HEADER IMMUNE SYSTEM 08-NOV-12 4HWN TITLE CRYSTAL STRUCTURE OF THE SECOND IG-C2 DOMAIN OF HUMAN FC-RECEPTOR LIKE TITLE 2 A (FCRLA), ISOFORM 9 [NYSGRC-005836] COMPND MOL_ID: 1; COMPND 2 MOLECULE: FC RECEPTOR-LIKE A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 169-264; COMPND 5 SYNONYM: FC RECEPTOR HOMOLOG EXPRESSED IN B-CELLS, FC RECEPTOR-LIKE COMPND 6 AND MUCIN-LIKE PROTEIN 1, FC RECEPTOR-LIKE PROTEIN, FC RECEPTOR- COMPND 7 RELATED PROTEIN X, FCRX; COMPND 8 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: FCRL, FCRL1, FCRLA, FCRLM1, FCRX, FREB, UNQ291/PRO329; SOURCE 6 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HI5; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PIEX KEYWDS FCRLA, FCRL, IG-C2 DOMAIN, IG SUPERFAMILY, IMMUNE SYSTEM, STRUCTURAL KEYWDS 2 GENOMICS, PSI-BIOLOGY, NEW YORK STRUCTURAL GENOMICS RESEARCH KEYWDS 3 CONSORTIUM, NYSGRC, ATOMS-TO-ANIMALS: THE IMMUNE FUNCTION NETWORK, KEYWDS 4 IFN EXPDTA X-RAY DIFFRACTION AUTHOR P.R.KUMAR,M.AHMED,R.BHOSLE,D.CALARESE,A.CELIKIGIL,M.K.CHAN,A.FISER, AUTHOR 2 S.GARFORTH,A.S.GLENN,B.HILLERICH,K.KHAFIZOV,J.LOVE,H.PATEL, AUTHOR 3 R.RUBINSTEIN,R.SEIDEL,M.STEAD,R.TORO,S.G.NATHENSON,S.C.ALMO,NEW YORK AUTHOR 4 STRUCTURAL GENOMICS RESEARCH CONSORTIUM (NYSGRC),ATOMS-TO-ANIMALS: AUTHOR 5 THE IMMUNE FUNCTION NETWORK (IFN) REVDAT 3 27-NOV-24 4HWN 1 REMARK REVDAT 2 20-SEP-23 4HWN 1 SEQADV REVDAT 1 21-NOV-12 4HWN 0 JRNL AUTH P.R.KUMAR,S.G.NATHENSON,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF THE SECOND IG-C2 DOMAIN OF THE HUMAN JRNL TITL 2 FC-RECEPTOR LIKE A, ISOFORM 9 [NYSGRC-005836] JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.01 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.1_1168 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) : 2.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.94 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.2 REMARK 3 NUMBER OF REFLECTIONS : 5430 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.570 REMARK 3 FREE R VALUE TEST SET COUNT : 248 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 36.9477 - 2.5275 0.98 2828 140 0.1831 0.2120 REMARK 3 2 2.5275 - 2.0061 0.86 2354 108 0.1877 0.2865 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 : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.940 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.09 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 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 : 0.007 699 REMARK 3 ANGLE : 1.049 950 REMARK 3 CHIRALITY : 0.069 101 REMARK 3 PLANARITY : 0.005 127 REMARK 3 DIHEDRAL : 17.177 260 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 4HWN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-NOV-12. REMARK 100 THE DEPOSITION ID IS D_1000076012. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-OCT-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0750 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS 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 : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 5840 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 10.60 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 31.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 11.20 REMARK 200 R MERGE FOR SHELL (I) : 0.21300 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: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3RJD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 28.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN (20 MM HEPES, PH 7.5, 150 MM REMARK 280 NACL, 10% GLYCEROL; RESERVOIR (0.1M SODIUM CACODYLATE PH 6.5, REMARK 280 0.2M SODIUM CHLORIDE, 2M AMMONIUM SULFATE); CRYOPROTECTION REMARK 280 (RESERVOIR + 2M LITHIUM SULFATE), SITTING DROP VAPOR DIFFUSION, REMARK 280 TEMPERATURE 298K, VAPOR DIFFUSION, SITTING DROP, PH 7.0 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 15.59900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 36.94150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.75850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 36.94150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 15.59900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 17.75850 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A MONOMER 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: PISA 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 GLN A 181 REMARK 465 ASP A 182 REMARK 465 TYR A 183 REMARK 465 GLY A 184 REMARK 465 GLY A 185 REMARK 465 LYS A 212 REMARK 465 LEU A 213 REMARK 465 PRO A 214 REMARK 465 LEU A 215 REMARK 465 GLN A 216 REMARK 465 ARG A 217 REMARK 465 SER A 218 REMARK 465 ALA A 219 REMARK 465 ALA A 220 REMARK 465 ALA A 280 REMARK 465 SER A 281 REMARK 465 ALA A 282 REMARK 465 GLU A 283 REMARK 465 ASN A 284 REMARK 465 LEU A 285 REMARK 465 TYR A 286 REMARK 465 PHE A 287 REMARK 465 GLN A 288 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGRC-005836 RELATED DB: TARGETTRACK DBREF 4HWN A 186 281 UNP Q7L513 FCRLA_HUMAN 169 264 SEQADV 4HWN GLN A 181 UNP Q7L513 EXPRESSION TAG SEQADV 4HWN ASP A 182 UNP Q7L513 EXPRESSION TAG SEQADV 4HWN TYR A 183 UNP Q7L513 EXPRESSION TAG SEQADV 4HWN GLY A 184 UNP Q7L513 EXPRESSION TAG SEQADV 4HWN GLY A 185 UNP Q7L513 EXPRESSION TAG SEQADV 4HWN ALA A 282 UNP Q7L513 EXPRESSION TAG SEQADV 4HWN GLU A 283 UNP Q7L513 EXPRESSION TAG SEQADV 4HWN ASN A 284 UNP Q7L513 EXPRESSION TAG SEQADV 4HWN LEU A 285 UNP Q7L513 EXPRESSION TAG SEQADV 4HWN TYR A 286 UNP Q7L513 EXPRESSION TAG SEQADV 4HWN PHE A 287 UNP Q7L513 EXPRESSION TAG SEQADV 4HWN GLN A 288 UNP Q7L513 EXPRESSION TAG SEQRES 1 A 108 GLN ASP TYR GLY GLY PHE PRO ALA PRO ILE LEU ARG ALA SEQRES 2 A 108 VAL PRO SER ALA GLU PRO GLN ALA GLY SER PRO MET THR SEQRES 3 A 108 LEU SER CYS GLN THR LYS LEU PRO LEU GLN ARG SER ALA SEQRES 4 A 108 ALA ARG LEU LEU PHE SER PHE TYR LYS ASP GLY ARG ILE SEQRES 5 A 108 VAL GLN SER ARG GLY LEU SER SER GLU PHE GLN ILE PRO SEQRES 6 A 108 THR ALA SER GLU ASP HIS SER GLY SER TYR TRP CYS GLU SEQRES 7 A 108 ALA ALA THR GLU ASP ASN GLN VAL TRP LYS GLN SER PRO SEQRES 8 A 108 GLN LEU GLU ILE ARG VAL GLN GLY ALA SER ALA GLU ASN SEQRES 9 A 108 LEU TYR PHE GLN FORMUL 2 HOH *58(H2 O) HELIX 1 1 SER A 248 SER A 252 5 5 SHEET 1 A 3 ILE A 190 VAL A 194 0 SHEET 2 A 3 MET A 205 GLN A 210 -1 O GLN A 210 N ILE A 190 SHEET 3 A 3 GLU A 241 ILE A 244 -1 O ILE A 244 N MET A 205 SHEET 1 B 4 ARG A 231 GLY A 237 0 SHEET 2 B 4 LEU A 223 LYS A 228 -1 N LYS A 228 O ARG A 231 SHEET 3 B 4 GLY A 253 ALA A 260 -1 O TRP A 256 N TYR A 227 SHEET 4 B 4 TRP A 267 GLN A 269 -1 O LYS A 268 N ALA A 259 SHEET 1 C 4 ARG A 231 GLY A 237 0 SHEET 2 C 4 LEU A 223 LYS A 228 -1 N LYS A 228 O ARG A 231 SHEET 3 C 4 GLY A 253 ALA A 260 -1 O TRP A 256 N TYR A 227 SHEET 4 C 4 LEU A 273 ILE A 275 -1 O ILE A 275 N GLY A 253 SSBOND 1 CYS A 209 CYS A 257 1555 1555 2.05 CISPEP 1 VAL A 194 PRO A 195 0 5.79 CRYST1 31.198 35.517 73.883 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 0.032053 0.000000 0.000000 0.00000 SCALE2 0.000000 0.028156 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013535 0.00000