HEADER VIRAL PROTEIN 25-MAY-17 5VYH TITLE CRYSTAL STRUCTURE OF MERS-COV S1 N-TERMINAL DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: S PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN (UNP RESIDUES 18-353); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MIDDLE EAST RESPIRATORY SYNDROME-RELATED SOURCE 3 CORONAVIRUS; SOURCE 4 ORGANISM_TAXID: 1335626; 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; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PAH KEYWDS FUSION GLYCOPROTEIN, VIRUS, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR N.WANG,D.WRAPP,J.PALLESEN,A.B.WARD,J.S.MCLELLAN REVDAT 7 03-APR-24 5VYH 1 REMARK REVDAT 6 24-MAR-21 5VYH 1 SOURCE HETSYN REVDAT 5 29-JUL-20 5VYH 1 COMPND REMARK HETNAM LINK REVDAT 5 2 1 SITE REVDAT 4 11-DEC-19 5VYH 1 REMARK REVDAT 3 27-SEP-17 5VYH 1 REMARK REVDAT 2 20-SEP-17 5VYH 1 JRNL REVDAT 1 30-AUG-17 5VYH 0 JRNL AUTH J.PALLESEN,N.WANG,K.S.CORBETT,D.WRAPP,R.N.KIRCHDOERFER, JRNL AUTH 2 H.L.TURNER,C.A.COTTRELL,M.M.BECKER,L.WANG,W.SHI,W.P.KONG, JRNL AUTH 3 E.L.ANDRES,A.N.KETTENBACH,M.R.DENISON,J.D.CHAPPELL, JRNL AUTH 4 B.S.GRAHAM,A.B.WARD,J.S.MCLELLAN JRNL TITL IMMUNOGENICITY AND STRUCTURES OF A RATIONALLY DESIGNED JRNL TITL 2 PREFUSION MERS-COV SPIKE ANTIGEN. JRNL REF PROC. NATL. ACAD. SCI. V. 114 E7348 2017 JRNL REF 2 U.S.A. JRNL REFN ESSN 1091-6490 JRNL PMID 28807998 JRNL DOI 10.1073/PNAS.1707304114 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10.1_2155 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.48 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 31250 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1564 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 45.4936 - 4.4468 1.00 2883 165 0.1779 0.1800 REMARK 3 2 4.4468 - 3.5300 1.00 2773 141 0.1597 0.2066 REMARK 3 3 3.5300 - 3.0839 1.00 2744 139 0.1823 0.2026 REMARK 3 4 3.0839 - 2.8020 1.00 2731 127 0.1939 0.2541 REMARK 3 5 2.8020 - 2.6012 1.00 2704 138 0.1956 0.2098 REMARK 3 6 2.6012 - 2.4478 1.00 2691 150 0.2038 0.2385 REMARK 3 7 2.4478 - 2.3252 1.00 2696 145 0.1997 0.2270 REMARK 3 8 2.3252 - 2.2240 1.00 2692 135 0.2103 0.2578 REMARK 3 9 2.2240 - 2.1384 1.00 2669 142 0.2178 0.2593 REMARK 3 10 2.1384 - 2.0646 0.99 2647 143 0.2322 0.2890 REMARK 3 11 2.0646 - 2.0001 0.93 2456 139 0.2518 0.2913 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.860 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.77 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 : 0.004 2949 REMARK 3 ANGLE : 0.765 4027 REMARK 3 CHIRALITY : 0.053 448 REMARK 3 PLANARITY : 0.004 511 REMARK 3 DIHEDRAL : 12.196 1675 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 18 THROUGH 52 ) REMARK 3 ORIGIN FOR THE GROUP (A): 33.8239 46.0729 75.9047 REMARK 3 T TENSOR REMARK 3 T11: 0.2489 T22: 0.2056 REMARK 3 T33: 0.1913 T12: 0.0027 REMARK 3 T13: 0.0021 T23: 0.0088 REMARK 3 L TENSOR REMARK 3 L11: 0.1347 L22: 2.2145 REMARK 3 L33: 2.7701 L12: 0.4319 REMARK 3 L13: 0.5408 L23: 2.3379 REMARK 3 S TENSOR REMARK 3 S11: -0.0763 S12: -0.1455 S13: 0.0905 REMARK 3 S21: -0.0161 S22: 0.2384 S23: -0.2484 REMARK 3 S31: -0.2173 S32: 0.2062 S33: -0.1741 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 53 THROUGH 85 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.7085 27.7853 56.6749 REMARK 3 T TENSOR REMARK 3 T11: 0.0804 T22: 0.1751 REMARK 3 T33: 0.1718 T12: 0.0055 REMARK 3 T13: -0.0036 T23: 0.0104 REMARK 3 L TENSOR REMARK 3 L11: 0.3913 L22: 2.2938 REMARK 3 L33: 3.6860 L12: -0.2238 REMARK 3 L13: -0.3529 L23: 2.3951 REMARK 3 S TENSOR REMARK 3 S11: -0.1483 S12: -0.0264 S13: -0.0625 REMARK 3 S21: -0.1458 S22: 0.0215 S23: 0.0006 REMARK 3 S31: -0.2629 S32: -0.0837 S33: 0.0570 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 86 THROUGH 120 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.6918 46.5962 75.3442 REMARK 3 T TENSOR REMARK 3 T11: 0.2001 T22: 0.2004 REMARK 3 T33: 0.1790 T12: 0.0024 REMARK 3 T13: 0.0218 T23: -0.0556 REMARK 3 L TENSOR REMARK 3 L11: 1.0449 L22: 3.4452 REMARK 3 L33: 5.4264 L12: 0.6588 REMARK 3 L13: 1.7250 L23: 2.1007 REMARK 3 S TENSOR REMARK 3 S11: -0.0915 S12: 0.0144 S13: 0.1174 REMARK 3 S21: -0.1260 S22: 0.0976 S23: -0.1500 REMARK 3 S31: -0.6441 S32: 0.2435 S33: 0.0474 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 121 THROUGH 155 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.7903 40.4332 76.9553 REMARK 3 T TENSOR REMARK 3 T11: 0.1803 T22: 0.2496 REMARK 3 T33: 0.1519 T12: 0.0119 REMARK 3 T13: -0.0026 T23: -0.0732 REMARK 3 L TENSOR REMARK 3 L11: 1.9585 L22: 3.8305 REMARK 3 L33: 1.5527 L12: -0.5529 REMARK 3 L13: 0.2155 L23: 0.9860 REMARK 3 S TENSOR REMARK 3 S11: 0.0354 S12: -0.1554 S13: -0.0106 REMARK 3 S21: -0.0531 S22: 0.1542 S23: -0.2976 REMARK 3 S31: -0.0530 S32: 0.3310 S33: -0.1296 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 156 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.0420 51.4701 77.3828 REMARK 3 T TENSOR REMARK 3 T11: 0.3206 T22: 0.2067 REMARK 3 T33: 0.2561 T12: 0.1043 REMARK 3 T13: -0.0724 T23: -0.0568 REMARK 3 L TENSOR REMARK 3 L11: 1.1349 L22: 1.5087 REMARK 3 L33: 1.8338 L12: -0.1246 REMARK 3 L13: 0.5256 L23: 0.6230 REMARK 3 S TENSOR REMARK 3 S11: -0.0408 S12: -0.1590 S13: 0.1956 REMARK 3 S21: -0.0963 S22: -0.1265 S23: 0.1694 REMARK 3 S31: -0.5088 S32: -0.1013 S33: 0.0977 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 214 THROUGH 259 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.7483 39.6147 78.3562 REMARK 3 T TENSOR REMARK 3 T11: 0.1632 T22: 0.2125 REMARK 3 T33: 0.1948 T12: 0.0430 REMARK 3 T13: -0.0182 T23: -0.0373 REMARK 3 L TENSOR REMARK 3 L11: 1.1205 L22: 2.1911 REMARK 3 L33: 2.0040 L12: -0.2615 REMARK 3 L13: -0.1801 L23: 1.6949 REMARK 3 S TENSOR REMARK 3 S11: -0.0649 S12: -0.2223 S13: -0.0510 REMARK 3 S21: 0.1807 S22: -0.0698 S23: 0.2084 REMARK 3 S31: -0.0098 S32: -0.1376 S33: 0.1091 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 260 THROUGH 312 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.6399 36.9460 71.6607 REMARK 3 T TENSOR REMARK 3 T11: 0.1733 T22: 0.1534 REMARK 3 T33: 0.1682 T12: 0.0466 REMARK 3 T13: -0.0415 T23: -0.0209 REMARK 3 L TENSOR REMARK 3 L11: 0.5512 L22: 2.1514 REMARK 3 L33: 1.2509 L12: 0.4561 REMARK 3 L13: -0.0728 L23: 1.4400 REMARK 3 S TENSOR REMARK 3 S11: -0.0067 S12: -0.0629 S13: 0.0703 REMARK 3 S21: -0.0047 S22: -0.0431 S23: 0.1038 REMARK 3 S31: -0.1987 S32: -0.1242 S33: 0.0055 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 313 THROUGH 341 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.3899 26.6655 56.8416 REMARK 3 T TENSOR REMARK 3 T11: 0.0790 T22: 0.1382 REMARK 3 T33: 0.1436 T12: 0.0284 REMARK 3 T13: 0.0230 T23: 0.0279 REMARK 3 L TENSOR REMARK 3 L11: 2.3967 L22: 2.3102 REMARK 3 L33: 4.1417 L12: 0.1105 REMARK 3 L13: 0.5815 L23: 2.9831 REMARK 3 S TENSOR REMARK 3 S11: -0.0425 S12: 0.0282 S13: -0.1192 REMARK 3 S21: 0.1174 S22: 0.0083 S23: 0.0455 REMARK 3 S31: 0.0034 S32: 0.1296 S33: 0.0468 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 342 THROUGH 359 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.4649 21.0336 43.4740 REMARK 3 T TENSOR REMARK 3 T11: 0.0979 T22: 0.2720 REMARK 3 T33: 0.1745 T12: 0.0359 REMARK 3 T13: 0.0241 T23: -0.0246 REMARK 3 L TENSOR REMARK 3 L11: 3.6309 L22: 7.5799 REMARK 3 L33: 5.0431 L12: 2.4464 REMARK 3 L13: -1.0084 L23: -0.3884 REMARK 3 S TENSOR REMARK 3 S11: 0.1048 S12: 0.2074 S13: -0.3193 REMARK 3 S21: 0.0884 S22: -0.0852 S23: 0.1093 REMARK 3 S31: -0.1582 S32: -0.1365 S33: -0.0715 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 5VYH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1000228145. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.18076 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.27 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31311 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 54.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.18600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 0.70000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: EM DENSITY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6.6%(W/V) PEG 8000, 0.99%(V/V) MPD, REMARK 280 0.1M IMIDAZOLE/ HYDROCHLORIC ACID PH 6.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 24.90000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.18500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.90000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.18500 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 GLN A 360 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 PHE A 359 CG CD1 CD2 CE1 CE2 CZ 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 NE2 GLN A 60 O HOH A 501 1.91 REMARK 500 O HOH A 574 O HOH A 850 2.00 REMARK 500 O HOH A 588 O HOH A 812 2.00 REMARK 500 O HOH A 640 O HOH A 720 2.01 REMARK 500 NH1 ARG A 163 O HOH A 502 2.03 REMARK 500 O1 FOL A 409 O HOH A 503 2.09 REMARK 500 O4 NAG A 402 O HOH A 504 2.11 REMARK 500 O HOH A 830 O HOH A 836 2.16 REMARK 500 O HOH A 775 O HOH A 843 2.16 REMARK 500 O HOH A 626 O HOH A 875 2.18 REMARK 500 O HOH A 666 O HOH A 765 2.18 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 519 O HOH A 709 4456 2.05 REMARK 500 O HOH A 607 O HOH A 757 4556 2.16 REMARK 500 O HOH A 857 O HOH A 891 4556 2.18 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 GLN A 98 -133.02 -129.22 REMARK 500 ASN A 104 36.48 -87.19 REMARK 500 ALA A 113 -115.16 60.17 REMARK 500 ASN A 125 -22.57 83.64 REMARK 500 ILE A 131 -63.00 68.34 REMARK 500 ASN A 166 -155.05 58.67 REMARK 500 ASP A 272 53.43 -142.21 REMARK 500 REMARK 500 REMARK: NULL DBREF 5VYH A 18 353 UNP T2B999 T2B999_9BETC 18 353 SEQADV 5VYH GLY A 354 UNP T2B999 EXPRESSION TAG SEQADV 5VYH LEU A 355 UNP T2B999 EXPRESSION TAG SEQADV 5VYH GLU A 356 UNP T2B999 EXPRESSION TAG SEQADV 5VYH VAL A 357 UNP T2B999 EXPRESSION TAG SEQADV 5VYH LEU A 358 UNP T2B999 EXPRESSION TAG SEQADV 5VYH PHE A 359 UNP T2B999 EXPRESSION TAG SEQADV 5VYH GLN A 360 UNP T2B999 EXPRESSION TAG SEQRES 1 A 343 TYR VAL ASP VAL GLY PRO ASP SER VAL LYS SER ALA CYS SEQRES 2 A 343 ILE GLU VAL ASP ILE GLN GLN THR PHE PHE ASP LYS THR SEQRES 3 A 343 TRP PRO ARG PRO ILE ASP VAL SER LYS ALA ASP GLY ILE SEQRES 4 A 343 ILE TYR PRO GLN GLY ARG THR TYR SER ASN ILE THR ILE SEQRES 5 A 343 THR TYR GLN GLY LEU PHE PRO TYR GLN GLY ASP HIS GLY SEQRES 6 A 343 ASP MET TYR VAL TYR SER ALA GLY HIS ALA THR GLY THR SEQRES 7 A 343 THR PRO GLN LYS LEU PHE VAL ALA ASN TYR SER GLN ASP SEQRES 8 A 343 VAL LYS GLN PHE ALA ASN GLY PHE VAL VAL ARG ILE GLY SEQRES 9 A 343 ALA ALA ALA ASN SER THR GLY THR VAL ILE ILE SER PRO SEQRES 10 A 343 SER THR SER ALA THR ILE ARG LYS ILE TYR PRO ALA PHE SEQRES 11 A 343 MET LEU GLY SER SER VAL GLY ASN PHE SER ASP GLY LYS SEQRES 12 A 343 MET GLY ARG PHE PHE ASN HIS THR LEU VAL LEU LEU PRO SEQRES 13 A 343 ASP GLY CYS GLY THR LEU LEU ARG ALA PHE TYR CYS ILE SEQRES 14 A 343 LEU GLU PRO ARG SER GLY ASN HIS CYS PRO ALA GLY ASN SEQRES 15 A 343 SER TYR THR SER PHE ALA THR TYR HIS THR PRO ALA THR SEQRES 16 A 343 ASP CYS SER ASP GLY ASN TYR ASN ARG ASN ALA SER LEU SEQRES 17 A 343 ASN SER PHE LYS GLU TYR PHE ASN LEU ARG ASN CYS THR SEQRES 18 A 343 PHE MET TYR THR TYR ASN ILE THR GLU ASP GLU ILE LEU SEQRES 19 A 343 GLU TRP PHE GLY ILE THR GLN THR ALA GLN GLY VAL HIS SEQRES 20 A 343 LEU PHE SER SER ARG TYR VAL ASP LEU TYR GLY GLY ASN SEQRES 21 A 343 MET PHE GLN PHE ALA THR LEU PRO VAL TYR ASP THR ILE SEQRES 22 A 343 LYS TYR TYR SER ILE ILE PRO HIS SER ILE ARG SER ILE SEQRES 23 A 343 GLN SER ASP ARG LYS ALA TRP ALA ALA PHE TYR VAL TYR SEQRES 24 A 343 LYS LEU GLN PRO LEU THR PHE LEU LEU ASP PHE SER VAL SEQRES 25 A 343 ASP GLY TYR ILE ARG ARG ALA ILE ASP CYS GLY PHE ASN SEQRES 26 A 343 ASP LEU SER GLN LEU HIS CYS SER TYR GLU SER GLY LEU SEQRES 27 A 343 GLU VAL LEU PHE GLN HET NAG A 401 14 HET NAG A 402 14 HET NAG A 403 14 HET NAG A 404 14 HET NAG A 405 14 HET NAG A 406 14 HET NAG A 407 14 HET NAG A 408 14 HET FOL A 409 32 HET MPD A 410 8 HET IMD A 411 5 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM FOL FOLIC ACID HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM IMD IMIDAZOLE 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 2 NAG 8(C8 H15 N O6) FORMUL 10 FOL C19 H19 N7 O6 FORMUL 11 MPD C6 H14 O2 FORMUL 12 IMD C3 H5 N2 1+ FORMUL 13 HOH *411(H2 O) HELIX 1 AA1 GLN A 37 ASP A 41 5 5 HELIX 2 AA2 ASP A 49 ALA A 53 5 5 HELIX 3 AA3 ASN A 104 ASP A 108 5 5 HELIX 4 AA4 THR A 209 CYS A 214 1 6 HELIX 5 AA5 ASN A 222 TYR A 231 1 10 HELIX 6 AA6 ILE A 303 ARG A 307 5 5 HELIX 7 AA7 ASN A 342 CYS A 349 1 8 SHEET 1 AA1 2 VAL A 33 ILE A 35 0 SHEET 2 AA1 2 LEU A 100 VAL A 102 1 O LEU A 100 N ASP A 34 SHEET 1 AA2 3 ILE A 67 PHE A 75 0 SHEET 2 AA2 3 GLN A 319 PHE A 327 -1 O PHE A 327 N ILE A 67 SHEET 3 AA2 3 ILE A 333 ASP A 338 -1 O ARG A 335 N ASP A 326 SHEET 1 AA3 6 ASP A 83 TYR A 85 0 SHEET 2 AA3 6 PHE A 313 LYS A 317 -1 O PHE A 313 N TYR A 85 SHEET 3 AA3 6 PHE A 116 ILE A 120 -1 N VAL A 117 O TYR A 316 SHEET 4 AA3 6 GLU A 252 THR A 259 -1 O PHE A 254 N VAL A 118 SHEET 5 AA3 6 GLY A 262 SER A 267 -1 O PHE A 266 N GLY A 255 SHEET 6 AA3 6 PHE A 279 LEU A 284 -1 O LEU A 284 N VAL A 263 SHEET 1 AA4 3 SER A 88 ALA A 89 0 SHEET 2 AA4 3 HIS A 298 ILE A 300 1 O ILE A 300 N SER A 88 SHEET 3 AA4 3 THR A 206 HIS A 208 1 N THR A 206 O SER A 299 SHEET 1 AA5 2 ALA A 92 THR A 93 0 SHEET 2 AA5 2 THR A 96 PRO A 97 -1 O THR A 96 N THR A 93 SHEET 1 AA6 6 LYS A 110 GLN A 111 0 SHEET 2 AA6 6 TYR A 292 ILE A 295 -1 O TYR A 293 N LYS A 110 SHEET 3 AA6 6 PHE A 147 ASN A 155 -1 N MET A 148 O SER A 294 SHEET 4 AA6 6 MET A 161 ASP A 174 -1 O LEU A 169 N LEU A 149 SHEET 5 AA6 6 LEU A 179 PRO A 189 -1 O CYS A 185 N THR A 168 SHEET 6 AA6 6 PHE A 232 ASN A 244 -1 O TYR A 241 N ALA A 182 SHEET 1 AA7 3 THR A 127 THR A 129 0 SHEET 2 AA7 3 SER A 137 ARG A 141 -1 O ALA A 138 N GLY A 128 SHEET 3 AA7 3 ALA A 309 TRP A 310 1 O ALA A 309 N ARG A 141 SSBOND 1 CYS A 30 CYS A 195 1555 1555 2.05 SSBOND 2 CYS A 176 CYS A 214 1555 1555 2.05 SSBOND 3 CYS A 185 CYS A 237 1555 1555 2.05 SSBOND 4 CYS A 339 CYS A 349 1555 1555 2.02 LINK ND2 ASN A 66 C1 NAG A 401 1555 1555 1.44 LINK ND2 ASN A 104 C1 NAG A 402 1555 1555 1.44 LINK ND2 ASN A 125 C1 NAG A 403 1555 1555 1.43 LINK ND2 ASN A 155 C1 NAG A 404 1555 1555 1.44 LINK ND2 ASN A 166 C1 NAG A 405 1555 1555 1.46 LINK ND2 ASN A 222 C1 NAG A 406 1555 1555 1.44 LINK ND2 ASN A 236 C1 NAG A 407 1555 1555 1.44 LINK ND2 ASN A 244 C1 NAG A 408 1555 1555 1.43 CRYST1 49.800 84.370 108.000 90.00 90.00 90.00 P 21 21 21 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 0.020080 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011853 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009259 0.00000