BLASTP 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0005.0126.p (457 letters) Database: COGmodified 192,987 sequences; 59,019,183 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value RSc1228 [K] COG0557 Exoribonuclease R Rso Ralstonia solanacearum 563 e-160 NMB1200 [K] COG0557 Exoribonuclease R Nme Neisseria meningitidis... 371 e-102 PA4937 [K] COG0557 Exoribonuclease R Pae Pseudomonas aeruginosa 370 e-102 NMA1371 [K] COG0557 Exoribonuclease R NmA Neisseria meningitidis... 365 e-101 HI0861 [K] COG0557 Exoribonuclease R Hin Haemophilus influenzae 359 9e-99 >RSc1228 [K] COG0557 Exoribonuclease R Rso Ralstonia solanacearum Length = 871 Score = 563 bits (1452), Expect = e-160, Method: Compositional matrix adjust. Identities = 278/407 (68%), Positives = 329/407 (80%), Gaps = 14/407 (3%) Query: 1 LSQFPYSIPSREEILGILRTSSGAQNAAALAAALGVKPEEMDGLTRRLNAMERDGQIKPD 60 L+Q Y IPSREEILG+LRTS +AA +A AL V +E DG +RL AMERDGQ++ + Sbjct: 9 LNQPTYPIPSREEILGVLRTSGSPLSAADIAKALSVTRKEHDGFIKRLTAMERDGQLELN 68 Query: 61 RAGHYKLTHSPDFILGRVSRTVSCCPMTAAMTCSHGFGFLLPDDGSDDLFLPEKEMQKVM 120 R G Y+L H P+FI GRV + G+GF + DDG D+FLPE+EMQK M Sbjct: 69 RKGRYELAHQPNFIEGRV------------VGHRDGYGFFIRDDGEPDIFLPEREMQKAM 116 Query: 121 HGDRVQARIVGTDRRGRPEGTIVEVVERANTHVIGRLLNENGVWIVAPEDKRIGHDVLLA 180 HGDR R++G DRRGR EG IVE++ERAN +VIGRLL+E+G +VAPEDKR+G D+L+A Sbjct: 117 HGDRALVRVIGYDRRGRSEGQIVEMLERANRYVIGRLLSESGTLVVAPEDKRLGRDILIA 176 Query: 181 -GPPGKAKAGQVVSVELTEHPSRYTQPVGKIVEILGDIDDPGMEIEIAVRKYGVPHEFSE 239 GKAK GQVVSVE+ E+P RY QP+G++VE+LG+IDDPGMEIEIAVRKYGVPHEFSE Sbjct: 177 PKGQGKAKVGQVVSVEILEYPDRYVQPIGRVVEVLGEIDDPGMEIEIAVRKYGVPHEFSE 236 Query: 240 AAKKLSAKLPSEVKAADLKDRVDLRDVPLVTIDGEDARDFDDAVYCEPVKIGRTKGYRLI 299 A + S LP V+ +DL R+DLRDVPLVTIDGEDARDFDDAVYCEPVKIGR+KG+RL+ Sbjct: 237 ATLRESEALPDVVRESDLAGRIDLRDVPLVTIDGEDARDFDDAVYCEPVKIGRSKGWRLV 296 Query: 300 VAIADVSHYVKPNDALDVDALERSTSVYFPRRVIPMLPEKLSNGLCSLNPDVDRLTLVCD 359 VAIADVSHYV+P +LDVDA++R+TSVYFPRRVIPMLPEKLSNGLCSLNP+VDRL +VCD Sbjct: 297 VAIADVSHYVQPGKSLDVDAIDRATSVYFPRRVIPMLPEKLSNGLCSLNPEVDRLCMVCD 356 Query: 360 AVITAKGEIKAYQFYPAVIHSAARLTYTEVASILANTKGPEAA-RAP 405 AVITAKG+IKAYQFYPAV+HSAARLTY EV SIL+N KGPEAA RAP Sbjct: 357 AVITAKGQIKAYQFYPAVMHSAARLTYNEVWSILSNVKGPEAAKRAP 403 >NMB1200 [K] COG0557 Exoribonuclease R Nme Neisseria meningitidis MC58 Length = 791 Score = 371 bits (953), Expect = e-102, Method: Compositional matrix adjust. Identities = 201/402 (50%), Positives = 261/402 (64%), Gaps = 27/402 (6%) Query: 2 SQFPYSIPSREEILGILRTSSGAQNAAALAAALGVKPEEMDGLTRRLNAMERDGQIKPDR 61 ++ + +PSRE I+ +L +LA L + +E RRL AM RDGQ+ +R Sbjct: 22 QRYEHPLPSREWIIELLERKGVPSKIESLARELSITEDEYVFFERRLKAMARDGQVLINR 81 Query: 62 AGHYKLTHSPDFILGRVSRTVSCCPMTAAMTCSHGFGFLLP----DDGSDDLFLPEKEMQ 117 G D + RV GFGF +P DG D L E++M+ Sbjct: 82 RGAVCAADKLDLVKCRVE------------AHKDGFGFAVPLTPAKDG--DFVLYERQMR 127 Query: 118 KVMHGDRVQARIVGTDRRGRPEGTIVEVVERANTHVIGRLLNENGVWIVAPEDKRIGHDV 177 +MHGD V R G DRRGR EGT++++VERA + V+GR + GV I+ PEDKR+ + Sbjct: 128 GIMHGDIVTVRPAGMDRRGRREGTVLDIVERAQSKVVGRFYMDRGVAILEPEDKRLNQSI 187 Query: 178 LLAGPPG----KAKAGQVVSVELTEHPSRYTQPVGKIVEILGDIDDPGMEIEIAVRKYGV 233 +L P G K ++GQV+ E+ +P + V KI+E+LGD D GMEIEIAVRK+ + Sbjct: 188 VLE-PDGVARFKPESGQVIVGEIEVYPEQNRPAVAKIIEVLGDYADSGMEIEIAVRKHHL 246 Query: 234 PHEFSEAAKKLSAKLPSEVKAADLKDRVDLRDVPLVTIDGEDARDFDDAVYCEPVKIGRT 293 PH+FSEA K + K+P V+ +DLK RVDLRD+PLVTIDGE ARDFDDAV+ E K+GR Sbjct: 247 PHQFSEACAKAAKKIPVHVRKSDLKGRVDLRDLPLVTIDGETARDFDDAVFAE--KVGRN 304 Query: 294 KGYRLIVAIADVSHYVKPNDALDVDALERSTSVYFPRRVIPMLPEKLSNGLCSLNPDVDR 353 YRL+VAIADVSHYV+P+D +D DA ERSTSVYFPRRVIPMLPE LSNG+CSLNPDV+R Sbjct: 305 --YRLVVAIADVSHYVRPDDVIDADAQERSTSVYFPRRVIPMLPENLSNGICSLNPDVER 362 Query: 354 LTLVCDAVITAKGEIKAYQFYPAVIHSAARLTYTEVASILAN 395 L +VCD V+T G IK Y+FYPAV+ S ARLTY +V +++ Sbjct: 363 LCMVCDMVVTYAGNIKEYRFYPAVMRSHARLTYNQVWKWISD 404 >PA4937 [K] COG0557 Exoribonuclease R Pae Pseudomonas aeruginosa Length = 904 Score = 370 bits (951), Expect = e-102, Method: Compositional matrix adjust. Identities = 205/401 (51%), Positives = 254/401 (63%), Gaps = 17/401 (4%) Query: 3 QFPYSIPSREEILGILRTSSGAQNAAALAAALGVKPEE-MDGLTRRLNAMERDGQIKPDR 61 ++ IPSRE IL L + L G+ EE + L RRL AMERDGQ+ R Sbjct: 17 KYENPIPSRELILAHLSERGAPATRSQLLDEFGLAGEEPEEALRRRLRAMERDGQLIYTR 76 Query: 62 AGHYKLTHSPDFILGRVSRTVSCCPMTAAMTCSHGFGFLLPDDGSDDLFLPEKEMQKVMH 121 G Y D I GR+S GFGFL+PDDGSDDLFL +M+ V Sbjct: 77 RGAYAPVDKLDLIRGRIS------------GHRDGFGFLIPDDGSDDLFLSPTQMRLVFD 124 Query: 122 GDRVQARIVGTDRRGRPEGTIVEVVERANTHVIGRLLNENGVWIVAPEDKRIGHDVLLA- 180 GDR AR+ G DRRGR EG +VEV+ERA+ V+GR E+G+ +V ++ +I +VL+ Sbjct: 125 GDRALARVSGHDRRGRREGQLVEVIERAHEIVVGRYFEESGIGVVVADNPKIQQEVLIPP 184 Query: 181 GPPGKAKAGQVVSVELTEHPSRYTQPVGKIVEILGDIDDPGMEIEIAVRKYGVPHEFSEA 240 G GKA+ Q V V + + PS + Q G+IVE+LGD PGMEIE+A+R Y +PH + A Sbjct: 185 GKAGKARHNQFVQVRIEQWPSIHRQAQGEIVEVLGDYMAPGMEIEVALRSYDIPHVWPAA 244 Query: 241 AKKLSAKLPSEVKAADLKDRVDLRDVPLVTIDGEDARDFDDAVYCEPVKIGRTKGYRLIV 300 +K +AKL EV D + RVDLR VP VTIDGEDARDFDDAVY E + G G+RL V Sbjct: 245 VEKEAAKLKPEVAEKDKEKRVDLRQVPFVTIDGEDARDFDDAVYAEAKRGG---GWRLFV 301 Query: 301 AIADVSHYVKPNDALDVDALERSTSVYFPRRVIPMLPEKLSNGLCSLNPDVDRLTLVCDA 360 AIADVSHYVK ALD +A R SVYFP RVIPMLPE LSNGLCSLNP VDRL +VC+ Sbjct: 302 AIADVSHYVKVGSALDEEAARRGNSVYFPERVIPMLPEVLSNGLCSLNPLVDRLAMVCEM 361 Query: 361 VITAKGEIKAYQFYPAVIHSAARLTYTEVASILANTKGPEA 401 ++ G++ YQFY AVIHS ARLTYT+V+ +L + EA Sbjct: 362 TLSKAGKLTGYQFYEAVIHSHARLTYTKVSQLLEHPDSVEA 402 >NMA1371 [K] COG0557 Exoribonuclease R NmA Neisseria meningitidis Z2491 Length = 791 Score = 365 bits (938), Expect = e-101, Method: Compositional matrix adjust. Identities = 206/401 (51%), Positives = 261/401 (65%), Gaps = 27/401 (6%) Query: 2 SQFPYSIPSREEILGILRTSSGAQNAAALAAALGVKPEEMDGLTRRLNAMERDGQIKPDR 61 ++ + +PSRE I+ +L AL L +K EE + RRL AM RDGQ+ +R Sbjct: 22 QRYEHPLPSREWIIELLERKGVPSKIEALVRELSIKEEEYEFFERRLKAMARDGQVLINR 81 Query: 62 AGHYKLTHSPDFILGRVSRTVSCCPMTAAMTCSHGFGFLLP----DDGSDDLFLPEKEMQ 117 G D + RV GFGF +P DG D L E++M+ Sbjct: 82 RGAVCAADKLDLVKCRVE------------AHKDGFGFAVPLTPAKDG--DFVLYERQMR 127 Query: 118 KVMHGDRVQARIVGTDRRGRPEGTIVEVVERANTHVIGRLLNENGVWIVAPEDKRIGHDV 177 +MHGD V R G DRRGR EGT++++VERA + V+GR + GV I+ PEDKR+ + Sbjct: 128 GIMHGDIVTVRPAGMDRRGRREGTVLDIVERAQSKVVGRFYMDRGVAILEPEDKRLNQSI 187 Query: 178 LLAGPPG----KAKAGQVVSVELTEHPSRYTQPVGKIVEILGDIDDPGMEIEIAVRKYGV 233 +L P G K ++GQV+ E+ +P + V KI+E+LGD D GMEIEIAVRK+ + Sbjct: 188 VLE-PDGVARFKPESGQVIVGEIEVYPEQNRPAVAKIIEVLGDYADSGMEIEIAVRKHHL 246 Query: 234 PHEFSEAAKKLSAKLPSEVKAADLKDRVDLRDVPLVTIDGEDARDFDDAVYCEPVKIGRT 293 PH+FSEA K + K+P V+ +DLK RVDLRD+PLVTIDGE ARDFDDAV+ E KIGR Sbjct: 247 PHQFSEACAKAAKKIPDHVRKSDLKGRVDLRDLPLVTIDGETARDFDDAVFAE--KIGRN 304 Query: 294 KGYRLIVAIADVSHYVKPNDALDVDALERSTSVYFPRRVIPMLPEKLSNGLCSLNPDVDR 353 YRL+VAIADVSHYV+P+DA+D DA ERSTSVYFPRRVIPMLPE LSNG+CSLNP V+R Sbjct: 305 --YRLVVAIADVSHYVRPDDAIDTDAQERSTSVYFPRRVIPMLPENLSNGICSLNPHVER 362 Query: 354 LTLVCDAVITAKGEIKAYQFYPAVIHSAARLTYTEVASILA 394 L +VCD VIT G IK Y+FYPAV+ S ARLTY +V L+ Sbjct: 363 LCVVCDMVITYAGNIKEYRFYPAVMRSHARLTYNQVWKWLS 403 >HI0861 [K] COG0557 Exoribonuclease R Hin Haemophilus influenzae Length = 782 Score = 359 bits (921), Expect = 9e-99, Method: Compositional matrix adjust. Identities = 193/395 (48%), Positives = 247/395 (62%), Gaps = 18/395 (4%) Query: 1 LSQFPYSIPSREEILGILRTSSGAQNAAALAAALGVKPE-EMDGLTRRLNAMERDGQIKP 59 L ++ IPSRE IL ++R ++ N + AL ++ E +++ + RRL AME DGQ+ Sbjct: 19 LEKYGNPIPSREFILTVIRDNNAPMNRDEILTALSIRNEDQIEAMRRRLRAMENDGQLVF 78 Query: 60 DRAGHYKLTHSPDFILGRVSRTVSCCPMTAAMTCSHGFGFLLPDDGSDDLFLPEKEMQKV 119 + Y L D G V + GFGFL D DDLF+P +MQ+V Sbjct: 79 TKRKRYALPEKLDLFKGTV------------IGHREGFGFLQVDGKKDDLFIPNHQMQRV 126 Query: 120 MHGDRVQARIVGTDRRGRPEGTIVEVVERANTHVIGRLLNENGVWIVAPEDKRIGHDVLL 179 MHGD V A+ G DRRGR E IV V+E ++GR ENG V P+D RIG D+L+ Sbjct: 127 MHGDFVLAQPAGLDRRGRREVRIVRVLESRKKQIVGRFFLENGFGYVVPDDSRIGRDILV 186 Query: 180 AGPP-GKAKAGQVVSVELTEHPSRYTQPVGKIVEILGDIDDPGMEIEIAVRKYGVPHEFS 238 A+ GQVV VEL E + + QP+G I EILGD GME+EIA+R + + H+F Sbjct: 187 PNEHRNGARMGQVVVVELQERSASFNQPIGVITEILGDNMAKGMEVEIALRNHDILHKFP 246 Query: 239 EAAKKLSAKLPSEVKAADLKDRVDLRDVPLVTIDGEDARDFDDAVYCEPVKIGRTKGYRL 298 A +K K EV K RVDLR++PLVTIDGEDARDFDDAVYCE KG++L Sbjct: 247 SAVEKYVKKFTEEVSEEAKKGRVDLRNLPLVTIDGEDARDFDDAVYCEK----HGKGWKL 302 Query: 299 IVAIADVSHYVKPNDALDVDALERSTSVYFPRRVIPMLPEKLSNGLCSLNPDVDRLTLVC 358 VAIADVS+YV+ LDV+A R SVYFP RV+PMLPE LSNGLCSLNP VDRL +VC Sbjct: 303 WVAIADVSYYVRLRSTLDVEAHNRGNSVYFPNRVVPMLPEILSNGLCSLNPQVDRLCMVC 362 Query: 359 DAVITAKGEIKAYQFYPAVIHSAARLTYTEVASIL 393 + I+AKG++ Y+FY AV++S ARLTYT+VA +L Sbjct: 363 EMQISAKGKLTDYRFYEAVMNSHARLTYTKVAKML 397