HEADER TRANSPORT PROTEIN 28-JUL-15 5AAR TITLE STRUCTURE OF THE ANKYRIN DOMAIN OF AN ARABIDOPSIS THALIANA POTASSIUM TITLE 2 CHANNEL COMPND MOL_ID: 1; COMPND 2 MOLECULE: POTASSIUM CHANNEL AKT1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ANKYRIN REPEAT DOMAIN, RESIDUES 518-702; COMPND 5 SYNONYM: ARABIDOPSIS POTASSIUM TRANSPORTER 1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: THALE CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA 2 PLYSS; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-28A KEYWDS TRANSPORT PROTEIN, ANKYRIN, ABIOTIC STRESS, ION HOMEOSTASIS EXPDTA X-RAY DIFFRACTION AUTHOR A.CHAVES-SANJUAN,M.J.SANCHEZ-BARRENA,A.ALBERT REVDAT 3 10-JAN-24 5AAR 1 REMARK LINK REVDAT 2 08-APR-20 5AAR 1 JRNL REVDAT 1 24-AUG-16 5AAR 0 JRNL AUTH M.J.SANCHEZ-BARRENA,A.CHAVES-SANJUAN,N.RADDATZ,I.MENDOZA, JRNL AUTH 2 A.CORTES,F.GAGO,J.M.GONZALEZ-RUBIO,J.L.BENAVENTE, JRNL AUTH 3 F.J.QUINTERO,J.M.PARDO,A.ALBERT JRNL TITL RECOGNITION AND ACTIVATION OF THE PLANT AKT1 POTASSIUM JRNL TITL 2 CHANNEL BY THE KINASE CIPK23. JRNL REF PLANT PHYSIOL. 2020 JRNL REFN ESSN 1532-2548 JRNL PMID 32015077 JRNL DOI 10.1104/PP.19.01084 REMARK 2 REMARK 2 RESOLUTION. 1.87 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 1.87 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.79 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.160 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 16833 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1563 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 42.7962 - 4.1578 1.00 2758 108 0.1720 0.2001 REMARK 3 2 4.1578 - 3.3005 1.00 2732 130 0.1557 0.2079 REMARK 3 3 3.3005 - 2.8834 1.00 2726 134 0.1849 0.2726 REMARK 3 4 2.8834 - 2.6198 1.00 2786 109 0.1917 0.2341 REMARK 3 5 2.6198 - 2.4321 1.00 2702 161 0.1979 0.2554 REMARK 3 6 2.4321 - 2.2887 1.00 2689 180 0.2192 0.2823 REMARK 3 7 2.2887 - 2.1741 1.00 2700 164 0.2272 0.2694 REMARK 3 8 2.1741 - 2.0794 1.00 2693 167 0.2450 0.3113 REMARK 3 9 2.0794 - 1.9994 1.00 2760 124 0.2606 0.3512 REMARK 3 10 1.9994 - 1.9304 0.99 2649 160 0.3051 0.3388 REMARK 3 11 1.9304 - 1.8700 0.93 2560 126 0.3467 0.3870 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.140 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.30 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 : 0.009 1467 REMARK 3 ANGLE : 0.973 1974 REMARK 3 CHIRALITY : 0.038 225 REMARK 3 PLANARITY : 0.005 262 REMARK 3 DIHEDRAL : 13.803 539 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 5AAR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1290064529. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JUL-11 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 : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9400 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16865 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.870 REMARK 200 RESOLUTION RANGE LOW (A) : 42.790 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.100 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.87 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.90000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2XEH REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS PH 8.5, 25% PEG 4000, 0.3 M REMARK 280 MGCL2 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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 -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 17.46050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.78500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 17.46050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.78500 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: 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 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 GLU A 669 O HOH A 2159 2.13 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 ASP A 678 -168.62 -71.28 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2008 DISTANCE = 6.04 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1703 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 531 OD1 REMARK 620 2 HOH A2027 O 105.7 REMARK 620 3 HOH A2033 O 86.0 157.3 REMARK 620 4 HOH A2034 O 100.9 71.3 87.6 REMARK 620 5 HOH A2035 O 82.5 100.0 100.8 171.2 REMARK 620 6 HOH A2177 O 162.6 90.4 81.1 90.2 88.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1704 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 574 NE2 REMARK 620 2 HOH A2076 O 103.1 REMARK 620 3 HOH A2083 O 90.0 166.4 REMARK 620 4 HOH A2084 O 95.7 88.1 87.0 REMARK 620 5 HOH A2085 O 108.6 87.9 91.4 155.7 REMARK 620 6 HOH A2178 O 167.8 85.1 81.4 75.5 80.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1704 DBREF 5AAR A 518 702 UNP Q38998 AKT1_ARATH 518 702 SEQRES 1 A 185 LEU PRO LEU ASN LEU CYS PHE ALA ALA ILE ARG GLU ASP SEQRES 2 A 185 ASP LEU LEU LEU HIS GLN LEU LEU LYS ARG GLY LEU ASP SEQRES 3 A 185 PRO ASN GLU SER ASP ASN ASN GLY ARG THR PRO LEU HIS SEQRES 4 A 185 ILE ALA ALA SER LYS GLY THR LEU ASN CYS VAL LEU LEU SEQRES 5 A 185 LEU LEU GLU TYR HIS ALA ASP PRO ASN CYS ARG ASP ALA SEQRES 6 A 185 GLU GLY SER VAL PRO LEU TRP GLU ALA MET VAL GLU GLY SEQRES 7 A 185 HIS GLU LYS VAL VAL LYS VAL LEU LEU GLU HIS GLY SER SEQRES 8 A 185 THR ILE ASP ALA GLY ASP VAL GLY HIS PHE ALA CYS THR SEQRES 9 A 185 ALA ALA GLU GLN GLY ASN LEU LYS LEU LEU LYS GLU ILE SEQRES 10 A 185 VAL LEU HIS GLY GLY ASP VAL THR ARG PRO ARG ALA THR SEQRES 11 A 185 GLY THR SER ALA LEU HIS THR ALA VAL CYS GLU GLU ASN SEQRES 12 A 185 ILE GLU MET VAL LYS TYR LEU LEU GLU GLN GLY ALA ASP SEQRES 13 A 185 VAL ASN LYS GLN ASP MET HIS GLY TRP THR PRO ARG ASP SEQRES 14 A 185 LEU ALA GLU GLN GLN GLY HIS GLU ASP ILE LYS ALA LEU SEQRES 15 A 185 PHE ARG GLU HET MG A1703 1 HET MG A1704 1 HETNAM MG MAGNESIUM ION FORMUL 2 MG 2(MG 2+) FORMUL 4 HOH *178(H2 O) HELIX 1 1 ASN A 521 ARG A 528 1 8 HELIX 2 2 ASP A 530 ARG A 540 1 11 HELIX 3 3 THR A 553 GLY A 562 1 10 HELIX 4 4 THR A 563 TYR A 573 1 11 HELIX 5 5 VAL A 586 GLU A 594 1 9 HELIX 6 6 HIS A 596 HIS A 606 1 11 HELIX 7 7 THR A 609 GLY A 613 5 5 HELIX 8 8 ASP A 614 GLN A 625 1 12 HELIX 9 9 ASN A 627 HIS A 637 1 11 HELIX 10 10 SER A 650 GLU A 658 1 9 HELIX 11 11 ASN A 660 GLN A 670 1 11 HELIX 12 12 THR A 683 GLN A 691 1 9 HELIX 13 13 HIS A 693 GLU A 702 1 10 LINK OD1 ASP A 531 MG MG A1703 1555 1555 2.17 LINK NE2 HIS A 574 MG MG A1704 1555 1555 1.99 LINK MG MG A1703 O HOH A2027 1555 1555 2.06 LINK MG MG A1703 O HOH A2033 1555 1555 2.10 LINK MG MG A1703 O HOH A2034 1555 1555 2.05 LINK MG MG A1703 O HOH A2035 1555 1555 2.12 LINK MG MG A1703 O HOH A2177 1555 1555 2.08 LINK MG MG A1704 O HOH A2076 1555 1555 2.13 LINK MG MG A1704 O HOH A2083 1555 1555 2.14 LINK MG MG A1704 O HOH A2084 1555 1555 2.06 LINK MG MG A1704 O HOH A2085 1555 1555 2.08 LINK MG MG A1704 O HOH A2178 1555 1555 2.09 SITE 1 AC1 6 ASP A 531 HOH A2027 HOH A2033 HOH A2034 SITE 2 AC1 6 HOH A2035 HOH A2177 SITE 1 AC2 6 HIS A 574 HOH A2076 HOH A2083 HOH A2084 SITE 2 AC2 6 HOH A2085 HOH A2178 CRYST1 34.921 85.570 65.989 90.00 90.00 90.00 P 21 21 2 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 0.028636 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011686 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015154 0.00000