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= 0579.0028.p (335 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|NP_693626.1| transcriptional regulator [Oceanobacillus iheye... 296 4e-79 emb|CAE11236.1| EndR protein [Bacillus amyloliquefaciens] 293 6e-78 sp|P27871|ENDR_PAEPO Probable HTH-type transcriptional regulator... 288 2e-76 ref|ZP_00126000.1| COG1609: Transcriptional regulators [Pseudomo... 217 2e-55 ref|ZP_00086116.1| COG1609: Transcriptional regulators [Pseudomo... 217 3e-55 >ref|NP_693626.1| transcriptional regulator [Oceanobacillus iheyensis HTE831] dbj|BAC14661.1| transcriptional regulator [Oceanobacillus iheyensis HTE831] Length = 333 Score = 296 bits (759), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 149/310 (48%), Positives = 211/310 (68%), Gaps = 4/310 (1%) Query: 3 KATIGDVAARAGVSKSTVSQFLNKRYQHMGQETRIKIEEAIEALDYRPNVLARGLKQKRT 62 + TI DVA AGVSKSTVSQ+LN RY +MGQ+T+ KI+ AI+ L Y PN++AR LKQK + Sbjct: 4 RITISDVAIHAGVSKSTVSQYLNGRYDYMGQKTKEKIQSAIKELKYSPNMVARSLKQKSS 63 Query: 63 GAVGVIVANIMHRLSTEICRGIEDYCQEQNVNVILCNSDEDGEKEKKYAEMLQAKQVDGI 122 +GVIVANI+H ST++ R IED+C E+ +VI+CN+D++ +KEK Y +ML+AKQVDGI Sbjct: 64 TTIGVIVANILHVFSTQVIRAIEDFCHEKGFHVIVCNADDNPDKEKTYIDMLRAKQVDGI 123 Query: 123 ILLPTGKNGALYESLAGQGYPILFMDRRVDNVKADTIVVNNREAVTQAVKHLASLGHRSI 182 I PTG N ALY+ L + YP++FMDR VD + T++++N +A T AV L ++ Sbjct: 124 IAFPTGDNVALYQGLLEEQYPLVFMDRLVDGLDIPTVLLDNDKAATLAVDLLKD--YQRP 181 Query: 183 ALATGPL--TISTRTERTEGFRTAMSMLGLDYGSCNIINVEISSLKDRLRKRFEGQEPPT 240 A+ T PL ++ R ER GF+ ++ G+ I EIS ++ +L + F+ + P Sbjct: 182 AIVTPPLKENLTPRMERLIGFKNELAKHGVSLPDEYIACGEISEIQKKLTELFQLTKAPD 241 Query: 241 ALIAGNDLVLLEALAFVKEQGLRVPEDLALVAFDNIPFAHLLTPTLTTINQPSLEMGRKA 300 A+ A ND VL E L F+ Q +R+PED+ALV D++ FA P LTTI+QP+ EMG+KA Sbjct: 242 AIFAINDRVLHEVLTFMNHQHIRIPEDVALVNVDDVSFAEFYQPALTTISQPAFEMGKKA 301 Query: 301 AERLITRIRS 310 AE L T+I++ Sbjct: 302 AELLFTQIKN 311 >emb|CAE11236.1| EndR protein [Bacillus amyloliquefaciens] Length = 333 Score = 293 bits (749), Expect = 6e-78, Method: Compositional matrix adjust. Identities = 140/307 (45%), Positives = 205/307 (66%), Gaps = 2/307 (0%) Query: 5 TIGDVAARAGVSKSTVSQFLNKRYQHMGQETRIKIEEAIEALDYRPNVLARGLKQKRTGA 64 TI DVA A VSKSTVSQFLN+RY +M ++T+ KIE AI+ L+Y+PN +AR LKQK T Sbjct: 5 TISDVAKYANVSKSTVSQFLNQRYDYMSEKTKQKIEAAIQELNYQPNFVARSLKQKSTFT 64 Query: 65 VGVIVANIMHRLSTEICRGIEDYCQEQNVNVILCNSDEDGEKEKKYAEMLQAKQVDGIIL 124 VGV+VANI+H ST++ R +EDY EQ ++I+CN+D++ EKEKKY EML+AKQVDGII+ Sbjct: 65 VGVVVANILHTFSTQVIRAVEDYFHEQGFHIIVCNADDEPEKEKKYIEMLRAKQVDGIII 124 Query: 125 LPTGKNGALYESLAGQGYPILFMDRRVDNVKADTIVVNNREAVTQAVKHLASLGHRSIAL 184 PTG+N +LYE + +P++FMDR ++ + T++++N A AV G + IA+ Sbjct: 125 FPTGENLSLYEKMKRDTFPVVFMDRTIEELGIPTVMLDNHHAAGLAVDRFIESGIKRIAI 184 Query: 185 ATGPLT--ISTRTERTEGFRTAMSMLGLDYGSCNIINVEISSLKDRLRKRFEGQEPPTAL 242 T + IS R ER EG++ A+ G+ I + + + + L + F +EPP A+ Sbjct: 185 ITTSIIREISPRVERIEGYKKALDRHGMMVRDEYIKTADAADISNVLSELFSLEEPPKAI 244 Query: 243 IAGNDLVLLEALAFVKEQGLRVPEDLALVAFDNIPFAHLLTPTLTTINQPSLEMGRKAAE 302 +A ND+VL+E L ++KE + +P+ A++ D +PFA TP +TTI QP+ EM RKA Sbjct: 245 LAANDIVLVEVLKYMKEHDMTIPDKAAVIGIDEVPFAGFFTPPITTIVQPAAEMARKAGS 304 Query: 303 RLITRIR 309 L+ +I+ Sbjct: 305 LLLRQIQ 311 >sp|P27871|ENDR_PAEPO Probable HTH-type transcriptional regulator endR Length = 340 Score = 288 bits (736), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 137/308 (44%), Positives = 201/308 (65%), Gaps = 3/308 (0%) Query: 4 ATIGDVAARAGVSKSTVSQFLNKRYQHMGQETRIKIEEAIEALDYRPNVLARGLKQKRTG 63 T+ +VA RAGVSKSTVSQFL KRY +M + T+ KIE+AIE L Y PN +AR LKQK+T Sbjct: 3 TTMKEVAERAGVSKSTVSQFLQKRYNYMSENTKKKIEQAIEDLSYIPNEVARSLKQKKTF 62 Query: 64 AVGVIVANIMHRLSTEICRGIEDYCQEQNVNVILCNSDEDGEKEKKYAEMLQAKQVDGII 123 VGVI + I+ R +TE+ R IED CQ +NV VI+CN+D+D KEKKY + + A+QVDG+I Sbjct: 63 IVGVISSTILSRFTTEVVRAIEDECQLENVQVIVCNTDDDSLKEKKYVQSMIARQVDGLI 122 Query: 124 LLPTGKNGALYESLAGQGYPILFMDRRVDNVKADTIVVNNREAVTQAVKHLASLGHRSIA 183 + PT +N LY SL GYP +F+DR++D + DT+++NN +A V+ L GH +I Sbjct: 123 IFPTEENKKLYVSLVKNGYPFVFVDRKIDELSVDTVLLNNEKASRACVEALIEHGHNNIG 182 Query: 184 LATGPL---TISTRTERTEGFRTAMSMLGLDYGSCNIINVEISSLKDRLRKRFEGQEPPT 240 + T PL I+TR+ER G+R + + I + + + + + + F + PPT Sbjct: 183 IITFPLGKKAITTRSERLSGYRNTLGKHDIPVNENYIKSGRLDEMPNLIGQLFHMENPPT 242 Query: 241 ALIAGNDLVLLEALAFVKEQGLRVPEDLALVAFDNIPFAHLLTPTLTTINQPSLEMGRKA 300 A+IA ND++L + L + K L +P D +L+ D++ FA P +TT++QPS EMG+++ Sbjct: 243 AIIATNDMILEQVLIYAKNNHLTIPNDFSLIGIDDVSFASFYNPPITTVSQPSFEMGKRS 302 Query: 301 AERLITRI 308 A L+ +I Sbjct: 303 ARLLLEKI 310 >ref|ZP_00126000.1| COG1609: Transcriptional regulators [Pseudomonas syringae pv. syringae B728a] Length = 338 Score = 217 bits (553), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 118/330 (35%), Positives = 186/330 (56%), Gaps = 2/330 (0%) Query: 4 ATIGDVAARAGVSKSTVSQFLNKRYQHMGQETRIKIEEAIEALDYRPNVLARGLKQKRTG 63 ATI DVAA AG+S +TVS LN + + + R+K+E AI LDY P+ +AR LK K T Sbjct: 2 ATIKDVAALAGISYTTVSHVLNNT-RPVSEPVRLKVEAAIAQLDYVPSAVARSLKAKTTS 60 Query: 64 AVGVIVANIMHRLSTEICRGIEDYCQEQNVNVILCNSDEDGEKEKKYAEMLQAKQVDGII 123 +G+++ N M+ E+ RGIEDYC+ VILCNSD++ EK++ Y +L K+VDG+I Sbjct: 61 TIGLLIPNGMNPYFAELARGIEDYCERNGFCVILCNSDDNPEKQRGYLRVLLEKRVDGLI 120 Query: 124 LLPTGKNGALYESLAGQGYPILFMDRRVDNVKADTIVVNNREAVTQAVKHLASLGHRSIA 183 + G + + LA P++ +DR +D + AD + +++ + A +HL LGHR+IA Sbjct: 121 VSSVGGDAGIAGGLAEVRTPLVIVDRELDGIDADMVRIDHEQGAYLATRHLLDLGHRAIA 180 Query: 184 LATGPLTISTRTERTEGFRTAMSMLGLDYGSCNIINVEI-SSLKDRLRKRFEGQEPPTAL 242 GP + R G+R A+ + + ++ E SS + PPTA+ Sbjct: 181 CIGGPFHSTVAEMRLAGYRRALQQASVPVRAEWALHSEFTSSAGHEAACQLLAAHPPTAI 240 Query: 243 IAGNDLVLLEALAFVKEQGLRVPEDLALVAFDNIPFAHLLTPTLTTINQPSLEMGRKAAE 302 AGND++ + L E+ +RVP+DL+++ FD+I + + P LTT+ Q +++G AAE Sbjct: 241 FAGNDVIAIGVLRAAAERLIRVPQDLSVIGFDDIQMSRYVYPALTTVGQSIMQLGETAAE 300 Query: 303 RLITRIRSXXXXXXXXXXXXXXLAVRESSG 332 L++RI + + VRES+ Sbjct: 301 MLLSRIATPHALPAEKRLVTPSVVVRESTA 330 >ref|ZP_00086116.1| COG1609: Transcriptional regulators [Pseudomonas fluorescens PfO-1] Length = 339 Score = 217 bits (553), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 114/306 (37%), Positives = 182/306 (59%), Gaps = 2/306 (0%) Query: 4 ATIGDVAARAGVSKSTVSQFLNKRYQHMGQETRIKIEEAIEALDYRPNVLARGLKQKRTG 63 ATI DVAA AG+S +TVS +NK + + +E R+K+E AI++LDY P+ +AR LK K T Sbjct: 2 ATIKDVAALAGISYTTVSHVVNKT-RPVSEEVRLKVEAAIKSLDYVPSAVARSLKAKTTA 60 Query: 64 AVGVIVANIMHRLSTEICRGIEDYCQEQNVNVILCNSDEDGEKEKKYAEMLQAKQVDGII 123 +G++V N ++ E+ RGIEDYC+ VILCNSD++ +K++ Y +L K++DG+I Sbjct: 61 TIGLLVPNSLNPYFAELARGIEDYCERNGYCVILCNSDDNPDKQRSYLRVLLEKRIDGLI 120 Query: 124 LLPTGKNGALYESLAGQGYPILFMDRRVDNVKADTIVVNNREAVTQAVKHLASLGHRSIA 183 + G + L + LAG P++ +DR ++ V AD + +++ A +HL LGHR IA Sbjct: 121 VASAGGDSGLAQGLAGVKTPMVIVDRGLEGVDADLVRIDHEYGAYLATRHLLELGHRDIA 180 Query: 184 LATGPLTISTRTERTEGFRTAMSMLGLDYGSCNIINVEISSLKD-RLRKRFEGQEPPTAL 242 GP + S R GF A+ G++ ++ + +S + PP+A+ Sbjct: 181 TIGGPASTSVAQMRQAGFARALKEAGVEVAPSRMLESDFTSTGGYNAASILLERNPPSAI 240 Query: 243 IAGNDLVLLEALAFVKEQGLRVPEDLALVAFDNIPFAHLLTPTLTTINQPSLEMGRKAAE 302 AGND++ + L E+ +RVP +L+++ FD+I + + P LTT+ Q L++G AAE Sbjct: 241 FAGNDMIGIGVLRAAAERNVRVPAELSVIGFDDIQMSRYVYPALTTVGQSILQLGEMAAE 300 Query: 303 RLITRI 308 L+ RI Sbjct: 301 VLLRRI 306 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 0.318 0.134 0.368 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: 420,387,539 Number of extensions: 16428425 Number of successful extensions: 49864 Number of sequences better than 1.0e-05: 1128 Number of HSP's gapped: 47741 Number of HSP's successfully gapped: 1129 Length of query: 335 Length of database: 757,237,578 Length adjustment: 126 Effective length of query: 209 Effective length of database: 415,135,104 Effective search space: 86763236736 Effective search space used: 86763236736 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 126 (53.1 bits)