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= 0006.0019.p (281 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 5e-13 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 67 2e-12 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 67 2e-12 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 58 1e-09 gi|300310886|ref|YP_003774978.1| amino acid ABC transporter peri... 56 3e-09 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 68.6 bits (166), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 67/212 (31%), Positives = 108/212 (50%), Gaps = 12/212 (5%) Query: 51 AVRGAAPYYNKDLASGEWGGFMIDFAKSLAASLNVKLDITETTWGNSVLDLQTHKIDLFF 110 A+ AP + A E G ++ A+ LA L V+L+I + T N + L T K D+ Sbjct: 42 AIDLGAPPFGMTNAKLEPQGSDVETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVI 101 Query: 111 G-MNPTPARREVIGFTEPLFLNAFTVVSKK--EFKTWADLNKPEVKIAVDIGSSHDQMIS 167 + TP R++V+ FT+P + F V + K K+ DL ++AV G+ D +++ Sbjct: 102 SSFSITPERQKVVAFTQPYGASQFVVAAPKGENIKSLNDLVGK--RVAVVRGNMQDSLLT 159 Query: 168 RVCPNAT-IVRLEKADDATL--ALQTGRVDAQVLVWLLALNILKKNPALGKMYVPQPLEA 224 + P T IVR + DDAT+ A+ +G+VDA LA I K+NP+ + ++ Sbjct: 160 PIAPKGTNIVRFD--DDATVTAAIISGQVDALCTPNSLASAIAKQNPS-KNLETKFAIKD 216 Query: 225 TSTNIGVPKEEDKAWVETINKWIAAERAAGKI 256 IG+ K E A + +N+WI+A GK+ Sbjct: 217 IPYAIGLRKGE-PALEKWLNEWISANLKNGKL 247 >gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 67.0 bits (162), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 76/270 (28%), Positives = 124/270 (45%), Gaps = 32/270 (11%) Query: 1 MTNRRSFITGVAGLAAATAIPNVFAQAAAATGSTEPTLARVQRTKTLRIGAVRGAAPY-- 58 M+ R++ + V GLAA + A+A A LA +Q+ +RIG + AP+ Sbjct: 3 MSPRKTMLAVVLGLAA---MQGGLARADA--------LADIQKNGVVRIGVPQDFAPFGS 51 Query: 59 YNKDLASGEWGGFMIDFAKSLAASLNVKLDITETTWGNSVLDLQTHKIDLFFGMNPTPAR 118 N DL + G ID A+ +A + VKL + N + LQTHK DL A Sbjct: 52 VNTDL---QLQGLDIDVARLIAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAE 108 Query: 119 RE-VIGFTEPL--FLNAFTVVSKKEFKTWADLNKPEVKIAVDIGSSHDQMISRVCP-NAT 174 RE VI F++P + N+ V+ + ADL V +A G+ D ++ P +AT Sbjct: 109 REKVIDFSQPYAPYNNSVFGVASVKVSGPADLADKTVGVAR--GTFQDLQLTDTAPKSAT 166 Query: 175 IVRLEKADDATLALQTGRVD----AQVLVWLLALNILKKNPALGKMYVPQPLEATSTNIG 230 I R E + A +G+V + + LA P L Y+ ++ ++ N+G Sbjct: 167 IKRYEDNNAMISAYVSGQVQLVGTGDFVAYALAEKAPNNKPVL--KYI---IQESACNVG 221 Query: 231 VPKEEDKAWVETINKWIAAERAAGKIKPTV 260 + K E A + +N+ + A + +G++ V Sbjct: 222 LNKGE-PALLAKVNEALTAAKKSGELNGIV 250 >gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 66.6 bits (161), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 114/243 (46%), Gaps = 24/243 (9%) Query: 27 AAAATGSTEPTLARVQRTKTLRIGAVRGAAPYYN-KDLASGEWGGFMIDFAKSLAASLNV 85 A++ + S L V+ + TL++ A+ G P +N KD +GE GF +D AK LAA L V Sbjct: 19 ASSLSVSAADLLQSVKSSGTLKV-ALEGNYPPFNFKDPKTGELTGFEVDVAKLLAAKLGV 77 Query: 86 KLDITETTWGNSVLDLQTHKIDLFFG-MNPTPARREVIGFTEPLFLNAFTVV----SKKE 140 K T T W + L K D+ + T R++ F++P L++ ++ K+E Sbjct: 78 KPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAFDFSDPYTLSSAQLIVRKDEKRE 137 Query: 141 FKTWADLNKPEVKIAVDIGSSHDQMISRVCPNATIVRLEKADDATLALQTGRVDAQVLVW 200 FK+ DL K+ + G++ +Q ++ P + + + L GR+DA + Sbjct: 138 FKSLEDLKGK--KLGLGQGTNFEQK-AKAVPGIDVRTYPGSPEYLADLAAGRIDAALNDS 194 Query: 201 LLALNILKKNPALGKMYVPQPLEATS-----TNIGVP-KEEDKAWVETINKWIAAERAAG 254 LL ILK PL+A S IG+P ++ + + +NK +A +A G Sbjct: 195 LLVGYILKSTNL--------PLKAGSPIGAVDKIGIPFRKGNPEFKAALNKALADIKADG 246 Query: 255 KIK 257 K Sbjct: 247 SFK 249 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 57.8 bits (138), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 61/221 (27%), Positives = 102/221 (46%), Gaps = 19/221 (8%) Query: 45 KTLRIGAVRGAAPYYNKDLASGEWGGFMIDFAKSLAASLNVKLDITETTWGNSVLDLQTH 104 K LR+ PY KD G ++ A+ +A ++L++ TT N V LQT+ Sbjct: 38 KKLRVAIDLAVPPYSMKD-DKLRLIGSDVETAQRMAKDFGLELEVVPTTLTNRVPYLQTN 96 Query: 105 KIDLFF-GMNPTPARREVIGFTEPLFLNAFTVVSKKEFKTWADLNKPEVKIAVDIGSSHD 163 K D+ + TP R +VI F+ P V + + K + + KI G+++D Sbjct: 97 KADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKKIIATRGTTND 156 Query: 164 QMISRVCPN-ATIVRLEKADDATLALQTGRVDAQVLVW----LLALNILKKNPAL---GK 215 Q ++++ P+ ATI R + DDAT T V Q +W +L + +KNP+ K Sbjct: 157 QELTKIAPSSATITRFD--DDATS--MTAMVSGQADIWATSPMLLKVVNQKNPSRDIESK 212 Query: 216 MYVPQPLEATSTNIGVPKEEDKAWVETINKWIAAERAAGKI 256 + + L A G P+ ++K I+ WI + G++ Sbjct: 213 LTLKANLLAVGLRKGEPRLKEK-----IDGWIRTNLSNGEL 248 >gi|300310886|ref|YP_003774978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 56.2 bits (134), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 61/230 (26%), Positives = 107/230 (46%), Gaps = 13/230 (5%) Query: 37 TLARVQRTKTLRIGAVRGAAPY--YNKDLASGEWGGFMIDFAKSLAASLNVKLDITETTW 94 TLA +Q+ ++IG + APY DL + G ID A+ +A + VK ++ Sbjct: 26 TLADIQKAGVVKIGVPQDFAPYGSVTSDL---QLQGLDIDVARLVAKGMGVKAELVPVPI 82 Query: 95 GNSVLDLQTHKIDLFFGMNPTPARRE-VIGFTEPL--FLNAFTVVSKKEFKTWADLNKPE 151 + + LQTHKIDL A RE VI F++ + N+ V+ + ADL Sbjct: 83 SSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPYNNSVFGVAAIKVAGPADLANQT 142 Query: 152 VKIAVDIGSSHDQMISRVCPNATIV-RLEKADDATLALQTGRVDAQVLVWLLALNILKKN 210 V +A + D M++ P +T++ R E + A +G+V +A + +K Sbjct: 143 VGVARS--TFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVSGQVQLVGTGDFVAYALAEKT 200 Query: 211 PALGKMYVPQPLEATSTNIGVPKEEDKAWVETINKWIAAERAAGKIKPTV 260 PA K + + ++ +G+ K E A + +N+ + A + +G++ V Sbjct: 201 PA-NKPLLKYIINVSTCYVGMNKGE-PALMAKVNEALTASKKSGELNGIV 248 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 0.317 0.132 0.384 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: 873,190 Number of extensions: 34908 Number of successful extensions: 123 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 130 Number of HSP's successfully gapped: 7 Length of query: 281 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 197 Effective length of database: 1,222,130 Effective search space: 240759610 Effective search space used: 240759610 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 (21.7 bits) S2: 130 (54.7 bits)