HEADER HYDROLASE 21-SEP-18 6MJK TITLE CRYSTAL STRUCTURE OF DUTP PYROPHOSPHATASE PROTEIN, FROM NAEGLERIA TITLE 2 FOWLERI IN COMPLEX WITH DEOXYURIDINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DUTP PYROPHOSPHATASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: NAFOA.01242.A.B1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NAEGLERIA FOWLERI; SOURCE 3 ORGANISM_COMMON: BRAIN EATING AMOEBA; SOURCE 4 ORGANISM_TAXID: 5763; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR KEYWDS 2 INFECTIOUS DISEASE, SSGCID, DUTP PYROPHOSPHATASE PROTEIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 2 11-OCT-23 6MJK 1 LINK REVDAT 1 31-OCT-18 6MJK 0 JRNL AUTH S.L.DELKER,J.ABENDROTH,D.LORIMER,T.E.EDWARDS JRNL TITL CRYSTAL STRUCTURE OF DUTP PYROPHOSPHATASE PROTEIN, FROM JRNL TITL 2 NAEGLERIA FOWLERI IN COMPLEX WITH DEOXYURIDINE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14RC2_3191: ???) 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.20 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 24472 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.137 REMARK 3 R VALUE (WORKING SET) : 0.134 REMARK 3 FREE R VALUE : 0.170 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.330 REMARK 3 FREE R VALUE TEST SET COUNT : 2039 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 33.2054 - 3.5744 1.00 1595 131 0.1411 0.1683 REMARK 3 2 3.5744 - 2.8376 1.00 1518 139 0.1429 0.1697 REMARK 3 3 2.8376 - 2.4791 1.00 1493 146 0.1490 0.1602 REMARK 3 4 2.4791 - 2.2525 1.00 1500 153 0.1365 0.1788 REMARK 3 5 2.2525 - 2.0910 1.00 1489 140 0.1280 0.1665 REMARK 3 6 2.0910 - 1.9678 1.00 1485 143 0.1260 0.1576 REMARK 3 7 1.9678 - 1.8692 1.00 1494 127 0.1242 0.1690 REMARK 3 8 1.8692 - 1.7879 1.00 1515 102 0.1237 0.1519 REMARK 3 9 1.7879 - 1.7190 1.00 1471 130 0.1196 0.1747 REMARK 3 10 1.7190 - 1.6597 1.00 1496 129 0.1154 0.1827 REMARK 3 11 1.6597 - 1.6078 1.00 1467 150 0.1174 0.1875 REMARK 3 12 1.6078 - 1.5619 1.00 1455 146 0.1200 0.1722 REMARK 3 13 1.5619 - 1.5208 1.00 1469 151 0.1190 0.2019 REMARK 3 14 1.5208 - 1.4837 1.00 1476 123 0.1252 0.1691 REMARK 3 15 1.4837 - 1.4499 1.00 1510 129 0.1296 0.1827 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) : 0.100 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.78 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 : 0.005 1203 REMARK 3 ANGLE : 0.783 1652 REMARK 3 CHIRALITY : 0.081 186 REMARK 3 PLANARITY : 0.004 233 REMARK 3 DIHEDRAL : 14.627 461 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 6MJK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-SEP-18. REMARK 100 THE DEPOSITION ID IS D_1000237008. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAR-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97856 REMARK 200 MONOCHROMATOR : DIAMOND [111] REMARK 200 OPTICS : BERYLLIUM LENSES REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24498 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 33.197 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 16.99 REMARK 200 R MERGE (I) : 0.03900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 46.3500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 16.98 REMARK 200 R MERGE FOR SHELL (I) : 0.49700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.790 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: 4OOP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: JCSG+ C6: 40% PEG 300 + 100MM SODIUM REMARK 280 PHOSPHATE DIBASIC / SODIUM CITRATE PH 4.2:CRYO:DIRECT. PW37974 REMARK 280 22.5MG/ML, 0.4+0.4, 6 MM DUTP + 6 MM MGCL2 PUCK XBP1-8, REMARK 280 TRAY286723C6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 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 37.11500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 37.11500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.11500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 37.11500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.11500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.11500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 37.11500 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 37.11500 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 37.11500 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 37.11500 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 37.11500 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 37.11500 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 37.11500 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 37.11500 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 37.11500 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 37.11500 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 37.11500 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 37.11500 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 MG MG A 202 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 359 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 413 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 431 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 439 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 461 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 463 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 -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 GLY A 143 REMARK 465 VAL A 144 REMARK 465 LYS A 145 REMARK 465 SER A 146 REMARK 465 LYS A 147 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 HIS A -1 CG ND1 CD2 CE1 NE2 REMARK 470 HIS A 0 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 103 CG CD CE NZ REMARK 470 ASP A 128 CG OD1 OD2 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 NE2 GLN A 5 O HOH A 301 2.19 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 ALA A 79 -124.72 52.90 REMARK 500 PHE A 139 61.20 62.79 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 464 DISTANCE = 6.22 ANGSTROMS REMARK 525 HOH A 465 DISTANCE = 6.35 ANGSTROMS REMARK 525 HOH A 466 DISTANCE = 6.38 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 MG A 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PPV A 204 O11 REMARK 620 2 PPV A 204 O32 87.3 REMARK 620 3 HOH A 318 O 167.9 104.8 REMARK 620 4 HOH A 341 O 96.0 91.8 83.7 REMARK 620 5 HOH A 356 O 91.1 92.6 88.4 171.8 REMARK 620 6 HOH A 388 O 86.1 171.5 81.8 94.3 82.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 309 O REMARK 620 2 HOH A 309 O 97.5 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 MG A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DUR A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PPV A 204 DBREF1 6MJK A 1 147 UNP A0A1Z0YU86_NAEFO DBREF2 6MJK A A0A1Z0YU86 1 147 SEQADV 6MJK MET A -7 UNP A0A1Z0YU8 EXPRESSION TAG SEQADV 6MJK ALA A -6 UNP A0A1Z0YU8 EXPRESSION TAG SEQADV 6MJK HIS A -5 UNP A0A1Z0YU8 EXPRESSION TAG SEQADV 6MJK HIS A -4 UNP A0A1Z0YU8 EXPRESSION TAG SEQADV 6MJK HIS A -3 UNP A0A1Z0YU8 EXPRESSION TAG SEQADV 6MJK HIS A -2 UNP A0A1Z0YU8 EXPRESSION TAG SEQADV 6MJK HIS A -1 UNP A0A1Z0YU8 EXPRESSION TAG SEQADV 6MJK HIS A 0 UNP A0A1Z0YU8 EXPRESSION TAG SEQRES 1 A 155 MET ALA HIS HIS HIS HIS HIS HIS MET SER THR PRO GLN SEQRES 2 A 155 LEU MET ARG VAL LYS LYS LEU SER GLU PHE ALA ILE LEU SEQRES 3 A 155 PRO VAL ARG SER SER GLN PHE ALA ALA GLY PHE ASP LEU SEQRES 4 A 155 ALA SER ALA TYR ASP TYR VAL VAL PRO ALA ARG GLY LYS SEQRES 5 A 155 CYS LEU VAL LYS THR ASP LEU ALA VAL ALA VAL PRO HIS SEQRES 6 A 155 GLY TYR TYR GLY ARG VAL ALA PRO ARG SER GLY LEU ALA SEQRES 7 A 155 VAL LYS ASN PHE ILE ASP VAL GLY ALA GLY VAL VAL ASP SEQRES 8 A 155 SER ASP TYR ARG GLY ASN LEU GLY VAL LEU LEU PHE ASN SEQRES 9 A 155 HIS GLY ASP GLU ASP PHE LYS ILE ALA ARG GLY ASP ARG SEQRES 10 A 155 ILE ALA GLN PHE VAL ILE GLU GLN ILE ALA LEU PRO ASP SEQRES 11 A 155 ILE VAL GLU VAL ASP ASP LEU ASP GLU THR GLU ARG GLY SEQRES 12 A 155 ALA GLY GLY PHE GLY SER THR GLY VAL LYS SER LYS HET MG A 201 1 HET MG A 202 1 HET DUR A 203 32 HET PPV A 204 9 HETNAM MG MAGNESIUM ION HETNAM DUR 2'-DEOXYURIDINE HETNAM PPV PYROPHOSPHATE FORMUL 2 MG 2(MG 2+) FORMUL 4 DUR C9 H12 N2 O5 FORMUL 5 PPV H4 O7 P2 FORMUL 6 HOH *166(H2 O) HELIX 1 AA1 ARG A 66 PHE A 74 1 9 SHEET 1 AA1 2 ARG A 8 LYS A 11 0 SHEET 2 AA1 2 LEU A 51 ALA A 54 -1 O ALA A 52 N LYS A 10 SHEET 1 AA2 4 PHE A 29 ALA A 32 0 SHEET 2 AA2 4 ARG A 109 GLN A 117 -1 O ALA A 111 N LEU A 31 SHEET 3 AA2 4 TYR A 59 ALA A 64 -1 N ARG A 62 O VAL A 114 SHEET 4 AA2 4 VAL A 81 VAL A 82 -1 O VAL A 82 N GLY A 61 SHEET 1 AA3 2 TYR A 37 VAL A 39 0 SHEET 2 AA3 2 PHE A 102 ILE A 104 -1 O PHE A 102 N VAL A 39 SHEET 1 AA4 3 LYS A 44 LYS A 48 0 SHEET 2 AA4 3 GLY A 91 ASN A 96 -1 O VAL A 92 N VAL A 47 SHEET 3 AA4 3 ILE A 75 GLY A 78 -1 N ASP A 76 O PHE A 95 LINK MG MG A 201 O11 PPV A 204 1555 1555 2.21 LINK MG MG A 201 O32 PPV A 204 1555 1555 2.00 LINK MG MG A 201 O HOH A 318 1555 7454 2.05 LINK MG MG A 201 O BHOH A 341 1555 1555 2.31 LINK MG MG A 201 O HOH A 356 1555 10554 2.15 LINK MG MG A 201 O HOH A 388 1555 1555 2.03 LINK MG MG A 202 O HOH A 309 1555 1555 2.20 LINK MG MG A 202 O HOH A 309 1555 10554 2.20 SITE 1 AC1 6 SER A 22 PPV A 204 HOH A 318 HOH A 341 SITE 2 AC1 6 HOH A 356 HOH A 388 SITE 1 AC2 1 HOH A 309 SITE 1 AC3 12 SER A 67 ALA A 79 GLY A 80 VAL A 81 SITE 2 AC3 12 ASP A 83 TYR A 86 GLY A 91 GLY A 138 SITE 3 AC3 12 PHE A 139 PPV A 204 HOH A 314 HOH A 341 SITE 1 AC4 13 ARG A 66 SER A 67 GLY A 68 ARG A 134 SITE 2 AC4 13 PHE A 139 GLY A 140 SER A 141 THR A 142 SITE 3 AC4 13 MG A 201 DUR A 203 HOH A 356 HOH A 388 SITE 4 AC4 13 HOH A 399 CRYST1 74.230 74.230 74.230 90.00 90.00 90.00 P 21 3 12 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 0.013472 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013472 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013472 0.00000