LEU ALA GLN HIS PRO LYS VAL ILE SEQRES 9 B 273 GLY ILE GLY GLU MSE GLY LEU ASP TYR HIS TRP ASP LYS SEQRES 10 B 273 SER PRO ALA ASP VAL GLN LYS GLU VAL PHE ARG LYS GLN SEQRES 11 B 273 ILE ALA LEU ALA LYS ARG LEU LYS LEU PRO ILE ILE ILE SEQRES 12 B 273 HIS ASN ARG GLU ALA THR GLN ASP CYS ILE ASP ILE LEU SEQRES 13 B 273 LEU GLU GLU HIS ALA GLU GLU VAL GLY GLY ILE MSE HIS SEQRES 14 B 273 SER PHE SER GLY SER PRO GLU ILE ALA ASP ILE VAL THR SEQRES 15 B 273 ASN LYS LEU ASN PHE TYR ILE SER LEU GLY GLY PRO VAL SEQRES 16 B 273 THR PHE LYS ASN ALA LYS GLN PRO LYS GLU VAL ALA LYS SEQRES 17 B 273 HIS VAL SER MSE GLU ARG LEU LEU VAL GLU THR ASP ALA SEQRES 18 B 273 PRO TYR LEU SER PRO HIS PRO TYR ARG GLY LYS ARG ASN SEQRES 19 B 273 GLU PRO ALA ARG VAL THR LEU VAL ALA GLU GLN ILE ALA SEQRES 20 B 273 GLU LEU LYS GLY LEU SER TYR GLU GLU VAL CYS GLU GLN SEQRES 21 B 273 THR THR LYS ASN ALA GLU LYS LEU PHE ASN LEU ASN SER MODRES 6L25 MSE A 33 MET MODIFIED RESIDUE MODRES 6L25 MSE A 47 MET MODIFIED RESIDUE MODRES 6L25 MSE A 93 MET MODIFIED RESIDUE MODRES 6L25 MSE A 152 MET MODIFIED RESIDUE MODRES 6L25 MSE A 196 MET MODIFIED RESIDUE MODRES 6L25 MSE B 33 MET MODIFIED RESIDUE MODRES 6L25 MSE B 47 MET MODIFIED RESIDUE MODRES 6L25 MSE B 93 MET MODIFIED RESIDUE MODRES 6L25 MSE B 152 MET MODIFIED RESIDUE MODRES 6L25 MSE B 196 MET MODIFIED RESIDUE HET MSE A 1 8 HET MSE A 33 8 HET MSE A 47 8 HET MSE A 93 8 HET MSE A 152 8 HET MSE A 196 8 HET MSE B 1 8 HET MSE B 33 8 HET MSE B 47 8 HET MSE B 93 8 HET MSE B 152 8 HET MSE B 196 8 HET NI A 301 1 HET NI A 302 1 HET PO4 A 303 5 HET PO4 A 304 5 HET NI B 301 1 HET NI B 302 1 HET PO4 B 303 5 HET PO4 B 304 5 HETNAM MSE SELENOMETHIONINE HETNAM NI NICKEL (II) ION HETNAM PO4 PHOSPHATE ION FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 3 NI 4(NI 2+) FORMUL 5 PO4 4(O4 P 3-) FORMUL 11 HOH *171(H2 O) HELIX 1 AA1 ASP A 11 ASP A 15 5 5 HELIX 2 AA2 ASP A 17 ALA A 28 1 12 HELIX 3 AA3 ASN A 39 TYR A 53 1 15 HELIX 4 AA4 HIS A 63 PHE A 70 5 8 HELIX 5 AA5 THR A 71 ALA A 82 1 12 HELIX 6 AA6 PRO A 103 LYS A 122 1 20 HELIX 7 AA7 ALA A 132 GLU A 143 1 12 HELIX 8 AA8 HIS A 144 VAL A 148 5 5 HELIX 9 AA9 SER A 158 LYS A 168 1 11 HELIX 10 AB1 GLY A 176 PHE A 181 5 6 HELIX 11 AB2 LYS A 185 VAL A 194 1 10 HELIX 12 AB3 SER A 195 GLU A 197 5 3 HELIX 13 AB4 GLU A 219 ALA A 221 5 3 HELIX 14 AB5 ARG A 222 GLY A 235 1 14 HELIX 15 AB6 SER A 237 PHE A 253 1 17 HELIX 16 AB7 ASP B 11 ASP B 15 5 5 HELIX 17 AB8 ASP B 17 ALA B 28 1 12 HELIX 18 AB9 ASN B 39 TYR B 53 1 15 HELIX 19 AC1 HIS B 63 PHE B 70 5 8 HELIX 20 AC2 THR B 71 ALA B 82 1 12 HELIX 21 AC3 PRO B 103 LYS B 122 1 20 HELIX 22 AC4 ALA B 132 GLU B 143 1 12 HELIX 23 AC5 HIS B 144 VAL B 148 5 5 HELIX 24 AC6 SER B 158 LYS B 168 1 11 HELIX 25 AC7 GLY B 176 PHE B 181 5 6 HELIX 26 AC8 ALA B 184 VAL B 194 1 11 HELIX 27 AC9 SER B 195 GLU B 197 5 3 HELIX 28 AD1 GLU B 219 ALA B 221 5 3 HELIX 29 AD2 ARG B 222 GLY B 235 1 14 HELIX 30 AD3 SER B 237 PHE B 253 1 17 SHEET 1 AA1 8 LEU A 2 VAL A 7 0 SHEET 2 AA1 8 VAL A 30 GLY A 37 1 O PHE A 34 N ASP A 4 SHEET 3 AA1 8 LEU A 56 ILE A 60 1 O TYR A 57 N VAL A 35 SHEET 4 AA1 8 VAL A 87 ASP A 96 1 O ILE A 88 N GLY A 58 SHEET 5 AA1 8 ILE A 125 ARG A 130 1 O HIS A 128 N MSE A 93 SHEET 6 AA1 8 GLY A 150 MSE A 152 1 O ILE A 151 N ILE A 127 SHEET 7 AA1 8 TYR A 172 LEU A 175 1 O TYR A 172 N GLY A 150 SHEET 8 AA1 8 LEU A 199 VAL A 201 1 O LEU A 200 N LEU A 175 SHEET 1 AA2 8 LEU B 2 VAL B 7 0 SHEET 2 AA2 8 VAL B 30 GLY B 37 1 O PHE B 34 N VAL B 7 SHEET 3 AA2 8 LEU B 56 ILE B 60 1 O TYR B 57 N VAL B 35 SHEET 4 AA2 8 VAL B 87 ASP B 96 1 O ILE B 88 N GLY B 58 SHEET 5 AA2 8 ILE B 125 ARG B 130 1 O HIS B 128 N MSE B 93 SHEET 6 AA2 8 GLY B 150 MSE B 152 1 O ILE B 151 N ILE B 127 SHEET 7 AA2 8 TYR B 172 LEU B 175 1 O TYR B 172 N GLY B 150 SHEET 8 AA2 8 LEU B 199 VAL B 201 1 O LEU B 200 N LEU B 175 LINK C MSE A 1 N LEU A 2 1555 1555 1.31 LINK NE2 HIS A 6 NI NI A 301 1555 1555 2.15 LINK NE2 HIS A 8 NI NI A 301 1555 1555 2.12 LINK C ARG A 32 N MSE A 33 1555 1555 1.34 LINK C MSE A 33 N PHE A 34 1555 1555 1.35 LINK C ALA A 46 N MSE A 47 1555 1555 1.35 LINK C MSE A 47 N LYS A 48 1555 1555 1.34 LINK C GLU A 92 N MSE A 93 1555 1555 1.33 LINK OE1 GLU A 92 NI NI A 302 1555 1555 2.07 LINK OE2 GLU A 92 NI NI A 301 1555 1555 2.22 LINK C MSE A 93 N GLY A 94 1555 1555 1.33 LINK ND1 HIS A 128 NI NI A 302 1555 1555 2.06 LINK C ILE A 151 N MSE A 152 1555 1555 1.34 LINK C MSE A 152 N HIS A 153 1555 1555 1.34 LINK NE2 HIS A 153 NI NI A 302 1555 1555 2.61 LINK C SER A 195 N MSE A 196 1555 1555 1.34 LINK C MSE A 196 N GLU A 197 1555 1555 1.34 LINK OD1 ASP A 204 NI NI A 301 1555 1555 2.24 LINK C MSE B 1 N LEU B 2 1555 1555 1.33 LINK NE2 HIS B 6 NI NI B 301 1555 1555 2.08 LINK NE2 HIS B 8 NI NI B 301 1555 1555 2.13 LINK C ARG B 32 N MSE B 33 1555 1555 1.33 LINK C MSE B 33 N PHE B 34 1555 1555 1.34 LINK C ALA B 46 N MSE B 47 1555 1555 1.35 LINK C MSE B 47 N LYS B 48 1555 1555 1.35 LINK C GLU B 92 N MSE B 93 1555 1555 1.34 LINK OE1 GLU B 92 NI NI B 302 1555 1555 2.07 LINK OE2 GLU B 92 NI NI B 301 1555 1555 2.10 LINK C MSE B 93 N GLY B 94 1555 1555 1.31 LINK ND1 HIS B 128 NI NI B 302 1555 1555 2.24 LINK C ILE B 151 N MSE B 152 1555 1555 1.33 LINK C MSE B 152 N HIS B 153 1555 1555 1.34 LINK NE2 HIS B 153 NI NI B 302 1555 1555 2.62 LINK C SER B 195 N MSE B 196 1555 1555 1.33 LINK C MSE B 196 N GLU B 197 1555 1555 1.34 LINK OD1 ASP B 204 NI NI B 301 1555 1555 2.13 LINK NI NI A 301 O3 PO4 A 303 1555 1555 2.76 LINK NI NI A 302 O2 PO4 A 303 1555 1555 2.18 LINK NI NI A 302 O2 PO4 A 304 1555 1555 2.36 LINK NI NI B 301 O1 PO4 B 303 1555 1555 2.76 LINK NI NI B 302 O2 PO4 B 303 1555 1555 2.02 LINK NI NI B 302 O2 PO4 B 304 1555 1555 2.32 CISPEP 1 GLY A 91 GLU A 92 0 -1.64 CISPEP 2 ALA A 205 PRO A 206 0 9.87 CISPEP 3 HIS A 211 PRO A 212 0 4.83 CISPEP 4 GLY B 91 GLU B 92 0 -3.94 CISPEP 5 ALA B 205 PRO B 206 0 6.80 CISPEP 6 HIS B 211 PRO B 212 0 6.97 SITE 1 AC1 6 HIS A 6 HIS A 8 GLU A 92 ASP A 204 SITE 2 AC1 6 NI A 302 PO4 A 303 SITE 1 AC2 6 GLU A 92 HIS A 128 HIS A 153 NI A 301 SITE 2 AC2 6 PO4 A 303 PO4 A 304 SITE 1 AC3 9 HIS A 8 HIS A 63 GLU A 92 HIS A 128 SITE 2 AC3 9 ASP A 204 TYR A 207 NI A 301 NI A 302 SITE 3 AC3 9 PO4 A 304 SITE 1 AC4 7 HIS A 128 HIS A 153 SER A 154 ASP A 204 SITE 2 AC4 7 NI A 302 PO4 A 303 HOH A 401 SITE 1 AC5 6 HIS B 6 HIS B 8 GLU B 92 ASP B 204 SITE 2 AC5 6 NI B 302 PO4 B 303 SITE 1 AC6 6 GLU B 92 HIS B 128 HIS B 153 NI B 301 SITE 2 AC6 6 PO4 B 303 PO4 B 304 SITE 1 AC7 8 HIS B 8 HIS B 63 GLU B 92 HIS B 128 SITE 2 AC7 8 ASP B 204 NI B 301 NI B 302 PO4 B 304 SITE 1 AC8 7 HIS B 128 ASN B 129 HIS B 153 SER B 154 SITE 2 AC8 7 ASP B 204 NI B 302 PO4 B 303 CRYST1 47.627 77.832 77.378 90.00 98.81 90.00 P 1 21 1 4 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 0.020996 0.000000 0.003252 0.00000 SCALE2 0.000000 0.012848 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013078 0.00000 HETATM 1 N MSE A 1 -14.646 -8.794 49.033 1.00 45.54 N HETATM 2 CA MSE A 1 -13.976 -9.841 48.230 1.00 43.02 C HETATM 3 C MSE A 1 -14.593 -9.895 46.827 1.00 33.88 C HETATM 4 O MSE A 1 -15.794 -9.976 46.691 1.00 29.50 O HETATM 5 CB MSE A 1 -14.180 -11.183 48.910 1.00 57.07 C HETATM 6 CG MSE A 1 -15.580 -11.305 49.402 1.00 78.15 C HETATM 7 SE MSE A 1 -15.640 -12.913 50.461 1.00121.61 SE HETATM 8 CE MSE A 1 -15.607 -14.292 49.049 1.00100.41 C