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= 0088.0001.p (399 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value STM1135 [HE] COG0111 Phosphoglycerate dehydrogenase and related ... 237 3e-62 Cj1018c [E] COG0683 ABC-type branched-chain amino acid transport... 177 3e-44 Cj1019c [E] COG0683 ABC-type branched-chain amino acid transport... 174 2e-43 SMc02356 [E] COG0683 ABC-type branched-chain amino acid transpor... 171 3e-42 RSc2441 [E] COG0683 ABC-type branched-chain amino acid transport... 145 1e-34 >STM1135 [HE] COG0111 Phosphoglycerate dehydrogenase and related dehydrogenases Length = 312 Score = 237 bits (604), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 0/358 (0%), Positives = 0/358 (0%), Gaps = 13/358 (3%) Query: 43 IKIGADLELTGGQASFGDSASKGAKLAVQQINDAGGILGKKLELVVADNASKSEEATQVA 102 + + + K V+ Sbjct: 21 KALPHARVREWKVGDNNPADYALVWQPPVE---MLAGRRLKAVFVLGAGVDAILSKLNAH 77 Query: 103 QKLITTDKVVTIIGASTSTNTLGIVPVATEKEIPLVSVGATNPKVTVDERTSKVNDWVFR 162 +++ + + + + V+ K + + Sbjct: 78 PEMLDASIPLFRLEDTGMGLQMQEYAVSQVLHWFRRFDDYQALKNQALWK------PLPE 131 Query: 163 AAFIDPFQGQVMANFAVDSLKAKTAVIYTDTSSDYSKGLQKFFEETFKSKGGEVLSQESY 222 + G + A + E++ + + + Sbjct: 132 YTREEFSVGIMGAGVLGAKVAESLQAWGFPLRCWSRSRKSWPGVESYVGREELR-AFLNQ 190 Query: 223 QQKDSDFKAVLTRIKAANPDVIYLPGYYEEVGKILKQAREMGITAPFLGGDGWDSPQLAE 282 + + + + L + + D Sbjct: 191 TRVLINLLPNTAQTVGIINSELLDQLPDGAYVLNLARGVHVQEADLLAALDSGKLKGAML 250 Query: 283 IAGADALNDTYMSNHYSPEDTATEVT-SFVDAYKAANGGAVPDGMAALGYDALKLVADAI 341 S + A + V A + L Sbjct: 251 D-VFSQEPLPQESPLWRHPRVAMTPHIAAVTRPAEAIDYI-SRTITQLEKGEPVTGQVDR 308 Query: 342 TRAGAADPAKIKDALAATKDLQLATGKITLNETHDPVKAAVVLKFVDGKQTFETKVNP 399 Sbjct: 309 366 >Cj1018c [E] COG0683 ABC-type branched-chain amino acid transport systems, periplasmic component Length = 369 Score = 177 bits (449), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 111/361 (30%), Positives = 193/361 (53%), Gaps = 15/361 (4%) Query: 43 IKIGADLELTGGQASFGDSASKGAKLAVQQINDAGGIL--GKKLELVVADNASKSEEATQ 100 +KIG L L+G A++G SA +G KLA N L G K+ L + D E++ Sbjct: 20 VKIGVVLPLSGATAAYGQSALEGIKLA----NSMQSALSNGDKVSLAIIDTKGDKLESSS 75 Query: 101 VAQKLITTDKVVTIIGASTSTNTLGIVPVATEKEIPLVSVGATNPKVTVDERTSKVNDWV 160 A +L++ DKV+ +IG + NTL ++ VA + +IPL++ AT ++ +D++ + Sbjct: 76 GANRLVSQDKVIGLIGEMVTANTLQVMRVAEDNKIPLIAPAATGDRL-LDKKI-----YS 129 Query: 161 FRAAFIDPFQGQVMANFAVDSLKAKTAVIYTDTSSDYSKGLQKFFEETFKSKGGEVLSQE 220 R F+D FQG +A + L K+AVI D S+DYS GL K FE+ +KS GG++L Sbjct: 130 SRVCFMDSFQGSSLAKYVFSKLNYKSAVIVVDQSTDYSLGLAKAFEKQYKSNGGQILRIL 189 Query: 221 SYQQKDSDFKAVLTRIKAANPDVIYLPGYYEEVGKILKQAREMGITAPFLGGDGWDSPQL 280 D DF+A++ ++K+ NP+ I+LP YY E +Q++ G+ P DG Sbjct: 190 RVNSGDKDFRAIVAQVKSLNPEFIFLPLYYSEASLFARQSKLAGLNIPMGSADGVADQTF 249 Query: 281 AEIAGADALNDTYMSNHYSPEDTATEVT-SFVDAYKAANGGAVPDGMAALGYDALKLVAD 339 +AG DA ++ + + T+++ F+ Y+ A G +A+G DA ++ + Sbjct: 250 ISLAG-DASEGYIFTDSFDANNPTTKLSKEFISVYEKAKGTKEVPNFSAMGADAYFVMLN 308 Query: 340 AITRAGAADPAK-IKDALAATKDLQLATGKITLNETHDPVKAAVVLKFVDGKQTFETKVN 398 A+ +K + + + TK+ Q +G I++++T + ++ VV + + KQ ++ +N Sbjct: 309 AMNACVENLTSKCVNEKIHQTKNYQGVSGVISIDQTGNATRSVVVKEIKNQKQNYKDIIN 368 Query: 399 P 399 P Sbjct: 369 P 369 >Cj1019c [E] COG0683 ABC-type branched-chain amino acid transport systems, periplasmic component Length = 371 Score = 174 bits (441), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 110/359 (30%), Positives = 190/359 (52%), Gaps = 11/359 (3%) Query: 43 IKIGADLELTGGQASFGDSASKGAKLAVQQINDAGGILGKKLELVVADNASKSEEATQVA 102 I IG L LTG A++G G +LA + G ++L+ D E + Sbjct: 22 INIGVVLPLTGTVAAYGQDVFNGIELANKLQPKLSN--GDVIKLITIDTKGDKLETSNGV 79 Query: 103 QKLITTDKVVTIIGASTSTNTLGIVPVATEKEIPLVSVGATNPKVTVDERTSKVNDWVFR 162 +LI TDKV+ IIG +T+ NT+ + +A EK+IPL++ A+ K+ +D++ + R Sbjct: 80 NRLIATDKVLGIIGEATTPNTIQAISIAEEKKIPLIAPVASGDKL-LDKKK-----YASR 133 Query: 163 AAFIDPFQGQVMANFAVDSLKAKTAVIYTDTSSDYSKGLQKFFEETFKSKGGEVLSQESY 222 F D FQG A + L K AVI D S+ YS GL + FE +FK+ GG+++ + Sbjct: 134 VCFKDSFQGDKFATYVSKDLGLKNAVIIIDQSNVYSLGLARAFENSFKNNGGKIIKKLVI 193 Query: 223 QQKDSDFKAVLTRIKAANPDVIYLPGYYEEVGKILKQAREMGITAPFLGGDGWDSPQLAE 282 D DF+AV++++K+ NPD +Y+P Y+ E I +QAR++G + GDG ++ + Sbjct: 194 NSGDKDFRAVVSQLKSLNPDFVYMPIYHPEAALIARQARQIGFDKLLVAGDGVNNQTFID 253 Query: 283 IAGADALNDTYMSNHYSPEDTATEV-TSFVDAYKAANGGAVPDGMAALGYDALKLVADAI 341 + G+ A+N ++ + +T++ FV AY+ G +A+G DA ++ +A+ Sbjct: 254 LGGS-AVNGVIFTDSFDYNSPSTQLGKDFVAAYEKVKGTKELPAFSAMGADAYFVMLNAM 312 Query: 342 TRA-GAADPAKIKDALAATKDLQLATGKITLNETHDPVKAAVVLKFVDGKQTFETKVNP 399 I + TKD Q G I+++E+ + +++ V+ + + KQ ++T +NP Sbjct: 313 NACVDNLSSECINSKIHQTKDFQAVGGVISIDESGNAIRSVVIKEIQNQKQNYKTIINP 371 >SMc02356 [E] COG0683 ABC-type branched-chain amino acid transport systems, periplasmic component Length = 390 Score = 171 bits (432), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 123/367 (33%), Positives = 182/367 (49%), Gaps = 32/367 (8%) Query: 43 IKIGADLELTGGQASFGDSASKGAKLAVQQINDAGGILGKKLELVVADNASKSEEATQVA 102 I IG L +TG QA GAK+AV+ +ND GG+LGK++E + D S VA Sbjct: 28 ILIGGALSMTGIQAPLDTPGYNGAKVAVKYLNDNGGLLGKQIEFINIDGKSDPVTVGNVA 87 Query: 103 QKLITTDKVVTII----------GASTSTNTLGIVPVATEKEIPLVSVGATNPKVTVDER 152 +LI DK II AS + G+V ++T PL S Sbjct: 88 VELI--DKGAEIIVAPCDFDFGSPASREAQSAGLVGISTCASDPLYS------------- 132 Query: 153 TSKVNDWVFRAAFIDPFQGQVMANFAVDSLKAKTAVIYTDTSSDYSKGLQKFFEETFKSK 212 + + D F + + G A+FAV KTA + TD Y+K L K+F E FK+ Sbjct: 133 SWSLGDKQFTLSMWNTTMGATAADFAVKEKGWKTAYVVTDQFIAYTKSLSKYFVEQFKAD 192 Query: 213 GGEVLSQESYQQKDSDFKAVLTRIKA--ANPDVIYLPGYYEEVGKILKQAREMGITAPFL 270 GGE+L +++Y D++F A L R++A PDVI++ Y ++G I++ RE+G AP L Sbjct: 193 GGEILLEDTYTNGDNNFSAQLARLQALGKKPDVIFVSSYGTDIGVIIRALREVGYDAPVL 252 Query: 271 GGDGWDSPQLAEIAGADALNDTYMSNH-YSPEDTATEVTSFVDAYKAANGGAVPDGMAAL 329 GGD +D P + E G ND Y H + + ++ F++ YK G A + Sbjct: 253 GGDAYDDPAMHEALGEKFGNDVYFVTHTWMGPEAHPDMPKFIELYKEMFGKAPDTSFVST 312 Query: 330 GYDALKLVADAITRAGAADPAKIKDALAATKDLQLATGKI---TLNETHDPVKAAVVLKF 386 G+D + L+A+A+ AG + A + AL + +L TG + T E H P KAA V++ Sbjct: 313 GWDTIMLLAEAVKAAGTTEGAALAKALEDGQ-FKLLTGDLDYGTNEEGHVPNKAAAVIEL 371 Query: 387 VDGKQTF 393 GK +F Sbjct: 372 KGGKPSF 378 >RSc2441 [E] COG0683 ABC-type branched-chain amino acid transport systems, periplasmic component Length = 336 Score = 145 bits (366), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 118/343 (34%), Positives = 179/343 (52%), Gaps = 22/343 (6%) Query: 58 FGDSASKGAKLAVQQINDAG-GILGKK--LELVVADNASKSEEATQVAQKLITTDKVVTI 114 G GA+LAV+ +N G I GKK LELV D+A+ + T VAQKL+ +KVV + Sbjct: 1 MGKDNENGARLAVEDVNKEGLTIDGKKIKLELVGEDDAADPKTGTAVAQKLVD-EKVVAV 59 Query: 115 IGASTSTNTLGIVPVATEKEIPLVSVGATNPKVTVDERTSKVNDWVFRAAFIDPFQGQVM 174 +G S ++ + ++ I +S +TNP + T + +R D QG + Sbjct: 60 VGHLNSGVSIPASKIYSDAGIVQISPSSTNP-----DYTKQGFKTTYRVVATDAQQGPAL 114 Query: 175 ANFAVDSLKAKTAVIYTDTSSDYSKGLQKFFEETFKSKGGEVLSQESYQQKDSDFKAVLT 234 AN+A +L AK+ I D ++ Y KGL FE+T K+ G V+++E+ K +DFKA+LT Sbjct: 115 ANYAAKTLGAKSVAIVDDATA-YGKGLADEFEKTAKADGVNVVAREATNDKATDFKAILT 173 Query: 235 RIKAANPDVIYLPGYYEEVGKILKQAREMGITAPFLGGDGWDSPQLAEIAGADALNDTYM 294 +IK PDVI G G KQA+E+GITA +GGDG + ++AE+AG DA+++ Sbjct: 174 KIKGKKPDVIMYGGMDATGGPFAKQAKELGITAKIVGGDGVCTDKVAELAG-DAIDNIIC 232 Query: 295 SNH----YSPEDTATEVTSFVDAYKAANGGAVPDGMAALGYDALKLVADAITRAGAADPA 350 S E A + D +K P YDA+ +V DA+ R+ + DPA Sbjct: 233 SEAGLALSKMEKGADFEKKYEDRFKTPVQIYAP-----FTYDAVMVVVDAMKRSNSVDPA 287 Query: 351 KIKDALAATKDLQLATGKITLNETHDPVKAAVVL-KFVDGKQT 392 KI A+ T + G I ++ D + ++ L + D K+T Sbjct: 288 KILAAMPTT-NYHGVIGNIAFDDKGDLKEGSITLYNYKDKKKT 329 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.312 0.129 0.352 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 25,740,596 Number of extensions: 1062030 Number of successful extensions: 2121 Number of sequences better than 1.0e-05: 66 Number of HSP's gapped: 2029 Number of HSP's successfully gapped: 66 Length of query: 399 Length of database: 38,378,431 Length adjustment: 109 Effective length of query: 290 Effective length of database: 25,807,025 Effective search space: 7484037250 Effective search space used: 7484037250 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 117 (49.7 bits)