HEADER PROTEIN TRANSPORT 29-OCT-15 5EID TITLE AKR2A ANKYRIN REPEAT DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANKYRIN REPEAT DOMAIN-CONTAINING PROTEIN 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 211-342; COMPND 5 SYNONYM: ATAKR2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: AKR2, AFT, AT4G35450, F15J1.20; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS AKR2A, ANKYRIN REPEAT DOMAIN, CYTOSOLIC TARGETING FACTOR, PROTEIN KEYWDS 2 TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR H.PU,H.LI REVDAT 2 08-NOV-23 5EID 1 REMARK REVDAT 1 02-NOV-16 5EID 0 JRNL AUTH H.PU,H.LI JRNL TITL STRUCTURE OF AKR2A ANKYRIN REPEAT DOMAIN AT 2.0 ANGSTROMS JRNL TITL 2 RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.35 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 9094 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.730 REMARK 3 FREE R VALUE TEST SET COUNT : 430 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 2.8843 - 2.2894 0.98 2899 141 0.2067 0.2671 REMARK 3 2 2.2894 - 2.0001 0.98 2882 152 0.2127 0.2731 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) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.880 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.91 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 : 0.007 904 REMARK 3 ANGLE : 1.063 1226 REMARK 3 CHIRALITY : 0.065 147 REMARK 3 PLANARITY : 0.006 162 REMARK 3 DIHEDRAL : 13.736 322 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 20.4142 -11.3217 3.9190 REMARK 3 T TENSOR REMARK 3 T11: 0.2994 T22: 0.1245 REMARK 3 T33: 0.1466 T12: -0.0125 REMARK 3 T13: 0.0122 T23: 0.0054 REMARK 3 L TENSOR REMARK 3 L11: 1.4565 L22: 0.5988 REMARK 3 L33: 0.8239 L12: -0.0565 REMARK 3 L13: 0.0669 L23: 0.3320 REMARK 3 S TENSOR REMARK 3 S11: 0.0370 S12: -0.0830 S13: 0.0630 REMARK 3 S21: 0.0056 S22: -0.0145 S23: 0.0498 REMARK 3 S31: 0.0111 S32: -0.0932 S33: -0.0243 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 5EID COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-NOV-15. REMARK 100 THE DEPOSITION ID IS D_1000214907. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-APR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9423 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 (%) : 97.0 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.4000 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) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.51400 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: 4HQD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.06 M AMMONIUM SULFATE, 0.05 M SODIUM REMARK 280 ACETATE TRIHYDRATE, 33% POLYETHYLENE GLYCOL 4000, 10% GLYCEROL, REMARK 280 PH 5.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K 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 62.07050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.59650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 62.07050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 19.59650 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: DIMERIC 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 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 62.07050 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 19.59650 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 MET A 175 REMARK 465 GLY A 176 REMARK 465 SER A 177 REMARK 465 SER A 178 REMARK 465 HIS A 179 REMARK 465 HIS A 180 REMARK 465 HIS A 181 REMARK 465 HIS A 182 REMARK 465 HIS A 183 REMARK 465 HIS A 184 REMARK 465 SER A 185 REMARK 465 SER A 186 REMARK 465 GLY A 187 REMARK 465 LEU A 188 REMARK 465 VAL A 189 REMARK 465 PRO A 190 REMARK 465 ARG A 191 REMARK 465 GLY A 192 REMARK 465 SER A 193 REMARK 465 HIS A 194 REMARK 465 MET A 195 REMARK 465 ALA A 196 REMARK 465 SER A 197 REMARK 465 MET A 198 REMARK 465 THR A 199 REMARK 465 GLY A 200 REMARK 465 GLY A 201 REMARK 465 GLN A 202 REMARK 465 GLN A 203 REMARK 465 MET A 204 REMARK 465 GLY A 205 REMARK 465 ARG A 206 REMARK 465 GLY A 207 REMARK 465 SER A 208 REMARK 465 GLU A 209 REMARK 465 PHE A 210 REMARK 465 VAL A 211 REMARK 465 ALA A 212 REMARK 465 GLU A 213 REMARK 465 GLU A 214 REMARK 465 GLY A 215 REMARK 465 GLU A 216 REMARK 465 GLU A 217 REMARK 465 GLU A 218 REMARK 465 GLU A 219 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 GLN A 224 CG CD OE1 NE2 REMARK 470 SER A 227 OG REMARK 470 GLU A 232 CG CD OE1 OE2 REMARK 470 LYS A 282 CG CD CE NZ REMARK 470 GLU A 298 CG CD OE1 OE2 REMARK 470 LEU A 312 CG CD1 CD2 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 ASP A 248 -175.91 -67.84 REMARK 500 REMARK 500 REMARK: NULL DBREF 5EID A 211 342 UNP Q9SAR5 AKR2_ARATH 211 342 SEQADV 5EID MET A 175 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID GLY A 176 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID SER A 177 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID SER A 178 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID HIS A 179 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID HIS A 180 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID HIS A 181 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID HIS A 182 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID HIS A 183 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID HIS A 184 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID SER A 185 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID SER A 186 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID GLY A 187 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID LEU A 188 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID VAL A 189 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID PRO A 190 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID ARG A 191 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID GLY A 192 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID SER A 193 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID HIS A 194 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID MET A 195 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID ALA A 196 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID SER A 197 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID MET A 198 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID THR A 199 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID GLY A 200 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID GLY A 201 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID GLN A 202 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID GLN A 203 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID MET A 204 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID GLY A 205 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID ARG A 206 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID GLY A 207 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID SER A 208 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID GLU A 209 UNP Q9SAR5 EXPRESSION TAG SEQADV 5EID PHE A 210 UNP Q9SAR5 EXPRESSION TAG SEQRES 1 A 168 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 168 LEU VAL PRO ARG GLY SER HIS MET ALA SER MET THR GLY SEQRES 3 A 168 GLY GLN GLN MET GLY ARG GLY SER GLU PHE VAL ALA GLU SEQRES 4 A 168 GLU GLY GLU GLU GLU GLU SER ILE VAL HIS GLN THR ALA SEQRES 5 A 168 SER LEU GLY ASP VAL GLU GLY LEU LYS ALA ALA LEU ALA SEQRES 6 A 168 SER GLY GLY ASN LYS ASP GLU GLU ASP SER GLU GLY ARG SEQRES 7 A 168 THR ALA LEU HIS PHE ALA CYS GLY TYR GLY GLU LEU LYS SEQRES 8 A 168 CYS ALA GLN VAL LEU ILE ASP ALA GLY ALA SER VAL ASN SEQRES 9 A 168 ALA VAL ASP LYS ASN LYS ASN THR PRO LEU HIS TYR ALA SEQRES 10 A 168 ALA GLY TYR GLY ARG LYS GLU CYS VAL SER LEU LEU LEU SEQRES 11 A 168 GLU ASN GLY ALA ALA VAL THR LEU GLN ASN LEU ASP GLU SEQRES 12 A 168 LYS THR PRO ILE ASP VAL ALA LYS LEU ASN SER GLN LEU SEQRES 13 A 168 GLU VAL VAL LYS LEU LEU GLU LYS ASP ALA PHE LEU FORMUL 2 HOH *34(H2 O) HELIX 1 AA1 SER A 220 GLY A 229 1 10 HELIX 2 AA2 ASP A 230 SER A 240 1 11 HELIX 3 AA3 THR A 253 GLY A 262 1 10 HELIX 4 AA4 GLU A 263 GLY A 274 1 12 HELIX 5 AA5 THR A 286 TYR A 294 1 9 HELIX 6 AA6 ARG A 296 ASN A 306 1 11 HELIX 7 AA7 THR A 319 ASN A 327 1 9 HELIX 8 AA8 GLN A 329 GLU A 337 1 9 CRYST1 124.141 39.193 28.499 90.00 96.29 90.00 C 1 2 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 0.008055 0.000000 0.000888 0.00000 SCALE2 0.000000 0.025515 0.000000 0.00000 SCALE3 0.000000 0.000000 0.035302 0.00000