HEADER BIOSYNTHETIC PROTEIN 19-APR-22 7UQL TITLE PATHOGENESIS RELATED 10-10 APP FROM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PATHOGENESIS RELATED 10-10 PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PAPAVER SOMNIFERUM; SOURCE 3 ORGANISM_TAXID: 3469; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BINDING PROTEIN, ALKALOIDS, OPIUM POPPY, BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.C.CARR,K.K.S.NG REVDAT 2 25-OCT-23 7UQL 1 REMARK REVDAT 1 01-MAR-23 7UQL 0 JRNL AUTH N.OZBER,S.C.CARR,J.S.MORRIS,S.LIANG,J.L.WATKINS,K.M.CALDO, JRNL AUTH 2 J.M.HAGEL,K.K.S.NG,P.J.FACCHINI JRNL TITL ALKALOID BINDING TO OPIUM POPPY MAJOR LATEX PROTEINS JRNL TITL 2 TRIGGERS STRUCTURAL MODIFICATION AND FUNCTIONAL AGGREGATION. JRNL REF NAT COMMUN V. 13 6768 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 36351903 JRNL DOI 10.1038/S41467-022-34313-6 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18.2-3874 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.09 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 27443 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.270 REMARK 3 FREE R VALUE TEST SET COUNT : 1996 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 35.0900 - 4.5700 0.98 1966 153 0.1814 0.2079 REMARK 3 2 4.5700 - 3.6300 1.00 1877 148 0.1775 0.2272 REMARK 3 3 3.6300 - 3.1700 0.99 1841 145 0.2043 0.2094 REMARK 3 4 3.1700 - 2.8800 0.99 1842 144 0.2321 0.2814 REMARK 3 5 2.8800 - 2.6800 0.99 1823 144 0.2400 0.3226 REMARK 3 6 2.6800 - 2.5200 0.99 1819 142 0.2268 0.2488 REMARK 3 7 2.5200 - 2.3900 0.97 1800 141 0.2191 0.2347 REMARK 3 8 2.3900 - 2.2900 0.99 1808 142 0.2275 0.2975 REMARK 3 9 2.2900 - 2.2000 0.99 1767 139 0.2133 0.2799 REMARK 3 10 2.2000 - 2.1200 0.98 1808 143 0.2149 0.2669 REMARK 3 11 2.1200 - 2.0600 0.99 1798 139 0.2424 0.3055 REMARK 3 12 2.0600 - 2.0000 0.98 1771 140 0.2544 0.3421 REMARK 3 13 2.0000 - 1.9500 0.98 1785 139 0.2846 0.3379 REMARK 3 14 1.9500 - 1.9000 0.97 1742 137 0.3149 0.3596 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.222 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.115 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.66 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.010 2289 REMARK 3 ANGLE : 0.947 3102 REMARK 3 CHIRALITY : 0.071 348 REMARK 3 PLANARITY : 0.006 394 REMARK 3 DIHEDRAL : 22.868 818 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 7UQL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-APR-22. REMARK 100 THE DEPOSITION ID IS D_1000264658. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-OCT-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27479 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 38.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 8.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.4200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 6KA3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, BIS-TRIS PH 5.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 35.08750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.27350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.08750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.27350 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1560 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 HIS A 3 REMARK 465 HIS A 4 REMARK 465 GLY A 5 REMARK 465 VAL A 6 REMARK 465 SER A 7 REMARK 465 PRO A 37 REMARK 465 ASN A 38 REMARK 465 VAL A 39 REMARK 465 ILE A 40 REMARK 465 SER A 156 REMARK 465 SER A 157 REMARK 465 ALA A 158 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 HIS B 3 REMARK 465 HIS B 4 REMARK 465 GLY B 5 REMARK 465 VAL B 6 REMARK 465 PRO B 37 REMARK 465 ASN B 38 REMARK 465 VAL B 39 REMARK 465 ILE B 40 REMARK 465 GLN B 48 REMARK 465 VAL B 49 REMARK 465 THR B 50 REMARK 465 LYS B 51 REMARK 465 GLY B 52 REMARK 465 ASP B 53 REMARK 465 GLY B 54 REMARK 465 LEU B 55 REMARK 465 VAL B 56 REMARK 465 SER B 57 REMARK 465 SER B 157 REMARK 465 ALA B 158 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 ASP A 53 24.55 -143.42 REMARK 500 CYS B 59 113.24 -171.83 REMARK 500 REMARK 500 REMARK: NULL DBREF 7UQL A 1 158 PDB 7UQL 7UQL 1 158 DBREF 7UQL B 1 158 PDB 7UQL 7UQL 1 158 SEQRES 1 A 158 MET ALA HIS HIS GLY VAL SER GLY LEU VAL GLY LYS LEU SEQRES 2 A 158 VAL THR GLN LEU GLU VAL ASN CYS ASP ALA ASP ILE PHE SEQRES 3 A 158 TYR LYS ILE VAL LYS HIS HIS GLU GLU VAL PRO ASN VAL SEQRES 4 A 158 ILE PRO HIS PHE PHE THR GLY VAL GLN VAL THR LYS GLY SEQRES 5 A 158 ASP GLY LEU VAL SER GLY CYS ILE LYS GLU TRP ASN TYR SEQRES 6 A 158 VAL LEU GLU GLY LYS ALA MET THR ALA VAL GLU GLU THR SEQRES 7 A 158 THR HIS ALA ASP GLU THR ARG THR LEU THR HIS HIS ILE SEQRES 8 A 158 THR GLU GLY ASP ALA MET LYS ASP TYR LYS LYS PHE ASP SEQRES 9 A 158 VAL ILE VAL GLU THR ASN PRO LYS PRO ASN GLY HIS GLY SEQRES 10 A 158 SER VAL VAL THR TYR SER ILE VAL TYR GLU LYS ILE ASN SEQRES 11 A 158 GLU ASP SER PRO ALA PRO PHE ASP TYR LEU LYS PHE PHE SEQRES 12 A 158 HIS GLN ASN ILE VAL ASP MET SER ALA HIS ILE CYS SER SEQRES 13 A 158 SER ALA SEQRES 1 B 158 MET ALA HIS HIS GLY VAL SER GLY LEU VAL GLY LYS LEU SEQRES 2 B 158 VAL THR GLN LEU GLU VAL ASN CYS ASP ALA ASP ILE PHE SEQRES 3 B 158 TYR LYS ILE VAL LYS HIS HIS GLU GLU VAL PRO ASN VAL SEQRES 4 B 158 ILE PRO HIS PHE PHE THR GLY VAL GLN VAL THR LYS GLY SEQRES 5 B 158 ASP GLY LEU VAL SER GLY CYS ILE LYS GLU TRP ASN TYR SEQRES 6 B 158 VAL LEU GLU GLY LYS ALA MET THR ALA VAL GLU GLU THR SEQRES 7 B 158 THR HIS ALA ASP GLU THR ARG THR LEU THR HIS HIS ILE SEQRES 8 B 158 THR GLU GLY ASP ALA MET LYS ASP TYR LYS LYS PHE ASP SEQRES 9 B 158 VAL ILE VAL GLU THR ASN PRO LYS PRO ASN GLY HIS GLY SEQRES 10 B 158 SER VAL VAL THR TYR SER ILE VAL TYR GLU LYS ILE ASN SEQRES 11 B 158 GLU ASP SER PRO ALA PRO PHE ASP TYR LEU LYS PHE PHE SEQRES 12 B 158 HIS GLN ASN ILE VAL ASP MET SER ALA HIS ILE CYS SER SEQRES 13 B 158 SER ALA FORMUL 3 HOH *115(H2 O) HELIX 1 AA1 ASP A 22 VAL A 36 1 15 HELIX 2 AA2 ALA A 96 LYS A 98 5 3 HELIX 3 AA3 PRO A 136 ILE A 154 1 19 HELIX 4 AA4 ASP B 22 VAL B 36 1 15 HELIX 5 AA5 ALA B 96 LYS B 98 5 3 HELIX 6 AA6 PRO B 136 ALA B 152 1 17 SHEET 1 AA113 VAL A 47 THR A 50 0 SHEET 2 AA113 VAL A 56 LEU A 67 -1 O ILE A 60 N VAL A 47 SHEET 3 AA113 LYS A 70 ALA A 81 -1 O THR A 78 N CYS A 59 SHEET 4 AA113 THR A 86 GLY A 94 -1 O HIS A 90 N GLU A 77 SHEET 5 AA113 TYR A 100 PRO A 111 -1 O VAL A 105 N HIS A 89 SHEET 6 AA113 SER A 118 LYS A 128 -1 O VAL A 119 N ASN A 110 SHEET 7 AA113 VAL A 10 VAL A 19 -1 N LEU A 17 O VAL A 120 SHEET 8 AA113 VAL B 10 VAL B 19 -1 O LYS B 12 N GLN A 16 SHEET 9 AA113 SER B 118 LYS B 128 -1 O SER B 118 N VAL B 19 SHEET 10 AA113 TYR B 100 PRO B 111 -1 N ASN B 110 O VAL B 119 SHEET 11 AA113 THR B 86 GLY B 94 -1 N LEU B 87 O VAL B 107 SHEET 12 AA113 LYS B 70 ALA B 81 -1 N GLU B 77 O HIS B 90 SHEET 13 AA113 CYS B 59 LEU B 67 -1 N TYR B 65 O MET B 72 SSBOND 1 CYS A 155 CYS B 59 1555 3555 2.08 CRYST1 70.175 92.547 52.858 90.00 90.00 90.00 P 21 21 2 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 0.014250 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010805 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018919 0.00000