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= 0037.0055.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... 293 1e-80 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 278 8e-76 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 275 7e-75 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 249 2e-67 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 168 6e-43 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 293 bits (750), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 183/424 (43%), Positives = 250/424 (58%), Gaps = 41/424 (9%) Query: 1 MKKTALAMSLPLCFAVL-SFAAAAQAQTTDASSGVTIYGIINPSLTYTDKVANATPGNPT 59 MKK+ LA+ AVL +FA AA AQ SS +TIYG I+ SLTYT+K+A + Sbjct: 1 MKKSLLAL------AVLGAFAGAAHAQ----SSSITIYGAIDASLTYTNKIAT----DGK 46 Query: 60 GTGSRLSMDTAVAQGSRIGFKGVEDLGGGLKALFTLENGFNADTGALAQGGLFFGRTAIV 119 TGS ++++ + +GSR+G KG EDLGGGLKA+FTLENGFN DTG QG L +GR V Sbjct: 47 NTGSLTAVESGLVKGSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTV 106 Query: 120 GLSGSLGTIHLGRQKDYIDDLAPYNGALDFGSVVNNIHALNLDRTQGSRVNNSVRYNSPV 179 GLSG+ GT+ +GRQ D ++D+ A FG V +H+ LDRT G R+NNS+RYNSP Sbjct: 107 GLSGNFGTVLVGRQNDPLNDIGGIASAGGFG-VPGTVHSKGLDRTDGQRLNNSIRYNSPN 165 Query: 180 FGGVTLSALYGFGEQAGSTGAGQSFGIGGSYNNGPLSFGAAYFQNKLTANNTFTGSSDSG 239 F G++ S +YGFGEQ G G+S G+G Y NGPLS G YFQ+K+ + GSSD Sbjct: 166 FNGLSFSGIYGFGEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGS--DGSSDVN 223 Query: 240 IAPGAVTGS-----IASTSLKTFLVGGSYKLGDVRLYGSYSQVKQPL------------- 281 A A G+ T LKT+ + +Y+ G ++YG++S V+ PL Sbjct: 224 -AKAACNGAGEKDHAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNF 282 Query: 282 -AVAAGAAMTGFTGAAGAAFTFGGVNNSKVDLIDFGVNYNVTATTQLLANFVTTRSKFVG 340 A+ TG+ + AF+ GG N+ D G++Y + + L++ TR+KFVG Sbjct: 283 GAMYDAKTGTGYNPSDATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKFVG 342 Query: 341 ASSDGKATQVSLGVDYFLSKRTDLYLFYANIRSSDMFNPGLYV--APGGSNTQNVLTAGI 398 A+S G+ Q++LG Y LSKRT Y N+RSSDM+N GL PG +Q ++ G+ Sbjct: 343 AAS-GRLLQLNLGAKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGL 401 Query: 399 RHKF 402 H F Sbjct: 402 IHTF 405 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 278 bits (710), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 181/416 (43%), Positives = 239/416 (57%), Gaps = 43/416 (10%) Query: 1 MKKTALAMSLPLCFAVLSFAAAAQAQTTDASSGVTIYGIINPSLTYTDKVANATPGNPTG 60 MKK+ LA+ AVL A A A S VTIYGI++ + Y+ KV Sbjct: 1 MKKSLLAL------AVLGAFAGAAQ----AQSSVTIYGIVDTGIAYSSKVGYTDANGNAA 50 Query: 61 TGSRLSMDTAVAQGSRIGFKGVEDLGGGLKALFTLENGFNADTGALAQGGL------FFG 114 TGS+ +++ V QGSRIGFKGVEDLGGGL A+F LE GF +D G L QG F Sbjct: 51 TGSKFGINSGVIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGL-QGSDAVTSSNLFR 109 Query: 115 RTAIVGLSGSLGTIHLGRQKDYIDDLAPYNGALDFGSVVNNIHALNLDRTQGSRVNNSVR 174 R ++VGLSG GT+ LGRQ D+ D ++ Y DFG VV N +L+R QG+R NNSV Sbjct: 110 RKSVVGLSGGFGTVLLGRQTDFADTISAYTAVADFGGVVAN-SGSSLNRLQGTRTNNSVS 168 Query: 175 YNSPVFGGVTLSALYGFGEQAGSTGAGQSFGIGGSYNNGPLSFGAAYFQNKLTANNTFTG 234 Y + G T + +YGFGEQAG T AGQ++GIGG Y+NGPL G Y+Q+K A +T Sbjct: 169 YTTANLSGFTGNLIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSK--AGST--- 223 Query: 235 SSDSGIAPGAVT-------GSIASTSLKTFLVGGSYKLGDVRLYGSYSQVKQPLAVAAGA 287 SD+ + P A G +T+LK+ V SY+ G R+Y +YS+VKQ L Sbjct: 224 PSDTSLIPAAGATNANTALGVAGNTALKSLNVVASYQFGPARVYANYSRVKQDLKGTPTV 283 Query: 288 AMTGFTGAAGAAFTFGGVNNSKVDLIDFGVNYNVTATTQLLANFVTTRSKFVGASSDGKA 347 A N K D + G Y+++ + +LLA +R+ F G ++ GK Sbjct: 284 ATATL------------ANAQKADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNTKGKL 331 Query: 348 TQVSLGVDYFLSKRTDLYLFYANIRSSDMFNPGLYVAPGGSN-TQNVLTAGIRHKF 402 TQ+SLG DYFLSKRTDLY F +N+R+SD+ NPG+ GS+ +Q + GIRHKF Sbjct: 332 TQISLGADYFLSKRTDLYAFVSNMRASDIQNPGVTGGATGSDASQTAIITGIRHKF 387 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 275 bits (702), Expect = 7e-75, Method: Compositional matrix adjust. Identities = 176/417 (42%), Positives = 235/417 (56%), Gaps = 42/417 (10%) Query: 1 MKKTALAMSLPLCFAVLSFAAAAQAQTTDASSGVTIYGIINPSLTYTDKVANATPGNPTG 60 MKK+ LA+ AVL A A A S VTIYGI++ + Y KVA T G Sbjct: 1 MKKSLLAL------AVLGAFAGAAQ----AQSSVTIYGIVDTGVVYQSKVATPTGG---- 46 Query: 61 TGSRLSMDTAVAQGSRIGFKGVEDLGGGLKALFTLENGFNADTGAL---AQGGLFFGRTA 117 TGS+ S+++ V QGSRIGFKG EDLGGGL A+F LE GF+ DTGAL F R + Sbjct: 47 TGSKFSLNSGVIQGSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKS 106 Query: 118 IVGLSGSLGTIHLGRQKDYIDDLAPYNGALDFGSVVNNIHALNLDRTQGSRVNNSVRYNS 177 +VGL+G+ G++ LGRQ D+ D ++ Y DFG NLDR +G+R NNS+ Y + Sbjct: 107 VVGLAGNFGSVLLGRQTDFADTISSYTSVQDFGGWTG-AAGHNLDRLEGTRTNNSISYTT 165 Query: 178 PVFGGVTLSALYGFGEQAGSTGAGQSFGIGGSYNNGPLSFGAAYFQNKL----------- 226 G T + +YGFGE AG T AGQ+FG+GG Y+NGPL G Y+Q+K Sbjct: 166 ANLNGFTGNLMYGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLA 225 Query: 227 -TANNTFTGSSDSGIAPGAVTGSIASTSLKTFLVGGSYKLGDVRLYGSYSQVKQPLAVAA 285 T N FT +++G ST+ K V SY+ G R+YG++S+VKQ L A Sbjct: 226 ATGTNQFTNGTNNG-----------STAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQA 274 Query: 286 GAAMTGFTGAAGAAFTFGGVNNSKVDLIDFGVNYNVTATTQLLANFVTTRSKFVGASSDG 345 G A + +N K D+ + G Y+++ + +LLA TR++F G S Sbjct: 275 NLTAAGVGSLATISNRTLAASN-KADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKA 333 Query: 346 KATQVSLGVDYFLSKRTDLYLFYANIRSSDMFNPGLYVAPGGSNTQNVLTAGIRHKF 402 K TQVSLG DY+LSKRTDLY F A +++D+ NPG+ + G Q + GIRHKF Sbjct: 334 KLTQVSLGTDYWLSKRTDLYAFLAYSKATDLNNPGVADSSGTDGNQGAVAVGIRHKF 390 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 249 bits (637), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 151/383 (39%), Positives = 219/383 (57%), Gaps = 50/383 (13%) Query: 34 VTIYGIINPSLTYTDKVANATPGNPTGTGSRLSMDTAVAQGSRIGFKGVEDLGGGLKALF 93 VT+YG+I+ SL YT KV P N GSR S+D+ A SRIG +G E+LG GL A+F Sbjct: 26 VTVYGVIDMSLVYTSKVG---PDN----GSRASLDSGDAMASRIGLRGREELGDGLAAIF 78 Query: 94 TLENGFNADTGALAQGGLFFGRTAIVGLSGSLGTIHLGRQKDYIDDLAPYNGALDF--GS 151 LE GF D GA+A G F R ++VGL+G GT+ +GRQ DY++++ + G Sbjct: 79 QLETGFAGDDGAMATPGTLFDRKSVVGLAGRFGTLTVGRQTDYLEEIGQQYTSFQIFGGG 138 Query: 152 VVNNIHALNLDRTQGSRVNNSVRYNSPVFGGVTLSALYGFGEQAGSTGAGQSFGIGGSYN 211 V H +LDR G+R NNS+R+++ +GG+ S YG GE AGST +GQS G+GG++ Sbjct: 139 GVRAAHFNSLDRITGARSNNSLRFDTAEYGGLRGSFYYGAGEVAGSTRSGQSLGVGGNFR 198 Query: 212 NGPLSFGAAYFQNKLTANNTFTGSSDSGIAPGAVTGSIASTSLKTFLVGGSYKLGDVRLY 271 G + GAAYFQ+KL ++ A+ T LKTF +G SY+ G +L+ Sbjct: 199 RGNVGVGAAYFQSKLASD--------------ALPARAGDTELKTFTLGASYQAGPAKLF 244 Query: 272 GSYSQVK----QPLAVAAGAAMTGFTGAAGAAFTFGGVNNSKVDLIDFGVNYNVTATTQL 327 ++SQ++ QPLA + A+T T + +++D GV+Y + + L Sbjct: 245 AAWSQIRRPTQQPLASSGLVAITSAT---------------RANVLDVGVDYALDSKLHL 289 Query: 328 LANFVTTR---SKFVGASSDGKATQVSLGVDYFLSKRTDLYLFYANIRSSDMFNPGLY-- 382 LA+ + R S+ G ++ G TQV+LGVD LSKRTD+Y + ++ D+ NPG+ Sbjct: 290 LASVIHDRADLSRAAGGATRGSTTQVNLGVDLLLSKRTDVYAMASRQQARDVLNPGIISA 349 Query: 383 ---VAPGGSNTQNVLTAGIRHKF 402 AP ++QNVL G+RHKF Sbjct: 350 AYSSAPADDSSQNVLRVGLRHKF 372 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 168 bits (426), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 144/420 (34%), Positives = 194/420 (46%), Gaps = 86/420 (20%) Query: 1 MKKTALAMSLPLCFAVLSFAAAAQAQTTDASSGVTIYGIINPSLTYTDKVANATPGNPTG 60 MKKT L ++ A A T A S V+IYG+I+ LTY ++ P + G Sbjct: 1 MKKTLLVAAM----------LAGGATTAHAQSSVSIYGLIDLGLTYY----SSAPKSGGG 46 Query: 61 TGSRLSMDTAVAQGSRIGFKGVEDLGGGLKALFTLENGFNADTGALAQGGLFFGRTAIVG 120 L MD+ +AQGSRIGFKG EDLGGG+ A FTLE GF AD G+L QGGL FGR + VG Sbjct: 47 GARLLRMDSGIAQGSRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVG 106 Query: 121 L-SGSLGTIHLGRQKDYIDD---------LAPYNGALDFGSVVNNIH--ALNLDRTQGSR 168 L S G++ +GRQ D++ + L+P G+ +G + H ALN G R Sbjct: 107 LGSTQWGSLSVGRQYDFMANIGGQYAMGALSP-AGSFGWGLHADAAHGTALNNHIYAGDR 165 Query: 169 VNNSVRYNSPVFGGVTLSALYGFGEQAGSTGAGQSFGIGGSYNNGPLSFGAAYFQNKLTA 228 NNS++YNS FGG + A+ G GE AG+ AG++ G Y+NGP S AY Sbjct: 166 TNNSIKYNSAKFGGFSFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTD----- 220 Query: 229 NNTFTGSSDSGIAPGAVTGSIASTSLKTFLVGGSYKLGDVRLYGSYSQVKQPLAVAAGAA 288 + S S S + + G Y++G +G +QVK A Sbjct: 221 ----------------IKDSTGSFSTRIYGGGARYQIGAFTPFGVVTQVKNTNTSA---- 260 Query: 289 MTGFTGAAGAAFTFGGVNNSKVDLIDFGVNYNVTATTQLLANF-VTTRSKFVGASSDGKA 347 K + G Y +T L A + R++ VG + A Sbjct: 261 --------------------KATTYELGTVYALTPLWDLAAAYQFQKRNQGVGNAQALVA 300 Query: 348 TQVSLGVDYFLSKRTDLYLFYANIRSS-----DMFNPGLYVAPGGSNTQNVLTAGIRHKF 402 T VDY +SKRTDLY+ R +F G+ A G Q L G+RH+F Sbjct: 301 T-----VDYKISKRTDLYVGAVYDRDKGYNAYPVFGGGIQSATG---NQTALRLGMRHRF 352 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 0.316 0.133 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: 1,184,132 Number of extensions: 51537 Number of successful extensions: 238 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 184 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 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 132 (55.5 bits)