HEADER PROTEIN TRANSPORT 07-OCT-13 2MF7 TITLE SOLUTION STRUCTURE OF THE IMS DOMAIN OF THE MITOCHONDRIAL IMPORT TITLE 2 PROTEIN TIM21 FROM S. CEREVISIAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MITOCHONDRIAL IMPORT INNER MEMBRANE TRANSLOCASE SUBUNIT COMPND 3 TIM21; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: TIM21, YGR033C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS MEMBRANE, MITOCHONDRIA, TRANSLOCATION, MITOCHONDRIAL IMPORT PROTEIN, KEYWDS 2 IMS DOMAIN, PROTEIN TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR R.BAJAJ,L.JAREMKO,M.JAREMKO,S.BECKER,M.ZWECKSTETTER REVDAT 2 14-JUN-23 2MF7 1 REMARK SEQADV REVDAT 1 29-OCT-14 2MF7 0 JRNL AUTH R.BAJAJ,L.JAREMKO,M.JAREMKO,S.BECKER,M.ZWECKSTETTER JRNL TITL MOLECULAR BASIS OF THE DYNAMIC STRUCTURE OF THE TIM23 JRNL TITL 2 COMPLEX IN THE MITOCHONDRIAL INTERMEMBRANE SPACE. JRNL REF STRUCTURE V. 22 1501 2014 JRNL REFN ISSN 0969-2126 JRNL PMID 25263020 JRNL DOI 10.1016/J.STR.2014.07.015 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SPARKY, X-PLOR NIH REMARK 3 AUTHORS : GODDARD (SPARKY), SCHWIETERS, KUSZEWSKI, TJANDRA REMARK 3 AND CLORE (X-PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT IN EXPLICIT SOLVENT REMARK 4 REMARK 4 2MF7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-OCT-13. REMARK 100 THE DEPOSITION ID IS D_1000103555. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.2 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.3-0.8 MM [U-100% 13C; U-100% REMARK 210 15N] ENTITY, 50 MM SODIUM REMARK 210 CHLORIDE, 20 MM HEPES, 90% H2O/ REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D HNCO; 3D HNCA; 3D REMARK 210 HNCACB; 3D CBCA(CO)NH; 3D HCCH- REMARK 210 TOCSY; 3D 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY ALIPHATIC; 3D 1H-13C REMARK 210 NOESY AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, CYANA REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 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 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 38 HZ2 LYS A 81 1.34 REMARK 500 HD1 HIS A 88 OH TYR A 106 1.36 REMARK 500 OD2 ASP A 65 HZ3 LYS A 66 1.37 REMARK 500 O LYS A 82 HZ1 LYS A 83 1.37 REMARK 500 O LEU A 86 H ASP A 108 1.38 REMARK 500 O ALA A 2 HG SER A 5 1.39 REMARK 500 O LEU A 40 HZ3 LYS A 41 1.39 REMARK 500 H HIS A 72 O ALA A 91 1.40 REMARK 500 O LYS A 22 HG SER A 26 1.43 REMARK 500 O LEU A 10 H ALA A 14 1.43 REMARK 500 O LYS A 51 HE ARG A 54 1.44 REMARK 500 H VAL A 78 O ALA A 85 1.44 REMARK 500 HG SER A 80 O LYS A 83 1.45 REMARK 500 OE1 GLU A 19 HZ1 LYS A 20 1.45 REMARK 500 HZ2 LYS A 63 OD1 ASP A 65 1.45 REMARK 500 O ASN A 12 HG SER A 16 1.45 REMARK 500 OE1 GLU A 38 HZ1 LYS A 82 1.46 REMARK 500 H GLU A 90 O ASN A 104 1.46 REMARK 500 O SER A 5 H GLN A 9 1.47 REMARK 500 HH11 ARG A 69 O SER A 94 1.47 REMARK 500 O LYS A 63 H HIS A 71 1.47 REMARK 500 HH12 ARG A 75 OD2 ASP A 108 1.47 REMARK 500 H SER A 80 O LYS A 83 1.47 REMARK 500 O TYR A 43 H HIS A 77 1.48 REMARK 500 O ASN A 21 H ARG A 25 1.48 REMARK 500 O LYS A 41 H GLU A 79 1.48 REMARK 500 O PHE A 76 H VAL A 87 1.48 REMARK 500 HE2 HIS A 72 OE2 GLU A 93 1.49 REMARK 500 OD1 ASN A 55 HE ARG A 56 1.50 REMARK 500 O VAL A 78 H ALA A 85 1.50 REMARK 500 O LYS A 92 H ASP A 101 1.51 REMARK 500 OD2 ASP A 23 HH TYR A 115 1.51 REMARK 500 H LEU A 86 O ASP A 108 1.52 REMARK 500 OD2 ASP A 32 HZ3 LYS A 81 1.53 REMARK 500 H TYR A 43 O HIS A 77 1.53 REMARK 500 O MET A 74 H LEU A 89 1.54 REMARK 500 O GLY A 6 H LEU A 10 1.54 REMARK 500 H LYS A 92 O ASP A 101 1.55 REMARK 500 O THR A 70 H GLU A 93 1.55 REMARK 500 O ILE A 24 H LEU A 28 1.56 REMARK 500 HH TYR A 43 OE2 GLU A 79 1.58 REMARK 500 O PHE A 11 H VAL A 15 1.59 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 1 ALA A 2 -5.71 56.81 REMARK 500 1 SER A 5 7.71 -62.41 REMARK 500 1 CYS A 30 60.86 -69.55 REMARK 500 1 GLU A 45 120.55 -23.52 REMARK 500 1 LEU A 46 -95.07 -76.50 REMARK 500 1 THR A 48 -61.20 -22.30 REMARK 500 1 ASN A 49 -96.42 -113.39 REMARK 500 1 ASP A 50 -86.55 -96.74 REMARK 500 1 LYS A 51 -93.88 -116.32 REMARK 500 1 ARG A 54 -93.52 -28.22 REMARK 500 1 ASN A 55 -93.14 -114.18 REMARK 500 1 ILE A 58 82.29 -60.43 REMARK 500 1 THR A 61 89.41 -66.39 REMARK 500 1 LYS A 66 -17.42 -45.80 REMARK 500 1 SER A 94 -90.00 -63.22 REMARK 500 1 LYS A 95 -69.83 -147.55 REMARK 500 1 LYS A 121 73.14 -69.05 REMARK 500 1 VAL A 125 -72.02 57.87 REMARK 500 2 ALA A 2 48.36 -69.47 REMARK 500 2 MET A 3 86.01 -62.21 REMARK 500 2 SER A 5 -1.29 46.93 REMARK 500 2 CYS A 30 62.39 -61.52 REMARK 500 2 GLU A 45 113.02 -21.61 REMARK 500 2 ASN A 49 10.63 -65.97 REMARK 500 2 ASP A 50 -77.81 -49.05 REMARK 500 2 LYS A 51 -95.78 -116.65 REMARK 500 2 ARG A 54 17.78 -38.96 REMARK 500 2 ASN A 55 -77.66 -9.43 REMARK 500 2 ILE A 58 107.33 -50.25 REMARK 500 2 LYS A 66 -25.24 -39.19 REMARK 500 2 LYS A 121 52.49 -66.67 REMARK 500 3 ALA A 2 66.04 -68.59 REMARK 500 3 MET A 3 53.48 -65.85 REMARK 500 3 CYS A 30 79.35 -65.96 REMARK 500 3 ASP A 32 102.37 -25.85 REMARK 500 3 THR A 48 -94.65 -14.26 REMARK 500 3 ASN A 49 -95.49 -113.17 REMARK 500 3 ASP A 50 -84.52 -95.04 REMARK 500 3 LYS A 51 -97.28 -92.57 REMARK 500 3 TRP A 52 -73.25 -118.05 REMARK 500 3 THR A 53 -25.36 -32.60 REMARK 500 3 ASN A 55 14.41 -53.06 REMARK 500 3 ARG A 56 118.42 -32.58 REMARK 500 3 ILE A 58 86.88 -25.77 REMARK 500 3 LYS A 66 -32.06 -38.75 REMARK 500 3 PRO A 120 -168.14 -66.94 REMARK 500 3 LYS A 121 48.32 -72.46 REMARK 500 3 PRO A 124 -157.92 -67.75 REMARK 500 4 SER A 5 9.45 54.94 REMARK 500 4 CYS A 30 77.91 -63.42 REMARK 500 REMARK 500 THIS ENTRY HAS 312 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2CIU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SAME PROTEIN. REMARK 900 RELATED ID: 19538 RELATED DB: BMRB DBREF 2MF7 A 5 127 UNP P53220 TIM21_YEAST 103 225 SEQADV 2MF7 GLY A 1 UNP P53220 EXPRESSION TAG SEQADV 2MF7 ALA A 2 UNP P53220 EXPRESSION TAG SEQADV 2MF7 MET A 3 UNP P53220 EXPRESSION TAG SEQADV 2MF7 GLY A 4 UNP P53220 EXPRESSION TAG SEQRES 1 A 127 GLY ALA MET GLY SER GLY ASP THR GLN LEU PHE ASN ARG SEQRES 2 A 127 ALA VAL SER MET VAL GLU LYS ASN LYS ASP ILE ARG SER SEQRES 3 A 127 LEU LEU GLN CYS ASP ASP GLY ILE THR GLY LYS GLU ARG SEQRES 4 A 127 LEU LYS ALA TYR GLY GLU LEU ILE THR ASN ASP LYS TRP SEQRES 5 A 127 THR ARG ASN ARG PRO ILE VAL SER THR LYS LYS LEU ASP SEQRES 6 A 127 LYS GLU GLY ARG THR HIS HIS TYR MET ARG PHE HIS VAL SEQRES 7 A 127 GLU SER LYS LYS LYS ILE ALA LEU VAL HIS LEU GLU ALA SEQRES 8 A 127 LYS GLU SER LYS GLN ASN TYR GLN PRO ASP PHE ILE ASN SEQRES 9 A 127 MET TYR VAL ASP VAL PRO GLY GLU LYS ARG TYR TYR LEU SEQRES 10 A 127 ILE LYS PRO LYS LEU HIS PRO VAL SER ASN HELIX 1 1 SER A 5 ASN A 21 1 17 HELIX 2 2 ASN A 21 LEU A 28 1 8 SHEET 1 A 3 LYS A 41 TYR A 43 0 SHEET 2 A 3 THR A 70 GLU A 79 -1 O HIS A 77 N TYR A 43 SHEET 3 A 3 LYS A 63 LEU A 64 -1 N LYS A 63 O HIS A 71 SHEET 1 B 5 VAL A 59 SER A 60 0 SHEET 2 B 5 THR A 70 GLU A 79 -1 O ARG A 75 N VAL A 59 SHEET 3 B 5 ILE A 84 GLU A 93 -1 O ALA A 91 N HIS A 72 SHEET 4 B 5 ASP A 101 VAL A 109 -1 O ASP A 108 N LEU A 86 SHEET 5 B 5 GLU A 112 ILE A 118 -1 O ILE A 118 N MET A 105 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1