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= 0002.0203.p (295 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310376|ref|YP_003774468.1| outer membrane porin [Herbaspir... 382 e-107 gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspir... 115 5e-27 gi|300313291|ref|YP_003777383.1| porin transmembrane protein [He... 106 2e-24 gi|300310663|ref|YP_003774755.1| outer membrane porin, OmpC fami... 102 3e-23 gi|300313813|ref|YP_003777905.1| transmembrane outer membrane po... 102 5e-23 >gi|300310376|ref|YP_003774468.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 355 Score = 382 bits (981), Expect = e-107, Method: Compositional matrix adjust. Identities = 214/311 (68%), Positives = 237/311 (76%), Gaps = 26/311 (8%) Query: 1 MIGFKGTEDLGSGLNAFFLLESGFDATKGA-----TNGTTLFNRRSYVGLSGS-AGSLKF 54 MIG KGTEDLG G NAFFLLESGF +T G NGT+LFNRRSYVGLS + AGSLK Sbjct: 55 MIGVKGTEDLGGGTNAFFLLESGFGSTTGGLNGTDINGTSLFNRRSYVGLSSANAGSLKL 114 Query: 55 GKNLFIDNDIWFLDPTGQQFIGTATLVRGRNWQGADNVIEYQTPTWGGFNATFQTALGEQ 114 GKNLFI+ND+WFLDPTGQQ+IGTA LVRGRNW GA NVIEY TPT+GGF AT QT+LGE Sbjct: 115 GKNLFINNDVWFLDPTGQQWIGTANLVRGRNWPGASNVIEYTTPTFGGFGATVQTSLGEA 174 Query: 115 AGSI-------KNKRKDGVSLVYQNQGLELRAIYDLIRDSNGKYGTGINSDGTRNTVFDT 167 AGS K RKDG+SLVYQN GLELR IYD+IRD+NG+Y V+DT Sbjct: 175 AGSFSKGGTSTKYGRKDGLSLVYQNNGLELRGIYDVIRDANGRY----------TDVYDT 224 Query: 168 SKELILGGTYTIDKLKLFLGYENLRAPDV--APGSPDKVNHYWLGANYQVTPALTLIGSV 225 SKELILGGTY IDKLK+FLGYENLRAPD A G PD+VNHYWLGANY VTP L+GSV Sbjct: 225 SKELILGGTYKIDKLKMFLGYENLRAPDANTASGVPDRVNHYWLGANYDVTPQFQLVGSV 284 Query: 226 FRVNVNNGGGNANLFMAGANYSLSKRTLLYVGAGTVRNSSTANFSVEA-SNNNPLPGQNQ 284 F VN NNG G+ANLFMAG NY LSKRTLLYVG GT+RN + AN+S+EA S+ G NQ Sbjct: 285 FHVNANNGNGSANLFMAGVNYFLSKRTLLYVGGGTMRNGNNANYSLEADSSTGGGKGTNQ 344 Query: 285 NGAYAGISHSF 295 G Y GI+HSF Sbjct: 345 TGGYFGIAHSF 355 >gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 369 Score = 115 bits (287), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 105/321 (32%), Positives = 148/321 (46%), Gaps = 42/321 (13%) Query: 2 IGFKGTEDLGSGLNAFFLLESGFDATKGATN-GTTLFNRRSYVGLSGSAGSLKFGKNLF- 59 IG +G+EDLG GL + F+LESGF GA N G +F R +YVGLS G + FG+ Sbjct: 64 IGLRGSEDLGGGLRSVFMLESGFAPDSGALNQGGRMFGRIAYVGLSDHWGQVSFGRQATM 123 Query: 60 -----IDNDIWFLDPTGQQFIGTATLVRGRNWQGADNVIEYQ----------TPTWG--- 101 +D+DI G G L R ADN I Y+ T ++G Sbjct: 124 LLWATLDSDI-----LGANVYGANALDNYRPNARADNSIAYRGSFGAFTLGGTYSFGRDT 178 Query: 102 ---GFNATFQTALGEQAGSIKNKRKDGVSLVYQNQGLELRAIYDLIRDSNGKYGTGINSD 158 G N GEQAG R+ + + Y YD +R G G++S Sbjct: 179 VNAGQNPAGTNCAGEQAGDSLACREWSLMVKYDTAAWGASLAYDTLRGGKGA-AAGLSSS 237 Query: 159 GTRNTVFDTSKELILGGTYTIDKLKLFLGYENLRAPDVAPGSPDKVNHYWLGANYQVTPA 218 ++ ++LG D+LK+ +G +LR + S ++ Y+ G +Y +TP Sbjct: 238 QLSDS------RMLLGAYIKADRLKVGIG-GSLRHNQGSALSKSQL--YYAGLSYDLTPT 288 Query: 219 LTLIGSVFRVNVNNGGGNANLFMAGANYSLSKRTLLYVGAGTVRNSSTANFSVEASNN-- 276 L L G ++ ++ ++ A L A YSLS RT LY+ G + N +N SV A + Sbjct: 289 LNLAGQLYYLHYDDSANKAWLGALRATYSLSARTALYLTGGFIDNRGQSNLSVSAGGSVG 348 Query: 277 --NPLPGQNQNGAYAGISHSF 295 NP PG NQ G AGI HSF Sbjct: 349 TANPAPGGNQFGMMAGIRHSF 369 >gi|300313291|ref|YP_003777383.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 106 bits (265), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 99/316 (31%), Positives = 149/316 (47%), Gaps = 36/316 (11%) Query: 2 IGFKGTEDLGSGLNAFFLLESGFDATKGAT-NGTTLFNRRSYVGLSGSAGSLKFGKNLFI 60 IGFKGTEDLG GL A F+LESGF GA G LF R+SYVGL S G L G+ + Sbjct: 64 IGFKGTEDLGGGLQAMFVLESGFAPDTGAMGQGGRLFGRQSYVGLKNSWGQLMLGRQV-- 121 Query: 61 DNDIWFL-----DPTGQQFIGTATLVRGRNWQGADNVIEYQTPTWGGFN--ATFQ----- 108 ++ +L D G ++ +DN I Y + GF AT+ Sbjct: 122 --NMTYLSQLKTDVMGPNLFAIGSIDAYLPNARSDNAIGY-LGNFSGFTVGATYSFGRDA 178 Query: 109 ---------TALGEQAGSIKNKRKDGVSLVYQNQGLELRAIYDLIRDSNGKYGTGINSDG 159 GE AG+ K R+ L Y +G + + YD++ + G +SD Sbjct: 179 AGPAGPAATNCPGEVAGNSKACRQVTALLGYDGKGWGVTSSYDILYGNTGASNGMTSSD- 237 Query: 160 TRNTVFDTSKELILGGTYTIDKLKLFLGYENLRAPDVAPGSPDKVNHYWLGANYQVTPAL 219 +T + + L G + + +K+ G + R A + D + Y+LG +Y ++ AL Sbjct: 238 ------NTDQRVTLNGYFMLGDVKIGGGVVDRRTRAAANTNTDS-DLYYLGVSYPLSVAL 290 Query: 220 TLIGSVFRVNVNNGGGNANLFMAGANYSLSKRTLLYVGAGTVRNSSTANFSVEASNNNPL 279 L V R++V N + L +A Y+LSKRT +Y G ++N T++ +++A Sbjct: 291 VLDAQVSRLDVKNSPNDVTLSVARLTYNLSKRTAVYGSLGYIKNGGTSSVALDAGGTVG- 349 Query: 280 PGQNQNGAYAGISHSF 295 G+NQ G GI H+F Sbjct: 350 AGKNQLGVMTGIRHTF 365 >gi|300310663|ref|YP_003774755.1| outer membrane porin, OmpC family protein [Herbaspirillum seropedicae SmR1] Length = 346 Score = 102 bits (255), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 101/310 (32%), Positives = 139/310 (44%), Gaps = 37/310 (11%) Query: 2 IGFKGTEDLGSGLNAFFLLESGFDATKGATNGTT-LFNRRSYVGLSGSAGSLKFGKN--- 57 +GFKG+EDLG GL A F +E+GF + GA + +T LFNR+S+VGL G L+ G+ Sbjct: 58 VGFKGSEDLGGGLRANFQMENGFASDSGAMHDSTRLFNRQSWVGLGNELGELRLGRQNSP 117 Query: 58 --LFIDNDIWFLDPTGQQFIGTATLVRGRNWQGADNVIEYQTPTWGGFNATFQTALGEQA 115 L I F T F+ + R DNVI Y +P GF LGEQ Sbjct: 118 GFLMIARLDAFAGATYASFLNNVSAYTPRY----DNVIGYLSPVMRGFRVQAYYGLGEQ- 172 Query: 116 GSIKNKRKDGVSLVYQNQGLELRAIYDLIRDSNGKYGTGINSDGTRNTVFD--TSKELIL 173 ++G+S E +Y G++S +N+ D T + Sbjct: 173 ----TAPRNGLSTAMLAGEYESGPLY-----------LGVSSS-AQNSANDNITIRSTFA 216 Query: 174 GGTYTIDKLKLFLGY---ENLRAPDVAPGSPDKVNHYWLGANYQVTPALTL-IGSVFRVN 229 GG Y K+FLGY NL A A + Y L ANY++T TL G + + Sbjct: 217 GGAYDYGSGKVFLGYYRGNNLGAAASANTPGSYYSAYSLSANYRLTGQATLGAGYGWAKD 276 Query: 230 VNNGGGNANLFMAGANYSLSKRTLLYVGAGTVRNSSTANFSVEAS----NNNPLPGQNQN 285 G NA F Y LS+RT+LY + N++ A+FS+ + N P+ G N Sbjct: 277 STGAGRNARQFSLIGTYDLSRRTMLYATYAHLANNNGASFSLAGAAPITKNAPVSGGTVN 336 Query: 286 GAYAGISHSF 295 G GI H F Sbjct: 337 GVQVGIRHLF 346 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 102 bits (253), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 100/308 (32%), Positives = 143/308 (46%), Gaps = 29/308 (9%) Query: 2 IGFKGTEDLGSGLNAFFLLESGFDATKGATNGTT--LFNRRSYVGLSGSAGSLKFGKNLF 59 IGF+GTEDLG GL A F LE+GF G+ +G LFNR+S VGL G G + G++ Sbjct: 62 IGFRGTEDLGGGLKALFQLENGFKLDNGSFDGDANQLFNRQSTVGLEGGFGRVVAGRSYS 121 Query: 60 IDND-IWFLDPTG----QQFIGTATLVRGRN---WQGADNVIEYQTPTWGGFNATFQTAL 111 D + DP G + TA R G N+++YQ + G Sbjct: 122 TTYDFLGPFDPMGYSANYSWATTAGATGNRKDGMPTGVSNLVKYQGE-FSGVKIGAMYGF 180 Query: 112 GEQAGSIKNKRKDGVSLVYQNQGLELRAIYDLIRDSNGKYGTGINSDGTRNTVFDTSKEL 171 GE AG +N K GV L + + A YD R+ NS NT +D + Sbjct: 181 GEVAGETRNGAKYGVGLGWGTGPFSVVATYD--RN---------NSATATNTPYDRATSA 229 Query: 172 ILGGTYTI-DKLKLFLGYENLRAPDVAPGSPD-KVNHYWLGANYQVTPALTLIGSVFRVN 229 L Y + K LGY + +A G+ D + + +W GA Y+ TPA+TLIG+++ N Sbjct: 230 HLAAGYQPSEAWKFNLGYRYYK-KSLATGAADLRSDFFWGGAAYKFTPAMTLIGAIYYQN 288 Query: 230 VNNGGGNANLFMAG--ANYSLSKRTLLYVGAGTVRNSSTANFSVEASNNNPLPGQNQNGA 287 + N +A+ M Y++SKRT LY+ T + V S ++ G +Q G Sbjct: 289 IKNVANDADPIMYSLRLKYAMSKRTDLYL--STAYAKAKNGQLVGLSRDDAGYGSSQFGM 346 Query: 288 YAGISHSF 295 G+ H F Sbjct: 347 TLGMQHRF 354 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 0.135 0.400 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: 892,931 Number of extensions: 37726 Number of successful extensions: 126 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 90 Number of HSP's successfully gapped: 14 Length of query: 295 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 210 Effective length of database: 1,217,395 Effective search space: 255652950 Effective search space used: 255652950 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: 42 (22.0 bits) S2: 130 (54.7 bits)