10 20 30 40 50 60 70 80 1QKY - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER NEUROTOXIN 17-AUG-99 1QKY
TITLE SOLUTION STRUCTURE OF PI7, A NON TOXIC PEPTIDE ISOLATED TITLE 2 FROM THE SCORPION PANDINUS IMPERATOR.
COMPND MOL_ID: 1; COMPND 2 MOLECULE: TOXIN 7 FROM PANDINUS IMPERATOR; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PI7
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PANDINUS IMPERATOR; SOURCE 3 ORGANISM_COMMON: SCORPION; SOURCE 4 ORGANISM_TAXID: 55084; SOURCE 5 SECRETION: VENOM
KEYWDS NEUROTOXIN
EXPDTA SOLUTION NMR
NUMMDL 14
AUTHOR M.DELEPIERRE,A.PROCHNICKA-CHALUFOUR,J.BOISBOUVIER, AUTHOR 2 L.D.POSSANI
REVDAT 2 24-FEB-09 1QKY 1 VERSN REVDAT 1 03-FEB-00 1QKY 0
JRNL AUTH M.DELEPIERRE,A.PROCHNICKA-CHALUFOUR,J.BOISBOUVIER, JRNL AUTH 2 L.D.POSSANI JRNL TITL PI7, AN ORPHAN PEPTIDE FROM THE SCORPION PANDINUS JRNL TITL 2 IMPERATOR: A 1H NMR ANALYSIS USING A NANO-NMR JRNL TITL 3 PROBE JRNL REF BIOCHEMISTRY V. 38 16756 1999 JRNL REFN ISSN 0006-2960 JRNL PMID 10606507 JRNL DOI 10.1021/BI991685M
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.OLAMENDI-PORTUGAL,F.GOMEZ-LAGUNAS,G.B.GURROLA, REMARK 1 AUTH 2 L.D.POSSANI REMARK 1 TITL TWO SIMILAR PEPTIDES FROM THE VENOM OF THE REMARK 1 TITL 2 SCORPION PANDINUS IMPERATOR, ONE HIGHLY EFFECTIVE REMARK 1 TITL 3 BLOCKER AND THE OTHER INACTIVE ON K+ CHANNELS REMARK 1 REF TOXICON V. 36 759 1998 REMARK 1 REFN ISSN 0041-0101 REMARK 1 PMID 9655636 REMARK 1 DOI 10.1016/S0041-0101(97)00163-3
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : OPAL REMARK 3 AUTHORS : LUGINBUHL,GUNTERT,BILLETER,WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE WAS CALCULATED USING REMARK 3 THE PROGRAM DYANA. TWENTY FIVE BEST DYANA CONFORMERS WERE REMARK 3 SUBMITTED TO RESTRAINED ENERGY MINIMIZATION IN A SHELL OF 584 REMARK 3 WATER MOLECULES USING THE PROGRAM OPAL. COORDINATES FOR THE REMARK 3 WATER ARE NOT CONTAINED IN THIS ENTRY. FOR FURTHER DETAILS ON REMARK 3 THE REFINEMENT SEE THE JRNL CITATION ABOVE.
REMARK 4 REMARK 4 1QKY COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-AUG-99. REMARK 100 THE PDBE ID CODE IS EBI-2937.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 3.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : H2O/D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 REMARK 210 SPECTROMETER MODEL : UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DYANA, OPAL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 14 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATION, REMARK 210 STRUCTURE QUALITY ACCORDING REMARK 210 TO PROCHECK REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE OF THE NATURAL TOXIN EXTRACTED FROM REMARK 210 THE SCORPION VENOM WAS DETERMINED BY HOMONUCLEAR NMR AT REMARK 210 500 MHZ FROM NANOMOLE AMOUNT OF COMPOUND.
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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 5 TYR A 13 CB - CG - CD2 ANGL. DEV. = -3.8 DEGREES REMARK 500 8 CYS A 6 CA - CB - SG ANGL. DEV. = 7.0 DEGREES 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 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 ALA A 3 -160.97 49.44 REMARK 500 1 ILE A 19 -74.92 -91.39 REMARK 500 1 ASN A 24 101.15 -48.76 REMARK 500 1 LYS A 30 4.61 55.30 REMARK 500 2 GLU A 2 -147.90 -142.12 REMARK 500 2 ILE A 19 -76.38 -76.31 REMARK 500 2 ASN A 24 82.75 -68.27 REMARK 500 2 ASN A 29 51.07 36.54 REMARK 500 2 LYS A 30 -2.95 70.33 REMARK 500 3 GLU A 2 62.74 -113.63 REMARK 500 3 ALA A 3 -108.85 42.54 REMARK 500 3 ASN A 24 105.48 -53.59 REMARK 500 3 LYS A 30 -7.25 58.29 REMARK 500 4 GLU A 2 -165.35 -73.29 REMARK 500 4 ALA A 3 98.89 65.59 REMARK 500 4 ILE A 14 -70.11 -58.71 REMARK 500 4 PHE A 23 -146.05 -91.60 REMARK 500 4 ASN A 29 -78.52 59.41 REMARK 500 5 LYS A 30 1.33 55.03 REMARK 500 6 ALA A 3 146.40 -175.92 REMARK 500 6 ASP A 11 -74.95 -68.92 REMARK 500 6 PHE A 23 -151.92 -91.16 REMARK 500 6 LYS A 30 -12.16 58.62 REMARK 500 7 ILE A 19 -76.44 -92.00 REMARK 500 7 LYS A 30 -4.13 60.49 REMARK 500 8 ILE A 19 -75.48 -91.08 REMARK 500 8 LYS A 30 9.02 59.70 REMARK 500 9 CYS A 12 7.25 -67.49 REMARK 500 9 ASN A 24 67.84 125.00 REMARK 500 9 ASN A 29 59.53 34.53 REMARK 500 9 LYS A 30 -5.07 62.23 REMARK 500 10 GLU A 2 4.66 -164.01 REMARK 500 10 ASN A 24 98.80 -66.16 REMARK 500 10 LYS A 30 6.78 56.22 REMARK 500 11 ALA A 3 -132.57 48.32 REMARK 500 11 ILE A 14 -76.70 -71.25 REMARK 500 11 PHE A 23 16.24 -66.75 REMARK 500 11 ASN A 29 58.63 39.21 REMARK 500 11 LYS A 30 5.21 58.14 REMARK 500 11 CYS A 37 -10.08 -142.70 REMARK 500 12 ILE A 14 -77.72 -83.28 REMARK 500 12 LYS A 30 1.28 56.24 REMARK 500 13 GLU A 2 45.29 -151.95 REMARK 500 13 ASN A 24 85.53 -151.96 REMARK 500 13 LYS A 30 3.79 59.25 REMARK 500 14 PHE A 23 28.93 -72.28 REMARK 500 14 ASN A 29 -73.03 53.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 5 0.09 SIDE CHAIN REMARK 500 2 ARG A 17 0.09 SIDE CHAIN REMARK 500 9 TYR A 13 0.11 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE PEPTIDE STUDIED HERE IS RELATED IN SEQUENCE TO THE REMARK 999 POTASSIUM CHANNEL BLOCKING TOXINS, HOWEVER THE ALIGNMENT REMARK 999 IS ONLY 60 PERCENT FOR THE PEPTIDES: REMARK 999 SCKA_PANIM P55927 (47 AA) REMARK 999 SCKB_PANIM P55928 (35 AA) REMARK 999 SCKG_PANIM Q10726 (35 AA) REMARK 999 REMARK 999 1QKY DEAIRCTGTKDCYIPCRYITGCFNSRCINKSCKCYGCT REMARK 999 SCKA_PANIM: RGSVDYKDDDDKTISCTNPKQCYPHCKKETGYPNAKCMNRKCKCFGR REMARK 999 SCKB_PANIM: TISCTNEKQCYPHCKKETGYPNAKCMNRKCKCFGR REMARK 999 SCKG_PANIM LVKCRGTSDCGRPCQQQTGCPNSKCINRMCKCYGC REMARK 999 * * * * * *
DBREF 1QKY A 1 38 PDB 1QKY 1QKY 1 38
SEQRES 1 A 38 ASP GLU ALA ILE ARG CYS THR GLY THR LYS ASP CYS TYR SEQRES 2 A 38 ILE PRO CYS ARG TYR ILE THR GLY CYS PHE ASN SER ARG SEQRES 3 A 38 CYS ILE ASN LYS SER CYS LYS CYS TYR GLY CYS THR
HELIX 1 1 GLY A 8 THR A 20 1 13
SHEET 1 A 2 SER A 25 ILE A 28 0 SHEET 2 A 2 SER A 31 CYS A 34 -1 N LYS A 33 O ARG A 26
SSBOND 1 CYS A 6 CYS A 27 1555 1555 2.03 SSBOND 2 CYS A 12 CYS A 32 1555 1555 2.04 SSBOND 3 CYS A 16 CYS A 34 1555 1555 2.03 SSBOND 4 CYS A 22 CYS A 37 1555 1555 2.03
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