HEADER PROTEIN TRANSPORT 11-MAY-15 2N2N TITLE TOM1 NEGATIVELY MODULATES BINDING OF TOLLIP TO PHOSPHATIDYLINOSITOL 3- TITLE 2 PHOSPHATE VIA A COUPLED FOLDING AND BINDING MECHANISM COMPND MOL_ID: 1; COMPND 2 MOLECULE: TARGET OF MYB PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: GAT DOMAIN RESIDUES 215-309; COMPND 5 SYNONYM: VPG; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TOM1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PGEX-6P-1 KEYWDS PROTEIN TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.XIAO,G.ARMSTRONG,D.CAPELLUTO REVDAT 3 14-JUN-23 2N2N 1 REMARK SEQADV REVDAT 2 21-OCT-15 2N2N 1 JRNL REVDAT 1 16-SEP-15 2N2N 0 JRNL AUTH S.XIAO,M.K.BRANNON,X.ZHAO,K.I.FREAD,J.F.ELLENA, JRNL AUTH 2 J.H.BUSHWELLER,C.V.FINKIELSTEIN,G.S.ARMSTRONG,D.G.CAPELLUTO JRNL TITL TOM1 MODULATES BINDING OF TOLLIP TO PHOSPHATIDYLINOSITOL JRNL TITL 2 3-PHOSPHATE VIA A COUPLED FOLDING AND BINDING MECHANISM. JRNL REF STRUCTURE V. 23 1910 2015 JRNL REFN ISSN 0969-2126 JRNL PMID 26320582 JRNL DOI 10.1016/J.STR.2015.07.017 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ROSETTA, ROSETTA REMARK 3 AUTHORS : SHEN, VERNON, BAKER AND BAX (ROSETTA), SHEN, REMARK 3 VERNON, BAKER AND BAX (ROSETTA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: DGSA-DISTANCE GEOMETRY SIMULATED REMARK 3 ANNEALING REMARK 4 REMARK 4 2N2N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAY-15. REMARK 100 THE DEPOSITION ID IS D_1000104344. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 70 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.8-1.0 MM [U-99% 13C; U-99% REMARK 210 15N] TOM1 GAT, 1.0-1.2 MM TOLLIP REMARK 210 TBD, 50 UM DSS, 50 MM POTASSIUM REMARK 210 CHLORIDE, 20 MM [U-2H] TRIS, 1 REMARK 210 MM SODIUM AZIDE, 1 MM [U-2H] DTT, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCO; 3D HCACO; 3D HNCACB; 3D REMARK 210 1H-15N NOESY; 3D 1H-15N TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; AGILENT DD2 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ROSETTA, NMRDRAW, PSVS, SPARKY, REMARK 210 TALOS, TOPSPIN REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 7500 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED 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 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 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A 210 REMARK 465 PRO A 211 REMARK 465 LEU A 212 REMARK 465 GLY A 213 REMARK 465 SER A 214 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 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 2 PRO A 273 CD PRO A 273 N 0.104 REMARK 500 3 PRO A 273 CD PRO A 273 N 0.102 REMARK 500 4 PRO A 273 CD PRO A 273 N 0.109 REMARK 500 5 PRO A 273 CD PRO A 273 N 0.109 REMARK 500 6 PRO A 273 CD PRO A 273 N 0.084 REMARK 500 7 PRO A 273 CD PRO A 273 N 0.110 REMARK 500 8 PRO A 273 CD PRO A 273 N 0.098 REMARK 500 9 PRO A 273 CD PRO A 273 N 0.092 REMARK 500 10 PRO A 273 CD PRO A 273 N 0.103 REMARK 500 11 PRO A 273 CD PRO A 273 N 0.106 REMARK 500 14 PRO A 273 CD PRO A 273 N 0.114 REMARK 500 18 PRO A 273 CD PRO A 273 N 0.120 REMARK 500 19 PRO A 273 CD PRO A 273 N 0.093 REMARK 500 20 PRO A 273 CD PRO A 273 N 0.086 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 3 GLN A 245 34.01 -140.00 REMARK 500 6 ASN A 277 -127.25 60.03 REMARK 500 7 ASN A 277 -120.04 51.89 REMARK 500 10 ASN A 277 -127.23 54.14 REMARK 500 12 ASN A 277 -125.49 60.05 REMARK 500 13 ASN A 277 -119.98 60.72 REMARK 500 14 ASN A 277 -119.96 52.24 REMARK 500 15 ASN A 277 -125.52 59.99 REMARK 500 16 ASN A 277 -129.23 56.41 REMARK 500 17 ILE A 275 60.11 -108.05 REMARK 500 17 GLN A 279 -154.18 67.48 REMARK 500 18 ASN A 277 -120.07 58.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25602 RELATED DB: BMRB DBREF 2N2N A 215 309 UNP O60784 TOM1_HUMAN 215 309 SEQADV 2N2N GLY A 210 UNP O60784 EXPRESSION TAG SEQADV 2N2N PRO A 211 UNP O60784 EXPRESSION TAG SEQADV 2N2N LEU A 212 UNP O60784 EXPRESSION TAG SEQADV 2N2N GLY A 213 UNP O60784 EXPRESSION TAG SEQADV 2N2N SER A 214 UNP O60784 EXPRESSION TAG SEQRES 1 A 100 GLY PRO LEU GLY SER GLU GLN ILE GLY LYS LEU ARG SER SEQRES 2 A 100 GLU LEU GLU MET VAL SER GLY ASN VAL ARG VAL MET SER SEQRES 3 A 100 GLU MET LEU THR GLU LEU VAL PRO THR GLN ALA GLU PRO SEQRES 4 A 100 ALA ASP LEU GLU LEU LEU GLN GLU LEU ASN ARG THR CYS SEQRES 5 A 100 ARG ALA MET GLN GLN ARG VAL LEU GLU LEU ILE PRO GLN SEQRES 6 A 100 ILE ALA ASN GLU GLN LEU THR GLU GLU LEU LEU ILE VAL SEQRES 7 A 100 ASN ASP ASN LEU ASN ASN VAL PHE LEU ARG HIS GLU ARG SEQRES 8 A 100 PHE GLU ARG PHE ARG THR GLY GLN THR HELIX 1 1 GLU A 215 LEU A 241 1 27 HELIX 2 2 GLU A 247 ILE A 272 1 26 HELIX 3 3 PRO A 273 ILE A 275 5 3 HELIX 4 4 LEU A 280 THR A 306 1 27 CISPEP 1 ASN A 277 GLU A 278 1 1.89 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