1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Wang, Z. Feigon, J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking UK J.Mol.Biol. JMOBAK 0070 0022-2836 425 546 562 10.1016/j.jmb.2012.11.025 23201338 Intrinsic Dynamics of an Extended Hydrophobic Core in the S. cerevisiae RNase III dsRBD Contributes to Recognition of Specific RNA Binding Sites. 2013 UK Structure STRUE6 2005 0969-2126 19 999 1010 10.1016/j.str.2011.03.022 21742266 Structure of a yeast RNase III dsRBD complex with a noncanonical RNA substrate provides new insights into binding specificity of dsRBDs. 2011 10.2210/pdb2luq/pdb pdb_00002luq 9822.364 Ribonuclease 3 1 man polymer Ribonuclease III, RNase III no no GSLDMNAKRQLYSLIGYASLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIKIAGIRAAENALRDKKMLDFYAK QRAAIPRSES GSLDMNAKRQLYSLIGYASLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIKIAGIRAAENALRDKKMLDFYAK QRAAIPRSES A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n Baker's yeast ATCC 204508 / S288c sample RNT1, YM9408.01C, YM9959.21, YMR239C 559292 Saccharomyces cerevisiae YMR239C 511693 Escherichia coli BL21 plasmid PGEX-2T database_2 pdbx_database_status pdbx_nmr_software struct_ref_seq_dif repository Initial release Database references Database references Data collection Database references Other 1 0 2012-12-05 1 1 2012-12-19 1 2 2013-02-13 1 3 2023-06-14 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.status_code_nmr_data _pdbx_nmr_software.name _struct_ref_seq_dif.details BMRB Y RCSB 2012-06-19 REL REL REL REL 1859 585 410 420 444 structures with the lowest energy 100 20 2D 1H-15N HSQC 3D HNCACB 3D CBCA(CO)NH 3D HNCO 3D HCCH-TOCSY 3D HCCH-COSY 3D 1H-15N NOESY 3D 1H-13C NOESY aliphatic 1 mM [U-100% 13C; U-100% 15N] 90 % 10 % [U-100% 2H] 150 mM 20 mM 1 mM [U-100% 13C; U-100% 15N] 100 % [U-100% 2H] 150 % 20 mM 150 6.5 ambient 298 K simulated annealing 1 lowest energy 1 mM [U-100% 13C; U-100% 15N] protein, 90 % H2O, 10 % [U-100% 2H] D2O, 150 mM sodium chloride, 20 mM sodium phosphate, 90% H2O/10% D2O 90% H2O/10% D2O 1 mM [U-100% 13C; U-100% 15N] protein, 100 % [U-100% 2H] D2O, 150 % sodium chloride, 20 mM sodium phosphate, 100% D2O 100% D2O Bruker Biospin collection TopSpin 2.0 Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax processing NMRPipe Johnson, One Moon Scientific chemical shift assignment NMRView Cornilescu, Delaglio and Bax data analysis TALOS Schwieters, Kuszewski, Tjandra and Clore structure solution X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore refinement X-PLOR NIH 500 Bruker DRX Bruker DRX 600 Bruker DRX Bruker DRX GLY 364 n 1 GLY 364 A SER 365 n 2 SER 365 A LEU 366 n 3 LEU 366 A ASP 367 n 4 ASP 367 A MET 368 n 5 MET 368 A ASN 369 n 6 ASN 369 A ALA 370 n 7 ALA 370 A LYS 371 n 8 LYS 371 A ARG 372 n 9 ARG 372 A GLN 373 n 10 GLN 373 A LEU 374 n 11 LEU 374 A TYR 375 n 12 TYR 375 A SER 376 n 13 SER 376 A LEU 377 n 14 LEU 377 A ILE 378 n 15 ILE 378 A GLY 379 n 16 GLY 379 A TYR 380 n 17 TYR 380 A ALA 381 n 18 ALA 381 A SER 382 n 19 SER 382 A LEU 383 n 20 LEU 383 A ARG 384 n 21 ARG 384 A LEU 385 n 22 LEU 385 A HIS 386 n 23 HIS 386 A TYR 387 n 24 TYR 387 A VAL 388 n 25 VAL 388 A THR 389 n 26 THR 389 A VAL 390 n 27 VAL 390 A LYS 391 n 28 LYS 391 A LYS 392 n 29 LYS 392 A PRO 393 n 30 PRO 393 A THR 394 n 31 THR 394 A ALA 395 n 32 ALA 395 A VAL 396 n 33 VAL 396 A ASP 397 n 34 ASP 397 A PRO 398 n 35 PRO 398 A ASN 399 n 36 ASN 399 A SER 400 n 37 SER 400 A ILE 401 n 38 ILE 401 A VAL 402 n 39 VAL 402 A GLU 403 n 40 GLU 403 A CYS 404 n 41 CYS 404 A ARG 405 n 42 ARG 405 A VAL 406 n 43 VAL 406 A GLY 407 n 44 GLY 407 A ASP 408 n 45 ASP 408 A GLY 409 n 46 GLY 409 A THR 410 n 47 THR 410 A VAL 411 n 48 VAL 411 A LEU 412 n 49 LEU 412 A GLY 413 n 50 GLY 413 A THR 414 n 51 THR 414 A GLY 415 n 52 GLY 415 A VAL 416 n 53 VAL 416 A GLY 417 n 54 GLY 417 A ARG 418 n 55 ARG 418 A ASN 419 n 56 ASN 419 A ILE 420 n 57 ILE 420 A LYS 421 n 58 LYS 421 A ILE 422 n 59 ILE 422 A ALA 423 n 60 ALA 423 A GLY 424 n 61 GLY 424 A ILE 425 n 62 ILE 425 A ARG 426 n 63 ARG 426 A ALA 427 n 64 ALA 427 A ALA 428 n 65 ALA 428 A GLU 429 n 66 GLU 429 A ASN 430 n 67 ASN 430 A ALA 431 n 68 ALA 431 A LEU 432 n 69 LEU 432 A ARG 433 n 70 ARG 433 A ASP 434 n 71 ASP 434 A LYS 435 n 72 LYS 435 A LYS 436 n 73 LYS 436 A MET 437 n 74 MET 437 A LEU 438 n 75 LEU 438 A ASP 439 n 76 ASP 439 A PHE 440 n 77 PHE 440 A TYR 441 n 78 TYR 441 A ALA 442 n 79 ALA 442 A LYS 443 n 80 LYS 443 A GLN 444 n 81 GLN 444 A ARG 445 n 82 ARG 445 A ALA 446 n 83 ALA 446 A ALA 447 n 84 ALA 447 A ILE 448 n 85 ILE 448 A PRO 449 n 86 PRO 449 A ARG 450 n 87 ARG 450 A SER 451 n 88 SER 451 A GLU 452 n 89 GLU 452 A SER 453 n 90 SER 453 A author_defined_assembly 1 monomeric 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A N HIS 386 A N HIS 23 A O ARG 405 A O ARG 42 A N CYS 404 A N CYS 41 A O LEU 412 A O LEU 49 1 A A O H LYS ILE 421 425 1.47 1 A A O H VAL GLY 406 409 1.58 2 A A O H LYS ILE 421 425 1.49 2 A A O H VAL GLY 406 409 1.53 2 A A O H GLU ARG 429 433 1.56 3 A A O H LYS ILE 421 425 1.46 3 A A O H GLU ARG 429 433 1.50 3 A A O H VAL GLY 406 409 1.56 4 A A O H GLU ARG 429 433 1.44 4 A A O H LYS ILE 421 425 1.51 4 A A O H VAL GLY 406 409 1.57 5 A A O H LYS ILE 421 425 1.46 5 A A O H VAL GLY 406 409 1.56 6 A A O H LYS ILE 421 425 1.48 6 A A O H VAL GLY 406 409 1.56 6 A A O H GLU ARG 429 433 1.56 7 A A O H LYS ILE 421 425 1.48 7 A A O H GLU ARG 429 433 1.49 7 A A O H VAL GLY 406 409 1.54 8 A A O H GLU ARG 429 433 1.44 8 A A O H LYS ILE 421 425 1.48 8 A A O H VAL GLY 406 409 1.57 8 A A O HG LYS SER 391 400 1.59 9 A A O H LYS ILE 421 425 1.50 9 A A O H VAL GLY 406 409 1.55 9 A A O H GLU ARG 429 433 1.58 10 A A O H GLU ARG 429 433 1.44 10 A A O H LYS ILE 421 425 1.49 10 A A O HG LYS SER 391 400 1.54 10 A A O H VAL GLY 406 409 1.55 11 A A O H LYS ILE 421 425 1.48 11 A A O H GLU ARG 429 433 1.48 11 A A O H LEU GLY 383 407 1.55 11 A A O HG LYS SER 391 400 1.56 11 A A O H VAL GLY 406 409 1.58 12 A A O H GLU ARG 429 433 1.45 12 A A O H LYS ILE 421 425 1.46 12 A A O H VAL GLY 406 409 1.51 13 A A O H LYS ILE 421 425 1.44 13 A A O H VAL GLY 406 409 1.53 13 A A O H GLU ARG 429 433 1.58 14 A A O H GLU ARG 429 433 1.44 14 A A O H VAL GLY 406 409 1.53 14 A A O H LYS ILE 421 425 1.54 15 A A O H LYS ILE 421 425 1.52 15 A A O H VAL GLY 406 409 1.58 15 A A O H GLU ARG 429 433 1.59 16 A A O H LYS ILE 421 425 1.51 16 A A O H GLU ARG 429 433 1.52 16 A A O H LEU GLY 383 407 1.58 16 A A O H VAL GLY 406 409 1.58 17 A A O H LYS ILE 421 425 1.46 17 A A O H GLU ARG 429 433 1.55 17 A A O H VAL GLY 406 409 1.56 18 A A O H GLU ARG 429 433 1.46 18 A A O H LYS ILE 421 425 1.46 18 A A O H VAL GLY 406 409 1.56 19 A A O H LYS ILE 421 425 1.49 19 A A O H LEU GLY 383 407 1.56 20 A A O H LYS ILE 421 425 1.47 20 A A O H ILE GLY 420 424 1.51 20 A A O H VAL GLY 406 409 1.52 1 A ARG 384 30.74 46.33 1 A PRO 398 -78.00 42.56 1 A THR 414 -162.04 115.74 1 A ALA 447 -87.80 32.92 2 A SER 365 64.71 151.47 2 A TYR 380 -174.41 129.81 2 A ARG 384 30.32 48.09 2 A PRO 398 -79.48 45.69 2 A VAL 411 -55.93 99.55 2 A ALA 447 -89.18 32.78 2 A ILE 448 -33.72 123.38 2 A ARG 450 -91.38 -155.24 2 A SER 451 52.67 91.88 3 A ARG 384 30.69 51.93 3 A PRO 398 -81.79 48.68 3 A ALA 447 -90.67 33.16 3 A SER 451 -165.37 62.18 3 A GLU 452 62.46 -88.04 4 A SER 365 165.55 -60.36 4 A ARG 384 23.94 61.93 4 A PRO 398 -79.80 44.38 4 A ALA 447 -93.84 32.40 4 A ILE 448 -43.20 102.94 5 A ASP 367 -55.66 -171.11 5 A ARG 384 25.04 62.07 5 A PRO 398 -75.79 49.93 5 A ALA 447 -95.61 32.29 5 A SER 451 177.13 -53.40 5 A GLU 452 79.37 -58.98 6 A LEU 383 -97.82 40.53 6 A ARG 384 -56.30 79.01 6 A PRO 398 -69.48 50.24 6 A ALA 447 -88.01 33.43 6 A PRO 449 -75.83 48.91 6 A ARG 450 66.84 134.18 7 A LEU 383 -89.74 40.64 7 A ARG 384 -40.05 83.83 7 A PRO 398 -80.12 43.94 7 A ALA 447 -87.20 32.83 7 A ILE 448 -33.11 128.54 7 A ARG 450 170.60 -86.33 7 A SER 451 64.67 92.66 7 A GLU 452 -154.80 -40.45 8 A SER 365 65.23 104.26 8 A ASP 367 -56.01 -175.84 8 A ARG 384 30.11 83.32 8 A PRO 398 -80.19 45.66 8 A ALA 447 -88.29 33.10 8 A ILE 448 -33.02 95.17 8 A SER 451 69.78 111.08 8 A GLU 452 -140.07 -71.43 9 A SER 365 64.39 122.43 9 A ASP 367 -50.53 -178.57 9 A ARG 384 32.21 48.73 9 A ALA 447 -85.65 33.80 9 A ARG 450 -162.81 112.03 9 A GLU 452 57.21 -89.80 10 A ARG 384 33.39 47.62 10 A ALA 447 -90.60 32.72 10 A ILE 448 -163.19 116.13 10 A ARG 450 -154.52 -85.98 10 A SER 451 89.87 101.63 11 A ARG 384 31.46 48.40 11 A PRO 398 -78.39 46.84 11 A ILE 448 32.83 60.34 11 A ARG 450 -97.12 33.57 11 A GLU 452 64.92 -84.49 12 A LEU 366 60.60 154.74 12 A ARG 384 20.37 50.91 12 A PRO 398 -82.22 42.21 12 A VAL 411 -60.18 98.90 12 A ALA 447 -91.87 31.43 12 A ILE 448 -161.43 93.19 12 A ARG 450 81.98 53.92 12 A GLU 452 78.62 -70.32 13 A SER 365 -45.11 166.61 13 A LEU 366 -123.31 -168.48 13 A ASP 367 -62.78 -176.55 13 A ARG 384 32.45 47.32 13 A ILE 420 -49.57 -18.97 13 A ALA 447 -94.49 32.10 14 A LEU 366 65.19 147.68 14 A LEU 383 -104.61 41.84 14 A ARG 384 -43.53 85.39 14 A PRO 398 -81.63 44.43 14 A ALA 447 -87.57 33.29 14 A ARG 450 163.64 78.20 14 A GLU 452 162.13 -68.61 15 A LEU 383 -88.80 40.88 15 A ARG 384 -35.42 82.98 15 A PRO 398 -76.66 48.04 15 A THR 414 -163.94 114.30 15 A ILE 448 -26.77 121.45 15 A SER 451 -167.06 35.11 15 A GLU 452 67.79 166.55 16 A SER 365 54.24 -172.97 16 A ARG 384 38.14 41.04 16 A PRO 398 -78.04 47.37 16 A ALA 446 -69.77 9.79 16 A ILE 448 -36.13 98.15 16 A ARG 450 -47.16 -71.50 16 A SER 451 -66.62 -177.64 16 A GLU 452 68.16 -69.95 17 A SER 365 69.33 106.09 17 A ASP 367 -110.28 -169.39 17 A LEU 383 -88.05 40.99 17 A ARG 384 -39.37 87.71 17 A PRO 398 -78.76 49.12 17 A ALA 447 -91.24 31.78 17 A ARG 450 169.56 -57.87 17 A SER 451 50.12 107.49 18 A ARG 384 24.25 63.13 18 A PRO 398 -81.31 43.93 18 A ALA 446 -66.75 3.03 18 A ILE 448 -34.95 104.68 18 A GLU 452 64.76 -80.66 19 A ARG 384 38.32 40.33 19 A PRO 398 -74.43 46.10 19 A THR 414 -161.52 115.79 19 A ALA 447 -93.58 33.17 19 A ILE 448 -9.90 123.52 19 A PRO 449 -58.89 64.56 19 A ARG 450 64.98 110.21 19 A SER 451 174.15 41.56 19 A GLU 452 66.29 -81.32 20 A LEU 366 -109.36 -166.36 20 A LEU 383 -89.42 41.41 20 A ARG 384 -46.10 80.54 20 A PRO 398 -77.58 45.07 20 A VAL 411 -51.79 93.85 20 A ALA 447 -88.00 31.37 20 A ARG 450 -161.42 76.47 20 A GLU 452 -178.47 -39.71 Solution structure of double-stranded RNA binding domain of S.cerevisiae RNase III (rnt1p) 1 N N A ASN 369 A ASN 6 HELX_P A ILE 378 A ILE 15 1 1 10 A ASN 419 A ASN 56 HELX_P A ASP 434 A ASP 71 1 2 16 A ASP 434 A ASP 71 HELX_P A ALA 447 A ALA 84 1 3 14 RNA BINDING PROTEIN DSRBD, RNT1P, RNA BINDING PROTEIN RNT1_YEAST UNP 1 366 Q02555 LDMNAKRQLYSLIGYASLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIKIAGIRAAENALRDKKMLDFYAKQR AAIPRSES 366 453 2LUQ 366 453 Q02555 A 1 3 90 1 expression tag GLY 364 2LUQ A Q02555 UNP 1 1 expression tag SER 365 2LUQ A Q02555 UNP 2 3 anti-parallel anti-parallel A HIS 386 A HIS 23 A PRO 393 A PRO 30 A PRO 398 A PRO 35 A ARG 405 A ARG 42 A VAL 411 A VAL 48 A GLY 417 A GLY 54