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= 0029.0073.p (278 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310862|ref|YP_003774954.1| dipeptide/oligopeptide/nickel A... 511 e-146 gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel A... 113 2e-26 gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel A... 110 9e-26 gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel A... 89 4e-19 gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel A... 78 8e-16 >gi|300310862|ref|YP_003774954.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 278 Score = 511 bits (1317), Expect = e-146, Method: Compositional matrix adjust. Identities = 277/278 (99%), Positives = 277/278 (99%) Query: 1 MSTLSSSLPLLEQAGPRRWSAGQWSGLVLLLLVAGFALLGPLVIDTDPARQQLARYLETP 60 MSTLSSSLPLLEQAGPRRWSAGQWSGLVLLLLVAGFALLGPLVIDTDPARQQLARYLETP Sbjct: 1 MSTLSSSLPLLEQAGPRRWSAGQWSGLVLLLLVAGFALLGPLVIDTDPARQQLARYLETP 60 Query: 61 SLAEPLGFDQLGRSMLARLAHGARLSLSLALLSVLSAAIPGSLIGLLAAWCGGWTERVLA 120 SLAEPLGFDQLGRSMLARLAHGARLSLSLALLSVLSAAIPGSLIGLLAAWCGGWTERVLA Sbjct: 61 SLAEPLGFDQLGRSMLARLAHGARLSLSLALLSVLSAAIPGSLIGLLAAWCGGWTERVLA 120 Query: 121 ALADAVLALPGLLLVLLLAAFAPGGFWPLYVGISLALWVEYFRVVRAASRILLASPQVEA 180 ALADAVLALPGLLLVLLLAAFAPGGFWPLYVGISLALWVEYFRVVRAASRILLASPQVEA Sbjct: 121 ALADAVLALPGLLLVLLLAAFAPGGFWPLYVGISLALWVEYFRVVRAASRILLASPQVEA 180 Query: 181 SRLLGFGALYIVRCHLLPALLPRLLTLVRFGLAGAVLAMSALGFVGVGLQPPTPELGVMM 240 SRLLGFGALYIVRCHLLPALLPRLLTLVRFGLAGAVLAMSALGFVGVGLQPPTPELGVMM Sbjct: 181 SRLLGFGALYIVRCHLLPALLPRLLTLVRFGLAGAVLAMSALGFVGVGLQPPTPELGVMM 240 Query: 241 IELLPYYREAPWLVASPVLVLFFGLLGLLLLSSQGEAA 278 IELLPYYREAPWLVASPVLVLF GLLGLLLLSSQGEAA Sbjct: 241 IELLPYYREAPWLVASPVLVLFLGLLGLLLLSSQGEAA 278 >gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 310 Score = 113 bits (282), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 2/251 (0%) Query: 24 WSGLVLLLLVAGFALLGPLVIDTDPARQQLARYLETP-SLAEPLGFDQLGRSMLARLAHG 82 ++G+ +L LVA A+L P ++ DP L +P + G D LGR + +R+ G Sbjct: 48 YAGVFILFLVA-VAILAPWIVPFDPENFFDYDALNSPPTWVHWFGVDSLGRDIFSRIVMG 106 Query: 83 ARLSLSLALLSVLSAAIPGSLIGLLAAWCGGWTERVLAALADAVLALPGLLLVLLLAAFA 142 R+SL+ SV A+ G++ GLLA + GW +R+ + D + A PG+LL + + A Sbjct: 107 TRISLAAGFFSVAIGAVIGTVFGLLAGYYEGWWDRITMRICDVLFAFPGILLAIGIVAIL 166 Query: 143 PGGFWPLYVGISLALWVEYFRVVRAASRILLASPQVEASRLLGFGALYIVRCHLLPALLP 202 GG + + +S+ + R+VR + L +EA+R +G + I+ H+ P + Sbjct: 167 GGGMINVIISVSVFSIPAFARLVRGNTLQLKNLTYIEATRSIGASDMTIMWKHIFPGTIS 226 Query: 203 RLLTLVRFGLAGAVLAMSALGFVGVGLQPPTPELGVMMIELLPYYREAPWLVASPVLVLF 262 ++ + +++ + L F+G+G Q PTPE G+M+ E +P + P + +F Sbjct: 227 AIVVYFTMRIGTSIITAAGLSFLGLGAQSPTPEWGLMLNEARADMVTSPHVALVPSIAIF 286 Query: 263 FGLLGLLLLSS 273 +L LL Sbjct: 287 LTVLAFNLLGD 297 >gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 110 bits (276), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 80/242 (33%), Positives = 133/242 (54%), Gaps = 11/242 (4%) Query: 37 ALLGPLVIDTDPARQQLARYLETP------SLAEPLGFDQLGRSMLARLAHGARLSLSLA 90 A+ PL+ DP Q + L P S LG D+LGR +RL +GAR+SL++ Sbjct: 51 AIFAPLLAPHDPFDQDVTARLIPPVWQAQGSWEHILGTDKLGRDYFSRLIYGARVSLTIG 110 Query: 91 LLSVLSAAIPGSLIGLLAAWCGGWTERVLAALADAVLALPGLLLVLLLAAFAPGGFWPLY 150 L + L + + G+ +G+LA + GG T+ V++ L LA+P +L+ L +A+ G + Sbjct: 111 LAAALISGLIGTTLGVLAGYFGGRTDAVISYLITTRLAMPVVLVALAMASLVGGSLKVVI 170 Query: 151 VGISLALWVEYFRVVRAASRILLASPQVEASRLLGFGALYIVRCHLLPALLPRLLTLVRF 210 V + L LW + V R+A++ L + + A++ +G YI+ +LP ++ L+ +V Sbjct: 171 VLLGLLLWDRFAVVTRSATQQLRDAEFIAAAKAIGASTPYILLREILPNIMGALIVVVTL 230 Query: 211 GLAGAVLAMSALGFVGVGLQPPTPELGVMMIELLPYYREAPWLVASP-----VLVLFFGL 265 +A A+L + L F+G+G+QPPTP G+M+ E Y PW++ P +LVL L Sbjct: 231 EMAHAILLEATLSFLGLGVQPPTPSWGLMVAEGKTYMFFKPWVIVIPGVALALLVLAINL 290 Query: 266 LG 267 +G Sbjct: 291 VG 292 >gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 320 Score = 89.0 bits (219), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 57/181 (31%), Positives = 98/181 (54%) Query: 66 LGFDQLGRSMLARLAHGARLSLSLALLSVLSAAIPGSLIGLLAAWCGGWTERVLAALADA 125 LG D GR +++ + +G R+S+ + + S L A + G+LIGLLAA+ GG + +L AD Sbjct: 100 LGTDGQGRDLVSAILYGLRISVGIGVGSALIAGVIGTLIGLLAAYAGGKLDTLLMRFADL 159 Query: 126 VLALPGLLLVLLLAAFAPGGFWPLYVGISLALWVEYFRVVRAASRILLASPQVEASRLLG 185 VL+ P +L+ +L+ A+ G + + + + W Y R R + + VEA+R L Sbjct: 160 VLSFPSILVAMLILAYVGKGIFNVMATLVVLEWAYYARTARGQALVERRKEYVEAARGLN 219 Query: 186 FGALYIVRCHLLPALLPRLLTLVRFGLAGAVLAMSALGFVGVGLQPPTPELGVMMIELLP 245 + I+ H+LP LP L+ + +A A+ + L F+G+G+ P LG+++ Sbjct: 220 LSSWRIMVRHILPNCLPPLIVIGTLQVARAITLEATLSFLGLGVPITEPSLGLLISNGYQ 279 Query: 246 Y 246 Y Sbjct: 280 Y 280 >gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 77.8 bits (190), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 74/263 (28%), Positives = 127/263 (48%), Gaps = 16/263 (6%) Query: 17 RRWSAGQWSGLVLLLLVAGFALLGP--------LVIDTDPARQQLARYLETPSLAEPLGF 68 RR S W G+ ++ A+LGP ++DTD ++L LG Sbjct: 27 RRHSTMAWIGMAIVGFWILMAILGPSISPYDATAIVDTDVFSGMSHKFL--------LGS 78 Query: 69 DQLGRSMLARLAHGARLSLSLALLSVLSAAIPGSLIGLLAAWCGGWTERVLAALADAVLA 128 D LGR ML+R+ G R ++ LAL + + A+ G+ I L AA+ GGW + V++ DA+++ Sbjct: 79 DYLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVISRALDALIS 138 Query: 129 LPGLLLVLLLAAFAPGGFWPLYVGISLALWVEYFRVVRAASRILLASPQVEASRLLGFGA 188 +P + L++ A L + ++ +R+ R+ + + A V+A+R G G Sbjct: 139 IPSKMFALMMVATFGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQAARARGEGV 198 Query: 189 LYIVRCHLLPALLPRLLTLVRFGLAGAVLAMSALGFVGVGLQPPTPELGVMMIELLPYYR 248 YI+ +LP ++ +L VL +S L F+ +G+QPP + G ++ E + Sbjct: 199 WYIMTVEMLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSLVRENISGLG 258 Query: 249 EAPWLVASPVLVLFFGLLGLLLL 271 E V P L + +G+ LL Sbjct: 259 EGALAVIMPALAIASLTIGVNLL 281 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 0.142 0.432 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: 609,440 Number of extensions: 16058 Number of successful extensions: 130 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 128 Number of HSP's successfully gapped: 6 Length of query: 278 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 194 Effective length of database: 1,222,130 Effective search space: 237093220 Effective search space used: 237093220 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)