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= 0001.0831.p (518 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310371|ref|YP_003774463.1| sugar ABC transporter ATPase [H... 1032 0.0 gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase... 451 e-128 gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [H... 394 e-111 gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [H... 368 e-103 gi|300313728|ref|YP_003777820.1| sugar ABC transporter ATPase [H... 344 1e-95 >gi|300310371|ref|YP_003774463.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 518 Score = 1032 bits (2669), Expect = 0.0, Method: Compositional matrix adjust. Identities = 510/518 (98%), Positives = 514/518 (99%) Query: 1 MSNILEMRGIEKSFPGVKALNNVNLAVREGEIHAIVGENGAGKSTLMKVLSGVYPHGSYS 60 MSNILEMRGIEKSFPGVKALNNVNLAVREGEIHAIVGENGAGKSTLMKVLSGVYPHGSYS Sbjct: 1 MSNILEMRGIEKSFPGVKALNNVNLAVREGEIHAIVGENGAGKSTLMKVLSGVYPHGSYS 60 Query: 61 GDIVYKGEVRAFKDIRDSEHLGIIIIHQELALVPLLSVMENLFLGNEQARGGVIDWEQSY 120 GDIVYKGEVRAFKDIRDSEHLGIIIIHQELALVPLLSVMENLFLGNEQARGGVIDWEQSY Sbjct: 61 GDIVYKGEVRAFKDIRDSEHLGIIIIHQELALVPLLSVMENLFLGNEQARGGVIDWEQSY 120 Query: 121 VRAKELLAKVGLKESPQALVGDLGVGKQQLIEIAKALSKEVKLLILDEPTASLNESDSDA 180 VRAKELLAKVGLKESP VGDLGVGKQQLIEIAKALSKEVKLLILDEPTASLNESDSDA Sbjct: 121 VRAKELLAKVGLKESPLTQVGDLGVGKQQLIEIAKALSKEVKLLILDEPTASLNESDSDA 180 Query: 181 LLELLLELKRQGIASILISHKLNEISKVADSITVLRDGTTVDTFDCRAEPISEDRIIQHM 240 LLELLLELKRQGIASILISHKLNEISKVADSITVLRDGTTVDTFDCRAEPISEDRIIQHM Sbjct: 181 LLELLLELKRQGIASILISHKLNEISKVADSITVLRDGTTVDTFDCRAEPISEDRIIQHM 240 Query: 241 VGREMADRYPQRDPQIGEVIFEVRDWRVHHPLHSDRLAIKDVNMTVRAGEIVGIAGLMGA 300 VGREMADRYPQRDPQIGEVIFEVRDWRVHHPLH+DRLAIKDVNM+VRAGEIVGIAGLMGA Sbjct: 241 VGREMADRYPQRDPQIGEVIFEVRDWRVHHPLHTDRLAIKDVNMSVRAGEIVGIAGLMGA 300 Query: 301 GRTELAKSIFGRAYGKKITGQAFLHGKEVDLSTIEKAIAKGIAYVTEDRKGDGLVLEEDI 360 GRTELAKSIFGRAYGKKITGQAFLHGKEVDLSTIEKAIAKGIAYVTEDRKGDGLVLEEDI Sbjct: 301 GRTELAKSIFGRAYGKKITGQAFLHGKEVDLSTIEKAIAKGIAYVTEDRKGDGLVLEEDI 360 Query: 361 KKNISLANLGGVSERTVIDEAREYKIAADFKQQMRIRCSSVLQKVVNLSGGNQQKVVLSK 420 KKNISLANLGGVSERTVIDEAREYKIAADFKQQMRIRCSSVLQKVVNLSGGNQQKVVLSK Sbjct: 361 KKNISLANLGGVSERTVIDEAREYKIAADFKQQMRIRCSSVLQKVVNLSGGNQQKVVLSK 420 Query: 421 WLFSQPEVLILDEPTRGIDVGAKFEIYNIISKLAAEGKCIIMISSEMPELLGMCDRIYVM 480 WLFSQPEVLILDEPTRGIDVGAKFEIYNIISKLAAEGKCIIMISSEMPELLGMCDRIYVM Sbjct: 421 WLFSQPEVLILDEPTRGIDVGAKFEIYNIISKLAAEGKCIIMISSEMPELLGMCDRIYVM 480 Query: 481 NEGQFVGHLSKAEATQESIMRAIMRNKRIDDPGLSKAA 518 NEGQFVGHL KAEATQE+IMRAIMRNKRID+PGLSKAA Sbjct: 481 NEGQFVGHLPKAEATQENIMRAIMRNKRIDEPGLSKAA 518 >gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 518 Score = 451 bits (1160), Expect = e-128, Method: Compositional matrix adjust. Identities = 242/504 (48%), Positives = 345/504 (68%), Gaps = 11/504 (2%) Query: 4 ILEMRGIEKSFPGVKALNNVNLAVREGEIHAIVGENGAGKSTLMKVLSGVYPHGSYSGDI 63 +LEM+GI KSF GV+ALN +++ +R GE + GENGAGKSTLMK+LSGVYPHG++ G+I Sbjct: 5 LLEMKGIVKSFGGVRALNGIDIKIRPGECVGLCGENGAGKSTLMKILSGVYPHGTWEGEI 64 Query: 64 VYKGEVRAFKDIRDSEHLGIIIIHQELALVPLLSVMENLFLGNE-QARGGVIDWEQSYVR 122 ++ G+ +RD+E GI+IIHQEL LVP LSV EN+F+G+E GG +++ Y R Sbjct: 65 LWDGKPLQAHSVRDTEAAGIVIIHQELMLVPELSVAENIFMGHEITLPGGRMNYPAMYRR 124 Query: 123 AKELLAKVGLKESPQAL-VGDLGVGKQQLIEIAKALSKEVKLLILDEPTASLNESDSDAL 181 A+EL+ ++ + + AL V G G QQL+EIAKAL+K+ +LLILDEP++SL S+ L Sbjct: 125 AEELMRELNMPDINVALPVSQYGGGHQQLVEIAKALNKDARLLILDEPSSSLTASEIGVL 184 Query: 182 LELLLELKRQGIASILISHKLNEISKVADSITVLRDGTTVDTFDCRAEPISE---DRIIQ 238 L+++ +LK +G+A + ISHKL+E+++V D+I+V+RDG + T P+ E D+II Sbjct: 185 LKIIKDLKARGVACVYISHKLDEVAEVCDTISVIRDGKHIAT-----TPMQEMDVDKIIT 239 Query: 239 HMVGREMADRYPQRDPQIGEVIFEVRDWRVHHPLHSDRLAIKDVNMTVRAGEIVGIAGLM 298 MVGRE+ YP+R+ IGEV+ E R+ + + R + DV+ +VR GEI+GIAGL+ Sbjct: 240 QMVGREITAMYPERNHAIGEVVLEARNITCYDIDNPRRKRVDDVSFSVRRGEILGIAGLV 299 Query: 299 GAGRTELAKSIFGRAYGKKITGQAFLHGKEVDLSTIEKAIAKGIAYVTEDRKGDGLVLEE 358 GAGRTEL +IFG AY + GQ L GK D S+ K+I +G+ V EDRK G+V + Sbjct: 300 GAGRTELVSAIFG-AYRGRYEGQVLLEGKPADTSSPLKSIRRGLCMVPEDRKHHGIVPDL 358 Query: 359 DIKKNISLANLGGVSERTVIDEAREYKIAADFKQQMRIRCSSVLQKVVNLSGGNQQKVVL 418 D+ +NI+L L S + ID + E K D +MR++ ++ + +LSGGNQQK VL Sbjct: 359 DVGQNITLTVLNRFSRGSRIDGSAELKTIQDEIGRMRVKTATPFLPITSLSGGNQQKAVL 418 Query: 419 SKWLFSQPEVLILDEPTRGIDVGAKFEIYNIISKLAAEGKCIIMISSEMPELLGMCDRIY 478 +K L +QP+VLILDEPTRG+DVGAK EIY +IS+LA G IIM+SSE+ E+LG+ DR+ Sbjct: 419 AKMLLAQPKVLILDEPTRGVDVGAKAEIYRLISELAKAGLAIIMVSSELAEVLGVSDRVL 478 Query: 479 VMNEGQFVGHLSKAEATQESIMRA 502 V+ EG+ G +QE+++ A Sbjct: 479 VIGEGRLRGDFVNDNLSQETVLAA 502 >gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 394 bits (1012), Expect = e-111, Method: Compositional matrix adjust. Identities = 221/502 (44%), Positives = 327/502 (65%), Gaps = 18/502 (3%) Query: 4 ILEMRGIEKSFPGVKALNNVNLAVREGEIHAIVGENGAGKSTLMKVLSGVYPHGSYSGDI 63 ++ +R + K FPGV AL+N + GE+HA++GENGAGKSTLMK+LSGVY S GDI Sbjct: 22 VIALRNVCKRFPGVLALDNCQFELAAGEVHALMGENGAGKSTLMKILSGVYQRDS--GDI 79 Query: 64 VYKGEVRAFKDIRDSEHLGIIIIHQELALVPLLSVMENLFLGNE--QARGGVIDWEQSYV 121 + G+ + R ++ LGI IIHQEL L+ LS +N+F+G E +A G ID ++ Sbjct: 80 LLDGKPVEITEPRQAQALGIGIIHQELNLMNHLSAAQNIFIGREPRKAMGLFIDEDELNR 139 Query: 122 RAKELLAKVGLKESPQALVGDLGVGKQQLIEIAKALSKEVKLLILDEPTASLNESDSDAL 181 +A + A++ L P VG+L V +QQ++EIAKALS + ++LI+DEPTA+LN ++ L Sbjct: 140 QAAAIFARMRLDMDPSTPVGELTVARQQMVEIAKALSFDSRVLIMDEPTAALNNAEIAEL 199 Query: 182 LELLLELKRQGIASILISHKLNEISKVADSITVLRDGTTVDTFDCRAEPISEDRIIQHMV 241 ++ +L+ QG+ + ISHK++E+ ++AD ++V+RDG + T + S D II MV Sbjct: 200 FRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIATVPM--QETSMDTIISMMV 257 Query: 242 GREM--ADRYPQRDPQIGEVIFEVRDWRVHHPLHSDRLAIKDVNMTVRAGEIVGIAGLMG 299 GR + R P D +V+ EVR L+ R AI+DV+ T+R GEI+G AGLMG Sbjct: 258 GRALDGEQRIPP-DTSRNDVVLEVRG------LNRGR-AIRDVSFTLRKGEILGFAGLMG 309 Query: 300 AGRTELAKSIFGRAYGKKITGQAFLHGKEVDLSTIEKAIAKGIAYVTEDRKGDGLVLEED 359 AGRTE+A++IFG + G+ +HG + + + A+A GI Y++EDRK GL + D Sbjct: 310 AGRTEVARAIFGADPLE--AGEIIIHGGKAVIKSPADAVAHGIGYLSEDRKHFGLAVGMD 367 Query: 360 IKKNISLANLGGVSERTVIDEAREYKIAADFKQQMRIRCSSVLQKVVNLSGGNQQKVVLS 419 ++ NI+L+++G + +D+ + A + +Q+ I+ SV Q+ LSGGNQQK+V++ Sbjct: 368 VQANIALSSMGRFTRVGFMDQRAIREAAQMYVRQLAIKTPSVEQQARLLSGGNQQKIVIA 427 Query: 420 KWLFSQPEVLILDEPTRGIDVGAKFEIYNIISKLAAEGKCIIMISSEMPELLGMCDRIYV 479 KWL ++L DEPTRGIDVGAK EIY ++ LA +GK I+MISSE+PE+L M R+ V Sbjct: 428 KWLLRDCDILFFDEPTRGIDVGAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHRVLV 487 Query: 480 MNEGQFVGHLSKAEATQESIMR 501 M EG+ G L++A+ATQE IM+ Sbjct: 488 MCEGRITGELARADATQEKIMQ 509 >gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 521 Score = 368 bits (944), Expect = e-103, Method: Compositional matrix adjust. Identities = 214/508 (42%), Positives = 317/508 (62%), Gaps = 24/508 (4%) Query: 2 SNILEMRGIEKSFPGVKALNNVNLAVREGEIHAIVGENGAGKSTLMKVLSGVYPHGSYSG 61 + +L+MRGI KSF AL++++L +R GEIHA++GENGAGKSTLMKVLSGV H G Sbjct: 4 TPLLQMRGIRKSFGATLALSDMHLTIRPGEIHALMGENGAGKSTLMKVLSGV--HAPDQG 61 Query: 62 DIVYKGEVRAFKDIRDSEHLGIIIIHQELALVPLLSVMENLFLGNE-QARGGVIDWEQSY 120 +I+ G A +D S GI +I+QELA+ P +SV N+F+G+E + R G+ID Sbjct: 62 EILLDGRPVALRDPGASRAAGINLIYQELAVAPNISVAANVFMGSELRTRLGLIDHAAMR 121 Query: 121 VRAKELLAKVGLKESPQALVGDLGVGKQQLIEIAKALSKEVKLLILDEPTASLNESDSDA 180 R +L ++G L G L + +QQ +EIA+AL +++I+DEPTA+L+E +++ Sbjct: 122 SRTDAVLRQLGAGFGASDLAGRLSIAEQQQVEIARALVHRSRIVIMDEPTAALSERETEQ 181 Query: 181 LLELLLELKRQGIASILISHKLNEISKVADSITVLRDGTTVDTFDCRAEPISEDRIIQHM 240 L ++ L+ +G+A I ISH++ E+ +AD +TVLRDG+ V R E I +RI+Q M Sbjct: 182 LFNVVRRLRDEGLAIIYISHRMAEVYALADRVTVLRDGSFVGEL-VRDE-IDSERIVQMM 239 Query: 241 VGREMADRY------PQRDPQIGEVIFEVRDWRVHHPLHSDRLAIKDVNMTVRAGEIVGI 294 VGR +++ Y P Q+ + +VR L + I+ + VRAGE++G Sbjct: 240 VGRSLSEFYQHQRIAPADAAQL-PTVMQVRA------LAGGK--IRPASFDVRAGEVLGF 290 Query: 295 AGLMGAGRTELAKSIFGRAYGKKITGQAFLHGKEVDLSTIEKAIAKGIAYVTEDRKGDGL 354 AGL+GAGRTELA+ +FG + G L G+ V + A+ GIAYV EDRKG GL Sbjct: 291 AGLVGAGRTELARLLFG--ADPRSGGDILLEGRPVHIDQPRAAMRAGIAYVPEDRKGQGL 348 Query: 355 VLEEDIKKNISLANLGGVSERTVIDEAREYK-IAADFKQQMRIRCSSVLQKVVNLSGGNQ 413 L+ + N ++ N+ R + +R +A Q++ ++ + V LSGGNQ Sbjct: 349 FLQMAVAANATM-NVASRHTRLGLVRSRSLGGVARAAIQRLNVKVAHPETPVGKLSGGNQ 407 Query: 414 QKVVLSKWLFSQPEVLILDEPTRGIDVGAKFEIYNIISKLAAEGKCIIMISSEMPELLGM 473 QKV+L++WL P+VLILDEPTRG+D+ AK EIY ++ +LA++G +++ISSE+PE++G+ Sbjct: 408 QKVLLARWLEIAPKVLILDEPTRGVDIYAKSEIYQLVHRLASQGVAVVVISSELPEVIGI 467 Query: 474 CDRIYVMNEGQFVGHLSKAEATQESIMR 501 CDR+ VM EG G L+ A TQE+IMR Sbjct: 468 CDRVLVMREGMITGELAGAAITQENIMR 495 >gi|300313728|ref|YP_003777820.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 546 Score = 344 bits (882), Expect = 1e-95, Method: Compositional matrix adjust. Identities = 200/489 (40%), Positives = 298/489 (60%), Gaps = 20/489 (4%) Query: 2 SNILEMRGIEKSFPGVKALNNVNLAVREGEIHAIVGENGAGKSTLMKVLSGVYPHGSYSG 61 + +L + GI K F GV AL +V VR GE+ A++GENGAGKSTL+K+L+G+ H G Sbjct: 33 APVLSLSGIGKRFQGVVALQDVGFTVRPGEVMALLGENGAGKSTLVKILTGI--HQPDEG 90 Query: 62 DIVYKGEVRAFKDIRDSEHLGIIIIHQELALVPLLSVMENLFLGNEQARGGV--IDWEQS 119 I G F +D+ GI +HQE + LSV EN+++G + G IDW + Sbjct: 91 SIHLGGREVRFASAQDAMRGGITAVHQETVMFEELSVAENIWIGRQPLCGTPRRIDWRRM 150 Query: 120 YVRAKELLAKVGLKESPQALVGDLGVGKQQLIEIAKALSKEVKLLILDEPTASLNESDSD 179 A+ L A++ + +A V DL V ++ +EIA+ALS++ +++I+DEPTA+L+ + Sbjct: 151 EDEARALFARLEVDLPVRARVKDLSVAQRHFVEIARALSQQAQVVIMDEPTAALSHHEIG 210 Query: 180 ALLELLLELKRQGIASILISHKLNEISKVADSITVLRDGTTVDTFDCRAEPISEDRIIQH 239 L ++ +L+R G A I ISHK +EI VAD TVLRDG + + + I+E +++ Sbjct: 211 ELYRIIGQLRRAGTAVIFISHKFDEIYAVADRYTVLRDGRFIASGEL--ADITEQQLVAL 268 Query: 240 MVGREMADRYPQ----RDPQIGEVIFEVRDWRVHHPLHSDRLAIKDVNMTVRAGEIVGIA 295 MVGRE+ + + + Q V+ EV+ + HP D DV+ VR GEI+G Sbjct: 269 MVGREVGQVFSRAASNTEDQTAPVL-EVK--HLSHPSEFD-----DVSFAVRPGEILGFY 320 Query: 296 GLMGAGRTELAKSIFGRAYGKKITGQAFLHGKEVDLSTIEKAIAKGIAYVTEDRKGDGLV 355 GL+GAGR+E+ ++FG + G ++ G+EV L + +AIA G+AYV EDR+ G + Sbjct: 321 GLVGAGRSEVMHALFG--LSPEAQGAVWIDGREVKLCSPAQAIAHGLAYVPEDRQRQGAL 378 Query: 356 LEEDIKKNISLANLGGVSERTVIDEAREYKIAADFKQQMRIRCSSVLQKVVNLSGGNQQK 415 L I +NI+L L G+ RE IA +Q+ ++ S Q V LSGGNQQK Sbjct: 379 LSLPIFQNITLPVLPGIGFFLRRHRRREIDIARRLCEQLELKASHFHQHVAQLSGGNQQK 438 Query: 416 VVLSKWLFSQPEVLILDEPTRGIDVGAKFEIYNIISKLAAEGKCIIMISSEMPELLGMCD 475 VVL+KWL +QP VLILDEPT+GID+G+K ++ I +L A+G +I++SSE+PE++GM D Sbjct: 439 VVLAKWLATQPRVLILDEPTKGIDIGSKAAVHRFIGELVAQGLAVILVSSELPEVMGMSD 498 Query: 476 RIYVMNEGQ 484 RI VM++G+ Sbjct: 499 RIVVMHQGR 507 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 0.318 0.136 0.377 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: 1,483,376 Number of extensions: 61407 Number of successful extensions: 864 Number of sequences better than 1.0e-08: 128 Number of HSP's gapped: 593 Number of HSP's successfully gapped: 203 Length of query: 518 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 429 Effective length of database: 1,198,455 Effective search space: 514137195 Effective search space used: 514137195 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)