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= 0001.2248.p (154 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312130|ref|YP_003776222.1| glutamate uptake transcription ... 307 2e-85 gi|300313266|ref|YP_003777358.1| AsnC family transcription regul... 107 6e-25 gi|300311014|ref|YP_003775106.1| leucine-responsive regulatory D... 95 3e-21 gi|300313708|ref|YP_003777800.1| AsnC family transcription regul... 91 4e-20 gi|300311006|ref|YP_003775098.1| transcription regulator protein... 77 5e-16 >gi|300312130|ref|YP_003776222.1| glutamate uptake transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 154 Score = 307 bits (787), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 151/154 (98%), Positives = 154/154 (100%) Query: 1 VIDRTDRRILEILQEDSTRAVAEIAECVNLSTTPCWRRIQKLEAEGVIKRRVVLLDAEKL 60 +IDRTDRRILEILQEDSTRAVAEIAECVNLSTTPCWRRIQ+LEAEGVIKRRVVLLDAEKL Sbjct: 1 MIDRTDRRILEILQEDSTRAVAEIAECVNLSTTPCWRRIQRLEAEGVIKRRVVLLDAEKL 60 Query: 61 NVSVTVLVEIKTRQHSASWLKKFRDVVTCIPEVVEVYRMSGHIDYMLKVMVPNIGAYDSV 120 NVSVTVLVEIKTRQHSASWLKKFRDVVTCIPEVVEV+RMSGHIDYMLKVMVPNIGAYDSV Sbjct: 61 NVSVTVLVEIKTRQHSASWLKKFRDVVTCIPEVVEVHRMSGHIDYMLKVMVPNIGAYDSV 120 Query: 121 YKRLISAVELDDVSSSFSMETLKSTTALPLMYAD 154 YKRLISAVELDDVSSSFSMETLKSTTALPLMYAD Sbjct: 121 YKRLISAVELDDVSSSFSMETLKSTTALPLMYAD 154 >gi|300313266|ref|YP_003777358.1| AsnC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 159 Score = 107 bits (266), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 56/149 (37%), Positives = 91/149 (61%), Gaps = 1/149 (0%) Query: 2 IDRTDRRILEILQEDSTRAVAEIAECVNLSTTPCWRRIQKLEAEGVIKRRVVLLDAEKLN 61 +D TD RIL ILQE+S+ + E+A +NLS +P R+++LE+EG+I R V L D L Sbjct: 3 LDTTDLRILNILQENSSISNLELASRINLSPSPTLARVKRLESEGIISRYVALADPHLLG 62 Query: 62 VSVTVLVEIKTRQHSASWLKKFRDVVTCIPEVVEVYRMSGHIDYMLKVMVPNIGAYDS-V 120 + V V V++ + A L +F V+ EV+EVY M+G DY+L+++VP++ + + Sbjct: 63 LKVNVFVKVILERQGAEALAQFETAVSAFDEVMEVYLMTGDEDYLLRIVVPDLLTLEHFI 122 Query: 121 YKRLISAVELDDVSSSFSMETLKSTTALP 149 L + ++ SSF+++ +K TALP Sbjct: 123 VDHLTKIPGIKNIRSSFALKQIKYKTALP 151 >gi|300311014|ref|YP_003775106.1| leucine-responsive regulatory DNA-binding transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 162 Score = 94.7 bits (234), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 53/152 (34%), Positives = 85/152 (55%), Gaps = 5/152 (3%) Query: 2 IDRTDRRILEILQEDSTRAVAEIAECVNLSTTPCWRRIQKLEAEGVIKRRVVLLDAEKLN 61 +D+ D RIL +LQ+D ++ E+ E V LS TPC R++++E +GVI ++ E L Sbjct: 11 LDKLDHRILAVLQKDGRISMKELGEQVGLSVTPCIERVRRMERDGVITGYYARVNPESLG 70 Query: 62 VSVTVLVEIKTRQHSASWLKKFRDVVTCIPEVVEVYRMSGHIDYMLKVMVPNIGAYDSVY 121 ++ V VEI S + ++FR V IPEV E + +SG DY++K + + Y + Sbjct: 71 ATLLVFVEITLNHKSGNMFEQFRREVLRIPEVQECHLVSGDFDYLIKARIRGMAEYRKLL 130 Query: 122 KRLISAVELDDVSSSFS---METLKSTTALPL 150 ++ ++L + S S ME +K T ALPL Sbjct: 131 GDIL--LQLPGAAQSKSYVVMEEIKETLALPL 160 >gi|300313708|ref|YP_003777800.1| AsnC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 159 Score = 90.9 bits (224), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 54/150 (36%), Positives = 88/150 (58%), Gaps = 1/150 (0%) Query: 2 IDRTDRRILEILQEDSTRAVAEIAECVNLSTTPCWRRIQKLEAEGVIKRRVVLLDAEKLN 61 +D DRRIL+ LQ D+++ E+A V+ S C RR+++L GVI R+V LLDA+K+ Sbjct: 5 LDDLDRRILKALQADASQTNQELAARVHASPPTCLRRVKRLVEGGVIARQVALLDAQKVA 64 Query: 62 VSVTVLVEIKTRQHSASWLKKFRDVVTCIPEVVEVYRMSGHIDYMLKVMVPNIGAYDSVY 121 ++T +VEI + + F +V P V + YR+S D++L V+V ++ +Y ++ Sbjct: 65 AALTAVVEITLDRQGEEEQQAFEALVADEPAVQQCYRVSPGPDFVLVVLVRDMSSYHALA 124 Query: 122 KRLI-SAVELDDVSSSFSMETLKSTTALPL 150 RL S + +V S FS+ K TA+P+ Sbjct: 125 HRLFASQRNVRNVRSYFSIHRSKFETAIPI 154 >gi|300311006|ref|YP_003775098.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 172 Score = 77.4 bits (189), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 43/152 (28%), Positives = 83/152 (54%), Gaps = 1/152 (0%) Query: 2 IDRTDRRILEILQEDSTRAVAEIAECVNLSTTPCWRRIQKLEAEGVIKRRVVLLDAEKLN 61 +DR D +L LQ D + + + V+LST+ RR+Q+LE VI+R +LD + Sbjct: 6 VDRYDLALLTELQRDGHITNSALGQKVHLSTSQISRRVQRLEEAHVIERYTAVLDPAVVG 65 Query: 62 VSVTVLVEIKTRQHSASWLKKFRDVVTCIPEVVEVYRMSGHIDYMLKVMVPNIGAY-DSV 120 + VT + + + + F V +PEV E + ++G DY+L+++ P++ A+ + + Sbjct: 66 LGVTAFTTVTLDRQGETRGELFEKAVETMPEVTECFSVTGEGDYILRIVAPDLAAFSEFM 125 Query: 121 YKRLISAVELDDVSSSFSMETLKSTTALPLMY 152 RL+ + +V S+ +++ +K + LPL + Sbjct: 126 MTRLLRLPGVTNVKSNITLKKVKQSHELPLEH 157 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 0.133 0.373 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: 386,744 Number of extensions: 12103 Number of successful extensions: 48 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 47 Number of HSP's successfully gapped: 9 Length of query: 154 Length of database: 1,619,870 Length adjustment: 77 Effective length of query: 77 Effective length of database: 1,255,275 Effective search space: 96656175 Effective search space used: 96656175 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 (21.9 bits) S2: 126 (53.1 bits)