HEADER TRANSPORT PROTEIN 29-DEC-09 2KS3 OBSLTE 22-SEP-10 2KS3 2L38 TITLE NMR STRUCTURE OF STNII R29Q, A DEFECTIVE LIPID BINDING MUTANT OF TITLE 2 STICHOLYSIN II COMPND MOL_ID: 1; COMPND 2 MOLECULE: STICHOLYSIN-2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: STICHOLYSIN II, STNII, CYTOLYSIN ST II, CYTOLYSIN III, COMPND 5 CYTOTOXIN; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: 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: STCH2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PQE60 KEYWDS CYTOLYSIS, HEMOLYSIS, ION TRANSPORT, MEMBRANE, NEMATOCYST, PORIN, KEYWDS 2 SECRETED, TOXIN, TRANSMEMBRANE, TRANSPORT, TRANSPORT PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR I.CASTRILLO,M.BRUIX,J.SANTORO REVDAT 2 22-SEP-10 2KS3 1 OBSLTE REVDAT 1 01-SEP-10 2KS3 0 JRNL AUTH I.CASTRILLO,J.ALEGRE-CEBOLLADA,A.MARTINEZ-DEL-POZO, JRNL AUTH 2 J.G.GAVILANES,M.BRUIX JRNL TITL (1)H, (13)C, AND (15)N NMR ASSIGNMENTS OF STNII-R29Q, A JRNL TITL 2 DEFECTIVE LIPID BINDING MUTANT OF THE SEA ANEMONE JRNL TITL 3 ACTINOPORIN STICHOLYSIN II. JRNL REF BIOMOL.NMR ASSIGN. V. 3 239 2009 JRNL REFN ISSN 1874-2718 JRNL PMID 19768581 JRNL DOI 10.1007/S12104-009-9184-2 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM, III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLM REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KS3 COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JAN-10. REMARK 100 THE RCSB ID CODE IS RCSB101504. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 4 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-13C]; [U-15N] R29Q REMARK 210 STNII, 90% H2O/10% D2O; 0.5 MM REMARK 210 R29Q STNII, 100% 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 1H-15N NOESY; 3D 1H-13C NOESY; REMARK 210 2D 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, CYANA REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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 LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 16 ALA A 126 N ALA A 126 CA -0.123 REMARK 500 16 GLY A 159 CA GLY A 159 C 0.104 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 5 ARG A 51 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 6 ARG A 124 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 11 ARG A 156 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 13 ARG A 124 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 20 TYR A 136 CB - CG - CD1 ANGL. DEV. = -5.0 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 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 ILE A 7 -165.88 -72.51 REMARK 500 1 THR A 54 97.02 -30.19 REMARK 500 1 GLU A 61 -77.86 -85.20 REMARK 500 1 PRO A 64 -151.69 -70.11 REMARK 500 1 THR A 66 18.24 -141.61 REMARK 500 1 THR A 77 12.11 -141.00 REMARK 500 1 VAL A 80 -91.22 43.18 REMARK 500 1 SER A 103 119.85 -167.20 REMARK 500 1 ASP A 107 104.91 48.46 REMARK 500 1 TYR A 108 -1.01 -57.25 REMARK 500 1 TYR A 120 99.25 -67.03 REMARK 500 1 SER A 121 87.15 -66.10 REMARK 500 1 ASN A 138 73.38 -157.46 REMARK 500 1 ASN A 144 80.22 54.92 REMARK 500 2 ILE A 7 -173.61 -66.67 REMARK 500 2 GLU A 38 45.15 -143.15 REMARK 500 2 LEU A 46 -67.80 -128.79 REMARK 500 2 THR A 54 -103.82 -65.94 REMARK 500 2 ASP A 56 -4.02 -148.75 REMARK 500 2 GLU A 61 -76.75 -83.07 REMARK 500 2 LYS A 75 56.76 -64.54 REMARK 500 2 SER A 112 75.42 78.74 REMARK 500 2 ASP A 116 138.60 164.26 REMARK 500 2 SER A 121 90.20 -67.01 REMARK 500 2 ASN A 138 79.00 -162.77 REMARK 500 2 ASN A 144 95.03 63.04 REMARK 500 2 SER A 163 -112.46 -140.46 REMARK 500 2 ALA A 164 13.48 52.38 REMARK 500 3 LEU A 2 -83.88 -106.96 REMARK 500 3 SER A 28 82.33 -63.09 REMARK 500 3 GLN A 29 -179.74 56.98 REMARK 500 3 GLU A 38 14.90 -150.03 REMARK 500 3 SER A 52 -155.23 -80.23 REMARK 500 3 ASP A 56 -29.03 -141.81 REMARK 500 3 PRO A 64 -164.29 -67.26 REMARK 500 3 THR A 77 11.80 -155.64 REMARK 500 3 VAL A 80 67.01 23.47 REMARK 500 3 ALA A 81 -44.04 -174.58 REMARK 500 3 ASP A 107 110.38 64.19 REMARK 500 3 TRP A 110 -43.15 -159.15 REMARK 500 3 ASP A 116 133.34 154.96 REMARK 500 3 TYR A 120 99.94 -63.19 REMARK 500 3 SER A 121 84.97 -68.22 REMARK 500 3 ASN A 138 73.63 -166.58 REMARK 500 3 ASN A 144 88.08 179.37 REMARK 500 3 ALA A 164 128.50 67.17 REMARK 500 4 ILE A 7 -169.23 -69.10 REMARK 500 4 GLU A 38 44.41 -143.14 REMARK 500 4 THR A 54 -105.68 -165.04 REMARK 500 4 ASP A 56 -38.88 -154.67 REMARK 500 REMARK 500 THIS ENTRY HAS 304 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 2 PHE A 102 0.09 SIDE CHAIN REMARK 500 3 PHE A 102 0.08 SIDE CHAIN REMARK 500 3 TYR A 153 0.09 SIDE CHAIN REMARK 500 4 TYR A 153 0.08 SIDE CHAIN REMARK 500 5 TYR A 135 0.07 SIDE CHAIN REMARK 500 5 TYR A 153 0.06 SIDE CHAIN REMARK 500 7 PHE A 102 0.09 SIDE CHAIN REMARK 500 8 PHE A 102 0.09 SIDE CHAIN REMARK 500 10 ARG A 74 0.10 SIDE CHAIN REMARK 500 10 TYR A 90 0.07 SIDE CHAIN REMARK 500 11 PHE A 102 0.08 SIDE CHAIN REMARK 500 12 TYR A 49 0.07 SIDE CHAIN REMARK 500 12 PHE A 102 0.08 SIDE CHAIN REMARK 500 12 TYR A 153 0.07 SIDE CHAIN REMARK 500 13 TYR A 140 0.09 SIDE CHAIN REMARK 500 14 TYR A 135 0.08 SIDE CHAIN REMARK 500 15 TYR A 135 0.07 SIDE CHAIN REMARK 500 18 TYR A 120 0.07 SIDE CHAIN REMARK 500 19 TYR A 153 0.11 SIDE CHAIN REMARK 500 20 PHE A 102 0.09 SIDE CHAIN REMARK 500 20 TYR A 120 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 15927 RELATED DB: BMRB REMARK 900 1H, 13C AND 15N NMR RESONANCE ASSIGNMENTS OF THE REMARK 900 ACTINOPORIN STICHOLYSIN I REMARK 900 RELATED ID: 2KS4 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 REMARK 900 EQTII REMARK 900 RELATED ID: 1GWY RELATED DB: PDB REMARK 900 ENTRY CONTAINING COORDINATES OS THE CRYSTAL STRUCTURE OF REMARK 900 STNII DBREF 2KS3 A 1 175 UNP P07845 ACTP2_STOHE 1 175 SEQADV 2KS3 GLN A 29 UNP P07845 ARG 29 ENGINEERED SEQRES 1 A 175 ALA LEU ALA GLY THR ILE ILE ALA GLY ALA SER LEU THR SEQRES 2 A 175 PHE GLN VAL LEU ASP LYS VAL LEU GLU GLU LEU GLY LYS SEQRES 3 A 175 VAL SER GLN LYS ILE ALA VAL GLY ILE ASP ASN GLU SER SEQRES 4 A 175 GLY GLY THR TRP THR ALA LEU ASN ALA TYR PHE ARG SER SEQRES 5 A 175 GLY THR THR ASP VAL ILE LEU PRO GLU PHE VAL PRO ASN SEQRES 6 A 175 THR LYS ALA LEU LEU TYR SER GLY ARG LYS ASP THR GLY SEQRES 7 A 175 PRO VAL ALA THR GLY ALA VAL ALA ALA PHE ALA TYR TYR SEQRES 8 A 175 MET SER SER GLY ASN THR LEU GLY VAL MET PHE SER VAL SEQRES 9 A 175 PRO PHE ASP TYR ASN TRP TYR SER ASN TRP TRP ASP VAL SEQRES 10 A 175 LYS ILE TYR SER GLY LYS ARG ARG ALA ASP GLN GLY MET SEQRES 11 A 175 TYR GLU ASP LEU TYR TYR GLY ASN PRO TYR ARG GLY ASP SEQRES 12 A 175 ASN GLY TRP HIS GLU LYS ASN LEU GLY TYR GLY LEU ARG SEQRES 13 A 175 MET LYS GLY ILE MET THR SER ALA GLY GLU ALA LYS MET SEQRES 14 A 175 GLN ILE LYS ILE SER ARG HELIX 1 1 THR A 13 GLU A 23 1 11 HELIX 2 2 ASP A 127 TYR A 136 1 10 SHEET 1 A 5 LYS A 67 ALA A 68 0 SHEET 2 A 5 ILE A 35 ASN A 37 -1 N ASN A 37 O LYS A 67 SHEET 3 A 5 GLN A 170 SER A 174 1 O ILE A 173 N ASP A 36 SHEET 4 A 5 ARG A 156 MET A 161 -1 N LYS A 158 O LYS A 172 SHEET 5 A 5 GLY A 145 LYS A 149 -1 N HIS A 147 O GLY A 159 SHEET 1 B 5 PHE A 62 VAL A 63 0 SHEET 2 B 5 TRP A 43 SER A 52 -1 N TRP A 43 O VAL A 63 SHEET 3 B 5 VAL A 85 MET A 92 -1 O TYR A 91 N THR A 44 SHEET 4 B 5 ASN A 96 GLY A 99 -1 O ASN A 96 N MET A 92 SHEET 5 B 5 LYS A 118 TYR A 120 -1 O LYS A 118 N GLY A 99 SHEET 1 C 2 TRP A 114 TRP A 115 0 SHEET 2 C 2 TYR A 140 ARG A 141 -1 O TYR A 140 N TRP A 115 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