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= 0001.4175.p (268 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... 505 e-144 gi|300309409|ref|YP_003773501.1| glutamine ABC transporter perip... 206 2e-54 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 118 6e-28 gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signa... 114 1e-26 gi|300311601|ref|YP_003775693.1| glutamine ABC transporter perip... 110 2e-25 >gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 505 bits (1301), Expect = e-144, Method: Compositional matrix adjust. Identities = 255/271 (94%), Positives = 262/271 (96%), Gaps = 3/271 (1%) Query: 1 MIKMFSRHVRALALTAGFVGMLGLAACGKQEDQSAAAPQAAAA---RVYVVGVESAYAPF 57 MIKMF+RH RALALTAGFVGMLGLAACGKQED+SA A AA RVYVVGVESAYAPF Sbjct: 1 MIKMFTRHARALALTAGFVGMLGLAACGKQEDKSATAAAPQAAAPARVYVVGVESAYAPF 60 Query: 58 SSENEQKDVVGFDIDVMKALAKKIGIQVKFVPTPFEGFFNFLAQGDRDLLISAITITDER 117 SSENEQKDVVGFDID+MKALAKKIGI+VKFVPTPFEGFFNFLAQGDRDLLISAITITDER Sbjct: 61 SSENEQKDVVGFDIDIMKALAKKIGIEVKFVPTPFEGFFNFLAQGDRDLLISAITITDER 120 Query: 118 KKSVAFSDPYFVATQTIALPAADTKVNKMEDLKPLTVGTQSATSGDELVQQVLGKNSAKI 177 KKSVAFS+PYFVATQTIALPAADTKV+KMEDLKPLTVGTQSATSGDELVQQVLGKNSAKI Sbjct: 121 KKSVAFSEPYFVATQTIALPAADTKVSKMEDLKPLTVGTQSATSGDELVQQVLGKNSAKI 180 Query: 178 KRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTVTDPNFPKEDYGIAVRKD 237 KRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTVTDP+FPKEDYGIAVRKD Sbjct: 181 KRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTVTDPSFPKEDYGIAVRKD 240 Query: 238 DPELLAKINKGLAEMKADGSFAAISAQYFGK 268 DPELLAKINKGLAEMKADGSFAAISAQYFGK Sbjct: 241 DPELLAKINKGLAEMKADGSFAAISAQYFGK 271 >gi|300309409|ref|YP_003773501.1| glutamine ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 259 Score = 206 bits (524), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 107/226 (47%), Positives = 148/226 (65%), Gaps = 1/226 (0%) Query: 41 AAARVYVVGVESAYAPFSSENEQKDVVGFDIDVMKALAKKIGIQVKFVPTPFEGFFNFLA 100 AA + YVVG Y PF E +K++VGFDID++KA+++ +++ V TP+EG F L Sbjct: 25 AADQTYVVGAGGTYRPFEFETPKKELVGFDIDLIKAISQASNFKIQLVSTPWEGIFATLG 84 Query: 101 QGDRDLLISAITITDERKKSVAFSDPYFVATQTIALPAADTKVNKMEDLKPLTVGTQSAT 160 QGDRD++IS ITITD+R + V FS PYF A Q I + AD K+ + DLK V ++T Sbjct: 85 QGDRDIIISGITITDKRAQMVDFSLPYFPAEQVI-ITNADAKITSLSDLKKTQVAVVNST 143 Query: 161 SGDELVQQVLGKNSAKIKRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTV 220 +GD +V + LGK S I RFD+T L L+EL GGVDA V D V+K YI ++P K + V Sbjct: 144 AGDIVVSEELGKASTAIHRFDNTVLMLEELYRGGVDAAVGDVGVIKFYIKSHPEKKFKVV 203 Query: 221 TDPNFPKEDYGIAVRKDDPELLAKINKGLAEMKADGSFAAISAQYF 266 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 = 118 bits (295), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 76/222 (34%), Positives = 125/222 (56%), Gaps = 7/222 (3%) Query: 48 VGVESAYAPFSSENEQK-DVVGFDIDVMKALAKKIGIQVKFVPTPFEGFFNFLAQGDRDL 106 V +E Y PF+ ++ + ++ GF++DV K LA K+G++ F T + G L G D+ Sbjct: 41 VALEGNYPPFNFKDPKTGELTGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDV 100 Query: 107 LISAITITDERKKSVAFSDPYFVAT-QTIALPAADTKVNKMEDLKPLTVGTQSATSGDEL 165 +I+ + ITDER+K+ FSDPY +++ Q I + +EDLK +G T+ ++ Sbjct: 101 IINQVGITDERQKAFDFSDPYTLSSAQLIVRKDEKREFKSLEDLKGKKLGLGQGTNFEQK 160 Query: 166 VQQVLGKNSAKIKRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTVTDPNF 225 + V G + ++ + +P L +L +G +DA + D +V YI + N L+ + P Sbjct: 161 AKAVPGID---VRTYPGSPEYLADLAAGRIDAALNDSLLV-GYILKSTNLPLKAGS-PIG 215 Query: 226 PKEDYGIAVRKDDPELLAKINKGLAEMKADGSFAAISAQYFG 267 + GI RK +PE A +NK LA++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 = 114 bits (284), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 75/228 (32%), Positives = 120/228 (52%), Gaps = 6/228 (2%) Query: 40 AAAARVYVVGVESAYAPFSSENEQKDVVGFDIDVMKALAKKIGIQVKFVPTPFEGFFNFL 99 +A A VV ++A+ PF ++ + VGFDID+ A+AK IG+ K P F G L Sbjct: 22 SARAETLVVACDTAFVPFEFKDRNQ-YVGFDIDLWDAIAKDIGVTYKLQPMDFNGIIPAL 80 Query: 100 AQGDRDLLISAITITDERKKSVAFSDPYFVATQTIALPAADTKVNKMEDLKPLTVGTQSA 159 + D+ ++ ITI DERKK + FSD Y+ + ++ +P + + + DL + +S Sbjct: 81 QTKNVDVALAGITIKDERKKVIDFSDGYYDSGFSLMVPVG-SSIKSVADLAGKALAVKSG 139 Query: 160 TSGDELVQQVLGKNSAKIKRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRT 219 TS + + + ++ +F + A EL++G VDA + D P V YIA + + Sbjct: 140 TSAFDYAKANF--KATELHQFPNIDNAYLELQTGRVDAAMHDTPNVLYYIATAGKGRAKV 197 Query: 220 VTDPNFPKEDYGIAVRKDDPELLAKINKGLAEMKADGSFAAISAQYFG 267 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 = 110 bits (274), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 83/246 (33%), Positives = 123/246 (50%), Gaps = 28/246 (11%) Query: 35 AAAPQAAA-ARVYVVGVESAYAPFSSENEQKDVVGFDIDVMKALAKKIGIQVKFVPTPFE 93 AA P A A V VG ++ + P + K GFD+++++ALAK +G +V+++ F+ Sbjct: 20 AAVPAAHANGEVIRVGTDATFPPMEFVKDGKRT-GFDVELIEALAKTMGKKVQWIDIDFK 78 Query: 94 GFFNFLAQGDRDLLISAITITDERKKSVAFSDPYFVATQTIALPAADTKVNKMEDLK--- 150 G L D+ SAI +TDER+K V FSDPY+ + + D + EDL Sbjct: 79 GLIPGLVSNRFDIAASAIYMTDERRKVVNFSDPYYRGGLAVLVRRDDNSIKVPEDLNKGK 138 Query: 151 --PLTVGTQSATS------GDELVQQVLGKNSAKIKRFDSTPLALKELESGGVDAVVADE 202 + VGT+S G E V+ + KN A FD L +G V+AVV Sbjct: 139 RVSVQVGTKSVGYLKDNFPGVERVE--VEKNQAM---FDL-------LATGRVNAVVTGR 186 Query: 203 PVVKNYIANNPNSKLRTVTDPNFPKEDYGIAVRKDDPELLAKINKGLAEMKADGSFAAIS 262 P Y P L V D E YG A+RK D EL A++NK L ++ +G++ A++ Sbjct: 187 PAAVEYARTQP---LVRVLDKGLTTELYGFALRKSDTELTAQLNKALQTLRMNGTYTALT 243 Query: 263 AQYFGK 268 ++FGK Sbjct: 244 DKWFGK 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 0.316 0.132 0.363 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: 744,065 Number of extensions: 27997 Number of successful extensions: 134 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 113 Number of HSP's successfully gapped: 17 Length of query: 268 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 184 Effective length of database: 1,222,130 Effective search space: 224871920 Effective search space used: 224871920 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)