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= 0021.0082.p (213 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312431|ref|YP_003776523.1| two component LuxR family trans... 120 1e-28 gi|300310869|ref|YP_003774961.1| response regulator for colanic ... 109 2e-25 gi|300312077|ref|YP_003776169.1| response regulator containing a... 91 8e-20 gi|300311885|ref|YP_003775977.1| LuxR family two component respo... 87 1e-18 gi|300310532|ref|YP_003774624.1| virulence regulator protein [He... 86 2e-18 >gi|300312431|ref|YP_003776523.1| two component LuxR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 282 Score = 120 bits (300), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 80/231 (34%), Positives = 120/231 (51%), Gaps = 27/231 (11%) Query: 2 IRVGIADDYPVVLRGIEAILSPCPDMQLAFSAESIAQLMTCLAQTPIDVLLCDYAFDDDP 61 +R+ + DD+ VV G+ A L+ PD+++ S + +LMT L +P D+LL DY+ + Sbjct: 47 MRIALLDDHAVVRYGLAARLAEEPDLEVVGSFATSKELMTALRASPADLLLIDYSLGSN- 105 Query: 62 QADGLDLLKRLRRHHPELKIIFLSAHAQPQIISSALELGAAGFIGKNRTDFVNLPQAIYC 121 DGL+L++ LR P KI+ SAH P ++ A++ GA GF+GK++ + L QAI Sbjct: 106 DIDGLNLIRALRVRFPRSKILVTSAHNNPATVALAMKAGARGFVGKSQ-ELGELVQAIRT 164 Query: 122 VQAGQVYLPQSLSASLLGSLYSVHSRQTGLG-------------------------QLSE 156 V G+ YL +++ L L S G LS Sbjct: 165 VSVGREYLNAAMARELTAMLASDSPTPAPEGGPPQVRPPRRKRNSPPSSDSLSEMPSLSP 224 Query: 157 RELVVARMICQGMSIAAIAERLKRSPKTISNQKVAAMKKLGVSNDVELSRV 207 RE V R G+S+ AIA++ RS KTIS QK +A +KLGV +D EL ++ Sbjct: 225 REREVLRCCLDGLSVTAIADKFARSVKTISGQKQSAFRKLGVRSDNELFKI 275 >gi|300310869|ref|YP_003774961.1| response regulator for colanic capsule biosynthesis protein [Herbaspirillum seropedicae SmR1] Length = 221 Score = 109 bits (272), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 69/218 (31%), Positives = 114/218 (52%), Gaps = 11/218 (5%) Query: 1 MIRVGIADDYPVVLRGIEAILSPCPDMQLAFSAESIAQLMTCLAQTPIDVLLCDYAF--D 58 ++ V IADD+P+VL + L+ P++++ ++ L+ L +TP ++++ D+A + Sbjct: 6 VLHVAIADDHPIVLGALRNELARLPEIRIDLEVDTGEDLINALKRTPCEIVITDFAMPNE 65 Query: 59 DDPQADGLDLLKRLRRHHPELKIIFLSAHAQPQIISSALELGAAGFIGKNRTDFVNLPQA 118 + ++DG L+KR++ HP K+I +A +I +G I K R L A Sbjct: 66 ESDESDGFALVKRIKAEHPSTKLIVYTAMNNGAVIRRLYRMGVFAVINK-REKPDELINA 124 Query: 119 IYCVQAG-QVYLPQSLSASLLGSLYSVHSRQTGLG---QLSERELVVARMICQGMSIAAI 174 Q+ Q+Y P SL G L ++ G +L++ EL V R+ +G S+ I Sbjct: 125 CLATQSSKQLYFP----VSLRGELEMSWAQGDGFAATRELTQSELEVVRLFVEGQSLGEI 180 Query: 175 AERLKRSPKTISNQKVAAMKKLGVSNDVELSRVFQSLG 212 RL R+P TIS K AM+KLG+S+D EL + S G Sbjct: 181 CVRLSRTPSTISTHKNNAMRKLGLSSDAELIKYAFSTG 218 >gi|300312077|ref|YP_003776169.1| response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 217 Score = 90.9 bits (224), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 67/205 (32%), Positives = 108/205 (52%), Gaps = 7/205 (3%) Query: 2 IRVGIADDYPVVLRGIEAILSPCPDMQLAFSAESIAQLMTCLAQTPIDVLLCDYAFDDDP 61 I+V IADD+ +V G+ I + D+ +A +A + + + + DVLL D P Sbjct: 9 IKVLIADDHAIVREGLRQICAGSKDIMVAGNAANGLEAIKLAREGNGDVLLLDIVL---P 65 Query: 62 QADGLDLLKRLRRHHPELKIIFLSAHAQPQIISSALELGAAGFIGKNRTDFVNLPQAIYC 121 +G+D+LK++R+ PEL ++ LS H + Q AL+ GAAGF+ K L AI Sbjct: 66 DRNGIDILKQIRKEQPELPVLILSIHREDQYAIRALKAGAAGFLNKQAAP-AELLAAIRQ 124 Query: 122 VQAGQVYLPQSLSASLLGSLYSVHSRQTGLGQ-LSERELVVARMICQGMSIAAIAERLKR 180 +G+ Y+ SL+ L + H +T L + LS+RE MI G +++ IA L Sbjct: 125 AASGRKYVSPSLAQELANQIGFDH--ETPLHETLSDREYQTMVMIASGKTVSDIAAELTL 182 Query: 181 SPKTISNQKVAAMKKLGVSNDVELS 205 S KTIS + + K+ + ++ EL+ Sbjct: 183 SVKTISMYRSRVLSKMKMRHNAELT 207 >gi|300311885|ref|YP_003775977.1| LuxR family two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 216 Score = 87.0 bits (214), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 56/201 (27%), Positives = 108/201 (53%), Gaps = 5/201 (2%) Query: 1 MIRVGIADDYPVVLRGIEAILSPCPDMQLAFSAESIAQLMTCLAQTPIDVLLCDYAFDDD 60 + R+ +ADD+ +V GI+A+L+ P +++ A A+++ + Q D++L D A Sbjct: 2 LTRIMLADDHALVRSGIKALLTAMPGVEVVGEASDGAEVIEMIPQLKPDLVLLDIAMKG- 60 Query: 61 PQADGLDLLKRLRRHHPELKIIFLSAHAQPQIISSALELGAAGFIGKNRTDFVNLPQAIY 120 +GL+ L+RLR +P ++ + LS + + + AL GA G++ K+ + L +A+Y Sbjct: 61 --MNGLEALRRLRGEYPTIRFLMLSMYGSEEYVMQALNAGANGYLFKD-SAATELEKALY 117 Query: 121 CVQAGQVYLPQSLSASLLGS-LYSVHSRQTGLGQLSERELVVARMICQGMSIAAIAERLK 179 V+ G+ YL +S L + + V T + L+ R+ + ++I +G + IA +L Sbjct: 118 EVKHGRQYLDSHISREALDNYMKRVAQNGTPVEVLTPRQREILQLIAEGNNTKEIAYQLN 177 Query: 180 RSPKTISNQKVAAMKKLGVSN 200 S KTI + M++L + + Sbjct: 178 VSAKTIETHRAQLMERLDIRD 198 >gi|300310532|ref|YP_003774624.1| virulence regulator protein [Herbaspirillum seropedicae SmR1] Length = 209 Score = 85.9 bits (211), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 58/206 (28%), Positives = 105/206 (50%), Gaps = 10/206 (4%) Query: 1 MIRVGIADDYPVVLRGIEAILSPCPDMQLAFSAESIAQLMTCLAQTPIDVLLCDYAFDDD 60 M ++ + DD+ VV G+ +S P M++ A + + + + D++L D A Sbjct: 1 MTKILVVDDHAVVRAGVHHFISEIPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAM--- 57 Query: 61 PQADGLDLLKRLRRHHPELKIIFLSAHAQPQIISSALELGAAGFIGKN--RTDFVNLPQA 118 P G+++LK+++R PEL ++ LS H + + L GA+G++ K T+ VN A Sbjct: 58 PDKSGVEVLKQIKREKPELPVLMLSMHPESRYAVQVLRSGASGYVQKEALATELVN---A 114 Query: 119 IYCVQAGQVYLPQSLSASLLGSLYSVHSRQTGLGQLSERELVVARMICQGMSIAAIAERL 178 I + G Y+ + A LL S V S + LS+RE + + QG + IA+ L Sbjct: 115 INTILRGHKYISYGV-AELLTS-EPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADEL 172 Query: 179 KRSPKTISNQKVAAMKKLGVSNDVEL 204 S KT+S + ++K+ ++N+ ++ Sbjct: 173 CLSVKTVSTYRSRVLQKMSMTNNADI 198 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 0.322 0.136 0.387 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: 576,037 Number of extensions: 20532 Number of successful extensions: 136 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 128 Number of HSP's successfully gapped: 7 Length of query: 213 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 132 Effective length of database: 1,236,335 Effective search space: 163196220 Effective search space used: 163196220 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: 128 (53.9 bits)