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= 0002.0724.p (266 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... 378 e-106 gi|300309409|ref|YP_003773501.1| glutamine ABC transporter perip... 228 5e-61 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 117 7e-28 gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signa... 112 3e-26 gi|300311601|ref|YP_003775693.1| glutamine ABC transporter perip... 110 9e-26 >gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 378 bits (971), Expect = e-106, Method: Compositional matrix adjust. Identities = 194/270 (71%), Positives = 226/270 (83%), Gaps = 7/270 (2%) Query: 1 MNKFFKQFAPALALVAA---IAALSACGKKEEAAQAPAAAAA----KVYLVGVESAYAPF 53 M K F + A ALAL A + L+ACGK+E+ + AA A +VY+VGVESAYAPF Sbjct: 1 MIKMFTRHARALALTAGFVGMLGLAACGKQEDKSATAAAPQAAAPARVYVVGVESAYAPF 60 Query: 54 SAENEKKEVVGFDIDVMKALAQKIGIEVKFVPTPFEGFFNFLAQGDRDLLISAITITDER 113 S+ENE+K+VVGFDID+MKALA+KIGIEVKFVPTPFEGFFNFLAQGDRDLLISAITITDER Sbjct: 61 SSENEQKDVVGFDIDIMKALAKKIGIEVKFVPTPFEGFFNFLAQGDRDLLISAITITDER 120 Query: 114 KQTVDFSEPYFEASQLIAVPAADAKVQKFDDLKNLKVGVQSATSGDEIVQQLLGKNNPNI 173 K++V FSEPYF A+Q IA+PAAD KV K +DLK L VG QSATSGDE+VQQ+LGKN+ I Sbjct: 121 KKSVAFSEPYFVATQTIALPAADTKVSKMEDLKPLTVGTQSATSGDELVQQVLGKNSAKI 180 Query: 174 KRLDSTPLALKELETGGVDAVVADDAVVKNYITNNPSSKLRTVSDANFPKEYYGIAVRKG 233 KR DSTPLALKELE+GGVDAVVAD+ VVKNYI NNP+SKLRTV+D +FPKE YGIAVRK Sbjct: 181 KRFDSTPLALKELESGGVDAVVADEPVVKNYIANNPNSKLRTVTDPSFPKEDYGIAVRKD 240 Query: 234 NTELLNKVNKGMADLKADGTFDKISTQYFG 263 + ELL K+NKG+A++KADG+F IS QYFG Sbjct: 241 DPELLAKINKGLAEMKADGSFAAISAQYFG 270 >gi|300309409|ref|YP_003773501.1| glutamine ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 259 Score = 228 bits (580), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 114/228 (50%), Positives = 155/228 (67%), Gaps = 1/228 (0%) Query: 35 AAAAAKVYLVGVESAYAPFSAENEKKEVVGFDIDVMKALAQKIGIEVKFVPTPFEGFFNF 94 A AA + Y+VG Y PF E KKE+VGFDID++KA++Q +++ V TP+EG F Sbjct: 23 ALAADQTYVVGAGGTYRPFEFETPKKELVGFDIDLIKAISQASNFKIQLVSTPWEGIFAT 82 Query: 95 LAQGDRDLLISAITITDERKQTVDFSEPYFEASQLIAVPAADAKVQKFDDLKNLKVGVQS 154 L QGDRD++IS ITITD+R Q VDFS PYF A Q+I + ADAK+ DLK +V V + Sbjct: 83 LGQGDRDIIISGITITDKRAQMVDFSLPYFPAEQVI-ITNADAKITSLSDLKKTQVAVVN 141 Query: 155 ATSGDEIVQQLLGKNNPNIKRLDSTPLALKELETGGVDAVVADDAVVKNYITNNPSSKLR 214 +T+GD +V + LGK + I R D+T L L+EL GGVDA V D V+K YI ++P K + Sbjct: 142 STAGDIVVSEELGKASTAIHRFDNTVLMLEELYRGGVDAAVGDVGVIKFYIKSHPEKKFK 201 Query: 215 TVSDANFPKEYYGIAVRKGNTELLNKVNKGMADLKADGTFDKISTQYF 262 V D+ F ++Y+GIAV+KGN ELL+K+N G+ + ADGT+ KI +F Sbjct: 202 VVGDSKFVRQYFGIAVKKGNKELLDKINAGLKKIVADGTYAKIYKTWF 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 = 117 bits (294), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 87/267 (32%), Positives = 143/267 (53%), Gaps = 14/267 (5%) Query: 1 MNKFFKQFAPALALVAAI-AALSACGKKEEAAQAPAAAAAKVYL-VGVESAYAPFSAENE 58 MNK KQ+ L+A + AAL A AA + + L V +E Y PF+ ++ Sbjct: 1 MNKNIKQW-----LLAGVGAALLASSLSVSAADLLQSVKSSGTLKVALEGNYPPFNFKDP 55 Query: 59 KK-EVVGFDIDVMKALAQKIGIEVKFVPTPFEGFFNFLAQGDRDLLISAITITDERKQTV 117 K E+ GF++DV K LA K+G++ F T + G L G D++I+ + ITDER++ Sbjct: 56 KTGELTGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKAF 115 Query: 118 DFSEPY-FEASQLIAVPAADAKVQKFDDLKNLKVGVQSATSGDEIVQQLLGKNNPNIKRL 176 DFS+PY ++QLI + + +DLK K+G+ T+ ++ + + G +++ Sbjct: 116 DFSDPYTLSSAQLIVRKDEKREFKSLEDLKGKKLGLGQGTNFEQKAKAVPGI---DVRTY 172 Query: 177 DSTPLALKELETGGVDAVVADDAVVKNYITNNPSSKLRTVSDANFPKEYYGIAVRKGNTE 236 +P L +L G +DA + +D+++ YI + + L+ S + GI RKGN E Sbjct: 173 PGSPEYLADLAAGRIDAAL-NDSLLVGYILKSTNLPLKAGSPIG-AVDKIGIPFRKGNPE 230 Query: 237 LLNKVNKGMADLKADGTFDKISTQYFG 263 +NK +AD+KADG+F S ++FG Sbjct: 231 FKAALNKALADIKADGSFKAASEKWFG 257 >gi|300312810|ref|YP_003776902.1| glutamine ABC transporter/signal transduction system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 112 bits (280), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 82/254 (32%), Positives = 129/254 (50%), Gaps = 21/254 (8%) Query: 14 LVAAIAALSACGKKEEAAQAPAAAAAKVYLVGVESAYAPFSAENEKKEVVGFDIDVMKAL 73 + A++ ALS G A+A A+ +V ++A+ PF + ++ + VGFDID+ A+ Sbjct: 9 VFASLVALSVVG---------ASARAETLVVACDTAFVPFEFK-DRNQYVGFDIDLWDAI 58 Query: 74 AQKIGIEVKFVPTPFEGFFNFLAQGDRDLLISAITITDERKQTVDFSEPYFEASQLIAVP 133 A+ IG+ K P F G L + D+ ++ ITI DERK+ +DFS+ Y+++ + VP Sbjct: 59 AKDIGVTYKLQPMDFNGIIPALQTKNVDVALAGITIKDERKKVIDFSDGYYDSGFSLMVP 118 Query: 134 AADAKVQKFDDLKNLKVGVQSATSGDEIVQQLLGKNNPNIKRLDSTP---LALKELETGG 190 + ++ DL + V+S TS + K N L P A EL+TG Sbjct: 119 VG-SSIKSVADLAGKALAVKSGTSAFD-----YAKANFKATELHQFPNIDNAYLELQTGR 172 Query: 191 VDAVVADDAVVKNYITNNPSSKLRTVSDANFPKEYYGIAVRKGNTELLNKVNKGMADLKA 250 VDA + D V YI + + V + YGI KG + L+ KVN +A +KA Sbjct: 173 VDAAMHDTPNVLYYIATAGKGRAKVVGTQMMAHQ-YGIGFPKG-SPLVPKVNAALAKIKA 230 Query: 251 DGTFDKISTQYFGA 264 DG + +I ++FGA Sbjct: 231 DGRYAEIYRKWFGA 244 >gi|300311601|ref|YP_003775693.1| glutamine ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 251 Score = 110 bits (276), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 80/254 (31%), Positives = 128/254 (50%), Gaps = 17/254 (6%) Query: 14 LVAAIAALSACGKKEEAAQAPAAAA-AKVYLVGVESAYAPFSAENEKKEVVGFDIDVMKA 72 L A +A+LS A PAA A +V VG ++ + P + K GFD+++++A Sbjct: 8 LCAGMASLSLL-----IAAVPAAHANGEVIRVGTDATFPPMEFVKDGKRT-GFDVELIEA 61 Query: 73 LAQKIGIEVKFVPTPFEGFFNFLAQGDRDLLISAITITDERKQTVDFSEPYFEASQLIAV 132 LA+ +G +V+++ F+G L D+ SAI +TDER++ V+FS+PY+ + V Sbjct: 62 LAKTMGKKVQWIDIDFKGLIPGLVSNRFDIAASAIYMTDERRKVVNFSDPYYRGGLAVLV 121 Query: 133 PAADAKVQKFDDL-KNLKVGVQSATSGDEIVQQLLGKNNPNIKR--LDSTPLALKELETG 189 D ++ +DL K +V VQ T L N P ++R ++ L TG Sbjct: 122 RRDDNSIKVPEDLNKGKRVSVQVGTKS----VGYLKDNFPGVERVEVEKNQAMFDLLATG 177 Query: 190 GVDAVVADDAVVKNYITNNPSSKLRTVSDANFPKEYYGIAVRKGNTELLNKVNKGMADLK 249 V+AVV Y P L V D E YG A+RK +TEL ++NK + L+ Sbjct: 178 RVNAVVTGRPAAVEYARTQP---LVRVLDKGLTTELYGFALRKSDTELTAQLNKALQTLR 234 Query: 250 ADGTFDKISTQYFG 263 +GT+ ++ ++FG Sbjct: 235 MNGTYTALTDKWFG 248 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 0.359 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: 645,290 Number of extensions: 23196 Number of successful extensions: 112 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 95 Number of HSP's successfully gapped: 17 Length of query: 266 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 182 Effective length of database: 1,222,130 Effective search space: 222427660 Effective search space used: 222427660 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)