HEADER DNA BINDING PROTEIN 20-SEP-22 8B4B TITLE TOXR BACTERIAL TRANSCRIPTIONAL REGULATOR BOUND TO 19 BP OMPU PROMOTER TITLE 2 DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (19-MER); COMPND 3 CHAIN: L; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (19-MER); COMPND 7 CHAIN: M; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: CHOLERA TOXIN TRANSCRIPTIONAL ACTIVATOR; COMPND 11 CHAIN: W, X, Y, Z; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE; SOURCE 4 ORGANISM_TAXID: 666; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE; SOURCE 8 ORGANISM_TAXID: 666; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE; SOURCE 11 ORGANISM_TAXID: 666; SOURCE 12 STRAIN: ATCC 39315 / EL TOR INABA N16961; SOURCE 13 GENE: TOXR, VC_0984; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BACTERIAL TRANSCRIPTION, ACTIVATION COMPLEX, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.CANALS,S.PIERETTI,M.MURIEL,N.EL YAMAN,M.FABREGA-FERRER,R.PEREZ- AUTHOR 2 LUQUE,E.S.KRUKONIS,M.COLL REVDAT 1 09-AUG-23 8B4B 0 JRNL AUTH A.CANALS,S.PIERETTI,M.MURIEL-MASANES,N.EL YAMAN,S.C.PLECHA, JRNL AUTH 2 J.J.THOMSON,M.FABREGA-FERRER,R.PEREZ-LUQUE,E.S.KRUKONIS, JRNL AUTH 3 M.COLL JRNL TITL TOXR ACTIVATES THE VIBRIO CHOLERAE VIRULENCE GENES BY JRNL TITL 2 TETHERING DNA TO THE MEMBRANE THROUGH VERSATILE BINDING TO JRNL TITL 3 MULTIPLE SITES. JRNL REF PROC.NATL.ACAD.SCI.USA V. 120 78120 2023 JRNL REFN ESSN 1091-6490 JRNL PMID 37428913 JRNL DOI 10.1073/PNAS.2304378120 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20RC4_4425 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.63 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.960 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 3 NUMBER OF REFLECTIONS : 68439 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.840 REMARK 3 FREE R VALUE TEST SET COUNT : 3313 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 41.6300 - 5.0400 0.96 2746 142 0.1698 0.1674 REMARK 3 2 5.0400 - 4.0100 0.95 2718 140 0.1493 0.1749 REMARK 3 3 4.0000 - 3.5000 0.96 2757 135 0.1577 0.1853 REMARK 3 4 3.5000 - 3.1800 0.95 2702 129 0.1899 0.2547 REMARK 3 5 3.1800 - 2.9500 0.95 2697 155 0.1927 0.2538 REMARK 3 6 2.9500 - 2.7800 0.94 2706 114 0.1882 0.2484 REMARK 3 7 2.7800 - 2.6400 0.95 2719 119 0.1971 0.2298 REMARK 3 8 2.6400 - 2.5200 0.95 2680 155 0.2037 0.2529 REMARK 3 9 2.5200 - 2.4300 0.95 2738 119 0.1972 0.2395 REMARK 3 10 2.4300 - 2.3400 0.95 2710 133 0.2111 0.2455 REMARK 3 11 2.3400 - 2.2700 0.95 2745 138 0.2309 0.2785 REMARK 3 12 2.2700 - 2.2000 0.95 2716 128 0.2474 0.2993 REMARK 3 13 2.2000 - 2.1500 0.95 2775 117 0.2567 0.3552 REMARK 3 14 2.1500 - 2.0900 0.95 2691 128 0.2617 0.3068 REMARK 3 15 2.0900 - 2.0500 0.95 2725 122 0.2585 0.2964 REMARK 3 16 2.0500 - 2.0000 0.96 2718 169 0.2672 0.2750 REMARK 3 17 2.0000 - 1.9600 0.95 2661 127 0.2729 0.3762 REMARK 3 18 1.9600 - 1.9300 0.95 2735 132 0.2734 0.2796 REMARK 3 19 1.9300 - 1.8900 0.95 2749 170 0.2836 0.3356 REMARK 3 20 1.8900 - 1.8600 0.95 2684 161 0.3026 0.3326 REMARK 3 21 1.8600 - 1.8300 0.95 2706 148 0.3239 0.4120 REMARK 3 22 1.8300 - 1.8000 0.94 2629 157 0.3532 0.3780 REMARK 3 23 1.8000 - 1.7700 0.94 2722 143 0.3827 0.4531 REMARK 3 24 1.7700 - 1.7500 0.95 2697 132 0.4237 0.3821 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) : 0.320 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.810 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) : 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 : 0.008 4441 REMARK 3 ANGLE : 1.119 6153 REMARK 3 CHIRALITY : 0.058 703 REMARK 3 PLANARITY : 0.009 650 REMARK 3 DIHEDRAL : 22.980 835 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 8B4B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-SEP-22. REMARK 100 THE DEPOSITION ID IS D_1292124954. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUL-19 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 : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 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 : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 68439 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 41.660 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.6800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.71300 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: PDB IN DEPOSITION REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM SULFATE, 0.01 M CADMIUM REMARK 280 CHLORIDE, 0.1 M PIPES PH 6.5, 10% ETHYLENE GLYCOL, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11380 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -212.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, M, W, X, Y, Z 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 GLU X 66 REMARK 465 GLN X 67 REMARK 465 GLY X 68 REMARK 465 PHE X 69 REMARK 465 GLU X 70 REMARK 465 VAL X 71 REMARK 465 GLN Y 67 REMARK 465 GLY Y 68 REMARK 465 PHE Y 69 REMARK 465 GLU Y 70 REMARK 465 VAL Y 71 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 OD2 ASP Z 58 O HOH Z 301 2.06 REMARK 500 O HOH L 252 O HOH L 270 2.14 REMARK 500 O HOH Y 307 O HOH Y 389 2.15 REMARK 500 O HOH W 336 O HOH W 383 2.16 REMARK 500 OE2 GLU W 70 O HOH W 301 2.18 REMARK 500 O HOH Y 342 O HOH Y 385 2.19 REMARK 500 O ARG X 65 O HOH X 301 2.19 REMARK 500 O HOH Z 360 O HOH Z 371 2.19 REMARK 500 O HOH L 251 O HOH M 215 2.19 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 DC L -43 O3' - P - OP2 ANGL. DEV. = 6.6 DEGREES REMARK 500 DT L -31 O4' - C1' - N1 ANGL. DEV. = 2.1 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 LYS W 13 -50.60 -135.79 REMARK 500 LYS W 102 -3.96 69.74 REMARK 500 VAL W 114 -72.61 -85.19 REMARK 500 GLU X 12 19.40 59.50 REMARK 500 LYS X 13 -55.87 -124.63 REMARK 500 ASP X 28 60.84 -150.34 REMARK 500 LYS Y 13 -56.62 -133.25 REMARK 500 ASP Y 28 57.12 -149.23 REMARK 500 ASP Y 73 -42.04 61.21 REMARK 500 LYS Z 13 -48.61 -134.32 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH X 400 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH X 401 DISTANCE = 7.64 ANGSTROMS REMARK 525 HOH Y 405 DISTANCE = 5.82 ANGSTROMS 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 CD M 101 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG M 43 N7 REMARK 620 2 HOH M 246 O 90.4 REMARK 620 3 SER W 74 OG 157.7 111.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD W 202 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU W 12 OE1 REMARK 620 2 GLU W 12 OE2 52.1 REMARK 620 3 GLU W 112 OE2 96.2 76.7 REMARK 620 4 HOH W 370 O 123.2 175.3 105.1 REMARK 620 5 ASP Y 58 OD1 49.4 57.3 47.5 120.6 REMARK 620 6 ASP Y 58 OD2 47.4 57.1 49.6 120.7 2.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD W 204 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP W 58 OD1 REMARK 620 2 ASP W 58 OD2 52.0 REMARK 620 3 HOH W 373 O 103.6 93.4 REMARK 620 4 GLU Y 12 OE1 53.2 54.9 51.8 REMARK 620 5 GLU Y 12 OE2 51.1 54.4 53.7 2.1 REMARK 620 6 GLU Y 112 OE1 52.6 57.7 51.6 3.4 3.3 REMARK 620 7 GLU Y 112 OE2 52.2 58.0 51.9 4.1 3.7 0.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD X 201 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU X 12 OE1 REMARK 620 2 GLU X 12 OE2 51.0 REMARK 620 3 GLU X 112 OE2 84.0 77.1 REMARK 620 4 HOH X 380 O 113.1 163.1 109.3 REMARK 620 5 ASP Z 58 OD1 37.4 48.2 47.2 124.6 REMARK 620 6 ASP Z 58 OD2 35.3 48.0 49.2 124.1 2.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD X 202 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN X 57 OD1 REMARK 620 2 ASP X 61 OD1 99.6 REMARK 620 3 ASP X 61 OD2 86.4 50.8 REMARK 620 4 HOH X 369 O 170.2 72.2 84.3 REMARK 620 5 HOH X 381 O 88.8 85.1 133.8 95.6 REMARK 620 6 HOH X 383 O 90.6 158.4 149.8 98.9 76.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD Z 202 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP X 58 OD1 REMARK 620 2 ASP X 58 OD2 52.8 REMARK 620 3 GLU Z 12 OE1 47.8 43.0 REMARK 620 4 GLU Z 12 OE2 45.8 42.9 2.1 REMARK 620 5 GLU Z 112 OE1 46.4 45.9 3.6 3.1 REMARK 620 6 GLU Z 112 OE2 46.1 46.3 4.2 3.5 0.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD X 203 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS X 60 NE2 REMARK 620 2 ASP X 72 OD2 159.0 REMARK 620 3 HOH X 301 O 105.1 89.7 REMARK 620 4 HOH X 382 O 106.7 85.8 96.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD Y 201 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN Y 57 OD1 REMARK 620 2 ASP Y 61 OD1 99.2 REMARK 620 3 ASP Y 61 OD2 93.2 50.7 REMARK 620 4 GLU Y 66 OE1 174.0 77.8 80.9 REMARK 620 5 HOH Y 342 O 80.1 162.3 146.8 104.3 REMARK 620 6 HOH Y 371 O 84.2 81.0 130.7 100.2 81.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD Y 202 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS Y 60 NE2 REMARK 620 2 ASP Y 72 OD2 154.8 REMARK 620 3 HOH Y 302 O 89.1 107.4 REMARK 620 N 1 2 DBREF 8B4B L -48 -30 PDB 8B4B 8B4B -48 -30 DBREF 8B4B M 30 48 PDB 8B4B 8B4B 30 48 DBREF 8B4B W 7 115 UNP P15795 TOXR_VIBCH 19 127 DBREF 8B4B X 7 115 UNP P15795 TOXR_VIBCH 19 127 DBREF 8B4B Y 7 115 UNP P15795 TOXR_VIBCH 19 127 DBREF 8B4B Z 7 115 UNP P15795 TOXR_VIBCH 19 127 SEQADV 8B4B MET W 6 UNP P15795 INITIATING METHIONINE SEQADV 8B4B MET X 6 UNP P15795 INITIATING METHIONINE SEQADV 8B4B MET Y 6 UNP P15795 INITIATING METHIONINE SEQADV 8B4B MET Z 6 UNP P15795 INITIATING METHIONINE SEQRES 1 L 19 DC DA DT DA DT DC DA DT DT DT DT DA DC SEQRES 2 L 19 DT DA DA DC DT DG SEQRES 1 M 19 DC DA DG DT DT DA DG DT DA DA DA DA DT SEQRES 2 M 19 DG DA DT DA DT DG SEQRES 1 W 110 MET LYS PHE ILE LEU ALA GLU LYS PHE THR PHE ASP PRO SEQRES 2 W 110 LEU SER ASN THR LEU ILE ASP LYS GLU ASP SER GLU GLU SEQRES 3 W 110 ILE ILE ARG LEU GLY SER ASN GLU SER ARG ILE LEU TRP SEQRES 4 W 110 LEU LEU ALA GLN ARG PRO ASN GLU VAL ILE SER ARG ASN SEQRES 5 W 110 ASP LEU HIS ASP PHE VAL TRP ARG GLU GLN GLY PHE GLU SEQRES 6 W 110 VAL ASP ASP SER SER LEU THR GLN ALA ILE SER THR LEU SEQRES 7 W 110 ARG LYS MET LEU LYS ASP SER THR LYS SER PRO GLN TYR SEQRES 8 W 110 VAL LYS THR VAL PRO LYS ARG GLY TYR GLN LEU ILE ALA SEQRES 9 W 110 ARG VAL GLU THR VAL GLU SEQRES 1 X 110 MET LYS PHE ILE LEU ALA GLU LYS PHE THR PHE ASP PRO SEQRES 2 X 110 LEU SER ASN THR LEU ILE ASP LYS GLU ASP SER GLU GLU SEQRES 3 X 110 ILE ILE ARG LEU GLY SER ASN GLU SER ARG ILE LEU TRP SEQRES 4 X 110 LEU LEU ALA GLN ARG PRO ASN GLU VAL ILE SER ARG ASN SEQRES 5 X 110 ASP LEU HIS ASP PHE VAL TRP ARG GLU GLN GLY PHE GLU SEQRES 6 X 110 VAL ASP ASP SER SER LEU THR GLN ALA ILE SER THR LEU SEQRES 7 X 110 ARG LYS MET LEU LYS ASP SER THR LYS SER PRO GLN TYR SEQRES 8 X 110 VAL LYS THR VAL PRO LYS ARG GLY TYR GLN LEU ILE ALA SEQRES 9 X 110 ARG VAL GLU THR VAL GLU SEQRES 1 Y 110 MET LYS PHE ILE LEU ALA GLU LYS PHE THR PHE ASP PRO SEQRES 2 Y 110 LEU SER ASN THR LEU ILE ASP LYS GLU ASP SER GLU GLU SEQRES 3 Y 110 ILE ILE ARG LEU GLY SER ASN GLU SER ARG ILE LEU TRP SEQRES 4 Y 110 LEU LEU ALA GLN ARG PRO ASN GLU VAL ILE SER ARG ASN SEQRES 5 Y 110 ASP LEU HIS ASP PHE VAL TRP ARG GLU GLN GLY PHE GLU SEQRES 6 Y 110 VAL ASP ASP SER SER LEU THR GLN ALA ILE SER THR LEU SEQRES 7 Y 110 ARG LYS MET LEU LYS ASP SER THR LYS SER PRO GLN TYR SEQRES 8 Y 110 VAL LYS THR VAL PRO LYS ARG GLY TYR GLN LEU ILE ALA SEQRES 9 Y 110 ARG VAL GLU THR VAL GLU SEQRES 1 Z 110 MET LYS PHE ILE LEU ALA GLU LYS PHE THR PHE ASP PRO SEQRES 2 Z 110 LEU SER ASN THR LEU ILE ASP LYS GLU ASP SER GLU GLU SEQRES 3 Z 110 ILE ILE ARG LEU GLY SER ASN GLU SER ARG ILE LEU TRP SEQRES 4 Z 110 LEU LEU ALA GLN ARG PRO ASN GLU VAL ILE SER ARG ASN SEQRES 5 Z 110 ASP LEU HIS ASP PHE VAL TRP ARG GLU GLN GLY PHE GLU SEQRES 6 Z 110 VAL ASP ASP SER SER LEU THR GLN ALA ILE SER THR LEU SEQRES 7 Z 110 ARG LYS MET LEU LYS ASP SER THR LYS SER PRO GLN TYR SEQRES 8 Z 110 VAL LYS THR VAL PRO LYS ARG GLY TYR GLN LEU ILE ALA SEQRES 9 Z 110 ARG VAL GLU THR VAL GLU HET CD L 101 1 HET CD L 102 1 HET CD L 103 1 HET CD L 104 1 HET CD M 101 1 HET CD M 102 1 HET CD M 103 1 HET CD M 104 1 HET CD W 201 1 HET CD W 202 1 HET CD W 203 1 HET CD W 204 1 HET CD W 205 1 HET CD X 201 1 HET CD X 202 1 HET CD X 203 1 HET CD Y 201 1 HET CD Y 202 1 HET CD Y 203 1 HET NH4 Y 204 1 HET CD Z 201 1 HET CD Z 202 1 HET CD Z 203 1 HET CD Z 204 1 HET CD Z 205 1 HET NH4 Z 206 1 HETNAM CD CADMIUM ION HETNAM NH4 AMMONIUM ION FORMUL 7 CD 24(CD 2+) FORMUL 26 NH4 2(H4 N 1+) FORMUL 33 HOH *528(H2 O) HELIX 1 AA1 GLU W 27 SER W 29 5 3 HELIX 2 AA2 GLY W 36 ARG W 49 1 14 HELIX 3 AA3 SER W 55 TRP W 64 1 10 HELIX 4 AA4 ARG W 65 GLY W 68 5 4 HELIX 5 AA5 ASP W 73 LEU W 87 1 15 HELIX 6 AA6 GLU X 27 SER X 29 5 3 HELIX 7 AA7 GLY X 36 ARG X 49 1 14 HELIX 8 AA8 SER X 55 TRP X 64 1 10 HELIX 9 AA9 ASP X 73 LEU X 87 1 15 HELIX 10 AB1 GLU Y 27 SER Y 29 5 3 HELIX 11 AB2 GLY Y 36 ARG Y 49 1 14 HELIX 12 AB3 SER Y 55 TRP Y 64 1 10 HELIX 13 AB4 ASP Y 73 LEU Y 87 1 15 HELIX 14 AB5 GLU Z 27 SER Z 29 5 3 HELIX 15 AB6 GLY Z 36 ARG Z 49 1 14 HELIX 16 AB7 SER Z 55 TRP Z 64 1 10 HELIX 17 AB8 ARG Z 65 GLY Z 68 5 4 HELIX 18 AB9 ASP Z 73 LEU Z 87 1 15 SHEET 1 AA1 5 ILE W 32 ARG W 34 0 SHEET 2 AA1 5 THR W 22 ASP W 25 -1 N LEU W 23 O ILE W 33 SHEET 3 AA1 5 PHE W 14 ASP W 17 -1 N ASP W 17 O THR W 22 SHEET 4 AA1 5 PHE W 8 LEU W 10 -1 N PHE W 8 O PHE W 16 SHEET 5 AA1 5 VAL W 111 THR W 113 -1 O GLU W 112 N ILE W 9 SHEET 1 AA2 3 VAL W 53 ILE W 54 0 SHEET 2 AA2 3 GLY W 104 LEU W 107 -1 O TYR W 105 N ILE W 54 SHEET 3 AA2 3 VAL W 97 VAL W 100 -1 N LYS W 98 O GLN W 106 SHEET 1 AA3 5 ILE X 33 ARG X 34 0 SHEET 2 AA3 5 THR X 22 ASP X 25 -1 N LEU X 23 O ILE X 33 SHEET 3 AA3 5 PHE X 14 ASP X 17 -1 N ASP X 17 O THR X 22 SHEET 4 AA3 5 LYS X 7 LEU X 10 -1 N PHE X 8 O PHE X 16 SHEET 5 AA3 5 VAL X 111 VAL X 114 -1 O GLU X 112 N ILE X 9 SHEET 1 AA4 3 VAL X 53 ILE X 54 0 SHEET 2 AA4 3 GLY X 104 LEU X 107 -1 O TYR X 105 N ILE X 54 SHEET 3 AA4 3 VAL X 97 VAL X 100 -1 N LYS X 98 O GLN X 106 SHEET 1 AA5 5 ILE Y 33 ARG Y 34 0 SHEET 2 AA5 5 THR Y 22 ASP Y 25 -1 N LEU Y 23 O ILE Y 33 SHEET 3 AA5 5 PHE Y 14 ASP Y 17 -1 N ASP Y 17 O THR Y 22 SHEET 4 AA5 5 LYS Y 7 LEU Y 10 -1 N PHE Y 8 O PHE Y 16 SHEET 5 AA5 5 VAL Y 111 VAL Y 114 -1 O GLU Y 112 N ILE Y 9 SHEET 1 AA6 3 VAL Y 53 ILE Y 54 0 SHEET 2 AA6 3 GLY Y 104 LEU Y 107 -1 O TYR Y 105 N ILE Y 54 SHEET 3 AA6 3 VAL Y 97 VAL Y 100 -1 N LYS Y 98 O GLN Y 106 SHEET 1 AA7 5 ILE Z 32 ARG Z 34 0 SHEET 2 AA7 5 THR Z 22 ASP Z 25 -1 N LEU Z 23 O ILE Z 33 SHEET 3 AA7 5 PHE Z 14 ASP Z 17 -1 N ASP Z 17 O THR Z 22 SHEET 4 AA7 5 LYS Z 7 LEU Z 10 -1 N PHE Z 8 O PHE Z 16 SHEET 5 AA7 5 VAL Z 111 VAL Z 114 -1 O GLU Z 112 N ILE Z 9 SHEET 1 AA8 3 VAL Z 53 ILE Z 54 0 SHEET 2 AA8 3 GLY Z 104 LEU Z 107 -1 O TYR Z 105 N ILE Z 54 SHEET 3 AA8 3 VAL Z 97 VAL Z 100 -1 N LYS Z 98 O GLN Z 106 LINK N7 DG M 43 CD CD M 101 1555 1555 2.62 LINK O6 DG M 48 CD CD M 104 1555 1555 2.40 LINK CD CD M 101 O HOH M 246 1555 1555 2.66 LINK CD CD M 101 OG SER W 74 1555 1555 2.54 LINK OE1 GLU W 12 CD CD W 202 1555 1555 2.57 LINK OE2 GLU W 12 CD CD W 202 1555 1555 2.46 LINK OD1 ASN W 57 CD CD W 201 1555 1555 2.58 LINK OD1 ASP W 58 CD CD W 204 1555 1555 2.53 LINK OD2 ASP W 58 CD CD W 204 1555 1555 2.50 LINK OE2 GLU W 112 CD CD W 202 1555 1555 2.46 LINK CD CD W 202 O HOH W 370 1555 1555 2.64 LINK CD CD W 202 OD1 ASP Y 58 1645 1555 2.53 LINK CD CD W 202 OD2 ASP Y 58 1645 1555 2.51 LINK CD CD W 204 O HOH W 373 1555 1555 2.42 LINK CD CD W 204 OE1 GLU Y 12 1545 1555 2.40 LINK CD CD W 204 OE2 GLU Y 12 1545 1555 2.69 LINK CD CD W 204 OE1 GLU Y 112 1545 1555 2.53 LINK CD CD W 204 OE2 GLU Y 112 1545 1555 2.67 LINK OE1 GLU X 12 CD CD X 201 1555 1555 2.40 LINK OE2 GLU X 12 CD CD X 201 1555 1555 2.69 LINK OD1 ASN X 57 CD CD X 202 1555 1555 2.43 LINK OD1 ASP X 58 CD CD Z 202 1555 1565 2.55 LINK OD2 ASP X 58 CD CD Z 202 1555 1565 2.43 LINK NE2 HIS X 60 CD CD X 203 1555 1555 2.35 LINK OD1 ASP X 61 CD CD X 202 1555 1555 2.58 LINK OD2 ASP X 61 CD CD X 202 1555 1555 2.60 LINK OD2 ASP X 72 CD CD X 203 1555 1555 2.52 LINK OE2 GLU X 112 CD CD X 201 1555 1555 2.48 LINK CD CD X 201 O HOH X 380 1555 1555 2.40 LINK CD CD X 201 OD1 ASP Z 58 1645 1555 2.57 LINK CD CD X 201 OD2 ASP Z 58 1645 1555 2.64 LINK CD CD X 202 O HOH X 369 1555 1555 2.70 LINK CD CD X 202 O HOH X 381 1555 1555 2.60 LINK CD CD X 202 O HOH X 383 1555 1555 2.65 LINK CD CD X 203 O HOH X 301 1555 1555 2.67 LINK CD CD X 203 O HOH X 382 1555 1555 2.69 LINK OD1 ASN Y 57 CD CD Y 201 1555 1555 2.38 LINK NE2 HIS Y 60 CD CD Y 202 1555 1555 2.38 LINK OD1 ASP Y 61 CD CD Y 201 1555 1555 2.64 LINK OD2 ASP Y 61 CD CD Y 201 1555 1555 2.55 LINK OE1 GLU Y 66 CD CD Y 201 1555 1555 2.55 LINK OD2 ASP Y 72 CD CD Y 202 1555 1555 2.64 LINK CD CD Y 201 O HOH Y 342 1555 1555 2.65 LINK CD CD Y 201 O HOH Y 371 1555 1555 2.39 LINK CD CD Y 202 O HOH Y 302 1555 1555 2.69 LINK OE1 GLU Z 12 CD CD Z 202 1555 1555 2.56 LINK OE2 GLU Z 12 CD CD Z 202 1555 1555 2.51 LINK OE1 GLU Z 112 CD CD Z 202 1555 1555 2.62 LINK OE2 GLU Z 112 CD CD Z 202 1555 1555 2.58 CRYST1 55.343 60.975 61.329 87.52 89.99 62.96 P 1 4 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 0.018069 -0.009223 0.000445 0.00000 SCALE2 0.000000 0.018413 -0.000894 0.00000 SCALE3 0.000000 0.000000 0.016325 0.00000