HEADER VIRAL PROTEIN 14-SEP-22 8EHO TITLE PRRSV-1 PLP2 DOMAIN BOUND TO UBIQUITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PAPAIN-LIKE PROTEASE 2; COMPND 3 CHAIN: A, C, E; COMPND 4 SYNONYM: ORF1A; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: UBIQUITIN; COMPND 8 CHAIN: B, D, F; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PORCINE REPRODUCTIVE AND RESPIRATORY SYNDROME SOURCE 3 VIRUS; SOURCE 4 ORGANISM_COMMON: PRRSV; SOURCE 5 ORGANISM_TAXID: 28344; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: UBB; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PLP2, DUB, DEUBIQUITINATING, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR B.A.BAILEY-ELKIN,B.L.MARK REVDAT 2 03-JAN-24 8EHO 1 JRNL REVDAT 1 06-DEC-23 8EHO 0 JRNL AUTH B.A.BAILEY-ELKIN,R.C.M.KNAAP,A.DE SILVA,I.M.BOEKHOUD,S.MOUS, JRNL AUTH 2 N.VAN VUGHT,M.KHAJEHPOUR,E.VAN DEN BORN,M.KIKKERT,B.L.MARK JRNL TITL DEMONSTRATING THE IMPORTANCE OF PORCINE REPRODUCTIVE AND JRNL TITL 2 RESPIRATORY SYNDROME VIRUS PAPAIN-LIKE PROTEASE 2 JRNL TITL 3 DEUBIQUITINATING ACTIVITY IN VIRAL REPLICATION BY JRNL TITL 4 STRUCTURE-GUIDED MUTAGENESIS. JRNL REF PLOS PATHOG. V. 19 11872 2023 JRNL REFN ESSN 1553-7374 JRNL PMID 38096325 JRNL DOI 10.1371/JOURNAL.PPAT.1011872 REMARK 2 REMARK 2 RESOLUTION. 2.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PDB-REDO 5.8.0267 REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 23538 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.212 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1156 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.92 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.08 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1731 REMARK 3 BIN R VALUE (WORKING SET) : 0.3710 REMARK 3 BIN FREE R VALUE : 0.4000 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 92 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5577 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 61 REMARK 3 SOLVENT ATOMS : 172 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.57000 REMARK 3 B22 (A**2) : 2.14000 REMARK 3 B33 (A**2) : 0.42000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 8EHO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-SEP-22. REMARK 100 THE DEPOSITION ID IS D_1000268466. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-SEP-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5406 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24728 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.850 REMARK 200 RESOLUTION RANGE LOW (A) : 45.840 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.9000 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) : 9.01 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: PHASER REMARK 200 STARTING MODEL: 1UBQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.2M MG(NO3)2, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 73.66250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 73.66250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 45.84300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 79.74600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 45.84300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 79.74600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 73.66250 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 45.84300 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 79.74600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 73.66250 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 45.84300 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 79.74600 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 727 LIES ON A SPECIAL POSITION. REMARK 375 HOH E 733 LIES ON A SPECIAL POSITION. REMARK 375 HOH E 735 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 385 REMARK 465 ALA A 386 REMARK 465 ALA A 387 REMARK 465 GLY A 388 REMARK 465 LYS A 389 REMARK 465 ARG A 390 REMARK 465 ALA A 391 REMARK 465 ARG A 392 REMARK 465 ALA A 393 REMARK 465 LYS A 394 REMARK 465 ARG A 395 REMARK 465 ALA A 396 REMARK 465 ALA A 397 REMARK 465 LYS A 398 REMARK 465 SER A 399 REMARK 465 GLU A 400 REMARK 465 LYS A 401 REMARK 465 ASP A 402 REMARK 465 SER A 403 REMARK 465 ALA A 404 REMARK 465 PRO A 405 REMARK 465 THR A 406 REMARK 465 PRO A 407 REMARK 465 LYS A 408 REMARK 465 VAL A 409 REMARK 465 ALA A 410 REMARK 465 LEU A 411 REMARK 465 PRO A 412 REMARK 465 LEU A 577 REMARK 465 THR A 578 REMARK 465 GLY A 579 REMARK 465 SER A 580 REMARK 465 SER A 581 REMARK 465 GLY A 582 REMARK 465 HIS A 583 REMARK 465 HIS A 584 REMARK 465 HIS A 585 REMARK 465 HIS A 586 REMARK 465 HIS A 587 REMARK 465 HIS A 588 REMARK 465 GLY C 385 REMARK 465 ALA C 386 REMARK 465 ALA C 387 REMARK 465 GLY C 388 REMARK 465 LYS C 389 REMARK 465 ARG C 390 REMARK 465 ALA C 391 REMARK 465 ARG C 392 REMARK 465 ALA C 393 REMARK 465 LYS C 394 REMARK 465 ARG C 395 REMARK 465 ALA C 396 REMARK 465 ALA C 397 REMARK 465 LYS C 398 REMARK 465 SER C 399 REMARK 465 GLU C 400 REMARK 465 LYS C 401 REMARK 465 ASP C 402 REMARK 465 SER C 403 REMARK 465 ALA C 404 REMARK 465 PRO C 405 REMARK 465 THR C 406 REMARK 465 PRO C 407 REMARK 465 LYS C 408 REMARK 465 VAL C 409 REMARK 465 ALA C 410 REMARK 465 LEU C 411 REMARK 465 THR C 578 REMARK 465 GLY C 579 REMARK 465 SER C 580 REMARK 465 SER C 581 REMARK 465 GLY C 582 REMARK 465 HIS C 583 REMARK 465 HIS C 584 REMARK 465 HIS C 585 REMARK 465 HIS C 586 REMARK 465 HIS C 587 REMARK 465 HIS C 588 REMARK 465 GLY E 385 REMARK 465 ALA E 386 REMARK 465 ALA E 387 REMARK 465 GLY E 388 REMARK 465 LYS E 389 REMARK 465 ARG E 390 REMARK 465 ALA E 391 REMARK 465 ARG E 392 REMARK 465 ALA E 393 REMARK 465 LYS E 394 REMARK 465 ARG E 395 REMARK 465 ALA E 396 REMARK 465 ALA E 397 REMARK 465 LYS E 398 REMARK 465 SER E 399 REMARK 465 GLU E 400 REMARK 465 LYS E 401 REMARK 465 ASP E 402 REMARK 465 SER E 403 REMARK 465 ALA E 404 REMARK 465 PRO E 405 REMARK 465 THR E 406 REMARK 465 PRO E 407 REMARK 465 LYS E 408 REMARK 465 VAL E 409 REMARK 465 ALA E 410 REMARK 465 LEU E 411 REMARK 465 PRO E 412 REMARK 465 GLY E 579 REMARK 465 SER E 580 REMARK 465 SER E 581 REMARK 465 GLY E 582 REMARK 465 HIS E 583 REMARK 465 HIS E 584 REMARK 465 HIS E 585 REMARK 465 HIS E 586 REMARK 465 HIS E 587 REMARK 465 HIS E 588 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 NH2 ARG A 548 OD1 ASP E 574 7545 2.08 REMARK 500 NH2 ARG C 548 OD1 ASP C 574 3655 2.18 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 THR A 425 47.47 -101.60 REMARK 500 ARG A 481 -63.64 -91.71 REMARK 500 ASN A 482 -70.37 -132.43 REMARK 500 MET A 507 128.27 -176.35 REMARK 500 ARG A 538 25.24 81.63 REMARK 500 GLU B 64 -6.23 76.09 REMARK 500 VAL C 413 123.87 45.26 REMARK 500 THR C 425 47.69 -101.12 REMARK 500 ARG C 481 -62.55 -92.68 REMARK 500 ASN C 482 -70.91 -131.40 REMARK 500 MET C 507 128.18 -175.85 REMARK 500 ARG C 538 26.21 81.31 REMARK 500 MET C 576 73.77 -64.17 REMARK 500 GLU D 64 -5.31 76.09 REMARK 500 THR E 425 48.05 -101.19 REMARK 500 ARG E 481 -63.16 -91.78 REMARK 500 ASN E 482 -70.41 -131.96 REMARK 500 MET E 507 128.60 -174.03 REMARK 500 LEU E 577 10.60 -66.75 REMARK 500 GLU F 64 -6.62 75.50 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 734 DISTANCE = 9.06 ANGSTROMS REMARK 525 HOH B 220 DISTANCE = 6.46 ANGSTROMS REMARK 525 HOH B 221 DISTANCE = 7.81 ANGSTROMS REMARK 525 HOH C 738 DISTANCE = 7.11 ANGSTROMS REMARK 525 HOH C 739 DISTANCE = 9.42 ANGSTROMS REMARK 525 HOH D 219 DISTANCE = 9.78 ANGSTROMS REMARK 525 HOH E 742 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH F 217 DISTANCE = 8.83 ANGSTROMS 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 ZN A 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 485 SG REMARK 620 2 CYS A 516 SG 104.4 REMARK 620 3 CYS A 521 SG 113.9 109.0 REMARK 620 4 CYS A 525 SG 109.3 109.6 110.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 485 SG REMARK 620 2 CYS C 516 SG 104.9 REMARK 620 3 CYS C 521 SG 115.3 107.6 REMARK 620 4 CYS C 525 SG 110.9 109.3 108.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN E 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS E 485 SG REMARK 620 2 CYS E 516 SG 102.9 REMARK 620 3 CYS E 521 SG 115.8 107.3 REMARK 620 4 CYS E 525 SG 110.5 109.6 110.3 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8EHN RELATED DB: PDB DBREF 8EHO A 385 578 UNP W0NX70 W0NX70_PRRSV 385 578 DBREF 8EHO B 1 75 UNP P0CG47 UBB_HUMAN 1 75 DBREF 8EHO C 385 578 UNP W0NX70 W0NX70_PRRSV 385 578 DBREF 8EHO D 1 75 UNP P0CG47 UBB_HUMAN 1 75 DBREF 8EHO E 385 578 UNP W0NX70 W0NX70_PRRSV 385 578 DBREF 8EHO F 1 75 UNP P0CG47 UBB_HUMAN 1 75 SEQADV 8EHO GLY A 579 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO SER A 580 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO SER A 581 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO GLY A 582 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS A 583 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS A 584 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS A 585 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS A 586 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS A 587 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS A 588 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO GLY C 579 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO SER C 580 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO SER C 581 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO GLY C 582 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS C 583 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS C 584 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS C 585 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS C 586 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS C 587 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS C 588 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO GLY E 579 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO SER E 580 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO SER E 581 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO GLY E 582 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS E 583 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS E 584 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS E 585 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS E 586 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS E 587 UNP W0NX70 EXPRESSION TAG SEQADV 8EHO HIS E 588 UNP W0NX70 EXPRESSION TAG SEQRES 1 A 204 GLY ALA ALA GLY LYS ARG ALA ARG ALA LYS ARG ALA ALA SEQRES 2 A 204 LYS SER GLU LYS ASP SER ALA PRO THR PRO LYS VAL ALA SEQRES 3 A 204 LEU PRO VAL PRO THR CYS GLY ILE THR THR TYR SER PRO SEQRES 4 A 204 PRO THR ASP GLY SER CYS GLY TRP HIS VAL LEU ALA ALA SEQRES 5 A 204 ILE MET ASN ARG MET ILE ASN GLY ASP PHE THR SER PRO SEQRES 6 A 204 LEU THR GLN TYR ASN ARG PRO GLU ASP ASP TRP ALA SER SEQRES 7 A 204 ASP TYR ASP LEU VAL GLN ALA ILE GLN CYS LEU GLN LEU SEQRES 8 A 204 PRO ALA THR VAL VAL ARG ASN ARG ALA CYS PRO ASN ALA SEQRES 9 A 204 LYS TYR LEU ILE LYS LEU ASN GLY VAL HIS TRP GLU VAL SEQRES 10 A 204 GLU VAL ARG SER GLY MET ALA PRO ARG SER LEU PRO ARG SEQRES 11 A 204 GLU CYS VAL VAL GLY VAL CYS SER GLU GLY CYS VAL ALA SEQRES 12 A 204 PRO PRO TYR PRO ALA ASP GLY LEU PRO LYS ARG ALA LEU SEQRES 13 A 204 GLU ALA LEU ALA SER ALA TYR ARG LEU PRO SER ASP CYS SEQRES 14 A 204 VAL SER SER GLY ILE ALA ASP PHE LEU ALA ASN PRO PRO SEQRES 15 A 204 PRO GLN GLU PHE TRP THR LEU ASP LYS MET LEU THR GLY SEQRES 16 A 204 SER SER GLY HIS HIS HIS HIS HIS HIS SEQRES 1 B 75 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 B 75 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 B 75 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 B 75 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 B 75 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 B 75 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY SEQRES 1 C 204 GLY ALA ALA GLY LYS ARG ALA ARG ALA LYS ARG ALA ALA SEQRES 2 C 204 LYS SER GLU LYS ASP SER ALA PRO THR PRO LYS VAL ALA SEQRES 3 C 204 LEU PRO VAL PRO THR CYS GLY ILE THR THR TYR SER PRO SEQRES 4 C 204 PRO THR ASP GLY SER CYS GLY TRP HIS VAL LEU ALA ALA SEQRES 5 C 204 ILE MET ASN ARG MET ILE ASN GLY ASP PHE THR SER PRO SEQRES 6 C 204 LEU THR GLN TYR ASN ARG PRO GLU ASP ASP TRP ALA SER SEQRES 7 C 204 ASP TYR ASP LEU VAL GLN ALA ILE GLN CYS LEU GLN LEU SEQRES 8 C 204 PRO ALA THR VAL VAL ARG ASN ARG ALA CYS PRO ASN ALA SEQRES 9 C 204 LYS TYR LEU ILE LYS LEU ASN GLY VAL HIS TRP GLU VAL SEQRES 10 C 204 GLU VAL ARG SER GLY MET ALA PRO ARG SER LEU PRO ARG SEQRES 11 C 204 GLU CYS VAL VAL GLY VAL CYS SER GLU GLY CYS VAL ALA SEQRES 12 C 204 PRO PRO TYR PRO ALA ASP GLY LEU PRO LYS ARG ALA LEU SEQRES 13 C 204 GLU ALA LEU ALA SER ALA TYR ARG LEU PRO SER ASP CYS SEQRES 14 C 204 VAL SER SER GLY ILE ALA ASP PHE LEU ALA ASN PRO PRO SEQRES 15 C 204 PRO GLN GLU PHE TRP THR LEU ASP LYS MET LEU THR GLY SEQRES 16 C 204 SER SER GLY HIS HIS HIS HIS HIS HIS SEQRES 1 D 75 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 D 75 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 D 75 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 D 75 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 D 75 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 D 75 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY SEQRES 1 E 204 GLY ALA ALA GLY LYS ARG ALA ARG ALA LYS ARG ALA ALA SEQRES 2 E 204 LYS SER GLU LYS ASP SER ALA PRO THR PRO LYS VAL ALA SEQRES 3 E 204 LEU PRO VAL PRO THR CYS GLY ILE THR THR TYR SER PRO SEQRES 4 E 204 PRO THR ASP GLY SER CYS GLY TRP HIS VAL LEU ALA ALA SEQRES 5 E 204 ILE MET ASN ARG MET ILE ASN GLY ASP PHE THR SER PRO SEQRES 6 E 204 LEU THR GLN TYR ASN ARG PRO GLU ASP ASP TRP ALA SER SEQRES 7 E 204 ASP TYR ASP LEU VAL GLN ALA ILE GLN CYS LEU GLN LEU SEQRES 8 E 204 PRO ALA THR VAL VAL ARG ASN ARG ALA CYS PRO ASN ALA SEQRES 9 E 204 LYS TYR LEU ILE LYS LEU ASN GLY VAL HIS TRP GLU VAL SEQRES 10 E 204 GLU VAL ARG SER GLY MET ALA PRO ARG SER LEU PRO ARG SEQRES 11 E 204 GLU CYS VAL VAL GLY VAL CYS SER GLU GLY CYS VAL ALA SEQRES 12 E 204 PRO PRO TYR PRO ALA ASP GLY LEU PRO LYS ARG ALA LEU SEQRES 13 E 204 GLU ALA LEU ALA SER ALA TYR ARG LEU PRO SER ASP CYS SEQRES 14 E 204 VAL SER SER GLY ILE ALA ASP PHE LEU ALA ASN PRO PRO SEQRES 15 E 204 PRO GLN GLU PHE TRP THR LEU ASP LYS MET LEU THR GLY SEQRES 16 E 204 SER SER GLY HIS HIS HIS HIS HIS HIS SEQRES 1 F 75 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 F 75 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 F 75 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 F 75 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 F 75 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 F 75 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY HET ZN A 601 1 HET GOL A 602 6 HET GOL A 603 6 HET 3CN B 101 4 HET NO3 B 102 4 HET ZN C 601 1 HET GOL C 602 6 HET GOL C 603 6 HET 3CN D 101 4 HET GOL D 102 6 HET ZN E 601 1 HET GOL E 602 6 HET GOL E 603 6 HET 3CN F 101 4 HETNAM ZN ZINC ION HETNAM GOL GLYCEROL HETNAM 3CN 3-AMINOPROPANE HETNAM NO3 NITRATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 7 ZN 3(ZN 2+) FORMUL 8 GOL 7(C3 H8 O3) FORMUL 10 3CN 3(C3 H9 N) FORMUL 11 NO3 N O3 1- FORMUL 21 HOH *172(H2 O) HELIX 1 AA1 SER A 428 GLY A 444 1 17 HELIX 2 AA2 PRO A 456 TRP A 460 5 5 HELIX 3 AA3 ASP A 463 GLN A 474 1 12 HELIX 4 AA4 PRO A 513 GLY A 519 1 7 HELIX 5 AA5 ARG A 538 TYR A 547 1 10 HELIX 6 AA6 PRO A 550 ASN A 564 1 15 HELIX 7 AA7 PHE A 570 MET A 576 1 7 HELIX 8 AA8 THR B 22 GLY B 35 1 14 HELIX 9 AA9 PRO B 37 ASP B 39 5 3 HELIX 10 AB1 LEU B 56 ASN B 60 5 5 HELIX 11 AB2 SER C 428 GLY C 444 1 17 HELIX 12 AB3 PRO C 456 TRP C 460 5 5 HELIX 13 AB4 ASP C 463 GLN C 474 1 12 HELIX 14 AB5 PRO C 513 GLY C 519 1 7 HELIX 15 AB6 ARG C 538 TYR C 547 1 10 HELIX 16 AB7 PRO C 550 ASN C 564 1 15 HELIX 17 AB8 PHE C 570 MET C 576 1 7 HELIX 18 AB9 THR D 22 GLY D 35 1 14 HELIX 19 AC1 PRO D 37 ASP D 39 5 3 HELIX 20 AC2 LEU D 56 ASN D 60 5 5 HELIX 21 AC3 SER E 428 GLY E 444 1 17 HELIX 22 AC4 PRO E 456 TRP E 460 5 5 HELIX 23 AC5 ASP E 463 GLN E 474 1 12 HELIX 24 AC6 PRO E 513 GLY E 519 1 7 HELIX 25 AC7 ARG E 538 TYR E 547 1 10 HELIX 26 AC8 PRO E 550 ASN E 564 1 15 HELIX 27 AC9 PHE E 570 LEU E 577 1 8 HELIX 28 AD1 THR F 22 GLY F 35 1 14 HELIX 29 AD2 PRO F 37 ASP F 39 5 3 HELIX 30 AD3 LEU F 56 ASN F 60 5 5 SHEET 1 AA1 4 THR A 419 TYR A 421 0 SHEET 2 AA1 4 HIS A 498 VAL A 503 -1 O VAL A 501 N TYR A 421 SHEET 3 AA1 4 TYR A 490 ASN A 495 -1 N LYS A 493 O GLU A 500 SHEET 4 AA1 4 ALA A 477 VAL A 479 1 N THR A 478 O ILE A 492 SHEET 1 AA2 2 ALA A 461 SER A 462 0 SHEET 2 AA2 2 ARG B 74 GLY B 75 -1 O GLY B 75 N ALA A 461 SHEET 1 AA3 5 THR B 12 GLU B 16 0 SHEET 2 AA3 5 GLN B 2 LYS B 6 -1 N VAL B 5 O ILE B 13 SHEET 3 AA3 5 THR B 66 LEU B 71 1 O LEU B 67 N PHE B 4 SHEET 4 AA3 5 GLN B 41 PHE B 45 -1 N ILE B 44 O HIS B 68 SHEET 5 AA3 5 LYS B 48 GLN B 49 -1 O LYS B 48 N PHE B 45 SHEET 1 AA4 8 ALA C 477 VAL C 479 0 SHEET 2 AA4 8 TYR C 490 ASN C 495 1 O ILE C 492 N THR C 478 SHEET 3 AA4 8 HIS C 498 VAL C 503 -1 O GLU C 500 N LYS C 493 SHEET 4 AA4 8 ILE C 418 SER C 422 -1 N TYR C 421 O VAL C 501 SHEET 5 AA4 8 ILE E 418 SER E 422 -1 O SER E 422 N ILE C 418 SHEET 6 AA4 8 HIS E 498 VAL E 503 -1 O VAL E 501 N TYR E 421 SHEET 7 AA4 8 TYR E 490 ASN E 495 -1 N LYS E 493 O GLU E 500 SHEET 8 AA4 8 ALA E 477 VAL E 479 1 N THR E 478 O ILE E 492 SHEET 1 AA5 2 ALA C 461 SER C 462 0 SHEET 2 AA5 2 ARG D 74 GLY D 75 -1 O GLY D 75 N ALA C 461 SHEET 1 AA6 5 THR D 12 GLU D 16 0 SHEET 2 AA6 5 GLN D 2 LYS D 6 -1 N VAL D 5 O ILE D 13 SHEET 3 AA6 5 THR D 66 LEU D 71 1 O LEU D 67 N PHE D 4 SHEET 4 AA6 5 GLN D 41 PHE D 45 -1 N ILE D 44 O HIS D 68 SHEET 5 AA6 5 LYS D 48 GLN D 49 -1 O LYS D 48 N PHE D 45 SHEET 1 AA7 2 ALA E 461 SER E 462 0 SHEET 2 AA7 2 ARG F 74 GLY F 75 -1 O GLY F 75 N ALA E 461 SHEET 1 AA8 5 THR F 12 GLU F 16 0 SHEET 2 AA8 5 GLN F 2 LYS F 6 -1 N VAL F 5 O ILE F 13 SHEET 3 AA8 5 THR F 66 LEU F 71 1 O LEU F 67 N PHE F 4 SHEET 4 AA8 5 GLN F 41 PHE F 45 -1 N ILE F 44 O HIS F 68 SHEET 5 AA8 5 LYS F 48 GLN F 49 -1 O LYS F 48 N PHE F 45 LINK SG CYS A 429 CA 3CN B 101 1555 1555 1.78 LINK C GLY B 75 ND 3CN B 101 1555 1555 1.43 LINK SG CYS C 429 CA 3CN D 101 1555 1555 1.77 LINK C GLY D 75 ND 3CN D 101 1555 1555 1.44 LINK SG CYS E 429 CA 3CN F 101 1555 1555 1.77 LINK C GLY F 75 ND 3CN F 101 1555 1555 1.43 LINK SG CYS A 485 ZN ZN A 601 1555 1555 2.33 LINK SG CYS A 516 ZN ZN A 601 1555 1555 2.33 LINK SG CYS A 521 ZN ZN A 601 1555 1555 2.34 LINK SG CYS A 525 ZN ZN A 601 1555 1555 2.33 LINK SG CYS C 485 ZN ZN C 601 1555 1555 2.32 LINK SG CYS C 516 ZN ZN C 601 1555 1555 2.32 LINK SG CYS C 521 ZN ZN C 601 1555 1555 2.33 LINK SG CYS C 525 ZN ZN C 601 1555 1555 2.34 LINK SG CYS E 485 ZN ZN E 601 1555 1555 2.31 LINK SG CYS E 516 ZN ZN E 601 1555 1555 2.34 LINK SG CYS E 521 ZN ZN E 601 1555 1555 2.33 LINK SG CYS E 525 ZN ZN E 601 1555 1555 2.32 CRYST1 91.686 159.492 147.325 90.00 90.00 90.00 C 2 2 21 24 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 0.010907 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006270 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006788 0.00000