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= 0001.2442.p (402 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 281 9e-77 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 253 2e-68 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 247 1e-66 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 224 1e-59 gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspir... 131 1e-31 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 281 bits (718), Expect = 9e-77, Method: Compositional matrix adjust. Identities = 173/415 (41%), Positives = 237/415 (57%), Gaps = 23/415 (5%) Query: 1 VKKSAIGLACLG-IVGTAYAQSS-VEIYGVATAGLGYVNKVATTGTNTGSRVGIDSGQYT 58 +KKS + LA LG G A+AQSS + IYG A L Y NK+AT G NTGS ++SG Sbjct: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVESGLVK 60 Query: 59 QSRIGFRGAEDLGGGNKAEFVIEGGFTLDNGASAQNGATFGRRTTVGLSGDYGDVQLGRR 118 SR+G +G+EDLGGG KA F +E GF +D G + Q +GR+TTVGLSG++G V +GR+ Sbjct: 61 GSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGLSGNFGTVLVGRQ 120 Query: 119 KDYTDFIANQYSTASRMLPFTGKAHGNNLDRATGERANNMIYYTTPNYGGFQANLTYAFG 178 D + I S +P G H LDR G+R NN I Y +PN+ G + Y FG Sbjct: 121 NDPLNDIGGIASAGGFGVP--GTVHSKGLDRTDGQRLNNSIRYNSPNFNGLSFSGIYGFG 178 Query: 179 EAAGSNSTGQSLGLGANYDNGPFGIGLAYWQSKKAATVGSVSTNTSSDQGAASNAGCNTA 238 E G G+S+GLG+ Y NGP +GL Y+QSK ++ SSD A A CN A Sbjct: 179 EQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGG-----GSDGSSDVNA--KAACNGA 231 Query: 239 -TLGNAGDTCTKVWMLGTNYDIGPVTLRGTYSLVKQPLVNASSGTAA--NFVRTVTATSG 295 +AGDTC K W L Y GP + G +S V+ PL + NF A +G Sbjct: 232 GEKDHAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYDAKTG 291 Query: 296 T-------AAFTAGGINNSRADIYDVGADYK-MGNWLFKGSVIYSRYDFVGASNKGKLTT 347 T AF+ GG N+ + +D+G Y+ M + +V ++R FVGA++ G+L Sbjct: 292 TGYNPSDATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKFVGAAS-GRLLQ 350 Query: 348 FVLGADYSLSKRSLLYAMLANMRASDMYSPGLTSNGAPGADKSQNALALGILHRF 402 LGA Y LSKR+ YA++ N+R+SDMY+ GL+ + PG D+SQ A++ G++H F Sbjct: 351 LNLGAKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHTF 405 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 253 bits (646), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 172/408 (42%), Positives = 233/408 (57%), Gaps = 24/408 (5%) Query: 1 VKKSAIGLACLGIVGTAYAQ-SSVEIYGVATAGLGYVNKVATTGTNTGSRVGIDSGQYTQ 59 +KKS + LA LG A SSV IYG+ G+ Y +KVAT TGS+ ++SG Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQG 60 Query: 60 SRIGFRGAEDLGGGNKAEFVIEGGFTLDNGA---SAQNGATFGRRTTVGLSGDYGDVQLG 116 SRIGF+G EDLGGG A F +E GF+ D GA S + F R++ VGL+G++G V LG Sbjct: 61 SRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLLG 120 Query: 117 RRKDYTDFIANQYSTASRMLPFTGKAHGNNLDRATGERANNMIYYTTPNYGGFQANLTYA 176 R+ D+ D I++ Y++ +TG A G+NLDR G R NN I YTT N GF NL Y Sbjct: 121 RQTDFADTISS-YTSVQDFGGWTGAA-GHNLDRLEGTRTNNSISYTTANLNGFTGNLMYG 178 Query: 177 FGEAAGSNSTGQSLGLGANYDNGPFGIGLAYWQSKKAATVGSVSTNTSSDQGAASNAGCN 236 FGE AG S GQ+ G+G YDNGP G+G+ Y+QSK + T +D + G N Sbjct: 179 FGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGS--------TPADASLLAATGTN 230 Query: 237 TATLG-NAGDTCTKVWMLGTNYDIGPVTLRGTYSLVKQPLVNASSGTAANFVRTVTATSG 295 T G N G T KV + +Y GP + G +S VKQ L ++ TAA T ++ Sbjct: 231 QFTNGTNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNR 290 Query: 296 TAAFTAGGINNSRADIYDVGADYKMGNWL-FKGSVIYSRYDFVGASNKGKLTTFVLGADY 354 T A + ++ADIY++G Y + L +V ++R F G S K KLT LG DY Sbjct: 291 TLAAS------NKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDY 344 Query: 355 SLSKRSLLYAMLANMRASDMYSPGLTSNGAPGADKSQNALALGILHRF 402 LSKR+ LYA LA +A+D+ +PG+ + G D +Q A+A+GI H+F Sbjct: 345 WLSKRTDLYAFLAYSKATDLNNPGVAD--SSGTDGNQGAVAVGIRHKF 390 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 247 bits (630), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 177/415 (42%), Positives = 227/415 (54%), Gaps = 41/415 (9%) Query: 1 VKKSAIGLACLGIVGTAYAQ-SSVEIYGVATAGLGYVNKVATTGTN----TGSRVGIDSG 55 +KKS + LA LG A SSV IYG+ G+ Y +KV T N TGS+ GI+SG Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGINSG 60 Query: 56 QYTQSRIGFRGAEDLGGGNKAEFVIEGGFTLDNGASAQNGAT-----FGRRTTVGLSGDY 110 SRIGF+G EDLGGG A F +E GFT D+G + A F R++ VGLSG + Sbjct: 61 VIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLSGGF 120 Query: 111 GDVQLGRRKDYTDFIANQYSTASRMLPFTGKA--HGNNLDRATGERANNMIYYTTPNYGG 168 G V LGR+ D+ D I S + + F G G++L+R G R NN + YTT N G Sbjct: 121 GTVLLGRQTDFADTI----SAYTAVADFGGVVANSGSSLNRLQGTRTNNSVSYTTANLSG 176 Query: 169 FQANLTYAFGEAAGSNSTGQSLGLGANYDNGPFGIGLAYWQSKKAATVGSVSTNTSSDQG 228 F NL Y FGE AG S GQ+ G+G YDNGP G+G+ Y+QSK GS ++TS Sbjct: 177 FTGNLIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSK----AGSTPSDTSLI-- 230 Query: 229 AASNAGCNTATLGNAGDTCTKVWMLGTNYDIGPVTLRGTYSLVKQPLVNASSGTAANFVR 288 A+ A LG AG+T K + +Y GP + YS VKQ L Sbjct: 231 PAAGATNANTALGVAGNTALKSLNVVASYQFGPARVYANYSRVKQDLKG----------- 279 Query: 289 TVTATSGTAAFTAGGINNSRADIYDVGADYKMGNWL-FKGSVIYSRYDFVGASNKGKLTT 347 T T TA N +AD Y++G Y + L +V +SR F G + KGKLT Sbjct: 280 --TPTVATATLA----NAQKADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNTKGKLTQ 333 Query: 348 FVLGADYSLSKRSLLYAMLANMRASDMYSPGLTSNGAPGADKSQNALALGILHRF 402 LGADY LSKR+ LYA ++NMRASD+ +PG+T GA G+D SQ A+ GI H+F Sbjct: 334 ISLGADYFLSKRTDLYAFVSNMRASDIQNPGVT-GGATGSDASQTAIITGIRHKF 387 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 224 bits (570), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 148/391 (37%), Positives = 205/391 (52%), Gaps = 55/391 (14%) Query: 23 VEIYGVATAGLGYVNKVATTGTNTGSRVGIDSGQYTQSRIGFRGAEDLGGGNKAEFVIEG 82 V +YGV L Y +KV G + GSR +DSG SRIG RG E+LG G A F +E Sbjct: 26 VTVYGVIDMSLVYTSKV---GPDNGSRASLDSGDAMASRIGLRGREELGDGLAAIFQLET 82 Query: 83 GFTLDNGASAQNGATFGRRTTVGLSGDYGDVQLGRRKDYTDFIANQYSTASRMLPFTG-- 140 GF D+GA A G F R++ VGL+G +G + +GR+ DY + I QY++ F G Sbjct: 83 GFAGDDGAMATPGTLFDRKSVVGLAGRFGTLTVGRQTDYLEEIGQQYTS---FQIFGGGG 139 Query: 141 --KAHGNNLDRATGERANNMIYYTTPNYGGFQANLTYAFGEAAGSNSTGQSLGLGANYDN 198 AH N+LDR TG R+NN + + T YGG + + Y GE AGS +GQSLG+G N+ Sbjct: 140 VRAAHFNSLDRITGARSNNSLRFDTAEYGGLRGSFYYGAGEVAGSTRSGQSLGVGGNFRR 199 Query: 199 GPFGIGLAYWQSKKAATVGSVSTNTSSDQGAASNAGCNTATLGNAGDTCTKVWMLGTNYD 258 G G+G AY+QSK A + A AGDT K + LG +Y Sbjct: 200 GNVGVGAAYFQSKLA----------------------SDALPARAGDTELKTFTLGASYQ 237 Query: 259 IGPVTLRGTYSLVKQPLVNASSGTAANFVRTVTATSGTAAFTAGGINNSRADIYDVGADY 318 GP L +S +++P + A+SG A T+ +RA++ DVG DY Sbjct: 238 AGPAKLFAAWSQIRRP------------TQQPLASSGLVAITSA----TRANVLDVGVDY 281 Query: 319 KMGNWL-FKGSVIYSRYDF---VGASNKGKLTTFVLGADYSLSKRSLLYAMLANMRASDM 374 + + L SVI+ R D G + +G T LG D LSKR+ +YAM + +A D+ Sbjct: 282 ALDSKLHLLASVIHDRADLSRAAGGATRGSTTQVNLGVDLLLSKRTDVYAMASRQQARDV 341 Query: 375 YSPGLTS---NGAPGADKSQNALALGILHRF 402 +PG+ S + AP D SQN L +G+ H+F Sbjct: 342 LNPGIISAAYSSAPADDSSQNVLRVGLRHKF 372 >gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 374 Score = 131 bits (329), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 130/407 (31%), Positives = 183/407 (44%), Gaps = 68/407 (16%) Query: 15 GTAYAQSSVEIYGVATAGLGYVNKVATTGTNTGSRVGIDSGQYTQSRIGFRGAEDLGGGN 74 G A+AQS+V IYG+ + Y++ G S V +D+G SRIGF+G EDLGGG Sbjct: 17 GAAFAQSNVTIYGIVDTSIHYLSNANAQGN---SNVRMDNGAIANSRIGFKGTEDLGGGL 73 Query: 75 KAEFVIEGGFTLDNGASAQNGATFGRRTTVGLSGDYGDVQLGRRK-DYTDFIANQYSTAS 133 KA F +E GF+ D GA Q G+ FGR++ VGL G +G V++GR+ D +A+ + Sbjct: 74 KAMFQLENGFSSDTGAMQQGGSLFGRQSWVGLQGGFGKVRVGRQNTPLFDLLADHFD--- 130 Query: 134 RMLPFTGKAHGNN---LDRATGERANNMIYYTTPNYGGFQANLTYAFGEAAGSNSTGQSL 190 P T + +N A+ R+ NM+ Y ++G A+ ++AFGE AGS TG Sbjct: 131 ---PLTVGNYASNSWLPAAASLVRSPNMLRY-DGDFGPVAASASWAFGEKAGSVRTGSQF 186 Query: 191 GLGANYDNGPFGIGLAYWQSKKAATVGSVSTNTSSDQGAASNAGCNTATLGNAGDTCTKV 250 Y GP +G Y Q+ STN+S Sbjct: 187 SSALRYTAGPLALGGGYQQTVS-------STNSSLKH---------------------TT 218 Query: 251 WMLGTNYDIGPVTLRGTYSLVKQPLVNASSGTAANFVRTVTATSGTAA---FTAGGINNS 307 W L +YD G + G + +K + +V A G + TAG NN Sbjct: 219 WNLSASYDFGVAKVFGGWLNIKDD---------SGLTGSVMAADGDVSNGWTTAGAANNG 269 Query: 308 RADI------YDVGADYKMGNWL-FKGSVIYSR-----YDFVGASNKGKLTTFVLGADYS 355 + + +G+ YK N L G+ Y R Y G GK T V ADY+ Sbjct: 270 STGVKRKDNGFFLGSSYKATNALTLTGAFYYDRSKNVSYVSTGNVGDGKRYTLVGWADYA 329 Query: 356 LSKRSLLYAMLANMRASDMYSPGLTSNGAPGADKSQNALALGILHRF 402 LSKR+ LY + +A D LT N A G + S + +GI H F Sbjct: 330 LSKRTQLYTTIDYNKAKDAAVYELT-NSANGKN-SLTTVGVGIRHIF 374 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.314 0.131 0.380 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,256,269 Number of extensions: 54390 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 128 Number of HSP's successfully gapped: 14 Length of query: 402 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 315 Effective length of database: 1,207,925 Effective search space: 380496375 Effective search space used: 380496375 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 132 (55.5 bits)