10 20 30 40 50 60 70 80 2AJ5 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE, VIRUS/VIRAL PROTEIN 01-AUG-05 2AJ5
TITLE 3D STRUCTURE OF THE SUBSTRATE-BOUND SARS CHYMOTRYPSIN-LIKE TITLE 2 CYSTEINE PROTEINASE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: REPLICASE POLYPROTEIN 1AB, 3C-LIKE PROTEINASE COMPND 3 FRAGMENT; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: RESIDUES 3241- 3546; COMPND 6 SYNONYM: 3C-LIKE PROTEINASE FRAGMENT OF PP1A; 3C-LIKE COMPND 7 PROTEINASE FRAGMENT OF ORF1A; 3C-LIKE PROTEINASE FRAGMENT COMPND 8 OF ; COMPND 9 EC: 3.4.24.-; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: PROTEINASE SUBSTRATE; COMPND 12 CHAIN: B; COMPND 13 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SARS CORONAVIRUS; SOURCE 3 ORGANISM_COMMON: VIRUS; SOURCE 4 OTHER_DETAILS: SYNONYMS: HCOV-SARS; SARS-COV; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 OTHER_DETAILS: SEQUENCE OCCURS IN HUMAN CORONAVIRUS, SOURCE 8 STRAIN SARS
KEYWDS SARS; CORONAVIRUS; CHYMOTRYPSIN-LIKE CYSTEINE PROTEINASE; KEYWDS 2 3CLPRO; 3CL-PRO; 3C-LIKE PROTEINASE; ANTI-SARS DRUGS
EXPDTA THEORETICAL MODEL
AUTHOR Y.-P.PANG
REVDAT 1 23-AUG-05 2AJ5 0
JRNL AUTH Y.-P.PANG JRNL TITL THREE-DIMENSIONAL MODEL OF A SUBSTRATE-BOUND SARS JRNL TITL 2 CHYMOTRYPSIN-LIKE CYSTEINE PROTEINASE PREDICTED BY JRNL TITL 3 MULTIPLE MOLECULAR DYNAMICS SIMULATIONS: CATALYTIC JRNL TITL 4 EFFICIENCY REGULATED BY SUBSTRATE BINDING JRNL REF PROTEINS V. 57 747 2004 JRNL REFN ASTM PSFGEY US ISSN 0887-3585
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2AJ5 COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PRAGUE ON 09-AUG-2005. REMARK 100 THE RCSB ID CODE IS RCSB033954.
REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: THE COORDINATES IN THIS ENTRY REPRESENT AN AVERAGE REMARK 220 STRUCT OF 200 MOLECULAR DYNAMICS SIMULATIONS (4.0 NS FOR REMARK 220 EACH SIMULATION WITH A 1.0-FS TIME STEP AND DIFFERENT REMARK 220 INITIAL VELOCITIES)
REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS.
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 302 REMARK 465 VAL A 303 REMARK 465 THR A 304 REMARK 465 PHE A 305 REMARK 465 GLN A 306
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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ILE A 78 CB - CG1 - CD1 ANGL. DEV. = 25.1 DEGREES 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 M RES CSSEQI PSI PHI REMARK 500 ASP A 33 -81.64 57.22 REMARK 500 ASN A 84 -80.34 58.01 REMARK 500 ARG A 279 87.17 108.63 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 GLN A 299 CYS A 300 143.13
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1P76 RELATED DB: PDB
DBREF 2AJ5 A 1 306 UNP P59641 R1AB_CVHSA 3241 3546
SEQRES 1 A 306 SER GLY PHE ARG LYS MET ALA PHE PRO SER GLY LYS VAL SEQRES 2 A 306 GLU GLY CYS MET VAL GLN VAL THR CYS GLY THR THR THR SEQRES 3 A 306 LEU ASN GLY LEU TRP LEU ASP ASP THR VAL TYR CYS PRO SEQRES 4 A 306 ARG HIS VAL ILE CYS THR ALA GLU ASP MET LEU ASN PRO SEQRES 5 A 306 ASN TYR GLU ASP LEU LEU ILE ARG LYS SER ASN HIS SER SEQRES 6 A 306 PHE LEU VAL GLN ALA GLY ASN VAL GLN LEU ARG VAL ILE SEQRES 7 A 306 GLY HIS SER MET GLN ASN CYS LEU LEU ARG LEU LYS VAL SEQRES 8 A 306 ASP THR SER ASN PRO LYS THR PRO LYS TYR LYS PHE VAL SEQRES 9 A 306 ARG ILE GLN PRO GLY GLN THR PHE SER VAL LEU ALA CYS SEQRES 10 A 306 TYR ASN GLY SER PRO SER GLY VAL TYR GLN CYS ALA MET SEQRES 11 A 306 ARG PRO ASN HIS THR ILE LYS GLY SER PHE LEU ASN GLY SEQRES 12 A 306 SER CYS GLY SER VAL GLY PHE ASN ILE ASP TYR ASP CYS SEQRES 13 A 306 VAL SER PHE CYS TYR MET HIS HIS MET GLU LEU PRO THR SEQRES 14 A 306 GLY VAL HIS ALA GLY THR ASP LEU GLU GLY LYS PHE TYR SEQRES 15 A 306 GLY PRO PHE VAL ASP ARG GLN THR ALA GLN ALA ALA GLY SEQRES 16 A 306 THR ASP THR THR ILE THR LEU ASN VAL LEU ALA TRP LEU SEQRES 17 A 306 TYR ALA ALA VAL ILE ASN GLY ASP ARG TRP PHE LEU ASN SEQRES 18 A 306 ARG PHE THR THR THR LEU ASN ASP PHE ASN LEU VAL ALA SEQRES 19 A 306 MET LYS TYR ASN TYR GLU PRO LEU THR GLN ASP HIS VAL SEQRES 20 A 306 ASP ILE LEU GLY PRO LEU SER ALA GLN THR GLY ILE ALA SEQRES 21 A 306 VAL LEU ASP MET CYS ALA ALA LEU LYS GLU LEU LEU GLN SEQRES 22 A 306 ASN GLY MET ASN GLY ARG THR ILE LEU GLY SER THR ILE SEQRES 23 A 306 LEU GLU ASP GLU PHE THR PRO PHE ASP VAL VAL ARG GLN SEQRES 24 A 306 CYS SER GLY VAL THR PHE GLN SEQRES 1 B 7 ALA THR VAL ARG LEU GLN ALA
HELIX 1 1 SER A 10 GLY A 15 1 6 HELIX 2 2 HIS A 41 CYS A 44 5 4 HELIX 3 3 ASN A 53 ILE A 59 1 7 HELIX 4 4 ILE A 200 GLY A 215 1 16 HELIX 5 5 THR A 226 TYR A 237 1 12 HELIX 6 6 LEU A 250 ALA A 255 1 6 HELIX 7 7 GLY A 258 LEU A 271 1 14 HELIX 8 8 PHE A 291 VAL A 296 1 6
SHEET 1 A 6 LEU A 67 GLN A 69 0 SHEET 2 A 6 MET A 17 THR A 21 -1 N THR A 21 O LEU A 67 SHEET 3 A 6 THR A 26 LEU A 32 -1 O LEU A 27 N VAL A 20 SHEET 4 A 6 THR A 35 PRO A 39 -1 O THR A 35 N LEU A 32 SHEET 5 A 6 LEU A 86 LYS A 90 -1 O LEU A 87 N CYS A 38 SHEET 6 A 6 SER A 81 GLN A 83 -1 N SER A 81 O ARG A 88 SHEET 1 B 3 TYR A 101 PHE A 103 0 SHEET 2 B 3 CYS A 156 LEU A 167 1 O PHE A 159 N LYS A 102 SHEET 3 B 3 VAL A 171 THR A 175 -1 O ALA A 173 N MET A 165 SHEET 1 C 5 SER A 121 ALA A 129 0 SHEET 2 C 5 THR A 111 TYR A 118 -1 N TYR A 118 O SER A 121 SHEET 3 C 5 VAL A 148 ASP A 153 -1 O PHE A 150 N SER A 113 SHEET 4 C 5 CYS A 156 LEU A 167 -1 O CYS A 160 N GLY A 149 SHEET 5 C 5 ARG B 305 LEU B 306 -1 O ARG B 305 N GLU A 166
CISPEP 1 SER A 1 GLY A 2 0 4.52 CISPEP 2 CYS A 300 SER A 301 0 8.79
CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1
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 1.000000 0.000000 0.000000 0.00000
SCALE2 0.000000 1.000000 0.000000 0.00000
SCALE3 0.000000 0.000000 1.000000 0.00000