HEADER IMMUNE SYSTEM 15-JAN-10 3LES TITLE 2F5 EPITOPE SCAFFOLD ES2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA POLYMERASE SIGMA FACTOR; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 93-271; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS AQUATICUS; SOURCE 3 ORGANISM_TAXID: 271; SOURCE 4 GENE: SIGMA FACTOR SIGA; SOURCE 5 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: CMV-R KEYWDS HIV-1, GP41, MONOCLONAL ANTIBODY, 2F5, EPITOPE, TRANSPLANT, SCAFFOLD, KEYWDS 2 GRAFT, SIGMA FACTOR, RE-ELICITATION, IMMUNE SYSTEM, VACCINE DESIGN EXPDTA X-RAY DIFFRACTION AUTHOR G.OFEK,F.J.GUENAGA,W.R.SCHIEF,J.SKINNER,R.WYATT,D.BAKER,P.D.KWONG REVDAT 4 13-OCT-21 3LES 1 SEQADV REVDAT 3 31-MAR-21 3LES 1 SOURCE REMARK REVDAT 2 24-NOV-10 3LES 1 JRNL REVDAT 1 29-SEP-10 3LES 0 JRNL AUTH G.OFEK,F.J.GUENAGA,W.R.SCHIEF,J.SKINNER,D.BAKER,R.WYATT, JRNL AUTH 2 P.D.KWONG JRNL TITL ELICITATION OF STRUCTURE-SPECIFIC ANTIBODIES BY EPITOPE JRNL TITL 2 SCAFFOLDS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 107 17880 2010 JRNL REFN ISSN 0027-8424 JRNL PMID 20876137 JRNL DOI 10.1073/PNAS.1004728107 REMARK 2 REMARK 2 RESOLUTION. 2.77 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT 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) : 2.77 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.85 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 85.6 REMARK 3 NUMBER OF REFLECTIONS : 8827 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.230 REMARK 3 R VALUE (WORKING SET) : 0.227 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.300 REMARK 3 FREE R VALUE TEST SET COUNT : 909 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE 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 : 0.41 REMARK 3 B_SOL : 82.65 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.440 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 62.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 100.5 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -28.79000 REMARK 3 B22 (A**2) : 48.81490 REMARK 3 B33 (A**2) : -20.02490 REMARK 3 B12 (A**2) : 7.18680 REMARK 3 B13 (A**2) : 6.86820 REMARK 3 B23 (A**2) : 27.88480 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 : 0.004 2893 REMARK 3 ANGLE : 0.751 3893 REMARK 3 CHIRALITY : 0.050 430 REMARK 3 PLANARITY : 0.003 496 REMARK 3 DIHEDRAL : 16.848 1100 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND RESID 93:121 REMARK 3 ORIGIN FOR THE GROUP (A): 10.3711 -3.0316 3.5373 REMARK 3 T TENSOR REMARK 3 T11: 0.7520 T22: 0.6462 REMARK 3 T33: 0.6925 T12: 0.1660 REMARK 3 T13: 0.0513 T23: 0.0472 REMARK 3 L TENSOR REMARK 3 L11: 0.0106 L22: 0.0770 REMARK 3 L33: 0.1007 L12: 0.0646 REMARK 3 L13: -0.0118 L23: 0.0951 REMARK 3 S TENSOR REMARK 3 S11: -0.1004 S12: 0.0968 S13: 0.0023 REMARK 3 S21: -0.0880 S22: 0.3264 S23: 0.0716 REMARK 3 S31: 0.3190 S32: 0.3096 S33: 0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESID 122:156 REMARK 3 ORIGIN FOR THE GROUP (A): -9.4239 1.2820 -4.3195 REMARK 3 T TENSOR REMARK 3 T11: 0.5195 T22: 0.8695 REMARK 3 T33: 0.5963 T12: -0.0256 REMARK 3 T13: -0.0749 T23: 0.1477 REMARK 3 L TENSOR REMARK 3 L11: 0.0578 L22: -0.0664 REMARK 3 L33: 0.0834 L12: 0.0736 REMARK 3 L13: 0.1514 L23: -0.0634 REMARK 3 S TENSOR REMARK 3 S11: -0.1660 S12: 0.4762 S13: 0.1066 REMARK 3 S21: -0.1602 S22: -0.0206 S23: 0.0951 REMARK 3 S31: 0.0853 S32: 0.0360 S33: -0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND RESID 157:171 REMARK 3 ORIGIN FOR THE GROUP (A): -7.4462 -8.7951 5.0849 REMARK 3 T TENSOR REMARK 3 T11: 0.6476 T22: 0.9412 REMARK 3 T33: 0.5155 T12: -0.1104 REMARK 3 T13: -0.0109 T23: 0.1938 REMARK 3 L TENSOR REMARK 3 L11: 0.0122 L22: 0.0105 REMARK 3 L33: -0.0112 L12: -0.0017 REMARK 3 L13: 0.0180 L23: -0.0486 REMARK 3 S TENSOR REMARK 3 S11: 0.0251 S12: -0.1349 S13: 0.2166 REMARK 3 S21: -0.0031 S22: 0.2605 S23: -0.0328 REMARK 3 S31: -0.1562 S32: -0.1266 S33: -0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND RESID 172:271 REMARK 3 ORIGIN FOR THE GROUP (A): 0.9929 3.1517 6.0763 REMARK 3 T TENSOR REMARK 3 T11: 0.6044 T22: 0.6623 REMARK 3 T33: 0.5647 T12: 0.0375 REMARK 3 T13: 0.0097 T23: 0.0156 REMARK 3 L TENSOR REMARK 3 L11: 0.2829 L22: 0.2037 REMARK 3 L33: 0.0852 L12: -0.2139 REMARK 3 L13: -0.2671 L23: -0.1771 REMARK 3 S TENSOR REMARK 3 S11: -0.0418 S12: 0.0178 S13: -0.0578 REMARK 3 S21: 0.0799 S22: 0.1079 S23: -0.0909 REMARK 3 S31: -0.1317 S32: -0.5265 S33: -0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN B AND RESID 93:121 REMARK 3 ORIGIN FOR THE GROUP (A): 6.3711 39.1551 34.7174 REMARK 3 T TENSOR REMARK 3 T11: 0.7198 T22: 0.6388 REMARK 3 T33: 0.7201 T12: 0.0154 REMARK 3 T13: -0.0233 T23: -0.0729 REMARK 3 L TENSOR REMARK 3 L11: 0.1172 L22: 0.0086 REMARK 3 L33: 0.0030 L12: -0.1088 REMARK 3 L13: 0.0730 L23: 0.0621 REMARK 3 S TENSOR REMARK 3 S11: -0.0978 S12: -0.0193 S13: -0.2297 REMARK 3 S21: 0.1776 S22: 0.1747 S23: 0.1302 REMARK 3 S31: -0.0816 S32: -0.3005 S33: -0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN B AND RESID 122:157 REMARK 3 ORIGIN FOR THE GROUP (A): 25.7916 32.3693 29.2875 REMARK 3 T TENSOR REMARK 3 T11: 0.5582 T22: 0.7485 REMARK 3 T33: 0.5974 T12: 0.0036 REMARK 3 T13: 0.0040 T23: -0.0298 REMARK 3 L TENSOR REMARK 3 L11: 0.0480 L22: -0.0294 REMARK 3 L33: 0.0332 L12: -0.0273 REMARK 3 L13: -0.0528 L23: 0.1033 REMARK 3 S TENSOR REMARK 3 S11: -0.1347 S12: -0.2366 S13: -0.1175 REMARK 3 S21: 0.0124 S22: 0.0343 S23: -0.0634 REMARK 3 S31: -0.0017 S32: 0.3463 S33: -0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN B AND RESID 158:170 REMARK 3 ORIGIN FOR THE GROUP (A): 24.4824 45.1083 34.4495 REMARK 3 T TENSOR REMARK 3 T11: 0.5692 T22: 0.8789 REMARK 3 T33: 0.4883 T12: -0.0600 REMARK 3 T13: 0.0860 T23: -0.0853 REMARK 3 L TENSOR REMARK 3 L11: -0.0217 L22: -0.0155 REMARK 3 L33: 0.0032 L12: 0.0093 REMARK 3 L13: -0.0127 L23: -0.0251 REMARK 3 S TENSOR REMARK 3 S11: -0.0495 S12: 0.2155 S13: 0.1111 REMARK 3 S21: 0.0548 S22: 0.1468 S23: 0.1113 REMARK 3 S31: 0.0155 S32: 0.0919 S33: 0.0000 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN B AND RESID 171:269 REMARK 3 ORIGIN FOR THE GROUP (A): 15.8859 34.5539 38.9655 REMARK 3 T TENSOR REMARK 3 T11: 0.6115 T22: 0.4999 REMARK 3 T33: 0.5943 T12: -0.0038 REMARK 3 T13: 0.0122 T23: -0.0288 REMARK 3 L TENSOR REMARK 3 L11: 0.2756 L22: 0.1402 REMARK 3 L33: 0.0138 L12: 0.0173 REMARK 3 L13: -0.0749 L23: 0.0546 REMARK 3 S TENSOR REMARK 3 S11: -0.0263 S12: -0.0709 S13: -0.0939 REMARK 3 S21: 0.0804 S22: 0.0089 S23: 0.0108 REMARK 3 S31: -0.0209 S32: 0.2604 S33: -0.0000 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN A AND (RESSEQ 93:269 ) REMARK 3 SELECTION : CHAIN B AND (RESSEQ 93:269 ) REMARK 3 ATOM PAIRS NUMBER : 1408 REMARK 3 RMSD : 0.022 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3LES COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-JAN-10. REMARK 100 THE DEPOSITION ID IS D_1000057188. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-NOV-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : SI (220) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9968 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.770 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 4.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 200 DATA REDUNDANCY : 1.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06200 REMARK 200 FOR THE DATA SET : 15.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.77 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.87 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.4 REMARK 200 DATA REDUNDANCY IN SHELL : 1.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.41100 REMARK 200 FOR SHELL : 1.490 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1KU2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23% PEG 4000, 0.12 M (NH4)2SO4, 0.02 M REMARK 280 ATP, VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 ALA B 270 REMARK 465 ARG B 271 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 ASP A 94 115.39 -33.50 REMARK 500 LYS A 111 -72.44 -48.32 REMARK 500 ALA A 134 -77.74 -96.08 REMARK 500 LYS A 165 87.43 63.23 REMARK 500 LEU A 178 -67.80 -102.51 REMARK 500 LYS A 179 14.76 -62.93 REMARK 500 PRO A 182 161.64 -48.36 REMARK 500 ARG A 259 -75.32 -56.34 REMARK 500 ASP A 268 30.39 -99.37 REMARK 500 GLN A 269 -7.06 -146.03 REMARK 500 ALA A 270 -74.33 -138.75 REMARK 500 ASP B 94 115.94 -34.71 REMARK 500 LYS B 111 -73.48 -49.79 REMARK 500 ALA B 134 -77.88 -96.33 REMARK 500 LYS B 165 87.55 63.03 REMARK 500 LEU B 178 -67.88 -102.43 REMARK 500 LYS B 179 14.82 -62.35 REMARK 500 PRO B 182 162.21 -48.46 REMARK 500 ARG B 259 -74.81 -57.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LEV RELATED DB: PDB REMARK 900 HIV-1 ANTIBODY 2F5 IN COMPLEX WITH EPITOPE SCAFFOLD ES2 REMARK 900 RELATED ID: 3LEX RELATED DB: PDB REMARK 900 2F5 EPITOPE SCAFFOLD ELICITED ANTI-HIV-1 MONOCLONAL ANTIBODY 11F10 REMARK 900 IN COMPLEX WITH HIV-1 GP41 REMARK 900 RELATED ID: 3LEY RELATED DB: PDB REMARK 900 2F5 EPITOPE SCAFFOLD ELICITED ANTI-HIV-1 MONOCLONAL ANTIBODY 6A7 IN REMARK 900 COMPLEX WITH HIV-1 GP41 REMARK 900 RELATED ID: 1TJI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE BROADLY NEUTRALIZING ANTI-HIV-1 ANTIBODY REMARK 900 2F5 IN COMPLEX WITH A GP41 17MER DBREF 3LES A 93 271 UNP Q9EZJ8 Q9EZJ8_THEAQ 93 271 DBREF 3LES B 93 271 UNP Q9EZJ8 Q9EZJ8_THEAQ 93 271 SEQADV 3LES GLU A 105 UNP Q9EZJ8 GLN 105 ENGINEERED MUTATION SEQADV 3LES LEU A 107 UNP Q9EZJ8 PRO 107 ENGINEERED MUTATION SEQADV 3LES GLU A 108 UNP Q9EZJ8 LEU 108 ENGINEERED MUTATION SEQADV 3LES ASP A 110 UNP Q9EZJ8 THR 110 ENGINEERED MUTATION SEQADV 3LES LYS A 111 UNP Q9EZJ8 LEU 111 ENGINEERED MUTATION SEQADV 3LES TRP A 112 UNP Q9EZJ8 GLU 112 ENGINEERED MUTATION SEQADV 3LES ALA A 113 UNP Q9EZJ8 GLU 113 ENGINEERED MUTATION SEQADV 3LES LEU A 115 UNP Q9EZJ8 ILE 115 ENGINEERED MUTATION SEQADV 3LES GLY A 116 UNP Q9EZJ8 ASP 116 ENGINEERED MUTATION SEQADV 3LES ALA A 117 UNP Q9EZJ8 LEU 117 ENGINEERED MUTATION SEQADV 3LES ALA A 119 UNP Q9EZJ8 ARG 119 ENGINEERED MUTATION SEQADV 3LES ALA A 155 UNP Q9EZJ8 ARG 155 ENGINEERED MUTATION SEQADV 3LES GLY A 247 UNP Q9EZJ8 ARG 247 ENGINEERED MUTATION SEQADV 3LES ALA A 249 UNP Q9EZJ8 LYS 249 ENGINEERED MUTATION SEQADV 3LES GLU B 105 UNP Q9EZJ8 GLN 105 ENGINEERED MUTATION SEQADV 3LES LEU B 107 UNP Q9EZJ8 PRO 107 ENGINEERED MUTATION SEQADV 3LES GLU B 108 UNP Q9EZJ8 LEU 108 ENGINEERED MUTATION SEQADV 3LES ASP B 110 UNP Q9EZJ8 THR 110 ENGINEERED MUTATION SEQADV 3LES LYS B 111 UNP Q9EZJ8 LEU 111 ENGINEERED MUTATION SEQADV 3LES TRP B 112 UNP Q9EZJ8 GLU 112 ENGINEERED MUTATION SEQADV 3LES ALA B 113 UNP Q9EZJ8 GLU 113 ENGINEERED MUTATION SEQADV 3LES LEU B 115 UNP Q9EZJ8 ILE 115 ENGINEERED MUTATION SEQADV 3LES GLY B 116 UNP Q9EZJ8 ASP 116 ENGINEERED MUTATION SEQADV 3LES ALA B 117 UNP Q9EZJ8 LEU 117 ENGINEERED MUTATION SEQADV 3LES ALA B 119 UNP Q9EZJ8 ARG 119 ENGINEERED MUTATION SEQADV 3LES ALA B 155 UNP Q9EZJ8 ARG 155 ENGINEERED MUTATION SEQADV 3LES GLY B 247 UNP Q9EZJ8 ARG 247 ENGINEERED MUTATION SEQADV 3LES ALA B 249 UNP Q9EZJ8 LYS 249 ENGINEERED MUTATION SEQRES 1 A 179 SER ASP PRO VAL ARG GLN TYR LEU HIS GLU ILE GLY GLU SEQRES 2 A 179 VAL LEU GLU LEU ASP LYS TRP ALA GLU LEU GLY ALA ALA SEQRES 3 A 179 ALA LYS VAL GLU GLU GLY MET GLU ALA ILE LYS LYS LEU SEQRES 4 A 179 SER GLU ALA THR GLY LEU ASP GLN GLU LEU ILE ARG GLU SEQRES 5 A 179 VAL VAL ARG ALA LYS ILE LEU GLY THR ALA ALA ILE GLN SEQRES 6 A 179 LYS ILE PRO GLY LEU LYS GLU LYS PRO ASP PRO LYS THR SEQRES 7 A 179 VAL GLU GLU VAL ASP GLY LYS LEU LYS SER LEU PRO LYS SEQRES 8 A 179 GLU LEU LYS ARG TYR LEU HIS ILE ALA ARG GLU GLY GLU SEQRES 9 A 179 ALA ALA ARG GLN HIS LEU ILE GLU ALA ASN LEU ARG LEU SEQRES 10 A 179 VAL VAL SER ILE ALA LYS LYS TYR THR GLY ARG GLY LEU SEQRES 11 A 179 SER PHE LEU ASP LEU ILE GLN GLU GLY ASN GLN GLY LEU SEQRES 12 A 179 ILE ARG ALA VAL GLU LYS PHE GLU TYR LYS ARG GLY PHE SEQRES 13 A 179 ALA PHE SER THR TYR ALA THR TRP TRP ILE ARG GLN ALA SEQRES 14 A 179 ILE ASN ARG ALA ILE ALA ASP GLN ALA ARG SEQRES 1 B 179 SER ASP PRO VAL ARG GLN TYR LEU HIS GLU ILE GLY GLU SEQRES 2 B 179 VAL LEU GLU LEU ASP LYS TRP ALA GLU LEU GLY ALA ALA SEQRES 3 B 179 ALA LYS VAL GLU GLU GLY MET GLU ALA ILE LYS LYS LEU SEQRES 4 B 179 SER GLU ALA THR GLY LEU ASP GLN GLU LEU ILE ARG GLU SEQRES 5 B 179 VAL VAL ARG ALA LYS ILE LEU GLY THR ALA ALA ILE GLN SEQRES 6 B 179 LYS ILE PRO GLY LEU LYS GLU LYS PRO ASP PRO LYS THR SEQRES 7 B 179 VAL GLU GLU VAL ASP GLY LYS LEU LYS SER LEU PRO LYS SEQRES 8 B 179 GLU LEU LYS ARG TYR LEU HIS ILE ALA ARG GLU GLY GLU SEQRES 9 B 179 ALA ALA ARG GLN HIS LEU ILE GLU ALA ASN LEU ARG LEU SEQRES 10 B 179 VAL VAL SER ILE ALA LYS LYS TYR THR GLY ARG GLY LEU SEQRES 11 B 179 SER PHE LEU ASP LEU ILE GLN GLU GLY ASN GLN GLY LEU SEQRES 12 B 179 ILE ARG ALA VAL GLU LYS PHE GLU TYR LYS ARG GLY PHE SEQRES 13 B 179 ALA PHE SER THR TYR ALA THR TRP TRP ILE ARG GLN ALA SEQRES 14 B 179 ILE ASN ARG ALA ILE ALA ASP GLN ALA ARG HET SO4 A 1 5 HET SO4 A 2 5 HET SO4 A 3 5 HET SO4 B 4 5 HETNAM SO4 SULFATE ION FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 HOH *28(H2 O) HELIX 1 1 ASP A 94 GLU A 105 1 12 HELIX 2 2 ASP A 110 GLY A 136 1 27 HELIX 3 3 ASP A 138 GLY A 152 1 15 HELIX 4 4 ASP A 167 LYS A 179 1 13 HELIX 5 5 LYS A 183 LEU A 185 5 3 HELIX 6 6 LYS A 186 ASN A 206 1 21 HELIX 7 7 LEU A 207 LYS A 215 1 9 HELIX 8 8 SER A 223 PHE A 242 1 20 HELIX 9 9 ALA A 249 ILE A 266 1 18 HELIX 10 10 ASP B 94 GLU B 105 1 12 HELIX 11 11 ASP B 110 GLY B 136 1 27 HELIX 12 12 ASP B 138 GLY B 152 1 15 HELIX 13 13 ASP B 167 LYS B 179 1 13 HELIX 14 14 LYS B 183 LEU B 185 5 3 HELIX 15 15 LYS B 186 ASN B 206 1 21 HELIX 16 16 ASN B 206 LYS B 215 1 10 HELIX 17 17 SER B 223 PHE B 242 1 20 HELIX 18 18 ALA B 249 ILE B 266 1 18 SITE 1 AC1 1 ARG A 237 SITE 1 AC2 7 HOH A 9 THR A 153 ALA A 154 ALA A 155 SITE 2 AC2 7 HIS A 201 GLU A 204 SER B 223 SITE 1 AC3 6 HOH A 17 LYS A 158 PRO A 160 GLY A 161 SITE 2 AC3 6 LEU A 162 GLN A 229 SITE 1 AC4 7 SER A 223 HOH B 2 THR B 153 ALA B 154 SITE 2 AC4 7 ALA B 155 HIS B 201 GLU B 204 CRYST1 37.257 49.987 57.567 78.03 89.83 87.57 P 1 2 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 0.026841 -0.001139 0.000160 0.00000 SCALE2 0.000000 0.020023 -0.004246 0.00000 SCALE3 0.000000 0.000000 0.017757 0.00000 MASTER 386 0 4 18 0 0 7 6 0 0 0 28 END