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= 0006.0055.p (170 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312760|ref|YP_003776852.1| transcription regulator protein... 354 2e-99 gi|300313708|ref|YP_003777800.1| AsnC family transcription regul... 122 2e-29 gi|300311014|ref|YP_003775106.1| leucine-responsive regulatory D... 97 7e-22 gi|300309515|ref|YP_003773607.1| leucine-responsive regulatory p... 96 2e-21 gi|300313266|ref|YP_003777358.1| AsnC family transcription regul... 90 1e-19 >gi|300312760|ref|YP_003776852.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 170 Score = 354 bits (909), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 170/170 (100%), Positives = 170/170 (100%) Query: 1 MAAKHHTLDKVDRKLLNMLQKDNQISTRVLAEKLHISQPTCLRRIRDLREAGIISAEVAM 60 MAAKHHTLDKVDRKLLNMLQKDNQISTRVLAEKLHISQPTCLRRIRDLREAGIISAEVAM Sbjct: 1 MAAKHHTLDKVDRKLLNMLQKDNQISTRVLAEKLHISQPTCLRRIRDLREAGIISAEVAM 60 Query: 61 VDPFALGYGMLAFLEISLNNQSDQHMQDFEQRMAKEAEVMQCYFVSGEYDYFLAVHVIDM 120 VDPFALGYGMLAFLEISLNNQSDQHMQDFEQRMAKEAEVMQCYFVSGEYDYFLAVHVIDM Sbjct: 61 VDPFALGYGMLAFLEISLNNQSDQHMQDFEQRMAKEAEVMQCYFVSGEYDYFLAVHVIDM 120 Query: 121 DAYYQFVRRVISGSGNVRHFQSRFPMKRAKFTTRIAFDEKAAEVLVRVPG 170 DAYYQFVRRVISGSGNVRHFQSRFPMKRAKFTTRIAFDEKAAEVLVRVPG Sbjct: 121 DAYYQFVRRVISGSGNVRHFQSRFPMKRAKFTTRIAFDEKAAEVLVRVPG 170 >gi|300313708|ref|YP_003777800.1| AsnC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 159 Score = 122 bits (305), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 61/155 (39%), Positives = 94/155 (60%) Query: 8 LDKVDRKLLNMLQKDNQISTRVLAEKLHISQPTCLRRIRDLREAGIISAEVAMVDPFALG 67 LD +DR++L LQ D + + LA ++H S PTCLRR++ L E G+I+ +VA++D + Sbjct: 5 LDDLDRRILKALQADASQTNQELAARVHASPPTCLRRVKRLVEGGVIARQVALLDAQKVA 64 Query: 68 YGMLAFLEISLNNQSDQHMQDFEQRMAKEAEVMQCYFVSGEYDYFLAVHVIDMDAYYQFV 127 + A +EI+L+ Q ++ Q FE +A E V QCY VS D+ L V V DM +Y+ Sbjct: 65 AALTAVVEITLDRQGEEEQQAFEALVADEPAVQQCYRVSPGPDFVLVVLVRDMSSYHALA 124 Query: 128 RRVISGSGNVRHFQSRFPMKRAKFTTRIAFDEKAA 162 R+ + NVR+ +S F + R+KF T I D+ A+ Sbjct: 125 HRLFASQRNVRNVRSYFSIHRSKFETAIPIDDAAS 159 >gi|300311014|ref|YP_003775106.1| leucine-responsive regulatory DNA-binding transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 162 Score = 97.1 bits (240), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 48/153 (31%), Positives = 87/153 (56%) Query: 7 TLDKVDRKLLNMLQKDNQISTRVLAEKLHISQPTCLRRIRDLREAGIISAEVAMVDPFAL 66 TLDK+D ++L +LQKD +IS + L E++ +S C+ R+R + G+I+ A V+P +L Sbjct: 10 TLDKLDHRILAVLQKDGRISMKELGEQVGLSVTPCIERVRRMERDGVITGYYARVNPESL 69 Query: 67 GYGMLAFLEISLNNQSDQHMQDFEQRMAKEAEVMQCYFVSGEYDYFLAVHVIDMDAYYQF 126 G +L F+EI+LN++S + F + + + EV +C+ VSG++DY + + M Y + Sbjct: 70 GATLLVFVEITLNHKSGNMFEQFRREVLRIPEVQECHLVSGDFDYLIKARIRGMAEYRKL 129 Query: 127 VRRVISGSGNVRHFQSRFPMKRAKFTTRIAFDE 159 + ++ +S M+ K T + D+ Sbjct: 130 LGDILLQLPGAAQSKSYVVMEEIKETLALPLDD 162 >gi|300309515|ref|YP_003773607.1| leucine-responsive regulatory protein [Herbaspirillum seropedicae SmR1] Length = 154 Score = 95.5 bits (236), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 49/148 (33%), Positives = 84/148 (56%) Query: 8 LDKVDRKLLNMLQKDNQISTRVLAEKLHISQPTCLRRIRDLREAGIISAEVAMVDPFALG 67 LDK+ +K+L LQ D +IS LA ++++S CL R+R L+EAG I A ++P L Sbjct: 4 LDKISKKILAELQNDGRISNVDLAARVNLSPAACLERVRKLQEAGYILGYAAQLNPELLD 63 Query: 68 YGMLAFLEISLNNQSDQHMQDFEQRMAKEAEVMQCYFVSGEYDYFLAVHVIDMDAYYQFV 127 +L F+E+ L+ + +F++ + E+M+C+ V+G +DY + V DM+AY +F+ Sbjct: 64 VSLLVFIEVVLDRTTPDVFAEFKKSVQSIPEIMECHMVAGGFDYLVKSRVKDMNAYREFL 123 Query: 128 RRVISGSGNVRHFQSRFPMKRAKFTTRI 155 + + VR + M+ K T R+ Sbjct: 124 GKSLLQLKGVRETHTYAVMEEVKNTIRL 151 >gi|300313266|ref|YP_003777358.1| AsnC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 159 Score = 89.7 bits (221), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 46/146 (31%), Positives = 83/146 (56%) Query: 8 LDKVDRKLLNMLQKDNQISTRVLAEKLHISQPTCLRRIRDLREAGIISAEVAMVDPFALG 67 LD D ++LN+LQ+++ IS LA ++++S L R++ L GIIS VA+ DP LG Sbjct: 3 LDTTDLRILNILQENSSISNLELASRINLSPSPTLARVKRLESEGIISRYVALADPHLLG 62 Query: 68 YGMLAFLEISLNNQSDQHMQDFEQRMAKEAEVMQCYFVSGEYDYFLAVHVIDMDAYYQFV 127 + F+++ L Q + + FE ++ EVM+ Y ++G+ DY L + V D+ F+ Sbjct: 63 LKVNVFVKVILERQGAEALAQFETAVSAFDEVMEVYLMTGDEDYLLRIVVPDLLTLEHFI 122 Query: 128 RRVISGSGNVRHFQSRFPMKRAKFTT 153 ++ +++ +S F +K+ K+ T Sbjct: 123 VDHLTKIPGIKNIRSSFALKQIKYKT 148 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 0.326 0.137 0.390 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: 453,973 Number of extensions: 16109 Number of successful extensions: 87 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 87 Number of HSP's successfully gapped: 9 Length of query: 170 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 91 Effective length of database: 1,245,805 Effective search space: 113368255 Effective search space used: 113368255 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 127 (53.5 bits)