HEADER HYDROLASE 25-APR-08 2VSM TITLE NIPAH VIRUS ATTACHMENT GLYCOPROTEIN IN COMPLEX WITH HUMAN CELL SURFACE TITLE 2 RECEPTOR EPHRINB2 CAVEAT 2VSM HIS B 170 HAS WRONG CHIRALITY AT ATOM CA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEMAGGLUTININ-NEURAMINIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: B-PROPELLER, EPHRIN BINDING DOMAIN, RESIDUES 188-602; COMPND 5 SYNONYM: NIV-G; COMPND 6 EC: 3.2.1.18; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: N-ACETYLGLUCOSAMINE LINKAGES OBSERVED IN; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: EPHRIN-B2; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: RECEPTOR-BINDING DOMAIN, RESIDUES 28-165; COMPND 13 SYNONYM: EFNB2, EPH-RELATED RECEPTOR TYROSINE KINASE LIGAND 5, LERK- COMPND 14 5, HTK LIGAND, HTK-L; COMPND 15 ENGINEERED: YES; COMPND 16 OTHER_DETAILS: N-ACETYLGLUCOSAMINE LINKAGE OBSERVED IN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NIPAH VIRUS; SOURCE 3 ORGANISM_TAXID: 121791; SOURCE 4 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 6 EXPRESSION_SYSTEM_CELL_LINE: HEK293T; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PHLSEC; SOURCE 8 OTHER_DETAILS: SYNTHETICALLY OPTIMIZED CDNA (GENEART); SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 15 EXPRESSION_SYSTEM_CELL_LINE: HEK293T; SOURCE 16 EXPRESSION_SYSTEM_PLASMID: PHLSEC KEYWDS DEVELOPMENTAL PROTEIN, HENIPAVIRUS, NEUROGENESIS, GLYCOPROTEIN, KEYWDS 2 PARAMYXOVIRUS, ENVELOPE PROTEIN, CELL SURFACE RECEPTOR, HENDRA, KEYWDS 3 VIRION, EPHRIN, COMPLEX, MEMBRANE, HYDROLASE, B2, EFN, NIV, EPH, KEYWDS 4 HEV, HEV-G, NIPAH, VIRUS, NIV-G, PHOSPHOPROTEIN, DIFFERENTIATION, KEYWDS 5 VIRAL ATTACHMENT, SIGNAL-ANCHOR, HEMAGGLUTININ, TRANSMEMBRANE EXPDTA X-RAY DIFFRACTION AUTHOR T.A.BOWDEN,A.R.ARICESCU,R.J.GILBERT,J.M.GRIMES,E.Y.JONES,D.I.STUART REVDAT 7 23-OCT-24 2VSM 1 REMARK REVDAT 6 13-DEC-23 2VSM 1 HETSYN REVDAT 5 29-JUL-20 2VSM 1 CAVEAT COMPND REMARK HETNAM REVDAT 5 2 1 LINK SITE REVDAT 4 28-FEB-18 2VSM 1 SOURCE REVDAT 3 28-APR-09 2VSM 1 SOURCE REVDAT 2 24-FEB-09 2VSM 1 VERSN REVDAT 1 20-MAY-08 2VSM 0 JRNL AUTH T.A.BOWDEN,A.R.ARICESCU,R.J.GILBERT,J.M.GRIMES,E.Y.JONES, JRNL AUTH 2 D.I.STUART JRNL TITL STRUCTURAL BASIS OF NIPAH AND HENDRA VIRUS ATTACHMENT TO JRNL TITL 2 THEIR CELL-SURFACE RECEPTOR EPHRIN-B2 JRNL REF NAT.STRUCT.MOL.BIOL. V. 15 567 2008 JRNL REFN ISSN 1545-9993 JRNL PMID 18488039 JRNL DOI 10.1038/NSMB.1435 REMARK 2 REMARK 2 RESOLUTION. 1.80 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 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 52300 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) : 0.154 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2800 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3330 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1970 REMARK 3 BIN FREE R VALUE SET COUNT : 188 REMARK 3 BIN FREE R VALUE : 0.2670 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4373 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 705 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.14000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.16000 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): 0.115 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.115 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.071 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.237 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4700 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3211 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6415 ; 1.532 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7823 ; 0.939 ; 3.005 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 582 ;12.687 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 212 ;35.580 ;24.670 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 801 ;12.266 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;13.405 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 707 ; 0.192 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5248 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 923 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 842 ; 0.190 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3432 ; 0.193 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2229 ; 0.175 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2510 ; 0.094 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 544 ; 0.195 ; 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): 8 ; 0.159 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 32 ; 0.211 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 44 ; 0.202 ; 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): 3690 ; 3.200 ; 5.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4638 ; 3.580 ; 8.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2204 ; 5.178 ;10.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1773 ; 7.000 ;15.000 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 2VSM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-APR-08. REMARK 100 THE DEPOSITION ID IS D_1290036017. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-DEC-06 REMARK 200 TEMPERATURE (KELVIN) : 77.2 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9330 REMARK 200 MONOCHROMATOR : SI(III) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55159 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.4 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.52000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 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: PDB ENTRY 1NUK AND 1V3E REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% ISOPROPANOL, 18% PEG 3350 AND 0.1 REMARK 280 M TRI-CITRATE BUFFER PH 5.6 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 31.61800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.95450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.91700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.95450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.61800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.91700 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 3110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.1 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 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 PRO A 208 REMARK 465 VAL A 209 REMARK 465 VAL A 210 REMARK 465 SER B 70 REMARK 465 LYS B 71 REMARK 465 THR B 72 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 2094 O HOH A 2095 1.81 REMARK 500 OD2 ASP A 360 O HOH A 2232 1.91 REMARK 500 O HOH A 2287 O HOH A 2288 1.97 REMARK 500 O HOH A 2068 O HOH A 2094 2.03 REMARK 500 O HOH A 2002 O HOH A 2443 2.03 REMARK 500 OD1 ASP A 360 OG SER A 419 2.04 REMARK 500 O HOH A 2371 O HOH A 2373 2.04 REMARK 500 O HOH B 2178 O HOH B 2179 2.05 REMARK 500 O HOH B 2179 O HOH B 2194 2.05 REMARK 500 O HOH A 2371 O HOH A 2439 2.11 REMARK 500 O HOH A 2068 O HOH A 2151 2.11 REMARK 500 OE1 GLN A 450 O HOH A 2345 2.11 REMARK 500 OE2 GLU B 146 O HOH B 2137 2.17 REMARK 500 O SER A 204 O HOH A 2015 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 TYR A 351 78.28 -157.14 REMARK 500 SER A 459 -135.73 -140.30 REMARK 500 SER A 459 -139.34 -140.22 REMARK 500 GLN A 490 -146.63 -112.73 REMARK 500 GLN A 490 -147.58 -112.73 REMARK 500 ASN A 534 70.41 63.55 REMARK 500 ALA A 552 -137.21 -147.05 REMARK 500 GLN A 559 -111.54 -138.60 REMARK 500 LYS A 569 57.05 39.12 REMARK 500 ALA B 105 31.31 -144.17 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 GLU A 430 ILE A 431 145.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2140 DISTANCE = 6.22 ANGSTROMS REMARK 525 HOH B2203 DISTANCE = 6.50 ANGSTROMS REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2VSK RELATED DB: PDB REMARK 900 HENDRA VIRUS ATTACHMENT GLYCOPROTEIN IN COMPLEX WITH HUMAN CELL REMARK 900 SURFACE RECEPTOR EPHRINB2 DBREF 2VSM A 188 602 UNP Q9IH62 HN_NIPAV 188 602 DBREF 2VSM A 603 603 PDB 2VSM 2VSM 603 603 DBREF 2VSM B 31 168 UNP P52799 EFNB2_HUMAN 28 165 DBREF 2VSM B 169 170 PDB 2VSM 2VSM 169 170 SEQRES 1 A 416 ILE CYS LEU GLN LYS THR SER ASN GLN ILE LEU LYS PRO SEQRES 2 A 416 LYS LEU ILE SER TYR THR LEU PRO VAL VAL GLY GLN SER SEQRES 3 A 416 GLY THR CYS ILE THR ASP PRO LEU LEU ALA MET ASP GLU SEQRES 4 A 416 GLY TYR PHE ALA TYR SER HIS LEU GLU ARG ILE GLY SER SEQRES 5 A 416 CYS SER ARG GLY VAL SER LYS GLN ARG ILE ILE GLY VAL SEQRES 6 A 416 GLY GLU VAL LEU ASP ARG GLY ASP GLU VAL PRO SER LEU SEQRES 7 A 416 PHE MET THR ASN VAL TRP THR PRO PRO ASN PRO ASN THR SEQRES 8 A 416 VAL TYR HIS CYS SER ALA VAL TYR ASN ASN GLU PHE TYR SEQRES 9 A 416 TYR VAL LEU CYS ALA VAL SER THR VAL GLY ASP PRO ILE SEQRES 10 A 416 LEU ASN SER THR TYR TRP SER GLY SER LEU MET MET THR SEQRES 11 A 416 ARG LEU ALA VAL LYS PRO LYS SER ASN GLY GLY GLY TYR SEQRES 12 A 416 ASN GLN HIS GLN LEU ALA LEU ARG SER ILE GLU LYS GLY SEQRES 13 A 416 ARG TYR ASP LYS VAL MET PRO TYR GLY PRO SER GLY ILE SEQRES 14 A 416 LYS GLN GLY ASP THR LEU TYR PHE PRO ALA VAL GLY PHE SEQRES 15 A 416 LEU VAL ARG THR GLU PHE LYS TYR ASN ASP SER ASN CYS SEQRES 16 A 416 PRO ILE THR LYS CYS GLN TYR SER LYS PRO GLU ASN CYS SEQRES 17 A 416 ARG LEU SER MET GLY ILE ARG PRO ASN SER HIS TYR ILE SEQRES 18 A 416 LEU ARG SER GLY LEU LEU LYS TYR ASN LEU SER ASP GLY SEQRES 19 A 416 GLU ASN PRO LYS VAL VAL PHE ILE GLU ILE SER ASP GLN SEQRES 20 A 416 ARG LEU SER ILE GLY SER PRO SER LYS ILE TYR ASP SER SEQRES 21 A 416 LEU GLY GLN PRO VAL PHE TYR GLN ALA SER PHE SER TRP SEQRES 22 A 416 ASP THR MET ILE LYS PHE GLY ASP VAL LEU THR VAL ASN SEQRES 23 A 416 PRO LEU VAL VAL ASN TRP ARG ASN ASN THR VAL ILE SER SEQRES 24 A 416 ARG PRO GLY GLN SER GLN CYS PRO ARG PHE ASN THR CYS SEQRES 25 A 416 PRO GLU ILE CYS TRP GLU GLY VAL TYR ASN ASP ALA PHE SEQRES 26 A 416 LEU ILE ASP ARG ILE ASN TRP ILE SER ALA GLY VAL PHE SEQRES 27 A 416 LEU ASP SER ASN GLN THR ALA GLU ASN PRO VAL PHE THR SEQRES 28 A 416 VAL PHE LYS ASP ASN GLU ILE LEU TYR ARG ALA GLN LEU SEQRES 29 A 416 ALA SER GLU ASP THR ASN ALA GLN LYS THR ILE THR ASN SEQRES 30 A 416 CYS PHE LEU LEU LYS ASN LYS ILE TRP CYS ILE SER LEU SEQRES 31 A 416 VAL GLU ILE TYR ASP THR GLY ASP ASN VAL ILE ARG PRO SEQRES 32 A 416 LYS LEU PHE ALA VAL LYS ILE PRO GLU GLN CYS THR HIS SEQRES 1 B 140 ILE VAL LEU GLU PRO ILE TYR TRP ASN SER SER ASN SER SEQRES 2 B 140 LYS PHE LEU PRO GLY GLN GLY LEU VAL LEU TYR PRO GLN SEQRES 3 B 140 ILE GLY ASP LYS LEU ASP ILE ILE CYS PRO LYS VAL ASP SEQRES 4 B 140 SER LYS THR VAL GLY GLN TYR GLU TYR TYR LYS VAL TYR SEQRES 5 B 140 MET VAL ASP LYS ASP GLN ALA ASP ARG CYS THR ILE LYS SEQRES 6 B 140 LYS GLU ASN THR PRO LEU LEU ASN CYS ALA LYS PRO ASP SEQRES 7 B 140 GLN ASP ILE LYS PHE THR ILE LYS PHE GLN GLU PHE SER SEQRES 8 B 140 PRO ASN LEU TRP GLY LEU GLU PHE GLN LYS ASN LYS ASP SEQRES 9 B 140 TYR TYR ILE ILE SER THR SER ASN GLY SER LEU GLU GLY SEQRES 10 B 140 LEU ASP ASN GLN GLU GLY GLY VAL CYS GLN THR ARG ALA SEQRES 11 B 140 MET LYS ILE LEU MET LYS VAL GLY HIS HIS MODRES 2VSM ASN A 417 ASN GLYCOSYLATION SITE MODRES 2VSM ASN A 481 ASN GLYCOSYLATION SITE MODRES 2VSM ASN A 529 ASN GLYCOSYLATION SITE MODRES 2VSM ASN B 39 ASN GLYCOSYLATION SITE HET IPA A1604 4 HET NAG A1605 14 HET NAG A1606 14 HET NAG A1607 14 HET NAG B1171 14 HETNAM IPA ISOPROPYL ALCOHOL HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETSYN IPA 2-PROPANOL 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 3 IPA C3 H8 O FORMUL 4 NAG 4(C8 H15 N O6) FORMUL 8 HOH *705(H2 O) HELIX 1 1 GLY A 327 ASN A 331 1 5 HELIX 2 2 THR A 373 PHE A 375 5 3 HELIX 3 3 ASN A 378 CYS A 382 5 5 HELIX 4 4 GLU A 393 SER A 398 1 6 HELIX 5 5 SER A 419 GLY A 421 5 3 HELIX 6 6 ASP B 85 CYS B 92 1 8 HELIX 7 7 SER B 144 LEU B 148 5 5 HELIX 8 8 GLY B 153 ARG B 159 1 7 SHEET 1 AA 4 LYS A 201 ILE A 203 0 SHEET 2 AA 4 LYS A 591 LYS A 596 -1 O LEU A 592 N ILE A 203 SHEET 3 AA 4 LYS A 571 TYR A 581 -1 O CYS A 574 N VAL A 595 SHEET 4 AA 4 ASN A 557 LEU A 568 -1 O ASN A 557 N TYR A 581 SHEET 1 AB 5 PRO A 263 TRP A 271 0 SHEET 2 AB 5 VAL A 244 ASP A 257 -1 O ILE A 250 N TRP A 271 SHEET 3 AB 5 TYR A 228 ILE A 237 -1 O PHE A 229 N GLY A 253 SHEET 4 AB 5 THR A 215 ASP A 225 -1 O CYS A 216 N ARG A 236 SHEET 5 AB 5 VAL A 587 ILE A 588 1 O ILE A 588 N ILE A 217 SHEET 1 AC 4 VAL A 279 ASN A 287 0 SHEET 2 AC 4 PHE A 290 VAL A 297 -1 O PHE A 290 N ASN A 287 SHEET 3 AC 4 LEU A 314 ALA A 320 -1 O MET A 315 N CYS A 295 SHEET 4 AC 4 GLN A 332 ALA A 336 -1 O HIS A 333 N ARG A 318 SHEET 1 AD 5 ILE A 340 GLU A 341 0 SHEET 2 AD 5 VAL A 426 GLU A 430 1 O VAL A 426 N GLU A 341 SHEET 3 AD 5 TYR A 407 ASN A 417 -1 O LEU A 413 N ILE A 429 SHEET 4 AD 5 THR A 361 VAL A 371 -1 O LEU A 362 N TYR A 416 SHEET 5 AD 5 LYS A 347 PRO A 350 -1 O LYS A 347 N PHE A 369 SHEET 1 AE 5 ILE A 340 GLU A 341 0 SHEET 2 AE 5 VAL A 426 GLU A 430 1 O VAL A 426 N GLU A 341 SHEET 3 AE 5 TYR A 407 ASN A 417 -1 O LEU A 413 N ILE A 429 SHEET 4 AE 5 THR A 361 VAL A 371 -1 O LEU A 362 N TYR A 416 SHEET 5 AE 5 ILE A 356 GLN A 358 -1 O ILE A 356 N TYR A 363 SHEET 1 AF 4 SER A 442 SER A 447 0 SHEET 2 AF 4 GLN A 450 GLN A 455 -1 O GLN A 450 N SER A 447 SHEET 3 AF 4 LYS A 465 THR A 471 -1 O LYS A 465 N GLN A 455 SHEET 4 AF 4 VAL A 476 TRP A 479 -1 O VAL A 476 N LEU A 470 SHEET 1 AG 4 ALA A 511 ASP A 515 0 SHEET 2 AG 4 ILE A 520 LEU A 526 -1 O ILE A 520 N ILE A 514 SHEET 3 AG 4 PRO A 535 LYS A 541 -1 O VAL A 536 N PHE A 525 SHEET 4 AG 4 GLU A 544 GLN A 550 -1 O GLU A 544 N LYS A 541 SHEET 1 BA 3 ILE B 36 TYR B 37 0 SHEET 2 BA 3 LYS B 60 CYS B 65 1 O ASP B 62 N ILE B 36 SHEET 3 BA 3 ILE B 111 LYS B 116 -1 O ILE B 111 N CYS B 65 SHEET 1 BB 5 LEU B 51 LEU B 53 0 SHEET 2 BB 5 LYS B 162 VAL B 167 1 O LYS B 162 N LEU B 51 SHEET 3 BB 5 LYS B 133 ILE B 138 -1 O LYS B 133 N VAL B 167 SHEET 4 BB 5 TYR B 79 VAL B 84 -1 O TYR B 82 N ILE B 138 SHEET 5 BB 5 LEU B 102 CYS B 104 -1 O LEU B 102 N VAL B 81 SSBOND 1 CYS A 189 CYS A 601 1555 1555 2.05 SSBOND 2 CYS A 216 CYS A 240 1555 1555 2.06 SSBOND 3 CYS A 282 CYS A 295 1555 1555 2.09 SSBOND 4 CYS A 382 CYS A 395 1555 1555 2.14 SSBOND 5 CYS A 387 CYS A 499 1555 1555 2.06 SSBOND 6 CYS A 493 CYS A 503 1555 1555 2.06 SSBOND 7 CYS A 565 CYS A 574 1555 1555 2.05 SSBOND 8 CYS B 65 CYS B 104 1555 1555 2.00 SSBOND 9 CYS B 92 CYS B 156 1555 1555 2.11 LINK ND2 ASN A 417 C1 NAG A1605 1555 1555 1.46 LINK ND2 ASN A 481 C1 NAG A1607 1555 1555 1.46 LINK ND2 ASN A 529 C1 NAG A1606 1555 1555 1.44 LINK ND2 ASN B 39 C1 NAG B1171 1555 1555 1.49 CISPEP 1 ASN A 473 PRO A 474 0 1.19 CRYST1 63.236 95.834 97.909 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 0.015814 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010435 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010214 0.00000