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= 0109.0012.p (292 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KKN4.1 B3KKN4_9BACI Cytochrome oxidase assembly 295 2e-78 C0Z551.1 C0Z551_BREBN Cytochrome aa3 controlling protein 180 1e-43 A8W1L0.1 A8W1L0_9BACI DNA repair protein RadA 161 7e-38 C4CLC8.1 C4CLC8_9CHLR Uncharacterized protein required for cytoc... 161 7e-38 Q67L43.1 CTAA_SYMTH Heme A synthase EC=1.3.-.- 140 1e-31 >B3KKN4.1 B3KKN4_9BACI Cytochrome oxidase assembly Length = 324 Score = 295 bits (756), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 150/291 (51%), Positives = 180/291 (61%), Gaps = 3/291 (1%) Query: 1 MFMALLGGAVVTKTGSGLECGNEWPLCHGKLIPAYTIGSLIEYTHRXXXXXXXXXXXXXX 60 MF A GG VVTKTGSGL CG EWPLC+GK +PAYT+ S+IEY+HR Sbjct: 17 MFCATFGGMVVTKTGSGLGCGQEWPLCNGKFVPAYTVSSMIEYSHRAVSGMAGLAALASL 76 Query: 61 XXXWRYARERRDXXXXXXXXXXXXXXXGGMGALAVIRPQSAAVMALHMGFSLIAFASSLM 120 W+Y R+RRD MGALAV++PQSAA+MALH GFSLIAFASS+M Sbjct: 77 IAFWKYKRDRRDLMAYVIGTSIFVVVQAIMGALAVVKPQSAAIMALHFGFSLIAFASSVM 136 Query: 121 LALGTKRRHAWGDAPPVADR--GVSRGFRNLTWAAALYSYIVVYIGAYVSHTDSQGGCSG 178 LALG RR P +R V +GFRNL W LYSYIVVYIGA+VSHTDS+ GCSG Sbjct: 137 LALGM-RRIEQAKGPVDLERLPRVGKGFRNLVWGTTLYSYIVVYIGAFVSHTDSREGCSG 195 Query: 179 WPLCNGEWFPELSGGVTIVFTHRVXXXXXXXXXXXXXXXXFWKHKAQPELRALGIAAVVL 238 WPLCNGE PELSGGV I F HRV +W+++ E++ LGI+A +L Sbjct: 196 WPLCNGEVIPELSGGVGIAFMHRVAALLLLIVVAVMGHFAYWRNRDNREIQMLGISATML 255 Query: 239 CLLQVLSGAAVVHTLYNERLYXXXXXXXXXXXXXXXXVLCYMSVRVWQLER 289 CLLQV SGA ++ T++NE +Y VLCY+SVRVWQL + Sbjct: 256 CLLQVFSGALIMATMHNEEVYVFSALGHTLLISALFGVLCYLSVRVWQLSK 306 >C0Z551.1 C0Z551_BREBN Cytochrome aa3 controlling protein Length = 304 Score = 180 bits (457), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 100/284 (35%), Positives = 142/284 (50%), Gaps = 8/284 (2%) Query: 1 MFMALLGGAVVTKTGSGLECGNEWPLCHGKLIPAYTIGSLIEYTHRXXXXXXXXXXXXXX 60 MF+ ++ G++VTKT S L CGN+WPLC+GK +P YT+ S+IEY+HR Sbjct: 16 MFIVMVAGSLVTKTESALGCGNDWPLCNGKWVPEYTLASIIEYSHRLITGVAGIVVAIFS 75 Query: 61 XXXWRYARERRDXXXXXXXXXXXXXXXGGMGALAVIRPQSAAVMALHMGFSLIAFASSLM 120 WRY + ++ +GA AVI PQS++V+ALH GFSL+A+ + Sbjct: 76 VLCWRYYKNNQEVRNLAIFGLFFIVVESILGASAVIWPQSSSVLALHFGFSLLAYTGVFL 135 Query: 121 LALGTKRRHAWGDAPPVADRGVSRGFRNLTWAAALYSYIVVYIGAYVSHTDSQGGCSGWP 180 L++ +R + VS+GFRN W A+Y+Y VVY+GAYV HT S CS WP Sbjct: 136 LSVFVYQRE---KTQSLVKTTVSKGFRNWMWFVAIYTYAVVYLGAYVRHTGSSMACSDWP 192 Query: 181 LCNGEWFPELSGGVTIVFTHRVXXXXXXXXXXXXXXXXFWKHKAQ-PELRALGIAAVVLC 239 LC G+ PEL G I F HR+ K + +L I + +LC Sbjct: 193 LCQGQVIPELYGQTGIHFAHRIAALVLGFLLLGTMIYCIRHFKEKRRDLYGASILSFILC 252 Query: 240 LLQVLSGAAVVHTLYNERLYXXXXXXXXXXXXXXXXVLCYMSVR 283 + QV SG V+ +Y LY ++CYM ++ Sbjct: 253 IAQVFSGGFVI--IYKLHLY--ATLTHSMIITILFGIICYMCLQ 292 Score = 55.5 bits (132), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 31/105 (29%), Positives = 53/105 (50%), Gaps = 1/105 (0%) Query: 147 RNLTWAAALYSYIVVYIGAYVSHTDSQGGC-SGWPLCNGEWFPELSGGVTIVFTHRVXXX 205 + L + A L +IV+ G+ V+ T+S GC + WPLCNG+W PE + I ++HR+ Sbjct: 6 KPLAFLATLIMFIVMVAGSLVTKTESALGCGNDWPLCNGKWVPEYTLASIIEYSHRLITG 65 Query: 206 XXXXXXXXXXXXXFWKHKAQPELRALGIAAVVLCLLQVLSGAAVV 250 + +K E+R L I + +++ + GA+ V Sbjct: 66 VAGIVVAIFSVLCWRYYKNNQEVRNLAIFGLFFIVVESILGASAV 110 >A8W1L0.1 A8W1L0_9BACI DNA repair protein RadA Length = 297 Score = 161 bits (407), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 101/261 (38%), Positives = 131/261 (50%), Gaps = 13/261 (4%) Query: 1 MFMALLGGAVVTKTGSGLECGNEWPLCHGKLIPAY-TIGSLIEYTHRXXXXXXXXXXXXX 59 M + L+ GA+VT+TGSG CG EWPLC+G+LIP TI +LIEYTHR Sbjct: 10 MLIVLIQGALVTQTGSGDACGAEWPLCYGELIPTNPTIPTLIEYTHRLVSAILGIMVITQ 69 Query: 60 XXXXW-RYARERRDXXXXXXXXXXXXXXXGGMGALAVIRPQSAAVMALHMGFSLIAFASS 118 W R + ++ G +GA AV+ QS AVMALH GFSL++FAS Sbjct: 70 AIWSWIRIRKFVKETGFFAIIAVLFIILQGLLGAAAVVWGQSDAVMALHFGFSLVSFASV 129 Query: 119 LMLALGTKRRHAWGDA-PPVADRGVSRGFRNLTWAAALYSYIVVYIGAYVSHTDSQGGCS 177 ++L + D PV +S R + +Y YIVVY GAYV H+ S G C Sbjct: 130 VLLTVLVFEADKNTDQLTPV----LSSSIRKYIYGVLVYIYIVVYSGAYVRHSGSSGACD 185 Query: 178 GWPLCNGEWFPELSGGVTIVFTHRVXXXXXXXXXXXXXXXXFWKHKAQPELRAL---GIA 234 GWPLCNG+ PELSGGV I F HR+ H++ R Sbjct: 186 GWPLCNGQLIPELSGGVLIQFGHRLLAGMLFIVILIMFIRI---HRSFRRYRLFYWTSFT 242 Query: 235 AVVLCLLQVLSGAAVVHTLYN 255 A++ QV+SGA V+ T +N Sbjct: 243 ALIFITTQVISGAIVIFTTFN 263 >C4CLC8.1 C4CLC8_9CHLR Uncharacterized protein required for cytochrome oxidase assembly Length = 305 Score = 161 bits (407), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 95/250 (38%), Positives = 128/250 (51%), Gaps = 3/250 (1%) Query: 1 MFMALLGGAVVTKTGSGLECGNEWPLCHGKLIPAYTIGSLIEYTHRXXXXXXXXXXXXXX 60 MF+ L+ GA VT TGSG CG WPLCHG+++P +T+ S+IEY+HR Sbjct: 1 MFLVLIAGATVTSTGSGAGCGRSWPLCHGRVLPQFTLESIIEYSHRAVTGVEGLLIVALA 60 Query: 61 XXXWRYARERRDXXXXXXXXXXXXXXXGGMGALAVIRPQSAAVMALHMGFSLIAFASSLM 120 WR + R + +GA A + Q A MALH G SL AFAS ++ Sbjct: 61 IGAWRGWKRRSEVRVLVPLMIGFLVLQSILGAWAAVFGQQPATMALHFGVSLTAFASVML 120 Query: 121 LALGTKRRHAWGDAPPVADRGVSRGFRNLTWAAALYSYIVVYIGAYVSHTDSQGGCSGWP 180 LA + G + +R V G R L W Y+Y++VY+GAYV HT+S C WP Sbjct: 121 LA---AFLYEVGGFEAMRNRPVPSGLRWLIWGTLGYTYLLVYVGAYVRHTNSGLACIDWP 177 Query: 181 LCNGEWFPELSGGVTIVFTHRVXXXXXXXXXXXXXXXXFWKHKAQPELRALGIAAVVLCL 240 LCNG+ +P LSG V I+F HR+ + +A+P+L + A+ L L Sbjct: 178 LCNGQVWPGLSGPVGIMFAHRLAAVAGTLLIGALVVWTWRVRRARPDLYWSAVIALGLML 237 Query: 241 LQVLSGAAVV 250 LQ LSG VV Sbjct: 238 LQSLSGGLVV 247 >Q67L43.1 CTAA_SYMTH Heme A synthase EC=1.3.-.- Length = 306 Score = 140 bits (354), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 79/204 (38%), Positives = 105/204 (51%), Gaps = 3/204 (1%) Query: 1 MFMALLGGAVVTKTGSGLECGNEWPLCHGKLIPAYTIGSLIEYTHRXXXXXXXXXXXXXX 60 M +A+L GA VT + SG CG WPLC G +P + +++E+ HR Sbjct: 15 MLLAVLWGAWVTSSDSGDGCGASWPLCKGTFMPDWDYAAIVEFGHRVVSALAGLLSVAVL 74 Query: 61 XXXWRYARERRDXXXXXXXXXXXXXXXGGMGALAVIRPQSAAVMALHMGFSLIAFASSLM 120 R GG+GA AV+RPQ VMALH GFSL+ F +L+ Sbjct: 75 VWVARVRPSETRLKRLAFGTFFFVVLQGGLGAAAVLRPQPDLVMALHFGFSLLCFTFALL 134 Query: 121 L--ALGTKRRHAWGDAPPVADRGVSRGFRNLTWAAALYSYIVVYIGAYVSHTDSQGGCSG 178 + ALG R A+ P V+ + V+ G R W A+Y+Y+VVY+GAYV H + C+G Sbjct: 135 VTVALGQGERAAF-QRPDVSAQPVAPGLRTQIWGLAVYTYLVVYLGAYVRHLGASMACTG 193 Query: 179 WPLCNGEWFPELSGGVTIVFTHRV 202 WPLCNGE P L G V F HR+ Sbjct: 194 WPLCNGELIPPLYGPVGANFAHRL 217 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.325 0.138 0.453 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,352,684,776 Number of extensions: 44693626 Number of successful extensions: 107121 Number of sequences better than 1.0e-05: 150 Number of HSP's gapped: 106630 Number of HSP's successfully gapped: 154 Length of query: 292 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 158 Effective length of database: 1,798,280,193 Effective search space: 284128270494 Effective search space used: 284128270494 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)