HEADER HYDROLASE 13-AUG-15 5D74 TITLE THE CRYSTAL STRUCTURE OF LY7917 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE PHAGE LYSIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: LYSIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PHAGE PHI7917; SOURCE 3 ORGANISM_COMMON: STREPTOCOCCUS SUIS PHAGE PHI7917; SOURCE 4 ORGANISM_TAXID: 1289598; SOURCE 5 GENE: PHI7917_002; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PSJ2 KEYWDS ENDOLYSIN, PROPHAGE, LYTIC ACTIVITY, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.WU,W.H.JI,J.H.SUN,J.H.ZHOU REVDAT 3 20-MAR-24 5D74 1 REMARK REVDAT 2 27-SEP-17 5D74 1 REMARK REVDAT 1 17-AUG-16 5D74 0 JRNL AUTH L.WU,W.H.JI,J.H.SUN,J.H.ZHOU JRNL TITL THE CRYSTAL STRUCTURE OF LY7917 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.64 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 46869 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 2368 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 34.6490 - 4.8781 1.00 2827 143 0.1624 0.1759 REMARK 3 2 4.8781 - 3.8735 1.00 2728 119 0.1432 0.1507 REMARK 3 3 3.8735 - 3.3844 1.00 2682 171 0.1672 0.1939 REMARK 3 4 3.3844 - 3.0751 1.00 2653 139 0.1943 0.2281 REMARK 3 5 3.0751 - 2.8548 1.00 2673 137 0.2095 0.2830 REMARK 3 6 2.8548 - 2.6866 1.00 2645 150 0.2219 0.2341 REMARK 3 7 2.6866 - 2.5521 1.00 2669 142 0.2139 0.2545 REMARK 3 8 2.5521 - 2.4410 0.99 2621 131 0.2103 0.2633 REMARK 3 9 2.4410 - 2.3471 1.00 2677 128 0.2031 0.2447 REMARK 3 10 2.3471 - 2.2661 1.00 2632 139 0.2161 0.2705 REMARK 3 11 2.2661 - 2.1953 1.00 2618 152 0.2198 0.2653 REMARK 3 12 2.1953 - 2.1325 1.00 2616 147 0.2255 0.2794 REMARK 3 13 2.1325 - 2.0764 1.00 2614 148 0.2279 0.2924 REMARK 3 14 2.0764 - 2.0257 0.98 2615 136 0.2376 0.3025 REMARK 3 15 2.0257 - 1.9797 0.97 2543 140 0.2428 0.2892 REMARK 3 16 1.9797 - 1.9376 0.94 2434 128 0.2622 0.3389 REMARK 3 17 1.9376 - 1.8988 0.85 2254 118 0.2626 0.3292 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) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.170 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 : 0.007 3636 REMARK 3 ANGLE : 1.011 4964 REMARK 3 CHIRALITY : 0.042 541 REMARK 3 PLANARITY : 0.004 646 REMARK 3 DIHEDRAL : 12.369 1264 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 5D74 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000212772. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-DEC-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5-7.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97852 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47363 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 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 (%) : 99.8 REMARK 200 DATA REDUNDANCY : 13.10 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 11.90 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: SAD REMARK 200 SOFTWARE USED: SHELXDE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS, 0.8M LICL, PH 7.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 87.33400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 87.33400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 35.00450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 48.85050 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 35.00450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 48.85050 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 87.33400 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 35.00450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 48.85050 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 87.33400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 35.00450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 48.85050 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 613 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 MET A -27 REMARK 465 GLY A -26 REMARK 465 SER A -25 REMARK 465 HIS A -24 REMARK 465 HIS A -23 REMARK 465 HIS A -22 REMARK 465 HIS A -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 GLY A -16 REMARK 465 SER A -15 REMARK 465 ASP A -14 REMARK 465 TYR A -13 REMARK 465 ASP A -12 REMARK 465 ILE A -11 REMARK 465 PRO A -10 REMARK 465 THR A -9 REMARK 465 THR A -8 REMARK 465 GLU A -7 REMARK 465 ASN A -6 REMARK 465 LEU A -5 REMARK 465 TYR A -4 REMARK 465 PHE A -3 REMARK 465 ASN A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 GLY A 149 REMARK 465 THR A 150 REMARK 465 VAL A 151 REMARK 465 THR A 152 REMARK 465 GLN A 153 REMARK 465 THR A 154 REMARK 465 ALA A 155 REMARK 465 PRO A 156 REMARK 465 THR A 157 REMARK 465 SER A 158 REMARK 465 ALA A 159 REMARK 465 GLY A 160 REMARK 465 MET B -27 REMARK 465 GLY B -26 REMARK 465 SER B -25 REMARK 465 HIS B -24 REMARK 465 HIS B -23 REMARK 465 HIS B -22 REMARK 465 HIS B -21 REMARK 465 HIS B -20 REMARK 465 HIS B -19 REMARK 465 HIS B -18 REMARK 465 HIS B -17 REMARK 465 GLY B -16 REMARK 465 SER B -15 REMARK 465 ASP B -14 REMARK 465 TYR B -13 REMARK 465 ASP B -12 REMARK 465 ILE B -11 REMARK 465 PRO B -10 REMARK 465 THR B -9 REMARK 465 THR B -8 REMARK 465 GLU B -7 REMARK 465 ASN B -6 REMARK 465 LEU B -5 REMARK 465 TYR B -4 REMARK 465 PHE B -3 REMARK 465 ASN B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 THR B 150 REMARK 465 VAL B 151 REMARK 465 THR B 152 REMARK 465 GLN B 153 REMARK 465 THR B 154 REMARK 465 ALA B 155 REMARK 465 PRO B 156 REMARK 465 THR B 157 REMARK 465 SER B 158 REMARK 465 ALA B 159 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 O HOH A 472 O HOH A 570 2.10 REMARK 500 O HOH A 427 O HOH A 601 2.13 REMARK 500 O HOH A 476 O HOH A 527 2.15 REMARK 500 O HOH A 582 O HOH B 598 2.16 REMARK 500 O HOH B 540 O HOH B 598 2.18 REMARK 500 OD2 ASP A 40 O HOH A 401 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 467 O HOH A 590 3555 2.10 REMARK 500 O HOH A 409 O HOH A 411 3555 2.13 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 ARG A 125 39.84 -76.91 REMARK 500 GLN A 188 133.63 47.77 REMARK 500 ALA A 191 -166.81 -171.51 REMARK 500 SER B 96 86.54 -67.85 REMARK 500 ARG B 125 40.62 -83.20 REMARK 500 ALA B 191 -168.81 -163.04 REMARK 500 SER B 220 -55.78 -178.08 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 644 DISTANCE = 6.89 ANGSTROMS REMARK 525 HOH A 645 DISTANCE = 7.05 ANGSTROMS REMARK 525 HOH A 646 DISTANCE = 7.30 ANGSTROMS REMARK 525 HOH B 645 DISTANCE = 5.87 ANGSTROMS REMARK 525 HOH B 646 DISTANCE = 6.29 ANGSTROMS REMARK 525 HOH B 647 DISTANCE = 7.25 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 NA A 306 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 476 O REMARK 620 2 HOH A 527 O 44.0 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 305 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5D76 RELATED DB: PDB DBREF 5D74 A 1 245 UNP M1PKZ3 M1PKZ3_9VIRU 1 245 DBREF 5D74 B 1 245 UNP M1PKZ3 M1PKZ3_9VIRU 1 245 SEQADV 5D74 MET A -27 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 GLY A -26 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 SER A -25 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS A -24 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS A -23 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS A -22 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS A -21 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS A -20 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS A -19 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS A -18 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS A -17 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 GLY A -16 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 SER A -15 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 ASP A -14 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 TYR A -13 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 ASP A -12 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 ILE A -11 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 PRO A -10 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 THR A -9 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 THR A -8 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 GLU A -7 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 ASN A -6 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 LEU A -5 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 TYR A -4 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 PHE A -3 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 ASN A -2 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 GLY A -1 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 SER A 0 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 MET B -27 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 GLY B -26 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 SER B -25 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS B -24 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS B -23 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS B -22 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS B -21 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS B -20 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS B -19 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS B -18 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 HIS B -17 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 GLY B -16 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 SER B -15 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 ASP B -14 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 TYR B -13 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 ASP B -12 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 ILE B -11 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 PRO B -10 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 THR B -9 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 THR B -8 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 GLU B -7 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 ASN B -6 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 LEU B -5 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 TYR B -4 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 PHE B -3 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 ASN B -2 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 GLY B -1 UNP M1PKZ3 EXPRESSION TAG SEQADV 5D74 SER B 0 UNP M1PKZ3 EXPRESSION TAG SEQRES 1 A 273 MET GLY SER HIS HIS HIS HIS HIS HIS HIS HIS GLY SER SEQRES 2 A 273 ASP TYR ASP ILE PRO THR THR GLU ASN LEU TYR PHE ASN SEQRES 3 A 273 GLY SER MET THR THR VAL ASN GLU ALA LEU ASN ASN VAL SEQRES 4 A 273 ARG ALA GLN VAL GLY SER GLY VAL SER VAL GLY ASN GLY SEQRES 5 A 273 GLU CYS TYR ALA LEU ALA SER TRP TYR GLU ARG MET ILE SEQRES 6 A 273 SER PRO ASP ALA THR VAL GLY LEU GLY ALA GLY VAL GLY SEQRES 7 A 273 TRP VAL SER GLY ALA THR GLY ASP THR ILE SER ALA LYS SEQRES 8 A 273 ASN ILE GLY SER SER TYR ASN TRP GLN ALA ASN GLY TRP SEQRES 9 A 273 THR VAL SER THR SER GLY PRO PHE GLN ALA GLY GLN ILE SEQRES 10 A 273 VAL THR LEU GLY ALA THR SER GLY ASN PRO TYR GLY HIS SEQRES 11 A 273 VAL VAL ILE VAL GLU ALA VAL ASP GLY ASP ARG LEU THR SEQRES 12 A 273 ILE LEU GLU GLN ASN TYR GLY GLY LYS ARG TYR PRO THR SEQRES 13 A 273 ARG ASN TYR TYR SER ALA ALA SER TYR ARG GLN GLN VAL SEQRES 14 A 273 VAL HIS TYR ILE THR PRO PRO GLY THR VAL THR GLN THR SEQRES 15 A 273 ALA PRO THR SER ALA GLY ALA ARG THR TYR ARG GLU THR SEQRES 16 A 273 GLY THR MET SER VAL THR VAL ASP ALA ILE ASN ILE ARG SEQRES 17 A 273 ARG ALA PRO ASN THR SER GLY GLN ILE VAL ALA THR TYR SEQRES 18 A 273 LYS ARG GLY GLU SER PHE ASP TYR ASP THR VAL ILE ILE SEQRES 19 A 273 ASP THR ASN GLY TYR VAL TRP VAL SER TYR ILE GLY SER SEQRES 20 A 273 SER GLY ILE ARG ASN TYR VAL ALA THR GLY ALA THR LYS SEQRES 21 A 273 ASP GLY LYS ARG TYR GLY ASP ALA TRP GLY THR PHE LYS SEQRES 1 B 273 MET GLY SER HIS HIS HIS HIS HIS HIS HIS HIS GLY SER SEQRES 2 B 273 ASP TYR ASP ILE PRO THR THR GLU ASN LEU TYR PHE ASN SEQRES 3 B 273 GLY SER MET THR THR VAL ASN GLU ALA LEU ASN ASN VAL SEQRES 4 B 273 ARG ALA GLN VAL GLY SER GLY VAL SER VAL GLY ASN GLY SEQRES 5 B 273 GLU CYS TYR ALA LEU ALA SER TRP TYR GLU ARG MET ILE SEQRES 6 B 273 SER PRO ASP ALA THR VAL GLY LEU GLY ALA GLY VAL GLY SEQRES 7 B 273 TRP VAL SER GLY ALA THR GLY ASP THR ILE SER ALA LYS SEQRES 8 B 273 ASN ILE GLY SER SER TYR ASN TRP GLN ALA ASN GLY TRP SEQRES 9 B 273 THR VAL SER THR SER GLY PRO PHE GLN ALA GLY GLN ILE SEQRES 10 B 273 VAL THR LEU GLY ALA THR SER GLY ASN PRO TYR GLY HIS SEQRES 11 B 273 VAL VAL ILE VAL GLU ALA VAL ASP GLY ASP ARG LEU THR SEQRES 12 B 273 ILE LEU GLU GLN ASN TYR GLY GLY LYS ARG TYR PRO THR SEQRES 13 B 273 ARG ASN TYR TYR SER ALA ALA SER TYR ARG GLN GLN VAL SEQRES 14 B 273 VAL HIS TYR ILE THR PRO PRO GLY THR VAL THR GLN THR SEQRES 15 B 273 ALA PRO THR SER ALA GLY ALA ARG THR TYR ARG GLU THR SEQRES 16 B 273 GLY THR MET SER VAL THR VAL ASP ALA ILE ASN ILE ARG SEQRES 17 B 273 ARG ALA PRO ASN THR SER GLY GLN ILE VAL ALA THR TYR SEQRES 18 B 273 LYS ARG GLY GLU SER PHE ASP TYR ASP THR VAL ILE ILE SEQRES 19 B 273 ASP THR ASN GLY TYR VAL TRP VAL SER TYR ILE GLY SER SEQRES 20 B 273 SER GLY ILE ARG ASN TYR VAL ALA THR GLY ALA THR LYS SEQRES 21 B 273 ASP GLY LYS ARG TYR GLY ASP ALA TRP GLY THR PHE LYS HET CL A 301 1 HET CL A 302 1 HET CL A 303 1 HET CL A 304 1 HET CL A 305 1 HET NA A 306 1 HET NA A 307 1 HET NA A 308 1 HET CL B 301 1 HET NA B 302 1 HET NA B 303 1 HET NA B 304 1 HET NA B 305 1 HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION FORMUL 3 CL 6(CL 1-) FORMUL 8 NA 7(NA 1+) FORMUL 16 HOH *493(H2 O) HELIX 1 AA1 THR A 3 ALA A 13 1 11 HELIX 2 AA2 GLU A 25 SER A 38 1 14 HELIX 3 AA3 TRP A 51 ALA A 55 5 5 HELIX 4 AA4 SER A 61 LYS A 63 5 3 HELIX 5 AA5 ASN A 64 TYR A 69 1 6 HELIX 6 AA6 ASN A 70 GLY A 75 5 6 HELIX 7 AA7 ALA A 134 ARG A 138 1 5 HELIX 8 AA8 THR B 3 ALA B 13 1 11 HELIX 9 AA9 GLU B 25 SER B 38 1 14 HELIX 10 AB1 SER B 61 LYS B 63 5 3 HELIX 11 AB2 ASN B 64 TYR B 69 1 6 HELIX 12 AB3 ASN B 70 GLY B 75 5 6 HELIX 13 AB4 ALA B 134 ARG B 138 1 5 SHEET 1 AA1 6 THR A 77 SER A 79 0 SHEET 2 AA1 6 VAL A 141 THR A 146 -1 O TYR A 144 N SER A 79 SHEET 3 AA1 6 ILE A 89 LEU A 92 -1 N ILE A 89 O ILE A 145 SHEET 4 AA1 6 HIS A 102 ASP A 110 -1 O HIS A 102 N LEU A 92 SHEET 5 AA1 6 ARG A 113 GLU A 118 -1 O ARG A 113 N ASP A 110 SHEET 6 AA1 6 THR A 128 SER A 133 -1 O THR A 128 N GLU A 118 SHEET 1 AA2 4 ILE A 189 LYS A 194 0 SHEET 2 AA2 4 ALA A 176 ARG A 180 -1 N ILE A 179 O ALA A 191 SHEET 3 AA2 4 ARG A 223 LYS A 232 -1 O TYR A 225 N ARG A 180 SHEET 4 AA2 4 LYS A 235 ARG A 236 -1 O LYS A 235 N LYS A 232 SHEET 1 AA3 7 ILE A 189 LYS A 194 0 SHEET 2 AA3 7 ALA A 176 ARG A 180 -1 N ILE A 179 O ALA A 191 SHEET 3 AA3 7 ARG A 223 LYS A 232 -1 O TYR A 225 N ARG A 180 SHEET 4 AA3 7 GLY A 210 ILE A 217 -1 N TYR A 216 O ASN A 224 SHEET 5 AA3 7 SER A 198 ILE A 206 -1 N ILE A 205 O TRP A 213 SHEET 6 AA3 7 ARG A 162 VAL A 172 -1 N ARG A 162 O ILE A 206 SHEET 7 AA3 7 GLY A 242 LYS A 245 -1 O THR A 243 N SER A 171 SHEET 1 AA4 6 THR B 77 SER B 79 0 SHEET 2 AA4 6 VAL B 141 THR B 146 -1 O TYR B 144 N SER B 79 SHEET 3 AA4 6 ILE B 89 LEU B 92 -1 N ILE B 89 O ILE B 145 SHEET 4 AA4 6 HIS B 102 ASP B 110 -1 O HIS B 102 N LEU B 92 SHEET 5 AA4 6 ARG B 113 GLU B 118 -1 O LEU B 117 N ILE B 105 SHEET 6 AA4 6 THR B 128 SER B 133 -1 O ASN B 130 N ILE B 116 SHEET 1 AA5 4 ILE B 189 LYS B 194 0 SHEET 2 AA5 4 ALA B 176 ARG B 180 -1 N ILE B 179 O ALA B 191 SHEET 3 AA5 4 ARG B 223 LYS B 232 -1 O TYR B 225 N ARG B 180 SHEET 4 AA5 4 LYS B 235 ARG B 236 -1 O LYS B 235 N LYS B 232 SHEET 1 AA6 7 ILE B 189 LYS B 194 0 SHEET 2 AA6 7 ALA B 176 ARG B 180 -1 N ILE B 179 O ALA B 191 SHEET 3 AA6 7 ARG B 223 LYS B 232 -1 O TYR B 225 N ARG B 180 SHEET 4 AA6 7 GLY B 210 ILE B 217 -1 N TYR B 216 O ASN B 224 SHEET 5 AA6 7 SER B 198 ASP B 207 -1 N ILE B 205 O TRP B 213 SHEET 6 AA6 7 ALA B 161 VAL B 172 -1 N ARG B 162 O ILE B 206 SHEET 7 AA6 7 GLY B 242 LYS B 245 -1 O THR B 243 N SER B 171 LINK O GLY A 187 NA NA A 308 1555 1555 3.19 LINK NA NA A 306 O HOH A 476 1555 1555 2.64 LINK NA NA A 306 O HOH A 527 1555 1555 3.02 LINK NA NA B 302 O HOH B 463 1555 1555 3.18 LINK NA NA B 303 O HOH B 593 1555 1555 2.65 LINK NA NA B 304 O HOH B 611 1555 1555 3.17 CISPEP 1 GLY A 82 PRO A 83 0 4.04 CISPEP 2 GLY B 82 PRO B 83 0 4.18 CISPEP 3 GLY B 122 GLY B 123 0 -3.66 CISPEP 4 SER B 219 SER B 220 0 -21.44 CISPEP 5 SER B 220 GLY B 221 0 3.54 SITE 1 AC1 3 VAL A 52 SER A 53 ASP B 112 SITE 1 AC2 4 ILE A 222 ARG A 223 THR B 3 ASN B 5 SITE 1 AC3 3 TYR A 216 ASN A 224 HOH A 533 SITE 1 AC4 3 ASN A 70 HOH A 584 HOH A 618 SITE 1 AC5 2 GLY A 93 ALA A 94 SITE 1 AC6 4 ASN A 178 ARG A 180 HOH A 476 HOH A 527 SITE 1 AC7 2 SER A 38 ASP A 40 SITE 1 AC8 1 GLY A 187 SITE 1 AC9 2 PRO B 83 PHE B 84 SITE 1 AD1 2 ASN B 178 ARG B 180 SITE 1 AD2 4 TYR B 27 ALA B 62 TYR B 100 HOH B 593 SITE 1 AD3 1 ARG B 195 SITE 1 AD4 1 SER B 219 CRYST1 70.009 97.701 174.668 90.00 90.00 90.00 C 2 2 21 16 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 0.014284 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010235 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005725 0.00000