HEADER STRUCTURAL PROTEIN 30-SEP-16 5LZN TITLE -TIP MICROTUBULE-BINDING DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: CALMODULIN-REGULATED SPECTRIN-ASSOCIATED PROTEIN 3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PROTEIN NEZHA; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: CAMSAP3, KIAA1543; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS -TIP, MICROTUBULE, STRUCTURAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.M.STANGIER,M.O.STEINMETZ REVDAT 5 17-JAN-24 5LZN 1 REMARK REVDAT 4 16-OCT-19 5LZN 1 REMARK REVDAT 3 15-NOV-17 5LZN 1 JRNL REVDAT 2 18-OCT-17 5LZN 1 JRNL REVDAT 1 04-OCT-17 5LZN 0 JRNL AUTH J.ATHERTON,K.JIANG,M.M.STANGIER,Y.LUO,S.HUA,K.HOUBEN, JRNL AUTH 2 J.J.E.VAN HOOFF,A.P.JOSEPH,G.SCARABELLI,B.J.GRANT, JRNL AUTH 3 A.J.ROBERTS,M.TOPF,M.O.STEINMETZ,M.BALDUS,C.A.MOORES, JRNL AUTH 4 A.AKHMANOVA JRNL TITL A STRUCTURAL MODEL FOR MICROTUBULE MINUS-END RECOGNITION AND JRNL TITL 2 PROTECTION BY CAMSAP PROTEINS. JRNL REF NAT. STRUCT. MOL. BIOL. V. 24 931 2017 JRNL REFN ESSN 1545-9985 JRNL PMID 28991265 JRNL DOI 10.1038/NSMB.3483 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 68.14 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 28088 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.192 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1469 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 1.4360 - 1.4000 1.00 2047 97 0.5460 0.5640 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.051 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.34000 REMARK 3 B22 (A**2) : 1.34000 REMARK 3 B33 (A**2) : -2.69000 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 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: NULL REMARK 3 ORIGIN FOR THE GROUP (A): -21.7898 -6.1609 -11.9588 REMARK 3 T TENSOR REMARK 3 T11: 0.0013 T22: 0.0054 REMARK 3 T33: 0.0536 T12: -0.0002 REMARK 3 T13: 0.0017 T23: 0.0029 REMARK 3 L TENSOR REMARK 3 L11: 0.3123 L22: 0.2965 REMARK 3 L33: 0.2760 L12: -0.1023 REMARK 3 L13: 0.1359 L23: 0.1941 REMARK 3 S TENSOR REMARK 3 S11: 0.0127 S12: 0.0004 S13: -0.0502 REMARK 3 S21: -0.0094 S22: -0.0150 S23: 0.0425 REMARK 3 S31: 0.0017 S32: -0.0110 S33: 0.0023 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 5LZN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1200001625. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-AUG-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29557 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 68.140 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 25.50 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.5000 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: PHASER REMARK 200 STARTING MODEL: 1UGJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM CITRIC ACID, PH 5, 1 M NACL, PH REMARK 280 5.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 48.18000 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 48.18000 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 31.63500 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 48.18000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 48.18000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 31.63500 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 48.18000 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 48.18000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 31.63500 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 48.18000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 48.18000 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 31.63500 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 48.18000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 48.18000 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 31.63500 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 48.18000 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 48.18000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 31.63500 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 48.18000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 48.18000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 31.63500 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 48.18000 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 48.18000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 31.63500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1318 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1346 LIES ON A SPECIAL POSITION. 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 ALA A 1121 REMARK 465 ALA A 1138 REMARK 465 GLY A 1139 REMARK 465 LYS A 1140 REMARK 465 VAL A 1141 REMARK 465 GLN A 1237 REMARK 465 SER A 1238 REMARK 465 LYS A 1239 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASN A1142 CG OD1 ND2 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 O HOH A 1344 O HOH A 1350 1.74 REMARK 500 O HOH A 1347 O HOH A 1355 2.03 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 CYS A1135 -65.30 -132.05 REMARK 500 GLU A1202 -79.84 -101.26 REMARK 500 REMARK 500 REMARK: NULL DBREF 5LZN A 1121 1239 UNP Q80VC9 CAMP3_MOUSE 1121 1239 SEQRES 1 A 119 ALA LYS SER ASN LYS PHE ILE ILE HIS ASN ALA LEU SER SEQRES 2 A 119 HIS CYS CYS LEU ALA GLY LYS VAL ASN GLU PRO GLN LYS SEQRES 3 A 119 ASN ARG ILE LEU GLU GLU ILE GLU LYS SER LYS ALA ASN SEQRES 4 A 119 HIS PHE LEU ILE LEU PHE ARG ASP SER SER CYS GLN PHE SEQRES 5 A 119 ARG ALA LEU TYR THR LEU SER GLY GLU THR GLU GLU LEU SEQRES 6 A 119 SER ARG LEU ALA GLY TYR GLY PRO ARG THR VAL THR PRO SEQRES 7 A 119 ALA MET VAL GLU GLY ILE TYR LYS TYR ASN SER ASP ARG SEQRES 8 A 119 LYS ARG PHE THR GLN ILE PRO ALA LYS THR MET SER MET SEQRES 9 A 119 SER VAL ASP ALA PHE THR ILE GLN GLY HIS LEU TRP GLN SEQRES 10 A 119 SER LYS FORMUL 2 HOH *67(H2 O) HELIX 1 AA1 ASN A 1124 CYS A 1135 1 12 HELIX 2 AA2 GLU A 1143 SER A 1156 1 14 HELIX 3 AA3 THR A 1197 ALA A 1199 5 3 HELIX 4 AA4 GLY A 1233 TRP A 1236 5 4 SHEET 1 AA1 7 THR A1195 VAL A1196 0 SHEET 2 AA1 7 LEU A1185 GLY A1190 -1 N LEU A1185 O VAL A1196 SHEET 3 AA1 7 PHE A1172 LEU A1178 -1 N LEU A1175 O LEU A1188 SHEET 4 AA1 7 PHE A1161 PHE A1165 -1 N LEU A1162 O TYR A1176 SHEET 5 AA1 7 ALA A1228 ILE A1231 1 O PHE A1229 N PHE A1165 SHEET 6 AA1 7 VAL A1201 ASN A1208 -1 N GLU A1202 O THR A1230 SHEET 7 AA1 7 ARG A1213 ILE A1217 -1 O ILE A1217 N ILE A1204 CRYST1 96.360 96.360 63.270 90.00 90.00 90.00 I 4 2 2 16 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 0.010378 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010378 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015805 0.00000