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= 0029.0110.p (528 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 1076 0.0 gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter perip... 129 4e-31 gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter perip... 115 8e-27 gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip... 103 4e-23 gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter perip... 84 2e-17 >gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 528 Score = 1076 bits (2782), Expect = 0.0, Method: Compositional matrix adjust. Identities = 528/528 (100%), Positives = 528/528 (100%) Query: 1 MKKTLLTRLLAIALTGAALAAAADAAHAQNLNIAFADPLSSLDPQLNNHAGDRSVDLHFW 60 MKKTLLTRLLAIALTGAALAAAADAAHAQNLNIAFADPLSSLDPQLNNHAGDRSVDLHFW Sbjct: 1 MKKTLLTRLLAIALTGAALAAAADAAHAQNLNIAFADPLSSLDPQLNNHAGDRSVDLHFW 60 Query: 61 DLLVQNDYNKLVPGLAVSWKNIDPKTWEFKLRPNVKWQDGKPFTADDVIFSYQRARAVPG 120 DLLVQNDYNKLVPGLAVSWKNIDPKTWEFKLRPNVKWQDGKPFTADDVIFSYQRARAVPG Sbjct: 61 DLLVQNDYNKLVPGLAVSWKNIDPKTWEFKLRPNVKWQDGKPFTADDVIFSYQRARAVPG 120 Query: 121 SVATFAGYLRTVESVTAKDPLTLVIKTNIPNPDLPLNLASVHIVSKHIGEKSTTENYNSG 180 SVATFAGYLRTVESVTAKDPLTLVIKTNIPNPDLPLNLASVHIVSKHIGEKSTTENYNSG Sbjct: 121 SVATFAGYLRTVESVTAKDPLTLVIKTNIPNPDLPLNLASVHIVSKHIGEKSTTENYNSG 180 Query: 181 AAVIGTGPYKFVSYTPGDRVVMQRNDDYWNGKPLWEKVNYRYINNGAARTAALLSGDVDV 240 AAVIGTGPYKFVSYTPGDRVVMQRNDDYWNGKPLWEKVNYRYINNGAARTAALLSGDVDV Sbjct: 181 AAVIGTGPYKFVSYTPGDRVVMQRNDDYWNGKPLWEKVNYRYINNGAARTAALLSGDVDV 240 Query: 241 IDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFHQGPSPFITDNNGKQLDKNPLLDVR 300 IDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFHQGPSPFITDNNGKQLDKNPLLDVR Sbjct: 241 IDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFHQGPSPFITDNNGKQLDKNPLLDVR 300 Query: 301 VRRAMSLAINRKALIDRILQGAATEANQWMPADTFGYNPEIKNIPFDAAQAKKLLADAGF 360 VRRAMSLAINRKALIDRILQGAATEANQWMPADTFGYNPEIKNIPFDAAQAKKLLADAGF Sbjct: 301 VRRAMSLAINRKALIDRILQGAATEANQWMPADTFGYNPEIKNIPFDAAQAKKLLADAGF 360 Query: 361 PDGFKLTIHVPNDRYPQAPETMQAVAQFWTRIGIKTQVEVLPWAAYSSRANKNEFAVSVL 420 PDGFKLTIHVPNDRYPQAPETMQAVAQFWTRIGIKTQVEVLPWAAYSSRANKNEFAVSVL Sbjct: 361 PDGFKLTIHVPNDRYPQAPETMQAVAQFWTRIGIKTQVEVLPWAAYSSRANKNEFAVSVL 420 Query: 421 AWGNGTGEASYALVNVLGSVDPKKGIGASNWNHYSSPAVDKALADSTAEFDAAKREAILR 480 AWGNGTGEASYALVNVLGSVDPKKGIGASNWNHYSSPAVDKALADSTAEFDAAKREAILR Sbjct: 421 AWGNGTGEASYALVNVLGSVDPKKGIGASNWNHYSSPAVDKALADSTAEFDAAKREAILR 480 Query: 481 GAAKTVSEEVGVIPLYHYQNIWAAKKGLKVTPISSDRTTAMMVTEDKK 528 GAAKTVSEEVGVIPLYHYQNIWAAKKGLKVTPISSDRTTAMMVTEDKK Sbjct: 481 GAAKTVSEEVGVIPLYHYQNIWAAKKGLKVTPISSDRTTAMMVTEDKK 528 >gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 512 Score = 129 bits (325), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 130/472 (27%), Positives = 211/472 (44%), Gaps = 44/472 (9%) Query: 45 QLNNHAGDRSVDLHF-WDLLVQND--YNKLVPGLAVSWKNIDPKTWEFKLRPNVKWQDGK 101 Q +N+ + + H WD L+ D N+ P LA +WK P LR V++Q+G Sbjct: 49 QYHNNLREGVILAHLIWDTLIYRDPKTNEYKPQLATAWKWESPTALVLDLRQGVQFQNGD 108 Query: 102 PFTADDVIFSYQRARAVPGSVATFAGYLRTVESVTAKDPLTLVIKTNIPNPDLPLNLAS- 160 F+ADDV+F++ A + P S A ++SV + I P P LA Sbjct: 109 KFSADDVVFTFNYAVS-PESKAVTRQNTDWIKSVDKLADYKVRINLKGPFPAALEYLAGP 167 Query: 161 VHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRVVMQRNDDYW----NGKPLWE 216 + I +K E ++ A IGTGPYK S TPG V + +N Y+ G+P Sbjct: 168 LPIYPAAYFKKVGLEGFSK--APIGTGPYKVTSVTPGQGVTLVKNPGYFKDSPQGQPTIG 225 Query: 217 KVNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFH 276 + + I + R A L++G +D I +V LK +P + V +R+ I Sbjct: 226 NIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQADSLKTNPKLAVQSGETMRIGFI----- 280 Query: 277 QGPSPFITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDRILQGAATEANQWMPADTFG 336 D G +P DVRVR+A++ AINRK D +++G + FG Sbjct: 281 ------TLDTTGTSAPNSPFKDVRVRQAVNHAINRKGYADNLMRGGSQPVYTACFRTQFG 334 Query: 337 Y--NPEIKNIPFDAAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQAVAQFWTRIGI 394 N IK ++ A+AK+LLA AG+P+GF I+ +R E +A+ ++GI Sbjct: 335 CDSNAAIK-YDYNPAKAKELLAAAGYPNGFDTDIYAYRER-----EIAEAIIGDLRKVGI 388 Query: 395 KTQVEVLPWAAYSSRANKNEFAVSVLAWGNGTGEASYALVNVL---GSVDPKKGIGASNW 451 + ++ + +AA + + +S +WG+ + + A V G+ D K Sbjct: 389 RARLHYMKFAALQTEYRSGKTPMSFYSWGSFSMNDTSAFAGVYFKGGADDITK------- 441 Query: 452 NHYSSPAVDKALADSTAEFDAAKREAILRGAAKTVSEEVGVIPLYHYQNIWA 503 P + + L + D A R+A A + +S++ V P++ Y +A Sbjct: 442 ----DPQLQQYLQTADTSIDPAVRKANYSKAQELISKQAYVAPMFSYSTYYA 489 >gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter periplasmic peptide-binding protein [Herbaspirillum seropedicae SmR1] Length = 540 Score = 115 bits (288), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 144/541 (26%), Positives = 228/541 (42%), Gaps = 73/541 (13%) Query: 1 MKKTLLTRLLAIALTGAALAAAADAAHAQN------LNIAF--ADPLSSLDPQLNNHAGD 52 M +TLL L + + G L A+ + AQ + IA + +LDP H+ D Sbjct: 33 MMRTLLAGSL-MTVGGTGLLTASGSVMAQTGKRGGKMRIATQTSSTADTLDPAKTAHSTD 91 Query: 53 RSVDLHFWDLLVQNDYNKLVPGLAVSWKNI--DPKTWEFKLRPNVKWQDGKPFTADDVIF 110 + F++ L + D KL P + ++ + + D TW KLR V + DGKP T DV++ Sbjct: 92 YTRVHMFYNGLTKLD-GKLGPQMVLAEEMLTNDAVTWTVKLRKGVNFHDGKPLTPADVVY 150 Query: 111 SYQRARAVPGSVATFAGYLRTVESVTAKDPLTLVIKTNIPNPDLPLNLASVHIVSKHIGE 170 S R + P + + ESV A P + IK N DLP+ LA+ + G Sbjct: 151 SIMRHKD-PATASKVKVVADQFESVKATGPNEVQIKLTSANADLPVILATAQFLIIRDG- 208 Query: 171 KSTTENYNSGAAVIGTGPYKFVSYTPGDRVVMQRNDDYWN-GKPLWEKVNYRYINNGAAR 229 T N+++ GTG +K +TPG R + RN++YW G P ++V I + AAR Sbjct: 209 ---TTNFSTPN---GTGAFKLKEFTPGVRTIGVRNENYWKPGLPYLDEVELFGIPDEAAR 262 Query: 230 TAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFHQGPSPFITDNNGK 289 ALLSGDV I+ V+ ++K +P V + +G+ Sbjct: 263 VNALLSGDVHWINDVNSRSTGRVKNTPGYTV----------------------METKSGQ 300 Query: 290 QLDKNPLLDVRVRRAMSLAINRKALIDR------ILQGAATEANQWM--PADTFGYNPEI 341 D DV +M + K L+DR +G A AN P + F Y + Sbjct: 301 YTDLVMRQDVAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVIANDQPIDPTNRF-YFAGL 359 Query: 342 KNIPFDAAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQAVA-QFWTRIGIKTQVEV 400 P+D +AK L AG TI + M + Q +IG+K V+ Sbjct: 360 PQRPYDPDKAKFHLGKAGV---LGSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKR 416 Query: 401 LPWAAYSSRANKNEFAVSVLAWGNGTGEASY-ALVNVLGSVDPKKGIGASNWNH--YSSP 457 +P Y S N++ + +GN S L+ D + WN + +P Sbjct: 417 VPADGYWS----NQWMKVPVGFGNINPRPSADILLTQFFKSD-------AQWNESGWKNP 465 Query: 458 AVDKALADSTAEFDAAKREAILRGAAKTVSEEVGV-IPLY--HYQNIWAAKKGLKVTPIS 514 D+ + + E D KR+A+ + E+ G+ IP++ + + I KG+ P+ Sbjct: 466 QFDQLVVAARGETDFTKRKAMYADLQTMIHEKCGLGIPVFIINLEGISTKVKGIDPVPLG 525 Query: 515 S 515 + Sbjct: 526 A 526 >gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 523 Score = 103 bits (256), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 128/524 (24%), Positives = 229/524 (43%), Gaps = 39/524 (7%) Query: 8 RLLAIALTGAAL-AAAADAAHAQNLNIAFADPLSSLDPQLNNHAGDRSVDLHFWDLLVQN 66 + LA+A G L AAA A A+ + +A ++LDP N S+ F+ L Sbjct: 14 KWLAVAALGTTLQFAAAHAFAAKTVTLAVYSTFTTLDPYDANDTLSLSMAKSFYQGLFGF 73 Query: 67 DYN-KLVPGLAVSW-KNIDPKTWEFKLRPNVKWQDGKPFTADDVIFSYQRARAVPGSVAT 124 D + KL+P LA + + D + +L+ VK+QDG F AD V + R + Sbjct: 74 DKDMKLIPVLAEGYLVSKDGLEYTIRLKQGVKFQDGTVFKADAVKAVFDRVTNPDNKLKR 133 Query: 125 FAGYLRTVESVTAKDPLTLVIKTNIPNPDLPLNLASVHIVSKHIGEKSTTENYNSGAAV- 183 + + R ++ D +K + P H + I + + N A Sbjct: 134 YNLFNRIAKTEILND---YTVKVVLKEPFSAFINVLAHPSAVMISPTALKQYGNKDIAFH 190 Query: 184 -IGTGPYKFVSYTPGDRVVMQRNDDYWN-GKPLWEKVNYRYINNGAARTAALLSGDVDVI 241 +GTGP+KFV + D V + + D YW G P +++ ++ + + AR+A + +G+ Sbjct: 191 PVGTGPFKFVEWKQTDYVKVAKFDGYWKPGYPKVDEIIWKPVVDNNARSAMMQTGEAQFT 250 Query: 242 DKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFHQGPSPFITDNNGKQLDKNPLLDVRV 301 + LK N+ V + PS Q +++ N ++ NP +V Sbjct: 251 YPLPYEQADLLKSKSNLDV---------VAAPSIIQR---YMSMNTKQKPFDNP----KV 294 Query: 302 RRAMSLAINRKALIDRILQGAATEANQWMPADTFGYNPEIKNIPFDAAQAKKLLADAGFP 361 R A++ AIN++AL+ G A + +P Y + P+D +AK LLA+AG+P Sbjct: 295 REAINYAINKQALVKVAFNGYAVPMDGVVPQGV-DYAYKTGPWPYDVKKAKALLAEAGYP 353 Query: 362 DGFKLTIHVPNDRYPQAPETMQAVAQFWTRIGIKTQVEVLPWAAYSSRANKNE------F 415 +GF+ + + A + +Q + Q ++GIK +++ L R + Sbjct: 354 NGFETELWSAY-THSTAVKIVQFLQQQLAQVGIKAKIQALEAGQRVERVESWQDPATAPV 412 Query: 416 AVSVLAWGNGTGEASYALVNVLG--SVDPKKGIGASNWNHYSSPAVDKALADSTAEFDAA 473 + + W + TGEA +AL +L S P+ N +Y + VD +A + + Sbjct: 413 RLLYIGWSSSTGEADWALRPLLASESFPPR----LYNTAYYKNDKVDADIAKALTLTERK 468 Query: 474 KREAILRGAAKTVSEEVGVIPLYHYQNIWAAKKGLKVTPISSDR 517 +EA+ + A + + ++ L + ++A K LK + D+ Sbjct: 469 DKEALYKDAQQEIWKDAPWAFLVTEKLLYARNKNLKGVYVMPDQ 512 >gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 542 Score = 84.3 bits (207), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 126/522 (24%), Positives = 219/522 (41%), Gaps = 74/522 (14%) Query: 21 AAADAAHAQNLNIAFADP--LSSLDPQLNNHAGDRSVDLHFWDLLVQNDYNKLVPGLAVS 78 A D AHA + P L+ LDP + + R L LL +D +L P +A + Sbjct: 43 AHGDIAHAGKDMLTVVGPWELTGLDPTRSGYMFARMEVLE--TLLEVDDAGQLQPSVASA 100 Query: 79 WK-NIDPKTWEFKLRPNVKWQDGKPFTADDVIFSYQRARAVPGSVATFAGYLRTVESVTA 137 W + D W F LR +++ DG T ++ QRA+A P G LR + Sbjct: 101 WSVSADGLQWRFVLRSGLRYHDGSALTPASILACLQRAQARP-------GVLRLADIAAL 153 Query: 138 K-DPLTLVIKTNIPNPDLPLNLASVHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTP 196 + + TLV+ P LP L H ++ + S N A+IG+GP++ S Sbjct: 154 RVEGQTLVVVLRRPFGPLPYLL--THYTTQILAPASFDAQGNV-VAIIGSGPFRIRSIAL 210 Query: 197 GDRVVMQRNDDYWN--------GKPLWEKVNYRYINNGAARTAALLSGDVDVIDKVSVSD 248 + ++R + GK + ++ Y ++ RT + SG D+ + Sbjct: 211 PQQFEVERVAGSVSGSGAGSDVGK-VVQRARYISVSRAETRTLLVQSGQADLAFSLDPPS 269 Query: 249 LAKLKQSPNVKVYPYNGLRVLLIQPSFHQGPSPFITDNNGKQLDKNPLLDVRVRRAMSLA 308 + L+ SP + R L++ N G L L DVRVRRA+SL Sbjct: 270 IRALQDSPRASLLSAMLPRTTLLK------------LNAGHPL----LADVRVRRAISLC 313 Query: 309 INRKALIDRILQGAATEANQWMPADTFG-YNPEIKNIPFDAAQAKKLLADAGF------- 360 I R+ + +L+ A Q P ++ + + + QA+ LL AG+ Sbjct: 314 IEREGIARALLRDPDLGATQLFPPSLARWHDAALAPLRTNLQQARSLLDQAGWRPGSDGV 373 Query: 361 --PDGFKLTIHVPN--DRYPQAPETMQAVAQFWTRIGIKTQVEV-----LPWAAYSSRAN 411 DG ++ +++ DR P+ P A+ + +IG+ +V + +P R+ Sbjct: 374 RRRDGQRMALNLTTFVDR-PELPLIATALQEEMRQIGMAVRVVIGNSSDIP---AGHRSG 429 Query: 412 KNEFAVSVLAWGNGTGEASYALVNVLGSVDPKKG-IGASNWNHYSSPAVDKALADSTAEF 470 + + A++ +GN + ++L P+ G GA W++ PA+ LA + A+ Sbjct: 430 QLQMALAARNYGN----LPDPVASLLQDFGPQGGDWGAMGWDNQEVPALLARLAATPADA 485 Query: 471 DA---AKREAILRGAAKTVSEEVGVIPLYHYQNIWAAKKGLK 509 A A+R I+ + E++ VIP+ Y+ A + ++ Sbjct: 486 AAKGNAERARIV----ALLQEQLPVIPVVWYRQTCAVSRRVR 523 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 0.316 0.132 0.393 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: 1,534,326 Number of extensions: 62007 Number of successful extensions: 207 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 196 Number of HSP's successfully gapped: 6 Length of query: 528 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 438 Effective length of database: 1,193,720 Effective search space: 522849360 Effective search space used: 522849360 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 (21.6 bits) S2: 133 (55.8 bits)