HEADER VIRAL PROTEIN 18-SEP-09 2KOD TITLE A HIGH-RESOLUTION NMR STRUCTURE OF THE DIMERIC C-TERMINAL DOMAIN OF TITLE 2 HIV-1 CA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIV-1 CA C-TERMINAL DOMAIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HIV-1 M:B_HXB2R; SOURCE 3 ORGANISM_COMMON: HIV-1; SOURCE 4 ORGANISM_TAXID: 11706; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET21 KEYWDS HIV-1 CAPSID, C-TERMINAL DOMAIN, VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR I.-J.L.BYEON,J.JUNG,J.AHN,J.CONCEL,A.M.GRONENBORN REVDAT 3 01-MAY-24 2KOD 1 REMARK REVDAT 2 21-MAR-12 2KOD 1 JRNL VERSN REVDAT 1 24-NOV-09 2KOD 0 JRNL AUTH I.J.BYEON,X.MENG,J.JUNG,G.ZHAO,R.YANG,J.AHN,J.SHI,J.CONCEL, JRNL AUTH 2 C.AIKEN,P.ZHANG,A.M.GRONENBORN JRNL TITL STRUCTURAL CONVERGENCE BETWEEN CRYO-EM AND NMR REVEALS JRNL TITL 2 INTERSUBUNIT INTERACTIONS CRITICAL FOR HIV-1 CAPSID JRNL TITL 3 FUNCTION. JRNL REF CELL(CAMBRIDGE,MASS.) V. 139 780 2009 JRNL REFN ISSN 0092-8674 JRNL PMID 19914170 JRNL DOI 10.1016/J.CELL.2009.10.010 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 2.1, X-PLOR NIH REMARK 3 AUTHORS : BRUKER (TOPSPIN), SCHWIETERS, C.D. ET AL. (X-PLOR REMARK 3 NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE RESIDUES 223-231 EXHIBIT REMARK 3 UNFOLDED/DISORDERED STRUCTURE AND THUS NO MEANING SHOULD BE REMARK 3 GIVEN TO THE COORDINATES FOR THESE RESIDUES. REMARK 4 REMARK 4 2KOD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000101370. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 25 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.4 MM [U-100% 13C; U-100% 15N] REMARK 210 HIV-1 CA C-TERMINAL DOMAIN, 1.4 REMARK 210 MM NATURAL ABUNDANCE HIV-1 CA C- REMARK 210 TERMINAL DOMAIN, 25 MM SODIUM REMARK 210 PHOSPHATE, 2 MM DTT, 0.02 % REMARK 210 SODIUM AZIDE, 93% H2O/7% D2O; 2 REMARK 210 MM [U-100% 13C; U-100% 15N] HIV- REMARK 210 1 CA C-TERMINAL DOMAIN, 25 MM REMARK 210 SODIUM PHOSPHATE, 2 MM DTT, 0.02 REMARK 210 % SODIUM AZIDE, 93% H2O/7% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HNCACB; 3D HN(COCA)CB; 3D REMARK 210 HN(CO)CA; 3D HBHA(CO)NH; 3D HCCH- REMARK 210 TOCSY; 3D SIMULTANEOUS 13C,15N- REMARK 210 EDITED NOESY; 3D 13C/15N- REMARK 210 FILTERED, 13C-EDITED NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 800 MHZ; 700 MHZ; 600 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, SPARKY, CYANA, CANDID REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 500 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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: 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 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 O VAL B 181 H MET B 185 1.51 REMARK 500 O VAL A 181 H MET A 185 1.52 REMARK 500 OD1 ASN B 195 H CYS B 198 1.52 REMARK 500 OD1 ASN A 195 H CYS A 198 1.54 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 146 72.58 174.64 REMARK 500 1 THR A 148 -136.00 32.30 REMARK 500 1 SER A 149 -24.33 -155.03 REMARK 500 1 THR A 188 -62.04 -108.36 REMARK 500 1 PRO A 196 -1.80 -52.53 REMARK 500 1 PRO A 207 14.21 -69.57 REMARK 500 1 ALA A 228 -89.71 49.45 REMARK 500 1 ARG A 229 138.57 59.49 REMARK 500 1 SER B 146 71.74 178.18 REMARK 500 1 PRO B 147 2.17 -68.06 REMARK 500 1 THR B 148 -136.41 34.40 REMARK 500 1 SER B 149 -24.01 -157.38 REMARK 500 1 THR B 188 -64.32 -109.83 REMARK 500 1 PRO B 196 -2.05 -51.87 REMARK 500 1 ALA B 228 -89.33 53.86 REMARK 500 1 ARG B 229 144.00 59.29 REMARK 500 2 TYR A 145 34.76 -77.84 REMARK 500 2 SER A 146 63.99 61.16 REMARK 500 2 THR A 148 -147.42 34.34 REMARK 500 2 SER A 149 -18.38 -143.44 REMARK 500 2 THR A 186 5.74 -65.77 REMARK 500 2 THR A 188 -65.26 -103.57 REMARK 500 2 PRO A 196 -1.10 -53.18 REMARK 500 2 LYS A 227 149.81 -178.97 REMARK 500 2 ARG A 229 -69.73 -146.31 REMARK 500 2 TYR B 145 32.28 -74.00 REMARK 500 2 SER B 146 65.21 63.76 REMARK 500 2 THR B 148 -143.79 34.96 REMARK 500 2 SER B 149 -19.35 -146.46 REMARK 500 2 THR B 186 4.96 -65.76 REMARK 500 2 THR B 188 -65.11 -104.71 REMARK 500 2 PRO B 196 -1.11 -52.74 REMARK 500 2 LYS B 227 148.75 -179.02 REMARK 500 2 ARG B 229 -70.32 -144.90 REMARK 500 3 SER A 146 67.55 -179.60 REMARK 500 3 THR A 148 -123.46 30.72 REMARK 500 3 SER A 149 -29.23 -151.95 REMARK 500 3 ARG A 154 117.75 -165.41 REMARK 500 3 GLN A 176 90.08 34.13 REMARK 500 3 THR A 186 13.92 -64.64 REMARK 500 3 THR A 188 -65.45 -105.07 REMARK 500 3 PRO A 196 -4.08 -56.85 REMARK 500 3 ASP A 197 -60.68 -101.52 REMARK 500 3 PRO A 207 24.32 -73.22 REMARK 500 3 HIS A 226 -87.95 50.25 REMARK 500 3 SER B 146 68.14 -179.01 REMARK 500 3 THR B 148 -126.02 31.78 REMARK 500 3 SER B 149 -29.17 -148.98 REMARK 500 3 ARG B 154 117.68 -165.76 REMARK 500 3 GLN B 176 92.97 33.94 REMARK 500 REMARK 500 THIS ENTRY HAS 499 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2KOD A 144 231 UNP P04585 POL_HV1H2 276 363 DBREF 2KOD B 144 231 UNP P04585 POL_HV1H2 276 363 SEQRES 1 A 88 MET TYR SER PRO THR SER ILE LEU ASP ILE ARG GLN GLY SEQRES 2 A 88 PRO LYS GLU PRO PHE ARG ASP TYR VAL ASP ARG PHE TYR SEQRES 3 A 88 LYS THR LEU ARG ALA GLU GLN ALA SER GLN GLU VAL LYS SEQRES 4 A 88 ASN TRP MET THR GLU THR LEU LEU VAL GLN ASN ALA ASN SEQRES 5 A 88 PRO ASP CYS LYS THR ILE LEU LYS ALA LEU GLY PRO ALA SEQRES 6 A 88 ALA THR LEU GLU GLU MET MET THR ALA CYS GLN GLY VAL SEQRES 7 A 88 GLY GLY PRO GLY HIS LYS ALA ARG VAL LEU SEQRES 1 B 88 MET TYR SER PRO THR SER ILE LEU ASP ILE ARG GLN GLY SEQRES 2 B 88 PRO LYS GLU PRO PHE ARG ASP TYR VAL ASP ARG PHE TYR SEQRES 3 B 88 LYS THR LEU ARG ALA GLU GLN ALA SER GLN GLU VAL LYS SEQRES 4 B 88 ASN TRP MET THR GLU THR LEU LEU VAL GLN ASN ALA ASN SEQRES 5 B 88 PRO ASP CYS LYS THR ILE LEU LYS ALA LEU GLY PRO ALA SEQRES 6 B 88 ALA THR LEU GLU GLU MET MET THR ALA CYS GLN GLY VAL SEQRES 7 B 88 GLY GLY PRO GLY HIS LYS ALA ARG VAL LEU HELIX 1 1 SER A 149 ILE A 153 5 5 HELIX 2 2 PRO A 160 ARG A 173 1 14 HELIX 3 3 SER A 178 ASN A 193 1 16 HELIX 4 4 ASP A 197 GLY A 206 1 10 HELIX 5 5 THR A 210 CYS A 218 1 9 HELIX 6 6 SER B 149 ILE B 153 5 5 HELIX 7 7 PRO B 160 ARG B 173 1 14 HELIX 8 8 SER B 178 ASN B 193 1 16 HELIX 9 9 ASP B 197 GLY B 206 1 10 HELIX 10 10 THR B 210 CYS B 218 1 9 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