HEADER RNA/IMMUNE SYSTEM 24-JUN-20 6XJW TITLE CRYSTAL STRUCTURE OF A SELF-ALKYLATING RIBOZYME - ALKYLATED FORM TITLE 2 WITHOUT BIOTIN MOIETY COMPND MOL_ID: 1; COMPND 2 MOLECULE: SELF-ALKYLATING RIBOZYME (58-MER); COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: FAB HAVX HEAVY CHAIN; COMPND 7 CHAIN: C, H; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: FAB HAVX LIGHT CHAIN; COMPND 11 CHAIN: D, L; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: AEROPYRUM PERNIX; SOURCE 4 ORGANISM_TAXID: 56636; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 MOL_ID: 3; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SELF-ALKYLATING RIBOZYME, ANTIBODY-ASSISTED RNA CRYSTALLOGRAPHY, RNA KEYWDS 2 CATALYSIS, RNA-IMMUNE SYSTEM COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.KOIRALA,J.A.PICCIRILLI REVDAT 4 18-OCT-23 6XJW 1 REMARK REVDAT 3 13-APR-22 6XJW 1 JRNL REVDAT 2 09-FEB-22 6XJW 1 JRNL REVDAT 1 19-JAN-22 6XJW 0 JRNL AUTH D.KROCHMAL,Y.SHAO,N.S.LI,S.DASGUPTA,S.A.SHELKE,D.KOIRALA, JRNL AUTH 2 J.A.PICCIRILLI JRNL TITL STRUCTURAL BASIS FOR SUBSTRATE BINDING AND CATALYSIS BY A JRNL TITL 2 SELF-ALKYLATING RIBOZYME. JRNL REF NAT.CHEM.BIOL. V. 18 376 2022 JRNL REFN ESSN 1552-4469 JRNL PMID 35058645 JRNL DOI 10.1038/S41589-021-00950-Z REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.11.1_2575) 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) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 89.85 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 110762 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1994 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 10.0000 - 4.6225 0.98 7930 148 0.1416 0.1625 REMARK 3 2 4.6225 - 3.6690 0.99 7903 149 0.1413 0.1911 REMARK 3 3 3.6690 - 3.2052 0.99 7839 147 0.1718 0.2103 REMARK 3 4 3.2052 - 2.9121 0.98 7817 132 0.1934 0.2374 REMARK 3 5 2.9121 - 2.7034 0.99 7839 148 0.2144 0.2641 REMARK 3 6 2.7034 - 2.5440 0.99 7813 147 0.2181 0.2566 REMARK 3 7 2.5440 - 2.4166 0.99 7833 152 0.2244 0.2965 REMARK 3 8 2.4166 - 2.3114 0.99 7793 145 0.2283 0.2592 REMARK 3 9 2.3114 - 2.2224 0.99 7807 128 0.2386 0.2575 REMARK 3 10 2.2224 - 2.1457 0.98 7750 145 0.2533 0.3059 REMARK 3 11 2.1457 - 2.0786 0.98 7781 133 0.2707 0.3168 REMARK 3 12 2.0786 - 2.0192 0.98 7747 153 0.2902 0.3266 REMARK 3 13 2.0192 - 1.9660 0.98 7698 139 0.3104 0.3104 REMARK 3 14 1.9660 - 1.9180 0.91 7218 128 0.3454 0.3773 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.720 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.21 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 : 0.007 9704 REMARK 3 ANGLE : 1.036 13746 REMARK 3 CHIRALITY : 0.055 1631 REMARK 3 PLANARITY : 0.006 1307 REMARK 3 DIHEDRAL : 13.283 5592 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND ( RESID 1:58 OR RESID 101:101 ) ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.577 16.931 10.177 REMARK 3 T TENSOR REMARK 3 T11: 0.8588 T22: 0.7264 REMARK 3 T33: 0.4422 T12: 0.1275 REMARK 3 T13: 0.0404 T23: -0.0373 REMARK 3 L TENSOR REMARK 3 L11: 0.6506 L22: 0.4952 REMARK 3 L33: 0.1903 L12: 0.0053 REMARK 3 L13: -0.2128 L23: -0.0641 REMARK 3 S TENSOR REMARK 3 S11: -0.0605 S12: -0.6598 S13: 0.1579 REMARK 3 S21: 0.6011 S22: 0.1961 S23: 0.1413 REMARK 3 S31: -0.3689 S32: -0.0506 S33: -0.1083 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN B AND ( RESID 1:58 OR RESID 101:101 ) ) REMARK 3 ORIGIN FOR THE GROUP (A): -34.758 21.376 -53.870 REMARK 3 T TENSOR REMARK 3 T11: 1.3146 T22: 1.1663 REMARK 3 T33: 0.5124 T12: -0.3217 REMARK 3 T13: -0.0818 T23: 0.1159 REMARK 3 L TENSOR REMARK 3 L11: 0.4939 L22: 2.0152 REMARK 3 L33: 0.7467 L12: 0.0307 REMARK 3 L13: -0.5316 L23: 0.4686 REMARK 3 S TENSOR REMARK 3 S11: -0.2574 S12: 0.9502 S13: 0.1672 REMARK 3 S21: -1.4704 S22: 0.3961 S23: -0.0218 REMARK 3 S31: -0.7780 S32: 0.1353 S33: -0.0471 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN H AND RESID 3:230 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.870 14.011 -40.175 REMARK 3 T TENSOR REMARK 3 T11: 0.2665 T22: 0.2144 REMARK 3 T33: 0.2817 T12: -0.0407 REMARK 3 T13: -0.0442 T23: -0.0033 REMARK 3 L TENSOR REMARK 3 L11: 0.4591 L22: 1.0714 REMARK 3 L33: 1.2343 L12: -0.4442 REMARK 3 L13: -0.3742 L23: 0.4911 REMARK 3 S TENSOR REMARK 3 S11: 0.0073 S12: 0.0951 S13: -0.0387 REMARK 3 S21: -0.1766 S22: 0.0498 S23: -0.0150 REMARK 3 S31: 0.0507 S32: 0.0116 S33: -0.0540 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN C AND RESID 3:229 ) REMARK 3 ORIGIN FOR THE GROUP (A): -55.245 12.196 -3.892 REMARK 3 T TENSOR REMARK 3 T11: 0.2666 T22: 0.1698 REMARK 3 T33: 0.2717 T12: 0.0227 REMARK 3 T13: -0.0405 T23: -0.0084 REMARK 3 L TENSOR REMARK 3 L11: 0.9181 L22: 1.1126 REMARK 3 L33: 0.7649 L12: 0.6018 REMARK 3 L13: -0.2506 L23: -0.5164 REMARK 3 S TENSOR REMARK 3 S11: -0.0264 S12: -0.0697 S13: 0.0054 REMARK 3 S21: 0.1478 S22: 0.0451 S23: -0.0248 REMARK 3 S31: -0.0026 S32: -0.0196 S33: -0.0145 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN D AND RESID 1:214 ) REMARK 3 ORIGIN FOR THE GROUP (A): -51.243 -3.654 -10.257 REMARK 3 T TENSOR REMARK 3 T11: 0.3220 T22: 0.2058 REMARK 3 T33: 0.3709 T12: 0.0302 REMARK 3 T13: -0.0534 T23: -0.0054 REMARK 3 L TENSOR REMARK 3 L11: 1.6935 L22: 0.8612 REMARK 3 L33: 0.5507 L12: 0.8203 REMARK 3 L13: -0.6558 L23: -0.3755 REMARK 3 S TENSOR REMARK 3 S11: -0.1227 S12: 0.0670 S13: -0.3108 REMARK 3 S21: -0.1083 S22: 0.0297 S23: -0.0654 REMARK 3 S31: 0.1086 S32: -0.0333 S33: 0.1097 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN L AND RESID 1:214 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.108 -2.884 -35.996 REMARK 3 T TENSOR REMARK 3 T11: 0.3375 T22: 0.2712 REMARK 3 T33: 0.3325 T12: -0.0447 REMARK 3 T13: -0.0656 T23: -0.0042 REMARK 3 L TENSOR REMARK 3 L11: 0.6812 L22: 0.7397 REMARK 3 L33: 0.6203 L12: -0.4669 REMARK 3 L13: -0.6188 L23: 0.3452 REMARK 3 S TENSOR REMARK 3 S11: -0.1044 S12: -0.0402 S13: -0.1800 REMARK 3 S21: 0.0128 S22: 0.0499 S23: 0.0762 REMARK 3 S31: 0.1106 S32: 0.0752 S33: 0.0617 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: ( CHAIN A AND RESID 201:285 ) OR ( CHAIN B AND RESID REMARK 3 201:236 ) OR ( CHAIN C AND RESID 301:479 ) OR ( REMARK 3 CHAIN D AND RESID 301:445 ) OR ( CHAIN H AND RESID REMARK 3 301:494 ) OR ( CHAIN L AND RESID 301:463 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.015 9.832 -21.297 REMARK 3 T TENSOR REMARK 3 T11: 0.3927 T22: 0.3022 REMARK 3 T33: 0.3813 T12: -0.0013 REMARK 3 T13: -0.0366 T23: -0.0016 REMARK 3 L TENSOR REMARK 3 L11: 0.3690 L22: 0.0083 REMARK 3 L33: 0.0473 L12: 0.0012 REMARK 3 L13: -0.0567 L23: -0.0212 REMARK 3 S TENSOR REMARK 3 S11: -0.0067 S12: -0.0001 S13: -0.0730 REMARK 3 S21: -0.0106 S22: 0.0015 S23: 0.0208 REMARK 3 S31: 0.0138 S32: -0.0065 S33: 0.0083 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 6XJW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUN-20. REMARK 100 THE DEPOSITION ID IS D_1000250283. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAR-18 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : CRYOGENICALLY-COOLED SINGLE REMARK 200 CRYSTAL SI(220) SIDE BOUNCE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 111123 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.918 REMARK 200 RESOLUTION RANGE LOW (A) : 99.640 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 1.90100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.600 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: PDB ENTRY 6MWN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M AMMONIUM FLUORIDE, 10% PEG3350, REMARK 280 PH 6.2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 49.81950 REMARK 290 SMTRY3 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, H, L 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, 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 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 CYS C 230 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 O HOH C 312 O HOH C 455 1.88 REMARK 500 O HOH C 400 O HOH D 432 1.88 REMARK 500 O HOH L 446 O HOH L 447 2.01 REMARK 500 O HOH B 206 O HOH C 455 2.02 REMARK 500 O HOH L 446 O HOH L 457 2.02 REMARK 500 O HOH A 251 O HOH A 278 2.03 REMARK 500 O HOH C 400 O HOH C 455 2.09 REMARK 500 O HOH A 279 O HOH L 444 2.17 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 TRP C 112 -131.12 -102.71 REMARK 500 SER C 144 36.11 -99.93 REMARK 500 THR C 174 -31.07 -130.55 REMARK 500 TYR D 31 -102.11 57.19 REMARK 500 TYR D 32 41.68 -143.97 REMARK 500 SER D 33 69.32 -114.61 REMARK 500 ALA D 52 -39.92 75.04 REMARK 500 ALA D 85 -177.77 -179.34 REMARK 500 TRP H 112 -133.27 -102.05 REMARK 500 SER H 144 38.01 -99.14 REMARK 500 PRO H 161 -153.04 -95.88 REMARK 500 TYR L 31 -98.45 55.95 REMARK 500 TYR L 32 45.04 -146.02 REMARK 500 SER L 33 68.54 -119.34 REMARK 500 ALA L 52 -40.69 75.36 REMARK 500 REMARK 500 REMARK: NULL DBREF 6XJW A 1 58 PDB 6XJW 6XJW 1 58 DBREF 6XJW B 1 58 PDB 6XJW 6XJW 1 58 DBREF 6XJW C 3 230 PDB 6XJW 6XJW 3 230 DBREF 6XJW D 1 214 PDB 6XJW 6XJW 1 214 DBREF 6XJW H 3 230 PDB 6XJW 6XJW 3 230 DBREF 6XJW L 1 214 PDB 6XJW 6XJW 1 214 SEQRES 1 A 58 G G C C G C U C C A G A A SEQRES 2 A 58 G A G G G C C C C C U U G SEQRES 3 A 58 C C C G U U A U C G G G G SEQRES 4 A 58 G C U A G G C U C G A U G SEQRES 5 A 58 U C G G C C SEQRES 1 B 58 G G C C G C U C C A G A A SEQRES 2 B 58 G A G G G C C C C C U U G SEQRES 3 B 58 C C C G U U A U C G G G G SEQRES 4 B 58 G C U A G G C U C G A U G SEQRES 5 B 58 U C G G C C SEQRES 1 C 228 SER GLU VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL SEQRES 2 C 228 GLN PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER SEQRES 3 C 228 GLY PHE SER LEU SER SER SER SER MET HIS TRP VAL ARG SEQRES 4 C 228 GLN ALA PRO GLY LYS GLY LEU GLU TRP VAL ALA SER ILE SEQRES 5 C 228 SER PRO TYR SER GLY SER THR SER TYR ALA ASP SER VAL SEQRES 6 C 228 LYS GLY ARG PHE THR ILE SER ALA ASP THR SER LYS ASN SEQRES 7 C 228 THR ALA TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP SEQRES 8 C 228 THR ALA VAL TYR TYR CYS ALA ARG THR LYS TYR HIS TYR SEQRES 9 C 228 LYS ASN TYR TYR TRP TRP ALA LEU ASP TYR TRP GLY GLN SEQRES 10 C 228 GLY THR LEU VAL THR VAL SER SER ALA SER THR LYS GLY SEQRES 11 C 228 PRO SER VAL PHE PRO LEU ALA PRO SER SER LYS SER THR SEQRES 12 C 228 SER GLY GLY THR ALA ALA LEU GLY CYS LEU VAL LYS ASP SEQRES 13 C 228 TYR PHE PRO GLU PRO VAL THR VAL SER TRP ASN SER GLY SEQRES 14 C 228 ALA LEU THR SER GLY VAL HIS THR PHE PRO ALA VAL LEU SEQRES 15 C 228 GLN SER SER GLY LEU TYR SER LEU SER SER VAL VAL THR SEQRES 16 C 228 VAL PRO SER SER SER LEU GLY THR GLN THR TYR ILE CYS SEQRES 17 C 228 ASN VAL ASN HIS LYS PRO SER ASN THR LYS VAL ASP LYS SEQRES 18 C 228 LYS VAL GLU PRO LYS SER CYS SEQRES 1 D 214 SER ASP ILE GLN MET THR GLN SER PRO SER SER LEU SER SEQRES 2 D 214 ALA SER VAL GLY ASP ARG VAL THR ILE THR CYS ARG ALA SEQRES 3 D 214 SER GLN SER VAL TYR TYR SER VAL ALA TRP TYR GLN GLN SEQRES 4 D 214 LYS PRO GLY LYS ALA PRO LYS LEU LEU ILE TYR SER ALA SEQRES 5 D 214 SER TYR LEU TYR SER GLY VAL PRO SER ARG PHE SER GLY SEQRES 6 D 214 SER ARG SER GLY THR ASP PHE THR LEU THR ILE SER SER SEQRES 7 D 214 LEU GLN PRO GLU ASP PHE ALA THR TYR TYR CYS GLN GLN SEQRES 8 D 214 TYR ARG ARG ARG PRO ILE THR PHE GLY GLN GLY THR LYS SEQRES 9 D 214 VAL GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE SEQRES 10 D 214 ILE PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR SEQRES 11 D 214 ALA SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG SEQRES 12 D 214 GLU ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SEQRES 13 D 214 SER GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER SEQRES 14 D 214 LYS ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SEQRES 15 D 214 SER LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS SEQRES 16 D 214 GLU VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SEQRES 17 D 214 SER PHE ASN ARG GLY GLU SEQRES 1 H 228 SER GLU VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL SEQRES 2 H 228 GLN PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER SEQRES 3 H 228 GLY PHE SER LEU SER SER SER SER MET HIS TRP VAL ARG SEQRES 4 H 228 GLN ALA PRO GLY LYS GLY LEU GLU TRP VAL ALA SER ILE SEQRES 5 H 228 SER PRO TYR SER GLY SER THR SER TYR ALA ASP SER VAL SEQRES 6 H 228 LYS GLY ARG PHE THR ILE SER ALA ASP THR SER LYS ASN SEQRES 7 H 228 THR ALA TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP SEQRES 8 H 228 THR ALA VAL TYR TYR CYS ALA ARG THR LYS TYR HIS TYR SEQRES 9 H 228 LYS ASN TYR TYR TRP TRP ALA LEU ASP TYR TRP GLY GLN SEQRES 10 H 228 GLY THR LEU VAL THR VAL SER SER ALA SER THR LYS GLY SEQRES 11 H 228 PRO SER VAL PHE PRO LEU ALA PRO SER SER LYS SER THR SEQRES 12 H 228 SER GLY GLY THR ALA ALA LEU GLY CYS LEU VAL LYS ASP SEQRES 13 H 228 TYR PHE PRO GLU PRO VAL THR VAL SER TRP ASN SER GLY SEQRES 14 H 228 ALA LEU THR SER GLY VAL HIS THR PHE PRO ALA VAL LEU SEQRES 15 H 228 GLN SER SER GLY LEU TYR SER LEU SER SER VAL VAL THR SEQRES 16 H 228 VAL PRO SER SER SER LEU GLY THR GLN THR TYR ILE CYS SEQRES 17 H 228 ASN VAL ASN HIS LYS PRO SER ASN THR LYS VAL ASP LYS SEQRES 18 H 228 LYS VAL GLU PRO LYS SER CYS SEQRES 1 L 214 SER ASP ILE GLN MET THR GLN SER PRO SER SER LEU SER SEQRES 2 L 214 ALA SER VAL GLY ASP ARG VAL THR ILE THR CYS ARG ALA SEQRES 3 L 214 SER GLN SER VAL TYR TYR SER VAL ALA TRP TYR GLN GLN SEQRES 4 L 214 LYS PRO GLY LYS ALA PRO LYS LEU LEU ILE TYR SER ALA SEQRES 5 L 214 SER TYR LEU TYR SER GLY VAL PRO SER ARG PHE SER GLY SEQRES 6 L 214 SER ARG SER GLY THR ASP PHE THR LEU THR ILE SER SER SEQRES 7 L 214 LEU GLN PRO GLU ASP PHE ALA THR TYR TYR CYS GLN GLN SEQRES 8 L 214 TYR ARG ARG ARG PRO ILE THR PHE GLY GLN GLY THR LYS SEQRES 9 L 214 VAL GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE SEQRES 10 L 214 ILE PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR SEQRES 11 L 214 ALA SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG SEQRES 12 L 214 GLU ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SEQRES 13 L 214 SER GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER SEQRES 14 L 214 LYS ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SEQRES 15 L 214 SER LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS SEQRES 16 L 214 GLU VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SEQRES 17 L 214 SER PHE ASN ARG GLY GLU HET 97C A 101 17 HET 97C B 101 17 HETNAM 97C 2-{[(4R)-4-HYDROXYHEXYL]OXY}ETHYL PENTANOATE FORMUL 7 97C 2(C13 H26 O4) FORMUL 9 HOH *802(H2 O) HELIX 1 AA1 SER C 31 SER C 33 5 3 HELIX 2 AA2 THR C 77 LYS C 79 5 3 HELIX 3 AA3 ARG C 90 THR C 94 5 5 HELIX 4 AA4 SER C 170 ALA C 172 5 3 HELIX 5 AA5 SER C 201 LEU C 203 5 3 HELIX 6 AA6 LYS C 215 ASN C 218 5 4 HELIX 7 AA7 GLN D 80 PHE D 84 5 5 HELIX 8 AA8 SER D 122 GLY D 129 1 8 HELIX 9 AA9 LYS D 184 LYS D 189 1 6 HELIX 10 AB1 SER H 31 SER H 33 5 3 HELIX 11 AB2 ASP H 65 LYS H 68 5 4 HELIX 12 AB3 ARG H 90 THR H 94 5 5 HELIX 13 AB4 SER H 141 THR H 145 5 5 HELIX 14 AB5 SER H 170 ALA H 172 5 3 HELIX 15 AB6 SER H 201 THR H 205 5 5 HELIX 16 AB7 LYS H 215 ASN H 218 5 4 HELIX 17 AB8 GLN L 80 PHE L 84 5 5 HELIX 18 AB9 SER L 122 SER L 128 1 7 HELIX 19 AC1 LYS L 184 LYS L 189 1 6 SHEET 1 AA1 4 GLN C 6 SER C 10 0 SHEET 2 AA1 4 LEU C 21 SER C 28 -1 O SER C 24 N SER C 10 SHEET 3 AA1 4 THR C 81 MET C 86 -1 O MET C 86 N LEU C 21 SHEET 4 AA1 4 PHE C 71 ASP C 76 -1 N THR C 72 O GLN C 85 SHEET 1 AA2 6 GLY C 13 VAL C 15 0 SHEET 2 AA2 6 THR C 121 VAL C 125 1 O THR C 124 N VAL C 15 SHEET 3 AA2 6 ALA C 95 LYS C 103 -1 N TYR C 97 O THR C 121 SHEET 4 AA2 6 SER C 35 GLN C 42 -1 N VAL C 40 O TYR C 98 SHEET 5 AA2 6 GLU C 49 ILE C 54 -1 O GLU C 49 N ARG C 41 SHEET 6 AA2 6 THR C 61 TYR C 63 -1 O SER C 62 N SER C 53 SHEET 1 AA3 4 GLY C 13 VAL C 15 0 SHEET 2 AA3 4 THR C 121 VAL C 125 1 O THR C 124 N VAL C 15 SHEET 3 AA3 4 ALA C 95 LYS C 103 -1 N TYR C 97 O THR C 121 SHEET 4 AA3 4 TYR C 116 TRP C 117 -1 O TYR C 116 N ARG C 101 SHEET 1 AA4 4 SER C 134 LEU C 138 0 SHEET 2 AA4 4 THR C 149 TYR C 159 -1 O LYS C 157 N SER C 134 SHEET 3 AA4 4 TYR C 190 PRO C 199 -1 O LEU C 192 N VAL C 156 SHEET 4 AA4 4 VAL C 177 THR C 179 -1 N HIS C 178 O VAL C 195 SHEET 1 AA5 4 SER C 134 LEU C 138 0 SHEET 2 AA5 4 THR C 149 TYR C 159 -1 O LYS C 157 N SER C 134 SHEET 3 AA5 4 TYR C 190 PRO C 199 -1 O LEU C 192 N VAL C 156 SHEET 4 AA5 4 VAL C 183 LEU C 184 -1 N VAL C 183 O SER C 191 SHEET 1 AA6 3 THR C 165 TRP C 168 0 SHEET 2 AA6 3 TYR C 208 HIS C 214 -1 O ASN C 211 N SER C 167 SHEET 3 AA6 3 THR C 219 VAL C 225 -1 O VAL C 225 N TYR C 208 SHEET 1 AA7 4 MET D 5 SER D 8 0 SHEET 2 AA7 4 VAL D 20 ALA D 26 -1 O ARG D 25 N THR D 6 SHEET 3 AA7 4 ASP D 71 ILE D 76 -1 O PHE D 72 N CYS D 24 SHEET 4 AA7 4 PHE D 63 SER D 68 -1 N SER D 64 O THR D 75 SHEET 1 AA8 6 SER D 11 ALA D 14 0 SHEET 2 AA8 6 THR D 103 ILE D 107 1 O GLU D 106 N LEU D 12 SHEET 3 AA8 6 THR D 86 GLN D 91 -1 N TYR D 87 O THR D 103 SHEET 4 AA8 6 VAL D 34 GLN D 39 -1 N TYR D 37 O TYR D 88 SHEET 5 AA8 6 LYS D 46 TYR D 50 -1 O LEU D 48 N TRP D 36 SHEET 6 AA8 6 TYR D 54 LEU D 55 -1 O TYR D 54 N TYR D 50 SHEET 1 AA9 4 SER D 11 ALA D 14 0 SHEET 2 AA9 4 THR D 103 ILE D 107 1 O GLU D 106 N LEU D 12 SHEET 3 AA9 4 THR D 86 GLN D 91 -1 N TYR D 87 O THR D 103 SHEET 4 AA9 4 THR D 98 PHE D 99 -1 O THR D 98 N GLN D 91 SHEET 1 AB1 4 SER D 115 PHE D 119 0 SHEET 2 AB1 4 THR D 130 PHE D 140 -1 O LEU D 136 N PHE D 117 SHEET 3 AB1 4 TYR D 174 SER D 183 -1 O LEU D 176 N LEU D 137 SHEET 4 AB1 4 SER D 160 VAL D 164 -1 N GLN D 161 O THR D 179 SHEET 1 AB2 4 ALA D 154 LEU D 155 0 SHEET 2 AB2 4 LYS D 146 VAL D 151 -1 N VAL D 151 O ALA D 154 SHEET 3 AB2 4 VAL D 192 THR D 198 -1 O GLU D 196 N GLN D 148 SHEET 4 AB2 4 VAL D 206 ASN D 211 -1 O VAL D 206 N VAL D 197 SHEET 1 AB3 4 GLN H 6 SER H 10 0 SHEET 2 AB3 4 LEU H 21 SER H 28 -1 O SER H 24 N SER H 10 SHEET 3 AB3 4 THR H 81 MET H 86 -1 O MET H 86 N LEU H 21 SHEET 4 AB3 4 PHE H 71 ASP H 76 -1 N THR H 72 O GLN H 85 SHEET 1 AB4 6 LEU H 14 VAL H 15 0 SHEET 2 AB4 6 THR H 121 VAL H 125 1 O THR H 124 N VAL H 15 SHEET 3 AB4 6 ALA H 95 LYS H 103 -1 N TYR H 97 O THR H 121 SHEET 4 AB4 6 SER H 35 GLN H 42 -1 N VAL H 40 O TYR H 98 SHEET 5 AB4 6 GLU H 49 ILE H 54 -1 O GLU H 49 N ARG H 41 SHEET 6 AB4 6 THR H 61 TYR H 63 -1 O SER H 62 N SER H 53 SHEET 1 AB5 4 LEU H 14 VAL H 15 0 SHEET 2 AB5 4 THR H 121 VAL H 125 1 O THR H 124 N VAL H 15 SHEET 3 AB5 4 ALA H 95 LYS H 103 -1 N TYR H 97 O THR H 121 SHEET 4 AB5 4 TYR H 116 TRP H 117 -1 O TYR H 116 N ARG H 101 SHEET 1 AB6 4 SER H 134 LEU H 138 0 SHEET 2 AB6 4 THR H 149 TYR H 159 -1 O LEU H 155 N PHE H 136 SHEET 3 AB6 4 TYR H 190 PRO H 199 -1 O VAL H 198 N ALA H 150 SHEET 4 AB6 4 VAL H 177 THR H 179 -1 N HIS H 178 O VAL H 195 SHEET 1 AB7 4 SER H 134 LEU H 138 0 SHEET 2 AB7 4 THR H 149 TYR H 159 -1 O LEU H 155 N PHE H 136 SHEET 3 AB7 4 TYR H 190 PRO H 199 -1 O VAL H 198 N ALA H 150 SHEET 4 AB7 4 VAL H 183 LEU H 184 -1 N VAL H 183 O SER H 191 SHEET 1 AB8 3 THR H 165 TRP H 168 0 SHEET 2 AB8 3 TYR H 208 HIS H 214 -1 O ASN H 213 N THR H 165 SHEET 3 AB8 3 THR H 219 VAL H 225 -1 O VAL H 221 N VAL H 212 SHEET 1 AB9 4 MET L 5 SER L 8 0 SHEET 2 AB9 4 VAL L 20 ALA L 26 -1 O ARG L 25 N THR L 6 SHEET 3 AB9 4 ASP L 71 ILE L 76 -1 O PHE L 72 N CYS L 24 SHEET 4 AB9 4 PHE L 63 SER L 68 -1 N SER L 64 O THR L 75 SHEET 1 AC1 6 SER L 11 ALA L 14 0 SHEET 2 AC1 6 THR L 103 ILE L 107 1 O GLU L 106 N LEU L 12 SHEET 3 AC1 6 THR L 86 GLN L 91 -1 N TYR L 87 O THR L 103 SHEET 4 AC1 6 VAL L 34 GLN L 39 -1 N TYR L 37 O TYR L 88 SHEET 5 AC1 6 LYS L 46 TYR L 50 -1 O LEU L 48 N TRP L 36 SHEET 6 AC1 6 TYR L 54 LEU L 55 -1 O TYR L 54 N TYR L 50 SHEET 1 AC2 4 SER L 11 ALA L 14 0 SHEET 2 AC2 4 THR L 103 ILE L 107 1 O GLU L 106 N LEU L 12 SHEET 3 AC2 4 THR L 86 GLN L 91 -1 N TYR L 87 O THR L 103 SHEET 4 AC2 4 THR L 98 PHE L 99 -1 O THR L 98 N GLN L 91 SHEET 1 AC3 4 SER L 115 PHE L 119 0 SHEET 2 AC3 4 THR L 130 PHE L 140 -1 O LEU L 136 N PHE L 117 SHEET 3 AC3 4 TYR L 174 SER L 183 -1 O LEU L 180 N VAL L 133 SHEET 4 AC3 4 SER L 160 VAL L 164 -1 N GLN L 161 O THR L 179 SHEET 1 AC4 4 ALA L 154 LEU L 155 0 SHEET 2 AC4 4 LYS L 146 VAL L 151 -1 N VAL L 151 O ALA L 154 SHEET 3 AC4 4 VAL L 192 THR L 198 -1 O GLU L 196 N GLN L 148 SHEET 4 AC4 4 VAL L 206 ASN L 211 -1 O VAL L 206 N VAL L 197 SSBOND 1 CYS C 25 CYS C 99 1555 1555 2.02 SSBOND 2 CYS C 154 CYS C 210 1555 1555 2.05 SSBOND 3 CYS D 24 CYS D 89 1555 1555 2.03 SSBOND 4 CYS D 135 CYS D 195 1555 1555 2.02 SSBOND 5 CYS H 25 CYS H 99 1555 1555 2.02 SSBOND 6 CYS H 154 CYS H 210 1555 1555 2.05 SSBOND 7 CYS L 24 CYS L 89 1555 1555 2.33 SSBOND 8 CYS L 135 CYS L 195 1555 1555 2.02 LINK N7 G A 16 C22 97C A 101 1555 1555 1.41 LINK N7 G B 16 C22 97C B 101 1555 1555 1.40 CISPEP 1 PHE C 160 PRO C 161 0 -4.38 CISPEP 2 GLU C 162 PRO C 163 0 -1.51 CISPEP 3 SER D 8 PRO D 9 0 -5.43 CISPEP 4 ARG D 95 PRO D 96 0 0.15 CISPEP 5 TYR D 141 PRO D 142 0 3.27 CISPEP 6 PHE H 160 PRO H 161 0 -5.38 CISPEP 7 GLU H 162 PRO H 163 0 -0.83 CISPEP 8 SER L 8 PRO L 9 0 -5.71 CISPEP 9 ARG L 95 PRO L 96 0 -0.42 CISPEP 10 TYR L 141 PRO L 142 0 4.16 CRYST1 83.916 99.639 90.544 90.00 97.10 90.00 P 1 21 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 0.011917 0.000000 0.001484 0.00000 SCALE2 0.000000 0.010036 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011130 0.00000