HEADER VIRAL PROTEIN 19-NOV-09 2KQV TITLE SARS CORONAVIRUS-UNIQUE DOMAIN (SUD): THREE-DOMAIN MOLECULAR TITLE 2 ARCHITECTURE IN SOLUTION AND RNA BINDING. I: STRUCTURE OF THE SUD-M TITLE 3 DOMAIN OF SUD-MC COMPND MOL_ID: 1; COMPND 2 MOLECULE: NON-STRUCTURAL PROTEIN 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 1345-1538; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SARS CORONAVIRUS; SOURCE 3 ORGANISM_TAXID: 227859; SOURCE 4 STRAIN: TOR2; SOURCE 5 GENE: 1A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET-28B KEYWDS SEVERE ACUTE RESPIRATORY SYNDROME (SARS), NONSTRUCTURAL PROTEIN 3, KEYWDS 2 MACRODOMAINS, RNA-BINDING PROTEINS, STRUCTURAL GENOMICS, PSI-2, KEYWDS 3 JCSG, FUNCTIONAL AND STRUCTURAL PROTEOMICS OF THE SARS CORONAVIRUS, KEYWDS 4 PROTEIN STRUCTURE INITIATIVE, JOINT CENTER FOR STRUCTURAL GENOMICS, KEYWDS 5 VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.A.JOHNSON,A.CHATTERJEE,K.WUTHRICH,JOINT CENTER FOR STRUCTURAL AUTHOR 2 GENOMICS (JCSG) REVDAT 3 16-MAR-22 2KQV 1 REMARK SEQADV REVDAT 2 28-JUL-10 2KQV 1 JRNL REVDAT 1 22-DEC-09 2KQV 0 JRNL AUTH M.A.JOHNSON,A.CHATTERJEE,B.W.NEUMAN,K.WUTHRICH JRNL TITL SARS CORONAVIRUS UNIQUE DOMAIN: THREE-DOMAIN MOLECULAR JRNL TITL 2 ARCHITECTURE IN SOLUTION AND RNA BINDING. JRNL REF J.MOL.BIOL. V. 400 724 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20493876 JRNL DOI 10.1016/J.JMB.2010.05.027 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN, CANDID, OPALP, UNIO REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), HERRMANN T, G NTERT P, W REMARK 3 THRICH K (CANDID), LUGINB HL P, G NTERT P, REMARK 3 BILLETER M, W THRICH K. (OPALP), HERRMANN T, REMARK 3 WUTHRICH K (UNIO) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KQV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-NOV-09. REMARK 100 THE DEPOSITION ID IS D_1000101460. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.8 REMARK 210 IONIC STRENGTH : 0.227 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.0 MM [U-98% 13C; U-98% 15N] REMARK 210 SUD-MC, 25 MM SODIUM PHOSPHATE, REMARK 210 150 MM SODIUM CHLORIDE, 2 MM REMARK 210 SODIUM AZIDE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D [15N,1H]-HSQC; 2D [13C,1H] REMARK 210 -HSQC; 3D 15N-RESOLVED [1H,1H- REMARK 210 NOESY; 3D ALIPHATIC 13C-RESOLVED REMARK 210 [1H,1H]-NOESY; 4D APSY-HACANH; REMARK 210 5D APSY-CBCACONH; 5D APSY- REMARK 210 HACACONH; 4D APSY-HNCOCA; 3D REMARK 210 AROMATIC 13C-RESOLVED [1H,1H]- REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CARA CARA, MATCH, ASCAN, ATNOS REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 80 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 SER A 130 REMARK 465 LYS A 131 REMARK 465 THR A 132 REMARK 465 SER A 133 REMARK 465 GLU A 134 REMARK 465 GLU A 135 REMARK 465 HIS A 136 REMARK 465 PHE A 137 REMARK 465 VAL A 138 REMARK 465 GLU A 139 REMARK 465 THR A 140 REMARK 465 VAL A 141 REMARK 465 SER A 142 REMARK 465 LEU A 143 REMARK 465 ALA A 144 REMARK 465 GLY A 145 REMARK 465 SER A 146 REMARK 465 TYR A 147 REMARK 465 ARG A 148 REMARK 465 ASP A 149 REMARK 465 TRP A 150 REMARK 465 SER A 151 REMARK 465 TYR A 152 REMARK 465 SER A 153 REMARK 465 GLY A 154 REMARK 465 GLN A 155 REMARK 465 ARG A 156 REMARK 465 THR A 157 REMARK 465 GLU A 158 REMARK 465 LEU A 159 REMARK 465 GLY A 160 REMARK 465 VAL A 161 REMARK 465 GLU A 162 REMARK 465 PHE A 163 REMARK 465 LEU A 164 REMARK 465 LYS A 165 REMARK 465 ARG A 166 REMARK 465 GLY A 167 REMARK 465 ASP A 168 REMARK 465 LYS A 169 REMARK 465 ILE A 170 REMARK 465 VAL A 171 REMARK 465 TYR A 172 REMARK 465 HIS A 173 REMARK 465 THR A 174 REMARK 465 LEU A 175 REMARK 465 GLU A 176 REMARK 465 SER A 177 REMARK 465 PRO A 178 REMARK 465 VAL A 179 REMARK 465 GLU A 180 REMARK 465 PHE A 181 REMARK 465 HIS A 182 REMARK 465 LEU A 183 REMARK 465 ASP A 184 REMARK 465 GLY A 185 REMARK 465 GLU A 186 REMARK 465 VAL A 187 REMARK 465 LEU A 188 REMARK 465 SER A 189 REMARK 465 LEU A 190 REMARK 465 ASP A 191 REMARK 465 LYS A 192 REMARK 465 LEU A 193 REMARK 465 LYS A 194 REMARK 465 SER A 195 REMARK 465 LEU A 196 REMARK 465 LEU A 197 REMARK 465 SER A 198 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 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 1 SER A 2 -156.93 50.45 REMARK 500 1 MET A 4 -42.50 70.08 REMARK 500 1 ARG A 22 60.82 -109.34 REMARK 500 1 VAL A 56 57.22 -140.98 REMARK 500 1 TYR A 88 -35.57 -140.07 REMARK 500 1 THR A 90 -4.42 -59.56 REMARK 500 1 CYS A 101 -70.51 -56.65 REMARK 500 2 SER A 2 146.70 174.74 REMARK 500 2 THR A 21 -163.50 -117.76 REMARK 500 2 GLU A 49 34.34 -79.28 REMARK 500 2 ILE A 86 -70.72 -73.92 REMARK 500 2 TYR A 88 -26.78 -159.22 REMARK 500 2 VAL A 89 -64.46 -130.94 REMARK 500 2 THR A 127 -53.96 178.27 REMARK 500 2 SER A 128 76.36 46.95 REMARK 500 3 GLU A 49 48.20 -96.55 REMARK 500 3 TYR A 54 100.54 -172.49 REMARK 500 3 PHE A 60 153.32 44.09 REMARK 500 3 ASN A 78 -3.12 61.96 REMARK 500 3 VAL A 89 -66.16 -131.20 REMARK 500 3 THR A 127 111.02 -163.16 REMARK 500 4 SER A 2 -154.09 53.94 REMARK 500 4 MET A 4 -79.32 -57.14 REMARK 500 4 VAL A 56 51.76 -149.72 REMARK 500 4 PHE A 60 175.93 46.14 REMARK 500 4 TYR A 61 149.20 173.43 REMARK 500 4 ILE A 86 -79.86 -75.50 REMARK 500 4 TYR A 88 -50.71 -155.64 REMARK 500 5 HIS A 3 -66.19 56.43 REMARK 500 5 MET A 4 -169.25 45.86 REMARK 500 5 GLU A 49 72.33 -114.74 REMARK 500 5 ASP A 53 14.31 -65.94 REMARK 500 5 VAL A 56 39.55 -140.45 REMARK 500 5 PHE A 60 -173.38 52.32 REMARK 500 5 TYR A 88 -32.61 -143.04 REMARK 500 5 VAL A 89 -54.29 -125.20 REMARK 500 5 SER A 114 -81.77 -72.07 REMARK 500 5 THR A 127 -60.79 -165.21 REMARK 500 6 GLU A 49 35.97 -92.67 REMARK 500 6 TYR A 88 -27.56 -156.94 REMARK 500 6 VAL A 89 -58.45 -126.85 REMARK 500 6 THR A 127 -42.42 173.99 REMARK 500 6 SER A 128 -155.05 50.29 REMARK 500 7 MET A 4 -178.74 61.80 REMARK 500 7 TYR A 54 81.86 -155.05 REMARK 500 7 PHE A 60 174.39 44.45 REMARK 500 7 TYR A 61 145.48 -179.02 REMARK 500 7 ASN A 78 -12.07 59.14 REMARK 500 7 TYR A 88 -41.02 -151.17 REMARK 500 7 VAL A 89 -62.21 -107.19 REMARK 500 REMARK 500 THIS ENTRY HAS 139 RAMACHANDRAN OUTLIERS. 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 SER A 128 SER A 129 1 146.43 REMARK 500 VAL A 52 ASP A 53 3 144.51 REMARK 500 PHE A 60 TYR A 61 5 146.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 22 0.12 SIDE CHAIN REMARK 500 2 ARG A 40 0.08 SIDE CHAIN REMARK 500 2 ARG A 103 0.09 SIDE CHAIN REMARK 500 3 ARG A 12 0.11 SIDE CHAIN REMARK 500 3 ARG A 57 0.09 SIDE CHAIN REMARK 500 3 ARG A 100 0.11 SIDE CHAIN REMARK 500 3 TYR A 125 0.08 SIDE CHAIN REMARK 500 4 TYR A 61 0.07 SIDE CHAIN REMARK 500 6 ARG A 40 0.09 SIDE CHAIN REMARK 500 7 ARG A 57 0.09 SIDE CHAIN REMARK 500 8 TYR A 88 0.09 SIDE CHAIN REMARK 500 8 ARG A 100 0.10 SIDE CHAIN REMARK 500 10 TYR A 61 0.07 SIDE CHAIN REMARK 500 12 ARG A 12 0.09 SIDE CHAIN REMARK 500 14 ARG A 100 0.10 SIDE CHAIN REMARK 500 14 ARG A 103 0.08 SIDE CHAIN REMARK 500 15 ARG A 40 0.10 SIDE CHAIN REMARK 500 15 ARG A 57 0.09 SIDE CHAIN REMARK 500 15 ARG A 100 0.10 SIDE CHAIN REMARK 500 15 TYR A 125 0.08 SIDE CHAIN REMARK 500 16 TYR A 122 0.07 SIDE CHAIN REMARK 500 20 TYR A 54 0.07 SIDE CHAIN REMARK 500 20 ARG A 57 0.11 SIDE CHAIN REMARK 500 20 TYR A 61 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 416489 RELATED DB: TARGETDB REMARK 900 RELATED ID: 2KQW RELATED DB: PDB REMARK 900 RELATED ID: 16613 RELATED DB: BMRB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AUTHORS STATE THAT THE CONSTRUCT USED FOR THE STRUCTURE REMARK 999 DETERMINATION CONTAINS THE COMPLETE SEQUENCE, BUT THE LINKER REMARK 999 BETWEEN THE TWO DOMAINS IS FLEXIBLE IN SOLUTION. THEREFORE THE REMARK 999 STRUCTURES OF THE TWO DOMAINS WERE DEPOSITED INDEPENDENTLY. THE REMARK 999 COORDINATES IN THIS ENTRY CONTAIN THE SUD-M DOMAIN OF SUD-MC. DBREF 2KQV A 5 198 UNP P0C6U8 R1A_CVHSA 1345 1538 SEQADV 2KQV GLY A 1 UNP P0C6U8 EXPRESSION TAG SEQADV 2KQV SER A 2 UNP P0C6U8 EXPRESSION TAG SEQADV 2KQV HIS A 3 UNP P0C6U8 EXPRESSION TAG SEQADV 2KQV MET A 4 UNP P0C6U8 EXPRESSION TAG SEQRES 1 A 198 GLY SER HIS MET GLY THR VAL SER TRP ASN LEU ARG GLU SEQRES 2 A 198 MET LEU ALA HIS ALA GLU GLU THR ARG LYS LEU MET PRO SEQRES 3 A 198 ILE CYS MET ASP VAL ARG ALA ILE MET ALA THR ILE GLN SEQRES 4 A 198 ARG LYS TYR LYS GLY ILE LYS ILE GLN GLU GLY ILE VAL SEQRES 5 A 198 ASP TYR GLY VAL ARG PHE PHE PHE TYR THR SER LYS GLU SEQRES 6 A 198 PRO VAL ALA SER ILE ILE THR LYS LEU ASN SER LEU ASN SEQRES 7 A 198 GLU PRO LEU VAL THR MET PRO ILE GLY TYR VAL THR HIS SEQRES 8 A 198 GLY PHE ASN LEU GLU GLU ALA ALA ARG CYS MET ARG SER SEQRES 9 A 198 LEU LYS ALA PRO ALA VAL VAL SER VAL SER SER PRO ASP SEQRES 10 A 198 ALA VAL THR THR TYR ASN GLY TYR LEU THR SER SER SER SEQRES 11 A 198 LYS THR SER GLU GLU HIS PHE VAL GLU THR VAL SER LEU SEQRES 12 A 198 ALA GLY SER TYR ARG ASP TRP SER TYR SER GLY GLN ARG SEQRES 13 A 198 THR GLU LEU GLY VAL GLU PHE LEU LYS ARG GLY ASP LYS SEQRES 14 A 198 ILE VAL TYR HIS THR LEU GLU SER PRO VAL GLU PHE HIS SEQRES 15 A 198 LEU ASP GLY GLU VAL LEU SER LEU ASP LYS LEU LYS SER SEQRES 16 A 198 LEU LEU SER HELIX 1 1 ASN A 10 THR A 21 1 12 HELIX 2 2 VAL A 31 TYR A 42 1 12 HELIX 3 3 PRO A 66 ASN A 78 1 13 HELIX 4 4 ASN A 94 ARG A 103 1 10 HELIX 5 5 ASP A 117 THR A 127 1 11 SHEET 1 A 3 THR A 6 VAL A 7 0 SHEET 2 A 3 ALA A 109 SER A 112 1 O VAL A 111 N VAL A 7 SHEET 3 A 3 LEU A 81 THR A 83 1 N LEU A 81 O VAL A 110 SHEET 1 B 2 PRO A 26 CYS A 28 0 SHEET 2 B 2 PHE A 59 TYR A 61 1 O PHE A 59 N ILE A 27 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 MODEL 1