HEADER PROTEIN TRANSPORT 20-NOV-16 5H7P TITLE NMR STRUCTURE OF THE VTA1NTD-DID2(176-204) COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN VTA1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-167; COMPND 5 SYNONYM: VPS20-ASSOCIATED PROTEIN 1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: VACUOLAR PROTEIN-SORTING-ASSOCIATED PROTEIN 46; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: UNP RESIDUES 176-204; COMPND 11 SYNONYM: CHARGED MULTIVESICULAR BODY PROTEIN 1,DOA4-INDEPENDENT COMPND 12 DEGRADATION PROTEIN 2,FIFTY TWO INHIBITOR 1; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: S288C; SOURCE 6 GENE: VTA1, YLR181C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 11 EXPRESSION_SYSTEM_VECTOR: PET28B; SOURCE 12 MOL_ID: 2; SOURCE 13 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 14 ORGANISM_COMMON: YEAST; SOURCE 15 ORGANISM_TAXID: 559292; SOURCE 16 STRAIN: S288C; SOURCE 17 GENE: DID2, CHM1, FTI1, VPS46, YKR035W-A; SOURCE 18 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 20 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 21 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 22 EXPRESSION_SYSTEM_VECTOR: PET28B KEYWDS ENDOSOMAL SORTING COMPLEXES REQUIRED FOR TRANSPORT, MULTIVESICULAR KEYWDS 2 BODIES, MICROTUBULE-INTERACTING AND TRANSPORT (MIT) DOMAIN, MIT- KEYWDS 3 INTERACTING MOTIF 1 (MIM1), SACCHAROMYCES CEREVISIAE PROTEINS, KEYWDS 4 PROTEIN TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.SHEN,Z.YANG,C.J.WILD REVDAT 3 15-MAY-24 5H7P 1 REMARK REVDAT 2 14-JUN-23 5H7P 1 COMPND REMARK REVDAT 1 21-DEC-16 5H7P 0 JRNL AUTH J.SHEN,Z.YANG,J.WANG,B.ZHAO,W.LAN,C.WANG,X.ZHANG,C.J.WILD, JRNL AUTH 2 M.LIU,Z.XU,C.CAO JRNL TITL NMR STUDIES ON THE INTERACTIONS BETWEEN YEAST VTA1 AND DID2 JRNL TITL 2 DURING THE MULTIVESICULAR BODIES SORTING PATHWAY JRNL REF SCI REP V. 6 38710 2016 JRNL REFN ESSN 2045-2322 JRNL PMID 27924850 JRNL DOI 10.1038/SREP38710 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH REMARK 3 AUTHORS : C.D. SCHWIETERS, J.J. KUSZEWSKI, N. TJANDRA AND REMARK 3 G.M. CLORE, "THE XPLOR-NIH NMR MOLECULAR STRUCTURE REMARK 3 DETERMINATION PACKAGE," J. MAGN. RES., 160, 66-74 REMARK 3 (2003). REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5H7P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1300002166. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 175 REMARK 210 PRESSURE : AMBIENT ATM REMARK 210 SAMPLE CONTENTS : 25 MM NA- SODIUM PHOSPHATE-1, REMARK 210 100 MM NA- SODIUM CHLORIDE-2, 5 REMARK 210 MM [U-100% 2H] DTT-3, 10 % [U- REMARK 210 100% 2H] D2O-4, 0.02 % NA- REMARK 210 SODIUM AZIDE-5, 90% H2O/10% D2O; REMARK 210 25 MM NA- SODIUM PHOSPHATE-1, REMARK 210 100 MM NA- SODIUM CHLORIDE-2, 5 REMARK 210 MM [U-100% 2H] DTT-3, 10 % [U- REMARK 210 100% 2H] D2O-4, 0.02 % NA- REMARK 210 SODIUM AZIDE-5, 90% H2O/10% D2O; REMARK 210 25 MM NA- SODIUM PHOSPHATE-1, REMARK 210 100 MM NA- SODIUM CHLORIDE-2, 5 REMARK 210 MM [U-100% 2H] DTT-3, 10 % [U- REMARK 210 100% 2H] D2O-4, 0.02 % NA- REMARK 210 SODIUM AZIDE-5, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-13C HSQC ALIPHATIC; 2D 1H REMARK 210 -13C HSQC AROMATIC; 2D 1H-15N REMARK 210 HSQC; 3D CBCA(CO)NH; 3D HNCO; 3D REMARK 210 HNCA; 3D HNCACB; 3D HN(CO)CA; 3D REMARK 210 1H-13C NOESY ALIPHATIC; 3D 1H- REMARK 210 15N NOESY; 3D HCCH-TOCSY; 3D 13C- REMARK 210 F1 EDITED NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; UNITY INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY SPARKY 3 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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: 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 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 MET A 93 H THR A 97 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 LEU A 20 54.93 -95.55 REMARK 500 1 SER A 42 170.02 -58.11 REMARK 500 1 ALA A 69 -37.33 -39.26 REMARK 500 2 LEU A 20 54.67 -97.66 REMARK 500 3 LEU A 20 44.95 -95.85 REMARK 500 3 SER A 42 171.23 -58.24 REMARK 500 3 ALA A 69 -35.00 -37.15 REMARK 500 3 GLU B 184 -36.32 -142.06 REMARK 500 4 LEU A 20 54.62 -95.44 REMARK 500 4 SER A 42 171.85 -56.82 REMARK 500 4 GLU A 70 115.18 59.00 REMARK 500 5 LEU A 20 50.20 -95.58 REMARK 500 5 SER A 42 171.35 -57.51 REMARK 500 6 LEU A 20 48.70 -95.72 REMARK 500 6 SER A 42 170.46 -57.00 REMARK 500 6 ALA A 69 -36.08 -40.00 REMARK 500 7 LEU A 20 33.62 -95.86 REMARK 500 7 SER A 42 171.32 -58.07 REMARK 500 7 ALA A 69 -76.21 11.06 REMARK 500 8 LEU A 20 54.25 -95.68 REMARK 500 9 LEU A 20 54.70 -95.36 REMARK 500 10 LEU A 20 47.57 -95.75 REMARK 500 10 SER A 42 171.42 -57.81 REMARK 500 10 GLU B 179 94.71 41.98 REMARK 500 11 LEU A 20 54.62 -95.72 REMARK 500 11 VAL B 185 -41.71 -150.66 REMARK 500 12 LEU A 20 54.23 -95.70 REMARK 500 12 ASP A 71 -15.22 -43.12 REMARK 500 13 LEU A 20 49.85 -95.95 REMARK 500 14 LEU A 20 54.66 -95.83 REMARK 500 14 ALA B 182 111.18 55.61 REMARK 500 15 LEU A 20 54.11 -95.29 REMARK 500 15 SER A 42 171.62 -57.15 REMARK 500 16 LEU A 20 47.93 -95.88 REMARK 500 16 SER A 42 171.30 -57.77 REMARK 500 16 ALA A 69 -37.40 -39.22 REMARK 500 17 LEU A 20 36.63 -95.57 REMARK 500 17 SER A 42 170.99 -57.35 REMARK 500 18 LEU A 20 47.74 -95.75 REMARK 500 18 ALA B 182 -79.45 62.12 REMARK 500 19 LEU A 20 50.79 -95.64 REMARK 500 19 SER A 42 171.26 -58.32 REMARK 500 19 ALA A 69 -37.48 -39.55 REMARK 500 20 LEU A 20 54.44 -95.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25767 RELATED DB: BMRB DBREF 5H7P A 1 167 UNP Q06263 VTA1_YEAST 1 167 DBREF 5H7P B 176 204 UNP P69771 DID2_YEAST 176 204 SEQRES 1 A 167 MET ALA SER ASN ALA ALA ARG VAL VAL ALA THR ALA LYS SEQRES 2 A 167 ASP PHE ASP LYS VAL GLY LEU GLY ILE ILE GLY TYR TYR SEQRES 3 A 167 LEU GLN LEU TYR ALA VAL GLU LEU ILE LEU SER GLU GLU SEQRES 4 A 167 ASP ARG SER GLN GLU MET THR ALA LEU ALA THR GLU LEU SEQRES 5 A 167 LEU ASP THR ILE GLU ALA PHE LYS LYS GLU ILE GLY GLY SEQRES 6 A 167 GLU SER GLU ALA GLU ASP SER ASP LYS SER LEU HIS VAL SEQRES 7 A 167 MET ASN THR LEU ILE HIS ASP GLN GLU LYS ALA LYS ILE SEQRES 8 A 167 TYR MET LEU ASN PHE THR MET SER LEU TYR ASN GLU LYS SEQRES 9 A 167 LEU LYS GLN LEU LYS ASP GLY PRO TRP ASP VAL MET LEU SEQRES 10 A 167 LYS ARG SER LEU TRP CYS CYS ILE ASP LEU PHE SER CYS SEQRES 11 A 167 ILE LEU HIS LEU TRP LYS GLU ASN ILE SER GLU THR SER SEQRES 12 A 167 THR ASN SER LEU GLN LYS ARG ILE LYS TYR CYS LYS ILE SEQRES 13 A 167 TYR LEU SER LYS LEU ALA LYS GLY GLU ILE GLY SEQRES 1 B 29 ASN VAL PRO GLU ILE LYS ALA LYS GLU VAL ASN VAL ASP SEQRES 2 B 29 ASP GLU LYS GLU ASP LYS LEU ALA GLN ARG LEU ARG ALA SEQRES 3 B 29 LEU ARG GLY HELIX 1 AA1 MET A 1 GLY A 19 1 19 HELIX 2 AA2 LEU A 20 SER A 37 1 18 HELIX 3 AA3 SER A 42 GLU A 62 1 21 HELIX 4 AA4 GLU A 66 GLU A 70 5 5 HELIX 5 AA5 ASP A 71 ASP A 85 1 15 HELIX 6 AA6 ASP A 85 GLY A 111 1 27 HELIX 7 AA7 ASP A 114 LYS A 136 1 23 HELIX 8 AA8 GLU A 137 ILE A 139 5 3 HELIX 9 AA9 SER A 140 GLY A 164 1 25 HELIX 10 AB1 VAL B 185 GLY B 204 1 20 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