HEADER TRANSFERASE/RNA 15-JUN-14 4QM6 TITLE STRUCTURE OF BACTERIAL POLYNUCLEOTIDE KINASE BOUND TO GTP AND RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: METALLOPHOSPHOESTERASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: RNA; COMPND 7 CHAIN: C, D; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RUMINICLOSTRIDIUM THERMOCELLUM; SOURCE 3 ORGANISM_TAXID: 203119; SOURCE 4 STRAIN: ATCC 27405 / DSM 1237; SOURCE 5 GENE: CTHE_2768; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 OTHER_DETAILS: SYNTHETIC POLYNUCLEOTIDE KEYWDS RNA REPAIR, P-LOOP PHOSPHOTRANSFERASE, POLYNUCLEOTIDE KINASE, KEYWDS 2 HYDROLASE-RNA COMPLEX, TRANSFERASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR U.DAS,L.K.WANG,P.SMITH,S.SHUMAN REVDAT 3 28-FEB-24 4QM6 1 REMARK SEQADV LINK REVDAT 2 18-FEB-15 4QM6 1 JRNL REVDAT 1 08-OCT-14 4QM6 0 JRNL AUTH U.DAS,L.K.WANG,P.SMITH,A.MUNIR,S.SHUMAN JRNL TITL STRUCTURES OF BACTERIAL POLYNUCLEOTIDE KINASE IN A MICHAELIS JRNL TITL 2 COMPLEX WITH NUCLEOSIDE TRIPHOSPHATE (NTP)-MG2+ AND 5'-OH JRNL TITL 3 RNA AND A MIXED SUBSTRATE-PRODUCT COMPLEX WITH NTP-MG2+ AND JRNL TITL 4 A 5'-PHOSPHORYLATED OLIGONUCLEOTIDE. JRNL REF J.BACTERIOL. V. 196 4285 2014 JRNL REFN ISSN 0021-9193 JRNL PMID 25266383 JRNL DOI 10.1128/JB.02197-14 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.38 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 75454 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.155 REMARK 3 R VALUE (WORKING SET) : 0.153 REMARK 3 FREE R VALUE : 0.175 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.830 REMARK 3 FREE R VALUE TEST SET COUNT : 5910 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 39.3886 - 4.6584 1.00 2523 214 0.1714 0.2001 REMARK 3 2 4.6584 - 3.6984 1.00 2397 206 0.1384 0.1708 REMARK 3 3 3.6984 - 3.2311 1.00 2372 206 0.1568 0.1679 REMARK 3 4 3.2311 - 2.9358 1.00 2370 180 0.1595 0.1663 REMARK 3 5 2.9358 - 2.7254 1.00 2331 217 0.1589 0.1874 REMARK 3 6 2.7254 - 2.5648 1.00 2341 193 0.1638 0.1795 REMARK 3 7 2.5648 - 2.4364 1.00 2317 220 0.1554 0.1785 REMARK 3 8 2.4364 - 2.3303 1.00 2342 175 0.1491 0.1682 REMARK 3 9 2.3303 - 2.2406 1.00 2323 201 0.1518 0.1713 REMARK 3 10 2.2406 - 2.1633 1.00 2299 216 0.1504 0.1614 REMARK 3 11 2.1633 - 2.0957 1.00 2316 183 0.1450 0.1682 REMARK 3 12 2.0957 - 2.0358 1.00 2345 172 0.1550 0.1663 REMARK 3 13 2.0358 - 1.9822 1.00 2307 196 0.1553 0.1652 REMARK 3 14 1.9822 - 1.9338 1.00 2302 198 0.1499 0.1891 REMARK 3 15 1.9338 - 1.8899 1.00 2303 207 0.1512 0.1604 REMARK 3 16 1.8899 - 1.8496 1.00 2298 188 0.1478 0.1760 REMARK 3 17 1.8496 - 1.8126 1.00 2292 183 0.1514 0.1662 REMARK 3 18 1.8126 - 1.7784 1.00 2335 205 0.1514 0.1796 REMARK 3 19 1.7784 - 1.7467 1.00 2254 214 0.1531 0.1848 REMARK 3 20 1.7467 - 1.7171 1.00 2301 189 0.1483 0.1812 REMARK 3 21 1.7171 - 1.6894 1.00 2250 202 0.1468 0.1824 REMARK 3 22 1.6894 - 1.6634 1.00 2377 172 0.1483 0.1757 REMARK 3 23 1.6634 - 1.6389 1.00 2252 213 0.1376 0.1629 REMARK 3 24 1.6389 - 1.6158 1.00 2300 202 0.1396 0.1683 REMARK 3 25 1.6158 - 1.5940 1.00 2302 171 0.1384 0.1481 REMARK 3 26 1.5940 - 1.5733 1.00 2305 193 0.1414 0.1924 REMARK 3 27 1.5733 - 1.5536 1.00 2296 190 0.1419 0.1702 REMARK 3 28 1.5536 - 1.5349 1.00 2262 197 0.1498 0.1660 REMARK 3 29 1.5349 - 1.5171 1.00 2303 181 0.1611 0.1741 REMARK 3 30 1.5171 - 1.5000 1.00 2229 226 0.1653 0.2029 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) : 0.110 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.260 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 3120 REMARK 3 ANGLE : 1.195 4276 REMARK 3 CHIRALITY : 0.074 489 REMARK 3 PLANARITY : 0.006 512 REMARK 3 DIHEDRAL : 18.456 1245 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 4QM6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-JUL-14. REMARK 100 THE DEPOSITION ID IS D_1000086229. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-SEP-13 REMARK 200 TEMPERATURE (KELVIN) : 130 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 75553 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 39.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.58 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REFINEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM SODIUM CITRATE, 100 MM REMARK 280 MAGNESIUM CHLORIDE, 18-24% PEG 6000, PH 5.0, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K 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 26.15500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.81000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.21000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.81000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.15500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.21000 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 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 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 U C 5 C5' C4' O4' C3' O3' C2' O2' REMARK 470 U C 5 C1' N1 C2 O2 N3 C4 O4 REMARK 470 U C 5 C5 C6 REMARK 470 U D 5 C5' C4' O4' C3' O3' C2' O2' REMARK 470 U D 5 C1' N1 C2 O2 N3 C4 O4 REMARK 470 U D 5 C5 C6 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 OE1 GLN A 145 O HOH A 1340 2.01 REMARK 500 OE2 GLU A 162 O HOH A 1334 2.03 REMARK 500 O HOH A 1339 O HOH A 1340 2.07 REMARK 500 O HOH B 1358 O HOH B 1365 2.08 REMARK 500 O5' C C 1 O HOH C 105 2.13 REMARK 500 O HOH A 1250 O HOH A 1272 2.15 REMARK 500 O GLN B 169 O HOH B 1280 2.16 REMARK 500 O5' C D 1 O HOH D 108 2.18 REMARK 500 O HOH D 124 O HOH D 132 2.18 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 46 -4.71 74.95 REMARK 500 ASP B 46 -4.06 74.97 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 MG A1002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 22 OG REMARK 620 2 GTP A1001 O3G 174.6 REMARK 620 3 GTP A1001 O1B 87.1 88.4 REMARK 620 4 HOH A1124 O 88.9 88.1 89.8 REMARK 620 5 HOH A1125 O 91.0 92.2 91.4 178.8 REMARK 620 6 HOH A1132 O 91.3 93.2 178.3 90.6 88.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1004 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1287 O REMARK 620 2 HOH A1333 O 112.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1005 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1241 O REMARK 620 2 GLU B 160 OE2 115.0 REMARK 620 3 HOH B1191 O 118.2 114.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 22 OG REMARK 620 2 GTP B1001 O3G 176.3 REMARK 620 3 GTP B1001 O1B 86.5 89.8 REMARK 620 4 HOH B1109 O 88.5 91.8 92.0 REMARK 620 5 HOH B1124 O 88.5 91.3 89.7 176.4 REMARK 620 6 HOH B1129 O 88.7 95.0 175.2 87.9 90.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1003 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 110 OE1 REMARK 620 2 ARG B 131 O 112.1 REMARK 620 3 HOH B1185 O 117.1 122.4 REMARK 620 4 HOH B1274 O 102.9 113.2 83.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1004 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN B 124 O REMARK 620 2 HOH B1321 O 86.7 REMARK 620 3 HOH B1327 O 133.9 51.1 REMARK 620 4 HOH D 108 O 117.0 141.0 108.4 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GTP A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GTP B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1006 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4MDE RELATED DB: PDB REMARK 900 RELATED ID: 4MDF RELATED DB: PDB REMARK 900 RELATED ID: 4JSY RELATED DB: PDB REMARK 900 RELATED ID: 4JT2 RELATED DB: PDB REMARK 900 RELATED ID: 4JT4 RELATED DB: PDB REMARK 900 RELATED ID: 4JST RELATED DB: PDB REMARK 900 RELATED ID: 4QM7 RELATED DB: PDB DBREF 4QM6 A 1 170 UNP A3DJ38 A3DJ38_CLOTH 1 170 DBREF 4QM6 B 1 170 UNP A3DJ38 A3DJ38_CLOTH 1 170 DBREF 4QM6 C 1 5 PDB 4QM6 4QM6 1 5 DBREF 4QM6 D 1 5 PDB 4QM6 4QM6 1 5 SEQADV 4QM6 SER A 0 UNP A3DJ38 EXPRESSION TAG SEQADV 4QM6 ASN A 38 UNP A3DJ38 ASP 38 CONFLICT SEQADV 4QM6 MET A 137 UNP A3DJ38 LEU 137 CONFLICT SEQADV 4QM6 SER B 0 UNP A3DJ38 EXPRESSION TAG SEQADV 4QM6 ASN B 38 UNP A3DJ38 ASP 38 CONFLICT SEQADV 4QM6 MET B 137 UNP A3DJ38 LEU 137 CONFLICT SEQRES 1 A 171 SER MET LYS LEU THR ILE PRO GLU LEU SER LEU VAL VAL SEQRES 2 A 171 LEU ILE GLY SER SER GLY SER GLY LYS SER THR PHE ALA SEQRES 3 A 171 LYS LYS HIS PHE LYS PRO THR GLU VAL ILE SER SER ASN SEQRES 4 A 171 PHE CYS ARG GLY LEU VAL SER ASP ASP GLU ASN ASP GLN SEQRES 5 A 171 THR VAL THR GLY ALA ALA PHE ASP VAL LEU HIS TYR ILE SEQRES 6 A 171 VAL SER LYS ARG LEU GLN LEU GLY LYS LEU THR VAL VAL SEQRES 7 A 171 ASP ALA THR ASN VAL GLN GLU SER ALA ARG LYS PRO LEU SEQRES 8 A 171 ILE GLU ILE ALA LYS ASP TYR HIS CYS PHE PRO VAL ALA SEQRES 9 A 171 VAL VAL PHE ASN LEU PRO GLU LYS VAL CYS GLN GLU ARG SEQRES 10 A 171 ASN LYS ASN ARG THR ASP ARG GLN VAL GLU GLU TYR VAL SEQRES 11 A 171 ILE ARG LYS HIS THR GLN GLN MET LYS LYS SER ILE LYS SEQRES 12 A 171 GLY LEU GLN ARG GLU GLY PHE ARG TYR VAL TYR ILE LEU SEQRES 13 A 171 ASN SER PRO GLU GLU VAL GLU GLU VAL VAL PHE GLU ARG SEQRES 14 A 171 GLN PRO SEQRES 1 B 171 SER MET LYS LEU THR ILE PRO GLU LEU SER LEU VAL VAL SEQRES 2 B 171 LEU ILE GLY SER SER GLY SER GLY LYS SER THR PHE ALA SEQRES 3 B 171 LYS LYS HIS PHE LYS PRO THR GLU VAL ILE SER SER ASN SEQRES 4 B 171 PHE CYS ARG GLY LEU VAL SER ASP ASP GLU ASN ASP GLN SEQRES 5 B 171 THR VAL THR GLY ALA ALA PHE ASP VAL LEU HIS TYR ILE SEQRES 6 B 171 VAL SER LYS ARG LEU GLN LEU GLY LYS LEU THR VAL VAL SEQRES 7 B 171 ASP ALA THR ASN VAL GLN GLU SER ALA ARG LYS PRO LEU SEQRES 8 B 171 ILE GLU ILE ALA LYS ASP TYR HIS CYS PHE PRO VAL ALA SEQRES 9 B 171 VAL VAL PHE ASN LEU PRO GLU LYS VAL CYS GLN GLU ARG SEQRES 10 B 171 ASN LYS ASN ARG THR ASP ARG GLN VAL GLU GLU TYR VAL SEQRES 11 B 171 ILE ARG LYS HIS THR GLN GLN MET LYS LYS SER ILE LYS SEQRES 12 B 171 GLY LEU GLN ARG GLU GLY PHE ARG TYR VAL TYR ILE LEU SEQRES 13 B 171 ASN SER PRO GLU GLU VAL GLU GLU VAL VAL PHE GLU ARG SEQRES 14 B 171 GLN PRO SEQRES 1 C 5 C C U G U SEQRES 1 D 5 C C U G U HET GTP A1001 32 HET MG A1002 1 HET PO4 A1003 5 HET NA A1004 1 HET GTP B1001 32 HET MG B1002 1 HET NA B1003 1 HET NA B1004 1 HET NA B1005 1 HET NA B1006 1 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM PO4 PHOSPHATE ION HETNAM NA SODIUM ION FORMUL 5 GTP 2(C10 H16 N5 O14 P3) FORMUL 6 MG 2(MG 2+) FORMUL 7 PO4 O4 P 3- FORMUL 8 NA 5(NA 1+) FORMUL 15 HOH *567(H2 O) HELIX 1 1 GLY A 20 PHE A 29 1 10 HELIX 2 2 LYS A 30 THR A 32 5 3 HELIX 3 3 SER A 37 ASP A 46 1 10 HELIX 4 4 ASP A 50 THR A 52 5 3 HELIX 5 5 VAL A 53 LEU A 71 1 19 HELIX 6 6 GLN A 83 TYR A 97 1 15 HELIX 7 7 PRO A 109 ASN A 119 1 11 HELIX 8 8 GLU A 126 ILE A 141 1 16 HELIX 9 9 GLY A 143 GLY A 148 1 6 HELIX 10 10 SER A 157 GLU A 163 1 7 HELIX 11 11 GLY B 20 PHE B 29 1 10 HELIX 12 12 LYS B 30 THR B 32 5 3 HELIX 13 13 SER B 37 ASP B 46 1 10 HELIX 14 14 ASP B 50 THR B 52 5 3 HELIX 15 15 VAL B 53 LEU B 71 1 19 HELIX 16 16 GLN B 83 TYR B 97 1 15 HELIX 17 17 PRO B 109 ASN B 119 1 11 HELIX 18 18 GLU B 126 ILE B 141 1 16 HELIX 19 19 GLY B 143 GLY B 148 1 6 HELIX 20 20 SER B 157 GLU B 163 1 7 SHEET 1 A 2 MET A 1 PRO A 6 0 SHEET 2 A 2 VAL A 164 GLN A 169 1 O GLN A 169 N ILE A 5 SHEET 1 B 5 VAL A 34 SER A 36 0 SHEET 2 B 5 THR A 75 ASP A 78 1 O VAL A 76 N ILE A 35 SHEET 3 B 5 SER A 9 ILE A 14 1 N VAL A 11 O VAL A 77 SHEET 4 B 5 PHE A 100 PHE A 106 1 O VAL A 102 N VAL A 12 SHEET 5 B 5 TYR A 151 LEU A 155 1 O TYR A 153 N VAL A 105 SHEET 1 C 2 MET B 1 PRO B 6 0 SHEET 2 C 2 VAL B 164 GLN B 169 1 O GLN B 169 N ILE B 5 SHEET 1 D 5 VAL B 34 SER B 36 0 SHEET 2 D 5 THR B 75 ASP B 78 1 O VAL B 76 N ILE B 35 SHEET 3 D 5 SER B 9 ILE B 14 1 N VAL B 11 O VAL B 77 SHEET 4 D 5 PHE B 100 PHE B 106 1 O VAL B 102 N VAL B 12 SHEET 5 D 5 TYR B 151 LEU B 155 1 O TYR B 153 N ALA B 103 LINK OG SER A 22 MG MG A1002 1555 1555 2.09 LINK O3G GTP A1001 MG MG A1002 1555 1555 2.03 LINK O1B GTP A1001 MG MG A1002 1555 1555 2.24 LINK MG MG A1002 O HOH A1124 1555 1555 2.10 LINK MG MG A1002 O HOH A1125 1555 1555 2.00 LINK MG MG A1002 O HOH A1132 1555 1555 2.11 LINK NA NA A1004 O HOH A1287 1555 1555 2.45 LINK NA NA A1004 O HOH A1333 1555 1555 2.34 LINK O HOH A1241 NA NA B1005 1555 1555 2.56 LINK OG SER B 22 MG MG B1002 1555 1555 2.15 LINK OD2 ASP B 59 NA NA B1006 1555 1555 2.77 LINK OE1 GLU B 110 NA NA B1003 1555 1555 2.77 LINK O GLN B 124 NA NA B1004 1555 1555 2.78 LINK O ARG B 131 NA NA B1003 1555 1555 2.77 LINK OE2 GLU B 160 NA NA B1005 1555 1555 2.66 LINK O3G GTP B1001 MG MG B1002 1555 1555 2.03 LINK O1B GTP B1001 MG MG B1002 1555 1555 2.23 LINK MG MG B1002 O HOH B1109 1555 1555 2.03 LINK MG MG B1002 O HOH B1124 1555 1555 2.13 LINK MG MG B1002 O HOH B1129 1555 1555 2.10 LINK NA NA B1003 O HOH B1185 1555 1555 2.88 LINK NA NA B1003 O HOH B1274 1555 1555 3.11 LINK NA NA B1004 O HOH B1321 1555 1555 2.37 LINK NA NA B1004 O HOH B1327 1555 1555 3.06 LINK NA NA B1004 O HOH D 108 1555 1555 2.78 LINK NA NA B1005 O HOH B1191 1555 1555 2.58 SITE 1 AC1 24 SER A 16 SER A 17 GLY A 18 SER A 19 SITE 2 AC1 24 GLY A 20 LYS A 21 SER A 22 THR A 23 SITE 3 AC1 24 ASN A 38 ARG A 116 ARG A 120 ARG A 123 SITE 4 AC1 24 MG A1002 HOH A1105 HOH A1124 HOH A1125 SITE 5 AC1 24 HOH A1132 HOH A1156 HOH A1170 HOH A1203 SITE 6 AC1 24 HOH A1216 HOH A1279 HOH A1303 C C 1 SITE 1 AC2 5 SER A 22 GTP A1001 HOH A1124 HOH A1125 SITE 2 AC2 5 HOH A1132 SITE 1 AC3 8 ARG A 131 HOH A1147 HOH A1224 TYR B 63 SITE 2 AC3 8 LYS B 67 GLN B 70 HOH B1198 G C 4 SITE 1 AC4 4 ARG A 87 SER A 140 HOH A1287 HOH A1333 SITE 1 AC5 21 SER B 16 SER B 17 GLY B 18 SER B 19 SITE 2 AC5 21 GLY B 20 LYS B 21 SER B 22 THR B 23 SITE 3 AC5 21 ASN B 38 ARG B 116 ARG B 120 ARG B 123 SITE 4 AC5 21 MG B1002 HOH B1109 HOH B1124 HOH B1129 SITE 5 AC5 21 HOH B1141 HOH B1182 HOH B1193 HOH B1251 SITE 6 AC5 21 C D 1 SITE 1 AC6 5 SER B 22 GTP B1001 HOH B1109 HOH B1124 SITE 2 AC6 5 HOH B1129 SITE 1 AC7 4 GLU B 110 ARG B 131 GLN B 135 HOH B1185 SITE 1 AC8 6 ASN B 49 GLN B 124 VAL B 125 HOH B1321 SITE 2 AC8 6 HOH B1327 HOH D 108 SITE 1 AC9 4 ARG A 146 HOH A1241 GLU B 160 HOH B1191 SITE 1 BC1 3 HOH A1336 GLY B 55 ASP B 59 CRYST1 52.310 74.420 119.620 90.00 90.00 90.00 P 21 21 21 8 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 0.019117 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013437 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008360 0.00000