HEADER HYDROLASE 05-FEB-22 7TVO TITLE VIRAL AMG CHITOSANASE V-CSN, E157Q MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: VIRAL CHITOSANASE V-CSN E157Q MUTANT; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 OTHER_DETAILS: N-TERMINAL SH FROM EXPRESSION TAG SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: UNCLASSIFIED SEQUENCES; SOURCE 3 ORGANISM_TAXID: 12908; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GLYCOSYL HYDROLASE, CHITOSANASE, VIRAL AUXILIARY METABOLIC GENE, KEYWDS 2 MUTANT, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.A.SMITH,R.WU,G.W.BUCHKO,J.R.CORT,K.S.HOFMOCKEL,J.K.JANSSON REVDAT 2 18-OCT-23 7TVO 1 REMARK REVDAT 1 05-OCT-22 7TVO 0 JRNL AUTH R.WU,C.A.SMITH,G.W.BUCHKO,I.K.BLABY,D.PAEZ-ESPINO, JRNL AUTH 2 N.C.KYRPIDES,Y.YOSHIKUNI,J.E.MCDERMOTT,K.S.HOFMOCKEL, JRNL AUTH 3 J.R.CORT,J.K.JANSSON JRNL TITL STRUCTURAL CHARACTERIZATION OF A SOIL VIRAL AUXILIARY JRNL TITL 2 METABOLIC GENE PRODUCT - A FUNCTIONAL CHITOSANASE. JRNL REF NAT COMMUN V. 13 5485 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 36123347 JRNL DOI 10.1038/S41467-022-32993-8 REMARK 2 REMARK 2 RESOLUTION. 1.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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) : 1.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.12 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 3 NUMBER OF REFLECTIONS : 76177 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.119 REMARK 3 R VALUE (WORKING SET) : 0.119 REMARK 3 FREE R VALUE : 0.135 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.930 REMARK 3 FREE R VALUE TEST SET COUNT : 3757 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 37.1200 - 3.4500 0.96 2841 147 0.1419 0.1619 REMARK 3 2 3.4500 - 2.7400 0.98 2840 171 0.1226 0.1187 REMARK 3 3 2.7400 - 2.3900 0.95 2708 154 0.1308 0.1310 REMARK 3 4 2.3900 - 2.1700 0.96 2766 141 0.1190 0.1316 REMARK 3 5 2.1700 - 2.0200 0.97 2819 140 0.1100 0.1297 REMARK 3 6 2.0200 - 1.9000 0.97 2739 149 0.1083 0.1196 REMARK 3 7 1.9000 - 1.8000 0.97 2807 157 0.1071 0.1206 REMARK 3 8 1.8000 - 1.7200 0.93 2643 160 0.1162 0.1378 REMARK 3 9 1.7200 - 1.6600 0.93 2668 148 0.1090 0.1326 REMARK 3 10 1.6600 - 1.6000 0.96 2708 141 0.1029 0.1276 REMARK 3 11 1.6000 - 1.5500 0.95 2699 154 0.1003 0.1222 REMARK 3 12 1.5500 - 1.5100 0.95 2758 149 0.0938 0.1184 REMARK 3 13 1.5100 - 1.4700 0.95 2691 145 0.0959 0.1273 REMARK 3 14 1.4700 - 1.4300 0.95 2712 139 0.1033 0.1494 REMARK 3 15 1.4300 - 1.4000 0.91 2570 146 0.1203 0.1658 REMARK 3 16 1.4000 - 1.3700 0.94 2711 121 0.1201 0.1219 REMARK 3 17 1.3700 - 1.3400 0.95 2713 112 0.1124 0.1192 REMARK 3 18 1.3400 - 1.3200 0.94 2661 135 0.1094 0.1298 REMARK 3 19 1.3200 - 1.2900 0.94 2702 122 0.1087 0.1226 REMARK 3 20 1.2900 - 1.2700 0.93 2667 146 0.1080 0.1468 REMARK 3 21 1.2700 - 1.2500 0.92 2621 122 0.1167 0.1329 REMARK 3 22 1.2500 - 1.2300 0.92 2632 113 0.1162 0.1538 REMARK 3 23 1.2300 - 1.2100 0.89 2528 132 0.1250 0.1791 REMARK 3 24 1.2100 - 1.2000 0.91 2577 141 0.1269 0.1345 REMARK 3 25 1.2000 - 1.1800 0.89 2543 135 0.1309 0.1748 REMARK 3 26 1.1800 - 1.1600 0.89 2541 127 0.1333 0.1507 REMARK 3 27 1.1600 - 1.1500 0.88 2555 110 0.1372 0.1496 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) : 0.070 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 11.540 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.96 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 7TVO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-FEB-22. REMARK 100 THE DEPOSITION ID IS D_1000262986. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-OCT-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97946 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 : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 76188 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.150 REMARK 200 RESOLUTION RANGE LOW (A) : 37.120 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.17 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.5 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 : 5.100 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: PDB ENTRY 7TVL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM SULFATE, 0.1 M SODIUM REMARK 280 ACETATE, PH 4.6, 30% PEG2000 MME, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 295K 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 54.29200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.71700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 54.29200 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.71700 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 A 682 LIES ON A SPECIAL POSITION. 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 VAL A 191 -64.89 -139.17 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 A 694 DISTANCE = 6.56 ANGSTROMS DBREF 7TVO A -1 224 PDB 7TVO 7TVO -1 224 SEQRES 1 A 226 SER HIS MET SER GLU LEU SER GLU ILE ASP SER VAL ALA SEQRES 2 A 226 GLY VAL THR ILE TYR SER VAL ASP GLY GLU PRO LYS SER SEQRES 3 A 226 PHE VAL TYR LYS ALA GLY PHE ALA ILE ASP ALA ASP GLY SEQRES 4 A 226 ALA PRO ASN ALA TYR ALA PRO ASN ASN GLY GLY THR ASP SEQRES 5 A 226 PHE THR ALA ASN GLY GLY ASP ASP GLN GLY GLY ASP TRP SEQRES 6 A 226 TRP GLY GLY PRO VAL ASP ALA GLU GLY TYR PRO ILE LYS SEQRES 7 A 226 GLN LYS ILE PHE ASP PRO PHE PRO GLY TYR TYR VAL SER SEQRES 8 A 226 ALA THR ALA HIS PHE ASN PRO ALA TYR SER GLU ASP SER SEQRES 9 A 226 PRO TYR ARG TYR ILE ASP SER ASN SER ILE PRO PHE ILE SEQRES 10 A 226 VAL LEU PRO GLY ASN HIS SER ASN GLY ALA LYS LEU GLY SEQRES 11 A 226 ASP VAL ALA LEU VAL TYR ASN GLU LYS THR GLY ASP ASN SEQRES 12 A 226 CYS TYR ALA ILE TYR GLY ASP VAL GLY PRO SER SER LYS SEQRES 13 A 226 ILE GLY GLN GLY SER VAL ARG LEU ALA GLN ALA LEU LYS SEQRES 14 A 226 ILE ASP ASP ASN PRO LYS ALA GLY GLY THR GLU SER ARG SEQRES 15 A 226 ILE VAL VAL THR LEU VAL PHE PRO GLY SER VAL GLY LYS SEQRES 16 A 226 TRP GLU THR PRO LYS ARG TRP PHE SER HIS ALA ASN GLN SEQRES 17 A 226 LEU THR LYS ALA TRP GLY GLY LEU SER ARG LEU LYS THR SEQRES 18 A 226 LEU SER ASP GLN LEU HET GOL A 301 12 HET GOL A 302 6 HET GOL A 303 6 HET GOL A 304 6 HET SO4 A 305 5 HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 4(C3 H8 O3) FORMUL 6 SO4 O4 S 2- FORMUL 7 HOH *294(H2 O) HELIX 1 AA1 ALA A 43 GLY A 47 5 5 HELIX 2 AA2 PHE A 51 GLY A 56 5 6 HELIX 3 AA3 SER A 102 TYR A 106 5 5 HELIX 4 AA4 VAL A 160 LYS A 167 1 8 HELIX 5 AA5 THR A 196 GLY A 212 1 17 HELIX 6 AA6 GLY A 212 ASP A 222 1 11 SHEET 1 AA1 9 LEU A 4 VAL A 10 0 SHEET 2 AA1 9 VAL A 13 VAL A 18 -1 O SER A 17 N SER A 5 SHEET 3 AA1 9 SER A 24 ASP A 34 -1 O VAL A 26 N TYR A 16 SHEET 4 AA1 9 THR A 177 VAL A 186 -1 O VAL A 186 N PHE A 25 SHEET 5 AA1 9 VAL A 130 ASN A 135 -1 N TYR A 134 O VAL A 183 SHEET 6 AA1 9 ASN A 141 GLY A 150 -1 O CYS A 142 N VAL A 133 SHEET 7 AA1 9 PHE A 114 PRO A 118 1 N ILE A 115 O ILE A 145 SHEET 8 AA1 9 GLN A 157 SER A 159 -1 O GLN A 157 N VAL A 116 SHEET 9 AA1 9 SER A 24 ASP A 34 1 N ASP A 34 O GLY A 158 CISPEP 1 GLU A 21 PRO A 22 0 -6.59 CRYST1 108.584 47.434 45.460 90.00 97.89 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 0.009209 0.000000 0.001276 0.00000 SCALE2 0.000000 0.021082 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022208 0.00000