HEADER TOXIN 04-NOV-22 8BJJ TITLE EXOY NUCLEOTIDYL CYCLASE DOMAIN FROM VIBRIO NIGRIPULCHRITUDO MARTX TITLE 2 TOXIN, BOUND TO ATP-MG-ACTIN, HUMAN PROFILIN 1 AND A SULFATE ION COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACTIN, ALPHA SKELETAL MUSCLE, INTERMEDIATE FORM; COMPND 3 CHAIN: A; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: PROFILIN-1; COMPND 6 CHAIN: C; COMPND 7 SYNONYM: EPIDIDYMIS TISSUE PROTEIN LI 184A,PROFILIN I; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: PUTATIVE ADENYLATE CYCLASE; COMPND 11 CHAIN: B; COMPND 12 SYNONYM: MARTX TOXIN; COMPND 13 EC: 4.6.1.1; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYCTOLAGUS CUNICULUS; SOURCE 3 ORGANISM_COMMON: RABBIT; SOURCE 4 ORGANISM_TAXID: 9986; SOURCE 5 TISSUE: SKELETAL MUSCLE; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_COMMON: HUMAN; SOURCE 9 ORGANISM_TAXID: 9606; SOURCE 10 GENE: PFN1; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 12 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PET29B(+); SOURCE 14 MOL_ID: 3; SOURCE 15 ORGANISM_SCIENTIFIC: VIBRIO NIGRIPULCHRITUDO; SOURCE 16 ORGANISM_TAXID: 28173; SOURCE 17 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 18 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 19 EXPRESSION_SYSTEM_CELL: BL21(DE3); SOURCE 20 EXPRESSION_SYSTEM_VECTOR_TYPE: PET29B(+) KEYWDS BACTERIAL NUCLEOTIDYL CYCLASE TOXIN, ACTIVATED COMPLEX, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR M.TEIXEIRA-NUNES,L.RENAULT,P.RETAILLEAU REVDAT 2 04-OCT-23 8BJJ 1 JRNL REVDAT 1 20-SEP-23 8BJJ 0 JRNL AUTH M.TEIXEIRA-NUNES,P.RETAILLEAU,D.RAOUX-BARBOT,M.COMISSO, JRNL AUTH 2 A.A.MISSINOU,C.VELOURS,S.PLANCQUEEL,D.LADANT,U.MECHOLD, JRNL AUTH 3 L.RENAULT JRNL TITL FUNCTIONAL AND STRUCTURAL INSIGHTS INTO THE MULTI-STEP JRNL TITL 2 ACTIVATION AND CATALYTIC MECHANISM OF BACTERIAL EXOY JRNL TITL 3 NUCLEOTIDYL CYCLASE TOXINS BOUND TO ACTIN-PROFILIN. JRNL REF PLOS PATHOG. V. 19 11654 2023 JRNL REFN ESSN 1553-7374 JRNL PMID 37747912 JRNL DOI 10.1371/JOURNAL.PPAT.1011654 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 (20-MAY-2020) REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 104207 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 5186 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 51 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.71 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.43 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2085 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2258 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1988 REMARK 3 BIN R VALUE (WORKING SET) : 0.2253 REMARK 3 BIN FREE R VALUE : 0.2376 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.65 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 97 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6718 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 118 REMARK 3 SOLVENT ATOMS : 722 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.04 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.20290 REMARK 3 B22 (A**2) : 1.01910 REMARK 3 B33 (A**2) : -0.81620 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.70630 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.200 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.100 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.092 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.097 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.090 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 7210 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 9816 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 2598 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 1275 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 7210 ; 10.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 947 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 7010 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 0.96 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.34 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 15.95 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|5 - A|375 } REMARK 3 ORIGIN FOR THE GROUP (A): 26.0598 -7.5635 23.1738 REMARK 3 T TENSOR REMARK 3 T11: -0.0048 T22: 0.0032 REMARK 3 T33: -0.0133 T12: -0.0132 REMARK 3 T13: 0.0230 T23: -0.0221 REMARK 3 L TENSOR REMARK 3 L11: 0.4698 L22: 0.0561 REMARK 3 L33: 0.4178 L12: 0.0849 REMARK 3 L13: 0.1642 L23: -0.0056 REMARK 3 S TENSOR REMARK 3 S11: -0.0274 S12: 0.0569 S13: -0.0372 REMARK 3 S21: -0.0195 S22: 0.0013 S23: -0.0521 REMARK 3 S31: 0.0193 S32: -0.0535 S33: 0.0262 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|466 - B|863 } REMARK 3 ORIGIN FOR THE GROUP (A): 16.9364 5.9828 -14.6297 REMARK 3 T TENSOR REMARK 3 T11: 0.0071 T22: 0.0023 REMARK 3 T33: -0.0354 T12: 0.0338 REMARK 3 T13: -0.0035 T23: 0.0102 REMARK 3 L TENSOR REMARK 3 L11: 0.0631 L22: 0.0482 REMARK 3 L33: 1.2473 L12: 0.1137 REMARK 3 L13: 0.1026 L23: 0.0157 REMARK 3 S TENSOR REMARK 3 S11: -0.0552 S12: 0.0170 S13: -0.0277 REMARK 3 S21: 0.0299 S22: -0.0577 S23: -0.0591 REMARK 3 S31: 0.0034 S32: -0.1106 S33: 0.1130 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { C|1 - C|139 } REMARK 3 ORIGIN FOR THE GROUP (A): 47.9905 4.9927 46.8696 REMARK 3 T TENSOR REMARK 3 T11: -0.0194 T22: -0.0324 REMARK 3 T33: 0.0786 T12: 0.0033 REMARK 3 T13: -0.0338 T23: -0.0479 REMARK 3 L TENSOR REMARK 3 L11: 0.4044 L22: 0.7672 REMARK 3 L33: 1.4256 L12: -0.3241 REMARK 3 L13: -0.4031 L23: 0.6473 REMARK 3 S TENSOR REMARK 3 S11: -0.0299 S12: -0.0913 S13: 0.0915 REMARK 3 S21: 0.0480 S22: 0.1596 S23: -0.2524 REMARK 3 S31: 0.0270 S32: 0.1343 S33: -0.1297 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8BJJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-NOV-22. REMARK 100 THE DEPOSITION ID IS D_1292126455. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-DEC-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.980 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS VERSION JAN 31, 2020 REMARK 200 BUILT=20200417 REMARK 200 DATA SCALING SOFTWARE : AIMLESS VERSION 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 104207 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.699 REMARK 200 RESOLUTION RANGE LOW (A) : 44.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 15.20 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.05500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.3 REMARK 200 STARTING MODEL: 2PAV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG3000 0.3M LISO4 0.1M TRIS PH8.5 REMARK 280 3% DIOXANE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 31.60100 REMARK 290 SMTRY3 2 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, 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 ASP A 1 REMARK 465 GLU A 2 REMARK 465 ASP A 3 REMARK 465 GLU A 4 REMARK 465 VAL A 45 REMARK 465 GLY A 46 REMARK 465 MET A 47 REMARK 465 GLY A 48 REMARK 465 GLY B 451 REMARK 465 PRO B 452 REMARK 465 GLY B 453 REMARK 465 SER B 454 REMARK 465 GLN B 455 REMARK 465 GLU B 456 REMARK 465 ALA B 457 REMARK 465 THR B 458 REMARK 465 PRO B 459 REMARK 465 ASN B 460 REMARK 465 GLN B 461 REMARK 465 ASP B 462 REMARK 465 GLY B 463 REMARK 465 SER B 464 REMARK 465 HIS B 465 REMARK 465 VAL B 684 REMARK 465 LYS B 685 REMARK 465 GLN B 686 REMARK 465 PRO B 687 REMARK 465 LEU B 688 REMARK 465 THR B 689 REMARK 465 TRP B 690 REMARK 465 GLU B 691 REMARK 465 GLN B 692 REMARK 465 TRP B 693 REMARK 465 LYS B 694 REMARK 465 GLU B 695 REMARK 465 SER B 696 REMARK 465 VAL B 697 REMARK 465 THR B 698 REMARK 465 TYR B 699 REMARK 465 GLU B 700 REMARK 465 ASP B 701 REMARK 465 LEU B 702 REMARK 465 SER B 703 REMARK 465 PRO B 704 REMARK 465 LYS B 705 REMARK 465 TYR B 706 REMARK 465 LYS B 707 REMARK 465 ALA B 708 REMARK 465 ARG B 709 REMARK 465 TYR B 710 REMARK 465 ASP B 711 REMARK 465 ASN B 712 REMARK 465 GLN B 713 REMARK 465 ALA B 714 REMARK 465 LEU B 715 REMARK 465 TYR B 716 REMARK 465 GLU B 717 REMARK 465 LYS B 718 REMARK 465 GLN B 719 REMARK 465 ASP B 720 REMARK 465 GLY B 721 REMARK 465 ALA B 722 REMARK 465 SER B 723 REMARK 465 LEU B 724 REMARK 465 GLY B 725 REMARK 465 MET B 726 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 GLN A 41 59.79 -117.68 REMARK 500 VAL A 43 -43.25 -145.57 REMARK 500 ALA A 181 -158.65 -152.54 REMARK 500 VAL A 201 -34.08 -132.83 REMARK 500 ASP C 26 -117.06 53.79 REMARK 500 LYS C 37 -151.24 -101.81 REMARK 500 ASN C 61 35.23 -157.50 REMARK 500 GLU C 82 -57.24 -124.94 REMARK 500 SER C 91 -168.72 -124.80 REMARK 500 ARG B 471 -126.26 51.37 REMARK 500 HIS B 480 76.65 49.01 REMARK 500 HIS B 480 77.23 48.40 REMARK 500 ASP B 560 52.75 -143.35 REMARK 500 ASN B 759 139.30 64.88 REMARK 500 ALA B 762 -91.19 -133.98 REMARK 500 VAL B 763 123.40 52.84 REMARK 500 GLU B 786 -56.01 -28.43 REMARK 500 LEU B 835 125.52 62.48 REMARK 500 SER B 837 106.40 -59.70 REMARK 500 LEU B 839 50.67 -158.36 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 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ATP A 401 O1G REMARK 620 2 ATP A 401 O1B 88.2 REMARK 620 3 HOH A 521 O 89.6 177.6 REMARK 620 4 HOH A 544 O 173.8 88.4 93.8 REMARK 620 5 HOH A 576 O 90.3 93.0 87.7 84.7 REMARK 620 6 HOH A 718 O 98.5 92.6 87.0 86.8 169.7 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7PK7 RELATED DB: PDB REMARK 900 RELATED PROTEIN COMPLEX USING A CHIMERIC MULTIMODULAR PROTEIN (WITH REMARK 900 THE EXOY NUCLEOTIDYL CYCLASE DOMAIN FROM VIBRIO NIGRIPULCHRITUDO REMARK 900 MARTX TOXIN MUTATED IN ITS ACTIVE SITE) REMARK 900 RELATED ID: 7PJ0 RELATED DB: PDB REMARK 900 RELATED PROTEIN COMPLEX USING A CHIMERIC MULTIMODULAR PROTEIN REMARK 900 ((WITH WILD-TYPE EXOY NUCLEOTIDYL CYCLASE DOMAIN FROM VIBRIO REMARK 900 NIGRIPULCHRITUDO MARTX TOXIN) REMARK 900 RELATED ID: 7PQJ RELATED DB: PDB REMARK 900 RELATED PROTEIN COMPLEX CONTAINING ONLY 2 OF THE 3 PROTEINS, AND REMARK 900 ADDITIONALLY AN ATP SUSBSTRATE ANALOG BOUND TO THE EXOY NUCLEOTIDYL REMARK 900 CYCLASE DOMAIN FROM VIBRIO NIGRIPULCHRITUDO MARTX TOXIN DBREF 8BJJ A 1 375 UNP P68135 ACTS_RABIT 3 377 DBREF 8BJJ C 1 139 UNP P07737 PROF1_HUMAN 2 140 DBREF1 8BJJ B 455 863 UNP A0A6N3LUE9_9VIBR DBREF2 8BJJ B A0A6N3LUE9 3455 3863 SEQADV 8BJJ GLY B 451 UNP A0A6N3LUE EXPRESSION TAG SEQADV 8BJJ PRO B 452 UNP A0A6N3LUE EXPRESSION TAG SEQADV 8BJJ GLY B 453 UNP A0A6N3LUE EXPRESSION TAG SEQADV 8BJJ SER B 454 UNP A0A6N3LUE EXPRESSION TAG SEQRES 1 A 375 ASP GLU ASP GLU THR THR ALA LEU VAL CYS ASP ASN GLY SEQRES 2 A 375 SER GLY LEU VAL LYS ALA GLY PHE ALA GLY ASP ASP ALA SEQRES 3 A 375 PRO ARG ALA VAL PHE PRO SER ILE VAL GLY ARG PRO ARG SEQRES 4 A 375 HIS GLN GLY VAL MET VAL GLY MET GLY GLN LYS ASP SER SEQRES 5 A 375 TYR VAL GLY ASP GLU ALA GLN SER LYS ARG GLY ILE LEU SEQRES 6 A 375 THR LEU LYS TYR PRO ILE GLU HIS GLY ILE ILE THR ASN SEQRES 7 A 375 TRP ASP ASP MET GLU LYS ILE TRP HIS HIS THR PHE TYR SEQRES 8 A 375 ASN GLU LEU ARG VAL ALA PRO GLU GLU HIS PRO THR LEU SEQRES 9 A 375 LEU THR GLU ALA PRO LEU ASN PRO LYS ALA ASN ARG GLU SEQRES 10 A 375 LYS MET THR GLN ILE MET PHE GLU THR PHE ASN VAL PRO SEQRES 11 A 375 ALA MET TYR VAL ALA ILE GLN ALA VAL LEU SER LEU TYR SEQRES 12 A 375 ALA SER GLY ARG THR THR GLY ILE VAL LEU ASP SER GLY SEQRES 13 A 375 ASP GLY VAL THR HIS ASN VAL PRO ILE TYR GLU GLY TYR SEQRES 14 A 375 ALA LEU PRO HIS ALA ILE MET ARG LEU ASP LEU ALA GLY SEQRES 15 A 375 ARG ASP LEU THR ASP TYR LEU MET LYS ILE LEU THR GLU SEQRES 16 A 375 ARG GLY TYR SER PHE VAL THR THR ALA GLU ARG GLU ILE SEQRES 17 A 375 VAL ARG ASP ILE LYS GLU LYS LEU CYS TYR VAL ALA LEU SEQRES 18 A 375 ASP PHE GLU ASN GLU MET ALA THR ALA ALA SER SER SER SEQRES 19 A 375 SER LEU GLU LYS SER TYR GLU LEU PRO ASP GLY GLN VAL SEQRES 20 A 375 ILE THR ILE GLY ASN GLU ARG PHE ARG CYS PRO GLU THR SEQRES 21 A 375 LEU PHE GLN PRO SER PHE ILE GLY MET GLU SER ALA GLY SEQRES 22 A 375 ILE HIS GLU THR THR TYR ASN SER ILE MET LYS CYS ASP SEQRES 23 A 375 ILE ASP ILE ARG LYS ASP LEU TYR ALA ASN ASN VAL MET SEQRES 24 A 375 SER GLY GLY THR THR MET TYR PRO GLY ILE ALA ASP ARG SEQRES 25 A 375 MET GLN LYS GLU ILE THR ALA LEU ALA PRO SER THR MET SEQRES 26 A 375 LYS ILE LYS ILE ILE ALA PRO PRO GLU ARG LYS TYR SER SEQRES 27 A 375 VAL TRP ILE GLY GLY SER ILE LEU ALA SER LEU SER THR SEQRES 28 A 375 PHE GLN GLN MET TRP ILE THR LYS GLN GLU TYR ASP GLU SEQRES 29 A 375 ALA GLY PRO SER ILE VAL HIS ARG LYS CYS PHE SEQRES 1 C 139 ALA GLY TRP ASN ALA TYR ILE ASP ASN LEU MET ALA ASP SEQRES 2 C 139 GLY THR CYS GLN ASP ALA ALA ILE VAL GLY TYR LYS ASP SEQRES 3 C 139 SER PRO SER VAL TRP ALA ALA VAL PRO GLY LYS THR PHE SEQRES 4 C 139 VAL ASN ILE THR PRO ALA GLU VAL GLY VAL LEU VAL GLY SEQRES 5 C 139 LYS ASP ARG SER SER PHE TYR VAL ASN GLY LEU THR LEU SEQRES 6 C 139 GLY GLY GLN LYS CYS SER VAL ILE ARG ASP SER LEU LEU SEQRES 7 C 139 GLN ASP GLY GLU PHE SER MET ASP LEU ARG THR LYS SER SEQRES 8 C 139 THR GLY GLY ALA PRO THR PHE ASN VAL THR VAL THR LYS SEQRES 9 C 139 THR ASP LYS THR LEU VAL LEU LEU MET GLY LYS GLU GLY SEQRES 10 C 139 VAL HIS GLY GLY LEU ILE ASN LYS LYS CYS TYR GLU MET SEQRES 11 C 139 ALA SER HIS LEU ARG ARG SER GLN TYR SEQRES 1 B 413 GLY PRO GLY SER GLN GLU ALA THR PRO ASN GLN ASP GLY SEQRES 2 B 413 SER HIS LYS THR TYR GLN SER ARG ASP LEU VAL LEU GLU SEQRES 3 B 413 PRO ILE GLN HIS PRO LYS SER ILE GLU LEU GLY MET PRO SEQRES 4 B 413 GLU VAL ASP GLN SER VAL LEU ALA GLU VAL ALA GLU ARG SEQRES 5 B 413 GLU ASN VAL ILE ILE GLY VAL ARG PRO VAL ASP GLU LYS SEQRES 6 B 413 SER LYS SER LEU ILE ALA SER LYS MET TYR SER SER LYS SEQRES 7 B 413 GLY LEU PHE VAL LYS ALA LYS SER SER ASP TRP GLY PRO SEQRES 8 B 413 MET SER GLY PHE ILE PRO VAL ASP GLN SER PHE ALA LYS SEQRES 9 B 413 ALA SER ALA ARG ARG ASP LEU GLU LYS PHE ASN GLU TYR SEQRES 10 B 413 ALA GLU GLN SER ILE LEU SER GLY ASN ALA VAL SER ALA SEQRES 11 B 413 ASN LEU TYR LEU ASN GLN VAL ARG ILE GLU GLU LEU VAL SEQRES 12 B 413 SER LYS TYR GLU SER LEU THR PRO LEU GLU LEU ASP VAL SEQRES 13 B 413 ASP SER GLY MET TYR LYS THR THR ALA THR ASN GLY ASP SEQRES 14 B 413 GLN THR ILE PRO PHE PHE LEU ASN LYS VAL THR VAL ASP SEQRES 15 B 413 ASP LYS GLU LEU TRP GLN VAL HIS TYR LEU ARG GLU GLY SEQRES 16 B 413 GLU LEU ALA PRO PHE LYS VAL ILE GLY ASP PRO VAL SER SEQRES 17 B 413 LYS GLN PRO MET THR ALA ASP TYR ASP LEU LEU THR VAL SEQRES 18 B 413 MET TYR THR TYR GLY ASP LEU GLY PRO GLN ASP LYS VAL SEQRES 19 B 413 LYS GLN PRO LEU THR TRP GLU GLN TRP LYS GLU SER VAL SEQRES 20 B 413 THR TYR GLU ASP LEU SER PRO LYS TYR LYS ALA ARG TYR SEQRES 21 B 413 ASP ASN GLN ALA LEU TYR GLU LYS GLN ASP GLY ALA SER SEQRES 22 B 413 LEU GLY MET VAL SER ASP ARG LEU LYS GLU LEU LYS ASP SEQRES 23 B 413 VAL ILE ASN THR SER LEU GLY ARG THR ASP GLY LEU GLU SEQRES 24 B 413 MET VAL HIS HIS GLY ALA ASP ASP ALA ASN PRO TYR ALA SEQRES 25 B 413 VAL MET ALA ASP ASN PHE PRO ALA THR PHE PHE VAL PRO SEQRES 26 B 413 LYS HIS PHE PHE ASP ASP ASP GLY LEU GLY GLU GLY LYS SEQRES 27 B 413 GLY SER ILE GLN THR TYR PHE ASN VAL ASN GLU GLN GLY SEQRES 28 B 413 ALA VAL VAL ILE GLN ASN PRO GLN GLU PHE SER ASN PHE SEQRES 29 B 413 GLN GLN VAL ALA ILE ASN ALA SER TYR ARG ALA SER LEU SEQRES 30 B 413 ASN ASP LYS TRP ASN SER GLY LEU ASP SER PRO LEU PHE SEQRES 31 B 413 THR THR LYS ARG LYS LEU SER HIS ASP TYR LEU ASP ALA SEQRES 32 B 413 ARG ASP GLU VAL ALA LYS LYS LEU GLY LEU HET ATP A 401 31 HET MG A 402 1 HET LAB A 403 27 HET TRS A 404 8 HET SO4 A 405 5 HET PEO C 201 2 HET PEO C 202 2 HET SO4 B 901 5 HET SO4 B 902 5 HET SO4 B 903 5 HET TRS B 904 8 HET PG4 B 905 13 HET GOL B 906 6 HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM LAB LATRUNCULIN B HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM SO4 SULFATE ION HETNAM PEO HYDROGEN PEROXIDE HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM GOL GLYCEROL HETSYN TRS TRIS BUFFER HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 ATP C10 H16 N5 O13 P3 FORMUL 5 MG MG 2+ FORMUL 6 LAB C20 H29 N O5 S FORMUL 7 TRS 2(C4 H12 N O3 1+) FORMUL 8 SO4 4(O4 S 2-) FORMUL 9 PEO 2(H2 O2) FORMUL 15 PG4 C8 H18 O5 FORMUL 16 GOL C3 H8 O3 FORMUL 17 HOH *722(H2 O) HELIX 1 AA1 GLY A 55 LYS A 61 1 7 HELIX 2 AA2 ASN A 78 ASN A 92 1 15 HELIX 3 AA3 ALA A 97 HIS A 101 5 5 HELIX 4 AA4 PRO A 112 THR A 126 1 15 HELIX 5 AA5 GLN A 137 SER A 145 1 9 HELIX 6 AA6 PRO A 172 ILE A 175 5 4 HELIX 7 AA7 ALA A 181 GLU A 195 1 15 HELIX 8 AA8 THR A 202 CYS A 217 1 16 HELIX 9 AA9 ASP A 222 SER A 233 1 12 HELIX 10 AB1 ASN A 252 GLN A 263 1 12 HELIX 11 AB2 PRO A 264 GLY A 268 5 5 HELIX 12 AB3 GLY A 273 LYS A 284 1 12 HELIX 13 AB4 CYS A 285 ASP A 288 5 4 HELIX 14 AB5 ILE A 289 ALA A 295 1 7 HELIX 15 AB6 GLY A 301 MET A 305 5 5 HELIX 16 AB7 GLY A 308 ALA A 321 1 14 HELIX 17 AB8 GLU A 334 LYS A 336 5 3 HELIX 18 AB9 TYR A 337 LEU A 349 1 13 HELIX 19 AC1 SER A 350 MET A 355 5 6 HELIX 20 AC2 LYS A 359 GLY A 366 1 8 HELIX 21 AC3 SER A 368 CYS A 374 1 7 HELIX 22 AC4 TRP C 3 ALA C 12 1 10 HELIX 23 AC5 THR C 38 ILE C 42 5 5 HELIX 24 AC6 THR C 43 GLY C 52 1 10 HELIX 25 AC7 SER C 56 VAL C 60 5 5 HELIX 26 AC8 HIS C 119 SER C 137 1 19 HELIX 27 AC9 PRO B 489 ASN B 504 1 16 HELIX 28 AD1 ASP B 513 LYS B 515 5 3 HELIX 29 AD2 SER B 516 SER B 522 1 7 HELIX 30 AD3 ASP B 549 ALA B 553 5 5 HELIX 31 AD4 LYS B 554 ARG B 559 1 6 HELIX 32 AD5 ASP B 560 SER B 574 1 15 HELIX 33 AD6 ASN B 585 SER B 594 1 10 HELIX 34 AD7 GLY B 676 LEU B 678 5 3 HELIX 35 AD8 SER B 728 GLY B 743 1 16 HELIX 36 AD9 VAL B 763 ASN B 767 5 5 HELIX 37 AE1 PRO B 775 ASP B 780 5 6 HELIX 38 AE2 SER B 790 PHE B 795 1 6 HELIX 39 AE3 ASN B 807 ALA B 821 1 15 HELIX 40 AE4 THR B 842 LEU B 846 5 5 HELIX 41 AE5 SER B 847 LEU B 861 1 15 SHEET 1 AA1 6 ALA A 29 PRO A 32 0 SHEET 2 AA1 6 LEU A 16 PHE A 21 -1 N VAL A 17 O PHE A 31 SHEET 3 AA1 6 LEU A 8 ASN A 12 -1 N ASP A 11 O LYS A 18 SHEET 4 AA1 6 THR A 103 GLU A 107 1 O LEU A 104 N LEU A 8 SHEET 5 AA1 6 ALA A 131 ILE A 136 1 O TYR A 133 N LEU A 105 SHEET 6 AA1 6 ILE A 357 THR A 358 -1 O ILE A 357 N MET A 132 SHEET 1 AA2 3 TYR A 53 VAL A 54 0 SHEET 2 AA2 3 VAL A 35 PRO A 38 -1 N GLY A 36 O TYR A 53 SHEET 3 AA2 3 LEU A 65 LYS A 68 -1 O THR A 66 N ARG A 37 SHEET 1 AA3 2 ILE A 71 GLU A 72 0 SHEET 2 AA3 2 ILE A 75 ILE A 76 -1 O ILE A 75 N GLU A 72 SHEET 1 AA4 3 TYR A 169 ALA A 170 0 SHEET 2 AA4 3 THR A 160 TYR A 166 -1 N TYR A 166 O TYR A 169 SHEET 3 AA4 3 MET A 176 LEU A 178 -1 O LEU A 178 N THR A 160 SHEET 1 AA5 5 TYR A 169 ALA A 170 0 SHEET 2 AA5 5 THR A 160 TYR A 166 -1 N TYR A 166 O TYR A 169 SHEET 3 AA5 5 GLY A 150 SER A 155 -1 N VAL A 152 O VAL A 163 SHEET 4 AA5 5 ASN A 297 SER A 300 1 O SER A 300 N LEU A 153 SHEET 5 AA5 5 ILE A 329 ILE A 330 1 O ILE A 330 N ASN A 297 SHEET 1 AA6 2 LYS A 238 GLU A 241 0 SHEET 2 AA6 2 VAL A 247 ILE A 250 -1 O ILE A 250 N LYS A 238 SHEET 1 AA7 7 SER C 29 ALA C 33 0 SHEET 2 AA7 7 CYS C 16 GLY C 23 -1 N ILE C 21 O ALA C 32 SHEET 3 AA7 7 THR C 108 GLY C 114 -1 O LEU C 111 N ALA C 20 SHEET 4 AA7 7 ASN C 99 LYS C 104 -1 N THR C 103 O VAL C 110 SHEET 5 AA7 7 SER C 84 THR C 89 -1 N LEU C 87 O VAL C 100 SHEET 6 AA7 7 GLN C 68 SER C 76 -1 N SER C 71 O ARG C 88 SHEET 7 AA7 7 LEU C 63 LEU C 65 -1 N LEU C 63 O CYS C 70 SHEET 1 AA8 2 TYR B 468 SER B 470 0 SHEET 2 AA8 2 LEU B 473 LEU B 475 -1 O LEU B 475 N TYR B 468 SHEET 1 AA9 6 ASN B 796 VAL B 797 0 SHEET 2 AA9 6 VAL B 803 ILE B 805 -1 O VAL B 804 N ASN B 796 SHEET 3 AA9 6 ALA B 770 PHE B 773 -1 N PHE B 772 O VAL B 803 SHEET 4 AA9 6 VAL B 505 VAL B 509 -1 N ILE B 507 O PHE B 773 SHEET 5 AA9 6 LEU B 668 THR B 674 -1 O THR B 670 N GLY B 508 SHEET 6 AA9 6 TYR B 823 ALA B 825 -1 O ARG B 824 N TYR B 673 SHEET 1 AB1 2 SER B 526 SER B 527 0 SHEET 2 AB1 2 MET B 662 THR B 663 1 O THR B 663 N SER B 526 SHEET 1 AB2 2 VAL B 578 ASN B 581 0 SHEET 2 AB2 2 LYS B 651 GLY B 654 -1 O VAL B 652 N ALA B 580 SHEET 1 AB3 5 TYR B 583 LEU B 584 0 SHEET 2 AB3 5 LYS B 634 ARG B 643 -1 O TRP B 637 N LEU B 584 SHEET 3 AB3 5 PRO B 623 VAL B 631 -1 N ASN B 627 O GLN B 638 SHEET 4 AB3 5 TYR B 611 THR B 614 -1 N TYR B 611 O LEU B 626 SHEET 5 AB3 5 GLU B 603 LEU B 604 -1 N GLU B 603 O LYS B 612 SHEET 1 AB4 3 TYR B 583 LEU B 584 0 SHEET 2 AB4 3 LYS B 634 ARG B 643 -1 O TRP B 637 N LEU B 584 SHEET 3 AB4 3 GLU B 646 PRO B 649 -1 O GLU B 646 N ARG B 643 LINK O1G ATP A 401 MG MG A 402 1555 1555 2.05 LINK O1B ATP A 401 MG MG A 402 1555 1555 2.09 LINK MG MG A 402 O HOH A 521 1555 1555 2.10 LINK MG MG A 402 O HOH A 544 1555 1555 2.13 LINK MG MG A 402 O HOH A 576 1555 1555 2.11 LINK MG MG A 402 O HOH A 718 1555 1555 2.11 CISPEP 1 PHE B 768 PRO B 769 0 -2.41 CRYST1 81.186 63.202 93.455 90.00 91.04 90.00 P 1 21 1 2 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 0.012317 0.000000 0.000224 0.00000 SCALE2 0.000000 0.015822 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010702 0.00000