HEADER HYDROLASE/RNA/DNA 09-JUN-18 6DOI TITLE CRYSTAL STRUCTURE OF BACILLUS HALODURANS RIBONUCLEASE H1 IN COMPLEX TITLE 2 WITH AN RNA/DNA HYBRID (1.54 ANGSTROM WAVELENGTH): SOAK IN 0.5 MM TITLE 3 EGTA AND 200 MM K+ AT 21 C COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEASE H; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN; COMPND 5 SYNONYM: RNASE H; COMPND 6 EC: 3.1.26.4; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: 5'-R(*AP*CP*AP*U)-3' PORTION OF INTACT RNA (5'- COMPND 10 R(*AP*CP*AP*UP*CP*G)-3'); COMPND 11 CHAIN: B; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: 5'-R(P*CP*G)-3' PORTION OF INTACT RNA (5'- COMPND 15 R(*AP*CP*AP*UP*CP*G)-3'); COMPND 16 CHAIN: b; COMPND 17 ENGINEERED: YES; COMPND 18 MOL_ID: 4; COMPND 19 MOLECULE: DNA (5'-D(*CP*GP*AP*TP*GP*T)-3'); COMPND 20 CHAIN: C; COMPND 21 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS HALODURANS C-125; SOURCE 3 ORGANISM_TAXID: 272558; SOURCE 4 STRAIN: ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125; SOURCE 5 GENE: RNHA, BH0863; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 14 ORGANISM_TAXID: 32644; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 18 ORGANISM_TAXID: 32644; SOURCE 19 MOL_ID: 4; SOURCE 20 SYNTHETIC: YES; SOURCE 21 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 22 ORGANISM_TAXID: 32644 KEYWDS PROTEIN-RNA-DNA COMPLEX, DOUBLE HELIX, RNA HYDROLYSIS, IN CRYSTALLO KEYWDS 2 CATALYSIS, METAL DEPENDENT CATALYSIS, MONOVALENT CATIONS, DIVALENT KEYWDS 3 CATIONS, HYDROLASE-RNA-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.L.SAMARA,W.YANG REVDAT 2 11-OCT-23 6DOI 1 LINK REVDAT 1 22-AUG-18 6DOI 0 JRNL AUTH N.L.SAMARA,W.YANG JRNL TITL CATION TRAFFICKING PROPELS RNA HYDROLYSIS. JRNL REF NAT. STRUCT. MOL. BIOL. V. 25 715 2018 JRNL REFN ESSN 1545-9985 JRNL PMID 30076410 JRNL DOI 10.1038/S41594-018-0099-4 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.1 REMARK 3 NUMBER OF REFLECTIONS : 12947 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.149 REMARK 3 R VALUE (WORKING SET) : 0.147 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 608 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 22.0110 - 3.0899 0.94 3216 164 0.1316 0.1737 REMARK 3 2 3.0899 - 2.4536 0.94 3146 160 0.1602 0.2084 REMARK 3 3 2.4536 - 2.1437 0.94 3088 144 0.1572 0.2192 REMARK 3 4 2.1437 - 1.9479 0.87 2889 140 0.1747 0.2305 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.160 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.009 1444 REMARK 3 ANGLE : 1.037 2003 REMARK 3 CHIRALITY : 0.057 220 REMARK 3 PLANARITY : 0.007 209 REMARK 3 DIHEDRAL : 19.920 825 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 12 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 61 THROUGH 66 ) REMARK 3 ORIGIN FOR THE GROUP (A): 40.7886 -3.9369 18.7799 REMARK 3 T TENSOR REMARK 3 T11: 0.2111 T22: 0.4698 REMARK 3 T33: 0.3552 T12: 0.1363 REMARK 3 T13: 0.0296 T23: -0.0107 REMARK 3 L TENSOR REMARK 3 L11: 7.2633 L22: 3.9281 REMARK 3 L33: 3.8304 L12: 4.5551 REMARK 3 L13: -0.7163 L23: -1.6594 REMARK 3 S TENSOR REMARK 3 S11: 0.2102 S12: 1.1331 S13: 0.1451 REMARK 3 S21: -0.2445 S22: -0.1540 S23: -0.6285 REMARK 3 S31: 0.2491 S32: 0.9343 S33: 0.1979 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 67 THROUGH 75 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.2789 -5.8359 17.3310 REMARK 3 T TENSOR REMARK 3 T11: 0.2080 T22: 0.2172 REMARK 3 T33: 0.1382 T12: 0.0010 REMARK 3 T13: 0.0230 T23: 0.0347 REMARK 3 L TENSOR REMARK 3 L11: 3.1505 L22: 4.0298 REMARK 3 L33: 2.3270 L12: -3.0064 REMARK 3 L13: 1.5102 L23: -0.0601 REMARK 3 S TENSOR REMARK 3 S11: 0.4263 S12: -0.2146 S13: -0.3371 REMARK 3 S21: -0.1838 S22: -0.2690 S23: -0.0194 REMARK 3 S31: 0.3694 S32: -0.2684 S33: -0.3588 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 76 THROUGH 87 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.9220 -6.2986 16.5342 REMARK 3 T TENSOR REMARK 3 T11: 0.2317 T22: 0.1995 REMARK 3 T33: 0.2433 T12: 0.0043 REMARK 3 T13: -0.0085 T23: -0.0396 REMARK 3 L TENSOR REMARK 3 L11: 7.5737 L22: 2.0262 REMARK 3 L33: 7.4391 L12: -3.3588 REMARK 3 L13: 7.3986 L23: -3.2813 REMARK 3 S TENSOR REMARK 3 S11: 0.3989 S12: 0.5950 S13: -0.2647 REMARK 3 S21: -0.1714 S22: -0.4271 S23: 0.0232 REMARK 3 S31: 0.3651 S32: 0.3942 S33: -0.1346 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 88 THROUGH 96 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.5306 -11.4632 23.7589 REMARK 3 T TENSOR REMARK 3 T11: 0.2546 T22: 0.1723 REMARK 3 T33: 0.3478 T12: 0.0260 REMARK 3 T13: -0.0015 T23: 0.0143 REMARK 3 L TENSOR REMARK 3 L11: 5.3802 L22: 3.6476 REMARK 3 L33: 5.2031 L12: 0.1549 REMARK 3 L13: -5.2826 L23: -0.1377 REMARK 3 S TENSOR REMARK 3 S11: -0.0478 S12: -0.2610 S13: -1.2870 REMARK 3 S21: 0.0660 S22: -0.0437 S23: -0.4756 REMARK 3 S31: 0.6531 S32: 0.3959 S33: 0.1719 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 97 THROUGH 141 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.4288 0.8709 21.9882 REMARK 3 T TENSOR REMARK 3 T11: 0.1330 T22: 0.0739 REMARK 3 T33: 0.1556 T12: -0.0046 REMARK 3 T13: 0.0278 T23: 0.0026 REMARK 3 L TENSOR REMARK 3 L11: 3.6286 L22: 0.9513 REMARK 3 L33: 3.9457 L12: -0.8150 REMARK 3 L13: 2.2270 L23: 0.1564 REMARK 3 S TENSOR REMARK 3 S11: 0.0114 S12: -0.0746 S13: -0.0129 REMARK 3 S21: -0.0522 S22: -0.0601 S23: 0.0296 REMARK 3 S31: -0.1111 S32: -0.2193 S33: 0.0495 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 142 THROUGH 155 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.6300 7.8972 16.5349 REMARK 3 T TENSOR REMARK 3 T11: 0.3467 T22: 0.3696 REMARK 3 T33: 0.2526 T12: 0.2482 REMARK 3 T13: -0.0029 T23: -0.1138 REMARK 3 L TENSOR REMARK 3 L11: 3.6963 L22: 4.2444 REMARK 3 L33: 4.5704 L12: 2.9576 REMARK 3 L13: 2.9810 L23: 1.0646 REMARK 3 S TENSOR REMARK 3 S11: 0.4648 S12: 0.0549 S13: 0.3171 REMARK 3 S21: -0.2259 S22: -0.4431 S23: 0.2665 REMARK 3 S31: -0.6890 S32: -0.6661 S33: 0.0772 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 156 THROUGH 169 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.4236 5.7734 24.9175 REMARK 3 T TENSOR REMARK 3 T11: 0.1988 T22: 0.2618 REMARK 3 T33: 0.2084 T12: 0.0732 REMARK 3 T13: 0.0319 T23: -0.0406 REMARK 3 L TENSOR REMARK 3 L11: 7.4356 L22: 4.5546 REMARK 3 L33: 7.1543 L12: 1.6118 REMARK 3 L13: 5.9376 L23: 3.2381 REMARK 3 S TENSOR REMARK 3 S11: 0.0662 S12: -0.4599 S13: 0.1250 REMARK 3 S21: -0.1378 S22: -0.3887 S23: 0.2670 REMARK 3 S31: -0.1939 S32: -0.7581 S33: 0.3303 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 170 THROUGH 177 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.4377 8.5653 30.3022 REMARK 3 T TENSOR REMARK 3 T11: 0.2061 T22: 0.1699 REMARK 3 T33: 0.2012 T12: -0.0116 REMARK 3 T13: 0.0007 T23: -0.0021 REMARK 3 L TENSOR REMARK 3 L11: 5.9096 L22: 8.2889 REMARK 3 L33: 4.3102 L12: -6.9429 REMARK 3 L13: -4.7661 L23: 5.8103 REMARK 3 S TENSOR REMARK 3 S11: 0.1049 S12: -0.2019 S13: 0.5280 REMARK 3 S21: -0.3146 S22: 0.0361 S23: -0.1802 REMARK 3 S31: -0.6929 S32: 0.0476 S33: -0.0489 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 178 THROUGH 186 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.7224 -0.4511 12.3826 REMARK 3 T TENSOR REMARK 3 T11: 0.2681 T22: 0.3252 REMARK 3 T33: 0.2036 T12: 0.0693 REMARK 3 T13: 0.0662 T23: 0.0202 REMARK 3 L TENSOR REMARK 3 L11: 4.3262 L22: 3.7823 REMARK 3 L33: 5.8737 L12: -1.3997 REMARK 3 L13: 0.0569 L23: 4.4254 REMARK 3 S TENSOR REMARK 3 S11: 0.4540 S12: 0.9888 S13: -0.1734 REMARK 3 S21: -0.4932 S22: -0.3996 S23: -0.4286 REMARK 3 S31: 0.0681 S32: 0.3331 S33: -0.2390 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 187 THROUGH 193 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.6764 -9.2166 13.2168 REMARK 3 T TENSOR REMARK 3 T11: 0.5859 T22: 0.7623 REMARK 3 T33: 0.2824 T12: 0.2659 REMARK 3 T13: 0.1443 T23: -0.2524 REMARK 3 L TENSOR REMARK 3 L11: 1.4080 L22: 6.6756 REMARK 3 L33: 8.9098 L12: -0.1044 REMARK 3 L13: -1.4933 L23: -5.9345 REMARK 3 S TENSOR REMARK 3 S11: -1.0163 S12: 0.8225 S13: -1.0017 REMARK 3 S21: -0.5387 S22: 0.2949 S23: 0.2657 REMARK 3 S31: 0.8007 S32: -2.0273 S33: 0.8947 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN 'B' AND (RESID 1 THROUGH 4 )) OR (CHAIN 'B' REMARK 3 AND (RESID 5 THROUGH 6)) REMARK 3 ORIGIN FOR THE GROUP (A): 23.8279 1.4574 4.5056 REMARK 3 T TENSOR REMARK 3 T11: 0.2675 T22: 0.2181 REMARK 3 T33: 0.1799 T12: 0.0679 REMARK 3 T13: 0.0441 T23: -0.0123 REMARK 3 L TENSOR REMARK 3 L11: 4.5452 L22: 1.9336 REMARK 3 L33: 5.8008 L12: -1.3097 REMARK 3 L13: 3.7353 L23: -2.0262 REMARK 3 S TENSOR REMARK 3 S11: 0.0134 S12: 0.5008 S13: -0.0852 REMARK 3 S21: -0.6766 S22: -0.2522 S23: -0.2764 REMARK 3 S31: 0.0974 S32: 0.2726 S33: 0.2317 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 6 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.4151 3.6959 3.2538 REMARK 3 T TENSOR REMARK 3 T11: 0.4371 T22: 0.2102 REMARK 3 T33: 0.1749 T12: 0.0821 REMARK 3 T13: -0.0216 T23: -0.0077 REMARK 3 L TENSOR REMARK 3 L11: 3.9644 L22: 2.6877 REMARK 3 L33: 9.3725 L12: -1.4631 REMARK 3 L13: -0.8254 L23: 3.9018 REMARK 3 S TENSOR REMARK 3 S11: 0.0564 S12: 0.3556 S13: -0.1273 REMARK 3 S21: -1.0327 S22: -0.3814 S23: 0.0826 REMARK 3 S31: -0.5460 S32: -0.2287 S33: 0.2838 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 6DOI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JUN-18. REMARK 100 THE DEPOSITION ID IS D_1000234972. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-MAY-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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 : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN A200 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.31 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12950 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 22.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.3 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 78.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.30 REMARK 200 R MERGE FOR SHELL (I) : 0.21500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDBID 1ZBL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 14% PEG3350, 20% GLYCEROL, 200 MM KI, REMARK 280 AND 25 MM CACL2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 294K 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 40.72800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.01000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 40.72800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 19.01000 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 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 A B 1 O2' REMARK 470 G b 6 O2' REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 DG C 2 O3' DG C 2 C3' -0.049 REMARK 500 DT C 4 O3' DT C 4 C3' -0.043 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 DG C 2 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 430 DISTANCE = 6.30 ANGSTROMS REMARK 525 HOH A 431 DISTANCE = 6.72 ANGSTROMS 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 K A 201 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 71 OD1 REMARK 620 2 ASP A 71 OD2 43.9 REMARK 620 3 VAL A 72 O 87.0 73.9 REMARK 620 4 C b 5 OP1 108.1 73.1 108.5 REMARK 620 5 G b 6 OP2 164.2 150.3 92.7 86.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 202 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 71 OD2 REMARK 620 2 GLU A 109 OE2 102.6 REMARK 620 3 ASP A 132 OD1 151.1 74.2 REMARK 620 4 ASP A 132 OD2 117.6 118.7 48.1 REMARK 620 5 HOH A 327 O 87.2 54.2 67.3 82.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 203 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 71 OD1 REMARK 620 2 ASP A 71 OD2 47.4 REMARK 620 3 ASP A 192 OD1 84.5 129.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K C 101 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 112 O REMARK 620 2 DT C 4 O4 159.8 REMARK 620 3 DG C 5 O6 101.9 70.7 REMARK 620 4 HOH C 206 O 121.0 51.7 114.5 REMARK 620 5 HOH C 211 O 114.3 84.5 87.0 112.5 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IOD A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IOD A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IOD A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IOD A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 209 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 210 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 211 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 102 DBREF 6DOI A 61 193 UNP Q9KEI9 RNH1_BACHD 61 193 DBREF 6DOI B 1 4 PDB 6DOI 6DOI 1 4 DBREF 6DOI b 5 6 PDB 6DOI 6DOI 5 6 DBREF 6DOI C 1 6 PDB 6DOI 6DOI 1 6 SEQRES 1 A 133 GLU GLU ILE ILE TRP GLU SER LEU SER VAL ASP VAL GLY SEQRES 2 A 133 SER GLN GLY ASN PRO GLY ILE VAL GLU TYR LYS GLY VAL SEQRES 3 A 133 ASP THR LYS THR GLY GLU VAL LEU PHE GLU ARG GLU PRO SEQRES 4 A 133 ILE PRO ILE GLY THR ASN ASN MET GLY GLU PHE LEU ALA SEQRES 5 A 133 ILE VAL HIS GLY LEU ARG TYR LEU LYS GLU ARG ASN SER SEQRES 6 A 133 ARG LYS PRO ILE TYR SER ASP SER GLN THR ALA ILE LYS SEQRES 7 A 133 TRP VAL LYS ASP LYS LYS ALA LYS SER THR LEU VAL ARG SEQRES 8 A 133 ASN GLU GLU THR ALA LEU ILE TRP LYS LEU VAL ASP GLU SEQRES 9 A 133 ALA GLU GLU TRP LEU ASN THR HIS THR TYR GLU THR PRO SEQRES 10 A 133 ILE LEU LYS TRP GLN THR ASP LYS TRP GLY GLU ILE LYS SEQRES 11 A 133 ALA ASP TYR SEQRES 1 B 4 A C A U SEQRES 1 b 2 C G SEQRES 1 C 6 DC DG DA DT DG DT HET K A 201 1 HET K A 202 1 HET CA A 203 1 HET IOD A 204 1 HET IOD A 205 1 HET IOD A 206 1 HET IOD A 207 1 HET GOL A 208 6 HET GOL A 209 6 HET EDO A 210 4 HET GOL A 211 6 HET GOL A 212 6 HET K C 101 1 HET EDO C 102 4 HETNAM K POTASSIUM ION HETNAM CA CALCIUM ION HETNAM IOD IODIDE ION HETNAM GOL GLYCEROL HETNAM EDO 1,2-ETHANEDIOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 K 3(K 1+) FORMUL 7 CA CA 2+ FORMUL 8 IOD 4(I 1-) FORMUL 12 GOL 4(C3 H8 O3) FORMUL 14 EDO 2(C2 H6 O2) FORMUL 19 HOH *164(H2 O) HELIX 1 AA1 THR A 104 ARG A 123 1 20 HELIX 2 AA2 SER A 133 LYS A 143 1 11 HELIX 3 AA3 THR A 155 ASN A 170 1 16 HELIX 4 AA4 GLN A 182 GLY A 187 1 6 SHEET 1 AA1 5 VAL A 93 GLY A 103 0 SHEET 2 AA1 5 GLY A 79 ASP A 87 -1 N VAL A 81 O ILE A 100 SHEET 3 AA1 5 LEU A 68 GLN A 75 -1 N SER A 69 O VAL A 86 SHEET 4 AA1 5 ILE A 129 SER A 131 1 O TYR A 130 N LEU A 68 SHEET 5 AA1 5 ILE A 178 LYS A 180 1 O LEU A 179 N ILE A 129 LINK O3'A U B 4 P A C b 5 1555 1555 1.60 LINK OD1 ASP A 71 K A K A 201 1555 1555 2.88 LINK OD2 ASP A 71 K A K A 201 1555 1555 2.95 LINK OD2 ASP A 71 K B K A 202 1555 1555 2.53 LINK OD1 ASP A 71 CA B CA A 203 1555 1555 2.57 LINK OD2 ASP A 71 CA B CA A 203 1555 1555 2.82 LINK O VAL A 72 K A K A 201 1555 1555 2.67 LINK OE2BGLU A 109 K B K A 202 1555 1555 3.36 LINK OD1 ASP A 132 K B K A 202 1555 1555 2.63 LINK OD2 ASP A 132 K B K A 202 1555 1555 2.73 LINK OD1 ASP A 192 CA B CA A 203 1555 1555 2.30 LINK K A K A 201 OP1A C b 5 1555 1555 2.69 LINK K A K A 201 OP2A G b 6 1555 1555 2.90 LINK K B K A 202 O HOH A 327 1555 1555 3.03 LINK O HOH B 112 K K C 101 1555 1555 2.72 LINK O4 DT C 4 K K C 101 1555 1555 3.50 LINK O6 DG C 5 K K C 101 1555 1555 2.53 LINK K K C 101 O BHOH C 206 1555 1555 2.39 LINK K K C 101 O HOH C 211 1555 1555 3.34 CISPEP 1 ASN A 77 PRO A 78 0 -0.09 SITE 1 AC1 5 ASP A 71 VAL A 72 CA A 203 C b 5 SITE 2 AC1 5 G b 6 SITE 1 AC2 6 ASP A 71 GLU A 109 ASP A 132 HOH A 327 SITE 2 AC2 6 U B 4 C b 5 SITE 1 AC3 4 ASP A 71 ASP A 192 K A 201 C b 5 SITE 1 AC4 1 TYR A 83 SITE 1 AC5 1 HOH A 425 SITE 1 AC6 2 HOH A 406 HOH A 430 SITE 1 AC7 2 HIS A 172 HOH A 419 SITE 1 AC8 7 GLU A 66 LEU A 120 ARG A 123 SER A 125 SITE 2 AC8 7 LYS A 127 HOH A 301 HOH A 358 SITE 1 AC9 4 LYS A 143 THR A 173 TYR A 174 HOH A 353 SITE 1 AD1 4 PRO A 78 HOH A 306 HOH A 320 HOH C 202 SITE 1 AD2 5 ASN A 77 PRO A 78 HOH B 104 DG C 2 SITE 2 AD2 5 DA C 3 SITE 1 AD3 7 HIS A 115 TYR A 119 ARG A 123 GLU A 167 SITE 2 AD3 7 HOH A 340 HOH A 377 HOH A 405 SITE 1 AD4 4 HOH B 112 DT C 4 DG C 5 HOH C 206 SITE 1 AD5 3 THR A 148 DT C 4 DG C 5 CRYST1 81.456 38.020 62.071 90.00 96.22 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 0.012277 0.000000 0.001337 0.00000 SCALE2 0.000000 0.026302 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016206 0.00000