PDB Short entry for 2C36 HEADER VIRAL PROTEIN 04-OCT-05 2C36 TITLE STRUCTURE OF UNLIGANDED HSV GD REVEALS A MECHANISM FOR RECEPTOR- TITLE 2 MEDIATED ACTIVATION OF VIRUS ENTRY CAVEAT 2C36 NAG E 1 HAS WRONG CHIRALITY AT ATOM C1 NAG E 2 HAS WRONG CAVEAT 2 2C36 CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOPROTEIN D HSV-1; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 OTHER_DETAILS: N-ACETYL-GLUCOSAMINE LINKED TO ASN121 AND ASN94 IN COMPND 7 BOTH SUBUNITS (CHAIN A, B) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN HERPESVIRUS 1; SOURCE 3 ORGANISM_COMMON: HERPES SIMPLEX VIRUS (HSV-1, HUMAN); SOURCE 4 ORGANISM_TAXID: 10298; SOURCE 5 STRAIN: PATTON; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRSVNT KEYWDS VIRUS, VIRAL PROTEIN, HERPES, IMMUNOGLOBULIN-LIKE, GLYCOPROTEIN, KEYWDS 2 TRANSMEMBRANE EXPDTA X-RAY DIFFRACTION AUTHOR C.KRUMMENACHER,V.M.SUPEKAR,J.C.WHITBECK,E.LAZEAR,S.A.CONNOLLY, AUTHOR 2 R.J.EISENBERG,G.H.COHEN,D.C.WILEY,A.CARFI REVDAT 6 13-DEC-23 2C36 1 HETSYN REVDAT 5 29-JUL-20 2C36 1 CAVEAT COMPND REMARK HETNAM REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 11-JUL-18 2C36 1 CAVEAT COMPND JRNL HET REVDAT 4 2 1 HETNAM FORMUL LINK SITE REVDAT 4 3 1 ATOM REVDAT 3 24-FEB-09 2C36 1 VERSN REVDAT 2 20-DEC-06 2C36 1 JRNL REVDAT 1 23-NOV-05 2C36 0 JRNL AUTH C.KRUMMENACHER,V.M.SUPEKAR,J.C.WHITBECK,E.LAZEAR, JRNL AUTH 2 S.A.CONNOLLY,R.J.EISENBERG,G.H.COHEN,D.C.WILEY,A.CARFI JRNL TITL STRUCTURE OF UNLIGANDED HSV GD REVEALS A MECHANISM FOR JRNL TITL 2 RECEPTOR-MEDIATED ACTIVATION OF VIRUS ENTRY. JRNL REF EMBO J. V. 24 4144 2005 JRNL REFN ISSN 0261-4189 JRNL PMID 16292345 JRNL DOI 10.1038/SJ.EMBOJ.7600875 REMARK 2 REMARK 2 RESOLUTION. 2.11 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.11 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 81.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.4 REMARK 3 NUMBER OF REFLECTIONS : 52889 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2816 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) : 2.11 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3040 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3050 REMARK 3 BIN FREE R VALUE SET COUNT : 179 REMARK 3 BIN FREE R VALUE : 0.3660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4282 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 121 REMARK 3 SOLVENT ATOMS : 509 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.85000 REMARK 3 B22 (A**2) : 0.96000 REMARK 3 B33 (A**2) : -4.81000 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): 0.164 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.166 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.119 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.808 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4558 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 4057 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6268 ; 1.523 ; 1.997 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9472 ; 1.059 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 544 ; 6.681 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 710 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4936 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 844 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 787 ; 0.192 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4631 ; 0.237 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2643 ; 0.087 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 374 ; 0.157 ; 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): 6 ; 0.150 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 45 ; 0.276 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 11 ; 0.242 ; 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): 2776 ; 0.794 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4539 ; 1.484 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1782 ; 1.812 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1729 ; 3.166 ; 4.500 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 : 1.40 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. DISORDERED REGION FROM RESIDUE 257 TO 267 FOR BOTH REMARK 3 CHAINS REMARK 4 REMARK 4 2C36 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-OCT-05. REMARK 100 THE DEPOSITION ID IS D_1290025858. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-SEP-04 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 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-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL 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 : 55770 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 81.650 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.5 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 78.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1L2G REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M NA-CACODYLATE PH 6.0, 100MM NACL, REMARK 280 100UM ZNAC2, 20% PEG 4K, PH 6.00 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 37.12600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 65.15750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.09650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.15750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.12600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.09650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D, E 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, HIS 332 TO CYS REMARK 400 ENGINEERED RESIDUE IN CHAIN B, HIS 332 TO CYS 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 257 REMARK 465 SER A 258 REMARK 465 GLU A 259 REMARK 465 THR A 260 REMARK 465 PRO A 261 REMARK 465 ASN A 262 REMARK 465 ALA A 263 REMARK 465 THR A 264 REMARK 465 GLN A 265 REMARK 465 PRO A 266 REMARK 465 GLU A 267 REMARK 465 LEU B 257 REMARK 465 SER B 258 REMARK 465 GLU B 259 REMARK 465 THR B 260 REMARK 465 PRO B 261 REMARK 465 ASN B 262 REMARK 465 ALA B 263 REMARK 465 THR B 264 REMARK 465 GLN B 265 REMARK 465 PRO B 266 REMARK 465 GLU B 267 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLN B 91 CA GLN B 91 CB 0.240 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 ASP B 147 CB - CG - OD2 ANGL. DEV. = 6.9 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 ILE A 40 -70.63 -124.65 REMARK 500 TYR A 137 -33.83 72.59 REMARK 500 ASN A 171 -116.92 55.24 REMARK 500 ARG A 222 -157.28 -118.33 REMARK 500 ALA A 269 114.50 76.72 REMARK 500 GLU A 280 -78.80 -86.38 REMARK 500 THR A 285 -45.99 94.77 REMARK 500 SER A 298 -151.38 -133.55 REMARK 500 VAL B 24 44.10 96.46 REMARK 500 ILE B 40 -66.74 -124.03 REMARK 500 TYR B 137 -33.91 74.35 REMARK 500 ASN B 171 -120.91 51.96 REMARK 500 ARG B 222 -158.46 -124.99 REMARK 500 GLU B 280 61.85 -108.90 REMARK 500 VAL B 283 -158.36 -142.03 REMARK 500 SER B 298 -156.33 -134.16 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 ASP A 281 PRO A 282 -44.25 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 A2057 DISTANCE = 6.76 ANGSTROMS REMARK 525 HOH A2058 DISTANCE = 6.35 ANGSTROMS REMARK 525 HOH A2060 DISTANCE = 6.23 ANGSTROMS REMARK 525 HOH A2061 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH B2029 DISTANCE = 5.92 ANGSTROMS 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 A1311 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 39 NE2 REMARK 620 2 ASP A 215 OD2 104.7 REMARK 620 3 HIS B 39 NE2 117.9 121.3 REMARK 620 4 ASP B 215 OD2 103.7 112.7 95.1 REMARK 620 N 1 2 3 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: 1JMA RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HERPES SIMPLEX VIRUS GLYCOPROTEIND BOUND REMARK 900 TO THE CELLULAR RECEPTOR HVEA/HVEM REMARK 900 RELATED ID: 1L2G RELATED DB: PDB REMARK 900 STRUCTURE OF A C-TERMINALLY TRUNCATED FORM OF GLYCOPROTEIND FROM REMARK 900 HSV-1 REMARK 900 RELATED ID: 2C3A RELATED DB: PDB REMARK 900 STRUCTURE OF UNLIGANDED HSV GD REVEALS A MECHANISM FOR RECEPTOR- REMARK 900 MEDIATED ACTIVATION OF VIRUS ENTRY DBREF 2C36 A 23 307 UNP P57083 VGLD_HHV1P 48 332 DBREF 2C36 B 23 307 UNP P57083 VGLD_HHV1P 48 332 SEQADV 2C36 CYS A 307 UNP P57083 HIS 332 ENGINEERED MUTATION SEQADV 2C36 CYS B 307 UNP P57083 HIS 332 ENGINEERED MUTATION SEQRES 1 A 285 PRO VAL LEU ASP GLN LEU THR ASP PRO PRO GLY VAL ARG SEQRES 2 A 285 ARG VAL TYR HIS ILE GLN ALA GLY LEU PRO ASP PRO PHE SEQRES 3 A 285 GLN PRO PRO SER LEU PRO ILE THR VAL TYR TYR ALA VAL SEQRES 4 A 285 LEU GLU ARG ALA CYS ARG SER VAL LEU LEU ASN ALA PRO SEQRES 5 A 285 SER GLU ALA PRO GLN ILE VAL ARG GLY ALA SER GLU ASP SEQRES 6 A 285 VAL ARG LYS GLN PRO TYR ASN LEU THR ILE ALA TRP PHE SEQRES 7 A 285 ARG MET GLY GLY ASN CYS ALA ILE PRO ILE THR VAL MET SEQRES 8 A 285 GLU TYR THR GLU CYS SER TYR ASN LYS SER LEU GLY ALA SEQRES 9 A 285 CYS PRO ILE ARG THR GLN PRO ARG TRP ASN TYR TYR ASP SEQRES 10 A 285 SER PHE SER ALA VAL SER GLU ASP ASN LEU GLY PHE LEU SEQRES 11 A 285 MET HIS ALA PRO ALA PHE GLU THR ALA GLY THR TYR LEU SEQRES 12 A 285 ARG LEU VAL LYS ILE ASN ASP TRP THR GLU ILE THR GLN SEQRES 13 A 285 PHE ILE LEU GLU HIS ARG ALA LYS GLY SER CYS LYS TYR SEQRES 14 A 285 ALA LEU PRO LEU ARG ILE PRO PRO SER ALA CYS LEU SER SEQRES 15 A 285 PRO GLN ALA TYR GLN GLN GLY VAL THR VAL ASP SER ILE SEQRES 16 A 285 GLY MET LEU PRO ARG PHE ILE PRO GLU ASN GLN ARG THR SEQRES 17 A 285 VAL ALA VAL TYR SER LEU LYS ILE ALA GLY TRP HIS GLY SEQRES 18 A 285 PRO LYS ALA PRO TYR THR SER THR LEU LEU PRO PRO GLU SEQRES 19 A 285 LEU SER GLU THR PRO ASN ALA THR GLN PRO GLU LEU ALA SEQRES 20 A 285 PRO GLU ASP PRO GLU ASP SER ALA LEU LEU GLU ASP PRO SEQRES 21 A 285 VAL GLY THR VAL ALA PRO GLN ILE PRO PRO ASN TRP HIS SEQRES 22 A 285 ILE PRO SER ILE GLN ASP ALA ALA THR PRO TYR CYS SEQRES 1 B 285 PRO VAL LEU ASP GLN LEU THR ASP PRO PRO GLY VAL ARG SEQRES 2 B 285 ARG VAL TYR HIS ILE GLN ALA GLY LEU PRO ASP PRO PHE SEQRES 3 B 285 GLN PRO PRO SER LEU PRO ILE THR VAL TYR TYR ALA VAL SEQRES 4 B 285 LEU GLU ARG ALA CYS ARG SER VAL LEU LEU ASN ALA PRO SEQRES 5 B 285 SER GLU ALA PRO GLN ILE VAL ARG GLY ALA SER GLU ASP SEQRES 6 B 285 VAL ARG LYS GLN PRO TYR ASN LEU THR ILE ALA TRP PHE SEQRES 7 B 285 ARG MET GLY GLY ASN CYS ALA ILE PRO ILE THR VAL MET SEQRES 8 B 285 GLU TYR THR GLU CYS SER TYR ASN LYS SER LEU GLY ALA SEQRES 9 B 285 CYS PRO ILE ARG THR GLN PRO ARG TRP ASN TYR TYR ASP SEQRES 10 B 285 SER PHE SER ALA VAL SER GLU ASP ASN LEU GLY PHE LEU SEQRES 11 B 285 MET HIS ALA PRO ALA PHE GLU THR ALA GLY THR TYR LEU SEQRES 12 B 285 ARG LEU VAL LYS ILE ASN ASP TRP THR GLU ILE THR GLN SEQRES 13 B 285 PHE ILE LEU GLU HIS ARG ALA LYS GLY SER CYS LYS TYR SEQRES 14 B 285 ALA LEU PRO LEU ARG ILE PRO PRO SER ALA CYS LEU SER SEQRES 15 B 285 PRO GLN ALA TYR GLN GLN GLY VAL THR VAL ASP SER ILE SEQRES 16 B 285 GLY MET LEU PRO ARG PHE ILE PRO GLU ASN GLN ARG THR SEQRES 17 B 285 VAL ALA VAL TYR SER LEU LYS ILE ALA GLY TRP HIS GLY SEQRES 18 B 285 PRO LYS ALA PRO TYR THR SER THR LEU LEU PRO PRO GLU SEQRES 19 B 285 LEU SER GLU THR PRO ASN ALA THR GLN PRO GLU LEU ALA SEQRES 20 B 285 PRO GLU ASP PRO GLU ASP SER ALA LEU LEU GLU ASP PRO SEQRES 21 B 285 VAL GLY THR VAL ALA PRO GLN ILE PRO PRO ASN TRP HIS SEQRES 22 B 285 ILE PRO SER ILE GLN ASP ALA ALA THR PRO TYR CYS MODRES 2C36 ASN A 94 ASN GLYCOSYLATION SITE MODRES 2C36 ASN B 94 ASN GLYCOSYLATION SITE MODRES 2C36 ASN B 121 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET MAN C 3 11 HET NAG D 1 14 HET NAG D 2 14 HET BMA D 3 11 HET NAG E 1 14 HET NAG E 2 14 HET MAN E 3 11 HET ZN A1311 1 HET CL A1312 1 HET CL A1313 1 HET CL B1314 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM ZN ZINC ION HETNAM CL CHLORIDE 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 MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 3 NAG 6(C8 H15 N O6) FORMUL 3 MAN 2(C6 H12 O6) FORMUL 4 BMA C6 H12 O6 FORMUL 6 ZN ZN 2+ FORMUL 7 CL 3(CL 1-) FORMUL 10 HOH *509(H2 O) HELIX 1 1 GLU A 76 GLY A 83 1 8 HELIX 2 2 SER A 85 LYS A 90 1 6 HELIX 3 3 ALA A 157 ALA A 161 5 5 HELIX 4 4 PRO A 198 CYS A 202 5 5 HELIX 5 5 SER A 204 GLY A 211 1 8 HELIX 6 6 ILE A 224 GLY A 240 1 17 HELIX 7 7 ASP A 272 ALA A 277 5 6 HELIX 8 8 GLU B 76 GLY B 83 1 8 HELIX 9 9 ASP B 87 GLN B 91 5 5 HELIX 10 10 ALA B 157 ALA B 161 5 5 HELIX 11 11 PRO B 198 CYS B 202 5 5 HELIX 12 12 SER B 204 GLY B 211 1 8 HELIX 13 13 ILE B 224 GLY B 240 1 17 HELIX 14 14 ASP B 272 ALA B 277 5 6 SHEET 1 AA 7 ARG A 35 VAL A 37 0 SHEET 2 AA 7 ILE A 129 THR A 131 1 O ARG A 130 N VAL A 37 SHEET 3 AA 7 CYS A 106 CYS A 118 -1 O GLU A 114 N THR A 131 SHEET 4 AA 7 TYR A 93 GLY A 103 -1 O TYR A 93 N CYS A 118 SHEET 5 AA 7 GLY A 162 ILE A 170 -1 O THR A 163 N MET A 102 SHEET 6 AA 7 TRP A 173 HIS A 183 -1 O TRP A 173 N ILE A 170 SHEET 7 AA 7 VAL A 57 LEU A 62 1 O TYR A 58 N ILE A 180 SHEET 1 AB 5 ARG A 35 VAL A 37 0 SHEET 2 AB 5 ILE A 129 THR A 131 1 O ARG A 130 N VAL A 37 SHEET 3 AB 5 CYS A 106 CYS A 118 -1 O GLU A 114 N THR A 131 SHEET 4 AB 5 ARG A 134 TRP A 135 -1 O ARG A 134 N VAL A 112 SHEET 5 AB 5 LEU A 220 PRO A 221 -1 O LEU A 220 N TRP A 135 SHEET 1 AC 3 SER A 68 LEU A 71 0 SHEET 2 AC 3 PHE A 151 HIS A 154 -1 O PHE A 151 N LEU A 71 SHEET 3 AC 3 SER A 142 VAL A 144 -1 O ALA A 143 N LEU A 152 SHEET 1 BA 7 ARG B 35 VAL B 37 0 SHEET 2 BA 7 ILE B 129 THR B 131 1 O ARG B 130 N VAL B 37 SHEET 3 BA 7 CYS B 106 CYS B 118 -1 O GLU B 114 N THR B 131 SHEET 4 BA 7 TYR B 93 GLY B 103 -1 O TYR B 93 N CYS B 118 SHEET 5 BA 7 GLY B 162 ILE B 170 -1 O THR B 163 N MET B 102 SHEET 6 BA 7 TRP B 173 HIS B 183 -1 O TRP B 173 N ILE B 170 SHEET 7 BA 7 THR B 56 LEU B 62 1 O THR B 56 N GLN B 178 SHEET 1 BB 5 ARG B 35 VAL B 37 0 SHEET 2 BB 5 ILE B 129 THR B 131 1 O ARG B 130 N VAL B 37 SHEET 3 BB 5 CYS B 106 CYS B 118 -1 O GLU B 114 N THR B 131 SHEET 4 BB 5 ARG B 134 TRP B 135 -1 O ARG B 134 N VAL B 112 SHEET 5 BB 5 LEU B 220 PRO B 221 -1 O LEU B 220 N TRP B 135 SHEET 1 BC 4 SER B 142 VAL B 144 0 SHEET 2 BC 4 PHE B 151 HIS B 154 -1 O LEU B 152 N ALA B 143 SHEET 3 BC 4 SER B 68 LEU B 71 -1 O VAL B 69 N MET B 153 SHEET 4 BC 4 TYR B 248 THR B 249 1 O TYR B 248 N LEU B 70 SSBOND 1 CYS A 66 CYS A 189 1555 1555 2.12 SSBOND 2 CYS A 106 CYS A 202 1555 1555 2.09 SSBOND 3 CYS A 118 CYS A 127 1555 1555 2.06 SSBOND 4 CYS A 307 CYS B 307 1555 1555 2.05 SSBOND 5 CYS B 66 CYS B 189 1555 1555 2.14 SSBOND 6 CYS B 106 CYS B 202 1555 1555 2.07 SSBOND 7 CYS B 118 CYS B 127 1555 1555 2.06 LINK ND2 ASN A 94 C1 NAG C 1 1555 1555 1.44 LINK ND2 ASN B 94 C1 NAG D 1 1555 1555 1.46 LINK ND2 ASN B 121 C1 NAG E 1 1555 1555 1.46 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.46 LINK O4 NAG C 2 C1 MAN C 3 1555 1555 1.46 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.45 LINK O4 NAG D 2 C1 BMA D 3 1555 1555 1.47 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.46 LINK O4 NAG E 2 C1 MAN E 3 1555 1555 1.46 LINK NE2 HIS A 39 ZN ZN A1311 1555 1555 1.96 LINK OD2 ASP A 215 ZN ZN A1311 1555 1555 1.94 LINK ZN ZN A1311 NE2 HIS B 39 1555 1555 2.10 LINK ZN ZN A1311 OD2 ASP B 215 1555 1555 1.90 CISPEP 1 GLY A 243 PRO A 244 0 -1.68 CISPEP 2 GLY B 243 PRO B 244 0 1.50 CISPEP 3 GLY B 284 THR B 285 0 -7.86 CRYST1 74.252 106.193 130.315 90.00 90.00 90.00 P 21 21 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 0.013468 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009417 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007674 0.00000 MTRIX1 1 0.929060 0.016270 0.369580 -34.16564 1 MTRIX2 1 0.016740 -0.999860 0.001950 91.41114 1 MTRIX3 1 0.369550 0.004370 -0.929200 174.54538 1