HEADER VIRAL PROTEIN 25-JUN-10 2XI1 TITLE CRYSTAL STRUCTURE OF THE HIV-1 NEF SEQUENCED FROM A PATIENT'S SAMPLE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEF; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HIV-1 NEF; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: NEF; COMPND 8 CHAIN: B; COMPND 9 SYNONYM: HIV-1 NEF; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 (BH5 SOURCE 3 ISOLATE); SOURCE 4 ORGANISM_TAXID: 11682; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 OTHER_DETAILS: PATIENT SAMPLE; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 (BH5 SOURCE 11 ISOLATE); SOURCE 12 ORGANISM_TAXID: 11682; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 15 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 16 OTHER_DETAILS: PATIENT SAMPLE KEYWDS VIRAL PROTEIN, AIDS EXPDTA X-RAY DIFFRACTION AUTHOR G.P.YADAV,P.SINGH,S.GUPTA,A.K.TRIPATHI,R.K.TRIPATHI,R.RAMACHANDRAN REVDAT 2 23-NOV-11 2XI1 1 JRNL REVDAT 1 10-AUG-11 2XI1 0 JRNL AUTH P.SINGH,G.P.YADAV,S.GUPTA,A.K.TRIPATHI,R.RAMACHANDRAN, JRNL AUTH 2 R.K.TRIPATHI JRNL TITL A NOVEL DIMER-TETRAMER TRANSITION CAPTURED BY THE CRYSTAL JRNL TITL 2 STRUCTURE OF THE HIV-1 NEF. JRNL REF PLOS ONE V. 6 26629 2011 JRNL REFN ISSN 1932-6203 JRNL PMID 22073177 JRNL DOI 10.1371/JOURNAL.PONE.0026629 REMARK 2 REMARK 2 RESOLUTION. 3.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.551 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.36 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.99 REMARK 3 NUMBER OF REFLECTIONS : 7239 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.2268 REMARK 3 R VALUE (WORKING SET) : 0.2239 REMARK 3 FREE R VALUE : 0.2880 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.6 REMARK 3 FREE R VALUE TEST SET COUNT : 331 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 29.5519 - 4.4075 0.95 3628 175 0.2273 0.2867 REMARK 3 2 4.4075 - 3.5001 0.91 3280 156 0.2190 0.2894 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.335 REMARK 3 B_SOL : 34.873 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.45 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.11 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 56.37 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.0000 REMARK 3 B22 (A**2) : 0.0000 REMARK 3 B33 (A**2) : 0.0000 REMARK 3 B12 (A**2) : 0.0000 REMARK 3 B13 (A**2) : 0.0000 REMARK 3 B23 (A**2) : 0.0000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 1747 REMARK 3 ANGLE : 1.393 2372 REMARK 3 CHIRALITY : 0.075 235 REMARK 3 PLANARITY : 0.008 294 REMARK 3 DIHEDRAL : 19.225 608 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -35.9128 40.1690 10.8204 REMARK 3 T TENSOR REMARK 3 T11: 0.1060 T22: 0.1779 REMARK 3 T33: 0.1009 T12: -0.0405 REMARK 3 T13: -0.0282 T23: 0.0557 REMARK 3 L TENSOR REMARK 3 L11: 0.9383 L22: 1.1059 REMARK 3 L33: 0.7490 L12: 0.3268 REMARK 3 L13: 0.0565 L23: 0.0220 REMARK 3 S TENSOR REMARK 3 S11: 0.0649 S12: -0.3280 S13: -0.1363 REMARK 3 S21: 0.3199 S22: -0.1790 S23: 0.0845 REMARK 3 S31: 0.0860 S32: -0.0703 S33: -0.2082 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1-75 AND 152-178 ARE DISORDERED REMARK 4 REMARK 4 2XI1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-JUN-10. REMARK 100 THE PDBE ID CODE IS EBI-44347. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : VARIMAX-HF REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE (MAR345DTB) REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7262 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.50 REMARK 200 RESOLUTION RANGE LOW (A) : 29.90 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 200 DATA REDUNDANCY : 5.7 REMARK 200 R MERGE (I) : 0.12 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.10 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 65.20000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 65.20000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 65.20000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 65.20000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 65.20000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 65.20000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 MET A -1 REMARK 465 GLY A 0 REMARK 465 GLY A 1 REMARK 465 LYS A 2 REMARK 465 TRP A 3 REMARK 465 SER A 4 REMARK 465 LYS A 5 REMARK 465 SER A 6 REMARK 465 SER A 7 REMARK 465 ILE A 8 REMARK 465 VAL A 9 REMARK 465 GLY A 10 REMARK 465 TRP A 11 REMARK 465 PRO A 12 REMARK 465 ALA A 13 REMARK 465 ILE A 14 REMARK 465 ARG A 15 REMARK 465 GLU A 16 REMARK 465 ARG A 17 REMARK 465 LEU A 18 REMARK 465 ARG A 19 REMARK 465 ARG A 20 REMARK 465 ALA A 21 REMARK 465 GLN A 22 REMARK 465 PRO A 23 REMARK 465 ALA A 24 REMARK 465 ALA A 25 REMARK 465 GLU A 26 REMARK 465 ARG A 27 REMARK 465 ARG A 28 REMARK 465 ARG A 29 REMARK 465 ALA A 30 REMARK 465 GLN A 31 REMARK 465 PRO A 32 REMARK 465 ALA A 33 REMARK 465 ALA A 34 REMARK 465 GLU A 35 REMARK 465 GLY A 36 REMARK 465 VAL A 37 REMARK 465 GLY A 38 REMARK 465 ALA A 39 REMARK 465 ALA A 40 REMARK 465 SER A 41 REMARK 465 GLN A 42 REMARK 465 ASP A 43 REMARK 465 LEU A 44 REMARK 465 GLY A 45 REMARK 465 ARG A 46 REMARK 465 HIS A 47 REMARK 465 GLY A 48 REMARK 465 ALA A 49 REMARK 465 LEU A 50 REMARK 465 THR A 51 REMARK 465 SER A 52 REMARK 465 SER A 53 REMARK 465 ASN A 54 REMARK 465 THR A 55 REMARK 465 ASP A 56 REMARK 465 THR A 57 REMARK 465 THR A 58 REMARK 465 ASN A 59 REMARK 465 ALA A 60 REMARK 465 ASP A 61 REMARK 465 GLU A 62 REMARK 465 GLU A 63 REMARK 465 GLU A 64 REMARK 465 GLU A 65 REMARK 465 VAL A 66 REMARK 465 GLY A 67 REMARK 465 PHE A 68 REMARK 465 PRO A 69 REMARK 465 VAL A 70 REMARK 465 ARG A 71 REMARK 465 PRO A 72 REMARK 465 GLN A 73 REMARK 465 PRO A 150 REMARK 465 GLY A 151 REMARK 465 GLU A 152 REMARK 465 VAL A 153 REMARK 465 GLU A 154 REMARK 465 GLU A 155 REMARK 465 ALA A 156 REMARK 465 THR A 157 REMARK 465 GLU A 158 REMARK 465 GLY A 159 REMARK 465 GLU A 160 REMARK 465 ASN A 161 REMARK 465 ASN A 162 REMARK 465 CYS A 163 REMARK 465 LEU A 164 REMARK 465 LEU A 165 REMARK 465 HIS A 166 REMARK 465 PRO A 167 REMARK 465 ILE A 168 REMARK 465 CYS A 169 REMARK 465 GLN A 170 REMARK 465 HIS A 171 REMARK 465 GLY A 172 REMARK 465 MET A 173 REMARK 465 ASP A 174 REMARK 465 ASP A 175 REMARK 465 ASP A 176 REMARK 465 HIS A 177 REMARK 465 ARG A 178 REMARK 465 LYS A 204 REMARK 465 ASN A 205 REMARK 465 CYS A 206 REMARK 465 MET B -1 REMARK 465 GLY B 0 REMARK 465 GLY B 1 REMARK 465 LYS B 2 REMARK 465 TRP B 3 REMARK 465 SER B 4 REMARK 465 LYS B 5 REMARK 465 SER B 6 REMARK 465 SER B 7 REMARK 465 ILE B 8 REMARK 465 VAL B 9 REMARK 465 GLY B 10 REMARK 465 TRP B 11 REMARK 465 PRO B 12 REMARK 465 ALA B 13 REMARK 465 ILE B 14 REMARK 465 ARG B 15 REMARK 465 GLU B 16 REMARK 465 ARG B 17 REMARK 465 LEU B 18 REMARK 465 ARG B 19 REMARK 465 ARG B 20 REMARK 465 ALA B 21 REMARK 465 GLN B 22 REMARK 465 PRO B 23 REMARK 465 ALA B 24 REMARK 465 ALA B 25 REMARK 465 GLU B 26 REMARK 465 ARG B 27 REMARK 465 ARG B 28 REMARK 465 ARG B 29 REMARK 465 ALA B 30 REMARK 465 GLN B 31 REMARK 465 PRO B 32 REMARK 465 ALA B 33 REMARK 465 ALA B 34 REMARK 465 GLU B 35 REMARK 465 GLY B 36 REMARK 465 VAL B 37 REMARK 465 GLY B 38 REMARK 465 ALA B 39 REMARK 465 ALA B 40 REMARK 465 SER B 41 REMARK 465 GLN B 42 REMARK 465 ASP B 43 REMARK 465 LEU B 44 REMARK 465 GLY B 45 REMARK 465 ARG B 46 REMARK 465 HIS B 47 REMARK 465 GLY B 48 REMARK 465 ALA B 49 REMARK 465 LEU B 50 REMARK 465 THR B 51 REMARK 465 SER B 52 REMARK 465 SER B 53 REMARK 465 ASN B 54 REMARK 465 THR B 55 REMARK 465 ASP B 56 REMARK 465 THR B 57 REMARK 465 THR B 58 REMARK 465 ASN B 59 REMARK 465 ALA B 60 REMARK 465 ASP B 61 REMARK 465 GLU B 62 REMARK 465 GLU B 63 REMARK 465 GLU B 64 REMARK 465 GLU B 65 REMARK 465 VAL B 66 REMARK 465 GLY B 67 REMARK 465 PHE B 68 REMARK 465 PRO B 69 REMARK 465 VAL B 70 REMARK 465 ARG B 71 REMARK 465 PRO B 72 REMARK 465 GLN B 73 REMARK 465 ASP B 149 REMARK 465 PRO B 150 REMARK 465 GLY B 151 REMARK 465 GLU B 152 REMARK 465 VAL B 153 REMARK 465 GLU B 154 REMARK 465 GLU B 155 REMARK 465 ALA B 156 REMARK 465 THR B 157 REMARK 465 GLU B 158 REMARK 465 GLY B 159 REMARK 465 GLU B 160 REMARK 465 ASN B 161 REMARK 465 ASN B 162 REMARK 465 CYS B 163 REMARK 465 LEU B 164 REMARK 465 LEU B 165 REMARK 465 HIS B 166 REMARK 465 PRO B 167 REMARK 465 ILE B 168 REMARK 465 CYS B 169 REMARK 465 GLN B 170 REMARK 465 HIS B 171 REMARK 465 GLY B 172 REMARK 465 MET B 173 REMARK 465 ASP B 174 REMARK 465 ASP B 175 REMARK 465 ASP B 176 REMARK 465 HIS B 177 REMARK 465 ARG B 178 REMARK 465 LYS B 204 REMARK 465 ASN B 205 REMARK 465 CYS B 206 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 VAL A 148 CG1 CG2 REMARK 470 ASP A 149 CG OD1 OD2 REMARK 470 VAL B 148 CG1 CG2 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 PRO A 75 -168.97 -44.71 REMARK 500 PHE A 89 -71.58 -60.97 REMARK 500 PHE A 90 -55.71 -27.64 REMARK 500 LYS A 92 -79.94 -41.53 REMARK 500 LYS A 107 -74.47 -54.97 REMARK 500 TRP A 113 -70.65 -35.24 REMARK 500 TYR A 115 -70.77 -56.80 REMARK 500 GLN A 118 17.18 -144.72 REMARK 500 TRP A 124 -16.02 -159.15 REMARK 500 CYS A 142 53.71 -102.77 REMARK 500 PRO B 75 176.78 -57.35 REMARK 500 VAL B 85 -63.00 -96.67 REMARK 500 LYS B 92 -75.71 -82.86 REMARK 500 GLU B 108 -60.78 -25.90 REMARK 500 HIS B 116 8.01 -59.75 REMARK 500 PRO B 122 82.67 -60.14 REMARK 500 ASP B 123 19.40 -154.35 REMARK 500 GLN B 125 76.90 -67.30 REMARK 500 CYS B 142 59.03 -111.44 REMARK 500 LEU B 189 10.57 -62.71 REMARK 500 GLU B 197 -38.00 -35.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 GENBANK ACCESSION NUMBER GQ184340 REMARK 999 CORRESPONDS TO THE SEQUENCE OF NEF FROM THE PATIENT. DBREF 2XI1 A -1 206 UNP C6KEI3 C6KEI3_9HIV1 1 208 DBREF 2XI1 B -1 206 UNP C6KEI3 C6KEI3_9HIV1 1 208 SEQADV 2XI1 ARG A 105 UNP C6KEI3 LYS 107 CONFLICT SEQADV 2XI1 GLU A 106 UNP C6KEI3 ARG 108 CONFLICT SEQADV 2XI1 TYR A 202 UNP C6KEI3 PHE 204 CONFLICT SEQADV 2XI1 PHE A 203 UNP C6KEI3 TYR 205 CONFLICT SEQRES 1 A 208 MET GLY GLY LYS TRP SER LYS SER SER ILE VAL GLY TRP SEQRES 2 A 208 PRO ALA ILE ARG GLU ARG LEU ARG ARG ALA GLN PRO ALA SEQRES 3 A 208 ALA GLU ARG ARG ARG ALA GLN PRO ALA ALA GLU GLY VAL SEQRES 4 A 208 GLY ALA ALA SER GLN ASP LEU GLY ARG HIS GLY ALA LEU SEQRES 5 A 208 THR SER SER ASN THR ASP THR THR ASN ALA ASP GLU GLU SEQRES 6 A 208 GLU GLU VAL GLY PHE PRO VAL ARG PRO GLN VAL PRO LEU SEQRES 7 A 208 ARG PRO MET THR TYR LYS GLY ALA VAL ASP LEU SER PHE SEQRES 8 A 208 PHE LEU LYS GLU LYS GLY GLY LEU GLU GLY LEU VAL TYR SEQRES 9 A 208 SER GLN ARG GLU LYS GLU ILE LEU ASP LEU TRP VAL TYR SEQRES 10 A 208 HIS THR GLN GLY TYR PHE PRO ASP TRP GLN CYS TYR THR SEQRES 11 A 208 PRO GLY PRO GLY VAL ARG TYR PRO LEU THR PHE GLY TRP SEQRES 12 A 208 CYS PHE LYS LEU VAL PRO VAL ASP PRO GLY GLU VAL GLU SEQRES 13 A 208 GLU ALA THR GLU GLY GLU ASN ASN CYS LEU LEU HIS PRO SEQRES 14 A 208 ILE CYS GLN HIS GLY MET ASP ASP ASP HIS ARG GLU VAL SEQRES 15 A 208 LEU LYS TRP LYS PHE ASP SER HIS LEU ALA HIS THR HIS SEQRES 16 A 208 MET ALA ARG GLU LEU HIS PRO GLU TYR PHE LYS ASN CYS SEQRES 1 B 208 MET GLY GLY LYS TRP SER LYS SER SER ILE VAL GLY TRP SEQRES 2 B 208 PRO ALA ILE ARG GLU ARG LEU ARG ARG ALA GLN PRO ALA SEQRES 3 B 208 ALA GLU ARG ARG ARG ALA GLN PRO ALA ALA GLU GLY VAL SEQRES 4 B 208 GLY ALA ALA SER GLN ASP LEU GLY ARG HIS GLY ALA LEU SEQRES 5 B 208 THR SER SER ASN THR ASP THR THR ASN ALA ASP GLU GLU SEQRES 6 B 208 GLU GLU VAL GLY PHE PRO VAL ARG PRO GLN VAL PRO LEU SEQRES 7 B 208 ARG PRO MET THR TYR LYS GLY ALA VAL ASP LEU SER PHE SEQRES 8 B 208 PHE LEU LYS GLU LYS GLY GLY LEU GLU GLY LEU VAL TYR SEQRES 9 B 208 SER GLN LYS ARG LYS GLU ILE LEU ASP LEU TRP VAL TYR SEQRES 10 B 208 HIS THR GLN GLY TYR PHE PRO ASP TRP GLN CYS TYR THR SEQRES 11 B 208 PRO GLY PRO GLY VAL ARG TYR PRO LEU THR PHE GLY TRP SEQRES 12 B 208 CYS PHE LYS LEU VAL PRO VAL ASP PRO GLY GLU VAL GLU SEQRES 13 B 208 GLU ALA THR GLU GLY GLU ASN ASN CYS LEU LEU HIS PRO SEQRES 14 B 208 ILE CYS GLN HIS GLY MET ASP ASP ASP HIS ARG GLU VAL SEQRES 15 B 208 LEU LYS TRP LYS PHE ASP SER HIS LEU ALA HIS THR HIS SEQRES 16 B 208 MET ALA ARG GLU LEU HIS PRO GLU PHE TYR LYS ASN CYS HELIX 1 1 THR A 80 LYS A 94 1 15 HELIX 2 2 SER A 103 GLY A 119 1 17 HELIX 3 3 SER A 187 HIS A 191 5 5 HELIX 4 4 HIS A 193 HIS A 199 1 7 HELIX 5 5 THR B 80 LYS B 94 1 15 HELIX 6 6 SER B 103 GLY B 119 1 17 HELIX 7 7 SER B 187 HIS B 191 5 5 HELIX 8 8 HIS B 193 HIS B 199 1 7 HELIX 9 9 PRO B 200 TYR B 203 5 4 SHEET 1 AA 2 PHE A 143 PRO A 147 0 SHEET 2 AA 2 LEU A 181 PHE A 185 -1 O LYS A 182 N VAL A 146 SHEET 1 BA 2 ARG B 77 PRO B 78 0 SHEET 2 BA 2 TYR B 120 PHE B 121 1 N PHE B 121 O ARG B 77 SHEET 1 BB 2 PHE B 143 PRO B 147 0 SHEET 2 BB 2 LEU B 181 PHE B 185 -1 O LYS B 182 N VAL B 146 CISPEP 1 GLY A 130 PRO A 131 0 8.48 CISPEP 2 GLY B 130 PRO B 131 0 -4.14 CRYST1 123.030 123.030 130.400 90.00 90.00 120.00 P 63 2 2 12 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 0.008128 0.004693 0.000000 0.00000 SCALE2 0.000000 0.009386 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007669 0.00000