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= 0034.0038.p (523 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter perip... 862 0.0 gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 131 1e-31 gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip... 131 1e-31 gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter perip... 63 7e-11 gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter perip... 61 3e-10 >gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 512 Score = 862 bits (2226), Expect = 0.0, Method: Compositional matrix adjust. Identities = 414/484 (85%), Positives = 449/484 (92%) Query: 40 ANKANDTLVYASDSEVENISQYHNNLREGVILAHLIWDTLVFRDPRTGEYKPQLATAWKW 99 A KANDTLVYASDSEVENISQYHNNLREGVILAHLIWDTL++RDP+T EYKPQLATAWKW Sbjct: 29 AGKANDTLVYASDSEVENISQYHNNLREGVILAHLIWDTLIYRDPKTNEYKPQLATAWKW 88 Query: 100 ESPTALVMDLRQGVQFQNGDKFSADDVVFTFNYAVSNESKAVTRQNTDWIKDVEKLGDYK 159 ESPTALV+DLRQGVQFQNGDKFSADDVVFTFNYAVS ESKAVTRQNTDWIK V+KL DYK Sbjct: 89 ESPTALVLDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNTDWIKSVDKLADYK 148 Query: 160 VRINLKRPFPAALEYLAGPLPIYPGVYFKKLGLEGFSKAPIGTGPYKATSVVPGQGVTLV 219 VRINLK PFPAALEYLAGPLPIYP YFKK+GLEGFSKAPIGTGPYK TSV PGQGVTLV Sbjct: 149 VRINLKGPFPAALEYLAGPLPIYPAAYFKKVGLEGFSKAPIGTGPYKVTSVTPGQGVTLV 208 Query: 220 RNPNYFKESPQGQPKIGNIKFVVIPDPETRSAQLMTGAIDWIWRVPADQAESLKTTPKIT 279 +NP YFK+SPQGQP IGNIKFVVIPDPETR+AQLMTGAIDWIWRVP DQA+SLKT PK+ Sbjct: 209 KNPGYFKDSPQGQPTIGNIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQADSLKTNPKLA 268 Query: 280 VQSGETMRVGFLTIDATGTSGPNSPFKDLRVRQAVNYAINRKGIADNLVRGGSQPVYTAC 339 VQSGETMR+GF+T+D TGTS PNSPFKD+RVRQAVN+AINRKG ADNL+RGGSQPVYTAC Sbjct: 269 VQSGETMRIGFITLDTTGTSAPNSPFKDVRVRQAVNHAINRKGYADNLMRGGSQPVYTAC 328 Query: 340 FRTQFGCDAKAVINYEYNPAKAKELLAAAGYPNGFDTEIYAYREREFAEAIIGDLHKVGI 399 FRTQFGCD+ A I Y+YNPAKAKELLAAAGYPNGFDT+IYAYRERE AEAIIGDL KVGI Sbjct: 329 FRTQFGCDSNAAIKYDYNPAKAKELLAAAGYPNGFDTDIYAYREREIAEAIIGDLRKVGI 388 Query: 400 RARLRYMKFAALLTEYRSGKTPLTFQTWASFSINDASAFTGVYFKGNADDITKDPQLRQW 459 RARL YMKFAAL TEYRSGKTP++F +W SFS+ND SAF GVYFKG ADDITKDPQL+Q+ Sbjct: 389 RARLHYMKFAALQTEYRSGKTPMSFYSWGSFSMNDTSAFAGVYFKGGADDITKDPQLQQY 448 Query: 460 LETADNSVDPAVRKTNYTKSLESISRQAFMAPMFSYSTFYAYNSQLKFQGYPDELPRFYE 519 L+TAD S+DPAVRK NY+K+ E IS+QA++APMFSYST+YAYN+QL FQGYPDELPRFYE Sbjct: 449 LQTADTSIDPAVRKANYSKAQELISKQAYVAPMFSYSTYYAYNAQLNFQGYPDELPRFYE 508 Query: 520 ASWK 523 ASWK Sbjct: 509 ASWK 512 >gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 528 Score = 131 bits (330), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 120/481 (24%), Positives = 213/481 (44%), Gaps = 50/481 (10%) Query: 60 QYHNNLREGVILAHLIWDTLVFRDPRTGEYKPQLATAWKWESPTALVMDLRQGVQFQNGD 119 Q +N+ + + H WD LV D + P LA +WK P LR V++Q+G Sbjct: 45 QLNNHAGDRSVDLHF-WDLLVQND--YNKLVPGLAVSWKNIDPKTWEFKLRPNVKWQDGK 101 Query: 120 KFSADDVVFTFNYAVSNESKAVTRQNTDWIKDVEKLG-----DYKVRINLKRP-FPAALE 173 F+ADDV+F++ A + T +++ VE + ++ N+ P P L Sbjct: 102 PFTADDVIFSYQRARAVPGSVATFAG--YLRTVESVTAKDPLTLVIKTNIPNPDLPLNL- 158 Query: 174 YLAGPLPIYPGVYFKKLGLEGFSK--APIGTGPYKATSVVPGQGVTLVRNPNYFKESPQG 231 + I +K E ++ A IGTGPYK S PG V + RN +Y+ G Sbjct: 159 ---ASVHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRVVMQRNDDYW----NG 211 Query: 232 QPKIGNIKFVVIPDPETRSAQLMTGAIDWIWRVPADQAESLKTTPKITVQSGETMRVGFL 291 +P + + I + R+A L++G +D I +V LK +P + V +RV + Sbjct: 212 KPLWEKVNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGLRVLLI 271 Query: 292 -----------TIDATGTSGPNSPFKDLRVRQAVNYAINRKGIADNLVRGGSQPVYTACF 340 D G +P D+RVR+A++ AINRK + D +++G + Sbjct: 272 QPSFHQGPSPFITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDRILQGAATEANQWMP 331 Query: 341 RTQFGCDAKAVINYEYNPAKAKELLAAAGYPNGFDTEIYAYRER-----EFAEAIIGDLH 395 FG + + + N ++ A+AK+LLA AG+P+GF I+ +R E +A+ Sbjct: 332 ADTFGYNPE-IKNIPFDAAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQAVAQFWT 390 Query: 396 KVGIRARLRYMKFAALLTEYRSGKTPLTFQTWASFSINDASAFTGVYFKGNAD------- 448 ++GI+ ++ + +AA + + ++ W + + + A V G+ D Sbjct: 391 RIGIKTQVEVLPWAAYSSRANKNEFAVSVLAWGNGTGEASYALVNVL--GSVDPKKGIGA 448 Query: 449 ---DITKDPQLRQWLETADNSVDPAVRKTNYTKSLESISRQAFMAPMFSYSTFYAYNSQL 505 + P + + L + D A R+ + +++S + + P++ Y +A L Sbjct: 449 SNWNHYSSPAVDKALADSTAEFDAAKREAILRGAAKTVSEEVGVIPLYHYQNIWAAKKGL 508 Query: 506 K 506 K Sbjct: 509 K 509 >gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 523 Score = 131 bits (330), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 100/323 (30%), Positives = 164/323 (50%), Gaps = 21/323 (6%) Query: 109 LRQGVQFQNGDKFSADDVVFTFNYAVSNESKAVTRQNT-DWIKDVEKLGDYKVRINLKRP 167 L+QGV+FQ+G F AD V F+ V+N + R N + I E L DY V++ LK P Sbjct: 100 LKQGVKFQDGTVFKADAVKAVFD-RVTNPDNKLKRYNLFNRIAKTEILNDYTVKVVLKEP 158 Query: 168 FPAALEYLAGP--LPIYPGVYFKKLGLEGFSKAPIGTGPYKATSVVPGQGVTLVRNPNYF 225 F A + LA P + I P K+ G + + P+GTGP+K V + + Y+ Sbjct: 159 FSAFINVLAHPSAVMISPTA-LKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGYW 217 Query: 226 KESPQGQPKIGNIKFVVIPDPETRSAQLMTGAIDWIWRVPADQAESLKTTPKITVQSGET 285 K G PK+ I + + D RSA + TG + + +P +QA+ LK+ + V + + Sbjct: 218 KP---GYPKVDEIIWKPVVDNNARSAMMQTGEAQFTYPLPYEQADLLKSKSNLDVVAAPS 274 Query: 286 MRVGFLTIDATGTSGPNSPFKDLRVRQAVNYAINRKGIADNLVRGGSQPVYTACFRTQFG 345 + +++++ PF + +VR+A+NYAIN++ + G + P+ + G Sbjct: 275 IIQRYMSMNTK-----QKPFDNPKVREAINYAINKQALVKVAFNGYAVPMDGVVPQ---G 326 Query: 346 CD-AKAVINYEYNPAKAKELLAAAGYPNGFDTEIYAYREREFAEAII----GDLHKVGIR 400 D A + Y+ KAK LLA AGYPNGF+TE+++ A I+ L +VGI+ Sbjct: 327 VDYAYKTGPWPYDVKKAKALLAEAGYPNGFETELWSAYTHSTAVKIVQFLQQQLAQVGIK 386 Query: 401 ARLRYMKFAALLTEYRSGKTPLT 423 A+++ ++ + S + P T Sbjct: 387 AKIQALEAGQRVERVESWQDPAT 409 >gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter periplasmic peptide-binding protein [Herbaspirillum seropedicae SmR1] Length = 540 Score = 62.8 bits (151), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 57/213 (26%), Positives = 90/213 (42%), Gaps = 20/213 (9%) Query: 73 HLIWDTLVFRDPRTGEYKPQLATAWKWESPTALV--MDLRQGVQFQNGDKFSADDVVFTF 130 H+ ++ L D G+ PQ+ A + + A+ + LR+GV F +G + DVV++ Sbjct: 96 HMFYNGLTKLD---GKLGPQMVLAEEMLTNDAVTWTVKLRKGVNFHDGKPLTPADVVYSI 152 Query: 131 NYAVSNESKAVTRQNTDWIKDVEKLGDYKVRINLKRPFPAALEYLAGPLPIYPGV---YF 187 + + + D + V+ G +V+I L LP+ Sbjct: 153 MRHKDPATASKVKVVADQFESVKATGPNEVQIKLTSA--------NADLPVILATAQFLI 204 Query: 188 KKLGLEGFSKAPIGTGPYKATSVVPGQGVTLVRNPNYFKESPQGQPKIGNIKFVVIPDPE 247 + G FS P GTG +K PG VRN NY+K G P + ++ IPD Sbjct: 205 IRDGTTNFS-TPNGTGAFKLKEFTPGVRTIGVRNENYWKP---GLPYLDEVELFGIPDEA 260 Query: 248 TRSAQLMTGAIDWIWRVPADQAESLKTTPKITV 280 R L++G + WI V + +K TP TV Sbjct: 261 ARVNALLSGDVHWINDVNSRSTGRVKNTPGYTV 293 >gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 542 Score = 60.8 bits (146), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 94/392 (23%), Positives = 164/392 (41%), Gaps = 69/392 (17%) Query: 20 RHALLLAGAAATLSIST--PALAN-----KANDTLVYASDSEVENISQYH----NNLREG 68 R LL AATLS S ALA+ A+ + +A + + + + R G Sbjct: 13 RDLLLFTPLAATLSASPWHAALAHGDEAGHAHGDIAHAGKDMLTVVGPWELTGLDPTRSG 72 Query: 69 VILAHL-IWDTLVFRDPRTGEYKPQLATAW-------KWESPTALVMDLRQGVQFQNGDK 120 + A + + +TL+ D G+ +P +A+AW +W LR G+++ +G Sbjct: 73 YMFARMEVLETLLEVDD-AGQLQPSVASAWSVSADGLQWR------FVLRSGLRYHDGSA 125 Query: 121 FSADDVVFTFNYAVSNESKAVTRQNTDWIKDVEKL---GDYKVRINLKRPFPAALEYLAG 177 + ++ +A R + D+ L G V + L+RPF G Sbjct: 126 LTPASILACLQ-------RAQARPGVLRLADIAALRVEGQTLV-VVLRRPF--------G 169 Query: 178 PLPIYPGVYFKKL------GLEGFSKAPIGTGPYKATSVVPGQGVTLVRNPNYFKESPQG 231 PLP Y ++ +G A IG+GP++ S+ Q + R S G Sbjct: 170 PLPYLLTHYTTQILAPASFDAQGNVVAIIGSGPFRIRSIALPQQFEVERVAGSVSGSGAG 229 Query: 232 QPKIGNI----KFVVIPDPETRSAQLMTGAIDWIWRVPADQAESLKTTPKITVQSGETMR 287 +G + +++ + ETR+ + +G D + + +L+ +P+ ++ S R Sbjct: 230 S-DVGKVVQRARYISVSRAETRTLLVQSGQADLAFSLDPPSIRALQDSPRASLLSAMLPR 288 Query: 288 VGFLTIDATGTSGPNSPFKDLRVRQAVNYAINRKGIADNLVR----GGSQPVYTACFRTQ 343 L ++A + D+RVR+A++ I R+GIA L+R G +Q + R Sbjct: 289 TTLLKLNAG-----HPLLADVRVRRAISLCIEREGIARALLRDPDLGATQLFPPSLARWH 343 Query: 344 FGCDAKAVINYEYNPAKAKELLAAAGYPNGFD 375 DA A+ N +A+ LL AG+ G D Sbjct: 344 ---DA-ALAPLRTNLQQARSLLDQAGWRPGSD 371 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 0.317 0.133 0.399 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: 1,668,183 Number of extensions: 70015 Number of successful extensions: 180 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 173 Number of HSP's successfully gapped: 5 Length of query: 523 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 433 Effective length of database: 1,193,720 Effective search space: 516880760 Effective search space used: 516880760 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 133 (55.8 bits)