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= 0022.0004.p (282 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311002|ref|YP_003775094.1| amino acid ABC transporter/sign... 454 e-129 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 100 2e-22 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 99 3e-22 gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signa... 97 1e-21 gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter peri... 91 8e-20 >gi|300311002|ref|YP_003775094.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 279 Score = 454 bits (1169), Expect = e-129, Method: Compositional matrix adjust. Identities = 215/279 (77%), Positives = 244/279 (87%) Query: 1 MKKISQHLKQLGMGSLLLASAWMIPAAAHADRLGEIQERGSLICATLASNEPLGFPDPQS 60 MKKISQ++K++G GSLL+A A + P A ADRL EIQ RG+L+CATLA+NEPLGFPDPQS Sbjct: 1 MKKISQYIKRMGKGSLLVACAALFPGLAQADRLAEIQARGTLVCATLANNEPLGFPDPQS 60 Query: 61 GQIVGFDVDMCSAIAAKLGVKMRQRSLTVEARLPALIQGEVDLVSGALGYTRERARQIDF 120 Q+VGFDVDMC+A+A +LGV+M Q+S+TVE RLPALI+G+ DLVS ALGYTRERARQIDF Sbjct: 61 RQVVGFDVDMCAAVARRLGVQMEQKSVTVEGRLPALIEGQADLVSAALGYTRERARQIDF 120 Query: 121 TASHYQTPIKLLVYSDSGLNLVSDLEGKRISANRGSTPEQAVRRVLRKATLLTFPETPQT 180 TASHYQ PIKL+V SDSGLNL+SDL KRISANR STPEQAVRRVL KA L TF +TPQ Sbjct: 121 TASHYQNPIKLIVQSDSGLNLISDLADKRISANRSSTPEQAVRRVLPKAMLQTFADTPQA 180 Query: 181 FLAMAQRQVDAMAVAMPSGIRFVNESGGRFRFVEGALAWEPTALGVKKGEHRLLDAVNKA 240 FLA+AQ + D +A++MPSGIRFVNES GRF+FVEGAL+WEPTALGVKKGE RL DAVN A Sbjct: 181 FLALAQGRADGLAISMPSGIRFVNESAGRFKFVEGALSWEPTALGVKKGERRLRDAVNAA 240 Query: 241 LVALEKDGEIDAMWIKWFGPKTKFNIPHDKKLTPISAFR 279 L ALEKDGEIDA+W KWFGPKTKFNIP DKKLTPISAFR Sbjct: 241 LAALEKDGEIDALWTKWFGPKTKFNIPRDKKLTPISAFR 279 >gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 100 bits (248), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 78/259 (30%), Positives = 126/259 (48%), Gaps = 13/259 (5%) Query: 7 HLKQLGMGSLLLASAWMIPAA-AHADRLGEIQERGSLICATLASNEPLGFPD----PQSG 61 L +L +G L+A A M A+ A AD L +IQ+ G+L A A P G D PQ Sbjct: 2 KLTKLLLG--LMAGAMMFSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQ-- 57 Query: 62 QIVGFDVDMCSAIAAKLGVKMRQRSLTVEARLPALIQGEVDLVSGALGYTRERARQIDFT 121 G D+D+ + IA KLGVK+ ++ R+P L +VDLV ++G ER + IDF+ Sbjct: 58 ---GLDIDVATLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFS 114 Query: 122 ASHYQTPIKLLVYSDSGLNLVSDLEGKRISANRGSTPEQAVRRVL-RKATLLTFPETPQT 180 A++ + +D + +DL GK I+ RGS + + +++ AT+ + + T Sbjct: 115 AAYAPFFNGVFGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNST 174 Query: 181 FLAMAQRQVDAMAVAMPSGIRFVNESGGRFRFVEGALAWEPTALGVKKGEHRLLDAVNKA 240 + QV +A + + + + + P +G+ KGE +L D V+ Sbjct: 175 ISSFLSGQVQLVATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAI 234 Query: 241 LVALEKDGEIDAMWIKWFG 259 L +KDG + A+ KW G Sbjct: 235 LAESKKDGSLSAISQKWLG 253 >gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 99.0 bits (245), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 77/263 (29%), Positives = 133/263 (50%), Gaps = 13/263 (4%) Query: 4 ISQHLKQ---LGMGSLLLASAWMIPAAAHADRLGEIQERGSLICATLASNEPLGFPDPQS 60 +++++KQ G+G+ LLAS+ + AA D L ++ G+L A + P F DP++ Sbjct: 1 MNKNIKQWLLAGVGAALLASSLSVSAA---DLLQSVKSSGTLKVALEGNYPPFNFKDPKT 57 Query: 61 GQIVGFDVDMCSAIAAKLGVKMRQRSLTVEARLPALIQGEVDLVSGALGYTRERARQIDF 120 G++ GF+VD+ +AAKLGVK + L L G+ D++ +G T ER + DF Sbjct: 58 GELTGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAFDF 117 Query: 121 TASHYQTPIKLLVYSDSGLNLVS--DLEGKRISANRGSTPEQAVRRVLRKATLLTFPETP 178 + + + +L+V D S DL+GK++ +G+ EQ + V + T+P +P Sbjct: 118 SDPYTLSSAQLIVRKDEKREFKSLEDLKGKKLGLGQGTNFEQKAKAV-PGIDVRTYPGSP 176 Query: 179 QTFLAMAQRQVDAMAVAMPSGIRFVNESGGRFRFVEGALAWEPTALGV--KKGEHRLLDA 236 + +A ++DA A+ + ++ +S G+ +G+ +KG A Sbjct: 177 EYLADLAAGRIDA-ALNDSLLVGYILKS-TNLPLKAGSPIGAVDKIGIPFRKGNPEFKAA 234 Query: 237 VNKALVALEKDGEIDAMWIKWFG 259 +NKAL ++ DG A KWFG Sbjct: 235 LNKALADIKADGSFKAASEKWFG 257 >gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signal transduction system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 97.4 bits (241), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 62/220 (28%), Positives = 103/220 (46%), Gaps = 4/220 (1%) Query: 41 SLICATLASNEPLGFPDPQSGQIVGFDVDMCSAIAAKLGVKMRQRSLTVEARLPALIQGE 100 +L+ A + P F D Q VGFD+D+ AIA +GV + + + +PAL Sbjct: 27 TLVVACDTAFVPFEFKD--RNQYVGFDIDLWDAIAKDIGVTYKLQPMDFNGIIPALQTKN 84 Query: 101 VDLVSGALGYTRERARQIDFTASHYQTPIKLLVYSDSGLNLVSDLEGKRISANRGSTPEQ 160 VD+ + ER + IDF+ +Y + L+V S + V+DL GK ++ G++ Sbjct: 85 VDVALAGITIKDERKKVIDFSDGYYDSGFSLMVPVGSSIKSVADLAGKALAVKSGTSAFD 144 Query: 161 AVRRVLRKATLLTFPETPQTFLAMAQRQVDAMAVAMPSGIRFVNESG-GRFRFVEGALAW 219 + + L FP +L + +VDA P+ + ++ +G GR + V + Sbjct: 145 YAKANFKATELHQFPNIDNAYLELQTGRVDAAMHDTPNVLYYIATAGKGRAKVVGTQMMA 204 Query: 220 EPTALGVKKGEHRLLDAVNKALVALEKDGEIDAMWIKWFG 259 +G KG L+ VN AL ++ DG ++ KWFG Sbjct: 205 HQYGIGFPKGS-PLVPKVNAALAKIKADGRYAEIYRKWFG 243 >gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 91.3 bits (225), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 63/229 (27%), Positives = 116/229 (50%), Gaps = 2/229 (0%) Query: 33 LGEIQERGSLICATLASNEPLGFPDPQSGQIVGFDVDMCSAIAAKLGVKMRQRSLTVEAR 92 + ++ ++G + ++ P G D + G +G+DVD+ + I LG+ + L AR Sbjct: 33 IADLTKKGKITIGVVSGTPPFGSVDAK-GTPIGYDVDVANLIGKYLGLPVEIVPLVPPAR 91 Query: 93 LPALIQGEVDLVSGALGYTRERARQIDFTASHYQTPIKLLVYSDSGLNLVSDLEGKRISA 152 +PAL G+VD+++ L T ERA+ + FT + + ++ S + DL K++ Sbjct: 92 IPALESGKVDMLAATLAPTPERAKSVLFTIPYSGFELSIVAPVGSNYKKLDDLVKKKVGV 151 Query: 153 NRGSTPEQAVRRVLRKATLLT-FPETPQTFLAMAQRQVDAMAVAMPSGIRFVNESGGRFR 211 +RGST + A+ R+ T+L F + A+ QVDA+++ V G Sbjct: 152 SRGSTNDTALTRLAPPGTVLVRFEDDSTVTQALLSNQVDAISIPNTMANEIVKSRGQGKI 211 Query: 212 FVEGALAWEPTALGVKKGEHRLLDAVNKALVALEKDGEIDAMWIKWFGP 260 V+ + +P ++ V+KG + L +N + ++ +GE+DA+ KW GP Sbjct: 212 EVKFPYSVQPNSMTVRKGSYELQQWLNNFIYYVKLNGELDAISRKWAGP 260 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 0.320 0.134 0.392 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: 939,511 Number of extensions: 39839 Number of successful extensions: 179 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 159 Number of HSP's successfully gapped: 16 Length of query: 282 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 198 Effective length of database: 1,222,130 Effective search space: 241981740 Effective search space used: 241981740 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 130 (54.7 bits)