PDB Short entry for 2KS4 HEADER TRANSPORT PROTEIN 29-DEC-09 2KS4 TITLE NMR STRUCTURE OF THE SEA ANEMONE ACTINOPORIN STICHOLYSIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: STICHOLYSIN-1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: STICHOLYSIN I, CYTOLYSIN ST I, CYTOTOXIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STICHODACTYLA HELIANTHUS; SOURCE 3 ORGANISM_COMMON: CARRIBEAN SEA ANEMONE; SOURCE 4 ORGANISM_TAXID: 6123; SOURCE 5 GENE: STCH1, STCH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: RB791; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PQE60 KEYWDS PROTEIN, CYTOLYSIS, HEMOLYSIS, ION TRANSPORT, MEMBRANE, NEMATOCYST, KEYWDS 2 PORIN, SECRETED, TOXIN, TRANSMEMBRANE, TRANSPORT, TRANSPORT PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR I.CASTRILLO,J.SANTORO,M.BRUIX REVDAT 2 01-MAY-24 2KS4 1 REMARK REVDAT 1 01-SEP-10 2KS4 0 JRNL AUTH I.CASTRILLO,J.ALEGRE-CEBOLLADA,A.M.DEL POZO,J.G.GAVILANES, JRNL AUTH 2 J.SANTORO,M.BRUIX JRNL TITL 1H, 13C, AND 15N NMR ASSIGNMENTS OF THE ACTINOPORIN JRNL TITL 2 STICHOLYSIN I. JRNL REF BIOMOL.NMR ASSIGN. V. 3 5 2009 JRNL REFN ISSN 1874-2718 JRNL PMID 19636934 JRNL DOI 10.1007/S12104-008-9127-3 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SPARKY, AMBER REMARK 3 AUTHORS : GODDARD (SPARKY), CASE, DARDEN, CHEATHAM, III, REMARK 3 SIMMERLING, WANG, DUKE, LUO, ... AND KOLLM (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KS4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JAN-10. REMARK 100 THE DEPOSITION ID IS D_1000101505. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 4.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-13C; U-15N] STNI, 90% REMARK 210 H2O/10% D2O; 0.5 MM STNI, 100% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HNCACB; 3D CBCA(CO)NH; 3D REMARK 210 HN(CO)CA; 3D HCCH-TOCSY; 3D HNHA; REMARK 210 3D HBHA(CO)NH; 3D HBHANH; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY; 2D REMARK 210 1H-1H TOCSY; 2D 1H-1H COSY; 2D REMARK 210 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800.2 MHZ REMARK 210 SPECTROMETER MODEL : AV800 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, TOPSPIN 3.1, CYANA REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED 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: 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 ARG A 52 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 10 VAL A 34 CA - CB - CG1 ANGL. DEV. = 9.1 DEGREES REMARK 500 13 ARG A 126 NE - CZ - NH1 ANGL. DEV. = 3.4 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 LEU A 3 43.65 -74.64 REMARK 500 1 LEU A 47 -54.65 -120.44 REMARK 500 1 THR A 55 110.29 -32.90 REMARK 500 1 ALA A 82 -177.02 172.95 REMARK 500 1 ALA A 85 102.62 -165.97 REMARK 500 1 PRO A 106 -158.08 -71.35 REMARK 500 1 PHE A 107 -34.33 -131.94 REMARK 500 1 ASP A 108 52.38 -90.01 REMARK 500 1 TRP A 111 -63.87 -132.25 REMARK 500 1 LYS A 124 102.71 -53.94 REMARK 500 1 TRP A 147 104.84 171.99 REMARK 500 1 TYR A 154 9.47 56.78 REMARK 500 1 ALA A 165 1.08 -60.26 REMARK 500 2 ILE A 8 171.56 -54.36 REMARK 500 2 ASN A 48 149.64 -170.04 REMARK 500 2 THR A 55 106.01 -33.18 REMARK 500 2 ASP A 57 -64.10 -92.44 REMARK 500 2 LYS A 76 -174.11 -67.96 REMARK 500 2 TYR A 109 9.16 54.38 REMARK 500 2 ASN A 110 -75.55 -74.62 REMARK 500 2 TYR A 112 109.03 -59.22 REMARK 500 2 ARG A 142 -157.29 -93.34 REMARK 500 2 TRP A 147 106.33 169.19 REMARK 500 2 TYR A 154 -153.45 -70.02 REMARK 500 2 GLU A 167 43.81 -95.83 REMARK 500 3 ILE A 8 -75.03 -24.42 REMARK 500 3 LEU A 47 -51.02 -124.25 REMARK 500 3 ASN A 48 142.89 -171.06 REMARK 500 3 THR A 55 107.69 -27.14 REMARK 500 3 ILE A 59 -35.18 -136.68 REMARK 500 3 THR A 83 71.69 -112.63 REMARK 500 3 TRP A 111 14.48 55.89 REMARK 500 3 ARG A 142 41.36 -92.61 REMARK 500 3 TYR A 154 15.12 51.46 REMARK 500 4 ALA A 46 108.83 -56.47 REMARK 500 4 ASN A 48 144.80 -177.73 REMARK 500 4 ARG A 52 -70.12 -98.49 REMARK 500 4 ASP A 57 -65.03 -102.63 REMARK 500 4 ILE A 59 -63.54 -136.85 REMARK 500 4 THR A 67 18.76 56.79 REMARK 500 4 ALA A 85 91.83 -165.63 REMARK 500 4 ASN A 110 -179.23 -60.56 REMARK 500 4 ARG A 142 63.91 -104.31 REMARK 500 4 TYR A 154 6.28 55.09 REMARK 500 4 SER A 164 30.05 -82.05 REMARK 500 4 ALA A 165 21.64 -65.61 REMARK 500 5 ILE A 8 172.03 -58.63 REMARK 500 5 ASP A 9 129.39 -35.38 REMARK 500 5 LYS A 27 -74.03 -132.47 REMARK 500 5 THR A 55 109.39 -30.95 REMARK 500 REMARK 500 THIS ENTRY HAS 226 RAMACHANDRAN OUTLIERS. 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 TYR A 72 0.10 SIDE CHAIN REMARK 500 1 TYR A 154 0.12 SIDE CHAIN REMARK 500 2 TYR A 72 0.08 SIDE CHAIN REMARK 500 3 TYR A 72 0.08 SIDE CHAIN REMARK 500 3 TYR A 132 0.07 SIDE CHAIN REMARK 500 3 TYR A 154 0.11 SIDE CHAIN REMARK 500 4 TYR A 154 0.11 SIDE CHAIN REMARK 500 5 TYR A 154 0.11 SIDE CHAIN REMARK 500 6 TYR A 50 0.08 SIDE CHAIN REMARK 500 6 TYR A 72 0.07 SIDE CHAIN REMARK 500 7 TYR A 154 0.10 SIDE CHAIN REMARK 500 8 TYR A 72 0.07 SIDE CHAIN REMARK 500 8 TYR A 154 0.10 SIDE CHAIN REMARK 500 9 TYR A 154 0.12 SIDE CHAIN REMARK 500 10 TYR A 72 0.08 SIDE CHAIN REMARK 500 10 TYR A 154 0.08 SIDE CHAIN REMARK 500 14 TYR A 72 0.09 SIDE CHAIN REMARK 500 15 TYR A 141 0.08 SIDE CHAIN REMARK 500 16 TYR A 154 0.10 SIDE CHAIN REMARK 500 17 TYR A 154 0.07 SIDE CHAIN REMARK 500 18 TYR A 72 0.09 SIDE CHAIN REMARK 500 19 TYR A 72 0.08 SIDE CHAIN REMARK 500 19 TYR A 91 0.07 SIDE CHAIN REMARK 500 19 TYR A 148 0.08 SIDE CHAIN REMARK 500 20 TYR A 50 0.10 SIDE CHAIN REMARK 500 20 TYR A 72 0.07 SIDE CHAIN REMARK 500 20 TYR A 109 0.10 SIDE CHAIN REMARK 500 20 TYR A 141 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4797 RELATED DB: BMRB REMARK 900 ENTRY CONTAINING CHEMICAL SHIFTS ASSIGNMENTS OF ANOTHER ACTINOPORIN, REMARK 900 EQUINATOXINII REMARK 900 RELATED ID: 2KS3 RELATED DB: PDB REMARK 900 RELATED ID: 1KD6 RELATED DB: PDB REMARK 900 ENTRY CONTAINING COORDINATES OF EQTII STRUCTURE BY NMR REMARK 900 RELATED ID: 1IAZ RELATED DB: PDB REMARK 900 ENTRY CONTAINING COORDINATES OF THE CRYSTAL STRUCTURE OF EQTII REMARK 900 RELATED ID: 1GWY RELATED DB: PDB REMARK 900 ENTRY CONTAINING COORDINATES OS THE CRYSTAL STRUCTURE OF STNII DBREF 2KS4 A 1 176 UNP P81662 ACTP1_STOHE 1 176 SEQRES 1 A 176 SER GLU LEU ALA GLY THR ILE ILE ASP GLY ALA SER LEU SEQRES 2 A 176 THR PHE GLU VAL LEU ASP LYS VAL LEU GLY GLU LEU GLY SEQRES 3 A 176 LYS VAL SER ARG LYS ILE ALA VAL GLY ILE ASP ASN GLU SEQRES 4 A 176 SER GLY GLY THR TRP THR ALA LEU ASN ALA TYR PHE ARG SEQRES 5 A 176 SER GLY THR THR ASP VAL ILE LEU PRO GLU VAL VAL PRO SEQRES 6 A 176 ASN THR LYS ALA LEU LEU TYR SER GLY ARG LYS SER SER SEQRES 7 A 176 GLY PRO VAL ALA THR GLY ALA VAL ALA ALA PHE ALA TYR SEQRES 8 A 176 TYR MET SER ASN GLY ASN THR LEU GLY VAL MET PHE SER SEQRES 9 A 176 VAL PRO PHE ASP TYR ASN TRP TYR SER ASN TRP TRP ASP SEQRES 10 A 176 VAL LYS ILE TYR PRO GLY LYS ARG ARG ALA ASP GLN GLY SEQRES 11 A 176 MET TYR GLU ASP MET TYR TYR GLY ASN PRO TYR ARG GLY SEQRES 12 A 176 ASP ASN GLY TRP TYR GLN LYS ASN LEU GLY TYR GLY LEU SEQRES 13 A 176 ARG MET LYS GLY ILE MET THR SER ALA GLY GLU ALA LYS SEQRES 14 A 176 MET GLN ILE LYS ILE SER ARG HELIX 1 1 THR A 14 LEU A 25 1 12 HELIX 2 2 ASP A 128 TYR A 137 1 10 SHEET 1 A 5 LYS A 68 ARG A 75 0 SHEET 2 A 5 LYS A 31 ASN A 38 -1 N ILE A 36 O LEU A 70 SHEET 3 A 5 MET A 170 ILE A 174 1 O ILE A 172 N ASP A 37 SHEET 4 A 5 LEU A 156 ILE A 161 -1 N LYS A 159 O LYS A 173 SHEET 5 A 5 ASN A 151 LEU A 152 -1 N LEU A 152 O LEU A 156 SHEET 1 B 5 VAL A 63 VAL A 64 0 SHEET 2 B 5 TRP A 44 TYR A 50 -1 N TRP A 44 O VAL A 64 SHEET 3 B 5 ALA A 85 MET A 93 -1 O ALA A 88 N TYR A 50 SHEET 4 B 5 ASN A 97 VAL A 105 -1 O VAL A 105 N ALA A 85 SHEET 5 B 5 ASP A 117 TYR A 121 -1 O LYS A 119 N GLY A 100 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