HEADER PROTEIN BINDING 19-AUG-12 2LXA TITLE SOLUTION STRUCTURE OF THE GET5 UBIQUITIN-LIKE DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-LIKE PROTEIN MDY2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UBIQUITIN-LIKE DOMAIN; COMPND 5 SYNONYM: GOLGI TO ER TRAFFIC PROTEIN 5, MATING-DEFICIENT PROTEIN 2, COMPND 6 TRANSLATION MACHINERY-ASSOCIATED PROTEIN 24; COMPND 7 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: GET5, MDY2, TMA24, YOL111C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: NICO21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET33B KEYWDS UBIQUITIN-LIKE DOMAIN, PROTEIN-PROTEIN INTERACTION, SGT2 BINDING KEYWDS 2 DOMAIN, GET PATHWAY, PROTEIN BINDING EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR J.W.CHARTRON,D.G.VANDERVELDE,W.M.CLEMONS JR. REVDAT 4 14-JUN-23 2LXA 1 REMARK SEQADV REVDAT 3 16-JAN-13 2LXA 1 JRNL REVDAT 2 28-NOV-12 2LXA 1 JRNL REVDAT 1 21-NOV-12 2LXA 0 JRNL AUTH J.W.CHARTRON,D.G.VANDERVELDE,W.M.CLEMONS JRNL TITL STRUCTURES OF THE SGT2/SGTA DIMERIZATION DOMAIN WITH THE JRNL TITL 2 GET5/UBL4A UBL DOMAIN REVEAL AN INTERACTION THAT FORMS A JRNL TITL 3 CONSERVED DYNAMIC INTERFACE. JRNL REF CELL REP V. 2 1620 2012 JRNL REFN ESSN 2211-1247 JRNL PMID 23142665 JRNL DOI 10.1016/J.CELREP.2012.10.010 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMRJ, ARIA 2.3 REMARK 3 AUTHORS : VARIAN (VNMRJ), LINGE, O'DONOGHUE AND NILGES REMARK 3 (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINED IN EXPLICIT WATER REMARK 4 REMARK 4 2LXA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-AUG-12. REMARK 100 THE DEPOSITION ID IS D_1000102947. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 297.5 REMARK 210 PH : 6.1 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-100% 13C; U-100% 15N] REMARK 210 GET5, 20 MM SODIUM PHOSPHATE, REMARK 210 100 MM SODIUM CHLORIDE, 0.02 % REMARK 210 SODIUM AZIDE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HCCH-TOCSY; 3D 1H- REMARK 210 15N TOCSY; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 3D 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ANALYSIS, NMRPIPE, TALOS+, ARIA REMARK 210 2.3 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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: 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 GLN A 82 -89.75 -104.15 REMARK 500 1 LYS A 85 143.51 72.56 REMARK 500 1 PHE A 86 -177.52 -175.08 REMARK 500 1 SER A 112 -60.44 -103.16 REMARK 500 2 GLN A 82 -91.41 -106.09 REMARK 500 2 LYS A 85 148.62 72.10 REMARK 500 2 PHE A 86 -177.24 -178.90 REMARK 500 2 LYS A 136 77.32 60.36 REMARK 500 2 ASN A 151 73.78 -105.88 REMARK 500 3 GLN A 82 -88.71 -101.54 REMARK 500 3 LYS A 85 147.13 74.67 REMARK 500 3 ASN A 151 168.59 66.14 REMARK 500 3 GLU A 153 94.29 -68.57 REMARK 500 3 HIS A 158 -178.56 69.06 REMARK 500 4 GLN A 82 -91.77 -114.68 REMARK 500 4 LYS A 85 150.37 75.79 REMARK 500 4 PHE A 86 -177.22 -178.71 REMARK 500 4 LYS A 136 72.43 58.67 REMARK 500 4 PRO A 150 85.93 -68.92 REMARK 500 4 ASN A 151 82.39 -68.27 REMARK 500 4 HIS A 158 78.86 62.95 REMARK 500 5 GLN A 82 -88.13 -116.49 REMARK 500 5 LYS A 85 147.98 74.91 REMARK 500 5 PRO A 150 100.91 -58.63 REMARK 500 5 ASN A 151 97.33 70.48 REMARK 500 5 HIS A 155 82.47 64.04 REMARK 500 6 GLN A 82 -95.20 -116.19 REMARK 500 6 LYS A 85 154.47 74.65 REMARK 500 6 PHE A 86 -177.25 179.84 REMARK 500 6 LYS A 136 72.74 57.44 REMARK 500 6 HIS A 155 41.05 -97.94 REMARK 500 7 GLN A 82 -96.28 -102.38 REMARK 500 7 LYS A 85 143.13 74.70 REMARK 500 7 LYS A 136 76.14 55.01 REMARK 500 8 GLN A 82 -90.85 -98.36 REMARK 500 8 LYS A 85 154.73 75.74 REMARK 500 8 PHE A 86 -179.04 -175.21 REMARK 500 8 LYS A 136 75.33 59.82 REMARK 500 8 HIS A 156 35.69 -142.50 REMARK 500 9 VAL A 74 80.27 55.75 REMARK 500 9 GLN A 82 -85.92 -114.69 REMARK 500 9 LYS A 85 143.63 74.44 REMARK 500 9 PHE A 86 -177.17 -178.83 REMARK 500 9 SER A 112 -66.34 -108.91 REMARK 500 9 LYS A 136 70.08 58.75 REMARK 500 10 GLN A 82 -90.81 -115.84 REMARK 500 10 LYS A 85 145.68 73.52 REMARK 500 10 PHE A 86 -177.35 -174.41 REMARK 500 10 SER A 112 -64.40 -92.74 REMARK 500 10 LYS A 136 75.18 60.90 REMARK 500 REMARK 500 THIS ENTRY HAS 51 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2LXB RELATED DB: PDB REMARK 900 RELATED ID: 2LXC RELATED DB: PDB REMARK 900 RELATED ID: 4GOC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SAME PROTEIN REMARK 900 RELATED ID: 4GOD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SGTA DIMERIZATION DOMAIN, THE HUMAN HOMOLOG OF REMARK 900 THE GET5 BINDING PARTNER, SGT2 REMARK 900 RELATED ID: 4GOE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SGTA DIMERIZATION DOMAIN, THE HUMAN HOMOLOG OF REMARK 900 GET5 BINDING PARTNER, SGT2 REMARK 900 RELATED ID: 4GOF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SGTA DIMERIZATION DOMAIN, THE HUMAN HOMOLOG OF REMARK 900 GET5 BINDING PARTNER, SGT2 REMARK 900 RELATED ID: 18669 RELATED DB: BMRB DBREF 2LXA A 74 151 UNP Q12285 MDY2_YEAST 74 151 SEQADV 2LXA MET A 73 UNP Q12285 INITIATING METHIONINE SEQADV 2LXA LEU A 152 UNP Q12285 EXPRESSION TAG SEQADV 2LXA GLU A 153 UNP Q12285 EXPRESSION TAG SEQADV 2LXA HIS A 154 UNP Q12285 EXPRESSION TAG SEQADV 2LXA HIS A 155 UNP Q12285 EXPRESSION TAG SEQADV 2LXA HIS A 156 UNP Q12285 EXPRESSION TAG SEQADV 2LXA HIS A 157 UNP Q12285 EXPRESSION TAG SEQADV 2LXA HIS A 158 UNP Q12285 EXPRESSION TAG SEQADV 2LXA HIS A 159 UNP Q12285 EXPRESSION TAG SEQRES 1 A 87 MET VAL HIS LEU THR LEU LYS LYS ILE GLN ALA PRO LYS SEQRES 2 A 87 PHE SER ILE GLU HIS ASP PHE SER PRO SER ASP THR ILE SEQRES 3 A 87 LEU GLN ILE LYS GLN HIS LEU ILE SER GLU GLU LYS ALA SEQRES 4 A 87 SER HIS ILE SER GLU ILE LYS LEU LEU LEU LYS GLY LYS SEQRES 5 A 87 VAL LEU HIS ASP ASN LEU PHE LEU SER ASP LEU LYS VAL SEQRES 6 A 87 THR PRO ALA ASN SER THR ILE THR VAL MET ILE LYS PRO SEQRES 7 A 87 ASN LEU GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 THR A 97 GLU A 108 1 12 HELIX 2 2 PHE A 131 LYS A 136 1 6 HELIX 3 3 THR A 138 ASN A 141 5 4 SHEET 1 A 3 PHE A 86 SER A 87 0 SHEET 2 A 3 HIS A 75 LYS A 80 -1 N LYS A 80 O PHE A 86 SHEET 3 A 3 HIS A 90 ASP A 91 -1 O HIS A 90 N LEU A 76 SHEET 1 B 5 PHE A 86 SER A 87 0 SHEET 2 B 5 HIS A 75 LYS A 80 -1 N LYS A 80 O PHE A 86 SHEET 3 B 5 THR A 143 ILE A 148 1 O ILE A 144 N LYS A 79 SHEET 4 B 5 ILE A 117 LEU A 121 -1 N LYS A 118 O MET A 147 SHEET 5 B 5 LYS A 124 VAL A 125 -1 O LYS A 124 N LEU A 121 CISPEP 1 ALA A 83 PRO A 84 1 -2.63 CISPEP 2 ALA A 83 PRO A 84 2 -1.23 CISPEP 3 ALA A 83 PRO A 84 3 -7.15 CISPEP 4 ALA A 83 PRO A 84 4 -3.07 CISPEP 5 ALA A 83 PRO A 84 5 -1.99 CISPEP 6 ALA A 83 PRO A 84 6 -6.82 CISPEP 7 ALA A 83 PRO A 84 7 -2.95 CISPEP 8 ALA A 83 PRO A 84 8 -7.50 CISPEP 9 ALA A 83 PRO A 84 9 -3.50 CISPEP 10 ALA A 83 PRO A 84 10 -2.18 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