HEADER IMMUNE SYSTEM 16-FEB-12 4DQO TITLE CRYSTAL STRUCTURE OF PG16 FAB IN COMPLEX WITH V1V2 REGION FROM HIV-1 TITLE 2 STRAIN ZM109 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PG16 FAB HEAVY CHAIN; COMPND 3 CHAIN: H; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: PG16 FAB LIGHT CHAIN; COMPND 7 CHAIN: L; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: 1FD6-V1V2 SCAFFOLD ZM109 HIV-1 STRAIN; COMPND 11 CHAIN: C; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293F GNTI-; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PVRC8400; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 16 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 18 EXPRESSION_SYSTEM_CELL_LINE: HEK293F GNTI-; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PVRC8400; SOURCE 21 MOL_ID: 3; SOURCE 22 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 23 ORGANISM_TAXID: 11676; SOURCE 24 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 25 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 26 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 27 EXPRESSION_SYSTEM_CELL_LINE: HEK293F GNTI-; SOURCE 28 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 29 EXPRESSION_SYSTEM_PLASMID: PVRC8400 KEYWDS IMMUNOGLOBULIN, IMMUNE RECOGNITION, IMMUNE SYSTEM, GLYCAN, HIV-1, KEYWDS 2 V1V2, ENVELOPE GLYCOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.PANCERA,J.S.MCLELLAN,P.D.KWONG REVDAT 9 06-DEC-23 4DQO 1 REMARK REVDAT 8 13-SEP-23 4DQO 1 REMARK REVDAT 7 19-MAY-21 4DQO 1 SOURCE HETSYN LINK REVDAT 6 29-JUL-20 4DQO 1 COMPND REMARK HETNAM LINK REVDAT 6 2 1 SITE ATOM REVDAT 5 25-DEC-19 4DQO 1 SEQRES LINK REVDAT 4 24-JUL-13 4DQO 1 JRNL REVDAT 3 05-JUN-13 4DQO 1 JRNL REVDAT 2 08-MAY-13 4DQO 1 HETATM REMARK SITE REVDAT 1 06-MAR-13 4DQO 0 JRNL AUTH M.PANCERA,S.SHAHZAD-UL-HUSSAN,N.A.DORIA-ROSE,J.S.MCLELLAN, JRNL AUTH 2 R.T.BAILER,K.DAI,S.LOESGEN,M.K.LOUDER,R.P.STAUPE,Y.YANG, JRNL AUTH 3 B.ZHANG,R.PARKS,J.EUDAILEY,K.E.LLOYD,J.BLINN,S.M.ALAM, JRNL AUTH 4 B.F.HAYNES,M.N.AMIN,L.X.WANG,D.R.BURTON,W.C.KOFF,G.J.NABEL, JRNL AUTH 5 J.R.MASCOLA,C.A.BEWLEY,P.D.KWONG JRNL TITL STRUCTURAL BASIS FOR DIVERSE N-GLYCAN RECOGNITION BY JRNL TITL 2 HIV-1-NEUTRALIZING V1-V2-DIRECTED ANTIBODY PG16. JRNL REF NAT.STRUCT.MOL.BIOL. V. 20 804 2013 JRNL REFN ISSN 1545-9993 JRNL PMID 23708607 JRNL DOI 10.1038/NSMB.2600 REMARK 2 REMARK 2 RESOLUTION. 2.44 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.2_869) 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) : 2.44 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.11 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.3 REMARK 3 NUMBER OF REFLECTIONS : 25294 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 1271 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 45.1195 - 5.0696 0.99 3089 149 0.1858 0.1983 REMARK 3 2 5.0696 - 4.0247 1.00 2992 159 0.1464 0.1696 REMARK 3 3 4.0247 - 3.5162 1.00 2942 166 0.1876 0.2150 REMARK 3 4 3.5162 - 3.1948 0.99 2914 158 0.2186 0.2705 REMARK 3 5 3.1948 - 2.9659 0.99 2920 137 0.2316 0.2787 REMARK 3 6 2.9659 - 2.7910 0.96 2796 157 0.2388 0.2815 REMARK 3 7 2.7910 - 2.6513 0.85 2469 132 0.2648 0.2780 REMARK 3 8 2.6513 - 2.5359 0.73 2123 117 0.2787 0.3158 REMARK 3 9 2.5359 - 2.4383 0.61 1778 96 0.3068 0.3251 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.86 REMARK 3 K_SOL : 0.30 REMARK 3 B_SOL : 37.99 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.790 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.450 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 12.86640 REMARK 3 B22 (A**2) : -7.06690 REMARK 3 B33 (A**2) : -5.79950 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.002 4457 REMARK 3 ANGLE : 0.723 6079 REMARK 3 CHIRALITY : 0.042 731 REMARK 3 PLANARITY : 0.003 737 REMARK 3 DIHEDRAL : 24.334 1656 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN L AND RESID 1:110 REMARK 3 ORIGIN FOR THE GROUP (A): 23.9581 -61.9694 17.6696 REMARK 3 T TENSOR REMARK 3 T11: 0.2391 T22: 0.2211 REMARK 3 T33: 0.1154 T12: -0.0178 REMARK 3 T13: 0.0059 T23: 0.0460 REMARK 3 L TENSOR REMARK 3 L11: 2.1530 L22: 3.9949 REMARK 3 L33: 4.6894 L12: 0.8354 REMARK 3 L13: 0.7286 L23: 2.4022 REMARK 3 S TENSOR REMARK 3 S11: -0.0390 S12: -0.0789 S13: -0.0206 REMARK 3 S21: -0.0551 S22: 0.1204 S23: -0.0675 REMARK 3 S31: 0.2249 S32: -0.0201 S33: -0.0911 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN L AND RESID 111:210 REMARK 3 ORIGIN FOR THE GROUP (A): 18.7476 -30.6259 11.3860 REMARK 3 T TENSOR REMARK 3 T11: 0.2909 T22: 0.3710 REMARK 3 T33: 0.3451 T12: 0.0108 REMARK 3 T13: 0.0090 T23: 0.0798 REMARK 3 L TENSOR REMARK 3 L11: 2.2388 L22: 4.6076 REMARK 3 L33: 4.4944 L12: -0.2472 REMARK 3 L13: -0.1616 L23: -1.4300 REMARK 3 S TENSOR REMARK 3 S11: -0.0635 S12: 0.3146 S13: 0.4274 REMARK 3 S21: -0.1138 S22: 0.2017 S23: 0.5816 REMARK 3 S31: -0.5804 S32: -0.4884 S33: -0.0873 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN H AND RESID 1:137 REMARK 3 ORIGIN FOR THE GROUP (A): 27.4110 -67.3476 -1.7159 REMARK 3 T TENSOR REMARK 3 T11: 0.3159 T22: 0.2781 REMARK 3 T33: 0.1626 T12: 0.0531 REMARK 3 T13: -0.0341 T23: -0.0442 REMARK 3 L TENSOR REMARK 3 L11: 1.7023 L22: 4.6523 REMARK 3 L33: 3.6093 L12: -0.1919 REMARK 3 L13: 0.4192 L23: -1.6794 REMARK 3 S TENSOR REMARK 3 S11: 0.0476 S12: 0.1126 S13: -0.2231 REMARK 3 S21: -0.0246 S22: -0.0028 S23: -0.2126 REMARK 3 S31: 0.5053 S32: 0.2540 S33: -0.0022 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN H AND RESID 138:216 REMARK 3 ORIGIN FOR THE GROUP (A): 31.4571 -26.3923 3.0097 REMARK 3 T TENSOR REMARK 3 T11: 0.4619 T22: 0.3196 REMARK 3 T33: 0.3465 T12: -0.1082 REMARK 3 T13: -0.0028 T23: 0.1381 REMARK 3 L TENSOR REMARK 3 L11: 2.9063 L22: 4.5756 REMARK 3 L33: 6.6350 L12: 0.3294 REMARK 3 L13: 0.4911 L23: 1.2057 REMARK 3 S TENSOR REMARK 3 S11: 0.0258 S12: 0.2584 S13: 0.5511 REMARK 3 S21: -0.0087 S22: 0.3111 S23: -0.0159 REMARK 3 S31: -0.2638 S32: -0.1865 S33: -0.2664 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN C AND RESID 119:317 REMARK 3 ORIGIN FOR THE GROUP (A): 19.9505 -99.4911 8.2109 REMARK 3 T TENSOR REMARK 3 T11: 1.0421 T22: 0.4262 REMARK 3 T33: 0.8179 T12: -0.0036 REMARK 3 T13: 0.0584 T23: 0.0360 REMARK 3 L TENSOR REMARK 3 L11: 0.6398 L22: 2.7970 REMARK 3 L33: 1.1041 L12: 0.7527 REMARK 3 L13: -0.7821 L23: -0.3721 REMARK 3 S TENSOR REMARK 3 S11: -0.0710 S12: -0.3434 S13: -0.7242 REMARK 3 S21: 0.4021 S22: 0.0472 S23: 0.2110 REMARK 3 S31: 0.6252 S32: 0.1205 S33: -0.0837 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4DQO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1000070662. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-11 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 7.5 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) : 1.00 REMARK 200 MONOCHROMATOR : SI220 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25408 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.430 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.0 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.17400 REMARK 200 R SYM (I) : 0.18100 REMARK 200 FOR THE DATA SET : 8.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.43 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.52 REMARK 200 COMPLETENESS FOR SHELL (%) : 61.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.400 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: 3MUG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% ISOPROPANOL, 15% PEG 3550, 0.2M REMARK 280 AMMONIUM CITRATE, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.80850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.80850 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 40.52700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 103.78050 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 40.52700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 103.78050 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 43.80850 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 40.52700 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 103.78050 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 43.80850 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 40.52700 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 103.78050 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 39.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, L, C, 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 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 GLY H 217 REMARK 465 LEU H 218 REMARK 465 GLU H 219 REMARK 465 VAL H 220 REMARK 465 LEU H 221 REMARK 465 PHE H 222 REMARK 465 CYS L 211 REMARK 465 SER L 212 REMARK 465 MET C 118 REMARK 465 SER C 143 REMARK 465 PRO C 144 REMARK 465 ALA C 145 REMARK 465 ALA C 146 REMARK 465 HIS C 147 REMARK 465 ALA C 148 REMARK 465 GLU C 149 REMARK 465 SER C 150 REMARK 465 GLU C 151 REMARK 465 THR C 152 REMARK 465 ASP C 178 REMARK 465 LEU C 178A REMARK 465 ASP C 178B REMARK 465 ILE C 178C REMARK 465 VAL C 178D REMARK 465 PRO C 178E REMARK 465 LEU C 178F REMARK 465 SER C 178G REMARK 465 SER C 178H REMARK 465 SER C 178I REMARK 465 ASP C 178J REMARK 465 ALA C 178K REMARK 465 SER C 178L REMARK 465 SER C 178M REMARK 465 ALA C 178N REMARK 465 SER C 178O REMARK 465 SER C 178P REMARK 465 GLU C 239 REMARK 465 GLY C 240 REMARK 465 LEU C 241 REMARK 465 GLU C 242 REMARK 465 VAL C 243 REMARK 465 LEU C 244 REMARK 465 PHE C 245 REMARK 465 GLN C 246 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 HH TYR H 79 O HOH H 349 1.52 REMARK 500 OG SER H 130 O SER H 132 1.99 REMARK 500 O TRP H 103 O HOH H 331 2.08 REMARK 500 O ARG C 153 O HOH C 414 2.10 REMARK 500 O LEU H 189 O HOH H 348 2.11 REMARK 500 OH TYR H 79 O HOH H 349 2.13 REMARK 500 O2 MAN A 7 O HOH C 411 2.17 REMARK 500 OE2 GLU L 160 O HOH L 373 2.17 REMARK 500 N THR C 119 O ALA C 203 2.19 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 H 336 O HOH L 342 6544 1.79 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 LEU H 18 141.67 -170.07 REMARK 500 ASP H 100C -134.58 68.05 REMARK 500 LYS H 129 -77.76 -98.29 REMARK 500 ASP H 144 71.59 63.15 REMARK 500 SER H 215 -80.41 -67.81 REMARK 500 ASP L 27B -91.87 -138.44 REMARK 500 ASP L 31 51.14 -95.09 REMARK 500 VAL L 51 -57.56 75.41 REMARK 500 ASP L 151 -118.00 60.04 REMARK 500 PRO L 208 98.38 -61.56 REMARK 500 CYS C 131 -159.82 -133.70 REMARK 500 ASP C 164 -35.11 109.14 REMARK 500 ALA C 203 -152.87 -144.62 REMARK 500 ALA C 207 -62.60 -99.93 REMARK 500 ASP C 219 6.08 -68.80 REMARK 500 ASP C 223 -157.59 -167.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3MME RELATED DB: PDB REMARK 900 RELATED ID: 3MUG RELATED DB: PDB REMARK 900 RELATED ID: 3U2S RELATED DB: PDB DBREF 4DQO H 1 222 PDB 4DQO 4DQO 1 222 DBREF 4DQO L 1 212 PDB 4DQO 4DQO 1 212 DBREF 4DQO C 118 246 PDB 4DQO 4DQO 118 246 SEQRES 1 H 246 PCA GLU GLN LEU VAL GLU SER GLY GLY GLY VAL VAL GLN SEQRES 2 H 246 PRO GLY GLY SER LEU ARG LEU SER CYS LEU ALA SER GLY SEQRES 3 H 246 PHE THR PHE HIS LYS TYR GLY MET HIS TRP VAL ARG GLN SEQRES 4 H 246 ALA PRO GLY LYS GLY LEU GLU TRP VAL ALA LEU ILE SER SEQRES 5 H 246 ASP ASP GLY MET ARG LYS TYR HIS SER ASP SER MET TRP SEQRES 6 H 246 GLY ARG VAL THR ILE SER ARG ASP ASN SER LYS ASN THR SEQRES 7 H 246 LEU TYR LEU GLN PHE SER SER LEU LYS VAL GLU ASP THR SEQRES 8 H 246 ALA MET PHE PHE CYS ALA ARG GLU ALA GLY GLY PRO ILE SEQRES 9 H 246 TRP HIS ASP ASP VAL LYS TYR TYS ASP PHE ASN ASP GLY SEQRES 10 H 246 TYR TYR ASN TYR HIS TYR MET ASP VAL TRP GLY LYS GLY SEQRES 11 H 246 THR THR VAL THR VAL SER SER ALA SER THR LYS GLY PRO SEQRES 12 H 246 SER VAL PHE PRO LEU ALA PRO SER SER LYS SER THR SER SEQRES 13 H 246 GLY GLY THR ALA ALA LEU GLY CYS LEU VAL LYS ASP TYR SEQRES 14 H 246 PHE PRO GLU PRO VAL THR VAL SER TRP ASN SER GLY ALA SEQRES 15 H 246 LEU THR SER GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SEQRES 16 H 246 SER SER GLY LEU TYR SER LEU SER SER VAL VAL THR VAL SEQRES 17 H 246 PRO SER SER SER LEU GLY THR GLN THR TYR ILE CYS ASN SEQRES 18 H 246 VAL ASN HIS LYS PRO SER ASN THR LYS VAL ASP LYS ARG SEQRES 19 H 246 VAL GLU PRO LYS SER CYS GLY LEU GLU VAL LEU PHE SEQRES 1 L 216 GLN SER ALA LEU THR GLN PRO ALA SER VAL SER GLY SER SEQRES 2 L 216 PRO GLY GLN THR ILE THR ILE SER CYS GLN GLY THR SER SEQRES 3 L 216 SER ASP VAL GLY GLY PHE ASP SER VAL SER TRP TYR GLN SEQRES 4 L 216 GLN SER PRO GLY LYS ALA PRO LYS VAL MET VAL PHE ASP SEQRES 5 L 216 VAL SER HIS ARG PRO SER GLY ILE SER ASN ARG PHE SER SEQRES 6 L 216 GLY SER LYS SER GLY ASN THR ALA SER LEU THR ILE SER SEQRES 7 L 216 GLY LEU HIS ILE GLU ASP GLU GLY ASP TYR PHE CYS SER SEQRES 8 L 216 SER LEU THR ASP ARG SER HIS ARG ILE PHE GLY GLY GLY SEQRES 9 L 216 THR LYS VAL THR VAL LEU GLY GLN PRO LYS ALA ALA PRO SEQRES 10 L 216 SER VAL THR LEU PHE PRO PRO SER SER GLU GLU LEU GLN SEQRES 11 L 216 ALA ASN LYS ALA THR LEU VAL CYS LEU ILE SER ASP PHE SEQRES 12 L 216 TYR PRO GLY ALA VAL THR VAL ALA TRP LYS ALA ASP SER SEQRES 13 L 216 SER PRO VAL LYS ALA GLY VAL GLU THR THR THR PRO SER SEQRES 14 L 216 LYS GLN SER ASN ASN LYS TYR ALA ALA SER SER TYR LEU SEQRES 15 L 216 SER LEU THR PRO GLU GLN TRP LYS SER HIS LYS SER TYR SEQRES 16 L 216 SER CYS GLN VAL THR HIS GLU GLY SER THR VAL GLU LYS SEQRES 17 L 216 THR VAL ALA PRO THR GLU CYS SER SEQRES 1 C 124 MET THR THR PHE LYS LEU ALA ALA CYS VAL THR LEU ALA SEQRES 2 C 124 CYS THR SER PRO ALA ALA HIS ALA GLU SER GLU THR ARG SEQRES 3 C 124 VAL LYS HIS CYS SER PHE ASN ILE THR THR ASP VAL LYS SEQRES 4 C 124 ASP ARG LYS GLN LYS VAL ASN ALA THR PHE TYR ASP LEU SEQRES 5 C 124 ASP ILE VAL PRO LEU SER SER SER ASP ALA SER SER ALA SEQRES 6 C 124 SER SER LEU TYR ARG LEU ILE SER CYS GLN THR THR THR SEQRES 7 C 124 THR GLU ALA VAL ASP ALA ALA THR ALA ALA LYS VAL PHE SEQRES 8 C 124 LYS GLN TYR ALA ASN ASP ASN GLY ILE ASP GLY GLU TRP SEQRES 9 C 124 THR TYR ASP ASP ALA THR LYS THR PHE THR VAL THR GLU SEQRES 10 C 124 GLY LEU GLU VAL LEU PHE GLN MODRES 4DQO ASN C 160 ASN GLYCOSYLATION SITE MODRES 4DQO ASN C 173 ASN GLYCOSYLATION SITE MODRES 4DQO PCA H 1 GLN PYROGLUTAMIC ACID MODRES 4DQO TYS H 100H TYR O-SULFO-L-TYROSINE HET PCA H 1 13 HET TYS H 100H 23 HET NAG A 1 26 HET NAG A 2 26 HET BMA A 3 19 HET MAN A 4 19 HET MAN A 5 21 HET MAN A 6 21 HET MAN A 7 21 HET NAG B 1 26 HET NAG B 2 26 HET BMA B 3 19 HET MAN B 4 20 HET NAG B 5 26 HET GAL B 6 20 HET SIA B 7 37 HET MAN B 8 19 HET MAN B 9 21 HET MAN B 10 21 HETNAM PCA PYROGLUTAMIC ACID HETNAM TYS O-SULFO-L-TYROSINE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM SIA N-ACETYL-ALPHA-NEURAMINIC ACID HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE HETSYN SIA N-ACETYLNEURAMINIC ACID; SIALIC ACID; ALPHA-SIALIC HETSYN 2 SIA ACID; O-SIALIC ACID FORMUL 1 PCA C5 H7 N O3 FORMUL 1 TYS C9 H11 N O6 S FORMUL 4 NAG 5(C8 H15 N O6) FORMUL 4 BMA 2(C6 H12 O6) FORMUL 4 MAN 8(C6 H12 O6) FORMUL 5 GAL C6 H12 O6 FORMUL 5 SIA C11 H19 N O9 FORMUL 6 HOH *148(H2 O) HELIX 1 1 THR H 28 TYR H 32 5 5 HELIX 2 2 ASN H 73 LYS H 75 5 3 HELIX 3 3 LYS H 83 THR H 87 5 5 HELIX 4 4 ASP H 100I GLY H 100M 5 5 HELIX 5 5 SER H 156 ALA H 158 5 3 HELIX 6 6 SER H 187 LEU H 189 5 3 HELIX 7 7 LYS H 201 ASN H 204 5 4 HELIX 8 8 HIS L 79 GLU L 83 5 5 HELIX 9 9 SER L 121 ALA L 127 1 7 HELIX 10 10 THR L 181 LYS L 186 1 6 HELIX 11 11 ALA C 207 GLN C 215 1 9 SHEET 1 A 4 GLN H 3 SER H 7 0 SHEET 2 A 4 LEU H 18 SER H 25 -1 O LEU H 23 N VAL H 5 SHEET 3 A 4 THR H 77 PHE H 82 -1 O PHE H 82 N LEU H 18 SHEET 4 A 4 VAL H 67 ASP H 72 -1 N SER H 70 O TYR H 79 SHEET 1 B 6 VAL H 11 VAL H 12 0 SHEET 2 B 6 THR H 107 VAL H 111 1 O THR H 110 N VAL H 12 SHEET 3 B 6 ALA H 88 GLY H 98 -1 N PHE H 90 O THR H 107 SHEET 4 B 6 MET H 34 GLN H 39 -1 N VAL H 37 O PHE H 91 SHEET 5 B 6 LEU H 45 ILE H 51 -1 O GLU H 46 N ARG H 38 SHEET 6 B 6 LYS H 57 HIS H 59 -1 O TYR H 58 N LEU H 50 SHEET 1 C 4 VAL H 11 VAL H 12 0 SHEET 2 C 4 THR H 107 VAL H 111 1 O THR H 110 N VAL H 12 SHEET 3 C 4 ALA H 88 GLY H 98 -1 N PHE H 90 O THR H 107 SHEET 4 C 4 TYR H 100O TRP H 103 -1 O TYR H 100O N GLY H 98 SHEET 1 D 4 ILE H 100 HIS H 100B 0 SHEET 2 D 4 VAL H 100E TYS H 100H-1 O TYR H 100G N ILE H 100 SHEET 3 D 4 ARG C 168 THR C 175 1 O LYS C 169 N LYS H 100F SHEET 4 D 4 HIS C 156 THR C 162 -1 N CYS C 157 O ALA C 174 SHEET 1 E 4 SER H 120 SER H 128 0 SHEET 2 E 4 THR H 135 TYR H 145 -1 O LEU H 141 N PHE H 122 SHEET 3 E 4 TYR H 176 PRO H 185 -1 O VAL H 184 N ALA H 136 SHEET 4 E 4 VAL H 163 THR H 165 -1 N HIS H 164 O VAL H 181 SHEET 1 F 4 SER H 120 SER H 128 0 SHEET 2 F 4 THR H 135 TYR H 145 -1 O LEU H 141 N PHE H 122 SHEET 3 F 4 TYR H 176 PRO H 185 -1 O VAL H 184 N ALA H 136 SHEET 4 F 4 VAL H 169 LEU H 170 -1 N VAL H 169 O SER H 177 SHEET 1 G 3 THR H 151 TRP H 154 0 SHEET 2 G 3 ILE H 195 HIS H 200 -1 O ASN H 197 N SER H 153 SHEET 3 G 3 THR H 205 ARG H 210 -1 O VAL H 207 N VAL H 198 SHEET 1 H 5 SER L 9 GLY L 13 0 SHEET 2 H 5 THR L 102 VAL L 106 1 O LYS L 103 N VAL L 11 SHEET 3 H 5 GLY L 84 LEU L 91 -1 N GLY L 84 O VAL L 104 SHEET 4 H 5 VAL L 33 GLN L 38 -1 N GLN L 38 O ASP L 85 SHEET 5 H 5 LYS L 45 VAL L 48 -1 O VAL L 48 N TRP L 35 SHEET 1 I 4 SER L 9 GLY L 13 0 SHEET 2 I 4 THR L 102 VAL L 106 1 O LYS L 103 N VAL L 11 SHEET 3 I 4 GLY L 84 LEU L 91 -1 N GLY L 84 O VAL L 104 SHEET 4 I 4 ARG L 96 PHE L 98 -1 O ILE L 97 N SER L 90 SHEET 1 J 3 THR L 18 GLN L 24 0 SHEET 2 J 3 THR L 70 SER L 76 -1 O ALA L 71 N CYS L 23 SHEET 3 J 3 PHE L 62 SER L 67 -1 N SER L 63 O THR L 74 SHEET 1 K 4 SER L 114 PHE L 118 0 SHEET 2 K 4 ALA L 130 PHE L 139 -1 O VAL L 133 N PHE L 118 SHEET 3 K 4 TYR L 172 LEU L 180 -1 O ALA L 174 N ILE L 136 SHEET 4 K 4 VAL L 159 THR L 161 -1 N GLU L 160 O TYR L 177 SHEET 1 L 4 SER L 114 PHE L 118 0 SHEET 2 L 4 ALA L 130 PHE L 139 -1 O VAL L 133 N PHE L 118 SHEET 3 L 4 TYR L 172 LEU L 180 -1 O ALA L 174 N ILE L 136 SHEET 4 L 4 SER L 165 LYS L 166 -1 N SER L 165 O ALA L 173 SHEET 1 M 4 SER L 153 VAL L 155 0 SHEET 2 M 4 THR L 145 ALA L 150 -1 N ALA L 150 O SER L 153 SHEET 3 M 4 TYR L 191 HIS L 197 -1 O GLN L 194 N ALA L 147 SHEET 4 M 4 SER L 200 VAL L 206 -1 O SER L 200 N HIS L 197 SHEET 1 N 4 ARG C 192 THR C 199 0 SHEET 2 N 4 LYS C 122 ALA C 130 -1 N ALA C 125 O GLN C 197 SHEET 3 N 4 THR C 234 THR C 238 1 O PHE C 235 N ALA C 124 SHEET 4 N 4 GLU C 225 ASP C 229 -1 N ASP C 229 O THR C 234 SSBOND 1 CYS H 22 CYS H 92 1555 1555 2.04 SSBOND 2 CYS H 140 CYS H 196 1555 1555 2.03 SSBOND 3 CYS L 23 CYS L 88 1555 1555 2.04 SSBOND 4 CYS L 134 CYS L 193 1555 1555 2.04 SSBOND 5 CYS C 126 CYS C 196 1555 1555 2.03 SSBOND 6 CYS C 131 CYS C 157 1555 1555 2.03 LINK C PCA H 1 N GLU H 2 1555 1555 1.33 LINK C TYS H 100H N ASP H 100I 1555 1555 1.33 LINK C TYR H 100G N TYS H 100H 1555 1555 1.33 LINK ND2 ASN C 160 C1 NAG A 1 1555 1555 1.44 LINK ND2 ASN C 173 C1 NAG B 1 1555 1555 1.44 LINK O4 NAG A 1 C1 NAG A 2 1555 1555 1.44 LINK O4 NAG A 2 C1 BMA A 3 1555 1555 1.44 LINK O6 BMA A 3 C1 MAN A 4 1555 1555 1.43 LINK O3 BMA A 3 C1 MAN A 7 1555 1555 1.44 LINK O3 MAN A 4 C1 MAN A 5 1555 1555 1.44 LINK O6 MAN A 4 C1 MAN A 6 1555 1555 1.43 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.44 LINK O4 NAG B 2 C1 BMA B 3 1555 1555 1.44 LINK O3 BMA B 3 C1 MAN B 4 1555 1555 1.44 LINK O6 BMA B 3 C1 MAN B 8 1555 1555 1.44 LINK O2 MAN B 4 C1 NAG B 5 1555 1555 1.44 LINK O4 NAG B 5 C1 GAL B 6 1555 1555 1.43 LINK O6 GAL B 6 C2 SIA B 7 1555 1555 1.44 LINK O3 MAN B 8 C1 MAN B 9 1555 1555 1.44 LINK O6 MAN B 8 C1 MAN B 10 1555 1555 1.44 CISPEP 1 PHE H 146 PRO H 147 0 -5.53 CISPEP 2 GLU H 148 PRO H 149 0 -1.52 CISPEP 3 TYR L 140 PRO L 141 0 1.32 CRYST1 81.054 207.561 87.617 90.00 90.00 90.00 C 2 2 21 8 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 0.012337 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004818 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011413 0.00000 HETATM 1 N PCA H 1 44.170 -71.086 5.548 1.00 97.78 N ANISOU 1 N PCA H 1 10580 13233 13340 2173 -2005 1071 N HETATM 2 CA PCA H 1 44.225 -69.663 5.234 1.00 89.46 C ANISOU 2 CA PCA H 1 9354 12326 12309 1894 -2018 1072 C HETATM 3 CB PCA H 1 45.463 -69.346 4.405 1.00 98.69 C ANISOU 3 CB PCA H 1 10039 13689 13769 1971 -1880 1197 C HETATM 4 CG PCA H 1 45.903 -70.666 3.805 1.00107.40 C ANISOU 4 CG PCA H 1 11077 14738 14994 2346 -1635 1206 C HETATM 5 CD PCA H 1 45.177 -71.668 4.659 1.00109.20 C ANISOU 5 CD PCA H 1 11683 14759 15048 2454 -1782 1160 C HETATM 6 OE PCA H 1 45.443 -72.868 4.613 1.00118.27 O ANISOU 6 OE PCA H 1 12892 15781 16265 2715 -1696 1171 O HETATM 7 C PCA H 1 42.988 -69.278 4.442 1.00 75.35 C ANISOU 7 C PCA H 1 7847 10483 10298 1784 -1737 854 C HETATM 8 O PCA H 1 43.060 -68.512 3.484 1.00 74.93 O ANISOU 8 O PCA H 1 7620 10553 10298 1710 -1543 836 O HETATM 9 HA PCA H 1 44.257 -69.149 6.067 1.00107.35 H HETATM 10 HB2 PCA H 1 45.249 -68.686 3.713 1.00118.43 H HETATM 11 HB3 PCA H 1 46.170 -68.982 4.978 1.00118.43 H HETATM 12 HG2 PCA H 1 45.652 -70.726 2.859 1.00128.89 H HETATM 13 HG3 PCA H 1 46.872 -70.781 3.894 1.00128.89 H