PDB Short entry for 1N7V HEADER VIRAL PROTEIN 18-NOV-02 1N7V TITLE THE RECEPTOR-BINDING PROTEIN P2 OF BACTERIOPHAGE PRD1: CRYSTAL FORM TITLE 2 III COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADSORPTION PROTEIN P2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RECEPTOR-BINDING PROTEIN PRD1-P2; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE PRD1; SOURCE 3 ORGANISM_TAXID: 10658; SOURCE 4 GENE: II; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: HMS174; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMG59 KEYWDS BACTERIOPHAGE PRD1, VIRAL RECEPTOR-BINDING, BETA-PROPELLER, PROLINE- KEYWDS 2 RICH, ANTIBIOTIC-RESISTANCE, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.XU,S.D.BENSON,S.J.BUTCHER,D.H.BAMFORD,R.M.BURNETT REVDAT 4 14-FEB-24 1N7V 1 REMARK LINK REVDAT 3 25-OCT-17 1N7V 1 REMARK REVDAT 2 24-FEB-09 1N7V 1 VERSN REVDAT 1 08-APR-03 1N7V 0 JRNL AUTH L.XU,S.D.BENSON,S.J.BUTCHER,D.H.BAMFORD,R.M.BURNETT JRNL TITL THE RECEPTOR BINDING PROTEIN P2 OF PRD1, A VIRUS TARGETING JRNL TITL 2 ANTIBIOTIC-RESISTANT BACTERIA, HAS A NOVEL FOLD SUGGESTING JRNL TITL 3 MULTIPLE FUNCTIONS. JRNL REF STRUCTURE V. 11 309 2003 JRNL PUBL 0353 JRNL REFN ISSN 0969-2126 JRNL PMID 12623018 JRNL DOI 10.1016/S0969-2126(03)00023-6 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.XU,S.J.BUTCHER,S.D.BENSON,D.H.BAMFORD,R.M.BURNETT REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSIS OF REMARK 1 TITL 2 RECEPTOR-BINDING PROTEIN P2 OF BACTERIOPAHGE PRD1 REMARK 1 REF J.STRUCT.BIOL. V. 131 159 2000 REMARK 1 REFN ISSN 1047-8477 REMARK 1 DOI 10.1006/JSBI.2000.4275 REMARK 1 REFERENCE 2 REMARK 1 AUTH A.M.GRAHN,J.CALDENTEY,J.K.H.BAMFORD,D.H.BAMFORD REMARK 1 TITL STABLE PACKING OF PHAGE PRD1 DNA REQUIRES ADSORPTION PROTEIN REMARK 1 TITL 2 P2, WHICH BINDS TO THE INCP PLASMID-ENCODED CONJUGATIVE REMARK 1 TITL 3 TRANSFER COMPLEX REMARK 1 REF J.BACTERIOL. V. 181 6689 1999 REMARK 1 REFN ISSN 0021-9193 REMARK 1 REFERENCE 3 REMARK 1 AUTH D.H.BAMFORD,J.CALDENTEY,J.K.H.BAMFORD REMARK 1 TITL BACTERIOPHAGE PRD1: A BROAD HOST RANGE DSDNA TECTIVIRUS WITH REMARK 1 TITL 2 AN INTERNAL MEMBRANE REMARK 1 REF ADV.VIRUS RES. V. 45 281 1995 REMARK 1 REFN REMARK 1 REFERENCE 4 REMARK 1 AUTH S.D.BENSON,J.K.H.BAMFORD,D.H.BAMFORD,R.M.BURNETT REMARK 1 TITL VIRAL EVOLUTION REVEALED BY BACTERIOPHAGE PRD1 AND HUMAN REMARK 1 TITL 2 ADENOVIRUS COAT PROTEIN STRUCTURES REMARK 1 REF CELL(CAMBRIDGE,MASS.) V. 98 825 1999 REMARK 1 REFN ISSN 0092-8674 REMARK 1 DOI 10.1016/S0092-8674(00)81516-0 REMARK 1 REFERENCE 5 REMARK 1 AUTH P.S.RYDMAN,J.CALDENTEY,S.J.BUTCHER,S.D.FULLER,T.RUTTEN, REMARK 1 AUTH 2 D.H.BAMFORD REMARK 1 TITL BACTERIOPHAGE PRD1 CONTAINS A LABILE RECEPTOR-BINDING REMARK 1 TITL 2 STRUCTURE AT EACH VERTEX REMARK 1 REF J.MOL.BIOL. V. 291 575 1999 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1006/JMBI.1999.2978 REMARK 1 REFERENCE 6 REMARK 1 AUTH L.XU REMARK 1 TITL A TALE OF TWO VIRUSES WITH THERAPEUTIC POTENTIAL: STRUCTURAL REMARK 1 TITL 2 STUDIES ON CELO, AN AVIAN ADENOVIRUS AND THE BACTERIOPHAGE REMARK 1 TITL 3 PRD1 REMARK 1 REF THESIS 2002 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.11 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) (%) : 78.4 REMARK 3 NUMBER OF REFLECTIONS : 34808 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) : 0.229 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1732 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.34 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 45.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3155 REMARK 3 BIN R VALUE (WORKING SET) : 0.3750 REMARK 3 BIN FREE R VALUE : 0.4120 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 157 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.033 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3990 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 234 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 30.77000 REMARK 3 B22 (A**2) : -17.45000 REMARK 3 B33 (A**2) : -13.32000 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 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) : 0.38 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.51 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.940 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) : 1.220 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.050 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.100 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.830 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.32 REMARK 3 BSOL : 47.67 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 : ACY.PAR REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : ACY.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1N7V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-NOV-02. REMARK 100 THE DEPOSITION ID IS D_1000017628. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X12C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95 REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL MONOCHROMATOR REMARK 200 SI(111), BEAM FOCUSED BY A REMARK 200 TOROIDAL MIRROR REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRANDEIS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38750 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 38.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.4 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 45.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.77100 REMARK 200 <I/SIGMA(I)> 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: CNS REMARK 200 STARTING MODEL: P2 CRYSTAL FORM I(1N7U) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50% MPD, 0.1 M SODIUM ACETATE AT PH REMARK 280 5.0, 10 MM CACL2, VAPOR DIFFUSION, HANGING DROP, MACROSEEDING, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 68.60000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.60000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 23.25000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 135.10000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 23.25000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 135.10000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 68.60000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 23.25000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 135.10000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 68.60000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 23.25000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 135.10000 REMARK 290 SMTRY3 8 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 300 REMARK: BIOCHEMICAL EVIDENCE (GEL FILTRATION, LOW ANGLE X-RAY REMARK 300 SCATTERING, RATE-ZONAL ULTRACENTRIFUGATION, AND DYNAMIC LIGHT REMARK 300 SCATTERING) INDICATE THAT P2 IS MONOMERIC, BUT A POTENTIAL DIMER REMARK 300 APPEARS IN 3 CRYSTAL WITH DIFFERENT SPACE GROUPS AND IS OBTAINED REMARK 300 FOR THIS CRYSTAL FORM BY THE FOLLOWING SYMMETRY OPERATION: -X, Y, - REMARK 300 Z+1/2 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 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 68.60000 REMARK 351 REMARK 351 THE BIOMOLECULE IS MOST PROBABLY A MONOMER. REMARK 351 NEVERTHELESS, IT IS NOTABLE THAT THE SAME REMARK 351 DIMER APPEARS IN THE TWO CRYSTAL FORMS (1N7U REMARK 351 AND 1N7V). ALTHOUGH THE BURIED SURFACE PER REMARK 351 SUBUNIT IN THE DIMER IS ~1,206 A**2, WHICH REMARK 351 IS RELATIVELY SUBSTANTIAL, IT ONLY REPRESENTS REMARK 351 ~5.5% OF THE SURFACE AREA OF THE P2 MONOMER. REMARK 351 RATE ZONAL CENTRIFUGATION, GEL FILTRATION, REMARK 351 CROSS-LINKING, SEDIMENTATION EQUILIBRIUM AND REMARK 351 LOW ANGLE X-RAY SCATTERING STRONGLY SUGGEST THAT REMARK 351 P2 IS A MONOMER IN SOLUTION. FURTHERMORE, DYNAMIC REMARK 351 LIGHT SCATTERING MEASUREMENTS INDICATED A REMARK 351 MONODISPERSE SOLUTION WITH AN APPARENT MOLECULAR REMARK 351 WEIGHT OF 79 KDA, WHICH IS IN REASONABLE AGREEMENT REMARK 351 WITH THAT FOR THE MONOMER (63.9 KDA). NEVERTHELESS, REMARK 351 P2 MAY FORM A LOOSELY ASSOCIATED DIMER WHEN REMARK 351 BOUND TO THE VIRION. 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 ILE A 248 REMARK 465 ALA A 249 REMARK 465 ASP A 250 REMARK 465 PRO A 251 REMARK 465 GLU A 252 REMARK 465 THR A 253 REMARK 465 CYS A 254 REMARK 465 PRO A 255 REMARK 465 ALA A 256 REMARK 465 GLN A 257 REMARK 465 PRO A 258 REMARK 465 THR A 259 REMARK 465 THR A 260 REMARK 465 ASP A 261 REMARK 465 LYS A 262 REMARK 465 VAL A 263 REMARK 465 ILE A 264 REMARK 465 ILE A 265 REMARK 465 ARG A 266 REMARK 465 THR A 267 REMARK 465 THR A 268 REMARK 465 ASP A 269 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 GLU A 72 CG CD OE1 OE2 REMARK 470 GLU A 166 CG CD OE1 OE2 REMARK 470 SER A 179 OG REMARK 470 ARG A 239 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 241 CG CD OE1 OE2 REMARK 470 GLU A 242 CG CD OE1 OE2 REMARK 470 ILE A 243 CG1 CG2 CD1 REMARK 470 PRO A 244 CG CD REMARK 470 VAL A 245 CG1 CG2 REMARK 470 GLU A 246 CG CD OE1 OE2 REMARK 470 PHE A 247 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU A 270 CG CD1 CD2 REMARK 470 ASN A 271 CG OD1 ND2 REMARK 470 PRO A 272 CG CD REMARK 470 GLU A 273 CG CD OE1 OE2 REMARK 470 SER A 275 OG REMARK 470 PRO A 276 CG CD REMARK 470 CYS A 277 SG REMARK 470 TYR A 279 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 280 CG CD OE1 OE2 REMARK 470 VAL A 485 CG1 CG2 REMARK 470 GLU A 486 CG CD OE1 OE2 REMARK 470 ASP A 515 CG OD1 OD2 REMARK 470 GLU A 516 CG CD OE1 OE2 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 N VAL A 336 O HOH A 711 2.11 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 TRP A 45 N - CA - C ANGL. DEV. = -18.6 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 ASN A 22 44.61 -72.71 REMARK 500 THR A 167 -25.55 -145.03 REMARK 500 ASN A 203 50.07 -94.11 REMARK 500 TRP A 204 -84.82 -53.76 REMARK 500 GLU A 241 -144.74 -157.77 REMARK 500 GLU A 242 -170.89 22.52 REMARK 500 ILE A 243 -126.06 -119.39 REMARK 500 PRO A 244 -146.24 -163.09 REMARK 500 VAL A 245 138.93 81.78 REMARK 500 ASN A 271 -170.12 -170.37 REMARK 500 PRO A 272 -88.96 69.54 REMARK 500 SER A 275 35.96 172.77 REMARK 500 TYR A 279 -166.06 161.48 REMARK 500 GLU A 280 173.80 70.18 REMARK 500 GLN A 288 133.93 -36.61 REMARK 500 ASN A 291 85.02 -154.73 REMARK 500 GLU A 335 -57.02 -148.53 REMARK 500 VAL A 336 103.99 101.07 REMARK 500 THR A 347 -94.03 -120.64 REMARK 500 SER A 351 -179.11 177.34 REMARK 500 ALA A 356 124.41 -170.53 REMARK 500 ASP A 385 -122.44 56.44 REMARK 500 THR A 427 -107.57 -107.36 REMARK 500 ALA A 472 -121.55 56.31 REMARK 500 ALA A 479 55.43 111.77 REMARK 500 ILE A 512 -88.55 -110.30 REMARK 500 ALA A 513 -174.74 -68.86 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 601 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 425 OD1 REMARK 620 2 LYS A 426 O 88.8 REMARK 620 3 SER A 462 O 150.4 86.8 REMARK 620 4 HOH A 734 O 98.4 171.3 89.3 REMARK 620 5 HOH A 735 O 67.9 89.5 82.8 97.7 REMARK 620 6 HOH A 832 O 108.1 88.7 101.1 84.5 175.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 560 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 561 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 601 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1N7U RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH DIFFERENT SPACE GROUP DBREF 1N7V A 2 556 UNP P27378 VP02_BPPRD 1 555 SEQRES 1 A 555 ALA ASN PHE ASN VAL PRO LYS LEU GLY VAL PHE PRO VAL SEQRES 2 A 555 ALA ALA VAL PHE ASP ILE ASP ASN VAL PRO GLU ASP SER SEQRES 3 A 555 SER ALA THR GLY SER ARG TRP LEU PRO SER ILE TYR GLN SEQRES 4 A 555 GLY GLY ASN TYR TRP GLY GLY GLY PRO GLN ALA LEU HIS SEQRES 5 A 555 ALA GLN VAL SER ASN PHE ASP SER SER ASN ARG LEU PRO SEQRES 6 A 555 TYR ASN PRO ARG THR GLU ASN ASN PRO ALA GLY ASN CYS SEQRES 7 A 555 ALA PHE ALA PHE ASN PRO PHE GLY GLN TYR ILE SER ASN SEQRES 8 A 555 ILE SER SER ALA GLN SER VAL HIS ARG ARG ILE TYR GLY SEQRES 9 A 555 ILE ASP LEU ASN ASP GLU PRO LEU PHE SER PRO ASN ALA SEQRES 10 A 555 ALA SER ILE THR ASN GLY GLY ASN PRO THR MET SER GLN SEQRES 11 A 555 ASP THR GLY TYR HIS ASN ILE GLY PRO ILE ASN THR ALA SEQRES 12 A 555 TYR LYS ALA GLU ILE PHE ARG PRO VAL ASN PRO LEU PRO SEQRES 13 A 555 MET SER ASP THR ALA PRO ASP PRO GLU THR LEU GLU PRO SEQRES 14 A 555 GLY GLN THR GLU PRO LEU ILE LYS SER ASP GLY VAL TYR SEQRES 15 A 555 SER ASN SER GLY ILE ALA SER PHE ILE PHE ASP ARG PRO SEQRES 16 A 555 VAL THR GLU PRO ASN PRO ASN TRP PRO PRO LEU PRO PRO SEQRES 17 A 555 PRO VAL ILE PRO ILE ILE TYR PRO THR PRO ALA LEU GLY SEQRES 18 A 555 ILE GLY ALA ALA ALA ALA TYR GLY PHE GLY TYR GLN VAL SEQRES 19 A 555 THR VAL TYR ARG TRP GLU GLU ILE PRO VAL GLU PHE ILE SEQRES 20 A 555 ALA ASP PRO GLU THR CYS PRO ALA GLN PRO THR THR ASP SEQRES 21 A 555 LYS VAL ILE ILE ARG THR THR ASP LEU ASN PRO GLU GLY SEQRES 22 A 555 SER PRO CYS ALA TYR GLU ALA GLY ILE ILE LEU VAL ARG SEQRES 23 A 555 GLN THR SER ASN PRO MET ASN ALA VAL ALA GLY ARG LEU SEQRES 24 A 555 VAL PRO TYR VAL GLU ASP ILE ALA VAL ASP ILE PHE LEU SEQRES 25 A 555 THR GLY LYS PHE PHE THR LEU ASN PRO PRO LEU ARG ILE SEQRES 26 A 555 THR ASN ASN TYR PHE ALA ASP ASP GLU VAL LYS GLU ASN SEQRES 27 A 555 THR VAL THR ILE GLY ASN TYR THR THR THR LEU SER SER SEQRES 28 A 555 ALA TYR TYR ALA VAL TYR LYS THR ASP GLY TYR GLY GLY SEQRES 29 A 555 ALA THR CYS PHE ILE ALA SER GLY GLY ALA GLY ILE SER SEQRES 30 A 555 ALA LEU VAL GLN LEU GLN ASP ASN SER VAL LEU ASP VAL SEQRES 31 A 555 LEU TYR TYR SER LEU PRO LEU SER LEU GLY GLY SER LYS SEQRES 32 A 555 ALA ALA ILE ASP GLU TRP VAL ALA ASN ASN CYS GLY LEU SEQRES 33 A 555 PHE PRO MET SER GLY GLY LEU ASP LYS THR THR LEU LEU SEQRES 34 A 555 GLU ILE PRO ARG ARG GLN LEU GLU ALA ILE ASN PRO GLN SEQRES 35 A 555 ASP GLY PRO GLY GLN TYR ASP LEU PHE ILE LEU ASP ASP SEQRES 36 A 555 SER GLY ALA TYR ALA SER PHE SER SER PHE ILE GLY TYR SEQRES 37 A 555 PRO GLU ALA ALA TYR TYR VAL ALA GLY ALA ALA THR PHE SEQRES 38 A 555 MET ASP VAL GLU ASN PRO ASP GLU ILE ILE PHE ILE LEU SEQRES 39 A 555 ARG ASN GLY ALA GLY TRP TYR ALA CYS GLU ILE GLY ASP SEQRES 40 A 555 ALA LEU LYS ILE ALA ASP ASP GLU PHE ASP SER VAL ASP SEQRES 41 A 555 TYR PHE ALA TYR ARG GLY GLY VAL MET PHE ILE GLY SER SEQRES 42 A 555 ALA ARG TYR THR GLU GLY GLY ASP PRO LEU PRO ILE LYS SEQRES 43 A 555 TYR ARG ALA ILE ILE PRO GLY LEU PRO HET ACT A 560 4 HET ACT A 561 4 HET CA A 601 1 HETNAM ACT ACETATE ION HETNAM CA CALCIUM ION FORMUL 2 ACT 2(C2 H3 O2 1-) FORMUL 4 CA CA 2+ FORMUL 5 HOH *234(H2 O) HELIX 1 1 GLN A 40 GLY A 42 5 3 HELIX 2 2 ASN A 92 TYR A 104 1 13 HELIX 3 3 ASN A 117 ASN A 123 1 7 HELIX 4 4 GLY A 124 ASN A 126 5 3 HELIX 5 5 THR A 218 LEU A 221 5 4 HELIX 6 6 PRO A 397 GLY A 401 5 5 HELIX 7 7 SER A 403 GLY A 416 1 14 HELIX 8 8 ARG A 434 ALA A 439 1 6 HELIX 9 9 ILE A 506 LYS A 511 1 6 SHEET 1 A 4 ASN A 3 VAL A 6 0 SHEET 2 A 4 LEU A 451 LEU A 454 1 O LEU A 451 N PHE A 4 SHEET 3 A 4 LEU A 430 PRO A 433 -1 O LEU A 430 N LEU A 454 SHEET 4 A 4 ASP A 425 LYS A 426 -1 O ASP A 425 N GLU A 431 SHEET 1 B 5 LYS A 8 VAL A 11 0 SHEET 2 B 5 TRP A 501 GLU A 505 1 O TRP A 501 N LEU A 9 SHEET 3 B 5 GLU A 490 LEU A 495 -1 N ILE A 491 O CYS A 504 SHEET 4 B 5 TYR A 474 ALA A 480 -1 O TYR A 475 N ILE A 494 SHEET 5 B 5 ILE A 467 GLU A 471 -1 O ILE A 467 N GLY A 478 SHEET 1 C 4 VAL A 14 ILE A 20 0 SHEET 2 C 4 LYS A 547 PRO A 553 -1 O TYR A 548 N ILE A 20 SHEET 3 C 4 VAL A 529 SER A 534 -1 N MET A 530 O ILE A 551 SHEET 4 C 4 TYR A 522 ARG A 526 -1 O TYR A 522 N GLY A 533 SHEET 1 D 5 TYR A 44 TRP A 45 0 SHEET 2 D 5 TYR A 355 THR A 360 1 O TYR A 358 N TRP A 45 SHEET 3 D 5 GLY A 365 ALA A 371 -1 O THR A 367 N LYS A 359 SHEET 4 D 5 GLY A 376 GLN A 384 -1 N ALA A 379 O ILE A 370 SHEET 5 D 5 SER A 387 LEU A 396 -1 N SER A 387 O GLN A 384 SHEET 1 E 4 THR A 349 SER A 352 0 SHEET 2 E 4 GLN A 50 SER A 57 -1 O VAL A 56 N LEU A 350 SHEET 3 E 4 LEU A 324 TYR A 330 -1 O ARG A 325 N GLN A 55 SHEET 4 E 4 THR A 340 ILE A 343 -1 O VAL A 341 N ILE A 326 SHEET 1 F 8 LEU A 176 ILE A 177 0 SHEET 2 F 8 ILE A 223 ARG A 239 -1 N THR A 236 O LEU A 176 SHEET 3 F 8 VAL A 301 LEU A 320 -1 N VAL A 301 O ARG A 239 SHEET 4 F 8 SER A 130 GLN A 131 -1 N SER A 130 O PHE A 318 SHEET 5 F 8 VAL A 301 LEU A 320 -1 O PHE A 318 N SER A 130 SHEET 6 F 8 TYR A 145 PRO A 152 -1 N LYS A 146 O THR A 314 SHEET 7 F 8 VAL A 301 LEU A 320 -1 O ASP A 310 N ARG A 151 SHEET 8 F 8 ARG A 64 PRO A 66 -1 N LEU A 65 O THR A 319 SHEET 1 G 3 SER A 115 PRO A 116 0 SHEET 2 G 3 PHE A 86 GLN A 88 -1 O GLN A 88 N SER A 115 SHEET 3 G 3 ALA A 189 SER A 190 -1 N ALA A 189 O GLY A 87 SHEET 1 H 2 HIS A 136 ILE A 138 0 SHEET 2 H 2 ILE A 141 THR A 143 -1 O ILE A 141 N ILE A 138 SHEET 1 I 2 SER A 159 PRO A 163 0 SHEET 2 I 2 PRO A 170 THR A 173 -1 O GLY A 171 N THR A 161 SHEET 1 J 2 VAL A 197 PRO A 200 0 SHEET 2 J 2 VAL A 211 ILE A 215 -1 N ILE A 212 O GLU A 199 SHEET 1 K 2 ILE A 284 ARG A 287 0 SHEET 2 K 2 ALA A 295 GLY A 298 -1 O VAL A 296 N VAL A 286 LINK OD1 ASP A 425 CA CA A 601 1555 1555 2.50 LINK O LYS A 426 CA CA A 601 1555 1555 2.71 LINK O SER A 462 CA CA A 601 1555 1555 2.36 LINK CA CA A 601 O HOH A 734 1555 1555 2.36 LINK CA CA A 601 O HOH A 735 1555 1555 2.36 LINK CA CA A 601 O HOH A 832 1555 1555 2.42 CISPEP 1 ASN A 126 PRO A 127 0 -0.14 CISPEP 2 PRO A 205 PRO A 206 0 -0.10 CISPEP 3 PRO A 208 PRO A 209 0 -0.24 SITE 1 AC1 4 GLN A 40 LEU A 52 HIS A 53 HOH A 691 SITE 1 AC2 1 HOH A 831 SITE 1 AC3 6 ASP A 425 LYS A 426 SER A 462 HOH A 734 SITE 2 AC3 6 HOH A 735 HOH A 832 CRYST1 46.500 270.200 137.200 90.00 90.00 90.00 C 2 2 21 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 0.021505 0.000000 0.000000 0.00000 SCALE2 0.000000 0.003701 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007289 0.00000