HEADER VIRAL PROTEIN 21-DEC-10 3Q38 TITLE CRYSTAL STRUCTURE OF P DOMAIN FROM NORWALK VIRUS STRAIN VIETNAM 026 IN TITLE 2 COMPLEX WITH HBGA TYPE B (TRIGLYCAN) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAPSID PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP REISDUES 224-538; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NORWALK VIRUS; SOURCE 3 ORGANISM_TAXID: 11983; SOURCE 4 STRAIN: VIETNAM 026; SOURCE 5 GENE: CAPSID PROTEIN; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: MBP-HTSHP KEYWDS NOROVIRUS, P-DOMAIN, CAPSID, RECEPTOR, HISTO BLOOD GROUP ANTIGEN KEYWDS 2 (HBGA), VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.S.HANSMAN,C.BIERTUMPFEL,L.CHEN,I.GEORGIEV,J.S.MCLELLAN,K.KATAYAMA, AUTHOR 2 P.D.KWONG REVDAT 4 13-SEP-23 3Q38 1 HETSYN REVDAT 3 29-JUL-20 3Q38 1 COMPND REMARK SEQADV HETNAM REVDAT 3 2 1 LINK SITE ATOM REVDAT 2 10-AUG-11 3Q38 1 JRNL VERSN REVDAT 1 11-MAY-11 3Q38 0 JRNL AUTH G.S.HANSMAN,C.BIERTUMPFEL,I.GEORGIEV,J.S.MCLELLAN,L.CHEN, JRNL AUTH 2 T.ZHOU,K.KATAYAMA,P.D.KWONG JRNL TITL CRYSTAL STRUCTURES OF GII.10 AND GII.12 NOROVIRUS PROTRUDING JRNL TITL 2 DOMAINS IN COMPLEX WITH HISTO-BLOOD GROUP ANTIGENS REVEAL JRNL TITL 3 DETAILS FOR A POTENTIAL SITE OF VULNERABILITY. JRNL REF J.VIROL. V. 85 6687 2011 JRNL REFN ISSN 0022-538X JRNL PMID 21525337 JRNL DOI 10.1128/JVI.00246-11 REMARK 2 REMARK 2 RESOLUTION. 1.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) 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) : 1.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.04 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 178393 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.181 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 8988 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 29.0453 - 3.9740 0.99 5764 289 0.1533 0.1625 REMARK 3 2 3.9740 - 3.1555 1.00 5692 296 0.1569 0.1783 REMARK 3 3 3.1555 - 2.7570 1.00 5698 286 0.1701 0.1864 REMARK 3 4 2.7570 - 2.5050 1.00 5658 287 0.1642 0.1784 REMARK 3 5 2.5050 - 2.3256 1.00 5642 317 0.1552 0.1706 REMARK 3 6 2.3256 - 2.1885 1.00 5671 321 0.1552 0.1606 REMARK 3 7 2.1885 - 2.0789 1.00 5666 284 0.1521 0.1581 REMARK 3 8 2.0789 - 1.9885 1.00 5637 280 0.1479 0.1539 REMARK 3 9 1.9885 - 1.9119 1.00 5675 320 0.1481 0.1619 REMARK 3 10 1.9119 - 1.8460 1.00 5640 303 0.1489 0.1591 REMARK 3 11 1.8460 - 1.7883 1.00 5643 302 0.1409 0.1563 REMARK 3 12 1.7883 - 1.7371 1.00 5632 296 0.1485 0.1660 REMARK 3 13 1.7371 - 1.6914 1.00 5692 272 0.1544 0.1740 REMARK 3 14 1.6914 - 1.6502 1.00 5603 322 0.1597 0.1727 REMARK 3 15 1.6502 - 1.6126 1.00 5644 307 0.1644 0.1972 REMARK 3 16 1.6126 - 1.5783 1.00 5646 308 0.1624 0.1867 REMARK 3 17 1.5783 - 1.5468 1.00 5621 286 0.1695 0.1922 REMARK 3 18 1.5468 - 1.5176 1.00 5646 303 0.1766 0.2087 REMARK 3 19 1.5176 - 1.4905 1.00 5627 319 0.1830 0.1981 REMARK 3 20 1.4905 - 1.4652 1.00 5616 314 0.1895 0.2028 REMARK 3 21 1.4652 - 1.4416 1.00 5628 308 0.1908 0.2171 REMARK 3 22 1.4416 - 1.4194 1.00 5629 303 0.2058 0.2413 REMARK 3 23 1.4194 - 1.3985 1.00 5615 316 0.2119 0.2262 REMARK 3 24 1.3985 - 1.3788 1.00 5679 280 0.2173 0.2232 REMARK 3 25 1.3788 - 1.3602 1.00 5598 301 0.2281 0.2522 REMARK 3 26 1.3602 - 1.3425 1.00 5671 279 0.2423 0.2331 REMARK 3 27 1.3425 - 1.3257 1.00 5639 292 0.2479 0.2825 REMARK 3 28 1.3257 - 1.3098 1.00 5634 287 0.2565 0.2767 REMARK 3 29 1.3098 - 1.2945 1.00 5662 278 0.2603 0.2613 REMARK 3 30 1.2945 - 1.2800 1.00 5537 332 0.2791 0.2814 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 : 0.83 REMARK 3 K_SOL : 0.34 REMARK 3 B_SOL : 44.71 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.070 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.88820 REMARK 3 B22 (A**2) : -0.67550 REMARK 3 B33 (A**2) : 1.56370 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.80040 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 : 0.011 5187 REMARK 3 ANGLE : 1.357 7065 REMARK 3 CHIRALITY : 0.095 787 REMARK 3 PLANARITY : 0.008 930 REMARK 3 DIHEDRAL : 13.683 1870 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 224:307) REMARK 3 ORIGIN FOR THE GROUP (A): 8.2949 7.3833 10.2468 REMARK 3 T TENSOR REMARK 3 T11: 0.0914 T22: 0.0797 REMARK 3 T33: 0.0681 T12: -0.0064 REMARK 3 T13: 0.0040 T23: -0.0025 REMARK 3 L TENSOR REMARK 3 L11: 0.2717 L22: 0.5850 REMARK 3 L33: 0.8732 L12: 0.0430 REMARK 3 L13: 0.1577 L23: 0.0809 REMARK 3 S TENSOR REMARK 3 S11: -0.0133 S12: 0.0696 S13: 0.0129 REMARK 3 S21: -0.0558 S22: 0.0087 S23: 0.0389 REMARK 3 S31: -0.0934 S32: 0.0418 S33: -0.0068 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 308:432) REMARK 3 ORIGIN FOR THE GROUP (A): 3.7453 13.4584 19.4574 REMARK 3 T TENSOR REMARK 3 T11: 0.0880 T22: 0.0361 REMARK 3 T33: 0.0587 T12: 0.0110 REMARK 3 T13: 0.0061 T23: -0.0060 REMARK 3 L TENSOR REMARK 3 L11: 0.7549 L22: 0.9332 REMARK 3 L33: 1.1776 L12: 0.0858 REMARK 3 L13: -0.0642 L23: -0.4208 REMARK 3 S TENSOR REMARK 3 S11: -0.0054 S12: -0.0284 S13: 0.1019 REMARK 3 S21: 0.0892 S22: 0.0359 S23: 0.0343 REMARK 3 S31: -0.2127 S32: -0.0379 S33: -0.0312 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 433:538) REMARK 3 ORIGIN FOR THE GROUP (A): 12.8773 -2.7507 -4.1320 REMARK 3 T TENSOR REMARK 3 T11: 0.1496 T22: 0.1466 REMARK 3 T33: 0.0576 T12: -0.0264 REMARK 3 T13: 0.0228 T23: -0.0251 REMARK 3 L TENSOR REMARK 3 L11: 0.6449 L22: 0.6166 REMARK 3 L33: 0.3769 L12: 0.1439 REMARK 3 L13: 0.1009 L23: 0.0607 REMARK 3 S TENSOR REMARK 3 S11: -0.0748 S12: 0.1663 S13: -0.0549 REMARK 3 S21: -0.2374 S22: 0.0705 S23: -0.0209 REMARK 3 S31: 0.0118 S32: 0.1058 S33: -0.0023 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN B AND RESID 224:300) REMARK 3 ORIGIN FOR THE GROUP (A): 20.0940 -5.9146 23.8699 REMARK 3 T TENSOR REMARK 3 T11: 0.0654 T22: 0.0765 REMARK 3 T33: 0.1040 T12: 0.0008 REMARK 3 T13: -0.0137 T23: 0.0010 REMARK 3 L TENSOR REMARK 3 L11: 0.5205 L22: 0.7407 REMARK 3 L33: 0.3954 L12: 0.2049 REMARK 3 L13: 0.2760 L23: 0.1802 REMARK 3 S TENSOR REMARK 3 S11: 0.0519 S12: 0.0042 S13: -0.0727 REMARK 3 S21: 0.0660 S22: -0.0044 S23: -0.1209 REMARK 3 S31: 0.0461 S32: 0.0769 S33: -0.0417 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN B AND RESID 301:434) REMARK 3 ORIGIN FOR THE GROUP (A): 9.2654 -12.6231 27.6505 REMARK 3 T TENSOR REMARK 3 T11: 0.0944 T22: 0.0643 REMARK 3 T33: 0.1155 T12: -0.0088 REMARK 3 T13: -0.0154 T23: 0.0236 REMARK 3 L TENSOR REMARK 3 L11: 0.8964 L22: 0.7195 REMARK 3 L33: 0.6394 L12: -0.2199 REMARK 3 L13: 0.1940 L23: -0.0990 REMARK 3 S TENSOR REMARK 3 S11: 0.0325 S12: -0.0862 S13: -0.2180 REMARK 3 S21: 0.0704 S22: 0.0317 S23: 0.0270 REMARK 3 S31: 0.1089 S32: -0.0319 S33: -0.0695 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN B AND RESID 435:538) REMARK 3 ORIGIN FOR THE GROUP (A): 33.7948 2.2971 22.8082 REMARK 3 T TENSOR REMARK 3 T11: 0.0564 T22: 0.1250 REMARK 3 T33: 0.1772 T12: -0.0100 REMARK 3 T13: -0.0056 T23: -0.0351 REMARK 3 L TENSOR REMARK 3 L11: 0.4103 L22: 0.8804 REMARK 3 L33: 0.5969 L12: 0.1965 REMARK 3 L13: 0.2491 L23: 0.2445 REMARK 3 S TENSOR REMARK 3 S11: 0.0240 S12: 0.0797 S13: -0.0902 REMARK 3 S21: 0.0187 S22: 0.0725 S23: -0.3396 REMARK 3 S31: -0.0406 S32: 0.1754 S33: -0.0927 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN L) REMARK 3 ORIGIN FOR THE GROUP (A): 1.7077 5.1254 41.1842 REMARK 3 T TENSOR REMARK 3 T11: 0.3875 T22: 0.3383 REMARK 3 T33: 0.2655 T12: -0.0801 REMARK 3 T13: -0.0884 T23: 0.0658 REMARK 3 L TENSOR REMARK 3 L11: 5.3641 L22: 3.0495 REMARK 3 L33: 4.4793 L12: 2.5997 REMARK 3 L13: 2.9843 L23: 2.2892 REMARK 3 S TENSOR REMARK 3 S11: -0.3116 S12: 0.3477 S13: 0.0926 REMARK 3 S21: -0.1251 S22: 0.4326 S23: 0.0831 REMARK 3 S31: 0.2388 S32: -0.0048 S33: -0.0813 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 3Q38 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-DEC-10. REMARK 100 THE DEPOSITION ID IS D_1000063137. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-AUG-10 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 178400 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.280 REMARK 200 RESOLUTION RANGE LOW (A) : 29.038 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04100 REMARK 200 FOR THE DATA SET : 18.9200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.28 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.72500 REMARK 200 FOR SHELL : 2.140 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER (2.1.4) REMARK 200 STARTING MODEL: PDB ENTRY 3ONU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M IMIDAZOLE, 8.25% (W/V) PEG 8000, REMARK 280 1% (V/V) MPD, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K, REMARK 280 PH 6.5 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 39.51400 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 220 REMARK 465 PRO A 221 REMARK 465 GLY A 222 REMARK 465 SER A 223 REMARK 465 GLY B 220 REMARK 465 PRO B 221 REMARK 465 GLY B 222 REMARK 465 SER B 223 REMARK 465 VAL B 346 REMARK 465 PRO B 347 REMARK 465 GLY B 348 REMARK 465 GLU B 349 REMARK 465 GLY B 350 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 ASN B 344 CG OD1 ND2 REMARK 470 THR B 345 OG1 CG2 REMARK 470 ASN B 351 CG OD1 ND2 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 A 341 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 241 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 287 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG B 341 NE - CZ - NH2 ANGL. DEV. = -3.8 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 ASN A 252 75.78 -152.29 REMARK 500 GLN A 260 46.63 -149.90 REMARK 500 THR A 291 -66.27 -95.71 REMARK 500 ALA A 323 169.17 179.95 REMARK 500 GLN A 384 -22.14 -144.70 REMARK 500 VAL A 529 -158.17 -123.26 REMARK 500 ASN B 252 77.72 -155.45 REMARK 500 GLN B 260 49.20 -148.91 REMARK 500 HIS B 298 -69.61 -102.70 REMARK 500 GLN B 384 -28.82 -140.82 REMARK 500 VAL B 529 -153.52 -126.74 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3R6J RELATED DB: PDB REMARK 900 RELATED ID: 3R6K RELATED DB: PDB REMARK 900 RELATED ID: 3PA1 RELATED DB: PDB REMARK 900 RELATED ID: 3PA2 RELATED DB: PDB REMARK 900 RELATED ID: 3Q39 RELATED DB: PDB REMARK 900 RELATED ID: 3Q3A RELATED DB: PDB REMARK 900 RELATED ID: 3Q6Q RELATED DB: PDB REMARK 900 RELATED ID: 3Q6R RELATED DB: PDB REMARK 900 RELATED ID: 3ONY RELATED DB: PDB REMARK 900 RELATED ID: 3ONU RELATED DB: PDB DBREF 3Q38 A 224 538 UNP Q5F4T5 Q5F4T5_9CALI 224 538 DBREF 3Q38 B 224 538 UNP Q5F4T5 Q5F4T5_9CALI 224 538 SEQADV 3Q38 GLY A 220 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q38 PRO A 221 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q38 GLY A 222 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q38 SER A 223 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q38 GLY B 220 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q38 PRO B 221 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q38 GLY B 222 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q38 SER B 223 UNP Q5F4T5 EXPRESSION TAG SEQRES 1 A 319 GLY PRO GLY SER SER LYS PRO PHE THR LEU PRO ILE LEU SEQRES 2 A 319 THR LEU GLY GLU LEU THR ASN SER ARG PHE PRO LEU PRO SEQRES 3 A 319 ILE ASP VAL LEU TYR THR ASN PRO ASN GLU SER ALA ILE SEQRES 4 A 319 VAL GLN CYS GLN ASN GLY ARG CYS THR LEU ASP GLY GLU SEQRES 5 A 319 LEU GLN GLY THR THR GLN LEU LEU PRO THR GLY ILE CYS SEQRES 6 A 319 ALA PHE ARG GLY LYS VAL THR GLN GLN VAL GLN ASP GLU SEQRES 7 A 319 HIS ARG GLY THR HIS TRP ASN MET THR VAL THR ASN LEU SEQRES 8 A 319 ASN GLY THR PRO PHE ASP PRO THR GLU ASP VAL PRO ALA SEQRES 9 A 319 PRO LEU GLY THR PRO ASP PHE SER GLY GLN ILE TYR GLY SEQRES 10 A 319 VAL ILE SER GLN ARG ASN THR ASN THR VAL PRO GLY GLU SEQRES 11 A 319 GLY ASN LEU PRO ALA ASN ARG ALA HIS GLU ALA VAL ILE SEQRES 12 A 319 ALA THR TYR SER PRO LYS PHE THR PRO LYS LEU GLY ASN SEQRES 13 A 319 ILE GLN PHE SER THR TRP GLU THR GLN ASP VAL SER SER SEQRES 14 A 319 GLY GLN PRO THR LYS PHE THR PRO VAL GLY LEU ALA SER SEQRES 15 A 319 VAL ASP ALA ASN SER HIS PHE ASP GLN TRP THR LEU PRO SEQRES 16 A 319 SER TYR SER GLY ALA LEU THR LEU ASN MET ASN LEU ALA SEQRES 17 A 319 PRO SER VAL ALA PRO VAL PHE PRO GLY GLU CYS LEU LEU SEQRES 18 A 319 PHE PHE ARG SER PHE ILE PRO LEU LYS GLY GLY TYR GLY SEQRES 19 A 319 ASN PRO ALA ILE ASP CYS LEU MET PRO GLN GLU TRP VAL SEQRES 20 A 319 GLN HIS LEU TYR GLN GLU SER ALA PRO SER LEU SER ASP SEQRES 21 A 319 VAL ALA LEU VAL ARG TYR VAL ASN PRO GLU THR GLY ARG SEQRES 22 A 319 THR LEU PHE GLU ALA LYS LEU HIS ARG ASN GLY PHE LEU SEQRES 23 A 319 THR VAL ALA ARG ASN SER ALA GLY PRO VAL VAL ALA PRO SEQRES 24 A 319 THR ASN GLY TYR PHE ARG PHE ASP SER TRP VAL ASN GLN SEQRES 25 A 319 PHE TYR THR LEU ALA PRO MET SEQRES 1 B 319 GLY PRO GLY SER SER LYS PRO PHE THR LEU PRO ILE LEU SEQRES 2 B 319 THR LEU GLY GLU LEU THR ASN SER ARG PHE PRO LEU PRO SEQRES 3 B 319 ILE ASP VAL LEU TYR THR ASN PRO ASN GLU SER ALA ILE SEQRES 4 B 319 VAL GLN CYS GLN ASN GLY ARG CYS THR LEU ASP GLY GLU SEQRES 5 B 319 LEU GLN GLY THR THR GLN LEU LEU PRO THR GLY ILE CYS SEQRES 6 B 319 ALA PHE ARG GLY LYS VAL THR GLN GLN VAL GLN ASP GLU SEQRES 7 B 319 HIS ARG GLY THR HIS TRP ASN MET THR VAL THR ASN LEU SEQRES 8 B 319 ASN GLY THR PRO PHE ASP PRO THR GLU ASP VAL PRO ALA SEQRES 9 B 319 PRO LEU GLY THR PRO ASP PHE SER GLY GLN ILE TYR GLY SEQRES 10 B 319 VAL ILE SER GLN ARG ASN THR ASN THR VAL PRO GLY GLU SEQRES 11 B 319 GLY ASN LEU PRO ALA ASN ARG ALA HIS GLU ALA VAL ILE SEQRES 12 B 319 ALA THR TYR SER PRO LYS PHE THR PRO LYS LEU GLY ASN SEQRES 13 B 319 ILE GLN PHE SER THR TRP GLU THR GLN ASP VAL SER SER SEQRES 14 B 319 GLY GLN PRO THR LYS PHE THR PRO VAL GLY LEU ALA SER SEQRES 15 B 319 VAL ASP ALA ASN SER HIS PHE ASP GLN TRP THR LEU PRO SEQRES 16 B 319 SER TYR SER GLY ALA LEU THR LEU ASN MET ASN LEU ALA SEQRES 17 B 319 PRO SER VAL ALA PRO VAL PHE PRO GLY GLU CYS LEU LEU SEQRES 18 B 319 PHE PHE ARG SER PHE ILE PRO LEU LYS GLY GLY TYR GLY SEQRES 19 B 319 ASN PRO ALA ILE ASP CYS LEU MET PRO GLN GLU TRP VAL SEQRES 20 B 319 GLN HIS LEU TYR GLN GLU SER ALA PRO SER LEU SER ASP SEQRES 21 B 319 VAL ALA LEU VAL ARG TYR VAL ASN PRO GLU THR GLY ARG SEQRES 22 B 319 THR LEU PHE GLU ALA LYS LEU HIS ARG ASN GLY PHE LEU SEQRES 23 B 319 THR VAL ALA ARG ASN SER ALA GLY PRO VAL VAL ALA PRO SEQRES 24 B 319 THR ASN GLY TYR PHE ARG PHE ASP SER TRP VAL ASN GLN SEQRES 25 B 319 PHE TYR THR LEU ALA PRO MET HET GAL C 1 12 HET FUC C 2 10 HET GLA C 3 11 HET EDO A 854 4 HET EDO A 4 4 HET EDO A 6 8 HET EDO A 7 4 HET EDO A 10 4 HET EDO A 11 4 HET EDO A 14 4 HET EDO A 16 4 HET EDO A 18 4 HET EDO A 22 4 HET IMD A 24 5 HET IMD A 27 5 HET EDO B 1 4 HET EDO B 8 4 HET EDO B 9 4 HET EDO B 12 4 HET EDO B 13 4 HET EDO B 15 4 HET EDO B 17 4 HET EDO B 19 4 HET EDO B 21 4 HET IMD B 23 5 HET IMD B 25 5 HET IMD B 26 5 HET IMD B 28 5 HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM GLA ALPHA-D-GALACTOPYRANOSE HETNAM EDO 1,2-ETHANEDIOL HETNAM IMD IMIDAZOLE HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE HETSYN GLA ALPHA-D-GALACTOSE; D-GALACTOSE; GALACTOSE; ALPHA D- HETSYN 2 GLA GALACTOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 GAL C6 H12 O6 FORMUL 3 FUC C6 H12 O5 FORMUL 3 GLA C6 H12 O6 FORMUL 4 EDO 19(C2 H6 O2) FORMUL 14 IMD 6(C3 H5 N2 1+) FORMUL 29 HOH *825(H2 O) HELIX 1 1 THR A 233 LEU A 237 5 5 HELIX 2 2 LEU A 279 ILE A 283 5 5 HELIX 3 3 VAL A 346 GLY A 350 5 5 HELIX 4 4 THR A 370 LEU A 373 5 4 HELIX 5 5 ASP A 403 HIS A 407 5 5 HELIX 6 6 PRO A 462 SER A 473 1 12 HELIX 7 7 THR B 233 LEU B 237 5 5 HELIX 8 8 LEU B 279 ILE B 283 5 5 HELIX 9 9 THR B 370 LEU B 373 5 4 HELIX 10 10 ASP B 403 HIS B 407 5 5 HELIX 11 11 PRO B 462 SER B 473 1 12 SHEET 1 A 4 ALA A 456 CYS A 459 0 SHEET 2 A 4 GLU A 437 PHE A 445 -1 N PHE A 442 O CYS A 459 SHEET 3 A 4 VAL A 248 THR A 251 -1 N TYR A 250 O PHE A 441 SHEET 4 A 4 GLY A 513 VAL A 515 -1 O GLY A 513 N THR A 251 SHEET 1 B 6 ALA A 456 CYS A 459 0 SHEET 2 B 6 GLU A 437 PHE A 445 -1 N PHE A 442 O CYS A 459 SHEET 3 B 6 PHE A 504 ALA A 508 -1 O VAL A 507 N CYS A 438 SHEET 4 B 6 THR A 493 HIS A 500 -1 N HIS A 500 O PHE A 504 SHEET 5 B 6 VAL A 480 VAL A 486 -1 N TYR A 485 O LEU A 494 SHEET 6 B 6 TYR A 522 VAL A 529 -1 O SER A 527 N LEU A 482 SHEET 1 C 8 GLY B 450 TYR B 452 0 SHEET 2 C 8 ALA A 354 ALA A 363 -1 N ASN A 355 O GLY B 451 SHEET 3 C 8 ASN A 375 THR A 380 -1 O SER A 379 N VAL A 361 SHEET 4 C 8 THR A 301 VAL A 307 -1 N MET A 305 O ILE A 376 SHEET 5 C 8 PHE A 286 VAL A 294 -1 N THR A 291 O ASN A 304 SHEET 6 C 8 PRO A 391 LEU A 399 -1 O THR A 392 N GLY A 288 SHEET 7 C 8 GLN A 333 ARG A 341 -1 N TYR A 335 O VAL A 397 SHEET 8 C 8 ALA A 354 ALA A 363 -1 O ILE A 362 N ILE A 334 SHEET 1 D 8 GLY A 450 TYR A 452 0 SHEET 2 D 8 ALA B 354 ALA B 363 -1 O ASN B 355 N GLY A 451 SHEET 3 D 8 ASN B 375 THR B 380 -1 O SER B 379 N VAL B 361 SHEET 4 D 8 THR B 301 VAL B 307 -1 N MET B 305 O ILE B 376 SHEET 5 D 8 PHE B 286 GLN B 295 -1 N LYS B 289 O THR B 306 SHEET 6 D 8 PRO B 391 LEU B 399 -1 O PHE B 394 N PHE B 286 SHEET 7 D 8 GLN B 333 ARG B 341 -1 N VAL B 337 O THR B 395 SHEET 8 D 8 ALA B 354 ALA B 363 -1 O ILE B 362 N ILE B 334 SHEET 1 E 4 ALA B 456 CYS B 459 0 SHEET 2 E 4 GLU B 437 PHE B 445 -1 N PHE B 442 O CYS B 459 SHEET 3 E 4 VAL B 248 THR B 251 -1 N VAL B 248 O ARG B 443 SHEET 4 E 4 GLY B 513 PRO B 514 -1 O GLY B 513 N THR B 251 SHEET 1 F 6 ALA B 456 CYS B 459 0 SHEET 2 F 6 GLU B 437 PHE B 445 -1 N PHE B 442 O CYS B 459 SHEET 3 F 6 PHE B 504 ALA B 508 -1 O VAL B 507 N CYS B 438 SHEET 4 F 6 THR B 493 HIS B 500 -1 N HIS B 500 O PHE B 504 SHEET 5 F 6 VAL B 480 VAL B 486 -1 N ALA B 481 O LEU B 499 SHEET 6 F 6 TYR B 522 VAL B 529 -1 O SER B 527 N LEU B 482 LINK O2 GAL C 1 C1 FUC C 2 1555 1555 1.44 LINK O3 GAL C 1 C1 GLA C 3 1555 1555 1.44 CRYST1 65.227 79.028 69.637 90.00 99.84 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 0.015331 0.000000 0.002659 0.00000 SCALE2 0.000000 0.012654 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014575 0.00000