HEADER TRANSFERASE 27-SEP-99 1QMC TITLE C-TERMINAL DNA-BINDING DOMAIN OF HIV-1 INTEGRASE, NMR, 42 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIV-1 INTEGRASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: C-TERMINAL DNA-BINDING DOMAIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 BH10; SOURCE 3 ORGANISM_TAXID: 11678; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS INTEGRASE, DNA-BINDING PROTEIN, SRC HOMOLOGY 3 (SH3)-LIKE FOLD, AIDS, KEYWDS 2 POLYPROTEIN, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 42 AUTHOR A.P.A.M.EIJKELENBOOM,R.SPRANGERS,K.HARD,R.A.PURAS LUTZKE, AUTHOR 2 R.H.A.PLASTERK,R.BOELENS,R.KAPTEIN REVDAT 4 15-MAY-24 1QMC 1 REMARK REVDAT 3 14-OCT-15 1QMC 1 HEADER SOURCE KEYWDS REMARK REVDAT 3 2 1 VERSN SEQADV REVDAT 2 24-FEB-09 1QMC 1 VERSN REVDAT 1 14-DEC-99 1QMC 0 JRNL AUTH A.P.A.M.EIJKELENBOOM,R.SPRANGERS,K.HARD,R.A.PURAS LUTZKE, JRNL AUTH 2 R.H.A.PLASTERK,R.BOELENS,R.KAPTEIN JRNL TITL REFINED SOLUTION STRUCTURE OF THE C-TERMINAL DNA-BINDING JRNL TITL 2 DOMAIN OF HUMAN IMMUNOVIRUS-1 INTEGRASE. JRNL REF PROTEINS: STRUCT.,FUNCT., V. 36 556 1999 JRNL REF 2 GENET. JRNL REFN ISSN 0887-3585 JRNL PMID 10450096 JRNL DOI 10.1002/(SICI)1097-0134(19990901)36:4<556::AID-PROT18>3.3.CO JRNL DOI 2 ;2-Y REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.P.A.M.EIJKELENBOOM,R.A.PURAS LUTZKE,R.BOELENS, REMARK 1 AUTH 2 R.H.A.PLASTERK,R.KAPTEIN,K.HARD REMARK 1 TITL THE DNA-BINDING DOMAIN OF HIV-1 INTEGRASE HAS AN SH3-LIKE REMARK 1 TITL 2 FOLD REMARK 1 REF NAT.STRUCT.BIOL. V. 2 807 1995 REMARK 1 REFN ISSN 1072-8368 REMARK 1 PMID 7552753 REMARK 1 DOI 10.1038/NSB0995-807 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 JRNL CITATION ABOVE. REMARK 4 REMARK 4 1QMC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-SEP-99. REMARK 100 THE DEPOSITION ID IS D_1290001996. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 4.7 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS; AMX REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR 3.851 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 42 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOW OVERALL ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: MODEL 1 IS CLOSEST TO THE AVERAGE FOR RESIDUES 220-270. REMARK 210 RESIDUE 219 IS DISORDERED. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL 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: 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 GLN A 221 -65.13 -139.26 REMARK 500 1 GLU A 246 -149.20 -60.95 REMARK 500 1 ASN A 254 -77.20 -158.20 REMARK 500 1 GLN B 221 -64.97 -139.26 REMARK 500 1 GLU B 246 -149.27 -60.92 REMARK 500 1 ASN B 254 -77.25 -158.13 REMARK 500 2 GLN A 221 -67.25 -142.88 REMARK 500 2 LEU A 242 -50.70 -132.83 REMARK 500 2 GLU A 246 -149.55 -67.13 REMARK 500 2 ASN A 254 -75.36 -170.31 REMARK 500 2 GLN B 221 -67.24 -142.87 REMARK 500 2 LEU B 242 -50.79 -132.84 REMARK 500 2 GLU B 246 -149.68 -67.14 REMARK 500 2 ASN B 254 -75.24 -170.41 REMARK 500 3 GLN A 221 -59.85 -130.53 REMARK 500 3 LEU A 242 -50.25 -127.44 REMARK 500 3 GLU A 246 -150.07 -64.63 REMARK 500 3 ASN A 254 -79.87 -165.51 REMARK 500 3 GLN B 221 -59.80 -130.39 REMARK 500 3 LEU B 242 -50.26 -127.57 REMARK 500 3 GLU B 246 -150.07 -64.63 REMARK 500 3 ASN B 254 -79.90 -165.38 REMARK 500 4 GLN A 221 -62.72 -130.61 REMARK 500 4 LEU A 242 -42.93 -133.19 REMARK 500 4 GLU A 246 -154.50 -85.20 REMARK 500 4 ALA A 248 108.12 -173.61 REMARK 500 4 ASN A 254 -71.28 -173.05 REMARK 500 4 GLN B 221 -62.71 -130.71 REMARK 500 4 LEU B 242 -42.99 -133.14 REMARK 500 4 GLU B 246 -154.53 -85.09 REMARK 500 4 ALA B 248 108.14 -173.56 REMARK 500 4 ASN B 254 -71.33 -173.02 REMARK 500 5 GLN A 221 -66.16 -139.92 REMARK 500 5 GLU A 246 -149.74 -67.12 REMARK 500 5 ASN A 254 -78.31 -171.04 REMARK 500 5 GLN B 221 -66.24 -139.83 REMARK 500 5 GLU B 246 -149.65 -67.18 REMARK 500 5 ASN B 254 -78.34 -171.02 REMARK 500 6 GLN A 221 -63.51 -151.53 REMARK 500 6 GLU A 246 -155.43 -72.74 REMARK 500 6 ALA A 248 115.13 -167.57 REMARK 500 6 ASN A 254 -75.90 -175.35 REMARK 500 6 GLN B 221 -63.55 -151.59 REMARK 500 6 GLU B 246 -155.33 -72.82 REMARK 500 6 ALA B 248 115.12 -167.67 REMARK 500 6 ASN B 254 -75.93 -175.31 REMARK 500 7 GLN A 221 -66.87 -144.95 REMARK 500 7 ASN A 222 80.37 -150.96 REMARK 500 7 SER A 230 -70.45 -51.62 REMARK 500 7 GLU A 246 -150.98 -73.25 REMARK 500 REMARK 500 THIS ENTRY HAS 372 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 THE FIVE-STRANDED SHEET STRUCTURE OF THIS MOLECULE CONTAINS REMARK 700 TWO BIFURCATED SHEETS IN THIS STRUCTURE. EACH IS REPRESENTED REMARK 700 BY SHEETS WHICH HAVE ONE OR MORE IDENTICAL STRANDS. REMARK 700 SHEETS AB AND AC (CHAIN A) REPRESENT THE BIFURCATED CONTRIBUTIONS REMARK 700 TO THE MAIN 5-STRANDED SHEET STRUCTURE. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1A5V RELATED DB: PDB REMARK 900 ASV INTEGRASE CORE DOMAIN WITH HIV-1 INTEGRASE INHIBITOR Y3 AND MN REMARK 900 CATION REMARK 900 RELATED ID: 1A5W RELATED DB: PDB REMARK 900 ASV INTEGRASE CORE DOMAIN WITH HIV-1 INTEGRASE INHIBITOR Y3 REMARK 900 RELATED ID: 1A5X RELATED DB: PDB REMARK 900 ASV INTEGRASE CORE DOMAIN WITH HIV-1 INTEGRASE INHIBITOR Y3 REMARK 900 RELATED ID: 1AUB RELATED DB: PDB REMARK 900 N-TERMINAL DOMAIN OF HIV-2 INTEGRASE, NMR, 20 STRUCTURES REMARK 900 RELATED ID: 1B9D RELATED DB: PDB REMARK 900 MOBILITY OF AN HIV-1 INTEGRASE ACTIVE SITE LOOP IS CORRELATED WITH REMARK 900 CATALYTIC ACTIVITY REMARK 900 RELATED ID: 1B9F RELATED DB: PDB REMARK 900 MOBILITY OF AN HIV-1 INTEGRASE ACTIVE SITE LOOP IS CORRELATED WITH REMARK 900 CATALYTIC ACTIVITY REMARK 900 RELATED ID: 1BHL RELATED DB: PDB REMARK 900 CACODYLATED CATALYTIC DOMAIN OF HIV-1 INTEGRASE REMARK 900 RELATED ID: 1BI4 RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HIV-1 INTEGRASE REMARK 900 RELATED ID: 1BIS RELATED DB: PDB REMARK 900 HIV-1 INTEGRASE CORE DOMAIN REMARK 900 RELATED ID: 1BIU RELATED DB: PDB REMARK 900 HIV-1 INTEGRASE CORE DOMAIN COMPLEXED WITH MG++ REMARK 900 RELATED ID: 1BL3 RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HIV-1 INTEGRASE REMARK 900 RELATED ID: 1WJA RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE N-TERMINAL ZN BINDING DOMAIN OF HIV-1 REMARK 900 INTEGRASE (D FORM), NMR, REGULARIZED MEAN STRUCTURE REMARK 900 RELATED ID: 1WJB RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE N-TERMINAL ZN BINDING DOMAIN OF HIV-1 REMARK 900 INTEGRASE (D FORM), NMR, 40 STRUCTURES REMARK 900 RELATED ID: 1WJC RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE N-TERMINAL ZN BINDING DOMAIN OF HIV-1 REMARK 900 INTEGRASE (E FORM), NMR, REGULARIZED MEAN STRUCTURE REMARK 900 RELATED ID: 1WJD RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE N-TERMINAL ZN BINDING DOMAIN OF HIV-1 REMARK 900 INTEGRASE (E FORM), NMR, 38 STRUCTURES REMARK 900 RELATED ID: 1WJE RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF H12C MUTANT OF THE N-TERMINAL ZN BINDING REMARK 900 DOMAIN OF HIV-1 INTEGRASE COMPLEXED TO CADMIUM, NMR, MINIMIZED REMARK 900 AVERAGE STRUCTURE REMARK 900 RELATED ID: 1WJF RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF H12C MUTANT OF THE N-TERMINAL ZN BINDING REMARK 900 DOMAIN OF HIV-1 INTEGRASE COMPLEXED TO CADMIUM, NMR, 40 STRUCTURES REMARK 900 RELATED ID: 2ITG RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HIV-1 INTEGRASE: ORDERED ACTIVE SITE IN THE REMARK 900 F185H CONSTRUCT DBREF 1QMC A 220 270 UNP P03366 POL_HV1B1 947 997 DBREF 1QMC B 220 270 UNP P03366 POL_HV1B1 947 997 SEQADV 1QMC MET A 219 UNP P03366 CLONING ARTIFACT SEQADV 1QMC MET B 219 UNP P03366 CLONING ARTIFACT SEQRES 1 A 52 MET ILE GLN ASN PHE ARG VAL TYR TYR ARG ASP SER ARG SEQRES 2 A 52 ASN PRO LEU TRP LYS GLY PRO ALA LYS LEU LEU TRP LYS SEQRES 3 A 52 GLY GLU GLY ALA VAL VAL ILE GLN ASP ASN SER ASP ILE SEQRES 4 A 52 LYS VAL VAL PRO ARG ARG LYS ALA LYS ILE ILE ARG ASP SEQRES 1 B 52 MET ILE GLN ASN PHE ARG VAL TYR TYR ARG ASP SER ARG SEQRES 2 B 52 ASN PRO LEU TRP LYS GLY PRO ALA LYS LEU LEU TRP LYS SEQRES 3 B 52 GLY GLU GLY ALA VAL VAL ILE GLN ASP ASN SER ASP ILE SEQRES 4 B 52 LYS VAL VAL PRO ARG ARG LYS ALA LYS ILE ILE ARG ASP HELIX 1 1 ARG A 262 LYS A 264 5 3 HELIX 2 2 ARG B 262 LYS B 264 5 3 SHEET 1 AA 5 ILE A 257 PRO A 261 0 SHEET 2 AA 5 ALA A 248 GLN A 252 -1 N ILE A 251 O LYS A 258 SHEET 3 AA 5 LYS A 236 LYS A 244 -1 N ALA A 239 O GLN A 252 SHEET 4 AA 5 PHE A 223 TYR A 227 -1 N VAL A 225 O PRO A 238 SHEET 5 AA 5 ALA A 265 ARG A 269 -1 N ILE A 268 O ARG A 224 SHEET 1 AB 3 ILE A 257 PRO A 261 0 SHEET 2 AB 3 ALA A 248 GLN A 252 -1 N ILE A 251 O LYS A 258 SHEET 3 AB 3 LYS A 240 LYS A 244 -1 N LYS A 240 O GLN A 252 SHEET 1 AC 3 LYS A 236 ALA A 239 0 SHEET 2 AC 3 PHE A 223 TYR A 227 -1 N VAL A 225 O PRO A 238 SHEET 3 AC 3 ALA B 265 ARG B 269 -1 N ILE B 268 O ARG B 224 SHEET 1 BA 5 ILE B 257 PRO B 261 0 SHEET 2 BA 5 ALA B 248 GLN B 252 -1 N ILE B 251 O LYS B 258 SHEET 3 BA 5 LYS B 236 LYS B 244 -1 N ALA B 239 O GLN B 252 SHEET 4 BA 5 PHE B 223 TYR B 227 -1 N VAL B 225 O PRO B 238 SHEET 5 BA 5 ALA B 265 ARG B 269 -1 N ILE B 268 O ARG B 224 SHEET 1 BB 3 ILE B 257 PRO B 261 0 SHEET 2 BB 3 ALA B 248 GLN B 252 -1 N ILE B 251 O LYS B 258 SHEET 3 BB 3 LYS B 240 LYS B 244 -1 N LYS B 240 O GLN B 252 SHEET 1 BC 3 LYS B 236 ALA B 239 0 SHEET 2 BC 3 PHE B 223 TYR B 227 -1 N VAL B 225 O PRO B 238 SHEET 3 BC 3 ALA B 265 ARG B 269 -1 N ILE B 268 O ARG B 224 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