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= 0003.0184.p (393 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309367|ref|YP_003773459.1| hypothetical protein Hsero_0021... 646 0.0 gi|300309370|ref|YP_003773462.1| hypothetical protein Hsero_0024... 538 e-154 gi|300313607|ref|YP_003777699.1| hypothetical protein Hsero_4322... 204 8e-54 gi|300309373|ref|YP_003773465.1| hypothetical protein Hsero_0027... 94 2e-20 >gi|300309367|ref|YP_003773459.1| hypothetical protein Hsero_0021 [Herbaspirillum seropedicae SmR1] Length = 576 Score = 646 bits (1667), Expect = 0.0, Method: Compositional matrix adjust. Identities = 305/387 (78%), Positives = 338/387 (87%) Query: 1 MARQDAGKLGAQKPFTPLQEKQLQEAAELLYPVHAVGYNWLQSNKVSAQRLAKEIERITA 60 M RQDA KLGAQKPF PL+E L++AAELLYPVHAVGYNWLQSNKVS QRLA EIERITA Sbjct: 178 MDRQDAAKLGAQKPFVPLEEDHLRDAAELLYPVHAVGYNWLQSNKVSGQRLAGEIERITA 237 Query: 61 YYRSKGRSCEQVILVTHSMGGLVARACAQLPEMAERILGVVHGVMPALGAPATYKRIRAG 120 YYRSKG+SCEQVILVTHSMGGLVARACAQLP MAERILGVVHGVMPA+GAPATYKRIRAG Sbjct: 238 YYRSKGKSCEQVILVTHSMGGLVARACAQLPGMAERILGVVHGVMPAIGAPATYKRIRAG 297 Query: 121 FEGAGQVVLGRNAAESTAVMANAPGPLELLPTAQYKTWSNRGERHWLRVSYVGIGQRGMA 180 FEG QVVLGRNAA+ TAVMANAPGPLELLPTAQYKTW+N+GERHWLR SY IGQRGM Sbjct: 298 FEGMAQVVLGRNAADCTAVMANAPGPLELLPTAQYKTWTNQGERHWLRTSYRAIGQRGMP 357 Query: 181 EEMESFLGEGDPYRNIYLNNSSDWWKLIREDLIDPAGREDSKHAKKDGKVTVAKTRPAPD 240 EEM+SFLGEGDPY IYLNN+ DWWKL+RE+LIDPAG+ED + A+ + KV + + D Sbjct: 358 EEMDSFLGEGDPYAEIYLNNTLDWWKLVREELIDPAGKEDKERARSENKVLAREDAKSSD 417 Query: 241 FDRYARTLKIARSLHKQIEDRYHPNTYAYYAADGQQLAWNEINWKCKPMVPGDPAKAQLV 300 F+++A+ + A +LH+QIED+YHPNTYAYYAAD QQ AWNEINWKC PMVPGDPAKAQL Sbjct: 418 FEQFAKRMDKALTLHQQIEDQYHPNTYAYYAADPQQPAWNEINWKCGPMVPGDPAKAQLA 477 Query: 301 ADDLNGMVELRFGGEDNRYCILQDGTGAGDGTVPAESGAAPKPFVVQLFKHEGKLRSHES 360 DDLNGM+ELRFG R+ LQDGTG GDGTVPAESG APKP VVQLFKHEGK +SH+S Sbjct: 478 EDDLNGMLELRFGEHHRRFFTLQDGTGPGDGTVPAESGGAPKPHVVQLFKHEGKQKSHDS 537 Query: 361 YDHQFSYNAAISQAVTLYSIVRIVNSS 387 YDHQFSYNA I+QAVTLYSI+RIV+SS Sbjct: 538 YDHQFSYNAKIAQAVTLYSIIRIVSSS 564 >gi|300309370|ref|YP_003773462.1| hypothetical protein Hsero_0024 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 538 bits (1387), Expect = e-154, Method: Compositional matrix adjust. Identities = 259/348 (74%), Positives = 291/348 (83%), Gaps = 1/348 (0%) Query: 1 MARQDAGKLGAQKPFTPLQEKQLQEAAELLYPVHAVGYNWLQSNKVSAQRLAKEIERITA 60 M+RQDA KLGAQKPF PLQE+QLQ+AAE LYPVHAVGYNWLQSNKVSAQRLA EIERITA Sbjct: 182 MSRQDAAKLGAQKPFKPLQERQLQDAAEFLYPVHAVGYNWLQSNKVSAQRLASEIERITA 241 Query: 61 YYRSKGRSCEQVILVTHSMGGLVARACAQLPEMAERILGVVHGVMPALGAPATYKRIRAG 120 YYRSKGRSCE+VI+VTHSMGGLVARACAQLPEMAERILGVVHGVMPA+GAPATYKRIRAG Sbjct: 242 YYRSKGRSCEEVIVVTHSMGGLVARACAQLPEMAERILGVVHGVMPAIGAPATYKRIRAG 301 Query: 121 FEGAGQVVLGRNAAESTAVMANAPGPLELLPTAQYKTWSNRGERHWLRVSYVGIGQRGMA 180 FEG GQVVLGRN AE TAVMANAPGPLELLPTAQYKTW+N+GERHWLRVSY+GIGQRG+ Sbjct: 302 FEGIGQVVLGRNGAECTAVMANAPGPLELLPTAQYKTWTNQGERHWLRVSYLGIGQRGLP 361 Query: 181 EEMESFLGEGDPYRNIYLNNSSDWWKLIREDLIDPAGREDSKHAKKDGKVTVAKTRPAPD 240 EEMESFLGEGDPY IYLNN++DWWKLIREDL++PAGRED + + + R PD Sbjct: 362 EEMESFLGEGDPYAKIYLNNTADWWKLIREDLVNPAGREDRERNTRTERALHGNLR-RPD 420 Query: 241 FDRYARTLKIARSLHKQIEDRYHPNTYAYYAADGQQLAWNEINWKCKPMVPGDPAKAQLV 300 FDRYA+ L+ A LHK I RYHP TYAYYAAD Q+ +WNE+ WKC +P D A+ Sbjct: 421 FDRYAQNLQKASELHKLIHQRYHPRTYAYYAADPQRPSWNEVQWKCPVSLPDDIKTAKHR 480 Query: 301 ADDLNGMVELRFGGEDNRYCILQDGTGAGDGTVPAESGAAPKPFVVQL 348 D+LNG + L F + R +LQD +G GDGTVPAESGAAP P+V+Q+ Sbjct: 481 DDNLNGEIFLAFKKDIARRFVLQDPSGPGDGTVPAESGAAPTPYVLQI 528 >gi|300313607|ref|YP_003777699.1| hypothetical protein Hsero_4322 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 204 bits (520), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 141/401 (35%), Positives = 204/401 (50%), Gaps = 56/401 (13%) Query: 9 LGAQKPFTPLQEKQLQEAAELLYPVHAVGYNWLQSNKVSAQRLAKEIERITAYYRSKGRS 68 LG+ K L + ++ + +PVHA GYNWL SN SA++L + I + A Y+ + + Sbjct: 158 LGSMKSDEALLKAEVALSYRYRFPVHAFGYNWLDSNDASAKQLRERINSVIARYKKEKKR 217 Query: 69 CEQVILVTHSMGGLVARACAQLPEMAERILGVVHGVMPALGAPATYKRIRAGFEGA--GQ 126 CE+VILVTHSMGGLVAR C+++ M+++ILG+VHGVMPA+GA A Y+R ++G EG Sbjct: 218 CEKVILVTHSMGGLVARYCSEVLGMSDKILGIVHGVMPAIGAAAVYRRFKSGTEGGWLAT 277 Query: 127 VVLGRNAAESTAVMANAPGPLELLPTAQYKTWSNRGERHWLRVSYVGIGQRGMAEEMESF 186 VLG +AAE TAV+++APGPL+LLPT +Y WLR+ + S Sbjct: 278 KVLGEDAAEMTAVLSSAPGPLQLLPTPEYGN-------GWLRID--------GGSTVVSL 322 Query: 187 LGEGDPYRNIYLNNSSDWWKLIREDLIDPAGREDSKHAKKDGKVTVAKTRPAPDFDRYAR 246 DPY IY WW + + LI P S K++ A DF Sbjct: 323 PRNNDPYYEIYTVRGR-WWSMCEDHLITPRTTMLSASQKREIDADWA------DFSDVIN 375 Query: 247 TLKIARSLHKQIEDRYHPNTYAYYAADGQQLAWNEINWKCKPMVPGDPAKAQLVADDLNG 306 + ++ H++I YHPNTYA++ +D A+ + W+ P P + D + Sbjct: 376 SK--VKTFHQEITGEYHPNTYAFFGSDRHFKAYGTVQWRTTFQSPRRPPIPRPNKDVFDA 433 Query: 307 MVELRFGGE--DNRYCILQDGTGA-----------------GDGTVPAESGAAPKPFVVQ 347 +L F GE + R + G A GDGTVP SG APK Sbjct: 434 --KLNFYGELGETRTALYPHGMSAGQIAPNEVFRISEPDEDGDGTVPHRSGIAPK----- 486 Query: 348 LFKHEG-KLRSHESYDHQFSY-NAAISQAVTLYSIVRIVNS 386 +H G K S H+ +Y ++ I++ TL +IV+IV + Sbjct: 487 --EHPGMKSLLRISVGHESAYKDSDIAREFTLRAIVQIVQA 525 >gi|300309373|ref|YP_003773465.1| hypothetical protein Hsero_0027 [Herbaspirillum seropedicae SmR1] Length = 144 Score = 94.4 bits (233), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 44/53 (83%), Positives = 48/53 (90%) Query: 338 GAAPKPFVVQLFKHEGKLRSHESYDHQFSYNAAISQAVTLYSIVRIVNSSGLL 390 GAAPKP VVQLFKHEGK + HESYDHQFSYNA ISQAVTLYSI+RIV+SS L+ Sbjct: 83 GAAPKPHVVQLFKHEGKRKGHESYDHQFSYNAPISQAVTLYSIIRIVSSSKLV 135 Score = 69.3 bits (168), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 32/36 (88%), Positives = 34/36 (94%) Query: 1 MARQDAGKLGAQKPFTPLQEKQLQEAAELLYPVHAV 36 MARQDA +LGAQKPFTPLQEKQLQ+AAE LYPVHAV Sbjct: 23 MARQDAARLGAQKPFTPLQEKQLQQAAEALYPVHAV 58 Score = 58.9 bits (141), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 31/40 (77%), Positives = 33/40 (82%), Gaps = 1/40 (2%) Query: 89 QLPEMAERILGVVHGVMPALGAPATYKRIRAGFEGAGQVV 128 QL + AE L VH VMPA+GAPATYKRIRAGFEGAGQVV Sbjct: 44 QLQQAAE-ALYPVHAVMPAIGAPATYKRIRAGFEGAGQVV 82 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 0.317 0.133 0.399 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: 1,373,122 Number of extensions: 63053 Number of successful extensions: 183 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 179 Number of HSP's successfully gapped: 6 Length of query: 393 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 306 Effective length of database: 1,207,925 Effective search space: 369625050 Effective search space used: 369625050 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 (21.6 bits) S2: 131 (55.1 bits)