HEADER TOXIN 11-MAY-18 6GIF TITLE AAPA1 V26A TOXIN FROM HELICOBACTER PYLORI 26695 COMPND MOL_ID: 1; COMPND 2 MOLECULE: AAPA1; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI SS1; SOURCE 4 ORGANISM_TAXID: 102617 KEYWDS AAPA1 V26A TOXIN FROM HELICOBACTER PYLORI 26695, TOXIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR D.N.KORKUT,G.SALGADO REVDAT 5 14-JUN-23 6GIF 1 REMARK REVDAT 4 04-DEC-19 6GIF 1 JRNL REVDAT 3 11-SEP-19 6GIF 1 JRNL REMARK REVDAT 2 08-MAY-19 6GIF 1 REMARK REVDAT 1 23-MAY-18 6GIF 0 JRNL AUTH D.N.KORKUT,I.D.ALVES,A.VOGEL,S.CHABAS,C.M.SHARMA,D.MARTINEZ, JRNL AUTH 2 A.LOQUET,G.F.SALGADO,F.DARFEUILLE JRNL TITL STRUCTURAL INSIGHTS INTO THE AAPA1 TOXIN OF HELICOBACTER JRNL TITL 2 PYLORI. JRNL REF BIOCHIM BIOPHYS ACTA GEN V.1864 29423 2020 JRNL REF 2 SUBJ JRNL REFN ISSN 1872-8006 JRNL PMID 31476357 JRNL DOI 10.1016/J.BBAGEN.2019.129423 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6GIF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-MAY-18. REMARK 100 THE DEPOSITION ID IS D_1200009517. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 4.7 REMARK 210 IONIC STRENGTH : 10 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1 MM NO LABELING AAPA1 V26A, 10 REMARK 210 MM DEUTERATED ACETIC ACID, 10 MM REMARK 210 DEUTERATED DTT, 40 % DEUTERATED REMARK 210 TFE, TRIFLUOROETHANOL/WATER REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-1H TOCSY; REMARK 210 2D 1H-15N HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ARIA, CCPNMR ANALYSIS REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 2000 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: 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: 3210 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 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 THR A 3 13.86 -158.87 REMARK 500 2 ALA A 2 78.63 54.36 REMARK 500 3 THR A 3 82.66 51.12 REMARK 500 3 ASN A 8 -37.51 -139.34 REMARK 500 6 LYS A 4 34.91 -145.47 REMARK 500 6 LEU A 28 -71.44 -84.34 REMARK 500 8 LEU A 28 -71.03 -85.24 REMARK 500 9 ASN A 8 -30.40 -130.80 REMARK 500 10 ASN A 8 -34.21 -148.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34270 RELATED DB: BMRB REMARK 900 AAPA1 V26A TOXIN FROM HELICOBACTER PYLORI 26695 DBREF1 6GIF A 1 30 UNP A0A1Y3E6H1_HELPX DBREF2 6GIF A A0A1Y3E6H1 1 30 SEQADV 6GIF ALA A 26 UNP A0A1Y3E6H VAL 26 ENGINEERED MUTATION SEQRES 1 A 30 MET ALA THR LYS HIS GLY LYS ASN SER TRP LYS THR LEU SEQRES 2 A 30 TYR LEU LYS ILE SER PHE LEU GLY CYS LYS VAL VAL ALA SEQRES 3 A 30 LEU LEU LYS ARG HELIX 1 AA1 ASN A 8 LYS A 29 1 22 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