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= 0001.2377.p (823 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309633|ref|YP_003773725.1| TonB-dependent receptor protein... 691 0.0 gi|300312542|ref|YP_003776634.1| TonB-dependent receptor protein... 61 3e-10 >gi|300309633|ref|YP_003773725.1| TonB-dependent receptor protein [Herbaspirillum seropedicae SmR1] Length = 807 Score = 691 bits (1784), Expect = 0.0, Method: Compositional matrix adjust. Identities = 381/836 (45%), Positives = 535/836 (63%), Gaps = 42/836 (5%) Query: 1 MKLKFNKLALLVSSLFLVDLAPAWAQETSNLGQITVNGAAEAPGAG-----MIQADDTPK 55 M+ K +L+LL+S LF+ APA AQ T+N+G +TV G A +IQA+D+PK Sbjct: 1 MQCKLTRLSLLISGLFIAG-APALAQTTTNVGTVTVQGGGSASAGTAAATGLIQAEDSPK 59 Query: 56 ARSSVSREAISKMGSSSTAFQIIQSLPGVSAFDQDGTGLFGGTLRVRGYNANQMGLTLDG 115 ARSSV+RE + K +S +Q+I LPGV+ +D DG+GLFGG +RVRG+N++Q+G T++G Sbjct: 60 ARSSVNREYMEKQSPTSNPYQMINLLPGVNTYDNDGSGLFGGNIRVRGFNSDQLGFTING 119 Query: 116 APLNDSLNYSINIQEFADPENTCDVFLNQGSGDMEAPHVGASGGNVGISTCDPRDTIGGK 175 AP+NDS ++++ Q++ DPEN CDVF+ QGS D EAPHVGASGGN+G++ C P D + Sbjct: 120 APVNDSGSFAVYPQQYTDPENLCDVFVTQGSTDTEAPHVGASGGNIGMAFCAPEDQQRIR 179 Query: 176 FNLAFGSNRYNKEFLRFDSGKFANDRAKFFISMSQAGADKFKGAGNARRQHVDAKAVFDF 235 AFGSN K ++RFDSGK ++R KFFIS S+ ADKFKG G A + HVD FD Sbjct: 180 VTNAFGSNSLWKRYVRFDSGKLLDNRFKFFISYSKTTADKFKGPGGAIKDHVDIGTNFDL 239 Query: 236 GAGSYSKLAFLWNKMDNANYRTVSKADLARFGYGYDFGTTPPRHLPPVSGTAQNEATANA 295 G GS+ L+N+ N NYR+++K +A+ G DFG+ P+H P V GTAQN+ T Sbjct: 240 GQGSFINANLLYNRQLNNNYRSLTKTQIAQLGRNADFGSIAPQHQPAVGGTAQNDTTYAP 299 Query: 296 AILGN-----YQGFNNNPFENYQVSMVNHWQLSPQASLDVNPYYIYGYGTGGNQLTSVSE 350 + N Y +N NPFEN+ ++ H+QLSP ASLD++PY+ YG+GTG NQL +V E Sbjct: 300 NVAANIAANGYYAYNLNPFENWLGTINAHFQLSPTASLDIDPYFWYGFGTGANQLQTVRE 359 Query: 351 --ALGSNLLHGGIGDLNGDGDRLDTILGYGSNVSQTNRWGVTTKANYQLGSHNLSGGLWL 408 G++ + GG D+NGDGDRLDT+ Y + ++T R GVT K N Q+ +H L G W+ Sbjct: 360 GGVAGASQVGGGAADINGDGDRLDTVYAYQGSRTRTYRPGVTFKFNQQMDNHRLLAGYWV 419 Query: 409 DRGISQQYSPFVSIDSNGNTSDYWLTNSAQYLKYADGTPYNASRNWYTRVDAHTAFLQDS 468 +R QQ PF +D+NGN ++ W NS +L+ ADG+ R+ T A + FLQDS Sbjct: 420 ERARHQQTGPFSRVDNNGNIANLWQDNSDLWLRNADGSILQY-RDTLTVSTAQSIFLQDS 478 Query: 469 FSLINERLNIQLGLKRQEVKRDFQNFASGLSANSGGAD-YEVRQKFSNTLGNIGLRYQLS 527 S++N++LN+Q+G + + RDF N+ S +AN+ A Y+V++ +++ L ++G+R+QL Sbjct: 479 ISMMNDKLNVQVGGRYSSIDRDFTNYPSSGAANNASAGFYKVKKNYADFLPSLGVRFQLD 538 Query: 528 ETQSVFMNLGQNARAPENTANTGLVQTAAASNYTTSIVNGALIARDSQGNIVPLRIGSPK 587 + QSVF N +N +AP N + GL+ +IVNG L+ + VP Sbjct: 539 DAQSVFFNAAKNFKAPGNFSYFGLLSGG-------TIVNGQLVGATQRE--VP------- 582 Query: 588 VNPEKSNDVDLGYRYAGNRLTLSGSVFYIDFKDRIASQYDPVSALSTQFNVGASRTYGLE 647 V+ E S + DLGYRY + S S+FYID+ +RIAS Y+P + T +NVG + ++G+E Sbjct: 583 VDKETSWNYDLGYRYNTEKWMASASLFYIDYHNRIASAYNPDTGNKTDYNVGDATSHGME 642 Query: 648 LEAGYKLNDNWNMYGSLTHADSSMLDDKVAVRAANGTATTLQTTGKQMPDTPEWLASLSL 707 LE+GY N +MYGSL++ S M D N + L T+GK+ PDTP WL+ LSL Sbjct: 643 LESGYAFTRNLSMYGSLSYIKSKMKQD-----LRNSSTQFLPTSGKEFPDTPNWLSGLSL 697 Query: 708 QYSSGPFYASAQGRYVGQRYTTLVNDDKIGGYTLFDLGAGYRFDKTLFLQTPTIRFQLLN 767 QY +Y Q +Y G+RYTTLVNDD +GGYTLF+ GAG F T +L+ PT+R + N Sbjct: 698 QYQQDGWYVFGQAKYTGRRYTTLVNDDALGGYTLFNAGAGMTFASTTWLKKPTVRLNVYN 757 Query: 768 LFDKKYLSMTGPSGSSFTTNANATTGTNGAAISAASAPLFYVGAPRTFQVSLSSDF 823 LFDK+YL++ G SGS FTTNA A G G + P Y+GAPRTF V+L++DF Sbjct: 758 LFDKQYLNLNGGSGSQFTTNAVAVNGIPG------TDPSLYIGAPRTFTVTLTADF 807 >gi|300312542|ref|YP_003776634.1| TonB-dependent receptor protein [Herbaspirillum seropedicae SmR1] Length = 755 Score = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 49/181 (27%), Positives = 81/181 (44%), Gaps = 18/181 (9%) Query: 586 PKVNPEK--SNDVDLGYRYAGNRLTLSGSVFYIDFKDRIASQYDPVSALSTQFNVGASRT 643 P + PEK S ++ + + + S+F D + SQ + + F RT Sbjct: 544 PNLKPEKVWSTELAIERQLKEGQGKWRVSLFEERVSDALISQSSTIGSSVASFTQNVDRT 603 Query: 644 YGLELEAGYKLND----NWNMYGSLTHADSSMLDDKVAVRAANGTATTLQTTGKQMPDTP 699 +EA ++ ND +++ GS+T D+ +L++K V G ++ G++ P P Sbjct: 604 RQRGIEAAFERNDVLVRGFSLNGSVTWVDARILENKAYVPTIAGASSV----GQRTPYVP 659 Query: 700 EWLASLSLQYSSGPFYA-SAQGRYVGQRYTTLVNDD-------KIGGYTLFDLGAGYRFD 751 EW A+L Y + + GRY + Y T+ N D GYT+FD YRFD Sbjct: 660 EWRATLVASYQPDEHWTYTLAGRYSARVYATVDNTDINTHTYQGFDGYTVFDARLRYRFD 719 Query: 752 K 752 + Sbjct: 720 R 720 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 0.315 0.132 0.384 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: 2,593,995 Number of extensions: 113237 Number of successful extensions: 247 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 237 Number of HSP's successfully gapped: 2 Length of query: 823 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 730 Effective length of database: 1,179,515 Effective search space: 861045950 Effective search space used: 861045950 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: 42 (22.0 bits) S2: 135 (56.6 bits)