HEADER VIRAL PROTEIN 25-FEB-15 4YG6 TITLE STRUCTURAL BASIS OF GLYCAN RECOGNITION IN NEONATE-SPECIFIC ROTAVIRUSES COMPND MOL_ID: 1; COMPND 2 MOLECULE: OUTER CAPSID PROTEIN VP8*; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 65-225; COMPND 5 SYNONYM: HEMAGGLUTININ; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ROTAVIRUS A; SOURCE 3 ORGANISM_COMMON: RV-A; SOURCE 4 ORGANISM_TAXID: 10930; SOURCE 5 STRAIN: ISOLATE COW/UNITED STATES/B223/1983 G10-P8[11]-I2-RX-CX-MX- SOURCE 6 A13-NX-TX-E2-HX; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS ROTAVIRUS, STRUCTURAL BIOLOGY, GLYCAN, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.HU,B.V.V.PRASAD REVDAT 6 27-SEP-23 4YG6 1 REMARK HETSYN LINK REVDAT 5 29-JUL-20 4YG6 1 COMPND REMARK HETNAM LINK REVDAT 5 2 1 SITE ATOM REVDAT 4 11-DEC-19 4YG6 1 REMARK REVDAT 3 13-SEP-17 4YG6 1 REMARK REVDAT 2 14-OCT-15 4YG6 1 JRNL REVDAT 1 30-SEP-15 4YG6 0 JRNL AUTH L.HU,S.RAMANI,R.CZAKO,B.SANKARAN,Y.YU,D.F.SMITH, JRNL AUTH 2 R.D.CUMMINGS,M.K.ESTES,B.V.VENKATARAM PRASAD JRNL TITL STRUCTURAL BASIS OF GLYCAN SPECIFICITY IN NEONATE-SPECIFIC JRNL TITL 2 BOVINE-HUMAN REASSORTANT ROTAVIRUS. JRNL REF NAT COMMUN V. 6 8346 2015 JRNL REFN ESSN 2041-1723 JRNL PMID 26420502 JRNL DOI 10.1038/NCOMMS9346 REMARK 2 REMARK 2 RESOLUTION. 1.46 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.4_1496) 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 : TWIN_LSQ_F REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.46 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.20 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.460 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 91978 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.160 REMARK 3 FREE R VALUE TEST SET COUNT : 4612 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 18.4258 - 3.9506 0.95 8822 434 0.1372 0.1608 REMARK 3 2 3.9506 - 3.1408 0.88 8214 404 0.1222 0.1459 REMARK 3 3 3.1408 - 2.7452 0.90 8337 456 0.1460 0.1758 REMARK 3 4 2.7452 - 2.4949 0.92 8593 445 0.1606 0.1863 REMARK 3 5 2.4949 - 2.3165 0.92 8532 469 0.1665 0.2119 REMARK 3 6 2.3165 - 2.1801 0.92 8589 428 0.1826 0.2082 REMARK 3 7 2.1801 - 2.0711 0.92 8635 453 0.1707 0.1996 REMARK 3 8 2.0711 - 1.9810 0.92 8600 460 0.1802 0.1903 REMARK 3 9 1.9810 - 1.9049 0.93 8548 432 0.1854 0.2000 REMARK 3 10 1.9049 - 1.8392 0.92 8715 494 0.1913 0.2040 REMARK 3 11 1.8392 - 1.7817 0.94 8690 434 0.2050 0.2183 REMARK 3 12 1.7817 - 1.7308 0.93 8661 459 0.2125 0.2202 REMARK 3 13 1.7308 - 1.6853 0.93 8760 464 0.2073 0.2143 REMARK 3 14 1.6853 - 1.6442 0.94 8630 465 0.2102 0.2216 REMARK 3 15 1.6442 - 1.6068 0.93 8716 504 0.2140 0.2322 REMARK 3 16 1.6068 - 1.5727 0.93 8607 532 0.2178 0.2432 REMARK 3 17 1.5727 - 1.5412 0.94 8873 489 0.2275 0.2270 REMARK 3 18 1.5412 - 1.5122 0.94 8656 474 0.2462 0.2576 REMARK 3 19 1.5122 - 1.4852 0.95 8902 421 0.2590 0.2845 REMARK 3 20 1.4852 - 1.4600 0.94 8733 408 0.2691 0.2635 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 : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.970 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) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.007 5407 REMARK 3 ANGLE : 1.100 7433 REMARK 3 CHIRALITY : 0.046 857 REMARK 3 PLANARITY : 0.005 955 REMARK 3 DIHEDRAL : 11.143 2184 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4YG6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000207407. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JAN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.977408 REMARK 200 MONOCHROMATOR : ASYMMETRIC CURVED CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 93062 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.460 REMARK 200 RESOLUTION RANGE LOW (A) : 36.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.46 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.33300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.200 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: 4YG3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M PHOSPHATE CITRATE, 1.6 M SODIUM REMARK 280 DIHYDROGEN PHOSPHATE, 0.4 M DI-POTASSIUM HYDROGEN PHOSPHATE., PH REMARK 280 4.2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 70.14000 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, 3, 4 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 APPLY THE FOLLOWING TO CHAINS: A, E 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 APPLY THE FOLLOWING TO CHAINS: B, F 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, G 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, H 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 A 63 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 1332 O HOH C 1455 1.90 REMARK 500 O HOH C 1280 O HOH C 1342 1.90 REMARK 500 O HOH D 1131 O HOH D 1271 1.93 REMARK 500 O HOH A 1126 O HOH A 1249 1.95 REMARK 500 O HOH A 1101 O HOH A 1131 2.02 REMARK 500 O HOH A 1134 O HOH A 1270 2.03 REMARK 500 O HOH D 1112 O HOH D 1182 2.03 REMARK 500 O HOH A 1479 O HOH A 1481 2.03 REMARK 500 O HOH A 1277 O HOH A 1301 2.04 REMARK 500 O HOH D 1290 O HOH D 1297 2.04 REMARK 500 O HOH A 1294 O HOH A 1473 2.05 REMARK 500 O HOH A 1154 O HOH A 1175 2.05 REMARK 500 O HOH D 1415 O HOH D 1416 2.05 REMARK 500 O HOH A 1148 O HOH A 1500 2.06 REMARK 500 O HOH D 1166 O HOH D 1178 2.07 REMARK 500 O HOH A 1223 O HOH A 1226 2.07 REMARK 500 O HOH D 1142 O HOH D 1179 2.07 REMARK 500 O HOH A 1259 O HOH A 1460 2.07 REMARK 500 O HOH A 1119 O HOH A 1233 2.08 REMARK 500 O HOH D 1453 O HOH D 1454 2.08 REMARK 500 O HOH D 1169 O HOH D 1190 2.08 REMARK 500 O HOH A 1102 O HOH A 1169 2.09 REMARK 500 O HOH C 1311 O HOH C 1333 2.09 REMARK 500 O HOH D 1262 O HOH D 1284 2.09 REMARK 500 O HOH B 1345 O HOH B 1396 2.09 REMARK 500 O HOH D 1181 O HOH D 1249 2.09 REMARK 500 O HOH B 1208 O HOH B 1267 2.10 REMARK 500 O HOH B 1323 O HOH B 1369 2.11 REMARK 500 O HOH B 1348 O HOH B 1401 2.11 REMARK 500 O HOH D 1196 O HOH D 1347 2.11 REMARK 500 O HOH D 1438 O HOH D 1442 2.12 REMARK 500 O HOH D 1388 O HOH D 1405 2.12 REMARK 500 O HOH A 1437 O HOH A 1497 2.13 REMARK 500 O HOH D 1353 O HOH D 1405 2.13 REMARK 500 O HOH D 1249 O HOH D 1424 2.13 REMARK 500 O HOH A 1170 O HOH A 1272 2.13 REMARK 500 O HOH D 1137 O HOH D 1275 2.14 REMARK 500 O HOH A 1508 O HOH B 1423 2.14 REMARK 500 O HOH D 1153 O HOH D 1276 2.14 REMARK 500 O HOH B 1373 O HOH D 1383 2.14 REMARK 500 O HOH C 1102 O HOH C 1107 2.15 REMARK 500 O HOH D 1321 O HOH D 1367 2.15 REMARK 500 O2 PO4 A 1005 O HOH A 1101 2.15 REMARK 500 O HOH D 1406 O HOH D 1453 2.15 REMARK 500 O HOH D 1102 O HOH D 1194 2.15 REMARK 500 O HOH B 1115 O HOH B 1264 2.16 REMARK 500 O HOH D 1265 O HOH D 1441 2.16 REMARK 500 O HOH D 1310 O HOH D 1410 2.17 REMARK 500 O HOH B 1360 O HOH B 1375 2.17 REMARK 500 OD1 ASN D 120 OG1 THR D 125 2.17 REMARK 500 REMARK 500 THIS ENTRY HAS 67 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 OG SER A 133 OG SER C 133 2857 1.75 REMARK 500 O HOH A 1107 O HOH D 1134 1554 1.78 REMARK 500 O HOH C 1118 O HOH C 1300 1655 1.96 REMARK 500 O HOH B 1206 O HOH C 1314 1454 1.96 REMARK 500 O HOH A 1318 O HOH D 1261 1654 2.01 REMARK 500 O HOH A 1237 O HOH C 1222 2856 2.03 REMARK 500 O HOH A 1254 O HOH C 1305 2857 2.06 REMARK 500 O HOH C 1206 O HOH C 1250 1455 2.07 REMARK 500 O HOH A 1239 O HOH C 1106 2856 2.08 REMARK 500 ND2 ASN B 120 O6 BGC G 1 1454 2.08 REMARK 500 O HOH A 1280 O HOH D 1282 1654 2.09 REMARK 500 O HOH B 1180 O HOH C 1199 1454 2.10 REMARK 500 O HOH A 1126 O HOH A 1231 1455 2.11 REMARK 500 O HOH A 1172 O HOH B 1253 2756 2.13 REMARK 500 O HOH B 1105 O HOH B 1254 1455 2.13 REMARK 500 O HOH C 1101 O HOH D 1108 2847 2.13 REMARK 500 O HOH B 1255 O HOH B 1281 1554 2.13 REMARK 500 O HOH A 1156 O HOH B 1232 2756 2.14 REMARK 500 O HOH B 1193 O HOH B 1267 1655 2.14 REMARK 500 O HOH B 1223 O HOH C 1105 1454 2.14 REMARK 500 O HOH B 1283 O HOH C 1264 1454 2.15 REMARK 500 O HOH B 1230 O HOH C 1291 1455 2.16 REMARK 500 O HOH D 1212 O HOH D 1219 1455 2.16 REMARK 500 O HOH A 1172 O HOH C 1199 2857 2.17 REMARK 500 O HOH A 1265 O HOH D 1101 1655 2.17 REMARK 500 O HOH D 1103 O HOH D 1268 1455 2.17 REMARK 500 O HOH A 1285 O HOH D 1157 1655 2.18 REMARK 500 O HOH B 1139 O HOH C 1163 1455 2.18 REMARK 500 O HOH D 1187 O HOH D 1222 1455 2.18 REMARK 500 O HOH C 1291 O HOH D 1126 1655 2.19 REMARK 500 O HOH A 1130 O HOH C 1232 2857 2.19 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 SER A 99 -50.20 -139.21 REMARK 500 ASN A 132 77.40 -158.67 REMARK 500 ARG A 154 -116.68 -128.06 REMARK 500 GLN A 183 -110.40 -112.27 REMARK 500 ASN A 203 51.97 -98.48 REMARK 500 SER B 99 -47.66 -142.71 REMARK 500 ASN B 132 81.77 -160.12 REMARK 500 ARG B 154 -115.50 -129.81 REMARK 500 GLN B 183 -109.35 -116.33 REMARK 500 ASN B 197 9.17 58.85 REMARK 500 ASN B 203 53.03 -98.05 REMARK 500 SER C 99 -47.71 -140.01 REMARK 500 ASN C 132 78.73 -160.62 REMARK 500 ARG C 154 -116.66 -128.93 REMARK 500 GLN C 183 -111.70 -113.04 REMARK 500 ASN C 203 51.67 -98.12 REMARK 500 SER D 99 -44.09 -142.45 REMARK 500 ASN D 132 81.53 -160.97 REMARK 500 ARG D 154 -115.92 -129.63 REMARK 500 GLN D 183 -109.75 -115.16 REMARK 500 ASN D 203 52.58 -97.57 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 A1448 DISTANCE = 6.05 ANGSTROMS REMARK 525 HOH A1461 DISTANCE = 9.09 ANGSTROMS REMARK 525 HOH A1462 DISTANCE = 8.16 ANGSTROMS REMARK 525 HOH A1465 DISTANCE = 7.21 ANGSTROMS REMARK 525 HOH A1469 DISTANCE = 6.71 ANGSTROMS REMARK 525 HOH B1377 DISTANCE = 6.11 ANGSTROMS REMARK 525 HOH C1454 DISTANCE = 7.02 ANGSTROMS REMARK 525 HOH C1457 DISTANCE = 7.66 ANGSTROMS REMARK 525 HOH C1463 DISTANCE = 5.81 ANGSTROMS REMARK 525 HOH D1376 DISTANCE = 6.99 ANGSTROMS REMARK 525 HOH D1403 DISTANCE = 6.67 ANGSTROMS REMARK 525 HOH D1431 DISTANCE = 6.68 ANGSTROMS REMARK 525 HOH D1436 DISTANCE = 8.43 ANGSTROMS REMARK 525 HOH D1443 DISTANCE = 7.02 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 BGC F 1 REMARK 610 BGC G 1 REMARK 610 NAG H 1 REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 BGC G 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4YG3 RELATED DB: PDB REMARK 900 4YG3 CONTAINS THE SAME PROTEIN IN THE ABSENCE OF LIGAND REMARK 900 RELATED ID: 4YE2 RELATED DB: PDB REMARK 900 RELATED ID: 4YFW RELATED DB: PDB REMARK 900 RELATED ID: 4YFZ RELATED DB: PDB REMARK 900 RELATED ID: 4YG0 RELATED DB: PDB DBREF 4YG6 A 65 225 UNP P35746 VP4_ROTBB 65 225 DBREF 4YG6 B 65 225 UNP P35746 VP4_ROTBB 65 225 DBREF 4YG6 C 65 225 UNP P35746 VP4_ROTBB 65 225 DBREF 4YG6 D 65 225 UNP P35746 VP4_ROTBB 65 225 SEQADV 4YG6 GLY A 63 UNP P35746 EXPRESSION TAG SEQADV 4YG6 SER A 64 UNP P35746 EXPRESSION TAG SEQADV 4YG6 GLY B 63 UNP P35746 EXPRESSION TAG SEQADV 4YG6 SER B 64 UNP P35746 EXPRESSION TAG SEQADV 4YG6 GLY C 63 UNP P35746 EXPRESSION TAG SEQADV 4YG6 SER C 64 UNP P35746 EXPRESSION TAG SEQADV 4YG6 GLY D 63 UNP P35746 EXPRESSION TAG SEQADV 4YG6 SER D 64 UNP P35746 EXPRESSION TAG SEQRES 1 A 163 GLY SER LEU ASP GLY PRO TYR ALA PRO ASP SER SER ASN SEQRES 2 A 163 LEU PRO SER ASN CYS TRP TYR LEU VAL ASN PRO SER ASN SEQRES 3 A 163 ASP GLY VAL VAL PHE SER VAL THR ASP ASN SER THR PHE SEQRES 4 A 163 TRP MET PHE THR TYR LEU VAL LEU PRO ASN THR ALA GLN SEQRES 5 A 163 THR ASN VAL THR VAL ASN VAL MET ASN GLU THR VAL ASN SEQRES 6 A 163 ILE SER ILE ASP ASN SER GLY SER THR TYR ARG PHE VAL SEQRES 7 A 163 ASP TYR ILE LYS THR SER SER THR GLN ALA TYR GLY SER SEQRES 8 A 163 ARG ASN TYR LEU ASN THR ALA HIS ARG LEU GLN ALA TYR SEQRES 9 A 163 ARG ARG ASP GLY ASP GLY ASN ILE SER ASN TYR TRP GLY SEQRES 10 A 163 ALA ASP THR GLN GLY ASP LEU ARG VAL GLY THR TYR SER SEQRES 11 A 163 ASN PRO VAL PRO ASN ALA VAL ILE ASN LEU ASN ALA ASP SEQRES 12 A 163 PHE TYR VAL ILE PRO ASP SER GLN GLN GLU THR CYS THR SEQRES 13 A 163 GLU TYR ILE ARG GLY GLY LEU SEQRES 1 B 163 GLY SER LEU ASP GLY PRO TYR ALA PRO ASP SER SER ASN SEQRES 2 B 163 LEU PRO SER ASN CYS TRP TYR LEU VAL ASN PRO SER ASN SEQRES 3 B 163 ASP GLY VAL VAL PHE SER VAL THR ASP ASN SER THR PHE SEQRES 4 B 163 TRP MET PHE THR TYR LEU VAL LEU PRO ASN THR ALA GLN SEQRES 5 B 163 THR ASN VAL THR VAL ASN VAL MET ASN GLU THR VAL ASN SEQRES 6 B 163 ILE SER ILE ASP ASN SER GLY SER THR TYR ARG PHE VAL SEQRES 7 B 163 ASP TYR ILE LYS THR SER SER THR GLN ALA TYR GLY SER SEQRES 8 B 163 ARG ASN TYR LEU ASN THR ALA HIS ARG LEU GLN ALA TYR SEQRES 9 B 163 ARG ARG ASP GLY ASP GLY ASN ILE SER ASN TYR TRP GLY SEQRES 10 B 163 ALA ASP THR GLN GLY ASP LEU ARG VAL GLY THR TYR SER SEQRES 11 B 163 ASN PRO VAL PRO ASN ALA VAL ILE ASN LEU ASN ALA ASP SEQRES 12 B 163 PHE TYR VAL ILE PRO ASP SER GLN GLN GLU THR CYS THR SEQRES 13 B 163 GLU TYR ILE ARG GLY GLY LEU SEQRES 1 C 163 GLY SER LEU ASP GLY PRO TYR ALA PRO ASP SER SER ASN SEQRES 2 C 163 LEU PRO SER ASN CYS TRP TYR LEU VAL ASN PRO SER ASN SEQRES 3 C 163 ASP GLY VAL VAL PHE SER VAL THR ASP ASN SER THR PHE SEQRES 4 C 163 TRP MET PHE THR TYR LEU VAL LEU PRO ASN THR ALA GLN SEQRES 5 C 163 THR ASN VAL THR VAL ASN VAL MET ASN GLU THR VAL ASN SEQRES 6 C 163 ILE SER ILE ASP ASN SER GLY SER THR TYR ARG PHE VAL SEQRES 7 C 163 ASP TYR ILE LYS THR SER SER THR GLN ALA TYR GLY SER SEQRES 8 C 163 ARG ASN TYR LEU ASN THR ALA HIS ARG LEU GLN ALA TYR SEQRES 9 C 163 ARG ARG ASP GLY ASP GLY ASN ILE SER ASN TYR TRP GLY SEQRES 10 C 163 ALA ASP THR GLN GLY ASP LEU ARG VAL GLY THR TYR SER SEQRES 11 C 163 ASN PRO VAL PRO ASN ALA VAL ILE ASN LEU ASN ALA ASP SEQRES 12 C 163 PHE TYR VAL ILE PRO ASP SER GLN GLN GLU THR CYS THR SEQRES 13 C 163 GLU TYR ILE ARG GLY GLY LEU SEQRES 1 D 163 GLY SER LEU ASP GLY PRO TYR ALA PRO ASP SER SER ASN SEQRES 2 D 163 LEU PRO SER ASN CYS TRP TYR LEU VAL ASN PRO SER ASN SEQRES 3 D 163 ASP GLY VAL VAL PHE SER VAL THR ASP ASN SER THR PHE SEQRES 4 D 163 TRP MET PHE THR TYR LEU VAL LEU PRO ASN THR ALA GLN SEQRES 5 D 163 THR ASN VAL THR VAL ASN VAL MET ASN GLU THR VAL ASN SEQRES 6 D 163 ILE SER ILE ASP ASN SER GLY SER THR TYR ARG PHE VAL SEQRES 7 D 163 ASP TYR ILE LYS THR SER SER THR GLN ALA TYR GLY SER SEQRES 8 D 163 ARG ASN TYR LEU ASN THR ALA HIS ARG LEU GLN ALA TYR SEQRES 9 D 163 ARG ARG ASP GLY ASP GLY ASN ILE SER ASN TYR TRP GLY SEQRES 10 D 163 ALA ASP THR GLN GLY ASP LEU ARG VAL GLY THR TYR SER SEQRES 11 D 163 ASN PRO VAL PRO ASN ALA VAL ILE ASN LEU ASN ALA ASP SEQRES 12 D 163 PHE TYR VAL ILE PRO ASP SER GLN GLN GLU THR CYS THR SEQRES 13 D 163 GLU TYR ILE ARG GLY GLY LEU HET BGC E 1 12 HET GAL E 2 11 HET NAG E 3 14 HET GAL E 4 11 HET BGC F 1 11 HET GAL F 2 11 HET NAG F 3 14 HET GAL F 4 11 HET BGC G 1 11 HET GAL G 2 11 HET NAG G 3 14 HET GAL G 4 11 HET NAG H 1 14 HET GAL H 2 11 HET PO4 A1005 5 HET PO4 B1005 5 HET PO4 C1005 5 HET PO4 D1003 5 HETNAM BGC BETA-D-GLUCOPYRANOSE HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM PO4 PHOSPHATE ION HETSYN BGC BETA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE 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 FORMUL 5 BGC 3(C6 H12 O6) FORMUL 5 GAL 7(C6 H12 O6) FORMUL 5 NAG 4(C8 H15 N O6) FORMUL 9 PO4 4(O4 P 3-) FORMUL 13 HOH *1484(H2 O) HELIX 1 AA1 GLN A 213 GLY A 224 1 12 HELIX 2 AA2 GLN B 213 GLY B 224 1 12 HELIX 3 AA3 GLN C 213 GLY C 224 1 12 HELIX 4 AA4 GLN D 213 GLY D 224 1 12 SHEET 1 AA1 6 ASP A 66 TYR A 69 0 SHEET 2 AA1 6 PHE A 206 PRO A 210 -1 O PHE A 206 N TYR A 69 SHEET 3 AA1 6 CYS A 80 VAL A 84 -1 N TRP A 81 O ILE A 209 SHEET 4 AA1 6 GLN A 164 ARG A 168 -1 O TYR A 166 N TYR A 82 SHEET 5 AA1 6 ILE A 174 TRP A 178 -1 O SER A 175 N ARG A 167 SHEET 6 AA1 6 ARG A 187 THR A 190 -1 O ARG A 187 N TRP A 178 SHEET 1 AA2 6 ASP A 72 SER A 74 0 SHEET 2 AA2 6 ILE A 200 LEU A 202 -1 O ILE A 200 N SER A 74 SHEET 3 AA2 6 GLY A 90 THR A 96 -1 N SER A 94 O ASN A 201 SHEET 4 AA2 6 TRP A 102 VAL A 108 -1 O LEU A 107 N GLY A 90 SHEET 5 AA2 6 TYR A 137 LYS A 144 -1 O ARG A 138 N VAL A 108 SHEET 6 AA2 6 GLY A 152 THR A 159 -1 O ARG A 154 N ASP A 141 SHEET 1 AA3 2 THR A 112 VAL A 121 0 SHEET 2 AA3 2 GLU A 124 ASN A 132 -1 O ILE A 130 N THR A 115 SHEET 1 AA4 6 ASP B 66 TYR B 69 0 SHEET 2 AA4 6 PHE B 206 PRO B 210 -1 O PHE B 206 N TYR B 69 SHEET 3 AA4 6 CYS B 80 VAL B 84 -1 N TRP B 81 O ILE B 209 SHEET 4 AA4 6 GLN B 164 ARG B 168 -1 O GLN B 164 N VAL B 84 SHEET 5 AA4 6 ILE B 174 TRP B 178 -1 O SER B 175 N ARG B 167 SHEET 6 AA4 6 ARG B 187 THR B 190 -1 O ARG B 187 N TRP B 178 SHEET 1 AA5 6 ASP B 72 SER B 74 0 SHEET 2 AA5 6 ILE B 200 LEU B 202 -1 O LEU B 202 N ASP B 72 SHEET 3 AA5 6 GLY B 90 THR B 96 -1 N SER B 94 O ASN B 201 SHEET 4 AA5 6 TRP B 102 VAL B 108 -1 O LEU B 107 N GLY B 90 SHEET 5 AA5 6 TYR B 137 LYS B 144 -1 O ARG B 138 N VAL B 108 SHEET 6 AA5 6 GLY B 152 THR B 159 -1 O ASN B 155 N ASP B 141 SHEET 1 AA6 2 THR B 112 VAL B 121 0 SHEET 2 AA6 2 GLU B 124 ASN B 132 -1 O VAL B 126 N VAL B 119 SHEET 1 AA7 6 ASP C 66 TYR C 69 0 SHEET 2 AA7 6 PHE C 206 PRO C 210 -1 O PHE C 206 N TYR C 69 SHEET 3 AA7 6 CYS C 80 VAL C 84 -1 N TRP C 81 O ILE C 209 SHEET 4 AA7 6 GLN C 164 ARG C 168 -1 O TYR C 166 N TYR C 82 SHEET 5 AA7 6 ILE C 174 TRP C 178 -1 O SER C 175 N ARG C 167 SHEET 6 AA7 6 ARG C 187 THR C 190 -1 O ARG C 187 N TRP C 178 SHEET 1 AA8 6 ASP C 72 SER C 74 0 SHEET 2 AA8 6 ILE C 200 LEU C 202 -1 O ILE C 200 N SER C 74 SHEET 3 AA8 6 GLY C 90 THR C 96 -1 N SER C 94 O ASN C 201 SHEET 4 AA8 6 TRP C 102 VAL C 108 -1 O LEU C 107 N GLY C 90 SHEET 5 AA8 6 TYR C 137 LYS C 144 -1 O TYR C 142 N PHE C 104 SHEET 6 AA8 6 GLY C 152 THR C 159 -1 O ASN C 155 N ASP C 141 SHEET 1 AA9 2 THR C 112 VAL C 121 0 SHEET 2 AA9 2 GLU C 124 ASN C 132 -1 O ASN C 132 N THR C 112 SHEET 1 AB1 6 ASP D 66 TYR D 69 0 SHEET 2 AB1 6 PHE D 206 PRO D 210 -1 O VAL D 208 N ASP D 66 SHEET 3 AB1 6 CYS D 80 VAL D 84 -1 N TRP D 81 O ILE D 209 SHEET 4 AB1 6 GLN D 164 ARG D 168 -1 O TYR D 166 N TYR D 82 SHEET 5 AB1 6 ILE D 174 TRP D 178 -1 O SER D 175 N ARG D 167 SHEET 6 AB1 6 ARG D 187 THR D 190 -1 O ARG D 187 N TRP D 178 SHEET 1 AB2 6 ASP D 72 SER D 74 0 SHEET 2 AB2 6 ILE D 200 LEU D 202 -1 O LEU D 202 N ASP D 72 SHEET 3 AB2 6 GLY D 90 THR D 96 -1 N SER D 94 O ASN D 201 SHEET 4 AB2 6 TRP D 102 VAL D 108 -1 O LEU D 107 N GLY D 90 SHEET 5 AB2 6 TYR D 137 LYS D 144 -1 O TYR D 142 N PHE D 104 SHEET 6 AB2 6 GLY D 152 THR D 159 -1 O ASN D 155 N ASP D 141 SHEET 1 AB3 2 THR D 112 VAL D 121 0 SHEET 2 AB3 2 GLU D 124 ASN D 132 -1 O VAL D 126 N VAL D 119 LINK O4 BGC E 1 C1 GAL E 2 1555 1555 1.44 LINK O3 GAL E 2 C1 NAG E 3 1555 1555 1.42 LINK O4 NAG E 3 C1 GAL E 4 1555 1555 1.43 LINK O4 BGC F 1 C1 GAL F 2 1555 1555 1.43 LINK O3 GAL F 2 C1 NAG F 3 1555 1555 1.41 LINK O4 NAG F 3 C1 GAL F 4 1555 1555 1.43 LINK O4 BGC G 1 C1 GAL G 2 1555 1555 1.43 LINK O3 GAL G 2 C1 NAG G 3 1555 1555 1.42 LINK O4 NAG G 3 C1 GAL G 4 1555 1555 1.44 LINK O4 NAG H 1 C1 GAL H 2 1555 1555 1.43 CISPEP 1 GLY A 67 PRO A 68 0 4.18 CISPEP 2 GLY B 67 PRO B 68 0 3.82 CISPEP 3 GLY C 67 PRO C 68 0 2.74 CISPEP 4 GLY D 67 PRO D 68 0 4.18 CRYST1 36.200 140.280 54.600 90.00 90.78 90.00 P 1 21 1 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 0.027624 0.000000 0.000376 0.00000 SCALE2 0.000000 0.007129 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018317 0.00000