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= 0584.0006.p (123 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value pdb|1P90|A Chain A, The Three-Dimensional Structure Of The Core ... 88 8e-17 ref|ZP_00091200.1| hypothetical protein [Azotobacter vinelandii]... 87 1e-16 gb|AAG35590.1| NifY protein [Azoarcus sp. BH72] 80 1e-14 sp|O87628|NIFX_HERSE NifX protein >gi|5123463|gb|AAC43021.2| Nif... 80 2e-14 ref|NP_949949.1| nitrogenase molybdenum-iron protein nifX [Rhodo... 79 3e-14 >pdb|1P90|A Chain A, The Three-Dimensional Structure Of The Core Domain Of Nafy From Azotobacter Vinelandii Determined At 1.8 Resolution Length = 145 Score = 87.8 bits (216), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 48/118 (40%), Positives = 67/118 (56%), Gaps = 5/118 (4%) Query: 1 MKIAFASNGGRTLDCHFGQCTAFAIFEFGEKGYRLLETR-TLPVLQEETEECDKFQQRVD 59 +++A ASN G LD HFG C F +++ K L++ R TL V E DK RV+ Sbjct: 8 IRVAIASNNGEQLDGHFGSCLRFLVYQVSAKDASLVDIRSTLDVALAE----DKNAWRVE 63 Query: 60 QIRDCTVLFVVKIGGDAVKKVLEAGIILLQSEQGSEIVPQLDQLRLMLKERPPLWLVK 117 QI+DC VL+VV IGG A KV+ AGI L+ +G + +L+ ++ PP WL K Sbjct: 64 QIQDCQVLYVVSIGGPAAAKVVRAGIHPLKKPKGCAAQEAIAELQTVMAGSPPPWLAK 121 >ref|ZP_00091200.1| hypothetical protein [Azotobacter vinelandii] gb|AAG29822.1| nitrogenase gamma subunit [Azotobacter vinelandii] Length = 243 Score = 87.0 bits (214), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 48/118 (40%), Positives = 67/118 (56%), Gaps = 5/118 (4%) Query: 1 MKIAFASNGGRTLDCHFGQCTAFAIFEFGEKGYRLLETR-TLPVLQEETEECDKFQQRVD 59 +++A ASN G LD HFG C F +++ K L++ R TL V E DK RV+ Sbjct: 106 IRVAIASNNGEQLDGHFGSCLRFLVYQVSAKDASLVDIRSTLDVALAE----DKNAWRVE 161 Query: 60 QIRDCTVLFVVKIGGDAVKKVLEAGIILLQSEQGSEIVPQLDQLRLMLKERPPLWLVK 117 QI+DC VL+VV IGG A KV+ AGI L+ +G + +L+ ++ PP WL K Sbjct: 162 QIQDCQVLYVVSIGGPAAAKVVRAGIHPLKKPKGCAAQEAIAELQTVMAGSPPPWLAK 219 >gb|AAG35590.1| NifY protein [Azoarcus sp. BH72] Length = 240 Score = 80.1 bits (196), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 46/122 (37%), Positives = 67/122 (54%), Gaps = 6/122 (4%) Query: 1 MKIAFASNGGRTLDCHFGQCTAFAIFEFGEKGYRLLETRTLPVLQEETEEC-DKFQQRVD 59 +K+A ASN G LD HFG C F +++ E+G L++ R+ E T++ D+ R Sbjct: 108 LKVAVASNTGELLDGHFGSCARFLVYQVSEEGVWLIDVRS----TEGTDDADDRNVARAA 163 Query: 60 QIRDCTVLFVVKIGGDAVKKVLEAGIILLQSEQGSEIVPQLDQLRLMLKERPPLWLVKAL 119 I DC + ++ IGG A K++ AGI ++ G E L QL+ LK RPP WL K L Sbjct: 164 LINDCHLAYMQSIGGPAAAKIVRAGIHPVKFPVGGEARQVLAQLQGTLK-RPPPWLAKVL 222 Query: 120 NK 121 + Sbjct: 223 GR 224 >sp|O87628|NIFX_HERSE NifX protein gb|AAC43021.2| NifX [Herbaspirillum seropedicae] Length = 146 Score = 79.7 bits (195), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 40/123 (32%), Positives = 68/123 (55%) Query: 1 MKIAFASNGGRTLDCHFGQCTAFAIFEFGEKGYRLLETRTLPVLQEETEECDKFQQRVDQ 60 MK+AFA+ + ++ HFG A+FE GY ++T + +E + DK +++ Sbjct: 14 MKVAFATQELQRVEAHFGWAKNLAVFELWPNGYSFVQTHSFDGDLKEDGDEDKLAPKIEA 73 Query: 61 IRDCTVLFVVKIGGDAVKKVLEAGIILLQSEQGSEIVPQLDQLRLMLKERPPLWLVKALN 120 I++C +L+V IGG +V+ I ++ Q I+ LD+L+ +LK P WL KA+ Sbjct: 74 IKECAILYVAAIGGSGAARVVANRIHPVKVAQAEPILDILDKLQEVLKGTPAPWLRKAMQ 133 Query: 121 KGK 123 KG+ Sbjct: 134 KGQ 136 >ref|NP_949949.1| nitrogenase molybdenum-iron protein nifX [Rhodopseudomonas palustris CGA009] emb|CAE30055.1| nitrogenase molybdenum-iron protein nifX [Rhodopseudomonas palustris CGA009] Length = 132 Score = 79.0 bits (193), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 43/123 (34%), Positives = 65/123 (52%), Gaps = 1/123 (0%) Query: 1 MKIAFASNGGRTLDCHFGQCTAFAIFEFGEKGYRLLETRTLPVLQEETEECDKFQQRVDQ 60 MK+AFA+ +D HFG AI+E YR +E +E+ E DK ++D Sbjct: 1 MKVAFATQDLARVDAHFGWARNIAIYEITADDYRFIEAVQFAEEKEDGNE-DKLVAKIDA 59 Query: 61 IRDCTVLFVVKIGGDAVKKVLEAGIILLQSEQGSEIVPQLDQLRLMLKERPPLWLVKALN 120 IRDC +++ IGG +V+ A + L+ Q I + +L+ +L+ PP WL KAL Sbjct: 60 IRDCAIMYCTAIGGSGAARVVAAQVHPLKLAQPELITDLITKLQGVLRGVPPPWLRKALM 119 Query: 121 KGK 123 KG+ Sbjct: 120 KGE 122 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.323 0.141 0.414 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 169,032,250 Number of extensions: 5674009 Number of successful extensions: 12995 Number of sequences better than 1.0e-05: 48 Number of HSP's gapped: 12970 Number of HSP's successfully gapped: 48 Length of query: 123 Length of database: 757,237,578 Length adjustment: 87 Effective length of query: 36 Effective length of database: 521,023,965 Effective search space: 18756862740 Effective search space used: 18756862740 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 120 (50.8 bits)