HEADER HYDROLASE 25-MAR-03 1OUV TITLE HELICOBACTER CYSTEINE RICH PROTEIN C (HCPC) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CONSERVED HYPOTHETICAL SECRETED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HELICOBACTER CYSTEINE RICH PROTEIN C, HCPC; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_TAXID: 85962; SOURCE 4 STRAIN: 26695; SOURCE 5 GENE: HP1098; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: T7; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PTFT74 KEYWDS TPR REPEAT, HCP REPEAT, CYSTEINE RICH PROTEIN, LOOP-HELIX-TURN-HELIX, KEYWDS 2 REPEAT PROTEIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR P.R.MITTL,L.LUETHY REVDAT 5 16-AUG-23 1OUV 1 SEQADV REVDAT 4 13-JUL-11 1OUV 1 VERSN REVDAT 3 24-FEB-09 1OUV 1 VERSN REVDAT 2 06-JUL-04 1OUV 1 JRNL REVDAT 1 30-MAR-04 1OUV 0 JRNL AUTH L.LUETHY,M.G.GRUTTER,P.R.MITTL JRNL TITL THE CRYSTAL STRUCTURE OF HELICOBACTER CYSTEINE-RICH PROTEIN JRNL TITL 2 C AT 2.0A RESOLUTION: SIMILAR PEPTIDE-BINDING SITES IN TPR JRNL TITL 3 AND SEL1-LIKE REPEAT PROTEINS JRNL REF J.MOL.BIOL. V. 340 829 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 15223324 JRNL DOI 10.1016/J.JMB.2004.04.055 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 20476 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) : 0.202 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2026 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 175 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.47800 REMARK 3 B22 (A**2) : -3.04700 REMARK 3 B33 (A**2) : 0.56900 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -3.13300 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 0.971 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.530 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.320 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 4.127 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 6.035 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1OUV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-APR-03. REMARK 100 THE DEPOSITION ID IS D_1000018686. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL; NULL REMARK 200 TEMPERATURE (KELVIN) : 110; 93.8 REMARK 200 PH : 6.4 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N; Y REMARK 200 RADIATION SOURCE : ROTATING ANODE; SLS REMARK 200 BEAMLINE : NULL; X06SA REMARK 200 X-RAY GENERATOR MODEL : ENRAF-NONIUS FR591; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; NULL REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418; 0.91840 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE; CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH; MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21245 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.430 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : 0.07400 REMARK 200 FOR THE DATA SET : 14.3700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.33600 REMARK 200 R SYM FOR SHELL (I) : 0.34700 REMARK 200 FOR SHELL : 2.140 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1KLX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 4000, 0.2M AMMONIUM ACETATE, REMARK 280 0.1M SODIUM CITRATE, PH 6.4, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 51.49100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.09900 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 51.49100 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.09900 REMARK 290 SMTRY3 4 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 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 MET A 24 REMARK 465 ALA A 25 REMARK 465 GLU A 26 REMARK 465 GLN A 27 REMARK 465 HIS A 293 REMARK 465 HIS A 294 REMARK 465 HIS A 295 REMARK 465 HIS A 296 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 ASN A 80 101.80 -160.78 REMARK 500 ASN A 116 99.83 -160.49 REMARK 500 THR A 258 -78.91 -57.25 REMARK 500 ARG A 259 141.14 -175.00 REMARK 500 LYS A 287 50.39 -94.24 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1KLX RELATED DB: PDB REMARK 900 HELICOBACTER PYLORI CYSTEINE RICH PROTEIN B (HCPB) DBREF 1OUV A 24 290 UNP O25728 HCPC_HELPY 24 290 SEQADV 1OUV HIS A 291 UNP O25728 EXPRESSION TAG SEQADV 1OUV HIS A 292 UNP O25728 EXPRESSION TAG SEQADV 1OUV HIS A 293 UNP O25728 EXPRESSION TAG SEQADV 1OUV HIS A 294 UNP O25728 EXPRESSION TAG SEQADV 1OUV HIS A 295 UNP O25728 EXPRESSION TAG SEQADV 1OUV HIS A 296 UNP O25728 EXPRESSION TAG SEQRES 1 A 273 MET ALA GLU GLN ASP PRO LYS GLU LEU VAL GLY LEU GLY SEQRES 2 A 273 ALA LYS SER TYR LYS GLU LYS ASP PHE THR GLN ALA LYS SEQRES 3 A 273 LYS TYR PHE GLU LYS ALA CYS ASP LEU LYS GLU ASN SER SEQRES 4 A 273 GLY CYS PHE ASN LEU GLY VAL LEU TYR TYR GLN GLY GLN SEQRES 5 A 273 GLY VAL GLU LYS ASN LEU LYS LYS ALA ALA SER PHE TYR SEQRES 6 A 273 ALA LYS ALA CYS ASP LEU ASN TYR SER ASN GLY CYS HIS SEQRES 7 A 273 LEU LEU GLY ASN LEU TYR TYR SER GLY GLN GLY VAL SER SEQRES 8 A 273 GLN ASN THR ASN LYS ALA LEU GLN TYR TYR SER LYS ALA SEQRES 9 A 273 CYS ASP LEU LYS TYR ALA GLU GLY CYS ALA SER LEU GLY SEQRES 10 A 273 GLY ILE TYR HIS ASP GLY LYS VAL VAL THR ARG ASP PHE SEQRES 11 A 273 LYS LYS ALA VAL GLU TYR PHE THR LYS ALA CYS ASP LEU SEQRES 12 A 273 ASN ASP GLY ASP GLY CYS THR ILE LEU GLY SER LEU TYR SEQRES 13 A 273 ASP ALA GLY ARG GLY THR PRO LYS ASP LEU LYS LYS ALA SEQRES 14 A 273 LEU ALA SER TYR ASP LYS ALA CYS ASP LEU LYS ASP SER SEQRES 15 A 273 PRO GLY CYS PHE ASN ALA GLY ASN MET TYR HIS HIS GLY SEQRES 16 A 273 GLU GLY ALA THR LYS ASN PHE LYS GLU ALA LEU ALA ARG SEQRES 17 A 273 TYR SER LYS ALA CYS GLU LEU GLU ASN GLY GLY GLY CYS SEQRES 18 A 273 PHE ASN LEU GLY ALA MET GLN TYR ASN GLY GLU GLY VAL SEQRES 19 A 273 THR ARG ASN GLU LYS GLN ALA ILE GLU ASN PHE LYS LYS SEQRES 20 A 273 GLY CYS LYS LEU GLY ALA LYS GLY ALA CYS ASP ILE LEU SEQRES 21 A 273 LYS GLN LEU LYS ILE LYS VAL HIS HIS HIS HIS HIS HIS FORMUL 2 HOH *175(H2 O) HELIX 1 1 ASP A 28 GLU A 42 1 15 HELIX 2 2 ASP A 44 LEU A 58 1 15 HELIX 3 3 GLU A 60 GLY A 74 1 15 HELIX 4 4 ASN A 80 LEU A 94 1 15 HELIX 5 5 TYR A 96 GLY A 110 1 15 HELIX 6 6 ASN A 116 LEU A 130 1 15 HELIX 7 7 TYR A 132 GLY A 146 1 15 HELIX 8 8 ASP A 152 LEU A 166 1 15 HELIX 9 9 ASP A 168 GLY A 182 1 15 HELIX 10 10 ASP A 188 LEU A 202 1 15 HELIX 11 11 ASP A 204 GLY A 218 1 15 HELIX 12 12 ASN A 224 LEU A 238 1 15 HELIX 13 13 ASN A 240 ASN A 253 1 14 HELIX 14 14 GLN A 263 GLY A 275 1 13 HELIX 15 15 ALA A 276 GLN A 285 1 10 SSBOND 1 CYS A 56 CYS A 64 1555 1555 2.05 SSBOND 2 CYS A 92 CYS A 100 1555 1555 2.05 SSBOND 3 CYS A 128 CYS A 136 1555 1555 2.04 SSBOND 4 CYS A 164 CYS A 172 1555 1555 2.04 SSBOND 5 CYS A 200 CYS A 208 1555 1555 2.04 SSBOND 6 CYS A 236 CYS A 244 1555 1555 2.03 SSBOND 7 CYS A 272 CYS A 280 1555 1555 2.03 CRYST1 102.982 46.198 76.390 90.00 120.95 90.00 C 1 2 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 0.009710 0.000000 0.005823 0.00000 SCALE2 0.000000 0.021646 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015264 0.00000