HEADER PROTEIN BINDING 08-JAN-12 2LNZ TITLE SOLUTION STRUCTURE OF THE GET5 CARBOXYL DOMAIN FROM S. CEREVISIAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-LIKE PROTEIN MDY2; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CARBOXYL DOMAIN RESIDUES 152-212; 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_VECTOR: PET-33B KEYWDS DIMERIZATION, HOMODIMERIZATION, PROTEIN BINDING EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR J.W.CHARTRON,D.G.VANDERVELDE,M.RAO,W.M.CLEMONS JR. REVDAT 3 14-JUN-23 2LNZ 1 REMARK SEQADV REVDAT 2 28-MAR-12 2LNZ 1 JRNL REVDAT 1 25-JAN-12 2LNZ 0 JRNL AUTH J.W.CHARTRON,D.G.VANDERVELDE,M.RAO,W.M.CLEMONS JRNL TITL GET5 CARBOXYL-TERMINAL DOMAIN IS A NOVEL DIMERIZATION MOTIF JRNL TITL 2 THAT TETHERS AN EXTENDED GET4/GET5 COMPLEX. JRNL REF J.BIOL.CHEM. V. 287 8310 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22262836 JRNL DOI 10.1074/JBC.M111.333252 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMRJ, CNS 1.21 REMARK 3 AUTHORS : VARIAN (VNMRJ), BRUNGER, ADAMS, CLORE, GROS, REMARK 3 NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: LOG-HARMONIC POTENTIAL USED REMARK 4 REMARK 4 2LNZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000102617. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.1 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 3.5 MM [U-100% 13C; U-100% 15N] REMARK 210 GET5, 20 MM SODIUM PHOSPHATE, REMARK 210 0.02 % SODIUM AZIDE, 90% H2O/10% REMARK 210 D2O; 2.5 MM [U-100% 15N] GET5, REMARK 210 20 MM SODIUM PHOSPHATE, 0.02 % REMARK 210 SODIUM AZIDE, 4 % POLYACRYLAMIDE, REMARK 210 90% H2O/10% D2O; 2.5 MM [U-100% REMARK 210 15N] GET5, 20 MM SODIUM REMARK 210 PHOSPHATE, 0.02 % SODIUM AZIDE, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D C(CO)NH; 3D HNCO; 3D HNCA; 3D REMARK 210 HNCACB; 3D HN(CO)CA; 3D HCCH- REMARK 210 TOCSY; 2D 1H-13C HSQC; 2D 1H-13C REMARK 210 HSQC AROMATIC; 3D 1H-15N NOESY; REMARK 210 3D 1H-13C NOESY; 3D 1H-15N TOCSY; REMARK 210 3D HBHA(CO)NH; 3D H(CCO)NH 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 : TOPSPIN, NMRPIPE, ANALYSIS, REMARK 210 TALOS, PINE, ARIA 2.3, REDCAT 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: 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. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 SER A 149 REMARK 465 VAL A 150 REMARK 465 ASP A 151 REMARK 465 PRO A 152 REMARK 465 THR A 153 REMARK 465 ILE A 154 REMARK 465 SER A 155 REMARK 465 LYS A 156 REMARK 465 GLU A 157 REMARK 465 PRO A 158 REMARK 465 GLU A 159 REMARK 465 ALA A 160 REMARK 465 GLU A 161 REMARK 465 LYS A 162 REMARK 465 SER A 163 REMARK 465 THR A 164 REMARK 465 ASN A 165 REMARK 465 SER A 166 REMARK 465 PRO A 167 REMARK 465 ALA A 168 REMARK 465 PRO A 169 REMARK 465 ALA A 170 REMARK 465 PRO A 171 REMARK 465 PRO A 172 REMARK 465 SER B 149 REMARK 465 VAL B 150 REMARK 465 ASP B 151 REMARK 465 PRO B 152 REMARK 465 THR B 153 REMARK 465 ILE B 154 REMARK 465 SER B 155 REMARK 465 LYS B 156 REMARK 465 GLU B 157 REMARK 465 PRO B 158 REMARK 465 GLU B 159 REMARK 465 ALA B 160 REMARK 465 GLU B 161 REMARK 465 LYS B 162 REMARK 465 SER B 163 REMARK 465 THR B 164 REMARK 465 ASN B 165 REMARK 465 SER B 166 REMARK 465 PRO B 167 REMARK 465 ALA B 168 REMARK 465 PRO B 169 REMARK 465 ALA B 170 REMARK 465 PRO B 171 REMARK 465 PRO B 172 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 PHE B 190 H ASN B 192 1.49 REMARK 500 O PHE A 190 H ASN A 192 1.49 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 GLU A 191 40.90 -33.16 REMARK 500 1 ASN A 192 -46.63 -176.40 REMARK 500 1 GLU B 191 41.08 -33.15 REMARK 500 1 ASN B 192 -46.88 -176.27 REMARK 500 2 GLU A 174 51.92 -93.99 REMARK 500 2 GLU A 191 40.70 -39.64 REMARK 500 2 ASN A 192 -42.71 -168.80 REMARK 500 2 ALA A 211 30.68 -94.14 REMARK 500 2 GLU B 174 52.28 -93.87 REMARK 500 2 GLU B 191 40.64 -39.50 REMARK 500 2 ASN B 192 -42.75 -168.96 REMARK 500 2 ALA B 211 31.25 -94.45 REMARK 500 3 GLU A 191 40.87 -39.17 REMARK 500 3 ASN A 192 -42.18 -171.73 REMARK 500 3 ALA A 211 31.38 -96.56 REMARK 500 3 GLU B 191 40.78 -39.48 REMARK 500 3 ASN B 192 -42.26 -171.39 REMARK 500 3 ALA B 211 30.96 -96.84 REMARK 500 4 GLU A 174 47.54 -92.03 REMARK 500 4 GLU A 191 40.07 -38.59 REMARK 500 4 ASN A 192 -44.64 -166.63 REMARK 500 4 GLU B 174 47.57 -91.91 REMARK 500 4 GLU B 191 40.17 -38.50 REMARK 500 4 ASN B 192 -44.15 -167.04 REMARK 500 5 GLU A 191 40.34 -43.36 REMARK 500 5 ASN A 192 -46.21 -157.25 REMARK 500 5 ALA A 211 34.27 -84.64 REMARK 500 5 GLU B 191 40.06 -43.27 REMARK 500 5 ASN B 192 -46.21 -157.20 REMARK 500 5 ALA B 211 33.85 -85.10 REMARK 500 6 GLU A 191 41.23 -36.67 REMARK 500 6 ASN A 192 -44.88 -173.60 REMARK 500 6 GLU B 191 41.35 -36.58 REMARK 500 6 ASN B 192 -44.86 -173.73 REMARK 500 7 GLU A 191 36.24 -56.43 REMARK 500 7 ASN A 192 40.01 -168.48 REMARK 500 7 ASP A 193 68.80 159.12 REMARK 500 7 GLU B 191 36.40 -56.46 REMARK 500 7 ASN B 192 39.45 -168.58 REMARK 500 7 ASP B 193 68.64 159.65 REMARK 500 8 GLU A 174 24.29 -173.06 REMARK 500 8 GLU A 191 41.37 -39.59 REMARK 500 8 ASN A 192 -44.31 -169.92 REMARK 500 8 ALA A 211 33.47 -86.54 REMARK 500 8 GLU B 174 24.20 -172.72 REMARK 500 8 GLU B 191 40.95 -39.38 REMARK 500 8 ASN B 192 -44.74 -169.27 REMARK 500 8 ALA B 211 33.58 -86.47 REMARK 500 9 GLU A 191 41.16 -37.30 REMARK 500 9 ASN A 192 -44.25 -169.99 REMARK 500 REMARK 500 THIS ENTRY HAS 58 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VEJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A TRUNCATED VERSION OF THIS PROTEIN REMARK 900 RELATED ID: 18186 RELATED DB: BMRB REMARK 900 RELATED ID: 2LO0 RELATED DB: PDB DBREF 2LNZ A 152 212 UNP Q12285 MDY2_YEAST 152 212 DBREF 2LNZ B 152 212 UNP Q12285 MDY2_YEAST 152 212 SEQADV 2LNZ SER A 149 UNP Q12285 EXPRESSION TAG SEQADV 2LNZ VAL A 150 UNP Q12285 EXPRESSION TAG SEQADV 2LNZ ASP A 151 UNP Q12285 EXPRESSION TAG SEQADV 2LNZ SER B 149 UNP Q12285 EXPRESSION TAG SEQADV 2LNZ VAL B 150 UNP Q12285 EXPRESSION TAG SEQADV 2LNZ ASP B 151 UNP Q12285 EXPRESSION TAG SEQRES 1 A 64 SER VAL ASP PRO THR ILE SER LYS GLU PRO GLU ALA GLU SEQRES 2 A 64 LYS SER THR ASN SER PRO ALA PRO ALA PRO PRO GLN GLU SEQRES 3 A 64 LEU THR VAL PRO TRP ASP ASP ILE GLU ALA LEU LEU LYS SEQRES 4 A 64 ASN ASN PHE GLU ASN ASP GLN ALA ALA VAL ARG GLN VAL SEQRES 5 A 64 MET GLU ARG LEU GLN LYS GLY TRP SER LEU ALA LYS SEQRES 1 B 64 SER VAL ASP PRO THR ILE SER LYS GLU PRO GLU ALA GLU SEQRES 2 B 64 LYS SER THR ASN SER PRO ALA PRO ALA PRO PRO GLN GLU SEQRES 3 B 64 LEU THR VAL PRO TRP ASP ASP ILE GLU ALA LEU LEU LYS SEQRES 4 B 64 ASN ASN PHE GLU ASN ASP GLN ALA ALA VAL ARG GLN VAL SEQRES 5 B 64 MET GLU ARG LEU GLN LYS GLY TRP SER LEU ALA LYS HELIX 1 1 PRO A 178 PHE A 190 1 13 HELIX 2 2 ASP A 193 ALA A 211 1 19 HELIX 3 3 PRO B 178 PHE B 190 1 13 HELIX 4 4 ASP B 193 ALA B 211 1 19 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