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= 0317.0004.p (218 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value SA1352 [H] COG0142 Geranylgeranyl pyrophosphate synthase 184 7e-47 alr0213 [H] COG0142 Geranylgeranyl pyrophosphate synthase 174 7e-44 BH2781 [H] COG0142 Geranylgeranyl pyrophosphate synthase 166 3e-41 FN1327 [H] COG0142 Geranylgeranyl pyrophosphate synthase 164 1e-40 slr0739 [H] COG0142 Geranylgeranyl pyrophosphate synthase 162 3e-40 >SA1352 [H] COG0142 Geranylgeranyl pyrophosphate synthase Length = 293 Score = 184 bits (468), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 101/212 (47%), Positives = 129/212 (60%), Gaps = 5/212 (2%) Query: 1 MVHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEATAILAGDALLTHAFYSVVQASRKHGV 60 M+HTYSLIHDDLPAMDNDDYRRGKLTNHKVYGE TAILAGDALLT AF + R + Sbjct: 73 MIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELISSDDR---L 129 Query: 61 PAEHALSVVEDLAEMAGPRGMVGGQIADMEGEQGLTSLEQLQX--XXXXGDLIVFSLTAG 118 E + V++ L+ +G GMVGGQ+ DM+ E LE L+ G L+ F++ + Sbjct: 130 TDEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALLTFAVMSA 189 Query: 119 GRIAGADSRQLEALRDFGTHIGLAFQIQDDILDLVGDEGKLGKKTGSDLKQQKVTYPYFI 178 IA D E L + H+G+ FQI+DD+LD GDE KLGKK GSDL+ K TY + Sbjct: 190 ADIANVDDATKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLL 249 Query: 179 GLDASRDEVKRLTEAXXXAALSLKAVFRTIHV 210 G D + D++ +A + F T H+ Sbjct: 250 GKDGAEDKLTYHRDAAVDELTQIDEQFNTKHL 281 >alr0213 [H] COG0142 Geranylgeranyl pyrophosphate synthase Length = 359 Score = 174 bits (442), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 12/196 (6%), Positives = 24/196 (12%), Gaps = 4/196 (2%) Query: 1 MVHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEATAILAGDALLTHAFYSVVQASRKHGV 60 + H + + + V L + Sbjct: 88 PTISAQHFHTAVHNEEQLAALEEASLDEPVTVWMKLDTGMHRLGVRPE-QAEAFYHRLTQ 146 Query: 61 PAEHALSVVEDLAEMAGPRGMVGGQIADMEGE-QGLTSLEQLQX--XXXXGDLIVFSLTA 117 V G + + L S Sbjct: 147 CKNVRQPVNIVSHFARADEPKCGATEKQLAIFNTFCEGKPGQRSIAASGGILLWPQSHFD 206 Query: 118 GGRIAGADSRQLEALRDFGTHIGLAFQIQDDILDLVGDEGKLGKKTGSDLKQQKVTYPYF 177 R + L+ + Sbjct: 207 WVRPGIILYGVSPLEDRSTGADFGCQPVMSLTSSLIAVREHKAGEPVGYGGTWVSERDTR 266 Query: 178 IGLDASRDEVKRLTEA 193 +G+ A A Sbjct: 267 LGVVAMGYGDGYPRAA 282 >BH2781 [H] COG0142 Geranylgeranyl pyrophosphate synthase Length = 294 Score = 166 bits (419), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 96/189 (50%), Positives = 131/189 (69%), Gaps = 5/189 (2%) Query: 1 MVHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEATAILAGDALLTHAFYSVVQASRKHGV 60 M+HTYSLIHDDLP+MD+DD RRGK TNHKV+GEA AILAGDALLT++F V ++ GV Sbjct: 76 MIHTYSLIHDDLPSMDDDDIRRGKPTNHKVFGEAHAILAGDALLTYSFEIV---AKMKGV 132 Query: 61 PAEHALSVVEDLAEMAGPRGMVGGQIADMEGEQGLTSLEQLQXX--XXXGDLIVFSLTAG 118 L ++E+LA AGP GMVGGQ+AD+EGE ++E L+ G L+ F++ AG Sbjct: 133 DPAKTLCLIEELARAAGPEGMVGGQVADIEGENQKLTVEGLEYIHHHKTGALLSFAIVAG 192 Query: 119 GRIAGADSRQLEALRDFGTHIGLAFQIQDDILDLVGDEGKLGKKTGSDLKQQKVTYPYFI 178 R+A A + +E +R F +GL FQI+DDILD+ GD+ +GK GSD QK TYP + Sbjct: 193 ARLADASEQDIENIRRFSRELGLLFQIKDDILDVEGDQAAIGKPVGSDDGNQKSTYPSLL 252 Query: 179 GLDASRDEV 187 L+ +++++ Sbjct: 253 TLEGAKEKL 261 >FN1327 [H] COG0142 Geranylgeranyl pyrophosphate synthase Length = 297 Score = 164 bits (415), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 83/186 (44%), Positives = 119/186 (63%), Gaps = 3/186 (1%) Query: 1 MVHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEATAILAGDALLTHAFYSVVQASRKHGV 60 M+H+YSL+HDDLPA+DNDDYRRGKLT HKV+GEA IL GD+LLT+AFY + Q + + + Sbjct: 75 MIHSYSLVHDDLPALDNDDYRRGKLTTHKVFGEAEGILIGDSLLTYAFYVLSQKNLEL-L 133 Query: 61 PAEHALSVVEDLAEMAGPRGMVGGQIADMEGEQGLTSLEQLQX--XXXXGDLIVFSLTAG 118 ++ ++++ +E AG GM+GGQ+ D++ E LE L+ G LI + Sbjct: 134 SSKQIVNIISKTSEYAGIDGMIGGQMIDIQSENKKIDLETLKYIHSHKTGKLIKLPIEIA 193 Query: 119 GRIAGADSRQLEALRDFGTHIGLAFQIQDDILDLVGDEGKLGKKTGSDLKQQKVTYPYFI 178 IA + + E L ++ IGLAFQ++DDILD+ G LGK GSD+ K TYP + Sbjct: 194 CIIANLEKDKREVLEEYADLIGLAFQVKDDILDVEGTFEDLGKPVGSDVDLHKATYPSIL 253 Query: 179 GLDASR 184 G++ S+ Sbjct: 254 GMEESK 259 >slr0739 [H] COG0142 Geranylgeranyl pyrophosphate synthase Length = 211 Score = 162 bits (410), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 0/196 (0%), Positives = 0/196 (0%), Gaps = 7/196 (3%) Query: 1 MVHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEATAILAGDALLTHAFYSVVQASRKHGV 60 I + + ++ + + + Sbjct: 82 YNSKAENIIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVLNTAFGWPTIAVD--T 139 Query: 61 PAEHALSVVEDLAEMAGPRGMVGGQIADMEGEQGLTSL--EQLQX--XXXXGDLIVFSLT 116 + + + + L S Sbjct: 140 HIFRVCNRTQFAPGKNVEQVEEKLLKVVPAEF-KVDCHHWLILHGRYTCIARKPRCGSCI 198 Query: 117 AGGRIAGADSRQLEALRDFGTHIGLAFQIQDDILDLVGDEGKLGKKTGSDLKQQKVTYPY 176 Sbjct: 199 258 Query: 177 FIGLDASRDEVKRLTE 192 Sbjct: 259 274 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.318 0.135 0.382 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 15,639,568 Number of extensions: 630403 Number of successful extensions: 1238 Number of sequences better than 1.0e-05: 98 Number of HSP's gapped: 1086 Number of HSP's successfully gapped: 98 Length of query: 218 Length of database: 38,378,431 Length adjustment: 102 Effective length of query: 116 Effective length of database: 26,614,363 Effective search space: 3087266108 Effective search space used: 3087266108 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 113 (48.1 bits)