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= 0034.0195.p (266 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 108 6e-25 gi|300310493|ref|YP_003774585.1| transcription regulator protein... 92 3e-20 gi|300313272|ref|YP_003777364.1| transcription regulator protein... 70 2e-13 gi|300309916|ref|YP_003774008.1| transcription regulator protein... 69 4e-13 gi|300313063|ref|YP_003777155.1| transcription regulator protein... 67 1e-12 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 108 bits (269), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 124/244 (50%), Gaps = 3/244 (1%) Query: 11 DESHDRQFVNALARGLEILRCFRPGEIYLTNTELAKRTGLPKPTISRLTHTLTRLGYLEY 70 D D F+ +LARGL ++R F LT +++++TG+P+ + R HTL +LGY + Sbjct: 8 DALTDPSFMTSLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYAD- 66 Query: 71 SEDQGRYQLGSGVLALGYSLLSGMDVRKLARPAMQELADYSQCNVALGIRDRLSMVYIEA 130 D + L +L LGYS LS + A+P + ++ + +L + D ++Y+ Sbjct: 67 -SDVNNFSLRPKILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVAR 125 Query: 131 TRGQSAVTLRRDVGSRIPLATTSMGRALLCALPQNERDFLMDHIRLRN-EEQWPKVKAGI 189 + +++ + GSR+P TS+GRA+L LP+++ D ++LR E+ + + Sbjct: 126 SAASRVMSVALNTGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQKRL 185 Query: 190 EQAFKDYQDHGFCISVGEWEKTISAVGVPMIDANEEKIMAFNCGGPAFMLTREMLMEDLG 249 + +G+ + E E + ++ VP+ A+ + A N G A ++ + E++ Sbjct: 186 RDILAGVRANGYAVIDEELEVGLRSIAVPVRGASGNVLAALNVGAQAARVSVAQMEEEIL 245 Query: 250 PRLV 253 P L+ Sbjct: 246 PVLL 249 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 92.4 bits (228), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 70/263 (26%), Positives = 121/263 (46%), Gaps = 17/263 (6%) Query: 10 EDESHDRQFVNALARGLEILRCFRPGEIYLTNTELAKRTGLPKPTISRLTHTLTRLGYLE 69 +D + D F +L +GL +LR F +T ++A TG+ K + R+ HTL LGY+ Sbjct: 5 DDTASDLLFNQSLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYIC 64 Query: 70 YSEDQGRYQLGSGVLALGYSLLSGMDVRKLARPAMQELADYSQCNVALGIRDRLSMVYIE 129 RYQL V+ +GY+ L+ + +A P + ELA+ + V L MVY+ Sbjct: 65 KHPKTRRYQLTPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVA 124 Query: 130 ATRGQSAVTLRRDVGSRIPLATTSMGRALLCAL-PQ--------NERDFLMDHIRLRNEE 180 + + +GSRIP+ T+ GRA L AL P+ +ER H R E+ Sbjct: 125 RFVASKFIPIHMPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVED 184 Query: 181 QWPKVKAGIEQAFKDYQDHGFCISVGEWEKTISAVGVPMIDANEEKIMAFNCGGPAFMLT 240 + A E+ F ++ F +G+ ++ P+ ++ + + + + P + Sbjct: 185 IMQLLAASRERGFASNREELF---LGDM-----SIASPVFNSERKPVASVHVVAPTSRWS 236 Query: 241 REMLMEDLGPRLVNVVRTVEASM 263 E + LGP ++ R + S+ Sbjct: 237 VEEAEKKLGPLVLECARAISNSV 259 >gi|300313272|ref|YP_003777364.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 266 Score = 69.7 bits (169), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 68/246 (27%), Positives = 109/246 (44%), Gaps = 13/246 (5%) Query: 16 RQFVNALARGLEILRCFRPGEIYLTNTELAKRTGLPKPTISRLTHTLTRLGYLEYSEDQG 75 R V L +GL+++ F LT E+A+ TGL + R TLT LGY+ + D Sbjct: 20 RDLVAGLEKGLQVIEAFDQERSRLTIAEVAQLTGLTRAAARRYLITLTHLGYMRH--DNK 77 Query: 76 RYQLGSGVLALGYSLLSGMDVRKLARPAMQELADYSQCNVA-LGIRDRLSMVYIEATRGQ 134 + L VL LG S L + ++ +P + LA YS A G+ D +V + A Sbjct: 78 TFSLTPMVLRLGQSYLHSARLPRIVQPLLYRLA-YSLGEAASCGVLDHDQLVCVAAVSAG 136 Query: 135 SAVTLRRDVGSRIPLATTSMGRALLCALPQNERDFLMDHIRLRNEEQWPKV-----KAGI 189 V+ G+R+P T+ GR LL LP + D ++ R + E + G+ Sbjct: 137 QLVSTTLQPGTRVPAYCTANGRILLANLPPAQLDAIL--ARAQPEAITAHTITDVERLGL 194 Query: 190 EQAFKDYQDHGFCISVGEWEKTISAVGVPMIDANEEKIMAFNCGGPAFMLTREMLMEDLG 249 E A Q G+ + E E + + VP+ + E + A N A + E ++E Sbjct: 195 EIARARVQ--GYALVDQELELGLRTMAVPVRNFRGEVVAAMNISVHAGRMKLEDMVERCL 252 Query: 250 PRLVNV 255 P ++ + Sbjct: 253 PAMLKI 258 >gi|300309916|ref|YP_003774008.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 68.9 bits (167), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 52/222 (23%), Positives = 102/222 (45%), Gaps = 9/222 (4%) Query: 21 ALARGLEILRCFRPGEIYLTNTELAKRTGLPKPTISRLTHTLTRLGYLEYSEDQGRYQLG 80 A ++ + +L+ + L +LA +G P+PT+ R+ L G + + +Y++G Sbjct: 19 AFSKFMVVLQLIADQDAPLNIAQLAALSGYPRPTVYRILAALMAEGMVVENPRNKQYEVG 78 Query: 81 SGVLALGYSLLSGMDVRKLARPAMQELADYSQCNVALGIRDRLSMVYIEATRGQSAVTLR 140 ++ L D+R A ++++L D ++ V L + SMVYIE AV + Sbjct: 79 PRLINLASRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSDHSMVYIEKLESPQAVRMD 138 Query: 141 RDVGSRIPLATTSMGRALLCALPQNERDFLMDHIRLR-----NEEQWPKVKAGIEQAFKD 195 +G+R+ L ++S+G+A L L + R+ LM + L+ + ++A +E D Sbjct: 139 SRIGTRVTLYSSSVGKAYLAGLEEAHRERLMRTLHLQAFTANTHTELAALRADVE----D 194 Query: 196 YQDHGFCISVGEWEKTISAVGVPMIDANEEKIMAFNCGGPAF 237 + G+ E E I G ++ A+ + + P + Sbjct: 195 TRARGYAEDREENEAQIFCYGAAIVGADGVPVACVSVSIPLY 236 >gi|300313063|ref|YP_003777155.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 67.0 bits (162), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 61/242 (25%), Positives = 109/242 (45%), Gaps = 11/242 (4%) Query: 16 RQFVNALARGLEILRCFRPGEIYLTNTELAKRTGLPKPTISRLTHTLTRLGYLEYSEDQG 75 R ++ L +GL IL F +T+ ++A RTGL + R TL LGYL +SE + Sbjct: 27 RDWIAGLEKGLLILEAFDFDNQRMTSAQVAARTGLSRTAARRYLLTLEHLGYL-HSEGK- 84 Query: 76 RYQLGSGVLALGYSLLSGMDVRKLARPAMQELADYSQCNVALGIRDRLSMVYIEATRGQS 135 + L VL +G+S + ++ +P +Q++ + V + D +V+I Sbjct: 85 TFALTPRVLKVGWSYFDSAPLPRILQPFLQQITGQTGEAVYASVLDGWDLVFIARNGATR 144 Query: 136 AVTLRRDVGSRIPLATTSMGRALLCALPQNE-RDFL----MDHIRLRNEEQWPKVKAGIE 190 +T +G+R+P S G +L ALP+ + RD+L M ++ A I Sbjct: 145 VMTTGFVLGARVPAQLASPGIVMLSALPEQQVRDWLATCAMTPFTPHTITDPDQLYALIA 204 Query: 191 QAFKDYQDHGFCISVGEWEKTISAVGVPMIDANEEKIMAFNCGGPAFMLTREMLMEDLGP 250 QA + G+ + + + + + VP+ + + + I A + P RE + + P Sbjct: 205 QA----RQLGYAVVEQQLQTGVRGIAVPLKNRHAKVIGALSLSLPMAAEAREQTLARILP 260 Query: 251 RL 252 L Sbjct: 261 AL 262 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.321 0.137 0.401 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 803,795 Number of extensions: 32857 Number of successful extensions: 114 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 112 Number of HSP's successfully gapped: 6 Length of query: 266 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 182 Effective length of database: 1,222,130 Effective search space: 222427660 Effective search space used: 222427660 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 (21.9 bits) S2: 130 (54.7 bits)