HEADER TOXIN 21-FEB-12 4DTF TITLE STRUCTURE OF A VGRG VIBRIO CHOLERAE TOXIN ACD DOMAIN IN COMPLEX WITH TITLE 2 AMP-PNP AND MG++ COMPND MOL_ID: 1; COMPND 2 MOLECULE: VGRG PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 716-1111; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE; SOURCE 3 ORGANISM_TAXID: 666; SOURCE 4 STRAIN: O395; SOURCE 5 GENE: VC_1416, VGRG1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETG-20A KEYWDS ALPHA/BETA PROTEIN, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR E.DURAND,G.AUDOLY,E.DERREZ,S.SPINELLI,M.ORTIZ-LOMBARDIA,E.CASCALES, AUTHOR 2 D.RAOULT,C.CAMBILLAU REVDAT 2 13-SEP-23 4DTF 1 REMARK LINK REVDAT 1 29-AUG-12 4DTF 0 JRNL AUTH E.DURAND,G.AUDOLY,E.DERREZ,S.SPINELLI,M.ORTIZ-LOMBARDIA, JRNL AUTH 2 E.CASCALES,D.RAOULT,C.CAMBILLAU JRNL TITL STRUCTURE OF A VGRG VIBRIO CHOLERAE TOXIN ACD DOMAIN IN JRNL TITL 2 COMPLEX WITH AMP-PNP AND MG++ JRNL REF J.BIOL.CHEM. 2012 JRNL REFN ESSN 1083-351X REMARK 2 REMARK 2 RESOLUTION. 2.12 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.11.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.39 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 36813 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.490 REMARK 3 FREE R VALUE TEST SET COUNT : 1284 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 18 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.12 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.18 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.84 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2941 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2057 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2855 REMARK 3 BIN R VALUE (WORKING SET) : 0.2047 REMARK 3 BIN FREE R VALUE : 0.2372 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 2.92 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 86 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2757 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 59 REMARK 3 SOLVENT ATOMS : 504 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.97 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.77560 REMARK 3 B22 (A**2) : -2.77560 REMARK 3 B33 (A**2) : 5.55120 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.240 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.142 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 2899 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 3950 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 996 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 81 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 424 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 2899 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 386 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 3743 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.06 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.27 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 19.19 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 13 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: A 0 A 17 REMARK 3 ORIGIN FOR THE GROUP (A): 34.2694 89.1299 16.5330 REMARK 3 T TENSOR REMARK 3 T11: -0.0206 T22: 0.0257 REMARK 3 T33: -0.0033 T12: -0.0145 REMARK 3 T13: 0.0226 T23: 0.0057 REMARK 3 L TENSOR REMARK 3 L11: 0.1945 L22: 0.1096 REMARK 3 L33: 0.0009 L12: 0.2822 REMARK 3 L13: 0.0853 L23: -0.1189 REMARK 3 S TENSOR REMARK 3 S11: 0.0020 S12: -0.0052 S13: -0.0021 REMARK 3 S21: 0.0040 S22: -0.0015 S23: -0.0061 REMARK 3 S31: 0.0036 S32: -0.0046 S33: -0.0005 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: A 18 A 53 REMARK 3 ORIGIN FOR THE GROUP (A): 45.9910 89.8896 6.2196 REMARK 3 T TENSOR REMARK 3 T11: -0.0450 T22: 0.0579 REMARK 3 T33: -0.0197 T12: -0.0103 REMARK 3 T13: -0.0013 T23: -0.0052 REMARK 3 L TENSOR REMARK 3 L11: 1.6372 L22: 0.0000 REMARK 3 L33: 0.0419 L12: 0.3586 REMARK 3 L13: -0.3733 L23: 0.3733 REMARK 3 S TENSOR REMARK 3 S11: 0.0047 S12: 0.0111 S13: -0.0187 REMARK 3 S21: 0.0043 S22: -0.0046 S23: 0.0074 REMARK 3 S31: -0.0014 S32: -0.0076 S33: -0.0001 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: A 54 A 78 REMARK 3 ORIGIN FOR THE GROUP (A): 55.1876 87.9440 -7.2347 REMARK 3 T TENSOR REMARK 3 T11: -0.0480 T22: 0.0555 REMARK 3 T33: -0.0097 T12: 0.0181 REMARK 3 T13: -0.0016 T23: -0.0312 REMARK 3 L TENSOR REMARK 3 L11: 0.2543 L22: 0.0596 REMARK 3 L33: 0.6368 L12: 0.0343 REMARK 3 L13: 0.2756 L23: 0.1833 REMARK 3 S TENSOR REMARK 3 S11: 0.0001 S12: 0.0079 S13: -0.0127 REMARK 3 S21: -0.0046 S22: 0.0040 S23: -0.0011 REMARK 3 S31: 0.0027 S32: -0.0038 S33: -0.0041 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: A 79 A 116 REMARK 3 ORIGIN FOR THE GROUP (A): 46.3803 98.4685 11.3272 REMARK 3 T TENSOR REMARK 3 T11: -0.0656 T22: 0.0485 REMARK 3 T33: -0.0200 T12: -0.0423 REMARK 3 T13: 0.0003 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 0.6399 L22: 0.1422 REMARK 3 L33: 0.7646 L12: 0.1118 REMARK 3 L13: 1.1115 L23: 0.1453 REMARK 3 S TENSOR REMARK 3 S11: -0.0009 S12: -0.0006 S13: 0.0175 REMARK 3 S21: 0.0177 S22: -0.0174 S23: -0.0014 REMARK 3 S31: -0.0055 S32: -0.0055 S33: 0.0183 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: A 117 A 143 REMARK 3 ORIGIN FOR THE GROUP (A): 54.0286 93.1364 9.4678 REMARK 3 T TENSOR REMARK 3 T11: -0.0393 T22: 0.0539 REMARK 3 T33: -0.0220 T12: -0.0048 REMARK 3 T13: -0.0048 T23: -0.0258 REMARK 3 L TENSOR REMARK 3 L11: 1.0578 L22: 0.0000 REMARK 3 L33: 0.0182 L12: -0.0001 REMARK 3 L13: -0.0226 L23: 0.2221 REMARK 3 S TENSOR REMARK 3 S11: 0.0019 S12: -0.0072 S13: -0.0065 REMARK 3 S21: 0.0034 S22: -0.0044 S23: -0.0043 REMARK 3 S31: -0.0011 S32: 0.0079 S33: 0.0025 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: A 144 A 170 REMARK 3 ORIGIN FOR THE GROUP (A): 40.6334 99.0106 2.8176 REMARK 3 T TENSOR REMARK 3 T11: -0.0315 T22: 0.0123 REMARK 3 T33: -0.0060 T12: 0.0006 REMARK 3 T13: 0.0234 T23: 0.0015 REMARK 3 L TENSOR REMARK 3 L11: 0.1488 L22: 0.1786 REMARK 3 L33: 0.6084 L12: 0.2945 REMARK 3 L13: 0.6983 L23: -0.1944 REMARK 3 S TENSOR REMARK 3 S11: -0.0002 S12: 0.0015 S13: 0.0146 REMARK 3 S21: -0.0116 S22: -0.0106 S23: 0.0048 REMARK 3 S31: -0.0164 S32: 0.0003 S33: 0.0108 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: A 171 A 206 REMARK 3 ORIGIN FOR THE GROUP (A): 9.1992 91.1095 13.1934 REMARK 3 T TENSOR REMARK 3 T11: -0.0859 T22: 0.0767 REMARK 3 T33: 0.0003 T12: 0.0373 REMARK 3 T13: -0.0038 T23: -0.0491 REMARK 3 L TENSOR REMARK 3 L11: 0.6065 L22: 0.0000 REMARK 3 L33: 0.1830 L12: -0.3791 REMARK 3 L13: -0.2348 L23: 0.2379 REMARK 3 S TENSOR REMARK 3 S11: 0.0012 S12: -0.0109 S13: 0.0056 REMARK 3 S21: 0.0101 S22: 0.0052 S23: 0.0022 REMARK 3 S31: -0.0102 S32: -0.0148 S33: -0.0064 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: A 207 A 236 REMARK 3 ORIGIN FOR THE GROUP (A): 12.4183 85.5147 3.9938 REMARK 3 T TENSOR REMARK 3 T11: -0.0955 T22: 0.0727 REMARK 3 T33: 0.0029 T12: 0.0206 REMARK 3 T13: -0.0241 T23: -0.0211 REMARK 3 L TENSOR REMARK 3 L11: 1.1391 L22: 0.0128 REMARK 3 L33: 0.0334 L12: 0.1022 REMARK 3 L13: 0.6820 L23: -0.1088 REMARK 3 S TENSOR REMARK 3 S11: 0.0027 S12: -0.0335 S13: -0.0002 REMARK 3 S21: -0.0048 S22: -0.0037 S23: 0.0042 REMARK 3 S31: 0.0007 S32: -0.0149 S33: 0.0010 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: A 237 A 269 REMARK 3 ORIGIN FOR THE GROUP (A): 20.5767 85.8266 -7.1184 REMARK 3 T TENSOR REMARK 3 T11: -0.0410 T22: 0.0598 REMARK 3 T33: -0.0294 T12: -0.0063 REMARK 3 T13: -0.0172 T23: 0.0194 REMARK 3 L TENSOR REMARK 3 L11: 0.9357 L22: 0.0000 REMARK 3 L33: 0.4411 L12: 0.1695 REMARK 3 L13: -0.5341 L23: -0.2469 REMARK 3 S TENSOR REMARK 3 S11: -0.0095 S12: 0.0059 S13: 0.0051 REMARK 3 S21: -0.0115 S22: 0.0097 S23: -0.0032 REMARK 3 S31: 0.0111 S32: 0.0019 S33: -0.0002 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: A 270 A 319 REMARK 3 ORIGIN FOR THE GROUP (A): 12.0329 78.1646 4.6644 REMARK 3 T TENSOR REMARK 3 T11: -0.1248 T22: 0.0937 REMARK 3 T33: 0.0193 T12: -0.0231 REMARK 3 T13: -0.0303 T23: 0.0364 REMARK 3 L TENSOR REMARK 3 L11: 1.3190 L22: 0.0000 REMARK 3 L33: 0.7432 L12: 0.1881 REMARK 3 L13: -0.1819 L23: -0.5994 REMARK 3 S TENSOR REMARK 3 S11: 0.0028 S12: -0.0081 S13: -0.0267 REMARK 3 S21: 0.0020 S22: -0.0111 S23: 0.0057 REMARK 3 S31: 0.0158 S32: -0.0169 S33: 0.0083 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: A 320 A 343 REMARK 3 ORIGIN FOR THE GROUP (A): 26.1991 86.3758 15.7524 REMARK 3 T TENSOR REMARK 3 T11: -0.0299 T22: 0.0438 REMARK 3 T33: -0.0154 T12: -0.0089 REMARK 3 T13: -0.0268 T23: 0.0239 REMARK 3 L TENSOR REMARK 3 L11: 0.4917 L22: 0.0312 REMARK 3 L33: 0.0793 L12: 0.5246 REMARK 3 L13: 0.4237 L23: -0.0677 REMARK 3 S TENSOR REMARK 3 S11: 0.0031 S12: -0.0038 S13: -0.0022 REMARK 3 S21: 0.0065 S22: -0.0043 S23: -0.0025 REMARK 3 S31: 0.0014 S32: -0.0090 S33: 0.0012 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: A 344 A 354 REMARK 3 ORIGIN FOR THE GROUP (A): 32.0607 104.6550 10.6826 REMARK 3 T TENSOR REMARK 3 T11: -0.0106 T22: 0.0068 REMARK 3 T33: 0.0048 T12: 0.0077 REMARK 3 T13: 0.0062 T23: -0.0159 REMARK 3 L TENSOR REMARK 3 L11: 0.0194 L22: 0.0414 REMARK 3 L33: 0.0100 L12: -0.0064 REMARK 3 L13: 0.0149 L23: 0.1034 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: -0.0028 S13: 0.0021 REMARK 3 S21: -0.0022 S22: -0.0001 S23: 0.0029 REMARK 3 S31: -0.0043 S32: -0.0014 S33: 0.0000 REMARK 3 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: A 401 A 401 REMARK 3 ORIGIN FOR THE GROUP (A): 33.6789 88.3663 9.2644 REMARK 3 T TENSOR REMARK 3 T11: -0.0051 T22: 0.0041 REMARK 3 T33: 0.0006 T12: -0.0082 REMARK 3 T13: -0.0048 T23: -0.0010 REMARK 3 L TENSOR REMARK 3 L11: 0.0214 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0351 REMARK 3 L13: 0.0121 L23: 0.0143 REMARK 3 S TENSOR REMARK 3 S11: 0.0004 S12: 0.0005 S13: -0.0002 REMARK 3 S21: -0.0032 S22: -0.0008 S23: -0.0008 REMARK 3 S31: 0.0014 S32: 0.0003 S33: 0.0005 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4DTF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1000070759. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JAN-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.3 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 : OTHER REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36963 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.120 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 15.60 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.17 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.4 REMARK 200 DATA REDUNDANCY IN SHELL : 14.00 REMARK 200 R MERGE FOR SHELL (I) : 0.48000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 4DTD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MIXING 300 NL OF PROTEIN AT 13MG/ML REMARK 280 WITH 100 NL OF 2.4 M AMSO4, 0.1 M BI-TRIS PH 6,3., TEMPERATURE REMARK 280 293K, PH 6.3 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+1/4 REMARK 290 8555 -Y,-X,-Z+3/4 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 38.29000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 57.43500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 19.14500 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 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 38.29000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 19.14500 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 57.43500 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 ASN A -11 REMARK 465 ALA A -10 REMARK 465 GLN A -9 REMARK 465 PRO A -8 REMARK 465 ASN A -7 REMARK 465 LEU A -6 REMARK 465 GLY A -5 REMARK 465 ARG A -4 REMARK 465 SER A -3 REMARK 465 THR A -2 REMARK 465 LYS A -1 REMARK 465 SER A 356 REMARK 465 THR A 357 REMARK 465 THR A 358 REMARK 465 LYS A 359 REMARK 465 SER A 360 REMARK 465 GLU A 361 REMARK 465 VAL A 362 REMARK 465 LYS A 363 REMARK 465 LEU A 364 REMARK 465 LEU A 365 REMARK 465 ASP A 366 REMARK 465 GLN A 367 REMARK 465 PHE A 368 REMARK 465 ASP A 369 REMARK 465 PRO A 370 REMARK 465 MET A 371 REMARK 465 LYS A 372 REMARK 465 ARG A 373 REMARK 465 LYS A 374 REMARK 465 THR A 375 REMARK 465 VAL A 376 REMARK 465 ILE A 377 REMARK 465 GLN A 378 REMARK 465 GLN A 379 REMARK 465 VAL A 380 REMARK 465 GLU A 381 REMARK 465 SER A 382 REMARK 465 LEU A 383 REMARK 465 VAL A 384 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 355 CB CG CD OE1 OE2 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 LYS A 10 -151.24 -132.67 REMARK 500 ASP A 51 -92.67 -122.36 REMARK 500 ASN A 238 -112.30 52.53 REMARK 500 GLU A 264 -59.00 72.44 REMARK 500 ALA A 317 71.16 -153.42 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 MG A 404 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 16 OE2 REMARK 620 2 ANP A 401 O2B 126.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 162 OE1 REMARK 620 2 GLU A 339 OE2 97.5 REMARK 620 3 HOH A 790 O 134.2 111.6 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ANP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 408 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DTD RELATED DB: PDB REMARK 900 NATIVE SE TOXIN ACD DOMAIN REMARK 900 RELATED ID: 4DTH RELATED DB: PDB REMARK 900 RELATED ID: 4DTL RELATED DB: PDB REMARK 900 RELATED ID: 4DTQ RELATED DB: PDB DBREF 4DTF A -11 384 UNP Q9KS45 Q9KS45_VIBCH 716 1111 SEQRES 1 A 396 ASN ALA GLN PRO ASN LEU GLY ARG SER THR LYS ALA THR SEQRES 2 A 396 PRO ASP PHE PRO THR HIS PHE PRO LYS SER SER ILE GLY SEQRES 3 A 396 ILE GLU ASN GLU LEU ALA GLY LEU VAL VAL ALA MET PRO SEQRES 4 A 396 ALA ASN SER ALA GLN LYS PHE GLY TYR VAL LYS SER ALA SEQRES 5 A 396 GLN GLY ASP ALA LEU PHE MET LEU THR LYS ASP MET ASN SEQRES 6 A 396 GLN GLY SER TYR GLN ARG PRO PRO SER LEU GLN ASP GLY SEQRES 7 A 396 LYS ASN TYR GLN ASN TRP GLN THR HIS THR VAL GLU LEU SEQRES 8 A 396 VAL SER TYR PRO CYS GLU MET ASP ASP LYS ALA ALA VAL SEQRES 9 A 396 GLU THR ARG LYS GLN ALA MET LEU TRP LEU ALA THR HIS SEQRES 10 A 396 PHE THR THR HIS ILE ASP GLN SER ASN HIS GLN PRO LEU SEQRES 11 A 396 ALA PRO ILE GLN SER GLU ASP GLY ARG PHE VAL ILE GLU SEQRES 12 A 396 ILE THR ASN ALA LYS HIS VAL ILE ALA ALA GLY ASN GLY SEQRES 13 A 396 ILE SER ALA GLU SER GLN GLY GLN THR ILE THR MET THR SEQRES 14 A 396 PRO SER GLY GLN GLN ALA THR VAL GLY VAL ALA ALA LYS SEQRES 15 A 396 GLY PHE GLY THR SER ALA THR PRO GLU LEU ARG LEU LEU SEQRES 16 A 396 GLU SER ALA PRO TRP TYR GLN LYS SER LEU LYS SER GLN SEQRES 17 A 396 PHE ALA SER LEU THR SER ALA GLU ASN LEU ASP ASP LYS SEQRES 18 A 396 GLU LEU ALA ALA ASN VAL PHE ALA TYR LEU THR SER ILE SEQRES 19 A 396 TYR LEU LYS THR ALA GLU LEU ALA LYS LYS PHE GLY ILE SEQRES 20 A 396 TYR ILE ASN GLU TRP ASP PRO MET SER GLU GLN ILE THR SEQRES 21 A 396 PRO ASN ALA ASN GLY LEU THR ASP PRO LYS VAL LYS ASN SEQRES 22 A 396 ALA TRP GLU ILE LEU PRO ARG THR LYS PRO SER LYS ILE SEQRES 23 A 396 VAL GLU ILE LEU SER LYS SER ASP ALA LYS ALA VAL MET SEQRES 24 A 396 LYS HIS ILE LYS PRO GLN LEU GLN SER ARG TYR SER GLU SEQRES 25 A 396 SER LEU SER LYS ASN VAL PHE GLN TYR PHE GLN ASP GLY SEQRES 26 A 396 GLY GLU VAL ALA GLY HIS GLY ILE ASN ASN ALA THR VAL SEQRES 27 A 396 GLY ASP LYS HIS SER PRO GLU LEU ALA ILE LEU PHE GLU SEQRES 28 A 396 PHE ARG THR VAL PRO ASN GLU LEU GLN SER TYR LEU PRO SEQRES 29 A 396 LYS THR GLU SER THR THR LYS SER GLU VAL LYS LEU LEU SEQRES 30 A 396 ASP GLN PHE ASP PRO MET LYS ARG LYS THR VAL ILE GLN SEQRES 31 A 396 GLN VAL GLU SER LEU VAL HET ANP A 401 31 HET GOL A 402 6 HET MG A 403 1 HET MG A 404 1 HET SO4 A 405 5 HET SO4 A 406 5 HET SO4 A 407 5 HET SO4 A 408 5 HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER HETNAM GOL GLYCEROL HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ANP C10 H17 N6 O12 P3 FORMUL 3 GOL C3 H8 O3 FORMUL 4 MG 2(MG 2+) FORMUL 6 SO4 4(O4 S 2-) FORMUL 10 HOH *504(H2 O) HELIX 1 1 PRO A 60 GLN A 64 5 5 HELIX 2 2 ASP A 88 SER A 113 1 26 HELIX 3 3 THR A 157 SER A 159 5 3 HELIX 4 4 LYS A 170 PHE A 172 5 3 HELIX 5 5 THR A 177 SER A 185 1 9 HELIX 6 6 SER A 192 THR A 201 1 10 HELIX 7 7 ASP A 208 GLY A 234 1 27 HELIX 8 8 ASP A 241 GLN A 246 5 6 HELIX 9 9 ASP A 256 GLU A 264 1 9 HELIX 10 10 LYS A 270 LEU A 278 5 9 HELIX 11 11 SER A 279 SER A 296 1 18 HELIX 12 12 SER A 299 ASP A 312 1 14 HELIX 13 13 PRO A 344 LEU A 351 5 8 SHEET 1 A10 VAL A 138 ALA A 141 0 SHEET 2 A10 LEU A 22 MET A 26 -1 N VAL A 23 O ALA A 140 SHEET 3 A10 GLN A 73 SER A 81 -1 O GLN A 73 N MET A 26 SHEET 4 A10 ALA A 44 SER A 56 -1 N GLY A 55 O THR A 74 SHEET 5 A10 LYS A 33 SER A 39 -1 N VAL A 37 O LEU A 45 SHEET 6 A10 PHE A 128 ILE A 132 -1 O GLU A 131 N TYR A 36 SHEET 7 A10 HIS A 7 PHE A 8 0 SHEET 8 A10 THR A 325 VAL A 326 1 O THR A 325 N PHE A 8 SHEET 9 A10 GLU A 333 PHE A 340 -1 O GLU A 333 N VAL A 326 SHEET 10 A10 ILE A 265 PRO A 267 -1 N LEU A 266 O GLU A 339 SHEET 1 B 3 GLN A 161 ALA A 168 0 SHEET 2 B 3 SER A 12 GLU A 18 -1 N GLY A 14 O THR A 164 SHEET 3 B 3 CYS A 84 GLU A 85 -1 O CYS A 84 N ILE A 13 LINK OE2 GLU A 16 MG MG A 404 1555 1555 2.71 LINK OE1 GLN A 162 MG MG A 403 1555 1555 2.45 LINK OE2 GLU A 339 MG MG A 403 1555 1555 2.61 LINK O2B ANP A 401 MG MG A 404 1555 1555 2.18 LINK MG MG A 403 O HOH A 790 1555 1555 2.76 SITE 1 AC1 18 PHE A 4 SER A 12 GLY A 14 ILE A 15 SITE 2 AC1 18 GLU A 16 VAL A 80 SER A 81 PRO A 83 SITE 3 AC1 18 THR A 164 LEU A 337 MG A 404 HOH A 727 SITE 4 AC1 18 HOH A 822 HOH A 905 HOH A 925 HOH A 965 SITE 5 AC1 18 HOH A 972 HOH A1004 SITE 1 AC2 6 GLN A 32 LYS A 50 SER A 56 HIS A 75 SITE 2 AC2 6 HOH A 596 HOH A 868 SITE 1 AC3 4 GLU A 16 GLN A 162 GLU A 339 HOH A 790 SITE 1 AC4 4 GLU A 16 GLU A 78 VAL A 80 ANP A 401 SITE 1 AC5 7 PRO A 257 LYS A 260 ARG A 341 HOH A 740 SITE 2 AC5 7 HOH A 790 HOH A 792 HOH A 813 SITE 1 AC6 10 ALA A 141 GLY A 142 ASN A 143 GLY A 144 SITE 2 AC6 10 ILE A 145 SER A 146 HOH A 558 HOH A 620 SITE 3 AC6 10 HOH A 791 HOH A 880 SITE 1 AC7 7 TRP A 101 HIS A 105 ILE A 121 SER A 123 SITE 2 AC7 7 GLU A 124 HOH A 588 HOH A 649 SITE 1 AC8 6 SER A 159 GLN A 162 ASN A 261 ARG A 341 SITE 2 AC8 6 HOH A 964 HOH A 992 CRYST1 128.390 128.390 76.580 90.00 90.00 90.00 P 43 2 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.007789 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007789 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013058 0.00000