HEADER STRUCTURAL PROTEIN 31-AUG-22 8AXR TITLE CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF HUMAN CFAP410 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 410; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: C21ORF-HUMF09G8.5,LEUCINE-RICH REPEAT-CONTAINING PROTEIN 76, COMPND 5 YF5/A2; 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 GENE: CFAP410, C21ORF2, LRRC76; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS CILIA, FLAGELLA, COILED-COIL, STRUCTURAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.DONG,A.STADLER REVDAT 2 27-SEP-23 8AXR 1 REMARK REVDAT 1 13-SEP-23 8AXR 0 JRNL AUTH G.DONG,A.STADLER JRNL TITL STRUCTURAL STUDIES OF CILIA AND FLAGELLA ASSOCIATED PROTEIN JRNL TITL 2 410 (CFAP410) REVEAL ITS BIMODULAR ORGANIZATION WITH AN JRNL TITL 3 N-TERMINAL LRR MOTIF AND A C-TERMINAL TETRAMERIC HELICAL JRNL TITL 4 BUNDLE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.1_4122 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.94 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 9756 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.214 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.010 REMARK 3 FREE R VALUE TEST SET COUNT : 977 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 19.9400 - 2.8600 1.00 1292 145 0.1918 0.2202 REMARK 3 2 2.8600 - 2.2700 1.00 1269 140 0.2065 0.2285 REMARK 3 3 2.2700 - 1.9900 1.00 1258 141 0.2029 0.2503 REMARK 3 4 1.9900 - 1.8000 1.00 1264 139 0.2333 0.2652 REMARK 3 5 1.8000 - 1.6800 1.00 1255 140 0.2572 0.2974 REMARK 3 6 1.6800 - 1.5800 1.00 1231 137 0.2864 0.3246 REMARK 3 7 1.5800 - 1.5000 0.96 1210 135 0.3369 0.3701 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) : 0.231 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.304 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.13 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.40 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 : 0.006 450 REMARK 3 ANGLE : 0.937 609 REMARK 3 CHIRALITY : 0.073 84 REMARK 3 PLANARITY : 0.010 77 REMARK 3 DIHEDRAL : 4.522 62 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 214 THROUGH 244) REMARK 3 ORIGIN FOR THE GROUP (A): 8.6444 9.2604 6.6698 REMARK 3 T TENSOR REMARK 3 T11: 0.2846 T22: 0.2354 REMARK 3 T33: 0.2365 T12: 0.0046 REMARK 3 T13: -0.0318 T23: -0.0135 REMARK 3 L TENSOR REMARK 3 L11: 0.1350 L22: 0.0587 REMARK 3 L33: 0.0593 L12: 0.0390 REMARK 3 L13: 0.0655 L23: 0.0568 REMARK 3 S TENSOR REMARK 3 S11: -0.0631 S12: 0.0303 S13: 0.1703 REMARK 3 S21: 0.3088 S22: -0.0203 S23: -0.1224 REMARK 3 S31: -0.0283 S32: 0.3176 S33: -0.0004 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 214 THROUGH 242) REMARK 3 ORIGIN FOR THE GROUP (A): 8.4729 6.3173 5.7298 REMARK 3 T TENSOR REMARK 3 T11: 0.2086 T22: 0.2506 REMARK 3 T33: 0.2412 T12: 0.0174 REMARK 3 T13: 0.0139 T23: -0.0005 REMARK 3 L TENSOR REMARK 3 L11: 0.0928 L22: 0.0824 REMARK 3 L33: 0.2143 L12: -0.0098 REMARK 3 L13: 0.1033 L23: -0.0178 REMARK 3 S TENSOR REMARK 3 S11: 0.0655 S12: -0.2524 S13: -0.0673 REMARK 3 S21: -0.0845 S22: -0.0315 S23: -0.1493 REMARK 3 S31: 0.1456 S32: 0.0916 S33: 0.0117 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 8AXR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-AUG-22. REMARK 100 THE DEPOSITION ID IS D_1292125336. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAR-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0-7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.87313 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9761 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 19.940 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.0500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 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: AB INITIO PHASING REMARK 200 SOFTWARE USED: ARCIMBOLDO REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5 M SODIUM CHLORIDE, 10% (V/V) REMARK 280 ETHANOL, EVAPORATION, TEMPERATURE 297K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 28.05750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.31400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 28.05750 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 25.31400 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -95.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 GLY A 212 REMARK 465 ARG A 213 REMARK 465 GLY B 212 REMARK 465 ARG B 213 REMARK 465 GLN B 243 REMARK 465 ALA B 244 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 OE1 GLU B 232 O HOH B 401 2.10 REMARK 500 OE2 GLU B 232 O HOH B 402 2.14 REMARK 500 OE1 GLN A 236 O HOH A 401 2.17 REMARK 500 O HOH B 403 O HOH B 404 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8AXJ RELATED DB: PDB REMARK 900 RELATED ID: 8AXO RELATED DB: PDB REMARK 900 RELATED ID: 8AXQ RELATED DB: PDB DBREF 8AXR A 212 244 UNP O43822 CF410_HUMAN 213 245 DBREF 8AXR B 212 244 UNP O43822 CF410_HUMAN 213 245 SEQRES 1 A 33 GLY ARG ASN VAL LEU THR ALA ILE LEU LEU LEU LEU ARG SEQRES 2 A 33 GLU LEU ASP ALA GLU GLY LEU GLU ALA VAL GLN GLN THR SEQRES 3 A 33 VAL GLY SER ARG LEU GLN ALA SEQRES 1 B 33 GLY ARG ASN VAL LEU THR ALA ILE LEU LEU LEU LEU ARG SEQRES 2 B 33 GLU LEU ASP ALA GLU GLY LEU GLU ALA VAL GLN GLN THR SEQRES 3 B 33 VAL GLY SER ARG LEU GLN ALA HET CL A 301 1 HET CL B 301 1 HETNAM CL CHLORIDE ION FORMUL 3 CL 2(CL 1-) FORMUL 5 HOH *28(H2 O) HELIX 1 AA1 ASN A 214 ARG A 224 1 11 HELIX 2 AA2 ASP A 227 ALA A 244 1 18 HELIX 3 AA3 VAL B 215 LEU B 223 1 9 HELIX 4 AA4 ARG B 224 LEU B 226 5 3 HELIX 5 AA5 ASP B 227 LEU B 242 1 16 CRYST1 56.115 50.628 22.146 90.00 101.08 90.00 C 1 2 1 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 0.017821 0.000000 0.003489 0.00000 SCALE2 0.000000 0.019752 0.000000 0.00000 SCALE3 0.000000 0.000000 0.046012 0.00000