HEADER HYDROLASE 24-APR-20 6YTS TITLE SOLUTION NMR STRUCTURE OF TYPE-I RIBOSOME-INACTIVATING PROTEIN TITLE 2 TRICHOBAKIN (TBK) COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRICHOBAKIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRICHOSANTHES SP. BAC KAN 8-98; SOURCE 3 ORGANISM_TAXID: 118182; SOURCE 4 GENE: TBK; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RIBOSOME-INACTIVATING PROTEIN, N-GLYCOSIDASE ACTIVITY, ANTITUMOR KEYWDS 2 PROTEIN, ANTIVIRAL PROTEIN, HYDROLASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR V.V.BRITIKOV,E.V.BOCHAROV,E.V.BRITIKOVA,T.B.T.LE,C.V.PHAN,K.M.BOYKO, AUTHOR 2 A.S.ARSENIEV,S.A.USANOV REVDAT 2 14-JUN-23 6YTS 1 REMARK REVDAT 1 06-MAY-20 6YTS 0 JRNL AUTH V.V.BRITIKOV,E.V.BOCHAROV,E.V.BRITIKOVA,T.B.T.LE,C.V.PHAN, JRNL AUTH 2 K.M.BOYKO,A.S.ARSENIEV,S.A.USANOV JRNL TITL STRUCTURE AND DYNAMICS OF TYPE-I RIBOSOME-INACTIVATING JRNL TITL 2 PROTEIN TRICHOBAKIN (TBK) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.21 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6YTS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-APR-20. REMARK 100 THE DEPOSITION ID IS D_1292108213. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.8 MM [U-13C; U-15N] REMARK 210 TRICHOBAKIN, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D CBCA(CO)NH; 3D HNCO; REMARK 210 3D HNCA; 3D HNCACB; 3D HBHA(CO) REMARK 210 NH; 3D HN(CO)CA; 3D HCCH-TOCSY; REMARK 210 3D HNHA; 3D HNHB; 3D 1H-15N REMARK 210 NOESY; 3D 1H-15N TOCSY; 3D 1H- REMARK 210 13C NOESY ALIPHATIC; 3D 1H-13C REMARK 210 NOESY AROMATIC; 3D H(CCO)NH; 3D REMARK 210 HN(CA)CO; 3D HC(C)H-TOCSY REMARK 210 AROMATIC; 3D HC(C)H-COSY REMARK 210 AROMATIC; 3D CC(CO)NH REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.2, CCPNMR ANALYSIS REMARK 210 2.4.2, ARIA 2.3, CNS 1.21 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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: 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 OD1 ASP A 65 HG1 THR A 67 1.58 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 ARG A 29 -160.58 -175.78 REMARK 500 1 ASP A 33 -10.95 79.50 REMARK 500 1 ASP A 57 10.14 81.71 REMARK 500 1 TYR A 142 70.81 21.53 REMARK 500 1 SER A 146 -11.32 -153.49 REMARK 500 1 THR A 158 -77.97 -136.68 REMARK 500 1 LYS A 177 -167.54 -162.37 REMARK 500 1 ASN A 220 36.76 76.46 REMARK 500 2 ARG A 29 -165.61 -176.30 REMARK 500 2 ASP A 33 -7.92 77.99 REMARK 500 2 ARG A 46 1.36 -68.28 REMARK 500 2 ASP A 57 8.12 81.51 REMARK 500 2 TYR A 142 68.18 22.10 REMARK 500 2 SER A 146 -11.27 -153.82 REMARK 500 2 THR A 158 -79.81 -135.91 REMARK 500 2 LYS A 177 -167.07 -162.57 REMARK 500 2 ASN A 220 32.95 79.77 REMARK 500 3 ARG A 29 -163.05 -175.74 REMARK 500 3 ASP A 33 -11.91 80.31 REMARK 500 3 ASP A 57 8.44 82.54 REMARK 500 3 VAL A 69 3.56 59.90 REMARK 500 3 TYR A 142 68.63 22.65 REMARK 500 3 SER A 146 -11.70 -154.46 REMARK 500 3 THR A 158 -79.77 -137.85 REMARK 500 3 LYS A 177 -163.38 -163.46 REMARK 500 3 ASN A 220 40.57 73.45 REMARK 500 3 ALA A 238 -28.31 -173.96 REMARK 500 4 ARG A 29 -163.64 -176.23 REMARK 500 4 ASP A 33 -6.42 78.93 REMARK 500 4 ASP A 57 9.33 81.34 REMARK 500 4 VAL A 69 8.09 59.38 REMARK 500 4 TYR A 142 71.66 21.90 REMARK 500 4 SER A 146 -12.60 -151.77 REMARK 500 4 THR A 158 -81.11 -136.03 REMARK 500 4 ARG A 174 45.76 -84.80 REMARK 500 4 LYS A 177 -167.43 -161.33 REMARK 500 4 ALA A 218 -9.10 -57.92 REMARK 500 4 ASN A 220 37.14 76.93 REMARK 500 4 SER A 235 8.73 -150.23 REMARK 500 4 ILE A 237 89.00 -66.51 REMARK 500 5 ARG A 29 -162.66 -173.60 REMARK 500 5 ASP A 33 -11.04 81.06 REMARK 500 5 ASP A 57 9.48 81.89 REMARK 500 5 TYR A 142 68.71 23.10 REMARK 500 5 THR A 158 -78.67 -138.15 REMARK 500 5 ALA A 218 -6.33 -57.49 REMARK 500 5 ASN A 220 37.78 75.53 REMARK 500 6 ARG A 29 -164.94 -175.97 REMARK 500 6 ASP A 33 -11.02 80.74 REMARK 500 6 LEU A 37 157.61 -49.30 REMARK 500 REMARK 500 THIS ENTRY HAS 187 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 27989 RELATED DB: BMRB DBREF 6YTS A 1 247 UNP Q9LRE3 Q9LRE3_9ROSI 1 247 SEQRES 1 A 247 ASP VAL SER PHE ARG LEU SER GLY ALA THR SER SER SER SEQRES 2 A 247 TYR GLY VAL PHE ILE SER ASN LEU ARG LYS ALA LEU PRO SEQRES 3 A 247 TYR GLU ARG LYS LEU TYR ASP ILE PRO LEU LEU ARG SER SEQRES 4 A 247 THR LEU PRO GLY SER GLN ARG TYR ALA LEU ILE HIS LEU SEQRES 5 A 247 THR ASN TYR ALA ASP GLU THR ILE SER VAL ALA ILE ASP SEQRES 6 A 247 VAL THR ASN VAL TYR VAL MET GLY TYR ARG ALA GLY ASP SEQRES 7 A 247 THR SER TYR PHE PHE ASN GLU ALA SER ALA THR GLU ALA SEQRES 8 A 247 ALA LYS TYR VAL PHE LYS ASP ALA LYS ARG LYS VAL THR SEQRES 9 A 247 LEU PRO TYR SER GLY ASN TYR GLU ARG LEU GLN ILE ALA SEQRES 10 A 247 ALA GLY LYS ILE ARG GLU ASN ILE PRO LEU GLY LEU PRO SEQRES 11 A 247 ALA LEU ASP SER ALA ILE THR THR LEU PHE TYR TYR ASN SEQRES 12 A 247 ALA ASN SER ALA ALA SER ALA LEU MET VAL LEU ILE GLN SEQRES 13 A 247 SER THR SER GLU ALA ALA ARG TYR LYS PHE ILE GLU GLN SEQRES 14 A 247 GLN ILE GLY LYS ARG VAL ASP LYS THR PHE LEU PRO SER SEQRES 15 A 247 LEU ALA ILE ILE SER LEU GLU ASN SER TRP SER ALA LEU SEQRES 16 A 247 SER LYS GLN ILE GLN ILE ALA SER THR ASN ASN GLY GLN SEQRES 17 A 247 PHE GLU THR PRO VAL VAL LEU ILE ASN ALA GLN ASN GLN SEQRES 18 A 247 ARG VAL THR ILE THR ASN VAL ASP ALA GLY VAL VAL THR SEQRES 19 A 247 SER ASN ILE ALA LEU LEU PRO ASN ARG ASN ASN MET ALA HELIX 1 AA1 THR A 10 LEU A 25 1 16 HELIX 2 AA2 GLU A 85 VAL A 95 1 11 HELIX 3 AA3 ASN A 110 GLY A 119 1 10 HELIX 4 AA4 ILE A 121 ILE A 125 5 5 HELIX 5 AA5 GLY A 128 TYR A 141 1 14 HELIX 6 AA6 ASN A 143 SER A 157 1 15 HELIX 7 AA7 THR A 158 TYR A 164 1 7 HELIX 8 AA8 TYR A 164 ARG A 174 1 11 HELIX 9 AA9 SER A 182 THR A 204 1 23 HELIX 10 AB1 ALA A 230 SER A 235 1 6 SHEET 1 AA1 6 VAL A 2 ARG A 5 0 SHEET 2 AA1 6 TYR A 47 THR A 53 1 O HIS A 51 N VAL A 2 SHEET 3 AA1 6 THR A 59 ASP A 65 -1 O VAL A 62 N ILE A 50 SHEET 4 AA1 6 VAL A 71 ALA A 76 -1 O MET A 72 N ALA A 63 SHEET 5 AA1 6 THR A 79 PHE A 82 -1 O TYR A 81 N TYR A 74 SHEET 6 AA1 6 ARG A 101 THR A 104 1 O ARG A 101 N SER A 80 SHEET 1 AA2 2 TYR A 27 LEU A 31 0 SHEET 2 AA2 2 ILE A 34 LEU A 37 -1 O LEU A 36 N ARG A 29 SHEET 1 AA3 2 GLN A 208 ASN A 217 0 SHEET 2 AA3 2 GLN A 221 ASN A 227 -1 O THR A 226 N PHE A 209 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