HEADER TRANSFERASE/RNA 04-MAY-18 6DCB TITLE STRUCTURE OF METHYLPHOSPHATE CAPPING ENZYME METHYLTRANSFERASE DOMAIN TITLE 2 IN COMPLEX WITH 5' END OF 7SK RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HUMAN 7SK RNA STEM-LOOP 1 PROXIMAL; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 7SK SNRNA METHYLPHOSPHATE CAPPING ENZYME; COMPND 7 CHAIN: A; COMPND 8 SYNONYM: MEPCE,BICOID-INTERACTING PROTEIN 3 HOMOLOG,BIN3 HOMOLOG; COMPND 9 EC: 2.1.1.-; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 OTHER_DETAILS: IN VITRO T7 POLYMERASE TRANSCIPTION FROM SYNTHETIC SOURCE 6 DNA TEMPLATE; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 GENE: MEPCE, BCDIN3; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 14 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 15 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 16 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS RNA METHYL TRANSFERASE, MEPCE, 7SK RNA, TRANSFERASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Y.YANG,C.EICHHORN,D.CASCIO,J.FEIGON REVDAT 6 11-OCT-23 6DCB 1 REMARK REVDAT 5 18-DEC-19 6DCB 1 REMARK REVDAT 4 30-JAN-19 6DCB 1 JRNL REVDAT 3 02-JAN-19 6DCB 1 JRNL REVDAT 2 26-DEC-18 6DCB 1 REMARK REVDAT 1 19-DEC-18 6DCB 0 JRNL AUTH Y.YANG,C.D.EICHHORN,Y.WANG,D.CASCIO,J.FEIGON JRNL TITL STRUCTURAL BASIS OF 7SK RNA 5'-GAMMA-PHOSPHATE METHYLATION JRNL TITL 2 AND RETENTION BY MEPCE. JRNL REF NAT. CHEM. BIOL. V. 15 132 2019 JRNL REFN ESSN 1552-4469 JRNL PMID 30559425 JRNL DOI 10.1038/S41589-018-0188-Z REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 62.37 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 42437 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4243 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 62.4029 - 6.2068 1.00 1326 148 0.1534 0.1659 REMARK 3 2 6.2068 - 4.9271 1.00 1288 143 0.1540 0.1579 REMARK 3 3 4.9271 - 4.3045 1.00 1290 143 0.1282 0.1351 REMARK 3 4 4.3045 - 3.9110 1.00 1296 144 0.1349 0.1514 REMARK 3 5 3.9110 - 3.6307 1.00 1278 142 0.1474 0.1635 REMARK 3 6 3.6307 - 3.4166 1.00 1279 142 0.1519 0.1803 REMARK 3 7 3.4166 - 3.2455 1.00 1280 143 0.1617 0.1772 REMARK 3 8 3.2455 - 3.1043 1.00 1266 140 0.1735 0.2025 REMARK 3 9 3.1043 - 2.9848 1.00 1289 144 0.1862 0.2041 REMARK 3 10 2.9848 - 2.8818 1.00 1260 139 0.1862 0.1985 REMARK 3 11 2.8818 - 2.7917 1.00 1288 144 0.1775 0.1778 REMARK 3 12 2.7917 - 2.7119 1.00 1258 139 0.1830 0.1907 REMARK 3 13 2.7119 - 2.6405 1.00 1283 143 0.1856 0.2050 REMARK 3 14 2.6405 - 2.5761 1.00 1261 140 0.1804 0.2121 REMARK 3 15 2.5761 - 2.5175 1.00 1267 141 0.1749 0.2160 REMARK 3 16 2.5175 - 2.4639 1.00 1246 138 0.1718 0.1796 REMARK 3 17 2.4639 - 2.4146 1.00 1300 145 0.1666 0.1974 REMARK 3 18 2.4146 - 2.3691 1.00 1248 139 0.1619 0.1900 REMARK 3 19 2.3691 - 2.3267 1.00 1288 143 0.1746 0.2066 REMARK 3 20 2.3267 - 2.2873 1.00 1250 138 0.1689 0.2203 REMARK 3 21 2.2873 - 2.2504 1.00 1307 146 0.1673 0.1873 REMARK 3 22 2.2504 - 2.2158 1.00 1256 139 0.1661 0.1896 REMARK 3 23 2.2158 - 2.1832 1.00 1246 139 0.1712 0.1906 REMARK 3 24 2.1832 - 2.1524 1.00 1273 141 0.1683 0.2180 REMARK 3 25 2.1524 - 2.1234 1.00 1274 141 0.1657 0.2112 REMARK 3 26 2.1234 - 2.0958 1.00 1275 142 0.1563 0.1512 REMARK 3 27 2.0958 - 2.0696 1.00 1256 139 0.1682 0.1913 REMARK 3 28 2.0696 - 2.0446 1.00 1282 143 0.1891 0.2210 REMARK 3 29 2.0446 - 2.0209 1.00 1269 141 0.1974 0.2253 REMARK 3 30 2.0209 - 1.9982 0.97 1215 134 0.2339 0.2602 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) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.700 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.64 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 : 0.006 2792 REMARK 3 ANGLE : 0.956 3966 REMARK 3 CHIRALITY : 0.051 454 REMARK 3 PLANARITY : 0.005 364 REMARK 3 DIHEDRAL : 15.854 1558 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): 46.3253 52.6340 43.4787 REMARK 3 T TENSOR REMARK 3 T11: 0.2246 T22: 0.2234 REMARK 3 T33: 0.2257 T12: 0.0325 REMARK 3 T13: -0.0096 T23: -0.0212 REMARK 3 L TENSOR REMARK 3 L11: 2.2180 L22: 1.0619 REMARK 3 L33: 0.7925 L12: 0.0671 REMARK 3 L13: 0.5492 L23: -0.1655 REMARK 3 S TENSOR REMARK 3 S11: -0.0568 S12: -0.0231 S13: 0.2688 REMARK 3 S21: 0.0574 S22: -0.0534 S23: 0.0397 REMARK 3 S31: -0.1325 S32: -0.0360 S33: 0.0064 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 6DCB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-MAY-18. REMARK 100 THE DEPOSITION ID IS D_1000234283. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAR-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42441 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.998 REMARK 200 RESOLUTION RANGE LOW (A) : 62.373 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 12.88 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.9400 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) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 12.45 REMARK 200 R MERGE FOR SHELL (I) : 0.75200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.330 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.7.17 REMARK 200 STARTING MODEL: 5UNA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALLIZATION SOLUTION 0.214 M REMARK 280 LITHIUM SULFATE, 0.1 M PHOSPHATE/CITRATE, PH 4.2, 17.25% W/V PEG REMARK 280 1,000 MIXED 1:2 VOLUME RATIO TO 10 MG/ML PROTEIN:RNA COMPLEX REMARK 280 SOLUTION, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 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 0.00000 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 0.00000 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 39.31500 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 39.31500 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 39.31500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 KCAL/MOL 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 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 0.500000 0.866025 0.000000 -59.14000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 102.43348 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -39.31500 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 381 REMARK 465 GLY A 382 REMARK 465 SER A 383 REMARK 465 SER A 384 REMARK 465 HIS A 385 REMARK 465 HIS A 386 REMARK 465 HIS A 387 REMARK 465 HIS A 388 REMARK 465 HIS A 389 REMARK 465 HIS A 390 REMARK 465 SER A 391 REMARK 465 SER A 392 REMARK 465 GLY A 393 REMARK 465 LEU A 394 REMARK 465 VAL A 395 REMARK 465 PRO A 396 REMARK 465 ARG A 397 REMARK 465 GLY A 398 REMARK 465 SER A 399 REMARK 465 PRO A 400 REMARK 465 LEU A 401 REMARK 465 PRO A 402 REMARK 465 ALA A 403 REMARK 465 ALA A 404 REMARK 465 GLY A 405 REMARK 465 PHE A 406 REMARK 465 LYS A 407 REMARK 465 LYS A 408 REMARK 465 GLN A 409 REMARK 465 GLN A 410 REMARK 465 GLU A 493 REMARK 465 GLU A 494 REMARK 465 LEU A 495 REMARK 465 ARG A 496 REMARK 465 LEU A 497 REMARK 465 PRO A 498 REMARK 465 PRO A 499 REMARK 465 GLN A 500 REMARK 465 THR A 501 REMARK 465 LEU A 502 REMARK 465 GLU A 503 REMARK 465 GLY A 504 REMARK 465 ASP A 505 REMARK 465 PRO A 506 REMARK 465 GLY A 507 REMARK 465 ALA A 508 REMARK 465 GLU A 509 REMARK 465 GLY A 510 REMARK 465 GLU A 511 REMARK 465 GLU A 512 REMARK 465 GLY A 513 REMARK 465 THR A 514 REMARK 465 THR A 515 REMARK 465 THR A 516 REMARK 465 VAL A 517 REMARK 465 ARG A 518 REMARK 465 LYS A 519 REMARK 465 ARG A 520 REMARK 465 SER A 521 REMARK 465 CYS A 522 REMARK 465 PHE A 523 REMARK 465 PRO A 524 REMARK 465 ALA A 525 REMARK 465 SER A 526 REMARK 465 LEU A 527 REMARK 465 THR A 528 REMARK 465 ALA A 529 REMARK 465 SER A 530 REMARK 465 ARG A 531 REMARK 465 GLY A 532 REMARK 465 PRO A 533 REMARK 465 ILE A 534 REMARK 465 ALA A 535 REMARK 465 ALA A 536 REMARK 465 PRO A 537 REMARK 465 GLN A 538 REMARK 465 VAL A 539 REMARK 465 PRO A 540 REMARK 465 LEU A 541 REMARK 465 ASP A 542 REMARK 465 GLY A 543 REMARK 465 ALA A 544 REMARK 465 ASP A 545 REMARK 465 HIS A 689 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 ARG A 411 NH1 NH2 REMARK 470 LYS A 412 CE NZ REMARK 470 GLU A 430 CG CD OE1 OE2 REMARK 470 ARG A 435 NE CZ NH1 NH2 REMARK 470 GLU A 440 CG CD OE1 OE2 REMARK 470 ARG A 445 NE CZ NH1 NH2 REMARK 470 LYS A 464 CD CE NZ REMARK 470 SER A 492 OG REMARK 470 GLU A 645 CD OE1 OE2 REMARK 470 SER A 649 OG REMARK 470 LYS A 672 CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 G B 2 O3' - P - OP2 ANGL. DEV. = 7.0 DEGREES 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 ASN A 453 -137.05 58.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAH A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 704 DBREF 6DCB B 1 116 PDB 6DCB 6DCB 1 116 DBREF 6DCB A 400 689 UNP Q7L2J0 MEPCE_HUMAN 400 689 SEQADV 6DCB MET A 381 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB GLY A 382 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB SER A 383 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB SER A 384 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB HIS A 385 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB HIS A 386 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB HIS A 387 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB HIS A 388 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB HIS A 389 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB HIS A 390 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB SER A 391 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB SER A 392 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB GLY A 393 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB LEU A 394 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB VAL A 395 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB PRO A 396 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB ARG A 397 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB GLY A 398 UNP Q7L2J0 EXPRESSION TAG SEQADV 6DCB SER A 399 UNP Q7L2J0 EXPRESSION TAG SEQRES 1 B 36 GTP G A U G U G A G G C U U SEQRES 2 B 36 C G G C C U C A C C G C U SEQRES 3 B 36 C C A U G U G C G A SEQRES 1 A 309 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 309 LEU VAL PRO ARG GLY SER PRO LEU PRO ALA ALA GLY PHE SEQRES 3 A 309 LYS LYS GLN GLN ARG LYS PHE GLN TYR GLY ASN TYR CYS SEQRES 4 A 309 LYS TYR TYR GLY TYR ARG ASN PRO SER CYS GLU ASP GLY SEQRES 5 A 309 ARG LEU ARG VAL LEU LYS PRO GLU TRP PHE ARG GLY ARG SEQRES 6 A 309 ASP VAL LEU ASP LEU GLY CYS ASN VAL GLY HIS LEU THR SEQRES 7 A 309 LEU SER ILE ALA CYS LYS TRP GLY PRO SER ARG MET VAL SEQRES 8 A 309 GLY LEU ASP ILE ASP SER ARG LEU ILE HIS SER ALA ARG SEQRES 9 A 309 GLN ASN ILE ARG HIS TYR LEU SER GLU GLU LEU ARG LEU SEQRES 10 A 309 PRO PRO GLN THR LEU GLU GLY ASP PRO GLY ALA GLU GLY SEQRES 11 A 309 GLU GLU GLY THR THR THR VAL ARG LYS ARG SER CYS PHE SEQRES 12 A 309 PRO ALA SER LEU THR ALA SER ARG GLY PRO ILE ALA ALA SEQRES 13 A 309 PRO GLN VAL PRO LEU ASP GLY ALA ASP THR SER VAL PHE SEQRES 14 A 309 PRO ASN ASN VAL VAL PHE VAL THR GLY ASN TYR VAL LEU SEQRES 15 A 309 ASP ARG ASP ASP LEU VAL GLU ALA GLN THR PRO GLU TYR SEQRES 16 A 309 ASP VAL VAL LEU CYS LEU SER LEU THR LYS TRP VAL HIS SEQRES 17 A 309 LEU ASN TRP GLY ASP GLU GLY LEU LYS ARG MET PHE ARG SEQRES 18 A 309 ARG ILE TYR ARG HIS LEU ARG PRO GLY GLY ILE LEU VAL SEQRES 19 A 309 LEU GLU PRO GLN PRO TRP SER SER TYR GLY LYS ARG LYS SEQRES 20 A 309 THR LEU THR GLU THR ILE TYR LYS ASN TYR TYR ARG ILE SEQRES 21 A 309 GLN LEU LYS PRO GLU GLN PHE SER SER TYR LEU THR SER SEQRES 22 A 309 PRO ASP VAL GLY PHE SER SER TYR GLU LEU VAL ALA THR SEQRES 23 A 309 PRO HIS ASN THR SER LYS GLY PHE GLN ARG PRO VAL TYR SEQRES 24 A 309 LEU PHE HIS LYS ALA ARG SER PRO SER HIS HET GTP B 1 32 HET SAH A 701 26 HET SO4 A 702 5 HET SO4 A 703 5 HET SO4 A 704 5 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM SO4 SULFATE ION FORMUL 1 GTP C10 H16 N5 O14 P3 FORMUL 3 SAH C14 H20 N6 O5 S FORMUL 4 SO4 3(O4 S 2-) FORMUL 7 HOH *149(H2 O) HELIX 1 AA1 LYS A 420 ASN A 426 1 7 HELIX 2 AA2 ASP A 431 VAL A 436 5 6 HELIX 3 AA3 LYS A 438 PHE A 442 5 5 HELIX 4 AA4 GLY A 455 TRP A 465 1 11 HELIX 5 AA5 ASP A 476 ILE A 487 1 12 HELIX 6 AA6 ARG A 488 LEU A 491 5 4 HELIX 7 AA7 ARG A 564 ALA A 570 1 7 HELIX 8 AA8 LEU A 583 HIS A 606 1 24 HELIX 9 AA9 PRO A 619 LYS A 627 5 9 HELIX 10 AB1 THR A 630 ILE A 640 1 11 HELIX 11 AB2 LYS A 643 GLU A 645 5 3 HELIX 12 AB3 GLN A 646 THR A 652 1 7 HELIX 13 AB4 SER A 671 GLN A 675 5 5 SHEET 1 AA1 7 VAL A 553 THR A 557 0 SHEET 2 AA1 7 ARG A 469 ASP A 474 1 N GLY A 472 O VAL A 554 SHEET 3 AA1 7 ASP A 446 LEU A 450 1 N ASP A 449 O VAL A 471 SHEET 4 AA1 7 TYR A 575 LEU A 581 1 O LEU A 579 N LEU A 448 SHEET 5 AA1 7 LEU A 607 GLU A 616 1 O VAL A 614 N CYS A 580 SHEET 6 AA1 7 VAL A 678 HIS A 682 -1 O TYR A 679 N LEU A 615 SHEET 7 AA1 7 SER A 660 ALA A 665 -1 N VAL A 664 O VAL A 678 LINK O3' GTP B 1 P G B 2 1555 1555 1.56 CISPEP 1 PHE A 549 PRO A 550 0 5.80 SITE 1 AC1 20 TYR A 415 GLY A 416 ASN A 417 TYR A 421 SITE 2 AC1 20 TYR A 422 ARG A 433 GLY A 451 ASN A 453 SITE 3 AC1 20 ASP A 474 ILE A 475 LEU A 479 GLY A 558 SITE 4 AC1 20 ASN A 559 TYR A 560 LEU A 581 SER A 582 SITE 5 AC1 20 LEU A 583 TRP A 591 HOH A 871 GTP B 1 SITE 1 AC2 5 ILE A 480 ARG A 484 THR A 557 ARG A 639 SITE 2 AC2 5 HOH A 874 SITE 1 AC3 3 THR A 557 ARG A 639 HOH A 859 SITE 1 AC4 4 GLN A 571 GLU A 574 ARG A 602 HIS A 606 CRYST1 118.280 118.280 78.630 90.00 90.00 120.00 P 63 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 0.008455 0.004881 0.000000 0.00000 SCALE2 0.000000 0.009762 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012718 0.00000 HETATM 1 PG GTP B 1 44.764 51.307 45.760 1.00 28.58 P ANISOU 1 PG GTP B 1 3619 3696 3545 345 -19 -334 P HETATM 2 O1G GTP B 1 43.371 51.846 45.541 1.00 29.35 O ANISOU 2 O1G GTP B 1 3689 3783 3680 384 -12 -372 O HETATM 3 O2G GTP B 1 45.798 52.258 45.211 1.00 29.62 O ANISOU 3 O2G GTP B 1 3763 3769 3722 335 -66 -302 O HETATM 4 O3G GTP B 1 44.906 49.933 45.109 1.00 29.40 O ANISOU 4 O3G GTP B 1 3716 3836 3618 326 0 -282 O HETATM 5 O3B GTP B 1 44.932 51.067 47.343 1.00 29.28 O ANISOU 5 O3B GTP B 1 3721 3829 3574 334 1 -383 O HETATM 6 PB GTP B 1 46.254 51.422 48.189 1.00 30.16 P ANISOU 6 PB GTP B 1 3862 3933 3663 308 -30 -392 P HETATM 7 O1B GTP B 1 47.483 50.798 47.597 1.00 28.20 O ANISOU 7 O1B GTP B 1 3620 3676 3419 276 -47 -316 O HETATM 8 O2B GTP B 1 45.949 50.974 49.597 1.00 29.51 O ANISOU 8 O2B GTP B 1 3785 3925 3501 302 -1 -434 O HETATM 9 O3A GTP B 1 46.304 53.013 48.073 1.00 29.49 O ANISOU 9 O3A GTP B 1 3783 3771 3651 330 -75 -442 O HETATM 10 PA GTP B 1 47.080 54.012 49.062 1.00 31.36 P ANISOU 10 PA GTP B 1 4042 3975 3898 322 -121 -507 P HETATM 11 O1A GTP B 1 47.079 55.329 48.363 1.00 30.15 O ANISOU 11 O1A GTP B 1 3882 3720 3856 338 -171 -515 O HETATM 12 O2A GTP B 1 48.449 53.486 49.395 1.00 33.26 O ANISOU 12 O2A GTP B 1 4299 4236 4102 276 -143 -459 O HETATM 13 O5' GTP B 1 46.176 54.050 50.387 1.00 30.66 O ANISOU 13 O5' GTP B 1 3954 3953 3741 350 -86 -613 O HETATM 14 C5' GTP B 1 44.950 54.747 50.422 1.00 29.54 C ANISOU 14 C5' GTP B 1 3790 3795 3638 401 -68 -691 C HETATM 15 C4' GTP B 1 44.509 54.799 51.884 1.00 31.28 C ANISOU 15 C4' GTP B 1 4013 4102 3770 419 -36 -798 C HETATM 16 O4' GTP B 1 44.307 53.463 52.320 1.00 30.47 O ANISOU 16 O4' GTP B 1 3904 4110 3563 392 20 -742 O HETATM 17 C3' GTP B 1 45.559 55.334 52.839 1.00 30.54 C ANISOU 17 C3' GTP B 1 3955 4007 3643 399 -85 -860 C HETATM 18 O3' GTP B 1 45.567 56.744 52.940 1.00 32.82 O ANISOU 18 O3' GTP B 1 4247 4202 4023 432 -139 -964 O HETATM 19 C2' GTP B 1 45.139 54.665 54.139 1.00 29.52 C ANISOU 19 C2' GTP B 1 3825 4021 3370 397 -30 -907 C HETATM 20 O2' GTP B 1 43.995 55.321 54.615 1.00 33.09 O ANISOU 20 O2' GTP B 1 4251 4501 3820 456 7 -1027 O HETATM 21 C1' GTP B 1 44.709 53.291 53.668 1.00 28.92 C ANISOU 21 C1' GTP B 1 3727 4003 3256 374 26 -788 C HETATM 22 N9 GTP B 1 45.863 52.360 53.692 1.00 32.02 N ANISOU 22 N9 GTP B 1 4142 4413 3609 317 2 -685 N HETATM 23 C8 GTP B 1 46.494 51.779 52.611 1.00 33.92 C ANISOU 23 C8 GTP B 1 4383 4594 3910 291 -18 -580 C HETATM 24 N7 GTP B 1 47.481 50.974 53.071 1.00 31.66 N ANISOU 24 N7 GTP B 1 4112 4347 3572 248 -36 -515 N HETATM 25 C5 GTP B 1 47.486 51.024 54.415 1.00 32.80 C ANISOU 25 C5 GTP B 1 4269 4579 3616 239 -33 -567 C HETATM 26 C6 GTP B 1 48.271 50.403 55.383 1.00 35.76 C ANISOU 26 C6 GTP B 1 4658 5028 3902 199 -55 -527 C HETATM 27 O6 GTP B 1 49.177 49.635 55.067 1.00 33.62 O ANISOU 27 O6 GTP B 1 4387 4735 3654 166 -82 -431 O HETATM 28 N1 GTP B 1 48.030 50.663 56.711 1.00 35.23 N ANISOU 28 N1 GTP B 1 4601 5066 3718 199 -47 -600 N HETATM 29 C2 GTP B 1 47.016 51.519 57.081 1.00 36.02 C ANISOU 29 C2 GTP B 1 4694 5196 3794 245 -12 -723 C HETATM 30 N2 GTP B 1 46.772 51.774 58.369 1.00 35.52 N ANISOU 30 N2 GTP B 1 4638 5252 3604 250 2 -807 N HETATM 31 N3 GTP B 1 46.242 52.120 56.112 1.00 34.55 N ANISOU 31 N3 GTP B 1 4489 4923 3716 289 9 -762 N HETATM 32 C4 GTP B 1 46.474 51.884 54.809 1.00 31.81 C ANISOU 32 C4 GTP B 1 4135 4474 3477 283 -6 -679 C