HEADER VIRAL PROTEIN 30-APR-21 7ODY TITLE CYANOPHAGE S-2L MAZG-LIKE PYROPHOSPHOHYDROLASE BOUND TO DGDP AND THREE TITLE 2 CATALYTIC MN2+ IONS PER ACTIVE SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAZG-LIKE PYROPHOSPHOHYDROLASE (MAZZ); COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CYANOPHAGE S-2L; SOURCE 3 ORGANISM_TAXID: 260586; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS S-2L, MAZG-LIKE PYROPHOSPHOHYDROLASE, MAZZ, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.CZERNECKI,M.DELARUE REVDAT 2 19-JUN-24 7ODY 1 REMARK REVDAT 1 01-SEP-21 7ODY 0 JRNL AUTH D.CZERNECKI,F.BONHOMME,P.A.KAMINSKI,M.DELARUE JRNL TITL CHARACTERIZATION OF A TRIAD OF GENES IN CYANOPHAGE S-2L JRNL TITL 2 SUFFICIENT TO REPLACE ADENINE BY 2-AMINOADENINE IN BACTERIAL JRNL TITL 3 DNA. JRNL REF NAT COMMUN V. 12 4710 2021 JRNL REFN ESSN 2041-1723 JRNL PMID 34354070 JRNL DOI 10.1038/S41467-021-25064-X REMARK 2 REMARK 2 RESOLUTION. 1.43 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.43 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.45 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 104232 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.167 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5210 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 48.4500 - 4.4400 1.00 3555 187 0.1980 0.1994 REMARK 3 2 4.4400 - 3.5200 1.00 3417 180 0.1402 0.1401 REMARK 3 3 3.5200 - 3.0800 1.00 3373 177 0.1555 0.1567 REMARK 3 4 3.0800 - 2.8000 1.00 3345 176 0.1502 0.1507 REMARK 3 5 2.8000 - 2.6000 1.00 3344 176 0.1393 0.1418 REMARK 3 6 2.6000 - 2.4400 1.00 3329 176 0.1399 0.1366 REMARK 3 7 2.4400 - 2.3200 1.00 3333 175 0.1362 0.1335 REMARK 3 8 2.3200 - 2.2200 1.00 3302 174 0.1352 0.1344 REMARK 3 9 2.2200 - 2.1300 1.00 3293 173 0.1413 0.1486 REMARK 3 10 2.1300 - 2.0600 1.00 3325 175 0.1418 0.1432 REMARK 3 11 2.0600 - 2.0000 1.00 3305 174 0.1530 0.1622 REMARK 3 12 2.0000 - 1.9400 1.00 3291 173 0.1646 0.1655 REMARK 3 13 1.9400 - 1.8900 1.00 3313 175 0.1662 0.1569 REMARK 3 14 1.8900 - 1.8400 1.00 3283 172 0.1728 0.1832 REMARK 3 15 1.8400 - 1.8000 1.00 3293 173 0.1751 0.1670 REMARK 3 16 1.8000 - 1.7600 1.00 3273 172 0.1790 0.1714 REMARK 3 17 1.7600 - 1.7300 1.00 3268 172 0.1865 0.1881 REMARK 3 18 1.7300 - 1.6900 1.00 3312 174 0.1911 0.2255 REMARK 3 19 1.6900 - 1.6600 1.00 3264 172 0.2015 0.2136 REMARK 3 20 1.6600 - 1.6400 1.00 3279 173 0.2014 0.2053 REMARK 3 21 1.6400 - 1.6100 1.00 3271 172 0.2004 0.2133 REMARK 3 22 1.6100 - 1.5800 1.00 3279 172 0.2049 0.2270 REMARK 3 23 1.5800 - 1.5600 1.00 3285 172 0.2076 0.2100 REMARK 3 24 1.5600 - 1.5400 1.00 3251 172 0.2170 0.2359 REMARK 3 25 1.5400 - 1.5200 1.00 3281 172 0.2209 0.2259 REMARK 3 26 1.5200 - 1.5000 1.00 3258 172 0.2241 0.2449 REMARK 3 27 1.5000 - 1.4800 1.00 3282 173 0.2377 0.2552 REMARK 3 28 1.4800 - 1.4600 1.00 3275 172 0.2616 0.2781 REMARK 3 29 1.4600 - 1.4500 1.00 3242 171 0.2828 0.3088 REMARK 3 30 1.4500 - 1.4300 0.96 3101 163 0.3010 0.2921 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) : 0.152 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.501 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.14 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.67 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 : 0.008 3133 REMARK 3 ANGLE : 1.349 4302 REMARK 3 CHIRALITY : 0.271 514 REMARK 3 PLANARITY : 0.006 591 REMARK 3 DIHEDRAL : 13.762 1196 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 8.2077 -11.8002 -18.5611 REMARK 3 T TENSOR REMARK 3 T11: 0.1517 T22: 0.1443 REMARK 3 T33: 0.1490 T12: 0.0203 REMARK 3 T13: 0.0059 T23: -0.0032 REMARK 3 L TENSOR REMARK 3 L11: 0.5844 L22: 0.6801 REMARK 3 L33: 0.7463 L12: 0.2077 REMARK 3 L13: -0.0426 L23: -0.2311 REMARK 3 S TENSOR REMARK 3 S11: 0.0034 S12: 0.0503 S13: 0.0203 REMARK 3 S21: -0.0059 S22: -0.0278 S23: -0.0189 REMARK 3 S31: -0.0440 S32: 0.0015 S33: 0.0221 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 7ODY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-APR-21. REMARK 100 THE DEPOSITION ID IS D_1292114091. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-NOV-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.127129 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : KB MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 104356 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.429 REMARK 200 RESOLUTION RANGE LOW (A) : 48.520 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 13.10 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.43 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.47 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : 10.90 REMARK 200 R MERGE FOR SHELL (I) : 1.93800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: AUTOSOL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM LI2SO4; 1.26 M (NH4)2SO4; 100 REMARK 280 MM TRIS PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 291.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 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 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 26.79500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 57.14000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.68500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 57.14000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.79500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.68500 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 19860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -334.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 GLY A -5 REMARK 465 THR A -4 REMARK 465 GLY A -3 REMARK 465 ASP A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 ALA A 45 REMARK 465 HIS A 46 REMARK 465 SER A 103 REMARK 465 PHE A 104 REMARK 465 PRO A 105 REMARK 465 GLY B -5 REMARK 465 THR B -4 REMARK 465 GLY B -3 REMARK 465 ASP B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 ALA B 45 REMARK 465 HIS B 46 REMARK 465 GLY B 98 REMARK 465 SER B 99 REMARK 465 ASP B 100 REMARK 465 THR B 101 REMARK 465 PRO B 102 REMARK 465 SER B 103 REMARK 465 PHE B 104 REMARK 465 PRO B 105 REMARK 465 GLY C -5 REMARK 465 THR C -4 REMARK 465 GLY C -3 REMARK 465 ASP C -2 REMARK 465 GLY C -1 REMARK 465 ASP C 100 REMARK 465 THR C 101 REMARK 465 PRO C 102 REMARK 465 SER C 103 REMARK 465 PHE C 104 REMARK 465 PRO C 105 REMARK 465 GLY D -5 REMARK 465 THR D -4 REMARK 465 GLY D -3 REMARK 465 ASP D -2 REMARK 465 GLY D -1 REMARK 465 SER D 0 REMARK 465 MET D 1 REMARK 465 ASP D 43 REMARK 465 ARG D 44 REMARK 465 ALA D 45 REMARK 465 HIS D 46 REMARK 465 GLY D 98 REMARK 465 SER D 99 REMARK 465 ASP D 100 REMARK 465 THR D 101 REMARK 465 PRO D 102 REMARK 465 SER D 103 REMARK 465 PHE D 104 REMARK 465 PRO D 105 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 H ASP C 47 O HOH C 302 1.48 REMARK 500 HD1 HIS C 17 O HOH C 304 1.54 REMARK 500 H ASP B 89 O4 SO4 B 205 1.56 REMARK 500 O HOH A 339 O HOH A 363 1.88 REMARK 500 O HOH B 419 O HOH D 417 1.91 REMARK 500 O HOH D 343 O HOH D 413 1.96 REMARK 500 O HOH D 303 O HOH D 406 2.05 REMARK 500 O HOH D 362 O HOH D 409 2.12 REMARK 500 O3 SO4 B 205 O HOH B 302 2.13 REMARK 500 O HOH C 371 O HOH C 401 2.15 REMARK 500 O HOH B 396 O HOH B 410 2.15 REMARK 500 O HOH C 369 O HOH D 393 2.17 REMARK 500 O HOH C 314 O HOH C 403 2.17 REMARK 500 O HOH C 363 O HOH C 396 2.18 REMARK 500 O HOH D 359 O HOH D 397 2.19 REMARK 500 OD1 ASP D 22 O HOH D 301 2.19 REMARK 500 OD1 ASP B 22 O HOH B 303 2.19 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 B 382 O HOH C 402 3554 2.08 REMARK 500 O HOH B 333 O HOH C 402 3554 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 43 42.78 -98.48 REMARK 500 ALA D 92 -159.74 -88.31 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 411 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A 412 DISTANCE = 7.02 ANGSTROMS REMARK 525 HOH B 422 DISTANCE = 6.04 ANGSTROMS REMARK 525 HOH D 424 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH D 425 DISTANCE = 6.09 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 MN A 203 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 34 OE2 REMARK 620 2 GLU A 35 OE2 86.2 REMARK 620 3 GLU A 38 OE2 85.8 93.6 REMARK 620 4 DGI A 201 O1B 171.4 95.7 102.4 REMARK 620 5 DGI A 201 O1A 86.1 98.5 164.9 85.4 REMARK 620 6 HOH A 341 O 83.8 170.0 86.8 94.0 79.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 202 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 35 OE1 REMARK 620 2 GLU A 38 OE1 90.9 REMARK 620 3 GLU A 50 OE2 93.2 83.0 REMARK 620 4 ASP A 53 OD2 93.1 170.5 88.2 REMARK 620 5 DGI A 201 O1B 91.5 89.4 171.2 99.1 REMARK 620 6 HOH A 311 O 178.5 87.9 85.8 88.0 89.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 204 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 38 OE1 REMARK 620 2 GLU A 50 OE1 79.1 REMARK 620 3 HOH A 311 O 73.9 59.3 REMARK 620 4 HOH D 310 O 85.2 144.9 86.3 REMARK 620 5 HOH D 311 O 160.9 101.2 89.7 84.1 REMARK 620 6 HOH D 396 O 101.4 115.9 173.6 97.7 95.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN D 203 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 346 O REMARK 620 2 GLU D 34 OE2 91.2 REMARK 620 3 GLU D 35 OE2 177.4 86.4 REMARK 620 4 GLU D 38 OE2 88.0 89.7 92.8 REMARK 620 5 DGI D 201 O1B 88.2 171.8 94.1 98.5 REMARK 620 6 DGI D 201 O1A 81.4 89.3 97.8 169.3 82.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 203 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 34 OE2 REMARK 620 2 GLU B 35 OE2 88.3 REMARK 620 3 GLU B 38 OE2 86.8 92.4 REMARK 620 4 DGI B 201 O1B 174.7 93.1 98.2 REMARK 620 5 DGI B 201 O1A 89.0 97.1 169.5 85.7 REMARK 620 6 HOH B 328 O 88.3 176.5 86.7 90.4 83.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 202 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 35 OE1 REMARK 620 2 GLU B 38 OE1 92.7 REMARK 620 3 GLU B 50 OE1 98.4 81.7 REMARK 620 4 ASP B 53 OD2 91.9 171.1 90.1 REMARK 620 5 DGI B 201 O1B 91.1 85.2 164.1 102.3 REMARK 620 6 HOH B 321 O 176.7 84.2 82.0 91.4 87.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 204 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 38 OE1 REMARK 620 2 GLU B 50 OE2 84.0 REMARK 620 3 HOH B 321 O 74.5 69.2 REMARK 620 4 HOH B 374 O 94.5 102.9 166.8 REMARK 620 5 HOH C 303 O 81.7 157.6 90.3 95.4 REMARK 620 6 HOH C 348 O 164.7 97.7 91.8 99.9 91.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN C 204 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 302 O REMARK 620 2 HOH B 347 O 91.7 REMARK 620 3 GLU C 38 OE1 85.1 165.9 REMARK 620 4 GLU C 50 OE1 162.7 91.8 87.4 REMARK 620 5 HOH C 340 O 94.5 83.7 82.9 69.1 REMARK 620 6 HOH C 378 O 89.6 99.7 94.0 106.5 174.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN C 203 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 34 OE2 REMARK 620 2 GLU C 35 OE2 92.1 REMARK 620 3 GLU C 38 OE2 89.5 94.0 REMARK 620 4 DGI C 201 O1B 173.7 88.7 96.7 REMARK 620 5 DGI C 201 O1A 88.4 97.5 168.4 85.4 REMARK 620 6 HOH C 345 O 87.4 179.4 86.3 91.8 82.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN C 202 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 35 OE1 REMARK 620 2 GLU C 38 OE1 91.1 REMARK 620 3 GLU C 50 OE2 94.0 82.6 REMARK 620 4 ASP C 53 OD2 90.0 168.7 86.1 REMARK 620 5 DGI C 201 O1B 94.7 91.2 169.4 99.9 REMARK 620 6 HOH C 340 O 177.4 87.8 83.6 90.7 87.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN D 202 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 35 OE1 REMARK 620 2 GLU D 38 OE1 92.6 REMARK 620 3 GLU D 50 OE2 101.8 82.1 REMARK 620 4 ASP D 53 OD2 94.8 170.3 90.2 REMARK 620 5 DGI D 201 O1B 88.5 88.8 166.5 97.7 REMARK 620 6 HOH D 316 O 177.1 85.1 79.6 87.7 89.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN D 204 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 38 OE1 REMARK 620 2 GLU D 50 OE1 90.5 REMARK 620 3 HOH D 305 O 91.3 159.2 REMARK 620 4 HOH D 316 O 84.2 69.8 89.8 REMARK 620 5 HOH D 385 O 94.0 107.4 93.2 176.6 REMARK 620 N 1 2 3 4 DBREF 7ODY A -5 105 PDB 7ODY 7ODY -5 105 DBREF 7ODY B -5 105 PDB 7ODY 7ODY -5 105 DBREF 7ODY C -5 105 PDB 7ODY 7ODY -5 105 DBREF 7ODY D -5 105 PDB 7ODY 7ODY -5 105 SEQRES 1 A 111 GLY THR GLY ASP GLY SER MET PRO ALA THR VAL ALA GLU SEQRES 2 A 111 LEU GLN ALA GLU ILE ALA ALA TRP ILE HIS PRO LEU ASN SEQRES 3 A 111 PRO ASP ARG ARG PRO GLY GLY THR ILE ALA LYS LEU LEU SEQRES 4 A 111 GLU GLU ILE GLY GLU LEU ILE ALA SER ASP ARG ALA HIS SEQRES 5 A 111 ASP PRO LEU GLU VAL ALA ASP VAL LEU ILE LEU ALA LEU SEQRES 6 A 111 ASP LEU ALA THR LEU LEU GLY VAL ASP VAL THR GLU ALA SEQRES 7 A 111 ILE ARG ALA LYS LEU ALA ILE ASN ARG ALA ARG SER TRP SEQRES 8 A 111 ALA ARG ALA ASP ASN GLY ALA MET ARG HIS ILE PRO GLY SEQRES 9 A 111 SER ASP THR PRO SER PHE PRO SEQRES 1 B 111 GLY THR GLY ASP GLY SER MET PRO ALA THR VAL ALA GLU SEQRES 2 B 111 LEU GLN ALA GLU ILE ALA ALA TRP ILE HIS PRO LEU ASN SEQRES 3 B 111 PRO ASP ARG ARG PRO GLY GLY THR ILE ALA LYS LEU LEU SEQRES 4 B 111 GLU GLU ILE GLY GLU LEU ILE ALA SER ASP ARG ALA HIS SEQRES 5 B 111 ASP PRO LEU GLU VAL ALA ASP VAL LEU ILE LEU ALA LEU SEQRES 6 B 111 ASP LEU ALA THR LEU LEU GLY VAL ASP VAL THR GLU ALA SEQRES 7 B 111 ILE ARG ALA LYS LEU ALA ILE ASN ARG ALA ARG SER TRP SEQRES 8 B 111 ALA ARG ALA ASP ASN GLY ALA MET ARG HIS ILE PRO GLY SEQRES 9 B 111 SER ASP THR PRO SER PHE PRO SEQRES 1 C 111 GLY THR GLY ASP GLY SER MET PRO ALA THR VAL ALA GLU SEQRES 2 C 111 LEU GLN ALA GLU ILE ALA ALA TRP ILE HIS PRO LEU ASN SEQRES 3 C 111 PRO ASP ARG ARG PRO GLY GLY THR ILE ALA LYS LEU LEU SEQRES 4 C 111 GLU GLU ILE GLY GLU LEU ILE ALA SER ASP ARG ALA HIS SEQRES 5 C 111 ASP PRO LEU GLU VAL ALA ASP VAL LEU ILE LEU ALA LEU SEQRES 6 C 111 ASP LEU ALA THR LEU LEU GLY VAL ASP VAL THR GLU ALA SEQRES 7 C 111 ILE ARG ALA LYS LEU ALA ILE ASN ARG ALA ARG SER TRP SEQRES 8 C 111 ALA ARG ALA ASP ASN GLY ALA MET ARG HIS ILE PRO GLY SEQRES 9 C 111 SER ASP THR PRO SER PHE PRO SEQRES 1 D 111 GLY THR GLY ASP GLY SER MET PRO ALA THR VAL ALA GLU SEQRES 2 D 111 LEU GLN ALA GLU ILE ALA ALA TRP ILE HIS PRO LEU ASN SEQRES 3 D 111 PRO ASP ARG ARG PRO GLY GLY THR ILE ALA LYS LEU LEU SEQRES 4 D 111 GLU GLU ILE GLY GLU LEU ILE ALA SER ASP ARG ALA HIS SEQRES 5 D 111 ASP PRO LEU GLU VAL ALA ASP VAL LEU ILE LEU ALA LEU SEQRES 6 D 111 ASP LEU ALA THR LEU LEU GLY VAL ASP VAL THR GLU ALA SEQRES 7 D 111 ILE ARG ALA LYS LEU ALA ILE ASN ARG ALA ARG SER TRP SEQRES 8 D 111 ALA ARG ALA ASP ASN GLY ALA MET ARG HIS ILE PRO GLY SEQRES 9 D 111 SER ASP THR PRO SER PHE PRO HET DGI A 201 42 HET MN A 202 1 HET MN A 203 1 HET MN A 204 1 HET SO4 A 205 5 HET SO4 A 206 5 HET DGI B 201 42 HET MN B 202 1 HET MN B 203 1 HET MN B 204 1 HET SO4 B 205 5 HET SO4 B 206 5 HET DGI C 201 42 HET MN C 202 1 HET MN C 203 1 HET MN C 204 1 HET SO4 C 205 5 HET SO4 C 206 5 HET DGI D 201 42 HET MN D 202 1 HET MN D 203 1 HET MN D 204 1 HET SO4 D 205 5 HET SO4 D 206 5 HETNAM DGI 2'-DEOXYGUANOSINE-5'-DIPHOSPHATE HETNAM MN MANGANESE (II) ION HETNAM SO4 SULFATE ION FORMUL 5 DGI 4(C10 H15 N5 O10 P2) FORMUL 6 MN 12(MN 2+) FORMUL 9 SO4 8(O4 S 2-) FORMUL 29 HOH *488(H2 O) HELIX 1 AA1 THR A 4 ASN A 20 1 17 HELIX 2 AA2 ARG A 24 SER A 42 1 19 HELIX 3 AA3 PRO A 48 LEU A 65 1 18 HELIX 4 AA4 ASP A 68 ARG A 83 1 16 HELIX 5 AA5 THR B 4 ASN B 20 1 17 HELIX 6 AA6 ARG B 24 SER B 42 1 19 HELIX 7 AA7 PRO B 48 LEU B 65 1 18 HELIX 8 AA8 ASP B 68 ARG B 83 1 16 HELIX 9 AA9 THR C 4 HIS C 17 1 14 HELIX 10 AB1 ARG C 24 SER C 42 1 19 HELIX 11 AB2 ASP C 47 GLY C 66 1 20 HELIX 12 AB3 ASP C 68 ARG C 83 1 16 HELIX 13 AB4 THR D 4 ASN D 20 1 17 HELIX 14 AB5 ARG D 24 SER D 42 1 19 HELIX 15 AB6 PRO D 48 LEU D 65 1 18 HELIX 16 AB7 ASP D 68 ARG D 83 1 16 SHEET 1 AA1 2 TRP A 85 ARG A 87 0 SHEET 2 AA1 2 MET A 93 HIS A 95 -1 O ARG A 94 N ALA A 86 SHEET 1 AA2 2 TRP B 85 ARG B 87 0 SHEET 2 AA2 2 MET B 93 HIS B 95 -1 O ARG B 94 N ALA B 86 SHEET 1 AA3 2 SER C 84 ARG C 87 0 SHEET 2 AA3 2 MET C 93 ILE C 96 -1 O ARG C 94 N ALA C 86 SHEET 1 AA4 2 SER D 84 ARG D 87 0 SHEET 2 AA4 2 MET D 93 ILE D 96 -1 O ILE D 96 N SER D 84 LINK OE2 GLU A 34 MN MN A 203 1555 1555 2.28 LINK OE1 GLU A 35 MN MN A 202 1555 1555 2.02 LINK OE2 GLU A 35 MN MN A 203 1555 1555 2.07 LINK OE1 GLU A 38 MN MN A 202 1555 1555 2.20 LINK OE2 GLU A 38 MN MN A 203 1555 1555 2.11 LINK OE1 GLU A 38 MN MN A 204 1555 1555 2.38 LINK OE2 GLU A 50 MN MN A 202 1555 1555 2.10 LINK OE1 GLU A 50 MN MN A 204 1555 1555 2.52 LINK OD2 ASP A 53 MN MN A 202 1555 1555 2.15 LINK O1B DGI A 201 MN MN A 202 1555 1555 2.22 LINK O1B DGI A 201 MN MN A 203 1555 1555 2.18 LINK O1A DGI A 201 MN MN A 203 1555 1555 2.16 LINK MN MN A 202 O HOH A 311 1555 1555 2.28 LINK MN MN A 203 O HOH A 341 1555 1555 2.33 LINK MN MN A 204 O HOH A 311 1555 1555 2.77 LINK MN MN A 204 O HOH D 310 1555 1555 2.17 LINK MN MN A 204 O HOH D 311 1555 1555 2.67 LINK MN MN A 204 O HOH D 396 1555 1555 2.25 LINK O HOH A 346 MN MN D 203 1555 1555 2.44 LINK OE2 GLU B 34 MN MN B 203 1555 1555 2.24 LINK OE1 GLU B 35 MN MN B 202 1555 1555 2.06 LINK OE2 GLU B 35 MN MN B 203 1555 1555 2.16 LINK OE1 GLU B 38 MN MN B 202 1555 1555 2.26 LINK OE2 GLU B 38 MN MN B 203 1555 1555 2.10 LINK OE1 GLU B 38 MN MN B 204 1555 1555 2.29 LINK OE1 GLU B 50 MN MN B 202 1555 1555 2.40 LINK OE2 GLU B 50 MN MN B 204 1555 1555 2.12 LINK OD2 ASP B 53 MN MN B 202 1555 1555 2.15 LINK O1B DGI B 201 MN MN B 202 1555 1555 2.20 LINK O1B DGI B 201 MN MN B 203 1555 1555 2.18 LINK O1A DGI B 201 MN MN B 203 1555 1555 1.99 LINK MN MN B 202 O HOH B 321 1555 1555 2.15 LINK MN MN B 203 O HOH B 328 1555 1555 2.16 LINK MN MN B 204 O HOH B 321 1555 1555 2.59 LINK MN MN B 204 O HOH B 374 1555 1555 1.98 LINK MN MN B 204 O HOH C 303 1555 1555 2.34 LINK MN MN B 204 O HOH C 348 1555 1555 2.26 LINK O HOH B 302 MN MN C 204 1555 1555 2.31 LINK O HOH B 347 MN MN C 204 1555 1555 2.45 LINK OE2 GLU C 34 MN MN C 203 1555 1555 2.25 LINK OE1 GLU C 35 MN MN C 202 1555 1555 2.12 LINK OE2 GLU C 35 MN MN C 203 1555 1555 2.11 LINK OE1 GLU C 38 MN MN C 202 1555 1555 2.13 LINK OE2 GLU C 38 MN MN C 203 1555 1555 2.08 LINK OE1 GLU C 38 MN MN C 204 1555 1555 2.30 LINK OE2 GLU C 50 MN MN C 202 1555 1555 2.11 LINK OE1 GLU C 50 MN MN C 204 1555 1555 2.48 LINK OD2 ASP C 53 MN MN C 202 1555 1555 2.15 LINK O1B DGI C 201 MN MN C 202 1555 1555 2.11 LINK O1B DGI C 201 MN MN C 203 1555 1555 2.33 LINK O1A DGI C 201 MN MN C 203 1555 1555 2.03 LINK MN MN C 202 O HOH C 340 1555 1555 2.39 LINK MN MN C 203 O HOH C 345 1555 1555 2.25 LINK MN MN C 204 O HOH C 340 1555 1555 2.45 LINK MN MN C 204 O HOH C 378 1555 1555 1.87 LINK OE2 GLU D 34 MN MN D 203 1555 1555 2.24 LINK OE1 GLU D 35 MN MN D 202 1555 1555 2.02 LINK OE2 GLU D 35 MN MN D 203 1555 1555 2.09 LINK OE1 GLU D 38 MN MN D 202 1555 1555 2.24 LINK OE2 GLU D 38 MN MN D 203 1555 1555 2.12 LINK OE1 GLU D 38 MN MN D 204 1555 1555 2.14 LINK OE2 GLU D 50 MN MN D 202 1555 1555 2.08 LINK OE1 GLU D 50 MN MN D 204 1555 1555 2.34 LINK OD2 ASP D 53 MN MN D 202 1555 1555 2.09 LINK O1B DGI D 201 MN MN D 202 1555 1555 2.27 LINK O1B DGI D 201 MN MN D 203 1555 1555 2.23 LINK O1A DGI D 201 MN MN D 203 1555 1555 2.08 LINK MN MN D 202 O HOH D 316 1555 1555 2.24 LINK MN MN D 204 O HOH D 305 1555 1555 2.18 LINK MN MN D 204 O HOH D 316 1555 1555 2.37 LINK MN MN D 204 O HOH D 385 1555 1555 2.39 CISPEP 1 MET C 1 PRO C 2 0 -2.93 CRYST1 53.590 91.370 114.280 90.00 90.00 90.00 P 21 21 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 0.018660 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010945 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008750 0.00000