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= 0031.0021.p (287 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... 468 e-133 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 85 8e-18 gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 75 8e-15 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 68 1e-12 gi|300311601|ref|YP_003775693.1| glutamine ABC transporter perip... 67 1e-12 >gi|300313642|ref|YP_003777734.1| arogenate dehydratase [Herbaspirillum seropedicae SmR1] Length = 267 Score = 468 bits (1203), Expect = e-133, Method: Compositional matrix adjust. Identities = 219/232 (94%), Positives = 226/232 (97%) Query: 56 SRLDQVIKAGKLRICMTGDYKPFTYYRPDQTFEGMDVELGQALAKSLGVEAQFVKTTWST 115 SRLDQVIKAGKLRICMTGDYKPFTYYRPDQ+FEGMDVELGQALAKSLGVEAQF+KTTWS Sbjct: 36 SRLDQVIKAGKLRICMTGDYKPFTYYRPDQSFEGMDVELGQALAKSLGVEAQFIKTTWSN 95 Query: 116 LMNDFIAQCDVAMGGVSITLDRARRAAFSEPVMVDGKAPIIRCADKDKFRNFDMIDQPGT 175 LMNDFIAQCD+AMGGVSITLDRAR+AAFSEP MVDGKAPIIRCADKDKFRNFDMIDQPGT Sbjct: 96 LMNDFIAQCDIAMGGVSITLDRARKAAFSEPTMVDGKAPIIRCADKDKFRNFDMIDQPGT 155 Query: 176 RAIVNPGGTNERFAKARYKNATLLQHPDNVTIFQQIIDGKADVMVTDASETLWQSKLHPE 235 RAIVNPGGTNERFA+ARYK ATL HPDNVTIFQQI+DGKADVMVTDASETLWQSKLHPE Sbjct: 156 RAIVNPGGTNERFARARYKRATLTLHPDNVTIFQQIVDGKADVMVTDASETLWQSKLHPE 215 Query: 236 LCPVQPDQPLQFAEKAYLLPRGDVAFKAYVDTWLHLAKATGEYQRIFDKWLK 287 LCPV PDQPLQFAEKAYLLPRGDVAFKAYVDTWLHLAKATGEYQ+IFDKWLK Sbjct: 216 LCPVTPDQPLQFAEKAYLLPRGDVAFKAYVDTWLHLAKATGEYQQIFDKWLK 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 = 84.7 bits (208), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 72/267 (26%), Positives = 123/267 (46%), Gaps = 14/267 (5%) Query: 23 MKSIIRTALLAGLAALSLCLTLSAARADDAIPASRLDQVIKAGKLRICMTGDYKPFTYYR 82 M I+ LLAG+ A L +LS + AD L V +G L++ + G+Y PF + Sbjct: 1 MNKNIKQWLLAGVGAALLASSLSVSAAD------LLQSVKSSGTLKVALEGNYPPFNFKD 54 Query: 83 PDQ-TFEGMDVELGQALAKSLGVEAQFVKTTWSTLMNDFIA-QCDVAMGGVSITLDRARR 140 P G +V++ + LA LGV+ F T WS ++ A + DV + V IT +R + Sbjct: 55 PKTGELTGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKA 114 Query: 141 AAFSEPVMVDGKAPIIRCADKDKFRNFDMIDQPGTRAIVNPGGTNERFAKARYKNATLLQ 200 FS+P + I+R +K +F++ + D G + + G E+ AKA + Sbjct: 115 FDFSDPYTLSSAQLIVRKDEKREFKSLE--DLKGKKLGLGQGTNFEQKAKA-VPGIDVRT 171 Query: 201 HPDNVTIFQQIIDGKADVMVTDASETLWQSKLHPELCPVQPDQPLQFAEKAYL-LPRGDV 259 +P + + G+ D + D+ L L P++ P+ +K + +G+ Sbjct: 172 YPGSPEYLADLAAGRIDAALNDS--LLVGYILKSTNLPLKAGSPIGAVDKIGIPFRKGNP 229 Query: 260 AFKAYVDTWLHLAKATGEYQRIFDKWL 286 FKA ++ L KA G ++ +KW Sbjct: 230 EFKAALNKALADIKADGSFKAASEKWF 256 >gi|300313886|ref|YP_003777978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 74.7 bits (182), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 70/257 (27%), Positives = 108/257 (42%), Gaps = 28/257 (10%) Query: 38 LSLCLTLSAARADDAIPASRLDQVIKAGKLRICMTGDYKPFTYYRPDQTFEGMDVELGQA 97 L L LT AA AD +LD + KAGK+RI T F Y G DVE + Sbjct: 17 LVLGLTAHAALAD------QLDDIKKAGKIRIATTSSTPLFGYSDEKLQLAGSDVEAARL 70 Query: 98 LAKSLGVEAQFVKTTWSTLMNDFIA-QCDVAMGGVSITLDRARRAAFSEPVMVDGKAPII 156 LA+ LGV+ + + + A + D+ +G +SIT +R + FS P V +I Sbjct: 71 LAQDLGVQLDLIPVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAV---ISLI 127 Query: 157 RCADKDKFRNFDMIDQPGTRAIVNPGGTNERFAKARYKNATLLQHPDNVTIFQQIIDGKA 216 A K D D G R V N+ K A ++++ D+ T+ ++ G+ Sbjct: 128 IGAPKSMVIK-DYADLNGKRIGVTRATPNDTLTTQNAKGAEIMRYEDDATLITSMVTGQV 186 Query: 217 DVMVTDASETLWQSKLHPELCPVQPDQPLQFAEKAYLL--------PRGDVAFKAYVDTW 268 DV + S K P + ++F +KA+ L PR K ++D W Sbjct: 187 DVFSSTPSNLQEMQKKAP-----GKNLEMKFEQKAFDLGIAINKNQPR----LKEWIDGW 237 Query: 269 LHLAKATGEYQRIFDKW 285 + G+ I+ K+ Sbjct: 238 VKTNMKNGKLNAIYKKY 254 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 67.8 bits (164), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 61/238 (25%), Positives = 103/238 (43%), Gaps = 17/238 (7%) Query: 55 ASRLDQVIKAGKLRICMTGDYKPFTYYRPDQTFEGMDVELGQALAKSLGVEAQFVKTTWS 114 A +LD ++ A KLR+ + P++ G DVE Q +AK G+E + V TT + Sbjct: 28 ADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTLT 87 Query: 115 TLMNDF-IAQCDVAMGGVSITLDRARRAAFSEPVMVDGKAPIIRCADKDK-FRNFDMIDQ 172 + + D+ + SIT +RA+ FS P API+ + + D Sbjct: 88 NRVPYLQTNKADIVISAFSITPERAKVIDFSVPY-----APILVVVGAPRSMKITSPADL 142 Query: 173 PGTRAIVNPGGTNER-FAKARYKNATLLQHPDNVTIFQQIIDGKADVMVTDASETLWQSK 231 G + I G TN++ K +AT+ + D+ T ++ G+AD+ T ++ Sbjct: 143 AGKKIIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQ 202 Query: 232 LHPELCPVQPDQPLQFAEKAYLLP----RGDVAFKAYVDTWLHLAKATGEYQRIFDKW 285 +P D + KA LL +G+ K +D W+ + GE I+ K+ Sbjct: 203 KNPSR-----DIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYKKY 255 >gi|300311601|ref|YP_003775693.1| glutamine ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 251 Score = 67.4 bits (163), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 59/257 (22%), Positives = 113/257 (43%), Gaps = 18/257 (7%) Query: 31 LLAGLAALSLCLTLSAARADDAIPASRLDQVIKAGKLRICMTGDYKPFTYYRPDQTFEGM 90 L AG+A+LSL + A+PA+ + + +R+ + P + + D G Sbjct: 8 LCAGMASLSLLIA--------AVPAAHANGEV----IRVGTDATFPPMEFVK-DGKRTGF 54 Query: 91 DVELGQALAKSLGVEAQFVKTTWSTLMNDFIA-QCDVAMGGVSITLDRARRAAFSEPVMV 149 DVEL +ALAK++G + Q++ + L+ ++ + D+A + +T +R + FS+P Sbjct: 55 DVELIEALAKTMGKKVQWIDIDFKGLIPGLVSNRFDIAASAIYMTDERRKVVNFSDPYYR 114 Query: 150 DGKAPIIRCADKDKFRNFDMIDQPGTRAIVNPGGTNERFAKARYKNATLLQHPDNVTIFQ 209 G A ++R D D+ G R V G + + K + ++ N +F Sbjct: 115 GGLAVLVRRDDNSIKVPEDL--NKGKRVSVQVGTKSVGYLKDNFPGVERVEVEKNQAMFD 172 Query: 210 QIIDGKADVMVTDASETLWQSKLHPELCPVQPDQPLQFAEKAYLLPRGDVAFKAYVDTWL 269 + G+ + +VT + ++ P + + D+ L + L + D A ++ L Sbjct: 173 LLATGRVNAVVTGRPAAVEYARTQPLVRVL--DKGLTTELYGFALRKSDTELTAQLNKAL 230 Query: 270 HLAKATGEYQRIFDKWL 286 + G Y + DKW Sbjct: 231 QTLRMNGTYTALTDKWF 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 0.408 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: 857,548 Number of extensions: 32760 Number of successful extensions: 109 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 103 Number of HSP's successfully gapped: 8 Length of query: 287 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 203 Effective length of database: 1,222,130 Effective search space: 248092390 Effective search space used: 248092390 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)