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= 0153.0050.p (287 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_ybbB_1 [K] COG2207 AraC-type DNA-binding domain-containing pr... 71 2e-12 STM0104 [K] COG2207 AraC-type DNA-binding domain-containing prot... 59 1e-08 araC [K] COG2207 AraC-type DNA-binding domain-containing proteins 57 4e-08 ECs0068 [K] COG2207 AraC-type DNA-binding domain-containing prot... 57 4e-08 lin0157 [K] COG2207 AraC-type DNA-binding domain-containing prot... 55 2e-07 >BS_ybbB_1 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 364 Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 16/244 (6%), Positives = 36/244 (14%), Gaps = 18/244 (7%) Query: 48 FRSNVVFEHWALVFILSGNGTYMENGGRIQQVRAGSLFFFRPGCSYSFGPAPGCNWDE-- 105 + + M N R + G + Sbjct: 22 DVRAPIEFEHGAMPAAINLP-LMNNDERAAVGTCYKQQGSDAALALGHKLVAGEIRQQRM 80 Query: 106 ----YYINFNGTRVAEWVESGLLEGGTVFDAHASQELASVFEQVLALMEGGVPADADRAA 161 N + G HA+ + E + A Sbjct: 81 DAWRAACLQNPQGILCCARGGQRSHIVQSWLHAAGIDYPLVEGGYKALRQTAIQATIELA 140 Query: 162 AMLEGLLLEC-----SLITEGHHRTRQPDLFPLIREELNACIYGLPDLQGIAAKHHISMS 216 L+ C +L+ + + R Q Sbjct: 141 QKPIVLIGGCTGSGKTLLVQQQPNGVDLEGLARHRGSAFGRTLQPQLSQASFENLL---- 196 Query: 217 TLRRLVRHSSGYPLHEYIHRLKMAEAKHLLLNTSLQVKAIAGMLHYADSFYFSRLFKKYM 276 + + + + + F ++ Sbjct: 197 --AAEMLKTDARQNLRLWVLEDESRMIGSNHLPECLRERMTQAAIAVVEDPFEIRLERLN 254 Query: 277 GVSP 280 Sbjct: 255 EEYF 258 >STM0104 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 281 Score = 58.5 bits (140), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 59/233 (25%), Positives = 97/233 (41%), Gaps = 13/233 (5%) Query: 57 WALVFILSGNGTYMENGGRIQQVRAGSLFFFRPGCSYSFGPAPGCN-WDEYYINFNGTRV 115 + L + G G NG + R G + F PG + +G P + W ++ F Sbjct: 45 YILNLTIRGEGVINNNGEQFV-CRPGDILLFPPGEIHHYGRHPDASEWYHQWVYFRPRAY 103 Query: 116 -AEWVESGLLEGGTVF---DAHASQELASVFEQVLALMEGGVPADADRAAAMLEGLLLE- 170 EW+ + T F D + +F Q+++ +G A +LE LLL Sbjct: 104 WQEWLTWPTIFAQTGFFRPDEARQPHFSELFGQIISAGQGEGRYSELLAINLLEQLLLRR 163 Query: 171 CSLITEGHH---RTRQPDLFPLIREELNACIYGLPDLQGIAAKHHISMSTLRRLVRHSSG 227 ++I E H +R D I + L + D+ +A +S S L L R G Sbjct: 164 MAVINESLHPPMDSRVRDACQYISDHLADSHF---DIASVAQHVCLSPSRLSHLFRQQLG 220 Query: 228 YPLHEYIHRLKMAEAKHLLLNTSLQVKAIAGMLHYADSFYFSRLFKKYMGVSP 280 + + ++++AK LL T + + + + + D YFSR+FKK G SP Sbjct: 221 ISVLSWREDQRISQAKLLLSTTRMPIATVGRNVGFDDQLYFSRVFKKCTGASP 273 >araC [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 292 Score = 57.0 bits (136), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 96/237 (40%), Gaps = 21/237 (8%) Query: 57 WALVFILSGNGTYMENGGRIQQVRAGSLFFFRPGCSYSFGPAPGC-NWDEYYINFNGTRV 115 + L + G G ++N GR R G + F PG + +G P W ++ F Sbjct: 45 YILNLTIRGQGV-VKNQGREFVCRPGDILLFPPGEIHHYGRHPEAREWYHQWVYFRPRAY 103 Query: 116 -AEWVESGLLEGGTVF---DAHASQELASVFEQVLALMEGGVPADADRAAAMLEGLLLE- 170 EW+ + T F D + +F Q++ +G A +LE LLL Sbjct: 104 WHEWLNWPSIFANTGFFRPDEAHQPHFSDLFGQIINAGQGEGRYSELLAINLLEQLLLRR 163 Query: 171 CSLITEGHHRTRQPDLFPLIREELNACIY-------GLPDLQGIAAKHHISMSTLRRLVR 223 I E H P + +RE AC Y D+ +A +S S L L R Sbjct: 164 MEAINESLH----PPMDNRVRE---ACQYISDHLADSNFDIASVAQHVCLSPSRLSHLFR 216 Query: 224 HSSGYPLHEYIHRLKMAEAKHLLLNTSLQVKAIAGMLHYADSFYFSRLFKKYMGVSP 280 G + + ++++AK LL T + + + + + D YFSR+FKK G SP Sbjct: 217 QQLGISVLSWREDQRISQAKLLLSTTRMPIATVGRNVGFDDQLYFSRVFKKCTGASP 273 >ECs0068 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 292 Score = 57.0 bits (136), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 96/237 (40%), Gaps = 21/237 (8%) Query: 57 WALVFILSGNGTYMENGGRIQQVRAGSLFFFRPGCSYSFGPAPGC-NWDEYYINFNGTRV 115 + L + G G ++N GR R G + F PG + +G P W ++ F Sbjct: 45 YILNLTIRGQGV-VKNQGREFVCRPGDILLFPPGEIHHYGRHPEAREWYHQWVYFRPRAY 103 Query: 116 -AEWVESGLLEGGTVF---DAHASQELASVFEQVLALMEGGVPADADRAAAMLEGLLLE- 170 EW+ + T F D + +F Q++ +G A +LE LLL Sbjct: 104 WHEWLNWPSIFANTGFFRPDEAHQPHFSDLFGQIINAGQGEGRYSELLAINLLEQLLLRR 163 Query: 171 CSLITEGHHRTRQPDLFPLIREELNACIY-------GLPDLQGIAAKHHISMSTLRRLVR 223 I E H P + +RE AC Y D+ +A +S S L L R Sbjct: 164 MEAINESLH----PPMDNRVRE---ACQYISDHLADSNFDIASVAQHVCLSPSRLSHLFR 216 Query: 224 HSSGYPLHEYIHRLKMAEAKHLLLNTSLQVKAIAGMLHYADSFYFSRLFKKYMGVSP 280 G + + ++++AK LL T + + + + + D YFSR+FKK G SP Sbjct: 217 QQLGISVLSWREDQRISQAKLLLSTTRMPIATVGRNVGFDDQLYFSRVFKKCTGASP 273 >lin0157 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 277 Score = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 49/233 (21%), Positives = 98/233 (42%), Gaps = 17/233 (7%) Query: 62 ILSGNGTYMENGGRIQQVRAGSLFFFRPGCSYSFGPAPGCNWDEYYINFNGTRVAEWVES 121 I GN Y G R+ + G + F PG ++ PG + +I F + + + Sbjct: 40 ICEGNVIYDIEGERVA-LEKGDMLIFNPGVNHYDITEPGMTNAQLHIGFRNFALEGYSRN 98 Query: 122 GL-LEGGTVFDAHASQELASVFEQVLALMEGGVPADADRAAAMLEGLLLECSLITEGHHR 180 + + + S+ +Q++ + P A + L++ ++ E Sbjct: 99 TFPFKKAFLRKKEDESAILSISKQIIEEKDAEKPGYDLILKAFVMQLIIH--VLREATPE 156 Query: 181 TRQPDLFPLIREE------LNACIYGLPD-------LQGIAAKHHISMSTLRRLVRHSSG 227 + + L +E +N I+ + L ++ +IS + + ++ + +G Sbjct: 157 QLENNGVKLSTDEQQKQMLVNEIIHYMEKHHTEDVSLSTLSQTMYISPAYISKVFKEETG 216 Query: 228 YPLHEYIHRLKMAEAKHLLLNTSLQVKAIAGMLHYADSFYFSRLFKKYMGVSP 280 Y+ ++++ A+ LL N + VK A M+ Y D++YFS+LFKKY G P Sbjct: 217 ESPINYLIKIRLTRAEELLKNKDVTVKQAANMVGYNDAYYFSKLFKKYYGFPP 269 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 0.325 0.140 0.432 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: 21,833,738 Number of extensions: 901487 Number of successful extensions: 2777 Number of sequences better than 1.0e-05: 10 Number of HSP's gapped: 2788 Number of HSP's successfully gapped: 10 Length of query: 287 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 182 Effective length of database: 26,268,361 Effective search space: 4780841702 Effective search space used: 4780841702 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: 115 (48.9 bits)