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= 0031.0165.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... 793 0.0 gi|300311627|ref|YP_003775719.1| cytochrome c oxidase polypeptid... 87 2e-18 gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspir... 67 2e-12 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 67 3e-12 gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 61 2e-10 >gi|300313447|ref|YP_003777539.1| cytochrome c oxidase polypeptide II precursor transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 386 Score = 793 bits (2049), Expect = 0.0, Method: Compositional matrix adjust. Identities = 385/386 (99%), Positives = 386/386 (100%) Query: 1 MKLAKRLQSLILGASLLAAGLPAWAVVDSPGGPAVLQMNFQPPVTKIAEQIYDLHILMLI 60 MKLAKRLQSLILGASLLAAGLPAWAVVDSPGGPAVLQMNFQPPVTKIAEQIYDLHILMLI Sbjct: 1 MKLAKRLQSLILGASLLAAGLPAWAVVDSPGGPAVLQMNFQPPVTKIAEQIYDLHILMLI 60 Query: 61 ICLVIFVAVFGVMFYSIIKHRKSVGHKASTFHESTAVEIAWTVVPFLIVIGMALPATKTV 120 ICLVIFVAVFGVMFYSIIKHRKSVGHKASTFHESTAVEIAWTVVPFLIVIGMALPATKTV Sbjct: 61 ICLVIFVAVFGVMFYSIIKHRKSVGHKASTFHESTAVEIAWTVVPFLIVIGMALPATKTV 120 Query: 121 VAMKDTSNADLTIKVTGMQWKWGYDYLKGEGEGISFLSNLATPREQVTDPSLKKNDNYLI 180 VAMKDTSNADLTIKVTGMQWKWGYDYLKGEGEGISFLSNLATPREQVTDPSLKKNDNYLI Sbjct: 121 VAMKDTSNADLTIKVTGMQWKWGYDYLKGEGEGISFLSNLATPREQVTDPSLKKNDNYLI 180 Query: 181 EVDNPVVVPVNKKVRIVTTANDVIHSWTIPAFGVKQDAIPGFVRDTWFRAEKIGTYRGQC 240 EVDNPVVVPVNKKVRIVTTANDVIHSWTIPAFGVKQDAIPGFVRDTWFRAEKIGTYRGQC Sbjct: 181 EVDNPVVVPVNKKVRIVTTANDVIHSWTIPAFGVKQDAIPGFVRDTWFRAEKIGTYRGQC 240 Query: 241 VELCGKDHAFMPIVVNVVSEDDYKQWVDGKKKEMAAKADDPNKTWTVDELKQRGEKVYAA 300 VELCGKDHAFMPIVVNVVSEDDYKQWVDGKKKEMAAKADDPNKTWTVDELKQRGEKVYAA Sbjct: 241 VELCGKDHAFMPIVVNVVSEDDYKQWVDGKKKEMAAKADDPNKTWTVDELKQRGEKVYAA 300 Query: 301 NCVTCHQANGKGVPGAFPALDGSPVVNGPKDGQVHLVLNGKNAMPPWKGVLNDTEIAAVI 360 NCVTCHQANGKGVPGAFPALDGSPVVNGPKDGQ+HLVLNGKNAMPPWKGVLNDTEIAAVI 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 = 87.0 bits (214), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 76/285 (26%), Positives = 107/285 (37%), Gaps = 46/285 (16%) Query: 39 NFQPPVTKIAEQIYDLHILMLIICLVIFVAVFGVMFYSIIKHRKSVGHKASTFHESTAVE 98 + Q P A I L + L +C V+F+ ++ + R+ A+ T Sbjct: 34 DVQQPAGPQAATIASLWHVTLGLCTVVFLLTLLACAVALFRRRRYSAEAAAATPRLT-WA 92 Query: 99 IAWTVVPFLIVIGMALPATKTVVAMKDT----SNADLTIKVTGMQWKWGYDY---LKGEG 151 I W + L G+ VVA + + L +K+T QW W Y L G+G Sbjct: 93 IGWAL--GLSATGLLALFAADVVASRALDQLPTAGALQVKLTARQWWWQAQYHDPLTGQG 150 Query: 152 EGISFLSNLATPREQVTDPSLKKNDNYLIEVDNPVVVPVNKKVRIVTTANDVIHSWTIPA 211 N + +PV + V I + DVIHS +P Sbjct: 151 ----------------------------FTTANELHLPVGRAVIIDLDSEDVIHSLWLPN 182 Query: 212 FGVKQDAIPGFVRDTWFRAEKIGTYRGQCVELCGKDHAFMPIVVNVVSEDDYKQWVDGKK 271 K D IPG RA++ GTYRGQC E CG +HA M ++V S DY +W G+ Sbjct: 183 LHGKLDLIPGKPAQLRLRADQAGTYRGQCAEFCGLEHARMALLVTAESPADYARWASGQA 242 Query: 272 KEMAAKADDPNKTWTVDELKQRGEKVYAAN-CVTCHQANGKGVPG 315 + A A RG V+ C CH G G Sbjct: 243 RAAAPVA-------DAAATVARGRAVFMERGCAQCHAIRGTDAAG 280 >gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspirillum seropedicae SmR1] Length = 431 Score = 67.4 bits (163), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 44/128 (34%), Positives = 64/128 (50%), Gaps = 19/128 (14%) Query: 271 KKEMAAKADDPNKTWTVD-----ELKQRGEKVYAANCVTCHQANGKGVPGAFPALDGSPV 325 K A+ ADD + +V+ + ++G+++Y CV CH G+G +P L G+ Sbjct: 297 KSLPASAADDAARPASVEPAEAERIMKQGKQLYGTLCVDCHGGKGQGSAPDYPPLAGNRA 356 Query: 326 VNGPKDGQ-VHLVLNG-----------KNAMPPWKGVLNDTEIAAVITYTRNSWSNKAQE 373 + GP V VLNG MPP+ L+D E+AAV++Y RNSW N Q Sbjct: 357 IAGPHPANAVRAVLNGGFPPSTAGNPYPFGMPPFGPQLSDQEVAAVVSYVRNSWGN--QG 414 Query: 374 NIVQPAEV 381 +V AEV Sbjct: 415 GLVSAAEV 422 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 66.6 bits (161), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 34/90 (37%), Positives = 45/90 (50%), Gaps = 12/90 (13%) Query: 294 GEKVYAANCVTCHQANGKGVPGAFPALDGSPVVNGPK-DGQVHLVLNGKNA--------- 343 GE++Y NC CH G+G PG FP LDG+ VVN +H++L G Sbjct: 315 GERLYLDNCAACHFVTGRGAPGIFPVLDGATVVNAENPSALLHVILAGARTPSTEKAPSI 374 Query: 344 --MPPWKGVLNDTEIAAVITYTRNSWSNKA 371 MP + L+D E AA+ T+ R W N A Sbjct: 375 LVMPGFAHRLSDEEAAALATFVRQGWGNHA 404 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 36/105 (34%), Positives = 52/105 (49%), Gaps = 14/105 (13%) Query: 294 GEKVYAANCVTCHQANGKGVPGAFPALDGSPVVNGPKDGQ-VHLVLNGKN---------- 342 G + NC CH+++GKG FP+L SP VN + +VL G Sbjct: 321 GAMAFLNNCAACHRSSGKGYDETFPSLALSPTVNAENPASLIRIVLEGAEMPWTHKAPTQ 380 Query: 343 -AMPPWKGVLNDTEIAAVITYTRNSWSNKAQENIVQPAEVLAARK 386 AMP + 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 0.412 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: 1,160,904 Number of extensions: 46382 Number of successful extensions: 139 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 137 Number of HSP's successfully gapped: 6 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 (21.7 bits) S2: 131 (55.1 bits)