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= 0005.0136.p (302 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312815|ref|YP_003776907.1| amino acid ABC transporter/sign... 178 6e-46 gi|300313151|ref|YP_003777243.1| glutamate/aspartate ABC transpo... 169 3e-43 gi|300311002|ref|YP_003775094.1| amino acid ABC transporter/sign... 73 3e-14 gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/sign... 64 2e-11 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 60 2e-10 >gi|300312815|ref|YP_003776907.1| amino acid ABC transporter/signal transduction system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 178 bits (451), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 94/288 (32%), Positives = 157/288 (54%), Gaps = 3/288 (1%) Query: 12 LLVLLSGAIASTASAYDTTKKIRETKTIVLSFMGSVDNLSPFVVIEPDGEVSGYTIELCR 71 L VL A A+ ++ T +KI++ I + G + PF + + +V GY+ +LC Sbjct: 18 LAVLPQQACAADSALGPTLQKIKDANLIAI---GHRTSSIPFSYYDENQQVIGYSQDLCN 74 Query: 72 KIIQGIRQELRMPDLKIQYLPVNASSRFSALLDNRADLECSVSTNNAERRKKVAFTIPHF 131 K+I ++ ++ L+++ +PV + +R L + DLEC V++N R ++V+F F Sbjct: 75 KVIDAVKTKIGAAKLEVRMVPVTSQNRTPLLQNGTIDLECGVTSNLKSRWQQVSFATNFF 134 Query: 132 FTSVRMLVKAGSSIKNWSDLRNKRLVTTRATAMIDVINKRSNIRYLDLTVLELENDRECF 191 S R+L K S IK++ DL K +VT T ++ + R + + + ++ E F Sbjct: 135 VASSRILTKRDSGIKDFPDLAGKAVVTNAGTTSEQLLRNLNEHRKMGMQIQSAKDYGEAF 194 Query: 192 SMLEHGMADAFIMDEILLYGARENAVDPEKFIIVGTPLSVEPYAIMMRNDDPEFKKMVDR 251 +L+ G A++MD++LL GAR A P +++ G P EPYA M+R DDP+FK++VD Sbjct: 195 LILQSGRVAAYVMDDVLLAGARTTAQKPNDWVLTGNPFGAEPYAFMVRRDDPQFKQLVDD 254 Query: 252 QMARLANSGEIYRLYNRWFMQAIGPDKRSLDMPMSYILRDSLRYPTDK 299 ++ L SGEI ++Y +WF I P S + PMS + P+DK Sbjct: 255 TLSGLMKSGEIKKIYAKWFTFPIPPKNVSFNFPMSDTVMKLYATPSDK 302 >gi|300313151|ref|YP_003777243.1| glutamate/aspartate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 315 Score = 169 bits (428), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 89/268 (33%), Positives = 149/268 (55%), Gaps = 3/268 (1%) Query: 31 KKIRETKTIVLSFMGSVDNLSPFVVIEPDGEVSGYTIELCRKIIQGIRQELRMPDLKIQY 90 KKI+++ T+ L G D+ PF ++ GY+I+LC K I+++L + L I+ Sbjct: 30 KKIKDSGTLTL---GVRDSSIPFSYLDDKQSYQGYSIDLCLKAATAIQKKLGLTSLNIKM 86 Query: 91 LPVNASSRFSALLDNRADLECSVSTNNAERRKKVAFTIPHFFTSVRMLVKAGSSIKNWSD 150 +PV +++R + + D+ C +TNN ER +VAF++ F T+ + L K +++K D Sbjct: 87 VPVTSATRIPLIANGTTDISCDSATNNQERWNQVAFSVTEFVTANKFLSKKAANLKTLED 146 Query: 151 LRNKRLVTTRATAMIDVINKRSNIRYLDLTVLELENDRECFSMLEHGMADAFIMDEILLY 210 L+ K +V+T T+ + I + R L + +L ++ E F M+E G A AF+MD+ILL Sbjct: 147 LKGKTVVSTSGTSNLKQITALNAERNLGMNILAAKDHAEAFLMVETGRAAAFVMDDILLS 206 Query: 211 GARENAVDPEKFIIVGTPLSVEPYAIMMRNDDPEFKKMVDRQMARLANSGEIYRLYNRWF 270 N+ P + + LSVEPY +++ D EFK +VD + + +I ++Y +WF Sbjct: 207 SLAANSKAPGDYQVSSEALSVEPYGLILPKGDKEFKTVVDDALTVVYKGDDIKKIYAKWF 266 Query: 271 MQAIGPDKRSLDMPMSYILRDSLRYPTD 298 I P +L++PMS L+ L PTD Sbjct: 267 QSPIPPKGVNLNVPMSPQLQAVLAKPTD 294 >gi|300311002|ref|YP_003775094.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 279 Score = 72.8 bits (177), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 67/275 (24%), Positives = 122/275 (44%), Gaps = 25/275 (9%) Query: 12 LLVLLSGAIASTASAYDTTKKIRETKTIVLSFMGSVDNLSPFVVIEPDG-EVSGYTIELC 70 LLV + A A D +I+ T+V + ++ N P +P +V G+ +++C Sbjct: 16 LLVACAALFPGLAQA-DRLAEIQARGTLVCA---TLANNEPLGFPDPQSRQVVGFDVDMC 71 Query: 71 RKIIQGIRQELRMPDLKIQYLPVNASSRFSALLDNRADLECSVSTNNAERRKKVAFTIPH 130 + R ++++ V R AL++ +ADL + ER +++ FT H Sbjct: 72 AAVA-------RRLGVQMEQKSVTVEGRLPALIEGQADLVSAALGYTRERARQIDFTASH 124 Query: 131 FFTSVRMLVKAGSSIKNWSDLRNKRLVTTRATAMIDVINKRSNIRYLDLTVLELENDR-E 189 + ++++V++ S + SDL +KR+ R++ + R L +L+ D + Sbjct: 125 YQNPIKLIVQSDSGLNLISDLADKRISANRSSTPEQAVR-----RVLPKAMLQTFADTPQ 179 Query: 190 CFSMLEHGMADAFIMDEILLYGARENAVDPEKFIIVGTPLSVEPYAIMMRNDDPEFKKMV 249 F L G AD + + G R +F V LS EP A+ ++ + + V Sbjct: 180 AFLALAQGRADGLAIS--MPSGIRFVNESAGRFKFVEGALSWEPTALGVKKGERRLRDAV 237 Query: 250 DRQMARLANSGEIYRLYNRWFMQAIGPDKRSLDMP 284 + +A L GEI L+ +WF GP K ++P Sbjct: 238 NAALAALEKDGEIDALWTKWF----GP-KTKFNIP 267 >gi|300313610|ref|YP_003777702.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 63.5 bits (153), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 53/226 (23%), Positives = 98/226 (43%), Gaps = 20/226 (8%) Query: 51 SPFVVIEPDGEVSGYTIELCRKIIQGIRQELRMPDLKIQYLPVNASSRFSALLDNRADLE 110 +PF +V G+ I++ + + + I ++++++P F+ L DL Sbjct: 58 APFSSENEQKDVVGFDIDIMKALAKKI-------GIEVKFVPTPFEGFFNFLAQGDRDLL 110 Query: 111 CSVSTNNAERRKKVAFTIPHFF-TSVRMLVKAGSSIKNWSDLRNKRLVTTRATAMIDVIN 169 S T ER+K VAF+ P+F T L A + + DL+ + T AT+ +++ Sbjct: 111 ISAITITDERKKSVAFSEPYFVATQTIALPAADTKVSKMEDLKPLTVGTQSATSGDELVQ 170 Query: 170 K-----RSNIRYLDLTVLELENDRECFSMLEHGMADAFIMDEILLYGARENAVDPEKFII 224 + + I+ D T L L+ LE G DA + DE ++ N + + + Sbjct: 171 QVLGKNSAKIKRFDSTPLALKE-------LESGGVDAVVADEPVVKNYIANNPNSKLRTV 223 Query: 225 VGTPLSVEPYAIMMRNDDPEFKKMVDRQMARLANSGEIYRLYNRWF 270 E Y I +R DDPE +++ +A + G + ++F Sbjct: 224 TDPSFPKEDYGIAVRKDDPELLAKINKGLAEMKADGSFAAISAQYF 269 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 53/223 (23%), Positives = 96/223 (43%), Gaps = 22/223 (9%) Query: 52 PFVVIEPDGEVSGYTIELCRKIIQGIRQELRMPDLKIQYLPVNASSRFSALLDNRADLEC 111 PF + E G +E R + + + EL + + V +R L+ +AD+ Sbjct: 49 PFGMTNAKLEPQGSDVETARLLAKDLGVELEI-------VQVTGPNRIPFLMTGKADMVI 101 Query: 112 SVSTNNAERRKKVAFTIPHFFTSVRMLVKAGSSIKNWSDLRNKRLVTTRA----TAMIDV 167 S + ER+K VAFT P+ + + G +IK+ +DL KR+ R + + + Sbjct: 102 SSFSITPERQKVVAFTQPYGASQFVVAAPKGENIKSLNDLVGKRVAVVRGNMQDSLLTPI 161 Query: 168 INKRSNIRYLDLTVLELENDRECFSMLEHGMADAFIMDEILLYG-ARENAVDPEKFIIVG 226 K +NI D +D + + G DA L A++N P K + Sbjct: 162 APKGTNIVRFD-------DDATVTAAIISGQVDALCTPNSLASAIAKQN---PSKNLETK 211 Query: 227 TPLSVEPYAIMMRNDDPEFKKMVDRQMARLANSGEIYRLYNRW 269 + PYAI +R +P +K ++ ++ +G++ +Y +W Sbjct: 212 FAIKDIPYAIGLRKGEPALEKWLNEWISANLKNGKLPGIYQQW 254 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 0.323 0.137 0.390 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: 766,846 Number of extensions: 28305 Number of successful extensions: 97 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 96 Number of HSP's successfully gapped: 9 Length of query: 302 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 217 Effective length of database: 1,217,395 Effective search space: 264174715 Effective search space used: 264174715 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)