HEADER HYDROLASE 20-AUG-11 3TI9 TITLE CRYSTAL STRUCTURE OF THE BASIC PROTEASE BPRB FROM THE OVINE FOOTROT TITLE 2 PATHOGEN, DICHELOBACTER NODOSUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE PROTEASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DICHELOBACTER NODOSUS; SOURCE 3 ORGANISM_TAXID: 870; SOURCE 4 STRAIN: CS101; SOURCE 5 GENE: BPRB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22 KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR W.WONG,J.C.WHISSTOCK,C.J.PORTER REVDAT 4 24-JAN-18 3TI9 1 REMARK REVDAT 3 11-JAN-12 3TI9 1 JRNL REVDAT 2 02-NOV-11 3TI9 1 JRNL REVDAT 1 19-OCT-11 3TI9 0 JRNL AUTH W.WONG,L.C.WIJEYEWICKREMA,R.M.KENNAN,S.B.REEVE,D.L.STEER, JRNL AUTH 2 C.REBOUL,A.I.SMITH,R.N.PIKE,J.I.ROOD,J.C.WHISSTOCK, JRNL AUTH 3 C.J.PORTER JRNL TITL S1 POCKET OF A BACTERIALLY DERIVED SUBTILISIN-LIKE PROTEASE JRNL TITL 2 UNDERPINS EFFECTIVE TISSUE DESTRUCTION. JRNL REF J.BIOL.CHEM. V. 286 42180 2011 JRNL REFN ISSN 0021-9258 JRNL PMID 21990366 JRNL DOI 10.1074/JBC.M111.298711 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.38 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.3 REMARK 3 NUMBER OF REFLECTIONS : 24768 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) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1258 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1373 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 74.65 REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.2970 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2494 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 460 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.22000 REMARK 3 B22 (A**2) : 0.25000 REMARK 3 B33 (A**2) : -0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.03000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.137 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.085 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.676 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2561 ; 0.008 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3490 ; 1.054 ; 1.932 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 342 ; 5.466 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 110 ;33.576 ;24.364 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 368 ;12.925 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;16.280 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 381 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2005 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1399 ; 0.195 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1764 ; 0.298 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 317 ; 0.094 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 10 ; 0.081 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 53 ; 0.155 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 57 ; 0.108 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1718 ; 0.696 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2686 ; 1.296 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 962 ; 2.600 ; 7.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 804 ; 3.709 ;10.000 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 : 1.40 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 REMARK 4 REMARK 4 3TI9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-AUG-11. REMARK 100 THE DEPOSITION ID IS D_1000067510. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RUH3R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.542 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24768 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 45.270 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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 : 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 1500, PH 6.5, VAPOR DIFFUSION, REMARK 280 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 45.25700 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 ALA A 1 REMARK 465 GLN A 343 REMARK 465 ASN A 344 REMARK 465 LEU A 345 REMARK 465 GLU A 346 REMARK 465 HIS A 347 REMARK 465 HIS A 348 REMARK 465 HIS A 349 REMARK 465 HIS A 350 REMARK 465 HIS A 351 REMARK 465 HIS A 352 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 TYR A 144 CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASP A 145 CG OD1 OD2 REMARK 470 GLN A 171 CD OE1 NE2 REMARK 470 ARG A 189 CD NE CZ NH1 NH2 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 41 -149.91 -165.07 REMARK 500 GLN A 72 -136.28 -80.80 REMARK 500 PRO A 77 32.87 -77.69 REMARK 500 ALA A 114 42.33 -151.87 REMARK 500 ALA A 127 66.63 -119.42 REMARK 500 ALA A 263 -105.64 -115.54 REMARK 500 LEU A 325 37.68 -145.82 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 CA A 353 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 5 OD1 REMARK 620 2 VAL A 116 O 96.5 REMARK 620 3 VAL A 121 O 89.2 166.0 REMARK 620 4 VAL A 123 O 79.3 85.3 108.4 REMARK 620 5 ASN A 119 OD1 76.7 87.5 81.4 154.0 REMARK 620 6 ASP A 49 OD1 157.3 80.5 89.2 122.5 80.7 REMARK 620 7 ASP A 49 OD2 151.3 98.0 82.5 77.4 128.4 50.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 355 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 72 O REMARK 620 2 ASP A 71 OD1 90.1 REMARK 620 3 ASP A 74 OD1 85.4 82.5 REMARK 620 4 HOH A 502 O 77.5 167.1 92.5 REMARK 620 5 ASP A 69 OD2 159.2 95.7 75.6 94.6 REMARK 620 6 ASP A 71 O 75.2 78.1 152.4 102.1 125.5 REMARK 620 7 ASP A 69 OD1 148.6 79.9 122.0 112.7 52.1 73.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 354 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 76 O REMARK 620 2 HOH A 514 O 99.9 REMARK 620 3 HOH A 506 O 82.0 88.1 REMARK 620 4 ASP A 69 OD2 164.7 86.7 84.4 REMARK 620 5 ASP A 59 OD2 90.5 169.0 89.7 82.3 REMARK 620 6 ASP A 74 OD2 75.7 78.1 151.2 119.4 108.4 REMARK 620 7 ASP A 74 OD1 120.6 92.4 156.8 72.5 85.4 50.4 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 353 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 354 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 355 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 356 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 357 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LPA RELATED DB: PDB REMARK 900 APRV2 REMARK 900 RELATED ID: 3TI7 RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 DUE TO DIFFERENCE IN THE STRAINS OF DICHELOBACTER NODOSUS USED IN REMARK 999 THE STUDIES DBREF 3TI9 A 1 344 UNP Q46547 Q46547_DICNO 133 476 SEQADV 3TI9 ARG A 9 UNP Q46547 GLN 141 SEE REMARK 999 SEQADV 3TI9 SER A 16 UNP Q46547 GLY 148 SEE REMARK 999 SEQADV 3TI9 ASP A 88 UNP Q46547 GLY 220 SEE REMARK 999 SEQADV 3TI9 LEU A 345 UNP Q46547 EXPRESSION TAG SEQADV 3TI9 GLU A 346 UNP Q46547 EXPRESSION TAG SEQADV 3TI9 HIS A 347 UNP Q46547 EXPRESSION TAG SEQADV 3TI9 HIS A 348 UNP Q46547 EXPRESSION TAG SEQADV 3TI9 HIS A 349 UNP Q46547 EXPRESSION TAG SEQADV 3TI9 HIS A 350 UNP Q46547 EXPRESSION TAG SEQADV 3TI9 HIS A 351 UNP Q46547 EXPRESSION TAG SEQADV 3TI9 HIS A 352 UNP Q46547 EXPRESSION TAG SEQRES 1 A 352 ALA ALA PRO ASN ASP PRO SER TYR ARG GLN GLN TRP HIS SEQRES 2 A 352 TYR PHE SER ASN TYR GLY VAL LYS ALA ASP LYS VAL TRP SEQRES 3 A 352 ASP ARG GLY PHE THR GLY GLN GLY VAL VAL VAL SER VAL SEQRES 4 A 352 VAL ASP THR GLY ILE LEU ASP HIS VAL ASP LEU ASN GLY SEQRES 5 A 352 ASN MET LEU PRO GLY TYR ASP PHE ILE SER SER ALA PRO SEQRES 6 A 352 LYS ALA ARG ASP GLY ASP GLN ARG ASP ASN ASN PRO ALA SEQRES 7 A 352 ASP GLU GLY ASP TRP PHE ASP ASN TRP ASP CYS GLY GLY SEQRES 8 A 352 TYR PRO ASP PRO ARG ARG GLU LYS ARG PHE SER THR TRP SEQRES 9 A 352 HIS GLY SER HIS VAL ALA GLY THR ILE ALA ALA VAL THR SEQRES 10 A 352 ASN ASN GLY VAL GLY VAL ALA GLY VAL ALA TYR GLY ALA SEQRES 11 A 352 LYS VAL ILE PRO VAL ARG VAL LEU GLY LYS CYS GLY GLY SEQRES 12 A 352 TYR ASP SER ASP ILE THR ASP GLY MET TYR TRP SER ALA SEQRES 13 A 352 GLY GLY HIS ILE ASP GLY VAL PRO ASP ASN GLN ASN PRO SEQRES 14 A 352 ALA GLN VAL ILE ASN MET SER LEU GLY GLY ASP GLY ASP SEQRES 15 A 352 CYS SER GLN SER SER GLN ARG ILE ILE ASP LYS THR THR SEQRES 16 A 352 ASN LEU GLY ALA LEU ILE VAL ILE ALA ALA GLY ASN GLU SEQRES 17 A 352 ASN GLN ASP ALA SER ARG THR TRP PRO SER SER CYS ASN SEQRES 18 A 352 ASN VAL LEU SER VAL GLY ALA THR THR PRO LYS GLY LYS SEQRES 19 A 352 ARG ALA PRO PHE SER ASN TYR GLY ALA ARG VAL HIS LEU SEQRES 20 A 352 ALA ALA PRO GLY THR ASN ILE LEU SER THR ILE ASP VAL SEQRES 21 A 352 GLY GLN ALA GLY PRO VAL ARG SER SER TYR GLY MET LYS SEQRES 22 A 352 ALA GLY THR SER MET ALA ALA PRO HIS VAL SER GLY VAL SEQRES 23 A 352 ALA ALA LEU VAL ILE SER ALA ALA ASN SER ILE GLY LYS SEQRES 24 A 352 THR LEU THR PRO SER GLU LEU SER ASP ILE LEU VAL ARG SEQRES 25 A 352 THR THR SER ARG PHE ASN GLY ARG LEU ASP ARG GLY LEU SEQRES 26 A 352 GLY SER GLY ILE VAL ASP ALA ASN ALA ALA VAL ASN ALA SEQRES 27 A 352 VAL LEU GLY ASP GLN ASN LEU GLU HIS HIS HIS HIS HIS SEQRES 28 A 352 HIS HET CA A 353 1 HET CA A 354 1 HET CA A 355 1 HET GOL A 356 6 HET CL A 357 1 HETNAM CA CALCIUM ION HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 CA 3(CA 2+) FORMUL 5 GOL C3 H8 O3 FORMUL 6 CL CL 1- FORMUL 7 HOH *460(H2 O) HELIX 1 1 SER A 7 GLN A 10 5 4 HELIX 2 2 GLN A 11 SER A 16 1 6 HELIX 3 3 LYS A 21 GLY A 29 1 9 HELIX 4 4 LEU A 50 MET A 54 5 5 HELIX 5 5 SER A 63 ARG A 68 1 6 HELIX 6 6 ASP A 94 GLU A 98 5 5 HELIX 7 7 TRP A 104 ALA A 115 1 12 HELIX 8 8 TYR A 144 ALA A 156 1 13 HELIX 9 9 SER A 184 ASN A 196 1 13 HELIX 10 10 ASP A 211 SER A 213 5 3 HELIX 11 11 GLY A 275 ILE A 297 1 23 HELIX 12 12 THR A 302 THR A 313 1 12 HELIX 13 13 ASP A 331 GLY A 341 1 11 SHEET 1 A 7 TYR A 58 ASP A 59 0 SHEET 2 A 7 LYS A 131 ARG A 136 1 O ARG A 136 N TYR A 58 SHEET 3 A 7 VAL A 36 ASP A 41 1 N VAL A 37 O LYS A 131 SHEET 4 A 7 VAL A 172 MET A 175 1 O ASN A 174 N SER A 38 SHEET 5 A 7 LEU A 200 ALA A 204 1 O LEU A 200 N ILE A 173 SHEET 6 A 7 LEU A 224 THR A 229 1 O LEU A 224 N ILE A 201 SHEET 7 A 7 LEU A 247 PRO A 250 1 O LEU A 247 N GLY A 227 SHEET 1 B 2 GLY A 179 ASP A 180 0 SHEET 2 B 2 THR A 215 TRP A 216 -1 O TRP A 216 N GLY A 179 SHEET 1 C 2 ILE A 254 ASP A 259 0 SHEET 2 C 2 SER A 268 LYS A 273 -1 O SER A 269 N ILE A 258 SSBOND 1 CYS A 89 CYS A 141 1555 1555 2.03 SSBOND 2 CYS A 183 CYS A 220 1555 1555 2.03 LINK OD1 ASP A 5 CA CA A 353 1555 1555 2.28 LINK O GLN A 72 CA CA A 355 1555 1555 2.29 LINK O VAL A 116 CA CA A 353 1555 1555 2.29 LINK OD1 ASP A 71 CA CA A 355 1555 1555 2.36 LINK O VAL A 121 CA CA A 353 1555 1555 2.36 LINK OD1 ASP A 74 CA CA A 355 1555 1555 2.37 LINK O ASN A 76 CA CA A 354 1555 1555 2.39 LINK CA CA A 354 O HOH A 514 1555 1555 2.39 LINK CA CA A 355 O HOH A 502 1555 1555 2.41 LINK CA CA A 354 O HOH A 506 1555 1555 2.42 LINK O VAL A 123 CA CA A 353 1555 1555 2.42 LINK OD2 ASP A 69 CA CA A 354 1555 1555 2.43 LINK OD2 ASP A 59 CA CA A 354 1555 1555 2.44 LINK OD2 ASP A 69 CA CA A 355 1555 1555 2.50 LINK O ASP A 71 CA CA A 355 1555 1555 2.50 LINK OD1 ASP A 69 CA CA A 355 1555 1555 2.50 LINK OD2 ASP A 74 CA CA A 354 1555 1555 2.52 LINK OD1 ASN A 119 CA CA A 353 1555 1555 2.53 LINK OD1 ASP A 49 CA CA A 353 1555 1555 2.53 LINK OD1 ASP A 74 CA CA A 354 1555 1555 2.62 LINK OD2 ASP A 49 CA CA A 353 1555 1555 2.62 CISPEP 1 TYR A 92 PRO A 93 0 2.85 CISPEP 2 TRP A 216 PRO A 217 0 2.20 SITE 1 AC1 6 ASP A 5 ASP A 49 VAL A 116 ASN A 119 SITE 2 AC1 6 VAL A 121 VAL A 123 SITE 1 AC2 6 ASP A 59 ASP A 69 ASP A 74 ASN A 76 SITE 2 AC2 6 HOH A 506 HOH A 514 SITE 1 AC3 5 ASP A 69 ASP A 71 GLN A 72 ASP A 74 SITE 2 AC3 5 HOH A 502 SITE 1 AC4 5 ASN A 222 VAL A 223 SER A 304 SER A 307 SITE 2 AC4 5 HOH A 680 SITE 1 AC5 2 PHE A 101 GLY A 162 CRYST1 38.462 90.514 44.060 90.00 109.99 90.00 P 1 21 1 2 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 0.025999 0.000000 0.009458 0.00000 SCALE2 0.000000 0.011048 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024152 0.00000