PDB Short entry for 2X83 HEADER VIRAL PROTEIN 05-MAR-10 2X83 TITLE EVOLUTIONARY BASIS OF HIV RESTRICTION BY THE ANTIRETROVIRAL TRIMCYP COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIV-1 CAPSID; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN, RESIDUES 401-564; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: TRIM5/CYPA FUSION PROTEIN; COMPND 8 CHAIN: B, D; COMPND 9 FRAGMENT: RESIDUES 304-466; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_TAXID: 82834; SOURCE 4 STRAIN: LW12.3 ISOLATE; SOURCE 5 GENE: GAG; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: MACACA FASCICULARIS; SOURCE 10 ORGANISM_COMMON: CRAB-EATING MACAQUE; SOURCE 11 ORGANISM_TAXID: 9541; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 13 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS TRIM, VIRAL PROTEIN, RESTRICTION FACTOR IMMUNITY EXPDTA X-RAY DIFFRACTION AUTHOR A.J.PRICE,L.C.JAMES REVDAT 3 24-APR-19 2X83 1 COMPND SOURCE JRNL REMARK REVDAT 3 2 1 DBREF REVDAT 2 29-SEP-10 2X83 1 REMARK REVDAT 1 15-SEP-10 2X83 0 JRNL AUTH L.M.YLINEN,A.J.PRICE,J.RASAIYAAH,S.HUE,N.J.ROSE,F.MARZETTA, JRNL AUTH 2 L.C.JAMES,G.J.TOWERS JRNL TITL CONFORMATIONAL ADAPTATION OF ASIAN MACAQUE TRIMCYP DIRECTS JRNL TITL 2 LINEAGE SPECIFIC ANTIVIRAL ACTIVITY. JRNL REF PLOS PATHOG. V. 6 01062 2010 JRNL REFN ESSN 1553-7374 JRNL PMID 20808866 JRNL DOI 10.1371/JOURNAL.PPAT.1001062 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 66.38 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 3 NUMBER OF REFLECTIONS : 55058 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2942 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3703 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE SET COUNT : 186 REMARK 3 BIN FREE R VALUE : 0.2950 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4751 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 634 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.03000 REMARK 3 B22 (A**2) : 1.72000 REMARK 3 B33 (A**2) : -0.18000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.22000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.256 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.136 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.097 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.555 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4896 ; 0.021 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3346 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6637 ; 1.803 ; 1.942 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8160 ; 1.052 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 632 ; 6.352 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 208 ;36.223 ;24.615 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 808 ;16.303 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;21.623 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 717 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5537 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 969 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3108 ; 1.923 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1286 ; 0.635 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4995 ; 2.965 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1788 ; 4.531 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1642 ; 6.509 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 8242 ; 1.910 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2X83 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-MAR-10. REMARK 100 THE DEPOSITION ID IS D_1290043121. 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 : NULL 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 FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60435 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 200 DATA REDUNDANCY : 2.400 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.1000 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 <I/SIGMA(I)> 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 (%): 32.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.33 MM EACH OF MAFA CYP AND HIV-1 CAN REMARK 280 IN 20 MM HEPES PH 7, 50 MM NACL, 1 MM DTT WAS MIXED WITH REMARK 280 RESERVOIR SOLUTION (30% PEG 6000, 1 M LICL, 0.1 M HEPES PH 7, REMARK 280 0.5% ETHYL ACETATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z 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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 55.07500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 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 GLN A 409 CG CD OE1 NE2 REMARK 470 LYS A 425 CG CD CE NZ REMARK 470 VAL B 2 CG1 CG2 REMARK 470 SER C 546 OG REMARK 470 VAL D 2 CG1 CG2 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 GLY C 408 REMARK 475 GLY D 80 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 418 CG CD NE CZ NH1 NH2 REMARK 480 HIS A 487 N CA C O CB CG ND1 REMARK 480 HIS A 487 CD2 CE1 NE2 REMARK 480 GLN A 512 CG CD OE1 NE2 REMARK 480 TYR A 545 O REMARK 480 ARG B 148 CG CD NE CZ NH1 NH2 REMARK 480 LYS B 151 CG CD CE NZ REMARK 480 GLN C 404 CG CD OE1 NE2 REMARK 480 ARG C 418 CG CD NE CZ NH1 NH2 REMARK 480 LYS C 425 CG CD CE NZ REMARK 480 GLU C 435 CG CD OE1 OE2 REMARK 480 GLN C 495 N CA C O CB CG CD REMARK 480 GLN C 495 OE1 NE2 REMARK 480 GLN C 512 CG CD OE1 NE2 REMARK 480 ASN C 521 CG OD1 ND2 REMARK 480 GLU C 528 CG CD OE1 OE2 REMARK 480 ARG C 543 N CA C O CB CG CD REMARK 480 ARG C 543 NE CZ NH1 NH2 REMARK 480 TYR C 545 O REMARK 480 GLU D 15 CG CD OE1 OE2 REMARK 480 ARG D 144 CG CD NE CZ NH1 NH2 REMARK 480 ARG D 148 CG CD NE CZ NH1 NH2 REMARK 480 LYS D 151 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 HOH C 2132 O HOH C 2135 0.75 REMARK 500 O HOH A 2110 O HOH A 2112 0.79 REMARK 500 O HOH C 2139 O HOH C 2141 0.90 REMARK 500 O HOH B 2104 O HOH B 2106 0.94 REMARK 500 O HOH D 2136 O HOH D 2138 0.97 REMARK 500 O HOH D 2077 O HOH D 2078 0.98 REMARK 500 O HOH B 2155 O HOH B 2158 1.06 REMARK 500 O HOH C 2117 O HOH C 2119 1.07 REMARK 500 O HOH B 2131 O HOH B 2134 1.13 REMARK 500 O HOH D 2040 O HOH D 2042 1.15 REMARK 500 O HOH A 2103 O HOH A 2105 1.21 REMARK 500 O HOH B 2083 O HOH B 2127 1.25 REMARK 500 O HOH C 2143 O HOH C 2144 1.30 REMARK 500 O HOH D 2091 O HOH D 2108 1.31 REMARK 500 O HOH C 2110 O HOH C 2111 1.37 REMARK 500 O GLU D 15 O HOH D 2011 1.37 REMARK 500 O HOH B 2068 O HOH B 2069 1.43 REMARK 500 O HOH B 2069 O HOH B 2075 1.44 REMARK 500 O HOH C 2050 O HOH C 2058 1.47 REMARK 500 O HOH C 2066 O HOH C 2067 1.51 REMARK 500 O HOH B 2156 O HOH B 2157 1.59 REMARK 500 C GLU D 15 O HOH D 2011 1.65 REMARK 500 NZ LYS A 430 O HOH A 2035 1.65 REMARK 500 O HOH C 2053 O HOH C 2057 1.68 REMARK 500 O HOH C 2014 O HOH C 2110 1.77 REMARK 500 O HOH B 2006 O HOH B 2153 1.79 REMARK 500 NH1 ARG B 144 O HOH B 2138 1.79 REMARK 500 O HOH A 2080 O HOH A 2081 1.81 REMARK 500 O HOH C 2005 O HOH C 2066 1.85 REMARK 500 OE1 GLU C 471 O HOH C 2076 1.88 REMARK 500 O HOH B 2031 O HOH B 2196 1.89 REMARK 500 O HOH B 2147 O HOH B 2195 1.89 REMARK 500 O HOH B 2145 O HOH B 2147 1.90 REMARK 500 O HOH A 2062 O HOH A 2064 1.90 REMARK 500 O HOH B 2112 O HOH B 2113 1.93 REMARK 500 O HOH B 2073 O HOH B 2179 1.93 REMARK 500 O HOH B 2136 O HOH B 2191 1.97 REMARK 500 O HOH C 2011 O HOH C 2096 1.98 REMARK 500 O HOH B 2054 O HOH B 2142 2.00 REMARK 500 O HOH C 2052 O HOH C 2053 2.02 REMARK 500 O HOH B 2124 O HOH B 2126 2.07 REMARK 500 O HOH D 2025 O HOH D 2133 2.08 REMARK 500 O HOH C 2079 O HOH C 2080 2.11 REMARK 500 O HOH B 2005 O HOH B 2163 2.15 REMARK 500 O HOH C 2004 O HOH C 2068 2.16 REMARK 500 O HOH A 2075 O HOH A 2090 2.17 REMARK 500 O HOH B 2068 O HOH B 2073 2.17 REMARK 500 O HOH A 2064 O HOH A 2092 2.17 REMARK 500 ND2 ASN C 457 O HOH C 2061 2.18 REMARK 500 O HOH D 2016 O HOH D 2112 2.18 REMARK 500 REMARK 500 THIS ENTRY HAS 52 CLOSE CONTACTS REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2057 O HOH B 2135 1554 1.08 REMARK 500 O HOH B 2088 O HOH C 2075 2656 1.27 REMARK 500 O HOH C 2028 O HOH D 2049 1455 1.65 REMARK 500 O HOH A 2062 O HOH D 2076 2656 1.73 REMARK 500 O HOH A 2098 O HOH B 2180 1655 1.89 REMARK 500 O HOH D 2026 O HOH D 2097 1655 2.03 REMARK 500 NE2 GLN A 463 ND2 ASN B 137 1554 2.07 REMARK 500 O HOH C 2104 O HOH D 2034 1455 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 418 CB ARG A 418 CG 0.323 REMARK 500 GLU B 84 CG GLU B 84 CD 0.098 REMARK 500 ARG B 148 CB ARG B 148 CG -0.306 REMARK 500 LYS B 151 CB LYS B 151 CG -0.221 REMARK 500 GLN C 404 CB GLN C 404 CG -0.231 REMARK 500 ARG C 418 CB ARG C 418 CG -0.523 REMARK 500 GLU C 471 CG GLU C 471 CD 0.106 REMARK 500 GLU C 471 CD GLU C 471 OE2 0.071 REMARK 500 ASN C 521 CB ASN C 521 CG -0.261 REMARK 500 GLU C 528 CB GLU C 528 CG -0.189 REMARK 500 GLU D 15 CB GLU D 15 CG -0.276 REMARK 500 TYR D 79 C GLY D 80 N -0.213 REMARK 500 GLY D 80 C GLU D 81 N -0.390 REMARK 500 ARG D 144 CB ARG D 144 CG -0.270 REMARK 500 LYS D 151 CB LYS D 151 CG -0.207 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG B 55 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 GLY C 408 O - C - N ANGL. DEV. = -10.1 DEGREES REMARK 500 GLN C 409 C - N - CA ANGL. DEV. = 19.9 DEGREES REMARK 500 ARG C 418 CA - CB - CG ANGL. DEV. = 13.5 DEGREES REMARK 500 MET C 439 CG - SD - CE ANGL. DEV. = -11.2 DEGREES REMARK 500 GLU D 15 CA - CB - CG ANGL. DEV. = 27.0 DEGREES REMARK 500 GLU D 15 CB - CG - CD ANGL. DEV. = -21.5 DEGREES 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 ALA A 431 -109.57 43.53 REMARK 500 ASP B 13 50.34 39.78 REMARK 500 PHE B 60 -69.49 -133.66 REMARK 500 ASN B 102 165.14 58.69 REMARK 500 ASN B 149 -20.28 83.68 REMARK 500 LEU C 406 -62.23 117.62 REMARK 500 GLN C 407 4.00 -58.48 REMARK 500 ALA C 431 -137.76 58.35 REMARK 500 PHE C 432 52.43 -112.91 REMARK 500 ARG C 543 1.77 -64.44 REMARK 500 ARG C 543 5.82 -65.25 REMARK 500 PHE D 60 -68.06 -130.24 REMARK 500 LYS D 133 -63.18 -97.45 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 ALA C 488 GLY C 489 142.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2015 DISTANCE = 6.76 ANGSTROMS REMARK 525 HOH B2161 DISTANCE = 6.09 ANGSTROMS REMARK 525 HOH B2202 DISTANCE = 5.87 ANGSTROMS REMARK 525 HOH D2151 DISTANCE = 6.16 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2X82 RELATED DB: PDB REMARK 900 EVOLUTIONARY BASIS OF HIV RESTRICTION BY THE ANTIRETROVIRAL TRIMCYP DBREF 2X83 A 401 546 UNP E9MJX7 E9MJX7_9HIV1 125 270 DBREF 2X83 B 2 164 UNP B0ZE32 B0ZE32_MACFA 304 466 DBREF 2X83 C 401 546 UNP E9MJX7 E9MJX7_9HIV1 125 270 DBREF 2X83 D 2 164 UNP B0ZE32 B0ZE32_MACFA 304 466 SEQADV 2X83 HIS B 54 UNP B0ZE32 ARG 356 CONFLICT SEQADV 2X83 HIS D 54 UNP B0ZE32 ARG 356 CONFLICT SEQRES 1 A 146 PRO ILE VAL GLN ASN LEU GLN GLY GLN MET VAL HIS GLN SEQRES 2 A 146 ALA ILE SER PRO ARG THR LEU ASN ALA TRP VAL LYS VAL SEQRES 3 A 146 VAL GLU GLU LYS ALA PHE SER PRO GLU VAL ILE PRO MET SEQRES 4 A 146 PHE SER ALA LEU SER GLU GLY ALA THR PRO GLN ASP LEU SEQRES 5 A 146 ASN THR MET LEU ASN THR VAL GLY GLY HIS GLN ALA ALA SEQRES 6 A 146 MET GLN MET LEU LYS GLU THR ILE ASN GLU GLU ALA ALA SEQRES 7 A 146 GLU TRP ASP ARG LEU HIS PRO VAL HIS ALA GLY PRO ILE SEQRES 8 A 146 ALA PRO GLY GLN MET ARG GLU PRO ARG GLY SER ASP ILE SEQRES 9 A 146 ALA GLY THR THR SER THR LEU GLN GLU GLN ILE GLY TRP SEQRES 10 A 146 MET THR HIS ASN PRO PRO ILE PRO VAL GLY GLU ILE TYR SEQRES 11 A 146 LYS ARG TRP ILE ILE LEU GLY LEU ASN LYS ILE VAL ARG SEQRES 12 A 146 MET TYR SER SEQRES 1 B 163 VAL ASN PRO THR VAL PHE PHE ASP ILE ALA VAL ASP GLY SEQRES 2 B 163 GLU PRO LEU GLY ARG VAL SER PHE GLU LEU PHE ALA ASP SEQRES 3 B 163 LYS VAL PRO LYS THR ALA GLU ASN PHE ARG ALA LEU SER SEQRES 4 B 163 THR GLY GLU LYS GLY PHE GLY TYR LYS GLY SER CYS PHE SEQRES 5 B 163 HIS ARG ILE ILE PRO GLY PHE MET CYS GLN GLY GLY ASP SEQRES 6 B 163 PHE THR HIS HIS ASN GLY THR GLY GLY LYS SER ILE TYR SEQRES 7 B 163 GLY GLU LYS PHE GLU ASP GLU ASN PHE ILE LEU LYS HIS SEQRES 8 B 163 THR GLY PRO GLY ILE LEU SER MET ALA ASN ALA GLY PRO SEQRES 9 B 163 ASN THR ASN GLY SER GLN PHE PHE ILE CYS THR ALA LYS SEQRES 10 B 163 THR GLU TRP LEU ASP GLY LYS HIS VAL VAL PHE GLY LYS SEQRES 11 B 163 VAL LYS GLU GLY MET ASN ILE VAL GLU ALA MET LYS ARG SEQRES 12 B 163 PHE GLY SER ARG ASN GLY LYS THR SER LYS LYS ILE THR SEQRES 13 B 163 ILE ALA ASP CYS GLY GLN LEU SEQRES 1 C 146 PRO ILE VAL GLN ASN LEU GLN GLY GLN MET VAL HIS GLN SEQRES 2 C 146 ALA ILE SER PRO ARG THR LEU ASN ALA TRP VAL LYS VAL SEQRES 3 C 146 VAL GLU GLU LYS ALA PHE SER PRO GLU VAL ILE PRO MET SEQRES 4 C 146 PHE SER ALA LEU SER GLU GLY ALA THR PRO GLN ASP LEU SEQRES 5 C 146 ASN THR MET LEU ASN THR VAL GLY GLY HIS GLN ALA ALA SEQRES 6 C 146 MET GLN MET LEU LYS GLU THR ILE ASN GLU GLU ALA ALA SEQRES 7 C 146 GLU TRP ASP ARG LEU HIS PRO VAL HIS ALA GLY PRO ILE SEQRES 8 C 146 ALA PRO GLY GLN MET ARG GLU PRO ARG GLY SER ASP ILE SEQRES 9 C 146 ALA GLY THR THR SER THR LEU GLN GLU GLN ILE GLY TRP SEQRES 10 C 146 MET THR HIS ASN PRO PRO ILE PRO VAL GLY GLU ILE TYR SEQRES 11 C 146 LYS ARG TRP ILE ILE LEU GLY LEU ASN LYS ILE VAL ARG SEQRES 12 C 146 MET TYR SER SEQRES 1 D 163 VAL ASN PRO THR VAL PHE PHE ASP ILE ALA VAL ASP GLY SEQRES 2 D 163 GLU PRO LEU GLY ARG VAL SER PHE GLU LEU PHE ALA ASP SEQRES 3 D 163 LYS VAL PRO LYS THR ALA GLU ASN PHE ARG ALA LEU SER SEQRES 4 D 163 THR GLY GLU LYS GLY PHE GLY TYR LYS GLY SER CYS PHE SEQRES 5 D 163 HIS ARG ILE ILE PRO GLY PHE MET CYS GLN GLY GLY ASP SEQRES 6 D 163 PHE THR HIS HIS ASN GLY THR GLY GLY LYS SER ILE TYR SEQRES 7 D 163 GLY GLU LYS PHE GLU ASP GLU ASN PHE ILE LEU LYS HIS SEQRES 8 D 163 THR GLY PRO GLY ILE LEU SER MET ALA ASN ALA GLY PRO SEQRES 9 D 163 ASN THR ASN GLY SER GLN PHE PHE ILE CYS THR ALA LYS SEQRES 10 D 163 THR GLU TRP LEU ASP GLY LYS HIS VAL VAL PHE GLY LYS SEQRES 11 D 163 VAL LYS GLU GLY MET ASN ILE VAL GLU ALA MET LYS ARG SEQRES 12 D 163 PHE GLY SER ARG ASN GLY LYS THR SER LYS LYS ILE THR SEQRES 13 D 163 ILE ALA ASP CYS GLY GLN LEU FORMUL 5 HOH *634(H2 O) HELIX 1 1 SER A 416 LYS A 430 1 15 HELIX 2 2 GLU A 435 SER A 444 1 10 HELIX 3 3 THR A 448 THR A 458 1 11 HELIX 4 4 HIS A 462 HIS A 484 1 23 HELIX 5 5 ARG A 500 ALA A 505 1 6 HELIX 6 6 THR A 510 THR A 519 1 10 HELIX 7 7 PRO A 525 SER A 546 1 22 HELIX 8 8 VAL B 29 GLY B 42 1 14 HELIX 9 9 THR B 119 ASP B 123 5 5 HELIX 10 10 GLY B 135 LYS B 143 1 9 HELIX 11 11 ARG B 144 GLY B 146 5 3 HELIX 12 12 SER C 416 ALA C 431 1 16 HELIX 13 13 GLU C 435 SER C 444 1 10 HELIX 14 14 THR C 448 THR C 458 1 11 HELIX 15 15 HIS C 462 HIS C 484 1 23 HELIX 16 16 ARG C 500 ALA C 505 1 6 HELIX 17 17 THR C 510 THR C 519 1 10 HELIX 18 18 PRO C 525 ARG C 543 1 19 HELIX 19 19 VAL D 29 GLY D 42 1 14 HELIX 20 20 THR D 119 ASP D 123 5 5 HELIX 21 21 GLY D 135 LYS D 143 1 9 HELIX 22 22 ARG D 144 GLY D 146 5 3 SHEET 1 AA 2 ILE A 402 GLN A 404 0 SHEET 2 AA 2 MET A 410 HIS A 412 -1 O VAL A 411 N VAL A 403 SHEET 1 BA 8 ARG B 55 ILE B 57 0 SHEET 2 BA 8 MET B 61 GLY B 64 -1 O MET B 61 N ILE B 57 SHEET 3 BA 8 PHE B 112 CYS B 115 -1 O PHE B 112 N GLY B 64 SHEET 4 BA 8 ILE B 97 MET B 100 -1 O ILE B 97 N CYS B 115 SHEET 5 BA 8 VAL B 128 GLU B 134 -1 N PHE B 129 O LEU B 98 SHEET 6 BA 8 GLU B 15 LEU B 24 -1 O SER B 21 N LYS B 133 SHEET 7 BA 8 THR B 5 VAL B 12 -1 O VAL B 6 N PHE B 22 SHEET 8 BA 8 ILE B 156 GLN B 163 -1 O THR B 157 N ALA B 11 SHEET 1 CA 2 ILE C 402 GLN C 404 0 SHEET 2 CA 2 MET C 410 HIS C 412 -1 O VAL C 411 N VAL C 403 SHEET 1 DA 8 PHE D 53 ILE D 57 0 SHEET 2 DA 8 MET D 61 GLY D 64 -1 O MET D 61 N ILE D 57 SHEET 3 DA 8 PHE D 112 CYS D 115 -1 O PHE D 112 N GLY D 64 SHEET 4 DA 8 ILE D 97 MET D 100 -1 O ILE D 97 N CYS D 115 SHEET 5 DA 8 VAL D 128 GLU D 134 -1 N PHE D 129 O LEU D 98 SHEET 6 DA 8 GLU D 15 LEU D 24 -1 O SER D 21 N LYS D 133 SHEET 7 DA 8 THR D 5 VAL D 12 -1 O VAL D 6 N PHE D 22 SHEET 8 DA 8 ILE D 156 GLN D 163 -1 O THR D 157 N ALA D 11 CISPEP 1 ASN A 521 PRO A 522 0 2.69 CISPEP 2 ASN C 521 PRO C 522 0 0.12 CRYST1 38.520 110.150 67.760 90.00 101.59 90.00 P 1 21 1 4 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 0.025961 0.000000 0.005324 0.00000 SCALE2 0.000000 0.009079 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015065 0.00000