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= 0027.0012.p (270 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/sign... 509 e-145 gi|300309409|ref|YP_003773501.1| glutamine ABC transporter perip... 206 2e-54 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 116 2e-27 gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signa... 111 7e-26 gi|300311601|ref|YP_003775693.1| glutamine ABC transporter perip... 107 1e-24 >gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 509 bits (1310), Expect = e-145, Method: Compositional matrix adjust. Identities = 261/271 (96%), Positives = 265/271 (97%), Gaps = 1/271 (0%) Query: 1 MIKMFSRHARTLALTAGFVGMLGLAACGKQEDKSAATPAPQAAAA-RVYVVGVESAYAPF 59 MIKMF+RHAR LALTAGFVGMLGLAACGKQEDKSA APQAAA RVYVVGVESAYAPF Sbjct: 1 MIKMFTRHARALALTAGFVGMLGLAACGKQEDKSATAAAPQAAAPARVYVVGVESAYAPF 60 Query: 60 SSENEQKDVVGFDIDVMKALAKKIGIEVKFVPTPFEGFFNFLAQGDRDLLISAITITDER 119 SSENEQKDVVGFDID+MKALAKKIGIEVKFVPTPFEGFFNFLAQGDRDLLISAITITDER Sbjct: 61 SSENEQKDVVGFDIDIMKALAKKIGIEVKFVPTPFEGFFNFLAQGDRDLLISAITITDER 120 Query: 120 KKSVAFSEPYFVATQTIALPAADTKVSKMDDLKPLTVGTQSATSGDELVQQVLGKNSAKI 179 KKSVAFSEPYFVATQTIALPAADTKVSKM+DLKPLTVGTQSATSGDELVQQVLGKNSAKI Sbjct: 121 KKSVAFSEPYFVATQTIALPAADTKVSKMEDLKPLTVGTQSATSGDELVQQVLGKNSAKI 180 Query: 180 KRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTVTDPSFPKEDYGIAVRKD 239 KRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTVTDPSFPKEDYGIAVRKD Sbjct: 181 KRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTVTDPSFPKEDYGIAVRKD 240 Query: 240 DPELLAKINKGLADMKADGSFAAISAQYFGK 270 DPELLAKINKGLA+MKADGSFAAISAQYFGK Sbjct: 241 DPELLAKINKGLAEMKADGSFAAISAQYFGK 271 >gi|300309409|ref|YP_003773501.1| glutamine ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 259 Score = 206 bits (523), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 107/226 (47%), Positives = 148/226 (65%), Gaps = 1/226 (0%) Query: 43 AAARVYVVGVESAYAPFSSENEQKDVVGFDIDVMKALAKKIGIEVKFVPTPFEGFFNFLA 102 AA + YVVG Y PF E +K++VGFDID++KA+++ +++ V TP+EG F L Sbjct: 25 AADQTYVVGAGGTYRPFEFETPKKELVGFDIDLIKAISQASNFKIQLVSTPWEGIFATLG 84 Query: 103 QGDRDLLISAITITDERKKSVAFSEPYFVATQTIALPAADTKVSKMDDLKPLTVGTQSAT 162 QGDRD++IS ITITD+R + V FS PYF A Q I + AD K++ + DLK V ++T Sbjct: 85 QGDRDIIISGITITDKRAQMVDFSLPYFPAEQVI-ITNADAKITSLSDLKKTQVAVVNST 143 Query: 163 SGDELVQQVLGKNSAKIKRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTV 222 +GD +V + LGK S I RFD+T L L+EL GGVDA V D V+K YI ++P K + V Sbjct: 144 AGDIVVSEELGKASTAIHRFDNTVLMLEELYRGGVDAAVGDVGVIKFYIKSHPEKKFKVV 203 Query: 223 TDPSFPKEDYGIAVRKDDPELLAKINKGLADMKADGSFAAISAQYF 268 D F ++ +GIAV+K + ELL KIN GL + ADG++A I +F Sbjct: 204 GDSKFVRQYFGIAVKKGNKELLDKINAGLKKIVADGTYAKIYKTWF 249 >gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 116 bits (291), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 75/222 (33%), Positives = 125/222 (56%), Gaps = 7/222 (3%) Query: 50 VGVESAYAPFSSENEQK-DVVGFDIDVMKALAKKIGIEVKFVPTPFEGFFNFLAQGDRDL 108 V +E Y PF+ ++ + ++ GF++DV K LA K+G++ F T + G L G D+ Sbjct: 41 VALEGNYPPFNFKDPKTGELTGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDV 100 Query: 109 LISAITITDERKKSVAFSEPYFVAT-QTIALPAADTKVSKMDDLKPLTVGTQSATSGDEL 167 +I+ + ITDER+K+ FS+PY +++ Q I + ++DLK +G T+ ++ Sbjct: 101 IINQVGITDERQKAFDFSDPYTLSSAQLIVRKDEKREFKSLEDLKGKKLGLGQGTNFEQK 160 Query: 168 VQQVLGKNSAKIKRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTVTDPSF 227 + V G + ++ + +P L +L +G +DA + D +V YI + N L+ + P Sbjct: 161 AKAVPGID---VRTYPGSPEYLADLAAGRIDAALNDSLLV-GYILKSTNLPLKAGS-PIG 215 Query: 228 PKEDYGIAVRKDDPELLAKINKGLADMKADGSFAAISAQYFG 269 + GI RK +PE A +NK LAD+KADGSF A S ++FG Sbjct: 216 AVDKIGIPFRKGNPEFKAALNKALADIKADGSFKAASEKWFG 257 >gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signal transduction system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 111 bits (277), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 74/228 (32%), Positives = 119/228 (52%), Gaps = 6/228 (2%) Query: 42 AAAARVYVVGVESAYAPFSSENEQKDVVGFDIDVMKALAKKIGIEVKFVPTPFEGFFNFL 101 +A A VV ++A+ PF ++ + VGFDID+ A+AK IG+ K P F G L Sbjct: 22 SARAETLVVACDTAFVPFEFKDRNQ-YVGFDIDLWDAIAKDIGVTYKLQPMDFNGIIPAL 80 Query: 102 AQGDRDLLISAITITDERKKSVAFSEPYFVATQTIALPAADTKVSKMDDLKPLTVGTQSA 161 + D+ ++ ITI DERKK + FS+ Y+ + ++ +P + + + DL + +S Sbjct: 81 QTKNVDVALAGITIKDERKKVIDFSDGYYDSGFSLMVPVG-SSIKSVADLAGKALAVKSG 139 Query: 162 TSGDELVQQVLGKNSAKIKRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRT 221 TS + + + ++ +F + A EL++G VDA + D P V YIA + + Sbjct: 140 TSAFDYAKANF--KATELHQFPNIDNAYLELQTGRVDAAMHDTPNVLYYIATAGKGRAKV 197 Query: 222 VTDPSFPKEDYGIAVRKDDPELLAKINKGLADMKADGSFAAISAQYFG 269 V + YGI K P L+ K+N LA +KADG +A I ++FG Sbjct: 198 VGTQMMAHQ-YGIGFPKGSP-LVPKVNAALAKIKADGRYAEIYRKWFG 243 >gi|300311601|ref|YP_003775693.1| glutamine ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 251 Score = 107 bits (266), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 81/247 (32%), Positives = 123/247 (49%), Gaps = 28/247 (11%) Query: 35 AATPAPQAAAARVYVVGVESAYAPFSSENEQKDVVGFDIDVMKALAKKIGIEVKFVPTPF 94 AA PA A V VG ++ + P + K GFD+++++ALAK +G +V+++ F Sbjct: 20 AAVPAAHANG-EVIRVGTDATFPPMEFVKDGKRT-GFDVELIEALAKTMGKKVQWIDIDF 77 Query: 95 EGFFNFLAQGDRDLLISAITITDERKKSVAFSEPYFVATQTIALPAADTKVSKMDDLK-- 152 +G L D+ SAI +TDER+K V FS+PY+ + + D + +DL Sbjct: 78 KGLIPGLVSNRFDIAASAIYMTDERRKVVNFSDPYYRGGLAVLVRRDDNSIKVPEDLNKG 137 Query: 153 ---PLTVGTQSATS------GDELVQQVLGKNSAKIKRFDSTPLALKELESGGVDAVVAD 203 + VGT+S G E V+ + KN A FD L +G V+AVV Sbjct: 138 KRVSVQVGTKSVGYLKDNFPGVERVE--VEKNQAM---FDL-------LATGRVNAVVTG 185 Query: 204 EPVVKNYIANNPNSKLRTVTDPSFPKEDYGIAVRKDDPELLAKINKGLADMKADGSFAAI 263 P Y P L V D E YG A+RK D EL A++NK L ++ +G++ A+ Sbjct: 186 RPAAVEYARTQP---LVRVLDKGLTTELYGFALRKSDTELTAQLNKALQTLRMNGTYTAL 242 Query: 264 SAQYFGK 270 + ++FGK Sbjct: 243 TDKWFGK 249 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 0.315 0.131 0.362 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: 744,876 Number of extensions: 27832 Number of successful extensions: 125 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 104 Number of HSP's successfully gapped: 17 Length of query: 270 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 186 Effective length of database: 1,222,130 Effective search space: 227316180 Effective search space used: 227316180 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)