RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780940|ref|YP_003065353.1| ribonuclease III [Candidatus Liberibacter asiaticus str. psy62] (227 letters) >2a11_A Ribonuclease III, RNAse III; nuclease domain, structural genomics, PSI, protein structure initiative; 2.10A {Mycobacterium tuberculosis} (A:) Length = 242 Score = 124 bits (311), Expect = 1e-29 Identities = 67/223 (30%), Positives = 99/223 (44%), Gaps = 7/223 (3%) Query: 6 YSTLEKRIGYAFANRSLLEKALTHSSISHSYQE--SYERLEFLGDRILGLLISTLLFNHF 63 L +G + LL ALTH S ++ + ERLEFLGD +LGL I+ LF+ Sbjct: 7 RQPLLDALGVDLPDE-LLSLALTHRSYAYENGGLPTNERLEFLGDAVLGLTITDALFHRH 65 Query: 64 DSAKEGELSVRFNSLVSAETCSQVARELDLASFIRVSSDLRKDVCSFM---TSIQADVVE 120 EG+L+ S+V+ + + VAR L R + + +SI AD +E Sbjct: 66 PDRSEGDLAKLRASVVNTQALADVARRLCAEGLGVHVLLGRGEANTGGADKSSILADGME 125 Query: 121 SLIAALYLDGGIEVAGTFVDKYWKQRALKSGKF-RRDAKTELQEWAHAKFGVTPEYKVTF 179 SL+ A+YL G+E A + + + + + A G+ + Sbjct: 126 SLLGAIYLQHGMEKAREVILRLFGPLLDAAPTLGAGLDWKTSLQELTAARGLGAPSYLVT 185 Query: 180 RSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQVAAAEVLKR 222 +GPDHD FT VV + G+ SK+ AEQ AAA K Sbjct: 186 STGPDHDKEFTAVVVVMDSEYGSGVGRSKKEAEQKAAAAAWKA 228 >1o0w_A Ribonuclease III, RNAse III; TM1102, structural genomics, JCSG, PSI, protein structure initiative, joint center for structural genomics; 2.00A {Thermotoga maritima} (A:1-177) Length = 177 Score = 114 bits (285), Expect = 1e-26 Identities = 46/148 (31%), Positives = 75/148 (50%), Gaps = 7/148 (4%) Query: 6 YSTLEKRIGYAFANRSLLEKALTHSSISHSYQ-------ESYERLEFLGDRILGLLISTL 58 +K G F N LL +AL HSS ++ ES E+LEFLGD +L L + + Sbjct: 21 VEEFQKETGINFKNEELLFRALCHSSYANEQNQAGRKDVESNEKLEFLGDAVLELFVCEI 80 Query: 59 LFNHFDSAKEGELSVRFNSLVSAETCSQVARELDLASFIRVSSDLRKDVCSFMTSIQADV 118 L+ + A+ G+L+ ++ S E + V+R+++L F+ + K SI AD Sbjct: 81 LYKKYPEAEVGDLARVKSAAASEEVLAMVSRKMNLGKFLFLGKGEEKTGGRDRDSILADA 140 Query: 119 VESLIAALYLDGGIEVAGTFVDKYWKQR 146 E+L+AA+YLD G E ++ ++ Sbjct: 141 FEALLAAIYLDQGYEKIKELFEQEFEFY 168 >3c4b_A Endoribonuclease dicer; RNAse, dsRNA binding protein, ATP-binding, endonuclease, helicase, hydrolase, nucleotide-binding, phosphoprotein; HET: MSE; 1.68A {Mus musculus} PDB: 3c4t_A 2eb1_A (A:1-199) Length = 199 Score = 114 bits (285), Expect = 1e-26 Identities = 44/179 (24%), Positives = 70/179 (39%), Gaps = 35/179 (19%) Query: 6 YSTLEKRIGYAFANRSLLEKALTHSSISH-SYQESYERLEFLGDRILGLLISTLLFNHFD 64 + T EK+I Y F N++ L +A TH+S + + + Y+RLEFLGD IL LI+ L+ Sbjct: 15 FETFEKKINYRFKNKAYLLQAFTHASYHYNTITDXYQRLEFLGDAILDYLITKHLYEDPR 74 Query: 65 SAKEGELSVRFNSLVSAETCSQVARELDLASFIRVSSDLRKDV----------------- 107 G L+ ++LV+ + +A + D + + S V Sbjct: 75 QHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHVIDDFVKFQLEKNEXQGX 134 Query: 108 ---------------CSFMTSIQADVVESLIAALYLDGG--IEVAGTFVDKYWKQRALK 149 + D+ ESL A+Y D G +EV + K Sbjct: 135 DSELRRSEEDEEKEEDIEVPKAXGDIFESLAGAIYXDSGXSLEVVWQVYYPXXQPLIEK 193 >2nug_A Ribonuclease III, RNAse III; dsRNA, RNA interference, endonucleolytic cleavage, hydrolase/RNA complex; 1.70A {Aquifex aeolicus} (A:1-148) Length = 148 Score = 113 bits (284), Expect = 2e-26 Identities = 55/156 (35%), Positives = 82/156 (52%), Gaps = 13/156 (8%) Query: 6 YSTLEKRIGYAFANRSLLEKALTHSSISHSYQESYERLEFLGDRILGLLISTLLFNHFDS 65 LEK++GY F ++SLLEKALTH S S +E YE LEFLGD ++ I LL + + Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSK--KEHYETLEFLGDALVNFFIVDLLVQYSPN 61 Query: 66 AKEGELSVRFNSLVSAETCSQVARELDLASFIRVSSDLRKDVCSFMTSIQADVVESLIAA 125 +EG LS L+S E + +A++L+L FIR+ + +I DV E+L AA Sbjct: 62 KREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKRGKINE------TIIGDVFEALWAA 115 Query: 126 LYLDGG--IEVAGTFVDKYWKQRALKSGKFRRDAKT 159 +Y+D G K +K+ L ++ + Sbjct: 116 VYIDSGRDANFTRELFYKLFKEDIL---SAIKEGRV 148 >2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A (A:607-756) Length = 150 Score = 106 bits (265), Expect = 3e-24 Identities = 31/142 (21%), Positives = 52/142 (36%), Gaps = 10/142 (7%) Query: 5 RYSTLEKRIGYAFANRSLLEKALTHSSISHSYQESYERLEFLGDRILGLLISTLLFNHFD 64 R + G LL+ ALT Y++LE LGD L ++ L Sbjct: 14 RSLAVPIPSGTIPFLIRLLQIALTPHV--------YQKLELLGDAFLKCSLALHLHALHP 65 Query: 65 SAKEGELSVRFNSLVSAETCSQVARELDLASFIRVSSDLRKDVCSFMTSIQADVVESLIA 124 + EG L+ S + ++ + + K + D E+++A Sbjct: 66 TLTEGALTRMRQSAETNSVLGRLTKRFPSVVSEVIIESHPKIQPDS--KVYGDTFEAILA 123 Query: 125 ALYLDGGIEVAGTFVDKYWKQR 146 A+ L G E AG FV ++ + Sbjct: 124 AILLACGEEAAGAFVREHVLPQ 145 >2gsl_A Hypothetical protein; alpha-helical protein, structural genomics, PSI, protein structure initiative; 2.60A {Fusobacterium nucleatum subsp} (A:) Length = 137 Score = 96.2 bits (239), Expect = 3e-21 Identities = 23/131 (17%), Positives = 41/131 (31%), Gaps = 14/131 (10%) Query: 26 ALTHSSISHSYQESYERLEFLGDRILGLLISTLLFNHFDSAKEGELSVRFNSLVSAETCS 85 + S S L FLGD I L I L+ + V+A+ S Sbjct: 3 NVDFSKDIR--DYSGLELAFLGDAIWELEIRKYY--LQFGYNIPTLNKYVKAKVNAKYQS 58 Query: 86 QVARELDLASFIRVSSDLRKDV----------CSFMTSIQADVVESLIAALYLDGGIEVA 135 + +++ ++ C+ +A +E++I A YL E Sbjct: 59 LIYKKIINDLDEEFKVIGKRAKNSNIKTFPRSCTVXEYKEATALEAIIGAXYLLKKEEEI 118 Query: 136 GTFVDKYWKQR 146 ++ K Sbjct: 119 KKIINIVIKGE 129 >2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A (A:328-440) Length = 113 Score = 93.5 bits (232), Expect = 2e-20 Identities = 27/110 (24%), Positives = 47/110 (42%), Gaps = 6/110 (5%) Query: 38 ESYERLEFLGDRILGLLISTLLFNHFDSAKEGELSVRFNSLVSAETCSQVARELDLASFI 97 + ++RLE LGD +LG +++ L F A G L LV E + + + L L Sbjct: 5 DVFQRLELLGDAVLGFIVTARLLCLFPDASVGTLVELKMELVRNEALNYLVQTLGLPQLA 64 Query: 98 RVSSDLRKDVCSFMTSIQADVVESLIAALYLD-GGIEVAGTFVDKYWKQR 146 S++L + AD+ E ++ +++ GI F+ K Sbjct: 65 EFSNNLVA-----KSKTWADMYEEIVGSIFTGPNGIYGCEEFLAKTLMSP 109 >1u61_A Hypothetical protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG, unknown function; 2.15A {Bacillus cereus} (A:) Length = 138 Score = 84.7 bits (209), Expect = 1e-17 Identities = 23/122 (18%), Positives = 36/122 (29%), Gaps = 13/122 (10%) Query: 37 QESYERLEFLGDRILGLLISTLLFNHFDSAKEGELSVRFNSLVSAETCSQVARELDLASF 96 Q + L + GD + I L + +L S VSA+ ++V L +F Sbjct: 9 QLNSLALAYXGDAVYEQYIRYHLLQKGK-VRPNQLHRLGTSFVSAKAQAKVVYHLLETAF 67 Query: 97 IRVS------------SDLRKDVCSFMTSIQADVVESLIAALYLDGGIEVAGTFVDKYWK 144 + S T + E+LI +L E V K Sbjct: 68 LTEEEEAVLRRGRNANSGTVPKNTDVQTYRHSTAFEALIGYHHLLNNRERLDEIVYKAIA 127 Query: 145 QR 146 Sbjct: 128 VL 129 >1whn_A Hypothetical protein riken cDNA 2310016K04; double-stranded RNA binding domain, DSRBD, DSRM, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} (A:) Length = 128 Score = 80.1 bits (197), Expect = 2e-16 Identities = 22/95 (23%), Positives = 34/95 (35%), Gaps = 12/95 (12%) Query: 129 DGGIEVAGTFVDKYWKQRALKSGKFRRDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPR 188 G I++A F + + + K L EW + P Y+ D Sbjct: 8 SGIIKMAIRFDRRAYPPQ--------ITPKMCLLEWCRREKLPQPVYETV---QRTIDRM 56 Query: 189 FTVVVEISGLAPAQGMDC-SKRAAEQVAAAEVLKR 222 F VV ++ + SK+ AEQ AA L+ Sbjct: 57 FCSVVTVAEQKYQSTLWDKSKKLAEQTAAIVCLRS 91 >1o0w_A Ribonuclease III, RNAse III; TM1102, structural genomics, JCSG, PSI, protein structure initiative, joint center for structural genomics; 2.00A {Thermotoga maritima} (A:178-252) Length = 75 Score = 78.0 bits (192), Expect = 1e-15 Identities = 23/67 (34%), Positives = 33/67 (49%) Query: 156 DAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQVA 215 D KT LQE ++ V PEY + D D F V V ++G A G +K+ AE+ A Sbjct: 3 DYKTALQEIVQSEHKVPPEYILVRTEKNDGDRIFVVEVRVNGKTIATGKGRTKKEAEKEA 62 Query: 216 AAEVLKR 222 A ++ Sbjct: 63 ARIAYEK 69 >2nug_A Ribonuclease III, RNAse III; dsRNA, RNA interference, endonucleolytic cleavage, hydrolase/RNA complex; 1.70A {Aquifex aeolicus} (A:149-221) Length = 73 Score = 77.5 bits (191), Expect = 2e-15 Identities = 25/69 (36%), Positives = 36/69 (52%), Gaps = 1/69 (1%) Query: 154 RRDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQ 213 ++D KT LQE ++ PEY++ GP H +F V +I G SK+ AEQ Sbjct: 1 KKDYKTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYR-TLGEGKSKKEAEQ 59 Query: 214 VAAAEVLKR 222 AA E++K Sbjct: 60 RAAEELIKL 68 >1t4o_A Ribonuclease III; RNT1P, DSRBD, RNA-binding, hydrolase; 2.50A {Saccharomyces cerevisiae} (A:) Length = 117 Score = 77.4 bits (190), Expect = 2e-15 Identities = 12/75 (16%), Positives = 22/75 (29%), Gaps = 1/75 (1%) Query: 148 LKSGKFRRDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCS 207 +K+ K +AK +L + Y + G G+ + Sbjct: 1 MKTDKLDMNAKRQLYSLIGYA-SLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRN 59 Query: 208 KRAAEQVAAAEVLKR 222 + A AA L+ Sbjct: 60 IKIAGIRAAENALRD 74 >1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure, transferase; NMR {Homo sapiens} (A:1-92) Length = 92 Score = 76.9 bits (189), Expect = 2e-15 Identities = 23/68 (33%), Positives = 31/68 (45%), Gaps = 1/68 (1%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 EL + K GV +Y+ SGP HD RFT V I G +G SK+ A+ Sbjct: 13 GFFMEELNTYRQ-KQGVVLKYQELPNSGPPHDRRFTFQVIIDGREFPEGEGRSKKEAKNA 71 Query: 215 AAAEVLKR 222 AA ++ Sbjct: 72 AAKLAVEI 79 >1x49_A Interferon-induced, double-stranded RNA- activated protein kinase; structure genomics, DSRM domain, structural genomics, NPPSFA; NMR {Mus musculus} (A:) Length = 97 Score = 76.1 bits (187), Expect = 3e-15 Identities = 20/68 (29%), Positives = 26/68 (38%), Gaps = 1/68 (1%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 +L ++ GV YK SGP HD RFT V I + SK+ A Sbjct: 14 GFYMDKLNKYRQ-MHGVAITYKELSTSGPPHDRRFTFQVLIDEKEFPEAKGRSKQEARNA 72 Query: 215 AAAEVLKR 222 AA + Sbjct: 73 AAKLAVDI 80 >1x48_A Interferon-induced, double-stranded RNA- activated protein kinase; structure genomics, DSRM domain, structural genomics, NPPSFA; NMR {Mus musculus} (A:) Length = 88 Score = 76.1 bits (187), Expect = 4e-15 Identities = 13/68 (19%), Positives = 26/68 (38%), Gaps = 2/68 (2%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 + +A K ++ Y+ + RF +I G +K+ A+Q+ Sbjct: 6 SGYIGLVNSFAQ-KKKLSVNYEQC-EPNSELPQRFICKCKIGQTMYGTGSGVTKQEAKQL 63 Query: 215 AAAEVLKR 222 AA E ++ Sbjct: 64 AAKEAYQK 71 >1t4n_A Ribonuclease III; DSRBD, RNA-binding, hydrolase; NMR {Saccharomyces cerevisiae} (A:) Length = 94 Score = 75.7 bits (186), Expect = 5e-15 Identities = 10/68 (14%), Positives = 18/68 (26%), Gaps = 1/68 (1%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 +AK +L + Y + G G+ + + A Sbjct: 6 MNAKRQLYSLIGYA-SLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIKIAGIR 64 Query: 215 AAAEVLKR 222 AA L+ Sbjct: 65 AAENALRD 72 >1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure, transferase; NMR {Homo sapiens} (A:93-179) Length = 87 Score = 74.9 bits (184), Expect = 9e-15 Identities = 14/76 (18%), Positives = 26/76 (34%), Gaps = 2/76 (2%) Query: 147 ALKSGKFRRDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDC 206 G + + A K +T Y+ SG F ++ + G Sbjct: 4 NSSEGLSMGNYIGLINRIAQKK-RLTVNYEQC-ASGVHGPEGFHYKCKMGQKEYSIGTGS 61 Query: 207 SKRAAEQVAAAEVLKR 222 +K+ A+Q+AA + Sbjct: 62 TKQEAKQLAAKLAYLQ 77 >2b7t_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding protein, hydrolase; NMR {Rattus norvegicus} (A:) Length = 73 Score = 74.8 bits (184), Expect = 9e-15 Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 6/72 (8%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 ++A +L E +Y + ++GP H P F + VE++G +G +K+ A+ Sbjct: 7 KNALMQLNEIKP-----GLQYMLLSQTGPVHAPLFVMSVEVNGQ-VFEGSGPTKKKAKLH 60 Query: 215 AAAEVLKREGIW 226 AA + L+ + Sbjct: 61 AAEKALRSFVQF 72 >1uil_A Double-stranded RNA-binding motif; structural genomics, DSRM, riken structural genomics/proteomics initiative, RSGI RNA binding protein; NMR {Mus musculus} (A:) Length = 113 Score = 74.7 bits (183), Expect = 1e-14 Identities = 21/105 (20%), Positives = 36/105 (34%), Gaps = 12/105 (11%) Query: 133 EVAGTFVDKYWKQR--ALKSGKFRRDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFT 190 + ++ L +AK L ++ + + EYK T + GPDH+ F Sbjct: 2 SSGSSGLESEEVDLNAGLHGNWTLENAKARLNQYFQKE-KIQGEYKYT-QVGPDHNRSFI 59 Query: 191 VVVEISGL-----APAQGMDCSKRAAEQVAAA---EVLKREGIWT 227 + I A+ +K+ A Q A L G+ Sbjct: 60 AEMTIYIKQLGRRIFAREHGSNKKLAAQSCALSLVRQLYHLGVIE 104 >1uhz_A Staufen (RNA binding protein) homolog 2; DSRM, staufen homolog 2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} (A:) Length = 89 Score = 74.2 bits (182), Expect = 1e-14 Identities = 15/73 (20%), Positives = 29/73 (39%), Gaps = 1/73 (1%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 + L + A+ P+Y + G F + V++ A G +K+ A++ Sbjct: 6 SGPISRLAQIQQARKEKEPDYILLSERGMPRRREFVMQVKVGNE-VATGTGPNKKIAKKN 64 Query: 215 AAAEVLKREGIWT 227 AA +L + G Sbjct: 65 AAEAMLLQLGYKA 77 >1ekz_A DSRBDIII, maternal effect protein (staufen); structure, protein/RNA, protein DSRBD, RNA hairpin; NMR {Drosophila melanogaster} (A:) Length = 76 Score = 73.7 bits (181), Expect = 2e-14 Identities = 13/68 (19%), Positives = 29/68 (42%), Gaps = 2/68 (2%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 + +++ E + +T +KV GP H F + + +G K+ +++ Sbjct: 7 KSPISQVHEIGIKR-NMTVHFKVLREEGPAHMKNFITACIVGSI-VTEGEGNGKKVSKKR 64 Query: 215 AAAEVLKR 222 AA ++L Sbjct: 65 AAEKMLVE 72 >1di2_A XLRBPA, double stranded RNA binding protein A; protein-RNA complex, protein-RNA interactions, RNA-bining protein; 1.90A {Xenopus laevis} (A:) Length = 69 Score = 73.3 bits (180), Expect = 2e-14 Identities = 23/65 (35%), Positives = 31/65 (47%), Gaps = 1/65 (1%) Query: 158 KTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQVAAA 217 LQE A K PEY V SGP H FT+ + G SK+ A++VAA Sbjct: 3 VGSLQELAVQKGWRLPEYTVAQESGPPHKREFTITCRVETFV-ETGSGTSKQVAKRVAAE 61 Query: 218 EVLKR 222 ++L + Sbjct: 62 KLLTK 66 >2yt4_A Protein DGCR8; DSRBD, RNA binding domain, RNA binding protein; 2.60A {Homo sapiens} (A:22-104) Length = 83 Score = 73.4 bits (180), Expect = 2e-14 Identities = 16/68 (23%), Positives = 23/68 (33%), Gaps = 2/68 (2%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 + L E+ V P Y + F V I G+ G SK+ A+ Sbjct: 1 KSEVCILHEYMQRVLKVRPVYNFF--ECENPSEPFGASVTIDGVTYGSGTASSKKLAKNK 58 Query: 215 AAAEVLKR 222 AA L+ Sbjct: 59 AARATLEI 66 >2dix_A Interferon-inducible double stranded RNA- dependent protein kinase activator A; structure genomics, DSRM domain, hypothetical protein PRKRA; NMR {Homo sapiens} (A:) Length = 84 Score = 72.2 bits (177), Expect = 5e-14 Identities = 15/68 (22%), Positives = 23/68 (33%), Gaps = 2/68 (2%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 + L E+ P Y+ H P FT V + + G SK+ A+ Sbjct: 8 KTPIQVLHEYGMKT-KNIPVYECERSDVQIHVPTFTFRVTVGDI-TCTGEGTSKKLAKHR 65 Query: 215 AAAEVLKR 222 AA + Sbjct: 66 AAEAAINI 73 >2cpn_A TAR RNA-binding protein 2; double-stranded RNA binding domain, DSRBD, DSRM., structural genomics, NPPSFA; NMR {Homo sapiens} (A:) Length = 89 Score = 72.2 bits (177), Expect = 6e-14 Identities = 24/76 (31%), Positives = 34/76 (44%), Gaps = 1/76 (1%) Query: 147 ALKSGKFRRDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDC 206 + + + LQE K PEY VT SGP H FT+ + G Sbjct: 8 PVSPQQSECNPVGALQELVVQKGWRLPEYTVTQESGPAHRKEFTMTCRVERFI-EIGSGT 66 Query: 207 SKRAAEQVAAAEVLKR 222 SK+ A++ AAA++L R Sbjct: 67 SKKLAKRNAAAKMLLR 82 >2dmy_A Spermatid perinuclear RNA-binding protein; DSRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} (A:) Length = 97 Score = 71.9 bits (176), Expect = 7e-14 Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 3/68 (4%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 D L + +YK+ +SGP H P FT+ V++ G + SK+ A+ Sbjct: 16 IDLMNALMRLNQIR--PGLQYKLLSQSGPVHAPVFTMSVDVDGT-TYEASGPSKKTAKLH 72 Query: 215 AAAEVLKR 222 A +VL+ Sbjct: 73 VAVKVLQA 80 >2b7v_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding protein, hydrolase; NMR {Rattus norvegicus} (A:) Length = 71 Score = 72.1 bits (177), Expect = 7e-14 Identities = 15/68 (22%), Positives = 24/68 (35%), Gaps = 6/68 (8%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 ++ L E +Y SG H F + V + G +G +K+ A+ Sbjct: 4 KNPVMILNELRPG-----LKYDFLSESGESHAKSFVMSVVVDGQ-FFEGSGRNKKLAKAR 57 Query: 215 AAAEVLKR 222 AA L Sbjct: 58 AAQSALAT 65 >1x47_A DGCR8 protein; structural genomics, DSRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} (A:) Length = 98 Score = 71.5 bits (175), Expect = 1e-13 Identities = 17/68 (25%), Positives = 23/68 (33%), Gaps = 2/68 (2%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQV 214 + L E+ V P Y P F V I G+ G SK+ A+ Sbjct: 16 KSEVCILHEYMQRVLKVRPVYNFFECENPSE--PFGASVTIDGVTYGSGTASSKKLAKNK 73 Query: 215 AAAEVLKR 222 AA L+ Sbjct: 74 AARATLEI 81 >1whq_A RNA helicase A; double-stranded RNA binding domain, DSRBD, DSRM, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Mus musculus} (A:) Length = 99 Score = 70.4 bits (172), Expect = 2e-13 Identities = 15/69 (21%), Positives = 27/69 (39%), Gaps = 3/69 (4%) Query: 155 RDAKTELQEWAHAKFGVTPEYKVTFRSGPDHDPRFTVVVEISGLA-PAQGMDCSKRAAEQ 213 K L W + +TP Y++ G + +F V + G G +K+ A+ Sbjct: 6 SGIKNFLYAWCGKR-KMTPAYEIR-AVGNKNRQKFMCEVRVEGFNYAGMGNSTNKKDAQS 63 Query: 214 VAAAEVLKR 222 AA + + Sbjct: 64 NAARDFVNY 72 >2khx_A Ribonuclease 3; drosha, RNA binding domain, hydrolase, gene regulation, nuclear protein; NMR {Homo sapiens} (A:29-85) Length = 57 Score = 59.0 bits (143), Expect = 6e-10 Identities = 14/48 (29%), Positives = 19/48 (39%) Query: 180 RSGPDHDPRFTVVVEISGLAPAQGMDCSKRAAEQVAAAEVLKREGIWT 227 GP H +TV V G G S + AE AA + L++ Sbjct: 3 TVGPSHARTYTVAVYFKGERIGCGKGPSIQQAEMGAAMDALEKYNFPQ 50 >2qyf_B MAD2L1-binding protein; MAD2 family, spindle assembly checkpoint, cell cycle, cell division, mitosis, nucleus, phosphorylation; 2.30A {Homo sapiens} (B:) Length = 240 Score = 25.9 bits (57), Expect = 4.5 Identities = 13/52 (25%), Positives = 16/52 (30%), Gaps = 16/52 (30%) Query: 71 LSVRFNSLVSAETCSQVAREL----------------DLASFIRVSSDLRKD 106 + V F VS E C Q EL L F R S ++ Sbjct: 22 VPVVFPGPVSQEGCCQFTCELLKHIXYQRQQLPLPYEQLKHFYRKPSPQAEE 73 >2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus, protein transport, translocation, transport, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A (A:89-295) Length = 207 Score = 25.2 bits (55), Expect = 7.6 Identities = 16/74 (21%), Positives = 25/74 (33%), Gaps = 14/74 (18%) Query: 151 GKFRRDAKTELQEWAHAKFGVTP---------EYKVTFRSGPDHDPRFTVVVEISGLAPA 201 K + T + +A +K P EY +S D DP V ++ G Sbjct: 95 KKVEQSFLTYFKAYASSKDHGLPVEYSTKLHTEYNQHIKSSLDGDPYRLAVYKLIG---- 150 Query: 202 QGMDCSKRAAEQVA 215 D S++ V Sbjct: 151 -RCDLSRKNIPAVT 163 >1pzx_A Hypothetical protein APC36103; structural genomics, two domains containing mixed alpha/beta structures, PSI; HET: PLM; 2.00A {Geobacillus stearothermophilus} (A:1-29,A:66-158) Length = 122 Score = 24.9 bits (54), Expect = 8.6 Identities = 5/32 (15%), Positives = 11/32 (34%) Query: 36 YQESYERLEFLGDRILGLLISTLLFNHFDSAK 67 +E + L + S+ L + +A Sbjct: 34 MKELFLPYAKENRPCLYIAFSSKLSGTYQTAM 65 Database: mmdb70 Posted date: Jun 20, 2010 3:12 AM Number of letters in database: 4,956,049 Number of sequences in database: 33,805 Lambda K H 0.319 0.132 0.377 Gapped Lambda K H 0.267 0.0491 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,657,772 Number of extensions: 70522 Number of successful extensions: 204 Number of sequences better than 10.0: 1 Number of HSP's gapped: 161 Number of HSP's successfully gapped: 35 Length of query: 227 Length of database: 4,956,049 Length adjustment: 85 Effective length of query: 142 Effective length of database: 2,082,624 Effective search space: 295732608 Effective search space used: 295732608 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 53 (24.8 bits)