HEADER IMMUNOSUPPRESSANT 17-FEB-22 7YYG TITLE CRYSTAL STRUCTURE OF GATEKEEPER OF TYPE III SECRETION SYSTEM IN TITLE 2 BORDETELLA BOPN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE OUTER PROTEIN N; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BORDETELLA PERTUSSIS TOHAMA I; SOURCE 3 ORGANISM_TAXID: 257313; SOURCE 4 STRAIN: TOHAMA I / ATCC BAA-589 / NCTC 13251 KEYWDS THE TYPE III SECRETION SYSTEM, WHOOPING COUGH, IMMUNOSUPPRESSIVE KEYWDS 2 MODULATOR, BORDETELLA PERTUSSIS, IMMUNOSUPPRESSANT EXPDTA X-RAY DIFFRACTION AUTHOR T.PRUDNIKOVA,I.KUTA SMATANOVA,J.KAMANOVA,L.BUMBA REVDAT 3 28-JUN-23 7YYG 1 JRNL REVDAT 2 19-APR-23 7YYG 1 JRNL REVDAT 1 01-MAR-23 7YYG 0 JRNL AUTH K.M.NAVARRETE,L.BUMBA,T.PRUDNIKOVA,I.MALCOVA,T.R.ALLSOP, JRNL AUTH 2 P.SEBO,J.KAMANOVA JRNL TITL BOPN IS A GATEKEEPER OF THE BORDETELLA TYPE III SECRETION JRNL TITL 2 SYSTEM. JRNL REF MICROBIOL SPECTR V. 11 11222 2023 JRNL REFN ISSN 2165-0497 JRNL PMID 37036369 JRNL DOI 10.1128/SPECTRUM.04112-22 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.93 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 26586 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) : 0.180 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1400 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1933 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.85 REMARK 3 BIN R VALUE (WORKING SET) : 0.3000 REMARK 3 BIN FREE R VALUE SET COUNT : 102 REMARK 3 BIN FREE R VALUE : 0.3250 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2067 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 160 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 36.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.39000 REMARK 3 B22 (A**2) : -0.39000 REMARK 3 B33 (A**2) : 0.78000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.134 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.123 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.103 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.515 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2268 ; 0.004 ; 0.017 REMARK 3 BOND LENGTHS OTHERS (A): 2175 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3091 ; 0.858 ; 1.878 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4991 ; 0.997 ; 2.694 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 305 ; 3.825 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 130 ;27.307 ;22.154 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 372 ;12.558 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;11.852 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 347 ; 0.046 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2722 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 522 ; 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): 1179 ; 4.779 ; 2.925 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1177 ; 4.770 ; 2.919 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1497 ; 5.451 ; 4.354 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1498 ; 5.449 ; 4.359 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1089 ; 7.562 ; 3.691 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1090 ; 7.559 ; 3.697 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1595 ; 9.685 ; 5.230 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2627 ;10.369 ;37.618 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2589 ;10.376 ;37.157 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 83 A 363 REMARK 3 ORIGIN FOR THE GROUP (A): 29.0040 66.3450 5.5360 REMARK 3 T TENSOR REMARK 3 T11: 0.0775 T22: 0.0702 REMARK 3 T33: 0.0411 T12: -0.0333 REMARK 3 T13: 0.0072 T23: 0.0046 REMARK 3 L TENSOR REMARK 3 L11: 0.8919 L22: 1.0067 REMARK 3 L33: 2.1698 L12: 0.4761 REMARK 3 L13: 0.8115 L23: 0.6491 REMARK 3 S TENSOR REMARK 3 S11: -0.0181 S12: -0.0897 S13: -0.0600 REMARK 3 S21: 0.0013 S22: -0.0180 S23: 0.1278 REMARK 3 S31: 0.2461 S32: -0.3253 S33: 0.0361 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.00 REMARK 3 ION PROBE RADIUS : 0.70 REMARK 3 SHRINKAGE RADIUS : 0.70 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 7YYG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-FEB-22. REMARK 100 THE DEPOSITION ID IS D_1292120868. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.987 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26601 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 43.930 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 8.880 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.750 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: AB INITIO PHASING REMARK 200 SOFTWARE USED: ARCIMBOLDO REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.16M CALCIUM ACETATE, 0.08M SODIUM REMARK 280 CACODYLATE, 14.4% (W/V) PEG 8000, 20% (V/V) GLYCEROL, PH 6.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z+1/2 REMARK 290 4555 Y,-X,Z+1/2 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z+1/2 REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 51.28250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 51.28250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 51.28250 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 51.28250 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: MONOMERIC 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 NA NA A 402 LIES ON A SPECIAL POSITION. REMARK 375 CL CL A 403 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 637 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 652 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 660 LIES ON A SPECIAL POSITION. 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 MET A 1 REMARK 465 THR A 2 REMARK 465 ARG A 3 REMARK 465 ILE A 4 REMARK 465 ASP A 5 REMARK 465 ALA A 6 REMARK 465 ALA A 7 REMARK 465 PRO A 8 REMARK 465 ASN A 9 REMARK 465 PRO A 10 REMARK 465 PHE A 11 REMARK 465 HIS A 12 REMARK 465 ALA A 13 REMARK 465 ALA A 14 REMARK 465 MET A 15 REMARK 465 GLN A 16 REMARK 465 GLY A 17 REMARK 465 ARG A 18 REMARK 465 HIS A 19 REMARK 465 ASP A 20 REMARK 465 ALA A 21 REMARK 465 SER A 22 REMARK 465 ALA A 23 REMARK 465 ASN A 24 REMARK 465 THR A 25 REMARK 465 SER A 26 REMARK 465 SER A 27 REMARK 465 GLY A 28 REMARK 465 TRP A 29 REMARK 465 LEU A 30 REMARK 465 GLN A 31 REMARK 465 GLY A 32 REMARK 465 GLN A 33 REMARK 465 ARG A 34 REMARK 465 ILE A 35 REMARK 465 ALA A 36 REMARK 465 PRO A 37 REMARK 465 ALA A 38 REMARK 465 PRO A 39 REMARK 465 THR A 40 REMARK 465 GLY A 41 REMARK 465 ILE A 42 REMARK 465 SER A 43 REMARK 465 LEU A 44 REMARK 465 ALA A 45 REMARK 465 ASP A 46 REMARK 465 ALA A 47 REMARK 465 ALA A 48 REMARK 465 GLU A 49 REMARK 465 GLU A 50 REMARK 465 LEU A 51 REMARK 465 SER A 52 REMARK 465 LEU A 53 REMARK 465 HIS A 54 REMARK 465 MET A 55 REMARK 465 ALA A 56 REMARK 465 GLN A 57 REMARK 465 ALA A 58 REMARK 465 ALA A 59 REMARK 465 GLU A 60 REMARK 465 GLU A 61 REMARK 465 LYS A 62 REMARK 465 HIS A 63 REMARK 465 HIS A 64 REMARK 465 SER A 65 REMARK 465 GLU A 66 REMARK 465 ARG A 67 REMARK 465 LYS A 68 REMARK 465 VAL A 69 REMARK 465 THR A 70 REMARK 465 ALA A 71 REMARK 465 GLU A 72 REMARK 465 ARG A 73 REMARK 465 PRO A 74 REMARK 465 MET A 75 REMARK 465 LEU A 76 REMARK 465 TRP A 77 REMARK 465 LEU A 78 REMARK 465 ASP A 79 REMARK 465 ALA A 80 REMARK 465 ALA A 81 REMARK 465 GLN A 82 REMARK 465 ASN A 275 REMARK 465 ALA A 276 REMARK 465 GLY A 277 REMARK 465 SER A 278 REMARK 465 GLN A 279 REMARK 465 GLU A 280 REMARK 465 ASN A 364 REMARK 465 ALA A 365 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 142 47.42 70.93 REMARK 500 ASP A 217 -139.17 -118.74 REMARK 500 ALA A 282 59.50 -95.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 660 DISTANCE = 5.91 ANGSTROMS 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 CA A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 142 OD2 REMARK 620 2 ASP A 333 OD1 38.0 REMARK 620 3 ASP A 343 OD1 22.9 15.6 REMARK 620 4 ASP A 343 OD2 21.8 16.6 1.0 REMARK 620 5 HOH A 560 O 83.7 62.1 72.5 73.1 REMARK 620 6 HOH A 582 O 74.6 100.7 92.2 91.5 78.9 REMARK 620 7 HOH A 605 O 152.9 128.6 142.5 143.3 71.3 90.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 402 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 228 OE1 REMARK 620 2 GLN A 228 OE1 0.0 REMARK 620 3 HOH A 513 O 95.0 95.0 REMARK 620 4 HOH A 513 O 101.0 101.0 109.7 REMARK 620 5 HOH A 612 O 59.0 59.0 70.1 62.3 REMARK 620 6 HOH A 612 O 148.4 148.4 62.3 70.1 91.2 REMARK 620 N 1 2 3 4 5 DBREF 7YYG A 1 365 UNP Q79GQ0 Q79GQ0_BORPE 1 365 SEQRES 1 A 365 MET THR ARG ILE ASP ALA ALA PRO ASN PRO PHE HIS ALA SEQRES 2 A 365 ALA MET GLN GLY ARG HIS ASP ALA SER ALA ASN THR SER SEQRES 3 A 365 SER GLY TRP LEU GLN GLY GLN ARG ILE ALA PRO ALA PRO SEQRES 4 A 365 THR GLY ILE SER LEU ALA ASP ALA ALA GLU GLU LEU SER SEQRES 5 A 365 LEU HIS MET ALA GLN ALA ALA GLU GLU LYS HIS HIS SER SEQRES 6 A 365 GLU ARG LYS VAL THR ALA GLU ARG PRO MET LEU TRP LEU SEQRES 7 A 365 ASP ALA ALA GLN LEU ALA GLU LEU PHE SER HIS THR HIS SEQRES 8 A 365 ASP PRO ASP ALA GLN ALA LYS LEU GLU ALA LEU THR ALA SEQRES 9 A 365 GLU LEU LEU ARG GLY ARG GLY ALA PRO MET GLN LEU ALA SEQRES 10 A 365 ALA GLN ALA PHE PRO GLY VAL THR GLN GLN TYR LEU ALA SEQRES 11 A 365 LEU GLN HIS ALA LEU GLN ARG GLY GLU HIS GLU ASP ALA SEQRES 12 A 365 ALA PRO HIS ALA LEU GLU ALA LEU ARG ASP ALA LEU ALA SEQRES 13 A 365 ASP LEU GLU LEU ALA HIS GLY PRO GLU ILE ARG ALA GLY SEQRES 14 A 365 ILE ASN THR LEU PRO THR ALA GLY ALA PHE ALA ARG SER SEQRES 15 A 365 ALA ASP GLU LEU ALA GLY PHE GLN HIS ALA TYR ARG ASP SEQRES 16 A 365 ILE ALA LEU GLY GLN LEU SER LEU ALA ARG THR LEU ASP SEQRES 17 A 365 LEU VAL LEU GLU ARG TYR GLY ASN ASP ASP ILE HIS GLY SEQRES 18 A 365 ALA LEU GLY ALA LEU ILE GLN ALA LEU GLY HIS ASP LEU SEQRES 19 A 365 ALA ALA ALA THR PRO SER THR ASP GLY VAL ARG LEU GLN SEQRES 20 A 365 VAL LEU ALA SER ASP LEU TYR GLN VAL GLU VAL ALA ALA SEQRES 21 A 365 THR VAL LEU GLU GLU CYS ASN ALA LEU LYS GLN ARG LEU SEQRES 22 A 365 GLY ASN ALA GLY SER GLN GLU CYS ALA ASP ALA GLN GLY SEQRES 23 A 365 LEU MET ARG ASP LEU VAL GLY ILE SER GLU ASP LYS TRP SEQRES 24 A 365 ILE ALA PRO ALA ARG PHE GLU LYS LEU ALA GLU ARG HIS SEQRES 25 A 365 GLY ALA ASN ALA LEU SER GLU ARG ILE ALA PHE LEU GLY SEQRES 26 A 365 GLY VAL ARG GLN ILE LEU LYS ASP LEU PRO THR GLN ILE SEQRES 27 A 365 TYR ALA ASP MET ASP VAL ARG ALA THR VAL LEU ALA ALA SEQRES 28 A 365 ALA GLN ASP ALA LEU ASP ASN ALA ILE ALA MET GLU ASN SEQRES 29 A 365 ALA HET CA A 401 1 HET NA A 402 1 HET CL A 403 1 HET GOL A 404 6 HET ACT A 405 4 HET PGE A 406 10 HETNAM CA CALCIUM ION HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETNAM ACT ACETATE ION HETNAM PGE TRIETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 CA CA 2+ FORMUL 3 NA NA 1+ FORMUL 4 CL CL 1- FORMUL 5 GOL C3 H8 O3 FORMUL 6 ACT C2 H3 O2 1- FORMUL 7 PGE C6 H14 O4 FORMUL 8 HOH *160(H2 O) HELIX 1 AA1 ALA A 84 HIS A 91 5 8 HELIX 2 AA2 ASP A 94 GLY A 109 1 16 HELIX 3 AA3 ALA A 112 PHE A 121 1 10 HELIX 4 AA4 GLY A 123 ASP A 142 1 20 HELIX 5 AA5 ALA A 144 THR A 172 1 29 HELIX 6 AA6 THR A 172 ALA A 180 1 9 HELIX 7 AA7 SER A 182 LEU A 198 1 17 HELIX 8 AA8 SER A 202 GLY A 215 1 14 HELIX 9 AA9 ASP A 218 ALA A 236 1 19 HELIX 10 AB1 ASP A 242 GLU A 264 1 23 HELIX 11 AB2 GLU A 264 GLY A 274 1 11 HELIX 12 AB3 ASP A 283 SER A 295 1 13 HELIX 13 AB4 ALA A 301 HIS A 312 1 12 HELIX 14 AB5 ALA A 316 LEU A 334 1 19 HELIX 15 AB6 PRO A 335 TYR A 339 5 5 HELIX 16 AB7 ASP A 341 MET A 362 1 22 LINK OD2 ASP A 142 CA CA A 401 1555 1555 2.38 LINK OE1 GLN A 228 NA NA A 402 1555 1555 3.11 LINK OE1 GLN A 228 NA NA A 402 1555 5655 3.11 LINK OD1 ASP A 333 CA CA A 401 1555 4565 2.40 LINK OD1 ASP A 343 CA CA A 401 1555 3665 2.50 LINK OD2 ASP A 343 CA CA A 401 1555 3665 2.67 LINK CA CA A 401 O HOH A 560 1555 8664 2.64 LINK CA CA A 401 O HOH A 582 1555 8664 2.71 LINK CA CA A 401 O HOH A 605 1555 3654 2.45 LINK NA NA A 402 O HOH A 513 1555 1555 2.40 LINK NA NA A 402 O HOH A 513 1555 5655 2.41 LINK NA NA A 402 O HOH A 612 1555 1555 3.16 LINK NA NA A 402 O HOH A 612 1555 5655 3.16 CRYST1 84.859 84.859 102.565 90.00 90.00 90.00 P 42 2 2 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 0.011784 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011784 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009750 0.00000