HEADER TOXIN 21-FEB-12 4DTL TITLE STRUCTURE OF A VGRG VIBRIO CHOLERAE TOXIN ACD DOMAIN IN COMPLEX WITH TITLE 2 ATP AND MN++ CAVEAT 4DTL SEVERAL FAR AWAY WATER MOLECULES COMPND MOL_ID: 1; COMPND 2 MOLECULE: VGRG PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 717-1111; 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: PETG20A KEYWDS ALPHA-BETA PROTEIN, G-ACTIN CROSS LINKING TOXIN DOMAIN, G-ACTIN, KEYWDS 2 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 28-FEB-24 4DTL 1 REMARK SEQADV LINK REVDAT 1 29-AUG-12 4DTL 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 ATP AND MN++ JRNL REF J.BIOL.CHEM. 2012 JRNL REFN ESSN 1083-351X REMARK 2 REMARK 2 RESOLUTION. 2.39 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) : 2.39 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.88 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 25603 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1307 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 : 13 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.39 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.49 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.09 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2675 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2288 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2531 REMARK 3 BIN R VALUE (WORKING SET) : 0.2278 REMARK 3 BIN FREE R VALUE : 0.2460 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.38 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 144 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 : 54 REMARK 3 SOLVENT ATOMS : 391 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.32 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.89 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.48480 REMARK 3 B22 (A**2) : -2.48480 REMARK 3 B33 (A**2) : 4.96950 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) : 0.290 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) : 0.233 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 : 0.924 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 2918 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 3979 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1003 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 80 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 437 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 2918 ; 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 : 389 ; 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 : 3559 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.08 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.83 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 19.46 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): 34.4180 89.2306 16.5151 REMARK 3 T TENSOR REMARK 3 T11: -0.0131 T22: 0.0153 REMARK 3 T33: -0.0010 T12: 0.0018 REMARK 3 T13: 0.0243 T23: 0.0070 REMARK 3 L TENSOR REMARK 3 L11: 0.3040 L22: 0.1799 REMARK 3 L33: 0.0020 L12: 0.1707 REMARK 3 L13: 0.0981 L23: -0.3174 REMARK 3 S TENSOR REMARK 3 S11: 0.0007 S12: -0.0011 S13: -0.0028 REMARK 3 S21: 0.0015 S22: -0.0002 S23: -0.0067 REMARK 3 S31: 0.0003 S32: -0.0007 S33: -0.0005 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { A|18 - A|53 } REMARK 3 ORIGIN FOR THE GROUP (A): 46.1446 89.9790 6.2411 REMARK 3 T TENSOR REMARK 3 T11: -0.0450 T22: 0.0283 REMARK 3 T33: 0.0068 T12: -0.0194 REMARK 3 T13: -0.0118 T23: -0.0392 REMARK 3 L TENSOR REMARK 3 L11: 1.3301 L22: 0.0000 REMARK 3 L33: 0.0030 L12: 0.2213 REMARK 3 L13: -0.2802 L23: 0.2942 REMARK 3 S TENSOR REMARK 3 S11: 0.0006 S12: 0.0140 S13: -0.0116 REMARK 3 S21: 0.0075 S22: 0.0044 S23: 0.0094 REMARK 3 S31: 0.0027 S32: -0.0062 S33: -0.0049 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { A|54 - A|78 } REMARK 3 ORIGIN FOR THE GROUP (A): 55.3143 87.9800 -7.2317 REMARK 3 T TENSOR REMARK 3 T11: -0.0489 T22: 0.0489 REMARK 3 T33: 0.0020 T12: 0.0271 REMARK 3 T13: -0.0093 T23: -0.0325 REMARK 3 L TENSOR REMARK 3 L11: 0.3053 L22: 0.0011 REMARK 3 L33: 0.3206 L12: 0.1357 REMARK 3 L13: 0.2608 L23: 0.3413 REMARK 3 S TENSOR REMARK 3 S11: 0.0005 S12: 0.0145 S13: -0.0121 REMARK 3 S21: -0.0104 S22: -0.0017 S23: -0.0008 REMARK 3 S31: 0.0070 S32: 0.0049 S33: 0.0012 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { A|79 - A|116 } REMARK 3 ORIGIN FOR THE GROUP (A): 46.5221 98.5589 11.2869 REMARK 3 T TENSOR REMARK 3 T11: -0.0520 T22: 0.0415 REMARK 3 T33: -0.0233 T12: -0.0204 REMARK 3 T13: -0.0018 T23: -0.0307 REMARK 3 L TENSOR REMARK 3 L11: 0.6014 L22: 0.0653 REMARK 3 L33: 0.8359 L12: 0.2417 REMARK 3 L13: 1.1617 L23: 0.4665 REMARK 3 S TENSOR REMARK 3 S11: 0.0011 S12: 0.0029 S13: 0.0062 REMARK 3 S21: 0.0089 S22: -0.0087 S23: 0.0000 REMARK 3 S31: -0.0025 S32: -0.0007 S33: 0.0076 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: { A|117 - A|143 } REMARK 3 ORIGIN FOR THE GROUP (A): 54.1966 93.2212 9.4856 REMARK 3 T TENSOR REMARK 3 T11: -0.0183 T22: 0.0344 REMARK 3 T33: -0.0191 T12: -0.0095 REMARK 3 T13: -0.0084 T23: -0.0227 REMARK 3 L TENSOR REMARK 3 L11: 0.8036 L22: 0.0000 REMARK 3 L33: 0.0674 L12: -0.1641 REMARK 3 L13: 0.0317 L23: 0.1145 REMARK 3 S TENSOR REMARK 3 S11: 0.0016 S12: -0.0063 S13: -0.0002 REMARK 3 S21: 0.0014 S22: -0.0041 S23: -0.0072 REMARK 3 S31: 0.0031 S32: 0.0060 S33: 0.0026 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: { A|144 - A|170 } REMARK 3 ORIGIN FOR THE GROUP (A): 40.7968 99.1036 2.8129 REMARK 3 T TENSOR REMARK 3 T11: -0.0317 T22: 0.0196 REMARK 3 T33: -0.0191 T12: -0.0056 REMARK 3 T13: 0.0076 T23: 0.0138 REMARK 3 L TENSOR REMARK 3 L11: 0.4475 L22: 0.1513 REMARK 3 L33: 0.8888 L12: 0.5648 REMARK 3 L13: 1.4974 L23: -0.8041 REMARK 3 S TENSOR REMARK 3 S11: 0.0023 S12: 0.0004 S13: 0.0159 REMARK 3 S21: -0.0161 S22: -0.0098 S23: 0.0000 REMARK 3 S31: -0.0101 S32: -0.0104 S33: 0.0075 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: { A|171 - A|206 } REMARK 3 ORIGIN FOR THE GROUP (A): 9.3035 91.3397 13.1242 REMARK 3 T TENSOR REMARK 3 T11: -0.0785 T22: 0.0815 REMARK 3 T33: -0.0073 T12: 0.0488 REMARK 3 T13: 0.0078 T23: -0.0229 REMARK 3 L TENSOR REMARK 3 L11: 0.6767 L22: 0.0000 REMARK 3 L33: 0.2983 L12: -0.4165 REMARK 3 L13: 0.1520 L23: 0.3260 REMARK 3 S TENSOR REMARK 3 S11: 0.0022 S12: -0.0097 S13: 0.0056 REMARK 3 S21: 0.0001 S22: 0.0055 S23: 0.0038 REMARK 3 S31: -0.0030 S32: -0.0163 S33: -0.0077 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: { A|207 - A|236 } REMARK 3 ORIGIN FOR THE GROUP (A): 12.4541 85.6717 3.9538 REMARK 3 T TENSOR REMARK 3 T11: -0.0842 T22: 0.0714 REMARK 3 T33: -0.0121 T12: 0.0297 REMARK 3 T13: -0.0253 T23: 0.0111 REMARK 3 L TENSOR REMARK 3 L11: 1.3949 L22: 0.0000 REMARK 3 L33: 0.0293 L12: -0.7878 REMARK 3 L13: 0.8557 L23: -0.7040 REMARK 3 S TENSOR REMARK 3 S11: 0.0062 S12: -0.0123 S13: 0.0089 REMARK 3 S21: -0.0057 S22: -0.0118 S23: 0.0017 REMARK 3 S31: 0.0065 S32: -0.0081 S33: 0.0055 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: { A|237 - A|269 } REMARK 3 ORIGIN FOR THE GROUP (A): 20.6489 85.8837 -7.1138 REMARK 3 T TENSOR REMARK 3 T11: -0.0233 T22: 0.0403 REMARK 3 T33: -0.0240 T12: 0.0281 REMARK 3 T13: -0.0032 T23: 0.0228 REMARK 3 L TENSOR REMARK 3 L11: 0.7104 L22: 0.0000 REMARK 3 L33: 0.1369 L12: -0.1626 REMARK 3 L13: -0.5715 L23: 0.0891 REMARK 3 S TENSOR REMARK 3 S11: -0.0009 S12: 0.0052 S13: -0.0052 REMARK 3 S21: -0.0142 S22: -0.0058 S23: -0.0016 REMARK 3 S31: 0.0037 S32: 0.0093 S33: 0.0067 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: { A|270 - A|319 } REMARK 3 ORIGIN FOR THE GROUP (A): 12.0087 78.3229 4.6773 REMARK 3 T TENSOR REMARK 3 T11: -0.0948 T22: 0.0883 REMARK 3 T33: -0.0021 T12: -0.0170 REMARK 3 T13: -0.0296 T23: 0.0426 REMARK 3 L TENSOR REMARK 3 L11: 1.3074 L22: 0.0000 REMARK 3 L33: 0.7999 L12: 0.1394 REMARK 3 L13: -0.3574 L23: -0.7257 REMARK 3 S TENSOR REMARK 3 S11: 0.0037 S12: 0.0050 S13: -0.0244 REMARK 3 S21: 0.0086 S22: -0.0101 S23: 0.0007 REMARK 3 S31: 0.0253 S32: -0.0144 S33: 0.0064 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: { A|320 - A|343 } REMARK 3 ORIGIN FOR THE GROUP (A): 26.1937 86.7265 15.7447 REMARK 3 T TENSOR REMARK 3 T11: -0.0269 T22: 0.0355 REMARK 3 T33: -0.0206 T12: 0.0042 REMARK 3 T13: -0.0185 T23: 0.0459 REMARK 3 L TENSOR REMARK 3 L11: 0.8102 L22: 0.0009 REMARK 3 L33: 0.0369 L12: 0.0578 REMARK 3 L13: 0.3204 L23: -0.0053 REMARK 3 S TENSOR REMARK 3 S11: 0.0028 S12: -0.0047 S13: 0.0041 REMARK 3 S21: 0.0068 S22: -0.0064 S23: -0.0011 REMARK 3 S31: -0.0009 S32: -0.0078 S33: 0.0036 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: { A|344 - A|355 } REMARK 3 ORIGIN FOR THE GROUP (A): 32.6433 105.0400 10.4766 REMARK 3 T TENSOR REMARK 3 T11: -0.0071 T22: 0.0025 REMARK 3 T33: 0.0116 T12: 0.0084 REMARK 3 T13: 0.0125 T23: 0.0027 REMARK 3 L TENSOR REMARK 3 L11: 0.0186 L22: 0.1623 REMARK 3 L33: 0.0250 L12: -0.0983 REMARK 3 L13: -0.0019 L23: 0.0072 REMARK 3 S TENSOR REMARK 3 S11: 0.0001 S12: -0.0002 S13: 0.0028 REMARK 3 S21: -0.0034 S22: 0.0003 S23: -0.0005 REMARK 3 S31: -0.0067 S32: 0.0009 S33: -0.0004 REMARK 3 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: { A|401 - A|401 } REMARK 3 ORIGIN FOR THE GROUP (A): 33.3846 89.0463 9.4254 REMARK 3 T TENSOR REMARK 3 T11: -0.0083 T22: 0.0066 REMARK 3 T33: -0.0024 T12: -0.0164 REMARK 3 T13: -0.0129 T23: -0.0048 REMARK 3 L TENSOR REMARK 3 L11: 0.0087 L22: 0.0000 REMARK 3 L33: 0.0046 L12: 0.0952 REMARK 3 L13: 0.0164 L23: 0.0176 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: -0.0009 S13: -0.0008 REMARK 3 S21: -0.0027 S22: 0.0004 S23: -0.0001 REMARK 3 S31: 0.0007 S32: -0.0002 S33: -0.0005 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4DTL 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_1000070765. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-FEB-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 : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25641 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.390 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 : 4.200 REMARK 200 R MERGE (I) : 0.12900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.39 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.46 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.65000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: BUSTER 2.11.2 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.60 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, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 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 38.09500 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 57.14250 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 19.04750 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 38.09500 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 19.04750 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 57.14250 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 GLY 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: 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 O2B ATP A 401 MN MN A 404 1.61 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 LYS A 10 -157.33 -135.37 REMARK 500 ASP A 51 -94.28 -117.37 REMARK 500 ASN A 238 -111.44 47.88 REMARK 500 GLU A 264 -60.50 71.77 REMARK 500 ALA A 317 72.37 -154.40 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 MN A 403 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 16 OE1 REMARK 620 2 GLU A 16 OE2 54.2 REMARK 620 3 GLN A 162 OE1 101.8 116.1 REMARK 620 4 ATP A 401 O2G 155.1 100.9 90.2 REMARK 620 5 ATP A 401 O3B 101.0 64.2 150.1 61.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 404 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 16 OE2 REMARK 620 2 GLU A 78 OE1 112.0 REMARK 620 3 ATP A 401 O1G 98.5 121.6 REMARK 620 4 ATP A 401 O2A 84.5 108.7 123.2 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 ATP 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 MN A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN 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 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DTD RELATED DB: PDB REMARK 900 RELATED ID: 4DTF RELATED DB: PDB REMARK 900 RELATED ID: 4DTH RELATED DB: PDB REMARK 900 RELATED ID: 4DTQ RELATED DB: PDB DBREF 4DTL A -10 384 UNP Q9KS45 Q9KS45_VIBCH 717 1111 SEQADV 4DTL GLY A -11 UNP Q9KS45 EXPRESSION TAG SEQRES 1 A 396 GLY 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 ATP A 401 58 HET GOL A 402 6 HET MN A 403 1 HET MN A 404 1 HET SO4 A 405 5 HET SO4 A 406 5 HET SO4 A 407 5 HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM GOL GLYCEROL HETNAM MN MANGANESE (II) ION HETNAM SO4 SULFATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ATP C10 H16 N5 O13 P3 FORMUL 3 GOL C3 H8 O3 FORMUL 4 MN 2(MN 2+) FORMUL 6 SO4 3(O4 S 2-) FORMUL 9 HOH *391(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 LYS A 191 THR A 201 1 11 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 HIS A 75 N VAL A 24 SHEET 4 A10 ALA A 44 SER A 56 -1 N MET A 47 O VAL A 80 SHEET 5 A10 LYS A 33 SER A 39 -1 N GLY A 35 O LEU A 48 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 GLY A 327 1 O THR A 325 N PHE A 8 SHEET 9 A10 PRO A 332 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 OE1 GLU A 16 MN MN A 403 1555 1555 2.31 LINK OE2 GLU A 16 MN MN A 403 1555 1555 2.50 LINK OE2 GLU A 16 MN MN A 404 1555 1555 2.17 LINK OE1 GLU A 78 MN MN A 404 1555 1555 2.29 LINK OE1 GLN A 162 MN MN A 403 1555 1555 2.63 LINK O2GAATP A 401 MN MN A 403 1555 1555 2.44 LINK O3BBATP A 401 MN MN A 403 1555 1555 2.56 LINK O1GAATP A 401 MN MN A 404 1555 1555 1.93 LINK O2ABATP A 401 MN MN A 404 1555 1555 2.70 SITE 1 AC1 22 PHE A 4 SER A 12 GLY A 14 ILE A 15 SITE 2 AC1 22 GLU A 16 GLU A 78 VAL A 80 SER A 81 SITE 3 AC1 22 PRO A 83 GLN A 162 THR A 164 ARG A 268 SITE 4 AC1 22 ILE A 321 LEU A 337 MN A 403 MN A 404 SITE 5 AC1 22 SO4 A 405 HOH A 513 HOH A 516 HOH A 549 SITE 6 AC1 22 HOH A 601 HOH A 811 SITE 1 AC2 5 GLN A 32 LYS A 50 SER A 56 HIS A 75 SITE 2 AC2 5 HOH A 725 SITE 1 AC3 4 GLU A 16 GLN A 162 GLU A 339 ATP A 401 SITE 1 AC4 3 GLU A 16 GLU A 78 ATP A 401 SITE 1 AC5 5 PRO A 257 LYS A 260 ARG A 341 ATP A 401 SITE 2 AC5 5 HOH A 805 SITE 1 AC6 8 ALA A 141 GLY A 142 ASN A 143 GLY A 144 SITE 2 AC6 8 ILE A 145 SER A 146 HOH A 589 HOH A 887 SITE 1 AC7 6 TRP A 101 HIS A 105 ILE A 121 SER A 123 SITE 2 AC7 6 GLU A 124 HOH A 560 CRYST1 128.480 128.480 76.190 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 0.007783 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007783 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013125 0.00000