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= 0027.0155.p (386 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313447|ref|YP_003777539.1| cytochrome c oxidase polypeptid... 733 0.0 gi|300311627|ref|YP_003775719.1| cytochrome c oxidase polypeptid... 88 1e-18 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 69 8e-13 gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspir... 63 4e-11 gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 61 1e-10 >gi|300313447|ref|YP_003777539.1| cytochrome c oxidase polypeptide II precursor transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 386 Score = 733 bits (1892), Expect = 0.0, Method: Compositional matrix adjust. Identities = 367/386 (95%), Positives = 379/386 (98%) Query: 1 MKLAKRLQSLTLGASLLAAGLPAWAVVDSPGGPAVLQMNFQPPVTKIAEQIYGLHILMLI 60 MKLAKRLQSL LGASLLAAGLPAWAVVDSPGGPAVLQMNFQPPVTKIAEQIY LHILMLI Sbjct: 1 MKLAKRLQSLILGASLLAAGLPAWAVVDSPGGPAVLQMNFQPPVTKIAEQIYDLHILMLI 60 Query: 61 ICLVIFVAVFGVMFYSIIKHRKSVGHKAASFHESTTVEIAWTVVPFLIVIGMALPATKTV 120 ICLVIFVAVFGVMFYSIIKHRKSVGHKA++FHEST VEIAWTVVPFLIVIGMALPATKTV Sbjct: 61 ICLVIFVAVFGVMFYSIIKHRKSVGHKASTFHESTAVEIAWTVVPFLIVIGMALPATKTV 120 Query: 121 VAMKDTSNADLTIKVTGMQWKWGYDYLKGDGEGISFLSSLATPREQVTDPTLKKNDNYLI 180 VAMKDTSNADLTIKVTGMQWKWGYDYLKG+GEGISFLS+LATPREQVTDP+LKKNDNYLI Sbjct: 121 VAMKDTSNADLTIKVTGMQWKWGYDYLKGEGEGISFLSNLATPREQVTDPSLKKNDNYLI 180 Query: 181 EVDNPVVVPVNKKVRIVTTANDVIHSWTIPAFGVKQDAIPGFVRDTWFRAEKIGTYRGQC 240 EVDNPVVVPVNKKVRIVTTANDVIHSWTIPAFGVKQDAIPGFVRDTWFRAEKIGTYRGQC Sbjct: 181 EVDNPVVVPVNKKVRIVTTANDVIHSWTIPAFGVKQDAIPGFVRDTWFRAEKIGTYRGQC 240 Query: 241 VELCGKDHAFMPIVVNVVSDDDYKKWVEGKKKEMAAKADDPSKVWTVDELKQRGEKVYAA 300 VELCGKDHAFMPIVVNVVS+DDYK+WV+GKKKEMAAKADDP+K WTVDELKQRGEKVYAA Sbjct: 241 VELCGKDHAFMPIVVNVVSEDDYKQWVDGKKKEMAAKADDPNKTWTVDELKQRGEKVYAA 300 Query: 301 NCVACHQANGKGVPGAFPALDGSALVNGPKDGQIHILLNGKNAMPAWKGVLNDTEIAAVI 360 NCV CHQANGKGVPGAFPALDGS +VNGPKDGQIH++LNGKNAMP WKGVLNDTEIAAVI Sbjct: 301 NCVTCHQANGKGVPGAFPALDGSPVVNGPKDGQIHLVLNGKNAMPPWKGVLNDTEIAAVI 360 Query: 361 TYTRNSWSNKAQENIVQPAEVLAARK 386 TYTRNSWSNKAQENIVQPAEVLAARK Sbjct: 361 TYTRNSWSNKAQENIVQPAEVLAARK 386 >gi|300311627|ref|YP_003775719.1| cytochrome c oxidase polypeptide II precursor transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 88.2 bits (217), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 96/236 (40%), Gaps = 32/236 (13%) Query: 39 NFQPPVTKIAEQIYGLHILMLIICLVIFVAVFGVMFYSIIKHRKSVGHKAASFHESTTVE 98 + Q P A I L + L +C V+F+ ++ + R+ AA+ T Sbjct: 34 DVQQPAGPQAATIASLWHVTLGLCTVVFLLTLLACAVALFRRRRYSAEAAAAT-PRLTWA 92 Query: 99 IAWTVVPFLIVIGMALPATKTVVAMKDT----SNADLTIKVTGMQWKWGYDYLKGDGEGI 154 I W + L G+ VVA + + L +K+T QW W Sbjct: 93 IGWAL--GLSATGLLALFAADVVASRALDQLPTAGALQVKLTARQWWW------------ 138 Query: 155 SFLSSLATPREQVTDPTLKKNDNYLIEVDNPVVVPVNKKVRIVTTANDVIHSWTIPAFGV 214 + Q DP + N + +PV + V I + DVIHS +P Sbjct: 139 ---------QAQYHDPLTGQG----FTTANELHLPVGRAVIIDLDSEDVIHSLWLPNLHG 185 Query: 215 KQDAIPGFVRDTWFRAEKIGTYRGQCVELCGKDHAFMPIVVNVVSDDDYKKWVEGK 270 K D IPG RA++ GTYRGQC E CG +HA M ++V S DY +W G+ Sbjct: 186 KLDLIPGKPAQLRLRADQAGTYRGQCAEFCGLEHARMALLVTAESPADYARWASGQ 241 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 68.6 bits (166), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 34/90 (37%), Positives = 46/90 (51%), Gaps = 12/90 (13%) Query: 294 GEKVYAANCVACHQANGKGVPGAFPALDGSALVNGPK-DGQIHILLNGKNA--------- 343 GE++Y NC ACH G+G PG FP LDG+ +VN +H++L G Sbjct: 315 GERLYLDNCAACHFVTGRGAPGIFPVLDGATVVNAENPSALLHVILAGARTPSTEKAPSI 374 Query: 344 --MPAWKGVLNDTEIAAVITYTRNSWSNKA 371 MP + L+D E AA+ T+ R W N A Sbjct: 375 LVMPGFAHRLSDEEAAALATFVRQGWGNHA 404 >gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspirillum seropedicae SmR1] Length = 431 Score = 63.2 bits (152), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 69/144 (47%), Gaps = 19/144 (13%) Query: 255 VNVVSDDDYKKWVEGKKKEMAAKADDPSKVWTVD-----ELKQRGEKVYAANCVACHQAN 309 + ++D D K A+ ADD ++ +V+ + ++G+++Y CV CH Sbjct: 281 LQYLNDADVSAMAVYLKSLPASAADDAARPASVEPAEAERIMKQGKQLYGTLCVDCHGGK 340 Query: 310 GKGVPGAFPALDGSALVNGPKDGQ-IHILLNG-----------KNAMPAWKGVLNDTEIA 357 G+G +P L G+ + GP + +LNG MP + L+D E+A Sbjct: 341 GQGSAPDYPPLAGNRAIAGPHPANAVRAVLNGGFPPSTAGNPYPFGMPPFGPQLSDQEVA 400 Query: 358 AVITYTRNSWSNKAQENIVQPAEV 381 AV++Y RNSW N Q +V AEV Sbjct: 401 AVVSYVRNSWGN--QGGLVSAAEV 422 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 38/105 (36%), Positives = 53/105 (50%), Gaps = 14/105 (13%) Query: 294 GEKVYAANCVACHQANGKGVPGAFPALDGSALVNGPKDGQ-IHILLNGKN---------- 342 G + NC ACH+++GKG FP+L S VN I I+L G Sbjct: 321 GAMAFLNNCAACHRSSGKGYDETFPSLALSPTVNAENPASLIRIVLEGAEMPWTHKAPTQ 380 Query: 343 -AMPAWKGVLNDTEIAAVITYTRNSWSNKAQENIVQPAEVLAARK 386 AMPA+ L+D E+A V+T+ R+SW N+A V ++V RK Sbjct: 381 FAMPAFGSRLSDQEVAEVVTFIRSSWGNQASS--VSASDVAKVRK 423 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 0.319 0.134 0.410 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: 1,162,707 Number of extensions: 46523 Number of successful extensions: 162 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 160 Number of HSP's successfully gapped: 5 Length of query: 386 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 299 Effective length of database: 1,207,925 Effective search space: 361169575 Effective search space used: 361169575 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 131 (55.1 bits)