HEADER TRANSCRIPTION/DNA 27-NOV-12 3W2A TITLE CRYSTAL STRUCTURE OF VIRB CORE DOMAIN COMPLEXED WITH THE CIS-ACTING TITLE 2 SITE UPSTREAM ICSP PROMOTER COMPND MOL_ID: 1; COMPND 2 MOLECULE: VIRULENCE REGULON TRANSCRIPTIONAL ACTIVATOR VIRB; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CORE DOMAIN, UNP RESIDUES 129-250; COMPND 5 SYNONYM: CELL INVASION REGULATOR INVE; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (31-MER); COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (31-MER); COMPND 13 CHAIN: C; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SHIGELLA FLEXNERI 2A; SOURCE 3 ORGANISM_TAXID: 42897; SOURCE 4 STRAIN: 301; SOURCE 5 GENE: VIRB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: B834 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: SYNTHETIC DNA; SOURCE 14 MOL_ID: 3; SOURCE 15 SYNTHETIC: YES; SOURCE 16 OTHER_DETAILS: SYNTHETIC DNA KEYWDS PARS LIKE DNA BINDING SITES, PARB LIKE PROTEIN, HTH DNA BINDING KEYWDS 2 DOMAIN, PARB LIKE, HTH DNA-BINDING MOTIF, TRANSCRIPTIONAL ACTIVATOR, KEYWDS 3 SEQUENCE SPECIFIC DSDNA BINDING, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR X.P.GAO,S.WALTERSPERGER,M.T.WANG,S.CUI REVDAT 7 09-OCT-24 3W2A 1 REMARK REVDAT 6 06-DEC-23 3W2A 1 REMARK REVDAT 5 08-NOV-23 3W2A 1 SEQADV LINK REVDAT 4 25-DEC-13 3W2A 1 JRNL REVDAT 3 11-DEC-13 3W2A 1 JRNL REVDAT 2 18-SEP-13 3W2A 1 COMPND REVDAT 1 04-SEP-13 3W2A 0 JRNL AUTH X.P.GAO,T.T.ZOU,Z.X.MU,B.QIN,J.YANG,S.WALTERSPERGER, JRNL AUTH 2 M.T.WANG,S.CUI,Q.JIN JRNL TITL STRUCTURAL INSIGHTS INTO VIRB-DNA COMPLEXES REVEAL MECHANISM JRNL TITL 2 OF TRANSCRIPTIONAL ACTIVATION OF VIRULENCE GENES JRNL REF NUCLEIC ACIDS RES. V. 41 10529 2013 JRNL REFN ISSN 0305-1048 JRNL PMID 23985969 JRNL DOI 10.1093/NAR/GKT748 REMARK 2 REMARK 2 RESOLUTION. 2.78 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.3_928) 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) : 2.78 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.25 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 23806 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.243 REMARK 3 R VALUE (WORKING SET) : 0.242 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 1194 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 48.2536 - 5.7703 1.00 2573 135 0.2281 0.2337 REMARK 3 2 5.7703 - 4.5812 1.00 2568 135 0.2071 0.2191 REMARK 3 3 4.5812 - 4.0024 1.00 2529 136 0.1921 0.2017 REMARK 3 4 4.0024 - 3.6366 1.00 2569 136 0.2173 0.2621 REMARK 3 5 3.6366 - 3.3760 1.00 2577 133 0.2555 0.2780 REMARK 3 6 3.3760 - 3.1770 0.98 2525 134 0.2558 0.2873 REMARK 3 7 3.1770 - 3.0179 0.99 2545 133 0.3026 0.3715 REMARK 3 8 3.0179 - 2.8866 1.00 2545 138 0.3772 0.3904 REMARK 3 9 2.8866 - 2.7755 0.85 2181 114 0.4199 0.4428 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.30 REMARK 3 SHRINKAGE RADIUS : 1.11 REMARK 3 K_SOL : 0.26 REMARK 3 B_SOL : 35.10 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.480 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.740 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 65.82 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 100.0 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 38.22390 REMARK 3 B22 (A**2) : -20.56520 REMARK 3 B33 (A**2) : -17.65870 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -9.58620 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 : 0.004 1991 REMARK 3 ANGLE : 0.924 2882 REMARK 3 CHIRALITY : 0.043 328 REMARK 3 PLANARITY : 0.003 204 REMARK 3 DIHEDRAL : 26.205 822 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 15 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 133:147) REMARK 3 ORIGIN FOR THE GROUP (A): 42.0512 12.8709 5.2327 REMARK 3 T TENSOR REMARK 3 T11: 0.5260 T22: 0.4648 REMARK 3 T33: 0.4870 T12: -0.0901 REMARK 3 T13: 0.1620 T23: 0.0527 REMARK 3 L TENSOR REMARK 3 L11: 0.9045 L22: 3.2007 REMARK 3 L33: 3.8570 L12: 0.5477 REMARK 3 L13: -1.9338 L23: -0.5429 REMARK 3 S TENSOR REMARK 3 S11: -0.2745 S12: 0.1288 S13: -0.0864 REMARK 3 S21: -0.8992 S22: -0.2234 S23: -0.7717 REMARK 3 S31: -0.5973 S32: 0.1804 S33: 0.2594 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 148:157) REMARK 3 ORIGIN FOR THE GROUP (A): 38.4998 6.7145 -4.3825 REMARK 3 T TENSOR REMARK 3 T11: 0.9860 T22: 0.5572 REMARK 3 T33: 0.5652 T12: 0.0349 REMARK 3 T13: 0.0728 T23: 0.0652 REMARK 3 L TENSOR REMARK 3 L11: 5.1141 L22: 4.7738 REMARK 3 L33: 2.8589 L12: -3.7842 REMARK 3 L13: -0.5835 L23: 2.7375 REMARK 3 S TENSOR REMARK 3 S11: -0.1439 S12: 1.0673 S13: 0.4479 REMARK 3 S21: -1.0505 S22: 0.5000 S23: 0.1985 REMARK 3 S31: -0.3062 S32: 0.1591 S33: -0.0018 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 158:174) REMARK 3 ORIGIN FOR THE GROUP (A): 38.6997 5.4826 6.2270 REMARK 3 T TENSOR REMARK 3 T11: 0.4441 T22: 0.4139 REMARK 3 T33: 0.3840 T12: -0.0123 REMARK 3 T13: 0.0669 T23: 0.0522 REMARK 3 L TENSOR REMARK 3 L11: 3.6725 L22: 4.8281 REMARK 3 L33: 3.8593 L12: 0.0243 REMARK 3 L13: -0.1302 L23: 0.3972 REMARK 3 S TENSOR REMARK 3 S11: 0.0431 S12: 0.2369 S13: 0.2059 REMARK 3 S21: -0.5828 S22: 0.2451 S23: 0.3318 REMARK 3 S31: 0.1655 S32: -0.1878 S33: -0.4708 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 175:184) REMARK 3 ORIGIN FOR THE GROUP (A): 39.4428 17.1291 22.1213 REMARK 3 T TENSOR REMARK 3 T11: 0.5439 T22: 0.4229 REMARK 3 T33: 0.4677 T12: -0.0350 REMARK 3 T13: 0.1465 T23: 0.1506 REMARK 3 L TENSOR REMARK 3 L11: 1.5005 L22: 2.2182 REMARK 3 L33: 6.7417 L12: 1.5393 REMARK 3 L13: 2.1915 L23: 0.7471 REMARK 3 S TENSOR REMARK 3 S11: 0.2787 S12: 0.4828 S13: 1.0726 REMARK 3 S21: 0.8571 S22: -0.2618 S23: -0.8394 REMARK 3 S31: -0.2637 S32: 0.8616 S33: 0.1479 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 185:196) REMARK 3 ORIGIN FOR THE GROUP (A): 38.1505 6.8663 20.0081 REMARK 3 T TENSOR REMARK 3 T11: 0.8097 T22: 0.4656 REMARK 3 T33: 0.4052 T12: 0.2200 REMARK 3 T13: 0.1233 T23: 0.0355 REMARK 3 L TENSOR REMARK 3 L11: 2.6539 L22: 8.6936 REMARK 3 L33: 2.0679 L12: -1.8601 REMARK 3 L13: -2.2127 L23: -3.1396 REMARK 3 S TENSOR REMARK 3 S11: -0.2581 S12: -0.4178 S13: -0.4252 REMARK 3 S21: -0.3012 S22: 0.1964 S23: -0.3268 REMARK 3 S31: 0.8996 S32: 0.0696 S33: -0.1953 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 197:216) REMARK 3 ORIGIN FOR THE GROUP (A): 26.8333 19.3958 18.8485 REMARK 3 T TENSOR REMARK 3 T11: 0.8518 T22: 0.6278 REMARK 3 T33: 0.6778 T12: 0.1667 REMARK 3 T13: 0.0086 T23: -0.0147 REMARK 3 L TENSOR REMARK 3 L11: 2.8602 L22: 4.1551 REMARK 3 L33: 1.9014 L12: -0.4453 REMARK 3 L13: 0.1612 L23: -0.1086 REMARK 3 S TENSOR REMARK 3 S11: 0.4756 S12: 0.6172 S13: 0.4818 REMARK 3 S21: -0.8151 S22: -0.7909 S23: 1.9100 REMARK 3 S31: -0.9554 S32: -0.9662 S33: 0.3044 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 217:223) REMARK 3 ORIGIN FOR THE GROUP (A): 34.4429 20.5357 33.4333 REMARK 3 T TENSOR REMARK 3 T11: 1.0745 T22: 0.0527 REMARK 3 T33: -1.0237 T12: -0.3890 REMARK 3 T13: 1.0073 T23: 0.6387 REMARK 3 L TENSOR REMARK 3 L11: 2.0914 L22: 7.0730 REMARK 3 L33: 7.5125 L12: 0.2964 REMARK 3 L13: 5.1986 L23: 1.6959 REMARK 3 S TENSOR REMARK 3 S11: -0.7360 S12: -0.3698 S13: 0.2392 REMARK 3 S21: -0.0910 S22: -0.4845 S23: -0.7455 REMARK 3 S31: -0.3604 S32: -0.4171 S33: 0.0355 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESID 224:229) REMARK 3 ORIGIN FOR THE GROUP (A): 42.5866 12.7745 38.5356 REMARK 3 T TENSOR REMARK 3 T11: 1.8189 T22: 0.8676 REMARK 3 T33: 0.6282 T12: 0.0738 REMARK 3 T13: -0.0432 T23: 0.0773 REMARK 3 L TENSOR REMARK 3 L11: 4.5095 L22: 2.0184 REMARK 3 L33: 7.9336 L12: -1.6903 REMARK 3 L13: 5.9634 L23: -0.6581 REMARK 3 S TENSOR REMARK 3 S11: 1.0731 S12: -1.0516 S13: 0.5090 REMARK 3 S21: 0.1876 S22: 0.6854 S23: -0.3379 REMARK 3 S31: -0.0600 S32: 1.1909 S33: -1.1895 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN A AND RESID 230:240) REMARK 3 ORIGIN FOR THE GROUP (A): 37.3421 9.1844 31.3337 REMARK 3 T TENSOR REMARK 3 T11: 0.9151 T22: 0.5751 REMARK 3 T33: 0.4879 T12: 0.0783 REMARK 3 T13: 0.2689 T23: -0.0275 REMARK 3 L TENSOR REMARK 3 L11: 1.1134 L22: 5.0460 REMARK 3 L33: 2.5035 L12: -1.7216 REMARK 3 L13: 1.1547 L23: -0.2517 REMARK 3 S TENSOR REMARK 3 S11: 0.4156 S12: -1.2321 S13: 0.4447 REMARK 3 S21: -0.6137 S22: 0.1274 S23: -0.8089 REMARK 3 S31: 0.3424 S32: 0.5456 S33: -0.1146 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN A AND RESID 241:246) REMARK 3 ORIGIN FOR THE GROUP (A): 24.6938 13.4258 28.2612 REMARK 3 T TENSOR REMARK 3 T11: 1.2786 T22: 0.8725 REMARK 3 T33: 0.8550 T12: -0.1253 REMARK 3 T13: 0.0805 T23: 0.1636 REMARK 3 L TENSOR REMARK 3 L11: 6.8373 L22: 2.2971 REMARK 3 L33: 3.9433 L12: -1.3985 REMARK 3 L13: -4.6605 L23: -0.2917 REMARK 3 S TENSOR REMARK 3 S11: 0.3962 S12: -0.0621 S13: 0.3810 REMARK 3 S21: -0.0041 S22: 0.1491 S23: 1.4995 REMARK 3 S31: 0.0501 S32: -1.5644 S33: -0.3081 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN B AND RESID 4:7) REMARK 3 ORIGIN FOR THE GROUP (A): 11.6248 -3.9312 -9.5106 REMARK 3 T TENSOR REMARK 3 T11: 1.5413 T22: 2.9397 REMARK 3 T33: 2.9600 T12: -0.5523 REMARK 3 T13: -0.0929 T23: -0.1142 REMARK 3 L TENSOR REMARK 3 L11: 0.7118 L22: 0.0262 REMARK 3 L33: 0.5261 L12: 0.1328 REMARK 3 L13: 0.6160 L23: 0.1111 REMARK 3 S TENSOR REMARK 3 S11: -0.3159 S12: -0.1272 S13: -0.2629 REMARK 3 S21: 0.3144 S22: -0.5795 S23: 0.8670 REMARK 3 S31: -0.2618 S32: -0.4865 S33: 0.6007 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: (CHAIN B AND RESID 8:22) REMARK 3 ORIGIN FOR THE GROUP (A): 36.6849 -5.4586 10.5025 REMARK 3 T TENSOR REMARK 3 T11: 0.5588 T22: 0.4910 REMARK 3 T33: 0.5653 T12: -0.1015 REMARK 3 T13: -0.2605 T23: -0.0463 REMARK 3 L TENSOR REMARK 3 L11: 2.9402 L22: 4.0378 REMARK 3 L33: 3.3931 L12: -0.3646 REMARK 3 L13: -1.5125 L23: -1.4714 REMARK 3 S TENSOR REMARK 3 S11: 0.2090 S12: 0.2582 S13: -0.5802 REMARK 3 S21: -0.3680 S22: 0.1343 S23: 0.2771 REMARK 3 S31: -0.2178 S32: 0.4615 S33: -0.2209 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: (CHAIN B AND RESID 23:26) REMARK 3 ORIGIN FOR THE GROUP (A): 53.8054 -12.3235 35.8519 REMARK 3 T TENSOR REMARK 3 T11: 1.7486 T22: 2.0479 REMARK 3 T33: 1.0022 T12: 0.0742 REMARK 3 T13: -0.4384 T23: 0.1645 REMARK 3 L TENSOR REMARK 3 L11: 3.7741 L22: 0.9027 REMARK 3 L33: 4.5675 L12: 1.6200 REMARK 3 L13: -0.9622 L23: 0.5276 REMARK 3 S TENSOR REMARK 3 S11: -0.3416 S12: -0.6577 S13: -0.9323 REMARK 3 S21: 0.6540 S22: 0.3751 S23: 0.1394 REMARK 3 S31: 0.6139 S32: -0.2610 S33: -0.1678 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: (CHAIN C AND RESID 3:20) REMARK 3 ORIGIN FOR THE GROUP (A): 41.7944 -8.3046 17.6041 REMARK 3 T TENSOR REMARK 3 T11: 0.4742 T22: 0.5507 REMARK 3 T33: 0.6766 T12: 0.0985 REMARK 3 T13: -0.1236 T23: 0.1037 REMARK 3 L TENSOR REMARK 3 L11: 3.1735 L22: 4.4134 REMARK 3 L33: 5.1553 L12: 0.2075 REMARK 3 L13: -0.0448 L23: 1.3496 REMARK 3 S TENSOR REMARK 3 S11: 0.1616 S12: -0.2147 S13: -1.0920 REMARK 3 S21: 0.0386 S22: 0.4852 S23: 0.2889 REMARK 3 S31: 0.1009 S32: 0.7868 S33: -0.4415 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: (CHAIN C AND RESID 21:25) REMARK 3 ORIGIN FOR THE GROUP (A): 18.4085 2.3324 -10.2080 REMARK 3 T TENSOR REMARK 3 T11: 2.4809 T22: 1.3885 REMARK 3 T33: 0.6752 T12: 0.6867 REMARK 3 T13: -1.9461 T23: 0.5740 REMARK 3 L TENSOR REMARK 3 L11: 1.9500 L22: 2.0046 REMARK 3 L33: 4.5337 L12: -3.8039 REMARK 3 L13: -5.1877 L23: -5.7360 REMARK 3 S TENSOR REMARK 3 S11: 0.4616 S12: 0.7192 S13: -0.2956 REMARK 3 S21: -0.9468 S22: 1.7061 S23: -0.7291 REMARK 3 S31: 1.0041 S32: -1.0470 S33: -0.8699 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE ENTRY CONTAINS FRIEDEL PAIRS IN REMARK 3 F_PLUS/MINUS COLUMNS. REMARK 4 REMARK 4 3W2A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-NOV-12. REMARK 100 THE DEPOSITION ID IS D_1000095795. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-NOV-12 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 : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979590 REMARK 200 MONOCHROMATOR : BARTELS MONOCHROMATOR CRYSTAL REMARK 200 TYPE 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 : XDS PACKAGE REMARK 200 DATA SCALING SOFTWARE : XDS PACKAGE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23902 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.775 REMARK 200 RESOLUTION RANGE LOW (A) : 48.246 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 200 DATA REDUNDANCY : 6.680 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.8600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.78 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.94 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.2 REMARK 200 DATA REDUNDANCY IN SHELL : 5.76 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.76100 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.310 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER MR REMARK 200 STARTING MODEL: 3VWB REMARK 200 REMARK 200 REMARK: THE ENTRY CONTAINS FRIEDEL PAIRS IN F_PLUS/MINUS COLUMNS. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MGCL2 0.1M SODIUM ACETATE 16% PEG REMARK 280 -400, PH 4.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 88.15800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.91400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 88.15800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 19.91400 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MSE A 108 REMARK 465 GLY A 109 REMARK 465 SER A 110 REMARK 465 SER A 111 REMARK 465 HIS A 112 REMARK 465 HIS A 113 REMARK 465 HIS A 114 REMARK 465 HIS A 115 REMARK 465 HIS A 116 REMARK 465 HIS A 117 REMARK 465 SER A 118 REMARK 465 SER A 119 REMARK 465 GLY A 120 REMARK 465 LEU A 121 REMARK 465 VAL A 122 REMARK 465 PRO A 123 REMARK 465 ARG A 124 REMARK 465 GLY A 125 REMARK 465 SER A 126 REMARK 465 HIS A 127 REMARK 465 MSE A 128 REMARK 465 ALA A 129 REMARK 465 LYS A 130 REMARK 465 GLU A 131 REMARK 465 HIS A 132 REMARK 465 ARG A 247 REMARK 465 LYS A 248 REMARK 465 GLN A 249 REMARK 465 ASN A 250 REMARK 465 DT B -2 REMARK 465 DT B -1 REMARK 465 DT B 0 REMARK 465 DA B 1 REMARK 465 DA B 2 REMARK 465 DT B 3 REMARK 465 DC B 27 REMARK 465 DC B 28 REMARK 465 DA C -2 REMARK 465 DA C -1 REMARK 465 DA C 0 REMARK 465 DG C 1 REMARK 465 DG C 2 REMARK 465 DA C 26 REMARK 465 DT C 27 REMARK 465 DT C 28 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 HG SER A 161 O HOH C 102 1.47 REMARK 500 H LEU A 224 O HOH A 306 1.54 REMARK 500 HH21 ARG A 135 O VAL A 174 1.54 REMARK 500 O2 DC B 10 H22 DG C 19 1.60 REMARK 500 NH2 ARG A 135 O VAL A 174 1.91 REMARK 500 OP2 DG C 14 O HOH C 102 1.93 REMARK 500 OG SER A 150 OD1 ASP A 153 2.09 REMARK 500 O2 DT B 12 O HOH B 106 2.10 REMARK 500 O3' DC C 8 O HOH C 104 2.10 REMARK 500 OP2 DT B 14 O HOH B 108 2.11 REMARK 500 OP1 DC B 15 O HOH B 101 2.11 REMARK 500 O ALA A 185 O HOH A 313 2.15 REMARK 500 N ASP A 225 O HOH A 306 2.16 REMARK 500 N7 DA B 22 O HOH B 105 2.16 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 DC B 7 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DT B 9 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG B 21 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DA B 22 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DT C 6 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DA C 21 O4' - C1' - N9 ANGL. DEV. = 4.7 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 PRO A 175 119.36 -38.93 REMARK 500 TYR A 193 -17.47 -49.69 REMARK 500 ILE A 232 79.84 -161.90 REMARK 500 TYR A 233 -94.48 71.85 REMARK 500 LYS A 234 -33.49 -37.70 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VWB RELATED DB: PDB REMARK 900 RELATED ID: 2NTZ RELATED DB: PDB REMARK 900 RELATED ID: 1ZX4 RELATED DB: PDB REMARK 900 RELATED ID: 3MKZ RELATED DB: PDB REMARK 900 RELATED ID: 3W3C RELATED DB: PDB DBREF 3W2A A 129 250 UNP P0A247 VIRB_SHIFL 129 250 DBREF 3W2A B -2 28 PDB 3W2A 3W2A -2 28 DBREF 3W2A C -2 28 PDB 3W2A 3W2A -2 28 SEQADV 3W2A MSE A 108 UNP P0A247 EXPRESSION TAG SEQADV 3W2A GLY A 109 UNP P0A247 EXPRESSION TAG SEQADV 3W2A SER A 110 UNP P0A247 EXPRESSION TAG SEQADV 3W2A SER A 111 UNP P0A247 EXPRESSION TAG SEQADV 3W2A HIS A 112 UNP P0A247 EXPRESSION TAG SEQADV 3W2A HIS A 113 UNP P0A247 EXPRESSION TAG SEQADV 3W2A HIS A 114 UNP P0A247 EXPRESSION TAG SEQADV 3W2A HIS A 115 UNP P0A247 EXPRESSION TAG SEQADV 3W2A HIS A 116 UNP P0A247 EXPRESSION TAG SEQADV 3W2A HIS A 117 UNP P0A247 EXPRESSION TAG SEQADV 3W2A SER A 118 UNP P0A247 EXPRESSION TAG SEQADV 3W2A SER A 119 UNP P0A247 EXPRESSION TAG SEQADV 3W2A GLY A 120 UNP P0A247 EXPRESSION TAG SEQADV 3W2A LEU A 121 UNP P0A247 EXPRESSION TAG SEQADV 3W2A VAL A 122 UNP P0A247 EXPRESSION TAG SEQADV 3W2A PRO A 123 UNP P0A247 EXPRESSION TAG SEQADV 3W2A ARG A 124 UNP P0A247 EXPRESSION TAG SEQADV 3W2A GLY A 125 UNP P0A247 EXPRESSION TAG SEQADV 3W2A SER A 126 UNP P0A247 EXPRESSION TAG SEQADV 3W2A HIS A 127 UNP P0A247 EXPRESSION TAG SEQADV 3W2A MSE A 128 UNP P0A247 EXPRESSION TAG SEQRES 1 A 143 MSE GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 143 LEU VAL PRO ARG GLY SER HIS MSE ALA LYS GLU HIS SER SEQRES 3 A 143 ILE ARG GLU LEU GLY ILE GLY LEU ASN PHE LEU LYS VAL SEQRES 4 A 143 SER GLY MSE SER TYR LYS ASP ILE ALA LYS LYS GLU ASN SEQRES 5 A 143 LEU SER ARG ALA LYS VAL THR ARG ALA PHE GLN ALA ALA SEQRES 6 A 143 SER VAL PRO GLN GLU ILE ILE SER LEU PHE PRO ILE ALA SEQRES 7 A 143 SER GLU LEU ASN PHE ASN ASP TYR LYS ILE LEU PHE ASN SEQRES 8 A 143 TYR TYR LYS GLY LEU GLU LYS ALA ASN GLU SER LEU SER SEQRES 9 A 143 SER THR LEU PRO ILE LEU LYS GLU GLU ILE LYS ASP LEU SEQRES 10 A 143 ASP THR ASN LEU PRO PRO ASP ILE TYR LYS LYS GLU ILE SEQRES 11 A 143 LEU ASN ILE ILE LYS LYS SER LYS ASN ARG LYS GLN ASN SEQRES 1 B 31 DT DT DT DA DA DT DA DT DA DC DT DT DC SEQRES 2 B 31 DA DT DT DT DC DA DT DA DC DT DG DA DA SEQRES 3 B 31 DA DT DC DC DC SEQRES 1 C 31 DA DA DA DG DG DG DA DT DT DT DC DA DG SEQRES 2 C 31 DT DA DT DG DA DA DA DT DG DA DA DG DT SEQRES 3 C 31 DA DT DA DT DT MODRES 3W2A MSE A 149 MET SELENOMETHIONINE HET MSE A 149 34 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE C5 H11 N O2 SE FORMUL 4 HOH *41(H2 O) HELIX 1 1 SER A 133 LEU A 141 1 9 HELIX 2 2 SER A 150 ASN A 159 1 10 HELIX 3 3 SER A 161 SER A 173 1 13 HELIX 4 4 PRO A 175 LEU A 181 1 7 HELIX 5 5 ASN A 189 GLU A 204 1 16 HELIX 6 6 SER A 209 ASP A 223 1 15 HELIX 7 7 TYR A 233 LYS A 243 1 11 HELIX 8 8 SER A 244 ASN A 246 5 3 LINK C GLY A 148 N AMSE A 149 1555 1555 1.34 LINK C GLY A 148 N BMSE A 149 1555 1555 1.34 LINK C AMSE A 149 N SER A 150 1555 1555 1.33 LINK C BMSE A 149 N SER A 150 1555 1555 1.32 CISPEP 1 THR A 226 ASN A 227 0 -0.18 CISPEP 2 ILE A 232 TYR A 233 0 -3.73 CRYST1 176.316 39.828 73.491 90.00 105.79 90.00 C 1 2 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.005672 0.000000 0.001604 0.00000 SCALE2 0.000000 0.025108 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014140 0.00000