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= 0001.2610.p (446 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309843|ref|YP_003773935.1| GntR family transcription regul... 116 3e-27 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 74 2e-14 gi|300311139|ref|YP_003775231.1| MocR family transcription regul... 74 3e-14 gi|300311757|ref|YP_003775849.1| transcription regulator protein... 66 6e-12 gi|300310416|ref|YP_003774508.1| MocR family transcription regul... 66 6e-12 >gi|300309843|ref|YP_003773935.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 431 Score = 116 bits (291), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 128/424 (30%), Positives = 196/424 (46%), Gaps = 13/424 (3%) Query: 13 QLSDRTTRGIALGTTALIRAGAIPVGAKLPPVRDLADALGVSPATISSAWGALRKQRVII 72 ++ +T I L++ + G LPPVR+LA+ LGV+ T+++A+ L + Sbjct: 2 KIHGKTATEIFECVRTLVQTQRLHPGQLLPPVRELAEQLGVNRNTVAAAYRRLSTAGIAS 61 Query: 73 GRGRNGAWVNTNDVTPRPIRFETPGNFGEHLRADLSLAVPDPALLPDLSHAFAAGAKVAS 132 + R G + P E G+ DL+ PDP LPDL+ + + Sbjct: 62 TQRRLG-----TSIRSLPAPGEQEGSQPGTTLIDLAHGNPDPRWLPDLAALWRGRSYQPR 116 Query: 133 LNVYERAPIVPALRAAAERHWPYPAPAYLAVN---GGFSGVHLTLKSLLLPGSVVAVEDP 189 L Y + PAL + PA V+ G + L + L PG VAVE+P Sbjct: 117 L--YGADTVNPALANYIAQWCGLDCPAGFEVDLAHGAVDAIERLLFAYLRPGDKVAVENP 174 Query: 190 TAARVLDNLDHLGAEVVPVACDAEGPLPDSLAAALAKRPAAFFYQPRTHSVTGVSVSTAR 249 ++ + G E V V+ DAEG D L +ALAK A PR H+ TG ++S AR Sbjct: 175 CFLASINLIRTSGLESVGVSVDAEGMRVDELRSALAKGVRAVILTPRAHNPTGCALSAAR 234 Query: 250 FEALRRLLLST-DLLIVEDDGLGALSSAPPLSMGCHFPERTIHITSYSKAFGPDLRVGVL 308 ALRRLL +L++ DD S A S+ R + S+SKA GPDLRV + Sbjct: 235 ALALRRLLEKHPHVLVIVDDHFALTSMARYHSVIPAAAPRWALVRSFSKALGPDLRVAAV 294 Query: 309 SGPVELVRQIHGYRNFSDRWTSRILQEAMAFLLTDTQCLATVERARGIYAQRRQALVAAL 368 + + + + W S LQ+++ L+ +++AR YA RR+ L AL Sbjct: 295 ASDAATSQLLRTRLSPGGSWVSHFLQDSIESALSRPDTARLMQQARADYAARRERLERAL 354 Query: 369 AQRGVDC-PAGDGLAIWLPVPSEPY-ALVTMAAHGYAVGAGSRNSLLPGRAHLRIGTSRL 426 + G+ C GDGL +W+ + + A ++MA G+ + G S+ LRI S L Sbjct: 355 HKEGIACATGGDGLNLWIALSGDDQAAALSMARLGWLLRHGEAFSVQQRVHGLRITLSAL 414 Query: 427 ESES 430 E+++ Sbjct: 415 EADA 418 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 74.3 bits (181), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 78/294 (26%), Positives = 131/294 (44%), Gaps = 14/294 (4%) Query: 158 PAYLAVNGGFSGVHLTLKSLL-LPGSVVAVEDPTAARVLDNLDHLGAEVVPVACDAEGPL 216 P L G ++L + S L PG V V+DP + +++ L G +V VA DA+GP Sbjct: 192 PQVLTTLGATDAINLIVMSYLRQPGMTVLVDDPGSFLLMERLLASGMHIVGVARDADGPD 251 Query: 217 PDSLAAALAKR-PAAFFYQPRTHSVTGVSVSTARFEALRRLLLSTDLLIVEDDGLGALSS 275 +L A + P +F Q HS +S R + RL + IVEDD G L+ Sbjct: 252 ITALQNACEQHGPTFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAP 311 Query: 276 APPLSMGCHFP-----ERTIHITSYSKAFGPDLRVGVLSGPVELVRQIHGYRNFSDRWTS 330 A + +++ S+SK G +R G ++G + + + Y+ S Sbjct: 312 AHRSPHATRLASLDQLQHVLYVGSFSKTLGAGMRAGFIAGNPQQIEWLLLYKLVSRASNG 371 Query: 331 RILQEAMAFLLTDTQCLATVERARGIYAQRRQALVAALAQRGVDCPA--GDGLAIWLPVP 388 + + A+ LL++ E+ R Q R L+AAL G+ P GL +W +P Sbjct: 372 SLAERAIYRLLSEGGYRRHCEQLRTRLDQARPRLMAALEALGIVLPHRPDAGLYLWGKLP 431 Query: 389 SEPYALVT---MAAHGYAVGAG-SRNSLLPGRAHLRIGTSRLESES-QAIADAL 437 + A+ M A+GY G +S R+++R + + E+ +A+++ L Sbjct: 432 GDLNAMEVAERMLANGYLTAPGPVFSSGQAARSYMRFNVASSDDEALRALSNVL 485 >gi|300311139|ref|YP_003775231.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 398 Score = 73.6 bits (179), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 107/236 (45%), Gaps = 9/236 (3%) Query: 161 LAVNGGFSGVHLTLKSLLLPGSVVAVEDPTAARVLDNLDHLGAEVVPVACDAEGPLPDSL 220 L V+G G+ L K L+ GS V VE P+ L GA+ V D G P+++ Sbjct: 103 LMVSGSQQGLDLLGKVLIDEGSKVLVETPSYLGALQAFALYGAKFESVPSDEFGLQPETI 162 Query: 221 AAALAKRPAAFFYQPRTHSVTGVSVSTARFEALRRLLLSTDLLIVEDDGLGALS--SAPP 278 A +A + P + TG ++ T R L L ++EDD GALS +AP Sbjct: 163 EA-IAGGARMLYSLPNFQNPTGRTLPTERRFKLVETCARLGLPLIEDDPYGALSYQNAPL 221 Query: 279 LSMGCHFPERTIHITSYSKAFGPDLRVGVLSGPVELVRQIHGYRNFSDRWTSRILQEAMA 338 M P I++ S+SK P +R+G + P L+ ++ + +D T+++ Q + Sbjct: 222 PKMLSMNPSGVIYMGSFSKVLTPGIRLGYVVAPRPLILKMEQAKQATDLHTAQLTQMVVY 281 Query: 339 FLLTDTQCLATVERARGIYAQRRQALVAALAQRG-VDC----PAGDGLAIWLPVPS 389 + D V R +Y + QA++ AL Q C P G G+ IW+ +P Sbjct: 282 EAIKDGFLDQHVPTIRKLYGDQCQAMLDALQQYFPASCSWSKPEG-GMFIWVTLPE 336 >gi|300311757|ref|YP_003775849.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 65.9 bits (159), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 75/288 (26%), Positives = 110/288 (38%), Gaps = 28/288 (9%) Query: 38 GAKLPPVRDLADALGVSPATISSAWGALRKQRVIIGRGRNGAWVNTNDVTPRPIRFETPG 97 G +LPP R LA+ L V T++ A+G R++ ++ RG G +V V + Sbjct: 13 GDRLPPQRQLAEYLQVDLTTVTRAYGEARRRHLLEARGSAGTFVAAPKVDLSQL------ 66 Query: 98 NFGEHLRADLSLAVPDPALLPDLSHAFAAG-------AKVASLNVYERAPIVPALRAAAE 150 DLS+ +P P DL+ G + L Y A RAA Sbjct: 67 -------IDLSMNIPPPPAGIDLNDLLRQGMSQVLIHSDADLLMTYHLGGGSSADRAAGA 119 Query: 151 RHW------PYPAPAYLAVNGGFSGVHLTLKSLLLPGSVVAVEDPTAARVLDNLDHLGAE 204 W P LA G S + + S PG V+ E +L HLG Sbjct: 120 -MWMQAMLGPVDEARVLACPGAQSALAALVLSQTRPGEVILAEPLAYPGLLTVAAHLGRR 178 Query: 205 VVPVACDAEGPLPDSLAAALAKRPAAFFY-QPRTHSVTGVSVSTARFEALRRLLLSTDLL 263 V+ V D EG PD L + A Y P + T ++ R + L DL Sbjct: 179 VMAVDVDDEGMRPDLLMTMARRHQARLVYLNPTLQNPTTRTMPATRRAEIAALATRLDLR 238 Query: 264 IVEDDGLGALSSAPPLSMGCHFPERTIHITSYSKAFGPDLRVGVLSGP 311 I+EDD ++ P + + P ++++ SK P LR + P Sbjct: 239 IIEDDPYWRFAAHAPRPLAHYAPGHVFYVSTLSKCLLPGLRTAYVLMP 286 >gi|300310416|ref|YP_003774508.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 65.9 bits (159), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 98/402 (24%), Positives = 148/402 (36%), Gaps = 68/402 (16%) Query: 30 IRAGAIPVGAKLPPVRDLADALGVSPATISSAWGALRKQRVIIGRGRNGAWV-------- 81 I A +P G +LP RDLA LG S T++ A+ L + + R G +V Sbjct: 57 ILAHTLPAGMQLPSSRDLALELGSSRNTVTYAYEQLLAEGYLESRPGAGTFVADTAPDQI 116 Query: 82 --------------NTNDVTPRPIRFETPGNFGEHLRADLSLAVPDPALLP--------- 118 ++++ R GE VPD +P Sbjct: 117 PEAVERPEPLTDPSGKSELSARGAMLTRQAGVGERQWGAFMPGVPDVTCVPYKIWGRLQN 176 Query: 119 --------DLSHAFAAGAKVASLNVYERAPIVPALRAAAERHWPYPAPAYLAVNGGFSGV 170 DL + GA A L R I LR A R L G + Sbjct: 177 KHWRRSNADLL-TYGPGAGYAGL----REQIAEYLRVA--RSVNCTPSQVLITTGIHQSL 229 Query: 171 HLTLKSLLLPGSVVAVEDPTAARVLDNLDHLGAEVVPVACDAEGPLPDSLAAALAKRPAA 230 + +K L G VEDP L+ LG + VP+A D EG + A +RP Sbjct: 230 DIVVKLLGEHGDSAWVEDPCYWGTRSVLNSLGIQSVPIAVDQEGM---RMRLANLRRPPR 286 Query: 231 FFYQPRTHSV-TGVSVSTARFEALRRLLLSTDLLIVEDDGLGALS-SAPPLS--MGCHFP 286 F +H G+ +S +R L + + I+EDD PL+ G Sbjct: 287 FICTTPSHQYPLGMVMSLSRRRMLLEYAATHKVWIIEDDYDSEFRYGGRPLASLQGMDTQ 346 Query: 287 ERTIHITSYSKAFGPDLRVGVLSGPVELVRQIHG-----YRNFSDRWTSRILQEAMAFLL 341 +R +++ ++SK P LR+G L P L R YRN LQ +A + Sbjct: 347 DRVLYMGTFSKIMFPGLRIGFLVVPESLARAFSTGIAELYRN-----GQVFLQATLADFM 401 Query: 342 TDTQCLATVERARGIYAQRRQALVAALAQRGVDCPAGDGLAI 383 + + + + R +YA+R Q L Q+ ++ G+ + I Sbjct: 402 AEGHFASHIRKMRVLYAERLQ-----LLQQSINRHFGEKMTI 438 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 0.320 0.135 0.409 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: 1,353,531 Number of extensions: 54815 Number of successful extensions: 227 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 222 Number of HSP's successfully gapped: 7 Length of query: 446 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 358 Effective length of database: 1,203,190 Effective search space: 430742020 Effective search space used: 430742020 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 (21.8 bits) S2: 132 (55.5 bits)