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= 0032.0170.p (320 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel A... 625 e-180 gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel A... 195 4e-51 gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel A... 186 2e-48 gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herba... 111 9e-26 gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel A... 104 9e-24 >gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 320 Score = 625 bits (1611), Expect = e-180, Method: Compositional matrix adjust. Identities = 315/320 (98%), Positives = 318/320 (99%) Query: 1 MSAPQTEVTMTQEQVRARVAELSAFQAPRRESPWRRVMRHFVASRSAMLGLVIVLLLIVG 60 MSAPQTEV MTQEQVRARVAELSAFQAPRRESPWRRVMRHFVASRSAMLGLVIVLLLIVG Sbjct: 1 MSAPQTEVGMTQEQVRARVAELSAFQAPRRESPWRRVMRHFVASRSAMLGLVIVLLLIVG 60 Query: 61 AIAAPWITPQNPYDLMQLDVLDARLHPGTPNGAGTFTYWLGTDGQGRDLVSAILYGLRIS 120 AIAAPWITPQNPYDLMQLDVLDARLHPGT NGAGT+TYWLGTDGQGRDLVSAILYGLRIS Sbjct: 61 AIAAPWITPQNPYDLMQLDVLDARLHPGTLNGAGTYTYWLGTDGQGRDLVSAILYGLRIS 120 Query: 121 VGIGVGSALIAGVIGTLIGLLAAYAGGKVDTVLMRFADLVLSFPSILVAMLILAYVGKGI 180 VGIGVGSALIAGVIGTLIGLLAAYAGGK+DT+LMRFADLVLSFPSILVAMLILAYVGKGI Sbjct: 121 VGIGVGSALIAGVIGTLIGLLAAYAGGKLDTLLMRFADLVLSFPSILVAMLILAYVGKGI 180 Query: 181 FNVMATLVVLEWAYYARTARGQALVERRKEYVEAARGLNLSSWRIMVRHILPNCLPPLIV 240 FNVMATLVVLEWAYYARTARGQALVERRKEYVEAARGLNLSSWRIMVRHILPNCLPPLIV Sbjct: 181 FNVMATLVVLEWAYYARTARGQALVERRKEYVEAARGLNLSSWRIMVRHILPNCLPPLIV 240 Query: 241 IGTLQVARAITLEATLSFLGLGVPITEPSLGLLISNGYQYMLSGEYWISFYPGITLLVVI 300 IGTLQVARAITLEATLSFLGLGVPITEPSLGLLISNGYQYMLSGEYWISFYPGITLLVVI Sbjct: 241 IGTLQVARAITLEATLSFLGLGVPITEPSLGLLISNGYQYMLSGEYWISFYPGITLLVVI 300 Query: 301 VAINLVGDRLRDILNPRWQK 320 VAINLVGDRLRDILNPRWQK Sbjct: 301 VAINLVGDRLRDILNPRWQK 320 >gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 195 bits (496), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 114/283 (40%), Positives = 173/283 (61%), Gaps = 5/283 (1%) Query: 34 WRRVMRHFVASRSAMLGLVIVLLLIVGAIAAPWITPQNPYDLMQLDVLDARLHPGTPNGA 93 WRR +R + R M+G ++ ++++ AI AP + P +P+D + ARL P Sbjct: 24 WRRKLRRLLGHRGLMIGAAVLAVIVLAAIFAPLLAPHDPFD----QDVTARLIPPVWQAQ 79 Query: 94 GTFTYWLGTDGQGRDLVSAILYGLRISVGIGVGSALIAGVIGTLIGLLAAYAGGKVDTVL 153 G++ + LGTD GRD S ++YG R+S+ IG+ +ALI+G+IGT +G+LA Y GG+ D V+ Sbjct: 80 GSWEHILGTDKLGRDYFSRLIYGARVSLTIGLAAALISGLIGTTLGVLAGYFGGRTDAVI 139 Query: 154 MRFADLVLSFPSILVAMLILAYVGKGIFNVMATLVVLEWAYYARTARGQALVERRKEYVE 213 L+ P +LVA+ + + VG + V+ L +L W +A R R E++ Sbjct: 140 SYLITTRLAMPVVLVALAMASLVGGSLKVVIVLLGLLLWDRFAVVTRSATQQLRDAEFIA 199 Query: 214 AARGLNLSSWRIMVRHILPNCLPPLIVIGTLQVARAITLEATLSFLGLGVPITEPSLGLL 273 AA+ + S+ I++R ILPN + LIV+ TL++A AI LEATLSFLGLGV PS GL+ Sbjct: 200 AAKAIGASTPYILLREILPNIMGALIVVVTLEMAHAILLEATLSFLGLGVQPPTPSWGLM 259 Query: 274 ISNGYQYMLSGEYWISFYPGITLLVVIVAINLVGDRLRDILNP 316 ++ G YM + W+ PG+ L ++++AINLVGD LRD+ P Sbjct: 260 VAEGKTYMFF-KPWVIVIPGVALALLVLAINLVGDGLRDVNAP 301 >gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 310 Score = 186 bits (473), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 104/289 (35%), Positives = 156/289 (53%), Gaps = 10/289 (3%) Query: 29 RRESPWRRVMRHFVASRSAMLGLVIVLLLIVGAIAAPWITPQNPYDLMQLDVLDARLHPG 88 + +PWR R F A+ V +L L+ AI APWI P +P + D L Sbjct: 28 KIRTPWREFWRKFKKQHLAVYAGVFILFLVAVAILAPWIVPFDPENFFDYDAL------- 80 Query: 89 TPNGAGTFTYWLGTDGQGRDLVSAILYGLRISVGIGVGSALIAGVIGTLIGLLAAYAGGK 148 N T+ +W G D GRD+ S I+ G RIS+ G S I VIGT+ GLLA Y G Sbjct: 81 --NSPPTWVHWFGVDSLGRDIFSRIVMGTRISLAAGFFSVAIGAVIGTVFGLLAGYYEGW 138 Query: 149 VDTVLMRFADLVLSFPSILVAMLILAYVGKGIFNVMATLVVLEWAYYARTARGQALVERR 208 D + MR D++ +FP IL+A+ I+A +G G+ NV+ ++ V +AR RG L + Sbjct: 139 WDRITMRICDVLFAFPGILLAIGIVAILGGGMINVIISVSVFSIPAFARLVRGNTLQLKN 198 Query: 209 KEYVEAARGLNLSSWRIMVRHILPNCLPPLIVIGTLQVARAITLEATLSFLGLGVPITEP 268 Y+EA R + S IM +HI P + ++V T+++ +I A LSFLGLG P Sbjct: 199 LTYIEATRSIGASDMTIMWKHIFPGTISAIVVYFTMRIGTSIITAAGLSFLGLGAQSPTP 258 Query: 269 SLGLLISNGYQYMLSGEYWISFYPGITLLVVIVAINLVGDRLRDILNPR 317 GL+++ M++ + ++ P I + + ++A NL+GD LRD L+P+ Sbjct: 259 EWGLMLNEARADMVTSPH-VALVPSIAIFLTVLAFNLLGDGLRDALDPK 306 >gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 348 Score = 111 bits (277), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 73/251 (29%), Positives = 125/251 (49%), Gaps = 6/251 (2%) Query: 67 ITPQNPYDLMQLDVLDARLHPGTPNGAGTFTYWLGTDGQGRDLVSAILYGLRISVGIGVG 126 + P N Y L+ + +P P+ WLGTD +GRD+ + +LYG R+SV G+ Sbjct: 101 LYPPNRYGYNTLNYFAKQPNPAAPSSEN----WLGTDDRGRDVFARLLYGFRVSVLFGMA 156 Query: 127 SALIAGVIGTLIGLLAAYAGGKVDTVLMRFADLVLSFPSILVAMLILAYVGKGIFNVMAT 186 I V+G G + Y G+ D R ++ S P + + ++ + + ++ Sbjct: 157 LTFIGVVLGVAAGAVQGYFAGRTDLFTQRLLEIWGSMPELYLLIIFSSIFQPSLGLLLVL 216 Query: 187 LVVLEWAYYARTARGQALVERRKEYVEAARGLNLSSWRIMVRHILPNCLPPLIVIGTLQV 246 L + W + R L R EY++AAR + L I+ RH+LPN + ++ ++ Sbjct: 217 LSLFGWMSLSDYVRADFLRNRNLEYIQAARAMGLPDRLIIWRHVLPNSMTTVVTFLPFRM 276 Query: 247 ARAITLEATLSFLGLGVPITEPSLGLLISNGYQYMLSGEYWISFYPGITLLVVIVAINLV 306 + AI +L FLGLGVP + PSLG L++ G + +WI+ + L V ++ + + Sbjct: 277 SAAILALTSLDFLGLGVPPSTPSLGELLAQGKNNL--DAWWIALSTFVVLTVTLLLLTNI 334 Query: 307 GDRLRDILNPR 317 G+ LR+ L+ R Sbjct: 335 GNALRNALDVR 345 >gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 104 bits (260), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 85/278 (30%), Positives = 139/278 (50%), Gaps = 14/278 (5%) Query: 35 RRVMRHFVASRSAMLGLVIVLLLIVGAIAAPWITPQNPYDLMQLDVLDARLHPGTPNGAG 94 +RV RH S A +G+ IV I+ AI P I+P + ++ DV H Sbjct: 24 KRVRRH---STMAWIGMAIVGFWILMAILGPSISPYDATAIVDTDVFSGMSHK------- 73 Query: 95 TFTYWLGTDGQGRDLVSAILYGLRISVGIGVGSALIAGVIGTLIGLLAAYAGGKVDTVLM 154 + LG+D GRD++S IL+G R ++G+ + + ++A GT I L AA++GG D V+ Sbjct: 74 ---FLLGSDYLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVIS 130 Query: 155 RFADLVLSFPSILVAMLILAYVGKGIFNVMATLVVLEWAYYARTARGQALVERRKEYVEA 214 R D ++S PS + A++++A G + ++ T + R AR A+ + EYV+A Sbjct: 131 RALDALISIPSKMFALMMVATFGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQA 190 Query: 215 ARGLNLSSWRIMVRHILPNCLPPLIVIGTLQVARAITLEATLSFLGLGVPITEPSLGLLI 274 AR W IM +LPN + P++ L+ + L + LSFL LGV + G L+ Sbjct: 191 ARARGEGVWYIMTVEMLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSLV 250 Query: 275 SNGYQYMLSGEYWISFYPGITLLVVIVAINLVGDRLRD 312 + G + P + + + + +NL+ D LR Sbjct: 251 RENISGLGEGALAV-IMPALAIASLTIGVNLLIDNLRS 287 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 0.325 0.141 0.422 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: 1,006,870 Number of extensions: 43481 Number of successful extensions: 312 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 311 Number of HSP's successfully gapped: 6 Length of query: 320 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 235 Effective length of database: 1,217,395 Effective search space: 286087825 Effective search space used: 286087825 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)