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= 0008.0139.p (363 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313291|ref|YP_003777383.1| porin transmembrane protein [He... 536 e-153 gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspir... 295 4e-81 gi|300313813|ref|YP_003777905.1| transmembrane outer membrane po... 142 3e-35 gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspir... 132 3e-32 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 130 1e-31 >gi|300313291|ref|YP_003777383.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 536 bits (1381), Expect = e-153, Method: Compositional matrix adjust. Identities = 264/342 (77%), Positives = 300/342 (87%), Gaps = 1/342 (0%) Query: 23 QSQVSVYGIIDTGVVYTNHANAAGNSVLKMPSLTSSFPSRLGFKGTEDLGGGLQAMFVLE 82 QS V++YGIIDTGVVYT +ANA GNSV KMPSLT SFPSR+GFKGTEDLGGGLQAMFVLE Sbjct: 24 QSSVTIYGIIDTGVVYTTNANANGNSVFKMPSLTGSFPSRIGFKGTEDLGGGLQAMFVLE 83 Query: 83 SGFSVDTGAMGQGNRLFGRQSYVGLKDTWGSLMLGRQVNMTYLVTAKSDVMGPNLFSISS 142 SGF+ DTGAMGQG RLFGRQSYVGLK++WG LMLGRQVNMTYL K+DVMGPNLF+I S Sbjct: 84 SGFAPDTGAMGQGGRLFGRQSYVGLKNSWGQLMLGRQVNMTYLSQLKTDVMGPNLFAIGS 143 Query: 143 IDAYIPNARSDNAIGYLGSFSGVTLGATYSFGRDTSTAGGASATGCPGEVAGNAKACRQV 202 IDAY+PNARSDNAIGYLG+FSG T+GATYSFGRD + G +AT CPGEVAGN+KACRQV Sbjct: 144 IDAYLPNARSDNAIGYLGNFSGFTVGATYSFGRDAAGPAGPAATNCPGEVAGNSKACRQV 203 Query: 203 TAMLAYDSSRFGVSGSYDILYGNAGAANGLTSSDNHDQRVTLNGYVMLGNSKIGGGVIDR 262 TA+L YD +GV+ SYDILYGN GA+NG+TSSDN DQRVTLNGY MLG+ KIGGGV+DR Sbjct: 204 TALLGYDGKGWGVTSSYDILYGNTGASNGMTSSDNTDQRVTLNGYFMLGDVKIGGGVVDR 263 Query: 263 KTR-AATANTDSDLYYLGLSTPLSAALVLDAQVARLNIKGSANTSTLSVARLAYNLSKRT 321 +TR AA NTDSDLYYLG+S PLS ALVLDAQV+RL++K S N TLSVARL YNLSKRT Sbjct: 264 RTRAAANTNTDSDLYYLGVSYPLSVALVLDAQVSRLDVKNSPNDVTLSVARLTYNLSKRT 323 Query: 322 ALHGSLGYMKNAGTAAIPLDVGGSVGAGMNQLGLMTGVRHTF 363 A++GSLGY+KN GT+++ LD GG+VGAG NQLG+MTG+RHTF Sbjct: 324 AVYGSLGYIKNGGTSSVALDAGGTVGAGKNQLGVMTGIRHTF 365 >gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 369 Score = 295 bits (755), Expect = 4e-81, Method: Compositional matrix adjust. Identities = 170/373 (45%), Positives = 237/373 (63%), Gaps = 14/373 (3%) Query: 1 MKKWVASAMALTAMACTQQVLAQSQ-VSVYGIIDTGVVYTNHANAAG---NSVLKMPSLT 56 MK A AL M+ T L+Q+Q V++YGIIDTGV Y ++ + G +L++P+LT Sbjct: 1 MKALKAIIAALLTMSAT---LSQAQSVTLYGIIDTGVEYVSNVSNVGAGQQGLLRVPNLT 57 Query: 57 SSFPSRLGFKGTEDLGGGLQAMFVLESGFSVDTGAMGQGNRLFGRQSYVGLKDTWGSLML 116 ++ PSR+G +G+EDLGGGL+++F+LESGF+ D+GA+ QG R+FGR +YVGL D WG + Sbjct: 58 ATTPSRIGLRGSEDLGGGLRSVFMLESGFAPDSGALNQGGRMFGRIAYVGLSDHWGQVSF 117 Query: 117 GRQVNMTYLVTAKSDVMGPNLFSISSIDAYIPNARSDNAIGYLGSFSGVTLGATYSFGRD 176 GRQ M T SD++G N++ +++D Y PNAR+DN+I Y GSF TLG TYSFGRD Sbjct: 118 GRQATMLLWATLDSDILGANVYGANALDNYRPNARADNSIAYRGSFGAFTLGGTYSFGRD 177 Query: 177 TSTAGGASA-TGCPGEVAGNAKACRQVTAMLAYDSSRFGVSGSYDILYGNAGAANGLTSS 235 T AG A T C GE AG++ ACR+ + M+ YD++ +G S +YD L G GAA GL+SS Sbjct: 178 TVNAGQNPAGTNCAGEQAGDSLACREWSLMVKYDTAAWGASLAYDTLRGGKGAAAGLSSS 237 Query: 236 DNHDQRVTLNGYVMLGNSKIGGGVIDRKTRAATANTDSDLYYLGLSTPLSAALVLDAQVA 295 D R+ L Y+ K+G G R + +A + S LYY GLS L+ L L Q+ Sbjct: 238 QLSDSRMLLGAYIKADRLKVGIGGSLRHNQ-GSALSKSQLYYAGLSYDLTPTLNLAGQLY 296 Query: 296 RLNIKGSANTSTLSVARLAYNLSKRTALHGSLGYMKNAGTAAIPLDVGGSVG-----AGM 350 L+ SAN + L R Y+LS RTAL+ + G++ N G + + + GGSVG G Sbjct: 297 YLHYDDSANKAWLGALRATYSLSARTALYLTGGFIDNRGQSNLSVSAGGSVGTANPAPGG 356 Query: 351 NQLGLMTGVRHTF 363 NQ G+M G+RH+F Sbjct: 357 NQFGMMAGIRHSF 369 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 142 bits (359), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 126/364 (34%), Positives = 174/364 (47%), Gaps = 48/364 (13%) Query: 20 VLAQSQVSVYGIIDTGVVYTNHA--NAAGNSVLKMPSLTSSFPSRLGFKGTEDLGGGLQA 77 V AQS V++YG++DTGV Y N+A N AG SV +M S ++ SR+GF+GTEDLGGGL+A Sbjct: 19 VQAQSSVTIYGLVDTGVEYLNNAGPNGAG-SVTRMTSGATN-TSRIGFRGTEDLGGGLKA 76 Query: 78 MFVLESGFSVDTGAM-GQGNRLFGRQSYVGLKDTWGSLMLGRQVNMTYLVTAKSDVMGPN 136 +F LE+GF +D G+ G N+LF RQS VGL+ +G ++ GR + TY D MG + Sbjct: 77 LFQLENGFKLDNGSFDGDANQLFNRQSTVGLEGGFGRVVAGRSYSTTYDFLGPFDPMGYS 136 Query: 137 LFSISSIDAYIPNARSD-------NAIGYLGSFSGVTLGATYSFGRDTSTAGGASATGCP 189 + A R D N + Y G FSGV +GA Y F Sbjct: 137 ANYSWATTAGATGNRKDGMPTGVSNLVKYQGEFSGVKIGAMYGF---------------- 180 Query: 190 GEVAGNAKACRQVTAMLAYDSSRFGVSGSYDILYGNAGAANGLTSSDNHDQRVT----LN 245 GEVAG + + L + + F V +YD N T+++ R T Sbjct: 181 GEVAGETRNGAKYGVGLGWGTGPFSVVATYD-------RNNSATATNTPYDRATSAHLAA 233 Query: 246 GYVMLGNSKIGGGVIDRKTRAATANTD--SDLYYLGLSTPLSAALVLDAQVARLNIKGSA 303 GY K G K AT D SD ++ G + + A+ L + NIK A Sbjct: 234 GYQPSEAWKFNLGYRYYKKSLATGAADLRSDFFWGGAAYKFTPAMTLIGAIYYQNIKNVA 293 Query: 304 NTS--TLSVARLAYNLSKRTALHGSLGY--MKNAGTAAIPLDVGGSVGAGMNQLGLMTGV 359 N + + RL Y +SKRT L+ S Y KN + D G G +Q G+ G+ Sbjct: 294 NDADPIMYSLRLKYAMSKRTDLYLSTAYAKAKNGQLVGLSRD---DAGYGSSQFGMTLGM 350 Query: 360 RHTF 363 +H F Sbjct: 351 QHRF 354 >gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 374 Score = 132 bits (333), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 123/388 (31%), Positives = 177/388 (45%), Gaps = 78/388 (20%) Query: 21 LAQSQVSVYGIIDTGVVYTNHANAAGNSVLKMPSLTSSFPSRLGFKGTEDLGGGLQAMFV 80 AQS V++YGI+DT + Y ++ANA GNS ++M + + SR+GFKGTEDLGGGL+AMF Sbjct: 20 FAQSNVTIYGIVDTSIHYLSNANAQGNSNVRMDNGAIA-NSRIGFKGTEDLGGGLKAMFQ 78 Query: 81 LESGFSVDTGAMGQGNRLFGRQSYVGLKDTWGSLMLGRQVNMTYLVTAKSDVMGPNLFSI 140 LE+GFS DTGAM QG LFGRQS+VGL+ +G + +GRQ T L +D P Sbjct: 79 LENGFSSDTGAMQQGGSLFGRQSWVGLQGGFGKVRVGRQ--NTPLFDLLADHFDPLTVGN 136 Query: 141 SSIDAYIPNA----RSDNAIGYLGSFSGVTLGATYSFGRDTSTAGGASATGCPGEVAGNA 196 + ++++P A RS N + Y G F V A+++F GE AG+ Sbjct: 137 YASNSWLPAAASLVRSPNMLRYDGDFGPVAASASWAF----------------GEKAGSV 180 Query: 197 KACRQVTAMLAY----------------------DSSRFGVSGSYDI----LYG---NAG 227 + Q ++ L Y + + +S SYD ++G N Sbjct: 181 RTGSQFSSALRYTAGPLALGGGYQQTVSSTNSSLKHTTWNLSASYDFGVAKVFGGWLNIK 240 Query: 228 AANGLTSSDNHDQRVTLNGYVMLGNSKIGGGVIDRKTRAATANTDSDLYYLGLSTPLSAA 287 +GLT S NG+ G + G + RK ++LG S + A Sbjct: 241 DDSGLTGSVMAADGDVSNGWTTAGAANNGSTGVKRKDNG---------FFLGSSYKATNA 291 Query: 288 LVLDAQVARLNIKGSANTSTLSVARLA------------YNLSKRTALHGSLGYMKNAGT 335 L L S N S +S + Y LSKRT L+ ++ Y K Sbjct: 292 LTL---TGAFYYDRSKNVSYVSTGNVGDGKRYTLVGWADYALSKRTQLYTTIDYNKAKDA 348 Query: 336 AAIPLDVGGSVGAGMNQLGLMTGVRHTF 363 A L + + +G+ G+RH F Sbjct: 349 AVYELTNSANGKNSLTTVGV--GIRHIF 374 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 130 bits (328), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 126/382 (32%), Positives = 177/382 (46%), Gaps = 49/382 (12%) Query: 1 MKKWVASAMALTAMACTQQVLAQSQVSVYGIIDTGVVYTNHANAAGNSVLKMPSLTSSFP 60 MKK + A L A T AQS VS+YG+ID G+ Y + A +G ++ + S Sbjct: 1 MKKTLLVAAMLAGGATTAH--AQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIA 58 Query: 61 --SRLGFKGTEDLGGGLQAMFVLESGFSVDTGAMGQGNRLFGRQSYVGLKDT-WGSLMLG 117 SR+GFKGTEDLGGG+ A F LE+GF D G++GQG LFGRQS+VGL T WGSL +G Sbjct: 59 QGSRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSTQWGSLSVG 118 Query: 118 RQVNM------TYLVTAKSDV--MGPNLFSISSIDAYIPNA-----RSDNAIGY-LGSFS 163 RQ + Y + A S G L + ++ + N R++N+I Y F Sbjct: 119 RQYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFG 178 Query: 164 GVTLGATYSFGRDTSTAGGASATGCPGEVAGNAKACRQVTAMLAYDSSRFGVSGSYDILY 223 G + GA GE AGN A R V+A YD+ F + +Y + Sbjct: 179 GFSFGAMVGL----------------GETAGNNNAGRTVSATGQYDNGPFSGALAYTDIK 222 Query: 224 GNAGAANGLTSSDNHDQRVTLNGYVMLGNSKIGGGVIDRKTRAATANTDSDLYYLGLSTP 283 + G+ + T R + + G + + + + + Y LG Sbjct: 223 DSTGSFS--TRIYGGGARYQIGAFTPFG--------VVTQVKNTNTSAKATTYELGTVYA 272 Query: 284 LSAALVLDA--QVARLNIKGSANTSTLSVARLAYNLSKRTALHGSLGYMKNAGTAAIPLD 341 L+ L A Q + N +G N L VA + Y +SKRT L+ Y ++ G A P+ Sbjct: 273 LTPLWDLAAAYQFQKRN-QGVGNAQAL-VATVDYKISKRTDLYVGAVYDRDKGYNAYPVF 330 Query: 342 VGGSVGAGMNQLGLMTGVRHTF 363 GG A NQ L G+RH F Sbjct: 331 GGGIQSATGNQTALRLGMRHRF 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 0.315 0.130 0.371 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: 1,100,735 Number of extensions: 46875 Number of successful extensions: 184 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 146 Number of HSP's successfully gapped: 14 Length of query: 363 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 277 Effective length of database: 1,212,660 Effective search space: 335906820 Effective search space used: 335906820 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: 131 (55.1 bits)