HEADER VIRAL PROTEIN/IMMUNE SYSTEM 03-APR-13 3W9E TITLE STRUCTURE OF HUMAN MONOCLONAL ANTIBODY E317 FAB COMPLEX WITH HSV-2 GD COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENVELOPE GLYCOPROTEIN D; COMPND 3 CHAIN: C; COMPND 4 FRAGMENT: UNP RESIDUES 1-300; COMPND 5 SYNONYM: GD; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: ANTIBODY FAB HEAVY CHAIN; COMPND 9 CHAIN: A; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: ANTIBODY FAB LIGHT CHAIN; COMPND 13 CHAIN: B; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN HERPESVIRUS 2; SOURCE 3 ORGANISM_COMMON: HHV-2; SOURCE 4 ORGANISM_TAXID: 10315; SOURCE 5 STRAIN: HG52; SOURCE 6 GENE: GD; SOURCE 7 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 8 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 10 EXPRESSION_SYSTEM_CELL_LINE: HEK 293; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 16 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 18 EXPRESSION_SYSTEM_CELL_LINE: PER.C6; SOURCE 19 EXPRESSION_SYSTEM_CELL: MAMMALIAN CELL; SOURCE 20 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 21 EXPRESSION_SYSTEM_PLASMID: PTCAE8; SOURCE 22 MOL_ID: 3; SOURCE 23 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 24 ORGANISM_COMMON: HUMAN; SOURCE 25 ORGANISM_TAXID: 9606; SOURCE 26 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 27 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 28 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 29 EXPRESSION_SYSTEM_CELL_LINE: PER.C6; SOURCE 30 EXPRESSION_SYSTEM_CELL: MAMMALIAN CELL; SOURCE 31 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 32 EXPRESSION_SYSTEM_PLASMID: PTCAE8 KEYWDS IGG FOLD, VIRAL PROTEIN-IMMUNE SYSTEM COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.C.LEE,L.L.LIN,A.H.J.WANG REVDAT 5 08-NOV-23 3W9E 1 REMARK REVDAT 4 28-APR-21 3W9E 1 SOURCE HETSYN REVDAT 3 29-JUL-20 3W9E 1 COMPND REMARK SEQADV HETNAM REVDAT 3 2 1 LINK SITE ATOM REVDAT 2 17-DEC-14 3W9E 1 JRNL REMARK REVDAT 1 02-OCT-13 3W9E 0 JRNL AUTH C.C.LEE,L.L.LIN,W.E.CHAN,T.P.KO,J.S.LAI,A.H.J.WANG JRNL TITL STRUCTURAL BASIS FOR THE ANTIBODY NEUTRALIZATION OF HERPES JRNL TITL 2 SIMPLEX VIRUS JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 69 1935 2013 JRNL REFN ISSN 0907-4449 JRNL PMID 24100313 JRNL DOI 10.1107/S0907444913016776 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 37832 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) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1996 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2707 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.32 REMARK 3 BIN R VALUE (WORKING SET) : 0.2790 REMARK 3 BIN FREE R VALUE SET COUNT : 128 REMARK 3 BIN FREE R VALUE : 0.3700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5039 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 252 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.34 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.26000 REMARK 3 B22 (A**2) : -2.52000 REMARK 3 B33 (A**2) : -2.75000 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): 0.274 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.226 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.173 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.353 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5244 ; 0.008 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 4875 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7163 ; 1.354 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11241 ; 0.875 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 650 ; 6.358 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 202 ;35.626 ;23.663 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 823 ;15.759 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;18.618 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 822 ; 0.127 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5843 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1147 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1.20 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 3W9E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-APR-13. REMARK 100 THE DEPOSITION ID IS D_1000096051. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-OCT-12 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 8.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37832 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: 1L2G, 3W9D REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30%(V/V) PEG 550MME, 0.1M NA HEPES, PH REMARK 280 8.2, VAPOR DIFFUSION, TEMPERATURE 295K 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 34.51450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.76850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.54350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.76850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.51450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.54350 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, A, B, D 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 MET C -24 REMARK 465 GLY C -23 REMARK 465 ARG C -22 REMARK 465 LEU C -21 REMARK 465 THR C -20 REMARK 465 SER C -19 REMARK 465 GLY C -18 REMARK 465 VAL C -17 REMARK 465 GLY C -16 REMARK 465 THR C -15 REMARK 465 ALA C -14 REMARK 465 ALA C -13 REMARK 465 LEU C -12 REMARK 465 LEU C -11 REMARK 465 VAL C -10 REMARK 465 VAL C -9 REMARK 465 ALA C -8 REMARK 465 VAL C -7 REMARK 465 GLY C -6 REMARK 465 LEU C -5 REMARK 465 ARG C -4 REMARK 465 VAL C -3 REMARK 465 VAL C -2 REMARK 465 CYS C -1 REMARK 465 ALA C 0 REMARK 465 LYS C 1 REMARK 465 TYR C 2 REMARK 465 ALA C 3 REMARK 465 LEU C 4 REMARK 465 ALA C 5 REMARK 465 ASP C 6 REMARK 465 PRO C 7 REMARK 465 SER C 8 REMARK 465 LEU C 9 REMARK 465 LYS C 10 REMARK 465 MET C 11 REMARK 465 ALA C 12 REMARK 465 ASP C 13 REMARK 465 PRO C 14 REMARK 465 ASN C 15 REMARK 465 ARG C 16 REMARK 465 PHE C 17 REMARK 465 ARG C 18 REMARK 465 GLY C 19 REMARK 465 LYS C 20 REMARK 465 ASN C 21 REMARK 465 LEU C 22 REMARK 465 PRO C 23 REMARK 465 VAL C 24 REMARK 465 PRO C 254 REMARK 465 PRO C 255 REMARK 465 GLU C 256 REMARK 465 LEU C 257 REMARK 465 SER C 258 REMARK 465 ASP C 259 REMARK 465 THR C 260 REMARK 465 THR C 261 REMARK 465 ASN C 262 REMARK 465 ALA C 263 REMARK 465 THR C 264 REMARK 465 GLN C 265 REMARK 465 PRO C 266 REMARK 465 GLU C 267 REMARK 465 LEU C 268 REMARK 465 VAL C 269 REMARK 465 PRO C 270 REMARK 465 GLU C 271 REMARK 465 ASP C 272 REMARK 465 PRO C 273 REMARK 465 GLU C 274 REMARK 465 ASP C 275 REMARK 465 HIS C 276 REMARK 465 HIS C 277 REMARK 465 HIS C 278 REMARK 465 HIS C 279 REMARK 465 HIS C 280 REMARK 465 HIS C 281 REMARK 465 SER A 137 REMARK 465 LYS A 138 REMARK 465 SER A 139 REMARK 465 THR A 140 REMARK 465 LEU A 198 REMARK 465 GLY A 199 REMARK 465 THR A 200 REMARK 465 GLY B 212 REMARK 465 GLU B 213 REMARK 465 CYS B 214 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 O4 MAN D 4 O HOH C 487 1.82 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 ARG C 134 NE - CZ - NH1 ANGL. DEV. = 3.5 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 ILE C 40 -52.19 -129.24 REMARK 500 HIS C 91 -142.03 -127.05 REMARK 500 TYR C 137 -31.53 73.44 REMARK 500 PHE C 141 11.90 -145.04 REMARK 500 ASN C 171 -111.03 53.75 REMARK 500 ARG C 222 -164.80 -122.05 REMARK 500 GLU A 221 164.47 178.69 REMARK 500 ALA B 52 -32.14 72.62 REMARK 500 SER B 53 11.91 -142.86 REMARK 500 ASN B 138 82.09 50.43 REMARK 500 LYS B 169 -72.20 -70.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3W9D RELATED DB: PDB DBREF 3W9E C -24 275 UNP Q69467 GD_HHV2H 1 300 DBREF 3W9E A 1 222 PDB 3W9E 3W9E 1 222 DBREF 3W9E B 1 214 PDB 3W9E 3W9E 1 214 SEQADV 3W9E HIS C 276 UNP Q69467 EXPRESSION TAG SEQADV 3W9E HIS C 277 UNP Q69467 EXPRESSION TAG SEQADV 3W9E HIS C 278 UNP Q69467 EXPRESSION TAG SEQADV 3W9E HIS C 279 UNP Q69467 EXPRESSION TAG SEQADV 3W9E HIS C 280 UNP Q69467 EXPRESSION TAG SEQADV 3W9E HIS C 281 UNP Q69467 EXPRESSION TAG SEQRES 1 C 306 MET GLY ARG LEU THR SER GLY VAL GLY THR ALA ALA LEU SEQRES 2 C 306 LEU VAL VAL ALA VAL GLY LEU ARG VAL VAL CYS ALA LYS SEQRES 3 C 306 TYR ALA LEU ALA ASP PRO SER LEU LYS MET ALA ASP PRO SEQRES 4 C 306 ASN ARG PHE ARG GLY LYS ASN LEU PRO VAL LEU ASP GLN SEQRES 5 C 306 LEU THR ASP PRO PRO GLY VAL LYS ARG VAL TYR HIS ILE SEQRES 6 C 306 GLN PRO SER LEU GLU ASP PRO PHE GLN PRO PRO SER ILE SEQRES 7 C 306 PRO ILE THR VAL TYR TYR ALA VAL LEU GLU ARG ALA CYS SEQRES 8 C 306 ARG SER VAL LEU LEU HIS ALA PRO SER GLU ALA PRO GLN SEQRES 9 C 306 ILE VAL ARG GLY ALA SER ASP GLU ALA ARG LYS HIS THR SEQRES 10 C 306 TYR ASN LEU THR ILE ALA TRP TYR ARG MET GLY ASP ASN SEQRES 11 C 306 CYS ALA ILE PRO ILE THR VAL MET GLU TYR THR GLU CYS SEQRES 12 C 306 PRO TYR ASN LYS SER LEU GLY VAL CYS PRO ILE ARG THR SEQRES 13 C 306 GLN PRO ARG TRP SER TYR TYR ASP SER PHE SER ALA VAL SEQRES 14 C 306 SER GLU ASP ASN LEU GLY PHE LEU MET HIS ALA PRO ALA SEQRES 15 C 306 PHE GLU THR ALA GLY THR TYR LEU ARG LEU VAL LYS ILE SEQRES 16 C 306 ASN ASP TRP THR GLU ILE THR GLN PHE ILE LEU GLU HIS SEQRES 17 C 306 ARG ALA ARG ALA SER CYS LYS TYR ALA LEU PRO LEU ARG SEQRES 18 C 306 ILE PRO PRO ALA ALA CYS LEU THR SER LYS ALA TYR GLN SEQRES 19 C 306 GLN GLY VAL THR VAL ASP SER ILE GLY MET LEU PRO ARG SEQRES 20 C 306 PHE ILE PRO GLU ASN GLN ARG THR VAL ALA LEU TYR SER SEQRES 21 C 306 LEU LYS ILE ALA GLY TRP HIS GLY PRO LYS PRO PRO TYR SEQRES 22 C 306 THR SER THR LEU LEU PRO PRO GLU LEU SER ASP THR THR SEQRES 23 C 306 ASN ALA THR GLN PRO GLU LEU VAL PRO GLU ASP PRO GLU SEQRES 24 C 306 ASP HIS HIS HIS HIS HIS HIS SEQRES 1 A 222 GLN VAL THR LEU LYS GLN SER GLY ALA GLU VAL LYS LYS SEQRES 2 A 222 PRO GLY SER SER VAL LYS VAL SER CYS THR ALA SER GLY SEQRES 3 A 222 GLY THR LEU ARG THR TYR GLY VAL SER TRP VAL ARG GLN SEQRES 4 A 222 ALA PRO GLY GLN GLY LEU GLU TRP LEU GLY ARG THR ILE SEQRES 5 A 222 PRO LEU PHE GLY LYS THR ASP TYR ALA GLN LYS PHE GLN SEQRES 6 A 222 GLY ARG VAL THR ILE THR ALA ASP LYS SER MET ASP THR SEQRES 7 A 222 SER PHE MET GLU LEU THR SER LEU THR SER GLU ASP THR SEQRES 8 A 222 ALA VAL TYR TYR CYS ALA ARG ASP LEU THR THR LEU THR SEQRES 9 A 222 SER TYR ASN TRP TRP ASP LEU TRP GLY GLN GLY THR LEU SEQRES 10 A 222 VAL THR VAL SER SER ALA SER THR LYS GLY PRO SER VAL SEQRES 11 A 222 PHE PRO LEU ALA PRO SER SER LYS SER THR SER GLY GLY SEQRES 12 A 222 THR ALA ALA LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO SEQRES 13 A 222 GLU PRO VAL THR VAL SER TRP ASN SER GLY ALA LEU THR SEQRES 14 A 222 SER GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER SER SEQRES 15 A 222 GLY LEU TYR SER LEU SER SER VAL VAL THR VAL PRO SER SEQRES 16 A 222 SER SER LEU GLY THR GLN THR TYR ILE CYS ASN VAL ASN SEQRES 17 A 222 HIS LYS PRO SER ASN THR LYS VAL ASP LYS LYS VAL GLU SEQRES 18 A 222 PRO SEQRES 1 B 214 GLU ILE VAL LEU THR GLN SER PRO GLY THR LEU SER LEU SEQRES 2 B 214 SER PRO GLY GLU ARG ALA THR LEU SER CYS ARG ALA SER SEQRES 3 B 214 GLN SER VAL THR SER SER GLN LEU ALA TRP TYR GLN GLN SEQRES 4 B 214 LYS PRO GLY GLN ALA PRO ARG LEU LEU ILE SER GLY ALA SEQRES 5 B 214 SER ASN ARG ALA THR GLY ILE PRO ASP ARG PHE SER GLY SEQRES 6 B 214 SER GLY SER GLY THR ASP PHE THR LEU THR ILE SER ARG SEQRES 7 B 214 LEU GLU PRO GLU ASP PHE ALA VAL TYR TYR CYS GLN GLN SEQRES 8 B 214 TYR GLY SER SER PRO THR PHE GLY GLY GLY THR LYS VAL SEQRES 9 B 214 GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE ILE SEQRES 10 B 214 PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR ALA SEQRES 11 B 214 SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG GLU SEQRES 12 B 214 ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SER SEQRES 13 B 214 GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER LYS SEQRES 14 B 214 ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SER SEQRES 15 B 214 LYS ALA ASP TYR GLU LYS HIS LYS LEU TYR ALA CYS GLU SEQRES 16 B 214 VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SER SEQRES 17 B 214 PHE ASN ARG GLY GLU CYS MODRES 3W9E ASN C 94 ASN GLYCOSYLATION SITE MODRES 3W9E ASN C 121 ASN GLYCOSYLATION SITE HET NAG D 1 14 HET NAG D 2 14 HET BMA D 3 11 HET MAN D 4 11 HET NAG C 305 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE 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 BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 4 NAG 3(C8 H15 N O6) FORMUL 4 BMA C6 H12 O6 FORMUL 4 MAN C6 H12 O6 FORMUL 6 HOH *252(H2 O) HELIX 1 1 GLU C 76 GLY C 83 1 8 HELIX 2 2 GLU C 87 HIS C 91 5 5 HELIX 3 3 ALA C 157 ALA C 161 5 5 HELIX 4 4 PRO C 198 CYS C 202 5 5 HELIX 5 5 THR C 204 VAL C 212 1 9 HELIX 6 6 THR C 213 GLY C 218 1 6 HELIX 7 7 ILE C 224 ALA C 239 1 16 HELIX 8 8 PRO A 53 GLY A 56 5 4 HELIX 9 9 GLN A 62 GLN A 65 5 4 HELIX 10 10 THR A 87 THR A 91 5 5 HELIX 11 11 THR B 30 SER B 32 5 3 HELIX 12 12 GLU B 80 PHE B 84 5 5 HELIX 13 13 SER B 121 GLY B 128 1 8 HELIX 14 14 LYS B 183 LYS B 188 1 6 SHEET 1 A 5 LYS C 35 VAL C 37 0 SHEET 2 A 5 ILE C 129 THR C 131 1 O ARG C 130 N LYS C 35 SHEET 3 A 5 ALA C 107 CYS C 118 -1 N GLU C 114 O THR C 131 SHEET 4 A 5 ARG C 134 TRP C 135 -1 O ARG C 134 N VAL C 112 SHEET 5 A 5 LEU C 220 PRO C 221 -1 O LEU C 220 N TRP C 135 SHEET 1 B 8 LYS C 35 VAL C 37 0 SHEET 2 B 8 ILE C 129 THR C 131 1 O ARG C 130 N LYS C 35 SHEET 3 B 8 ALA C 107 CYS C 118 -1 N GLU C 114 O THR C 131 SHEET 4 B 8 TYR C 93 MET C 102 -1 N ARG C 101 O ILE C 108 SHEET 5 B 8 GLY C 162 ILE C 170 -1 O LEU C 167 N ALA C 98 SHEET 6 B 8 TRP C 173 HIS C 183 -1 O THR C 177 N ARG C 166 SHEET 7 B 8 THR C 56 LEU C 62 1 N TYR C 58 O GLN C 178 SHEET 8 B 8 THR C 251 LEU C 252 -1 O THR C 251 N TYR C 59 SHEET 1 C 3 SER C 68 LEU C 71 0 SHEET 2 C 3 PHE C 151 HIS C 154 -1 O PHE C 151 N LEU C 71 SHEET 3 C 3 SER C 142 VAL C 144 -1 N ALA C 143 O LEU C 152 SHEET 1 D 4 THR A 3 GLN A 6 0 SHEET 2 D 4 VAL A 18 SER A 25 -1 O THR A 23 N LYS A 5 SHEET 3 D 4 THR A 78 LEU A 83 -1 O SER A 79 N CYS A 22 SHEET 4 D 4 VAL A 68 ALA A 72 -1 N THR A 69 O GLU A 82 SHEET 1 E 6 GLU A 10 LYS A 12 0 SHEET 2 E 6 THR A 116 VAL A 120 1 O THR A 119 N LYS A 12 SHEET 3 E 6 ALA A 92 ASP A 99 -1 N ALA A 92 O VAL A 118 SHEET 4 E 6 GLY A 33 GLN A 39 -1 N VAL A 37 O TYR A 95 SHEET 5 E 6 LEU A 45 ILE A 52 -1 O LEU A 48 N TRP A 36 SHEET 6 E 6 LYS A 57 TYR A 60 -1 O LYS A 57 N ILE A 52 SHEET 1 F 4 GLU A 10 LYS A 12 0 SHEET 2 F 4 THR A 116 VAL A 120 1 O THR A 119 N LYS A 12 SHEET 3 F 4 ALA A 92 ASP A 99 -1 N ALA A 92 O VAL A 118 SHEET 4 F 4 TRP A 109 TRP A 112 -1 O LEU A 111 N ARG A 98 SHEET 1 G 4 SER A 129 LEU A 133 0 SHEET 2 G 4 THR A 144 TYR A 154 -1 O LEU A 150 N PHE A 131 SHEET 3 G 4 TYR A 185 PRO A 194 -1 O TYR A 185 N TYR A 154 SHEET 4 G 4 VAL A 172 THR A 174 -1 N HIS A 173 O VAL A 190 SHEET 1 H 4 SER A 129 LEU A 133 0 SHEET 2 H 4 THR A 144 TYR A 154 -1 O LEU A 150 N PHE A 131 SHEET 3 H 4 TYR A 185 PRO A 194 -1 O TYR A 185 N TYR A 154 SHEET 4 H 4 VAL A 178 LEU A 179 -1 N VAL A 178 O SER A 186 SHEET 1 I 3 THR A 160 TRP A 163 0 SHEET 2 I 3 ILE A 204 HIS A 209 -1 O ASN A 206 N SER A 162 SHEET 3 I 3 THR A 214 LYS A 219 -1 O VAL A 216 N VAL A 207 SHEET 1 J 3 LEU B 4 SER B 7 0 SHEET 2 J 3 ALA B 19 VAL B 29 -1 O ARG B 24 N THR B 5 SHEET 3 J 3 PHE B 63 ILE B 76 -1 O LEU B 74 N LEU B 21 SHEET 1 K 6 THR B 10 LEU B 13 0 SHEET 2 K 6 THR B 102 ILE B 106 1 O LYS B 103 N LEU B 11 SHEET 3 K 6 VAL B 86 GLN B 91 -1 N TYR B 87 O THR B 102 SHEET 4 K 6 LEU B 34 GLN B 39 -1 N TYR B 37 O TYR B 88 SHEET 5 K 6 ARG B 46 SER B 50 -1 O LEU B 48 N TRP B 36 SHEET 6 K 6 ASN B 54 ARG B 55 -1 O ASN B 54 N SER B 50 SHEET 1 L 4 THR B 10 LEU B 13 0 SHEET 2 L 4 THR B 102 ILE B 106 1 O LYS B 103 N LEU B 11 SHEET 3 L 4 VAL B 86 GLN B 91 -1 N TYR B 87 O THR B 102 SHEET 4 L 4 THR B 97 PHE B 98 -1 O THR B 97 N GLN B 91 SHEET 1 M 4 SER B 114 PHE B 118 0 SHEET 2 M 4 THR B 129 PHE B 139 -1 O ASN B 137 N SER B 114 SHEET 3 M 4 TYR B 173 SER B 182 -1 O LEU B 181 N ALA B 130 SHEET 4 M 4 SER B 159 VAL B 163 -1 N SER B 162 O SER B 176 SHEET 1 N 4 ALA B 153 LEU B 154 0 SHEET 2 N 4 LYS B 145 VAL B 150 -1 N VAL B 150 O ALA B 153 SHEET 3 N 4 LEU B 191 THR B 197 -1 O ALA B 193 N LYS B 149 SHEET 4 N 4 VAL B 205 ASN B 210 -1 O VAL B 205 N VAL B 196 SSBOND 1 CYS C 66 CYS C 189 1555 1555 2.09 SSBOND 2 CYS C 106 CYS C 202 1555 1555 2.06 SSBOND 3 CYS C 118 CYS C 127 1555 1555 2.08 SSBOND 4 CYS A 22 CYS A 96 1555 1555 2.03 SSBOND 5 CYS A 149 CYS A 205 1555 1555 2.05 SSBOND 6 CYS B 23 CYS B 89 1555 1555 2.10 SSBOND 7 CYS B 134 CYS B 194 1555 1555 2.05 LINK ND2 ASN C 94 C1 NAG D 1 1555 1555 1.42 LINK ND2 ASN C 121 C1 NAG C 305 1555 1555 1.46 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.43 LINK O4 NAG D 2 C1 BMA D 3 1555 1555 1.45 LINK O3 BMA D 3 C1 MAN D 4 1555 1555 1.44 CISPEP 1 GLY C 243 PRO C 244 0 2.62 CISPEP 2 PHE A 155 PRO A 156 0 -5.75 CISPEP 3 GLU A 157 PRO A 158 0 -1.31 CISPEP 4 GLU A 221 PRO A 222 0 -0.66 CISPEP 5 SER B 7 PRO B 8 0 -10.50 CISPEP 6 TYR B 140 PRO B 141 0 0.36 CRYST1 69.029 91.087 141.537 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 0.014487 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010979 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007065 0.00000