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= 0002.0261.p (212 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314042|ref|YP_003778134.1| signal transduction protein con... 221 5e-59 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 209 2e-55 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 201 3e-53 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 182 2e-47 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 181 3e-47 >gi|300314042|ref|YP_003778134.1| signal transduction protein containing a membrane domain, an EAL and a GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 948 Score = 221 bits (562), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 108/201 (53%), Positives = 147/201 (73%) Query: 1 VAPGMFITLAEQTGLIVPLGAWVLREACRQGKAWLDRGYQFGRIAVNLSPRQFSSDDLLA 60 V+P FI LAE+TGLI+P+GAWVLR AC Q + W GY ++VNLS QF DL++ Sbjct: 739 VSPARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVS 798 Query: 61 TIDNALDQSGLPSAMLELEITEGAIMQNPQEAVVLLKRMRELGVTISVDDFGTGYSSLAS 120 +I + L+ +GLP LELE+TE +M + + A+ +L +++LGV +S+DDFGTGYSSLA Sbjct: 799 SIADVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAY 858 Query: 121 LKQYPLDTLKIDRSFVKGIPADADDVAITEAIIAIAHKLHLKVVAEGVESQEQHDFLRAA 180 LK++P+D LKIDRSFV+ I DADD AIT +II++A L L+V+AEGVE+ EQ D+LR Sbjct: 859 LKRFPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHY 918 Query: 181 GCDMVQGYLHAQPLTAGEIEQ 201 GCD +QGYL + P+ A + EQ Sbjct: 919 GCDEIQGYLFSPPVPADKFEQ 939 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 209 bits (532), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 104/196 (53%), Positives = 139/196 (70%), Gaps = 5/196 (2%) Query: 1 VAPGMFITLAEQTGLIVPLGAWVLREACRQGKAWLDRGYQFGRIAVNLSPRQFSSD--DL 58 V P FI AE+ GLIVP+G WVLR ACRQ +AW G +AVNLSPRQ + D Sbjct: 487 VPPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLNQSLPDF 546 Query: 59 LATIDNALDQSGLPSAMLELEITEGAIMQNPQEAVVLLKRMRELGVTISVDDFGTGYSSL 118 +A + L QSGL ++ LELEITE +M++ +++V L ++ LG+ ISVDDFGTGYSSL Sbjct: 547 VAGV---LAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSL 603 Query: 119 ASLKQYPLDTLKIDRSFVKGIPADADDVAITEAIIAIAHKLHLKVVAEGVESQEQHDFLR 178 + L+++P+D LKID+SFV+ I DAD AI +AII++AH L+L+V+AEGVE +EQH FL+ Sbjct: 604 SYLRRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLK 663 Query: 179 AAGCDMVQGYLHAQPL 194 CD VQGY +P+ Sbjct: 664 ENACDEVQGYYFGKPM 679 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 201 bits (511), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 99/195 (50%), Positives = 134/195 (68%) Query: 1 VAPGMFITLAEQTGLIVPLGAWVLREACRQGKAWLDRGYQFGRIAVNLSPRQFSSDDLLA 60 VAP FI LAE++GLI+P+GAWVL EACRQ + W GY ++VNLS QF+ LL Sbjct: 485 VAPDQFIGLAERSGLILPIGAWVLDEACRQMREWFALGYVDWTMSVNLSALQFADPHLLE 544 Query: 61 TIDNALDQSGLPSAMLELEITEGAIMQNPQEAVVLLKRMRELGVTISVDDFGTGYSSLAS 120 + L++ LP L LE+TE M + + ++ L+++ +LGV IS+DDFGTGYSSL Sbjct: 545 VVRTTLERHQLPPPCLTLEVTESTAMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLY 604 Query: 121 LKQYPLDTLKIDRSFVKGIPADADDVAITEAIIAIAHKLHLKVVAEGVESQEQHDFLRAA 180 LK+ P + LKIDR FV+ + D +D AI AI+A+ L+L++VAEGVE+ EQ DFL AA Sbjct: 605 LKRLPANELKIDRGFVRELRQDGEDAAIVSAIVALGRTLNLRIVAEGVETVEQQDFLTAA 664 Query: 181 GCDMVQGYLHAQPLT 195 GCD +QGYL +P+T Sbjct: 665 GCDALQGYLMGRPMT 679 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 182 bits (462), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 97/194 (50%), Positives = 136/194 (70%), Gaps = 1/194 (0%) Query: 3 PGMFITLAEQTGLIVPLGAWVLREACRQGKAWLDRGYQFGRIAVNLSPRQFSSDDLLATI 62 PG FI +AE+TGLIV L WVL CRQ +AW D G RIA+N++ R+F+ L + Sbjct: 468 PGEFIPIAEETGLIVQLSDWVLDAVCRQARAWKDAGLPPIRIALNVTAREFTRS-LPDRV 526 Query: 63 DNALDQSGLPSAMLELEITEGAIMQNPQEAVVLLKRMRELGVTISVDDFGTGYSSLASLK 122 AL++ L LELEITE +M + + +++++ LG+T+S+DDFGTGYSSL+ LK Sbjct: 527 GAALERHMLSGEWLELEITESMLMHSTDRVISIMEKICGLGITVSLDDFGTGYSSLSYLK 586 Query: 123 QYPLDTLKIDRSFVKGIPADADDVAITEAIIAIAHKLHLKVVAEGVESQEQHDFLRAAGC 182 ++P++TLKIDRSF GIP D +D AI AII IA +L KV+AEGVE ++Q +FLR AGC Sbjct: 587 RFPINTLKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVEDEKQFNFLREAGC 646 Query: 183 DMVQGYLHAQPLTA 196 + +QGY+ ++P+ A Sbjct: 647 NELQGYIFSRPVPA 660 >gi|300312026|ref|YP_003776118.1| signal transduction protein containing a membrane domain, an EAL and a GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1106 Score = 181 bits (460), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 93/201 (46%), Positives = 130/201 (64%) Query: 1 VAPGMFITLAEQTGLIVPLGAWVLREACRQGKAWLDRGYQFGRIAVNLSPRQFSSDDLLA 60 + PG FITLAE+T LI +G VL ACR + GRI++NL+ QF + LL Sbjct: 890 LPPGEFITLAEETRLIDQIGLLVLDVACRDIGLMRQQQMTCGRISINLTGSQFGDERLLD 949 Query: 61 TIDNALDQSGLPSAMLELEITEGAIMQNPQEAVVLLKRMRELGVTISVDDFGTGYSSLAS 120 I +D+ G P + LE EITE +M N + A+ ++ +R G TIS+DDFGTGYSSLA Sbjct: 950 DIKEVVDRHGTPPSCLEFEITESMVMHNRERAIAIMDGIRAEGFTISIDDFGTGYSSLAY 1009 Query: 121 LKQYPLDTLKIDRSFVKGIPADADDVAITEAIIAIAHKLHLKVVAEGVESQEQHDFLRAA 180 LK++P++TLKID+SF+ IP + + AI +AIIA++H L+LKVV EGVE+++Q LR Sbjct: 1010 LKRFPVNTLKIDKSFINDIPDNPNSSAIVQAIIAMSHALNLKVVTEGVETEKQLQALREF 1069 Query: 181 GCDMVQGYLHAQPLTAGEIEQ 201 G D QGY ++P+ + Q Sbjct: 1070 GSDEYQGYYFSKPVPYAQFVQ 1090 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 0.319 0.135 0.393 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: 701,061 Number of extensions: 28508 Number of successful extensions: 130 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 116 Number of HSP's successfully gapped: 18 Length of query: 212 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 131 Effective length of database: 1,236,335 Effective search space: 161959885 Effective search space used: 161959885 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: 128 (53.9 bits)