BLASTP 2.2.18 [Mar-02-2008] 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= 0001.3377.p (500 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134095506|ref|YP_001100581.1| ATP-dependent RNA helicase [Her... 726 0.0 gi|134095351|ref|YP_001100426.1| ATP-dependent RNA helicase [Her... 353 1e-98 gi|134096391|ref|YP_001101466.1| putative cold-shock DeaD box AT... 301 4e-83 gi|134093720|ref|YP_001098795.1| ATP-dependent RNA helicase [Her... 291 7e-80 gi|134094897|ref|YP_001099972.1| ATP-dependent RNA helicase DbpA... 217 1e-57 >gi|134095506|ref|YP_001100581.1| ATP-dependent RNA helicase [Herminiimonas arsenicoxydans] Length = 468 Score = 726 bits (1874), Expect = 0.0, Method: Compositional matrix adjust. Identities = 360/466 (77%), Positives = 401/466 (86%), Gaps = 4/466 (0%) Query: 1 MTFEALGLNPSIIKALTEAGYTAPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSL 60 MTFE+LGL+ SIIKALTE+GYTAPT VQ +AIPAAI G+D++VSSQTGSGKTAAFMLP+L Sbjct: 1 MTFESLGLHASIIKALTESGYTAPTGVQAQAIPAAIEGRDMMVSSQTGSGKTAAFMLPAL 60 Query: 61 HQLA--DLPQAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDK 118 H+ A Q P+ RTPNQE Q++R+RG+RPR++ AQPKMLVLTPTRELALQVTT+TDK Sbjct: 61 HKFAVQSEQQQPEGGRTPNQEAQSARSRGDRPRFKAAQPKMLVLTPTRELALQVTTSTDK 120 Query: 119 YGAYMRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLD 178 YGA+M+RV+ VSILGGMPYPKQMQLL++NPEILVATPGRLIDHMESGKIDFS+LQILVLD Sbjct: 121 YGAFMKRVKAVSILGGMPYPKQMQLLAKNPEILVATPGRLIDHMESGKIDFSELQILVLD 180 Query: 179 EADRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTR 238 EADRMLDMGFIDDIEKIVAATP RQTMLFSATLDG VG MAKRIT +PL IQIA S+T+ Sbjct: 181 EADRMLDMGFIDDIEKIVAATPEGRQTMLFSATLDGTVGTMAKRITKDPLVIQIAGSATK 240 Query: 239 HENIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAAL 298 HENI Q VHFVDDLSHKNRLLDHLLRD ++DQAV+FTATKRDADTIADRLNIAGFAAAAL Sbjct: 241 HENIKQGVHFVDDLSHKNRLLDHLLRDETMDQAVVFTATKRDADTIADRLNIAGFAAAAL 300 Query: 299 HGDMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGR 358 HGDMHQGARNRTL+ LRRGQ+R+LVATDVAARGIDVP ITHVFNYDLPKF EDYVHRIGR Sbjct: 301 HGDMHQGARNRTLDGLRRGQIRVLVATDVAARGIDVPAITHVFNYDLPKFPEDYVHRIGR 360 Query: 359 TGRAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKKTA-APRSPRKPGGWR 417 TGRAGRNG+A+SLVNHAEGM VKRIERF KQ IPV V+EGFEPK+TA APRS KPGGW+ Sbjct: 361 TGRAGRNGIAVSLVNHAEGMNVKRIERFIKQLIPVSVIEGFEPKRTASAPRSNHKPGGWK 420 Query: 418 PGDGRSNSG-PRFGAGNREGGGHREGGFGGNREGGFGGNREGRSFG 462 PGD R N+ P ++ EGG+ G R FG Sbjct: 421 PGDNRGNAAKPGQRTFSKPNATRNEGGYNKGPRTSDAGGATRRPFG 466 >gi|134095351|ref|YP_001100426.1| ATP-dependent RNA helicase [Herminiimonas arsenicoxydans] Length = 449 Score = 353 bits (905), Expect = 1e-98, Method: Compositional matrix adjust. Identities = 207/480 (43%), Positives = 285/480 (59%), Gaps = 35/480 (7%) Query: 1 MTFEALGLNPSIIKALTEAGYTAPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSL 60 M+F LGL I++A+TE GY+ PTP+Q +AIPA ++G DLL +QTG+GKTA F LP L Sbjct: 1 MSFTDLGLADGIVRAVTEHGYSIPTPIQAQAIPAVLAGGDLLAGAQTGTGKTAGFTLPIL 60 Query: 61 HQLADLPQAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYG 120 H+LA + TP+ + A +RP + LVLTPTRELA QV + Y Sbjct: 61 HRLA-------TSGTPH-----ASASAQRPI------RALVLTPTRELAAQVEESVRTYS 102 Query: 121 AYMRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEA 180 Y+ V I GG+ Q++LL +ILVATPGRL+DHM+ G ++ S+++ILVLDEA Sbjct: 103 KYLNLNSAV-IFGGVGINPQIKLLKHGVDILVATPGRLLDHMQQGTVNLSKVEILVLDEA 161 Query: 181 DRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHE 240 DRMLDMGFI DI +++A P RQ +LFSAT + +A + N+P I++A ++ E Sbjct: 162 DRMLDMGFIKDIRRVLAVLPKNRQNLLFSATFSNEIKALADGLLNSPAMIEVARRNSTVE 221 Query: 241 NIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHG 300 I Q++H VD K+ +L HL++ + Q ++FT TK A+ + ++L G + A+HG Sbjct: 222 VIEQKIHPVDR-DKKHPMLAHLIKTNNWSQVLVFTRTKHGANKLVEQLEKDGISGMAIHG 280 Query: 301 DMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTG 360 + Q AR R L+ + G +++LVATD+AARGID+ + HV NYDLP EDYVHRIGRTG Sbjct: 281 NKSQSARTRALSEFKDGSLQVLVATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTG 340 Query: 361 RAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKKTAAPRSPRKPGGWRPGD 420 RAG G A+SLV E +K IE+ K+ +P +V+ GFEP A P +P Sbjct: 341 RAGATGEAVSLVCVDELDMLKDIEKLIKRKLPSEVIVGFEPDLNAKP---------QPIQ 391 Query: 421 GRSNSGPRFGAGNREGGGHREGGFGGNREGGFGGNREGRSFGG---AKPGNGPRREGGAG 477 RSN P R + G + G G + RSFGG A+P P R GG G Sbjct: 392 RRSNDAPGRRPQGRGNAPAKSAKAPGAKPSGPNG--QVRSFGGNANARPA-APHRSGGRG 448 >gi|134096391|ref|YP_001101466.1| putative cold-shock DeaD box ATP-dependent RNA helicase (partial match) [Herminiimonas arsenicoxydans] Length = 826 Score = 301 bits (771), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 166/391 (42%), Positives = 229/391 (58%), Gaps = 28/391 (7%) Query: 3 FEALGLNPSIIKALTEAGYTAPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSLHQ 62 F L L+ +++ L E GY AP+P+Q IP ++ D+L +QTG+GKTAAF LP L + Sbjct: 9 FSDLNLSEPLLRVLKELGYEAPSPIQAATIPLLLNNSDVLGQAQTGTGKTAAFALPILSR 68 Query: 63 LADLPQAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYGAY 122 + D+ Q P+ LVL PTRELA+QV A +Y ++ Sbjct: 69 I-DIKQT--------------------------TPQALVLAPTRELAIQVAEAFQRYASH 101 Query: 123 MRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEADR 182 + V+ I GG Y Q+ L R ++V TPGR+IDH+E G +D S+L+ +VLDEAD Sbjct: 102 IPGFHVLPIYGGQSYGAQLSALRRGVHVVVGTPGRVIDHLEKGSLDLSKLKTMVLDEADE 161 Query: 183 MLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHENI 242 ML MGFIDD+E I+ TP RQT LFSAT+ + +A +P I +A+ + +NI Sbjct: 162 MLRMGFIDDVETILQKTPEARQTALFSATMPSAIKRIATTYLRDPELITVAAKTGTADNI 221 Query: 243 MQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHGDM 302 QR V + K L +L + D +IF TK + +A +L GF+AAA++GD+ Sbjct: 222 RQRYWLVSGM-QKLEALTRILEAETFDGMIIFARTKLGTEELAGKLQARGFSAAAINGDI 280 Query: 303 HQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTGRA 362 Q R RT+ L+ G++ +LVATDVAARG+DV I+HV NYD+P E Y HRIGRTGRA Sbjct: 281 QQQQRERTIQQLKDGKIDILVATDVAARGLDVERISHVINYDVPHDPESYTHRIGRTGRA 340 Query: 363 GRNGVAISLVNHAEGMQVKRIERFTKQTIPV 393 GR+G AI + E +K IER T+Q I V Sbjct: 341 GRSGEAILFIAPRERNLLKAIERATRQPIAV 371 >gi|134093720|ref|YP_001098795.1| ATP-dependent RNA helicase [Herminiimonas arsenicoxydans] Length = 502 Score = 291 bits (744), Expect = 7e-80, Method: Compositional matrix adjust. Identities = 166/421 (39%), Positives = 244/421 (57%), Gaps = 33/421 (7%) Query: 3 FEALGLNPSIIKALTEAGYTAPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSLHQ 62 F+ GL P I+KAL + GY PTP+Q +AIP + G D++ ++QTG+GKTA F LP + Sbjct: 25 FQDFGLAPEILKALNDQGYVHPTPIQAEAIPVVLKGMDVMGAAQTGTGKTAGFSLPIIQL 84 Query: 63 LADLPQAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYGAY 122 L A + + R RA L+LTPTRELA QV Y + Sbjct: 85 LM-----AHANSSASPARHPVRA--------------LILTPTRELADQVAANVKAYSRH 125 Query: 123 MRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEADR 182 +R + + GGM Q L EI++ATPGRL+DH++ I+ SQ QILV+DEADR Sbjct: 126 TP-LRSLVVFGGMDMTPQTAALRGGVEIVIATPGRLLDHVQQKTINLSQTQILVMDEADR 184 Query: 183 MLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHENI 242 MLDMGF+ D+++I+ P RQ ++FSAT + +A +P+TI++A S+ EN+ Sbjct: 185 MLDMGFLPDLQRIINLLPKQRQNLMFSATFSPEIKKLAATFLKDPVTIEVARSNATAENV 244 Query: 243 MQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHGDM 302 Q ++ V++ + ++ + ++R+ + Q ++F+ TK A +A +L G A+A+HGD Sbjct: 245 TQIIYKVEEEAKRD-AVSFIIRERGLKQVIVFSNTKIGASRLARQLESEGVKASAIHGDK 303 Query: 303 HQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTGRA 362 Q R + L + G + +LVATDVAARG+D+ + V N+DLP AEDYVHRIGRTGRA Sbjct: 304 SQSERMQALEQFKNGTIEVLVATDVAARGLDIAELPCVINFDLPYNAEDYVHRIGRTGRA 363 Query: 363 GRNGVAISLVNHAEGMQVKRIERFTKQT-IPVDVVEGFEPK----------KTAAPRSPR 411 G +G AISL + + + IE+ K +P +++ GF P + A RSPR Sbjct: 364 GASGDAISLFSDKDARLLVDIEKMIKHKFVPAELI-GFTPSSGRTAERSHDRRAHERSPR 422 Query: 412 K 412 K Sbjct: 423 K 423 >gi|134094897|ref|YP_001099972.1| ATP-dependent RNA helicase DbpA [Herminiimonas arsenicoxydans] Length = 506 Score = 217 bits (552), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 145/431 (33%), Positives = 219/431 (50%), Gaps = 45/431 (10%) Query: 2 TFEALGLNPSIIKALTEAGYTAPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSLH 61 +F AL L+P ++ L GY T +Q +++P + +DL+ ++TGSGKTAAF + L Sbjct: 47 SFAALALSPPMLSNLDALGYREMTSIQAQSLPVILQLRDLIAQAKTGSGKTAAFGIGMLQ 106 Query: 62 QLADLPQAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYGA 121 +L P + Q LV+ PTRELA QV+ + Sbjct: 107 KL-------------------------NPTWFAIQG--LVICPTRELADQVSNELRRLAR 139 Query: 122 YMRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEAD 181 + ++++++ GG P Q+ L I+V TPGRL DH+ I+ S +Q LVLDEAD Sbjct: 140 FADNIKILTLCGGAPMRPQIASLEHGAHIVVGTPGRLRDHISRNTINLSTVQTLVLDEAD 199 Query: 182 RMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHEN 241 RM+DMGF ++I IV+A P RQT+LFSAT + + +P+ +++ + +H++ Sbjct: 200 RMVDMGFYEEIAGIVSACPERRQTLLFSATYPDDIRKASAEFLRDPVEVKVEA---QHDD 256 Query: 242 --IMQRVHFV--DDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAA 297 I QR + V DD +N + LL+ + F TK +A L GF+A A Sbjct: 257 SQIEQRFYEVGYDD---RNAAVATLLKHYRPVSTLAFCNTKIHCRELAAELRAQGFSALA 313 Query: 298 LHGDMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIG 357 L+G++ Q R+ L +LVATDVAARG+D+ + V N D+ K E ++HRIG Sbjct: 314 LYGELEQRERDEILVLFANQSCSVLVATDVAARGLDIQSLGAVINVDVSKDTEVHIHRIG 373 Query: 358 RTGRAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKKTAAPRSPR------ 411 RTGR G+A+SL E VK IE + ++ ++ EP + +P Sbjct: 374 RTGRGQDKGLALSLCAPNEKKWVKLIEEYQQKPAQWFDLKSAEPAEGGDLHAPMVTLCIM 433 Query: 412 --KPGGWRPGD 420 K RPGD Sbjct: 434 GGKKDKLRPGD 444 Database: BlastDatabases/690/690 Posted date: Apr 9, 2011 4:48 AM Number of letters in database: 1,000,347 Number of sequences in database: 3295 Lambda K H 0.318 0.136 0.395 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3295 Number of Hits to DB: 809,942 Number of extensions: 31224 Number of successful extensions: 147 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 136 Number of HSP's successfully gapped: 6 Length of query: 500 Length of database: 1,000,347 Length adjustment: 86 Effective length of query: 414 Effective length of database: 716,977 Effective search space: 296828478 Effective search space used: 296828478 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 131 (55.1 bits)