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= 0001.4176.p (247 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313611|ref|YP_003777703.1| amino acid ABC transporter perm... 482 e-137 gi|300309410|ref|YP_003773502.1| glutamine ABC transporter perme... 296 9e-82 gi|300311471|ref|YP_003775563.1| amino acid ABC transporter perm... 135 4e-33 gi|300312812|ref|YP_003776904.1| glutamate/aspartate ABC transpo... 124 1e-29 gi|300310495|ref|YP_003774587.1| amino acid ABC transporter perm... 120 1e-28 >gi|300313611|ref|YP_003777703.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 247 Score = 482 bits (1240), Expect = e-137, Method: Compositional matrix adjust. Identities = 238/247 (96%), Positives = 243/247 (98%) Query: 1 MDFRWSIIQGYAPLFAKGVLMTLQVSLVSILIGTVIGLLVGMLRLAEVQHGPWKWPTRLM 60 MDFRWSIIQGYAPLFAKGVLMTLQVSL+SILIGTVIGLLVGMLRLAEVQHGPWKWP + M Sbjct: 1 MDFRWSIIQGYAPLFAKGVLMTLQVSLISILIGTVIGLLVGMLRLAEVQHGPWKWPLKSM 60 Query: 61 RWLAGLYVAFFRGTPLFVQIMLIHFAVMPLLVQQEHGLLITGELARTIKQDYGAFLSGTV 120 RWLAG YVAFFRGTPLFVQIMLIHFAVMP+LVQQEHGLLITGELARTIKQDYGAFLSGTV Sbjct: 61 RWLAGFYVAFFRGTPLFVQIMLIHFAVMPVLVQQEHGLLITGELARTIKQDYGAFLSGTV 120 Query: 121 ALSLNAGAYISEIFRAGIQSIERGQSYAAASLGMNYGLTMRYVVLPQAFRRMLPPLGNEA 180 ALSLNAGAYISEIFRAGIQSIERGQSYAAASLGMNYGLTMRYVVLPQAFRRMLPPLGNEA Sbjct: 121 ALSLNAGAYISEIFRAGIQSIERGQSYAAASLGMNYGLTMRYVVLPQAFRRMLPPLGNEA 180 Query: 181 ITLLKDSSLVSAIGLAELAYAARTVAGTYARYWEPYITISVLYFSMTICLALLVARLENK 240 ITLLKDSSLVSAIGLAELAYAARTVAGTYARYWEPYITISVLYFSMTICLAL+VARLE+K Sbjct: 181 ITLLKDSSLVSAIGLAELAYAARTVAGTYARYWEPYITISVLYFSMTICLALVVARLESK 240 Query: 241 YRAPHRR 247 Y APHRR Sbjct: 241 YSAPHRR 247 >gi|300309410|ref|YP_003773502.1| glutamine ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 250 Score = 296 bits (759), Expect = 9e-82, Method: Compositional matrix adjust. Identities = 146/240 (60%), Positives = 190/240 (79%), Gaps = 1/240 (0%) Query: 3 FRWSIIQGYAPLFAKGVLMTLQVSLVSILIGTVIGLLVGMLRLAEVQHGPWKW-PTRLMR 61 F+W II Y PLF +G MTL+ +++ ++ GT GL++G+ RLAE +HG WK+ ++ Sbjct: 5 FQWEIIGEYLPLFVEGTWMTLKAAIICVIAGTCWGLVLGVGRLAEARHGFWKYFLCYCVQ 64 Query: 62 WLAGLYVAFFRGTPLFVQIMLIHFAVMPLLVQQEHGLLITGELARTIKQDYGAFLSGTVA 121 W YV+F RGTPLFVQI+LIHFA+MP+L+ GL+++G+LAR I+ YGAF S +A Sbjct: 65 WPIRFYVSFLRGTPLFVQILLIHFALMPMLINPSGGLILSGDLAREIRSHYGAFASAVLA 124 Query: 122 LSLNAGAYISEIFRAGIQSIERGQSYAAASLGMNYGLTMRYVVLPQAFRRMLPPLGNEAI 181 ++LN+GAY+SEIFRAGIQSI+RGQS A+ SLGM+Y T+R VVLPQAFRRMLPPLGN AI Sbjct: 125 ITLNSGAYVSEIFRAGIQSIDRGQSEASRSLGMSYLATLRRVVLPQAFRRMLPPLGNNAI 184 Query: 182 TLLKDSSLVSAIGLAELAYAARTVAGTYARYWEPYITISVLYFSMTICLALLVARLENKY 241 ++KDSSL SAIGLAELAYAARTV+G YARYWEPY+TISV+Y+ +T+ L+ LV LE +Y Sbjct: 185 AIVKDSSLASAIGLAELAYAARTVSGAYARYWEPYLTISVIYWLITLALSALVRHLEARY 244 >gi|300311471|ref|YP_003775563.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 221 Score = 135 bits (339), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 85/241 (35%), Positives = 130/241 (53%), Gaps = 27/241 (11%) Query: 6 SIIQGYAPLFAKGVLMTLQVSLVSILIGTVIGLLVGMLRLAEVQHGPWKWPTRLMRWLAG 65 ++Q AP AKGV TL +L S+L G V+G ++ + R+ PW R + W A Sbjct: 7 ELLQQAAPTLAKGVGYTLLFALASMLGGLVLGFVLAVARIV-----PW----RPIHWPAA 57 Query: 66 LYVAFFRGTPLFVQIMLIHFAVMPLLVQQEHGLLITGELARTIKQDYGAFLSGTVALSLN 125 +YV+ RGTPL VQI ++++ + G+ I ++ +G + LSLN Sbjct: 58 IYVSMMRGTPLLVQIFVVYYGL--------PGMGI----------EFSPLTAGVLTLSLN 99 Query: 126 AGAYISEIFRAGIQSIERGQSYAAASLGMNYGLTMRYVVLPQAFRRMLPPLGNEAITLLK 185 A AY+SE R I + RGQ AA S+G+ Y T+RY+++PQA R +P + N I+L+K Sbjct: 100 ASAYLSESLRGAILGVTRGQWNAAFSVGLTYFQTLRYIIVPQAVRIAVPSMSNTLISLIK 159 Query: 186 DSSLVSAIGLAELAYAARTVAGTYARYWEPYITISVLYFSMTICLALLVARLENKYRAPH 245 D+SLVS I + EL A + V R Y+ + +Y+ +++C L RLE K H Sbjct: 160 DTSLVSVITVTELMLATKEVIAVTFRPLPLYVAAAAIYWMLSLCFEALQHRLEKKLGKAH 219 Query: 246 R 246 + Sbjct: 220 Q 220 >gi|300312812|ref|YP_003776904.1| glutamate/aspartate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 227 Score = 124 bits (310), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 82/224 (36%), Positives = 121/224 (54%), Gaps = 19/224 (8%) Query: 17 KGVLMTLQVSLVSILIGTVIGLLVGMLRLAEVQHGPWKWPTRLMRWLAGLYVAFFRGTPL 76 G+L++L+++LV+I+ G V G L+ M+RL+ +H P ++W A YV FR PL Sbjct: 20 DGLLVSLKITLVAIVFGMVWGTLLAMMRLS--RHSP-------LQWFAAGYVNLFRSIPL 70 Query: 77 FVQIMLIHFAVMPLLVQQEHGLLITGELARTIKQDYGAFLSGTVALSLNAGAYISEIFRA 136 V ++L F ++P L+Q+ GL +L T S VA +L AY +EI RA Sbjct: 71 -VMVLLWFFLIVPQLLQKLFGLSPANDLRMT---------SALVAFALFEAAYYAEIIRA 120 Query: 137 GIQSIERGQSYAAASLGMNYGLTMRYVVLPQAFRRMLPPLGNEAITLLKDSSLVSAIGLA 196 GI S+ RGQ AA +LG+ Y M V+LPQAFR M+P L + I L +D+SLV LA Sbjct: 121 GINSVSRGQMAAAYALGLTYPQAMGMVILPQAFRNMVPLLLTQGIVLFQDTSLVYVSALA 180 Query: 197 ELAYAARTVAGTYARYWEPYITISVLYFSMTICLALLVARLENK 240 + A ++ R E +YF + ++L+V R K Sbjct: 181 DFFGRAYSIGERNGRIIEMLFVAGAVYFIICFSMSLMVKRYRKK 224 >gi|300310495|ref|YP_003774587.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 218 Score = 120 bits (300), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 83/228 (36%), Positives = 126/228 (55%), Gaps = 27/228 (11%) Query: 11 YAPLFAKGVLMTLQVSLVSILIGTVIGLLVGMLRLAEVQHGPWKWPTRLMRWLAGLYVAF 70 + P+ KG L+T++V++ S L+ +VIGLL+ +++++ ++ T V Sbjct: 9 FLPILLKGALVTVEVTIYSFLLSSVIGLLLALMKVSRLKPVALAGAT---------IVNI 59 Query: 71 FRGTPLFVQIMLIHFAVMPLLVQQEHGLLITGELARTIKQDYGAFLSGTVALSLNAGAYI 130 RG P+ VQ+ I+F V+P I AF +G V L + AY Sbjct: 60 IRGLPIIVQLFYIYF-VLP-----------------DIGIQLSAFQAGVVGLGIAYSAYQ 101 Query: 131 SEIFRAGIQSIERGQSYAAASLGMNYGLTMRYVVLPQAFRRMLPPLGNEAITLLKDSSLV 190 +E FRAGI++++ GQ AA S+GM L MR VVLPQAFR LPP GN + +LKDSSLV Sbjct: 102 AENFRAGIEAVDMGQIEAAQSIGMRGPLIMRRVVLPQAFRIALPPYGNTLVMMLKDSSLV 161 Query: 191 SAIGLAELAYAARTVAGTYARYWEPYITISVLYFSMTICLALLVARLE 238 S I + E+ A + +A + + Y T++VLY +++ L L+ RLE Sbjct: 162 STITVLEMTRAGQMIASSTFQNMTVYTTVAVLYLLLSLPLVFLIRRLE 209 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 0.328 0.140 0.424 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: 749,918 Number of extensions: 30562 Number of successful extensions: 230 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 203 Number of HSP's successfully gapped: 19 Length of query: 247 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 164 Effective length of database: 1,226,865 Effective search space: 201205860 Effective search space used: 201205860 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 129 (54.3 bits)