HEADER HYDROLASE 25-JUL-17 5Y2D TITLE CRYSTAL STRUCTURE OF H. PYLORI HTRA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PERIPLASMIC SERINE ENDOPROTEASE DEGP-LIKE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.21.107; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: UNK-UNK-UNK; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: UNK-UNK-UNK-UNK-UNK; COMPND 12 CHAIN: C; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 4; COMPND 15 MOLECULE: UNK-UNK-K-UNK-UNK-UNK-UNK-UNK-UNK-UNK; COMPND 16 CHAIN: D; COMPND 17 ENGINEERED: YES; COMPND 18 MOL_ID: 5; COMPND 19 MOLECULE: UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK; COMPND 20 CHAIN: E; COMPND 21 ENGINEERED: YES; COMPND 22 MOL_ID: 6; COMPND 23 MOLECULE: UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK; COMPND 24 CHAIN: F; COMPND 25 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_COMMON: CAMPYLOBACTER PYLORI; SOURCE 4 ORGANISM_TAXID: 85962; SOURCE 5 STRAIN: ATCC 700392 / 26695; SOURCE 6 GENE: HP1018/19; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI 26695; SOURCE 12 ORGANISM_TAXID: 85962; SOURCE 13 STRAIN: 26695; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 MOL_ID: 3; SOURCE 17 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI 26695; SOURCE 18 ORGANISM_TAXID: 85962; SOURCE 19 STRAIN: 26695; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 21 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 22 MOL_ID: 4; SOURCE 23 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI 26695; SOURCE 24 ORGANISM_TAXID: 85962; SOURCE 25 STRAIN: 26695; SOURCE 26 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 27 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 28 MOL_ID: 5; SOURCE 29 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI 26695; SOURCE 30 ORGANISM_TAXID: 85962; SOURCE 31 STRAIN: 26695; SOURCE 32 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 33 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 34 MOL_ID: 6; SOURCE 35 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI 26695; SOURCE 36 ORGANISM_TAXID: 85962; SOURCE 37 STRAIN: 26695; SOURCE 38 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 39 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SERINE PROTEASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Z.ZHANG,Q.HUANG,X.TAO REVDAT 3 27-MAR-24 5Y2D 1 REMARK REVDAT 2 28-AUG-19 5Y2D 1 JRNL REVDAT 1 15-AUG-18 5Y2D 0 JRNL AUTH Z.ZHANG,Q.HUANG,X.TAO,G.SONG,P.ZHENG,H.LI,H.SUN,W.XIA JRNL TITL THE UNIQUE TRIMERIC ASSEMBLY OF THE VIRULENCE FACTOR HTRA JRNL TITL 2 FROMHELICOBACTER PYLORIOCCURS VIA N-TERMINAL DOMAIN JRNL TITL 3 SWAPPING. JRNL REF J.BIOL.CHEM. V. 294 7990 2019 JRNL REFN ESSN 1083-351X JRNL PMID 30936204 JRNL DOI 10.1074/JBC.RA119.007387 REMARK 2 REMARK 2 RESOLUTION. 3.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10.1_2155 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.49 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.357 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 6489 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.332 REMARK 3 R VALUE (WORKING SET) : 0.331 REMARK 3 FREE R VALUE : 0.334 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.678 REMARK 3 FREE R VALUE TEST SET COUNT : 628 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 44.4979 - 5.8702 0.99 1512 162 0.3481 0.3365 REMARK 3 2 5.8702 - 4.6609 1.00 1466 157 0.3796 0.3896 REMARK 3 3 4.6609 - 4.0722 1.00 1439 162 0.3010 0.3172 REMARK 3 4 4.0722 - 3.7001 1.00 1444 147 0.2868 0.2954 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) : 0.468 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 34.044 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 63.81 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.02 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 1858 REMARK 3 ANGLE : 1.943 2525 REMARK 3 CHIRALITY : 0.120 326 REMARK 3 PLANARITY : 0.008 332 REMARK 3 DIHEDRAL : 20.881 563 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 5Y2D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-JUL-17. REMARK 100 THE DEPOSITION ID IS D_1300004560. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-OCT-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6505 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 11.10 REMARK 200 R MERGE (I) : 0.11700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.72 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 11.40 REMARK 200 R MERGE FOR SHELL (I) : 0.48800 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: NULL REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.1 M DL-MALIC ACID PH 7.0, 0.1 M REMARK 280 HEPES PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 64.44000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 37.20445 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 61.51200 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 64.44000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 37.20445 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 61.51200 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 64.44000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 37.20445 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 61.51200 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 64.44000 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 37.20445 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 61.51200 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 64.44000 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 37.20445 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 61.51200 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 64.44000 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 37.20445 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 61.51200 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 74.40890 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 123.02400 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 74.40890 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 123.02400 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 74.40890 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 123.02400 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 74.40890 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 123.02400 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 74.40890 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 123.02400 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 74.40890 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 123.02400 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: HEXAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 GLY A 11 REMARK 465 PRO A 12 REMARK 465 GLY A 13 REMARK 465 TYR A 14 REMARK 465 GLN A 15 REMARK 465 ASP A 16 REMARK 465 PRO A 17 REMARK 465 GLY A 18 REMARK 465 ASN A 19 REMARK 465 ILE A 20 REMARK 465 GLN A 21 REMARK 465 ILE A 22 REMARK 465 GLN A 23 REMARK 465 SER A 24 REMARK 465 MET A 25 REMARK 465 PRO A 26 REMARK 465 LYS A 27 REMARK 465 VAL A 28 REMARK 465 LYS A 29 REMARK 465 THR A 60 REMARK 465 GLU A 61 REMARK 465 LYS A 62 REMARK 465 LYS A 63 REMARK 465 ILE A 64 REMARK 465 LYS A 65 REMARK 465 ASN A 66 REMARK 465 ASN A 67 REMARK 465 PHE A 68 REMARK 465 ILE A 69 REMARK 465 GLY A 70 REMARK 465 GLY A 71 REMARK 465 GLY A 72 REMARK 465 VAL A 73 REMARK 465 PHE A 74 REMARK 465 ASN A 75 REMARK 465 ASP A 76 REMARK 465 PRO A 77 REMARK 465 PHE A 78 REMARK 465 PHE A 79 REMARK 465 GLN A 80 REMARK 465 GLN A 81 REMARK 465 PHE A 82 REMARK 465 PHE A 83 REMARK 465 GLY A 84 REMARK 465 ASP A 85 REMARK 465 LEU A 86 REMARK 465 GLY A 87 REMARK 465 GLY A 88 REMARK 465 MET A 89 REMARK 465 ILE A 90 REMARK 465 PRO A 91 REMARK 465 LYS A 92 REMARK 465 GLY A 183 REMARK 465 VAL A 184 REMARK 465 SER A 199 REMARK 465 GLY A 200 REMARK 465 ILE A 201 REMARK 465 GLY A 202 REMARK 465 ILE A 203 REMARK 465 ASN A 204 REMARK 465 SER A 205 REMARK 465 TYR A 206 REMARK 465 SER A 241 REMARK 465 LYS A 242 REMARK 465 THR A 243 REMARK 465 GLY A 244 REMARK 465 GLY A 245 REMARK 465 ASN A 246 REMARK 465 HIS A 247 REMARK 465 GLY A 277 REMARK 465 VAL A 278 REMARK 465 GLY A 279 REMARK 465 LEU A 280 REMARK 465 GLN A 281 REMARK 465 ASP A 282 REMARK 465 LEU A 283 REMARK 465 SER A 284 REMARK 465 GLY A 285 REMARK 465 ASP A 286 REMARK 465 LEU A 287 REMARK 465 GLN A 288 REMARK 465 ASN A 289 REMARK 465 SER A 290 REMARK 465 TYR A 291 REMARK 465 ASP A 292 REMARK 465 ASN A 293 REMARK 465 LYS A 294 REMARK 465 GLU A 295 REMARK 465 GLY A 296 REMARK 465 ALA A 297 REMARK 465 VAL A 298 REMARK 465 VAL A 299 REMARK 465 ILE A 300 REMARK 465 ILE A 351 REMARK 465 ARG A 352 REMARK 465 ASP A 353 REMARK 465 LYS A 354 REMARK 465 ASN A 368 REMARK 465 PRO A 369 REMARK 465 ASN A 370 REMARK 465 LYS A 371 REMARK 465 LYS A 372 REMARK 465 GLU A 373 REMARK 465 THR A 374 REMARK 465 ILE A 375 REMARK 465 SER A 376 REMARK 465 ALA A 377 REMARK 465 GLN A 378 REMARK 465 ASN A 379 REMARK 465 GLY A 380 REMARK 465 ALA A 381 REMARK 465 GLN A 382 REMARK 465 GLY A 383 REMARK 465 GLN A 384 REMARK 465 LEU A 385 REMARK 465 ASN A 386 REMARK 465 GLY A 387 REMARK 465 LEU A 388 REMARK 465 GLN A 389 REMARK 465 VAL A 390 REMARK 465 GLU A 391 REMARK 465 ASP A 392 REMARK 465 LEU A 393 REMARK 465 THR A 394 REMARK 465 GLN A 395 REMARK 465 GLU A 396 REMARK 465 THR A 397 REMARK 465 LYS A 398 REMARK 465 ARG A 399 REMARK 465 SER A 400 REMARK 465 MET A 401 REMARK 465 ARG A 402 REMARK 465 LEU A 403 REMARK 465 SER A 404 REMARK 465 ASP A 405 REMARK 465 ASP A 406 REMARK 465 VAL A 407 REMARK 465 GLN A 408 REMARK 465 GLY A 409 REMARK 465 VAL A 410 REMARK 465 LEU A 411 REMARK 465 VAL A 412 REMARK 465 SER A 413 REMARK 465 GLN A 414 REMARK 465 VAL A 415 REMARK 465 ASN A 416 REMARK 465 GLU A 417 REMARK 465 ASN A 418 REMARK 465 SER A 419 REMARK 465 PRO A 420 REMARK 465 ALA A 421 REMARK 465 GLU A 422 REMARK 465 GLN A 423 REMARK 465 ALA A 424 REMARK 465 GLY A 425 REMARK 465 PHE A 426 REMARK 465 ARG A 427 REMARK 465 GLN A 428 REMARK 465 GLY A 429 REMARK 465 ASN A 430 REMARK 465 ILE A 431 REMARK 465 ILE A 432 REMARK 465 THR A 433 REMARK 465 LYS A 434 REMARK 465 ILE A 435 REMARK 465 GLU A 436 REMARK 465 GLU A 437 REMARK 465 VAL A 438 REMARK 465 GLU A 439 REMARK 465 VAL A 440 REMARK 465 LYS A 441 REMARK 465 SER A 442 REMARK 465 VAL A 443 REMARK 465 ALA A 444 REMARK 465 ASP A 445 REMARK 465 PHE A 446 REMARK 465 ASN A 447 REMARK 465 HIS A 448 REMARK 465 ALA A 449 REMARK 465 LEU A 450 REMARK 465 GLU A 451 REMARK 465 LYS A 452 REMARK 465 TYR A 453 REMARK 465 LYS A 454 REMARK 465 GLY A 455 REMARK 465 LYS A 456 REMARK 465 PRO A 457 REMARK 465 LYS A 458 REMARK 465 ARG A 459 REMARK 465 PHE A 460 REMARK 465 LEU A 461 REMARK 465 VAL A 462 REMARK 465 LEU A 463 REMARK 465 ASP A 464 REMARK 465 LEU A 465 REMARK 465 ASN A 466 REMARK 465 GLN A 467 REMARK 465 GLY A 468 REMARK 465 TYR A 469 REMARK 465 ARG A 470 REMARK 465 ILE A 471 REMARK 465 ILE A 472 REMARK 465 LEU A 473 REMARK 465 VAL A 474 REMARK 465 LYS A 475 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 ARG A 31 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 32 CG1 CG2 REMARK 470 SER A 33 OG REMARK 470 VAL A 34 CG1 CG2 REMARK 470 SER A 36 OG REMARK 470 ASP A 39 CG OD1 OD2 REMARK 470 THR A 40 OG1 CG2 REMARK 470 ASP A 46 CG OD1 OD2 REMARK 470 ILE A 48 CG1 CG2 CD1 REMARK 470 LYS A 49 CG CD CE NZ REMARK 470 ILE A 52 CG1 CG2 CD1 REMARK 470 LYS A 53 CG CD CE NZ REMARK 470 SER A 59 OG REMARK 470 GLU A 93 CG CD OE1 OE2 REMARK 470 ARG A 94 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 96 CG CD OE1 OE2 REMARK 470 LYS A 107 CG CD CE NZ REMARK 470 TYR A 110 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 VAL A 112 CG1 CG2 REMARK 470 ASN A 115 ND2 REMARK 470 ASP A 122 CG OD1 OD2 REMARK 470 LYS A 123 CG CD CE NZ REMARK 470 LYS A 125 CG CD CE NZ REMARK 470 ASN A 132 CG OD1 ND2 REMARK 470 GLU A 134 CG CD OE1 OE2 REMARK 470 TYR A 135 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 THR A 138 CG2 REMARK 470 LEU A 139 CG CD1 CD2 REMARK 470 THR A 142 OG1 CG2 REMARK 470 GLU A 145 CG CD OE1 OE2 REMARK 470 ILE A 151 CG2 REMARK 470 ARG A 152 NH1 NH2 REMARK 470 THR A 154 CG2 REMARK 470 THR A 160 OG1 CG2 REMARK 470 ILE A 161 CG1 CG2 CD1 REMARK 470 SER A 164 CB OG REMARK 470 ASN A 167 CG OD1 ND2 REMARK 470 ASP A 168 OD2 REMARK 470 ILE A 169 CG2 REMARK 470 PHE A 182 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASN A 197 CG OD1 ND2 REMARK 470 LYS A 198 CG CD CE NZ REMARK 470 GLU A 207 CG CD OE1 OE2 REMARK 470 ASN A 208 CG OD1 ND2 REMARK 470 ILE A 240 CG1 CG2 CD1 REMARK 470 SER A 255 OG REMARK 470 LYS A 259 CG CD CE NZ REMARK 470 VAL A 262 CG1 CG2 REMARK 470 LEU A 265 CG CD1 CD2 REMARK 470 LYS A 267 CG CD CE NZ REMARK 470 THR A 268 CG2 REMARK 470 LYS A 270 CG CD CE NZ REMARK 470 ILE A 271 CG1 CG2 CD1 REMARK 470 GLU A 272 CG CD OE1 OE2 REMARK 470 ARG A 273 CG CD NE CZ NH1 NH2 REMARK 470 TYR A 275 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 SER A 301 OG REMARK 470 VAL A 302 CG1 CG2 REMARK 470 GLU A 303 CG CD OE1 OE2 REMARK 470 LYS A 304 CG CD CE NZ REMARK 470 ASP A 305 CG OD1 OD2 REMARK 470 LYS A 309 CG CD CE NZ REMARK 470 ILE A 313 CG1 CG2 CD1 REMARK 470 LEU A 314 CG CD1 CD2 REMARK 470 VAL A 315 CG1 CG2 REMARK 470 LEU A 318 CG CD1 CD2 REMARK 470 ILE A 319 CG1 CG2 CD1 REMARK 470 GLU A 321 CG CD OE1 OE2 REMARK 470 VAL A 322 CG1 CG2 REMARK 470 ASN A 323 CG OD1 ND2 REMARK 470 LYS A 325 CG CD CE NZ REMARK 470 LYS A 326 CG CD CE NZ REMARK 470 LYS A 328 CG CD CE NZ REMARK 470 ASN A 329 CG OD1 ND2 REMARK 470 THR A 330 OG1 CG2 REMARK 470 ASN A 331 CG OD1 ND2 REMARK 470 ASN A 335 CG OD1 ND2 REMARK 470 LEU A 336 CG CD1 CD2 REMARK 470 ILE A 337 CD1 REMARK 470 SER A 339 OG REMARK 470 PRO A 342 CG CD REMARK 470 ASN A 343 CB CG OD1 ND2 REMARK 470 GLN A 344 CD OE1 NE2 REMARK 470 ARG A 345 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 346 CG1 CG2 REMARK 470 THR A 347 OG1 CG2 REMARK 470 LEU A 348 CG CD1 CD2 REMARK 470 LYS A 349 CB CG CD CE NZ REMARK 470 VAL A 350 CG1 CG2 REMARK 470 GLU A 356 CG CD OE1 OE2 REMARK 470 ARG A 357 CD NE CZ NH1 NH2 REMARK 470 PHE A 359 CD1 CD2 CE1 CE2 CZ REMARK 470 THR A 360 OG1 CG2 REMARK 470 THR A 362 OG1 CG2 REMARK 470 ARG A 366 CD NE CZ NH1 NH2 REMARK 470 LYS A 367 CD CE NZ 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 PRO A 342 C - N - CA ANGL. DEV. = 10.9 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 ARG A 31 -101.70 61.56 REMARK 500 VAL A 32 -127.77 129.99 REMARK 500 VAL A 34 158.60 163.65 REMARK 500 TYR A 42 37.69 -52.58 REMARK 500 GLU A 96 67.64 -106.36 REMARK 500 SER A 131 154.94 61.09 REMARK 500 GLU A 134 89.92 -65.15 REMARK 500 ASP A 156 -166.86 -62.75 REMARK 500 ASN A 157 90.66 -64.59 REMARK 500 ILE A 161 -124.04 -73.89 REMARK 500 PHE A 163 105.80 -57.97 REMARK 500 PRO A 181 41.62 -102.09 REMARK 500 SER A 215 99.99 -47.90 REMARK 500 SER A 228 -5.00 -58.30 REMARK 500 LEU A 232 102.61 -46.70 REMARK 500 LYS A 267 -96.34 -71.23 REMARK 500 TYR A 275 -161.40 -79.84 REMARK 500 GLU A 303 -159.09 -141.93 REMARK 500 ASP A 305 -155.94 -162.83 REMARK 500 SER A 306 -105.18 -90.53 REMARK 500 PRO A 307 -36.89 -6.57 REMARK 500 ALA A 311 57.33 -148.18 REMARK 500 ILE A 313 81.69 -169.14 REMARK 500 LEU A 314 105.58 -58.68 REMARK 500 TRP A 316 0.00 68.12 REMARK 500 ASP A 317 -43.07 61.00 REMARK 500 LYS A 328 44.04 -101.43 REMARK 500 ASN A 329 68.18 -150.57 REMARK 500 THR A 330 -92.31 48.37 REMARK 500 ASN A 331 42.88 -108.13 REMARK 500 LEU A 341 107.07 -34.26 REMARK 500 PRO A 342 122.49 -32.25 REMARK 500 ASN A 343 -5.07 115.81 REMARK 500 LEU A 348 117.87 59.55 REMARK 500 LEU A 363 153.87 -49.45 REMARK 500 ALA A 364 -144.38 -79.81 REMARK 500 ALA B 2 -163.24 -161.05 REMARK 500 ALA C 3 142.60 63.81 REMARK 500 ALA C 4 112.52 169.36 REMARK 500 ALA D 4 -84.09 -65.11 REMARK 500 ALA D 5 69.48 -178.19 REMARK 500 ALA E 4 -153.48 -137.73 REMARK 500 ALA E 6 38.74 -164.32 REMARK 500 ALA F 4 -69.91 -148.40 REMARK 500 ALA F 10 -55.91 -151.67 REMARK 500 REMARK 500 REMARK: NULL DBREF 5Y2D A 18 475 UNP G2J5T2 G2J5T2_HELPY 18 475 DBREF 5Y2D B 1 3 PDB 5Y2D 5Y2D 1 3 DBREF 5Y2D C 1 5 PDB 5Y2D 5Y2D 1 5 DBREF 5Y2D D 1 10 PDB 5Y2D 5Y2D 1 10 DBREF 5Y2D E 1 8 PDB 5Y2D 5Y2D 1 8 DBREF 5Y2D F 1 11 PDB 5Y2D 5Y2D 1 11 SEQADV 5Y2D GLY A 11 UNP G2J5T2 EXPRESSION TAG SEQADV 5Y2D PRO A 12 UNP G2J5T2 EXPRESSION TAG SEQADV 5Y2D GLY A 13 UNP G2J5T2 EXPRESSION TAG SEQADV 5Y2D TYR A 14 UNP G2J5T2 EXPRESSION TAG SEQADV 5Y2D GLN A 15 UNP G2J5T2 EXPRESSION TAG SEQADV 5Y2D ASP A 16 UNP G2J5T2 EXPRESSION TAG SEQADV 5Y2D PRO A 17 UNP G2J5T2 EXPRESSION TAG SEQRES 1 A 465 GLY PRO GLY TYR GLN ASP PRO GLY ASN ILE GLN ILE GLN SEQRES 2 A 465 SER MET PRO LYS VAL LYS GLU ARG VAL SER VAL PRO SER SEQRES 3 A 465 LYS ASP ASP THR ILE TYR SER TYR HIS ASP SER ILE LYS SEQRES 4 A 465 ASP SER ILE LYS ALA VAL VAL ASN ILE SER THR GLU LYS SEQRES 5 A 465 LYS ILE LYS ASN ASN PHE ILE GLY GLY GLY VAL PHE ASN SEQRES 6 A 465 ASP PRO PHE PHE GLN GLN PHE PHE GLY ASP LEU GLY GLY SEQRES 7 A 465 MET ILE PRO LYS GLU ARG MET GLU ARG ALA LEU GLY SER SEQRES 8 A 465 GLY VAL ILE ILE SER LYS ASP GLY TYR ILE VAL THR ASN SEQRES 9 A 465 ASN HIS VAL ILE ASP GLY ALA ASP LYS ILE LYS VAL THR SEQRES 10 A 465 ILE PRO GLY SER ASN LYS GLU TYR SER ALA THR LEU VAL SEQRES 11 A 465 GLY THR ASP SER GLU SER ASP LEU ALA VAL ILE ARG ILE SEQRES 12 A 465 THR LYS ASP ASN LEU PRO THR ILE LYS PHE SER ASP SER SEQRES 13 A 465 ASN ASP ILE SER VAL GLY ASP LEU VAL PHE ALA ILE GLY SEQRES 14 A 465 ASN PRO PHE GLY VAL GLY GLU SER VAL THR GLN GLY ILE SEQRES 15 A 465 VAL SER ALA LEU ASN LYS SER GLY ILE GLY ILE ASN SER SEQRES 16 A 465 TYR GLU ASN PHE ILE GLN THR ASP ALA SER ILE ASN PRO SEQRES 17 A 465 GLY ASN SER GLY GLY ALA LEU ILE ASP SER ARG GLY GLY SEQRES 18 A 465 LEU VAL GLY ILE ASN THR ALA ILE ILE SER LYS THR GLY SEQRES 19 A 465 GLY ASN HIS GLY ILE GLY PHE ALA ILE PRO SER ASN MET SEQRES 20 A 465 VAL LYS ASP THR VAL THR GLN LEU ILE LYS THR GLY LYS SEQRES 21 A 465 ILE GLU ARG GLY TYR LEU GLY VAL GLY LEU GLN ASP LEU SEQRES 22 A 465 SER GLY ASP LEU GLN ASN SER TYR ASP ASN LYS GLU GLY SEQRES 23 A 465 ALA VAL VAL ILE SER VAL GLU LYS ASP SER PRO ALA LYS SEQRES 24 A 465 LYS ALA GLY ILE LEU VAL TRP ASP LEU ILE THR GLU VAL SEQRES 25 A 465 ASN GLY LYS LYS VAL LYS ASN THR ASN GLU LEU ARG ASN SEQRES 26 A 465 LEU ILE GLY SER MET LEU PRO ASN GLN ARG VAL THR LEU SEQRES 27 A 465 LYS VAL ILE ARG ASP LYS LYS GLU ARG ALA PHE THR LEU SEQRES 28 A 465 THR LEU ALA GLU ARG LYS ASN PRO ASN LYS LYS GLU THR SEQRES 29 A 465 ILE SER ALA GLN ASN GLY ALA GLN GLY GLN LEU ASN GLY SEQRES 30 A 465 LEU GLN VAL GLU ASP LEU THR GLN GLU THR LYS ARG SER SEQRES 31 A 465 MET ARG LEU SER ASP ASP VAL GLN GLY VAL LEU VAL SER SEQRES 32 A 465 GLN VAL ASN GLU ASN SER PRO ALA GLU GLN ALA GLY PHE SEQRES 33 A 465 ARG GLN GLY ASN ILE ILE THR LYS ILE GLU GLU VAL GLU SEQRES 34 A 465 VAL LYS SER VAL ALA ASP PHE ASN HIS ALA LEU GLU LYS SEQRES 35 A 465 TYR LYS GLY LYS PRO LYS ARG PHE LEU VAL LEU ASP LEU SEQRES 36 A 465 ASN GLN GLY TYR ARG ILE ILE LEU VAL LYS SEQRES 1 B 3 ALA ALA ALA SEQRES 1 C 5 ALA ALA ALA ALA ALA SEQRES 1 D 10 ALA ALA LYS ALA ALA ALA ALA ALA ALA ALA SEQRES 1 E 8 ALA ALA ALA ALA ALA ALA ALA ALA SEQRES 1 F 11 ALA ALA ALA ALA ALA ALA ALA ALA ALA ALA ALA HELIX 1 AA1 TYR A 44 LYS A 53 1 10 HELIX 2 AA2 ASN A 114 ASP A 119 1 6 HELIX 3 AA3 SER A 255 THR A 268 1 14 HELIX 4 AA4 ASN A 335 MET A 340 1 6 SHEET 1 AA1 6 VAL A 55 ASN A 57 0 SHEET 2 AA1 6 SER A 101 ILE A 104 -1 O GLY A 102 N VAL A 56 SHEET 3 AA1 6 TYR A 110 THR A 113 -1 O VAL A 112 N VAL A 103 SHEET 4 AA1 6 LEU A 148 ILE A 153 -1 O ILE A 151 N ILE A 111 SHEET 5 AA1 6 TYR A 135 ASP A 143 -1 N ASP A 143 O LEU A 148 SHEET 6 AA1 6 ILE A 124 VAL A 126 -1 N VAL A 126 O TYR A 135 SHEET 1 AA2 7 LEU A 174 GLY A 179 0 SHEET 2 AA2 7 SER A 187 ASN A 197 -1 O SER A 187 N GLY A 179 SHEET 3 AA2 7 PHE A 209 THR A 212 -1 O GLN A 211 N ALA A 195 SHEET 4 AA2 7 GLY A 250 PRO A 254 -1 O GLY A 250 N THR A 212 SHEET 5 AA2 7 LEU A 232 THR A 237 -1 N ILE A 235 O ILE A 253 SHEET 6 AA2 7 ALA A 224 ASP A 227 -1 N LEU A 225 O GLY A 234 SHEET 7 AA2 7 LEU A 174 GLY A 179 -1 N ILE A 178 O ALA A 224 SHEET 1 AA3 2 GLU A 321 VAL A 322 0 SHEET 2 AA3 2 LYS A 325 LYS A 326 -1 O LYS A 325 N VAL A 322 SHEET 1 AA4 2 ARG A 345 VAL A 346 0 SHEET 2 AA4 2 PHE A 359 THR A 360 -1 O PHE A 359 N VAL A 346 CRYST1 128.880 128.880 184.536 90.00 90.00 120.00 H 3 2 18 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 0.007759 0.004480 0.000000 0.00000 SCALE2 0.000000 0.008960 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005419 0.00000