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= 0001.1541.p (279 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... 481 e-137 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 98 7e-22 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 98 7e-22 gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signa... 94 9e-21 gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter peri... 90 2e-19 >gi|300311002|ref|YP_003775094.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 279 Score = 481 bits (1238), Expect = e-137, Method: Compositional matrix adjust. Identities = 225/279 (80%), Positives = 255/279 (91%) Query: 1 MKKISQHLKKLGMGSLLLASASLFPVAAHADRLAQIQARGALICATLANNEPLGFPDPQT 60 MKKISQ++K++G GSLL+A A+LFP A ADRLA+IQARG L+CATLANNEPLGFPDPQ+ Sbjct: 1 MKKISQYIKRMGKGSLLVACAALFPGLAQADRLAEIQARGTLVCATLANNEPLGFPDPQS 60 Query: 61 SQIVGFDVDMCSAVARKLGVRMQHKSVTVEARLPTLMQGQADLLSAALGYTRQRSHQIDF 120 Q+VGFDVDMC+AVAR+LGV+M+ KSVTVE RLP L++GQADL+SAALGYTR+R+ QIDF Sbjct: 61 RQVVGFDVDMCAAVARRLGVQMEQKSVTVEGRLPALIEGQADLVSAALGYTRERARQIDF 120 Query: 121 TASHYQNPIKLIVHSDAGLNLVSDLADKRISANRNSTPEQAAHRVLPKATLVTFPDTPQA 180 TASHYQNPIKLIV SD+GLNL+SDLADKRISANR+STPEQA RVLPKA L TF DTPQA Sbjct: 121 TASHYQNPIKLIVQSDSGLNLISDLADKRISANRSSTPEQAVRRVLPKAMLQTFADTPQA 180 Query: 181 FLALAQGKVDALAISMPSGIRFVNESGGRFRFVEGALAWEPTALGVKKGEHKLLDAVNQA 240 FLALAQG+ D LAISMPSGIRFVNES GRF+FVEGAL+WEPTALGVKKGE +L DAVN A Sbjct: 181 FLALAQGRADGLAISMPSGIRFVNESAGRFKFVEGALSWEPTALGVKKGERRLRDAVNAA 240 Query: 241 LAALEKEGEIDALWSKWFGPKTKFNIARDKKLTPIASFR 279 LAALEK+GEIDALW+KWFGPKTKFNI RDKKLTPI++FR 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 = 98.2 bits (243), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 75/259 (28%), Positives = 125/259 (48%), Gaps = 13/259 (5%) Query: 7 HLKKLGMGSLLLASASLFPVA-AHADRLAQIQARGALICATLANNEPLGFPD----PQTS 61 L KL +G L+A A +F + A AD L IQ G L A A+ P G D PQ Sbjct: 2 KLTKLLLG--LMAGAMMFSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQ-- 57 Query: 62 QIVGFDVDMCSAVARKLGVRMQHKSVTVEARLPTLMQGQADLLSAALGYTRQRSHQIDFT 121 G D+D+ + +A+KLGV+++ V+ R+P L + DL+ +++G +R IDF+ Sbjct: 58 ---GLDIDVATLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFS 114 Query: 122 ASHYQNPIKLIVHSDAGLNLVSDLADKRISANRNSTPEQAAHRVLP-KATLVTFPDTPQA 180 A++ + +D + +DLA K I+ R S + +++P AT+ + D Sbjct: 115 AAYAPFFNGVFGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNST 174 Query: 181 FLALAQGKVDALAISMPSGIRFVNESGGRFRFVEGALAWEPTALGVKKGEHKLLDAVNQA 240 + G+V +A + + + + + P +G+ KGE KL D V+ Sbjct: 175 ISSFLSGQVQLVATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAI 234 Query: 241 LAALEKEGEIDALWSKWFG 259 LA +K+G + 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 = 98.2 bits (243), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 79/262 (30%), Positives = 131/262 (50%), Gaps = 11/262 (4%) Query: 2 KKISQHLKKLGMGSLLLASASLFPVAAHADRLAQIQARGALICATLANNEPLGFPDPQTS 61 K I Q L G+G+ LLAS+ V+A AD L +++ G L A N P F DP+T Sbjct: 3 KNIKQWLLA-GVGAALLASS--LSVSA-ADLLQSVKSSGTLKVALEGNYPPFNFKDPKTG 58 Query: 62 QIVGFDVDMCSAVARKLGVRMQHKSVTVEARLPTLMQGQADLLSAALGYTRQRSHQIDFT 121 ++ GF+VD+ +A KLGV+ + L L G+ D++ +G T +R DF+ Sbjct: 59 ELTGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAFDFS 118 Query: 122 ASHYQNPIKLIVHSDAGLNLVS--DLADKRISANRNSTPEQAAHRVLPKATLVTFPDTPQ 179 + + +LIV D S DL K++ + + EQ A + +P + T+P +P+ Sbjct: 119 DPYTLSSAQLIVRKDEKREFKSLEDLKGKKLGLGQGTNFEQKA-KAVPGIDVRTYPGSPE 177 Query: 180 AFLALAQGKVDALAISMPSGIRFVNESGGRFRFVEGALAWEPTALGV--KKGEHKLLDAV 237 LA G++DA A++ + ++ +S G+ +G+ +KG + A+ Sbjct: 178 YLADLAAGRIDA-ALNDSLLVGYILKS-TNLPLKAGSPIGAVDKIGIPFRKGNPEFKAAL 235 Query: 238 NQALAALEKEGEIDALWSKWFG 259 N+ALA ++ +G A KWFG Sbjct: 236 NKALADIKADGSFKAASEKWFG 257 >gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signal transduction system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 94.4 bits (233), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 61/219 (27%), Positives = 103/219 (47%), Gaps = 4/219 (1%) Query: 42 LICATLANNEPLGFPDPQTSQIVGFDVDMCSAVARKLGVRMQHKSVTVEARLPTLMQGQA 101 L+ A P F D +Q VGFD+D+ A+A+ +GV + + + +P L Sbjct: 28 LVVACDTAFVPFEFKD--RNQYVGFDIDLWDAIAKDIGVTYKLQPMDFNGIIPALQTKNV 85 Query: 102 DLLSAALGYTRQRSHQIDFTASHYQNPIKLIVHSDAGLNLVSDLADKRISANRNSTPEQA 161 D+ A + +R IDF+ +Y + L+V + + V+DLA K ++ ++ Sbjct: 86 DVALAGITIKDERKKVIDFSDGYYDSGFSLMVPVGSSIKSVADLAGKALAVKSGTSAFDY 145 Query: 162 AHRVLPKATLVTFPDTPQAFLALAQGKVDALAISMPSGIRFVNESG-GRFRFVEGALAWE 220 A L FP+ A+L L G+VDA P+ + ++ +G GR + V + Sbjct: 146 AKANFKATELHQFPNIDNAYLELQTGRVDAAMHDTPNVLYYIATAGKGRAKVVGTQMMAH 205 Query: 221 PTALGVKKGEHKLLDAVNQALAALEKEGEIDALWSKWFG 259 +G KG L+ VN ALA ++ +G ++ KWFG Sbjct: 206 QYGIGFPKGS-PLVPKVNAALAKIKADGRYAEIYRKWFG 243 >gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 89.7 bits (221), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 62/229 (27%), Positives = 114/229 (49%), Gaps = 2/229 (0%) Query: 33 LAQIQARGALICATLANNEPLGFPDPQTSQIVGFDVDMCSAVARKLGVRMQHKSVTVEAR 92 +A + +G + ++ P G D + + I G+DVD+ + + + LG+ ++ + AR Sbjct: 33 IADLTKKGKITIGVVSGTPPFGSVDAKGTPI-GYDVDVANLIGKYLGLPVEIVPLVPPAR 91 Query: 93 LPTLMQGQADLLSAALGYTRQRSHQIDFTASHYQNPIKLIVHSDAGLNLVSDLADKRISA 152 +P L G+ D+L+A L T +R+ + FT + + ++ + + DL K++ Sbjct: 92 IPALESGKVDMLAATLAPTPERAKSVLFTIPYSGFELSIVAPVGSNYKKLDDLVKKKVGV 151 Query: 153 NRNSTPEQAAHRVLPKAT-LVTFPDTPQAFLALAQGKVDALAISMPSGIRFVNESGGRFR 211 +R ST + A R+ P T LV F D AL +VDA++I V G Sbjct: 152 SRGSTNDTALTRLAPPGTVLVRFEDDSTVTQALLSNQVDAISIPNTMANEIVKSRGQGKI 211 Query: 212 FVEGALAWEPTALGVKKGEHKLLDAVNQALAALEKEGEIDALWSKWFGP 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 0.319 0.132 0.382 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: 846,609 Number of extensions: 35506 Number of successful extensions: 167 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 147 Number of HSP's successfully gapped: 16 Length of query: 279 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 195 Effective length of database: 1,222,130 Effective search space: 238315350 Effective search space used: 238315350 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)