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= 0001.2391.p (539 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134095151|ref|YP_001100226.1| general secretion pathway prote... 152 4e-38 gi|134094005|ref|YP_001099080.1| putative secretion pathway ATPa... 139 3e-34 gi|134095951|ref|YP_001101026.1| type 4 fimbrial biogenesis prot... 126 2e-30 gi|134093570|ref|YP_001098645.1| twitching mobility protein [Her... 104 1e-23 gi|134093569|ref|YP_001098644.1| twitching motility protein PilU... 90 4e-19 >gi|134095151|ref|YP_001100226.1| general secretion pathway protein E [Herminiimonas arsenicoxydans] Length = 567 Score = 152 bits (384), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 124/393 (31%), Positives = 205/393 (52%), Gaps = 34/393 (8%) Query: 120 KEMLNKACRVRASDIHLRVRKNCTEIYFRIHNDLLPVGGQTREYGERLLATLYGAMTSVS 179 + + + A +VRASDIH+ ++ +I FRI L QT E R+ A+L + +S Sbjct: 186 QSVFDDATQVRASDIHIEPQEGRLQIRFRIDGVL---HLQT-EADIRIAASLALRLKLMS 241 Query: 180 --DSSYKPTERQDASIADRDKLPPELYGVRIATVPTNEGSLMVLRLLYNDVGENLDLGSL 237 D S K QD A K+ + VRI+T+PT G +V+RLL N G L L S+ Sbjct: 242 ELDISEKRLP-QDGRFAI--KVRHQNIDVRISTMPTQYGESVVMRLL-NQSGGTLMLDSI 297 Query: 238 GFSAQQVSDLQRLKEQPIGMNIISGPTGSGKSTTLQRVLNGQILEGEGKLHVLTIEDPVE 297 G + + +++ +P G+ +++GPTGSGK+TTL L ++ E KL +T+EDPVE Sbjct: 298 GMPVEMMKRFRQIIRRPNGLVLVTGPTGSGKTTTLYGAL-AELNSLERKL--ITVEDPVE 354 Query: 298 YPIEGAVQTTITNAHTEEERSRLFSAAISNAMRLDPDTIMIGEIRDRASAQNALRASMTG 357 Y + G I ++ F+ + +A+R DPD I++GE+RD+ +A +RA++TG Sbjct: 355 YRLPG-----INQVQVNDKIDLSFARVLRSALRQDPDVILVGEMRDQETAHIGMRAALTG 409 Query: 358 HQIWTTLHANSALAIVDRLIDLGLQQSLVLDHTVITGLISQRLVKQLCPHCKRPLLAHLD 417 H + +TLH N A++ RL+D+G+ + +V T + +++QRLV+ +C C + Sbjct: 410 HLVLSTLHTNDAISTPIRLLDMGVPRYMV--ATSLQVVLAQRLVRVICESCA----TDYE 463 Query: 418 QVPAALLARLRQVIPDRLQDVCIS-----GPGCEFCSHRGTIGRTVVAEVIVPDESFFRH 472 +PA R+ + L + + G GC C+ G GRT V E++ E+ Sbjct: 464 LLPAE-----REWLKSELGEAINTHRYQHGRGCSHCNGTGYRGRTGVYEMLEMTEAVAHA 518 Query: 473 LRMGEKCQAWRHWKESLGGRSIADHALDKVVAG 505 + + + + G ++ HA+ V AG Sbjct: 519 ANSHDPNHFIKAAEAQMAGETLRRHAVSLVAAG 551 >gi|134094005|ref|YP_001099080.1| putative secretion pathway ATPase [Herminiimonas arsenicoxydans] Length = 603 Score = 139 bits (350), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 117/371 (31%), Positives = 184/371 (49%), Gaps = 23/371 (6%) Query: 105 QAERNQEHSMMQVTAKEMLNKACRVRASDIHLRVRKNCTEIYFRIHNDLLPVGGQTREYG 164 Q + N +H + V + A RASDIHL +++ I FRI V Q + Sbjct: 209 QVDANDQHIINIV--DWLWQYAFDQRASDIHLEPKRDLCAIRFRIDG----VLHQVYQVP 262 Query: 165 ERLLATLYGAMTSVSDSSYKPTER-QDASIADRDKLPPELYGVRIATVPTNEGSLMVLRL 223 ++ + + + R QD I R E+ +R++T+PT G +V+R+ Sbjct: 263 PIVMIAMTARIKLLGRMDVIEKRRPQDGRIKTRTNNGQEV-ELRLSTMPTAFGEKLVMRI 321 Query: 224 LYNDVGENLDLGSLGFSAQQVSDLQRLKEQPIGMNIISGPTGSGKSTTLQRVLNGQILEG 283 DV L LGF + +L +P G+ +++GPTGSGK+TTL L Sbjct: 322 FDPDVVVK-SLPELGFPPDDAARWDKLTARPHGIILVTGPTGSGKTTTLYTTLKAL---A 377 Query: 284 EGKLHVLTIEDPVEYPIEGAVQTTITNAHTEEERSRLFSAAISNAMRLDPDTIMIGEIRD 343 +++V T+EDP+E V+ + + F+ + + MR DPD IMIGEIRD Sbjct: 378 TSEVNVCTVEDPIEM-----VEGSFNQMQVQHGIDLSFADGVRSLMRQDPDIIMIGEIRD 432 Query: 344 RASAQNALRASMTGHQIWTTLHANSALAIVDRLIDLGLQQSLVLDHTVITGLISQRLVKQ 403 +A+ A++A++TGH + +TLH N A + V RL++LG+ L L+ T+I G+++QRL + Sbjct: 433 LETAEMAIQAALTGHLVLSTLHTNDAPSAVMRLLELGVPYYL-LESTLI-GIMAQRLTRT 490 Query: 404 LCPHCKRPLLAHLDQVPAALLARLRQVIPDRLQDVCISGPGCEFCSHRGTIGRTVVAEVI 463 LC HCK P LD V +L P V GC C G GRT + E++ Sbjct: 491 LCNHCKSPDGEMLDDVWQSLAEGWDIPKP----SVIYRPVGCPECRQTGYRGRTGLYELL 546 Query: 464 VPDESFFRHLR 474 ++F + ++ Sbjct: 547 TITQTFSKMIK 557 >gi|134095951|ref|YP_001101026.1| type 4 fimbrial biogenesis protein [Herminiimonas arsenicoxydans] Length = 576 Score = 126 bits (317), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 119/395 (30%), Positives = 193/395 (48%), Gaps = 38/395 (9%) Query: 121 EMLNKACRVRASDIHLRVRKNCTEIYFRIHNDLLPVGGQTREYGERLLATLYGAMTSVSD 180 ++L A + ASD+H + I FR+ L + E+L + + + S D Sbjct: 199 KILIDAINLGASDLHFEPFEKFYRIRFRVDGVLRDIAQPPLAIKEKLASRI--KVISKLD 256 Query: 181 SSYK--PTERQDASIADRDKLPPELYGVRIATVPTNEGSLMVLRLLYNDVGENLDLGSLG 238 S K P + + + + + R++T+PT G +V+R+L + + + +LG Sbjct: 257 ISEKRVPQDGRMKLVMSKTRS----IDFRVSTLPTLFGEKIVMRILDGSQAQ-MGIEALG 311 Query: 239 FSAQQVSDLQRLKEQPIGMNIISGPTGSGKSTTLQRVLNGQILEGEGKLHVLTIEDPVEY 298 + Q L ++P GM +++GPTGSGK+ +L LN IL G +++ T EDP E Sbjct: 312 YDPDQKETLLNAIQRPYGMVLVTGPTGSGKTVSLYTCLN--ILNKPG-INISTAEDPAEI 368 Query: 299 PIEGAVQTTITNAHTEEERSRL-FSAAISNAMRLDPDTIMIGEIRDRASAQNALRASMTG 357 + G Q + +R+ L F A+ +R DPD IM+GEIRD +A A++A+ TG Sbjct: 369 NLPGVNQVNVN------DRAGLTFPVALKAFLRQDPDIIMVGEIRDLETADIAIKAAQTG 422 Query: 358 HQIWTTLHANSALAIVDRLIDLGLQQSLVLDHTVITGLISQRLVKQLCPHCKRPLLAHLD 417 H +++TLH N A A + RL+++G+ + ++ + +QRLV++LC CK+ + Sbjct: 423 HMVFSTLHTNDAPATLTRLMNMGVAPFNIASSVIL--ITAQRLVRRLC-TCKQTTV---- 475 Query: 418 QVP--AALLARLRQVIPDRLQDVCISGP--GCEFCSHRGTIGRTVVAEVIVPDESFFRH- 472 +P A L A + D L + GCE CS G GR V + I+P H Sbjct: 476 -IPDEALLEAGFTE---DDLDGTWLPYKPVGCERCSGSGYKGRLGVYQ-IMPISEEIEHI 530 Query: 473 -LRMGEKCQAWRHWKESLGGRSIADHALDKVVAGL 506 L G + K+ G RS+ + L KV GL Sbjct: 531 ILNHGTSLEIETQAKKD-GVRSLRESGLVKVKQGL 564 >gi|134093570|ref|YP_001098645.1| twitching mobility protein [Herminiimonas arsenicoxydans] Length = 347 Score = 104 bits (260), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 86/286 (30%), Positives = 145/286 (50%), Gaps = 24/286 (8%) Query: 121 EMLNKACRVRASDIHLRVRKNCTEIYFRIHNDLLPVGGQTREYGERLLATLYGAMTSVSD 180 E+L + + +ASD+HL R+H D+ + E+ + + +Y M Sbjct: 5 ELLAFSVKNKASDLHLSA---GLPPMIRVHGDVRRINLPPLEHKD-VHGMIYDIMNDGQR 60 Query: 181 SSYKPTERQDASIADRDKLPPELYGVRIATVPTNEGSLMVLRLLYNDVGENLDLGSLGFS 240 Y+ D S A P L R+ + G+ VLR + + + DL + Sbjct: 61 KVYEERLEIDFSFA-----IPGLARFRVNAFNQDRGAAAVLRTIPSKILSLEDLHAPKIF 115 Query: 241 AQQVSDLQRLKEQPIGMNIISGPTGSGKSTTLQRVLNGQILEGEGKLHVLTIEDPVEYPI 300 A+ L +P G+ +++GPTGSGKSTTL ++N + E E H+LTIEDP+E+ Sbjct: 116 AE-------LSLKPRGLVLVTGPTGSGKSTTLAAMVN-HVNENE-YAHILTIEDPIEFVH 166 Query: 301 EGAVQTTITNAHTEEERSRLFSAAISNAMRLDPDTIMIGEIRDRASAQNALRASMTGHQI 360 + + + N + F A+ +A+R DPD +++GE+RD + + AL A+ TGH + Sbjct: 167 DS--KKCLINQREVGPHTHSFENALRSALREDPDVVLVGELRDLETIRLALSAAETGHLV 224 Query: 361 WTTLHANSALAIVDRLIDL--GLQQSLV--LDHTVITGLISQRLVK 402 + TLH +SA +DR+ID+ G ++ +V + + +ISQ L+K Sbjct: 225 FGTLHTSSAAKTIDRIIDVFPGDEKEMVRAMLSESLQAVISQTLLK 270 >gi|134093569|ref|YP_001098644.1| twitching motility protein PilU [Herminiimonas arsenicoxydans] Length = 378 Score = 89.7 bits (221), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 69/189 (36%), Positives = 104/189 (55%), Gaps = 19/189 (10%) Query: 219 MVLRLLYNDVGENLDLGSLGFSAQQVSDLQRLKEQPIGMNIISGPTGSGKSTTLQRVLNG 278 MVLR + + + DLG + + ++V +R G+ I+ G TGSGKSTTL +L Sbjct: 101 MVLRTITTAIPKIEDLG-VPETLKEVVMTKR------GLVIMVGATGSGKSTTLAAMLGY 153 Query: 279 QILEGEGKLHVLTIEDPVEY--PIEGAVQTTITNAHTEEERSRLFSAAISNAMRLDPDTI 336 + G H++TIEDPVEY P + V T E + A+ N +R PD I Sbjct: 154 RNEHSHG--HIITIEDPVEYVHPHKNCVITQREIGVDTES----WGIALKNTLRQAPDVI 207 Query: 337 MIGEIRDRASAQNALRASMTGHQIWTTLHANSALAIVDRLIDLGLQ---QSLVLDHTV-I 392 IGEIRDR + A+ + TGH T+HANS+ +DR+++ + Q L++D ++ + Sbjct: 208 FIGEIRDRETMDYAIAFAETGHLCLATMHANSSNQALDRIVNFFPEERRQQLLMDLSLNL 267 Query: 393 TGLISQRLV 401 G+ISQRL+ Sbjct: 268 KGMISQRLI 276 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 0.319 0.135 0.393 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: 990,655 Number of extensions: 40022 Number of successful extensions: 158 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 137 Number of HSP's successfully gapped: 6 Length of query: 539 Length of database: 1,000,347 Length adjustment: 86 Effective length of query: 453 Effective length of database: 716,977 Effective search space: 324790581 Effective search space used: 324790581 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: 131 (55.1 bits)