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= 0298.0002.p (799 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|ZP_00060587.1| COG0142: Geranylgeranyl pyrophosphate synthas... 161 7e-38 gb|EAH49697.1| unknown [environmental sequence] 157 7e-37 dbj|BAA82614.1| farnesyl diphosphate synthase (SelFPS) [Synechoc... 153 2e-35 ref|ZP_00066191.1| COG0142: Geranylgeranyl pyrophosphate synthas... 151 8e-35 ref|NP_622916.1| Geranylgeranyl pyrophosphate synthase [Thermoan... 150 1e-34 >ref|ZP_00060587.1| COG0142: Geranylgeranyl pyrophosphate synthase [Clostridium thermocellum ATCC 27405] Length = 299 Score = 161 bits (407), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 104/266 (39%), Positives = 147/266 (55%), Gaps = 5/266 (1%) Query: 536 KESLIEAANYSLTGDGKRIRPILTWVLGVEVYGLQAAAIEPLLRSLEFMHTASLIFDDLP 595 ++SL A YSL GKR+RP+L+ + ++ G + P ++E +HT SLI DDLP Sbjct: 33 EKSLYSAMRYSLMAGGKRLRPVLSLAV-CDMLGGSVEQVLPFACAVEMIHTYSLIHDDLP 91 Query: 596 SQDNASTRRGRPTLHQVHNSATAELTGLYLIQKA--IQEQASLRAFD--PAAVLALMHYS 651 + DN RRGRPT H+V+ A A L G L+ A I + ++ D + A + Sbjct: 92 AMDNDDFRRGRPTNHKVYGEALAILAGDGLLNLAFEIMLENIIKNGDMERKSKAAAVIAK 151 Query: 652 AEKAEDMCMGQAMDLHSKGKAMTLEQLNMMCFYKTGLAFEASLVMPAILAGVPQAEINAL 711 A M GQ +DL S+GK + E LN M KTG +A +V AIL G +I L Sbjct: 152 AAGMNGMIAGQVIDLESEGKQVDNEILNRMHRLKTGALIKAPVVSAAILCGADADDIQKL 211 Query: 712 KKYAYHAGIAFQIKDDLLDLEGDQQVLGKNTRMDAENNNSTFVSVLGAEAARFEMWDHYC 771 ++A + G+AFQIKDD+LD+EG + LGK DA+NN ST+V+V G E ++ + D Sbjct: 212 DEFAENLGLAFQIKDDILDVEGSSEKLGKKVGSDADNNKSTYVTVYGLEKSKEILSDVTK 271 Query: 772 HAVEALNAVPRKIAFLNHLLDYIINR 797 AV+AL K FL L Y++ R Sbjct: 272 KAVDALEKFGEKADFLRSLAKYLLER 297 >gb|EAH49697.1| unknown [environmental sequence] Length = 275 Score = 157 bits (398), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 102/278 (36%), Positives = 153/278 (55%), Gaps = 9/278 (3%) Query: 526 IPRPDGIPPMKES-LIEAANYSLTGDGKRIRPILTWVLGVEVYGLQAAAIEPLLRSLEFM 584 +P+P+G KE+ L EA YS G GK+IRP + + ++G++ A + ++EF+ Sbjct: 3 LPKPEG----KEAPLAEAMRYSSLGVGKKIRPFMV-IQSSNMFGVEEKAAFRVAAAVEFL 57 Query: 585 HTASLIFDDLPSQDNASTRRGRPTLHQVHNSATAELTGLYLIQKAIQEQASLRAFDPAAV 644 H+ SLI DDLP+ DN+ RRG+ + H+ N TA L G L+ A + + D ++V Sbjct: 58 HSYSLIHDDLPAMDNSDFRRGKESCHKKFNEETAILAGDALLTTAFEILSDPETIDDSSV 117 Query: 645 -LALMHYSAEKA--EDMCMGQAMDLHSKGKAMTLEQLNMMCFYKTGLAFEASLVMPAILA 701 L++ A+ A M GQ +DL +GK ++L+++ M KTG F + +L Sbjct: 118 RCKLVNALAKSAGHHGMVAGQMIDLLGEGKNLSLDEIIRMQKLKTGEIFAFCMFAGGVLG 177 Query: 702 GVPQAEINALKKYAYHAGIAFQIKDDLLDLEGDQQVLGKNTRMDAENNNSTFVSVLGAEA 761 G +NALKKYAY GIAFQI DDLLDLEG +GK +DAE +T V+ LG E Sbjct: 178 GASNLHLNALKKYAYGFGIAFQIVDDLLDLEGTIDTMGKPGGLDAEAGKATLVAKLGVEE 237 Query: 762 ARFEMWDHYCHAVEALNAVPRKIAFLNHLLDYIINRNR 799 AR + +V+AL + +L L +++ R R Sbjct: 238 ARHKAVLLINESVDALKFWGEEADYLRALAQFVLERQR 275 >dbj|BAA82614.1| farnesyl diphosphate synthase (SelFPS) [Synechococcus elongatus] Length = 300 Score = 153 bits (387), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 105/297 (35%), Positives = 153/297 (51%), Gaps = 14/297 (4%) Query: 509 FQTTVRT----VREQINGLLKIPRPDGIPPMKESLIEAANYSLTGDGKRIRPILTWVLGV 564 FQ+ R+ V E +N LL P + P + L +A Y++ G GKR+RP+L + G Sbjct: 8 FQSWARSRQALVEEALNRLLP---PAEVAPQR--LHQAMRYAVLGGGKRVRPLLCYAAG- 61 Query: 565 EVYGLQAAAIEPLLRSLEFMHTASLIFDDLPSQDNASTRRGRPTLHQVHNSATAELTGLY 624 EV G + + +LE +H SL+ DDLP D+ RRG+PT H ++ ATA L G Sbjct: 62 EVSGAELERLSTAAAALELIHVYSLVHDDLPCMDDDVLRRGKPTCHVEYDEATALLAGDS 121 Query: 625 LIQKAIQEQASLRAFD-PAAVLALMHYSAEKA--EDMCMGQAMDLHSKGKAMTLEQLNMM 681 L A Q A R D P L ++ + A A M GQA+DL + GK +TL +L M Sbjct: 122 LQSLAFQLLAEYRVADSPQTQLRMLEHLARAAGSRGMAGGQAIDLEATGKTLTLPELEFM 181 Query: 682 CFYKTGLAFEASLVMPAILA-GVPQAEINALKKYAYHAGIAFQIKDDLLDLEGDQQVLGK 740 +KTG AS+++ A + +++ L +A G+AFQ+ DD+LD + LGK Sbjct: 182 HIHKTGALIRASVILGANCGRALASKDMDRLDHFAKRIGLAFQVVDDVLDAQSTTATLGK 241 Query: 741 NTRMDAENNNSTFVSVLGAEAARFEMWDHYCHAVEALNAVPRKIAFLNHLLDYIINR 797 DA T+VS +G EAAR + AVE+L + L L +YI++R Sbjct: 242 TAGKDARQGKPTYVSTVGVEAARAMAQELKREAVESLAPFGERARRLRELAEYIVSR 298 >ref|ZP_00066191.1| COG0142: Geranylgeranyl pyrophosphate synthase [Microbulbifer degradans 2-40] Length = 310 Score = 151 bits (381), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 102/284 (35%), Positives = 152/284 (53%), Gaps = 4/284 (1%) Query: 517 REQINGLLKIPRPDGIPPMKESLIEAANYSLTGDGKRIRPILTWVLGVEVYGLQAAAIEP 576 RE NGLL+ R G+ LIEA YSL GKR+RP+L + G+ +AA + Sbjct: 28 REHTNGLLE-ERLIGLKHYNTDLIEAMRYSLLLGGKRVRPVLVYAAAYATGGI-SAAADD 85 Query: 577 LLRSLEFMHTASLIFDDLPSQDNASTRRGRPTLHQVHNSATAELTGLYLIQKAIQEQASL 636 ++E +HT SLI DDLP+ D+ + RRG+PT H ++ ATA L G L +A + A+ Sbjct: 86 CACAIEAIHTYSLIHDDLPAMDDDALRRGQPTCHIAYSEATAILAGDALQCQAFEWLANS 145 Query: 637 RAF--DPAAVLALMHYSAEKAEDMCMGQAMDLHSKGKAMTLEQLNMMCFYKTGLAFEASL 694 + A A A M +GQA+DL + K++ L+ L M +KTG AS+ Sbjct: 146 QHMPASAALQAIAALAKASGASGMVLGQAIDLAAVDKSVDLQHLETMHQHKTGALISASV 205 Query: 695 VMPAILAGVPQAEINALKKYAYHAGIAFQIKDDLLDLEGDQQVLGKNTRMDAENNNSTFV 754 M AI AG + L++YA G+AFQ++DD+LD+ + LGK DAE N T+V Sbjct: 206 EMGAIAAGATPTQTAQLRQYASAIGLAFQVQDDILDVTANTATLGKEAGADAERNKPTYV 265 Query: 755 SVLGAEAARFEMWDHYCHAVEALNAVPRKIAFLNHLLDYIINRN 798 S+LG + A+ + + A+ ++ + L L YI+ R+ Sbjct: 266 SLLGLDGAKHKASELLQQALASIKDFDERADILRQLATYIVQRD 309 >ref|NP_622916.1| Geranylgeranyl pyrophosphate synthase [Thermoanaerobacter tengcongensis] gb|AAM24520.1| Geranylgeranyl pyrophosphate synthase [Thermoanaerobacter tengcongensis] Length = 294 Score = 150 bits (380), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 102/305 (33%), Positives = 159/305 (52%), Gaps = 28/305 (9%) Query: 506 KEKFQTTVRTVREQINGLLKI-PRPDGIPPMKESLIEAANYSLTGDGKRIRPILTWVLGV 564 KEKF+ + V E+++ +L + +P E + EA YS+ GKR+RP+L Sbjct: 3 KEKFKNLQQMVEEELHRILDVQEKP-------EIIYEAMRYSVFAGGKRLRPVLCLS-AC 54 Query: 565 EVYGLQAAAIEPLLRSLEFMHTASLIFDDLPSQDNASTRRGRPTLHQVHNSATAELTG-- 622 E+ G P+ S+E +HT SLI DDLP+ DN RRG+PT H+V A A L G Sbjct: 55 ELLGGDLKKALPVACSIELIHTYSLIHDDLPAMDNDDLRRGKPTNHKVFGEAIAILAGDG 114 Query: 623 ------LYLIQKAIQE----QASLRAFDPAAVLALMHYSAEKAEDMCMGQAMDLHSKGKA 672 LI+ A++ + L+A + A +A + + GQ D+ S+ Sbjct: 115 LLNLGYEVLIRHALENPEDYEKILKAANEIA-------TASGCKGIIGGQVEDILSQNTE 167 Query: 673 MTLEQLNMMCFYKTGLAFEASLVMPAILAGVPQAEINALKKYAYHAGIAFQIKDDLLDLE 732 +T E+L + +KT EAS+ A +AG + E+ L++YA G+AFQIKDD+LD+ Sbjct: 168 LTYEELKYIHEHKTAALIEASVCAGAHMAGASEKEVELLREYAGLIGLAFQIKDDILDVI 227 Query: 733 GDQQVLGKNTRMDAENNNSTFVSVLGAEAARFEMWDHYCHAVEALNAVPRKIAFLNHLLD 792 GD++ LGK D E TFV++ G E ++ + + A++ L+ + FL L + Sbjct: 228 GDEKTLGKKVGSDREKGKFTFVNIFGVEKSQEMVKELTDEAIKILDTFGERAQFLKDLSN 287 Query: 793 YIINR 797 Y+I R Sbjct: 288 YLIER 292 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.320 0.134 0.394 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 1,120,857,029 Number of extensions: 45193191 Number of successful extensions: 111050 Number of sequences better than 1.0e-05: 1178 Number of HSP's gapped: 109326 Number of HSP's successfully gapped: 1178 Length of query: 799 Length of database: 757,237,578 Length adjustment: 134 Effective length of query: 665 Effective length of database: 393,414,312 Effective search space: 261620517480 Effective search space used: 261620517480 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: 130 (54.7 bits)