PDB Short entry for 5JIL HEADER VIRAL PROTEIN 22-APR-16 5JIL TITLE CRYSTAL STRUCTURE OF RAT CORONAVIRUS STRAIN NEW-JERSEY HEMAGGLUTININ- TITLE 2 ESTERASE IN COMPLEX WITH 4N-ACETYL SIALIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEMAGGLUTININ-ESTERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 22-400; COMPND 5 SYNONYM: HE PROTEIN,E3 GLYCOPROTEIN; COMPND 6 EC: 3.1.1.53; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RAT CORONAVIRUS; SOURCE 3 ORGANISM_TAXID: 31632; SOURCE 4 GENE: HE; SOURCE 5 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293 KEYWDS HEMAGGLUTIN, ESTERASE, HEPATITIS VIRUS, CORONAVIRUS, VIRAL PROTEIN, KEYWDS 2 SIALIC ACID EXPDTA X-RAY DIFFRACTION AUTHOR M.J.G.BAKKERS,L.J.FEITSMA,R.J.DE GROOT,E.G.HUIZINGA REVDAT 7 01-MAY-24 5JIL 1 HETSYN REVDAT 6 29-JUL-20 5JIL 1 COMPND REMARK HETNAM LINK REVDAT 6 2 1 SITE ATOM REVDAT 5 03-APR-19 5JIL 1 SOURCE ATOM REVDAT 4 13-SEP-17 5JIL 1 REMARK REVDAT 3 08-JUN-16 5JIL 1 JRNL REVDAT 2 01-JUN-16 5JIL 1 JRNL REVDAT 1 11-MAY-16 5JIL 0 JRNL AUTH M.J.BAKKERS,Q.ZENG,L.J.FEITSMA,R.J.HULSWIT,Z.LI, JRNL AUTH 2 A.WESTERBEKE,F.J.VAN KUPPEVELD,G.J.BOONS,M.A.LANGEREIS, JRNL AUTH 3 E.G.HUIZINGA,R.J.DE GROOT JRNL TITL CORONAVIRUS RECEPTOR SWITCH EXPLAINED FROM THE JRNL TITL 2 STEREOCHEMISTRY OF PROTEIN-CARBOHYDRATE INTERACTIONS AND A JRNL TITL 3 SINGLE MUTATION. JRNL REF PROC.NATL.ACAD.SCI.USA V. 113 E3111 2016 JRNL REFN ESSN 1091-6490 JRNL PMID 27185912 JRNL DOI 10.1073/PNAS.1519881113 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 92.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 3 NUMBER OF REFLECTIONS : 31870 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1667 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2342 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.73 REMARK 3 BIN R VALUE (WORKING SET) : 0.2840 REMARK 3 BIN FREE R VALUE SET COUNT : 123 REMARK 3 BIN FREE R VALUE : 0.3150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2926 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 178 REMARK 3 SOLVENT ATOMS : 191 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.69 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.23000 REMARK 3 B22 (A**2) : 0.10000 REMARK 3 B33 (A**2) : -0.32000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.154 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.126 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.097 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.715 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3362 ; 0.007 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 2967 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4634 ; 1.296 ; 1.988 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6886 ; 0.933 ; 3.006 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 424 ; 6.347 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 160 ;35.027 ;24.438 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 494 ;12.184 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;20.875 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 516 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3857 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 821 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1533 ; 0.304 ; 1.289 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1532 ; 0.304 ; 1.288 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1929 ; 0.557 ; 1.931 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1930 ; 0.557 ; 1.932 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1829 ; 0.357 ; 1.396 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1829 ; 0.356 ; 1.396 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2677 ; 0.618 ; 2.083 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3776 ; 4.488 ;11.378 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3776 ; 4.488 ;11.378 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 20 A 3691 REMARK 3 ORIGIN FOR THE GROUP (A): -13.6478 -26.3082 -9.0986 REMARK 3 T TENSOR REMARK 3 T11: 0.0642 T22: 0.0079 REMARK 3 T33: 0.0290 T12: -0.0128 REMARK 3 T13: -0.0026 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 0.4453 L22: 1.7951 REMARK 3 L33: 0.7738 L12: -0.0428 REMARK 3 L13: -0.0678 L23: -0.0032 REMARK 3 S TENSOR REMARK 3 S11: 0.0005 S12: -0.0250 S13: -0.0625 REMARK 3 S21: 0.0052 S22: -0.0515 S23: 0.1025 REMARK 3 S31: 0.0713 S32: -0.0378 S33: 0.0510 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5JIL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-APR-16. REMARK 100 THE DEPOSITION ID IS D_1000220669. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8729 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM 7.09 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.1.27 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33539 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 92.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.10600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.51900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.1 REMARK 200 STARTING MODEL: RCOV-HE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH 7.5, 0.2M NACL, 20% W/V REMARK 280 PEG3000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.04000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.04000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 28.54500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 92.29500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 28.54500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 92.29500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 39.04000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 28.54500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 92.29500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 39.04000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 28.54500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 92.29500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 36.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -39.04000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 759 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 791 LIES ON A SPECIAL POSITION. 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 LEU A 18 REMARK 465 ALA A 19 REMARK 465 GLY A 389 REMARK 465 TYR A 390 REMARK 465 MET A 391 REMARK 465 ALA A 392 REMARK 465 PRO A 393 REMARK 465 ILE A 394 REMARK 465 CYS A 395 REMARK 465 LEU A 396 REMARK 465 TYR A 397 REMARK 465 ASP A 398 REMARK 465 SER A 399 REMARK 465 ASP A 400 REMARK 465 PRO A 401 REMARK 465 LEU A 402 REMARK 465 VAL A 403 REMARK 465 PRO A 404 REMARK 465 ARG A 405 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 THR A 234 O HOH A 601 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 ASP A 39 -154.23 -128.33 REMARK 500 ASN A 50 -168.51 -165.50 REMARK 500 PHE A 276 -148.25 64.80 REMARK 500 LYS A 289 85.04 69.48 REMARK 500 SER A 305 3.78 -69.54 REMARK 500 ASP A 337 -177.74 -170.19 REMARK 500 ASN A 369 -70.65 -104.43 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 511 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 48 OE2 REMARK 620 2 HIS A 52 ND1 112.0 REMARK 620 3 ASP A 56 OD1 95.7 118.6 REMARK 620 4 HIS A 336 ND1 116.8 105.2 108.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 510 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 225 OD1 REMARK 620 2 SER A 226 O 96.8 REMARK 620 3 SER A 273 OG 157.1 85.5 REMARK 620 4 GLU A 275 O 79.9 90.5 77.3 REMARK 620 5 LEU A 277 O 100.2 154.4 86.2 111.2 REMARK 620 N 1 2 3 4 DBREF 5JIL A 20 398 UNP Q3HS77 Q3HS77_9BETC 22 400 SEQADV 5JIL LEU A 18 UNP Q3HS77 EXPRESSION TAG SEQADV 5JIL ALA A 19 UNP Q3HS77 EXPRESSION TAG SEQADV 5JIL ALA A 40 UNP Q3HS77 SER 42 ENGINEERED MUTATION SEQADV 5JIL SER A 399 UNP Q3HS77 EXPRESSION TAG SEQADV 5JIL ASP A 400 UNP Q3HS77 EXPRESSION TAG SEQADV 5JIL PRO A 401 UNP Q3HS77 EXPRESSION TAG SEQADV 5JIL LEU A 402 UNP Q3HS77 EXPRESSION TAG SEQADV 5JIL VAL A 403 UNP Q3HS77 EXPRESSION TAG SEQADV 5JIL PRO A 404 UNP Q3HS77 EXPRESSION TAG SEQADV 5JIL ARG A 405 UNP Q3HS77 EXPRESSION TAG SEQRES 1 A 388 LEU ALA PHE ASN GLU PRO LEU ASN ILE VAL SER HIS LEU SEQRES 2 A 388 ASN ASP ASP TRP PHE LEU PHE GLY ASP ALA ARG SER ASP SEQRES 3 A 388 CYS THR TYR VAL GLU ASN ASN GLY HIS PRO LYS LEU ASP SEQRES 4 A 388 TRP LEU ASP LEU ASP PRO LYS LEU CYS ASN SER GLY ARG SEQRES 5 A 388 ILE SER ALA LYS SER GLY ASN SER LEU PHE ARG SER PHE SEQRES 6 A 388 HIS PHE THR ASP PHE TYR ASN TYR SER GLY GLU GLY ASP SEQRES 7 A 388 GLN VAL ILE PHE TYR GLU GLY VAL ASN PHE SER PRO SER SEQRES 8 A 388 HIS GLY PHE LYS CYS LEU ALA ASN GLY ASP ASN LYS ILE SEQRES 9 A 388 TRP MET GLY ASN LYS ALA ARG PHE TYR ALA ARG LEU TYR SEQRES 10 A 388 GLU LYS MET ALA GLN TYR ARG SER LEU SER ILE VAL THR SEQRES 11 A 388 VAL SER TYR ALA TYR GLY GLY ASN ALA LYS PRO THR SER SEQRES 12 A 388 ILE CYS LYS ASP ASN LYS LEU THR LEU ASN ASN PRO THR SEQRES 13 A 388 PHE ILE SER LYS GLU SER ASN TYR ALA ASP TYR TYR TYR SEQRES 14 A 388 VAL SER GLU ALA ASN PHE THR LEU GLN GLY CYS ASP GLU SEQRES 15 A 388 PHE ILE VAL PRO LEU CYS VAL PHE ASN GLY HIS SER ARG SEQRES 16 A 388 GLY SER SER SER ASP PRO ALA ASN THR TYR TYR MET ASP SEQRES 17 A 388 SER GLN MET TYR TYR ASN THR VAL THR GLY VAL PHE TYR SEQRES 18 A 388 GLY PHE ASN SER THR LEU ASP VAL GLY THR THR VAL GLN SEQRES 19 A 388 ASN PRO GLY LEU ASP LEU THR CYS SER TYR LEU ALA LEU SEQRES 20 A 388 SER PRO GLY ASN TYR LYS ALA VAL SER LEU GLU PHE LEU SEQRES 21 A 388 LEU SER LEU PRO SER LYS ALA ILE CYS LEU LEU LYS PRO SEQRES 22 A 388 LYS ARG PHE MET PRO VAL GLN VAL VAL ASP SER ARG TRP SEQRES 23 A 388 ASN SER THR ARG GLN SER ASP ASN MET THR ALA VAL ALA SEQRES 24 A 388 CYS GLN LEU PRO TYR CYS PHE PHE ARG ASN THR SER ALA SEQRES 25 A 388 ASP TYR SER GLY ASP THR HIS ASP VAL HIS HIS GLY ASP SEQRES 26 A 388 LEU TYR PHE ARG GLN LEU LEU SER GLY LEU LEU TYR ASN SEQRES 27 A 388 VAL SER CYS ILE ALA GLN GLN GLY ALA PHE LEU TYR ASN SEQRES 28 A 388 ASN VAL SER SER ILE TRP PRO VAL TYR GLY TYR GLY HIS SEQRES 29 A 388 CYS PRO THR ALA ALA ASN ILE GLY TYR MET ALA PRO ILE SEQRES 30 A 388 CYS LEU TYR ASP SER ASP PRO LEU VAL PRO ARG HET NAG B 1 14 HET NAG B 2 14 HET NAG A 501 14 HET NAG A 504 14 HET NAG A 505 14 HET NAG A 506 14 HET NAG A 507 14 HET NAG A 508 14 HET NAG A 509 14 HET NA A 510 1 HET ZN A 511 1 HET 6KL A 512 25 HET 6KL A 513 25 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM NA SODIUM ION HETNAM ZN ZINC ION HETNAM 6KL METHYL 4,5-BISACETAMIDO-3,4,5-TRIDEOXY-D-GLYCERO-ALPHA- HETNAM 2 6KL D-GALACTO-NON-2-ULOPYRANOSIDONIC ACID HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN 6KL METHYL 4,5-BIS(ACETYLAMINO)-3,4,5-TRIDEOXY-D-GLYCERO- HETSYN 2 6KL ALPHA-D-GALACTO-NON-2-ULOPYRANOSIDONIC ACID; METHYL 4, HETSYN 3 6KL 5-BISACETAMIDO-3,4,5-TRIDEOXY-D-GLYCERO-ALPHA-D- HETSYN 4 6KL GALACTO-NON-2-ULOSIDONIC ACID; METHYL 4,5- HETSYN 5 6KL BISACETAMIDO-3,4,5-TRIDEOXY-D-GLYCERO-D-GALACTO-NON-2- HETSYN 6 6KL ULOSIDONIC ACID; METHYL 4,5-BISACETAMIDO-3,4,5- HETSYN 7 6KL TRIDEOXY-D-GLYCERO-GALACTO-NON-2-ULOSIDONIC ACID FORMUL 2 NAG 9(C8 H15 N O6) FORMUL 10 NA NA 1+ FORMUL 11 ZN ZN 2+ FORMUL 12 6KL 2(C14 H24 N2 O9) FORMUL 14 HOH *191(H2 O) HELIX 1 AA1 ALA A 40 ASP A 43 5 4 HELIX 2 AA2 ASP A 61 CYS A 65 5 5 HELIX 3 AA3 SER A 77 PHE A 84 1 8 HELIX 4 AA4 ASP A 118 ALA A 138 1 21 HELIX 5 AA5 ASN A 311 CYS A 317 1 7 HELIX 6 AA6 LEU A 343 SER A 350 1 8 HELIX 7 AA7 GLY A 351 TYR A 354 5 4 SHEET 1 AA1 5 ILE A 70 ALA A 72 0 SHEET 2 AA1 5 TRP A 34 GLY A 38 1 N LEU A 36 O SER A 71 SHEET 3 AA1 5 GLN A 96 TYR A 100 1 O TYR A 100 N PHE A 37 SHEET 4 AA1 5 VAL A 296 VAL A 299 1 O VAL A 299 N PHE A 99 SHEET 5 AA1 5 CYS A 322 ARG A 325 1 O PHE A 323 N VAL A 298 SHEET 1 AA2 5 SER A 91 GLU A 93 0 SHEET 2 AA2 5 TYR A 140 THR A 147 -1 O LEU A 143 N GLY A 92 SHEET 3 AA2 5 LYS A 283 PRO A 290 -1 O CYS A 286 N SER A 144 SHEET 4 AA2 5 GLU A 199 PHE A 207 -1 N GLU A 199 O LEU A 287 SHEET 5 AA2 5 LEU A 257 LEU A 264 -1 O LEU A 264 N PHE A 200 SHEET 1 AA3 5 TYR A 150 ALA A 151 0 SHEET 2 AA3 5 SER A 188 LEU A 194 -1 O ASN A 191 N ALA A 151 SHEET 3 AA3 5 GLY A 267 GLU A 275 -1 O ALA A 271 N ALA A 190 SHEET 4 AA3 5 SER A 226 ASN A 231 -1 N TYR A 230 O LYS A 270 SHEET 5 AA3 5 PHE A 237 ASN A 241 -1 O PHE A 240 N GLN A 227 SHEET 1 AA4 2 THR A 173 ILE A 175 0 SHEET 2 AA4 2 LEU A 278 LEU A 280 -1 O LEU A 280 N THR A 173 SHEET 1 AA5 2 GLY A 333 ASP A 337 0 SHEET 2 AA5 2 HIS A 340 ASP A 342 -1 O GLY A 341 N ASP A 334 SHEET 1 AA6 3 ALA A 364 PHE A 365 0 SHEET 2 AA6 3 CYS A 358 ILE A 359 -1 N CYS A 358 O PHE A 365 SHEET 3 AA6 3 TYR A 379 GLY A 380 -1 O TYR A 379 N ILE A 359 SSBOND 1 CYS A 44 CYS A 65 1555 1555 2.04 SSBOND 2 CYS A 113 CYS A 162 1555 1555 2.04 SSBOND 3 CYS A 197 CYS A 286 1555 1555 2.03 SSBOND 4 CYS A 205 CYS A 259 1555 1555 2.05 SSBOND 5 CYS A 317 CYS A 322 1555 1555 2.04 SSBOND 6 CYS A 358 CYS A 382 1555 1555 2.07 LINK ND2 ASN A 89 C1 NAG A 509 1555 1555 1.45 LINK ND2 ASN A 191 C1 NAG A 501 1555 1555 1.45 LINK ND2 ASN A 241 C1 NAG B 1 1555 1555 1.44 LINK ND2 ASN A 304 C1 NAG A 504 1555 1555 1.44 LINK ND2 ASN A 311 C1 NAG A 505 1555 1555 1.45 LINK ND2 ASN A 326 C1 NAG A 506 1555 1555 1.45 LINK ND2 ASN A 355 C1 NAG A 507 1555 1555 1.44 LINK ND2 ASN A 369 C1 NAG A 508 1555 1555 1.44 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.44 LINK OE2 GLU A 48 ZN ZN A 511 1555 1555 2.11 LINK ND1 HIS A 52 ZN ZN A 511 1555 1555 2.49 LINK OD1 ASP A 56 ZN ZN A 511 1555 1555 2.06 LINK OD1 ASP A 225 NA NA A 510 1555 1555 2.36 LINK O SER A 226 NA NA A 510 1555 1555 2.55 LINK OG SER A 273 NA NA A 510 1555 1555 2.42 LINK O GLU A 275 NA NA A 510 1555 1555 2.74 LINK O LEU A 277 NA NA A 510 1555 1555 2.53 LINK ND1 HIS A 336 ZN ZN A 511 1555 1555 2.29 CISPEP 1 ASN A 171 PRO A 172 0 0.07 CISPEP 2 LEU A 319 PRO A 320 0 4.12 CRYST1 57.090 184.590 78.080 90.00 90.00 90.00 C 2 2 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.017516 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005417 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012807 0.00000