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= 0001.3516.p (303 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 177 9e-46 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 122 3e-29 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 108 6e-25 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 107 1e-24 gi|300310322|ref|YP_003774414.1| LysR family transcription regul... 106 3e-24 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 177 bits (449), Expect = 9e-46, Method: Compositional matrix adjust. Identities = 96/292 (32%), Positives = 166/292 (56%), Gaps = 4/292 (1%) Query: 7 NWNDLRIFLEVARAGTLSGAATKLKVDHSTISRHIAQLEAVINAPVFERDHQGFHITSKG 66 +W++LRIFLE+ R+ L AA KL +DHST+SR + + E + + +F+R++ G+ +T+ G Sbjct: 3 DWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTADG 62 Query: 67 RELLAHVEAMESGALAITESLSGTSRVPSGSVRIATMEGIASLYLSRKFVTFKQLHPLIQ 126 L+ + E +ES A TE L G + SG VR+ EG + L+ F +P I Sbjct: 63 YRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHIT 122 Query: 127 IELVTSTQLVHVNQREADIFISF-FPIDGKGLEVEAIGAFPLHLYASDSYLQRFGIPHTI 185 ++++ + V++++ EADI +S P+ G + V + + L LYAS YL + HT+ Sbjct: 123 VDMLPMPRFVNLSKHEADISVSIERPLSGNYV-VTKLSDYVLKLYASRDYLAQHPPIHTM 181 Query: 186 ADLSAHHFVSYVDDLIQLQTVRWLEEAIKNPVVTFHSSSMIAQMFAATEGGGIVMLPAFS 245 DL+ HHF+ Y+DDL+ + +R+ + + F S+S++AQ AA G + +LP F Sbjct: 182 DDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCFL 241 Query: 246 DAERFGLRPILMDAIDVKRTVWMTVHRDRCYMPRIKAVQRFLKET--LHHDF 295 + L P+L I + R+ W+ ++ ++ R+ A+ +L+E L+ DF Sbjct: 242 AQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECVELNRDF 293 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 122 bits (307), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 83/288 (28%), Positives = 133/288 (46%), Gaps = 20/288 (6%) Query: 7 NWNDLRIFLEVARAGTLSGAATKLKVDHSTISRHIAQLEAVINAPVFERDHQGFHITSKG 66 +W LR F AG+ SGAA L V H+TI R + QLE + AP+F R +T G Sbjct: 4 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 63 Query: 67 RELLAHVEAMESGALAITESLSGTSRVPSGSVRIATMEGIASLYLSRKFVTFKQLHPLIQ 126 +LA AM+ + +L+G G +R+A + + +L+L+ + + Q P + Sbjct: 64 ESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALD 123 Query: 127 IELVTSTQLVHVNQREADIFISFF-PIDGKGLEVEAIGAFPLHLYASDSYL-----QRFG 180 IEL Q + + +READ+ + F P DG+ L +G +L + + QR Sbjct: 124 IELAMGHQTLSLARREADLALRFARPQDGE-LIARRLGVVRFYLCGTADQVAAWRHQRGS 182 Query: 181 IPHTIADLSAHHFVSYVDDLIQLQTVRWLEEAIKNPVVTFHSSSMIAQMFAATEGGGIVM 240 P + Y D + + RWL V S+S++AQ AA G G+ + Sbjct: 183 AP----------VIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMAARAGVGLAL 232 Query: 241 LPAFSDAERFGLRPILMDAIDVKRTVWMTVHRDRCYMPRIKAVQRFLK 288 LP++ A + + R +W HRD +PR++AV +L+ Sbjct: 233 LPSYLLAPEL---QTVESTPQLVRELWAVFHRDLKALPRLRAVLEWLQ 277 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 108 bits (269), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 81/286 (28%), Positives = 130/286 (45%), Gaps = 12/286 (4%) Query: 1 MSPKTPNWNDLRIFLEVARAGTLSGAATKLKVDHSTISRHIAQLEAVINAPVFERDHQGF 60 M+ PNW R FL+V G+LS A ++ + T+ RHI LE+ + +F R GF Sbjct: 1 MADIEPNWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGF 60 Query: 61 HITSKGRELLAHVEAMESGALAITESLSGTSRVPSGSVRIATMEGIASLYLSRKFVTFKQ 120 T EL + A+ + + A+ + S + G+VR+ E I+ L + Sbjct: 61 SPTDAALELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRH 120 Query: 121 LHPLIQIELVTSTQLVHVNQREADIFISFFPIDGKGLEVEAIGAFPLHLYASDSYLQRFG 180 HP +++ELV S + + QREADI + F L + +G+ L L+A SYL G Sbjct: 121 RHPELRVELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHG 180 Query: 181 IPHTIADLSAHHFV------SYVDDLIQLQTVRWLEEAIKNPVVTFHSSSMIAQMFAATE 234 P ++ L+ H + +YV ++ L+ + WL A + + S +AQ+ A Sbjct: 181 APKSVDALADHTLIGFDQESAYVRNV--LKQIPWLSRA----ALALRTDSDLAQLAAIRA 234 Query: 235 GGGIVMLPAFSDAERFGLRPILMDAIDVKRTVWMTVHRDRCYMPRI 280 G GI + A L +L +K W+ +H D PR Sbjct: 235 GFGIGICQVALAARDVALVRLLPRQFALKMETWVAMHEDLRASPRC 280 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 107 bits (267), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 79/295 (26%), Positives = 141/295 (47%), Gaps = 13/295 (4%) Query: 4 KTPNWNDLRIFLEVARAGTLSGAATKLKVDHSTISRHIAQLEAVINAPVFERDHQGFHIT 63 T W+D+R FL ++R G+LS +A LKV+HST++RH+ LE + +F+R +G+ +T Sbjct: 21 NTLQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVLT 80 Query: 64 SKGRELLAHVEAMESGALAITESLSGTSRVPSGSVRIATMEGIASLYLSRKFVTFKQLHP 123 ++G EL E +E ++ + + + SG VR++ + S +L + F++ +P Sbjct: 81 TEGAELSKQAEQLEVEMHSLWRAALANTTL-SGKVRVSAPPILMSDFLVPRLPAFQEKYP 139 Query: 124 LIQIELVTSTQLVHVNQREADIFISFFPIDGKGLEVEAIGAFPLHLYASDSYLQRFGIPH 183 I++E++ + V + + EADI + L + +Y ++L+R P Sbjct: 140 DIELEVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYGIPAWLER---PE 196 Query: 184 TIADLSAHHFVSYVDDLIQLQTVRWLEEAIKNPVVTFHSSSMIAQMFAATEGGGIVMLPA 243 S F+ +D + WLE + ++ + A AA G G+ +LP Sbjct: 197 -----SERSFIG-LDQESPCRQKAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLALLPR 250 Query: 244 FSDAERFGLRPILMDAIDVKRTVWMTVHRDRCYMPRIKAVQRFLKETLH---HDF 295 F AE L I M +++ +H D PRI+A FL + + H+F Sbjct: 251 FMVAEDTRLVAIPMPETPPPCPLYLVMHSDVRRAPRIRATADFLIDLIQSQAHNF 305 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 106 bits (264), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 81/277 (29%), Positives = 129/277 (46%), Gaps = 1/277 (0%) Query: 7 NWNDLRIFLEVARAGTLSGAATKLKVDHSTISRHIAQLEAVINAPVFERDHQGFHITSKG 66 +W++ RIFL + R GTL GAA L++D +T+ R +A LE + A +F R G+ T G Sbjct: 2 DWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPAG 61 Query: 67 RELLAHVEAMESGALAITESLSGTSRVPSGSVRIATMEGIASLYLSRKFVTFKQLHPLIQ 126 A + ME GA + + G G VR+A + A +L +Q HP I+ Sbjct: 62 EMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHIR 121 Query: 127 IELVTSTQLVHVNQREADIFISFFPIDGKGLEVEAIGAFPLHLYASDSYLQRFGIPHTIA 186 + L TSTQ+ ++ +READI + D L + +YAS SY+++ G+P Sbjct: 122 VVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPGT 181 Query: 187 DLSAHHFVSYVDDLIQLQTVRWLEEAIKNPVVTFHSSSMIAQMFAATEGGGIVMLPAFSD 246 L H V Y + ++ + E+I N V S+ + G G+ LP Sbjct: 182 GLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHVG 241 Query: 247 AERFGLRPILMDAIDVKRTVWMTVHRDRCYMPRIKAV 283 + GL + + +W+ +H D R++AV Sbjct: 242 DKASGLVRVWPQR-ETPYDMWLVLHSDLNRTARVRAV 277 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 0.323 0.136 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: 919,119 Number of extensions: 36855 Number of successful extensions: 240 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 229 Number of HSP's successfully gapped: 40 Length of query: 303 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 218 Effective length of database: 1,217,395 Effective search space: 265392110 Effective search space used: 265392110 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 130 (54.7 bits)