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= 0001.4636.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|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 73 2e-14 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 72 4e-14 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 68 8e-13 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 62 5e-11 gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 62 5e-11 >gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 73.2 bits (178), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 119/243 (48%), Gaps = 24/243 (9%) Query: 27 AATASGAAEPTLARVQRTKTLRIGAVRGAAPYYN-KDLASGEWGGFMIDFARSLAASLNV 85 A++ S +A L V+ + TL++ A+ G P +N KD +GE GF +D A+ LAA L V Sbjct: 19 ASSLSVSAADLLQSVKSSGTLKV-ALEGNYPPFNFKDPKTGELTGFEVDVAKLLAAKLGV 77 Query: 86 KLDITETTWGNSVLDLQTHKIDLFFG-MNPTPARREVINFSEPLFLNAFTIV----SKKE 140 K T T W + L K D+ + T R++ +FS+P L++ ++ K+E Sbjct: 78 KPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAFDFSDPYTLSSAQLIVRKDEKRE 137 Query: 141 FKTWADLDKPEVKIGVDIGSSHDQLVSRVCPHATIVRLEKADDATLALQTGRVDAQVLVW 200 FK+ DL K+G+ G++ +Q ++ P + + + L GR+DA + Sbjct: 138 FKSLEDLKGK--KLGLGQGTNFEQ-KAKAVPGIDVRTYPGSPEYLADLAAGRIDAALNDS 194 Query: 201 LLALNILKKNPALGKMTVPQPLEATS-----TNIGLP-KEDDKAWAEAVNKWIAAERAAG 254 LL ILK + PL+A S IG+P ++ + + A+NK +A +A G Sbjct: 195 LLVGYILK--------STNLPLKAGSPIGAVDKIGIPFRKGNPEFKAALNKALADIKADG 246 Query: 255 KIK 257 K Sbjct: 247 SFK 249 >gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 72.4 bits (176), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 77/264 (29%), Positives = 117/264 (44%), Gaps = 20/264 (7%) Query: 1 MSNRRSFITGVAGLAAATAMPKVFAQAATASGAAEPTLARVQRTKTLRIGAVRGAAPY-- 58 MS R++ + V GLAA Q A A LA +Q+ +RIG + AP+ Sbjct: 3 MSPRKTMLAVVLGLAAM--------QGGLARADA---LADIQKNGVVRIGVPQDFAPFGS 51 Query: 59 YNKDLASGEWGGFMIDFARSLAASLNVKLDITETTWGNSVLDLQTHKIDLFFGMNPTPAR 118 N DL + G ID AR +A + VKL + N + LQTHK DL A Sbjct: 52 VNTDL---QLQGLDIDVARLIAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAE 108 Query: 119 RE-VINFSEPLFLNAFTIVSKKEFKTWADLDKPEVKIGVDIGSSHD-QLVSRVCPHATIV 176 RE VI+FS+P ++ K D + +GV G+ D QL ATI Sbjct: 109 REKVIDFSQPYAPYNNSVFGVASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIK 168 Query: 177 RLEKADDATLALQTGRVDAQVLVWLLALNILKKNPALGKMTVPQPLEATSTNIGLPKEDD 236 R E + A +G+V +A + +K P K + ++ ++ N+GL K + Sbjct: 169 RYEDNNAMISAYVSGQVQLVGTGDFVAYALAEKAPN-NKPVLKYIIQESACNVGLNKGEP 227 Query: 237 KAWAEAVNKWIAAERAAGKIKPTV 260 A+ VN+ + A + +G++ V Sbjct: 228 ALLAK-VNEALTAAKKSGELNGIV 250 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 68.2 bits (165), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 65/212 (30%), Positives = 108/212 (50%), Gaps = 12/212 (5%) Query: 51 AVRGAAPYYNKDLASGEWGGFMIDFARSLAASLNVKLDITETTWGNSVLDLQTHKIDLFF 110 A+ AP + A E G ++ AR LA L V+L+I + T N + L T K D+ Sbjct: 42 AIDLGAPPFGMTNAKLEPQGSDVETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVI 101 Query: 111 G-MNPTPARREVINFSEPLFLNAFTIVSKK--EFKTWADLDKPEVKIGVDIGSSHDQLVS 167 + TP R++V+ F++P + F + + K K+ DL ++ V G+ D L++ Sbjct: 102 SSFSITPERQKVVAFTQPYGASQFVVAAPKGENIKSLNDLVGK--RVAVVRGNMQDSLLT 159 Query: 168 RVCPHAT-IVRLEKADDATL--ALQTGRVDAQVLVWLLALNILKKNPALGKMTVPQPLEA 224 + P T IVR + DDAT+ A+ +G+VDA LA I K+NP+ + ++ Sbjct: 160 PIAPKGTNIVRFD--DDATVTAAIISGQVDALCTPNSLASAIAKQNPS-KNLETKFAIKD 216 Query: 225 TSTNIGLPKEDDKAWAEAVNKWIAAERAAGKI 256 IGL ++ + A + +N+WI+A GK+ Sbjct: 217 IPYAIGL-RKGEPALEKWLNEWISANLKNGKL 247 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 62.0 bits (149), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 63/221 (28%), Positives = 101/221 (45%), Gaps = 19/221 (8%) Query: 45 KTLRIGAVRGAAPYYNKDLASGEWGGFMIDFARSLAASLNVKLDITETTWGNSVLDLQTH 104 K LR+ PY KD G ++ A+ +A ++L++ TT N V LQT+ Sbjct: 38 KKLRVAIDLAVPPYSMKD-DKLRLIGSDVETAQRMAKDFGLELEVVPTTLTNRVPYLQTN 96 Query: 105 KIDLFF-GMNPTPARREVINFSEPLFLNAFTIVSKKEFKTWADLDKPEVKIGVDIGSSHD 163 K D+ + TP R +VI+FS P + + + K + D KI G+++D Sbjct: 97 KADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKKIIATRGTTND 156 Query: 164 QLVSRVCP-HATIVRLEKADDATLALQTGRVDAQVLVWLLALNILK----KNPAL---GK 215 Q ++++ P ATI R + DDAT T V Q +W + +LK KNP+ K Sbjct: 157 QELTKIAPSSATITRFD--DDAT--SMTAMVSGQADIWATSPMLLKVVNQKNPSRDIESK 212 Query: 216 MTVPQPLEATSTNIGLPKEDDKAWAEAVNKWIAAERAAGKI 256 +T+ L A G P+ E ++ WI + G++ Sbjct: 213 LTLKANLLAVGLRKGEPR-----LKEKIDGWIRTNLSNGEL 248 >gi|300313886|ref|YP_003777978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 62.0 bits (149), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 54/171 (31%), Positives = 86/171 (50%), Gaps = 10/171 (5%) Query: 29 TASGAAEPTLARVQRTKTLRIGAVRGAAPYYNKDLASGEWGGFMIDFARSLAASLNVKLD 88 TA A L +++ +RI A + P + + G ++ AR LA L V+LD Sbjct: 22 TAHAALADQLDDIKKAGKIRI-ATTSSTPLFGYSDEKLQLAGSDVEAARLLAQDLGVQLD 80 Query: 89 ITETTWGNSVLDLQTHKIDLFFG-MNPTPARREVINFSEPLFLNAFTIVSKKEF--KTWA 145 + V LQ ++ D+ G ++ TP R +VI+FS P + + I + K K +A Sbjct: 81 LIPVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAVISLIIGAPKSMVIKDYA 140 Query: 146 DLDKPEVKIGVDIGSSHDQLVSRVCPHATIVRLEKADDATL--ALQTGRVD 194 DL+ +IGV + +D L ++ A I+R E DDATL ++ TG+VD Sbjct: 141 DLNGK--RIGVTRATPNDTLTTQNAKGAEIMRYE--DDATLITSMVTGQVD 187 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 0.131 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: 875,295 Number of extensions: 34818 Number of successful extensions: 143 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 145 Number of HSP's successfully gapped: 9 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)