HEADER TOXIN 27-SEP-10 2XSC TITLE CRYSTAL STRUCTURE OF THE CELL-BINDING B OLIGOMER OF VEROTOXIN-1 FROM TITLE 2 E. COLI COMPND MOL_ID: 1; COMPND 2 MOLECULE: SHIGA-LIKE TOXIN 1 SUBUNIT B; COMPND 3 CHAIN: A, B, C, D, E; COMPND 4 FRAGMENT: RESIDUES 21-89; COMPND 5 SYNONYM: SLT-1 B SUBUNIT, SLT-1B, SLT-IB, VEROCYTOTOXIN 1 SUBUNIT B, COMPND 6 VEROTOXIN 1 SUBUNIT B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: TB1 (PJLB 120) KEYWDS TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR P.E.STEIN,A.BOODHOO,G.J.TYRRELL,J.L.BRUNTON,R.D.OEFFNER,G.BUNKOCZI, AUTHOR 2 R.J.READ REVDAT 2 13-NOV-24 2XSC 1 REMARK LINK REVDAT 1 13-OCT-10 2XSC 0 SPRSDE 13-OCT-10 2XSC 1BOV JRNL AUTH P.E.STEIN,A.BOODHOO,G.J.TYRRELL,J.L.BRUNTON,R.J.READ JRNL TITL CRYSTAL STRUCTURE OF THE CELL-BINDING B OLIGOMER OF JRNL TITL 2 VEROTOXIN-1 FROM E. COLI. JRNL REF NATURE V. 355 748 1992 JRNL REFN ISSN 0028-0836 JRNL PMID 1741063 JRNL DOI 10.1038/355748A0 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.63 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.030 REMARK 3 COMPLETENESS FOR RANGE (%) : 88.8 REMARK 3 NUMBER OF REFLECTIONS : 19617 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.145 REMARK 3 R VALUE (WORKING SET) : 0.142 REMARK 3 FREE R VALUE : 0.192 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1005 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 24.6361 - 3.9217 1.00 3164 165 0.1269 0.1583 REMARK 3 2 3.9217 - 3.1148 1.00 2999 172 0.1187 0.1651 REMARK 3 3 3.1148 - 2.7216 0.99 2955 148 0.1334 0.1910 REMARK 3 4 2.7216 - 2.4730 0.95 2789 191 0.1502 0.2365 REMARK 3 5 2.4730 - 2.2959 0.92 2759 97 0.1527 0.2125 REMARK 3 6 2.2959 - 2.1606 0.86 2560 120 0.1706 0.2394 REMARK 3 7 2.1606 - 2.0525 0.48 1386 112 0.2027 0.2485 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.34 REMARK 3 B_SOL : 20.81 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.170 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.59 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.77440 REMARK 3 B22 (A**2) : -2.41980 REMARK 3 B33 (A**2) : 5.19420 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 : 0.010 5460 REMARK 3 ANGLE : 0.948 9798 REMARK 3 CHIRALITY : 0.073 445 REMARK 3 PLANARITY : 0.004 856 REMARK 3 DIHEDRAL : 13.700 1361 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): 4.2422 24.8980 -24.4060 REMARK 3 T TENSOR REMARK 3 T11: 0.1292 T22: 0.1473 REMARK 3 T33: 0.0697 T12: -0.0048 REMARK 3 T13: -0.0111 T23: 0.0059 REMARK 3 L TENSOR REMARK 3 L11: 0.5546 L22: 0.7632 REMARK 3 L33: 1.4200 L12: -0.0753 REMARK 3 L13: -0.0156 L23: -0.6201 REMARK 3 S TENSOR REMARK 3 S11: 0.1270 S12: -0.0598 S13: 0.0561 REMARK 3 S21: -0.0872 S22: 0.1003 S23: 0.1110 REMARK 3 S31: -0.1070 S32: -0.0448 S33: -0.1073 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): 15.1986 41.0237 -15.6692 REMARK 3 T TENSOR REMARK 3 T11: 0.1236 T22: 0.1473 REMARK 3 T33: 0.2017 T12: -0.0118 REMARK 3 T13: 0.0013 T23: 0.0139 REMARK 3 L TENSOR REMARK 3 L11: 1.3013 L22: 1.1885 REMARK 3 L33: 1.4230 L12: 0.4438 REMARK 3 L13: 0.7514 L23: -0.5554 REMARK 3 S TENSOR REMARK 3 S11: -0.0795 S12: 0.2021 S13: 0.3916 REMARK 3 S21: -0.1594 S22: 0.0287 S23: 0.2246 REMARK 3 S31: -0.0707 S32: -0.2092 S33: 0.0270 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN C REMARK 3 ORIGIN FOR THE GROUP (A): 29.0087 31.6205 -2.9688 REMARK 3 T TENSOR REMARK 3 T11: 0.0615 T22: 0.0721 REMARK 3 T33: 0.0596 T12: -0.0186 REMARK 3 T13: 0.0038 T23: 0.0033 REMARK 3 L TENSOR REMARK 3 L11: 1.0819 L22: 0.6285 REMARK 3 L33: 0.3656 L12: -0.1047 REMARK 3 L13: -0.0802 L23: 0.0383 REMARK 3 S TENSOR REMARK 3 S11: -0.0450 S12: 0.1032 S13: 0.1886 REMARK 3 S21: -0.0774 S22: 0.0397 S23: -0.0951 REMARK 3 S31: -0.0528 S32: -0.0364 S33: -0.0049 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN D REMARK 3 ORIGIN FOR THE GROUP (A): 29.1226 10.9712 -6.7722 REMARK 3 T TENSOR REMARK 3 T11: 0.0904 T22: 0.0349 REMARK 3 T33: 0.0720 T12: 0.0017 REMARK 3 T13: 0.0138 T23: 0.0305 REMARK 3 L TENSOR REMARK 3 L11: 1.0490 L22: 0.8011 REMARK 3 L33: 1.0225 L12: -0.4320 REMARK 3 L13: 0.3067 L23: 1.3275 REMARK 3 S TENSOR REMARK 3 S11: -0.0128 S12: -0.0381 S13: -0.1051 REMARK 3 S21: 0.0740 S22: 0.1266 S23: 0.0527 REMARK 3 S31: 0.1837 S32: 0.0185 S33: -0.0932 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN E REMARK 3 ORIGIN FOR THE GROUP (A): 14.7888 7.2310 -21.4882 REMARK 3 T TENSOR REMARK 3 T11: 0.2048 T22: 0.1093 REMARK 3 T33: 0.2712 T12: -0.0433 REMARK 3 T13: -0.0620 T23: -0.0333 REMARK 3 L TENSOR REMARK 3 L11: 2.4395 L22: -0.4250 REMARK 3 L33: 1.0926 L12: -1.2733 REMARK 3 L13: 0.3743 L23: 0.0245 REMARK 3 S TENSOR REMARK 3 S11: 0.1258 S12: 0.2101 S13: -0.8352 REMARK 3 S21: -0.1244 S22: -0.0333 S23: 0.2682 REMARK 3 S31: 0.3495 S32: -0.0713 S33: -0.1232 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 3 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN D AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:15 OR RESID REMARK 3 20:33 OR RESID 48:54 OR RESID 60:68 ) REMARK 3 SELECTION : CHAIN A AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:15 OR RESID REMARK 3 20:33 OR RESID 48:54 OR RESID 60:68 ) REMARK 3 ATOM PAIRS NUMBER : 168 REMARK 3 RMSD : 0.140 REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: CHAIN D AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:15 OR RESID REMARK 3 20:33 OR RESID 48:54 OR RESID 60:68 ) REMARK 3 SELECTION : CHAIN C AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:15 OR RESID REMARK 3 20:33 OR RESID 48:54 OR RESID 60:68 ) REMARK 3 ATOM PAIRS NUMBER : 168 REMARK 3 RMSD : 0.132 REMARK 3 NCS OPERATOR : 3 REMARK 3 REFERENCE SELECTION: CHAIN D AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:15 OR RESID REMARK 3 20:33 OR RESID 48:54 OR RESID 60:68 ) REMARK 3 SELECTION : CHAIN E AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:15 OR RESID REMARK 3 20:33 OR RESID 48:54 OR RESID 60:68 ) REMARK 3 ATOM PAIRS NUMBER : 168 REMARK 3 RMSD : 0.126 REMARK 3 NCS OPERATOR : 4 REMARK 3 REFERENCE SELECTION: CHAIN D AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:15 OR RESID REMARK 3 20:33 OR RESID 48:54 OR RESID 60:68 ) REMARK 3 SELECTION : CHAIN B AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:11 OR RESID REMARK 3 24:33 OR RESID 48:54 OR RESID 60:68 ) REMARK 3 ATOM PAIRS NUMBER : 136 REMARK 3 RMSD : 0.148 REMARK 3 NCS GROUP : 2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN D AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 16:19 OR RESID REMARK 3 35:47 OR RESID 55:59 ) REMARK 3 SELECTION : CHAIN A AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 16:19 OR RESID REMARK 3 35:38 OR RESID 40:47 OR RESID 55:59 ) REMARK 3 ATOM PAIRS NUMBER : 84 REMARK 3 RMSD : 0.287 REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: CHAIN D AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 16:19 OR RESID REMARK 3 35:47 OR RESID 55:59 ) REMARK 3 SELECTION : CHAIN C AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 16:19 OR RESID REMARK 3 35:47 OR RESID 55:59 ) REMARK 3 ATOM PAIRS NUMBER : 88 REMARK 3 RMSD : 0.226 REMARK 3 NCS OPERATOR : 3 REMARK 3 REFERENCE SELECTION: CHAIN D AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 16:19 OR RESID REMARK 3 35:47 OR RESID 55:59 ) REMARK 3 SELECTION : CHAIN E AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 16:19 OR RESID REMARK 3 35:47 OR RESID 55:59 ) REMARK 3 ATOM PAIRS NUMBER : 88 REMARK 3 RMSD : 0.239 REMARK 3 NCS OPERATOR : 4 REMARK 3 REFERENCE SELECTION: CHAIN D AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 16:19 OR RESID REMARK 3 35:47 OR RESID 55:59 ) REMARK 3 SELECTION : CHAIN B AND BACKBONE AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 20:23 OR RESID REMARK 3 40:47 OR RESID 55:59 ) REMARK 3 ATOM PAIRS NUMBER : 52 REMARK 3 RMSD : 0.261 REMARK 3 NCS GROUP : 3 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN D AND SIDECHAIN AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:9 OR RESID 11: REMARK 3 33 OR RESID 35:54 OR RESID 56:68 ) REMARK 3 SELECTION : CHAIN A AND SIDECHAIN AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:9 OR RESID 11: REMARK 3 32 OR RESID 35:38 OR RESID 40:54 OR RESID REMARK 3 56:68 ) REMARK 3 ATOM PAIRS NUMBER : 216 REMARK 3 RMSD : 0.347 REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: CHAIN D AND SIDECHAIN AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:9 OR RESID 11: REMARK 3 33 OR RESID 35:54 OR RESID 56:68 ) REMARK 3 SELECTION : CHAIN C AND SIDECHAIN AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:9 OR RESID 11: REMARK 3 33 OR RESID 35:54 OR RESID 56:68 ) REMARK 3 ATOM PAIRS NUMBER : 227 REMARK 3 RMSD : 0.298 REMARK 3 NCS OPERATOR : 3 REMARK 3 REFERENCE SELECTION: CHAIN D AND SIDECHAIN AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:9 OR RESID 11: REMARK 3 33 OR RESID 35:54 OR RESID 56:68 ) REMARK 3 SELECTION : CHAIN E AND SIDECHAIN AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:9 OR RESID 11: REMARK 3 33 OR RESID 35:54 OR RESID 56:68 ) REMARK 3 ATOM PAIRS NUMBER : 227 REMARK 3 RMSD : 0.270 REMARK 3 NCS OPERATOR : 4 REMARK 3 REFERENCE SELECTION: CHAIN D AND SIDECHAIN AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:9 OR RESID 11: REMARK 3 33 OR RESID 35:54 OR RESID 56:68 ) REMARK 3 SELECTION : CHAIN B AND SIDECHAIN AND NOT (ELEMENT H REMARK 3 OR ELEMENT D) AND ( RESID 4:9 OR RESID 20: REMARK 3 33 OR RESID 40 OR RESID 42:44 OR RESID 46: REMARK 3 54 OR RESID 56:68 ) REMARK 3 ATOM PAIRS NUMBER : 157 REMARK 3 RMSD : 0.310 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2XSC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-SEP-10. REMARK 100 THE DEPOSITION ID IS D_1290045519. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 287 REMARK 200 PH : 7.0 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 : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : MULTIWIRE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19617 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 24.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12% PEG8000, 50 MM MOPS PH7.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 29.80000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 28.05000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.20000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 28.05000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.80000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.20000 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: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.5 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E 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 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 ALA B 56 65.69 -116.43 REMARK 500 SER C 64 11.89 -145.36 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 ZN B1070 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 1 OG1 REMARK 620 2 HOH B2027 O 90.5 REMARK 620 3 HOH B2028 O 173.7 95.7 REMARK 620 4 THR D 1 OG1 88.0 170.2 86.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C1070 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR C 1 OG1 REMARK 620 2 HOH C2039 O 103.0 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1070 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 1070 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN E 1070 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1OJF RELATED DB: PDB REMARK 900 PENTAMERIC SINGLE DOMAIN ANTIBODY 1V5 DBREF 2XSC A 1 69 UNP P69178 STXB_BPH30 21 89 DBREF 2XSC B 1 69 UNP P69178 STXB_BPH30 21 89 DBREF 2XSC C 1 69 UNP P69178 STXB_BPH30 21 89 DBREF 2XSC D 1 69 UNP P69178 STXB_BPH30 21 89 DBREF 2XSC E 1 69 UNP P69178 STXB_BPH30 21 89 SEQRES 1 A 69 THR PRO ASP CYS VAL THR GLY LYS VAL GLU TYR THR LYS SEQRES 2 A 69 TYR ASN ASP ASP ASP THR PHE THR VAL LYS VAL GLY ASP SEQRES 3 A 69 LYS GLU LEU PHE THR ASN ARG TRP ASN LEU GLN SER LEU SEQRES 4 A 69 LEU LEU SER ALA GLN ILE THR GLY MET THR VAL THR ILE SEQRES 5 A 69 LYS THR ASN ALA CYS HIS ASN GLY GLY GLY PHE SER GLU SEQRES 6 A 69 VAL ILE PHE ARG SEQRES 1 B 69 THR PRO ASP CYS VAL THR GLY LYS VAL GLU TYR THR LYS SEQRES 2 B 69 TYR ASN ASP ASP ASP THR PHE THR VAL LYS VAL GLY ASP SEQRES 3 B 69 LYS GLU LEU PHE THR ASN ARG TRP ASN LEU GLN SER LEU SEQRES 4 B 69 LEU LEU SER ALA GLN ILE THR GLY MET THR VAL THR ILE SEQRES 5 B 69 LYS THR ASN ALA CYS HIS ASN GLY GLY GLY PHE SER GLU SEQRES 6 B 69 VAL ILE PHE ARG SEQRES 1 C 69 THR PRO ASP CYS VAL THR GLY LYS VAL GLU TYR THR LYS SEQRES 2 C 69 TYR ASN ASP ASP ASP THR PHE THR VAL LYS VAL GLY ASP SEQRES 3 C 69 LYS GLU LEU PHE THR ASN ARG TRP ASN LEU GLN SER LEU SEQRES 4 C 69 LEU LEU SER ALA GLN ILE THR GLY MET THR VAL THR ILE SEQRES 5 C 69 LYS THR ASN ALA CYS HIS ASN GLY GLY GLY PHE SER GLU SEQRES 6 C 69 VAL ILE PHE ARG SEQRES 1 D 69 THR PRO ASP CYS VAL THR GLY LYS VAL GLU TYR THR LYS SEQRES 2 D 69 TYR ASN ASP ASP ASP THR PHE THR VAL LYS VAL GLY ASP SEQRES 3 D 69 LYS GLU LEU PHE THR ASN ARG TRP ASN LEU GLN SER LEU SEQRES 4 D 69 LEU LEU SER ALA GLN ILE THR GLY MET THR VAL THR ILE SEQRES 5 D 69 LYS THR ASN ALA CYS HIS ASN GLY GLY GLY PHE SER GLU SEQRES 6 D 69 VAL ILE PHE ARG SEQRES 1 E 69 THR PRO ASP CYS VAL THR GLY LYS VAL GLU TYR THR LYS SEQRES 2 E 69 TYR ASN ASP ASP ASP THR PHE THR VAL LYS VAL GLY ASP SEQRES 3 E 69 LYS GLU LEU PHE THR ASN ARG TRP ASN LEU GLN SER LEU SEQRES 4 E 69 LEU LEU SER ALA GLN ILE THR GLY MET THR VAL THR ILE SEQRES 5 E 69 LYS THR ASN ALA CYS HIS ASN GLY GLY GLY PHE SER GLU SEQRES 6 E 69 VAL ILE PHE ARG HET ZN B1070 1 HET ZN C1070 1 HET ZN E1070 1 HETNAM ZN ZINC ION FORMUL 6 ZN 3(ZN 2+) FORMUL 9 HOH *145(H2 O) HELIX 1 1 ARG A 33 ASN A 35 5 3 HELIX 2 2 LEU A 36 GLY A 47 1 12 HELIX 3 3 ARG B 33 GLY B 47 1 15 HELIX 4 4 ASN C 35 GLY C 47 1 13 HELIX 5 5 ASN D 35 GLY D 47 1 13 HELIX 6 6 ASN E 35 GLY E 47 1 13 SHEET 1 AA10 GLY A 61 GLY A 62 0 SHEET 2 AA10 LYS A 27 THR A 31 -1 N PHE A 30 O GLY A 61 SHEET 3 AA10 PHE A 20 VAL A 24 1 O PHE A 20 N THR A 31 SHEET 4 AA10 ASP A 3 TYR A 14 -1 N GLU A 10 O LYS A 23 SHEET 5 AA10 GLU E 65 ARG E 69 -1 O VAL E 66 N TYR A 14 SHEET 6 AA10 THR E 49 LYS E 53 -1 O THR E 49 N ARG E 69 SHEET 7 AA10 ASP E 3 TYR E 14 -1 N CYS E 4 O ILE E 52 SHEET 8 AA10 PHE E 20 VAL E 24 1 O THR E 21 N LYS E 13 SHEET 9 AA10 LYS E 27 THR E 31 -1 O LYS E 27 N VAL E 24 SHEET 10 AA10 GLY E 61 GLY E 62 1 O GLY E 61 N PHE E 30 SHEET 1 AB 6 GLY A 61 GLY A 62 0 SHEET 2 AB 6 LYS A 27 THR A 31 -1 N PHE A 30 O GLY A 61 SHEET 3 AB 6 PHE A 20 VAL A 24 1 O PHE A 20 N THR A 31 SHEET 4 AB 6 ASP A 3 TYR A 14 -1 N GLU A 10 O LYS A 23 SHEET 5 AB 6 THR A 49 LYS A 53 -1 O VAL A 50 N GLY A 7 SHEET 6 AB 6 GLU A 65 ARG A 69 -1 O GLU A 65 N LYS A 53 SHEET 1 AC13 GLY A 61 GLY A 62 0 SHEET 2 AC13 LYS A 27 THR A 31 -1 N PHE A 30 O GLY A 61 SHEET 3 AC13 PHE A 20 VAL A 24 1 O PHE A 20 N THR A 31 SHEET 4 AC13 ASP A 3 TYR A 14 -1 N GLU A 10 O LYS A 23 SHEET 5 AC13 GLU E 65 ARG E 69 -1 O VAL E 66 N TYR A 14 SHEET 6 AC13 THR E 49 LYS E 53 -1 O THR E 49 N ARG E 69 SHEET 7 AC13 ASP E 3 TYR E 14 -1 N CYS E 4 O ILE E 52 SHEET 8 AC13 GLU D 65 ARG D 69 -1 O VAL D 66 N TYR E 14 SHEET 9 AC13 THR D 49 LYS D 53 -1 O THR D 49 N ARG D 69 SHEET 10 AC13 ASP D 3 TYR D 14 -1 N CYS D 4 O ILE D 52 SHEET 11 AC13 PHE D 20 VAL D 24 -1 O THR D 21 N LYS D 13 SHEET 12 AC13 LYS D 27 THR D 31 -1 O LYS D 27 N VAL D 24 SHEET 13 AC13 GLY D 61 GLY D 62 1 O GLY D 61 N PHE D 30 SHEET 1 AD15 GLY A 61 GLY A 62 0 SHEET 2 AD15 LYS A 27 THR A 31 -1 N PHE A 30 O GLY A 61 SHEET 3 AD15 PHE A 20 VAL A 24 1 O PHE A 20 N THR A 31 SHEET 4 AD15 ASP A 3 TYR A 14 -1 N GLU A 10 O LYS A 23 SHEET 5 AD15 GLU E 65 ARG E 69 -1 O VAL E 66 N TYR A 14 SHEET 6 AD15 THR E 49 LYS E 53 -1 O THR E 49 N ARG E 69 SHEET 7 AD15 ASP E 3 TYR E 14 -1 N CYS E 4 O ILE E 52 SHEET 8 AD15 GLU D 65 ARG D 69 -1 O VAL D 66 N TYR E 14 SHEET 9 AD15 THR D 49 LYS D 53 -1 O THR D 49 N ARG D 69 SHEET 10 AD15 ASP D 3 TYR D 14 -1 N CYS D 4 O ILE D 52 SHEET 11 AD15 GLU C 65 ARG C 69 -1 O VAL C 66 N TYR D 14 SHEET 12 AD15 THR C 49 LYS C 53 -1 O THR C 49 N ARG C 69 SHEET 13 AD15 ASP C 3 TYR C 14 -1 N CYS C 4 O ILE C 52 SHEET 14 AD15 PHE C 20 VAL C 24 1 O THR C 21 N LYS C 13 SHEET 15 AD15 LYS C 27 THR C 31 1 O LYS C 27 N VAL C 24 SHEET 1 AE19 GLY A 61 GLY A 62 0 SHEET 2 AE19 LYS A 27 THR A 31 -1 N PHE A 30 O GLY A 61 SHEET 3 AE19 PHE A 20 VAL A 24 1 O PHE A 20 N THR A 31 SHEET 4 AE19 ASP A 3 TYR A 14 -1 N GLU A 10 O LYS A 23 SHEET 5 AE19 GLU E 65 ARG E 69 -1 O VAL E 66 N TYR A 14 SHEET 6 AE19 THR E 49 LYS E 53 -1 O THR E 49 N ARG E 69 SHEET 7 AE19 ASP E 3 TYR E 14 -1 N CYS E 4 O ILE E 52 SHEET 8 AE19 GLU D 65 ARG D 69 -1 O VAL D 66 N TYR E 14 SHEET 9 AE19 THR D 49 LYS D 53 -1 O THR D 49 N ARG D 69 SHEET 10 AE19 ASP D 3 TYR D 14 -1 N CYS D 4 O ILE D 52 SHEET 11 AE19 GLU C 65 ARG C 69 -1 O VAL C 66 N TYR D 14 SHEET 12 AE19 THR C 49 LYS C 53 -1 O THR C 49 N ARG C 69 SHEET 13 AE19 ASP C 3 TYR C 14 -1 N CYS C 4 O ILE C 52 SHEET 14 AE19 GLU B 65 ARG B 69 -1 O VAL B 66 N TYR C 14 SHEET 15 AE19 THR B 49 LYS B 53 -1 O THR B 49 N ARG B 69 SHEET 16 AE19 ASP B 3 TYR B 14 -1 N CYS B 4 O ILE B 52 SHEET 17 AE19 PHE B 20 VAL B 24 -1 O THR B 21 N LYS B 13 SHEET 18 AE19 LYS B 27 THR B 31 -1 O LYS B 27 N VAL B 24 SHEET 19 AE19 GLY B 61 GLY B 62 1 O GLY B 61 N PHE B 30 SSBOND 1 CYS A 4 CYS A 57 1555 1555 2.06 SSBOND 2 CYS B 4 CYS B 57 1555 1555 2.03 SSBOND 3 CYS C 4 CYS C 57 1555 1555 2.02 SSBOND 4 CYS D 4 CYS D 57 1555 1555 2.05 SSBOND 5 CYS E 4 CYS E 57 1555 1555 2.03 LINK OG1 THR B 1 ZN ZN B1070 1555 1555 2.20 LINK ZN ZN B1070 O HOH B2027 1555 1555 2.34 LINK ZN ZN B1070 O HOH B2028 1555 1555 2.29 LINK ZN ZN B1070 OG1 THR D 1 1555 3654 2.15 LINK OG1 THR C 1 ZN ZN C1070 1555 1555 2.37 LINK ZN ZN C1070 O HOH C2039 1555 1555 2.28 SITE 1 AC1 4 THR B 1 HOH B2027 HOH B2028 THR D 1 SITE 1 AC2 3 THR C 1 GLU C 65 HOH C2039 SITE 1 AC3 1 THR E 1 CRYST1 59.600 102.400 56.100 90.00 90.00 90.00 P 21 21 21 20 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 0.016779 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009766 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017825 0.00000 MTRIX1 1 0.667720 0.741990 -0.059930 -7.67502 1 MTRIX2 1 -0.504050 0.391410 -0.769890 14.74852 1 MTRIX3 1 -0.547790 0.544280 0.635360 -11.48530 1 MTRIX1 2 0.097310 0.697280 -0.710160 -6.16588 1 MTRIX2 2 -0.153270 -0.694540 -0.702940 32.57329 1 MTRIX3 2 -0.983380 0.177250 0.039280 -2.07367 1 MTRIX1 3 0.084010 -0.073940 -0.993720 6.47485 1 MTRIX2 3 0.633230 -0.766030 0.110530 30.19076 1 MTRIX3 3 -0.769390 -0.638530 -0.017540 12.07049 1 MTRIX1 4 0.625610 -0.533740 -0.568980 11.54872 1 MTRIX2 4 0.770470 0.308280 0.557980 9.70221 1 MTRIX3 4 -0.122410 -0.787450 0.604090 13.46176 1