HEADER VIRAL PROTEIN 17-FEB-11 3QR7 TITLE CRYSTAL STRUCTURE OF THE C-TERMINAL FRAGMENT OF THE BACTERIOPHAGE P2 TITLE 2 MEMBRANE-PIERCING PROTEIN GPV COMPND MOL_ID: 1; COMPND 2 MOLECULE: BASEPLATE ASSEMBLY PROTEIN V; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN (UNP RESIDUES 97-211); COMPND 5 SYNONYM: GPV; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE P2; SOURCE 3 ORGANISM_COMMON: BACTERIOPHAGE P2; SOURCE 4 ORGANISM_TAXID: 10679; SOURCE 5 GENE: V; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BETA-HELIX, OB-FOLD, PHAGE BASEPLATE, IRON-BINDING, CELL MEMBRANE KEYWDS 2 PIERCING, TAIL SPIKE, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.BROWNING,M.SHNEIDER,P.G.LEIMAN REVDAT 4 21-FEB-24 3QR7 1 REMARK LINK REVDAT 3 08-NOV-17 3QR7 1 REMARK REVDAT 2 29-FEB-12 3QR7 1 JRNL REVDAT 1 22-FEB-12 3QR7 0 JRNL AUTH C.BROWNING,M.M.SHNEIDER,V.D.BOWMAN,D.SCHWARZER,P.G.LEIMAN JRNL TITL PHAGE PIERCES THE HOST CELL MEMBRANE WITH THE IRON-LOADED JRNL TITL 2 SPIKE. JRNL REF STRUCTURE V. 20 326 2012 JRNL REFN ISSN 0969-2126 JRNL PMID 22325780 JRNL DOI 10.1016/J.STR.2011.12.009 REMARK 2 REMARK 2 RESOLUTION. 0.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7_650) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 0.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.33 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 141095 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.103 REMARK 3 R VALUE (WORKING SET) : 0.102 REMARK 3 FREE R VALUE : 0.112 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2827 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 27.3388 - 2.5509 0.99 7363 144 0.1483 0.1498 REMARK 3 2 2.5509 - 2.0249 1.00 7038 159 0.1066 0.1121 REMARK 3 3 2.0249 - 1.7690 1.00 6994 152 0.0933 0.1064 REMARK 3 4 1.7690 - 1.6073 1.00 6961 152 0.0900 0.0969 REMARK 3 5 1.6073 - 1.4921 1.00 6944 130 0.0821 0.0947 REMARK 3 6 1.4921 - 1.4041 1.00 6940 122 0.0792 0.0900 REMARK 3 7 1.4041 - 1.3338 1.00 6900 149 0.0780 0.1006 REMARK 3 8 1.3338 - 1.2757 1.00 6933 120 0.0762 0.0895 REMARK 3 9 1.2757 - 1.2266 1.00 6838 135 0.0715 0.0948 REMARK 3 10 1.2266 - 1.1843 1.00 6935 145 0.0730 0.0901 REMARK 3 11 1.1843 - 1.1473 1.00 6838 139 0.0736 0.0889 REMARK 3 12 1.1473 - 1.1145 1.00 6841 146 0.0747 0.0880 REMARK 3 13 1.1145 - 1.0851 1.00 6890 145 0.0759 0.0906 REMARK 3 14 1.0851 - 1.0587 1.00 6842 146 0.0816 0.0818 REMARK 3 15 1.0587 - 1.0346 1.00 6852 137 0.0910 0.1186 REMARK 3 16 1.0346 - 1.0126 1.00 6828 154 0.1050 0.1126 REMARK 3 17 1.0126 - 0.9923 1.00 6835 159 0.1141 0.1285 REMARK 3 18 0.9923 - 0.9736 1.00 6839 137 0.1342 0.1589 REMARK 3 19 0.9736 - 0.9562 1.00 6821 119 0.1472 0.1589 REMARK 3 20 0.9562 - 0.9400 1.00 6836 137 0.1642 0.1855 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.00 REMARK 3 SHRINKAGE RADIUS : 0.00 REMARK 3 K_SOL : 0.46 REMARK 3 B_SOL : 110.8 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.070 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 7.370 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) : -0.96820 REMARK 3 B22 (A**2) : -0.96820 REMARK 3 B33 (A**2) : 1.93630 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.017 2029 REMARK 3 ANGLE : 1.991 2822 REMARK 3 CHIRALITY : 0.120 342 REMARK 3 PLANARITY : 0.013 382 REMARK 3 DIHEDRAL : 11.753 786 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3QR7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000064000. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-DEC-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 141144 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.940 REMARK 200 RESOLUTION RANGE LOW (A) : 27.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : 0.05800 REMARK 200 FOR THE DATA SET : 16.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.94 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.99 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : 0.28200 REMARK 200 R SYM FOR SHELL (I) : 0.25600 REMARK 200 FOR SHELL : 5.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX C/D/E REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MG/ML PROTEIN, 30% PEE 797, 0.3 M REMARK 280 AMMONIUM SULFATE, 0.1 M MES, PH 7.0, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 291K 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 24.53450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 14.16500 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 154.63200 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 24.53450 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 14.16500 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 154.63200 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 24.53450 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 14.16500 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 154.63200 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 24.53450 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 14.16500 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 154.63200 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 24.53450 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 14.16500 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 154.63200 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 24.53450 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 14.16500 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 154.63200 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 28.33000 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 309.26400 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 28.33000 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 309.26400 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 28.33000 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 309.26400 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 28.33000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 309.26400 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 28.33000 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 309.26400 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 28.33000 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 309.26400 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 22610 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13500 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -205.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 22140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -164.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 -24.53450 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -42.49500 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 24.53450 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 -42.49500 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 CL CL A 1 LIES ON A SPECIAL POSITION. REMARK 375 CA CA A 212 LIES ON A SPECIAL POSITION. REMARK 375 FE FE A 2 LIES ON A SPECIAL POSITION. REMARK 375 CL CL B 2 LIES ON A SPECIAL POSITION. REMARK 375 CA CA B 212 LIES ON A SPECIAL POSITION. REMARK 375 FE FE B 1 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 381 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 388 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 401 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 403 LIES ON A SPECIAL POSITION. 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 HD22 ASN A 161 O HOH A 434 1.38 REMARK 500 HH11 ARG B 162 O HOH B 466 1.38 REMARK 500 HG3 ARG A 162 O HOH A 531 1.51 REMARK 500 HH12 ARG B 162 O HOH B 465 1.52 REMARK 500 OE2 GLU B 111 O HOH B 409 1.54 REMARK 500 ND2 ASN A 161 O HOH A 434 1.73 REMARK 500 NH1 ARG B 162 O HOH B 465 1.76 REMARK 500 NH1 ARG B 162 O HOH B 466 1.83 REMARK 500 NH1 ARG A 162 O HOH A 434 1.91 REMARK 500 CZ ARG B 162 O HOH B 465 1.98 REMARK 500 CD GLU B 111 O HOH B 409 1.99 REMARK 500 OE1 GLU B 111 O HOH B 409 2.03 REMARK 500 NH2 ARG B 162 O HOH B 465 2.04 REMARK 500 OD2 ASP B 98 O HOH B 345 2.12 REMARK 500 CD ARG A 162 O HOH A 565 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH B 242 O HOH B 242 4555 1.88 REMARK 500 OD1 ASP B 98 O HOH B 479 2445 2.19 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 ARG B 103 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG B 162 NE - CZ - NH1 ANGL. DEV. = -5.1 DEGREES REMARK 500 ARG B 162 NE - CZ - NH2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG B 177 NE - CZ - NH1 ANGL. DEV. = -5.3 DEGREES REMARK 500 ARG B 177 NE - CZ - NH2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP B 202 CB - CG - OD2 ANGL. DEV. = 6.8 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 ASP A 98 -3.27 -140.37 REMARK 500 ASN A 161 -111.20 -137.35 REMARK 500 ASN A 161 -109.26 -138.56 REMARK 500 SER A 203 29.36 -143.01 REMARK 500 SER A 203 28.94 -142.79 REMARK 500 ASP B 98 15.09 -146.03 REMARK 500 THR B 148 -67.46 -94.43 REMARK 500 ARG B 149 146.02 -174.24 REMARK 500 ASN B 161 -109.16 -132.24 REMARK 500 ASN B 161 -115.35 -132.24 REMARK 500 LYS B 172 38.25 -145.51 REMARK 500 SER B 203 24.30 -145.87 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 FE A 2 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 197 NE2 REMARK 620 2 HIS A 199 NE2 89.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 213 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 182 O REMARK 620 2 HOH A 281 O 115.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 212 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 202 OD2 REMARK 620 2 SER A 203 OG 100.2 REMARK 620 3 SER A 203 OG 80.0 29.1 REMARK 620 4 SER A 203 OG 103.6 11.1 39.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 1 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 197 NE2 REMARK 620 2 HIS B 199 NE2 89.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 212 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 202 OD2 REMARK 620 2 ASP B 202 OD1 6.5 REMARK 620 3 SER B 203 OG 98.5 92.2 REMARK 620 4 SER B 203 OG 83.4 77.0 16.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE B 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3QR8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE BACTERIOPHAGE P2 MEMBRANE-PIERCING PROTEIN REMARK 900 GPV DBREF 3QR7 A 97 211 UNP P31340 VPV_BPP2 97 211 DBREF 3QR7 B 97 211 UNP P31340 VPV_BPP2 97 211 SEQRES 1 A 115 ALA ASP ALA LEU HIS ILE ARG PHE PRO ASP GLY ALA VAL SEQRES 2 A 115 ILE GLU TYR GLU PRO GLU THR SER ALA LEU THR VAL SER SEQRES 3 A 115 GLY ILE LYS THR ALA SER VAL THR ALA SER GLY SER VAL SEQRES 4 A 115 THR ALA THR VAL PRO VAL VAL MET VAL LYS ALA SER THR SEQRES 5 A 115 ARG VAL THR LEU ASP THR PRO GLU VAL VAL CYS THR ASN SEQRES 6 A 115 ARG LEU ILE THR GLY THR LEU GLU VAL GLN LYS GLY GLY SEQRES 7 A 115 THR MET ARG GLY ASN ILE GLU HIS THR GLY GLY GLU LEU SEQRES 8 A 115 SER SER ASN GLY LYS VAL LEU HIS THR HIS LYS HIS PRO SEQRES 9 A 115 GLY ASP SER GLY GLY THR THR GLY SER PRO LEU SEQRES 1 B 115 ALA ASP ALA LEU HIS ILE ARG PHE PRO ASP GLY ALA VAL SEQRES 2 B 115 ILE GLU TYR GLU PRO GLU THR SER ALA LEU THR VAL SER SEQRES 3 B 115 GLY ILE LYS THR ALA SER VAL THR ALA SER GLY SER VAL SEQRES 4 B 115 THR ALA THR VAL PRO VAL VAL MET VAL LYS ALA SER THR SEQRES 5 B 115 ARG VAL THR LEU ASP THR PRO GLU VAL VAL CYS THR ASN SEQRES 6 B 115 ARG LEU ILE THR GLY THR LEU GLU VAL GLN LYS GLY GLY SEQRES 7 B 115 THR MET ARG GLY ASN ILE GLU HIS THR GLY GLY GLU LEU SEQRES 8 B 115 SER SER ASN GLY LYS VAL LEU HIS THR HIS LYS HIS PRO SEQRES 9 B 115 GLY ASP SER GLY GLY THR THR GLY SER PRO LEU HET CL A 1 1 HET CA A 212 1 HET FE A 2 1 HET NA A 213 1 HET CL B 2 1 HET CA B 212 1 HET FE B 1 1 HETNAM CL CHLORIDE ION HETNAM CA CALCIUM ION HETNAM FE FE (III) ION HETNAM NA SODIUM ION FORMUL 3 CL 2(CL 1-) FORMUL 4 CA 2(CA 2+) FORMUL 5 FE 2(FE 3+) FORMUL 6 NA NA 1+ FORMUL 10 HOH *465(H2 O) SHEET 1 A 3 LEU A 100 ARG A 103 0 SHEET 2 A 3 VAL A 109 GLU A 113 -1 O TYR A 112 N LEU A 100 SHEET 3 A 3 ALA A 118 SER A 122 -1 O ALA A 118 N GLU A 113 SHEET 1 B 2 SER A 188 SER A 189 0 SHEET 2 B 2 LYS A 192 VAL A 193 -1 O LYS A 192 N SER A 189 SHEET 1 C 3 HIS B 101 ARG B 103 0 SHEET 2 C 3 VAL B 109 GLU B 113 -1 O ILE B 110 N ILE B 102 SHEET 3 C 3 ALA B 118 SER B 122 -1 O THR B 120 N GLU B 111 SHEET 1 D 2 SER B 188 SER B 189 0 SHEET 2 D 2 LYS B 192 VAL B 193 -1 O LYS B 192 N SER B 189 LINK FE FE A 2 NE2 HIS A 197 1555 1555 2.21 LINK FE FE A 2 NE2 HIS A 199 1555 1555 2.22 LINK O HIS A 182 NA NA A 213 1555 1555 2.81 LINK OD2 ASP A 202 CA CA A 212 1555 1555 2.26 LINK OG ASER A 203 CA CA A 212 1555 1555 2.42 LINK OG BSER A 203 CA CA A 212 1555 1555 2.50 LINK OG CSER A 203 CA CA A 212 1555 1555 3.01 LINK NA NA A 213 O HOH A 281 1555 1555 2.77 LINK FE FE B 1 NE2 HIS B 197 1555 1555 2.20 LINK FE FE B 1 NE2 HIS B 199 1555 1555 2.20 LINK OD2AASP B 202 CA CA B 212 1555 1555 2.01 LINK OD1BASP B 202 CA CA B 212 1555 1555 2.51 LINK OG BSER B 203 CA CA B 212 1555 1555 2.38 LINK OG ASER B 203 CA CA B 212 1555 1555 2.64 SITE 1 AC1 2 GLY A 201 ASP A 202 SITE 1 AC2 2 ASP A 202 SER A 203 SITE 1 AC3 2 HIS A 197 HIS A 199 SITE 1 AC4 7 GLU A 181 HIS A 182 SER A 188 SER A 189 SITE 2 AC4 7 ASN A 190 GLY A 191 HOH A 281 SITE 1 AC5 2 GLY B 201 ASP B 202 SITE 1 AC6 2 ASP B 202 SER B 203 SITE 1 AC7 2 HIS B 197 HIS B 199 CRYST1 49.069 49.069 463.896 90.00 90.00 120.00 H 3 2 36 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 0.020379 0.011766 0.000000 0.00000 SCALE2 0.000000 0.023532 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002156 0.00000