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= 0218.0028.p (413 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311108|ref|YP_003775200.1| NADH-ubiquinone oxidoreductase ... 451 e-128 gi|300311107|ref|YP_003775199.1| transmembrane NADH dehydrogenas... 59 9e-10 gi|300311106|ref|YP_003775198.1| transmembrane NADH dehydrogenas... 57 3e-09 >gi|300311108|ref|YP_003775200.1| NADH-ubiquinone oxidoreductase subunit N [Herbaspirillum seropedicae SmR1] Length = 502 Score = 451 bits (1160), Expect = e-128, Method: Compositional matrix adjust. Identities = 212/258 (82%), Positives = 244/258 (94%) Query: 155 MTLLIGGAPKLAAFAMVFRILVEGLLPLAIDWQQMLMVLAVLSIIIGNVTALAQTNIKRM 214 +TLL+G APKLA FA+ FR+LVEG+LPLA+DWQQMLMVLAVLSII+GNVTA+AQTNIKRM Sbjct: 245 VTLLLGAAPKLATFAITFRLLVEGMLPLAVDWQQMLMVLAVLSIILGNVTAIAQTNIKRM 304 Query: 215 LAYSTISHMGFMLLGMMSGVVDGNLFQAVNAYSSSLFYAITYVLTTLGTFGVILLMARSG 274 LAYSTISHMGFMLLGMMSGVVDGNLF AVNAYSSSLFYA+TYV+TTLG+FGVI+L++RSG Sbjct: 305 LAYSTISHMGFMLLGMMSGVVDGNLFSAVNAYSSSLFYAVTYVITTLGSFGVIILLSRSG 364 Query: 275 FEADTLDDFKGLNQRSPWFAGIMLVLMFSLAGIPPMVGFYAKLSVLQAVLGTGQIWLAVL 334 FEADTLDDFKGLNQRSPWFA +M+++MFSLAGIPP+VGFYAKLSVLQA + TGQIWL VL Sbjct: 365 FEADTLDDFKGLNQRSPWFAAVMMIMMFSLAGIPPLVGFYAKLSVLQAAMATGQIWLPVL 424 Query: 335 AVVFSLVGAFYYLRVIKNMYFDDPADNGKITASFDVRIALSLNGLAALVLGLWPGHLMDA 394 AV+FSL+GAFYY+RV+K MYFD+PADN KI A+ ++R+ LSLNG+AAL +GLWPGHLMDA Sbjct: 425 AVIFSLIGAFYYIRVVKVMYFDEPADNSKIVATPEMRVVLSLNGIAALAIGLWPGHLMDA 484 Query: 395 CTNAIVTTLATFLSKVIA 412 CTNAIVTTLATFLSKV+A Sbjct: 485 CTNAIVTTLATFLSKVVA 502 Score = 254 bits (649), Expect = 8e-69, Method: Compositional matrix adjust. Identities = 131/153 (85%), Positives = 142/153 (92%), Gaps = 1/153 (0%) Query: 1 MNNMNLIPVYPEIFLLIATSAILLIDMFLPDAKRVITYVLSLLALVVCAVLTFTNYASGE 60 MNNMNLIPVYPEIFLLIATSAILLIDMFLP++KRVITY+LSL ALVVCAVLTF + SG Sbjct: 1 MNNMNLIPVYPEIFLLIATSAILLIDMFLPESKRVITYLLSLAALVVCAVLTFADLNSGA 60 Query: 61 TVYTFSNMFVSDPLSSLLKLFSYLAIGLTLIYGRQYNTDRGIVGGGHLGGEFYALALFAL 120 TVYTF+NMFVSDPL++LLKLF+YL +G+TLIY RQYNT RGI GG LGGE+YALALFAL Sbjct: 61 TVYTFNNMFVSDPLANLLKLFTYLGVGVTLIYSRQYNTARGIT-GGMLGGEYYALALFAL 119 Query: 121 LGQMVMISGNSFLSIYLGLELMSLSLYALVALR 153 LGQMVMISGNSFLSIYLGLELMSLSLYALVALR Sbjct: 120 LGQMVMISGNSFLSIYLGLELMSLSLYALVALR 152 >gi|300311107|ref|YP_003775199.1| transmembrane NADH dehydrogenase I subunit M [Herbaspirillum seropedicae SmR1] Length = 496 Score = 58.5 bits (140), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 57/225 (25%), Positives = 107/225 (47%), Gaps = 29/225 (12%) Query: 190 LMVLAVLSIIIGNVTALAQTNIKRMLAYSTISHMGFMLLGMM---SGVVDGNLFQAVNA- 245 ++ L+++++I + AL Q ++K+++AYS+I+HMGF+ LG V G + Q ++ Sbjct: 281 MIFLSLVAVIYIGLVALVQQDMKKLVAYSSIAHMGFVTLGFFMFNDMAVQGGIVQMISHG 340 Query: 246 -YSSSLFYAITYVLTTLGTFGVILLMARSGFEADTLDDFKGLNQRSPWFAGIMLVLMFSL 304 S ++F I + + T + + G+ + P FA ++FSL Sbjct: 341 FVSGAMFMCIGVLYDQMHT--------------REISQYGGVVNKMPRFA--FFFILFSL 384 Query: 305 A--GIPPMVGFYAKLSVLQAVLGTGQIWLAVLAVVFSLVGAFYYLRVIKNMYFDDPADNG 362 A G+P GF + V+ + W+ +LA ++GA Y L + K + F N Sbjct: 385 ANCGLPATSGFVGEFMVILGAVKF-NFWIGLLAATALILGAAYSLWLAKRVIFGA-VTNH 442 Query: 363 KITASFDVR----IALSLNGLAALVLGLWPGHLMDACTNAIVTTL 403 + D+ + L L +A LV+G++PG + D+ ++ L Sbjct: 443 HVAELVDLNGREFLILGLLAIATLVMGVYPGIITDSIQTSVTDLL 487 >gi|300311106|ref|YP_003775198.1| transmembrane NADH dehydrogenase I subunit L [Herbaspirillum seropedicae SmR1] Length = 696 Score = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 57/176 (32%), Positives = 88/176 (50%), Gaps = 41/176 (23%) Query: 198 IIIGNVTAL-------AQTNIKRMLAYSTISHMGFMLLGMMSGVVDGNLFQAVNAYSSSL 250 ++IG +TAL Q +IKR++AYST+S +G+M + + +AYS ++ Sbjct: 298 LVIGAITALFMGFLGTMQNDIKRVVAYSTLSQLGYMTVAL-----------GASAYSVAV 346 Query: 251 FYAITY----VLTTLGTFGVILLMARSGFEADTLDDFKGLNQRSP--WFAGIMLVLMFSL 304 F+ +T+ L LG VI+ M + + GL + P W ++ L +L Sbjct: 347 FHLMTHAFFKALLFLGAGSVIIGMHHD----QDMRNMGGLRKYMPITWITSLLGSL--AL 400 Query: 305 AGIPPMVGFYAKLSVLQA-----VLGTGQIWLAVLAVVFSLVGAFYYLRVIKNMYF 355 G P GFY+K S+++A + G+G + AVLA VF V AFY R MYF Sbjct: 401 IGTPFFSGFYSKDSIIEAAAESHLAGSGFAYFAVLASVF--VTAFYSFR----MYF 450 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 0.329 0.142 0.412 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: 1,169,545 Number of extensions: 47657 Number of successful extensions: 242 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 238 Number of HSP's successfully gapped: 4 Length of query: 413 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 325 Effective length of database: 1,203,190 Effective search space: 391036750 Effective search space used: 391036750 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 132 (55.5 bits)