HEADER VIRAL PROTEIN 27-DEC-07 3BT6 TITLE CRYSTAL STRUCTURE OF INFLUENZA B VIRUS HEMAGGLUTININ CAVEAT 3BT6 NAG A 345 HAS WRONG CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: INFLUENZA B HEMAGGLUTININ (HA); COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: INFLUENZA B HA1; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: INFLUENZA B HEMAGGLUTININ (HA); COMPND 8 CHAIN: B; COMPND 9 FRAGMENT: INFLUENZA B HA2; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: INFLUENZA B VIRUS; SOURCE 3 STRAIN: B/HONGKONG/8/73; SOURCE 4 GENE: HEMAGGLUTININ; SOURCE 5 EXPRESSION_SYSTEM: INFLUENZA B VIRUS; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: INFLUENZA B VIRUS; SOURCE 8 STRAIN: B/HONGKONG/8/73; SOURCE 9 GENE: HEMAGGLUTININ; SOURCE 10 EXPRESSION_SYSTEM: INFLUENZA B VIRUS KEYWDS ANTIGENIC VARIATION, MEMBRANE FUSION, ENVELOPE PROTEIN, FUSION KEYWDS 2 PROTEIN, HEMAGGLUTININ, TRANSMEMBRANE, VIRION, GLYCOPROTEIN, KEYWDS 3 LIPOPROTEIN, PALMITATE, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Q.WANG,F.CHENG,M.LU,X.TIAN,J.MA REVDAT 6 30-OCT-24 3BT6 1 HETSYN REVDAT 5 29-JUL-20 3BT6 1 CAVEAT COMPND REMARK HETNAM REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 13-JUL-11 3BT6 1 VERSN REVDAT 3 24-FEB-09 3BT6 1 VERSN REVDAT 2 24-JUN-08 3BT6 1 JRNL REVDAT 1 27-MAY-08 3BT6 0 JRNL AUTH Q.WANG,F.CHENG,M.LU,X.TIAN,J.MA JRNL TITL CRYSTAL STRUCTURE OF UNLIGANDED INFLUENZA B VIRUS JRNL TITL 2 HEMAGGLUTININ. JRNL REF J.VIROL. V. 82 3011 2008 JRNL REFN ISSN 0022-538X JRNL PMID 18184701 JRNL DOI 10.1128/JVI.02477-07 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 83.6 REMARK 3 NUMBER OF REFLECTIONS : 16089 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) : 0.283 REMARK 3 R VALUE (WORKING SET) : 0.280 REMARK 3 FREE R VALUE : 0.309 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1593 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 507 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 41.64 REMARK 3 BIN R VALUE (WORKING SET) : 0.5470 REMARK 3 BIN FREE R VALUE SET COUNT : 66 REMARK 3 BIN FREE R VALUE : 0.5540 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3864 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 159 REMARK 3 SOLVENT ATOMS : 1 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 93.47 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.68000 REMARK 3 B22 (A**2) : 1.68000 REMARK 3 B33 (A**2) : -2.53000 REMARK 3 B12 (A**2) : 0.84000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.500 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.486 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 27.673 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.916 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.904 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4118 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5599 ; 1.440 ; 2.008 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 509 ; 7.260 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 156 ;37.480 ;25.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 675 ;20.157 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;18.133 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 655 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2986 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2106 ; 0.253 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2786 ; 0.319 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 159 ; 0.180 ; 0.200 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): 117 ; 0.509 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.264 ; 0.200 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): 2575 ; 1.208 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4078 ; 2.274 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1686 ; 2.529 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1521 ; 4.282 ; 8.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK 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: NULL REMARK 4 REMARK 4 3BT6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-JAN-08. REMARK 100 THE DEPOSITION ID IS D_1000045937. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-NOV-05 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 : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.900 REMARK 200 MONOCHROMATOR : GE(III) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17606 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 85.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 50.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.32600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM PIPES, 2.5 M AMMONIUM SULFATE, REMARK 280 PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 41660 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 98.29600 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 49.14800 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 85.12683 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 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 ND2 ASN A 145 C2 NAG D 1 2.10 REMARK 500 OH TYR A 176 O GLU A 182 2.18 REMARK 500 O ALA B 69 ND1 HIS B 74 2.19 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 O1 SO4 B 171 O2 SO4 B 171 2655 0.81 REMARK 500 O2 SO4 B 171 O3 SO4 B 171 2655 0.99 REMARK 500 S SO4 B 171 O3 SO4 B 171 2655 1.27 REMARK 500 O1 SO4 B 171 O3 SO4 B 171 3665 1.31 REMARK 500 S SO4 B 171 O1 SO4 B 171 3665 1.37 REMARK 500 O4 SO4 B 171 O4 SO4 B 171 2655 1.44 REMARK 500 S SO4 B 171 O4 SO4 B 171 3665 1.61 REMARK 500 O3 SO4 B 171 O4 SO4 B 171 3665 1.71 REMARK 500 S SO4 B 171 O2 SO4 B 171 2655 1.81 REMARK 500 O1 SO4 B 171 O1 SO4 B 171 2655 1.86 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 PRO A 70 C - N - CA ANGL. DEV. = 9.5 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 LYS A 45 -92.68 -12.32 REMARK 500 LEU A 53 -32.62 69.69 REMARK 500 ASN A 56 -12.63 73.48 REMARK 500 CYS A 57 50.42 -105.08 REMARK 500 PRO A 70 -64.92 -28.17 REMARK 500 CYS A 72 28.36 -60.94 REMARK 500 MET A 73 37.00 -98.22 REMARK 500 CYS A 94 -155.30 63.56 REMARK 500 PRO A 96 119.71 -39.24 REMARK 500 ASP A 100 20.03 -66.08 REMARK 500 LYS A 103 1.03 -54.91 REMARK 500 SER A 120 123.37 156.43 REMARK 500 ARG A 122 173.46 101.58 REMARK 500 VAL A 137 96.72 -68.38 REMARK 500 ASN A 148 177.61 149.67 REMARK 500 PHE A 153 115.43 -16.14 REMARK 500 ASN A 163 70.78 66.74 REMARK 500 PRO A 169 131.80 -31.66 REMARK 500 LYS A 180 -151.41 63.93 REMARK 500 TRP A 188 179.46 175.17 REMARK 500 GLU A 195 -60.89 -29.02 REMARK 500 ASP A 204 157.97 175.37 REMARK 500 SER A 205 46.00 -149.48 REMARK 500 ASN A 215 56.00 39.45 REMARK 500 ASP A 234 -159.39 -160.14 REMARK 500 GLU A 235 -95.32 -109.07 REMARK 500 PRO A 238 49.98 -84.44 REMARK 500 PRO A 252 121.69 -34.61 REMARK 500 GLN A 261 -96.59 -124.51 REMARK 500 VAL A 264 121.56 -25.04 REMARK 500 GLN A 268 -107.09 -124.74 REMARK 500 PRO A 285 77.69 -103.84 REMARK 500 CYS A 292 141.84 -171.06 REMARK 500 LYS A 296 -76.28 -101.16 REMARK 500 SER A 303 -65.73 -98.84 REMARK 500 PHE B 9 -161.30 -75.75 REMARK 500 GLU B 11 40.64 -77.26 REMARK 500 MET B 17 77.06 -63.56 REMARK 500 LEU B 38 40.04 -90.29 REMARK 500 LYS B 39 -34.25 -139.56 REMARK 500 LEU B 58 126.34 -37.59 REMARK 500 LYS B 61 143.15 -38.76 REMARK 500 LEU B 63 97.33 73.29 REMARK 500 ALA B 69 -77.62 -59.04 REMARK 500 MET B 70 113.28 88.01 REMARK 500 SER B 163 74.57 18.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LEU A 284 PRO A 285 143.52 REMARK 500 MET B 70 ASP B 71 -149.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2RFT RELATED DB: PDB REMARK 900 INFLUENZA B HA IN COMPLEX WITH RECEPTOR ANALOG REMARK 900 RELATED ID: 2RFU RELATED DB: PDB REMARK 900 INFLUENZA B HA IN COMPLEX WITH RECEPTOR ANALOG DBREF 3BT6 A 1 342 UNP Q84097 Q84097_9INFB 16 357 DBREF 3BT6 B 1 169 UNP Q84097 Q84097_9INFB 360 528 SEQRES 1 A 342 ASP ARG ILE CYS THR GLY ILE THR SER SER ASN SER PRO SEQRES 2 A 342 HIS VAL VAL LYS THR ALA THR GLN GLY GLU VAL ASN VAL SEQRES 3 A 342 THR GLY VAL ILE PRO LEU THR THR THR PRO THR LYS SER SEQRES 4 A 342 HIS PHE ALA ASN LEU LYS GLY THR GLN THR ARG GLY LYS SEQRES 5 A 342 LEU CYS PRO ASN CYS LEU ASN CYS THR ASP LEU ASP VAL SEQRES 6 A 342 ALA LEU GLY ARG PRO LYS CYS MET GLY THR ILE PRO SER SEQRES 7 A 342 ALA LYS ALA SER ILE LEU HIS GLU VAL LYS PRO VAL THR SEQRES 8 A 342 SER GLY CYS PHE PRO ILE MET HIS ASP ARG THR LYS ILE SEQRES 9 A 342 ARG GLN LEU PRO ASN LEU LEU ARG GLY TYR GLU ASN ILE SEQRES 10 A 342 ARG LEU SER ALA ARG ASN VAL THR ASN ALA GLU THR ALA SEQRES 11 A 342 PRO GLY GLY PRO TYR ILE VAL GLY THR SER GLY SER CYS SEQRES 12 A 342 PRO ASN VAL THR ASN GLY ASN GLY PHE PHE ALA THR MET SEQRES 13 A 342 ALA TRP ALA VAL PRO LYS ASN LYS THR ALA THR ASN PRO SEQRES 14 A 342 LEU THR VAL GLU VAL PRO TYR ILE CYS THR LYS GLY GLU SEQRES 15 A 342 ASP GLN ILE THR VAL TRP GLY PHE HIS SER ASP ASP GLU SEQRES 16 A 342 THR GLN MET VAL LYS LEU TYR GLY ASP SER LYS PRO GLN SEQRES 17 A 342 LYS PHE THR SER SER ALA ASN GLY VAL THR THR HIS TYR SEQRES 18 A 342 VAL SER GLN ILE GLY GLY PHE PRO ASN GLN ALA GLU ASP SEQRES 19 A 342 GLU GLY LEU PRO GLN SER GLY ARG ILE VAL VAL ASP TYR SEQRES 20 A 342 MET VAL GLN LYS PRO GLY LYS THR GLY THR ILE ALA TYR SEQRES 21 A 342 GLN ARG GLY VAL LEU LEU PRO GLN LYS VAL TRP CYS ALA SEQRES 22 A 342 SER GLY ARG SER LYS VAL ILE LYS GLY SER LEU PRO LEU SEQRES 23 A 342 ILE GLY GLU ALA ASP CYS LEU HIS GLU LYS TYR GLY GLY SEQRES 24 A 342 LEU ASN LYS SER LYS PRO TYR TYR THR GLY GLU HIS ALA SEQRES 25 A 342 LYS ALA ILE GLY ASN CYS PRO ILE TRP VAL LYS THR PRO SEQRES 26 A 342 LEU LYS LEU ALA ASN GLY THR LYS TYR ARG PRO PRO ALA SEQRES 27 A 342 LYS LEU LEU LYS SEQRES 1 B 169 GLY PHE PHE GLY ALA ILE ALA GLY PHE LEU GLU GLY GLY SEQRES 2 B 169 TRP GLU GLY MET ILE ALA GLY TRP HIS GLY TYR THR SER SEQRES 3 B 169 HIS GLY ALA HIS GLY VAL ALA VAL ALA ALA ASP LEU LYS SEQRES 4 B 169 SER THR GLN GLU ALA ILE ASN LYS ILE THR LYS ASN LEU SEQRES 5 B 169 ASN SER LEU SER GLU LEU GLU VAL LYS ASN LEU GLN ARG SEQRES 6 B 169 LEU SER GLY ALA MET ASP GLU LEU HIS ASN GLU ILE LEU SEQRES 7 B 169 GLU LEU ASP GLU LYS VAL ASP ASP LEU ARG ALA ASP THR SEQRES 8 B 169 ILE SER SER GLN ILE GLU LEU ALA VAL LEU LEU SER ASN SEQRES 9 B 169 GLU GLY ILE ILE ASN SER GLU ASP GLU HIS LEU LEU ALA SEQRES 10 B 169 LEU GLU ARG LYS LEU LYS LYS MET LEU GLY PRO SER ALA SEQRES 11 B 169 VAL ASP ILE GLY ASN GLY CYS PHE GLU THR LYS HIS LYS SEQRES 12 B 169 CYS ASN GLN THR CYS LEU ASP ARG ILE ALA ALA GLY THR SEQRES 13 B 169 PHE ASN ALA GLY GLU PHE SER LEU PRO THR PHE ASP SER MODRES 3BT6 ASN A 25 ASN GLYCOSYLATION SITE MODRES 3BT6 ASN A 123 ASN GLYCOSYLATION SITE MODRES 3BT6 ASN A 145 ASN GLYCOSYLATION SITE MODRES 3BT6 ASN A 163 ASN GLYCOSYLATION SITE MODRES 3BT6 ASN A 301 ASN GLYCOSYLATION SITE MODRES 3BT6 ASN A 330 ASN GLYCOSYLATION SITE MODRES 3BT6 ASN B 145 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NDG D 2 14 HET NAG E 1 14 HET NAG E 2 14 HET NAG F 1 14 HET NDG F 2 14 HET NAG A 345 14 HET NAG A 348 14 HET NAG B 170 14 HET SO4 B 171 5 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM NDG 2-ACETAMIDO-2-DEOXY-ALPHA-D-GLUCOPYRANOSE HETNAM SO4 SULFATE ION 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 NDG N-ACETYL-ALPHA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY- HETSYN 2 NDG ALPHA-D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2- HETSYN 3 NDG ACETAMIDO-2-DEOXY-GLUCOSE; 2-(ACETYLAMINO)-2-DEOXY-A- HETSYN 4 NDG D-GLUCOPYRANOSE FORMUL 3 NAG 9(C8 H15 N O6) FORMUL 4 NDG 2(C8 H15 N O6) FORMUL 10 SO4 O4 S 2- FORMUL 11 HOH *(H2 O) HELIX 1 1 THR A 61 GLY A 68 1 8 HELIX 2 2 MET A 98 ARG A 105 5 8 HELIX 3 3 GLN A 106 GLY A 113 1 8 HELIX 4 4 ASP A 194 TYR A 202 1 9 HELIX 5 5 GLY B 1 ALA B 7 1 7 HELIX 6 6 LYS B 39 LEU B 58 1 20 HELIX 7 7 HIS B 74 LEU B 126 1 53 HELIX 8 8 ASN B 145 GLY B 155 1 11 SHEET 1 A 5 GLY B 31 ALA B 36 0 SHEET 2 A 5 HIS B 22 GLY B 28 -1 N SER B 26 O ALA B 33 SHEET 3 A 5 ARG A 2 ILE A 7 -1 N GLY A 6 O GLY B 23 SHEET 4 A 5 CYS B 137 GLU B 139 -1 O PHE B 138 N ILE A 3 SHEET 5 A 5 VAL B 131 ASP B 132 -1 N VAL B 131 O GLU B 139 SHEET 1 B 2 HIS A 14 LYS A 17 0 SHEET 2 B 2 GLU A 23 VAL A 26 -1 O VAL A 26 N HIS A 14 SHEET 1 C 2 VAL A 29 PRO A 31 0 SHEET 2 C 2 LYS A 327 ALA A 329 -1 O LEU A 328 N ILE A 30 SHEET 1 D 2 ASN A 43 LEU A 44 0 SHEET 2 D 2 GLU A 289 ALA A 290 1 O ALA A 290 N ASN A 43 SHEET 1 E 2 ALA A 81 LEU A 84 0 SHEET 2 E 2 LYS A 278 LYS A 281 1 O ILE A 280 N LEU A 84 SHEET 1 F 6 TYR A 114 ARG A 118 0 SHEET 2 F 6 TRP A 271 ARG A 276 -1 O SER A 274 N ASN A 116 SHEET 3 F 6 ASP A 183 SER A 192 -1 N ASP A 183 O ALA A 273 SHEET 4 F 6 VAL A 264 PRO A 267 -1 O LEU A 265 N GLY A 189 SHEET 5 F 6 MET A 156 PRO A 161 -1 N ALA A 157 O LEU A 266 SHEET 6 F 6 TYR A 135 GLY A 138 -1 N GLY A 138 O TRP A 158 SHEET 1 G 4 TYR A 114 ARG A 118 0 SHEET 2 G 4 TRP A 271 ARG A 276 -1 O SER A 274 N ASN A 116 SHEET 3 G 4 ASP A 183 SER A 192 -1 N ASP A 183 O ALA A 273 SHEET 4 G 4 ARG A 242 GLN A 250 -1 O GLN A 250 N GLN A 184 SHEET 1 H 4 LEU A 170 VAL A 174 0 SHEET 2 H 4 GLY A 256 TYR A 260 -1 O TYR A 260 N LEU A 170 SHEET 3 H 4 LYS A 209 ALA A 214 -1 N THR A 211 O ALA A 259 SHEET 4 H 4 VAL A 217 VAL A 222 -1 O TYR A 221 N PHE A 210 SHEET 1 I 3 GLY A 298 LEU A 300 0 SHEET 2 I 3 CYS A 292 HIS A 294 -1 N HIS A 294 O GLY A 298 SHEET 3 I 3 ALA A 314 GLY A 316 -1 O ILE A 315 N LEU A 293 SHEET 1 J 2 TYR A 306 TYR A 307 0 SHEET 2 J 2 ILE A 320 TRP A 321 1 O ILE A 320 N TYR A 307 SSBOND 1 CYS A 4 CYS B 137 1555 1555 2.03 SSBOND 2 CYS A 54 CYS A 57 1555 1555 2.04 SSBOND 3 CYS A 60 CYS A 72 1555 1555 2.04 SSBOND 4 CYS A 94 CYS A 143 1555 1555 2.05 SSBOND 5 CYS A 178 CYS A 272 1555 1555 2.03 SSBOND 6 CYS A 292 CYS A 318 1555 1555 2.05 SSBOND 7 CYS B 144 CYS B 148 1555 1555 2.07 LINK ND2 ASN A 25 C1 NAG C 1 1555 1555 1.44 LINK ND2 ASN A 123 C1 NAG A 345 1555 1555 1.46 LINK ND2 ASN A 145 C1 NAG D 1 1555 1555 1.45 LINK ND2 ASN A 163 C1 NAG A 348 1555 1555 1.45 LINK ND2 ASN A 301 C1 NAG E 1 1555 1555 1.44 LINK ND2 ASN A 330 C1 NAG F 1 1555 1555 1.44 LINK ND2 ASN B 145 C1 NAG B 170 1555 1555 1.45 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.45 LINK O4 NAG D 1 C1 NDG D 2 1555 1555 1.46 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.44 LINK O4 NAG F 1 C1 NDG F 2 1555 1555 1.46 CRYST1 98.296 98.296 135.838 90.00 90.00 120.00 P 3 2 1 6 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 0.010173 0.005874 0.000000 0.00000 SCALE2 0.000000 0.011747 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007362 0.00000