HEADER VIRAL PROTEIN 22-MAR-02 1GWP TITLE STRUCTURE OF THE N-TERMINAL DOMAIN OF THE MATURE HIV-1 CAPSID PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: GAG POLYPROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: AMINO-TERMINAL CORE DOMAIN RESIDUES 132 - 282; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 (NEW YORK-5 SOURCE 3 ISOLATE); SOURCE 4 ORGANISM_TAXID: 11698; SOURCE 5 STRAIN: PNL4-3; SOURCE 6 CELL_LINE: CLONE 12; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 CAPSID PROTEIN, AMIMO-TERMINAL KEYWDS 2 CORE DOMAIN, HIV-1 CA-151, VIRUS CAPSID PROTEIN, VIRUS MATURATION, KEYWDS 3 VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.TANG,R.K.GITTI,B.M.LEE,J.WALKER,M.F.SUMMERS,S.YOO,W.I.SUNDQUIST REVDAT 6 15-MAY-24 1GWP 1 REMARK REVDAT 5 12-MAR-14 1GWP 1 SOURCE REVDAT 4 05-FEB-14 1GWP 1 HEADER SOURCE KEYWDS REMARK REVDAT 4 2 1 VERSN REVDAT 3 24-FEB-09 1GWP 1 VERSN REVDAT 2 26-MAR-04 1GWP 1 SPRSDE REVDAT 1 21-JUN-02 1GWP 0 SPRSDE 26-MAR-04 1GWP 1GDS 1GDY 1GDZ JRNL AUTH C.TANG,Y.NDASSA,M.F.SUMMERS JRNL TITL STRUCTURE OF THE N-TERMINAL 283-RESIDUE FRAGMENT OF THE JRNL TITL 2 IMMATURE HIV-1 GAG POLYPROTEIN JRNL REF NAT.STRUCT.BIOL. V. 9 537 2002 JRNL REFN ISSN 1072-8368 JRNL PMID 12032547 JRNL DOI 10.1038/NSB806 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.K.GITTI,B.M.LEE,J.WALKER,M.F.SUMMERS,S.YOO,W.I.SUNDQUIST REMARK 1 TITL STRUCTURE OF THE AMINO-TERMINAL CORE DOMAIN OF THE HIV-1 REMARK 1 TITL 2 CAPSID PROTEIN. REMARK 1 REF SCIENCE V. 273 231 1996 REMARK 1 REFN ISSN 0036-8075 REMARK 1 PMID 8662505 REMARK 1 DOI 10.1126/SCIENCE.273.5272.231 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DYANA REMARK 3 AUTHORS : GUNTERT,WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: TORSION ANGLE DYNAMICS FOLLOWED BY REMARK 3 ENERGY MINIMIZATION. GUNTERT, P., MUMENTHALER, C. WUTHRICH, K. REMARK 3 (1997). TORSION ANGLE DYNAMICS FOR NMR STRUCTURE CALCULATION REMARK 3 WITH THE NEW PROGRAM DYANA. J. MOL. BIOL. 273, 283-298. REMARK 4 REMARK 4 1GWP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-MAR-02. REMARK 100 THE DEPOSITION ID IS D_1290009544. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : 10 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : HMQC-NOESY-HSQC; HSQC HNCA; REMARK 210 HN(CO)CA; HNCO; HNHA HMQC-NOESY- REMARK 210 HSQC; HSQC-NOESY-HSQC; HMQC- REMARK 210 NOESY-HMQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DYANA REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: HSQC HNCA, HN(CO)CA, HNCO, HNHA HMQC-NOESY-HSQC, HSQC REMARK 210 -NOESY-HSQC, HMQC-NOESY-HMQC 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 ASN A 5 177.08 -49.16 REMARK 500 1 ALA A 14 -174.64 47.10 REMARK 500 1 LYS A 30 -77.21 -119.07 REMARK 500 1 ALA A 31 61.06 84.38 REMARK 500 1 VAL A 59 167.81 -44.44 REMARK 500 1 LEU A 83 -79.25 -71.12 REMARK 500 1 VAL A 86 131.23 -176.81 REMARK 500 1 ALA A 88 96.10 -56.42 REMARK 500 1 ALA A 92 154.20 -40.20 REMARK 500 1 ARG A 100 -173.24 45.71 REMARK 500 1 THR A 110 -146.77 -114.39 REMARK 500 1 PRO A 125 48.80 -75.00 REMARK 500 1 THR A 148 89.62 32.99 REMARK 500 1 SER A 149 77.39 -109.83 REMARK 500 2 ASN A 5 172.92 -49.38 REMARK 500 2 ALA A 14 -173.63 47.34 REMARK 500 2 LYS A 30 -72.79 -91.78 REMARK 500 2 ALA A 31 93.84 85.49 REMARK 500 2 PHE A 32 74.86 48.47 REMARK 500 2 VAL A 59 165.63 -42.88 REMARK 500 2 LEU A 83 -87.10 -71.10 REMARK 500 2 PRO A 85 -167.10 -75.02 REMARK 500 2 ALA A 88 75.00 53.25 REMARK 500 2 MET A 96 165.18 -42.28 REMARK 500 2 ARG A 100 -147.95 -63.32 REMARK 500 2 PRO A 125 48.96 -75.03 REMARK 500 2 SER A 146 66.77 39.21 REMARK 500 2 THR A 148 61.71 -173.38 REMARK 500 3 ASN A 5 169.15 -45.45 REMARK 500 3 ALA A 14 -174.76 47.86 REMARK 500 3 LYS A 30 -79.68 -119.51 REMARK 500 3 ALA A 31 56.87 83.48 REMARK 500 3 SER A 44 -78.76 -77.90 REMARK 500 3 GLU A 45 -13.22 77.63 REMARK 500 3 THR A 48 -179.12 -49.72 REMARK 500 3 VAL A 59 167.94 -44.26 REMARK 500 3 LEU A 83 -81.29 -79.49 REMARK 500 3 HIS A 87 52.87 -152.43 REMARK 500 3 ALA A 88 83.40 40.47 REMARK 500 3 ARG A 97 -179.83 -66.36 REMARK 500 3 PRO A 99 -167.23 -75.03 REMARK 500 3 ARG A 100 -91.68 -122.48 REMARK 500 3 PRO A 125 47.50 -75.10 REMARK 500 3 SER A 149 157.92 60.59 REMARK 500 4 ASN A 5 176.17 -48.80 REMARK 500 4 ALA A 14 -173.26 46.54 REMARK 500 4 LYS A 30 -70.29 -91.47 REMARK 500 4 ALA A 31 76.40 89.22 REMARK 500 4 PHE A 32 79.07 58.50 REMARK 500 4 VAL A 59 171.39 -46.41 REMARK 500 REMARK 500 THIS ENTRY HAS 291 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1A43 RELATED DB: PDB REMARK 900 STRUCTURE OF THE HIV-1 CAPSID PROTEIN DIMERIZATION DOMAINAT 2.6A REMARK 900 RESOLUTION REMARK 900 RELATED ID: 1A8O RELATED DB: PDB REMARK 900 HIV CAPSID C-TERMINAL DOMAIN REMARK 900 RELATED ID: 1AFV RELATED DB: PDB REMARK 900 HIV-1 CAPSID PROTEIN (P24) COMPLEX WITH FAB25.3 REMARK 900 RELATED ID: 1AK4 RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A BOUND TO THE AMINO- TERMINAL DOMAIN OF HIV-1 REMARK 900 CAPSID REMARK 900 RELATED ID: 1AUM RELATED DB: PDB REMARK 900 HIV CAPSID C-TERMINAL DOMAIN (CAC146) REMARK 900 RELATED ID: 1BAJ RELATED DB: PDB REMARK 900 HIV-1 CAPSID PROTEIN C-TERMINAL FRAGMENT PLUS GAG P2 DOMAIN REMARK 900 RELATED ID: 1HIW RELATED DB: PDB REMARK 900 TRIMERIC HIV-1 MATRIX PROTEIN REMARK 900 RELATED ID: 2HMX RELATED DB: PDB REMARK 900 HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 MATRIX PROTEIN 2HMX 3 REMARK 999 REMARK 999 SEQUENCE REMARK 999 GENBANK PID G902799 FOR GAG POLYPROTEIN PRECURSOR DBREF 1GWP A 1 151 UNP P12493 GAG_HV1N5 132 282 SEQRES 1 A 151 PRO ILE VAL GLN ASN LEU GLN GLY GLN MET VAL HIS GLN SEQRES 2 A 151 ALA ILE SER PRO ARG THR LEU ASN ALA TRP VAL LYS VAL SEQRES 3 A 151 VAL GLU GLU LYS ALA PHE SER PRO GLU VAL ILE PRO MET SEQRES 4 A 151 PHE SER ALA LEU SER GLU GLY ALA THR PRO GLN ASP LEU SEQRES 5 A 151 ASN THR MET LEU ASN THR VAL GLY GLY HIS GLN ALA ALA SEQRES 6 A 151 MET GLN MET LEU LYS GLU THR ILE ASN GLU GLU ALA ALA SEQRES 7 A 151 GLU TRP ASP ARG LEU HIS PRO VAL HIS ALA GLY PRO ILE SEQRES 8 A 151 ALA PRO GLY GLN MET ARG GLU PRO ARG GLY SER ASP ILE SEQRES 9 A 151 ALA GLY THR THR SER THR LEU GLN GLU GLN ILE GLY TRP SEQRES 10 A 151 MET THR HIS ASN PRO PRO ILE PRO VAL GLY GLU ILE TYR SEQRES 11 A 151 LYS ARG TRP ILE ILE LEU GLY LEU ASN LYS ILE VAL ARG SEQRES 12 A 151 MET TYR SER PRO THR SER ILE LEU HELIX 1 1 SER A 16 LYS A 30 1 15 HELIX 2 2 SER A 33 SER A 44 1 12 HELIX 3 3 THR A 48 VAL A 59 1 12 HELIX 4 4 HIS A 62 HIS A 84 1 23 HELIX 5 5 ARG A 100 ALA A 105 1 6 HELIX 6 6 THR A 110 THR A 119 1 10 HELIX 7 7 VAL A 126 SER A 146 1 21 SHEET 1 AA 2 PRO A 1 ASN A 5 0 SHEET 2 AA 2 GLN A 9 GLN A 13 -1 O VAL A 11 N VAL A 3 CISPEP 1 ASN A 121 PRO A 122 1 0.00 CISPEP 2 ASN A 121 PRO A 122 2 -0.02 CISPEP 3 ASN A 121 PRO A 122 3 -0.01 CISPEP 4 ASN A 121 PRO A 122 4 0.01 CISPEP 5 ASN A 121 PRO A 122 5 0.09 CISPEP 6 ASN A 121 PRO A 122 6 -0.04 CISPEP 7 ASN A 121 PRO A 122 7 -0.02 CISPEP 8 ASN A 121 PRO A 122 8 -0.02 CISPEP 9 ASN A 121 PRO A 122 9 -0.03 CISPEP 10 ASN A 121 PRO A 122 10 0.04 CISPEP 11 ASN A 121 PRO A 122 11 -0.04 CISPEP 12 ASN A 121 PRO A 122 12 -0.03 CISPEP 13 ASN A 121 PRO A 122 13 -0.02 CISPEP 14 ASN A 121 PRO A 122 14 -0.07 CISPEP 15 ASN A 121 PRO A 122 15 0.03 CISPEP 16 ASN A 121 PRO A 122 16 -0.06 CISPEP 17 ASN A 121 PRO A 122 17 0.07 CISPEP 18 ASN A 121 PRO A 122 18 -0.05 CISPEP 19 ASN A 121 PRO A 122 19 -0.10 CISPEP 20 ASN A 121 PRO A 122 20 0.00 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