HEADER IMMUNE SYSTEM 12-FEB-20 6Y1L TITLE CRYSTAL STRUCTURE OF THE PARAOXON-MODIFIED A.17 ANTIBODY FAB FRAGMENT TITLE 2 - L47R MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: FAB A.17 L47R MUTANT HEAVY CHAIN; COMPND 3 CHAIN: H; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: FAB A.17 L47R MUTANT LIGHT CHAIN; COMPND 7 CHAIN: L; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: KOMAGATAELLA PHAFFII GS115; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 644223; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 EXPRESSION_SYSTEM: KOMAGATAELLA PHAFFII GS115; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 644223 KEYWDS QM/MM COMPUTATION; DESIGNED BIOCATALYSTS; BIOSCAVENGERS; PHOSPHORYL KEYWDS 2 TRANSFER; ORGANOPHOSPHORUS AGENTS, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR S.CHATZIEFTHIMIOU,Y.MOKRUSHINA,I.SMIRNOV,A.GABIBOV,M.WILMANNS REVDAT 3 24-JAN-24 6Y1L 1 REMARK REVDAT 2 30-SEP-20 6Y1L 1 JRNL REVDAT 1 23-SEP-20 6Y1L 0 JRNL AUTH Y.A.MOKRUSHINA,A.V.GOLOVIN,I.V.SMIRNOV,S.D.CHATZIEFTHIMIOU, JRNL AUTH 2 A.V.STEPANOVA,T.V.BOBIK,A.O.ZALEVSKY,A.S.ZLOBIN, JRNL AUTH 3 K.A.KONOVALOV,S.S.TEREKHOV,A.V.STEPANOV,S.O.PIPIYA, JRNL AUTH 4 O.G.SHAMBORANT,E.ROUND,A.A.BELOGUROV JR.,G.BOURENKOV, JRNL AUTH 5 A.A.MAKAROV,M.WILMANNS,J.XIE,G.M.BLACKBURN,A.G.GABIBOV, JRNL AUTH 6 R.A.LERNER JRNL TITL MULTISCALE COMPUTATION DELIVERS ORGANOPHOSPHORUS REACTIVITY JRNL TITL 2 AND STEREOSELECTIVITY TO IMMUNOGLOBULIN SCAVENGERS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 117 22841 2020 JRNL REFN ESSN 1091-6490 JRNL PMID 32859757 JRNL DOI 10.1073/PNAS.2010317117 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 83454 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 4244 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 29.5000 - 4.3457 0.99 2799 134 0.1498 0.1720 REMARK 3 2 4.3457 - 3.4510 1.00 2749 144 0.1401 0.1679 REMARK 3 3 3.4510 - 3.0153 0.98 2681 154 0.1574 0.1748 REMARK 3 4 3.0153 - 2.7398 0.99 2705 143 0.1703 0.1818 REMARK 3 5 2.7398 - 2.5435 0.99 2726 123 0.1717 0.1984 REMARK 3 6 2.5435 - 2.3936 0.99 2703 141 0.1727 0.2115 REMARK 3 7 2.3936 - 2.2738 0.97 2651 154 0.1705 0.1997 REMARK 3 8 2.2738 - 2.1749 0.99 2691 152 0.1673 0.2060 REMARK 3 9 2.1749 - 2.0912 0.98 2661 152 0.1631 0.1908 REMARK 3 10 2.0912 - 2.0190 0.98 2668 133 0.1593 0.2080 REMARK 3 11 2.0190 - 1.9559 0.98 2657 152 0.1598 0.1785 REMARK 3 12 1.9559 - 1.9000 0.98 2664 158 0.1696 0.1954 REMARK 3 13 1.9000 - 1.8500 0.96 2588 147 0.1713 0.2311 REMARK 3 14 1.8500 - 1.8049 0.97 2649 140 0.1737 0.2144 REMARK 3 15 1.8049 - 1.7638 0.97 2651 154 0.1705 0.1870 REMARK 3 16 1.7638 - 1.7263 0.97 2647 145 0.1716 0.2334 REMARK 3 17 1.7263 - 1.6918 0.97 2583 162 0.1878 0.2139 REMARK 3 18 1.6918 - 1.6599 0.97 2624 143 0.1853 0.2252 REMARK 3 19 1.6599 - 1.6302 0.97 2614 148 0.1959 0.2176 REMARK 3 20 1.6302 - 1.6026 0.96 2629 136 0.1984 0.2840 REMARK 3 21 1.6026 - 1.5767 0.95 2563 142 0.2093 0.2206 REMARK 3 22 1.5767 - 1.5525 0.97 2627 125 0.2175 0.2601 REMARK 3 23 1.5525 - 1.5296 0.96 2653 135 0.2346 0.2809 REMARK 3 24 1.5296 - 1.5081 0.96 2571 125 0.2357 0.2610 REMARK 3 25 1.5081 - 1.4877 0.96 2644 146 0.2441 0.2726 REMARK 3 26 1.4877 - 1.4684 0.95 2545 128 0.2629 0.3454 REMARK 3 27 1.4684 - 1.4500 0.96 2650 127 0.2647 0.2728 REMARK 3 28 1.4500 - 1.4326 0.95 2568 146 0.2831 0.3303 REMARK 3 29 1.4326 - 1.4159 0.95 2535 129 0.2861 0.3143 REMARK 3 30 1.4159 - 1.4000 0.91 2514 126 0.3071 0.3417 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) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.720 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.04 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 : 0.012 3575 REMARK 3 ANGLE : 1.437 4887 REMARK 3 CHIRALITY : 0.064 554 REMARK 3 PLANARITY : 0.008 635 REMARK 3 DIHEDRAL : 11.767 1277 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN H AND RESID 1:117) REMARK 3 ORIGIN FOR THE GROUP (A): 0.1119 -3.2086 -1.5868 REMARK 3 T TENSOR REMARK 3 T11: 0.1290 T22: 0.1305 REMARK 3 T33: 0.1178 T12: 0.0153 REMARK 3 T13: 0.0126 T23: -0.0021 REMARK 3 L TENSOR REMARK 3 L11: 3.1197 L22: 2.0747 REMARK 3 L33: 3.0821 L12: 0.4595 REMARK 3 L13: 0.9330 L23: 0.1188 REMARK 3 S TENSOR REMARK 3 S11: 0.0491 S12: 0.1399 S13: -0.2397 REMARK 3 S21: -0.1044 S22: -0.0956 S23: -0.0440 REMARK 3 S31: 0.2734 S32: -0.0470 S33: 0.0445 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN H AND RESID 118:224) REMARK 3 ORIGIN FOR THE GROUP (A): 10.4595 -7.7429 28.4500 REMARK 3 T TENSOR REMARK 3 T11: 0.1265 T22: 0.0814 REMARK 3 T33: 0.1130 T12: -0.0251 REMARK 3 T13: -0.0144 T23: -0.0049 REMARK 3 L TENSOR REMARK 3 L11: 1.4615 L22: 1.8477 REMARK 3 L33: 2.2954 L12: 0.2629 REMARK 3 L13: -0.5417 L23: -1.3896 REMARK 3 S TENSOR REMARK 3 S11: 0.0482 S12: -0.0855 S13: 0.0007 REMARK 3 S21: 0.1447 S22: -0.0449 S23: 0.0646 REMARK 3 S31: 0.0452 S32: 0.0736 S33: -0.0082 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN L AND RESID 2:107) REMARK 3 ORIGIN FOR THE GROUP (A): -17.2796 5.0764 9.9470 REMARK 3 T TENSOR REMARK 3 T11: 0.0902 T22: 0.1008 REMARK 3 T33: 0.1304 T12: 0.0087 REMARK 3 T13: 0.0236 T23: 0.0141 REMARK 3 L TENSOR REMARK 3 L11: 2.5866 L22: 1.3701 REMARK 3 L33: 3.3990 L12: 0.0517 REMARK 3 L13: -0.5495 L23: -0.2219 REMARK 3 S TENSOR REMARK 3 S11: 0.1222 S12: 0.1921 S13: 0.1893 REMARK 3 S21: 0.0203 S22: -0.0021 S23: 0.0783 REMARK 3 S31: -0.1845 S32: 0.0366 S33: -0.1024 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN L AND RESID 108:219) REMARK 3 ORIGIN FOR THE GROUP (A): 8.2655 3.9209 37.6817 REMARK 3 T TENSOR REMARK 3 T11: 0.1198 T22: 0.0922 REMARK 3 T33: 0.0973 T12: 0.0067 REMARK 3 T13: 0.0005 T23: -0.0132 REMARK 3 L TENSOR REMARK 3 L11: 3.8130 L22: 0.6509 REMARK 3 L33: 1.4603 L12: 0.0144 REMARK 3 L13: 1.0596 L23: -0.1199 REMARK 3 S TENSOR REMARK 3 S11: -0.0746 S12: -0.1503 S13: 0.0478 REMARK 3 S21: 0.0821 S22: 0.0427 S23: 0.0455 REMARK 3 S31: -0.0232 S32: -0.1172 S33: 0.0343 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 6Y1L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-FEB-20. REMARK 100 THE DEPOSITION ID IS D_1292102471. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-DEC-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P13 (MX1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.03320 REMARK 200 MONOCHROMATOR : NULL 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 : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 83469 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 29.510 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PHASES REMARK 200 STARTING MODEL: 2XZA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M ADA, PH 7.5 0.3M MGCL2 12% PEG REMARK 280 6K, PH 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 33.37500 REMARK 290 SMTRY3 2 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: 4270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 GLN H 1 REMARK 465 MET H 225 REMARK 465 ASP H 226 REMARK 465 TYR H 227 REMARK 465 LYS H 228 REMARK 465 ASP H 229 REMARK 465 HIS H 230 REMARK 465 ASP H 231 REMARK 465 GLY H 232 REMARK 465 ASP H 233 REMARK 465 TYR H 234 REMARK 465 LYS H 235 REMARK 465 ASP H 236 REMARK 465 HIS H 237 REMARK 465 ASP H 238 REMARK 465 ILE H 239 REMARK 465 ASP H 240 REMARK 465 TYR H 241 REMARK 465 LYS H 242 REMARK 465 ASP H 243 REMARK 465 ASP H 244 REMARK 465 ASP H 245 REMARK 465 ASP H 246 REMARK 465 LYS H 247 REMARK 465 VAL H 248 REMARK 465 ASP H 249 REMARK 465 HIS H 250 REMARK 465 HIS H 251 REMARK 465 HIS H 252 REMARK 465 HIS H 253 REMARK 465 HIS H 254 REMARK 465 HIS H 255 REMARK 465 GLN L 1 REMARK 465 SER L 2 REMARK 465 ALA L 220 REMARK 465 ALA L 221 REMARK 465 ALA L 222 REMARK 465 ALA L 223 REMARK 465 SER L 224 REMARK 465 PHE L 225 REMARK 465 LEU L 226 REMARK 465 GLU L 227 REMARK 465 GLN L 228 REMARK 465 LYS L 229 REMARK 465 LEU L 230 REMARK 465 ILE L 231 REMARK 465 SER L 232 REMARK 465 GLU L 233 REMARK 465 GLU L 234 REMARK 465 ASP L 235 REMARK 465 LEU L 236 REMARK 465 ASN L 237 REMARK 465 SER L 238 REMARK 465 ALA L 239 REMARK 465 VAL L 240 REMARK 465 ASP L 241 REMARK 465 HIS L 242 REMARK 465 HIS L 243 REMARK 465 HIS L 244 REMARK 465 HIS L 245 REMARK 465 HIS L 246 REMARK 465 HIS L 247 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 CYS L 22 CA - CB - SG ANGL. DEV. = 6.9 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 SER H 15 -11.59 82.35 REMARK 500 GLN H 101 -44.96 74.56 REMARK 500 GLN H 101 -44.96 73.75 REMARK 500 ASP H 150 60.36 66.94 REMARK 500 ASN L 28 -84.31 -109.19 REMARK 500 ASN L 52 -42.26 76.15 REMARK 500 ALA L 85 170.10 179.10 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 MG L 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH L 406 O REMARK 620 2 HOH L 462 O 90.9 REMARK 620 3 HOH L 465 O 86.7 174.8 REMARK 620 4 HOH L 516 O 93.9 93.1 82.5 REMARK 620 5 HOH L 636 O 177.4 87.1 95.2 84.6 REMARK 620 6 HOH L 640 O 92.6 91.1 93.6 172.3 89.2 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DEP L 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG L 302 DBREF 6Y1L H 1 255 PDB 6Y1L 6Y1L 1 255 DBREF 6Y1L L 1 247 PDB 6Y1L 6Y1L 1 247 SEQRES 1 H 255 GLN VAL GLN LEU GLN GLU SER GLY PRO GLY LEU VAL LYS SEQRES 2 H 255 PRO SER GLU THR LEU SER LEU THR CYS ALA VAL SER GLY SEQRES 3 H 255 TYR SER ILE SER SER GLY TYR TYR TRP GLY TRP ILE ARG SEQRES 4 H 255 GLN PRO PRO GLY LYS GLY LEU GLU TRP ILE GLY SER ILE SEQRES 5 H 255 TYR HIS SER GLY SER THR TYR TYR ASN PRO SER LEU LYS SEQRES 6 H 255 SER ARG VAL THR ILE SER VAL ASP THR SER LYS ASN GLN SEQRES 7 H 255 PHE SER LEU LYS LEU SER SER VAL THR ALA ALA ASP THR SEQRES 8 H 255 ALA VAL TYR TYR CYS ALA GLY LEU THR GLN SER SER HIS SEQRES 9 H 255 ASN ASP ALA ASN TRP GLY GLN GLY THR LEU VAL THR VAL SEQRES 10 H 255 SER SER ALA SER THR LYS GLY PRO SER VAL PHE PRO LEU SEQRES 11 H 255 ALA PRO SER SER LYS SER THR SER GLY GLY THR ALA ALA SEQRES 12 H 255 LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO VAL SEQRES 13 H 255 THR VAL SER TRP ASN SER GLY ALA LEU THR SER GLY VAL SEQRES 14 H 255 HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY LEU TYR SEQRES 15 H 255 SER LEU SER SER VAL VAL THR VAL PRO SER SER SER LEU SEQRES 16 H 255 GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS LYS PRO SEQRES 17 H 255 SER ASN THR LYS VAL ASP LYS LYS VAL GLU PRO LYS SER SEQRES 18 H 255 CYS LEU ALA MET ASP TYR LYS ASP HIS ASP GLY ASP TYR SEQRES 19 H 255 LYS ASP HIS ASP ILE ASP TYR LYS ASP ASP ASP ASP LYS SEQRES 20 H 255 VAL ASP HIS HIS HIS HIS HIS HIS SEQRES 1 L 247 GLN SER VAL LEU THR GLN PRO PRO SER VAL SER ALA ALA SEQRES 2 L 247 PRO GLY GLN LYS VAL THR ILE SER CYS SER GLY SER SER SEQRES 3 L 247 SER ASN ILE GLY ASN ASN TYR VAL SER TRP TYR GLN GLN SEQRES 4 L 247 LEU PRO GLY THR ALA PRO LYS ARG LEU ILE TYR ASP ASN SEQRES 5 L 247 ASN LYS ARG PRO SER GLY ILE PRO ASP ARG PHE SER GLY SEQRES 6 L 247 SER LYS SER GLY THR SER ALA THR LEU GLY ILE THR GLY SEQRES 7 L 247 LEU GLN THR GLY ASP GLU ALA ASP TYR TYR CYS GLY THR SEQRES 8 L 247 TRP ASP SER SER LEU ASN PRO VAL PHE GLY GLY GLY THR SEQRES 9 L 247 LYS LEU GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL SEQRES 10 L 247 PHE ILE PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY SEQRES 11 L 247 THR ALA SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO SEQRES 12 L 247 ARG GLU ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU SEQRES 13 L 247 GLN SER GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SEQRES 14 L 247 SER LYS ASP SER THR TYR SER LEU SER SER THR LEU THR SEQRES 15 L 247 LEU SER LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA SEQRES 16 L 247 CYS GLU VAL THR HIS GLN GLY LEU SER SER PRO VAL THR SEQRES 17 L 247 LYS SER PHE ASN ARG GLY GLU CYS ILE ASP ALA ALA ALA SEQRES 18 L 247 ALA ALA SER PHE LEU GLU GLN LYS LEU ILE SER GLU GLU SEQRES 19 L 247 ASP LEU ASN SER ALA VAL ASP HIS HIS HIS HIS HIS HIS HET DEP L 301 8 HET MG L 302 1 HETNAM DEP DIETHYL PHOSPHONATE HETNAM MG MAGNESIUM ION FORMUL 3 DEP C4 H11 O3 P FORMUL 4 MG MG 2+ FORMUL 5 HOH *488(H2 O) HELIX 1 AA1 SER H 28 GLY H 32 5 5 HELIX 2 AA2 LEU H 64 SER H 66 5 3 HELIX 3 AA3 THR H 87 THR H 91 5 5 HELIX 4 AA4 SER H 133 LYS H 135 5 3 HELIX 5 AA5 SER H 162 ALA H 164 5 3 HELIX 6 AA6 SER H 193 LEU H 195 5 3 HELIX 7 AA7 LYS H 207 ASN H 210 5 4 HELIX 8 AA8 GLN L 80 GLU L 84 5 5 HELIX 9 AA9 SER L 123 SER L 129 1 7 HELIX 10 AB1 LYS L 185 GLU L 189 1 5 SHEET 1 AA1 4 GLN H 3 GLU H 6 0 SHEET 2 AA1 4 LEU H 18 SER H 25 -1 O SER H 25 N GLN H 3 SHEET 3 AA1 4 GLN H 78 LEU H 83 -1 O PHE H 79 N CYS H 22 SHEET 4 AA1 4 VAL H 68 ASP H 73 -1 N ASP H 73 O GLN H 78 SHEET 1 AA2 6 GLY H 10 VAL H 12 0 SHEET 2 AA2 6 THR H 113 VAL H 117 1 O THR H 116 N VAL H 12 SHEET 3 AA2 6 ALA H 92 LEU H 99 -1 N TYR H 94 O THR H 113 SHEET 4 AA2 6 TYR H 34 GLN H 40 -1 N ILE H 38 O TYR H 95 SHEET 5 AA2 6 GLU H 47 TYR H 53 -1 O GLU H 47 N ARG H 39 SHEET 6 AA2 6 THR H 58 TYR H 60 -1 O TYR H 59 N SER H 51 SHEET 1 AA3 4 GLY H 10 VAL H 12 0 SHEET 2 AA3 4 THR H 113 VAL H 117 1 O THR H 116 N VAL H 12 SHEET 3 AA3 4 ALA H 92 LEU H 99 -1 N TYR H 94 O THR H 113 SHEET 4 AA3 4 ASN H 108 TRP H 109 -1 O ASN H 108 N GLY H 98 SHEET 1 AA4 4 SER H 126 LEU H 130 0 SHEET 2 AA4 4 THR H 141 TYR H 151 -1 O LEU H 147 N PHE H 128 SHEET 3 AA4 4 TYR H 182 PRO H 191 -1 O LEU H 184 N VAL H 148 SHEET 4 AA4 4 VAL H 169 THR H 171 -1 N HIS H 170 O VAL H 187 SHEET 1 AA5 4 THR H 137 SER H 138 0 SHEET 2 AA5 4 THR H 141 TYR H 151 -1 O THR H 141 N SER H 138 SHEET 3 AA5 4 TYR H 182 PRO H 191 -1 O LEU H 184 N VAL H 148 SHEET 4 AA5 4 VAL H 175 LEU H 176 -1 N VAL H 175 O SER H 183 SHEET 1 AA6 3 THR H 157 TRP H 160 0 SHEET 2 AA6 3 ILE H 201 HIS H 206 -1 O ASN H 203 N SER H 159 SHEET 3 AA6 3 THR H 211 LYS H 216 -1 O VAL H 213 N VAL H 204 SHEET 1 AA7 2 SER H 221 CYS H 222 0 SHEET 2 AA7 2 CYS L 216 ILE L 217 -1 O ILE L 217 N SER H 221 SHEET 1 AA8 5 SER L 9 ALA L 12 0 SHEET 2 AA8 5 THR L 104 ILE L 108 1 O GLU L 107 N VAL L 10 SHEET 3 AA8 5 ALA L 85 TRP L 92 -1 N ALA L 85 O LEU L 106 SHEET 4 AA8 5 SER L 35 GLN L 39 -1 N GLN L 39 O ASP L 86 SHEET 5 AA8 5 LYS L 46 ILE L 49 -1 O LEU L 48 N TRP L 36 SHEET 1 AA9 4 SER L 9 ALA L 12 0 SHEET 2 AA9 4 THR L 104 ILE L 108 1 O GLU L 107 N VAL L 10 SHEET 3 AA9 4 ALA L 85 TRP L 92 -1 N ALA L 85 O LEU L 106 SHEET 4 AA9 4 PRO L 98 PHE L 100 -1 O VAL L 99 N THR L 91 SHEET 1 AB1 3 VAL L 18 SER L 23 0 SHEET 2 AB1 3 SER L 71 ILE L 76 -1 O LEU L 74 N ILE L 20 SHEET 3 AB1 3 PHE L 63 SER L 68 -1 N SER L 64 O GLY L 75 SHEET 1 AB2 4 SER L 116 PHE L 120 0 SHEET 2 AB2 4 THR L 131 PHE L 141 -1 O ASN L 139 N SER L 116 SHEET 3 AB2 4 TYR L 175 SER L 184 -1 O LEU L 177 N LEU L 138 SHEET 4 AB2 4 SER L 161 VAL L 165 -1 N SER L 164 O SER L 178 SHEET 1 AB3 4 ALA L 155 LEU L 156 0 SHEET 2 AB3 4 LYS L 147 VAL L 152 -1 N VAL L 152 O ALA L 155 SHEET 3 AB3 4 VAL L 193 THR L 199 -1 O GLU L 197 N GLN L 149 SHEET 4 AB3 4 VAL L 207 ASN L 212 -1 O VAL L 207 N VAL L 198 SSBOND 1 CYS H 22 CYS H 96 1555 1555 2.14 SSBOND 2 CYS H 146 CYS H 202 1555 1555 2.04 SSBOND 3 CYS H 222 CYS L 216 1555 1555 2.05 SSBOND 4 CYS L 22 CYS L 89 1555 1555 2.05 SSBOND 5 CYS L 136 CYS L 196 1555 1555 2.06 LINK OH TYR L 37 P DEP L 301 1555 1555 1.53 LINK MG MG L 302 O HOH L 406 1555 1555 2.04 LINK MG MG L 302 O HOH L 462 1555 1555 2.05 LINK MG MG L 302 O HOH L 465 1555 1555 2.02 LINK MG MG L 302 O HOH L 516 1555 1555 2.09 LINK MG MG L 302 O HOH L 636 1555 1555 2.10 LINK MG MG L 302 O HOH L 640 1555 1555 2.10 CISPEP 1 PHE H 152 PRO H 153 0 -12.14 CISPEP 2 GLU H 154 PRO H 155 0 -0.11 CISPEP 3 TYR L 142 PRO L 143 0 2.37 SITE 1 AC1 9 TYR H 34 TRP H 109 HOH H 347 TYR L 37 SITE 2 AC1 9 GLY L 90 THR L 91 TRP L 92 PHE L 100 SITE 3 AC1 9 HOH L 464 SITE 1 AC2 6 HOH L 406 HOH L 462 HOH L 465 HOH L 516 SITE 2 AC2 6 HOH L 636 HOH L 640 CRYST1 52.723 66.750 66.220 90.00 107.52 90.00 P 1 21 1 2 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 0.018967 0.000000 0.005989 0.00000 SCALE2 0.000000 0.014981 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015836 0.00000