HEADER STRUCTURAL PROTEIN 23-JUL-18 6ABR TITLE ACTIN INTERACTING PROTEIN 5 (AIP5, WILD TYPE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACTIN BINDING PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 1110-1233; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: S288C; SOURCE 6 GENE: YFR016C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS STRUCTURAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.SUN,Y.XIE,J.D.W.TOH,W.HONG,Y.MIAO,Y.G.GAO REVDAT 2 27-MAR-24 6ABR 1 REMARK REVDAT 1 20-NOV-19 6ABR 0 JRNL AUTH Y.XIE,J.SUN,X.HAN,A.TURSIC-WUNDER,J.D.W.TOH,W.HONG,Y.G.GAO, JRNL AUTH 2 Y.MIAO JRNL TITL POLARISOME SCAFFOLDER SPA2-MEDIATED MACROMOLECULAR JRNL TITL 2 CONDENSATION OF AIP5 FOR ACTIN POLYMERIZATION. JRNL REF NAT COMMUN V. 10 5078 2019 JRNL REFN ESSN 2041-1723 JRNL PMID 31699995 JRNL DOI 10.1038/S41467-019-13125-1 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.72 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 3 NUMBER OF REFLECTIONS : 11303 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.230 REMARK 3 R VALUE (WORKING SET) : 0.226 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.090 REMARK 3 FREE R VALUE TEST SET COUNT : 1141 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 32.7197 - 4.0027 0.97 1296 146 0.2065 0.2355 REMARK 3 2 4.0027 - 3.1779 0.98 1291 144 0.2283 0.2387 REMARK 3 3 3.1779 - 2.7764 0.98 1299 147 0.2377 0.2890 REMARK 3 4 2.7764 - 2.5227 0.98 1293 145 0.2410 0.2743 REMARK 3 5 2.5227 - 2.3419 0.97 1256 145 0.2436 0.2874 REMARK 3 6 2.3419 - 2.2039 0.97 1283 139 0.2274 0.2959 REMARK 3 7 2.2039 - 2.0935 0.95 1250 141 0.2297 0.2718 REMARK 3 8 2.0935 - 2.0024 0.93 1194 134 0.2397 0.3049 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.930 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 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 1510 REMARK 3 ANGLE : 1.293 2042 REMARK 3 CHIRALITY : 0.053 221 REMARK 3 PLANARITY : 0.007 264 REMARK 3 DIHEDRAL : 15.639 571 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 6ABR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-JUL-18. REMARK 100 THE DEPOSITION ID IS D_1300008473. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-DEC-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000,0.9788,0.9636 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL 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 : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11332 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 (%) : 96.8 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05200 REMARK 200 FOR THE DATA SET : 19.4000 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) : 2.10 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) : 0.14200 REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 20.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS-HCL PH 7.0, 20% PEG1000, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 41.38750 REMARK 290 SMTRY3 2 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: DIMERIC 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 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 ASP A 1110 REMARK 465 SER A 1111 REMARK 465 THR A 1112 REMARK 465 THR A 1113 REMARK 465 GLN A 1114 REMARK 465 THR A 1115 REMARK 465 THR A 1116 REMARK 465 GLU A 1117 REMARK 465 GLN A 1118 REMARK 465 SER A 1119 REMARK 465 LYS A 1120 REMARK 465 LYS A 1121 REMARK 465 ASN A 1122 REMARK 465 ASN A 1123 REMARK 465 ASP A 1124 REMARK 465 LYS A 1125 REMARK 465 PRO A 1126 REMARK 465 GLN A 1127 REMARK 465 ASP A 1128 REMARK 465 VAL A 1129 REMARK 465 ILE A 1130 REMARK 465 THR A 1131 REMARK 465 THR A 1132 REMARK 465 SER A 1133 REMARK 465 GLU A 1134 REMARK 465 ASP A 1231 REMARK 465 THR A 1232 REMARK 465 ILE A 1233 REMARK 465 ASP B 1110 REMARK 465 SER B 1111 REMARK 465 THR B 1112 REMARK 465 THR B 1113 REMARK 465 GLN B 1114 REMARK 465 THR B 1115 REMARK 465 THR B 1116 REMARK 465 GLU B 1117 REMARK 465 GLN B 1118 REMARK 465 SER B 1119 REMARK 465 LYS B 1120 REMARK 465 LYS B 1121 REMARK 465 ASN B 1122 REMARK 465 ASN B 1123 REMARK 465 ASP B 1124 REMARK 465 LYS B 1125 REMARK 465 PRO B 1126 REMARK 465 GLN B 1127 REMARK 465 ASP B 1128 REMARK 465 VAL B 1129 REMARK 465 ILE B 1130 REMARK 465 THR B 1131 REMARK 465 THR B 1132 REMARK 465 SER B 1133 REMARK 465 GLU B 1134 REMARK 465 ILE B 1135 REMARK 465 ARG B 1136 REMARK 465 LYS B 1137 REMARK 465 LEU B 1138 REMARK 465 ASN B 1139 REMARK 465 GLU B 1140 REMARK 465 LYS B 1141 REMARK 465 GLY B 1153 REMARK 465 GLY B 1154 REMARK 465 PHE B 1155 REMARK 465 HIS B 1156 REMARK 465 THR B 1232 REMARK 465 ILE B 1233 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 LEU A1228 CG CD1 CD2 REMARK 470 TYR A1230 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLY B1152 CA C O REMARK 470 MET B1157 SD CE 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 ILE A 1216 OH TYR A 1223 1.95 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 ASN A1207 17.42 -155.00 REMARK 500 ASN A1220 64.19 -68.67 REMARK 500 GLU A1221 -85.89 -109.62 REMARK 500 PRO B1159 -31.31 -34.04 REMARK 500 ASN B1207 25.51 -155.79 REMARK 500 REMARK 500 REMARK: NULL DBREF 6ABR A 1110 1233 UNP P43597 YFI6_YEAST 1110 1233 DBREF 6ABR B 1110 1233 UNP P43597 YFI6_YEAST 1110 1233 SEQRES 1 A 124 ASP SER THR THR GLN THR THR GLU GLN SER LYS LYS ASN SEQRES 2 A 124 ASN ASP LYS PRO GLN ASP VAL ILE THR THR SER GLU ILE SEQRES 3 A 124 ARG LYS LEU ASN GLU LYS GLU PRO VAL TYR ILE TYR THR SEQRES 4 A 124 SER LEU ALA GLY GLY GLY PHE HIS MET ILE PRO ARG THR SEQRES 5 A 124 ASN ARG LEU SER THR ILE LEU THR ALA ASN ARG ILE PRO SEQRES 6 A 124 PHE THR TYR ARG ASP LEU GLY THR ASP ASP GLU ALA ARG SEQRES 7 A 124 LYS VAL TRP LYS THR PHE SER LYS GLY ARG SER LEU PRO SEQRES 8 A 124 GLY VAL VAL ARG GLY HIS ASN ASP LEU ILE GLY ASN TRP SEQRES 9 A 124 GLU GLU ILE GLU GLU ALA ASN GLU ASP TYR LYS LEU ARG SEQRES 10 A 124 GLU LEU ILE TYR ASP THR ILE SEQRES 1 B 124 ASP SER THR THR GLN THR THR GLU GLN SER LYS LYS ASN SEQRES 2 B 124 ASN ASP LYS PRO GLN ASP VAL ILE THR THR SER GLU ILE SEQRES 3 B 124 ARG LYS LEU ASN GLU LYS GLU PRO VAL TYR ILE TYR THR SEQRES 4 B 124 SER LEU ALA GLY GLY GLY PHE HIS MET ILE PRO ARG THR SEQRES 5 B 124 ASN ARG LEU SER THR ILE LEU THR ALA ASN ARG ILE PRO SEQRES 6 B 124 PHE THR TYR ARG ASP LEU GLY THR ASP ASP GLU ALA ARG SEQRES 7 B 124 LYS VAL TRP LYS THR PHE SER LYS GLY ARG SER LEU PRO SEQRES 8 B 124 GLY VAL VAL ARG GLY HIS ASN ASP LEU ILE GLY ASN TRP SEQRES 9 B 124 GLU GLU ILE GLU GLU ALA ASN GLU ASP TYR LYS LEU ARG SEQRES 10 B 124 GLU LEU ILE TYR ASP THR ILE FORMUL 3 HOH *74(H2 O) HELIX 1 AA1 HIS A 1156 ASN A 1171 1 16 HELIX 2 AA2 ASP A 1183 SER A 1194 1 12 HELIX 3 AA3 TRP A 1213 ASN A 1220 1 8 HELIX 4 AA4 TYR A 1223 ILE A 1229 1 7 HELIX 5 AA5 PRO B 1159 ASN B 1171 1 13 HELIX 6 AA6 ASP B 1183 SER B 1194 1 12 HELIX 7 AA7 TRP B 1213 ASP B 1222 1 10 SHEET 1 AA1 4 THR A1176 ASP A1179 0 SHEET 2 AA1 4 VAL A1144 THR A1148 1 N THR A1148 O ARG A1178 SHEET 3 AA1 4 GLY A1201 ARG A1204 -1 O VAL A1203 N TYR A1145 SHEET 4 AA1 4 ASP A1208 ASN A1212 -1 O ASP A1208 N ARG A1204 SHEET 1 AA2 4 THR B1176 ASP B1179 0 SHEET 2 AA2 4 VAL B1144 THR B1148 1 N THR B1148 O ARG B1178 SHEET 3 AA2 4 GLY B1201 ARG B1204 -1 O VAL B1203 N TYR B1145 SHEET 4 AA2 4 ASP B1208 ASN B1212 -1 O GLY B1211 N VAL B1202 CISPEP 1 LEU A 1199 PRO A 1200 0 -1.95 CISPEP 2 LEU B 1199 PRO B 1200 0 0.36 CRYST1 32.573 82.775 34.278 90.00 107.37 90.00 P 1 21 1 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 0.030700 0.000000 0.009601 0.00000 SCALE2 0.000000 0.012081 0.000000 0.00000 SCALE3 0.000000 0.000000 0.030567 0.00000