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= 0001.1896.p (429 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311352|ref|YP_003775444.1| flagellar basal-body rod protei... 635 0.0 gi|300312833|ref|YP_003776925.1| flagellar hook protein [Herbasp... 579 e-166 gi|300311354|ref|YP_003775446.1| flagellar basal-body rod protei... 79 8e-16 >gi|300311352|ref|YP_003775444.1| flagellar basal-body rod protein FlgE [Herbaspirillum seropedicae SmR1] Length = 432 Score = 635 bits (1637), Expect = 0.0, Method: Compositional matrix adjust. Identities = 339/436 (77%), Positives = 380/436 (87%), Gaps = 11/436 (2%) Query: 1 MSFQQGLSGLNGAAKSLDVIGNNVANASTVGFKQSQTQFADMYANSMNRSGNSPVGIGVT 60 M FQQGLSGLNGAAKSLDVIGNNVANASTVGFKQSQ QFADMYANSMNRSGNSPVGIGV+ Sbjct: 1 MGFQQGLSGLNGAAKSLDVIGNNVANASTVGFKQSQAQFADMYANSMNRSGNSPVGIGVS 60 Query: 61 VADVSQQFTQGNITSSNNPLDIAINGDGFFQVSSSLTNQSPMYGRNGQFQLDKNGYIVNP 120 V V+QQFTQGNI+SSNNPLDIAINGDGFFQ+S+SLTN+SPMYGRNGQFQLDK+GYIVNP Sbjct: 61 VPAVAQQFTQGNISSSNNPLDIAINGDGFFQLSASLTNKSPMYGRNGQFQLDKSGYIVNP 120 Query: 121 SMNGAYLMGWAAGASGGDPVALQIDTSSIPATTTTTINTKVNLDSRSPNIPTTTVFNAND 180 SMNGAYLMGWAAGA GGDPV LQIDTSSIPAT TTTI+TKVNLDSR ++PTTT FNA D Sbjct: 121 SMNGAYLMGWAAGAQGGDPVPLQIDTSSIPATPTTTISTKVNLDSRL-SVPTTTPFNAAD 179 Query: 181 PTTYTNSTGVTIYDSLGNPYSVQTYYVKNPPNTAVTPPTTTWDVYAKVGSNTLVTTSGGT 240 PT+Y +STGV +YDSLGNPYS+QTYYVK P TTTW VYAK+ + TL + Sbjct: 180 PTSYNSSTGVDLYDSLGNPYSMQTYYVKAAPTGTPP--TTTWTVYAKIDNTTLNNGATPA 237 Query: 241 TPLKLGSMTFNSTGAL--VSGGSM-----TIDLTSAGPNANIAAGGGNFASTIALNYAGS 293 P+ LG+MTF+STG + ++G ++ T+ +++A A +A GG FA+ I ++Y+GS Sbjct: 238 VPVALGTMTFDSTGTMTQINGAAISPTNNTLTISTAQL-ATVAKAGGVFAAPINISYSGS 296 Query: 294 TQTGSAFVNLAQNQDGMPPGTLSSFSIDKDGTIVGSYSNQQTKNLGNVVLVNFANPNGLQ 353 TQTGSAFVNLAQ Q+GMPPG+LSSFS+DKDG+I+GSYSNQQTKNLG VVLVNFANPNGLQ Sbjct: 297 TQTGSAFVNLAQVQNGMPPGSLSSFSVDKDGSIIGSYSNQQTKNLGTVVLVNFANPNGLQ 356 Query: 354 PLGNNLYQATGAAGSPLVGKPSTGTFGTLQARAVEDSNVDLTAELVNMIVAQRVYQANSQ 413 PLGNNLYQA+ AAGSPLVGKP+TGTFGTLQARA EDSNVDLTAELVNMIVAQRVYQANSQ Sbjct: 357 PLGNNLYQASSAAGSPLVGKPTTGTFGTLQARAKEDSNVDLTAELVNMIVAQRVYQANSQ 416 Query: 414 TIKVQDTVLQTLVSLR 429 TIKVQDTVLQTLVSLR Sbjct: 417 TIKVQDTVLQTLVSLR 432 >gi|300312833|ref|YP_003776925.1| flagellar hook protein [Herbaspirillum seropedicae SmR1] Length = 420 Score = 579 bits (1493), Expect = e-166, Method: Compositional matrix adjust. Identities = 299/429 (69%), Positives = 358/429 (83%), Gaps = 9/429 (2%) Query: 1 MSFQQGLSGLNGAAKSLDVIGNNVANASTVGFKQSQTQFADMYANSMNRSGNSPVGIGVT 60 MSFQQGLSGL+GA+K LDVIGNNVANASTVGFKQ Q QFAD YANSMNRSGNSPVGIGVT Sbjct: 1 MSFQQGLSGLHGASKHLDVIGNNVANASTVGFKQGQVQFADAYANSMNRSGNSPVGIGVT 60 Query: 61 VADVSQQFTQGNITSSNNPLDIAINGDGFFQVSSSLTNQSPMYGRNGQFQLDKNGYIVNP 120 VA+VSQ FTQGNI ++NN LD+AINGDGFF++++SLT+QSP YGRNGQFQL+K+GY++NP Sbjct: 61 VANVSQAFTQGNIATTNNALDVAINGDGFFRMAASLTDQSPRYGRNGQFQLNKDGYLINP 120 Query: 121 SMNGAYLMGWAAGASGGDPVALQIDTSSIPATTTTTINTKVNLDSRSPNIPTTTVFNAND 180 SMNGAYL G+ AG +GGDPV L+IDT+++PAT TT ++TKVNLDSR ++PT + F+ + Sbjct: 121 SMNGAYLTGYPAGTNGGDPVPLKIDTATLPATATTRVSTKVNLDSRK-SVPTVSPFDPAN 179 Query: 181 PTTYTNSTGVTIYDSLGNPYSVQTYYVKNPPNTAVTPPTTTWDVYAKVGSNTLVTTSGGT 240 P +Y+NSTG T+YDSLGNPYS+QT+YVK TPP+TTW VYA + T++ T Sbjct: 180 PNSYSNSTGATVYDSLGNPYSLQTFYVKGAATG--TPPSTTWSVYATLDGKTIINAPPAT 237 Query: 241 TPLKLGSMTFNSTGALVSGGSMTIDLTSAGPNANIAAGGGNFASTIALNYAGSTQTGSAF 300 P LG++ F++TGAL + M+++L++ +A GG F IAL YAGSTQTGSAF Sbjct: 238 GPQLLGTLRFDATGALTASTGMSLNLST------LAKGGATFPGPIALGYAGSTQTGSAF 291 Query: 301 VNLAQNQDGMPPGTLSSFSIDKDGTIVGSYSNQQTKNLGNVVLVNFANPNGLQPLGNNLY 360 NLAQ+QDGMPPGTLSSFSI KDG+I+G+YSNQQT+ +G +VLVNFANP+GLQP+GNNLY Sbjct: 292 ANLAQSQDGMPPGTLSSFSIGKDGSIIGAYSNQQTRVMGQIVLVNFANPHGLQPIGNNLY 351 Query: 361 QATGAAGSPLVGKPSTGTFGTLQARAVEDSNVDLTAELVNMIVAQRVYQANSQTIKVQDT 420 QA+ AAGS LVG P+TG FG LQ RAVE SNVDLTAELVNMIVAQRVYQANSQTIKVQDT Sbjct: 352 QASEAAGSALVGTPTTGAFGALQGRAVEQSNVDLTAELVNMIVAQRVYQANSQTIKVQDT 411 Query: 421 VLQTLVSLR 429 VLQTLVSLR Sbjct: 412 VLQTLVSLR 420 >gi|300311354|ref|YP_003775446.1| flagellar basal-body rod protein FlgG [Herbaspirillum seropedicae SmR1] Length = 260 Score = 78.6 bits (192), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 47/125 (37%), Positives = 67/125 (53%), Gaps = 13/125 (10%) Query: 8 SGLNGAAKSLDVIGNNVANASTVGFKQSQTQFADMYANSMNRSGNS-----------PVG 56 +GL+ LDVI NN+AN ST GFK+S+ F D+ ++ + G +G Sbjct: 10 TGLDAQQTQLDVISNNLANVSTNGFKRSRAVFEDLLYQTVRQPGAQSSQQTQLPSGLQIG 69 Query: 57 IGVTVADVSQQFTQGNITSSNNPLDIAINGDGFFQVSSSLTNQSPMYGRNGQFQLDKNGY 116 GV + FTQGN+ +NN D+AI G+GFFQ+ L + + Y R+G FQ D G Sbjct: 70 TGVRPVATERIFTQGNVNQTNNDKDLAIQGNGFFQI--LLPDGTTAYTRDGAFQTDSQGQ 127 Query: 117 IVNPS 121 +V S Sbjct: 128 LVTSS 132 Score = 72.8 bits (177), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 45/123 (36%), Positives = 64/123 (52%), Gaps = 5/123 (4%) Query: 311 PPGTL----SSFSIDKDGTI-VGSYSNQQTKNLGNVVLVNFANPNGLQPLGNNLYQATGA 365 PP T+ + ++ +DG + + + T +G + + F NP GL+ G NLY T A Sbjct: 138 PPITVPLNTTKLTVGRDGVVSIMQAGSTATTQIGTIQVATFINPAGLESRGENLYMETAA 197 Query: 366 AGSPLVGKPSTGTFGTLQARAVEDSNVDLTAELVNMIVAQRVYQANSQTIKVQDTVLQTL 425 +G+P P T G L VE SNV++ ELVNMI QR Y+ NS+ I D +L L Sbjct: 198 SGAPNPNNPGTNGAGALWQGYVETSNVNVVEELVNMIQTQRAYEINSKAITTSDQMLAKL 257 Query: 426 VSL 428 L Sbjct: 258 SQL 260 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 0.309 0.126 0.353 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: 1,123,982 Number of extensions: 41402 Number of successful extensions: 136 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 131 Number of HSP's successfully gapped: 4 Length of query: 429 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 341 Effective length of database: 1,203,190 Effective search space: 410287790 Effective search space used: 410287790 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.7 bits) S2: 132 (55.5 bits)