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= 0301.0005.p (286 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_yitS [S] COG1307 Uncharacterized protein conserved in bacteria 154 2e-37 STM1468_2 [C] COG1838 Tartrate dehydratase beta subunit/Fumarate... 151 1e-36 STM1468_1 [C] COG1951 Tartrate dehydratase alpha subunit/Fumarat... 151 1e-36 TM1468 [S] COG1307 Uncharacterized protein conserved in bacteria 151 1e-36 lin2658 [S] COG1307 Uncharacterized protein conserved in bacteria 137 2e-32 >BS_yitS [S] COG1307 Uncharacterized protein conserved in bacteria Length = 283 Score = 154 bits (388), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 93/281 (33%), Positives = 143/281 (50%), Gaps = 6/281 (2%) Query: 9 VKIFSDSTSDLPQGWKETYDIGIIPLYVVFEDATYRDGVDITPEEVYRRVAAQGALPKTA 68 V + +DS +DLP+ + E IG IPL V D + D V I ++++ + G PKT+ Sbjct: 3 VHLIADSATDLPRSYFEEKGIGFIPLRVSLGDKEFEDAVTIHADQIFEAMQ-NGETPKTS 61 Query: 69 APSPADFMAAFEPVIRSGGDVVYISLSSALSSTYQNALLAAVE----FPEGRVHVVDSET 124 SP F +G +YI+ SS LS TYQ A++ A E FP+ + V+DS+ Sbjct: 62 QASPQTIKNVFLQYAETGDPALYIAFSSGLSGTYQTAVMIANEVKEEFPDFDLRVIDSKC 121 Query: 125 LCGGIALLVMKXXXXXXXGQSAPEIAAMVKECRSQVQTEFVVDKLDYLYMGGRCSGMQNF 184 G L V G + EI VK SQ++ F VD L YL GGR S F Sbjct: 122 ASLGYGLAVRHAADLCINGNTIQEIETSVKNFCSQLEHIFTVDDLTYLARGGRISKTSAF 181 Query: 185 IGRLLKIRPVLRLIDGAIVPVSKIRGKKEKAIEQMLHHALEHAGTIDKELIIVAHTLAEE 244 +G LL I+P+L++ DG +VP+ KIRG+K K ++++ E + + +++ +E Sbjct: 182 VGGLLNIKPLLQMEDGKLVPLEKIRGQK-KLFKRIIELMKERGDDWSNQTVGISYAANKE 240 Query: 245 DAKYLEKALREQTGSGEIAIIHAGCVIGSHCGPGTVGLMYM 285 A ++ + E EI + IGSH GPGT+ + ++ Sbjct: 241 KATDMKHLIEEAFKPKEIIMHPISSAIGSHAGPGTLAIFFL 281 >STM1468_2 [C] COG1838 Tartrate dehydratase beta subunit/Fumarate hydratase class I, C-terminal domain Length = 346 Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 17/282 (6%), Positives = 41/282 (14%), Gaps = 13/282 (4%) Query: 9 VKIFSDSTSDLPQGWKETYDIGIIPLYVVFEDATYRDGVDITPEEV---YRRVAAQGALP 65 S+ ++ T G V + Sbjct: 3 YHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQL-DYAVAQGINLIDVAEMYPVPPRPET 61 Query: 66 KTAAPSPADFMAAFEPVIRSGGDVVYI-SLSSALSSTYQNALLAA--VEFPEGRVHVVDS 122 + + A + S + Sbjct: 62 QGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIRE---ALHDSL 118 Query: 123 ETLCGGIALLVMKXXXXXXXGQSAPEIAAMVKE--CRSQVQTEFVVDKLDYLYMGGRCSG 180 + L L + S + T + + Sbjct: 119 KRLQTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGV 178 Query: 181 MQNFIGRLLKIRPVLRLIDGAIVPVSKIRGKKEKAIEQMLHHALEHAGTIDKELIIVAHT 240 +++ + D + + + A + L Sbjct: 179 SNETAFGVMRYLHLADKHDLPRIVTIQNPYSL-LNRSFEVGLAEVSQYEGVELLAYSCLG 237 Query: 241 LAEEDAKYLEKALREQTGSGEIAIIHAGCVIGSHCGPGTVGL 282 KYL A + + + Sbjct: 238 FGTLTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKAVAAYVD 279 >STM1468_1 [C] COG1951 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain Length = 346 Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 17/282 (6%), Positives = 41/282 (14%), Gaps = 13/282 (4%) Query: 9 VKIFSDSTSDLPQGWKETYDIGIIPLYVVFEDATYRDGVDITPEEV---YRRVAAQGALP 65 S+ ++ T G V + Sbjct: 3 YHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQL-DYAVAQGINLIDVAEMYPVPPRPET 61 Query: 66 KTAAPSPADFMAAFEPVIRSGGDVVYI-SLSSALSSTYQNALLAA--VEFPEGRVHVVDS 122 + + A + S + Sbjct: 62 QGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIRE---ALHDSL 118 Query: 123 ETLCGGIALLVMKXXXXXXXGQSAPEIAAMVKE--CRSQVQTEFVVDKLDYLYMGGRCSG 180 + L L + S + T + + Sbjct: 119 KRLQTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGV 178 Query: 181 MQNFIGRLLKIRPVLRLIDGAIVPVSKIRGKKEKAIEQMLHHALEHAGTIDKELIIVAHT 240 +++ + D + + + A + L Sbjct: 179 SNETAFGVMRYLHLADKHDLPRIVTIQNPYSL-LNRSFEVGLAEVSQYEGVELLAYSCLG 237 Query: 241 LAEEDAKYLEKALREQTGSGEIAIIHAGCVIGSHCGPGTVGL 282 KYL A + + + Sbjct: 238 FGTLTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKAVAAYVD 279 >TM1468 [S] COG1307 Uncharacterized protein conserved in bacteria Length = 288 Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 106/282 (37%), Positives = 142/282 (50%), Gaps = 13/282 (4%) Query: 9 VKIFSDSTSDLPQGWKETYDIGIIPLYVVFEDATYRDGVDITPEEV---YRRVAAQGALP 65 VKI DST+D+P W E YDI IPLYVV+ED + + PEE+ Y+R+ G++P Sbjct: 3 VKILVDSTADVPFSWMEKYDIDSIPLYVVWEDGR-SEPDEREPEEIMNFYKRIREAGSVP 61 Query: 66 KTAAPSPADFMAAFEPVIRSGGDVVYI-SLSSALSSTYQNALLAA--VEFPEGRVHVVDS 122 KT+ PS DF + DVV + +LSS LS TY +A+LA+ V+ P V+VVD+ Sbjct: 62 KTSQPSVEDFKKRYLKYKEEDYDVVLVLTLSSKLSGTYNSAVLASKEVDIP---VYVVDT 118 Query: 123 ETLCGGIALLVMKXXXXXXXGQSAPEIAAMVKE--CRSQVQTEFVVDKLDYLYMGGRCSG 180 G I L G + E+ + E + F V DYL GGR S Sbjct: 119 LLASGAIPLPARVAREMLENGATIEEVLKKLDERMKNKDFKAIFYVSNFDYLVKGGRVSK 178 Query: 181 MQNFIGRLLKIRPVLRLIDGAIVPVSKIRGKKEKAIEQMLHHALEHAGTIDKELIIVAHT 240 Q F+G LLKIR L + +G ++P K+RG K KAIE ++ E K +I H Sbjct: 179 FQGFVGNLLKIRVCLHIENGELIPYRKVRGDK-KAIEALIEKLREDTPEGSKLRVIGVHA 237 Query: 241 LAEEDAKYLEKALREQTGSGEIAIIHAGCVIGSHCGPGTVGL 282 E L LR+ + I G VI +H GPGTVG Sbjct: 238 DNEAGVVELLNTLRKSYEVVDEIISPMGKVITTHVGPGTVGF 279 >lin2658 [S] COG1307 Uncharacterized protein conserved in bacteria Length = 283 Score = 137 bits (346), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 87/280 (31%), Positives = 143/280 (51%), Gaps = 8/280 (2%) Query: 9 VKIFSDSTSDLPQGWKETYDIGIIPLYVVFEDATYRDGVDITPEEVYRRVAAQGALPKTA 68 + + +DST+ LP KE I ++PL V+ + +YR+G +++ + Y++V P ++ Sbjct: 5 IAVVTDSTTYLPDEVKEQLRINVVPLSVIIDGKSYREGEELSTADFYKKVKEAENFPTSS 64 Query: 69 APSPADFMAAFEPVIRSGGD-VVYISLSSALSSTYQNALLAAVEFPEG-RVHVVDSETLC 126 P+P +F+ FE + G D V+ I LSS +S T+QNA +A E +G V DSE C Sbjct: 65 QPAPGEFIQLFEKLKEQGFDTVISIHLSSGISGTFQNA-ASAGELIDGLNVVAYDSELSC 123 Query: 127 GGIALLVMKXXXXXXXGQSAPEIAAMVKECRSQVQTEFVVDKLDYLYMGGRCSGMQNFIG 186 + +K + I + + + + F+VD L+ L GGR +G Q +G Sbjct: 124 MAQGMFAVKAAEMALANEPLERIISELDKIKKAQDAYFMVDDLNNLQRGGRLNGAQALVG 183 Query: 187 RLLKIRPVLRLIDGAIVPVSKIRGKKE--KAIEQMLHHALEHAGTIDKELIIVAHTLAEE 244 LL+I+P+L D IV K+R +K+ K IE +L A+++ + E V H E Sbjct: 184 SLLQIKPILHFNDKQIVLFEKVRTQKKALKRIEDILEVAIKNK---NAEKAYVIHGNDPE 240 Query: 245 DAKYLEKALREQTGSGEIAIIHAGCVIGSHCGPGTVGLMY 284 + K L + E + + G VIG+H G G +GL + Sbjct: 241 KGETWRKHLESKFPEVEFELSYFGPVIGTHLGEGALGLTW 280 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 0.320 0.137 0.394 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: 20,389,121 Number of extensions: 825891 Number of successful extensions: 1647 Number of sequences better than 1.0e-05: 38 Number of HSP's gapped: 1581 Number of HSP's successfully gapped: 38 Length of query: 286 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 181 Effective length of database: 26,268,361 Effective search space: 4754573341 Effective search space used: 4754573341 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: 115 (48.9 bits)