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= 0001.1821.p (323 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 151 7e-38 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 140 2e-34 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 135 4e-33 gi|300313030|ref|YP_003777122.1| two component response regulato... 133 2e-32 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 129 4e-31 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 151 bits (382), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 92/206 (44%), Positives = 123/206 (59%), Gaps = 3/206 (1%) Query: 120 IDNHDGERLCLIQISDASNSVRRE--KMLRSHSEALKRQAGTDGLTGIHNRRHFDEHYAQ 177 I H + L+Q DA+ S RE + L+ + L+R TDGLTGI NRR+FD++ Sbjct: 136 IRYHSRSYINLLQ-RDAAYSALRESQQQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGA 194 Query: 178 ALQRAREQAGTLSLFMIDVDFFKQYNDHYGHGAGDHVLKGVAAALRGQLRQPGDLLARYG 237 +RAR L+L +IDVDFFK YND+YGH AGD VL+ VA AL +++P DL AR+G Sbjct: 195 EWRRARRDGLDLALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFG 254 Query: 238 GEEFILLMQDLTHEQAAELGQALRQAVYQLDEPHAKSLVEHRVTISVGVCTRVVQEDEDG 297 GEEF +++ + A + Q + V L PH S V +T+SVG T V QE ++ Sbjct: 255 GEEFAMILPRTGLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQQEL 314 Query: 298 RLLMAAADAALYRAKLGGRNKVVAID 323 R L+ AAD LY AK GRN+VV D Sbjct: 315 RELIEAADRRLYLAKQQGRNRVVWQD 340 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 140 bits (352), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 75/179 (41%), Positives = 109/179 (60%), Gaps = 1/179 (0%) Query: 142 REKMLRSHSEALKRQAGTDGLTGIHNRRHFDEHYAQALQRAREQAGTLSLFMIDVDFFKQ 201 R + L + L+ + TDGLTG+ NRR FDE A ++RA +L+L M+DVD+FK+ Sbjct: 387 RTRELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLMLDVDYFKK 446 Query: 202 YNDHYGHGAGDHVLKGVAAALRGQLRQPGDLLARYGGEEFILLMQDLTHEQAAELGQALR 261 YND YGH AGD L+ VA L+ R+ DL+ARYGGEEF +++ + QA + + + Sbjct: 447 YNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQQAENIC 506 Query: 262 QAVYQLDEPHAKSLVEHRVTISVGVCTRVVQEDEDGRLLMAAADAALYRAKLGGRNKVV 320 QA+++L PHA S + ++ S+GV + E ++ AD ALY AK GRN+VV Sbjct: 507 QAIFELKLPHADSPFGY-ISASIGVAVLLPDEHTAPEQMVRIADQALYHAKYQGRNRVV 564 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 135 bits (341), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 84/180 (46%), Positives = 110/180 (61%), Gaps = 2/180 (1%) Query: 142 REKMLRSHSEALKRQAGTDGLTGIHNRRHFDEHYAQALQRAREQAGTLSLFMIDVDFFKQ 201 R + L +E L+ + TDGLTGI NRR FDE Q +R+ L L IDVD+FK Sbjct: 182 RTRDLAQANEQLRSLSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFIDVDWFKP 241 Query: 202 YNDHYGHGAGDHVLKGVAAALRGQLRQPGDLLARYGGEEFILLMQDLTHEQAAELGQALR 261 YNDHYGH AGD VL+ VA LR + + GD +ARYGGEEF ++ D + A++ + + Sbjct: 242 YNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQAGADMLRRMC 301 Query: 262 QAVYQLDEPHAKSLVEHRVTISVGVCTRVVQEDEDG-RLLMAAADAALYRAKLGGRNKVV 320 AV+ L HA S + R+TIS GV + + G L+ AADAALYRAK+ GRN+VV Sbjct: 302 DAVHALAIAHAGSAMG-RITISAGVASCNPGQPGAGLDGLLQAADAALYRAKMEGRNRVV 360 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 133 bits (335), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 85/252 (33%), Positives = 120/252 (47%), Gaps = 21/252 (8%) Query: 71 RALDNTLGYGLPAVLSSALHRSPLPLYLEPVAGSDMAAARMVQSVVLTPIDNHDGERLCL 130 R NTL G+P + + L + V G D + + +V+ + H Sbjct: 79 RLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPINGTVLKARVLTH------- 131 Query: 131 IQISDASNSVRREKMLRSHSEALKRQAGTDGLTGIHNRRHFDEHYAQALQRAREQAGTLS 190 L+ S+ A TD LTG+ NRR FD A+ + + +S Sbjct: 132 -------------LTLKLQSDFYLNIAVTDSLTGLFNRRKFDSELAEKWELCKRSGQAMS 178 Query: 191 LFMIDVDFFKQYNDHYGHGAGDHVLKGVAAALRGQLRQPGDLLARYGGEEFILLMQDLTH 250 L +ID+D FKQYNDHYGH AGDH L VA +R + D +ARYGGEEF ++ Sbjct: 179 LLLIDIDHFKQYNDHYGHQAGDHCLAEVAHTIRSNFHRSYDCVARYGGEEFACILPMTGR 238 Query: 251 EQAAELGQALRQAVYQLDEPHAKSLVEHRVTISVGVCTRVVQEDEDGRL-LMAAADAALY 309 EQA Q + +V +L PHA+S V++S+GV T + + + L+A AD LY Sbjct: 239 EQAIRQAQEVCHSVARLHLPHARSDTSAWVSLSIGVATMIAPDHNASPVALLALADKNLY 298 Query: 310 RAKLGGRNKVVA 321 AK GR +V A Sbjct: 299 AAKANGRAQVFA 310 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 129 bits (323), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 79/184 (42%), Positives = 106/184 (57%), Gaps = 3/184 (1%) Query: 140 VRREKMLRSHSEA-LKRQAGTDGLTGIHNRRHFDEHYAQALQRA-REQAGTLSLFMIDVD 197 VRRE + R +E L+ A TDGLTG+ NRR DE QR+ R S IDVD Sbjct: 309 VRRELLKRVAAEKQLEDLARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGFSTLFIDVD 368 Query: 198 FFKQYNDHYGHGAGDHVLKGVAAALRGQLRQPGDLLARYGGEEFILLMQDLTHEQAAELG 257 +FK+YND YGH GD VL+ VAA LR L++ DL RYGGEEF++L++ A + Sbjct: 369 YFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMA 428 Query: 258 QALRQAVYQLDEPHAKSLVEHRVTISVGVCTRVVQEDEDGRLLMAAADAALYRAKLGGRN 317 Q L +A+Y PH+ S + +++S+GV T + ++ AAD ALY AK GRN Sbjct: 429 QQLCEAIYNRGIPHSGSPLG-VISVSIGVATMNRAPHQRMEDVLNAADHALYIAKREGRN 487 Query: 318 KVVA 321 +V Sbjct: 488 RVCV 491 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 0.321 0.136 0.397 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: 1,036,953 Number of extensions: 46115 Number of successful extensions: 249 Number of sequences better than 1.0e-08: 38 Number of HSP's gapped: 211 Number of HSP's successfully gapped: 38 Length of query: 323 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 238 Effective length of database: 1,217,395 Effective search space: 289740010 Effective search space used: 289740010 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: 131 (55.1 bits)