HEADER DNA BINDING PROTEIN 17-JAN-20 6XU0 TITLE ARCHAEOGLOBUS FULGIDUS ARGONAUTE PROTEIN WITH DNA OLIGODUPLEX 5'- TITLE 2 PATCGTGGCCACGAT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PIWI PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: ARHAEOGLOBUS FULGIDUS ARGONAUTE PROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 5'-D(*AP*TP*CP*GP*TP*GP*GP*CP*CP*AP*CP*GP*AP*TP)-3'; COMPND 8 CHAIN: R, S, P, Q; COMPND 9 FRAGMENT: OLIGODEOXYRIBONUCLEOTIDE; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARCHAEOGLOBUS FULGIDUS; SOURCE 3 ORGANISM_TAXID: 2234; SOURCE 4 GENE: XD48_2091; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 10 ORGANISM_TAXID: 562 KEYWDS ARGONAUTE, PIWI DOMAIN, PROTEIN-DNA COMPLEX, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.GRAZULIS,M.ZAREMBA REVDAT 2 24-JAN-24 6XU0 1 REMARK REVDAT 1 27-JAN-21 6XU0 0 JRNL AUTH E.GOLOVINAS,E.MANAKOVA,G.SASNAUSKAS,M.ZAREMBA JRNL TITL ARCHAEOGLOBUS FULGIDUS ARGONAUTE PROTEIN WITH DNA JRNL TITL 2 OLIGODUPLEX 5'-PATCGTGGCCACGAT JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.44 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.870 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.5 REMARK 3 NUMBER OF REFLECTIONS : 84166 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.970 REMARK 3 FREE R VALUE TEST SET COUNT : 8390 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 46.4390 - 5.8999 0.93 5123 614 0.1858 0.2037 REMARK 3 2 5.8999 - 4.6844 0.91 5084 540 0.1484 0.1955 REMARK 3 3 4.6844 - 4.0926 0.92 5171 564 0.1272 0.1580 REMARK 3 4 4.0926 - 3.7186 0.93 5285 537 0.1489 0.1858 REMARK 3 5 3.7186 - 3.4522 0.91 5077 510 0.1636 0.2036 REMARK 3 6 3.4522 - 3.2487 0.91 5063 568 0.1613 0.2050 REMARK 3 7 3.2487 - 3.0860 0.89 4972 582 0.1825 0.2159 REMARK 3 8 3.0860 - 2.9517 0.90 4956 593 0.1744 0.2254 REMARK 3 9 2.9517 - 2.8381 0.91 5117 595 0.1921 0.2557 REMARK 3 10 2.8381 - 2.7402 0.90 4943 570 0.1958 0.2662 REMARK 3 11 2.7402 - 2.6545 0.91 5086 535 0.1960 0.2537 REMARK 3 12 2.6545 - 2.5786 0.91 5115 507 0.1978 0.2642 REMARK 3 13 2.5786 - 2.5108 0.92 5219 498 0.1964 0.2695 REMARK 3 14 2.5108 - 2.4495 0.92 5070 571 0.1939 0.2805 REMARK 3 15 2.4495 - 2.3938 0.91 5126 560 0.1964 0.2525 REMARK 3 16 2.3938 - 2.3429 0.91 4971 564 0.1940 0.2756 REMARK 3 17 2.3429 - 2.2960 0.91 5158 595 0.1967 0.2624 REMARK 3 18 2.2960 - 2.2527 0.90 4984 543 0.2081 0.2614 REMARK 3 19 2.2527 - 2.2125 0.89 5098 583 0.1987 0.2268 REMARK 3 20 2.2125 - 2.1750 0.89 4899 531 0.2113 0.2697 REMARK 3 21 2.1750 - 2.1399 0.89 5009 584 0.2249 0.3002 REMARK 3 22 2.1399 - 2.1070 0.90 4967 553 0.2340 0.2775 REMARK 3 23 2.1070 - 2.0760 0.90 5006 566 0.2412 0.2820 REMARK 3 24 2.0760 - 2.0467 0.90 5137 515 0.2425 0.2896 REMARK 3 25 2.0467 - 2.0191 0.90 4998 538 0.2524 0.2946 REMARK 3 26 2.0191 - 1.9928 0.89 4976 543 0.2693 0.2996 REMARK 3 27 1.9928 - 1.9679 0.90 5008 590 0.2740 0.3112 REMARK 3 28 1.9679 - 1.9442 0.89 5041 567 0.2948 0.3222 REMARK 3 29 1.9442 - 1.9216 0.90 4922 591 0.3064 0.3509 REMARK 3 30 1.9216 - 1.9000 0.90 4971 573 0.3216 0.3453 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.260 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.500 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.03 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.92 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 6XU0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1292106289. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P14 (MX2) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97630 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.22 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 85105 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 48.785 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.5 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06100 REMARK 200 FOR THE DATA SET : 8.3000 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) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.63800 REMARK 200 R SYM FOR SHELL (I) : 0.63800 REMARK 200 FOR SHELL : 1.200 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: PDBID 1YTU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NA-CACODYLATE PH 6.5 0.05 M, KCL_0.04 REMARK 280 M, MGCL2 0.01 M, PEG3350 11% (W/V), VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 280K 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: 9270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -55.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, R, S, B, P, Q 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 MET A -13 REMARK 465 GLY A -12 REMARK 465 SER A -11 REMARK 465 SER A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 SER A -3 REMARK 465 GLN A -2 REMARK 465 ASP A -1 REMARK 465 PRO A 0 REMARK 465 MET A 1 REMARK 465 MET A 2 REMARK 465 GLU A 3 REMARK 465 TYR A 4 REMARK 465 LYS A 5 REMARK 465 ILE A 6 REMARK 465 VAL A 7 REMARK 465 GLU A 8 REMARK 465 ASN A 9 REMARK 465 GLY A 302 REMARK 465 ASP A 303 REMARK 465 PRO A 304 REMARK 465 ASN A 305 REMARK 465 ASN A 306 REMARK 465 ARG A 307 REMARK 465 PHE A 308 REMARK 465 HIS A 309 REMARK 465 TYR A 331 REMARK 465 LEU A 332 REMARK 465 LYS A 333 REMARK 465 ARG A 334 REMARK 465 ASN A 335 REMARK 465 GLY A 336 REMARK 465 LEU A 337 REMARK 465 GLU A 338 REMARK 465 DC R 8 REMARK 465 DC R 9 REMARK 465 DA R 10 REMARK 465 DC R 11 REMARK 465 DG R 12 REMARK 465 DA R 13 REMARK 465 DT R 14 REMARK 465 DA S 1 REMARK 465 DT S 2 REMARK 465 DC S 3 REMARK 465 DG S 4 REMARK 465 DT S 5 REMARK 465 DG S 6 REMARK 465 DG S 7 REMARK 465 DC S 8 REMARK 465 MET B -13 REMARK 465 GLY B -12 REMARK 465 SER B -11 REMARK 465 SER B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 HIS B -7 REMARK 465 HIS B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 SER B -3 REMARK 465 GLN B -2 REMARK 465 ASP B -1 REMARK 465 PRO B 0 REMARK 465 MET B 1 REMARK 465 MET B 2 REMARK 465 GLU B 3 REMARK 465 TYR B 4 REMARK 465 LYS B 5 REMARK 465 ILE B 6 REMARK 465 VAL B 7 REMARK 465 GLU B 8 REMARK 465 ASN B 9 REMARK 465 GLY B 302 REMARK 465 ASP B 303 REMARK 465 PRO B 304 REMARK 465 ASN B 305 REMARK 465 ASN B 306 REMARK 465 ARG B 307 REMARK 465 PHE B 308 REMARK 465 HIS B 309 REMARK 465 PRO B 330 REMARK 465 TYR B 331 REMARK 465 LEU B 332 REMARK 465 LYS B 333 REMARK 465 ARG B 334 REMARK 465 ASN B 335 REMARK 465 GLY B 336 REMARK 465 LEU B 337 REMARK 465 GLU B 338 REMARK 465 DC P 8 REMARK 465 DC P 9 REMARK 465 DA P 10 REMARK 465 DC P 11 REMARK 465 DG P 12 REMARK 465 DA P 13 REMARK 465 DT P 14 REMARK 465 DA Q 1 REMARK 465 DT Q 2 REMARK 465 DC Q 3 REMARK 465 DG Q 4 REMARK 465 DT Q 5 REMARK 465 DG Q 6 REMARK 465 DG Q 7 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 MET A 339 CG SD CE REMARK 470 GLN B 329 CG CD OE1 NE2 REMARK 470 MET B 339 CG SD CE REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 DA R 1 P DA R 1 OP3 -0.130 REMARK 500 DA P 1 P DA P 1 OP3 -0.118 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 ILE A 15 -154.56 -116.41 REMARK 500 ASN A 25 89.94 -154.86 REMARK 500 ASP A 89 -73.59 -80.59 REMARK 500 GLU A 117 -156.47 -158.50 REMARK 500 TYR A 118 66.33 -100.05 REMARK 500 SER A 145 144.08 -170.64 REMARK 500 ASP A 191 -161.40 -161.64 REMARK 500 MET A 260 25.56 -153.92 REMARK 500 ILE B 15 -155.17 -117.55 REMARK 500 ASN B 55 49.83 -148.86 REMARK 500 SER B 133 -54.89 -128.37 REMARK 500 ASP B 191 -168.51 -161.29 REMARK 500 GLU B 312 109.81 -59.06 REMARK 500 LYS B 344 79.06 -118.23 REMARK 500 SER B 384 150.64 -44.93 REMARK 500 ASN B 417 100.29 -167.48 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 857 DISTANCE = 5.83 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 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 159 OE1 REMARK 620 2 LEU A 427 O 85.6 REMARK 620 3 LEU A 427 OXT 86.6 54.3 REMARK 620 4 DA R 1 OP3 88.7 148.9 94.9 REMARK 620 5 DC R 3 OP1 94.1 99.6 153.8 111.3 REMARK 620 6 HOH R 103 O 173.2 94.5 87.9 87.7 92.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 505 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 136 O REMARK 620 2 TRP B 425 O 153.5 REMARK 620 3 HOH B 731 O 88.7 97.4 REMARK 620 4 HOH P 103 O 64.7 123.7 133.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN B 159 OE1 REMARK 620 2 LEU B 427 O 86.4 REMARK 620 3 LEU B 427 OXT 79.1 54.6 REMARK 620 4 DA P 1 OP3 83.6 146.1 91.7 REMARK 620 5 DC P 3 OP1 101.2 99.4 154.1 114.2 REMARK 620 6 HOH P 105 O 168.6 87.2 89.4 96.5 89.2 REMARK 620 N 1 2 3 4 5 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CAC A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CAC A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG0 B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CAC B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME B 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 506 DBREF1 6XU0 A 1 427 UNP A0A101DYI0_ARCFL DBREF2 6XU0 A A0A101DYI0 1 427 DBREF 6XU0 R 1 14 PDB 6XU0 6XU0 1 14 DBREF 6XU0 S 1 14 PDB 6XU0 6XU0 1 14 DBREF1 6XU0 B 1 427 UNP A0A101DYI0_ARCFL DBREF2 6XU0 B A0A101DYI0 1 427 DBREF 6XU0 P 1 14 PDB 6XU0 6XU0 1 14 DBREF 6XU0 Q 1 14 PDB 6XU0 6XU0 1 14 SEQADV 6XU0 MET A -13 UNP A0A101DYI INITIATING METHIONINE SEQADV 6XU0 GLY A -12 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 SER A -11 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 SER A -10 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS A -9 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS A -8 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS A -7 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS A -6 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS A -5 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS A -4 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 SER A -3 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 GLN A -2 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 ASP A -1 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 PRO A 0 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 MET B -13 UNP A0A101DYI INITIATING METHIONINE SEQADV 6XU0 GLY B -12 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 SER B -11 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 SER B -10 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS B -9 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS B -8 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS B -7 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS B -6 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS B -5 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 HIS B -4 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 SER B -3 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 GLN B -2 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 ASP B -1 UNP A0A101DYI EXPRESSION TAG SEQADV 6XU0 PRO B 0 UNP A0A101DYI EXPRESSION TAG SEQRES 1 A 441 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER GLN ASP SEQRES 2 A 441 PRO MET MET GLU TYR LYS ILE VAL GLU ASN GLY LEU THR SEQRES 3 A 441 TYR ARG ILE GLY ASN GLY ALA SER VAL PRO ILE SER ASN SEQRES 4 A 441 THR GLY GLU LEU ILE LYS GLY LEU ARG ASN TYR GLY PRO SEQRES 5 A 441 TYR GLU VAL PRO SER LEU LYS TYR ASN GLN ILE ALA LEU SEQRES 6 A 441 ILE HIS ASN ASN GLN PHE SER SER LEU ILE ASN GLN LEU SEQRES 7 A 441 LYS SER GLN ILE SER SER LYS ILE ASP GLU VAL TRP HIS SEQRES 8 A 441 ILE HIS ASN ILE ASN ILE SER GLU PHE ILE TYR ASP SER SEQRES 9 A 441 PRO HIS PHE ASP SER ILE LYS SER GLN VAL ASP ASN ALA SEQRES 10 A 441 ILE ASP THR GLY VAL ASP GLY ILE MET LEU VAL LEU PRO SEQRES 11 A 441 GLU TYR ASN THR PRO LEU TYR TYR LYS LEU LYS SER TYR SEQRES 12 A 441 LEU ILE ASN SER ILE PRO SER GLN PHE MET ARG TYR ASP SEQRES 13 A 441 ILE LEU SER ASN ARG ASN LEU THR PHE TYR VAL ASP ASN SEQRES 14 A 441 LEU LEU VAL GLN PHE VAL SER LYS LEU GLY GLY LYS PRO SEQRES 15 A 441 TRP ILE LEU ASN VAL ASP PRO GLU LYS GLY SER ASP ILE SEQRES 16 A 441 ILE ILE GLY THR GLY ALA THR ARG ILE ASP ASN VAL ASN SEQRES 17 A 441 LEU PHE CYS PHE ALA MET VAL PHE LYS LYS ASP GLY THR SEQRES 18 A 441 MET LEU TRP ASN GLU ILE SER PRO ILE VAL THR SER SER SEQRES 19 A 441 GLU TYR LEU THR TYR LEU LYS SER THR ILE LYS LYS VAL SEQRES 20 A 441 VAL TYR GLY PHE LYS LYS SER ASN PRO ASP TRP ASP VAL SEQRES 21 A 441 GLU LYS LEU THR LEU HIS VAL SER GLY LYS ARG PRO LYS SEQRES 22 A 441 MET LYS ASP GLY GLU THR LYS ILE LEU LYS GLU THR VAL SEQRES 23 A 441 GLU GLU LEU LYS LYS GLN GLU MET VAL SER ARG ASP VAL SEQRES 24 A 441 LYS TYR ALA ILE LEU HIS LEU ASN GLU THR HIS PRO PHE SEQRES 25 A 441 TRP VAL MET GLY ASP PRO ASN ASN ARG PHE HIS PRO TYR SEQRES 26 A 441 GLU GLY THR LYS VAL LYS LEU SER SER LYS ARG TYR LEU SEQRES 27 A 441 LEU THR LEU LEU GLN PRO TYR LEU LYS ARG ASN GLY LEU SEQRES 28 A 441 GLU MET VAL THR PRO ILE LYS PRO LEU SER VAL GLU ILE SEQRES 29 A 441 VAL SER ASP ASN TRP THR SER GLU GLU TYR TYR HIS ASN SEQRES 30 A 441 VAL HIS GLU ILE LEU ASP GLU ILE TYR TYR LEU SER LYS SEQRES 31 A 441 MET ASN TRP ARG GLY PHE ARG SER ARG ASN LEU PRO VAL SEQRES 32 A 441 THR VAL ASN TYR PRO LYS LEU VAL ALA GLY ILE ILE ALA SEQRES 33 A 441 ASN VAL ASN ARG TYR GLY GLY TYR PRO ILE ASN PRO GLU SEQRES 34 A 441 GLY ASN ARG SER LEU GLN THR ASN PRO TRP PHE LEU SEQRES 1 R 14 DA DT DC DG DT DG DG DC DC DA DC DG DA SEQRES 2 R 14 DT SEQRES 1 S 14 DA DT DC DG DT DG DG DC DC DA DC DG DA SEQRES 2 S 14 DT SEQRES 1 B 441 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER GLN ASP SEQRES 2 B 441 PRO MET MET GLU TYR LYS ILE VAL GLU ASN GLY LEU THR SEQRES 3 B 441 TYR ARG ILE GLY ASN GLY ALA SER VAL PRO ILE SER ASN SEQRES 4 B 441 THR GLY GLU LEU ILE LYS GLY LEU ARG ASN TYR GLY PRO SEQRES 5 B 441 TYR GLU VAL PRO SER LEU LYS TYR ASN GLN ILE ALA LEU SEQRES 6 B 441 ILE HIS ASN ASN GLN PHE SER SER LEU ILE ASN GLN LEU SEQRES 7 B 441 LYS SER GLN ILE SER SER LYS ILE ASP GLU VAL TRP HIS SEQRES 8 B 441 ILE HIS ASN ILE ASN ILE SER GLU PHE ILE TYR ASP SER SEQRES 9 B 441 PRO HIS PHE ASP SER ILE LYS SER GLN VAL ASP ASN ALA SEQRES 10 B 441 ILE ASP THR GLY VAL ASP GLY ILE MET LEU VAL LEU PRO SEQRES 11 B 441 GLU TYR ASN THR PRO LEU TYR TYR LYS LEU LYS SER TYR SEQRES 12 B 441 LEU ILE ASN SER ILE PRO SER GLN PHE MET ARG TYR ASP SEQRES 13 B 441 ILE LEU SER ASN ARG ASN LEU THR PHE TYR VAL ASP ASN SEQRES 14 B 441 LEU LEU VAL GLN PHE VAL SER LYS LEU GLY GLY LYS PRO SEQRES 15 B 441 TRP ILE LEU ASN VAL ASP PRO GLU LYS GLY SER ASP ILE SEQRES 16 B 441 ILE ILE GLY THR GLY ALA THR ARG ILE ASP ASN VAL ASN SEQRES 17 B 441 LEU PHE CYS PHE ALA MET VAL PHE LYS LYS ASP GLY THR SEQRES 18 B 441 MET LEU TRP ASN GLU ILE SER PRO ILE VAL THR SER SER SEQRES 19 B 441 GLU TYR LEU THR TYR LEU LYS SER THR ILE LYS LYS VAL SEQRES 20 B 441 VAL TYR GLY PHE LYS LYS SER ASN PRO ASP TRP ASP VAL SEQRES 21 B 441 GLU LYS LEU THR LEU HIS VAL SER GLY LYS ARG PRO LYS SEQRES 22 B 441 MET LYS ASP GLY GLU THR LYS ILE LEU LYS GLU THR VAL SEQRES 23 B 441 GLU GLU LEU LYS LYS GLN GLU MET VAL SER ARG ASP VAL SEQRES 24 B 441 LYS TYR ALA ILE LEU HIS LEU ASN GLU THR HIS PRO PHE SEQRES 25 B 441 TRP VAL MET GLY ASP PRO ASN ASN ARG PHE HIS PRO TYR SEQRES 26 B 441 GLU GLY THR LYS VAL LYS LEU SER SER LYS ARG TYR LEU SEQRES 27 B 441 LEU THR LEU LEU GLN PRO TYR LEU LYS ARG ASN GLY LEU SEQRES 28 B 441 GLU MET VAL THR PRO ILE LYS PRO LEU SER VAL GLU ILE SEQRES 29 B 441 VAL SER ASP ASN TRP THR SER GLU GLU TYR TYR HIS ASN SEQRES 30 B 441 VAL HIS GLU ILE LEU ASP GLU ILE TYR TYR LEU SER LYS SEQRES 31 B 441 MET ASN TRP ARG GLY PHE ARG SER ARG ASN LEU PRO VAL SEQRES 32 B 441 THR VAL ASN TYR PRO LYS LEU VAL ALA GLY ILE ILE ALA SEQRES 33 B 441 ASN VAL ASN ARG TYR GLY GLY TYR PRO ILE ASN PRO GLU SEQRES 34 B 441 GLY ASN ARG SER LEU GLN THR ASN PRO TRP PHE LEU SEQRES 1 P 14 DA DT DC DG DT DG DG DC DC DA DC DG DA SEQRES 2 P 14 DT SEQRES 1 Q 14 DA DT DC DG DT DG DG DC DC DA DC DG DA SEQRES 2 Q 14 DT HET MG A 501 1 HET CAC A 502 5 HET CAC A 503 5 HET BME A 504 4 HET GOL A 505 6 HET PG0 B 501 8 HET MG B 502 1 HET CAC B 503 5 HET BME B 504 4 HET K B 505 1 HET GOL B 506 6 HETNAM MG MAGNESIUM ION HETNAM CAC CACODYLATE ION HETNAM BME BETA-MERCAPTOETHANOL HETNAM GOL GLYCEROL HETNAM PG0 2-(2-METHOXYETHOXY)ETHANOL HETNAM K POTASSIUM ION HETSYN CAC DIMETHYLARSINATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN PG0 PEG 6000 FORMUL 7 MG 2(MG 2+) FORMUL 8 CAC 3(C2 H6 AS O2 1-) FORMUL 10 BME 2(C2 H6 O S) FORMUL 11 GOL 2(C3 H8 O3) FORMUL 12 PG0 C5 H12 O3 FORMUL 16 K K 1+ FORMUL 18 HOH *448(H2 O) HELIX 1 AA1 GLY A 16 GLY A 18 5 3 HELIX 2 AA2 ASN A 25 GLY A 37 1 13 HELIX 3 AA3 SER A 58 VAL A 75 1 18 HELIX 4 AA4 HIS A 92 GLY A 107 1 16 HELIX 5 AA5 ASN A 119 ASN A 132 1 14 HELIX 6 AA6 ASP A 142 LEU A 144 5 3 HELIX 7 AA7 ASN A 148 LEU A 164 1 17 HELIX 8 AA8 GLU A 221 ASN A 241 1 21 HELIX 9 AA9 MET A 260 GLN A 278 1 19 HELIX 10 AB1 GLU A 359 SER A 375 1 17 HELIX 11 AB2 PRO A 388 TYR A 407 1 20 HELIX 12 AB3 ASN A 417 ASN A 423 1 7 HELIX 13 AB4 GLY B 16 GLY B 18 5 3 HELIX 14 AB5 ASN B 25 GLY B 37 1 13 HELIX 15 AB6 SER B 58 VAL B 75 1 18 HELIX 16 AB7 HIS B 92 GLY B 107 1 16 HELIX 17 AB8 ASN B 119 ASN B 132 1 14 HELIX 18 AB9 TYR B 141 SER B 145 1 5 HELIX 19 AC1 ASN B 148 LEU B 164 1 17 HELIX 20 AC2 GLU B 221 ASN B 241 1 21 HELIX 21 AC3 MET B 260 GLN B 278 1 19 HELIX 22 AC4 GLU B 359 SER B 375 1 17 HELIX 23 AC5 PRO B 388 GLY B 408 1 21 HELIX 24 AC6 ASN B 413 GLY B 416 5 4 HELIX 25 AC7 ASN B 417 ASN B 423 1 7 SHEET 1 A 2 THR A 12 ARG A 14 0 SHEET 2 A 2 SER A 20 PRO A 22 -1 SHEET 1 B 4 ASN A 82 ILE A 87 0 SHEET 2 B 4 GLN A 48 HIS A 53 1 SHEET 3 B 4 GLY A 110 LEU A 115 1 SHEET 4 B 4 SER A 136 ARG A 140 1 SHEET 1 C 8 MET A 208 ILE A 213 0 SHEET 2 C 8 LEU A 195 PHE A 202 -1 SHEET 3 C 8 ILE A 181 ARG A 189 -1 SHEET 4 C 8 LYS A 248 SER A 254 1 SHEET 5 C 8 LYS A 286 GLU A 294 1 SHEET 6 C 8 ILE A 343 ASP A 353 -1 SHEET 7 C 8 ARG A 322 LEU A 328 -1 SHEET 8 C 8 THR A 314 LYS A 317 -1 SHEET 1 D 2 PHE A 298 VAL A 300 0 SHEET 2 D 2 THR A 341 ILE A 343 -1 SHEET 1 E 2 THR B 12 ARG B 14 0 SHEET 2 E 2 SER B 20 PRO B 22 -1 SHEET 1 F 4 ASN B 82 ILE B 87 0 SHEET 2 F 4 GLN B 48 HIS B 53 1 SHEET 3 F 4 GLY B 110 LEU B 115 1 SHEET 4 F 4 SER B 136 ARG B 140 1 SHEET 1 G 8 MET B 208 ILE B 213 0 SHEET 2 G 8 LEU B 195 PHE B 202 -1 SHEET 3 G 8 ILE B 181 ARG B 189 -1 SHEET 4 G 8 LYS B 248 SER B 254 1 SHEET 5 G 8 LYS B 286 GLU B 294 1 SHEET 6 G 8 LEU B 346 ASP B 353 -1 SHEET 7 G 8 ARG B 322 LEU B 325 -1 SHEET 8 G 8 LYS B 315 SER B 319 -1 SHEET 1 H 2 PHE B 298 VAL B 300 0 SHEET 2 H 2 THR B 341 ILE B 343 -1 LINK OE1 GLN A 159 MG MG A 501 1555 1555 2.07 LINK O LEU A 427 MG MG A 501 1555 1555 2.23 LINK OXT LEU A 427 MG MG A 501 1555 1555 2.50 LINK MG MG A 501 OP3 DA R 1 1555 1555 1.94 LINK MG MG A 501 OP1 DC R 3 1555 1555 2.05 LINK MG MG A 501 O HOH R 103 1555 1555 2.20 LINK O SER B 136 K K B 505 1555 1555 3.41 LINK OE1 GLN B 159 MG MG B 502 1555 1555 2.06 LINK O TRP B 425 K K B 505 1555 1555 2.68 LINK O LEU B 427 MG MG B 502 1555 1555 2.16 LINK OXT LEU B 427 MG MG B 502 1555 1555 2.45 LINK MG MG B 502 OP3 DA P 1 1555 1555 2.03 LINK MG MG B 502 OP1 DC P 3 1555 1555 2.13 LINK MG MG B 502 O HOH P 105 1555 1555 2.13 LINK K K B 505 O HOH B 731 1555 1555 2.47 LINK K K B 505 O HOH P 103 1555 1555 3.20 SITE 1 AC1 5 GLN A 159 LEU A 427 DA R 1 DC R 3 SITE 2 AC1 5 HOH R 103 SITE 1 AC2 2 TYR A 360 TYR A 361 SITE 1 AC3 4 GLY A 408 GLY A 409 TYR A 410 LYS B 45 SITE 1 AC4 5 ILE A 213 SER A 214 ILE A 412 HOH A 710 SITE 2 AC4 5 HOH A 729 SITE 1 AC5 7 LYS A 227 SER A 228 LYS A 231 LYS A 232 SITE 2 AC5 7 HOH A 653 HOH A 667 HOH A 769 SITE 1 AC6 2 PHE A 298 TYR B 311 SITE 1 AC7 5 GLN B 159 LEU B 427 DA P 1 DC P 3 SITE 2 AC7 5 HOH P 105 SITE 1 AC8 6 LYS A 45 LYS B 125 GLY B 408 GLY B 409 SITE 2 AC8 6 TYR B 410 HOH B 622 SITE 1 AC9 6 SER B 214 ILE B 401 PRO B 411 ILE B 412 SITE 2 AC9 6 ASN B 413 HOH B 641 SITE 1 AD1 4 SER B 136 LYS B 163 TRP B 425 HOH B 731 SITE 1 AD2 9 LYS A 97 ASP A 101 PRO B 42 SER B 43 SITE 2 AD2 9 LEU B 44 HIS B 77 ILE B 78 HIS B 79 SITE 3 AD2 9 HOH B 603 CRYST1 51.909 61.205 103.092 98.32 104.96 100.62 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 0.019264 0.003612 0.006001 0.00000 SCALE2 0.000000 0.016623 0.003436 0.00000 SCALE3 0.000000 0.000000 0.010252 0.00000