HEADER TOXIN 27-SEP-22 8B6U TITLE MPF2BA1 MONOMER COMPND MOL_ID: 1; COMPND 2 MOLECULE: MPF2BA1; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS MONTEILII; SOURCE 3 ORGANISM_TAXID: 76759 KEYWDS MONOMER, PORE-FORMING PROTEIN, MACPF, INSECTICIDAL, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR G.MARINI,B.POLAND,C.LEININGER,N.LUKOYANOVA,D.SPIELBAUER,J.BARRY, AUTHOR 2 D.ALTIER,A.LUM,E.SCOLARO,C.PEREZ-ORTEGA,N.YALPANI,G.SANDAHL,T.MABRY, AUTHOR 3 J.KLEVER,T.NOWATZKI,J.Z.ZHAO,A.SETHI,A.KASSA,V.CRANE,A.LU, AUTHOR 4 M.E.NELSON,N.ESWAR,M.TOPF,H.R.SAIBIL REVDAT 3 07-FEB-24 8B6U 1 REMARK REVDAT 2 26-JUL-23 8B6U 1 JRNL REVDAT 1 31-MAY-23 8B6U 0 JRNL AUTH G.MARINI,B.POLAND,C.LEININGER,N.LUKOYANOVA,D.SPIELBAUER, JRNL AUTH 2 J.K.BARRY,D.ALTIER,A.LUM,E.SCOLARO,C.P.ORTEGA,N.YALPANI, JRNL AUTH 3 G.SANDAHL,T.MABRY,J.KLEVER,T.NOWATZKI,J.Z.ZHAO,A.SETHI, JRNL AUTH 4 A.KASSA,V.CRANE,A.L.LU,M.E.NELSON,N.ESWAR,M.TOPF,H.R.SAIBIL JRNL TITL STRUCTURAL JOURNEY OF AN INSECTICIDAL PROTEIN AGAINST JRNL TITL 2 WESTERN CORN ROOTWORM. JRNL REF NAT COMMUN V. 14 4171 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 37443175 JRNL DOI 10.1038/S41467-023-39891-7 REMARK 2 REMARK 2 RESOLUTION. 2.13 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0352 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.13 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 57.13 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 53424 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.870 REMARK 3 FREE R VALUE TEST SET COUNT : 2602 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.13 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.19 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3720 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.62 REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE SET COUNT : 193 REMARK 3 BIN FREE R VALUE : 0.2930 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3730 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 184 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02900 REMARK 3 B22 (A**2) : 0.02900 REMARK 3 B33 (A**2) : -0.05800 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.152 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.146 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.113 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.555 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3815 ; 0.010 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 3385 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5177 ; 1.860 ; 1.640 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7899 ; 0.658 ; 1.559 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 480 ; 9.406 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 20 ; 9.948 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 610 ;18.175 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 563 ; 0.093 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4416 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 780 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 679 ; 0.219 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 100 ; 0.202 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1856 ; 0.182 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 187 ; 0.162 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1923 ; 3.116 ; 3.186 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1922 ; 3.110 ; 3.184 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2402 ; 4.414 ; 4.765 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2403 ; 4.415 ; 4.766 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1892 ; 3.921 ; 3.492 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1893 ; 3.920 ; 3.493 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2775 ; 5.678 ; 5.096 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2776 ; 5.677 ; 5.096 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 8B6U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-SEP-22. REMARK 100 THE DEPOSITION ID IS D_1292125446. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54187 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53473 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.130 REMARK 200 RESOLUTION RANGE LOW (A) : 71.250 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.10400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.13 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.70700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: 2QP2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M MGCL2 HEXAHYDRATE 0.1M HEPES REMARK 280 PH=7.5 30% PEG 400, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 58.06000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 63.80000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 63.80000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 29.03000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 63.80000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 63.80000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 87.09000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 63.80000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.80000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 29.03000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 63.80000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.80000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 87.09000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 58.06000 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: 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 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 0 REMARK 465 GLU A 1 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 482 CB CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 HE21 GLN A 56 H PHE A 58 1.14 REMARK 500 H ASN A 116 HG SER A 329 1.25 REMARK 500 HD21 ASN A 440 H GLY A 481 1.27 REMARK 500 H ASP A 263 HG SER A 284 1.30 REMARK 500 O PHE A 117 HA PHE A 118 1.33 REMARK 500 HB2 ARG A 387 O PRO A 388 1.56 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 HIS A 16 CB - CA - C ANGL. DEV. = 12.2 DEGREES REMARK 500 ASN A 51 CB - CA - C ANGL. DEV. = 15.4 DEGREES REMARK 500 PHE A 117 O - C - N ANGL. DEV. = -12.1 DEGREES REMARK 500 PHE A 118 C - N - CA ANGL. DEV. = -22.6 DEGREES REMARK 500 ARG A 159 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 317 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 GLY A 357 C - N - CA ANGL. DEV. = -13.4 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 HIS A 16 43.87 -103.92 REMARK 500 ASN A 85 86.25 -152.52 REMARK 500 ILE A 298 58.37 -143.19 REMARK 500 VAL A 323 -64.17 -125.56 REMARK 500 ALA A 385 8.69 -63.71 REMARK 500 PRO A 388 -119.55 -81.65 REMARK 500 ASN A 400 -102.97 54.75 REMARK 500 THR A 404 122.08 -38.77 REMARK 500 ALA A 469 -167.61 -75.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 53 ALA A 54 -137.49 REMARK 500 SER A 272 GLY A 273 -64.71 REMARK 500 GLY A 273 LYS A 274 148.88 REMARK 500 PRO A 406 GLY A 407 -51.66 REMARK 500 LYS A 417 GLY A 418 -44.34 REMARK 500 ASN A 472 PHE A 473 149.64 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 ARG A 183 0.08 SIDE CHAIN REMARK 500 ARG A 317 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 365 O REMARK 620 2 ASN A 366 OD1 83.7 REMARK 620 3 LEU A 415 O 92.2 83.0 REMARK 620 4 ASN A 416 OD1 169.9 94.0 97.3 REMARK 620 5 LEU A 465 O 96.2 172.3 89.2 87.4 REMARK 620 6 ASN A 466 OD1 84.0 93.9 175.4 86.3 93.8 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-15882 RELATED DB: EMDB REMARK 900 MPF2BA1 PRE-PORE REMARK 900 RELATED ID: EMD-15883 RELATED DB: EMDB REMARK 900 MPF2BA1 PORE DBREF1 8B6U A 0 482 UNP A0A4Y8SM08_9PSED DBREF2 8B6U A A0A4Y8SM08 22 504 SEQADV 8B6U LEU A 79 UNP A0A4Y8SM0 ILE 101 CONFLICT SEQADV 8B6U PHE A 90 UNP A0A4Y8SM0 TYR 112 CONFLICT SEQADV 8B6U LEU A 98 UNP A0A4Y8SM0 ILE 120 CONFLICT SEQADV 8B6U SER A 309 UNP A0A4Y8SM0 ASN 331 CONFLICT SEQADV 8B6U PHE A 320 UNP A0A4Y8SM0 TYR 342 CONFLICT SEQADV 8B6U PHE A 332 UNP A0A4Y8SM0 TYR 354 CONFLICT SEQADV 8B6U PHE A 338 UNP A0A4Y8SM0 TYR 360 CONFLICT SEQADV 8B6U LEU A 345 UNP A0A4Y8SM0 ILE 367 CONFLICT SEQADV 8B6U PHE A 433 UNP A0A4Y8SM0 TYR 455 CONFLICT SEQADV 8B6U LEU A 452 UNP A0A4Y8SM0 ILE 474 CONFLICT SEQRES 1 A 483 MET GLU ASN ILE ASP LEU PRO GLN GLY LEU VAL ASN PHE SEQRES 2 A 483 SER THR GLN HIS LEU GLN LEU ILE ARG PHE LYS ALA GLY SEQRES 3 A 483 LEU ASN GLU THR VAL LEU PRO GLY VAL GLU ALA ILE GLY SEQRES 4 A 483 LEU GLY TYR ASN PRO PHE ILE SER TYR ALA SER VAL ASN SEQRES 5 A 483 SER GLY ALA VAL GLN LEU PHE ASP TRP ALA THR ALA LYS SEQRES 6 A 483 LYS ARG GLU VAL PRO PHE LYS ALA GLY TYR PHE VAL PRO SEQRES 7 A 483 GLU LEU VAL ASP VAL GLN GLN ASN ASP SER ALA THR PHE SEQRES 8 A 483 THR ASN VAL SER GLY ASN THR LEU SER GLU TYR GLN ARG SEQRES 9 A 483 SER LEU ALA THR SER VAL ALA ILE GLU GLY ARG TYR ASN SEQRES 10 A 483 PHE PHE SER GLY SER LEU SER THR ASP PHE ASP SER ASN SEQRES 11 A 483 SER LEU ARG ASN ALA GLU ASN GLU PHE THR ARG ILE GLN SEQRES 12 A 483 GLN SER ILE ASN LEU TRP SER LEU ARG LEU PRO SER VAL SEQRES 13 A 483 LYS SER LEU ARG GLU LEU MET LEU PRO HIS MET ARG GLN SEQRES 14 A 483 GLN LEU ASP GLU LEU ASN VAL ASN ASP PRO LYS ALA ILE SEQRES 15 A 483 SER ARG TYR PHE ASP ARG VAL GLY SER HIS PHE LEU THR SEQRES 16 A 483 GLY ILE VAL MET GLY GLY ARG ALA ILE LEU ALA SER SER SEQRES 17 A 483 THR ASN LYS LEU ARG VAL LYS ARG ASP TYR SER VAL SER SEQRES 18 A 483 VAL VAL ALA LYS ALA SER TYR GLU GLY LEU THR GLY GLN SEQRES 19 A 483 LEU SER ALA GLU ALA LYS ALA LYS TYR GLY GLU SER ILE SEQRES 20 A 483 SER SER PHE THR GLN TYR SER ASN THR HIS GLN GLU VAL SEQRES 21 A 483 ARG GLY GLY ASP GLY ALA LYS ALA HIS GLY VAL PHE SER SEQRES 22 A 483 GLY LYS LYS GLU ASP PHE GLN ALA TRP VAL ASP SER VAL SEQRES 23 A 483 SER ALA SER PRO ASP PHE VAL ASP PHE VAL PRO THR ILE SEQRES 24 A 483 PRO MET GLN GLU ILE TRP THR LEU CYS SER SER GLU ALA SEQRES 25 A 483 GLN ALA GLU ALA MET ARG LYS HIS PHE ASP ASP VAL TRP SEQRES 26 A 483 ALA PRO ALA GLN SER GLU LYS PHE ARG VAL LYS ALA ASN SEQRES 27 A 483 PHE ILE ASP GLN LEU VAL VAL LEU THR GLY GLY SER SER SEQRES 28 A 483 THR ILE GLU PRO PRO VAL GLY TYR SER LYS ILE GLU TYR SEQRES 29 A 483 ASP LEU ASN ALA GLY ALA GLY GLY ASP PHE ILE TYR LEU SEQRES 30 A 483 CYS TYR HIS GLU GLN THR TRP GLN ALA ASP ARG PRO LYS SEQRES 31 A 483 ASP ALA VAL THR ASP ILE ARG ILE ILE PHE ASN LYS GLU SEQRES 32 A 483 PRO THR PRO PRO GLY TYR THR LYS LEU PRO GLN ASP LEU SEQRES 33 A 483 ASN LYS GLY ALA GLY GLY ASP ASP VAL PHE LEU CYS TYR SEQRES 34 A 483 LYS THR GLU ALA PHE ASN THR ASP THR ALA ILE ASN LYS SEQRES 35 A 483 VAL THR VAL ILE GLY GLY ASN ASN ALA ASP LEU ASN ALA SEQRES 36 A 483 PRO TYR GLY TYR LEU LYS VAL PRO GLY ASP LEU ASN ARG SEQRES 37 A 483 GLY ALA GLY GLY ASN PHE ILE TYR ALA CYS THR PHE VAL SEQRES 38 A 483 GLY LYS HET MG A 501 1 HETNAM MG MAGNESIUM ION FORMUL 2 MG MG 2+ FORMUL 3 HOH *184(H2 O) HELIX 1 AA1 HIS A 16 GLY A 25 1 10 HELIX 2 AA2 THR A 97 THR A 107 1 11 HELIX 3 AA3 PHE A 118 GLY A 120 5 3 HELIX 4 AA4 SER A 121 PHE A 126 1 6 HELIX 5 AA5 ASP A 127 ARG A 132 1 6 HELIX 6 AA6 SER A 157 MET A 162 5 6 HELIX 7 AA7 LEU A 163 LEU A 173 1 11 HELIX 8 AA8 ASP A 177 VAL A 188 1 12 HELIX 9 AA9 SER A 218 THR A 231 1 14 HELIX 10 AB1 SER A 235 TYR A 252 1 18 HELIX 11 AB2 ASP A 263 HIS A 268 1 6 HELIX 12 AB3 LYS A 274 SER A 286 1 13 HELIX 13 AB4 TRP A 304 CYS A 307 5 4 HELIX 14 AB5 SER A 309 VAL A 323 1 15 HELIX 15 AB6 VAL A 323 LYS A 331 1 9 SHEET 1 AA1 5 VAL A 10 SER A 13 0 SHEET 2 AA1 5 SER A 253 ARG A 260 1 O VAL A 259 N ASN A 11 SHEET 3 AA1 5 GLY A 195 ASN A 209 -1 N ILE A 203 O GLU A 258 SHEET 4 AA1 5 ASN A 136 ARG A 151 -1 N ILE A 145 O GLY A 200 SHEET 5 AA1 5 ASP A 81 GLY A 95 -1 N ASP A 81 O ARG A 151 SHEET 1 AA2 4 VAL A 10 SER A 13 0 SHEET 2 AA2 4 SER A 253 ARG A 260 1 O VAL A 259 N ASN A 11 SHEET 3 AA2 4 GLY A 195 ASN A 209 -1 N ILE A 203 O GLU A 258 SHEET 4 AA2 4 ASP A 290 PHE A 294 -1 O ASP A 293 N VAL A 197 SHEET 1 AA3 3 GLY A 40 TYR A 41 0 SHEET 2 AA3 3 HIS A 191 LEU A 193 -1 O HIS A 191 N TYR A 41 SHEET 3 AA3 3 MET A 300 GLU A 302 -1 O GLN A 301 N PHE A 192 SHEET 1 AA4 2 LYS A 65 VAL A 68 0 SHEET 2 AA4 2 LYS A 71 PRO A 77 -1 O TYR A 74 N VAL A 68 SHEET 1 AA5 3 PHE A 338 GLY A 347 0 SHEET 2 AA5 3 PHE A 373 GLN A 381 -1 O GLN A 381 N PHE A 338 SHEET 3 AA5 3 TYR A 358 LYS A 360 -1 N SER A 359 O TYR A 378 SHEET 1 AA6 3 ASP A 390 PHE A 399 0 SHEET 2 AA6 3 VAL A 424 ALA A 432 -1 O PHE A 425 N ILE A 398 SHEET 3 AA6 3 THR A 409 LYS A 410 -1 N THR A 409 O TYR A 428 SHEET 1 AA7 3 LYS A 441 GLY A 447 0 SHEET 2 AA7 3 PHE A 473 PHE A 479 -1 O PHE A 479 N LYS A 441 SHEET 3 AA7 3 LEU A 459 LYS A 460 -1 N LEU A 459 O THR A 478 LINK O LEU A 365 MG MG A 501 1555 1555 2.22 LINK OD1 ASN A 366 MG MG A 501 1555 1555 2.31 LINK O LEU A 415 MG MG A 501 1555 1555 2.23 LINK OD1 ASN A 416 MG MG A 501 1555 1555 2.49 LINK O LEU A 465 MG MG A 501 1555 1555 2.22 LINK OD1 ASN A 466 MG MG A 501 1555 1555 2.26 CISPEP 1 ASP A 386 ARG A 387 0 1.97 CISPEP 2 ARG A 387 PRO A 388 0 13.62 CRYST1 127.600 127.600 116.120 90.00 90.00 90.00 P 41 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 0.007837 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007837 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008612 0.00000