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= 0001.0075.p (259 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309409|ref|YP_003773501.1| glutamine ABC transporter perip... 480 e-137 gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/sign... 204 4e-54 gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signa... 125 3e-30 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 102 2e-23 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 84 1e-17 >gi|300309409|ref|YP_003773501.1| glutamine ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 259 Score = 480 bits (1235), Expect = e-137, Method: Compositional matrix adjust. Identities = 247/259 (95%), Positives = 256/259 (98%) Query: 1 MSIKKLFTIAASALALSCAAGTTLAADQTYVVGAGGTYRPFEFETPKKELVGFDIDLIKA 60 MS+KKL T AASALALSCAAGT LAADQTYVVGAGGTYRPFEFETPKKELVGFDIDLIKA Sbjct: 1 MSLKKLLTTAASALALSCAAGTALAADQTYVVGAGGTYRPFEFETPKKELVGFDIDLIKA 60 Query: 61 ISKASNFKIQLVSTPWEGIFATLGQGDRDIIISGITITDKRSQMVDFSLPYFPAEQVIIT 120 IS+ASNFKIQLVSTPWEGIFATLGQGDRDIIISGITITDKR+QMVDFSLPYFPAEQVIIT Sbjct: 61 ISQASNFKIQLVSTPWEGIFATLGQGDRDIIISGITITDKRAQMVDFSLPYFPAEQVIIT 120 Query: 121 NADAKITALADLKKSQVAVVNSTAGDIVVSEELGKASTAIHRFDNTVLMLEELYRGGVDA 180 NADAKIT+L+DLKK+QVAVVNSTAGDIVVSEELGKASTAIHRFDNTVLMLEELYRGGVDA Sbjct: 121 NADAKITSLSDLKKTQVAVVNSTAGDIVVSEELGKASTAIHRFDNTVLMLEELYRGGVDA 180 Query: 181 AVGDVGVIKFYIKSHPEKQFKVVGDSKFVRQYFGIAVKKGNKELLDKINAGLKQIVADGT 240 AVGDVGVIKFYIKSHPEK+FKVVGDSKFVRQYFGIAVKKGNKELLDKINAGLK+IVADGT Sbjct: 181 AVGDVGVIKFYIKSHPEKKFKVVGDSKFVRQYFGIAVKKGNKELLDKINAGLKKIVADGT 240 Query: 241 YAKIYKTWFDGEVPTLPLK 259 YAKIYKTWFDG+VPTLPLK Sbjct: 241 YAKIYKTWFDGDVPTLPLK 259 >gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 204 bits (520), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 105/223 (47%), Positives = 147/223 (65%), Gaps = 1/223 (0%) Query: 28 QTYVVGAGGTYRPFEFETPKKELVGFDIDLIKAISKASNFKIQLVSTPWEGIFATLGQGD 87 + YVVG Y PF E +K++VGFDID++KA++K +++ V TP+EG F L QGD Sbjct: 47 RVYVVGVESAYAPFSSENEQKDVVGFDIDIMKALAKKIGIEVKFVPTPFEGFFNFLAQGD 106 Query: 88 RDIIISGITITDKRSQMVDFSLPYFPAEQVI-ITNADAKITALADLKKSQVAVVNSTAGD 146 RD++IS ITITD+R + V FS PYF A Q I + AD K++ + DLK V ++T+GD Sbjct: 107 RDLLISAITITDERKKSVAFSEPYFVATQTIALPAADTKVSKMEDLKPLTVGTQSATSGD 166 Query: 147 IVVSEELGKASTAIHRFDNTVLMLEELYRGGVDAAVGDVGVIKFYIKSHPEKQFKVVGDS 206 +V + LGK S I RFD+T L L+EL GGVDA V D V+K YI ++P + + V D Sbjct: 167 ELVQQVLGKNSAKIKRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTVTDP 226 Query: 207 KFVRQYFGIAVKKGNKELLDKINAGLKQIVADGTYAKIYKTWF 249 F ++ +GIAV+K + ELL KIN GL ++ ADG++A I +F Sbjct: 227 SFPKEDYGIAVRKDDPELLAKINKGLAEMKADGSFAAISAQYF 269 >gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signal transduction system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 125 bits (314), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 88/247 (35%), Positives = 133/247 (53%), Gaps = 13/247 (5%) Query: 11 ASALALSCAAGTTLAADQTYVVGAGGTYRPFEFETPKKELVGFDIDLIKAISKASNFKIQ 70 AS +ALS + A +T VV + PFEF+ + + VGFDIDL AI+K + Sbjct: 11 ASLVALSVVGASARA--ETLVVACDTAFVPFEFKD-RNQYVGFDIDLWDAIAKDIGVTYK 67 Query: 71 LVSTPWEGIFATLGQGDRDIIISGITITDKRSQMVDFSLPYFPAEQVIITNADAKITALA 130 L + GI L + D+ ++GITI D+R +++DFS Y+ + ++ + I ++A Sbjct: 68 LQPMDFNGIIPALQTKNVDVALAGITIKDERKKVIDFSDGYYDSGFSLMVPVGSSIKSVA 127 Query: 131 DLKKSQVAVVNSTAGDIVVSEELGKA---STAIHRFDNTVLMLEELYRGGVDAAVGDVGV 187 DL +AV + T+ + + KA +T +H+F N EL G VDAA+ D Sbjct: 128 DLAGKALAVKSGTS-----AFDYAKANFKATELHQFPNIDNAYLELQTGRVDAAMHDTPN 182 Query: 188 IKFYIKSHPEKQFKVVGDSKFVRQYFGIAVKKGNKELLDKINAGLKQIVADGTYAKIYKT 247 + +YI + + + KVVG QY GI KG+ L+ K+NA L +I ADG YA+IY+ Sbjct: 183 VLYYIATAGKGRAKVVGTQMMAHQY-GIGFPKGS-PLVPKVNAALAKIKADGRYAEIYRK 240 Query: 248 WFDGEVP 254 WF E P Sbjct: 241 WFGAEPP 247 >gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 102 bits (255), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 81/257 (31%), Positives = 123/257 (47%), Gaps = 17/257 (6%) Query: 9 IAASALALSCA-AGTTLAADQTYVVGAGGTYRPFEFETPKK-ELVGFDIDLIKAISKASN 66 + AS+L++S A ++ + T V G Y PF F+ PK EL GF++D+ K ++ Sbjct: 17 LLASSLSVSAADLLQSVKSSGTLKVALEGNYPPFNFKDPKTGELTGFEVDVAKLLAAKLG 76 Query: 67 FKIQLVSTPWEGIFATLGQGDRDIIISGITITDKRSQMVDFSLPYFPAEQVIITNADAK- 125 K +T W GI A LG G D+II+ + ITD+R + DFS PY + +I D K Sbjct: 77 VKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAFDFSDPYTLSSAQLIVRKDEKR 136 Query: 126 -ITALADLKKSQVAVVNSTAGDIVVSEELGKASTAI--HRFDNTVLMLEELYRGGVDAAV 182 +L DLK ++ + T E+ KA I + + L +L G +DAA+ Sbjct: 137 EFKSLEDLKGKKLGLGQGTN-----FEQKAKAVPGIDVRTYPGSPEYLADLAAGRIDAAL 191 Query: 183 GDVGVIKFYIKSH--PEKQFKVVGDSKFVRQYFGIAVKKGNKELLDKINAGLKQIVADGT 240 D ++ + +KS P K +G GI +KGN E +N L I ADG+ Sbjct: 192 NDSLLVGYILKSTNLPLKAGSPIG----AVDKIGIPFRKGNPEFKAALNKALADIKADGS 247 Query: 241 YAKIYKTWFDGEVPTLP 257 + + WF +V P Sbjct: 248 FKAASEKWFGIDVSQPP 264 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 83.6 bits (205), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 53/217 (24%), Positives = 105/217 (48%), Gaps = 7/217 (3%) Query: 40 PFEFETPKKELVGFDIDLIKAISKASNFKIQLVSTPWEGIFATLGQGDRDIIISGITITD 99 P+ + K L+G D++ + ++K ++++V T L DI+IS +IT Sbjct: 50 PYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTLTNRVPYLQTNKADIVISAFSITP 109 Query: 100 KRSQMVDFSLPYFPAEQVIITNADAKITALADLKKSQVAVVNSTAGDIVVSEELGKASTA 159 +R++++DFS+PY P V+ KIT+ ADL ++ T D ++ ++ +S Sbjct: 110 ERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKKIIATRGTTNDQELT-KIAPSSAT 168 Query: 160 IHRFDNTVLMLEELYRGGVDAAVGDVGVIKFYIKSHPEKQFKVVGDSKFVRQ--YFGIAV 217 I RFD+ + + G D ++K + +P + +SK + + + Sbjct: 169 ITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQKNPSRDI----ESKLTLKANLLAVGL 224 Query: 218 KKGNKELLDKINAGLKQIVADGTYAKIYKTWFDGEVP 254 +KG L +KI+ ++ +++G IYK + + E+P Sbjct: 225 RKGEPRLKEKIDGWIRTNLSNGELNTIYKKYHEAELP 261 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 0.136 0.382 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: 651,882 Number of extensions: 22933 Number of successful extensions: 98 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 84 Number of HSP's successfully gapped: 15 Length of query: 259 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 176 Effective length of database: 1,226,865 Effective search space: 215928240 Effective search space used: 215928240 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 (21.7 bits) S2: 129 (54.3 bits)