PDB Short entry for 6N6I HEADER RNA BINDING PROTEIN/RNA 26-NOV-18 6N6I TITLE HUMAN REXO2 BOUND TO PGG COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA EXONUCLEASE 2 HOMOLOG,SMALL FRAGMENT NUCLEASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: REXO2; COMPND 5 EC: 3.1.-.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: RNA (5'-R(P*GP*G)-3'); COMPND 9 CHAIN: D, C; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: REXO2, SFN, SMFN, CGI-114; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630 KEYWDS 3'-5' EXORIBONUCLEASE, RNA BINDING PROTEIN, RNA BINDING PROTEIN-RNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.D.LORMAND,H.SONDERMANN REVDAT 4 11-OCT-23 6N6I 1 LINK REVDAT 3 01-JAN-20 6N6I 1 REMARK REVDAT 2 16-OCT-19 6N6I 1 JRNL REVDAT 1 12-JUN-19 6N6I 0 JRNL AUTH S.K.KIM,J.D.LORMAND,C.A.WEISS,K.A.EGER,H.TURDIEV,A.TURDIEV, JRNL AUTH 2 W.C.WINKLER,H.SONDERMANN,V.T.LEE JRNL TITL A DEDICATED DIRIBONUCLEOTIDASE RESOLVES A KEY BOTTLENECK FOR JRNL TITL 2 THE TERMINAL STEP OF RNA DEGRADATION. JRNL REF ELIFE V. 8 2019 JRNL REFN ESSN 2050-084X JRNL PMID 31225796 JRNL DOI 10.7554/ELIFE.46313 REMARK 2 REMARK 2 RESOLUTION. 1.43 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.43 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 91345 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.490 REMARK 3 FREE R VALUE TEST SET COUNT : 2275 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 42.9855 - 3.6057 1.00 5964 153 0.1466 0.1590 REMARK 3 2 3.6057 - 2.8621 1.00 5720 146 0.1394 0.1746 REMARK 3 3 2.8621 - 2.5003 1.00 5692 145 0.1556 0.1832 REMARK 3 4 2.5003 - 2.2718 1.00 5630 144 0.1494 0.1629 REMARK 3 5 2.2718 - 2.1089 1.00 5610 144 0.1432 0.1595 REMARK 3 6 2.1089 - 1.9846 1.00 5589 140 0.1469 0.1682 REMARK 3 7 1.9846 - 1.8852 1.00 5619 145 0.1558 0.1830 REMARK 3 8 1.8852 - 1.8031 1.00 5585 143 0.1555 0.1748 REMARK 3 9 1.8031 - 1.7337 1.00 5569 144 0.1589 0.1772 REMARK 3 10 1.7337 - 1.6739 1.00 5560 141 0.1623 0.1682 REMARK 3 11 1.6739 - 1.6216 1.00 5588 142 0.1690 0.1823 REMARK 3 12 1.6216 - 1.5752 1.00 5551 143 0.1856 0.1943 REMARK 3 13 1.5752 - 1.5337 1.00 5559 140 0.2004 0.2138 REMARK 3 14 1.5337 - 1.4963 1.00 5561 142 0.2151 0.2491 REMARK 3 15 1.4963 - 1.4623 0.98 5471 140 0.2415 0.2498 REMARK 3 16 1.4623 - 1.4312 0.87 4802 123 0.2753 0.2866 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.380 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.40 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 4:55) REMARK 3 ORIGIN FOR THE GROUP (A): 4.2441 9.9390 15.3227 REMARK 3 T TENSOR REMARK 3 T11: 0.0770 T22: 0.0779 REMARK 3 T33: 0.0537 T12: -0.0035 REMARK 3 T13: 0.0044 T23: 0.0076 REMARK 3 L TENSOR REMARK 3 L11: 4.6564 L22: 2.3298 REMARK 3 L33: 0.7805 L12: 1.6184 REMARK 3 L13: 0.1794 L23: 0.2309 REMARK 3 S TENSOR REMARK 3 S11: 0.0456 S12: -0.0715 S13: -0.0494 REMARK 3 S21: -0.0012 S22: -0.0050 S23: -0.1274 REMARK 3 S31: 0.0428 S32: 0.0247 S33: -0.0471 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 56:88) REMARK 3 ORIGIN FOR THE GROUP (A): -10.5507 4.8461 8.7464 REMARK 3 T TENSOR REMARK 3 T11: 0.1157 T22: 0.1057 REMARK 3 T33: 0.1259 T12: -0.0227 REMARK 3 T13: -0.0226 T23: -0.0056 REMARK 3 L TENSOR REMARK 3 L11: 3.3630 L22: 2.5703 REMARK 3 L33: 2.2185 L12: -1.0023 REMARK 3 L13: 1.8906 L23: -1.2815 REMARK 3 S TENSOR REMARK 3 S11: 0.0639 S12: 0.0151 S13: 0.0333 REMARK 3 S21: -0.2284 S22: 0.0189 S23: 0.3041 REMARK 3 S31: 0.1396 S32: -0.1504 S33: -0.1066 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 89:179) REMARK 3 ORIGIN FOR THE GROUP (A): 5.4191 17.8093 15.8199 REMARK 3 T TENSOR REMARK 3 T11: 0.0738 T22: 0.1016 REMARK 3 T33: 0.0821 T12: -0.0004 REMARK 3 T13: 0.0043 T23: -0.0048 REMARK 3 L TENSOR REMARK 3 L11: 0.4472 L22: 2.2068 REMARK 3 L33: 0.6670 L12: 0.1231 REMARK 3 L13: -0.1496 L23: -0.5758 REMARK 3 S TENSOR REMARK 3 S11: 0.0184 S12: 0.0365 S13: 0.0038 REMARK 3 S21: -0.1411 S22: -0.0165 S23: -0.0482 REMARK 3 S31: 0.0350 S32: 0.0160 S33: -0.0007 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 180:186) REMARK 3 ORIGIN FOR THE GROUP (A): 17.6149 32.6939 11.4058 REMARK 3 T TENSOR REMARK 3 T11: 0.1372 T22: 0.2485 REMARK 3 T33: 0.1893 T12: -0.0292 REMARK 3 T13: 0.0393 T23: -0.0013 REMARK 3 L TENSOR REMARK 3 L11: 1.4866 L22: 2.6010 REMARK 3 L33: 3.3975 L12: 1.7207 REMARK 3 L13: 1.0255 L23: 2.1843 REMARK 3 S TENSOR REMARK 3 S11: -0.0050 S12: 0.3480 S13: -0.1406 REMARK 3 S21: -0.2316 S22: 0.2002 S23: -0.6289 REMARK 3 S31: -0.2657 S32: 1.0056 S33: -0.1144 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN B AND RESID 2:8) REMARK 3 ORIGIN FOR THE GROUP (A): -7.0532 42.5148 14.1789 REMARK 3 T TENSOR REMARK 3 T11: 0.4736 T22: 0.3346 REMARK 3 T33: 0.3959 T12: 0.0608 REMARK 3 T13: -0.0051 T23: 0.1459 REMARK 3 L TENSOR REMARK 3 L11: 4.1499 L22: 7.9175 REMARK 3 L33: 7.4861 L12: 2.4059 REMARK 3 L13: 3.1514 L23: -3.9369 REMARK 3 S TENSOR REMARK 3 S11: 0.0457 S12: 1.7526 S13: 1.5626 REMARK 3 S21: -1.8006 S22: -0.0550 S23: 0.1489 REMARK 3 S31: -1.5414 S32: -0.3312 S33: 0.0145 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN B AND RESID 9:78) REMARK 3 ORIGIN FOR THE GROUP (A): -4.0955 26.5294 38.3948 REMARK 3 T TENSOR REMARK 3 T11: 0.0995 T22: 0.1050 REMARK 3 T33: 0.0935 T12: -0.0178 REMARK 3 T13: 0.0067 T23: -0.0027 REMARK 3 L TENSOR REMARK 3 L11: 1.5016 L22: 2.1974 REMARK 3 L33: 2.1702 L12: -0.0381 REMARK 3 L13: -0.5607 L23: -0.6739 REMARK 3 S TENSOR REMARK 3 S11: -0.0802 S12: -0.2068 S13: -0.1531 REMARK 3 S21: 0.1917 S22: -0.0261 S23: -0.0141 REMARK 3 S31: 0.1808 S32: -0.0222 S33: 0.0800 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN B AND RESID 79:155) REMARK 3 ORIGIN FOR THE GROUP (A): -3.2533 28.4061 27.5965 REMARK 3 T TENSOR REMARK 3 T11: 0.0722 T22: 0.0708 REMARK 3 T33: 0.0762 T12: -0.0183 REMARK 3 T13: -0.0065 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 1.3388 L22: 0.7821 REMARK 3 L33: 0.8426 L12: -0.2852 REMARK 3 L13: -0.2053 L23: 0.2818 REMARK 3 S TENSOR REMARK 3 S11: -0.0213 S12: -0.0920 S13: 0.0317 REMARK 3 S21: 0.0332 S22: -0.0087 S23: 0.0556 REMARK 3 S31: 0.0165 S32: -0.0620 S33: 0.0339 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN B AND RESID 156:187) REMARK 3 ORIGIN FOR THE GROUP (A): 9.4193 35.2956 28.7536 REMARK 3 T TENSOR REMARK 3 T11: 0.0945 T22: 0.0815 REMARK 3 T33: 0.1304 T12: -0.0032 REMARK 3 T13: -0.0200 T23: -0.0174 REMARK 3 L TENSOR REMARK 3 L11: 4.6299 L22: 0.9065 REMARK 3 L33: 3.3551 L12: 0.4102 REMARK 3 L13: -2.8274 L23: 0.8899 REMARK 3 S TENSOR REMARK 3 S11: 0.0321 S12: -0.2906 S13: 0.1950 REMARK 3 S21: 0.0020 S22: 0.0672 S23: -0.0967 REMARK 3 S31: -0.1337 S32: 0.3533 S33: -0.0547 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 6N6I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-NOV-18. REMARK 100 THE DEPOSITION ID IS D_1000238265. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-FEB-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : F1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.977 REMARK 200 MONOCHROMATOR : SI(111) CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.22 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 91458 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.431 REMARK 200 RESOLUTION RANGE LOW (A) : 45.814 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.43 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.51 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.85800 REMARK 200 R SYM FOR SHELL (I) : 0.85800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 0.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 6N6A REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM MALONATE (PH 5.5) AND 15 REMARK 280 -20% POLYETHYLENE GLYCOL 3350, 25% GYLCEROL, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 22.90700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.89850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.64450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 61.89850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.90700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.64450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 1440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D 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 350 REMARK 350 BIOMOLECULE: 2 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: 1690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 ALA A 3 REMARK 465 ILE A 187 REMARK 465 ASP A 188 REMARK 465 GLU A 189 REMARK 465 LYS A 190 REMARK 465 LYS A 191 REMARK 465 ARG A 192 REMARK 465 LYS A 193 REMARK 465 ILE A 194 REMARK 465 ILE A 195 REMARK 465 GLU A 196 REMARK 465 ASN A 197 REMARK 465 GLY A 198 REMARK 465 GLU A 199 REMARK 465 ASN A 200 REMARK 465 GLU A 201 REMARK 465 LYS A 202 REMARK 465 THR A 203 REMARK 465 VAL A 204 REMARK 465 SER A 205 REMARK 465 MET B 1 REMARK 465 ASP B 188 REMARK 465 GLU B 189 REMARK 465 LYS B 190 REMARK 465 LYS B 191 REMARK 465 ARG B 192 REMARK 465 LYS B 193 REMARK 465 ILE B 194 REMARK 465 ILE B 195 REMARK 465 GLU B 196 REMARK 465 ASN B 197 REMARK 465 GLY B 198 REMARK 465 GLU B 199 REMARK 465 ASN B 200 REMARK 465 GLU B 201 REMARK 465 LYS B 202 REMARK 465 THR B 203 REMARK 465 VAL B 204 REMARK 465 SER B 205 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 ILE B 187 CG1 CG2 CD1 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 OH TYR A 122 O HOH A 401 2.07 REMARK 500 REMARK 500 REMARK: NULL 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 G D 603 P G D 603 OP3 -0.113 REMARK 500 G C 603 P G C 603 OP3 -0.112 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 25 -32.38 -133.15 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 NA D 701 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 15 OD1 REMARK 620 2 HOH A 433 O 121.3 REMARK 620 3 HOH A 433 O 88.8 36.8 REMARK 620 4 HOH A 493 O 87.1 75.4 89.0 REMARK 620 5 HOH A 501 O 80.8 110.9 90.6 167.9 REMARK 620 6 HOH A 501 O 101.8 83.1 71.6 158.3 28.8 REMARK 620 7 G D 603 O3' 158.7 77.9 112.2 89.5 101.9 88.9 REMARK 620 8 G D 604 OP1 102.2 135.5 166.3 99.6 83.2 97.8 57.7 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA C 702 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 15 OD1 REMARK 620 2 HOH B 480 O 85.1 REMARK 620 3 G C 603 O3' 158.2 89.1 REMARK 620 4 G C 604 OP1 103.0 99.6 57.3 REMARK 620 5 HOH C 801 O 120.8 74.6 77.4 134.6 REMARK 620 6 HOH C 801 O 91.2 90.0 109.8 163.4 35.7 REMARK 620 7 HOH C 806 O 102.8 158.5 90.1 98.0 84.3 70.1 REMARK 620 8 HOH C 806 O 85.1 169.7 98.9 79.5 113.4 93.4 29.3 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA D 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MLI B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA C 702 DBREF 6N6I A 1 205 UNP Q9Y3B8 ORN_HUMAN 1 205 DBREF 6N6I D 603 604 PDB 6N6I 6N6I 603 604 DBREF 6N6I B 1 205 UNP Q9Y3B8 ORN_HUMAN 1 205 DBREF 6N6I C 603 604 PDB 6N6I 6N6I 603 604 SEQRES 1 A 205 MET ALA ALA GLY GLU SER MET ALA GLN ARG MET VAL TRP SEQRES 2 A 205 VAL ASP LEU GLU MET THR GLY LEU ASP ILE GLU LYS ASP SEQRES 3 A 205 GLN ILE ILE GLU MET ALA CYS LEU ILE THR ASP SER ASP SEQRES 4 A 205 LEU ASN ILE LEU ALA GLU GLY PRO ASN LEU ILE ILE LYS SEQRES 5 A 205 GLN PRO ASP GLU LEU LEU ASP SER MET SER ASP TRP CYS SEQRES 6 A 205 LYS GLU HIS HIS GLY LYS SER GLY LEU THR LYS ALA VAL SEQRES 7 A 205 LYS GLU SER THR ILE THR LEU GLN GLN ALA GLU TYR GLU SEQRES 8 A 205 PHE LEU SER PHE VAL ARG GLN GLN THR PRO PRO GLY LEU SEQRES 9 A 205 CYS PRO LEU ALA GLY ASN SER VAL HIS GLU ASP LYS LYS SEQRES 10 A 205 PHE LEU ASP LYS TYR MET PRO GLN PHE MET LYS HIS LEU SEQRES 11 A 205 HIS TYR ARG ILE ILE ASP VAL SER THR VAL LYS GLU LEU SEQRES 12 A 205 CYS ARG ARG TRP TYR PRO GLU GLU TYR GLU PHE ALA PRO SEQRES 13 A 205 LYS LYS ALA ALA SER HIS ARG ALA LEU ASP ASP ILE SER SEQRES 14 A 205 GLU SER ILE LYS GLU LEU GLN PHE TYR ARG ASN ASN ILE SEQRES 15 A 205 PHE LYS LYS LYS ILE ASP GLU LYS LYS ARG LYS ILE ILE SEQRES 16 A 205 GLU ASN GLY GLU ASN GLU LYS THR VAL SER SEQRES 1 D 2 G G SEQRES 1 B 205 MET ALA ALA GLY GLU SER MET ALA GLN ARG MET VAL TRP SEQRES 2 B 205 VAL ASP LEU GLU MET THR GLY LEU ASP ILE GLU LYS ASP SEQRES 3 B 205 GLN ILE ILE GLU MET ALA CYS LEU ILE THR ASP SER ASP SEQRES 4 B 205 LEU ASN ILE LEU ALA GLU GLY PRO ASN LEU ILE ILE LYS SEQRES 5 B 205 GLN PRO ASP GLU LEU LEU ASP SER MET SER ASP TRP CYS SEQRES 6 B 205 LYS GLU HIS HIS GLY LYS SER GLY LEU THR LYS ALA VAL SEQRES 7 B 205 LYS GLU SER THR ILE THR LEU GLN GLN ALA GLU TYR GLU SEQRES 8 B 205 PHE LEU SER PHE VAL ARG GLN GLN THR PRO PRO GLY LEU SEQRES 9 B 205 CYS PRO LEU ALA GLY ASN SER VAL HIS GLU ASP LYS LYS SEQRES 10 B 205 PHE LEU ASP LYS TYR MET PRO GLN PHE MET LYS HIS LEU SEQRES 11 B 205 HIS TYR ARG ILE ILE ASP VAL SER THR VAL LYS GLU LEU SEQRES 12 B 205 CYS ARG ARG TRP TYR PRO GLU GLU TYR GLU PHE ALA PRO SEQRES 13 B 205 LYS LYS ALA ALA SER HIS ARG ALA LEU ASP ASP ILE SER SEQRES 14 B 205 GLU SER ILE LYS GLU LEU GLN PHE TYR ARG ASN ASN ILE SEQRES 15 B 205 PHE LYS LYS LYS ILE ASP GLU LYS LYS ARG LYS ILE ILE SEQRES 16 B 205 GLU ASN GLY GLU ASN GLU LYS THR VAL SER SEQRES 1 C 2 G G HET GOL A 301 6 HET NA D 701 1 HET GOL B 301 6 HET MLI B 302 7 HET EDO C 701 8 HET NA C 702 1 HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETNAM MLI MALONATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 GOL 2(C3 H8 O3) FORMUL 6 NA 2(NA 1+) FORMUL 8 MLI C3 H2 O4 2- FORMUL 9 EDO C2 H6 O2 FORMUL 11 HOH *428(H2 O) HELIX 1 AA1 GLY A 4 GLN A 9 1 6 HELIX 2 AA2 PRO A 54 SER A 60 1 7 HELIX 3 AA3 SER A 62 SER A 72 1 11 HELIX 4 AA4 GLY A 73 SER A 81 1 9 HELIX 5 AA5 THR A 84 THR A 100 1 17 HELIX 6 AA6 VAL A 112 MET A 123 1 12 HELIX 7 AA7 MET A 123 HIS A 129 1 7 HELIX 8 AA8 VAL A 137 TYR A 148 1 12 HELIX 9 AA9 TYR A 148 GLU A 153 1 6 HELIX 10 AB1 ARG A 163 PHE A 183 1 21 HELIX 11 AB2 ALA B 3 GLN B 9 1 7 HELIX 12 AB3 PRO B 54 SER B 60 1 7 HELIX 13 AB4 SER B 62 SER B 72 1 11 HELIX 14 AB5 GLY B 73 SER B 81 1 9 HELIX 15 AB6 THR B 84 THR B 100 1 17 HELIX 16 AB7 VAL B 112 MET B 123 1 12 HELIX 17 AB8 MET B 123 HIS B 129 1 7 HELIX 18 AB9 VAL B 137 TYR B 148 1 12 HELIX 19 AC1 TYR B 148 GLU B 153 1 6 HELIX 20 AC2 ARG B 163 PHE B 183 1 21 SHEET 1 AA1 5 ILE A 42 ILE A 50 0 SHEET 2 AA1 5 ILE A 28 THR A 36 -1 N ILE A 35 O LEU A 43 SHEET 3 AA1 5 MET A 11 MET A 18 -1 N TRP A 13 O LEU A 34 SHEET 4 AA1 5 LEU A 107 GLY A 109 1 O ALA A 108 N VAL A 14 SHEET 5 AA1 5 ILE A 134 ASP A 136 1 O ILE A 135 N LEU A 107 SHEET 1 AA2 5 ILE B 42 ILE B 50 0 SHEET 2 AA2 5 ILE B 28 THR B 36 -1 N ILE B 35 O LEU B 43 SHEET 3 AA2 5 MET B 11 MET B 18 -1 N GLU B 17 O ILE B 29 SHEET 4 AA2 5 LEU B 107 GLY B 109 1 O ALA B 108 N VAL B 12 SHEET 5 AA2 5 ILE B 134 ASP B 136 1 O ILE B 135 N LEU B 107 LINK OD1 ASP A 15 NA NA D 701 1555 1555 2.33 LINK O AHOH A 433 NA NA D 701 1555 1555 2.45 LINK O BHOH A 433 NA NA D 701 1555 1555 2.36 LINK O HOH A 493 NA NA D 701 1555 1555 2.32 LINK O BHOH A 501 NA NA D 701 1555 1555 2.44 LINK O AHOH A 501 NA NA D 701 1555 1555 2.32 LINK O3' G D 603 NA NA D 701 1555 1555 2.61 LINK OP1 G D 604 NA NA D 701 1555 1555 2.40 LINK OD1 ASP B 15 NA NA C 702 1555 1555 2.32 LINK O HOH B 480 NA NA C 702 1555 1555 2.36 LINK O3' G C 603 NA NA C 702 1555 1555 2.60 LINK OP1 G C 604 NA NA C 702 1555 1555 2.44 LINK NA NA C 702 O AHOH C 801 1555 1555 2.56 LINK NA NA C 702 O BHOH C 801 1555 1555 2.27 LINK NA NA C 702 O AHOH C 806 1555 1555 2.35 LINK NA NA C 702 O BHOH C 806 1555 1555 2.53 SITE 1 AC1 10 ASN A 110 LYS A 158 ALA A 160 HIS A 162 SITE 2 AC1 10 ASP A 167 HOH A 404 HOH A 501 HOH A 538 SITE 3 AC1 10 G D 603 G D 604 SITE 1 AC2 6 ASP A 15 HOH A 433 HOH A 493 HOH A 501 SITE 2 AC2 6 G D 603 G D 604 SITE 1 AC3 8 GLN A 86 GLU A 89 PRO A 124 GLN A 125 SITE 2 AC3 8 GLU B 45 SER B 169 HOH B 429 HOH B 434 SITE 1 AC4 5 LYS A 186 ARG B 97 PRO B 102 GLU B 151 SITE 2 AC4 5 HOH B 406 SITE 1 AC5 5 ASN B 110 ASP B 167 G C 603 G C 604 SITE 2 AC5 5 HOH C 806 SITE 1 AC6 6 ASP B 15 HOH B 480 G C 603 G C 604 SITE 2 AC6 6 HOH C 801 HOH C 806 CRYST1 45.814 87.289 123.797 90.00 90.00 90.00 P 21 21 21 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 0.021827 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011456 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008078 0.00000