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= 0225.0008.p (208 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K4U7.1 B3K4U7_9BACI Cytochrome c oxidase subunit III 268 2e-70 B1D4L3.1 B1D4L3_9BACL Cytochrome c oxidase subunit III 243 5e-63 C0Z580.1 C0Z580_BREBN Cytochrome c oxidase polypeptide III EC=1.... 214 5e-54 Q5WFD4.1 Q5WFD4_BACSK Cytochrome caa3 oxidase subunit III CoxC E... 207 3e-52 Q9K9N2.1 Q9K9N2_BACHD Cytochrome caa3 oxidase (Subunit III) 202 1e-50 >B3K4U7.1 B3K4U7_9BACI Cytochrome c oxidase subunit III Length = 206 Score = 268 bits (686), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 136/205 (66%), Positives = 149/205 (72%) Query: 4 AHAESAAGNLPHEPEKATLEGRNKVLAFWLFLGGESVXXXXXXXXXXXXRNQTNEGPSAN 63 +HAE G LPHEPEKATLEGRNKVL FWLFLGGE+V R Q NEGP+A Sbjct: 2 SHAEHVNGELPHEPEKATLEGRNKVLGFWLFLGGEAVLFGTLFATFLALRGQNNEGPTAA 61 Query: 64 DLFHLPXXXXXXXXXXXXXXXXXXXIQAMHRGKVAVLRNWLLVTVFLGLCFLVLEIYEFS 123 +LF LP IQA+HR + L+ WL+VTV LGL FL LEIYEF Sbjct: 62 ELFSLPITAAATLILLVSSLTSVFAIQALHRHNIEKLKLWLIVTVVLGLGFLGLEIYEFY 121 Query: 124 VYVRHEEFGMTTSAFSSAFYTLVGFHGAHVAFGILWISVLIGQLARKGLTVVTAPKIYVS 183 YV HE F M TSAFSSAFYTLVGFHGAHVAFG++WIS+LI QL RKGLTVVTAPK+YVS Sbjct: 122 EYVVHESFNMKTSAFSSAFYTLVGFHGAHVAFGVVWISLLIAQLYRKGLTVVTAPKVYVS 181 Query: 184 AMYWHFIDVVWVFIFTVVYLLGKVG 208 AMYWHFIDVVWVFIF+VVYLLGKVG Sbjct: 182 AMYWHFIDVVWVFIFSVVYLLGKVG 206 >B1D4L3.1 B1D4L3_9BACL Cytochrome c oxidase subunit III Length = 205 Score = 243 bits (621), Expect = 5e-63, Method: Compositional matrix adjust. Identities = 126/206 (61%), Positives = 146/206 (70%), Gaps = 2/206 (0%) Query: 3 TAHAESAAGNLPHEPEKATLEGRNKVLAFWLFLGGESVXXXXXXXXXXXXRNQTNEGPSA 62 +AH+ + G LPHEPEKATLEGRNK+L FWLFLG E+V R+Q +GP + Sbjct: 2 SAHSHTE-GQLPHEPEKATLEGRNKILGFWLFLGAETVLFGTLFSAFLALRDQVLDGPKS 60 Query: 63 NDLFHLPXXXXXXXXXXXXXXXXXXXIQAMHRGKVAVLRNWLLVTVFLGLCFLVLEIYEF 122 +LF LP QA+H+ KV + WL+VTV LGL FL LEIYEF Sbjct: 61 QELFELPLVALATGLLLTSSLTSVFATQALHQQKVKAMVWWLVVTVILGLGFLGLEIYEF 120 Query: 123 SVYVRHEEFGMTTSAFSSAFYTLVGFHGAHVAFGILWISVLIGQLARKGLTVVTAPKIYV 182 S YV HE G TTSAFSS+FYTLVGFHGAHVAFGI+WIS+LIGQL +KGLTV TAPK YV Sbjct: 121 SNYV-HEGHGFTTSAFSSSFYTLVGFHGAHVAFGIVWISLLIGQLLKKGLTVTTAPKAYV 179 Query: 183 SAMYWHFIDVVWVFIFTVVYLLGKVG 208 + +YWHFIDVVWVFIFTVVYL+GKVG Sbjct: 180 AGIYWHFIDVVWVFIFTVVYLMGKVG 205 >C0Z580.1 C0Z580_BREBN Cytochrome c oxidase polypeptide III EC=1.9.3.1 Length = 208 Score = 214 bits (544), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 113/208 (54%), Positives = 135/208 (64%), Gaps = 4/208 (1%) Query: 1 MTTAHAESAAGNLPHEPEKATLEGRNKVLAFWLFLGGESVXXXXXXXXXXXXRNQTNEGP 60 M HA + LP EPEKATLEG+NKVL FWLFLGGE+V R+Q N GP Sbjct: 1 MANHHAHAV---LPDEPEKATLEGKNKVLGFWLFLGGETVLFGSLFATFIALRDQANGGP 57 Query: 61 SANDLFHLPXXXXXXXXXXXXXXXXXXXIQAMHRGKVAVLRNWLLVTVFLGLCFLVLEIY 120 ++ LF + A+HR + ++ WL +TV LGL FL LEIY Sbjct: 58 TSQALFDMNLVAVATLLLLTSSMTSVMATLALHRKDLKKIQLWLTITVILGLGFLALEIY 117 Query: 121 EFSVYVRHEEFGMTTSAFSSAFYTLVGFHGAHVAFGILWISVLIGQLARKGLTVVTAPKI 180 EF YV +E M+TSAFSSAFYTLVGFHGAHVAFGI WI++L +KGLTVVTAPK Sbjct: 118 EFVHYV-NEGLKMSTSAFSSAFYTLVGFHGAHVAFGICWITLLQLSATKKGLTVVTAPKF 176 Query: 181 YVSAMYWHFIDVVWVFIFTVVYLLGKVG 208 Y++ +YWHFIDVVWVFIFTVVYL+G +G Sbjct: 177 YLACLYWHFIDVVWVFIFTVVYLMGMIG 204 >Q5WFD4.1 Q5WFD4_BACSK Cytochrome caa3 oxidase subunit III CoxC EC=1.9.3.1 Length = 207 Score = 207 bits (528), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 105/205 (51%), Positives = 128/205 (62%) Query: 4 AHAESAAGNLPHEPEKATLEGRNKVLAFWLFLGGESVXXXXXXXXXXXXRNQTNEGPSAN 63 A + A LP PE+ATLEG+NK L FW FLGGE++ RN GP++ Sbjct: 2 AGSVDATKGLPSHPERATLEGKNKFLGFWFFLGGETIMFATFFGTYLGLRNGVGNGPAST 61 Query: 64 DLFHLPXXXXXXXXXXXXXXXXXXXIQAMHRGKVAVLRNWLLVTVFLGLCFLVLEIYEFS 123 DLF LP + AM + K + W+++TV LGL FL LEIYEF Sbjct: 62 DLFTLPLVFLMTMLLLTSSMTSVFAMFAMKKNKFKQMMTWMIITVVLGLAFLGLEIYEFQ 121 Query: 124 VYVRHEEFGMTTSAFSSAFYTLVGFHGAHVAFGILWISVLIGQLARKGLTVVTAPKIYVS 183 YV EFG TTSAFSSAFYTLVG HGAHV FG+ WI++LI + R G+T+ APK YV+ Sbjct: 122 HYVHDYEFGFTTSAFSSAFYTLVGLHGAHVLFGLGWITLLIIRNFRAGITLTNAPKFYVA 181 Query: 184 AMYWHFIDVVWVFIFTVVYLLGKVG 208 ++YWHFIDVVWVFIFTVVYL+G G Sbjct: 182 SLYWHFIDVVWVFIFTVVYLMGVGG 206 >Q9K9N2.1 Q9K9N2_BACHD Cytochrome caa3 oxidase (Subunit III) Length = 206 Score = 202 bits (514), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 99/205 (48%), Positives = 129/205 (62%), Gaps = 1/205 (0%) Query: 4 AHAESAAGNLPHEPEKATLEGRNKVLAFWLFLGGESVXXXXXXXXXXXXRNQTNEGPSAN 63 H +++ G LP PE+ATLEG+NK L FW FLGGE++ R+ T +GP Sbjct: 3 GHVDTSKG-LPSHPERATLEGKNKFLGFWFFLGGETILFATFFGTYLGLRSGTADGPLPQ 61 Query: 64 DLFHLPXXXXXXXXXXXXXXXXXXXIQAMHRGKVAVLRNWLLVTVFLGLCFLVLEIYEFS 123 D+F LP + AM + K ++ W+ +TV LGL FL EIYEF Sbjct: 62 DIFALPLVFIMTMLLLTSSLTSVIAMAAMKKNKFGAMKLWMWITVLLGLGFLGFEIYEFY 121 Query: 124 VYVRHEEFGMTTSAFSSAFYTLVGFHGAHVAFGILWISVLIGQLARKGLTVVTAPKIYVS 183 YV H E G +TSAF+S+FY+LVG HGAHVAFG+ WI L+ + R G+T+ APK YV+ Sbjct: 122 EYVHHYELGFSTSAFASSFYSLVGLHGAHVAFGLSWIITLLIRYNRSGITLTNAPKFYVA 181 Query: 184 AMYWHFIDVVWVFIFTVVYLLGKVG 208 ++YWHFIDVVWVFIFTVVYL+G +G Sbjct: 182 SLYWHFIDVVWVFIFTVVYLMGVLG 206 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 0.327 0.140 0.442 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: 1,046,298,336 Number of extensions: 33835558 Number of successful extensions: 100775 Number of sequences better than 1.0e-05: 4719 Number of HSP's gapped: 95303 Number of HSP's successfully gapped: 4719 Length of query: 208 Length of database: 3,060,696,203 Length adjustment: 130 Effective length of query: 78 Effective length of database: 1,835,964,253 Effective search space: 143205211734 Effective search space used: 143205211734 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 (21.7 bits) S2: 128 (53.9 bits)