HEADER VIRAL PROTEIN/CELL ADHESION 15-OCT-11 3U82 TITLE BINDING OF HERPES SIMPLEX VIRUS GLYCOPROTEIN D TO NECTIN-1 EXPLOITS TITLE 2 HOST CELL ADHESION COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENVELOPE GLYCOPROTEIN D; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 26-310; COMPND 5 SYNONYM: GD; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: POLIOVIRUS RECEPTOR-RELATED PROTEIN 1; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: UNP RESIDUES 30-335; COMPND 11 SYNONYM: HERPES VIRUS ENTRY MEDIATOR C, HERPESVIRUS ENTRY MEDIATOR C, COMPND 12 HVEC, HERPESVIRUS IG-LIKE RECEPTOR, HIGR, NECTIN-1; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN HERPESVIRUS 1; SOURCE 3 ORGANISM_COMMON: HHV-1; SOURCE 4 ORGANISM_TAXID: 10299; SOURCE 5 STRAIN: 17; SOURCE 6 GENE: GD, US6; SOURCE 7 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 8 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: PVRL1, HVEC, PRR1; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HSV-1 GD, NECTIN-1, BINDING MODE, NECTIN-1 DIMERIZATION PRECLUSION, KEYWDS 2 VIRAL PROTEIN-CELL ADHESION COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.ZHANG,J.YAN,G.LU,Z.GUO,Z.FAN,J.WANG,Y.SHI,J.QI,G.F.GAO REVDAT 3 20-NOV-24 3U82 1 REMARK REVDAT 2 01-NOV-23 3U82 1 SEQADV REVDAT 1 21-MAR-12 3U82 0 JRNL AUTH N.ZHANG,J.YAN,G.LU,Z.GUO,Z.FAN,J.WANG,Y.SHI,J.QI,G.F.GAO JRNL TITL BINDING OF HERPES SIMPLEX VIRUS GLYCOPROTEIN D TO NECTIN-1 JRNL TITL 2 EXPLOITS HOST CELL ADHESION. JRNL REF NAT COMMUN V. 2 577 2011 JRNL REFN ESSN 2041-1723 JRNL PMID 22146396 JRNL DOI 10.1038/NCOMMS1571 REMARK 2 REMARK 2 RESOLUTION. 3.16 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.5_2) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.16 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.38 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.040 REMARK 3 COMPLETENESS FOR RANGE (%) : 81.9 REMARK 3 NUMBER OF REFLECTIONS : 11786 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.322 REMARK 3 R VALUE (WORKING SET) : 0.321 REMARK 3 FREE R VALUE : 0.344 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.790 REMARK 3 FREE R VALUE TEST SET COUNT : 564 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 38.3807 - 5.0204 0.92 3299 150 0.2992 0.3266 REMARK 3 2 5.0204 - 3.9862 0.88 2985 143 0.2875 0.2909 REMARK 3 3 3.9862 - 3.4827 0.82 2780 153 0.3771 0.3870 REMARK 3 4 3.4827 - 3.1644 0.64 2158 118 0.4611 0.5190 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.30 REMARK 3 B_SOL : 130.7 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.500 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 43.120 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 108.23460 REMARK 3 B22 (A**2) : -63.81610 REMARK 3 B33 (A**2) : -44.41850 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 4292 REMARK 3 ANGLE : 1.343 5850 REMARK 3 CHIRALITY : 0.085 650 REMARK 3 PLANARITY : 0.005 763 REMARK 3 DIHEDRAL : 19.882 1555 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3U82 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000068423. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUL-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97916 REMARK 200 MONOCHROMATOR : GRAPHITE 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 : 13572 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.164 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 (%) : 94.9 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.50400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.700 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: 2C36, 3ALP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 1000, 0.1M LITHIUM SULFATE REMARK 280 MONOHYDRATE, 0.1M SODIUM CITRATE TRIBASIC DEHYDRATE, PH 5.5 , REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 91.65800 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 91.65800 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 26.26600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 84.52150 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 26.26600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 84.52150 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 91.65800 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 26.26600 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 84.52150 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 91.65800 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 26.26600 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 84.52150 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: 1750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 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 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 LYS A 1 REMARK 465 TYR A 2 REMARK 465 ALA A 3 REMARK 465 LEU A 4 REMARK 465 VAL A 5 REMARK 465 ASP A 6 REMARK 465 ALA A 7 REMARK 465 SER A 8 REMARK 465 LEU A 9 REMARK 465 LYS A 10 REMARK 465 MET A 11 REMARK 465 ALA A 12 REMARK 465 ASP A 13 REMARK 465 PRO A 14 REMARK 465 ASN A 15 REMARK 465 ARG A 16 REMARK 465 PHE A 17 REMARK 465 ARG A 18 REMARK 465 GLY A 19 REMARK 465 LYS A 20 REMARK 465 ASP A 21 REMARK 465 LEU A 22 REMARK 465 PRO A 254 REMARK 465 PRO A 255 REMARK 465 GLU A 256 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 A 268 REMARK 465 ALA A 269 REMARK 465 PRO A 270 REMARK 465 GLU A 271 REMARK 465 ASP A 272 REMARK 465 PRO A 273 REMARK 465 GLU A 274 REMARK 465 ASP A 275 REMARK 465 SER A 276 REMARK 465 ALA A 277 REMARK 465 LEU A 278 REMARK 465 LEU A 279 REMARK 465 GLU A 280 REMARK 465 ASP A 281 REMARK 465 PRO A 282 REMARK 465 VAL A 283 REMARK 465 GLY A 284 REMARK 465 THR A 285 REMARK 465 HIS A 286 REMARK 465 HIS A 287 REMARK 465 HIS A 288 REMARK 465 HIS A 289 REMARK 465 HIS A 290 REMARK 465 HIS A 291 REMARK 465 SER B 30 REMARK 465 GLN B 31 REMARK 465 VAL B 32 REMARK 465 VAL B 33 REMARK 465 GLN B 34 REMARK 465 VAL B 35 REMARK 465 ALA B 336 REMARK 465 ALA B 337 REMARK 465 ALA B 338 REMARK 465 LEU B 339 REMARK 465 GLU B 340 REMARK 465 HIS B 341 REMARK 465 HIS B 342 REMARK 465 HIS B 343 REMARK 465 HIS B 344 REMARK 465 HIS B 345 REMARK 465 HIS B 346 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LEU A 253 CG CD1 CD2 REMARK 470 LYS B 161 CG CD CE NZ REMARK 470 LYS B 190 CG CD CE NZ 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 OD2 ASP A 215 CD2 LEU B 90 1.42 REMARK 500 CE2 TYR A 234 O PRO B 130 1.56 REMARK 500 CZ TYR A 234 O PRO B 130 1.86 REMARK 500 OH TYR A 58 CD1 LEU A 252 2.13 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 NE2 HIS B 50 CG GLU B 335 7654 1.76 REMARK 500 OH TYR A 191 NH2 ARG B 158 5455 1.84 REMARK 500 OE1 GLU A 146 OE2 GLU A 146 4555 1.99 REMARK 500 CE1 HIS B 50 OE2 GLU B 335 7654 2.04 REMARK 500 NE2 HIS B 50 CD GLU B 335 7654 2.09 REMARK 500 OE1 GLU A 146 OE1 GLU A 146 4555 2.16 REMARK 500 CB SER A 85 O SER B 238 8445 2.18 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 GLU B 246 N - CA - CB ANGL. DEV. = -14.5 DEGREES REMARK 500 GLU B 246 N - CA - C ANGL. DEV. = 19.8 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 -70.75 -124.81 REMARK 500 TYR A 137 -14.60 73.13 REMARK 500 ASN A 171 -125.99 52.27 REMARK 500 ARG A 222 -157.21 -118.32 REMARK 500 CYS B 51 112.18 -163.60 REMARK 500 ALA B 54 -98.40 -50.05 REMARK 500 GLN B 64 145.65 -171.24 REMARK 500 ASN B 72 36.97 -53.18 REMARK 500 PRO B 92 33.04 -93.73 REMARK 500 LYS B 178 116.12 -160.08 REMARK 500 GLN B 221 -7.01 74.92 REMARK 500 HIS B 231 -125.35 50.73 REMARK 500 GLU B 246 170.51 -43.18 REMARK 500 GLN B 261 -8.20 81.62 REMARK 500 ASN B 286 69.73 -115.41 REMARK 500 SER B 288 -159.54 -116.99 REMARK 500 ASN B 297 -126.44 39.08 REMARK 500 SER B 309 1.65 -64.92 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 THR B 71 ASN B 72 -122.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2C36 RELATED DB: PDB REMARK 900 RELATED ID: 3ALP RELATED DB: PDB REMARK 900 RELATED ID: 3U83 RELATED DB: PDB DBREF 3U82 A 1 285 UNP Q69091 GD_HHV11 26 310 DBREF 3U82 B 30 335 UNP Q15223 PVRL1_HUMAN 30 335 SEQADV 3U82 HIS A 286 UNP Q69091 EXPRESSION TAG SEQADV 3U82 HIS A 287 UNP Q69091 EXPRESSION TAG SEQADV 3U82 HIS A 288 UNP Q69091 EXPRESSION TAG SEQADV 3U82 HIS A 289 UNP Q69091 EXPRESSION TAG SEQADV 3U82 HIS A 290 UNP Q69091 EXPRESSION TAG SEQADV 3U82 HIS A 291 UNP Q69091 EXPRESSION TAG SEQADV 3U82 ALA B 336 UNP Q15223 EXPRESSION TAG SEQADV 3U82 ALA B 337 UNP Q15223 EXPRESSION TAG SEQADV 3U82 ALA B 338 UNP Q15223 EXPRESSION TAG SEQADV 3U82 LEU B 339 UNP Q15223 EXPRESSION TAG SEQADV 3U82 GLU B 340 UNP Q15223 EXPRESSION TAG SEQADV 3U82 HIS B 341 UNP Q15223 EXPRESSION TAG SEQADV 3U82 HIS B 342 UNP Q15223 EXPRESSION TAG SEQADV 3U82 HIS B 343 UNP Q15223 EXPRESSION TAG SEQADV 3U82 HIS B 344 UNP Q15223 EXPRESSION TAG SEQADV 3U82 HIS B 345 UNP Q15223 EXPRESSION TAG SEQADV 3U82 HIS B 346 UNP Q15223 EXPRESSION TAG SEQRES 1 A 291 LYS TYR ALA LEU VAL ASP ALA SER LEU LYS MET ALA ASP SEQRES 2 A 291 PRO ASN ARG PHE ARG GLY LYS ASP LEU PRO VAL LEU ASP SEQRES 3 A 291 GLN LEU THR ASP PRO PRO GLY VAL ARG ARG VAL TYR HIS SEQRES 4 A 291 ILE GLN ALA GLY LEU PRO ASP PRO PHE GLN PRO PRO SER SEQRES 5 A 291 LEU PRO ILE THR VAL TYR TYR ALA VAL LEU GLU ARG ALA SEQRES 6 A 291 CYS ARG SER VAL LEU LEU ASN ALA PRO SER GLU ALA PRO SEQRES 7 A 291 GLN ILE VAL ARG GLY ALA SER GLU ASP VAL ARG LYS GLN SEQRES 8 A 291 PRO TYR ASN LEU THR ILE ALA TRP PHE ARG MET GLY GLY SEQRES 9 A 291 ASN CYS ALA ILE PRO ILE THR VAL MET GLU TYR THR GLU SEQRES 10 A 291 CYS SER TYR ASN LYS SER LEU GLY ALA CYS PRO ILE ARG SEQRES 11 A 291 THR GLN PRO ARG TRP ASN TYR TYR ASP SER PHE SER ALA SEQRES 12 A 291 VAL SER GLU ASP ASN LEU GLY PHE LEU MET HIS ALA PRO SEQRES 13 A 291 ALA PHE GLU THR ALA GLY THR TYR LEU ARG LEU VAL LYS SEQRES 14 A 291 ILE ASN ASP TRP THR GLU ILE THR GLN PHE ILE LEU GLU SEQRES 15 A 291 HIS ARG ALA LYS GLY SER CYS LYS TYR ALA LEU PRO LEU SEQRES 16 A 291 ARG ILE PRO PRO SER ALA CYS LEU SER PRO GLN ALA TYR SEQRES 17 A 291 GLN GLN GLY VAL THR VAL ASP SER ILE GLY MET LEU PRO SEQRES 18 A 291 ARG PHE ILE PRO GLU ASN GLN ARG THR VAL ALA VAL TYR SEQRES 19 A 291 SER LEU LYS ILE ALA GLY TRP HIS GLY PRO LYS ALA PRO SEQRES 20 A 291 TYR THR SER THR LEU LEU PRO PRO GLU LEU SER GLU THR SEQRES 21 A 291 PRO ASN ALA THR GLN PRO GLU LEU ALA PRO GLU ASP PRO SEQRES 22 A 291 GLU ASP SER ALA LEU LEU GLU ASP PRO VAL GLY THR HIS SEQRES 23 A 291 HIS HIS HIS HIS HIS SEQRES 1 B 317 SER GLN VAL VAL GLN VAL ASN ASP SER MET TYR GLY PHE SEQRES 2 B 317 ILE GLY THR ASP VAL VAL LEU HIS CYS SER PHE ALA ASN SEQRES 3 B 317 PRO LEU PRO SER VAL LYS ILE THR GLN VAL THR TRP GLN SEQRES 4 B 317 LYS SER THR ASN GLY SER LYS GLN ASN VAL ALA ILE TYR SEQRES 5 B 317 ASN PRO SER MET GLY VAL SER VAL LEU ALA PRO TYR ARG SEQRES 6 B 317 GLU ARG VAL GLU PHE LEU ARG PRO SER PHE THR ASP GLY SEQRES 7 B 317 THR ILE ARG LEU SER ARG LEU GLU LEU GLU ASP GLU GLY SEQRES 8 B 317 VAL TYR ILE CYS GLU PHE ALA THR PHE PRO THR GLY ASN SEQRES 9 B 317 ARG GLU SER GLN LEU ASN LEU THR VAL MET ALA LYS PRO SEQRES 10 B 317 THR ASN TRP ILE GLU GLY THR GLN ALA VAL LEU ARG ALA SEQRES 11 B 317 LYS LYS GLY GLN ASP ASP LYS VAL LEU VAL ALA THR CYS SEQRES 12 B 317 THR SER ALA ASN GLY LYS PRO PRO SER VAL VAL SER TRP SEQRES 13 B 317 GLU THR ARG LEU LYS GLY GLU ALA GLU TYR GLN GLU ILE SEQRES 14 B 317 ARG ASN PRO ASN GLY THR VAL THR VAL ILE SER ARG TYR SEQRES 15 B 317 ARG LEU VAL PRO SER ARG GLU ALA HIS GLN GLN SER LEU SEQRES 16 B 317 ALA CYS ILE VAL ASN TYR HIS MET ASP ARG PHE LYS GLU SEQRES 17 B 317 SER LEU THR LEU ASN VAL GLN TYR GLU PRO GLU VAL THR SEQRES 18 B 317 ILE GLU GLY PHE ASP GLY ASN TRP TYR LEU GLN ARG MET SEQRES 19 B 317 ASP VAL LYS LEU THR CYS LYS ALA ASP ALA ASN PRO PRO SEQRES 20 B 317 ALA THR GLU TYR HIS TRP THR THR LEU ASN GLY SER LEU SEQRES 21 B 317 PRO LYS GLY VAL GLU ALA GLN ASN ARG THR LEU PHE PHE SEQRES 22 B 317 LYS GLY PRO ILE ASN TYR SER LEU ALA GLY THR TYR ILE SEQRES 23 B 317 CYS GLU ALA THR ASN PRO ILE GLY THR ARG SER GLY GLN SEQRES 24 B 317 VAL GLU VAL ASN ILE THR GLU ALA ALA ALA LEU GLU HIS SEQRES 25 B 317 HIS HIS HIS HIS HIS 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 GLU B 115 GLU B 119 5 5 HELIX 8 8 SER B 216 HIS B 220 5 5 HELIX 9 9 ASN B 307 ALA B 311 5 5 SHEET 1 A 7 ARG A 35 VAL A 37 0 SHEET 2 A 7 ILE A 129 THR A 131 1 O ARG A 130 N ARG A 35 SHEET 3 A 7 CYS A 106 CYS A 118 -1 N THR A 116 O ILE A 129 SHEET 4 A 7 TYR A 93 GLY A 103 -1 N ILE A 97 O MET A 113 SHEET 5 A 7 GLY A 162 ILE A 170 -1 O LEU A 167 N ALA A 98 SHEET 6 A 7 TRP A 173 HIS A 183 -1 O GLU A 175 N VAL A 168 SHEET 7 A 7 VAL A 57 LEU A 62 1 N LEU A 62 O GLU A 182 SHEET 1 B 5 ARG A 35 VAL A 37 0 SHEET 2 B 5 ILE A 129 THR A 131 1 O ARG A 130 N ARG A 35 SHEET 3 B 5 CYS A 106 CYS A 118 -1 N THR A 116 O ILE A 129 SHEET 4 B 5 ARG A 134 TRP A 135 -1 O ARG A 134 N VAL A 112 SHEET 5 B 5 LEU A 220 PRO A 221 -1 O LEU A 220 N TRP A 135 SHEET 1 C 3 SER A 68 LEU A 71 0 SHEET 2 C 3 PHE A 151 HIS A 154 -1 O PHE A 151 N LEU A 71 SHEET 3 C 3 SER A 142 VAL A 144 -1 N ALA A 143 O LEU A 152 SHEET 1 D 6 ASP B 37 PHE B 42 0 SHEET 2 D 6 GLY B 132 MET B 143 1 O ASN B 139 N MET B 39 SHEET 3 D 6 GLY B 120 PHE B 129 -1 N PHE B 126 O ARG B 134 SHEET 4 D 6 LYS B 61 THR B 71 -1 N THR B 63 O ALA B 127 SHEET 5 D 6 SER B 74 ASN B 82 -1 O ALA B 79 N TRP B 67 SHEET 6 D 6 GLY B 86 VAL B 89 -1 O SER B 88 N ILE B 80 SHEET 1 E 3 VAL B 47 LEU B 49 0 SHEET 2 E 3 ILE B 109 LEU B 111 -1 O ILE B 109 N LEU B 49 SHEET 3 E 3 VAL B 97 PHE B 99 -1 N GLU B 98 O ARG B 110 SHEET 1 F 4 THR B 147 GLY B 152 0 SHEET 2 F 4 VAL B 167 GLY B 177 -1 O ALA B 175 N THR B 147 SHEET 3 F 4 VAL B 205 LEU B 213 -1 O VAL B 205 N GLY B 177 SHEET 4 F 4 GLU B 192 ARG B 199 -1 N ILE B 198 O THR B 206 SHEET 1 G 5 LEU B 157 ARG B 158 0 SHEET 2 G 5 VAL B 243 GLU B 252 1 O GLN B 244 N LEU B 157 SHEET 3 G 5 VAL B 265 ASN B 274 -1 O LYS B 270 N THR B 250 SHEET 4 G 5 THR B 299 PHE B 302 -1 O PHE B 302 N VAL B 265 SHEET 5 G 5 VAL B 293 GLN B 296 -1 N GLU B 294 O PHE B 301 SHEET 1 H 3 VAL B 182 THR B 187 0 SHEET 2 H 3 SER B 223 TYR B 230 -1 O ILE B 227 N SER B 184 SHEET 3 H 3 ASP B 233 THR B 240 -1 O ASP B 233 N TYR B 230 SHEET 1 I 3 GLU B 279 THR B 284 0 SHEET 2 I 3 GLY B 312 ASN B 320 -1 O ILE B 315 N THR B 283 SHEET 3 I 3 GLY B 323 VAL B 331 -1 O VAL B 331 N GLY B 312 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 B 51 CYS B 124 1555 1555 2.05 SSBOND 5 CYS B 172 CYS B 226 1555 1555 2.05 SSBOND 6 CYS B 269 CYS B 316 1555 1555 2.05 CISPEP 1 GLY A 243 PRO A 244 0 -1.82 CISPEP 2 ALA B 91 PRO B 92 0 3.98 CISPEP 3 PHE B 129 PRO B 130 0 6.77 CISPEP 4 LYS B 178 PRO B 179 0 -4.39 CISPEP 5 ASN B 274 PRO B 275 0 -1.51 CISPEP 6 GLY B 304 PRO B 305 0 2.84 CRYST1 52.532 169.043 183.316 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 0.019036 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005916 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005455 0.00000