HEADER VIRAL PROTEIN 21-DEC-10 3Q39 TITLE CRYSTAL STRUCTURE OF P DOMAIN FROM NORWALK VIRUS STRAIN VIETNAM 026 IN TITLE 2 COMPLEX WITH HBGA TYPE H2 (DIGLYCAN) 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 3 29-JUL-20 3Q39 1 COMPND REMARK SEQADV HETNAM REVDAT 3 2 1 LINK SITE ATOM REVDAT 2 02-NOV-11 3Q39 1 JRNL VERSN REVDAT 1 11-MAY-11 3Q39 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. 1.25 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) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.24 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 190020 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.182 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 9556 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 28.2475 - 3.8808 0.99 6134 307 0.1644 0.1710 REMARK 3 2 3.8808 - 3.0815 1.00 6074 317 0.1606 0.1766 REMARK 3 3 3.0815 - 2.6923 1.00 6049 309 0.1723 0.1851 REMARK 3 4 2.6923 - 2.4463 1.00 6059 311 0.1658 0.1695 REMARK 3 5 2.4463 - 2.2711 1.00 5987 348 0.1572 0.1763 REMARK 3 6 2.2711 - 2.1372 1.00 6042 321 0.1579 0.1700 REMARK 3 7 2.1372 - 2.0302 1.00 6017 296 0.1493 0.1600 REMARK 3 8 2.0302 - 1.9419 1.00 6047 310 0.1532 0.1677 REMARK 3 9 1.9419 - 1.8671 1.00 6008 337 0.1558 0.1770 REMARK 3 10 1.8671 - 1.8027 1.00 5986 331 0.1492 0.1537 REMARK 3 11 1.8027 - 1.7464 1.00 5998 322 0.1487 0.1708 REMARK 3 12 1.7464 - 1.6964 1.00 6045 282 0.1504 0.1537 REMARK 3 13 1.6964 - 1.6518 1.00 6017 336 0.1537 0.1664 REMARK 3 14 1.6518 - 1.6115 1.00 5971 336 0.1575 0.1915 REMARK 3 15 1.6115 - 1.5749 1.00 6029 321 0.1539 0.1860 REMARK 3 16 1.5749 - 1.5413 1.00 6004 306 0.1557 0.1695 REMARK 3 17 1.5413 - 1.5105 1.00 6010 324 0.1595 0.1765 REMARK 3 18 1.5105 - 1.4820 1.00 5953 339 0.1675 0.1991 REMARK 3 19 1.4820 - 1.4555 1.00 6027 341 0.1776 0.1823 REMARK 3 20 1.4555 - 1.4309 1.00 6008 318 0.1828 0.2150 REMARK 3 21 1.4309 - 1.4078 1.00 5976 333 0.1892 0.2293 REMARK 3 22 1.4078 - 1.3861 1.00 5989 315 0.1909 0.1897 REMARK 3 23 1.3861 - 1.3657 1.00 6045 294 0.1966 0.2111 REMARK 3 24 1.3657 - 1.3465 1.00 5981 334 0.2083 0.2343 REMARK 3 25 1.3465 - 1.3283 1.00 5992 300 0.2168 0.2218 REMARK 3 26 1.3283 - 1.3111 1.00 5979 320 0.2190 0.2359 REMARK 3 27 1.3111 - 1.2947 1.00 6060 275 0.2291 0.2429 REMARK 3 28 1.2947 - 1.2791 1.00 5985 349 0.2453 0.2638 REMARK 3 29 1.2791 - 1.2642 1.00 6020 309 0.2580 0.2563 REMARK 3 30 1.2642 - 1.2500 1.00 5972 315 0.2936 0.2827 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.36 REMARK 3 B_SOL : 43.18 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.670 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 9.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.68860 REMARK 3 B22 (A**2) : -0.31990 REMARK 3 B33 (A**2) : 1.00850 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.67780 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 : 0.018 5117 REMARK 3 ANGLE : 1.758 6961 REMARK 3 CHIRALITY : 0.121 773 REMARK 3 PLANARITY : 0.011 915 REMARK 3 DIHEDRAL : 13.021 1842 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): 8.3325 7.3694 10.1865 REMARK 3 T TENSOR REMARK 3 T11: 0.0742 T22: 0.0700 REMARK 3 T33: 0.0562 T12: -0.0046 REMARK 3 T13: 0.0021 T23: 0.0029 REMARK 3 L TENSOR REMARK 3 L11: 0.3444 L22: 0.5245 REMARK 3 L33: 0.9101 L12: -0.0105 REMARK 3 L13: 0.0499 L23: 0.0150 REMARK 3 S TENSOR REMARK 3 S11: -0.0009 S12: 0.0715 S13: 0.0184 REMARK 3 S21: -0.0513 S22: -0.0026 S23: 0.0483 REMARK 3 S31: -0.0662 S32: 0.0425 S33: -0.0055 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 308:432) REMARK 3 ORIGIN FOR THE GROUP (A): 3.7839 13.3440 19.3890 REMARK 3 T TENSOR REMARK 3 T11: 0.0708 T22: 0.0274 REMARK 3 T33: 0.0518 T12: 0.0120 REMARK 3 T13: 0.0115 T23: -0.0031 REMARK 3 L TENSOR REMARK 3 L11: 0.7325 L22: 0.9397 REMARK 3 L33: 1.0637 L12: 0.0621 REMARK 3 L13: -0.0712 L23: -0.3647 REMARK 3 S TENSOR REMARK 3 S11: 0.0066 S12: -0.0191 S13: 0.0907 REMARK 3 S21: 0.0958 S22: 0.0409 S23: 0.0463 REMARK 3 S31: -0.1813 S32: -0.0452 S33: -0.0462 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 433:538) REMARK 3 ORIGIN FOR THE GROUP (A): 12.8254 -2.2279 -4.2476 REMARK 3 T TENSOR REMARK 3 T11: 0.1204 T22: 0.1296 REMARK 3 T33: 0.0328 T12: -0.0159 REMARK 3 T13: 0.0172 T23: -0.0193 REMARK 3 L TENSOR REMARK 3 L11: 0.7182 L22: 0.6024 REMARK 3 L33: 0.3589 L12: 0.1524 REMARK 3 L13: -0.0024 L23: -0.0150 REMARK 3 S TENSOR REMARK 3 S11: -0.0662 S12: 0.1689 S13: -0.0574 REMARK 3 S21: -0.2289 S22: 0.0499 S23: -0.0130 REMARK 3 S31: 0.0355 S32: 0.0982 S33: 0.0074 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN B AND RESID 224:300) REMARK 3 ORIGIN FOR THE GROUP (A): 20.2812 -6.1711 23.6406 REMARK 3 T TENSOR REMARK 3 T11: 0.0587 T22: 0.0726 REMARK 3 T33: 0.0873 T12: 0.0006 REMARK 3 T13: -0.0115 T23: 0.0018 REMARK 3 L TENSOR REMARK 3 L11: 0.5060 L22: 0.6887 REMARK 3 L33: 0.3739 L12: 0.0516 REMARK 3 L13: 0.2585 L23: 0.2213 REMARK 3 S TENSOR REMARK 3 S11: 0.0330 S12: 0.0038 S13: -0.0634 REMARK 3 S21: 0.0595 S22: -0.0016 S23: -0.1140 REMARK 3 S31: 0.0342 S32: 0.0747 S33: -0.0275 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN B AND RESID 301:434) REMARK 3 ORIGIN FOR THE GROUP (A): 9.6391 -12.7419 27.7217 REMARK 3 T TENSOR REMARK 3 T11: 0.0746 T22: 0.0485 REMARK 3 T33: 0.0913 T12: -0.0060 REMARK 3 T13: -0.0082 T23: 0.0215 REMARK 3 L TENSOR REMARK 3 L11: 0.8792 L22: 0.6587 REMARK 3 L33: 0.6376 L12: -0.1476 REMARK 3 L13: 0.1618 L23: -0.0885 REMARK 3 S TENSOR REMARK 3 S11: 0.0160 S12: -0.0839 S13: -0.1905 REMARK 3 S21: 0.0712 S22: 0.0297 S23: 0.0269 REMARK 3 S31: 0.0905 S32: -0.0248 S33: -0.0494 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN B AND RESID 435:538) REMARK 3 ORIGIN FOR THE GROUP (A): 33.7423 2.1759 22.6227 REMARK 3 T TENSOR REMARK 3 T11: 0.0534 T22: 0.1252 REMARK 3 T33: 0.1568 T12: -0.0073 REMARK 3 T13: -0.0035 T23: -0.0301 REMARK 3 L TENSOR REMARK 3 L11: 0.3853 L22: 0.8127 REMARK 3 L33: 0.4934 L12: 0.1424 REMARK 3 L13: 0.1814 L23: 0.2322 REMARK 3 S TENSOR REMARK 3 S11: 0.0246 S12: 0.0558 S13: -0.0484 REMARK 3 S21: 0.0249 S22: 0.0713 S23: -0.3025 REMARK 3 S31: -0.0367 S32: 0.1664 S33: -0.0904 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN L) REMARK 3 ORIGIN FOR THE GROUP (A): 3.0995 4.8095 41.6191 REMARK 3 T TENSOR REMARK 3 T11: 0.3919 T22: 0.3693 REMARK 3 T33: 0.3321 T12: -0.0521 REMARK 3 T13: -0.0372 T23: 0.0035 REMARK 3 L TENSOR REMARK 3 L11: 0.0927 L22: 0.0169 REMARK 3 L33: 0.0646 L12: 0.0386 REMARK 3 L13: -0.0709 L23: -0.0308 REMARK 3 S TENSOR REMARK 3 S11: -0.0190 S12: 0.0491 S13: 0.0218 REMARK 3 S21: -0.0208 S22: 0.0569 S23: -0.0159 REMARK 3 S31: 0.0501 S32: -0.0816 S33: -0.0315 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 3Q39 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_1000063138. 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 : 190028 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 28.240 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05200 REMARK 200 FOR THE DATA SET : 16.1200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.67400 REMARK 200 FOR SHELL : 2.330 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 (%): 51.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M IMIDAZOL PH 6.5, 8.25% (W/V) PEG REMARK 280 8000, 1% (V/V) MPD, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 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 39.38400 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 300 REMARK: ASYMMETRIC UNIT IS ALSO BIOLOGICAL UNIT. 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: 3640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 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 ASN B 344 REMARK 465 THR B 345 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 465 ASN B 351 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 A 94 O HOH A 1014 2.13 REMARK 500 O HOH A 957 O HOH A 1098 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1020 O HOH A 1054 1556 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 341 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 356 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP A 409 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG B 241 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG B 287 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG B 287 NE - CZ - NH2 ANGL. DEV. = -8.7 DEGREES REMARK 500 ARG B 341 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG B 341 NE - CZ - NH2 ANGL. DEV. = -5.1 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 76.20 -154.84 REMARK 500 GLN A 260 49.97 -150.15 REMARK 500 GLN A 384 -26.86 -143.40 REMARK 500 LEU A 420 6.72 81.81 REMARK 500 VAL A 529 -157.52 -124.12 REMARK 500 ASN B 252 77.09 -153.94 REMARK 500 GLN B 260 47.70 -149.41 REMARK 500 GLN B 384 -30.33 -140.82 REMARK 500 VAL B 529 -148.57 -122.82 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: 3Q38 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 3Q39 A 224 538 UNP Q5F4T5 Q5F4T5_9CALI 224 538 DBREF 3Q39 B 224 538 UNP Q5F4T5 Q5F4T5_9CALI 224 538 SEQADV 3Q39 GLY A 220 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q39 PRO A 221 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q39 GLY A 222 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q39 SER A 223 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q39 GLY B 220 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q39 PRO B 221 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q39 GLY B 222 UNP Q5F4T5 EXPRESSION TAG SEQADV 3Q39 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 EDO A 854 4 HET EDO A 3 4 HET EDO A 4 4 HET EDO A 6 4 HET EDO A 7 4 HET EDO A 8 4 HET EDO A 10 4 HET EDO A 12 4 HET EDO A 13 4 HET EDO A 17 8 HET EDO A 19 4 HET EDO A 21 4 HET EDO A 22 4 HET IMD A 24 5 HET IMD A 25 5 HET EDO B 1 4 HET EDO B 5 4 HET EDO B 9 4 HET EDO B 11 4 HET EDO B 14 4 HET EDO B 15 4 HET EDO B 16 4 HET EDO B 18 4 HET EDO B 20 4 HET IMD B 23 5 HET IMD B 26 5 HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM EDO 1,2-ETHANEDIOL HETNAM IMD IMIDAZOLE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 GAL C6 H12 O6 FORMUL 3 FUC C6 H12 O5 FORMUL 4 EDO 22(C2 H6 O2) FORMUL 17 IMD 4(C3 H5 N2 1+) FORMUL 30 HOH *803(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 SER A 444 O ILE A 457 SHEET 3 A 4 VAL A 248 THR A 251 -1 N VAL A 248 O ARG A 443 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 SER A 444 O ILE A 457 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 GLY B 300 VAL B 307 -1 N MET B 305 O ILE B 376 SHEET 5 D 8 PHE B 286 ASP B 296 -1 N VAL B 294 O HIS B 302 SHEET 6 D 8 PRO B 391 LEU B 399 -1 O THR B 392 N GLY B 288 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 SER B 444 O ILE B 457 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 SER B 444 O ILE B 457 SHEET 3 F 6 PHE B 504 ALA B 508 -1 O VAL B 507 N CYS B 438 SHEET 4 F 6 ARG B 492 HIS B 500 -1 N HIS B 500 O PHE B 504 SHEET 5 F 6 VAL B 480 ASN B 487 -1 N ALA B 481 O LEU B 499 SHEET 6 F 6 TYR B 522 VAL B 529 -1 O ASP B 526 N LEU B 482 LINK O2 GAL C 1 C1 FUC C 2 1555 1555 1.45 CRYST1 65.117 78.768 69.490 90.00 99.93 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 0.015357 0.000000 0.002688 0.00000 SCALE2 0.000000 0.012696 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014609 0.00000 MASTER 437 0 28 11 36 0 0 6 0 0 0 50 END