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= 0001.4217.p (265 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... 460 e-131 gi|300311472|ref|YP_003775564.1| amino acid ABC transporter/sign... 73 2e-14 gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 70 1e-13 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 64 2e-11 gi|300311601|ref|YP_003775693.1| glutamine ABC transporter perip... 57 2e-09 >gi|300313642|ref|YP_003777734.1| arogenate dehydratase [Herbaspirillum seropedicae SmR1] Length = 267 Score = 460 bits (1183), Expect = e-131, Method: Compositional matrix adjust. Identities = 216/232 (93%), Positives = 225/232 (96%) Query: 34 SRLDQVLKAGKLRICMTGDYKPFTYYRPDQSFEGMDVELGQSLAKSLGVEAQFIKTTWST 93 SRLDQV+KAGKLRICMTGDYKPFTYYRPDQSFEGMDVELGQ+LAKSLGVEAQFIKTTWS Sbjct: 36 SRLDQVIKAGKLRICMTGDYKPFTYYRPDQSFEGMDVELGQALAKSLGVEAQFIKTTWSN 95 Query: 94 LMNDFIAQCDIGMGGISVTLERARKAAFSDVTMVDGKAPIIRCADKDKFRNFDMIDRPGT 153 LMNDFIAQCDI MGG+S+TL+RARKAAFS+ TMVDGKAPIIRCADKDKFRNFDMID+PGT Sbjct: 96 LMNDFIAQCDIAMGGVSITLDRARKAAFSEPTMVDGKAPIIRCADKDKFRNFDMIDQPGT 155 Query: 154 RAIVNPGGTNERFARSGYKHATLLLHPDNVTIFQQIVDGKADVMVTDASETLWQSKLHPE 213 RAIVNPGGTNERFAR+ YK ATL LHPDNVTIFQQIVDGKADVMVTDASETLWQSKLHPE Sbjct: 156 RAIVNPGGTNERFARARYKRATLTLHPDNVTIFQQIVDGKADVMVTDASETLWQSKLHPE 215 Query: 214 LCPVNPDQPLQFAEKAYLLPRGDVAFKAYVDTWLHLAKATGEYQRIFDKWLK 265 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 = 73.2 bits (178), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 118/267 (44%), Gaps = 14/267 (5%) Query: 1 MKHIIRTALLLALAGLSLTLSLSAARADDNPPGSRLDQVLKAGKLRICMTGDYKPFTYYR 60 M I+ LL + L SLS + AD L V +G L++ + G+Y PF + Sbjct: 1 MNKNIKQWLLAGVGAALLASSLSVSAAD------LLQSVKSSGTLKVALEGNYPPFNFKD 54 Query: 61 PDQS-FEGMDVELGQSLAKSLGVEAQFIKTTWSTLMNDFIA-QCDIGMGGISVTLERARK 118 P G +V++ + LA LGV+ F T WS ++ A + D+ + + +T ER + Sbjct: 55 PKTGELTGFEVDVAKLLAAKLGVKPVFTTTEWSGILAGLGAGKYDVIINQVGITDERQKA 114 Query: 119 AAFSDVTMVDGKAPIIRCADKDKFRNFDMIDRPGTRAIVNPGGTNERFARSGYKHATLLL 178 FSD + I+R +K +F++ + D G + + G E+ A++ + Sbjct: 115 FDFSDPYTLSSAQLIVRKDEKREFKSLE--DLKGKKLGLGQGTNFEQKAKA-VPGIDVRT 171 Query: 179 HPDNVTIFQQIVDGKADVMVTDASETLWQSKLHPELCPVNPDQPLQFAEKAYL-LPRGDV 237 +P + + G+ D + D+ L L P+ P+ +K + +G+ Sbjct: 172 YPGSPEYLADLAAGRIDAALNDS--LLVGYILKSTNLPLKAGSPIGAVDKIGIPFRKGNP 229 Query: 238 AFKAYVDTWLHLAKATGEYQRIFDKWL 264 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 = 70.5 bits (171), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/259 (25%), Positives = 110/259 (42%), Gaps = 32/259 (12%) Query: 16 LSLTLSLSAARADDNPPGSRLDQVLKAGKLRICMTGDYKPFTYYRPDQSFEGMDVELGQS 75 L L L+ AA AD +LD + KAGK+RI T F Y G DVE + Sbjct: 17 LVLGLTAHAALAD------QLDDIKKAGKIRIATTSSTPLFGYSDEKLQLAGSDVEAARL 70 Query: 76 LAKSLGVEAQFIKTTWSTLMNDFIA-QCDIGMGGISVTLERARKAAFSD----VTMVDG- 129 LA+ LGV+ I + + A + DI +G +S+T ER + FS ++++ G Sbjct: 71 LAQDLGVQLDLIPVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAVISLIIGA 130 Query: 130 -KAPIIRCADKDKFRNFDMIDRPGTRAIVNPGGTNERFARSGYKHATLLLHPDNVTIFQQ 188 K+ +I+ D D G R V N+ K A ++ + D+ T+ Sbjct: 131 PKSMVIK----------DYADLNGKRIGVTRATPNDTLTTQNAKGAEIMRYEDDATLITS 180 Query: 189 IVDGKADVMVTDASETLWQSKLHPELCPVNPDQPLQFAEKAY----LLPRGDVAFKAYVD 244 +V G+ DV + S K P + ++F +KA+ + + K ++D Sbjct: 181 MVTGQVDVFSSTPSNLQEMQKKAP-----GKNLEMKFEQKAFDLGIAINKNQPRLKEWID 235 Query: 245 TWLHLAKATGEYQRIFDKW 263 W+ G+ I+ K+ Sbjct: 236 GWVKTNMKNGKLNAIYKKY 254 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 63.5 bits (153), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 63/242 (26%), Positives = 101/242 (41%), Gaps = 29/242 (11%) Query: 35 RLDQVLKAGKLRICMTGDYKPFTYYRPDQSFEGMDVELGQSLAKSLGVEAQFIKTTWSTL 94 +LD +L A KLR+ + P++ G DVE Q +AK G+E + + TT + Sbjct: 30 QLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTLTNR 89 Query: 95 MNDF-IAQCDIGMGGISVTLERARKAAFSDVTMVDGKAPIIRCADKDK-FRNFDMIDRPG 152 + + DI + S+T ERA+ FS API+ + + D G Sbjct: 90 VPYLQTNKADIVISAFSITPERAKVIDFS-----VPYAPILVVVGAPRSMKITSPADLAG 144 Query: 153 TRAIVNPGGTNER-FARSGYKHATLLLHPDNVTIFQQIVDGKADVMVTDASETLWQSKLH 211 + I G TN++ + AT+ D+ T +V G+AD+ T Sbjct: 145 KKIIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWAT-----------S 193 Query: 212 PELCPV----NPDQPLQ--FAEKAYLLP----RGDVAFKAYVDTWLHLAKATGEYQRIFD 261 P L V NP + ++ KA LL +G+ K +D W+ + GE I+ Sbjct: 194 PMLLKVVNQKNPSRDIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYK 253 Query: 262 KW 263 K+ Sbjct: 254 KY 255 >gi|300311601|ref|YP_003775693.1| glutamine ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 251 Score = 56.6 bits (135), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 50/221 (22%), Positives = 93/221 (42%), Gaps = 6/221 (2%) Query: 45 LRICMTGDYKPFTYYRPDQSFEGMDVELGQSLAKSLGVEAQFIKTTWSTLMNDFIA-QCD 103 +R+ + P + + D G DVEL ++LAK++G + Q+I + L+ ++ + D Sbjct: 32 IRVGTDATFPPMEFVK-DGKRTGFDVELIEALAKTMGKKVQWIDIDFKGLIPGLVSNRFD 90 Query: 104 IGMGGISVTLERARKAAFSDVTMVDGKAPIIRCADKDKFRNFDMIDRPGTRAIVNPGGTN 163 I I +T ER + FSD G A ++R D D+ G R V G + Sbjct: 91 IAASAIYMTDERRKVVNFSDPYYRGGLAVLVRRDDNSIKVPEDL--NKGKRVSVQVGTKS 148 Query: 164 ERFARSGYKHATLLLHPDNVTIFQQIVDGKADVMVTDASETLWQSKLHPELCPVNPDQPL 223 + + + + N +F + G+ + +VT + ++ P + + D+ L Sbjct: 149 VGYLKDNFPGVERVEVEKNQAMFDLLATGRVNAVVTGRPAAVEYARTQPLVRVL--DKGL 206 Query: 224 QFAEKAYLLPRGDVAFKAYVDTWLHLAKATGEYQRIFDKWL 264 + L + D A ++ L + G Y + DKW Sbjct: 207 TTELYGFALRKSDTELTAQLNKALQTLRMNGTYTALTDKWF 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 0.137 0.413 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: 825,252 Number of extensions: 33289 Number of successful extensions: 96 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 95 Number of HSP's successfully gapped: 6 Length of query: 265 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 181 Effective length of database: 1,222,130 Effective search space: 221205530 Effective search space used: 221205530 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: 129 (54.3 bits)