HEADER TRANSFERASE/TRANSFERASE INHIBITOR 27-MAR-12 4EDV TITLE THE STRUCTURE OF THE S. AUREUS DNAG RNA POLYMERASE DOMAIN BOUND TO TITLE 2 PPPGPP AND MANGANESE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA PRIMASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 111-436; COMPND 5 EC: 2.7.7.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 GENE: DNAG; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) CODON+; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS CATALYTIC DOMAIN, BACTERIAL, NUCLEOTIDE, NUCLEOSIDE TRIPHOSPHATE, KEYWDS 2 NUCLEOSIDE POLYPHOSPHATE, PROTEIN-LIGAND COMPLEX, TRANSFERASE, KEYWDS 3 TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.U.RYMER,F.A.SOLORIO,C.CHU,J.E.CORN,J.D.WANG,J.M.BERGER REVDAT 5 28-FEB-24 4EDV 1 REMARK SEQADV LINK REVDAT 4 12-NOV-14 4EDV 1 HETATM REVDAT 3 10-JUL-13 4EDV 1 JRNL REVDAT 2 01-AUG-12 4EDV 1 TITLE REVDAT 1 25-JUL-12 4EDV 0 JRNL AUTH R.U.RYMER,F.A.SOLORIO,A.K.TEHRANCHI,C.CHU,J.E.CORN,J.L.KECK, JRNL AUTH 2 J.D.WANG,J.M.BERGER JRNL TITL BINDING MECHANISM OF METAL-NTP SUBSTRATES AND JRNL TITL 2 STRINGENT-RESPONSE ALARMONES TO BACTERIAL DNAG-TYPE JRNL TITL 3 PRIMASES. JRNL REF STRUCTURE V. 20 1478 2012 JRNL REFN ISSN 0969-2126 JRNL PMID 22795082 JRNL DOI 10.1016/J.STR.2012.05.017 REMARK 2 REMARK 2 RESOLUTION. 2.01 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7.3_928 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) : 2.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.11 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.460 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 34198 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 1739 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 37.1143 - 4.5992 0.99 2815 144 0.1676 0.1882 REMARK 3 2 4.5992 - 3.6515 1.00 2770 134 0.1405 0.1635 REMARK 3 3 3.6515 - 3.1902 1.00 2703 147 0.1667 0.2041 REMARK 3 4 3.1902 - 2.8987 1.00 2734 137 0.1731 0.2204 REMARK 3 5 2.8987 - 2.6910 1.00 2670 164 0.1714 0.2235 REMARK 3 6 2.6910 - 2.5324 1.00 2713 131 0.1745 0.2287 REMARK 3 7 2.5324 - 2.4056 1.00 2667 138 0.1616 0.1993 REMARK 3 8 2.4056 - 2.3009 1.00 2688 154 0.1693 0.1946 REMARK 3 9 2.3009 - 2.2123 1.00 2688 156 0.1668 0.2093 REMARK 3 10 2.2123 - 2.1360 1.00 2660 125 0.1825 0.2412 REMARK 3 11 2.1360 - 2.0692 1.00 2692 164 0.1990 0.2210 REMARK 3 12 2.0692 - 2.0100 1.00 2659 145 0.2395 0.3222 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.30 REMARK 3 SHRINKAGE RADIUS : 1.11 REMARK 3 K_SOL : 0.32 REMARK 3 B_SOL : 40.18 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.260 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.470 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.06 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.54700 REMARK 3 B22 (A**2) : 3.54700 REMARK 3 B33 (A**2) : -7.09410 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.003 2720 REMARK 3 ANGLE : 0.720 3679 REMARK 3 CHIRALITY : 0.052 394 REMARK 3 PLANARITY : 0.003 471 REMARK 3 DIHEDRAL : 13.744 1040 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 108:233) REMARK 3 ORIGIN FOR THE GROUP (A): 143.2749 121.5898 -3.3855 REMARK 3 T TENSOR REMARK 3 T11: 0.1039 T22: 0.4708 REMARK 3 T33: 0.1524 T12: -0.0308 REMARK 3 T13: -0.0004 T23: -0.0151 REMARK 3 L TENSOR REMARK 3 L11: 1.9217 L22: 0.5399 REMARK 3 L33: 2.2019 L12: 0.0277 REMARK 3 L13: -0.0646 L23: -0.2983 REMARK 3 S TENSOR REMARK 3 S11: -0.0191 S12: 0.0671 S13: -0.0711 REMARK 3 S21: -0.0316 S22: 0.0306 S23: -0.0215 REMARK 3 S31: 0.1689 S32: 0.1875 S33: 0.0150 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 234:343) REMARK 3 ORIGIN FOR THE GROUP (A): 121.0324 123.7166 6.2889 REMARK 3 T TENSOR REMARK 3 T11: 0.0825 T22: 0.3403 REMARK 3 T33: 0.2072 T12: -0.0336 REMARK 3 T13: 0.0339 T23: -0.0354 REMARK 3 L TENSOR REMARK 3 L11: 3.5189 L22: 1.3488 REMARK 3 L33: 0.7143 L12: -0.6506 REMARK 3 L13: -0.3527 L23: -0.1678 REMARK 3 S TENSOR REMARK 3 S11: 0.0034 S12: -0.1080 S13: 0.0155 REMARK 3 S21: 0.0728 S22: 0.0181 S23: 0.1369 REMARK 3 S31: -0.0132 S32: 0.1243 S33: -0.0052 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 344:362) REMARK 3 ORIGIN FOR THE GROUP (A): 115.0045 134.2569 -6.6382 REMARK 3 T TENSOR REMARK 3 T11: 0.3418 T22: 0.5864 REMARK 3 T33: 0.4330 T12: 0.0463 REMARK 3 T13: 0.0633 T23: 0.0804 REMARK 3 L TENSOR REMARK 3 L11: 0.2863 L22: 0.3492 REMARK 3 L33: 0.6939 L12: 0.1346 REMARK 3 L13: 0.1249 L23: 0.0340 REMARK 3 S TENSOR REMARK 3 S11: 0.0329 S12: 0.6101 S13: 0.1014 REMARK 3 S21: -0.4369 S22: -0.2105 S23: 0.1194 REMARK 3 S31: -0.6959 S32: -0.3069 S33: -0.0119 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 363:428) REMARK 3 ORIGIN FOR THE GROUP (A): 97.2101 118.0214 8.6388 REMARK 3 T TENSOR REMARK 3 T11: 0.1562 T22: 0.2484 REMARK 3 T33: 0.3817 T12: 0.0191 REMARK 3 T13: 0.0504 T23: -0.0085 REMARK 3 L TENSOR REMARK 3 L11: 1.6481 L22: 2.3593 REMARK 3 L33: 1.1125 L12: 0.6475 REMARK 3 L13: 0.5190 L23: -0.1207 REMARK 3 S TENSOR REMARK 3 S11: 0.0620 S12: -0.1553 S13: 0.0008 REMARK 3 S21: 0.0802 S22: -0.0517 S23: 0.1346 REMARK 3 S31: 0.0312 S32: -0.0667 S33: -0.0003 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 4EDV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAR-12. REMARK 100 THE DEPOSITION ID IS D_1000071493. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-NOV-09 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 : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.115 REMARK 200 MONOCHROMATOR : DOUBLE FLAT CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34211 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.010 REMARK 200 RESOLUTION RANGE LOW (A) : 131.059 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 8.100 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.01 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 8.20 REMARK 200 R MERGE FOR SHELL (I) : 0.57200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX AUTOMR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.15M SODIUM THIOCYANATE, 0.1M BIS REMARK 280 -TRIS, 13% PEG3350, 2% BENZAMIDINE, 2.5 MM PPPGPP, 10 MM MNCL2, REMARK 280 1 MM MGCL2, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 12.89700 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 25.79400 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 19.34550 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 32.24250 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 6.44850 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 300 REMARK: MONOMER 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 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 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 GLN A 429 REMARK 465 PHE A 430 REMARK 465 ASN A 431 REMARK 465 GLN A 432 REMARK 465 ALA A 433 REMARK 465 PRO A 434 REMARK 465 ALA A 435 REMARK 465 ASN A 436 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 GLU A 193 CG CD OE1 OE2 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 708 O HOH A 799 2.09 REMARK 500 OD2 ASP A 270 O HOH A 709 2.18 REMARK 500 O HOH A 704 O HOH A 888 2.19 REMARK 500 OD2 ASP A 310 O HOH A 711 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 HIS A 166 18.30 -142.45 REMARK 500 ASN A 248 -0.68 79.22 REMARK 500 ASN A 281 48.97 -91.77 REMARK 500 ASN A 362 -77.87 -77.81 REMARK 500 REMARK 500 REMARK: NULL 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 503 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 310 OD2 REMARK 620 2 ASP A 343 OD2 109.1 REMARK 620 3 0O2 A 502 O2A 81.7 166.9 REMARK 620 4 0O2 A 502 O1B 150.7 91.7 75.6 REMARK 620 5 HOH A 708 O 90.4 72.6 100.5 75.9 REMARK 620 6 HOH A 709 O 86.5 103.3 84.4 109.2 173.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 505 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 312 OD2 REMARK 620 2 0O2 A 502 O1C 85.5 REMARK 620 3 0O2 A 502 O2D 133.6 97.2 REMARK 620 4 HOH A 692 O 88.5 164.3 76.5 REMARK 620 5 HOH A 706 O 139.8 113.1 81.3 80.5 REMARK 620 6 HOH A 711 O 67.6 86.2 158.6 105.0 78.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 504 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 343 OD2 REMARK 620 2 0O2 A 502 O3G 170.8 REMARK 620 3 0O2 A 502 O1B 92.5 78.9 REMARK 620 4 HOH A 611 O 90.1 88.9 104.1 REMARK 620 5 HOH A 712 O 92.8 96.3 165.9 88.9 REMARK 620 6 HOH A 799 O 74.5 106.6 78.9 164.5 89.9 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 BEN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0O2 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 505 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4E2K RELATED DB: PDB REMARK 900 APO SADNAG RPD REMARK 900 RELATED ID: 4EE1 RELATED DB: PDB REMARK 900 RELATED ID: 4EDZ RELATED DB: PDB REMARK 900 RELATED ID: 4EDY RELATED DB: PDB REMARK 900 RELATED ID: 4EDT RELATED DB: PDB REMARK 900 RELATED ID: 4EDR RELATED DB: PDB DBREF 4EDV A 111 436 UNP O05338 PRIM_STAAU 111 436 SEQADV 4EDV SER A 108 UNP O05338 EXPRESSION TAG SEQADV 4EDV ASN A 109 UNP O05338 EXPRESSION TAG SEQADV 4EDV ALA A 110 UNP O05338 EXPRESSION TAG SEQRES 1 A 329 SER ASN ALA ASP ASP LEU GLN MET ILE GLU MET HIS GLU SEQRES 2 A 329 LEU ILE GLN GLU PHE TYR TYR TYR ALA LEU THR LYS THR SEQRES 3 A 329 VAL GLU GLY GLU GLN ALA LEU THR TYR LEU GLN GLU ARG SEQRES 4 A 329 GLY PHE THR ASP ALA LEU ILE LYS GLU ARG GLY ILE GLY SEQRES 5 A 329 PHE ALA PRO ASP SER SER HIS PHE CYS HIS ASP PHE LEU SEQRES 6 A 329 GLN LYS LYS GLY TYR ASP ILE GLU LEU ALA TYR GLU ALA SEQRES 7 A 329 GLY LEU LEU SER ARG ASN GLU GLU ASN PHE SER TYR TYR SEQRES 8 A 329 ASP ARG PHE ARG ASN ARG ILE MET PHE PRO LEU LYS ASN SEQRES 9 A 329 ALA GLN GLY ARG ILE VAL GLY TYR SER GLY ARG THR TYR SEQRES 10 A 329 THR GLY GLN GLU PRO LYS TYR LEU ASN SER PRO GLU THR SEQRES 11 A 329 PRO ILE PHE GLN LYS ARG LYS LEU LEU TYR ASN LEU ASP SEQRES 12 A 329 LYS ALA ARG LYS SER ILE ARG LYS LEU ASP GLU ILE VAL SEQRES 13 A 329 LEU LEU GLU GLY PHE MET ASP VAL ILE LYS SER ASP THR SEQRES 14 A 329 ALA GLY LEU LYS ASN VAL VAL ALA THR MET GLY THR GLN SEQRES 15 A 329 LEU SER ASP GLU HIS ILE THR PHE ILE ARG LYS LEU THR SEQRES 16 A 329 SER ASN ILE THR LEU MET PHE ASP GLY ASP PHE ALA GLY SEQRES 17 A 329 SER GLU ALA THR LEU LYS THR GLY GLN HIS LEU LEU GLN SEQRES 18 A 329 GLN GLY LEU ASN VAL PHE VAL ILE GLN LEU PRO SER GLY SEQRES 19 A 329 MET ASP PRO ASP GLU TYR ILE GLY LYS TYR GLY ASN ASP SEQRES 20 A 329 ALA PHE THR THR PHE VAL LYS ASN ASP LYS LYS SER PHE SEQRES 21 A 329 ALA HIS TYR LYS VAL SER ILE LEU LYS ASP GLU ILE ALA SEQRES 22 A 329 HIS ASN ASP LEU SER TYR GLU ARG TYR LEU LYS GLU LEU SEQRES 23 A 329 SER HIS ASP ILE SER LEU MET LYS SER SER ILE LEU GLN SEQRES 24 A 329 GLN LYS ALA ILE ASN ASP VAL ALA PRO PHE PHE ASN VAL SEQRES 25 A 329 SER PRO GLU GLN LEU ALA ASN GLU ILE GLN PHE ASN GLN SEQRES 26 A 329 ALA PRO ALA ASN HET BEN A 501 9 HET 0O2 A 502 40 HET MN A 503 1 HET MN A 504 1 HET MN A 505 1 HETNAM BEN BENZAMIDINE HETNAM 0O2 GUANOSINE 5'-(TETRAHYDROGEN TRIPHOSPHATE) 3'- HETNAM 2 0O2 (TRIHYDROGEN DIPHOSPHATE) HETNAM MN MANGANESE (II) ION FORMUL 2 BEN C7 H8 N2 FORMUL 3 0O2 C10 H18 N5 O20 P5 FORMUL 4 MN 3(MN 2+) FORMUL 7 HOH *299(H2 O) HELIX 1 1 SER A 108 LYS A 132 1 25 HELIX 2 2 GLY A 136 ARG A 146 1 11 HELIX 3 3 THR A 149 GLY A 157 1 9 HELIX 4 4 HIS A 166 LYS A 175 1 10 HELIX 5 5 ASP A 178 ALA A 185 1 8 HELIX 6 6 ASN A 248 ASP A 260 1 13 HELIX 7 7 GLY A 267 GLY A 278 1 12 HELIX 8 8 SER A 291 THR A 302 1 12 HELIX 9 9 ASP A 312 GLN A 329 1 18 HELIX 10 10 ASP A 343 GLY A 352 1 10 HELIX 11 11 GLY A 352 ASP A 363 1 12 HELIX 12 12 PHE A 367 LEU A 375 1 9 HELIX 13 13 LEU A 375 ASN A 382 1 8 HELIX 14 14 ASN A 382 MET A 400 1 19 HELIX 15 15 SER A 402 ALA A 414 1 13 HELIX 16 16 PRO A 415 ASN A 418 5 4 HELIX 17 17 SER A 420 ILE A 428 1 9 SHEET 1 A 4 GLY A 159 ALA A 161 0 SHEET 2 A 4 ARG A 204 LYS A 210 -1 O ARG A 204 N ALA A 161 SHEET 3 A 4 ILE A 216 ARG A 222 -1 O ARG A 222 N ILE A 205 SHEET 4 A 4 TYR A 231 ASN A 233 -1 O LEU A 232 N GLY A 221 SHEET 1 B 2 LEU A 188 ASN A 191 0 SHEET 2 B 2 SER A 196 ASP A 199 -1 O TYR A 198 N SER A 189 SHEET 1 C 5 VAL A 282 VAL A 283 0 SHEET 2 C 5 ILE A 262 LEU A 264 1 N VAL A 263 O VAL A 283 SHEET 3 C 5 ASN A 304 LEU A 307 1 O THR A 306 N ILE A 262 SHEET 4 C 5 ASN A 332 VAL A 335 1 O PHE A 334 N LEU A 307 SHEET 5 C 5 LYS A 365 SER A 366 -1 O LYS A 365 N VAL A 335 LINK OD2 ASP A 310 MN MN A 503 1555 1555 2.47 LINK OD2 ASP A 312 MN MN A 505 1555 1555 2.57 LINK OD2 ASP A 343 MN MN A 503 1555 1555 2.45 LINK OD2 ASP A 343 MN MN A 504 1555 1555 2.42 LINK O2A 0O2 A 502 MN MN A 503 1555 1555 2.45 LINK O1B 0O2 A 502 MN MN A 503 1555 1555 2.48 LINK O3G 0O2 A 502 MN MN A 504 1555 1555 2.46 LINK O1B 0O2 A 502 MN MN A 504 1555 1555 2.48 LINK O1C 0O2 A 502 MN MN A 505 1555 1555 2.65 LINK O2D 0O2 A 502 MN MN A 505 1555 1555 2.73 LINK MN MN A 503 O HOH A 708 1555 1555 2.68 LINK MN MN A 503 O HOH A 709 1555 1555 2.42 LINK MN MN A 504 O HOH A 611 1555 1555 2.53 LINK MN MN A 504 O HOH A 712 1555 1555 2.49 LINK MN MN A 504 O HOH A 799 1555 1555 2.56 LINK MN MN A 505 O HOH A 692 1555 1555 2.55 LINK MN MN A 505 O HOH A 706 1555 1555 2.56 LINK MN MN A 505 O HOH A 711 1555 1555 2.62 CISPEP 1 GLU A 228 PRO A 229 0 -2.68 SITE 1 AC1 4 GLU A 124 PHE A 125 TYR A 128 HOH A 672 SITE 1 AC2 22 ARG A 146 ARG A 222 GLU A 228 PRO A 229 SITE 2 AC2 22 LYS A 230 TYR A 231 ASP A 310 ASP A 312 SITE 3 AC2 22 ALA A 314 ASP A 343 MN A 503 MN A 504 SITE 4 AC2 22 MN A 505 HOH A 611 HOH A 639 HOH A 706 SITE 5 AC2 22 HOH A 719 HOH A 751 HOH A 798 HOH A 826 SITE 6 AC2 22 HOH A 828 HOH A 829 SITE 1 AC3 6 ASP A 310 ASP A 343 0O2 A 502 MN A 504 SITE 2 AC3 6 HOH A 708 HOH A 709 SITE 1 AC4 6 ASP A 343 0O2 A 502 MN A 503 HOH A 611 SITE 2 AC4 6 HOH A 712 HOH A 799 SITE 1 AC5 5 ASP A 312 0O2 A 502 HOH A 692 HOH A 706 SITE 2 AC5 5 HOH A 711 CRYST1 151.334 151.334 38.691 90.00 90.00 120.00 P 61 6 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 0.006608 0.003815 0.000000 0.00000 SCALE2 0.000000 0.007630 0.000000 0.00000 SCALE3 0.000000 0.000000 0.025846 0.00000 CONECT 1671 2664 CONECT 1683 2666 CONECT 1914 2664 2665 CONECT 2615 2616 2620 2621 CONECT 2616 2615 2617 CONECT 2617 2616 2618 CONECT 2618 2617 2619 CONECT 2619 2618 2620 CONECT 2620 2615 2619 CONECT 2621 2615 2622 2623 CONECT 2622 2621 CONECT 2623 2621 CONECT 2624 2625 2626 2627 2663 CONECT 2625 2624 CONECT 2626 2624 2666 CONECT 2627 2624 CONECT 2628 2629 2630 2631 2635 CONECT 2629 2628 CONECT 2630 2628 CONECT 2631 2628 2665 CONECT 2632 2633 2634 2635 2636 CONECT 2633 2632 2664 2665 CONECT 2634 2632 CONECT 2635 2628 2632 CONECT 2636 2632 2637 CONECT 2637 2636 2638 2639 2640 CONECT 2638 2637 CONECT 2639 2637 2664 CONECT 2640 2637 2641 CONECT 2641 2640 2642 CONECT 2642 2641 2643 2644 CONECT 2643 2642 2648 CONECT 2644 2642 2645 2646 CONECT 2645 2644 2660 CONECT 2646 2644 2647 2648 CONECT 2647 2646 CONECT 2648 2643 2646 2649 CONECT 2649 2648 2650 2659 CONECT 2650 2649 2651 CONECT 2651 2650 2652 CONECT 2652 2651 2653 2659 CONECT 2653 2652 2654 2655 CONECT 2654 2653 CONECT 2655 2653 2656 CONECT 2656 2655 2657 2658 CONECT 2657 2656 CONECT 2658 2656 2659 CONECT 2659 2649 2652 2658 CONECT 2660 2645 2661 2662 2663 CONECT 2661 2660 2666 CONECT 2662 2660 CONECT 2663 2624 2660 CONECT 2664 1671 1914 2633 2639 CONECT 2664 2774 2775 CONECT 2665 1914 2631 2633 2677 CONECT 2665 2778 2865 CONECT 2666 1683 2626 2661 2758 CONECT 2666 2772 2777 CONECT 2677 2665 CONECT 2758 2666 CONECT 2772 2666 CONECT 2774 2664 CONECT 2775 2664 CONECT 2777 2666 CONECT 2778 2665 CONECT 2865 2665 MASTER 394 0 5 17 11 0 13 6 2939 1 66 26 END