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= 0022.0042.p (267 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313642|ref|YP_003777734.1| arogenate dehydratase [Herbaspi... 552 e-159 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 82 3e-17 gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 72 6e-14 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 70 2e-13 gi|300311601|ref|YP_003775693.1| glutamine ABC transporter perip... 63 2e-11 >gi|300313642|ref|YP_003777734.1| arogenate dehydratase [Herbaspirillum seropedicae SmR1] Length = 267 Score = 552 bits (1423), Expect = e-159, Method: Compositional matrix adjust. Identities = 267/267 (100%), Positives = 267/267 (100%) Query: 1 MTRFIRAALLAGLTALSLSLSLSPALADDAAAAPASRLDQVIKAGKLRICMTGDYKPFTY 60 MTRFIRAALLAGLTALSLSLSLSPALADDAAAAPASRLDQVIKAGKLRICMTGDYKPFTY Sbjct: 1 MTRFIRAALLAGLTALSLSLSLSPALADDAAAAPASRLDQVIKAGKLRICMTGDYKPFTY 60 Query: 61 YRPDQSFEGMDVELGQALAKSLGVEAQFIKTTWSNLMNDFIAQCDIAMGGVSITLDRARK 120 YRPDQSFEGMDVELGQALAKSLGVEAQFIKTTWSNLMNDFIAQCDIAMGGVSITLDRARK Sbjct: 61 YRPDQSFEGMDVELGQALAKSLGVEAQFIKTTWSNLMNDFIAQCDIAMGGVSITLDRARK 120 Query: 121 AAFSEPTMVDGKAPIIRCADKDKFRNFDMIDQPGTRAIVNPGGTNERFARARYKRATLTL 180 AAFSEPTMVDGKAPIIRCADKDKFRNFDMIDQPGTRAIVNPGGTNERFARARYKRATLTL Sbjct: 121 AAFSEPTMVDGKAPIIRCADKDKFRNFDMIDQPGTRAIVNPGGTNERFARARYKRATLTL 180 Query: 181 HPDNVTIFQQIVDGKADVMVTDASETLWQSKLHPELCPVTPDQPLQFAEKAYLLPRGDVA 240 HPDNVTIFQQIVDGKADVMVTDASETLWQSKLHPELCPVTPDQPLQFAEKAYLLPRGDVA Sbjct: 181 HPDNVTIFQQIVDGKADVMVTDASETLWQSKLHPELCPVTPDQPLQFAEKAYLLPRGDVA 240 Query: 241 FKAYVDTWLHLAKATGEYQQIFDKWLK 267 FKAYVDTWLHLAKATGEYQQIFDKWLK Sbjct: 241 FKAYVDTWLHLAKATGEYQQIFDKWLK 267 >gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 82.4 bits (202), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 71/269 (26%), Positives = 124/269 (46%), Gaps = 16/269 (5%) Query: 1 MTRFIRAALLAGLTALSLSLSLSPALADDAAAAPASRLDQVIKAGKLRICMTGDYKPFTY 60 M + I+ LLAG+ A L+ SLS + AD L V +G L++ + G+Y PF + Sbjct: 1 MNKNIKQWLLAGVGAALLASSLSVSAAD--------LLQSVKSSGTLKVALEGNYPPFNF 52 Query: 61 YRPDQS-FEGMDVELGQALAKSLGVEAQFIKTTWSNLMNDFIA-QCDIAMGGVSITLDRA 118 P G +V++ + LA LGV+ F T WS ++ A + D+ + V IT +R Sbjct: 53 KDPKTGELTGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQ 112 Query: 119 RKAAFSEPTMVDGKAPIIRCADKDKFRNFDMIDQPGTRAIVNPGGTNERFARARYKRATL 178 + FS+P + I+R +K +F++ + D G + + G E+ A+A + Sbjct: 113 KAFDFSDPYTLSSAQLIVRKDEKREFKSLE--DLKGKKLGLGQGTNFEQKAKA-VPGIDV 169 Query: 179 TLHPDNVTIFQQIVDGKADVMVTDASETLWQSKLHPELCPVTPDQPLQFAEKAYL-LPRG 237 +P + + G+ D + D+ L L P+ P+ +K + +G Sbjct: 170 RTYPGSPEYLADLAAGRIDAALNDS--LLVGYILKSTNLPLKAGSPIGAVDKIGIPFRKG 227 Query: 238 DVAFKAYVDTWLHLAKATGEYQQIFDKWL 266 + FKA ++ L KA G ++ +KW Sbjct: 228 NPEFKAALNKALADIKADGSFKAASEKWF 256 >gi|300313886|ref|YP_003777978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 71.6 bits (174), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 67/241 (27%), Positives = 101/241 (41%), Gaps = 14/241 (5%) Query: 30 AAAAPASRLDQVIKAGKLRICMTGDYKPFTYYRPDQSFEGMDVELGQALAKSLGVEAQFI 89 A AA A +LD + KAGK+RI T F Y G DVE + LA+ LGV+ I Sbjct: 23 AHAALADQLDDIKKAGKIRIATTSSTPLFGYSDEKLQLAGSDVEAARLLAQDLGVQLDLI 82 Query: 90 KTTWSNLMNDFIA-QCDIAMGGVSITLDRARKAAFSEPTMVDGKAPIIRCADKDKFRNFD 148 + + A + DI +G +SIT +R + FS P V +I A K D Sbjct: 83 PVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAV---ISLIIGAPKSMVIK-D 138 Query: 149 MIDQPGTRAIVNPGGTNERFARARYKRATLTLHPDNVTIFQQIVDGKADVMVTDASETLW 208 D G R V N+ K A + + D+ T+ +V G+ DV + S Sbjct: 139 YADLNGKRIGVTRATPNDTLTTQNAKGAEIMRYEDDATLITSMVTGQVDVFSSTPSNLQE 198 Query: 209 QSKLHPELCPVTPDQPLQFAEKAYLL----PRGDVAFKAYVDTWLHLAKATGEYQQIFDK 264 K P + ++F +KA+ L + K ++D W+ G+ I+ K Sbjct: 199 MQKKAP-----GKNLEMKFEQKAFDLGIAINKNQPRLKEWIDGWVKTNMKNGKLNAIYKK 253 Query: 265 W 265 + Sbjct: 254 Y 254 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 69.7 bits (169), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 63/238 (26%), Positives = 104/238 (43%), Gaps = 17/238 (7%) Query: 35 ASRLDQVIKAGKLRICMTGDYKPFTYYRPDQSFEGMDVELGQALAKSLGVEAQFIKTTWS 94 A +LD ++ A KLR+ + P++ G DVE Q +AK G+E + + TT + Sbjct: 28 ADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTLT 87 Query: 95 NLMNDF-IAQCDIAMGGVSITLDRARKAAFSEPTMVDGKAPIIRCADKDK-FRNFDMIDQ 152 N + + DI + SIT +RA+ FS P API+ + + D Sbjct: 88 NRVPYLQTNKADIVISAFSITPERAKVIDFSVPY-----APILVVVGAPRSMKITSPADL 142 Query: 153 PGTRAIVNPGGTNER-FARARYKRATLTLHPDNVTIFQQIVDGKADVMVTDASETLWQSK 211 G + I G TN++ + AT+T D+ T +V G+AD+ T ++ Sbjct: 143 AGKKIIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQ 202 Query: 212 LHPELCPVTPDQPLQFAEKAYLLP----RGDVAFKAYVDTWLHLAKATGEYQQIFDKW 265 +P + D + KA LL +G+ K +D W+ + GE I+ K+ Sbjct: 203 KNP-----SRDIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYKKY 255 >gi|300311601|ref|YP_003775693.1| glutamine ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 251 Score = 63.2 bits (152), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 62/259 (23%), Positives = 110/259 (42%), Gaps = 20/259 (7%) Query: 9 LLAGLTALSLSLSLSPALADDAAAAPASRLDQVIKAGKLRICMTGDYKPFTYYRPDQSFE 68 L AG+ +LSL + AA PA+ + + +R+ + P + + D Sbjct: 8 LCAGMASLSLLI----------AAVPAAHANGEV----IRVGTDATFPPMEFVK-DGKRT 52 Query: 69 GMDVELGQALAKSLGVEAQFIKTTWSNLMNDFIA-QCDIAMGGVSITLDRARKAAFSEPT 127 G DVEL +ALAK++G + Q+I + L+ ++ + DIA + +T +R + FS+P Sbjct: 53 GFDVELIEALAKTMGKKVQWIDIDFKGLIPGLVSNRFDIAASAIYMTDERRKVVNFSDPY 112 Query: 128 MVDGKAPIIRCADKDKFRNFDMIDQPGTRAIVNPGGTNERFARARYKRATLTLHPDNVTI 187 G A ++R D D+ G R V G + + + + N + Sbjct: 113 YRGGLAVLVRRDDNSIKVPEDL--NKGKRVSVQVGTKSVGYLKDNFPGVERVEVEKNQAM 170 Query: 188 FQQIVDGKADVMVTDASETLWQSKLHPELCPVTPDQPLQFAEKAYLLPRGDVAFKAYVDT 247 F + G+ + +VT + ++ P L V D+ L + L + D A ++ Sbjct: 171 FDLLATGRVNAVVTGRPAAVEYARTQP-LVRVL-DKGLTTELYGFALRKSDTELTAQLNK 228 Query: 248 WLHLAKATGEYQQIFDKWL 266 L + G Y + DKW Sbjct: 229 ALQTLRMNGTYTALTDKWF 247 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 0.135 0.404 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: 765,624 Number of extensions: 30251 Number of successful extensions: 104 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 100 Number of HSP's successfully gapped: 9 Length of query: 267 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 183 Effective length of database: 1,222,130 Effective search space: 223649790 Effective search space used: 223649790 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: 130 (54.7 bits)