HEADER HYDROLASE 26-JUL-07 2JTC TITLE 3D STRUCTURE AND BACKBONE DYNAMICS OF SPE B COMPND MOL_ID: 1; COMPND 2 MOLECULE: STREPTOPAIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: STREPTOCOCCAL CYSTEINE PROTEINASE, STREPTOCOCCUS PEPTIDASE COMPND 5 A, SPP, EXOTOXIN TYPE B, SPE B; COMPND 6 EC: 3.4.22.10; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PYOGENES SEROTYPE M1; SOURCE 3 ORGANISM_TAXID: 301447; SOURCE 4 STRAIN: A-20 (M1T1); SOURCE 5 GENE: SPEB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET21A KEYWDS DYNAMICS, LOOP MOVEMENT, STREPTOPAIN, HYDROLASE, PROTEASE, SECRETED, KEYWDS 2 THIOL PROTEASE, TOXIN, VIRULENCE, ZYMOGEN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR W.CHUANG,C.WANG,H.HOUNG,C.CHEN,P.WANG REVDAT 5 29-MAY-24 2JTC 1 REMARK REVDAT 4 20-OCT-21 2JTC 1 REMARK SEQADV REVDAT 3 21-JUL-09 2JTC 1 JRNL REVDAT 2 24-FEB-09 2JTC 1 VERSN REVDAT 1 26-AUG-08 2JTC 0 JRNL AUTH C.C.WANG,H.C.HOUNG,C.L.CHEN,P.J.WANG,C.F.KUO,Y.S.LIN,J.J.WU, JRNL AUTH 2 M.T.LIN,C.C.LIU,W.HUANG,W.J.CHUANG JRNL TITL SOLUTION STRUCTURE AND BACKBONE DYNAMICS OF STREPTOPAIN: JRNL TITL 2 INSIGHT INTO DIVERSE SUBSTRATE SPECIFICITY. JRNL REF J.BIOL.CHEM. V. 284 10957 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19237546 JRNL DOI 10.1074/JBC.M807624200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.185 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2JTC COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-NOV-07. REMARK 100 THE DEPOSITION ID IS D_1000100264. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : AMBIENT ATM REMARK 210 SAMPLE CONTENTS : 2 MM [U-100% 15N] C47S, 50 MM REMARK 210 PHOSPHATE BUFFER, 90% H2O/10% REMARK 210 D2O; 2 MM [U-100% 15N] 28 KDA REMARK 210 C192S MUTANT, 50 MM PHOSPHATE REMARK 210 BUFFER, 100% D2O; 2 MM [U-99% REMARK 210 13C; U-99% 15N; 70% 2H] 28 KDA REMARK 210 C192S MUTANT, 50 MM PHOSPHATE REMARK 210 BUFFER, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-1H TOCSY; REMARK 210 2D 1H-1H NOESY; 3D HNCO; 3D HNCA; REMARK 210 3D HN(CO)CA; 3D HNCACB; 3D REMARK 210 CBCA(CO)HN; 15N-EDITED TOCSY; REMARK 210 15N-EDITED NOESY; 3D HCCH-TOCSY; REMARK 210 3D 1H-13C NOESY; 3D HCCH-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.6, AURELIA 3.1.7 REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 5 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 H LEU A 7 O ASP A 200 1.45 REMARK 500 O LEU A 119 H VAL A 123 1.50 REMARK 500 O GLY A 139 H VAL A 143 1.51 REMARK 500 O ASP A 175 H SER A 179 1.52 REMARK 500 O VAL A 143 H LEU A 147 1.53 REMARK 500 H HIS A 14 O PRO A 102 1.54 REMARK 500 O ASN A 110 H MET A 114 1.54 REMARK 500 H LYS A 30 O TYR A 79 1.55 REMARK 500 O GLU A 118 H ASP A 122 1.56 REMARK 500 O VAL A 4 H ALA A 202 1.57 REMARK 500 O ARG A 142 H ALA A 146 1.58 REMARK 500 O SER A 47 H ALA A 51 1.58 REMARK 500 O SER A 156 HD1 HIS A 158 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 1 TYR A 69 CB - CG - CD1 ANGL. DEV. = -3.9 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 ASN A 19 -140.75 -45.13 REMARK 500 1 TYR A 61 -74.34 -70.02 REMARK 500 1 ASN A 81 -82.88 -48.70 REMARK 500 1 HIS A 82 -48.58 175.12 REMARK 500 1 ALA A 89 45.86 -77.70 REMARK 500 1 SER A 137 -168.16 -117.23 REMARK 500 1 ASP A 200 33.64 -140.28 REMARK 500 1 ASN A 206 28.66 39.33 REMARK 500 1 ASN A 211 78.35 -110.60 REMARK 500 1 TRP A 212 167.77 -46.75 REMARK 500 1 TRP A 214 -169.81 -119.18 REMARK 500 1 VAL A 217 -101.45 -95.12 REMARK 500 1 LEU A 227 48.93 -91.77 REMARK 500 1 THR A 234 -86.99 -103.14 REMARK 500 2 ASN A 19 -123.72 -44.78 REMARK 500 2 TYR A 61 -74.54 -79.82 REMARK 500 2 LEU A 73 150.13 -44.94 REMARK 500 2 ASN A 81 -80.09 -48.19 REMARK 500 2 HIS A 82 -47.56 175.04 REMARK 500 2 ASP A 128 50.76 36.94 REMARK 500 2 SER A 137 -162.75 -116.43 REMARK 500 2 GLN A 180 30.76 -95.83 REMARK 500 2 PHE A 197 -159.91 -156.89 REMARK 500 2 ARG A 205 35.37 -88.73 REMARK 500 2 ASN A 206 31.67 70.43 REMARK 500 2 TRP A 214 -169.61 -107.19 REMARK 500 2 VAL A 217 -92.82 -101.20 REMARK 500 2 ASP A 225 -77.68 -95.57 REMARK 500 2 ALA A 226 -92.91 -122.88 REMARK 500 2 LEU A 232 34.15 -90.34 REMARK 500 2 ILE A 251 74.10 -100.32 REMARK 500 3 ASN A 19 -142.50 -45.01 REMARK 500 3 TYR A 61 -77.56 -84.98 REMARK 500 3 ASN A 81 -81.41 -48.22 REMARK 500 3 HIS A 82 -45.75 174.76 REMARK 500 3 ASP A 128 53.69 38.60 REMARK 500 3 SER A 137 -164.63 -120.00 REMARK 500 3 TRP A 212 178.16 -49.00 REMARK 500 3 TRP A 214 -167.06 -109.52 REMARK 500 3 SER A 218 93.05 -41.51 REMARK 500 3 ASP A 219 -77.00 -98.70 REMARK 500 3 ALA A 231 45.57 -93.26 REMARK 500 3 ASN A 242 70.59 -108.35 REMARK 500 4 LYS A 5 -169.28 -74.82 REMARK 500 4 ASN A 19 -140.17 -45.77 REMARK 500 4 GLN A 36 -175.40 -67.30 REMARK 500 4 TYR A 61 -73.88 -83.91 REMARK 500 4 ASN A 81 -81.50 -46.99 REMARK 500 4 HIS A 82 -47.48 174.95 REMARK 500 4 ASP A 128 50.19 37.10 REMARK 500 REMARK 500 THIS ENTRY HAS 319 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 ARG A 107 0.30 SIDE CHAIN REMARK 500 1 ARG A 142 0.26 SIDE CHAIN REMARK 500 1 ARG A 145 0.15 SIDE CHAIN REMARK 500 1 ARG A 205 0.22 SIDE CHAIN REMARK 500 1 ARG A 223 0.32 SIDE CHAIN REMARK 500 2 ARG A 93 0.08 SIDE CHAIN REMARK 500 2 ARG A 107 0.22 SIDE CHAIN REMARK 500 2 ARG A 142 0.17 SIDE CHAIN REMARK 500 2 ARG A 145 0.22 SIDE CHAIN REMARK 500 2 ARG A 162 0.30 SIDE CHAIN REMARK 500 2 ARG A 205 0.31 SIDE CHAIN REMARK 500 2 ARG A 223 0.26 SIDE CHAIN REMARK 500 3 ARG A 93 0.15 SIDE CHAIN REMARK 500 3 ARG A 107 0.13 SIDE CHAIN REMARK 500 3 ARG A 142 0.29 SIDE CHAIN REMARK 500 3 ARG A 145 0.23 SIDE CHAIN REMARK 500 3 ARG A 162 0.27 SIDE CHAIN REMARK 500 3 ARG A 205 0.18 SIDE CHAIN REMARK 500 3 ARG A 223 0.24 SIDE CHAIN REMARK 500 4 ARG A 107 0.29 SIDE CHAIN REMARK 500 4 ARG A 142 0.20 SIDE CHAIN REMARK 500 4 ARG A 145 0.32 SIDE CHAIN REMARK 500 4 ARG A 162 0.28 SIDE CHAIN REMARK 500 4 ARG A 205 0.11 SIDE CHAIN REMARK 500 4 ARG A 223 0.14 SIDE CHAIN REMARK 500 5 ARG A 107 0.25 SIDE CHAIN REMARK 500 5 ARG A 142 0.26 SIDE CHAIN REMARK 500 5 ARG A 145 0.32 SIDE CHAIN REMARK 500 5 ARG A 162 0.26 SIDE CHAIN REMARK 500 5 ARG A 205 0.31 SIDE CHAIN REMARK 500 5 ARG A 223 0.30 SIDE CHAIN REMARK 500 6 ARG A 93 0.30 SIDE CHAIN REMARK 500 6 ARG A 107 0.25 SIDE CHAIN REMARK 500 6 ARG A 142 0.31 SIDE CHAIN REMARK 500 6 ARG A 145 0.32 SIDE CHAIN REMARK 500 6 ARG A 162 0.09 SIDE CHAIN REMARK 500 6 ARG A 205 0.29 SIDE CHAIN REMARK 500 6 ARG A 223 0.23 SIDE CHAIN REMARK 500 7 ARG A 93 0.22 SIDE CHAIN REMARK 500 7 ARG A 107 0.23 SIDE CHAIN REMARK 500 7 ARG A 142 0.32 SIDE CHAIN REMARK 500 7 ARG A 145 0.26 SIDE CHAIN REMARK 500 7 ARG A 162 0.13 SIDE CHAIN REMARK 500 7 ARG A 205 0.21 SIDE CHAIN REMARK 500 7 ARG A 223 0.13 SIDE CHAIN REMARK 500 8 ARG A 93 0.25 SIDE CHAIN REMARK 500 8 ARG A 107 0.19 SIDE CHAIN REMARK 500 8 ARG A 142 0.21 SIDE CHAIN REMARK 500 8 ARG A 145 0.32 SIDE CHAIN REMARK 500 8 ARG A 162 0.25 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 129 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5547 RELATED DB: BMRB DBREF 2JTC A 1 253 UNP P0C0J1 SPEB_STRP1 146 398 SEQADV 2JTC SER A 47 UNP P0C0J1 CYS 192 ENGINEERED MUTATION SEQRES 1 A 253 GLN PRO VAL VAL LYS SER LEU LEU ASP SER LYS GLY ILE SEQRES 2 A 253 HIS TYR ASN GLN GLY ASN PRO TYR ASN LEU LEU THR PRO SEQRES 3 A 253 VAL ILE GLU LYS VAL LYS PRO GLY GLU GLN SER PHE VAL SEQRES 4 A 253 GLY GLN HIS ALA ALA THR GLY SER VAL ALA THR ALA THR SEQRES 5 A 253 ALA GLN ILE MET LYS TYR HIS ASN TYR PRO ASN LYS GLY SEQRES 6 A 253 LEU LYS ASP TYR THR TYR THR LEU SER SER ASN ASN PRO SEQRES 7 A 253 TYR PHE ASN HIS PRO LYS ASN LEU PHE ALA ALA ILE SER SEQRES 8 A 253 THR ARG GLN TYR ASN TRP ASN ASN ILE LEU PRO THR TYR SEQRES 9 A 253 SER GLY ARG GLU SER ASN VAL GLN LYS MET ALA ILE SER SEQRES 10 A 253 GLU LEU MET ALA ASP VAL GLY ILE SER VAL ASP MET ASP SEQRES 11 A 253 TYR GLY PRO SER SER GLY SER ALA GLY SER SER ARG VAL SEQRES 12 A 253 GLN ARG ALA LEU LYS GLU ASN PHE GLY TYR ASN GLN SER SEQRES 13 A 253 VAL HIS GLN ILE ASN ARG GLY ASP PHE SER LYS GLN ASP SEQRES 14 A 253 TRP GLU ALA GLN ILE ASP LYS GLU LEU SER GLN ASN GLN SEQRES 15 A 253 PRO VAL TYR TYR GLN GLY VAL GLY LYS VAL GLY GLY HIS SEQRES 16 A 253 ALA PHE VAL ILE ASP GLY ALA ASP GLY ARG ASN PHE TYR SEQRES 17 A 253 HIS VAL ASN TRP GLY TRP GLY GLY VAL SER ASP GLY PHE SEQRES 18 A 253 PHE ARG LEU ASP ALA LEU ASN PRO SER ALA LEU GLY THR SEQRES 19 A 253 GLY GLY GLY ALA GLY GLY PHE ASN GLY TYR GLN SER ALA SEQRES 20 A 253 VAL VAL GLY ILE LYS PRO HELIX 1 1 SER A 6 LYS A 11 1 6 HELIX 2 2 ASN A 19 LEU A 23 5 5 HELIX 3 3 GLY A 46 ASN A 60 1 15 HELIX 4 4 ALA A 89 ARG A 93 5 5 HELIX 5 5 SER A 109 VAL A 127 1 19 HELIX 6 6 GLY A 139 ASN A 150 1 12 HELIX 7 7 ASN A 161 PHE A 165 5 5 HELIX 8 8 SER A 166 GLN A 180 1 15 SHEET 1 A 5 VAL A 3 VAL A 4 0 SHEET 2 A 5 GLY A 194 ASP A 203 -1 O ALA A 202 N VAL A 4 SHEET 3 A 5 VAL A 184 VAL A 189 -1 N TYR A 186 O PHE A 197 SHEET 4 A 5 GLN A 245 VAL A 249 -1 O VAL A 248 N TYR A 185 SHEET 5 A 5 HIS A 158 ILE A 160 -1 N ILE A 160 O ALA A 247 SHEET 1 B 4 VAL A 3 VAL A 4 0 SHEET 2 B 4 GLY A 194 ASP A 203 -1 O ALA A 202 N VAL A 4 SHEET 3 B 4 TYR A 208 ASN A 211 -1 O HIS A 209 N ASP A 200 SHEET 4 B 4 GLY A 220 PHE A 221 -1 O GLY A 220 N VAL A 210 SHEET 1 C 2 TYR A 69 THR A 72 0 SHEET 2 C 2 ASN A 85 ALA A 88 -1 O LEU A 86 N TYR A 71 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