HEADER TOXIN 09-JUN-10 3NEQ TITLE CRYSTAL STRUCTURE OF THE CHIMERIC MUSCARINIC TOXIN MT7 WITH LOOP 3 TITLE 2 FROM MT1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: THREE-FINGER MUSCARINIC TOXIN 7; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MT7,MUSCARINIC M1-TOXIN 1,MTX1,MT7,MUSCARINIC M1-TOXIN 1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: DENDROASPIS ANGUSTICEPS; SOURCE 4 ORGANISM_COMMON: EASTERN GREEN MAMBA; SOURCE 5 ORGANISM_TAXID: 8618; SOURCE 6 OTHER_DETAILS: SEQUENCE FROM TWO MUSCARINIC TOXINS WITH DIFFERENT SOURCE 7 SELECTIVITY FOR HM1 KEYWDS CHIMERIC MUSCARINIC TOXIN, HM1-MUSCARINIC RECEPTOR, SNAKE TOXIN, KEYWDS 2 GREEN MAMBA, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR E.A.STURA,D.SERVENT,R.MENEZ,G.MOURNIER,A.MENEZ,C.FRUCHART-GAILLARD REVDAT 5 06-SEP-23 3NEQ 1 REMARK REVDAT 4 31-MAY-17 3NEQ 1 DBREF REVDAT 3 04-JUL-12 3NEQ 1 JRNL REVDAT 2 27-JUN-12 3NEQ 1 JRNL REVDAT 1 24-AUG-11 3NEQ 0 JRNL AUTH C.FRUCHART-GAILLARD,G.MOURIER,G.BLANCHET,L.VERA,N.GILLES, JRNL AUTH 2 R.MENEZ,E.MARCON,E.A.STURA,D.SERVENT JRNL TITL ENGINEERING OF THREE-FINGER FOLD TOXINS CREATES LIGANDS WITH JRNL TITL 2 ORIGINAL PHARMACOLOGICAL PROFILES FOR MUSCARINIC AND JRNL TITL 3 ADRENERGIC RECEPTORS. JRNL REF PLOS ONE V. 7 39166 2012 JRNL REFN ESSN 1932-6203 JRNL PMID 22720062 JRNL DOI 10.1371/JOURNAL.PONE.0039166 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.85 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.470 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 33614 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.148 REMARK 3 R VALUE (WORKING SET) : 0.147 REMARK 3 FREE R VALUE : 0.168 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 1703 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 32.8652 - 2.8612 1.00 2856 138 0.1649 0.1774 REMARK 3 2 2.8612 - 2.2712 1.00 2693 170 0.1632 0.1833 REMARK 3 3 2.2712 - 1.9842 1.00 2693 128 0.1448 0.1637 REMARK 3 4 1.9842 - 1.8028 1.00 2673 141 0.1411 0.1700 REMARK 3 5 1.8028 - 1.6736 1.00 2661 130 0.1127 0.1547 REMARK 3 6 1.6736 - 1.5749 1.00 2620 162 0.1042 0.1198 REMARK 3 7 1.5749 - 1.4960 1.00 2627 147 0.1080 0.1266 REMARK 3 8 1.4960 - 1.4309 1.00 2595 139 0.1102 0.1561 REMARK 3 9 1.4309 - 1.3758 1.00 2631 147 0.1285 0.1585 REMARK 3 10 1.3758 - 1.3283 1.00 2660 127 0.1509 0.1661 REMARK 3 11 1.3283 - 1.2868 1.00 2576 137 0.1767 0.1932 REMARK 3 12 1.2868 - 1.2500 1.00 2626 137 0.2082 0.2267 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.70 REMARK 3 SHRINKAGE RADIUS : 0.38 REMARK 3 K_SOL : 0.45 REMARK 3 B_SOL : 56.83 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 12.010 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 1335 REMARK 3 ANGLE : 1.217 1833 REMARK 3 CHIRALITY : 0.087 189 REMARK 3 PLANARITY : 0.006 244 REMARK 3 DIHEDRAL : 13.948 527 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3NEQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1000059736. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-NOV-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.975598 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33683 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 40.355 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.70 REMARK 200 R MERGE (I) : 0.14500 REMARK 200 R SYM (I) : 0.03900 REMARK 200 FOR THE DATA SET : 12.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.40 REMARK 200 R MERGE FOR SHELL (I) : 0.95000 REMARK 200 R SYM FOR SHELL (I) : 0.25900 REMARK 200 FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2VLW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALLIZATION BY EVAPORATION USING A REMARK 280 SCREW CAP EPPENDORF TUBE AND ALLOWING SLOW LEAKING THROUGH THE REMARK 280 RUBBER SEAL. CRYSTAL STABILIZATION IS 1M AMMONIUM SULFATE, 5% REMARK 280 METHYL PENTANE DIOL BEFORE TRANSFERING TO 80% SATURATED LITHIUM REMARK 280 SULFATE AS CRYOSALT AND FLASH COOLING IN LIQUID ETHANE. PH 5.5, REMARK 280 EVAPORATION, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 12.91000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 40.35450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.28900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 40.35450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 12.91000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.28900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -50.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 12.91000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -28.28900 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 80.70900 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 103 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3FEV RELATED DB: PDB REMARK 900 CHIMERA MT7 TOXIN WITH LOOP 1 FROM MT1 REMARK 900 RELATED ID: 2VLW RELATED DB: PDB REMARK 900 MT7 TOXIN WITH DIIODO TYR 51 REMARK 900 RELATED ID: 1FF4 RELATED DB: PDB REMARK 900 MUSCARINIC TOXIN MT2 DBREF 3NEQ A 1 48 UNP Q8QGR0 3SIM7_DENAN 22 69 DBREF 3NEQ A 49 57 UNP P81030 3SIM1_DENAN 49 57 DBREF 3NEQ A 58 66 UNP Q8QGR0 3SIM7_DENAN 78 86 DBREF 3NEQ B 1 48 UNP Q8QGR0 3SIM7_DENAN 22 69 DBREF 3NEQ B 49 57 UNP P81030 3SIM1_DENAN 49 57 DBREF 3NEQ B 58 66 UNP Q8QGR0 3SIM7_DENAN 78 86 SEQRES 1 A 66 LEU THR CYS VAL LYS SER ASN SER ILE TRP PHE PRO THR SEQRES 2 A 66 SER GLU ASP CYS PRO ASP GLY GLN ASN LEU CYS PHE LYS SEQRES 3 A 66 ARG TRP GLN TYR ILE SER PRO ARG MET TYR ASP PHE THR SEQRES 4 A 66 ARG GLY CYS ALA ALA THR CYS PRO LYS PRO THR ASN VAL SEQRES 5 A 66 ARG GLU THR ILE ARG CYS CYS GLY THR ASP LYS CYS ASN SEQRES 6 A 66 LYS SEQRES 1 B 66 LEU THR CYS VAL LYS SER ASN SER ILE TRP PHE PRO THR SEQRES 2 B 66 SER GLU ASP CYS PRO ASP GLY GLN ASN LEU CYS PHE LYS SEQRES 3 B 66 ARG TRP GLN TYR ILE SER PRO ARG MET TYR ASP PHE THR SEQRES 4 B 66 ARG GLY CYS ALA ALA THR CYS PRO LYS PRO THR ASN VAL SEQRES 5 B 66 ARG GLU THR ILE ARG CYS CYS GLY THR ASP LYS CYS ASN SEQRES 6 B 66 LYS HET SO4 A 102 5 HET SO4 A 104 5 HET SO4 B 101 5 HET SO4 B 103 5 HETNAM SO4 SULFATE ION FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 HOH *305(H2 O) SHEET 1 A 2 THR A 2 LYS A 5 0 SHEET 2 A 2 THR A 13 ASP A 16 -1 O THR A 13 N LYS A 5 SHEET 1 B 3 MET A 35 ALA A 43 0 SHEET 2 B 3 LEU A 23 SER A 32 -1 N ARG A 27 O THR A 39 SHEET 3 B 3 GLU A 54 CYS A 59 -1 O CYS A 59 N CYS A 24 SHEET 1 C 2 THR B 2 ASN B 7 0 SHEET 2 C 2 TRP B 10 ASP B 16 -1 O GLU B 15 N CYS B 3 SHEET 1 D 3 MET B 35 ALA B 43 0 SHEET 2 D 3 LEU B 23 SER B 32 -1 N ARG B 27 O THR B 39 SHEET 3 D 3 GLU B 54 CYS B 59 -1 O CYS B 59 N CYS B 24 SSBOND 1 CYS A 3 CYS A 24 1555 1555 2.03 SSBOND 2 CYS A 17 CYS A 42 1555 1555 2.04 SSBOND 3 CYS A 46 CYS A 58 1555 1555 2.03 SSBOND 4 CYS A 59 CYS A 64 1555 1555 2.01 SSBOND 5 CYS B 3 CYS B 24 1555 1555 2.02 SSBOND 6 CYS B 17 CYS B 42 1555 1555 2.04 SSBOND 7 CYS B 46 CYS B 58 1555 1555 2.03 SSBOND 8 CYS B 59 CYS B 64 1555 1555 2.03 SITE 1 AC1 12 VAL A 52 ARG A 53 HOH A 89 HOH A 110 SITE 2 AC1 12 HOH A 183 HOH A 239 HOH A 252 HOH A 258 SITE 3 AC1 12 ARG B 53 HOH B 179 HOH B 198 HOH B 218 SITE 1 AC2 10 SER A 14 THR A 50 LYS A 63 HOH A 68 SITE 2 AC2 10 HOH A 122 HOH A 160 HOH A 167 HOH A 215 SITE 3 AC2 10 HOH A 223 LYS B 48 SITE 1 AC3 11 ASN B 7 SER B 8 TYR B 36 PHE B 38 SITE 2 AC3 11 THR B 39 HOH B 73 HOH B 79 HOH B 89 SITE 3 AC3 11 HOH B 115 HOH B 163 HOH B 231 SITE 1 AC4 8 TRP A 10 HOH A 139 HOH A 163 LYS B 26 SITE 2 AC4 8 ARG B 57 HOH B 275 HOH B 289 HOH B 300 CRYST1 25.820 56.578 80.709 90.00 90.00 90.00 P 21 21 21 8 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 0.038730 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017675 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012390 0.00000