HEADER METAL TRANSPORT 16-MAY-07 2PYB TITLE NAPA PROTEIN FROM BORRELIA BURGDORFERI COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEUTROPHIL ACTIVATING PROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: NAPA; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BORRELIA BURGDORFERI; SOURCE 3 STRAIN: B31; SOURCE 4 GENE: NAPA; SOURCE 5 EXPRESSION_SYSTEM: BACILLUS SUBTILIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 1423; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: SMS 118; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PSM214G-NAPA KEYWDS FERRITIN, DPS, FOUR-HELIX BUNDLE, METAL TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR G.ZANOTTI,E.PAPINUTTO,M.DE BERNARD REVDAT 5 21-FEB-24 2PYB 1 REMARK LINK REVDAT 4 26-OCT-16 2PYB 1 JRNL REVDAT 3 13-JUL-11 2PYB 1 VERSN REVDAT 2 24-FEB-09 2PYB 1 VERSN REVDAT 1 12-AUG-08 2PYB 0 JRNL AUTH G.CODOLO,E.PAPINUTTO,A.POLENGHI,M.M.D'ELIOS,G.ZANOTTI, JRNL AUTH 2 M.DE BERNARD JRNL TITL STRUCTURE AND IMMUNOMODULATORY PROPERTY RELATIONSHIP IN NAPA JRNL TITL 2 OF BORRELIA BURGDORFERI. JRNL REF BIOCHIM.BIOPHYS.ACTA V.1804 2191 2010 JRNL REFN ISSN 0006-3002 JRNL PMID 20851780 JRNL DOI 10.1016/J.BBAPAP.2010.09.004 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.ZANOTTI,E.PAPINUTTO,W.DUNDON,R.BATTISTUTTA,M.SEVESO, REMARK 1 AUTH 2 G.DAL GIUDICE,C.MONTECUCCO REMARK 1 TITL STRUCTURE OF THE NEUTROPHIL-ACTIVATING PROTEIN FROM REMARK 1 TITL 2 HELICOBACTER PYLORI REMARK 1 REF J.MOL.BIOL. V. 323 125 2002 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 2 REMARK 1 AUTH R.A.GRANT,D.J.FILMAN,S.E.FINKEL,R.KOLTER,J.M.HOGLE REMARK 1 TITL THE CRYSTAL STRUCTURE OF DPS, A FERRITIN HOMOLOG THAT BINDS REMARK 1 TITL 2 AND PROTECTS DNA REMARK 1 REF NAT.STRUCT.MOL.BIOL. V. 5 294 1998 REMARK 1 REFN ISSN 1545-9993 REMARK 1 REFERENCE 3 REMARK 1 AUTH A.ILARI,S.STEFANINI,E.CHIANCONE,D.TSERNOGLOU REMARK 1 TITL THE DODECAMERIC FERRITIN FROM LISTERIA INNOCUA CONTAINS A REMARK 1 TITL 2 NOVEL INTERSUBUNIT IRON BINDING SITE REMARK 1 REF NAT.STRUCT.MOL.BIOL. V. 7 38 2000 REMARK 1 REFN ISSN 1545-9993 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.99 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2005816.700 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 22533 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 SET) : 0.242 REMARK 3 FREE R VALUE : 0.275 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.400 REMARK 3 FREE R VALUE TEST SET COUNT : 1661 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.009 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.76 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3445 REMARK 3 BIN R VALUE (WORKING SET) : 0.3736 REMARK 3 BIN FREE R VALUE : 0.4512 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 7.30 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 272 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.030 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4984 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 24 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 52.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.34000 REMARK 3 B22 (A**2) : 0.34000 REMARK 3 B33 (A**2) : -0.67000 REMARK 3 B12 (A**2) : 4.89000 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) : 0.54 REMARK 3 ESD FROM SIGMAA (A) : 0.74 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.63 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.99 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.014 REMARK 3 BOND ANGLES (DEGREES) : 1.800 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 20.30 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.960 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.260 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.960 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.680 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.460 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 75.52 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER_REP.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE DATA IS MEROHEDRAL TWINNING WITH REMARK 3 TWINNING OPERATOR: (H,-H-K,-L) AND THE TWINNED FRACTION 0.45. REMARK 4 REMARK 4 2PYB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000042918. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-NOV-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22533 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 2.800 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.38800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE AND 26-30% MPD, PH REMARK 280 4.5, VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 46.53900 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.86930 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 75.83333 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 46.53900 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 26.86930 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 75.83333 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 46.53900 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 26.86930 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 75.83333 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 53.73861 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 151.66667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 53.73861 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 151.66667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 53.73861 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 151.66667 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: THE BIOLOGICAL ASSEMBLY IS A DODECAMER, GENERATE BY THE 3- REMARK 300 FOLD AXIS FROM THE TETRAMER CONTAINED IN THE ASYMMETRIC UNIT 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: DODECAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DODECAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 47760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 70180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -467.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 93.07800 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 46.53900 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 80.60791 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH C 512 O HOH D 511 1.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ILE A 49 CB ILE A 49 CG1 0.204 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 ILE A 49 CB - CG1 - CD1 ANGL. DEV. = 16.9 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 ASP A 12 174.99 -40.11 REMARK 500 ALA A 15 -99.95 -33.25 REMARK 500 ILE A 41 136.86 -24.99 REMARK 500 LYS A 42 82.24 -155.83 REMARK 500 PHE A 46 -91.21 24.31 REMARK 500 PHE A 47 -49.54 -26.54 REMARK 500 LEU A 74 -81.12 -70.71 REMARK 500 PHE A 80 1.15 -152.82 REMARK 500 PHE A 85 -53.40 -120.63 REMARK 500 MET A 86 31.39 -75.83 REMARK 500 LYS A 87 -47.03 -148.52 REMARK 500 ASP A 95 -165.72 -65.63 REMARK 500 ILE A 96 32.56 -89.77 REMARK 500 GLU A 97 -156.28 44.44 REMARK 500 SER A 98 -31.74 -147.35 REMARK 500 SER A 105 -83.27 -27.83 REMARK 500 SER A 108 -68.84 16.77 REMARK 500 SER A 112 -44.95 -143.29 REMARK 500 MET A 123 -76.16 -44.02 REMARK 500 ARG A 124 -46.37 -20.32 REMARK 500 ASP A 128 21.56 -77.81 REMARK 500 THR A 129 -61.55 -143.72 REMARK 500 ALA A 130 -5.49 -56.15 REMARK 500 ASP A 140 1.40 -68.97 REMARK 500 ASP A 145 -80.82 -44.25 REMARK 500 LYS A 154 13.72 -62.63 REMARK 500 LEU A 157 -81.74 -115.67 REMARK 500 ASN A 159 -118.49 -49.47 REMARK 500 CYS A 160 -140.18 94.04 REMARK 500 ASP B 12 174.75 -40.47 REMARK 500 LEU B 13 46.71 70.35 REMARK 500 ALA B 15 -99.56 -34.33 REMARK 500 ILE B 41 136.97 -25.32 REMARK 500 LYS B 42 83.18 -156.06 REMARK 500 PHE B 46 -90.91 24.36 REMARK 500 ILE B 49 -1.50 -59.84 REMARK 500 LEU B 74 -81.83 -70.04 REMARK 500 PHE B 80 1.26 -152.24 REMARK 500 PHE B 85 -53.53 -121.11 REMARK 500 MET B 86 32.53 -76.65 REMARK 500 LYS B 87 -47.08 -148.46 REMARK 500 ASP B 95 -165.58 -66.45 REMARK 500 ILE B 96 32.89 -89.80 REMARK 500 GLU B 97 -155.65 42.46 REMARK 500 SER B 98 -30.73 -147.48 REMARK 500 SER B 105 -81.74 -28.88 REMARK 500 SER B 108 -68.82 17.22 REMARK 500 SER B 112 -44.47 -144.29 REMARK 500 MET B 123 -75.38 -44.79 REMARK 500 ARG B 124 -47.03 -19.64 REMARK 500 REMARK 500 THIS ENTRY HAS 117 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 57 0.08 SIDE CHAIN REMARK 500 TYR B 57 0.07 SIDE CHAIN REMARK 500 TYR D 57 0.07 SIDE CHAIN 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 FE B 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 38 NE2 REMARK 620 2 ASP B 65 OD1 95.0 REMARK 620 3 ASP B 65 OD2 149.9 56.7 REMARK 620 4 GLU B 69 OE2 112.6 85.6 78.2 REMARK 620 5 HOH B 503 O 108.1 152.6 97.4 98.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 503 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 65 OD1 REMARK 620 2 ASP A 65 OD2 54.0 REMARK 620 3 GLU A 69 OE2 80.3 73.8 REMARK 620 4 HIS B 38 NE2 94.4 147.2 113.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE D 505 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 38 NE2 REMARK 620 2 HOH C 510 O 96.6 REMARK 620 3 ASP D 65 OD1 94.6 157.3 REMARK 620 4 ASP D 65 OD2 149.7 108.5 56.2 REMARK 620 5 GLU D 69 OE2 107.0 112.9 82.4 79.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE C 506 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 50 NE2 REMARK 620 2 HOH C 510 O 125.4 REMARK 620 3 HOH C 511 O 170.5 63.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE C 507 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 65 OD1 REMARK 620 2 ASP C 65 OD2 55.1 REMARK 620 3 GLU C 69 OE2 84.7 78.6 REMARK 620 4 HIS D 38 NE2 98.8 148.9 119.0 REMARK 620 5 HOH D 511 O 144.3 106.9 124.7 84.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE C 508 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH C 512 O REMARK 620 2 HOH D 511 O 53.4 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE D 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE C 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE C 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE C 508 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JI4 RELATED DB: PDB REMARK 900 NAP PROTEIN FROM HELICOBACTER PYLORI REMARK 900 RELATED ID: 1JI5 RELATED DB: PDB REMARK 900 DPL-1 FROM BACILLUS ANTHRACIS REMARK 900 RELATED ID: 1JIG RELATED DB: PDB REMARK 900 DLP-2 FROM BACILLUS ANTHRACIS REMARK 900 RELATED ID: 1DPS RELATED DB: PDB REMARK 900 DPS FROM E. COLI DBREF 2PYB A 11 161 UNP O51633 O51633_BORBU 22 172 DBREF 2PYB B 11 161 UNP O51633 O51633_BORBU 22 172 DBREF 2PYB C 11 161 UNP O51633 O51633_BORBU 22 172 DBREF 2PYB D 11 161 UNP O51633 O51633_BORBU 22 172 SEQRES 1 A 151 ASP ASP LEU ASP ALA ILE GLN LEU LYS LEU GLN GLU LEU SEQRES 2 A 151 LEU ALA SER LEU HIS ILE PHE TYR SER ASN LEU ARG GLY SEQRES 3 A 151 ILE HIS TRP ASN ILE LYS ASP THR ASN PHE PHE VAL ILE SEQRES 4 A 151 HIS LYS LYS THR GLN LYS LEU TYR GLU TYR ILE GLU LYS SEQRES 5 A 151 ILE ILE ASP ILE VAL ALA GLU ARG SER ARG MET LEU GLY SEQRES 6 A 151 TYR ASP SER GLU PHE ARG TYR SER GLU PHE MET LYS LYS SEQRES 7 A 151 SER PHE ILE LYS GLU LEU ASP ILE GLU SER THR SER ASN SEQRES 8 A 151 PHE LEU PRO SER MET GLU SER ILE VAL CYS SER LEU THR SEQRES 9 A 151 GLU ILE LEU LYS ASN ILE PHE GLY MET ARG LYS LEU ILE SEQRES 10 A 151 ASP THR ALA GLY ASP TYR GLY THR ALA ASN ILE MET ASP SEQRES 11 A 151 ASP ILE MET SER ASP LEU GLU LYS HIS LEU TRP MET HIS SEQRES 12 A 151 LYS ALA LEU LEU GLU ASN CYS ASP SEQRES 1 B 151 ASP ASP LEU ASP ALA ILE GLN LEU LYS LEU GLN GLU LEU SEQRES 2 B 151 LEU ALA SER LEU HIS ILE PHE TYR SER ASN LEU ARG GLY SEQRES 3 B 151 ILE HIS TRP ASN ILE LYS ASP THR ASN PHE PHE VAL ILE SEQRES 4 B 151 HIS LYS LYS THR GLN LYS LEU TYR GLU TYR ILE GLU LYS SEQRES 5 B 151 ILE ILE ASP ILE VAL ALA GLU ARG SER ARG MET LEU GLY SEQRES 6 B 151 TYR ASP SER GLU PHE ARG TYR SER GLU PHE MET LYS LYS SEQRES 7 B 151 SER PHE ILE LYS GLU LEU ASP ILE GLU SER THR SER ASN SEQRES 8 B 151 PHE LEU PRO SER MET GLU SER ILE VAL CYS SER LEU THR SEQRES 9 B 151 GLU ILE LEU LYS ASN ILE PHE GLY MET ARG LYS LEU ILE SEQRES 10 B 151 ASP THR ALA GLY ASP TYR GLY THR ALA ASN ILE MET ASP SEQRES 11 B 151 ASP ILE MET SER ASP LEU GLU LYS HIS LEU TRP MET HIS SEQRES 12 B 151 LYS ALA LEU LEU GLU ASN CYS ASP SEQRES 1 C 151 ASP ASP LEU ASP ALA ILE GLN LEU LYS LEU GLN GLU LEU SEQRES 2 C 151 LEU ALA SER LEU HIS ILE PHE TYR SER ASN LEU ARG GLY SEQRES 3 C 151 ILE HIS TRP ASN ILE LYS ASP THR ASN PHE PHE VAL ILE SEQRES 4 C 151 HIS LYS LYS THR GLN LYS LEU TYR GLU TYR ILE GLU LYS SEQRES 5 C 151 ILE ILE ASP ILE VAL ALA GLU ARG SER ARG MET LEU GLY SEQRES 6 C 151 TYR ASP SER GLU PHE ARG TYR SER GLU PHE MET LYS LYS SEQRES 7 C 151 SER PHE ILE LYS GLU LEU ASP ILE GLU SER THR SER ASN SEQRES 8 C 151 PHE LEU PRO SER MET GLU SER ILE VAL CYS SER LEU THR SEQRES 9 C 151 GLU ILE LEU LYS ASN ILE PHE GLY MET ARG LYS LEU ILE SEQRES 10 C 151 ASP THR ALA GLY ASP TYR GLY THR ALA ASN ILE MET ASP SEQRES 11 C 151 ASP ILE MET SER ASP LEU GLU LYS HIS LEU TRP MET HIS SEQRES 12 C 151 LYS ALA LEU LEU GLU ASN CYS ASP SEQRES 1 D 151 ASP ASP LEU ASP ALA ILE GLN LEU LYS LEU GLN GLU LEU SEQRES 2 D 151 LEU ALA SER LEU HIS ILE PHE TYR SER ASN LEU ARG GLY SEQRES 3 D 151 ILE HIS TRP ASN ILE LYS ASP THR ASN PHE PHE VAL ILE SEQRES 4 D 151 HIS LYS LYS THR GLN LYS LEU TYR GLU TYR ILE GLU LYS SEQRES 5 D 151 ILE ILE ASP ILE VAL ALA GLU ARG SER ARG MET LEU GLY SEQRES 6 D 151 TYR ASP SER GLU PHE ARG TYR SER GLU PHE MET LYS LYS SEQRES 7 D 151 SER PHE ILE LYS GLU LEU ASP ILE GLU SER THR SER ASN SEQRES 8 D 151 PHE LEU PRO SER MET GLU SER ILE VAL CYS SER LEU THR SEQRES 9 D 151 GLU ILE LEU LYS ASN ILE PHE GLY MET ARG LYS LEU ILE SEQRES 10 D 151 ASP THR ALA GLY ASP TYR GLY THR ALA ASN ILE MET ASP SEQRES 11 D 151 ASP ILE MET SER ASP LEU GLU LYS HIS LEU TRP MET HIS SEQRES 12 D 151 LYS ALA LEU LEU GLU ASN CYS ASP HET FE A 502 1 HET FE A 503 1 HET FE A 504 1 HET FE B 501 1 HET FE C 506 1 HET FE C 507 1 HET FE C 508 1 HET FE D 505 1 HETNAM FE FE (III) ION FORMUL 5 FE 8(FE 3+) FORMUL 13 HOH *24(H2 O) HELIX 1 1 ASP A 14 ILE A 41 1 28 HELIX 2 2 PHE A 46 GLU A 58 1 13 HELIX 3 3 ILE A 60 GLY A 75 1 16 HELIX 4 4 SER A 112 GLY A 131 1 20 HELIX 5 5 ASP A 132 LYS A 154 1 23 HELIX 6 6 ASP B 14 ILE B 41 1 28 HELIX 7 7 PHE B 46 GLU B 58 1 13 HELIX 8 8 GLU B 58 GLY B 75 1 18 HELIX 9 9 SER B 112 GLY B 131 1 20 HELIX 10 10 ASP B 132 LYS B 154 1 23 HELIX 11 11 ASP C 14 ILE C 41 1 28 HELIX 12 12 PHE C 46 GLU C 58 1 13 HELIX 13 13 ILE C 60 GLY C 75 1 16 HELIX 14 14 SER C 112 GLY C 131 1 20 HELIX 15 15 ASP C 132 LYS C 154 1 23 HELIX 16 16 ASP D 14 ILE D 41 1 28 HELIX 17 17 PHE D 46 LYS D 52 1 7 HELIX 18 18 THR D 53 GLU D 58 1 6 HELIX 19 19 GLU D 58 GLY D 75 1 18 HELIX 20 20 SER D 112 GLY D 131 1 20 HELIX 21 21 ASP D 132 LYS D 154 1 23 LINK NE2 HIS A 38 FE FE B 501 1555 1555 2.63 LINK OD1 ASP A 65 FE FE A 503 1555 1555 2.42 LINK OD2 ASP A 65 FE FE A 503 1555 1555 2.38 LINK OE2 GLU A 69 FE FE A 503 1555 1555 2.37 LINK FE FE A 502 O HOH B 503 1555 1555 1.92 LINK FE FE A 503 NE2 HIS B 38 1555 1555 2.54 LINK FE FE A 504 O HOH B 502 1555 1555 1.80 LINK OD1 ASP B 65 FE FE B 501 1555 1555 2.40 LINK OD2 ASP B 65 FE FE B 501 1555 1555 2.23 LINK OE2 GLU B 69 FE FE B 501 1555 1555 2.32 LINK FE FE B 501 O HOH B 503 1555 1555 2.27 LINK NE2 HIS C 38 FE FE D 505 1555 1555 2.58 LINK NE2 HIS C 50 FE FE C 506 1555 1555 2.71 LINK OD1 ASP C 65 FE FE C 507 1555 1555 2.34 LINK OD2 ASP C 65 FE FE C 507 1555 1555 2.41 LINK OE2 GLU C 69 FE FE C 507 1555 1555 2.30 LINK FE FE C 506 O HOH C 510 1555 1555 2.38 LINK FE FE C 506 O HOH C 511 1555 1555 2.11 LINK FE FE C 507 NE2 HIS D 38 1555 1555 2.42 LINK FE FE C 507 O HOH D 511 1555 1555 2.28 LINK FE FE C 508 O HOH C 512 1555 1555 2.01 LINK FE FE C 508 O HOH D 511 1555 1555 2.31 LINK O HOH C 510 FE FE D 505 1555 1555 2.37 LINK OD1 ASP D 65 FE FE D 505 1555 1555 2.34 LINK OD2 ASP D 65 FE FE D 505 1555 1555 2.33 LINK OE2 GLU D 69 FE FE D 505 1555 1555 2.44 SITE 1 AC1 4 HIS A 38 ASP B 65 GLU B 69 HOH B 503 SITE 1 AC2 3 HIS A 50 GLU B 69 HOH B 503 SITE 1 AC3 3 ASP A 65 GLU A 69 HIS B 38 SITE 1 AC4 3 GLU A 69 HIS B 50 HOH B 502 SITE 1 AC5 4 HIS C 38 HOH C 510 ASP D 65 GLU D 69 SITE 1 AC6 4 HIS C 50 HOH C 510 HOH C 511 GLU D 69 SITE 1 AC7 5 ASP C 65 GLU C 69 HOH C 512 HIS D 38 SITE 2 AC7 5 HOH D 511 SITE 1 AC8 4 GLU C 69 HOH C 512 HIS D 50 HOH D 511 CRYST1 93.078 93.078 227.500 90.00 90.00 120.00 H 3 36 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 0.010744 0.006203 0.000000 0.00000 SCALE2 0.000000 0.012406 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004396 0.00000