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= 0001.2341.p (519 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312159|ref|YP_003776251.1| nitrogenase molybdenum-iron pro... 1077 0.0 gi|300312157|ref|YP_003776249.1| nitrogenase molybdenum-cofactor... 157 2e-39 >gi|300312159|ref|YP_003776251.1| nitrogenase molybdenum-iron protein beta chain protein [Herbaspirillum seropedicae SmR1] Length = 519 Score = 1077 bits (2786), Expect = 0.0, Method: Compositional matrix adjust. Identities = 515/519 (99%), Positives = 517/519 (99%) Query: 1 MPQNADSVLDHENLFRQPEYRELLSRKKEEFEFAVPVDKVQDVAEWTKTKEYQQKNFARE 60 MPQNADSVLDHENLFRQPEYREL +RKKEEFEFAVP+DKVQDVAEWTKTKEYQQKNFARE Sbjct: 1 MPQNADSVLDHENLFRQPEYRELFARKKEEFEFAVPLDKVQDVAEWTKTKEYQQKNFARE 60 Query: 61 ALTINPAKACQPLGAVYAAVGFQNTLPFVHGSQGCVAYYRSHFSRHFKEPTSCVSSSMTE 120 ALTINPAKACQPLGAVYAAVGFQNTLPFVHGSQGCVAYYRSHFSRHFKEPTSCVSSSMTE Sbjct: 61 ALTINPAKACQPLGAVYAAVGFQNTLPFVHGSQGCVAYYRSHFSRHFKEPTSCVSSSMTE 120 Query: 121 DAAVFGGLNNMIDGLANALSLYKPEMIAVSTTCMAEVIGDDLDSFIKNAKDKGSVPAEYD 180 DAAVFGGLNNMIDGLANALSLYKPEMIAVSTTCMAEVIGDDLDSFIKNAKDKGSVPAEYD Sbjct: 121 DAAVFGGLNNMIDGLANALSLYKPEMIAVSTTCMAEVIGDDLDSFIKNAKDKGSVPAEYD 180 Query: 181 VPFAHTPAFVGSHVTGYDNALKGILTHFWDGKAGTVPALERKPNERINFIGGFDGFVVGN 240 VPFAHTPAFVGSHVTGYDNALKGILTHFWDGKAGTVPALERKPNERINFIGGFDGFVVGN Sbjct: 181 VPFAHTPAFVGSHVTGYDNALKGILTHFWDGKAGTVPALERKPNERINFIGGFDGFVVGN 240 Query: 241 LPEVKRIFNLMGVDGTIVCDPSEVWNTPTDGQFRMYSGGTTKQEVIEALDAKATVVFQEF 300 LPEVKRIF LMGVDGTIVCDPSEVWNTPTDGQFRMYSGGTTKQEVIEALDAKATVVFQEF Sbjct: 241 LPEVKRIFKLMGVDGTIVCDPSEVWNTPTDGQFRMYSGGTTKQEVIEALDAKATVVFQEF 300 Query: 301 STLKTAKYIAEKGQEVVTLNHPMGVAGTDQFLMELSRLSGQPIPAELELERGRLVDAIAD 360 STLKTAKYIAEKGQEVVTLNHPMGVAGTDQFLMELSRLSGQPIPAELELERGRLVDAIAD Sbjct: 301 STLKTAKYIAEKGQEVVTLNHPMGVAGTDQFLMELSRLSGQPIPAELELERGRLVDAIAD 360 Query: 361 SQAHLHGKKFALYGDPDMMIGMTQFLLELGCEPTHILSTNGDAEWAAKVQALLDASPFGK 420 SQAHLHGKKFALYGDPDMMIGMTQFLLELGCEPTHILSTNGDAEWAAKVQALLDASPFGK Sbjct: 361 SQAHLHGKKFALYGDPDMMIGMTQFLLELGCEPTHILSTNGDAEWAAKVQALLDASPFGK 420 Query: 421 DCKVYPKRDLWHLRSLLFTEPVDFLIGNTYGKYLERDCGVPLIRLVFPVFDRHHYHRFPI 480 DCKVYPKRDLWHLRSLLFTEPVDFLIGNTYGKYLERDCGVPLIRLVFPVFDRHHYHRFPI Sbjct: 421 DCKVYPKRDLWHLRSLLFTEPVDFLIGNTYGKYLERDCGVPLIRLVFPVFDRHHYHRFPI 480 Query: 481 WGYAGAMRVLVMILDEYFEALDANTVVAGETDYSYDIIR 519 WGYAGAMRVLVMILDEYFEALDANTVVAGETDYSYDIIR Sbjct: 481 WGYAGAMRVLVMILDEYFEALDANTVVAGETDYSYDIIR 519 >gi|300312157|ref|YP_003776249.1| nitrogenase molybdenum-cofactor synthesis protein NifN protein [Herbaspirillum seropedicae SmR1] Length = 462 Score = 157 bits (396), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 115/447 (25%), Positives = 205/447 (45%), Gaps = 19/447 (4%) Query: 60 EALTINPAKACQPLGAVYAAVGFQNTLPFVHGSQGCVAYYRSHFSRHFKEPTSCVSSSMT 119 +A +NP K QPLGA YA +G +P +HGSQGC ++ RHF+E +++M Sbjct: 9 KAAAVNPLKMSQPLGAAYAFLGMNRCMPVMHGSQGCTSFGLVLLVRHFREAIPLQTTAMN 68 Query: 120 EDAAVFGGLNNMIDGLANALSLYKPEMIAVSTTCMAEVIGDDLDSFIKNAKDKGSVPAEY 179 E +++ GG+ N+ + N KP++IA+ +T + E GDD++++++ + K A+ Sbjct: 69 EVSSILGGMENIEKAVLNIRLRAKPDLIAICSTGLTETKGDDVNAYLRLIRQKHPDLADT 128 Query: 180 DVPFAHTPAFVGSHVTGYDNALKGILTHFWDGKAGTVPALERKPNERINFIGGFDGFVVG 239 + + TP + G+ G+ A++ ++ + + P L+ + + IN + G Sbjct: 129 ALAYVSTPDYTGAFQDGWAKAVEALIRALGEPQ----PGLQTRAKQ-INLLAGCH-LTPA 182 Query: 240 NLPEVKRIFNLMGVDGTIVCDPSEVWNTPTDGQFRMYSGGTTKQEVIEALDAKATVVFQE 299 ++ E++ I G++ ++ D S + F S G T + AL A + Sbjct: 183 DIEELRDIVQSFGLEPIVLPDVSSSLDGHLPDNFSPTSMGGTTLAEMRALGASIVSIAIG 242 Query: 300 FSTLKTAKYIAE-KGQEVVTLNHPMGVAGTDQFLMELSRLSGQPIPAELELERGRLVDAI 358 +A+ + E G V + G+ D+FL L +SGQPIPA +R +L DA+ Sbjct: 243 EQMRASAQAVQELSGVPYVVFDRLTGLQANDRFLAYLEYVSGQPIPARYRRQRSQLQDAM 302 Query: 359 ADSQAHLHGKKFALYGDPDMMIGMTQFLLELGCEPTHILSTNGDAEWAAKVQALLDASPF 418 D G K A+ +PD+++ ++ +L E+GCE ++T +LD P Sbjct: 303 LDGHFFFGGVKVAIGAEPDLLLSLSAWLAEMGCEIGCAVTTT--------TSPVLDGVPA 354 Query: 419 GKDCKVYPKRDLWHLRSLLFTEPVDFLIGNTYGKYLERDCGVPLIRLVFPVFDRHHYHRF 478 + DL L L+ +++G+ +P R P+FDR Sbjct: 355 AR----VVIGDLEDLEQGARRASAGLLVTHSHGRQAAERLHIPFHRAGLPMFDRLGAGHC 410 Query: 479 PIWGYAGAMRVLVMILDEYFEALDANT 505 GY G ++ I + A A+T Sbjct: 411 LSVGYRGTRGLIFEIGNLLLAAGHAHT 437 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 0.137 0.417 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: 1,690,716 Number of extensions: 74178 Number of successful extensions: 166 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 166 Number of HSP's successfully gapped: 2 Length of query: 519 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 430 Effective length of database: 1,198,455 Effective search space: 515335650 Effective search space used: 515335650 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: 133 (55.8 bits)