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= 0029.0034.p (267 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter peri... 536 e-153 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 198 3e-52 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 154 1e-38 gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 140 1e-34 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 120 1e-28 >gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 536 bits (1380), Expect = e-153, Method: Compositional matrix adjust. Identities = 267/267 (100%), Positives = 267/267 (100%) Query: 1 MSIKKIFNAKFLALTLAAACAVATTASASAQSIADLTKKGKITIGVVSGTPPFGSVDAKG 60 MSIKKIFNAKFLALTLAAACAVATTASASAQSIADLTKKGKITIGVVSGTPPFGSVDAKG Sbjct: 1 MSIKKIFNAKFLALTLAAACAVATTASASAQSIADLTKKGKITIGVVSGTPPFGSVDAKG 60 Query: 61 TPIGYDVDVANLIGKYLGLPVEIVPLVPPARIPALESGKVDMLAATLAPTPERAKSVLFT 120 TPIGYDVDVANLIGKYLGLPVEIVPLVPPARIPALESGKVDMLAATLAPTPERAKSVLFT Sbjct: 61 TPIGYDVDVANLIGKYLGLPVEIVPLVPPARIPALESGKVDMLAATLAPTPERAKSVLFT 120 Query: 121 IPYSGFELSIVAPVGSNYKKLDDLVKKKVGVSRGSTNDTALTRLAPPGTVLVRFEDDSTV 180 IPYSGFELSIVAPVGSNYKKLDDLVKKKVGVSRGSTNDTALTRLAPPGTVLVRFEDDSTV Sbjct: 121 IPYSGFELSIVAPVGSNYKKLDDLVKKKVGVSRGSTNDTALTRLAPPGTVLVRFEDDSTV 180 Query: 181 TQALLSNQVDAISIPNTMANEIVKSRGQGKIEVKFPYSVQPNSMTVRKGSYELQQWLNNF 240 TQALLSNQVDAISIPNTMANEIVKSRGQGKIEVKFPYSVQPNSMTVRKGSYELQQWLNNF Sbjct: 181 TQALLSNQVDAISIPNTMANEIVKSRGQGKIEVKFPYSVQPNSMTVRKGSYELQQWLNNF 240 Query: 241 IYYVKLNGELDAISRKWAGPLPNLPVF 267 IYYVKLNGELDAISRKWAGPLPNLPVF Sbjct: 241 IYYVKLNGELDAISRKWAGPLPNLPVF 267 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 198 bits (504), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 109/262 (41%), Positives = 156/262 (59%), Gaps = 4/262 (1%) Query: 7 FNAKFLALTLAAACAVATTASASAQSIADLTKKGKITIGVVSGTPPFGSVDAKGTPIGYD 66 F K A+ L AC + + AD+ + K+ + + G PPFG +AK P G D Sbjct: 7 FTRKAAAVVLGLACFAQAAHADAL---ADIKARKKVLVAIDLGAPPFGMTNAKLEPQGSD 63 Query: 67 VDVANLIGKYLGLPVEIVPLVPPARIPALESGKVDMLAATLAPTPERAKSVLFTIPYSGF 126 V+ A L+ K LG+ +EIV + P RIP L +GK DM+ ++ + TPER K V FT PY Sbjct: 64 VETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPYGAS 123 Query: 127 ELSIVAPVGSNYKKLDDLVKKKVGVSRGSTNDTALTRLAPPGTVLVRFEDDSTVTQALLS 186 + + AP G N K L+DLV K+V V RG+ D+ LT +AP GT +VRF+DD+TVT A++S Sbjct: 124 QFVVAAPKGENIKSLNDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAAIIS 183 Query: 187 NQVDAISIPNTMANEIVKSRGQGKIEVKFPYSVQPNSMTVRKGSYELQQWLNNFIYYVKL 246 QVDA+ PN++A+ I K +E KF P ++ +RKG L++WLN +I Sbjct: 184 GQVDALCTPNSLASAIAKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWISANLK 243 Query: 247 NGELDAISRKWAG-PLPNLPVF 267 NG+L I ++W G P+P+L F Sbjct: 244 NGKLPGIYQQWVGSPMPDLAQF 265 >gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 154 bits (388), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 89/252 (35%), Positives = 136/252 (53%), Gaps = 1/252 (0%) Query: 12 LALTLAAACAVATTASASAQSIADLTKKGKITIGVVSGTPPFGSVDAKGTPIGYDVDVAN 71 L L L A + + + A A ++ D+ K G + + V + PPFGSVDA P G D+DVA Sbjct: 6 LLLGLMAGAMMFSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLDIDVAT 65 Query: 72 LIGKYLGLPVEIVPLVPPARIPALESGKVDMLAATLAPTPERAKSVLFTIPYSGFELSIV 131 LI K LG+ VE++P+ RIP L + KVD++ +++ ER K + F+ Y+ F + Sbjct: 66 LIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFNGVF 125 Query: 132 APVGSNYKKLDDLVKKKVGVSRGSTNDTALTRLAPPGTVLVRFEDDSTVTQALLSNQVDA 191 P + K DL K + V+RGS D LT++ P + R+ED+++ + LS QV Sbjct: 126 GPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLSGQVQL 185 Query: 192 ISIPNTMANEIVKSRGQGKIEVKFPYSVQPNSMTVRKGSYELQQWLNNFIYYVKLNGELD 251 ++ N +A I+ K E KF P + + KG +LQ ++ + K +G L Sbjct: 186 VATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDGSLS 245 Query: 252 AISRKWAG-PLP 262 AIS+KW G PLP Sbjct: 246 AISQKWLGMPLP 257 >gi|300313886|ref|YP_003777978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 140 bits (352), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 79/236 (33%), Positives = 132/236 (55%), Gaps = 1/236 (0%) Query: 24 TTASASAQSIADLTKKGKITIGVVSGTPPFGSVDAKGTPIGYDVDVANLIGKYLGLPVEI 83 T +A A + D+ K GKI I S TP FG D K G DV+ A L+ + LG+ +++ Sbjct: 22 TAHAALADQLDDIKKAGKIRIATTSSTPLFGYSDEKLQLAGSDVEAARLLAQDLGVQLDL 81 Query: 84 VPLVPPARIPALESGKVDMLAATLAPTPERAKSVLFTIPYSGFELSIVAPVGSNYKKLDD 143 +P+ AR+P L++ + D++ +L+ TPER K + F+ PY+ L I AP K D Sbjct: 82 IPVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAVISLIIGAPKSMVIKDYAD 141 Query: 144 LVKKKVGVSRGSTNDTALTRLAPPGTVLVRFEDDSTVTQALLSNQVDAISIPNTMANEIV 203 L K++GV+R + NDT T+ A G ++R+EDD+T+ ++++ QVD S + E+ Sbjct: 142 LNGKRIGVTRATPNDTLTTQNA-KGAEIMRYEDDATLITSMVTGQVDVFSSTPSNLQEMQ 200 Query: 204 KSRGQGKIEVKFPYSVQPNSMTVRKGSYELQQWLNNFIYYVKLNGELDAISRKWAG 259 K +E+KF + + K L++W++ ++ NG+L+AI +K+ G Sbjct: 201 KKAPGKNLEMKFEQKAFDLGIAINKNQPRLKEWIDGWVKTNMKNGKLNAIYKKYHG 256 >gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 120 bits (301), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 75/236 (31%), Positives = 121/236 (51%), Gaps = 1/236 (0%) Query: 28 ASAQSIADLTKKGKITIGVVSGTPPFGSVDAKGTPIGYDVDVANLIGKYLGLPVEIVPLV 87 A A ++AD+ K G + IGV PFGSV+ G D+DVA LI + +G+ +++VP+ Sbjct: 24 ARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDIDVARLIAQKMGVKLQLVPVA 83 Query: 88 PPARIPALESGKVDMLAATLAPTPERAKSVLFTIPYSGFELSIVAPVGSNYKKLDDLVKK 147 RI L++ K D++ +TL ER K + F+ PY+ + S+ DL K Sbjct: 84 SANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFGVASVKVSGPADLADK 143 Query: 148 KVGVSRGSTNDTALTRLAPPGTVLVRFEDDSTVTQALLSNQVDAISIPNTMANEIVKSRG 207 VGV+RG+ D LT AP + R+ED++ + A +S QV + + +A + + Sbjct: 144 TVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLVGTGDFVAYALAEKAP 203 Query: 208 QGKIEVKFPYSVQPNSMTVRKGSYELQQWLNNFIYYVKLNGELDAISRKWAG-PLP 262 K +K+ ++ + KG L +N + K +GEL+ I +KW PLP Sbjct: 204 NNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELNGIVQKWLNVPLP 259 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 0.316 0.133 0.378 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: 734,478 Number of extensions: 29171 Number of successful extensions: 133 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 124 Number of HSP's successfully gapped: 16 Length of query: 267 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 183 Effective length of database: 1,222,130 Effective search space: 223649790 Effective search space used: 223649790 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 (21.6 bits) S2: 130 (54.7 bits)