PDB Short entry for 2V5I HEADER VIRAL PROTEIN 05-JUL-07 2V5I TITLE STRUCTURE OF THE RECEPTOR-BINDING PROTEIN OF BACTERIOPHAGE DET7: A TITLE 2 PODOVIRAL TAILSPIKE IN A MYOVIRUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: SALMONELLA TYPHIMURIUM DB7155 BACTERIOPHAGE DET7 TAILSPIKE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: O-ANTIGEN BINDING AND HYDROLYSIS DOMAIN AND C-TERMINAL COMPND 5 INTERTWINED DOMAIN, RESIDUES 150-708; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTERIOPHAGE; SOURCE 3 ORGANISM_TAXID: 38018; SOURCE 4 STRAIN: DET7; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: HMS174; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: DE3; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21A; SOURCE 10 OTHER_DETAILS: REGENSBURG SEWAGE, GERMANY KEYWDS O-ANTIGEN BINDING AND HYDROLYSIS, BETA-HELIX, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.WALTER,C.FIEDLER,R.GRASSL,M.BIEBL,R.RACHEL,X.L.HERMO-PARRADO, AUTHOR 2 A.L.LLAMAS-SAIZ,R.SECKLER,S.MILLER,M.J.VAN RAAIJ REVDAT 4 13-DEC-23 2V5I 1 LINK REVDAT 3 27-DEC-17 2V5I 1 JRNL REVDAT 2 24-FEB-09 2V5I 1 VERSN REVDAT 1 19-FEB-08 2V5I 0 JRNL AUTH M.WALTER,C.FIEDLER,R.GRASSL,M.BIEBL,R.RACHEL, JRNL AUTH 2 X.L.HERMO-PARRADO,A.L.LLAMAS-SAIZ,R.SECKLER,S.MILLER, JRNL AUTH 3 M.J.VAN RAAIJ JRNL TITL STRUCTURE OF THE RECEPTOR-BINDING PROTEIN OF BACTERIOPHAGE JRNL TITL 2 DET7: A PODOVIRAL TAIL SPIKE IN A MYOVIRUS. JRNL REF J.VIROL. V. 82 2265 2008 JRNL REFN ISSN 0022-538X JRNL PMID 18077713 JRNL DOI 10.1128/JVI.01641-07 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 78590 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) : 0.142 REMARK 3 R VALUE (WORKING SET) : 0.141 REMARK 3 FREE R VALUE : 0.170 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1598 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.66 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5136 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1860 REMARK 3 BIN FREE R VALUE SET COUNT : 96 REMARK 3 BIN FREE R VALUE : 0.2440 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4143 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 831 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.48 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.95000 REMARK 3 B22 (A**2) : 0.95000 REMARK 3 B33 (A**2) : -1.43000 REMARK 3 B12 (A**2) : 0.48000 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): 0.068 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.071 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.043 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.193 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.964 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4289 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3870 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5839 ; 1.655 ; 1.955 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9021 ; 0.888 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 555 ; 6.587 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 184 ;36.123 ;25.054 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 685 ;12.264 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;13.375 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 665 ; 0.121 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4862 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 828 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 705 ; 0.196 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3774 ; 0.183 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2123 ; 0.169 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2632 ; 0.080 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 473 ; 0.132 ; 0.200 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): 25 ; 0.151 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 152 ; 0.215 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 68 ; 0.143 ; 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): 2747 ; 1.418 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4426 ; 2.434 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1600 ; 3.666 ; 5.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1413 ; 5.610 ; 7.000 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 2V5I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-JUL-07. REMARK 100 THE DEPOSITION ID IS D_1290033137. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-SEP-04 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 : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95375 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : SILICON TOROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 80189 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.25000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1TSP REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 TO 30 % (W/V) PEG4000, 0.1 M SODIUM REMARK 280 CITRATE PH 4.5, 0 TO 15 % (V/V) GLYCEROL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+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 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 50.21650 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 28.99251 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 110.01400 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 50.21650 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 28.99251 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 110.01400 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 50.21650 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 28.99251 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 110.01400 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 50.21650 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 28.99251 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 110.01400 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 50.21650 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 28.99251 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 110.01400 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 50.21650 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 28.99251 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 110.01400 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 57.98502 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 220.02800 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 57.98502 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 220.02800 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 57.98502 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 220.02800 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 57.98502 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 220.02800 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 57.98502 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 220.02800 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 57.98502 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 220.02800 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 30100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 61730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -191.5 KCAL/MOL 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 -0.500000 -0.866025 0.000000 0.00000 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 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 A1559 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2432 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2535 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2617 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2638 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 150 REMARK 465 VAL A 151 REMARK 465 SER A 152 REMARK 465 VAL A 153 REMARK 465 GLY A 154 REMARK 465 ASP A 155 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 ASP A 199 CB - CG - OD1 ANGL. DEV. = 7.4 DEGREES REMARK 500 ASP A 204 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 452 CB - CG - OD1 ANGL. DEV. = 7.0 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 SER A 176 -83.85 -89.61 REMARK 500 ASP A 187 -68.79 -137.58 REMARK 500 PRO A 251 38.89 -77.80 REMARK 500 HIS A 302 60.10 -154.60 REMARK 500 ASP A 341 61.23 -100.70 REMARK 500 TYR A 373 -138.68 58.72 REMARK 500 GLU A 404 -104.13 -111.83 REMARK 500 TRP A 436 -103.02 -102.77 REMARK 500 ASN A 519 61.33 62.57 REMARK 500 LEU A 676 -65.42 -106.82 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 A2136 DISTANCE = 5.89 ANGSTROMS REMARK 525 HOH A2140 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH A2141 DISTANCE = 5.89 ANGSTROMS REMARK 525 HOH A2161 DISTANCE = 6.52 ANGSTROMS REMARK 525 HOH A2171 DISTANCE = 6.85 ANGSTROMS REMARK 525 HOH A2172 DISTANCE = 6.78 ANGSTROMS REMARK 525 HOH A2175 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH A2177 DISTANCE = 6.41 ANGSTROMS REMARK 525 HOH A2181 DISTANCE = 6.69 ANGSTROMS REMARK 525 HOH A2221 DISTANCE = 6.18 ANGSTROMS REMARK 525 HOH A2245 DISTANCE = 6.37 ANGSTROMS REMARK 525 HOH A2246 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH A2325 DISTANCE = 5.97 ANGSTROMS REMARK 525 HOH A2373 DISTANCE = 6.05 ANGSTROMS REMARK 525 HOH A2386 DISTANCE = 6.30 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 NA A1559 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 706 O REMARK 620 2 LEU A 706 O 93.5 REMARK 620 3 LEU A 706 O 93.7 91.0 REMARK 620 4 HOH A2826 O 87.7 176.4 85.5 REMARK 620 5 HOH A2826 O 87.6 85.1 176.0 98.3 REMARK 620 6 HOH A2826 O 175.2 83.0 83.0 95.6 95.4 REMARK 620 N 1 2 3 4 5 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A1559 REMARK 999 REMARK 999 SEQUENCE REMARK 999 NEW SEQUENCE, NOT SUBMITTED YET DBREF 2V5I A 150 708 PDB 2V5I 2V5I 150 708 SEQRES 1 A 559 MET VAL SER VAL GLY ASP ALA ALA PHE ARG GLN GLU ALA SEQRES 2 A 559 ASN LYS LYS PHE LYS TYR SER VAL LYS LEU SER ASP TYR SEQRES 3 A 559 SER THR LEU GLN ASP ALA VAL THR ASP ALA VAL ASP GLY SEQRES 4 A 559 LEU LEU ILE ASP ILE ASN TYR ASN PHE THR ASP GLY GLU SEQRES 5 A 559 SER VAL ASP PHE UNK GLY LYS ILE LEU THR ILE ASN CYS SEQRES 6 A 559 LYS ALA LYS PHE ILE GLY ASP GLY ALA LEU ILE PHE ASN SEQRES 7 A 559 ASN MET GLY PRO GLY SER VAL ILE ASN GLN PRO PHE MET SEQRES 8 A 559 GLU SER LYS THR THR PRO TRP VAL ILE PHE PRO TRP ASP SEQRES 9 A 559 ALA ASP GLY LYS TRP ILE THR ASP ALA ALA LEU VAL ALA SEQRES 10 A 559 ALA THR LEU LYS GLN SER LYS ILE GLU GLY TYR GLN PRO SEQRES 11 A 559 GLY VAL ASN ASP TRP VAL LYS PHE PRO GLY LEU GLU ALA SEQRES 12 A 559 LEU LEU PRO GLN ASN VAL LYS ASP GLN HIS ILE ALA ALA SEQRES 13 A 559 THR LEU ASP ILE ARG SER ALA SER ARG VAL GLU ILE ARG SEQRES 14 A 559 ASN ALA GLY GLY LEU MET ALA ALA TYR LEU PHE ARG SER SEQRES 15 A 559 CYS HIS HIS CYS LYS VAL ILE ASP SER ASP SER ILE ILE SEQRES 16 A 559 GLY GLY LYS ASP GLY ILE ILE THR PHE GLU ASN LEU SER SEQRES 17 A 559 GLY ASP TRP GLY LEU GLY ASN TYR VAL ILE GLY GLY ARG SEQRES 18 A 559 VAL HIS TYR GLY SER GLY SER GLY VAL GLN PHE LEU ARG SEQRES 19 A 559 ASN ASN GLY GLY GLU SER HIS ASN GLY GLY VAL ILE GLY SEQRES 20 A 559 VAL THR SER TRP ARG ALA GLY GLU SER GLY PHE LYS THR SEQRES 21 A 559 TYR GLN GLY SER VAL GLY GLY GLY THR ALA ARG ASN TYR SEQRES 22 A 559 ASN LEU GLN PHE ARG ASP SER VAL ALA LEU SER PRO VAL SEQRES 23 A 559 TRP ASP GLY PHE ASP LEU GLY SER ASP PRO GLY MET ALA SEQRES 24 A 559 PRO GLU PRO ASP ARG PRO GLY ASP LEU PRO VAL SER GLU SEQRES 25 A 559 TYR PRO PHE HIS GLN LEU PRO ASN ASN HIS LEU VAL ASP SEQRES 26 A 559 ASN ILE LEU VAL MET ASN SER LEU GLY VAL GLY LEU GLY SEQRES 27 A 559 MET ASP GLY SER GLY GLY TYR VAL SER ASN VAL THR VAL SEQRES 28 A 559 GLN ASP CYS ALA GLY ALA GLY MET LEU ALA HIS THR TYR SEQRES 29 A 559 ASN ARG VAL PHE SER ASN ILE THR VAL ILE ASP CYS ASN SEQRES 30 A 559 TYR LEU ASN PHE ASP SER ASP GLN ILE ILE ILE ILE GLY SEQRES 31 A 559 ASP CYS ILE VAL ASN GLY ILE ARG ALA ALA GLY ILE LYS SEQRES 32 A 559 PRO GLN PRO SER ASN GLY LEU VAL ILE SER ALA PRO ASN SEQRES 33 A 559 SER THR ILE SER GLY LEU VAL GLY ASN VAL PRO PRO ASP SEQRES 34 A 559 LYS ILE LEU VAL GLY ASN LEU LEU ASP PRO VAL LEU GLY SEQRES 35 A 559 GLN SER ARG VAL ILE GLY PHE ASN SER ASP THR ALA GLU SEQRES 36 A 559 LEU ALA LEU ARG ILE ASN LYS LEU SER ALA THR LEU ASP SEQRES 37 A 559 SER GLY ALA LEU ARG SER HIS LEU ASN GLY TYR ALA GLY SEQRES 38 A 559 SER GLY SER ALA TRP THR GLU LEU THR ALA LEU SER GLY SEQRES 39 A 559 SER THR PRO ASN ALA VAL SER LEU LYS VAL ASN ARG GLY SEQRES 40 A 559 ASP TYR LYS THR THR GLU ILE PRO ILE SER GLY THR VAL SEQRES 41 A 559 LEU PRO ASP GLU GLY VAL LEU ASP ILE ASN THR MET SER SEQRES 42 A 559 LEU TYR LEU ASP ALA GLY ALA LEU TRP ALA LEU ILE ARG SEQRES 43 A 559 LEU PRO ASP GLY SER LYS THR ARG MET LYS LEU SER VAL HET NA A1559 1 HETNAM NA SODIUM ION FORMUL 2 NA NA 1+ FORMUL 3 HOH *831(H2 O) HELIX 1 1 ALA A 156 PHE A 166 1 11 HELIX 2 2 SER A 173 TYR A 175 5 3 HELIX 3 3 THR A 177 ALA A 185 1 9 HELIX 4 4 ASP A 261 ALA A 267 1 7 HELIX 5 5 GLY A 280 PHE A 287 1 8 HELIX 6 6 GLY A 289 LEU A 294 1 6 HELIX 7 7 PRO A 295 ASP A 300 1 6 HELIX 8 8 ARG A 655 TYR A 658 5 4 HELIX 9 9 PRO A 671 VAL A 675 5 5 SHEET 1 AA 7 SER A 169 LYS A 171 0 SHEET 2 AA 7 GLY A 188 ILE A 191 1 O GLY A 188 N VAL A 170 SHEET 3 AA 7 THR A 211 CYS A 214 1 O THR A 211 N LEU A 189 SHEET 4 AA 7 VAL A 234 ASN A 236 1 O VAL A 234 N ILE A 212 SHEET 5 AA 7 GLU A 316 ARG A 318 1 O GLU A 316 N ILE A 235 SHEET 6 AA 7 LYS A 336 GLY A 345 1 O LYS A 336 N ILE A 317 SHEET 7 AA 7 GLY A 321 ARG A 330 1 O GLY A 322 N ILE A 344 SHEET 1 AB 7 SER A 169 LYS A 171 0 SHEET 2 AB 7 GLY A 188 ILE A 191 1 O GLY A 188 N VAL A 170 SHEET 3 AB 7 THR A 211 CYS A 214 1 O THR A 211 N LEU A 189 SHEET 4 AB 7 VAL A 234 ASN A 236 1 O VAL A 234 N ILE A 212 SHEET 5 AB 7 GLU A 316 ARG A 318 1 O GLU A 316 N ILE A 235 SHEET 6 AB 7 LYS A 336 GLY A 345 1 O LYS A 336 N ILE A 317 SHEET 7 AB 7 TYR A 365 TYR A 373 1 O TYR A 365 N VAL A 337 SHEET 1 AC 2 TRP A 247 VAL A 248 0 SHEET 2 AC 2 LYS A 270 GLN A 271 -1 O LYS A 270 N VAL A 248 SHEET 1 AD 2 SER A 413 VAL A 414 0 SHEET 2 AD 2 GLY A 417 THR A 418 -1 O GLY A 417 N VAL A 414 SHEET 1 AE 5 THR A 602 LEU A 607 0 SHEET 2 AE 5 GLY A 619 LEU A 625 -1 O GLY A 619 N LEU A 607 SHEET 3 AE 5 ALA A 634 SER A 642 -1 O TRP A 635 N HIS A 624 SHEET 4 AE 5 THR A 645 VAL A 653 -1 O THR A 645 N SER A 642 SHEET 5 AE 5 THR A 661 GLU A 662 -1 O GLU A 662 N LYS A 652 SHEET 1 AF 3 THR A 680 ASP A 686 0 SHEET 2 AF 3 ALA A 689 ARG A 695 -1 O ALA A 689 N ASP A 686 SHEET 3 AF 3 LYS A 701 LYS A 705 -1 O THR A 702 N ILE A 694 LINK O LEU A 706 NA NA A1559 1555 1555 2.25 LINK O LEU A 706 NA NA A1559 2555 1555 2.35 LINK O LEU A 706 NA NA A1559 3555 1555 2.35 LINK NA NA A1559 O HOH A2826 1555 1555 2.37 LINK NA NA A1559 O HOH A2826 1555 2555 2.38 LINK NA NA A1559 O HOH A2826 1555 3555 2.48 SITE 1 AC1 2 LEU A 706 HOH A2826 CRYST1 100.433 100.433 330.042 90.00 90.00 120.00 H 3 2 18 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 0.009957 0.005749 0.000000 0.00000 SCALE2 0.000000 0.011497 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003030 0.00000