HEADER HYDROLASE 31-DEC-16 5MS8 TITLE CRYSTAL STRUCTURE OF THE LEGIONELLA PNEUMOPHILA EFFECTOR PROTEIN TITLE 2 RAVZ_1-487 COMPND MOL_ID: 1; COMPND 2 MOLECULE: LEGIONELLA PNEUMOPHILA EFFECTOR PROTEIN RAVZ; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEGIONELLA PNEUMOPHILA SUBSP. PNEUMOPHILA ATCC SOURCE 3 33215; SOURCE 4 ORGANISM_TAXID: 933085; SOURCE 5 GENE: LPG1683; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: POPIN KEYWDS HYDROLASE / AUTOPHAGY / LEGIONELLA PNEUMOPHILA EFFECTOR PROTEIN / KEYWDS 2 ATG8 DECONJUGATING ENZYME, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.PANTOOM,I.R.VETTER,Y.W.WU REVDAT 4 17-JAN-24 5MS8 1 REMARK REVDAT 3 20-FEB-19 5MS8 1 REMARK LINK REVDAT 2 26-APR-17 5MS8 1 JRNL REVDAT 1 19-APR-17 5MS8 0 JRNL AUTH A.YANG,S.PANTOOM,Y.W.WU JRNL TITL ELUCIDATION OF THE ANTI-AUTOPHAGY MECHANISM OF THE JRNL TITL 2 LEGIONELLA EFFECTOR RAVZ USING SEMISYNTHETIC LC3 PROTEINS. JRNL REF ELIFE V. 6 2017 JRNL REFN ESSN 2050-084X JRNL PMID 28395732 JRNL DOI 10.7554/ELIFE.23905 REMARK 2 REMARK 2 RESOLUTION. 2.85 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.05 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 21565 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1079 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 47.0532 - 5.6971 1.00 2717 143 0.1950 0.2608 REMARK 3 2 5.6971 - 4.5231 1.00 2588 137 0.1723 0.2087 REMARK 3 3 4.5231 - 3.9517 1.00 2557 134 0.1541 0.1832 REMARK 3 4 3.9517 - 3.5905 1.00 2541 134 0.1642 0.2015 REMARK 3 5 3.5905 - 3.3333 1.00 2521 133 0.2200 0.3122 REMARK 3 6 3.3333 - 3.1368 1.00 2532 133 0.2774 0.3478 REMARK 3 7 3.1368 - 2.9797 1.00 2518 132 0.3365 0.3630 REMARK 3 8 2.9797 - 2.8500 1.00 2512 133 0.3841 0.4114 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) : 0.550 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.040 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 86.80 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 3027 REMARK 3 ANGLE : 1.452 4086 REMARK 3 CHIRALITY : 0.055 465 REMARK 3 PLANARITY : 0.006 518 REMARK 3 DIHEDRAL : 17.994 1122 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 47 THROUGH 167 ) REMARK 3 ORIGIN FOR THE GROUP (A): 54.8080 187.3383 3.1790 REMARK 3 T TENSOR REMARK 3 T11: 0.8010 T22: 0.4448 REMARK 3 T33: 0.5801 T12: -0.0109 REMARK 3 T13: -0.0616 T23: 0.0526 REMARK 3 L TENSOR REMARK 3 L11: 5.0506 L22: 5.4479 REMARK 3 L33: 5.4578 L12: 0.5007 REMARK 3 L13: -0.1705 L23: 1.1873 REMARK 3 S TENSOR REMARK 3 S11: -0.2205 S12: 0.0620 S13: 0.2472 REMARK 3 S21: -0.6323 S22: 0.3022 S23: 0.1735 REMARK 3 S31: -0.7653 S32: -0.2433 S33: -0.0581 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 168 THROUGH 256 ) REMARK 3 ORIGIN FOR THE GROUP (A): 67.5361 181.4234 -6.0591 REMARK 3 T TENSOR REMARK 3 T11: 0.7832 T22: 0.6194 REMARK 3 T33: 0.5636 T12: -0.1138 REMARK 3 T13: 0.0056 T23: 0.0346 REMARK 3 L TENSOR REMARK 3 L11: 3.4927 L22: 7.0423 REMARK 3 L33: 3.7275 L12: -2.1906 REMARK 3 L13: -1.9078 L23: -1.5176 REMARK 3 S TENSOR REMARK 3 S11: 0.0217 S12: 0.3058 S13: -0.1182 REMARK 3 S21: -0.3565 S22: -0.0553 S23: -0.3545 REMARK 3 S31: -0.1249 S32: 0.5119 S33: 0.0517 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 257 THROUGH 433 ) REMARK 3 ORIGIN FOR THE GROUP (A): 58.4926 203.5472 22.6596 REMARK 3 T TENSOR REMARK 3 T11: 1.2266 T22: 0.5772 REMARK 3 T33: 1.0380 T12: -0.1595 REMARK 3 T13: -0.0213 T23: -0.0775 REMARK 3 L TENSOR REMARK 3 L11: 0.8968 L22: 2.9462 REMARK 3 L33: 6.4677 L12: 0.1680 REMARK 3 L13: -0.2707 L23: 2.8939 REMARK 3 S TENSOR REMARK 3 S11: -0.1245 S12: 0.0618 S13: 0.7131 REMARK 3 S21: -0.1453 S22: 0.0321 S23: 0.4437 REMARK 3 S31: -1.6871 S32: 0.3393 S33: 0.0388 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 5MS8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1200002926. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-NOV-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9780 REMARK 200 MONOCHROMATOR : SI (111) 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 : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21565 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.850 REMARK 200 RESOLUTION RANGE LOW (A) : 47.050 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 26.70 REMARK 200 R MERGE (I) : 0.21620 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.0900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 27.90 REMARK 200 R MERGE FOR SHELL (I) : 1.92700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.850 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5CQC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG3350, 0.2 M BACL2 AND 0.1 M REMARK 280 MES, PH 5.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 110.63500 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 110.63500 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 36.63500 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 110.63500 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 110.63500 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 36.63500 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 110.63500 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 110.63500 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 36.63500 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 110.63500 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 110.63500 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 36.63500 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 110.63500 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 110.63500 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 36.63500 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 110.63500 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 110.63500 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 36.63500 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 110.63500 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 110.63500 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 36.63500 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 110.63500 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 110.63500 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 36.63500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 BIOMT1 2 0.000000 1.000000 0.000000 -110.63500 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 110.63500 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 36.63500 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 619 LIES ON A SPECIAL POSITION. 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 GLY A -1 REMARK 465 PRO A 0 REMARK 465 MET A 1 REMARK 465 LYS A 2 REMARK 465 GLY A 3 REMARK 465 LYS A 4 REMARK 465 LEU A 5 REMARK 465 THR A 6 REMARK 465 GLY A 7 REMARK 465 LYS A 8 REMARK 465 ASP A 9 REMARK 465 LYS A 10 REMARK 465 LEU A 11 REMARK 465 ILE A 12 REMARK 465 VAL A 13 REMARK 465 ASP A 14 REMARK 465 GLU A 15 REMARK 465 PHE A 16 REMARK 465 GLU A 17 REMARK 465 GLU A 18 REMARK 465 LEU A 19 REMARK 465 GLY A 20 REMARK 465 GLU A 21 REMARK 465 GLN A 22 REMARK 465 GLU A 23 REMARK 465 SER A 24 REMARK 465 ASP A 25 REMARK 465 ILE A 26 REMARK 465 ASP A 27 REMARK 465 GLU A 28 REMARK 465 PHE A 29 REMARK 465 ASP A 30 REMARK 465 LEU A 31 REMARK 465 LEU A 32 REMARK 465 GLU A 33 REMARK 465 GLY A 34 REMARK 465 ASP A 35 REMARK 465 GLU A 36 REMARK 465 LYS A 37 REMARK 465 LEU A 38 REMARK 465 PRO A 39 REMARK 465 GLY A 40 REMARK 465 ASP A 41 REMARK 465 SER A 42 REMARK 465 GLU A 43 REMARK 465 LEU A 44 REMARK 465 ASP A 45 REMARK 465 LYS A 46 REMARK 465 ARG A 252 REMARK 465 LEU A 253 REMARK 465 THR A 254 REMARK 465 GLU A 255 REMARK 465 LYS A 349 REMARK 465 SER A 350 REMARK 465 MET A 351 REMARK 465 LEU A 352 REMARK 465 ASN A 353 REMARK 465 PHE A 354 REMARK 465 ASP A 434 REMARK 465 PHE A 435 REMARK 465 VAL A 436 REMARK 465 THR A 437 REMARK 465 ILE A 438 REMARK 465 GLU A 439 REMARK 465 LYS A 440 REMARK 465 ASP A 441 REMARK 465 GLU A 442 REMARK 465 LEU A 443 REMARK 465 PHE A 444 REMARK 465 ASP A 445 REMARK 465 VAL A 446 REMARK 465 PRO A 447 REMARK 465 ASP A 448 REMARK 465 ILE A 449 REMARK 465 THR A 450 REMARK 465 GLY A 451 REMARK 465 GLU A 452 REMARK 465 GLU A 453 REMARK 465 LEU A 454 REMARK 465 ALA A 455 REMARK 465 SER A 456 REMARK 465 LYS A 457 REMARK 465 LYS A 458 REMARK 465 GLY A 459 REMARK 465 ILE A 460 REMARK 465 GLU A 461 REMARK 465 GLN A 462 REMARK 465 GLY A 463 REMARK 465 ALA A 464 REMARK 465 LEU A 465 REMARK 465 ASP A 466 REMARK 465 LYS A 467 REMARK 465 GLU A 468 REMARK 465 ALA A 469 REMARK 465 LEU A 470 REMARK 465 LEU A 471 REMARK 465 LYS A 472 REMARK 465 GLN A 473 REMARK 465 LYS A 474 REMARK 465 GLN A 475 REMARK 465 ILE A 476 REMARK 465 LYS A 477 REMARK 465 THR A 478 REMARK 465 ASP A 479 REMARK 465 LEU A 480 REMARK 465 LEU A 481 REMARK 465 ASP A 482 REMARK 465 LEU A 483 REMARK 465 ARG A 484 REMARK 465 GLU A 485 REMARK 465 GLU A 486 REMARK 465 ASP A 487 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 ILE A 270 OG SER A 273 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 CB ASP A 202 NE2 GLN A 346 15455 0.73 REMARK 500 CG ASP A 202 NE2 GLN A 346 15455 1.21 REMARK 500 CB ASP A 202 CD GLN A 346 15455 1.95 REMARK 500 OD2 ASP A 202 NE2 GLN A 346 15455 1.98 REMARK 500 OD2 ASP A 202 OE1 GLN A 346 15455 2.04 REMARK 500 CA ASP A 202 NE2 GLN A 346 15455 2.08 REMARK 500 CG ASP A 202 CD GLN A 346 15455 2.14 REMARK 500 OD1 ASP A 202 NE2 GLN A 346 15455 2.16 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 SER A 344 C GLN A 345 N -0.233 REMARK 500 GLN A 345 C GLN A 346 N 0.142 REMARK 500 ILE A 355 C GLY A 356 N 0.271 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 LEU A 91 CA - CB - CG ANGL. DEV. = 15.7 DEGREES REMARK 500 SER A 344 CA - C - N ANGL. DEV. = 14.6 DEGREES REMARK 500 SER A 344 O - C - N ANGL. DEV. = -18.1 DEGREES REMARK 500 GLN A 345 C - N - CA ANGL. DEV. = 20.6 DEGREES REMARK 500 GLN A 345 CA - C - N ANGL. DEV. = -33.6 DEGREES REMARK 500 GLN A 345 O - C - N ANGL. DEV. = 31.9 DEGREES REMARK 500 GLN A 346 C - N - CA ANGL. DEV. = -16.6 DEGREES REMARK 500 ILE A 355 CA - C - N ANGL. DEV. = -27.5 DEGREES REMARK 500 ILE A 355 O - C - N ANGL. DEV. = 23.7 DEGREES REMARK 500 GLY A 356 C - N - CA ANGL. DEV. = -17.4 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 A 56 -2.23 65.76 REMARK 500 ASP A 93 -179.78 -171.52 REMARK 500 LEU A 96 77.46 45.26 REMARK 500 GLN A 275 163.46 176.17 REMARK 500 PRO A 282 71.62 -69.89 REMARK 500 SER A 344 10.92 -62.54 REMARK 500 SER A 347 -174.94 170.29 REMARK 500 LYS A 379 -119.74 55.53 REMARK 500 ASN A 380 -137.08 56.50 REMARK 500 SER A 400 -138.38 53.12 REMARK 500 CYS A 425 -6.23 65.33 REMARK 500 ASP A 430 -121.86 46.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ARG A 201 ASP A 202 -137.07 REMARK 500 ILE A 232 LYS A 233 147.28 REMARK 500 LYS A 233 SER A 234 138.60 REMARK 500 SER A 234 THR A 235 -148.88 REMARK 500 TYR A 247 ASN A 248 -145.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 SER A 344 -12.96 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 BA A 501 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 135 O REMARK 620 2 ASP A 137 OD1 91.1 REMARK 620 3 ASP A 140 OD2 86.7 118.1 REMARK 620 4 HOH A 613 O 66.6 64.3 153.3 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 503 DBREF 5MS8 A 1 487 UNP Q5ZUV9 Q5ZUV9_LEGPH 1 487 SEQADV 5MS8 GLY A -1 UNP Q5ZUV9 EXPRESSION TAG SEQADV 5MS8 PRO A 0 UNP Q5ZUV9 EXPRESSION TAG SEQRES 1 A 489 GLY PRO MET LYS GLY LYS LEU THR GLY LYS ASP LYS LEU SEQRES 2 A 489 ILE VAL ASP GLU PHE GLU GLU LEU GLY GLU GLN GLU SER SEQRES 3 A 489 ASP ILE ASP GLU PHE ASP LEU LEU GLU GLY ASP GLU LYS SEQRES 4 A 489 LEU PRO GLY ASP SER GLU LEU ASP LYS THR THR SER ILE SEQRES 5 A 489 TYR PRO PRO GLU THR SER TRP GLU VAL ASN LYS GLY MET SEQRES 6 A 489 ASN SER SER ARG LEU HIS LYS LEU TYR SER LEU PHE PHE SEQRES 7 A 489 ASP LYS SER SER ALA PHE TYR LEU GLY ASP ASP VAL SER SEQRES 8 A 489 VAL LEU GLU ASP LYS PRO LEU THR GLY ALA TYR GLY PHE SEQRES 9 A 489 GLN SER LYS LYS ASN ASP GLN GLN ILE PHE LEU PHE ARG SEQRES 10 A 489 PRO ASP SER ASP TYR VAL ALA GLY TYR HIS VAL ASP ALA SEQRES 11 A 489 LYS SER ASP ALA GLY TRP VAL ASN ASP LYS LEU ASP ARG SEQRES 12 A 489 ARG LEU SER GLU ILE SER GLU PHE CYS SER LYS ALA THR SEQRES 13 A 489 GLN PRO ALA THR PHE ILE LEU PRO PHE VAL GLU MET PRO SEQRES 14 A 489 THR ASP ILE THR LYS GLY VAL GLN HIS GLN VAL LEU LEU SEQRES 15 A 489 THR ILE SER TYR ASP PRO LYS SER LYS GLN LEU THR PRO SEQRES 16 A 489 THR VAL TYR ASP SER ILE GLY ARG ASP THR TYR SER GLU SEQRES 17 A 489 SER LEU SER SER TYR PHE LYS GLY LYS TYR ARG THR THR SEQRES 18 A 489 CYS ASP GLU ILE LEU THR GLN SER ILE GLU LYS ALA ILE SEQRES 19 A 489 LYS SER THR ASP PHE THR LEU GLY LYS PHE THR ARG ALA SEQRES 20 A 489 ALA TYR ASN HIS GLN ASN ARG LEU THR GLU GLY ASN CYS SEQRES 21 A 489 GLY SER TYR THR PHE ARG THR ILE LYS GLU VAL ILE SER SEQRES 22 A 489 SER SER ALA GLN GLY THR GLU VAL LYS ILE PRO GLY SER SEQRES 23 A 489 GLY TYR ILE THR SER ASN SER TYR LEU THR SER GLN HIS SEQRES 24 A 489 VAL GLN ASP ILE GLU SER CYS ILE LYS TYR ARG ASN LEU SEQRES 25 A 489 GLY VAL VAL ASP ILE GLU SER ALA LEU THR GLU GLY LYS SEQRES 26 A 489 THR LEU PRO VAL GLN LEU SER GLU PHE ILE VAL ALA LEU SEQRES 27 A 489 GLU ASP TYR GLY LYS LEU ARG SER GLN GLN SER GLU LYS SEQRES 28 A 489 SER MET LEU ASN PHE ILE GLY TYR SER LYS THR ALA LYS SEQRES 29 A 489 LEU THR ALA VAL GLU LEU LEU ILE GLY ILE LEU ASN ASP SEQRES 30 A 489 ILE LYS GLY LYS ASN GLU ILE SER GLU SER GLN TYR ASP SEQRES 31 A 489 LYS LEU VAL LYS GLU VAL ASP CYS LEU MET ASP SER SER SEQRES 32 A 489 LEU GLY LYS LEU VAL GLN PHE HIS LEU LYS ASN LEU GLY SEQRES 33 A 489 ALA GLU SER LEU GLN LYS LEU VAL LEU PRO CYS VAL LYS SEQRES 34 A 489 PHE ASP ASP THR ILE ASP ASP PHE VAL THR ILE GLU LYS SEQRES 35 A 489 ASP GLU LEU PHE ASP VAL PRO ASP ILE THR GLY GLU GLU SEQRES 36 A 489 LEU ALA SER LYS LYS GLY ILE GLU GLN GLY ALA LEU ASP SEQRES 37 A 489 LYS GLU ALA LEU LEU LYS GLN LYS GLN ILE LYS THR ASP SEQRES 38 A 489 LEU LEU ASP LEU ARG GLU GLU ASP HET BA A 501 1 HET BA A 502 1 HET PEG A 503 7 HETNAM BA BARIUM ION HETNAM PEG DI(HYDROXYETHYL)ETHER FORMUL 2 BA 2(BA 2+) FORMUL 4 PEG C4 H10 O3 FORMUL 5 HOH *19(H2 O) HELIX 1 AA1 GLU A 58 GLY A 62 5 5 HELIX 2 AA2 ASN A 64 TYR A 72 1 9 HELIX 3 AA3 SER A 73 ASP A 77 5 5 HELIX 4 AA4 ASN A 136 LYS A 152 1 17 HELIX 5 AA5 THR A 203 SER A 207 5 5 HELIX 6 AA6 SER A 209 GLY A 214 1 6 HELIX 7 AA7 CYS A 220 ILE A 232 1 13 HELIX 8 AA8 ASN A 257 GLN A 275 1 19 HELIX 9 AA9 THR A 288 LEU A 293 1 6 HELIX 10 AB1 THR A 294 ARG A 308 1 15 HELIX 11 AB2 VAL A 312 GLU A 321 1 10 HELIX 12 AB3 GLN A 328 SER A 344 1 17 HELIX 13 AB4 SER A 358 GLY A 378 1 21 HELIX 14 AB5 GLU A 384 GLU A 393 1 10 HELIX 15 AB6 GLU A 393 MET A 398 1 6 HELIX 16 AB7 ASP A 399 ASN A 412 1 14 HELIX 17 AB8 SER A 417 LEU A 423 1 7 SHEET 1 AA1 2 ILE A 50 TYR A 51 0 SHEET 2 AA1 2 LEU A 310 GLY A 311 -1 O LEU A 310 N TYR A 51 SHEET 1 AA2 7 ASP A 87 SER A 89 0 SHEET 2 AA2 7 ALA A 99 SER A 104 -1 O GLN A 103 N VAL A 88 SHEET 3 AA2 7 GLN A 110 PHE A 114 -1 O LEU A 113 N TYR A 100 SHEET 4 AA2 7 ALA A 157 PRO A 167 1 O ILE A 160 N PHE A 112 SHEET 5 AA2 7 HIS A 176 ASP A 185 -1 O VAL A 178 N PHE A 163 SHEET 6 AA2 7 GLN A 190 ASP A 197 -1 O TYR A 196 N LEU A 179 SHEET 7 AA2 7 THR A 238 LEU A 239 1 O THR A 238 N LEU A 191 SHEET 1 AA3 6 GLY A 133 VAL A 135 0 SHEET 2 AA3 6 VAL A 121 TYR A 124 -1 N GLY A 123 O TRP A 134 SHEET 3 AA3 6 ALA A 157 PRO A 167 1 O VAL A 164 N ALA A 122 SHEET 4 AA3 6 HIS A 176 ASP A 185 -1 O VAL A 178 N PHE A 163 SHEET 5 AA3 6 GLN A 190 ASP A 197 -1 O TYR A 196 N LEU A 179 SHEET 6 AA3 6 THR A 243 ALA A 246 1 O ALA A 245 N ASP A 197 SHEET 1 AA4 2 ILE A 382 SER A 383 0 SHEET 2 AA4 2 VAL A 426 LYS A 427 1 O LYS A 427 N ILE A 382 LINK O VAL A 135 BA BA A 501 1555 1555 2.77 LINK OD1 ASP A 137 BA BA A 501 1555 1555 2.81 LINK OD2 ASP A 140 BA BA A 501 1555 1555 3.37 LINK BA BA A 501 O HOH A 613 1555 1555 3.12 SITE 1 AC1 3 VAL A 135 ASP A 137 ASP A 140 SITE 1 AC2 2 CYS A 425 VAL A 426 CRYST1 221.270 221.270 73.270 90.00 90.00 90.00 I 4 2 2 16 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 0.004519 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004519 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013648 0.00000