PDB Short entry for 1ZIW HEADER IMMUNE SYSTEM 27-APR-05 1ZIW TITLE HUMAN TOLL-LIKE RECEPTOR 3 EXTRACELLULAR DOMAIN STRUCTURE CAVEAT 1ZIW NAG A 1 HAS WRONG CHIRALITY AT ATOM C1 NAG A 7 HAS WRONG CAVEAT 2 1ZIW CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TOLL-LIKE RECEPTOR 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: EXTRACELLULAR DOMAIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TLR3; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: HI 5; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS KEYWDS INNATE IMMUNITY, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR I.A.WILSON,J.CHOE REVDAT 5 29-JUL-20 1ZIW 1 CAVEAT COMPND REMARK SEQADV REVDAT 5 2 1 HET HETNAM FORMUL LINK REVDAT 5 3 1 SITE ATOM REVDAT 4 13-JUL-11 1ZIW 1 VERSN REVDAT 3 24-FEB-09 1ZIW 1 VERSN REVDAT 2 02-AUG-05 1ZIW 1 JRNL REVDAT 1 28-JUN-05 1ZIW 0 JRNL AUTH J.CHOE,M.S.KELKER,I.A.WILSON JRNL TITL CRYSTAL STRUCTURE OF HUMAN TOLL-LIKE RECEPTOR 3 (TLR3) JRNL TITL 2 ECTODOMAIN. JRNL REF SCIENCE V. 309 581 2005 JRNL REFN ISSN 0036-8075 JRNL PMID 15961631 JRNL DOI 10.1126/SCIENCE.1115253 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0013 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 71071 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3795 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5154 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.2340 REMARK 3 BIN FREE R VALUE SET COUNT : 289 REMARK 3 BIN FREE R VALUE : 0.3020 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5052 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 214 REMARK 3 SOLVENT ATOMS : 362 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.48000 REMARK 3 B22 (A**2) : 0.06000 REMARK 3 B33 (A**2) : 1.41000 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): 0.152 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.149 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.104 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.356 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5370 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7284 ; 1.641 ; 2.008 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 627 ; 6.844 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 245 ;40.822 ;25.673 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 938 ;14.606 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;16.895 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 866 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3873 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2547 ; 0.232 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3579 ; 0.322 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 452 ; 0.217 ; 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): 52 ; 0.443 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.508 ; 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): 3248 ; 2.175 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5094 ; 3.381 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2365 ; 6.495 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2190 ; 9.043 ;11.000 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 30 A 664 REMARK 3 ORIGIN FOR THE GROUP (A): 36.1010 -19.2930 19.0070 REMARK 3 T TENSOR REMARK 3 T11: -0.0920 T22: -0.0636 REMARK 3 T33: -0.2370 T12: 0.0320 REMARK 3 T13: 0.0008 T23: 0.0122 REMARK 3 L TENSOR REMARK 3 L11: 1.2329 L22: 0.5486 REMARK 3 L33: 0.5063 L12: 0.6114 REMARK 3 L13: -0.4339 L23: -0.2068 REMARK 3 S TENSOR REMARK 3 S11: -0.0297 S12: 0.0580 S13: 0.0244 REMARK 3 S21: 0.0093 S22: 0.0369 S23: 0.1273 REMARK 3 S31: 0.0660 S32: 0.1370 S33: -0.0072 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1ZIW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-MAY-05. REMARK 100 THE DEPOSITION ID IS D_1000032764. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAR-05; 13-MAR-05 REMARK 200 TEMPERATURE (KELVIN) : 100; NULL REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : SSRL; SSRL REMARK 200 BEAMLINE : BL11-1; BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 1.07812; 1.1401,1.1412,1.1271 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4; ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 76420 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.0000 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) : 2.17 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.56500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG2000, AMMONIUM SULFATE, PH 7, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 295K 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 59.83450 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 59.83450 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 69.24850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 77.56050 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 69.24850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 77.56050 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 59.83450 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 69.24850 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 77.56050 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 59.83450 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 69.24850 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 77.56050 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 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 27 REMARK 465 CYS A 28 REMARK 465 THR A 29 REMARK 465 SER A 337 REMARK 465 ILE A 338 REMARK 465 SER A 339 REMARK 465 LEU A 340 REMARK 465 ALA A 341 REMARK 465 SER A 342 REMARK 465 HIS A 665 REMARK 465 THR A 666 REMARK 465 ASN A 667 REMARK 465 ILE A 668 REMARK 465 PRO A 669 REMARK 465 GLU A 670 REMARK 465 LEU A 671 REMARK 465 SER A 672 REMARK 465 SER A 673 REMARK 465 HIS A 674 REMARK 465 TYR A 675 REMARK 465 LEU A 676 REMARK 465 CYS A 677 REMARK 465 ASN A 678 REMARK 465 THR A 679 REMARK 465 PRO A 680 REMARK 465 PRO A 681 REMARK 465 HIS A 682 REMARK 465 TYR A 683 REMARK 465 HIS A 684 REMARK 465 GLY A 685 REMARK 465 PHE A 686 REMARK 465 PRO A 687 REMARK 465 VAL A 688 REMARK 465 ARG A 689 REMARK 465 LEU A 690 REMARK 465 PHE A 691 REMARK 465 ASP A 692 REMARK 465 THR A 693 REMARK 465 SER A 694 REMARK 465 SER A 695 REMARK 465 CYS A 696 REMARK 465 LYS A 697 REMARK 465 ASP A 698 REMARK 465 SER A 699 REMARK 465 ALA A 700 REMARK 465 HIS A 701 REMARK 465 HIS A 702 REMARK 465 HIS A 703 REMARK 465 HIS A 704 REMARK 465 HIS A 705 REMARK 465 HIS A 706 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 O3 GOL A 778 O HOH A 1049 0.53 REMARK 500 N PHE A 644 O HOH A 1055 1.75 REMARK 500 O3 GOL A 780 O HOH A 1125 1.77 REMARK 500 C3 GOL A 778 O HOH A 1049 1.79 REMARK 500 O HOH A 1047 O HOH A 1048 1.86 REMARK 500 O HOH A 790 O HOH A 1095 1.91 REMARK 500 O HOH A 853 O HOH A 1141 2.02 REMARK 500 OD2 ASP A 348 O HOH A 1112 2.03 REMARK 500 CB ASP A 524 O HOH A 1070 2.10 REMARK 500 O6 NAG B 2 O HOH A 971 2.12 REMARK 500 O SER A 315 CZ3 TRP A 353 2.18 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 NZ LYS A 467 NZ LYS A 467 4555 1.07 REMARK 500 O HOH A 841 O HOH A 841 3555 1.84 REMARK 500 REMARK 500 REMARK: NULL 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 LYS A 467 CE LYS A 467 NZ 0.157 REMARK 500 ALA A 549 CA ALA A 549 CB 0.139 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 LYS A 467 CD - CE - NZ ANGL. DEV. = 19.3 DEGREES REMARK 500 PRO A 646 C - N - CA ANGL. DEV. = 10.8 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 SER A 31 117.99 -165.73 REMARK 500 GLU A 33 -9.06 71.98 REMARK 500 HIS A 60 70.21 54.78 REMARK 500 TYR A 74 52.17 -106.81 REMARK 500 ASN A 85 -154.77 -122.87 REMARK 500 ASN A 109 -154.37 -130.56 REMARK 500 ASN A 140 -113.99 -133.11 REMARK 500 ASN A 157 -164.82 -128.50 REMARK 500 ASN A 181 -160.65 -112.11 REMARK 500 LEU A 233 -70.72 -112.93 REMARK 500 TRP A 273 36.12 -89.60 REMARK 500 TYR A 307 68.01 63.49 REMARK 500 ASN A 309 44.11 -143.01 REMARK 500 ARG A 331 28.58 48.84 REMARK 500 ASP A 364 71.86 54.05 REMARK 500 LEU A 430 52.21 -117.19 REMARK 500 ASN A 441 -156.33 -119.54 REMARK 500 TYR A 465 68.32 65.43 REMARK 500 ASP A 496 30.73 -84.92 REMARK 500 LEU A 505 66.07 -102.17 REMARK 500 LEU A 529 56.73 -96.55 REMARK 500 ASN A 540 -166.39 -120.11 REMARK 500 ASN A 596 -169.72 -115.92 REMARK 500 ASN A 599 -74.28 -130.34 REMARK 500 SER A 604 -1.59 90.41 REMARK 500 ASN A 620 -159.52 -104.56 REMARK 500 PHE A 644 58.26 -119.86 REMARK 500 ASP A 648 -64.04 -141.55 REMARK 500 ILE A 654 -80.18 -123.46 REMARK 500 ASN A 659 10.45 -64.40 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 A 391 SER A 392 149.62 REMARK 500 SER A 498 PRO A 499 132.45 REMARK 500 ILE A 654 ALA A 655 -148.23 REMARK 500 REMARK 500 REMARK: NULL DBREF 1ZIW A 27 700 UNP O15455 TLR3_HUMAN 27 700 SEQADV 1ZIW HIS A 701 UNP O15455 EXPRESSION TAG SEQADV 1ZIW HIS A 702 UNP O15455 EXPRESSION TAG SEQADV 1ZIW HIS A 703 UNP O15455 EXPRESSION TAG SEQADV 1ZIW HIS A 704 UNP O15455 EXPRESSION TAG SEQADV 1ZIW HIS A 705 UNP O15455 EXPRESSION TAG SEQADV 1ZIW HIS A 706 UNP O15455 EXPRESSION TAG SEQRES 1 A 680 LYS CYS THR VAL SER HIS GLU VAL ALA ASP CYS SER HIS SEQRES 2 A 680 LEU LYS LEU THR GLN VAL PRO ASP ASP LEU PRO THR ASN SEQRES 3 A 680 ILE THR VAL LEU ASN LEU THR HIS ASN GLN LEU ARG ARG SEQRES 4 A 680 LEU PRO ALA ALA ASN PHE THR ARG TYR SER GLN LEU THR SEQRES 5 A 680 SER LEU ASP VAL GLY PHE ASN THR ILE SER LYS LEU GLU SEQRES 6 A 680 PRO GLU LEU CYS GLN LYS LEU PRO MET LEU LYS VAL LEU SEQRES 7 A 680 ASN LEU GLN HIS ASN GLU LEU SER GLN LEU SER ASP LYS SEQRES 8 A 680 THR PHE ALA PHE CYS THR ASN LEU THR GLU LEU HIS LEU SEQRES 9 A 680 MET SER ASN SER ILE GLN LYS ILE LYS ASN ASN PRO PHE SEQRES 10 A 680 VAL LYS GLN LYS ASN LEU ILE THR LEU ASP LEU SER HIS SEQRES 11 A 680 ASN GLY LEU SER SER THR LYS LEU GLY THR GLN VAL GLN SEQRES 12 A 680 LEU GLU ASN LEU GLN GLU LEU LEU LEU SER ASN ASN LYS SEQRES 13 A 680 ILE GLN ALA LEU LYS SER GLU GLU LEU ASP ILE PHE ALA SEQRES 14 A 680 ASN SER SER LEU LYS LYS LEU GLU LEU SER SER ASN GLN SEQRES 15 A 680 ILE LYS GLU PHE SER PRO GLY CYS PHE HIS ALA ILE GLY SEQRES 16 A 680 ARG LEU PHE GLY LEU PHE LEU ASN ASN VAL GLN LEU GLY SEQRES 17 A 680 PRO SER LEU THR GLU LYS LEU CYS LEU GLU LEU ALA ASN SEQRES 18 A 680 THR SER ILE ARG ASN LEU SER LEU SER ASN SER GLN LEU SEQRES 19 A 680 SER THR THR SER ASN THR THR PHE LEU GLY LEU LYS TRP SEQRES 20 A 680 THR ASN LEU THR MET LEU ASP LEU SER TYR ASN ASN LEU SEQRES 21 A 680 ASN VAL VAL GLY ASN ASP SER PHE ALA TRP LEU PRO GLN SEQRES 22 A 680 LEU GLU TYR PHE PHE LEU GLU TYR ASN ASN ILE GLN HIS SEQRES 23 A 680 LEU PHE SER HIS SER LEU HIS GLY LEU PHE ASN VAL ARG SEQRES 24 A 680 TYR LEU ASN LEU LYS ARG SER PHE THR LYS GLN SER ILE SEQRES 25 A 680 SER LEU ALA SER LEU PRO LYS ILE ASP ASP PHE SER PHE SEQRES 26 A 680 GLN TRP LEU LYS CYS LEU GLU HIS LEU ASN MET GLU ASP SEQRES 27 A 680 ASN ASP ILE PRO GLY ILE LYS SER ASN MET PHE THR GLY SEQRES 28 A 680 LEU ILE ASN LEU LYS TYR LEU SER LEU SER ASN SER PHE SEQRES 29 A 680 THR SER LEU ARG THR LEU THR ASN GLU THR PHE VAL SER SEQRES 30 A 680 LEU ALA HIS SER PRO LEU HIS ILE LEU ASN LEU THR LYS SEQRES 31 A 680 ASN LYS ILE SER LYS ILE GLU SER ASP ALA PHE SER TRP SEQRES 32 A 680 LEU GLY HIS LEU GLU VAL LEU ASP LEU GLY LEU ASN GLU SEQRES 33 A 680 ILE GLY GLN GLU LEU THR GLY GLN GLU TRP ARG GLY LEU SEQRES 34 A 680 GLU ASN ILE PHE GLU ILE TYR LEU SER TYR ASN LYS TYR SEQRES 35 A 680 LEU GLN LEU THR ARG ASN SER PHE ALA LEU VAL PRO SER SEQRES 36 A 680 LEU GLN ARG LEU MET LEU ARG ARG VAL ALA LEU LYS ASN SEQRES 37 A 680 VAL ASP SER SER PRO SER PRO PHE GLN PRO LEU ARG ASN SEQRES 38 A 680 LEU THR ILE LEU ASP LEU SER ASN ASN ASN ILE ALA ASN SEQRES 39 A 680 ILE ASN ASP ASP MET LEU GLU GLY LEU GLU LYS LEU GLU SEQRES 40 A 680 ILE LEU ASP LEU GLN HIS ASN ASN LEU ALA ARG LEU TRP SEQRES 41 A 680 LYS HIS ALA ASN PRO GLY GLY PRO ILE TYR PHE LEU LYS SEQRES 42 A 680 GLY LEU SER HIS LEU HIS ILE LEU ASN LEU GLU SER ASN SEQRES 43 A 680 GLY PHE ASP GLU ILE PRO VAL GLU VAL PHE LYS ASP LEU SEQRES 44 A 680 PHE GLU LEU LYS ILE ILE ASP LEU GLY LEU ASN ASN LEU SEQRES 45 A 680 ASN THR LEU PRO ALA SER VAL PHE ASN ASN GLN VAL SER SEQRES 46 A 680 LEU LYS SER LEU ASN LEU GLN LYS ASN LEU ILE THR SER SEQRES 47 A 680 VAL GLU LYS LYS VAL PHE GLY PRO ALA PHE ARG ASN LEU SEQRES 48 A 680 THR GLU LEU ASP MET ARG PHE ASN PRO PHE ASP CYS THR SEQRES 49 A 680 CYS GLU SER ILE ALA TRP PHE VAL ASN TRP ILE ASN GLU SEQRES 50 A 680 THR HIS THR ASN ILE PRO GLU LEU SER SER HIS TYR LEU SEQRES 51 A 680 CYS ASN THR PRO PRO HIS TYR HIS GLY PHE PRO VAL ARG SEQRES 52 A 680 LEU PHE ASP THR SER SER CYS LYS ASP SER ALA HIS HIS SEQRES 53 A 680 HIS HIS HIS HIS MODRES 1ZIW ASN A 124 ASN GLYCOSYLATION SITE MODRES 1ZIW ASN A 265 ASN GLYCOSYLATION SITE MODRES 1ZIW ASN A 275 ASN GLYCOSYLATION SITE MODRES 1ZIW ASN A 291 ASN GLYCOSYLATION SITE MODRES 1ZIW ASN A 398 ASN GLYCOSYLATION SITE MODRES 1ZIW ASN A 413 ASN GLYCOSYLATION SITE MODRES 1ZIW ASN A 507 ASN GLYCOSYLATION SITE MODRES 1ZIW ASN A 252 ASN GLYCOSYLATION SITE HET NAG B 1 14 HET NAG B 2 14 HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET NAG E 1 14 HET NAG E 2 14 HET NAG A 1 14 HET NAG A 4 14 HET NAG A 7 14 HET NAG A 8 14 HET SO4 A 776 5 HET SO4 A 777 5 HET GOL A 778 6 HET GOL A 779 6 HET GOL A 780 6 HET GOL A 781 6 HET GOL A 782 6 HET GOL A 783 6 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 NAG 12(C8 H15 N O6) FORMUL 10 SO4 2(O4 S 2-) FORMUL 12 GOL 6(C3 H8 O3) FORMUL 18 HOH *362(H2 O) HELIX 1 1 PRO A 67 SER A 75 5 9 HELIX 2 2 GLU A 93 LEU A 98 1 6 HELIX 3 3 LYS A 187 ASP A 192 1 6 HELIX 4 4 ILE A 193 ALA A 195 5 3 HELIX 5 5 GLY A 215 ILE A 220 5 6 HELIX 6 6 LEU A 233 ALA A 246 1 14 HELIX 7 7 PHE A 268 THR A 274 5 7 HELIX 8 8 PHE A 401 ALA A 405 5 5 HELIX 9 9 GLY A 449 ARG A 453 5 5 HELIX 10 10 LEU A 542 LYS A 547 5 6 HELIX 11 11 GLU A 626 ARG A 635 1 10 SHEET 1 A26 VAL A 34 ASP A 36 0 SHEET 2 A26 VAL A 55 ASN A 57 1 O VAL A 55 N ALA A 35 SHEET 3 A26 SER A 79 ASP A 81 1 O ASP A 81 N LEU A 56 SHEET 4 A26 VAL A 103 ASN A 105 1 O ASN A 105 N LEU A 80 SHEET 5 A26 GLU A 127 HIS A 129 1 O GLU A 127 N LEU A 104 SHEET 6 A26 THR A 151 ASP A 153 1 O ASP A 153 N LEU A 128 SHEET 7 A26 GLU A 175 LEU A 177 1 O LEU A 177 N LEU A 152 SHEET 8 A26 LYS A 201 GLU A 203 1 O LYS A 201 N LEU A 176 SHEET 9 A26 GLY A 225 PHE A 227 1 O PHE A 227 N LEU A 202 SHEET 10 A26 ASN A 252 SER A 254 1 O SER A 254 N LEU A 226 SHEET 11 A26 MET A 278 ASP A 280 1 O MET A 278 N LEU A 253 SHEET 12 A26 TYR A 302 PHE A 304 1 O PHE A 304 N LEU A 279 SHEET 13 A26 TYR A 326 ASN A 328 1 O ASN A 328 N PHE A 303 SHEET 14 A26 HIS A 359 ASN A 361 1 O HIS A 359 N LEU A 327 SHEET 15 A26 TYR A 383 SER A 385 1 O TYR A 383 N LEU A 360 SHEET 16 A26 ILE A 411 ASN A 413 1 O ASN A 413 N LEU A 384 SHEET 17 A26 VAL A 435 ASP A 437 1 O ASP A 437 N LEU A 412 SHEET 18 A26 GLU A 460 TYR A 462 1 O TYR A 462 N LEU A 436 SHEET 19 A26 ARG A 484 MET A 486 1 O ARG A 484 N ILE A 461 SHEET 20 A26 ILE A 510 ASP A 512 1 O ASP A 512 N LEU A 485 SHEET 21 A26 ILE A 534 ASP A 536 1 O ILE A 534 N LEU A 511 SHEET 22 A26 ILE A 566 ASN A 568 1 O ILE A 566 N LEU A 535 SHEET 23 A26 ILE A 590 ASP A 592 1 O ASP A 592 N LEU A 567 SHEET 24 A26 SER A 614 ASN A 616 1 O ASN A 616 N ILE A 591 SHEET 25 A26 GLU A 639 ASP A 641 1 O ASP A 641 N LEU A 615 SHEET 26 A26 PHE A 657 VAL A 658 1 O PHE A 657 N LEU A 640 SHEET 1 B 2 SER A 198 LEU A 199 0 SHEET 2 B 2 ARG A 222 LEU A 223 1 O ARG A 222 N LEU A 199 SHEET 1 C 2 THR A 262 THR A 263 0 SHEET 2 C 2 VAL A 288 VAL A 289 1 O VAL A 288 N THR A 263 SHEET 1 D 2 HIS A 312 LEU A 313 0 SHEET 2 D 2 LYS A 345 ILE A 346 1 O LYS A 345 N LEU A 313 SHEET 1 E 2 THR A 395 LEU A 396 0 SHEET 2 E 2 LYS A 421 ILE A 422 1 O LYS A 421 N LEU A 396 SHEET 1 F 2 GLY A 444 GLU A 446 0 SHEET 2 F 2 TYR A 468 GLN A 470 1 O GLN A 470 N GLN A 445 SSBOND 1 CYS A 95 CYS A 122 1555 1555 2.03 LINK C1 NAG A 1 ND2 ASN A 124 1555 1555 1.46 LINK C1 NAG A 4 ND2 ASN A 265 1555 1555 1.45 LINK C1 NAG A 7 ND2 ASN A 291 1555 1555 1.43 LINK C1 NAG A 8 ND2 ASN A 398 1555 1555 1.45 LINK ND2 ASN A 252 C1 NAG B 1 1555 1555 1.52 LINK ND2 ASN A 275 C1 NAG C 1 1555 1555 1.44 LINK ND2 ASN A 413 C1 NAG D 1 1555 1555 1.43 LINK ND2 ASN A 507 C1 NAG E 1 1555 1555 1.46 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.45 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.46 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.45 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.45 CRYST1 138.497 155.121 119.669 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 0.007220 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006447 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008356 0.00000