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= 0001.3206.p (756 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312542|ref|YP_003776634.1| TonB-dependent receptor protein... 1273 0.0 gi|300311660|ref|YP_003775752.1| TonB-dependent receptor protein... 59 2e-09 >gi|300312542|ref|YP_003776634.1| TonB-dependent receptor protein [Herbaspirillum seropedicae SmR1] Length = 755 Score = 1273 bits (3294), Expect = 0.0, Method: Compositional matrix adjust. Identities = 623/754 (82%), Positives = 676/754 (89%), Gaps = 9/754 (1%) Query: 10 FPRLNRRPLLLAILCAWSSSALAQQAATD------LPTIEVRGSGSVAERDQLPQTSASV 63 FP L RR L+L++L AWS +ALAQQ+A + LPTIEVRG+ + +R QLPQTSASV Sbjct: 4 FP-LRRRRLILSVLSAWSGAALAQQSAVEASDAAALPTIEVRGTVAAPQRTQLPQTSASV 62 Query: 64 TADTANDSINVTDSSDALKYLPSLTVRKRYIGDTQAPLATRTTGVNASARSLVYADGILL 123 TADTA D+INVTDS+DALKYLPSL+VRKRYIGDTQ+PLATRTTGVNASARSLVYADGILL Sbjct: 63 TADTAADTINVTDSADALKYLPSLSVRKRYIGDTQSPLATRTTGVNASARSLVYADGILL 122 Query: 124 SALVNNNNGNGSPRWFMVAPEEIERIDVMYGPFAAEYPGNSYGAVTEITTRMPQHFEASI 183 SALVNNNNGNGSPRWFMVAPEEI RIDVMYGPFAAEYPGNSYGAVTEITTRMP+ FEASI Sbjct: 123 SALVNNNNGNGSPRWFMVAPEEIARIDVMYGPFAAEYPGNSYGAVTEITTRMPERFEASI 182 Query: 184 KAQYAQQDFSHYGASGTYRAQEYNVGLGNRSGALAWRFSVNHLDSYTQPVTYITAASNPA 243 K QYAQQDFS YG SGTYRAQE NVGLGNRSGALAWRFSVNHLDSY+ PVTY+TAA+ PA Sbjct: 183 KTQYAQQDFSQYGVSGTYRAQEVNVGLGNRSGALAWRFSVNHLDSYSPPVTYVTAATAPA 242 Query: 244 GTTGAVQTQDRTGKNLYVLGAGNLTHTVQDTARLKFSYDFTPSLTATYTLGFWQNQANAN 303 G+TGAV TQDR G+N+ VLGAGNLTHTVQDTARLK SYDFTP+LTATYTLGFWQNQANA Sbjct: 243 GSTGAVATQDRLGRNIQVLGAGNLTHTVQDTARLKLSYDFTPTLTATYTLGFWQNQANAT 302 Query: 304 PQSFLRNAAGATVYTSGFSSNQVDQQQWMQSLALRSKTGGPWDWQVQASTLSASRDLTRT 363 P +FLRNA GA VYTSGF+SN V+QQQWMQ L +RS T G WDWQV AS +S+SRDLTRT Sbjct: 303 PHTFLRNAVGAPVYTSGFNSNTVEQQQWMQGLEVRSHTDGVWDWQVAASAISSSRDLTRT 362 Query: 364 STAAFPAGLGGGAGTIADASGTGWSTLDAKGIWRPQGVNQVISFGAHYDRYTLATPTWNT 423 ST PAGL GAG+IADASGTGWSTLDAKGIWRPQG QVIS GAHYDRYTLATPTWNT Sbjct: 363 STTTLPAGL-AGAGSIADASGTGWSTLDAKGIWRPQGSAQVISVGAHYDRYTLATPTWNT 421 Query: 424 SNWISGGNGTLNADSRGKTETSALWAQDVWHLAPAWKATLGARYEWWRAFDGSNYSTAGN 483 SNW SG G LNADSRGKT TSALWAQD W +P WKATLGARYEWWRAF G NYST G+ Sbjct: 422 SNWSSGSAGALNADSRGKTTTSALWAQDAWRFSPGWKATLGARYEWWRAFGGFNYSTNGS 481 Query: 484 -TGFAVSQPQISHNGLSPKASLAWAVADDWLATLSTGRALRFPTVGELYQNVQVNGVFLQ 542 GF V+QP++SH+GLSPKA+LAWA+A+DWL TLSTGRALRFPTVGELYQNV V VFLQ Sbjct: 482 GVGFPVTQPEVSHSGLSPKATLAWALAEDWLVTLSTGRALRFPTVGELYQNVSVGSVFLQ 541 Query: 543 ANPNLKPEKVWSTELAIEKQLQQGQGKWRVSLFEERVADALISQSSTIGSGVASFTQNVD 602 ANPNLKPEKVWSTELAIE+QL++GQGKWRVSLFEERV+DALISQSSTIGS VASFTQNVD Sbjct: 542 ANPNLKPEKVWSTELAIERQLKEGQGKWRVSLFEERVSDALISQSSTIGSSVASFTQNVD 601 Query: 603 RTRQRGIEAAFERNDLLLRGFSLNGSLTWVDARILENRGYVATIPGATSVGKRTPYVPEW 662 RTRQRGIEAAFERND+L+RGFSLNGS+TWVDARILEN+ YV TI GA+SVG+RTPYVPEW Sbjct: 602 RTRQRGIEAAFERNDVLVRGFSLNGSVTWVDARILENKAYVPTIAGASSVGQRTPYVPEW 661 Query: 663 RATLVASYKPDDRWTYTLAGRYSGRVYATVDNTDINTHTYQGFDGYTVFDARVRYRFDQH 722 RATLVASY+PD+ WTYTLAGRYS RVYATVDNTDINTHTYQGFDGYTVFDAR+RYRFD+H Sbjct: 662 RATLVASYQPDEHWTYTLAGRYSARVYATVDNTDINTHTYQGFDGYTVFDARLRYRFDRH 721 Query: 723 WSGAMGVDNLTNRDYFLFHPFPQRTVFAELKYNF 756 WS A+GVDNL NR YFLFHPFPQRTV AELKY+F Sbjct: 722 WSAALGVDNLGNRSYFLFHPFPQRTVLAELKYDF 755 >gi|300311660|ref|YP_003775752.1| TonB-dependent receptor protein [Herbaspirillum seropedicae SmR1] Length = 705 Score = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 166/755 (21%), Positives = 266/755 (35%), Gaps = 157/755 (20%) Query: 32 AQQAATDLPTIEVRGSGSVAERDQLPQTSASVTADTANDSINVTDSSDALKYLPSLTVRK 91 A TD P +EV S SV RD++ D+ VT D L+Y+P Sbjct: 56 ASATKTDTPVLEVPQSVSVVTRDEM-------------DARGVTSLLDVLRYMPGAN--- 99 Query: 92 RYIGDTQAPLATRTTGVNASARSLVYADGILLSALVNNNNGNGSPRW------FMVAPEE 145 + T GV+ G ++A V +N NG + F Sbjct: 100 -----------SETHGVDPRGYEYFNLRG-FINAQVTSNFLNGLRQIPGGFGQFRTETYG 147 Query: 146 IERIDVMYGP----FAAEYPGNSYGAVTEIT-TRMPQHFEASIKAQYAQQ---DFSHYGA 197 +ERI+V+ GP F PG V+++ +P I + +Q D + + Sbjct: 148 MERIEVLRGPGSVTFGQADPGGVINRVSKLPGMDIPNELGVDIGSFNRKQVVADLNGHTQ 207 Query: 198 SGTYRAQEYNVGLGNRSGALAWRF----SVNHLDSYTQPVTYITAASNPAGTTGAVQTQD 253 G Y + +GL + + ++F S ++ Y P +++ + T A D Sbjct: 208 DGEYLWRVVGLGLDSNN---QYKFNNGQSGDNNRFYLAPSLTWRPSASTSLTLMADYMND 264 Query: 254 RTGKNLYV-LGAGN-LTHTV--------QDTARLKFSYDFTPSLTATYTLGFWQNQANAN 303 R+G + + + GN LTHT+ Q + F Y F +T F QN AN Sbjct: 265 RSGSSRWTAVRPGNVLTHTLIGDPNFDRQSNDQWSFGYQFEHKFDNAWT--FRQNFRQAN 322 Query: 304 PQSFLRNAAGATVYTSGFSSNQVDQQQWMQSLALRSKTGGPWDWQVQASTLSASRDLTRT 363 +S T+ S + + + + ++ G W T+ Sbjct: 323 LKSVYAALNPGTLTGSVLTRGTTVYNSQVDNTLVDNQLEGRLKWGATEHTV--------- 373 Query: 364 STAAFPAGLGGGAGTIADASGTGWSTLDAKGIWRPQGVNQVISFGAHYDRYTLATPTWNT 423 G WS + + + RY A P+ N Sbjct: 374 ------------------LFGLDWSRMYDREV-----------------RYRGAAPSLNI 398 Query: 424 SNWISG----GNGTLNADSRGKTETSALWAQDVWHLAPAWKATLGARYEWWRAFDGS-NY 478 N + G TL + + L+AQD TLG R W + D + NY Sbjct: 399 DNPVYGVTIPAATTLFGNLEENMNQTGLYAQDQIKFDQRLTLTLGGR--WDKVKDETRNY 456 Query: 479 STAGNTGFAVSQPQISHNGLSPKASLAWAVADDWLATLSTGRALRFPTVGELYQNVQVNG 538 F + + + LS + L++ V D +S + P G + NG Sbjct: 457 -------FNRTTTRSDDSALSGRIGLSYLVTRDIAPYVSYATSF-LPQTGSDF-----NG 503 Query: 539 VFLQANPNLKPEKVWSTELAIEKQLQQGQGKWRVSLFEERVADALISQSSTIGSGVASFT 598 P K E+ I+ Q G+ + +LFE + + V S Sbjct: 504 ------KPFDPTKARQAEVGIKYQPADGKTLFTAALFELTKTNVQTPDPAHTNFNVLS-- 555 Query: 599 QNVDRTRQRGIEAAFERNDLLLRGFSLNGSLTWVDARILENRGYVATIPGATSVGKRTPY 658 + RG+E E +++G +L+ S T+ D + +N A+ +GK+ Sbjct: 556 ---GEIKSRGLE--LEAKGEIVKGLNLSASYTYTDVKNTQNNT-------ASLLGKQPIL 603 Query: 659 VPEWRATLVASY----KPDDRWTYTLAGRYSGRVYATVDNTDINTHTYQGFDGYTVFDAR 714 VP A++ A Y P RY+G YA NT N G TVFDA Sbjct: 604 VPRQAASVWADYTVQGGPLAGAGIGGGARYTGSNYADAANTVKN-------GGVTVFDAV 656 Query: 715 VRYRFDQHWSGAMGVDNLTNRDYFLFHPFPQRTVF 749 Y ++ W A+ + N+TN++Y P T F Sbjct: 657 FHYNLNR-WRYALNISNITNKEYTSCLAEPTTTCF 690 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 0.316 0.129 0.398 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: 2,431,538 Number of extensions: 103979 Number of successful extensions: 295 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 296 Number of HSP's successfully gapped: 3 Length of query: 756 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 664 Effective length of database: 1,184,250 Effective search space: 786342000 Effective search space used: 786342000 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: 134 (56.2 bits)