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= 0022.0029.p (299 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... 67 2e-12 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 63 3e-11 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 55 5e-09 gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter peri... 55 5e-09 gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 55 9e-09 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 66.6 bits (161), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 59/205 (28%), Positives = 102/205 (49%), Gaps = 6/205 (2%) Query: 53 APYYNKDLASGEWVGFMVDFAKNLAASLNVKLEVLETTWGNSVLDLQTRKID-VFFGLNP 111 AP + A E G V+ A+ LA L V+LE+++ T N + L T K D V + Sbjct: 47 APPFGMTNAKLEPQGSDVETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSI 106 Query: 112 TPARRETVGFSEPLFNNAFTIVSKKGFAPKTWEELNKPEVKIGVDIGSSHDAMISRVCPK 171 TP R++ V F++P + F + + KG K+ +L ++ V G+ D++++ + PK Sbjct: 107 TPERQKVVAFTQPYGASQFVVAAPKGENIKSLNDLVGK--RVAVVRGNMQDSLLTPIAPK 164 Query: 172 AT-IVRLEKADDATLALQTGRVDVQVLVWLLALNVLKKNPSLGTMIVPMPLEATSTNIGV 230 T IVR + T A+ +G+VD LA + K+NPS + ++ IG+ Sbjct: 165 GTNIVRFDDDATVTAAIISGQVDALCTPNSLASAIAKQNPS-KNLETKFAIKDIPYAIGL 223 Query: 231 PKEDDKAWLDYINKWIVQERAAGKV 255 ++ + A ++N+WI GK+ Sbjct: 224 -RKGEPALEKWLNEWISANLKNGKL 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 = 63.2 bits (152), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 69/266 (25%), Positives = 124/266 (46%), Gaps = 25/266 (9%) Query: 1 MQNRRRFITNVAGLAAAGYLPGVFAQSAPGAESTFARIKRTKVLRIGGVRGQAPY--YNK 58 M R+ + V GLAA + G A++ A I++ V+RIG + AP+ N Sbjct: 3 MSPRKTMLAVVLGLAA---MQGGLARA-----DALADIQKNGVVRIGVPQDFAPFGSVNT 54 Query: 59 DLASGEWVGFMVDFAKNLAASLNVKLEVLETTWGNSVLDLQTRKIDVFFG-LNPTPARRE 117 DL + G +D A+ +A + VKL+++ N + LQT K D+ L R + Sbjct: 55 DL---QLQGLDIDVARLIAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREK 111 Query: 118 TVGFSEPL--FNNA-FTIVSKKGFAPKTWEELNKPEVKIGVDIGSSHDAMISRVCPK-AT 173 + FS+P +NN+ F + S K P + +GV G+ D ++ PK AT Sbjct: 112 VIDFSQPYAPYNNSVFGVASVKVSGPADLADKT-----VGVARGTFQDLQLTDTAPKSAT 166 Query: 174 IVRLEKADDATLALQTGRVDVQVLVWLLALNVLKKNPSLGTMIVPMPLEATSTNIGVPKE 233 I R E + A +G+V + +A + +K P+ ++ ++ ++ N+G+ K Sbjct: 167 IKRYEDNNAMISAYVSGQVQLVGTGDFVAYALAEKAPN-NKPVLKYIIQESACNVGLNK- 224 Query: 234 DDKAWLDYINKWIVQERAAGKVKSTV 259 + A L +N+ + + +G++ V Sbjct: 225 GEPALLAKVNEALTAAKKSGELNGIV 250 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 55.5 bits (132), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 54/177 (30%), Positives = 88/177 (49%), Gaps = 15/177 (8%) Query: 42 KVLRIGGVRGQAPYYNKDLASGEWVGFMVDFAKNLAASLNVKLEVLETTWGNSVLDLQTR 101 K LR+ PY KD +G V+ A+ +A ++LEV+ TT N V LQT Sbjct: 38 KKLRVAIDLAVPPYSMKD-DKLRLIGSDVETAQRMAKDFGLELEVVPTTLTNRVPYLQTN 96 Query: 102 KIDVFF-GLNPTPARRETVGFSEPLFNNAFTIVSKKGFAPKTWEELNKPEV---KIGVDI 157 K D+ + TP R + + FS P + +V AP++ + + ++ KI Sbjct: 97 KADIVISAFSITPERAKVIDFSVP-YAPILVVVG----APRSMKITSPADLAGKKIIATR 151 Query: 158 GSSHDAMISRVCP-KATIVRLEKADDAT--LALQTGRVDVQVLVWLLALNVLKKNPS 211 G+++D ++++ P ATI R + DDAT A+ +G+ D+ +L V +KNPS Sbjct: 152 GTTNDQELTKIAPSSATITRFD--DDATSMTAMVSGQADIWATSPMLLKVVNQKNPS 206 >gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 55.5 bits (132), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 46/162 (28%), Positives = 81/162 (50%), Gaps = 5/162 (3%) Query: 34 TFARIKRTKVLRIGGVRGQAPYYNKDLASGEWVGFMVDFAKNLAASLNVKLEVLETTWGN 93 + A + + + IG V G P+ + D A G +G+ VD A + L + +E++ Sbjct: 32 SIADLTKKGKITIGVVSGTPPFGSVD-AKGTPIGYDVDVANLIGKYLGLPVEIVPLVPPA 90 Query: 94 SVLDLQTRKIDVFFG-LNPTPARRETVGFSEPLFNNAFTIVSKKGFAPKTWEELNKPEVK 152 + L++ K+D+ L PTP R ++V F+ P +IV+ G + + + K Sbjct: 91 RIPALESGKVDMLAATLAPTPERAKSVLFTIPYSGFELSIVAPVG--SNYKKLDDLVKKK 148 Query: 153 IGVDIGSSHDAMISRVCPKATI-VRLEKADDATLALQTGRVD 193 +GV GS++D ++R+ P T+ VR E T AL + +VD Sbjct: 149 VGVSRGSTNDTALTRLAPPGTVLVRFEDDSTVTQALLSNQVD 190 >gi|300313886|ref|YP_003777978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 54.7 bits (130), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 48/160 (30%), Positives = 77/160 (48%), Gaps = 8/160 (5%) Query: 38 IKRTKVLRIGGVRGQAPYYNKDLASGEWVGFMVDFAKNLAASLNVKLEVLETTWGNSVLD 97 IK+ +RI P + + G V+ A+ LA L V+L+++ V Sbjct: 34 IKKAGKIRIA-TTSSTPLFGYSDEKLQLAGSDVEAARLLAQDLGVQLDLIPVANAARVPT 92 Query: 98 LQTRKIDVFFG-LNPTPARRETVGFSEPLFNNAFTIVSKKGFAPKTWEELNKPEVKIGVD 156 LQ + D+ G L+ TP R + + FS P + I + K K + +LN +IGV Sbjct: 93 LQANRADIVVGSLSITPERLKVIDFSTPYAVISLIIGAPKSMVIKDYADLNGK--RIGVT 150 Query: 157 IGSSHDAMISRVCPKATIVRLEKADDATL--ALQTGRVDV 194 + +D + ++ A I+R E DDATL ++ TG+VDV Sbjct: 151 RATPNDTLTTQNAKGAEIMRYE--DDATLITSMVTGQVDV 188 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 0.135 0.403 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: 852,375 Number of extensions: 32952 Number of successful extensions: 128 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 135 Number of HSP's successfully gapped: 6 Length of query: 299 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 214 Effective length of database: 1,217,395 Effective search space: 260522530 Effective search space used: 260522530 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)