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= 0003.0022.p (384 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313395|ref|YP_003777487.1| porin transmembrane protein [He... 403 e-113 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 148 6e-37 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 142 3e-35 gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspir... 137 1e-33 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 135 6e-33 >gi|300313395|ref|YP_003777487.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 403 bits (1036), Expect = e-113, Method: Compositional matrix adjust. Identities = 211/371 (56%), Positives = 269/371 (72%), Gaps = 3/371 (0%) Query: 17 AQSSVTIYGALDNALVYTTNQGGLHNLYLRTGNLAASKIGFKGAEDLGGGSQAIFTLENG 76 AQSSVT+YG +D L Y++NQGG N Y+ +G LAASK+G G EDLGGG+ A+F LENG Sbjct: 33 AQSSVTLYGTVDLGLAYSSNQGGASNTYMNSGALAASKLGLTGTEDLGGGNMALFRLENG 92 Query: 77 FDINTGAMSSANTLFNRQSFVGLTNSSYGTVTTGRQYTPYFLYVGAIGPTSVLTGATGAH 136 F+ +TGA S+A LFNRQS+VGL++ YG VT GRQYTPYF YVGA+GPT+VLTGATGAH Sbjct: 93 FNADTGAQSTAGVLFNRQSYVGLSSKDYGQVTVGRQYTPYFQYVGALGPTNVLTGATGAH 152 Query: 137 PGDVDGLDTTVRISNSVTYSSPVFGGAQVSALYGFGETAGSTSTGNTYSLAAKYDVGAWN 196 PGD+D LDTT+R++NS+TY+ P GG Q YG GE AGS + G++ S A +YD A++ Sbjct: 153 PGDIDALDTTLRMNNSITYTLPTLGGLQAGVQYGMGEQAGSAANGSSVSAALRYDYQAFS 212 Query: 197 FALGYQRLKNGSGPANAWNSTASGSFS-TSAVNNGYVSSDNVQMIAGAMRYTIDKWMFGA 255 ++ GY RLKN + A + GSF+ S VN GY S+D+ Q++A A RYT M G Sbjct: 213 WSAGYTRLKNLANGNTAGSFGNVGSFANNSPVNAGYASADSTQLLATAARYTRGDLMLGL 272 Query: 256 NYANAQYKPGNGSLFTQKATFQTLGLITTYQLTPQVALAGGYSYTFEKSANGISDAAKYH 315 NY+N QYK G S F+Q A F T+GLI +Y ++P + LA GYSYT EK+ NGIS AKY+ Sbjct: 273 NYSNVQYKAGALSAFSQTAVFNTIGLIGSYNVSPALVLAAGYSYTAEKARNGISSPAKYN 332 Query: 316 QVALEQTYSFSKRSAIYLLEAYQLARGKTL--GKTAGSIVDAVAVVGDSQNGSPSSGRNQ 373 Q++LE+ YS SKR+A+Y ++AYQ A G+TL G SIV+AVA VGDSQNG+PSSG Q Sbjct: 333 QLSLEEVYSLSKRTALYAIQAYQRASGQTLRAGGVGSSIVNAVASVGDSQNGTPSSGSGQ 392 Query: 374 TVLMVGFRHLF 384 V M+G RH F Sbjct: 393 FVAMLGIRHSF 403 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 148 bits (374), Expect = 6e-37, Method: Compositional matrix adjust. Identities = 136/398 (34%), Positives = 187/398 (46%), Gaps = 69/398 (17%) Query: 4 LAIAAAGASMQASAQSSVTIYGALDNALVYTTNQ-----GGLHNLYLRTGNLAASKIGFK 58 +A AG + A AQSSV+IYG +D L Y ++ GG L + +G S+IGFK Sbjct: 7 VAAMLAGGATTAHAQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQGSRIGFK 66 Query: 59 GAEDLGGGSQAIFTLENGFDINTGAMSSANTLFNRQSFVGLTNSSYGTVTTGRQYTPYFL 118 G EDLGGG A FTLE GF + G++ LF RQSFVGL ++ +G+++ GRQY F+ Sbjct: 67 GTEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSTQWGSLSVGRQYD--FM 124 Query: 119 -------YVGAIGPTSVLTGATGAHPGDVDGLDTTV----RISNSVTYSSPVFGGAQVSA 167 +GA+ P A L+ + R +NS+ Y+S FGG A Sbjct: 125 ANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFGGFSFGA 184 Query: 168 LYGFGETAGSTSTGNTYSLAAKYDVGAWNFALGYQRLKNGSGPANAWNSTASGSFSTSAV 227 + G GETAG+ + G T S +YD G ++ AL Y +K+ ++GSFST Sbjct: 185 MVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTDIKD-----------STGSFST--- 230 Query: 228 NNGYVSSDNVQMIAGAMRYTIDKWM-FGANYANAQYKPGNGSLFTQKATFQTLGLITTYQ 286 ++ G RY I + FG Q K N S KAT LG T Y Sbjct: 231 ----------RIYGGGARYQIGAFTPFG---VVTQVKNTNTS---AKATTYELG--TVYA 272 Query: 287 LTPQVALAGGYSYTFEKSANGISDAAKYHQVALEQTYSFSKRSAIYLLEAYQLARGKTLG 346 LTP LA +Y F+K G+ +A + Y SKR+ +Y+ Y +G Sbjct: 273 LTPLWDLAA--AYQFQKRNQGVGNA---QALVATVDYKISKRTDLYVGAVYDRDKG---- 323 Query: 347 KTAGSIVDAVAVVGDSQNGSPSSGRNQTVLMVGFRHLF 384 +A V G G S+ NQT L +G RH F Sbjct: 324 ------YNAYPVFG---GGIQSATGNQTALRLGMRHRF 352 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 142 bits (359), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 134/391 (34%), Positives = 189/391 (48%), Gaps = 47/391 (12%) Query: 19 SSVTIYGALDNALVY----TTNQGGLHNLY-LRTGNLAASKIGFKGAEDLGGGSQAIFTL 73 SSVTIYG +D +VY T GG + + L +G + S+IGFKG EDLGGG A+F L Sbjct: 22 SSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQGSRIGFKGTEDLGGGLSAVFNL 81 Query: 74 ENGFDINTGAMS---SANTLFNRQSFVGLTNSSYGTVTTGRQYTPYFLYVGAIGPTSVLT 130 E GF +TGA+ ++NTLF R+S VGL ++G+V GRQ T + + + Sbjct: 82 EAGFSNDTGALDDSKTSNTLFRRKSVVGLA-GNFGSVLLGRQ-TDFADTISSYTSVQDFG 139 Query: 131 GATGAHPGDVDGLDTTVRISNSVTYSSPVFGGAQVSALYGFGETAGSTSTGNTYSLAAKY 190 G TGA ++D L+ T R +NS++Y++ G + +YGFGETAG TS G + + KY Sbjct: 140 GWTGAAGHNLDRLEGT-RTNNSISYTTANLNGFTGNLMYGFGETAGQTSAGQAFGVGGKY 198 Query: 191 DVGAWNFALGYQRLKNGSGPANAWNSTASGSFS-TSAVNNGYVSSDNVQMIAGAMRY--- 246 D G + Y + K GS PA+A A+G+ T+ NNG ++ V +A + ++ Sbjct: 199 DNGPLGLGINYYQSKAGSTPADASLLAATGTNQFTNGTNNG-STAQKVLNVAASYQFGPA 257 Query: 247 -TIDKWMFGANYANAQYK---PGNGSLFT---------QKATFQTLGLITTYQLTPQVAL 293 W N Q G GSL T KA +G T Y L+P + L Sbjct: 258 RVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASNKADIYEIG--TAYSLSPSLKL 315 Query: 294 AGGYSYTFEKSANGISDAAKYHQVALEQTYSFSKRSAIYLLEAYQLARGKTLGKTAGSIV 353 +T +G+S AK QV+L Y SKR+ +Y AY K + Sbjct: 316 LAAVDHT-RAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFLAYS----KATDLNNPGVA 370 Query: 354 DAVAVVGDSQNGSPSSGRNQTVLMVGFRHLF 384 D+ G NQ + VG RH F Sbjct: 371 DSSGTDG-----------NQGAVAVGIRHKF 390 >gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 374 Score = 137 bits (346), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 128/381 (33%), Positives = 180/381 (47%), Gaps = 36/381 (9%) Query: 15 ASAQSSVTIYGALDNALVYTTNQG--GLHNLYLRTGNLAASKIGFKGAEDLGGGSQAIFT 72 A AQS+VTIYG +D ++ Y +N G N+ + G +A S+IGFKG EDLGGG +A+F Sbjct: 19 AFAQSNVTIYGIVDTSIHYLSNANAQGNSNVRMDNGAIANSRIGFKGTEDLGGGLKAMFQ 78 Query: 73 LENGFDINTGAMSSANTLFNRQSFVGLTNSSYGTVTTGRQYTPYF-LYVGAIGPTSVLTG 131 LENGF +TGAM +LF RQS+VGL +G V GRQ TP F L P +V Sbjct: 79 LENGFSSDTGAMQQGGSLFGRQSWVGL-QGGFGKVRVGRQNTPLFDLLADHFDPLTVGNY 137 Query: 132 ATGAHPGDVDGLDTTVRISNSVTYSSPVFGGAQVSALYGFGETAGSTSTGNTYSLAAKYD 191 A+ + + + VR N + Y FG SA + FGE AGS TG+ +S A +Y Sbjct: 138 ASNSW---LPAAASLVRSPNMLRYDGD-FGPVAASASWAFGEKAGSVRTGSQFSSALRYT 193 Query: 192 VGAWNFALGYQRL---KNGSGPANAWNSTASGSFSTSAVNNGYVSSDNVQMIAGAMRYTI 248 G GYQ+ N S WN +AS F + V G+++ + + G++ Sbjct: 194 AGPLALGGGYQQTVSSTNSSLKHTTWNLSASYDFGVAKVFGGWLNIKDDSGLTGSVMAAD 253 Query: 249 DKWMFGANYANAQYKPGNGSLFTQKATFQTLGLITTYQLTPQVALAGGYSYTFEK----- 303 G A A NGS ++ L ++Y+ T + L G + Y K Sbjct: 254 GDVSNGWTTAGA---ANNGSTGVKRKD-NGFFLGSSYKATNALTLTGAFYYDRSKNVSYV 309 Query: 304 SANGISDAAKYHQVALEQTYSFSKRSAIYLLEAYQLARGKTLGKTAGSIVDAVAVVGDSQ 363 S + D +Y V Y+ SKR+ +Y Y A+ AV + +S Sbjct: 310 STGNVGDGKRYTLVGWAD-YALSKRTQLYTTIDYNKAKDA-----------AVYELTNSA 357 Query: 364 NGSPSSGRNQTVLMVGFRHLF 384 NG S T + VG RH+F Sbjct: 358 NGKNS----LTTVGVGIRHIF 374 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 135 bits (340), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 133/425 (31%), Positives = 192/425 (45%), Gaps = 71/425 (16%) Query: 4 LAIAAAGASMQASAQSSVTIYGALDNALVYT-------TNQGGLHNLYLRTGNLAASKIG 56 LA+ A A + SS+TIYGA+D +L YT N G L + +G + S++G Sbjct: 8 LAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSL--TAVESGLVKGSRLG 65 Query: 57 FKGAEDLGGGSQAIFTLENGFDINTGAMSSANTLFNRQSFVGLTNSSYGTVTTGRQYTPY 116 KG+EDLGGG +A+FTLENGF+++TG ++ RQ+ VGL+ ++GTV GRQ P Sbjct: 66 IKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGLS-GNFGTVLVGRQNDP- 123 Query: 117 FLYVGAIGPTSVLTGATGAHPGDV--DGLDTT--VRISNSVTYSSPVFGGAQVSALYGFG 172 +G I G G PG V GLD T R++NS+ Y+SP F G S +YGFG Sbjct: 124 LNDIGGIASA----GGFGV-PGTVHSKGLDRTDGQRLNNSIRYNSPNFNGLSFSGIYGFG 178 Query: 173 ETAGSTSTGNTYSLAAKYDVGAWNFALGYQRLK-----NGSGPANA-------------- 213 E G G + L ++Y G + LGY + K +GS NA Sbjct: 179 EQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGSSDVNAKAACNGAGEKDHAG 238 Query: 214 ------WNSTASGSFSTSAVNNGYVSSDNVQMIAGAMRYTIDKWM-FGANY---ANAQYK 263 W A+ F + V Y + +V++ + + K FGA Y Y Sbjct: 239 DTCLKTWTLAAAYQFGPAKV---YGAFSHVRLPLAKLHTKVRKDNNFGAMYDAKTGTGYN 295 Query: 264 PGNGSLFT----QKATFQTLGLITTYQLTPQVALAGGYSYTFEKSANGISDAAKYHQVAL 319 P + + F+ + QT + +YQL P + L +T K S + Q+ L Sbjct: 296 PSDATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKFVGAAS--GRLLQLNL 353 Query: 320 EQTYSFSKRSAIYLLEAYQLARGKTLGKTAGSIVDAVAVVGDSQNGSPSSGRNQTVLMVG 379 Y SKR++ AY L R + VG S++ P R+QT + G Sbjct: 354 GAKYDLSKRTS-----AYALVRNLR--------SSDMYNVGLSKDQEPGIDRSQTAISTG 400 Query: 380 FRHLF 384 H F Sbjct: 401 LIHTF 405 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 0.313 0.129 0.367 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: 1,188,857 Number of extensions: 51168 Number of successful extensions: 178 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 136 Number of HSP's successfully gapped: 14 Length of query: 384 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 297 Effective length of database: 1,207,925 Effective search space: 358753725 Effective search space used: 358753725 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 (22.0 bits) S2: 131 (55.1 bits)