HEADER ENDOCYTOSIS 19-DEC-18 6IZG TITLE SOLUTION STRUCTURE OF UFM1 PROTEIN FROM TRYPANOSOMA BRUCEI COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-FOLD MODIFIER 1; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI BRUCEI (STRAIN 927/4 SOURCE 3 GUTAT10.1); SOURCE 4 ORGANISM_TAXID: 185431; SOURCE 5 STRAIN: 927/4 GUTAT10.1; SOURCE 6 GENE: TB927.8.5380; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS UBIQUITIN LIKE PROTEIN, STRESS RESPONSE PROTEIN, ENDOCYTOSIS EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Y.DIWU,X.TU REVDAT 3 15-MAY-24 6IZG 1 REMARK REVDAT 2 25-OCT-23 6IZG 1 JRNL REMARK HELIX SHEET REVDAT 2 2 1 ATOM REVDAT 1 15-JAN-20 6IZG 0 JRNL AUTH Y.DIWU,J.ZHANG,M.LI,X.YANG,F.SHAN,H.MA,X.ZHANG,S.LIAO,X.TU JRNL TITL SOLUTION STRUCTURE OF TBUFM1 FROM TRYPANOSOMA BRUCEI AND ITS JRNL TITL 2 BINDING TO TBUBA5. JRNL REF J.STRUCT.BIOL. V. 212 07580 2020 JRNL REFN ESSN 1095-8657 JRNL PMID 32693018 JRNL DOI 10.1016/J.JSB.2020.107580 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6IZG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1300010137. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.8 REMARK 210 IONIC STRENGTH : 150 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1.5 MM [U-13C; U-15N] UFM1, 150 REMARK 210 MM SODIUM CHLORIDE, 20 MM SODIUM REMARK 210 PHOSPHATE, 2 MM EDTA, 2 MM DTT, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, NMRPIPE, CYANA REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 500 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (RES=RESIDUE NAME; REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 470 MODELS 1-20 REMARK 470 RES CSSEQI ATOMS REMARK 470 ASN A 77 OD1 ND2 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: 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 PHE A 29 108.88 -172.46 REMARK 500 1 PRO A 71 -79.56 -95.78 REMARK 500 1 GLU A 85 35.07 73.93 REMARK 500 2 GLU A 24 66.77 -118.42 REMARK 500 2 GLN A 27 76.95 -157.15 REMARK 500 2 PHE A 29 69.10 71.75 REMARK 500 2 SER A 55 -161.38 -163.82 REMARK 500 2 PRO A 71 -74.84 -89.80 REMARK 500 2 GLN A 84 42.52 -94.13 REMARK 500 2 ARG A 93 -41.03 -141.38 REMARK 500 3 PRO A 71 -75.09 -89.06 REMARK 500 3 ARG A 93 -86.23 -161.51 REMARK 500 4 PRO A 28 37.82 -86.73 REMARK 500 4 ALA A 54 59.99 70.32 REMARK 500 4 ALA A 60 71.84 -118.07 REMARK 500 4 PRO A 71 -76.95 -88.20 REMARK 500 4 GLN A 84 -175.86 71.33 REMARK 500 4 ARG A 93 -73.50 -150.39 REMARK 500 5 PRO A 28 48.39 -87.06 REMARK 500 5 PHE A 29 100.47 -166.97 REMARK 500 5 PRO A 71 -75.92 -91.62 REMARK 500 5 ARG A 93 -59.03 -128.17 REMARK 500 6 PHE A 29 116.62 -173.16 REMARK 500 6 PRO A 71 -76.90 -90.72 REMARK 500 6 GLU A 85 32.07 76.36 REMARK 500 7 PRO A 28 39.92 -90.98 REMARK 500 7 PRO A 71 -77.61 -90.99 REMARK 500 7 ARG A 93 -60.86 -136.74 REMARK 500 8 GLU A 24 67.62 -116.49 REMARK 500 8 PHE A 29 61.13 71.66 REMARK 500 8 PRO A 71 -85.04 -91.78 REMARK 500 8 GLU A 85 96.61 -168.91 REMARK 500 8 ARG A 93 -60.30 -129.82 REMARK 500 9 ALA A 9 51.23 -92.97 REMARK 500 9 PRO A 71 -80.99 -87.57 REMARK 500 9 ASP A 92 -55.69 143.22 REMARK 500 10 ALA A 9 61.22 68.56 REMARK 500 10 PRO A 28 49.39 -87.97 REMARK 500 10 PRO A 71 -78.71 -91.64 REMARK 500 10 GLN A 73 36.18 71.72 REMARK 500 10 GLN A 84 30.07 -96.92 REMARK 500 10 ARG A 93 -65.24 -140.43 REMARK 500 11 GLU A 6 -85.60 -144.32 REMARK 500 11 MET A 59 67.79 -110.55 REMARK 500 11 PRO A 71 -80.96 -91.64 REMARK 500 11 GLU A 85 64.54 -150.31 REMARK 500 12 ALA A 60 76.54 -116.54 REMARK 500 12 PRO A 71 -77.83 -96.69 REMARK 500 12 GLN A 84 179.86 72.92 REMARK 500 12 GLU A 85 36.86 70.93 REMARK 500 REMARK 500 THIS ENTRY HAS 98 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36226 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF UFM1 PROTEIN FROM TRYPANOSOMA BRUCEI DBREF 6IZG A 1 95 UNP Q57UL0 Q57UL0_TRYB2 1 95 SEQRES 1 A 95 MET SER GLN ASN GLU GLU ALA PRO ALA ARG SER GLY GLY SEQRES 2 A 95 LYS VAL THR PHE ARG ILE ILE LEU THR SER GLU ARG SER SEQRES 3 A 95 GLN PRO PHE ARG VAL ILE SER ILE ALA GLU GLU ALA PRO SEQRES 4 A 95 LEU THR ALA ALA LEU ARG PHE ALA ALA GLU GLU PHE GLY SEQRES 5 A 95 ILE ALA SER VAL ASP SER MET ALA ALA THR THR LYS ASP SEQRES 6 A 95 GLY THR GLY ILE ASN PRO ALA GLN THR ALA GLY ASN VAL SEQRES 7 A 95 PHE MET LYS TYR GLY GLN GLU ILE ARG LEU ILE PRO ARG SEQRES 8 A 95 ASP ARG VAL GLY HELIX 1 AA1 PRO A 39 GLY A 52 1 14 HELIX 2 AA2 SER A 55 MET A 59 5 5 HELIX 3 AA3 THR A 74 TYR A 82 1 9 SHEET 1 AA1 4 ARG A 30 ALA A 35 0 SHEET 2 AA1 4 LYS A 14 LEU A 21 -1 N VAL A 15 O ILE A 34 SHEET 3 AA1 4 ILE A 86 ILE A 89 1 O LEU A 88 N ILE A 20 SHEET 4 AA1 4 ALA A 60 THR A 62 -1 N THR A 62 O ARG A 87 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