HEADER TOXIN 01-SEP-11 2LIX TITLE SOLUTION STRUCTURE ANALYSIS OF THE IMKTX104 COMPND MOL_ID: 1; COMPND 2 MOLECULE: POTASSIUM CHANNEL TOXINS; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: IMKTX104; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LYCHAS MUCRONATUS; SOURCE 3 ORGANISM_COMMON: CHINESE SWIMMING SCORPION; SOURCE 4 ORGANISM_TAXID: 172552; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PGEM-T KEYWDS DISULFIDE BOND STABILIZED STRUCTURE, TOXIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR D.Y.ZENG,L.JIANG REVDAT 1 25-JUL-12 2LIX 0 JRNL AUTH Z.Y.CHEN,D.Y.ZENG,Y.T.HU,Y.W.HE,N.PAN,J.P.DING,Z.J.CAO, JRNL AUTH 2 M.L.LIU,W.X.LI,H.YI,L.JIANG,Y.L.WU JRNL TITL STRUCTURAL AND FUNCTIONAL DIVERSITY OF ACIDIC SCORPION JRNL TITL 2 POTASSIUM CHANNEL TOXINS. JRNL REF PLOS ONE V. 7 35154 2012 JRNL REFN ESSN 1932-6203 JRNL PMID 22511981 JRNL DOI 10.1371/JOURNAL.PONE.0035154 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA REMARK 3 AUTHORS : GUNTERT, P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 200 structures were calculated with the REMARK 3 Cyana 2.1 program starting from randomly generated conformers in REMARK 3 10,000 annealing steps, 20 conformoers with minimal target REMARK 3 functions were selected to undergo energy minimization using the REMARK 3 AMBER force field REMARK 4 REMARK 4 2LIX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-SEP-11. REMARK 100 THE RCSB ID CODE IS RCSB102437. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : 2 MM [U-15N] ENTITY_1-1, 20 MM REMARK 210 SODIUM PHOSPHATE-2, 90% V/V H2O- REMARK 210 3, 10% V/V [U-99% 2H] D2O-4, 90% REMARK 210 H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 15N-EDITED 3D NOESY-HSQC; 15N,1H REMARK 210 -HSQC; 1H,1H-TOCSY; 1H,1H-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING, ENERGY REMARK 210 MINIMIZATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : 20 STRUCTURES FOR LOWEST 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 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 HG1 THR A 15 O LYS A 25 1.59 REMARK 500 REMARK 500 REMARK: NULL 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 9 CYS A 19 CA - CB - SG ANGL. DEV. = 7.0 DEGREES REMARK 500 11 CYS A 8 CB - CA - C ANGL. DEV. = 7.4 DEGREES REMARK 500 13 CYS A 8 CB - CA - C ANGL. DEV. = 8.6 DEGREES REMARK 500 19 ASP A 14 CB - CG - OD2 ANGL. DEV. = 6.1 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 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 TYR A 13 38.18 -162.30 REMARK 500 1 ASP A 14 -172.84 49.76 REMARK 500 1 THR A 18 -35.39 -156.89 REMARK 500 2 TYR A 13 14.09 -156.94 REMARK 500 2 ASP A 14 -161.01 45.65 REMARK 500 2 ILE A 16 84.39 49.46 REMARK 500 2 CYS A 19 177.09 175.81 REMARK 500 2 ASP A 21 18.85 56.21 REMARK 500 3 TYR A 13 22.86 -171.28 REMARK 500 3 ASP A 14 171.16 60.52 REMARK 500 3 ILE A 16 -58.55 -136.22 REMARK 500 3 THR A 18 -39.28 -133.20 REMARK 500 4 TYR A 13 15.86 -155.54 REMARK 500 4 ASP A 14 -149.67 32.48 REMARK 500 4 THR A 15 -69.44 -91.49 REMARK 500 4 CYS A 19 173.05 178.12 REMARK 500 5 TYR A 13 16.94 -153.90 REMARK 500 5 ASP A 14 -157.98 40.78 REMARK 500 5 ILE A 16 -56.44 64.07 REMARK 500 5 THR A 18 -54.96 -133.33 REMARK 500 5 CYS A 19 146.70 179.92 REMARK 500 6 TYR A 13 8.34 -152.52 REMARK 500 6 ASP A 14 -162.62 42.74 REMARK 500 6 ILE A 16 -60.82 65.70 REMARK 500 6 THR A 18 -50.61 -130.62 REMARK 500 7 TYR A 13 23.69 -151.24 REMARK 500 7 ASP A 14 -153.86 42.89 REMARK 500 7 THR A 18 -57.80 -163.59 REMARK 500 7 CYS A 19 149.34 -173.70 REMARK 500 8 TYR A 13 28.39 -155.66 REMARK 500 8 ASP A 14 -161.73 41.72 REMARK 500 8 ILE A 16 -76.89 -90.17 REMARK 500 8 THR A 18 -60.02 -163.44 REMARK 500 9 ASP A 14 -176.65 53.26 REMARK 500 9 THR A 15 -80.22 -61.55 REMARK 500 9 ILE A 16 -74.19 -89.20 REMARK 500 9 ASP A 21 16.70 56.67 REMARK 500 10 ASP A 14 158.99 54.97 REMARK 500 10 ILE A 16 -78.57 -97.68 REMARK 500 10 ASP A 21 19.13 57.14 REMARK 500 11 ASP A 14 -162.58 55.69 REMARK 500 11 ILE A 16 79.27 46.21 REMARK 500 12 THR A 4 -69.97 -163.98 REMARK 500 12 HIS A 5 -43.51 -148.73 REMARK 500 12 TYR A 13 19.20 -160.39 REMARK 500 12 ASP A 14 -156.90 44.01 REMARK 500 12 THR A 15 -60.87 -102.60 REMARK 500 12 CYS A 19 172.24 179.53 REMARK 500 13 ASP A 14 -160.38 45.40 REMARK 500 13 ILE A 16 78.82 52.23 REMARK 500 REMARK 500 THIS ENTRY HAS 77 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 4 ASP A 14 22.5 L L OUTSIDE RANGE REMARK 500 16 ASP A 14 21.4 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 17908 RELATED DB: BMRB REMARK 999 REMARK 999 SEQUENCE REMARK 999 A SEQUENCE DATABASE REFERENCE FOR THIS PROTEIN DOES NOT CURRENTLY REMARK 999 EXIST. DBREF 2LIX A 1 27 PDB 2LIX 2LIX 1 27 SEQRES 1 A 27 ALA CYS VAL THR HIS GLU ASP CYS THR LEU LEU CYS TYR SEQRES 2 A 27 ASP THR ILE GLY THR CYS VAL ASP GLY LYS CYS LYS CYS SEQRES 3 A 27 MET HELIX 1 1 HIS A 5 THR A 9 5 5 SSBOND 1 CYS A 2 CYS A 19 1555 1555 2.03 SSBOND 2 CYS A 8 CYS A 24 1555 1555 2.02 SSBOND 3 CYS A 12 CYS A 26 1555 1555 2.04 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