HEADER TRANSFERASE 27-MAR-12 4EDK TITLE THE STRUCTURE OF THE S. AUREUS DNAG RNA POLYMERASE DOMAIN BOUND TO GTP TITLE 2 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, NUCLEOSIDE TRIPHOSPHATE, NUCLEOSIDE POLYPHOSPHATE, KEYWDS 2 PROTEIN-LIGAND COMPLEX, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR R.U.RYMER,F.A.SOLORIO,C.CHU,J.E.CORN,J.D.WANG,J.M.BERGER REVDAT 4 28-FEB-24 4EDK 1 REMARK SEQADV LINK REVDAT 3 10-JUL-13 4EDK 1 JRNL REVDAT 2 01-AUG-12 4EDK 1 TITLE REVDAT 1 25-JUL-12 4EDK 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. 2.00 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.94 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 34983 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 1760 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 37.9423 - 4.7001 1.00 2684 143 0.1608 0.1749 REMARK 3 2 4.7001 - 3.7317 1.00 2607 118 0.1382 0.1713 REMARK 3 3 3.7317 - 3.2603 1.00 2571 140 0.1606 0.2107 REMARK 3 4 3.2603 - 2.9623 1.00 2552 130 0.1671 0.2018 REMARK 3 5 2.9623 - 2.7501 1.00 2530 145 0.1691 0.2018 REMARK 3 6 2.7501 - 2.5880 1.00 2550 136 0.1677 0.2294 REMARK 3 7 2.5880 - 2.4584 1.00 2560 127 0.1566 0.1953 REMARK 3 8 2.4584 - 2.3514 1.00 2537 143 0.1554 0.1847 REMARK 3 9 2.3514 - 2.2609 1.00 2511 144 0.1683 0.2068 REMARK 3 10 2.2609 - 2.1829 1.00 2551 125 0.1856 0.2524 REMARK 3 11 2.1829 - 2.1146 1.00 2541 142 0.1720 0.2505 REMARK 3 12 2.1146 - 2.0542 1.00 2469 136 0.1719 0.2258 REMARK 3 13 2.0542 - 2.0001 1.00 2560 131 0.1729 0.2129 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.98 REMARK 3 K_SOL : 0.32 REMARK 3 B_SOL : 39.62 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.660 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.03940 REMARK 3 B22 (A**2) : 1.03940 REMARK 3 B33 (A**2) : -2.07890 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 : 0.005 2702 REMARK 3 ANGLE : 0.932 3649 REMARK 3 CHIRALITY : 0.060 392 REMARK 3 PLANARITY : 0.004 470 REMARK 3 DIHEDRAL : 15.887 1014 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): -41.7257 -54.0200 -3.7274 REMARK 3 T TENSOR REMARK 3 T11: 0.2658 T22: 0.1107 REMARK 3 T33: 0.0865 T12: -0.0751 REMARK 3 T13: -0.0199 T23: -0.0003 REMARK 3 L TENSOR REMARK 3 L11: 0.4678 L22: 1.5217 REMARK 3 L33: 2.6371 L12: 0.2320 REMARK 3 L13: -0.4981 L23: 0.0156 REMARK 3 S TENSOR REMARK 3 S11: 0.0063 S12: 0.0415 S13: -0.0047 REMARK 3 S21: -0.0451 S22: -0.0051 S23: 0.0118 REMARK 3 S31: 0.0670 S32: -0.2735 S33: 0.0103 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 234:343) REMARK 3 ORIGIN FOR THE GROUP (A): -28.9050 -35.7264 5.9179 REMARK 3 T TENSOR REMARK 3 T11: 0.2336 T22: 0.0777 REMARK 3 T33: 0.1747 T12: -0.0386 REMARK 3 T13: -0.0793 T23: -0.0049 REMARK 3 L TENSOR REMARK 3 L11: 1.9987 L22: 2.1000 REMARK 3 L33: 0.7027 L12: 1.3381 REMARK 3 L13: 0.0871 L23: 0.1000 REMARK 3 S TENSOR REMARK 3 S11: -0.0156 S12: -0.0948 S13: 0.0475 REMARK 3 S21: 0.1594 S22: -0.0238 S23: -0.1809 REMARK 3 S31: 0.0678 S32: -0.0296 S33: -0.0211 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 344:362) REMARK 3 ORIGIN FOR THE GROUP (A): -16.8152 -35.9779 -6.9620 REMARK 3 T TENSOR REMARK 3 T11: 0.3390 T22: 0.3106 REMARK 3 T33: 0.3738 T12: -0.0488 REMARK 3 T13: -0.0074 T23: -0.0848 REMARK 3 L TENSOR REMARK 3 L11: 0.2417 L22: 0.2579 REMARK 3 L33: 0.2971 L12: -0.1062 REMARK 3 L13: -0.1675 L23: -0.1220 REMARK 3 S TENSOR REMARK 3 S11: -0.0593 S12: 0.4512 S13: -0.0689 REMARK 3 S21: -0.3622 S22: 0.2379 S23: -0.1395 REMARK 3 S31: -0.1794 S32: 0.4792 S33: 0.0002 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 363:428) REMARK 3 ORIGIN FOR THE GROUP (A): -21.7437 -12.4160 8.1411 REMARK 3 T TENSOR REMARK 3 T11: 0.1933 T22: 0.1242 REMARK 3 T33: 0.3502 T12: -0.0313 REMARK 3 T13: -0.0751 T23: -0.0243 REMARK 3 L TENSOR REMARK 3 L11: 1.4037 L22: 1.3703 REMARK 3 L33: 1.2359 L12: 0.3690 REMARK 3 L13: -0.4795 L23: -0.5848 REMARK 3 S TENSOR REMARK 3 S11: -0.0055 S12: -0.0782 S13: 0.2824 REMARK 3 S21: 0.1750 S22: 0.0719 S23: -0.1983 REMARK 3 S31: -0.0892 S32: 0.0014 S33: -0.0219 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 4EDK 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_1000071482. 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 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35005 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 37.935 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.50 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09400 REMARK 200 FOR THE DATA SET : 21.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.80 REMARK 200 R MERGE FOR SHELL (I) : 0.49500 REMARK 200 R SYM FOR SHELL (I) : 0.49500 REMARK 200 FOR SHELL : 1.500 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 (%): 63.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.15M SODIUM THIOCYANATE, 0.1M BIS REMARK 280 -TRIS, 13% PEG3350, 2% BENZAMIDINE, 2.5 MM GTP, 5 MM MNCL2, PH REMARK 280 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 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 12.90667 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 25.81333 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 19.36000 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 32.26667 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 6.45333 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 470 PHE A 195 CG CD1 CD2 CE1 CE2 CZ 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 OD1 ASP A 150 O HOH A 883 2.14 REMARK 500 O HOH A 792 O HOH A 935 2.17 REMARK 500 O HOH A 839 O HOH A 921 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 SER A 165 1.82 81.38 REMARK 500 ASN A 362 -83.49 -86.14 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 506 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 310 OD2 REMARK 620 2 ASP A 343 OD2 109.8 REMARK 620 3 GTP A 504 O1A 83.5 162.6 REMARK 620 4 GTP A 504 O2B 167.6 80.0 85.5 REMARK 620 5 HOH A 836 O 87.3 79.6 90.1 87.2 REMARK 620 6 HOH A 894 O 88.5 97.2 94.3 97.8 173.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 507 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 343 OD2 REMARK 620 2 GTP A 504 O2B 81.9 REMARK 620 3 GTP A 504 O2G 161.0 79.2 REMARK 620 4 HOH A 647 O 91.5 89.8 89.8 REMARK 620 5 HOH A 657 O 82.6 89.6 95.8 174.1 REMARK 620 6 HOH A 893 O 109.7 166.0 88.9 97.5 84.3 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 HOH A 890 O REMARK 620 2 HOH A 891 O 95.0 REMARK 620 3 HOH A 892 O 92.8 99.0 REMARK 620 4 HOH A 899 O 88.5 84.0 176.6 REMARK 620 5 HOH A 901 O 87.4 173.8 86.6 90.4 REMARK 620 6 HOH A 903 O 169.2 95.6 83.5 94.7 82.3 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 BEN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEN A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GTP 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 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 507 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: 4EDG RELATED DB: PDB REMARK 900 RELATED ID: 4EDR RELATED DB: PDB REMARK 900 RELATED ID: 4EDT RELATED DB: PDB REMARK 900 RELATED ID: 4EDV RELATED DB: PDB DBREF 4EDK A 111 436 UNP O05338 PRIM_STAAU 111 436 SEQADV 4EDK SER A 108 UNP O05338 EXPRESSION TAG SEQADV 4EDK ASN A 109 UNP O05338 EXPRESSION TAG SEQADV 4EDK 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 BEN A 502 9 HET BEN A 503 9 HET GTP A 504 32 HET MN A 505 1 HET MN A 506 1 HET MN A 507 1 HETNAM BEN BENZAMIDINE HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM MN MANGANESE (II) ION FORMUL 2 BEN 3(C7 H8 N2) FORMUL 5 GTP C10 H16 N5 O14 P3 FORMUL 6 MN 3(MN 2+) FORMUL 9 HOH *360(H2 O) HELIX 1 1 SER A 108 THR A 133 1 26 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 LYS A 300 1 10 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 ARG A 190 0 SHEET 2 B 2 TYR A 197 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 265 1 N LEU A 265 O VAL A 283 SHEET 3 C 5 ASN A 304 MET A 308 1 O THR A 306 N LEU A 264 SHEET 4 C 5 ASN A 332 ILE A 336 1 O PHE A 334 N LEU A 307 SHEET 5 C 5 LYS A 364 SER A 366 -1 O LYS A 365 N VAL A 335 LINK OD2 ASP A 310 MN MN A 506 1555 1555 2.37 LINK OD2 ASP A 343 MN MN A 506 1555 1555 2.34 LINK OD2 ASP A 343 MN MN A 507 1555 1555 2.33 LINK O1A GTP A 504 MN MN A 506 1555 1555 2.31 LINK O2B GTP A 504 MN MN A 506 1555 1555 2.32 LINK O2B GTP A 504 MN MN A 507 1555 1555 2.24 LINK O2G GTP A 504 MN MN A 507 1555 1555 2.34 LINK MN MN A 505 O HOH A 890 1555 1555 2.41 LINK MN MN A 505 O HOH A 891 1555 1555 2.42 LINK MN MN A 505 O HOH A 892 1555 1555 2.60 LINK MN MN A 505 O HOH A 899 1555 1555 2.49 LINK MN MN A 505 O HOH A 901 1555 1555 2.49 LINK MN MN A 505 O HOH A 903 1555 1555 2.59 LINK MN MN A 506 O HOH A 836 1555 1555 2.46 LINK MN MN A 506 O HOH A 894 1555 1555 2.19 LINK MN MN A 507 O HOH A 647 1555 1555 2.41 LINK MN MN A 507 O HOH A 657 1555 1555 2.44 LINK MN MN A 507 O HOH A 893 1555 1555 2.40 CISPEP 1 GLU A 228 PRO A 229 0 0.30 SITE 1 AC1 6 GLU A 117 GLU A 124 PHE A 125 VAL A 134 SITE 2 AC1 6 HOH A 747 HOH A 841 SITE 1 AC2 6 GLN A 289 LEU A 290 ASP A 292 LYS A 321 SITE 2 AC2 6 HIS A 325 HOH A 877 SITE 1 AC3 3 GLY A 287 GTP A 504 HOH A 908 SITE 1 AC4 24 ARG A 146 ARG A 222 PRO A 229 LYS A 230 SITE 2 AC4 24 TYR A 231 GLU A 266 GLY A 267 PHE A 268 SITE 3 AC4 24 MET A 269 GLY A 287 ASP A 310 ASP A 343 SITE 4 AC4 24 BEN A 503 MN A 506 MN A 507 HOH A 610 SITE 5 AC4 24 HOH A 643 HOH A 647 HOH A 658 HOH A 729 SITE 6 AC4 24 HOH A 817 HOH A 867 HOH A 899 HOH A 941 SITE 1 AC5 7 ASP A 312 HOH A 890 HOH A 891 HOH A 892 SITE 2 AC5 7 HOH A 899 HOH A 901 HOH A 903 SITE 1 AC6 6 ASP A 310 ASP A 343 GTP A 504 MN A 507 SITE 2 AC6 6 HOH A 836 HOH A 894 SITE 1 AC7 6 ASP A 343 GTP A 504 MN A 506 HOH A 647 SITE 2 AC7 6 HOH A 657 HOH A 893 CRYST1 151.742 151.742 38.720 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 0.006590 0.003805 0.000000 0.00000 SCALE2 0.000000 0.007610 0.000000 0.00000 SCALE3 0.000000 0.000000 0.025826 0.00000 CONECT 1651 2650 CONECT 1897 2650 2651 CONECT 2590 2591 2595 2596 CONECT 2591 2590 2592 CONECT 2592 2591 2593 CONECT 2593 2592 2594 CONECT 2594 2593 2595 CONECT 2595 2590 2594 CONECT 2596 2590 2597 2598 CONECT 2597 2596 CONECT 2598 2596 CONECT 2599 2600 2604 2605 CONECT 2600 2599 2601 CONECT 2601 2600 2602 CONECT 2602 2601 2603 CONECT 2603 2602 2604 CONECT 2604 2599 2603 CONECT 2605 2599 2606 2607 CONECT 2606 2605 CONECT 2607 2605 CONECT 2608 2609 2613 2614 CONECT 2609 2608 2610 CONECT 2610 2609 2611 CONECT 2611 2610 2612 CONECT 2612 2611 2613 CONECT 2613 2608 2612 CONECT 2614 2608 2615 2616 CONECT 2615 2614 CONECT 2616 2614 CONECT 2617 2618 2619 2620 2621 CONECT 2618 2617 CONECT 2619 2617 2651 CONECT 2620 2617 CONECT 2621 2617 2622 CONECT 2622 2621 2623 2624 2625 CONECT 2623 2622 CONECT 2624 2622 2650 2651 CONECT 2625 2622 2626 CONECT 2626 2625 2627 2628 2629 CONECT 2627 2626 2650 CONECT 2628 2626 CONECT 2629 2626 2630 CONECT 2630 2629 2631 CONECT 2631 2630 2632 2633 CONECT 2632 2631 2637 CONECT 2633 2631 2634 2635 CONECT 2634 2633 CONECT 2635 2633 2636 2637 CONECT 2636 2635 CONECT 2637 2632 2635 2638 CONECT 2638 2637 2639 2648 CONECT 2639 2638 2640 CONECT 2640 2639 2641 CONECT 2641 2640 2642 2648 CONECT 2642 2641 2643 2644 CONECT 2643 2642 CONECT 2644 2642 2645 CONECT 2645 2644 2646 2647 CONECT 2646 2645 CONECT 2647 2645 2648 CONECT 2648 2638 2641 2647 CONECT 2649 2941 2942 2943 2950 CONECT 2649 2952 2954 CONECT 2650 1651 1897 2624 2627 CONECT 2650 2887 2945 CONECT 2651 1897 2619 2624 2698 CONECT 2651 2708 2944 CONECT 2698 2651 CONECT 2708 2651 CONECT 2887 2650 CONECT 2941 2649 CONECT 2942 2649 CONECT 2943 2649 CONECT 2944 2651 CONECT 2945 2650 CONECT 2950 2649 CONECT 2952 2649 CONECT 2954 2649 MASTER 400 0 7 17 11 0 17 6 3004 1 78 26 END