HEADER HYDROLASE/IMMUNE SYSTEM 28-JUN-13 4LGS TITLE RICIN A CHAIN BOUND TO CAMELID NANOBODY (VHH4) COMPND MOL_ID: 1; COMPND 2 MOLECULE: RICIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 39-301; COMPND 5 SYNONYM: RICIN A CHAIN, RRNA N-GLYCOSIDASE; COMPND 6 EC: 3.2.2.22; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: CAMELID NANOBODY (VHH4); COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RICINUS COMMUNIS; SOURCE 3 ORGANISM_COMMON: CASTOR BEAN; SOURCE 4 ORGANISM_TAXID: 3988; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PUTA; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 12 ORGANISM_TAXID: 30538; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 15 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) ROSETTA; SOURCE 16 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 17 EXPRESSION_SYSTEM_PLASMID: MCSG7 KEYWDS RIBOSOMAL INHIBITING PROTEIN 2, HYDROLASE-IMMUNE SYSTEM COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.J.RUDOLPH,J.CHEUNG,M.FRANKLIN,F.BURSHTEYN,M.CASSIDY,E.GARY,N.MANTIS REVDAT 6 15-NOV-17 4LGS 1 REMARK REVDAT 5 15-MAR-17 4LGS 1 SOURCE REVDAT 4 20-AUG-14 4LGS 1 JRNL REVDAT 3 30-JUL-14 4LGS 1 JRNL REVDAT 2 02-JUL-14 4LGS 1 JRNL REVDAT 1 11-JUN-14 4LGS 0 JRNL AUTH M.J.RUDOLPH,D.J.VANCE,J.CHEUNG,M.C.FRANKLIN,F.BURSHTEYN, JRNL AUTH 2 M.S.CASSIDY,E.N.GARY,C.HERRERA,C.B.SHOEMAKER,N.J.MANTIS JRNL TITL CRYSTAL STRUCTURES OF RICIN TOXIN'S ENZYMATIC SUBUNIT (RTA) JRNL TITL 2 IN COMPLEX WITH NEUTRALIZING AND NON-NEUTRALIZING JRNL TITL 3 SINGLE-CHAIN ANTIBODIES. JRNL REF J.MOL.BIOL. V. 426 3057 2014 JRNL REFN ISSN 0022-2836 JRNL PMID 24907552 JRNL DOI 10.1016/J.JMB.2014.05.026 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7.1_743 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.36 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 13754 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 689 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 44.3672 - 4.6158 0.98 2698 136 0.1802 0.2059 REMARK 3 2 4.6158 - 3.6642 0.99 2635 140 0.1641 0.2139 REMARK 3 3 3.6642 - 3.2012 0.99 2629 149 0.2105 0.2753 REMARK 3 4 3.2012 - 2.9086 0.99 2614 129 0.2717 0.3341 REMARK 3 5 2.9086 - 2.7000 0.95 2489 135 0.3051 0.3874 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.29 REMARK 3 B_SOL : 31.23 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.730 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.290 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 74.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.95770 REMARK 3 B22 (A**2) : -5.01670 REMARK 3 B33 (A**2) : 4.05900 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -17.34050 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 3118 REMARK 3 ANGLE : 0.858 4234 REMARK 3 CHIRALITY : 0.064 464 REMARK 3 PLANARITY : 0.004 558 REMARK 3 DIHEDRAL : 14.142 1125 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 15 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 5:33) REMARK 3 ORIGIN FOR THE GROUP (A): -13.4733 22.9837 49.6941 REMARK 3 T TENSOR REMARK 3 T11: 0.2826 T22: 0.3379 REMARK 3 T33: 0.3758 T12: -0.0243 REMARK 3 T13: -0.0615 T23: 0.0479 REMARK 3 L TENSOR REMARK 3 L11: 7.3413 L22: 6.5914 REMARK 3 L33: 7.3704 L12: 0.2029 REMARK 3 L13: 2.4505 L23: 2.7169 REMARK 3 S TENSOR REMARK 3 S11: 0.0297 S12: -0.9808 S13: 0.0462 REMARK 3 S21: -0.5100 S22: -0.0248 S23: 0.4912 REMARK 3 S31: 0.0956 S32: -1.1112 S33: -0.1268 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 34:76) REMARK 3 ORIGIN FOR THE GROUP (A): -12.0072 14.9895 43.4189 REMARK 3 T TENSOR REMARK 3 T11: 0.5783 T22: 0.3906 REMARK 3 T33: 0.5838 T12: -0.0001 REMARK 3 T13: -0.3183 T23: 0.0008 REMARK 3 L TENSOR REMARK 3 L11: 3.9610 L22: 3.1373 REMARK 3 L33: 2.5977 L12: -0.3020 REMARK 3 L13: 1.1540 L23: -1.3277 REMARK 3 S TENSOR REMARK 3 S11: 0.5038 S12: 0.0316 S13: -0.9338 REMARK 3 S21: 0.4642 S22: -0.3410 S23: -0.3441 REMARK 3 S31: 0.6386 S32: -0.2288 S33: -0.2490 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 77:123) REMARK 3 ORIGIN FOR THE GROUP (A): -14.6868 19.0266 29.7872 REMARK 3 T TENSOR REMARK 3 T11: 0.5688 T22: 0.4774 REMARK 3 T33: 0.4863 T12: -0.0205 REMARK 3 T13: -0.3074 T23: -0.0645 REMARK 3 L TENSOR REMARK 3 L11: 4.8288 L22: 3.2937 REMARK 3 L33: 6.2986 L12: 2.4236 REMARK 3 L13: 0.8909 L23: -2.1045 REMARK 3 S TENSOR REMARK 3 S11: -0.1120 S12: 0.4274 S13: -0.2701 REMARK 3 S21: -0.3943 S22: 0.1684 S23: 0.1685 REMARK 3 S31: 0.6825 S32: -0.2628 S33: -0.1416 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 124:161) REMARK 3 ORIGIN FOR THE GROUP (A): -5.0186 32.7006 34.1342 REMARK 3 T TENSOR REMARK 3 T11: 0.3684 T22: 0.3094 REMARK 3 T33: 0.4194 T12: -0.0399 REMARK 3 T13: -0.0280 T23: 0.0647 REMARK 3 L TENSOR REMARK 3 L11: 9.0564 L22: 4.4267 REMARK 3 L33: 6.9380 L12: -2.5653 REMARK 3 L13: 1.4769 L23: -0.6277 REMARK 3 S TENSOR REMARK 3 S11: 0.3946 S12: 0.8678 S13: -0.1835 REMARK 3 S21: -0.4529 S22: -0.4598 S23: 0.0116 REMARK 3 S31: -0.3647 S32: 0.5326 S33: -0.0419 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 162:202) REMARK 3 ORIGIN FOR THE GROUP (A): -1.3562 28.9252 44.6675 REMARK 3 T TENSOR REMARK 3 T11: 0.2938 T22: 0.3608 REMARK 3 T33: 0.4712 T12: -0.0238 REMARK 3 T13: -0.0137 T23: -0.0367 REMARK 3 L TENSOR REMARK 3 L11: 3.4492 L22: 1.9231 REMARK 3 L33: 5.5273 L12: -0.9862 REMARK 3 L13: 1.4818 L23: -1.3977 REMARK 3 S TENSOR REMARK 3 S11: -0.1714 S12: 0.1172 S13: 0.3271 REMARK 3 S21: 0.0851 S22: -0.1927 S23: -0.6504 REMARK 3 S31: -0.6257 S32: 0.3998 S33: 0.2120 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 203:266) REMARK 3 ORIGIN FOR THE GROUP (A): 8.0255 10.7806 46.6684 REMARK 3 T TENSOR REMARK 3 T11: 0.5361 T22: 0.4519 REMARK 3 T33: 0.7303 T12: 0.1149 REMARK 3 T13: -0.2724 T23: -0.1510 REMARK 3 L TENSOR REMARK 3 L11: 2.0551 L22: 4.5903 REMARK 3 L33: 3.3616 L12: -1.1128 REMARK 3 L13: -0.5314 L23: -3.6304 REMARK 3 S TENSOR REMARK 3 S11: 0.3703 S12: -0.0678 S13: -0.3576 REMARK 3 S21: -0.4896 S22: -0.2717 S23: 0.0032 REMARK 3 S31: 0.7332 S32: 0.4241 S33: -0.0741 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 1:33) REMARK 3 ORIGIN FOR THE GROUP (A): -14.5533 22.5691 2.2567 REMARK 3 T TENSOR REMARK 3 T11: 1.1332 T22: 0.5232 REMARK 3 T33: 0.2902 T12: 0.0618 REMARK 3 T13: -0.3534 T23: -0.0968 REMARK 3 L TENSOR REMARK 3 L11: 4.7045 L22: 0.9417 REMARK 3 L33: 3.2747 L12: 0.2779 REMARK 3 L13: 1.4740 L23: 0.3930 REMARK 3 S TENSOR REMARK 3 S11: 0.4394 S12: 0.7103 S13: -0.1410 REMARK 3 S21: -1.6401 S22: -0.2720 S23: -0.2637 REMARK 3 S31: 0.2498 S32: 0.6083 S33: -0.1701 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 34:44) REMARK 3 ORIGIN FOR THE GROUP (A): -25.5294 29.5887 5.1987 REMARK 3 T TENSOR REMARK 3 T11: 1.2153 T22: 0.3353 REMARK 3 T33: 0.6033 T12: -0.0160 REMARK 3 T13: -0.4093 T23: -0.0222 REMARK 3 L TENSOR REMARK 3 L11: 5.8535 L22: 8.1368 REMARK 3 L33: 7.4503 L12: -4.9162 REMARK 3 L13: 5.4501 L23: -6.2949 REMARK 3 S TENSOR REMARK 3 S11: 0.1300 S12: 0.3274 S13: 1.0415 REMARK 3 S21: 1.1831 S22: -0.4014 S23: -0.7019 REMARK 3 S31: -0.8365 S32: 0.5277 S33: 0.3397 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 45:60) REMARK 3 ORIGIN FOR THE GROUP (A): -21.5823 19.6027 12.7088 REMARK 3 T TENSOR REMARK 3 T11: 0.9527 T22: 0.4945 REMARK 3 T33: 0.3901 T12: 0.0227 REMARK 3 T13: -0.1404 T23: -0.0383 REMARK 3 L TENSOR REMARK 3 L11: 4.2521 L22: 8.0330 REMARK 3 L33: 9.5573 L12: -3.4717 REMARK 3 L13: 5.5780 L23: -0.4924 REMARK 3 S TENSOR REMARK 3 S11: -0.2179 S12: -0.6055 S13: 0.1622 REMARK 3 S21: 1.0413 S22: 0.0453 S23: -0.1501 REMARK 3 S31: 0.1768 S32: -1.0451 S33: 0.0095 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 61:73) REMARK 3 ORIGIN FOR THE GROUP (A): -25.4344 16.6527 6.7274 REMARK 3 T TENSOR REMARK 3 T11: 0.8437 T22: 0.5834 REMARK 3 T33: 0.2987 T12: -0.1391 REMARK 3 T13: -0.1189 T23: 0.0657 REMARK 3 L TENSOR REMARK 3 L11: 9.1598 L22: 7.8252 REMARK 3 L33: 5.3624 L12: -1.2734 REMARK 3 L13: 5.2227 L23: -2.2268 REMARK 3 S TENSOR REMARK 3 S11: 0.4888 S12: -0.5240 S13: -0.7187 REMARK 3 S21: -0.6795 S22: 0.2049 S23: 0.6258 REMARK 3 S31: 1.2606 S32: -0.8479 S33: -0.6080 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 74:83) REMARK 3 ORIGIN FOR THE GROUP (A): -14.2658 16.7977 3.7579 REMARK 3 T TENSOR REMARK 3 T11: 0.7708 T22: 0.7176 REMARK 3 T33: 0.4024 T12: 0.1498 REMARK 3 T13: -0.0439 T23: -0.1839 REMARK 3 L TENSOR REMARK 3 L11: 2.1380 L22: 6.6884 REMARK 3 L33: 2.2978 L12: 1.5128 REMARK 3 L13: 2.1926 L23: 0.9813 REMARK 3 S TENSOR REMARK 3 S11: -0.0742 S12: 1.1123 S13: -0.1075 REMARK 3 S21: -1.8713 S22: -0.1836 S23: 0.1959 REMARK 3 S31: 0.1488 S32: 0.8255 S33: -0.1469 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 84:98) REMARK 3 ORIGIN FOR THE GROUP (A): -26.3233 24.1200 0.6669 REMARK 3 T TENSOR REMARK 3 T11: 1.1307 T22: 0.4586 REMARK 3 T33: 0.5274 T12: -0.0775 REMARK 3 T13: -0.4687 T23: -0.1026 REMARK 3 L TENSOR REMARK 3 L11: 4.4523 L22: 2.9086 REMARK 3 L33: 5.9061 L12: 0.2382 REMARK 3 L13: 3.3856 L23: -1.9237 REMARK 3 S TENSOR REMARK 3 S11: -0.0642 S12: -1.4326 S13: -0.1319 REMARK 3 S21: 0.1440 S22: -0.5967 S23: 0.7831 REMARK 3 S31: -0.7258 S32: -0.3276 S33: 0.1794 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 99:115) REMARK 3 ORIGIN FOR THE GROUP (A): -19.2707 26.0852 18.4066 REMARK 3 T TENSOR REMARK 3 T11: 0.6925 T22: 0.6579 REMARK 3 T33: 0.3874 T12: -0.0018 REMARK 3 T13: -0.2055 T23: -0.0378 REMARK 3 L TENSOR REMARK 3 L11: 3.0646 L22: 3.8823 REMARK 3 L33: 6.9955 L12: -1.6274 REMARK 3 L13: -3.3562 L23: -0.6552 REMARK 3 S TENSOR REMARK 3 S11: -0.2460 S12: -0.6498 S13: -0.0179 REMARK 3 S21: 0.3667 S22: 0.3828 S23: -0.0972 REMARK 3 S31: -1.0264 S32: -0.4910 S33: -0.2834 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 116:122) REMARK 3 ORIGIN FOR THE GROUP (A): -14.8464 30.9373 8.3724 REMARK 3 T TENSOR REMARK 3 T11: 1.4150 T22: 0.5711 REMARK 3 T33: 0.7295 T12: -0.1097 REMARK 3 T13: -0.4288 T23: -0.0471 REMARK 3 L TENSOR REMARK 3 L11: 4.0982 L22: 4.4078 REMARK 3 L33: 6.2779 L12: -4.2189 REMARK 3 L13: -5.0455 L23: 5.2546 REMARK 3 S TENSOR REMARK 3 S11: 1.1170 S12: -0.3122 S13: 1.3781 REMARK 3 S21: -0.7122 S22: 0.2569 S23: -1.3627 REMARK 3 S31: -1.0671 S32: 0.8953 S33: -0.8654 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 123:129) REMARK 3 ORIGIN FOR THE GROUP (A): -28.1637 25.7259 -7.1375 REMARK 3 T TENSOR REMARK 3 T11: 0.8526 T22: 0.8119 REMARK 3 T33: 0.5697 T12: 0.1064 REMARK 3 T13: -0.2297 T23: 0.1185 REMARK 3 L TENSOR REMARK 3 L11: 3.0585 L22: 7.0997 REMARK 3 L33: 5.6333 L12: -1.0076 REMARK 3 L13: -2.4988 L23: -0.4739 REMARK 3 S TENSOR REMARK 3 S11: -0.1996 S12: 1.2958 S13: 0.7126 REMARK 3 S21: -0.2184 S22: -0.0972 S23: 0.4129 REMARK 3 S31: -1.0378 S32: -1.0910 S33: 0.1076 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4LGS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JUL-13. REMARK 100 THE DEPOSITION ID IS D_1000080610. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-MAR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.08 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17642 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.410 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.1 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.41 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 53.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : 0.73900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.4 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM NAHEPES, 20% PEG 8000, PH 7.5, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 293K 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 45.69550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.96750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.69550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 24.96750 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 302 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 309 LIES ON A SPECIAL POSITION. 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 GLY B 57 N - CA - C ANGL. DEV. = -15.7 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 GLU A 41 -5.13 76.41 REMARK 500 ILE A 175 -63.26 -123.11 REMARK 500 ILE A 251 -66.37 -100.22 REMARK 500 SER A 265 -70.99 -49.93 REMARK 500 ASN B 84 -72.10 -109.56 REMARK 500 ALA B 92 164.30 177.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER B 56 GLY B 57 139.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LGP RELATED DB: PDB REMARK 900 RICIN A CHAIN BOUND TO CAMELID NANOBODY (VHH1) REMARK 900 RELATED ID: 4LGR RELATED DB: PDB REMARK 900 RICIN A CHAIN BOUND TO CAMELID NANOBODY (VHH3) REMARK 900 RELATED ID: 4LHJ RELATED DB: PDB REMARK 900 RICIN A CHAIN BOUND TO CAMELID NANOBODY (VHH5) REMARK 900 RELATED ID: 4LHQ RELATED DB: PDB REMARK 900 RICIN A CHAIN BOUND TO CAMELID NANOBODY (VHH8) DBREF 4LGS A 4 266 UNP P02879 RICI_RICCO 39 301 DBREF 4LGS B 1 129 PDB 4LGS 4LGS 1 129 SEQRES 1 A 263 LYS GLN TYR PRO ILE ILE ASN PHE THR THR ALA GLY ALA SEQRES 2 A 263 THR VAL GLN SER TYR THR ASN PHE ILE ARG ALA VAL ARG SEQRES 3 A 263 GLY ARG LEU THR THR GLY ALA ASP VAL ARG HIS GLU ILE SEQRES 4 A 263 PRO VAL LEU PRO ASN ARG VAL GLY LEU PRO ILE ASN GLN SEQRES 5 A 263 ARG PHE ILE LEU VAL GLU LEU SER ASN HIS ALA GLU LEU SEQRES 6 A 263 SER VAL THR LEU ALA LEU ASP VAL THR ASN ALA TYR VAL SEQRES 7 A 263 VAL GLY TYR ARG ALA GLY ASN SER ALA TYR PHE PHE HIS SEQRES 8 A 263 PRO ASP ASN GLN GLU ASP ALA GLU ALA ILE THR HIS LEU SEQRES 9 A 263 PHE THR ASP VAL GLN ASN ARG TYR THR PHE ALA PHE GLY SEQRES 10 A 263 GLY ASN TYR ASP ARG LEU GLU GLN LEU ALA GLY ASN LEU SEQRES 11 A 263 ARG GLU ASN ILE GLU LEU GLY ASN GLY PRO LEU GLU GLU SEQRES 12 A 263 ALA ILE SER ALA LEU TYR TYR TYR SER THR GLY GLY THR SEQRES 13 A 263 GLN LEU PRO THR LEU ALA ARG SER PHE ILE ILE CYS ILE SEQRES 14 A 263 GLN MET ILE SER GLU ALA ALA ARG PHE GLN TYR ILE GLU SEQRES 15 A 263 GLY GLU MET ARG THR ARG ILE ARG TYR ASN ARG ARG SER SEQRES 16 A 263 ALA PRO ASP PRO SER VAL ILE THR LEU GLU ASN SER TRP SEQRES 17 A 263 GLY ARG LEU SER THR ALA ILE GLN GLU SER ASN GLN GLY SEQRES 18 A 263 ALA PHE ALA SER PRO ILE GLN LEU GLN ARG ARG ASN GLY SEQRES 19 A 263 SER LYS PHE SER VAL TYR ASP VAL SER ILE LEU ILE PRO SEQRES 20 A 263 ILE ILE ALA LEU MET VAL TYR ARG CYS ALA PRO PRO PRO SEQRES 21 A 263 SER SER GLN SEQRES 1 B 129 GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 B 129 ALA GLY GLY SER LEU SER LEU SER CYS ALA ALA SER GLY SEQRES 3 B 129 GLY ASP PHE SER ARG ASN ALA MET ALA TRP PHE ARG GLN SEQRES 4 B 129 ALA PRO GLY LYS GLU ARG GLU PHE VAL ALA SER ILE ASN SEQRES 5 B 129 TRP THR GLY SER GLY THR TYR TYR LEU ASP SER VAL LYS SEQRES 6 B 129 GLY ARG PHE THR ILE SER ARG ASP ASN ALA LYS ASN ALA SEQRES 7 B 129 LEU TYR LEU GLN MET ASN ASN LEU LYS PRO GLU ASP THR SEQRES 8 B 129 ALA VAL TYR TYR CYS ALA ARG SER THR VAL PHE ALA GLU SEQRES 9 B 129 ILE THR GLY LEU ALA GLY TYR GLN SER GLY SER TYR ASP SEQRES 10 B 129 TYR TRP GLY GLN GLY THR GLN VAL THR VAL SER SER FORMUL 3 HOH *18(H2 O) HELIX 1 1 THR A 17 THR A 33 1 17 HELIX 2 2 PRO A 52 GLN A 55 5 4 HELIX 3 3 ASN A 97 ILE A 104 1 8 HELIX 4 4 THR A 105 LEU A 107 5 3 HELIX 5 5 ASN A 122 GLY A 131 1 10 HELIX 6 6 LEU A 133 ILE A 137 5 5 HELIX 7 7 GLY A 140 TYR A 153 1 14 HELIX 8 8 GLN A 160 PHE A 181 1 22 HELIX 9 9 PHE A 181 ASN A 195 1 15 HELIX 10 10 ASP A 201 SER A 221 1 21 HELIX 11 11 LYS B 87 THR B 91 5 5 HELIX 12 12 ALA B 109 TYR B 116 5 8 SHEET 1 A 7 ILE A 8 THR A 12 0 SHEET 2 A 7 PHE A 57 SER A 63 1 O LEU A 59 N ILE A 9 SHEET 3 A 7 SER A 69 ASP A 75 -1 O VAL A 70 N LEU A 62 SHEET 4 A 7 TYR A 80 ALA A 86 -1 O TYR A 80 N ASP A 75 SHEET 5 A 7 SER A 89 PHE A 92 -1 O TYR A 91 N TYR A 84 SHEET 6 A 7 ASN A 113 PHE A 117 1 O PHE A 117 N PHE A 92 SHEET 7 A 7 PHE B 102 GLY B 107 -1 O GLU B 104 N THR A 116 SHEET 1 B 2 VAL A 38 ARG A 39 0 SHEET 2 B 2 ILE A 42 PRO A 43 -1 O ILE A 42 N ARG A 39 SHEET 1 C 2 ALA A 225 GLN A 233 0 SHEET 2 C 2 LYS A 239 ASP A 244 -1 O PHE A 240 N LEU A 232 SHEET 1 D 4 GLN B 3 SER B 7 0 SHEET 2 D 4 LEU B 18 SER B 25 -1 O ALA B 23 N VAL B 5 SHEET 3 D 4 ALA B 78 MET B 83 -1 O LEU B 81 N LEU B 20 SHEET 4 D 4 PHE B 68 ASP B 73 -1 N SER B 71 O TYR B 80 SHEET 1 E 6 GLY B 10 GLN B 13 0 SHEET 2 E 6 THR B 123 SER B 128 1 O SER B 128 N VAL B 12 SHEET 3 E 6 ALA B 92 SER B 99 -1 N TYR B 94 O THR B 123 SHEET 4 E 6 ALA B 33 GLN B 39 -1 N PHE B 37 O TYR B 95 SHEET 5 E 6 GLU B 46 ILE B 51 -1 O ILE B 51 N MET B 34 SHEET 6 E 6 THR B 58 TYR B 60 -1 O TYR B 59 N SER B 50 SHEET 1 F 4 GLY B 10 GLN B 13 0 SHEET 2 F 4 THR B 123 SER B 128 1 O SER B 128 N VAL B 12 SHEET 3 F 4 ALA B 92 SER B 99 -1 N TYR B 94 O THR B 123 SHEET 4 F 4 TYR B 118 TRP B 119 -1 O TYR B 118 N ARG B 98 SSBOND 1 CYS B 22 CYS B 96 1555 1555 2.04 CRYST1 91.391 49.935 114.442 90.00 103.88 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 0.010942 0.000000 0.002704 0.00000 SCALE2 0.000000 0.020026 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009001 0.00000