HEADER TRANSFERASE 08-JAN-15 4XJ1 TITLE CRYSTAL STRUCTURE OF VIBRIO CHOLERAE DNCV APO FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLIC AMP-GMP SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-215, 242-412; COMPND 5 SYNONYM: C-AMP-GMP SYNTHASE,DINUCLEOTIDE CYCLASE DNCV; COMPND 6 EC: 2.7.7.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE O1 BIOVAR EL TOR STR. N16961; SOURCE 3 ORGANISM_TAXID: 243277; SOURCE 4 STRAIN: N16961; SOURCE 5 GENE: DNCV, VC_0179; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CYCLIC GMP-AMP SYNTHASE, BACTERIAL VIRULENCE, NUCLEOTIDYLTRANSFERASE, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.KATO,R.ISHII,R.ISHITANI,O.NUREKI REVDAT 3 05-FEB-20 4XJ1 1 SOURCE JRNL REMARK REVDAT 2 20-MAY-15 4XJ1 1 JRNL REVDAT 1 29-APR-15 4XJ1 0 JRNL AUTH K.KATO,R.ISHII,S.HIRANO,R.ISHITANI,O.NUREKI JRNL TITL STRUCTURAL BASIS FOR THE CATALYTIC MECHANISM OF DNCV, JRNL TITL 2 BACTERIAL HOMOLOG OF CYCLIC GMP-AMP SYNTHASE JRNL REF STRUCTURE V. 23 843 2015 JRNL REFN ISSN 0969-2126 JRNL PMID 25865248 JRNL DOI 10.1016/J.STR.2015.01.023 REMARK 2 REMARK 2 RESOLUTION. 1.77 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1692) 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) : 1.77 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.33 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 41260 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.710 REMARK 3 FREE R VALUE TEST SET COUNT : 1945 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 47.3458 - 5.3696 0.99 2802 138 0.1785 0.1937 REMARK 3 2 5.3696 - 4.2629 1.00 2827 144 0.1474 0.1336 REMARK 3 3 4.2629 - 3.7243 1.00 2848 142 0.1536 0.1952 REMARK 3 4 3.7243 - 3.3838 1.00 2831 142 0.1825 0.2170 REMARK 3 5 3.3838 - 3.1414 1.00 2839 146 0.1863 0.2325 REMARK 3 6 3.1414 - 2.9562 1.00 2810 133 0.1978 0.2297 REMARK 3 7 2.9562 - 2.8082 1.00 2844 132 0.2039 0.1953 REMARK 3 8 2.8082 - 2.6859 1.00 2826 155 0.1895 0.2056 REMARK 3 9 2.6859 - 2.5825 1.00 2859 137 0.1913 0.2169 REMARK 3 10 2.5825 - 2.4934 1.00 2799 152 0.1833 0.2195 REMARK 3 11 2.4934 - 2.4155 1.00 2819 128 0.1807 0.1988 REMARK 3 12 2.4155 - 2.3464 1.00 2858 131 0.1706 0.2193 REMARK 3 13 2.3464 - 2.2846 1.00 2851 141 0.1745 0.1791 REMARK 3 14 2.2846 - 2.2289 1.00 2784 128 0.1699 0.2011 REMARK 3 15 2.2289 - 2.1782 0.99 2833 158 0.1726 0.2191 REMARK 3 16 2.1782 - 2.1319 0.99 2808 150 0.1764 0.2240 REMARK 3 17 2.1319 - 2.0892 0.99 2767 118 0.1835 0.2232 REMARK 3 18 2.0892 - 2.0498 0.99 2876 147 0.1826 0.1940 REMARK 3 19 2.0498 - 2.0132 0.99 2781 140 0.1887 0.1917 REMARK 3 20 2.0132 - 1.9791 0.99 2815 137 0.1846 0.2282 REMARK 3 21 1.9791 - 1.9472 0.99 2839 137 0.1843 0.2322 REMARK 3 22 1.9472 - 1.9172 0.99 2814 133 0.1992 0.2224 REMARK 3 23 1.9172 - 1.8890 0.99 2766 135 0.1940 0.2286 REMARK 3 24 1.8890 - 1.8624 0.99 2815 138 0.2056 0.2579 REMARK 3 25 1.8624 - 1.8372 0.99 2832 133 0.2207 0.2619 REMARK 3 26 1.8372 - 1.8134 0.99 2759 152 0.2291 0.2502 REMARK 3 27 1.8134 - 1.7907 0.99 2829 128 0.2377 0.2895 REMARK 3 28 1.7907 - 1.7691 0.87 2496 135 0.2614 0.2643 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.690 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 : 0.010 2995 REMARK 3 ANGLE : 1.137 4041 REMARK 3 CHIRALITY : 0.049 447 REMARK 3 PLANARITY : 0.005 523 REMARK 3 DIHEDRAL : 13.024 1120 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 117 ) REMARK 3 ORIGIN FOR THE GROUP (A): 41.9491 25.7874 71.9918 REMARK 3 T TENSOR REMARK 3 T11: 0.3958 T22: 0.5376 REMARK 3 T33: 0.2410 T12: -0.1971 REMARK 3 T13: -0.0000 T23: 0.0678 REMARK 3 L TENSOR REMARK 3 L11: 0.9948 L22: 1.5073 REMARK 3 L33: 3.6419 L12: 0.9839 REMARK 3 L13: -1.9644 L23: -2.9113 REMARK 3 S TENSOR REMARK 3 S11: 0.1384 S12: -0.5396 S13: -0.1774 REMARK 3 S21: 0.1350 S22: -0.4014 S23: -0.0544 REMARK 3 S31: -0.1496 S32: 0.6262 S33: 0.2212 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 118 THROUGH 150 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.4591 24.9463 64.0529 REMARK 3 T TENSOR REMARK 3 T11: 0.3695 T22: 0.4236 REMARK 3 T33: 0.3273 T12: -0.0696 REMARK 3 T13: 0.0565 T23: 0.0375 REMARK 3 L TENSOR REMARK 3 L11: 1.5705 L22: 1.5352 REMARK 3 L33: 3.7522 L12: -1.0806 REMARK 3 L13: 0.3103 L23: -1.6242 REMARK 3 S TENSOR REMARK 3 S11: 0.0252 S12: -0.5035 S13: -0.4354 REMARK 3 S21: 0.1529 S22: -0.0429 S23: 0.3894 REMARK 3 S31: 0.4176 S32: 0.0664 S33: 0.0104 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 151 THROUGH 277 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.1474 23.9138 65.0670 REMARK 3 T TENSOR REMARK 3 T11: 0.2593 T22: 0.3625 REMARK 3 T33: 0.2561 T12: -0.0733 REMARK 3 T13: -0.0221 T23: 0.0529 REMARK 3 L TENSOR REMARK 3 L11: 1.5609 L22: 1.3052 REMARK 3 L33: 4.5719 L12: 0.7348 REMARK 3 L13: -1.3425 L23: -0.7335 REMARK 3 S TENSOR REMARK 3 S11: 0.2004 S12: -0.4679 S13: -0.1716 REMARK 3 S21: 0.2562 S22: -0.3290 S23: 0.1009 REMARK 3 S31: 0.0861 S32: -0.0567 S33: 0.0837 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 278 THROUGH 412 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.2678 35.3372 40.1382 REMARK 3 T TENSOR REMARK 3 T11: 0.1338 T22: 0.1006 REMARK 3 T33: 0.1325 T12: 0.0207 REMARK 3 T13: -0.0262 T23: -0.0363 REMARK 3 L TENSOR REMARK 3 L11: 2.4929 L22: 1.8952 REMARK 3 L33: 1.2808 L12: 1.0958 REMARK 3 L13: -0.4656 L23: -0.3922 REMARK 3 S TENSOR REMARK 3 S11: 0.0575 S12: 0.0257 S13: -0.0536 REMARK 3 S21: 0.0096 S22: -0.0914 S23: 0.0666 REMARK 3 S31: 0.0427 S32: -0.0257 S33: 0.0317 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 4XJ1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 15-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000205763. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-OCT-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97906 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42361 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.770 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 15.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 60.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: NULL REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3350, SODIUM FLUORIDE, BIS-TRIS REMARK 280 PROPANE, PH 6.5, VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 59.49900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.37100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 59.49900 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 25.37100 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: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1113 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1117 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1182 LIES ON A SPECIAL POSITION. 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 MSE A 1 REMARK 465 GLU A 203 REMARK 465 PHE A 204 REMARK 465 GLN A 205 REMARK 465 LYS A 206 REMARK 465 LYS A 207 REMARK 465 GLN A 208 REMARK 465 ILE A 209 REMARK 465 ALA A 210 REMARK 465 LEU A 211 REMARK 465 GLU A 212 REMARK 465 ALA A 213 REMARK 465 ASN A 214 REMARK 465 ARG A 215 REMARK 465 GLY A 239 REMARK 465 SER A 240 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 ARG A 2 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 27 CG CD OE1 OE2 REMARK 470 LYS A 59 CG CD CE NZ REMARK 470 GLU A 144 CG CD OE1 OE2 REMARK 470 LYS A 173 CG CD CE NZ REMARK 470 LYS A 184 CG CD CE NZ REMARK 470 LYS A 201 CG CD CE NZ REMARK 470 GLU A 243 CG CD OE1 OE2 REMARK 470 GLU A 251 CG CD OE1 OE2 REMARK 470 ARG A 254 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 262 CG CD CE NZ REMARK 470 GLU A 349 CG CD OE1 OE2 REMARK 470 LYS A 350 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 OG SER A 80 O HOH A 1101 2.13 REMARK 500 O HOH A 1255 O HOH A 1290 2.15 REMARK 500 OD2 ASP A 384 O HOH A 1102 2.17 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 ASP A 16 19.52 -144.04 REMARK 500 PHE A 124 -70.88 -102.57 REMARK 500 ILE A 149 -62.82 78.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1004 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4XJ3 RELATED DB: PDB REMARK 900 RELATED ID: 4XJ4 RELATED DB: PDB REMARK 900 RELATED ID: 4XJ5 RELATED DB: PDB REMARK 900 RELATED ID: 4XJ6 RELATED DB: PDB DBREF 4XJ1 A 1 215 UNP Q9KVG7 DNCV_VIBCH 1 215 DBREF 4XJ1 A 242 412 UNP Q9KVG7 DNCV_VIBCH 242 412 SEQADV 4XJ1 GLY A 239 UNP Q9KVG7 LINKER SEQADV 4XJ1 SER A 240 UNP Q9KVG7 LINKER SEQADV 4XJ1 GLY A 241 UNP Q9KVG7 LINKER SEQRES 1 A 389 MSE ARG MSE THR TRP ASN PHE HIS GLN TYR TYR THR ASN SEQRES 2 A 389 ARG ASN ASP GLY LEU MSE GLY LYS LEU VAL LEU THR ASP SEQRES 3 A 389 GLU GLU LYS ASN ASN LEU LYS ALA LEU ARG LYS ILE ILE SEQRES 4 A 389 ARG LEU ARG THR ARG ASP VAL PHE GLU GLU ALA LYS GLY SEQRES 5 A 389 ILE ALA LYS ALA VAL LYS LYS SER ALA LEU THR PHE GLU SEQRES 6 A 389 ILE ILE GLN GLU LYS VAL SER THR THR GLN ILE LYS HIS SEQRES 7 A 389 LEU SER ASP SER GLU GLN ARG GLU VAL ALA LYS LEU ILE SEQRES 8 A 389 TYR GLU MSE ASP ASP ASP ALA ARG ASP GLU PHE LEU GLY SEQRES 9 A 389 LEU THR PRO ARG PHE TRP THR GLN GLY SER PHE GLN TYR SEQRES 10 A 389 ASP THR LEU ASN ARG PRO PHE GLN PRO GLY GLN GLU MSE SEQRES 11 A 389 ASP ILE ASP ASP GLY THR TYR MSE PRO MSE PRO ILE PHE SEQRES 12 A 389 GLU SER GLU PRO LYS ILE GLY HIS SER LEU LEU ILE LEU SEQRES 13 A 389 LEU VAL ASP ALA SER LEU LYS SER LEU VAL ALA GLU ASN SEQRES 14 A 389 HIS GLY TRP LYS PHE GLU ALA LYS GLN THR CYS GLY ARG SEQRES 15 A 389 ILE LYS ILE GLU ALA GLU LYS THR HIS ILE ASP VAL PRO SEQRES 16 A 389 MSE TYR ALA ILE PRO LYS ASP GLU PHE GLN LYS LYS GLN SEQRES 17 A 389 ILE ALA LEU GLU ALA ASN ARG GLY SER GLY SER GLU ASN SEQRES 18 A 389 VAL ASN LEU ALA LEU ARG GLU GLY ASP ARG LYS TRP ILE SEQRES 19 A 389 ASN SER ASP PRO LYS ILE VAL GLU ASP TRP PHE ASN ASP SEQRES 20 A 389 SER CYS ILE ARG ILE GLY LYS HIS LEU ARG LYS VAL CYS SEQRES 21 A 389 ARG PHE MSE LYS ALA TRP ARG ASP ALA GLN TRP ASP VAL SEQRES 22 A 389 GLY GLY PRO SER SER ILE SER LEU MSE ALA ALA THR VAL SEQRES 23 A 389 ASN ILE LEU ASP SER VAL ALA HIS ASP ALA SER ASP LEU SEQRES 24 A 389 GLY GLU THR MSE LYS ILE ILE ALA LYS HIS LEU PRO SER SEQRES 25 A 389 GLU PHE ALA ARG GLY VAL GLU SER PRO ASP SER THR ASP SEQRES 26 A 389 GLU LYS PRO LEU PHE PRO PRO SER TYR LYS HIS GLY PRO SEQRES 27 A 389 ARG GLU MSE ASP ILE MSE SER LYS LEU GLU ARG LEU PRO SEQRES 28 A 389 GLU ILE LEU SER SER ALA GLU SER ALA ASP SER LYS SER SEQRES 29 A 389 GLU ALA LEU LYS LYS ILE ASN MSE ALA PHE GLY ASN ARG SEQRES 30 A 389 VAL THR ASN SER GLU LEU ILE VAL LEU ALA LYS ALA MODRES 4XJ1 MSE A 3 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 19 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 94 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 130 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 138 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 140 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 196 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 286 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 305 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 326 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 364 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 367 MET MODIFIED RESIDUE MODRES 4XJ1 MSE A 395 MET MODIFIED RESIDUE HET MSE A 3 8 HET MSE A 19 8 HET MSE A 94 8 HET MSE A 130 8 HET MSE A 138 8 HET MSE A 140 8 HET MSE A 196 8 HET MSE A 286 8 HET MSE A 305 8 HET MSE A 326 8 HET MSE A 364 8 HET MSE A 367 8 HET MSE A 395 8 HET EDO A1001 4 HET EDO A1002 4 HET EDO A1003 4 HET EDO A1004 4 HETNAM MSE SELENOMETHIONINE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 13(C5 H11 N O2 SE) FORMUL 2 EDO 4(C2 H6 O2) FORMUL 6 HOH *233(H2 O) HELIX 1 AA1 PHE A 7 ASN A 13 1 7 HELIX 2 AA2 GLY A 17 VAL A 23 1 7 HELIX 3 AA3 THR A 25 SER A 60 1 36 HELIX 4 AA4 THR A 63 SER A 72 1 10 HELIX 5 AA5 THR A 73 LEU A 79 5 7 HELIX 6 AA6 SER A 80 MSE A 94 1 15 HELIX 7 AA7 ASP A 95 GLY A 104 1 10 HELIX 8 AA8 GLY A 113 ASP A 118 1 6 HELIX 9 AA9 GLY A 150 ASN A 169 1 20 HELIX 10 AB1 GLU A 186 GLU A 188 5 3 HELIX 11 AB2 PRO A 261 GLY A 276 1 16 HELIX 12 AB3 LYS A 277 TRP A 294 1 18 HELIX 13 AB4 SER A 300 VAL A 315 1 16 HELIX 14 AB5 ASP A 321 ARG A 339 1 19 HELIX 15 AB6 PRO A 355 HIS A 359 5 5 HELIX 16 AB7 GLY A 360 SER A 382 1 23 HELIX 17 AB8 SER A 385 GLY A 398 1 14 HELIX 18 AB9 ASN A 403 ILE A 407 5 5 SHEET 1 AA1 2 MSE A 3 ASN A 6 0 SHEET 2 AA1 2 VAL A 408 LYS A 411 -1 O ALA A 410 N THR A 4 SHEET 1 AA2 5 ARG A 108 GLN A 112 0 SHEET 2 AA2 5 MSE A 130 PRO A 139 -1 O TYR A 137 N ARG A 108 SHEET 3 AA2 5 THR A 190 VAL A 194 1 O ASP A 193 N ILE A 132 SHEET 4 AA2 5 GLY A 181 ILE A 185 -1 N GLY A 181 O VAL A 194 SHEET 5 AA2 5 LYS A 173 ALA A 176 -1 N LYS A 173 O LYS A 184 SHEET 1 AA3 5 ARG A 108 GLN A 112 0 SHEET 2 AA3 5 MSE A 130 PRO A 139 -1 O TYR A 137 N ARG A 108 SHEET 3 AA3 5 MSE A 196 ILE A 199 1 O TYR A 197 N THR A 136 SHEET 4 AA3 5 ASN A 246 ALA A 248 -1 O ASN A 246 N ALA A 198 SHEET 5 AA3 5 TRP A 256 ASN A 258 -1 O ILE A 257 N LEU A 247 LINK C ARG A 2 N MSE A 3 1555 1555 1.33 LINK C MSE A 3 N THR A 4 1555 1555 1.32 LINK C LEU A 18 N MSE A 19 1555 1555 1.33 LINK C MSE A 19 N GLY A 20 1555 1555 1.33 LINK C GLU A 93 N MSE A 94 1555 1555 1.33 LINK C MSE A 94 N ASP A 95 1555 1555 1.33 LINK C GLU A 129 N MSE A 130 1555 1555 1.32 LINK C MSE A 130 N ASP A 131 1555 1555 1.33 LINK C TYR A 137 N MSE A 138 1555 1555 1.33 LINK C MSE A 138 N PRO A 139 1555 1555 1.34 LINK C PRO A 139 N MSE A 140 1555 1555 1.33 LINK C MSE A 140 N PRO A 141 1555 1555 1.34 LINK C PRO A 195 N MSE A 196 1555 1555 1.32 LINK C MSE A 196 N TYR A 197 1555 1555 1.33 LINK C PHE A 285 N MSE A 286 1555 1555 1.33 LINK C MSE A 286 N LYS A 287 1555 1555 1.34 LINK C LEU A 304 N MSE A 305 1555 1555 1.33 LINK C MSE A 305 N ALA A 306 1555 1555 1.33 LINK C THR A 325 N MSE A 326 1555 1555 1.33 LINK C MSE A 326 N LYS A 327 1555 1555 1.33 LINK C GLU A 363 N MSE A 364 1555 1555 1.33 LINK C MSE A 364 N ASP A 365 1555 1555 1.34 LINK C ILE A 366 N MSE A 367 1555 1555 1.34 LINK C MSE A 367 N SER A 368 1555 1555 1.33 LINK C ASN A 394 N MSE A 395 1555 1555 1.32 LINK C MSE A 395 N ALA A 396 1555 1555 1.33 SITE 1 AC1 7 MSE A 3 THR A 4 TRP A 5 GLU A 381 SITE 2 AC1 7 SER A 382 ALA A 383 LEU A 409 SITE 1 AC2 5 ASN A 121 PRO A 123 GLU A 129 ASP A 291 SITE 2 AC2 5 HOH A1222 SITE 1 AC3 5 PRO A 354 GLU A 363 ILE A 366 HOH A1112 SITE 2 AC3 5 HOH A1306 SITE 1 AC4 3 PRO A 334 GLU A 371 HOH A1266 CRYST1 118.998 50.742 73.072 90.00 93.07 90.00 C 1 2 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 0.008404 0.000000 0.000450 0.00000 SCALE2 0.000000 0.019708 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013705 0.00000