PDB Short entry for 1UCT HEADER IMMUNE SYSTEM 21-APR-03 1UCT TITLE CRYSTAL STRUCTURE OF THE EXTRACELLULAR FRAGMENT OF FC ALPHA RECEPTOR I TITLE 2 (CD89) COMPND MOL_ID: 1; COMPND 2 MOLECULE: IMMUNOGLOBULIN ALPHA FC RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 0-217; COMPND 5 SYNONYM: FC ALPHA RECEPTOR I (CD89); COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS BETA STANDS, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR Y.DING,G.XU,M.YANG,W.ZHANG,Z.RAO REVDAT 4 27-DEC-23 1UCT 1 SEQADV REVDAT 3 24-FEB-09 1UCT 1 VERSN REVDAT 2 29-JUL-03 1UCT 1 JRNL REVDAT 1 22-JUL-03 1UCT 0 JRNL AUTH Y.DING,G.XU,M.YANG,M.YAO,G.F.GAO,W.ZHANG,Z.RAO JRNL TITL CRYSTAL STRUCTURE OF THE ECTODOMAIN OF HUMAN FC{ALPHA}RI. JRNL REF J.BIOL.CHEM. V. 278 27966 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12783876 JRNL DOI 10.1074/JBC.C300223200 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 21565 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2222 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1522 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 68 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) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 BOND ANGLES (DEGREES) : 1.800 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1UCT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-APR-03. REMARK 100 THE DEPOSITION ID IS D_1000005685. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-MAR-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 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, 0.9798, 0.9800 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 95481 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 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 (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL 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 (%) : 99.0 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: 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 (%): 49.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG4000, SODIUM CITRATE, ETHANOL REMARK 280 GLYCOL, PH 6.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 53.17500 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 53.17500 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 29.50500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 34.72500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 29.50500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 34.72500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 53.17500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 29.50500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 34.72500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 53.17500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 29.50500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 34.72500 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 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 A 0 REMARK 465 ALA A 1 REMARK 465 PHE A 57 REMARK 465 TRP A 58 REMARK 465 ASN A 59 REMARK 465 GLU A 60 REMARK 465 ASP A 197 REMARK 465 SER A 198 REMARK 465 ILE A 199 REMARK 465 HIS A 200 REMARK 465 GLN A 201 REMARK 465 ASP A 202 REMARK 465 TYR A 203 REMARK 465 THR A 204 REMARK 465 THR A 205 REMARK 465 GLN A 206 REMARK 465 ASN A 207 REMARK 465 LEU A 208 REMARK 465 ILE A 209 REMARK 465 LEU A 210 REMARK 465 GLU A 211 REMARK 465 HIS A 212 REMARK 465 HIS A 213 REMARK 465 HIS A 214 REMARK 465 HIS A 215 REMARK 465 HIS A 216 REMARK 465 HIS A 217 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 ASN A 45 -116.29 57.44 REMARK 500 HIS A 130 -106.99 -121.47 REMARK 500 PHE A 133 152.06 -46.83 REMARK 500 REMARK 500 REMARK: NULL DBREF 1UCT A 0 209 UNP P24071 FCAR_HUMAN 20 229 SEQADV 1UCT LEU A 210 UNP P24071 EXPRESSION TAG SEQADV 1UCT GLU A 211 UNP P24071 EXPRESSION TAG SEQADV 1UCT HIS A 212 UNP P24071 EXPRESSION TAG SEQADV 1UCT HIS A 213 UNP P24071 EXPRESSION TAG SEQADV 1UCT HIS A 214 UNP P24071 EXPRESSION TAG SEQADV 1UCT HIS A 215 UNP P24071 EXPRESSION TAG SEQADV 1UCT HIS A 216 UNP P24071 EXPRESSION TAG SEQADV 1UCT HIS A 217 UNP P24071 EXPRESSION TAG SEQRES 1 A 218 MET ALA GLN GLU GLY ASP PHE PRO MET PRO PHE ILE SER SEQRES 2 A 218 ALA LYS SER SER PRO VAL ILE PRO LEU ASP GLY SER VAL SEQRES 3 A 218 LYS ILE GLN CYS GLN ALA ILE ARG GLU ALA TYR LEU THR SEQRES 4 A 218 GLN LEU MET ILE ILE LYS ASN SER THR TYR ARG GLU ILE SEQRES 5 A 218 GLY ARG ARG LEU LYS PHE TRP ASN GLU THR ASP PRO GLU SEQRES 6 A 218 PHE VAL ILE ASP HIS MET ASP ALA ASN LYS ALA GLY ARG SEQRES 7 A 218 TYR GLN CYS GLN TYR ARG ILE GLY HIS TYR ARG PHE ARG SEQRES 8 A 218 TYR SER ASP THR LEU GLU LEU VAL VAL THR GLY LEU TYR SEQRES 9 A 218 GLY LYS PRO PHE LEU SER ALA ASP ARG GLY LEU VAL LEU SEQRES 10 A 218 MET PRO GLY GLU ASN ILE SER LEU THR CYS SER SER ALA SEQRES 11 A 218 HIS ILE PRO PHE ASP ARG PHE SER LEU ALA LYS GLU GLY SEQRES 12 A 218 GLU LEU SER LEU PRO GLN HIS GLN SER GLY GLU HIS PRO SEQRES 13 A 218 ALA ASN PHE SER LEU GLY PRO VAL ASP LEU ASN VAL SER SEQRES 14 A 218 GLY ILE TYR ARG CYS TYR GLY TRP TYR ASN ARG SER PRO SEQRES 15 A 218 TYR LEU TRP SER PHE PRO SER ASN ALA LEU GLU LEU VAL SEQRES 16 A 218 VAL THR ASP SER ILE HIS GLN ASP TYR THR THR GLN ASN SEQRES 17 A 218 LEU ILE LEU GLU HIS HIS HIS HIS HIS HIS FORMUL 2 HOH *68(H2 O) HELIX 1 1 GLN A 2 PHE A 6 5 5 HELIX 2 2 ASP A 71 ALA A 75 5 5 HELIX 3 3 ASP A 164 SER A 168 5 5 SHEET 1 A 4 ILE A 11 ALA A 13 0 SHEET 2 A 4 VAL A 25 CYS A 29 -1 N GLN A 28 O SER A 12 SHEET 3 A 4 GLU A 64 ILE A 67 -1 N PHE A 65 O ILE A 27 SHEET 4 A 4 ARG A 53 ARG A 54 -1 N ARG A 53 O VAL A 66 SHEET 1 B 9 THR A 47 GLU A 50 0 SHEET 2 B 9 LEU A 37 LYS A 44 -1 O ILE A 42 N ARG A 49 SHEET 3 B 9 GLY A 76 ILE A 84 -1 O ARG A 77 N ILE A 43 SHEET 4 B 9 ARG A 88 TYR A 91 -1 O ARG A 88 N ILE A 84 SHEET 5 B 9 GLY A 76 ILE A 84 -1 N TYR A 82 O ARG A 90 SHEET 6 B 9 LEU A 95 THR A 100 -1 O LEU A 95 N TYR A 78 SHEET 7 B 9 LEU A 183 TRP A 184 1 N TRP A 184 O VAL A 99 SHEET 8 B 9 LEU A 95 THR A 100 1 O VAL A 99 N TRP A 184 SHEET 9 B 9 VAL A 18 PRO A 20 1 N ILE A 19 O VAL A 98 SHEET 1 C 3 PHE A 107 ALA A 110 0 SHEET 2 C 3 SER A 123 SER A 127 -1 N THR A 125 O SER A 109 SHEET 3 C 3 ALA A 156 SER A 159 -1 O ALA A 156 N CYS A 126 SHEET 1 D 5 HIS A 149 SER A 151 0 SHEET 2 D 5 ARG A 135 LYS A 140 -1 O PHE A 136 N SER A 151 SHEET 3 D 5 GLY A 169 TRP A 176 -1 O ARG A 172 N ALA A 139 SHEET 4 D 5 LEU A 191 VAL A 195 -1 O LEU A 191 N TYR A 171 SHEET 5 D 5 VAL A 115 LEU A 116 1 N LEU A 116 O VAL A 194 SSBOND 1 CYS A 29 CYS A 80 1555 1555 2.01 SSBOND 2 CYS A 126 CYS A 173 1555 1555 2.05 CISPEP 1 HIS A 154 PRO A 155 0 -0.30 CISPEP 2 GLY A 161 PRO A 162 0 -0.79 CRYST1 59.010 69.450 106.350 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 0.016946 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014399 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009403 0.00000