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= 0022.0099.p (278 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 69 3e-13 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 67 2e-12 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 62 4e-11 gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter peri... 61 1e-10 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 57 2e-09 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 69.3 bits (168), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 67/216 (31%), Positives = 105/216 (48%), Gaps = 8/216 (3%) Query: 44 LGAINGAIPYFNKDLVTQEWKGFCADFGRDLARYLKAEVEWVETTWGNAVLDVQTNKIDA 103 L AI+ P F E +G + R LA+ L E+E V+ T N + + T K D Sbjct: 40 LVAIDLGAPPFGMTNAKLEPQGSDVETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADM 99 Query: 104 QLA-MAPTPQRREVVDFSNPLYNNINTVVARKGLEFKAWEDLNKPEIKVAVDVGSSHDQL 162 ++ + TP+R++VV F+ P + V A KG K+ DL +VAV G+ D L Sbjct: 100 VISSFSITPERQKVVAFTQPYGASQFVVAAPKGENIKSLNDLVGK--RVAVVRGNMQDSL 157 Query: 163 VTRILPKAT-ILRFETSAAATMALQSGRADCQVLVVLLSTSLLVKLPNIG-HIVFPTPDE 220 +T I PK T I+RF+ A T A+ SG+ D L++++ + P+ F D Sbjct: 158 LTPIAPKGTNIVRFDDDATVTAAIISGQVDALCTPNSLASAIAKQNPSKNLETKFAIKD- 216 Query: 221 TAPTNIGIRKQADQSFVTAVNGWLEESRKAGRIREI 256 P IG+RK + + +N W+ + K G++ I Sbjct: 217 -IPYAIGLRK-GEPALEKWLNEWISANLKNGKLPGI 250 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 66.6 bits (161), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 121/243 (49%), Gaps = 23/243 (9%) Query: 41 KLRLGAINGAIPYFNKDLVTQEWKGFCADFGRDLARYLKAEVEWVETTWGNAVLDVQTNK 100 KLR+ AI+ A+P ++ G + + +A+ E+E V TT N V +QTNK Sbjct: 39 KLRV-AIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTLTNRVPYLQTNK 97 Query: 101 IDAQL-AMAPTPQRREVVDFSNPLYNNINTVVARKGLEFKAWEDLNKPEIKVAVDVGSSH 159 D + A + TP+R +V+DFS P + V A + ++ + DL K+ G+++ Sbjct: 98 ADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGK--KIIATRGTTN 155 Query: 160 DQLVTRILP-KATILRFETSAAATMALQSGRADCQVLVVLLSTSLLVKLPNIGHIVFPTP 218 DQ +T+I P ATI RF+ A + A+ SG+AD + ++ +L+K+ N + P+ Sbjct: 156 DQELTKIAPSSATITRFDDDATSMTAMVSGQAD-----IWATSPMLLKVVNQKN---PSR 207 Query: 219 D-ETAPT------NIGIRKQADQSFVTAVNGWLEESRKAGRIREIIVANMQNLAKVPPTA 271 D E+ T +G+RK + ++GW+ + G + I + A++PP Sbjct: 208 DIESKLTLKANLLAVGLRK-GEPRLKEKIDGWIRTNLSNGELNTIYKKYHE--AELPPEI 264 Query: 272 FPP 274 P Sbjct: 265 LHP 267 >gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 62.4 bits (150), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 59/229 (25%), Positives = 108/229 (47%), Gaps = 11/229 (4%) Query: 33 MARVKRTGKLRLGAINGAIPY--FNKDLVTQEWKGFCADFGRDLARYLKAEVEWVETTWG 90 +A +++ G +R+G P+ N DL + +G D R +A+ + +++ V Sbjct: 29 LADIQKNGVVRIGVPQDFAPFGSVNTDL---QLQGLDIDVARLIAQKMGVKLQLVPVASA 85 Query: 91 NAVLDVQTNKIDAQLA-MAPTPQRREVVDFSNPLYNNINTVVARKGLEFKAWEDLNKPEI 149 N + +QT+K D ++ + +R +V+DFS P N+V ++ DL + Sbjct: 86 NRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFGVASVKVSGPADLADKTV 145 Query: 150 KVAVDVGSSHDQLVTRILPK-ATILRFETSAAATMALQSGRADCQVLVVLLSTSLLVKLP 208 VA G+ D +T PK ATI R+E + A A SG+ ++ +L K P Sbjct: 146 GVA--RGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLVGTGDFVAYALAEKAP 203 Query: 209 NIGHIVFPTPDETAPTNIGIRKQADQSFVTAVNGWLEESRKAGRIREII 257 N ++ E+A N+G+ K + + + VN L ++K+G + I+ Sbjct: 204 NNKPVLKYIIQESA-CNVGLNK-GEPALLAKVNEALTAAKKSGELNGIV 250 >gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 60.8 bits (146), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 59/203 (29%), Positives = 100/203 (49%), Gaps = 6/203 (2%) Query: 32 TMARVKRTGKLRLGAINGAIPYFNKDLVTQEWKGFCADFGRDLARYLKAEVEWVETTWGN 91 ++A + + GK+ +G ++G P+ + D G+ D + +YL VE V Sbjct: 32 SIADLTKKGKITIGVVSGTPPFGSVDAKGTPI-GYDVDVANLIGKYLGLPVEIVPLVPPA 90 Query: 92 AVLDVQTNKIDAQLA-MAPTPQRREVVDFSNPLYNNINTVVARKGLEFKAWEDLNKPEIK 150 + +++ K+D A +APTP+R + V F+ P ++VA G +K +DL K K Sbjct: 91 RIPALESGKVDMLAATLAPTPERAKSVLFTIPYSGFELSIVAPVGSNYKKLDDLVK--KK 148 Query: 151 VAVDVGSSHDQLVTRILPKATIL-RFETSAAATMALQSGRADCQVLVVLLSTSLLVKLPN 209 V V GS++D +TR+ P T+L RFE + T AL S + D + ++ +VK Sbjct: 149 VGVSRGSTNDTALTRLAPPGTVLVRFEDDSTVTQALLSNQVDAISIPNTMANE-IVKSRG 207 Query: 210 IGHIVFPTPDETAPTNIGIRKQA 232 G I P P ++ +RK + Sbjct: 208 QGKIEVKFPYSVQPNSMTVRKGS 230 >gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 56.6 bits (135), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 68/258 (26%), Positives = 109/258 (42%), Gaps = 23/258 (8%) Query: 6 RHFLQSALAGTAVLTLPEVFAQDIESTMARVKRTGKLRLGAINGAIPYFN-KDLVTQEWK 64 ++ Q LAG L + + VK +G L++ A+ G P FN KD T E Sbjct: 3 KNIKQWLLAGVGAALLASSLSVSAADLLQSVKSSGTLKV-ALEGNYPPFNFKDPKTGELT 61 Query: 65 GFCADFGRDLARYLKAEVEWVETTWGNAVLDVQTNKIDAQL-AMAPTPQRREVVDFSNPL 123 GF D + LA L + + T W + + K D + + T +R++ DFS+P Sbjct: 62 GFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAFDFSDPY 121 Query: 124 YNNINTVVARKG--LEFKAWEDLNKPEIKVAVDVGSSHDQLVTRILPKATILRFETSAAA 181 + ++ RK EFK+ EDL K+ + G++ +Q + +P + + S Sbjct: 122 TLSSAQLIVRKDEKREFKSLEDLKGK--KLGLGQGTNFEQ-KAKAVPGIDVRTYPGSPEY 178 Query: 182 TMALQSGRADCQ------VLVVLLSTSLLVK----LPNIGHIVFP----TPDETAPTNIG 227 L +GR D V +L ST+L +K + + I P P+ A N Sbjct: 179 LADLAAGRIDAALNDSLLVGYILKSTNLPLKAGSPIGAVDKIGIPFRKGNPEFKAALNKA 238 Query: 228 IRK-QADQSFVTAVNGWL 244 + +AD SF A W Sbjct: 239 LADIKADGSFKAASEKWF 256 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 0.133 0.389 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: 792,511 Number of extensions: 29440 Number of successful extensions: 112 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 113 Number of HSP's successfully gapped: 6 Length of query: 278 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 194 Effective length of database: 1,222,130 Effective search space: 237093220 Effective search space used: 237093220 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)