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= 0001.0888.p (517 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310425|ref|YP_003774517.1| gluconokinase [Herbaspirillum s... 941 0.0 gi|300310306|ref|YP_003774398.1| glycerol kinase [Herbaspirillum... 159 7e-40 gi|300309787|ref|YP_003773879.1| sugar (pentulose and hexulose) ... 127 2e-30 gi|300312696|ref|YP_003776788.1| D-xylulose kinase [Herbaspirill... 120 2e-28 gi|300310399|ref|YP_003774491.1| D-ribulose/ribitol kinase [Herb... 86 7e-18 >gi|300310425|ref|YP_003774517.1| gluconokinase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 941 bits (2433), Expect = 0.0, Method: Compositional matrix adjust. Identities = 484/516 (93%), Positives = 504/516 (97%) Query: 2 SSCARYMLGVDIGTTSTKTVVFTLDGKVVAQYAEEYPVICTEPGMAEQDPDQIVAAALAS 61 S+ ARYMLGVDIGTTSTK+VVFTLDGKVVAQ+AEEYPV+CTEPGMAEQDP+QIVAAALAS Sbjct: 4 SALARYMLGVDIGTTSTKSVVFTLDGKVVAQHAEEYPVLCTEPGMAEQDPEQIVAAALAS 63 Query: 62 IGGAVKAAKALPEDIALLSFSAAMHSVIALDADNRLLCNSITWGDIRASVWAERIKHEHD 121 I GAVKAAKA P++IALLSFSAAMHSVIALDA+NRLL NSITWGDIRASVWAERIKHEHD Sbjct: 64 IAGAVKAAKAAPQEIALLSFSAAMHSVIALDAENRLLSNSITWGDIRASVWAERIKHEHD 123 Query: 122 GNAIYRRTGTPIHPMSPLCKLMWLRHEKPEVFQQAARFVGIKEYLLYQLFGQWVVDHSIA 181 GNAIYRRTGTP+HPMSPLCKLMW+RHEKP+VF +AARFVGIKEYLLYQLFGQWVVDHSIA Sbjct: 124 GNAIYRRTGTPVHPMSPLCKLMWMRHEKPDVFHRAARFVGIKEYLLYQLFGQWVVDHSIA 183 Query: 182 SATGMFNLRELAWDQGALALLGVKPEQLPTPVPTIHRLPALSPEMAQRLRLAVDTPFIIG 241 SATGMFNLRELAWDQGALALLGV+P+QLPTPVPT HRLPALS EMAQRL L+VDTPFIIG Sbjct: 184 SATGMFNLRELAWDQGALALLGVRPDQLPTPVPTTHRLPALSSEMAQRLGLSVDTPFIIG 243 Query: 242 ANDGVLSNLGVNAIEVGHVAVTIGTSGAMRTVIDEPLTDPHGRLFCYALTEKHWVVGGPV 301 ANDGVLSNLGVNAIE+GHVAVTIGTSGAMRTVIDEP TDP GRLFCYALTEKHWVVGGPV Sbjct: 244 ANDGVLSNLGVNAIEIGHVAVTIGTSGAMRTVIDEPRTDPQGRLFCYALTEKHWVVGGPV 303 Query: 302 NNGGNIFRWVRDELATAEAAAAREEGVDPYEALTRIAEQVRPGAEGLLFHPFMAGERAPL 361 NNGGNIFRWVRDELATAEAAAAREEGVDPYEALTRIAE+VRPGAEGLLFHPFMAGERAPL Sbjct: 304 NNGGNIFRWVRDELATAEAAAAREEGVDPYEALTRIAEKVRPGAEGLLFHPFMAGERAPL 363 Query: 362 WNANLRGSFFGLALHHGKHHMIRAALEGVIFNLYSILPALEELVGPTKRMMATGGFARSA 421 WNA+LRGSFFGLALHHGKHHMIRAALEGVIFNLYSILPALEELVGPTKRMMATGGFARSA Sbjct: 364 WNADLRGSFFGLALHHGKHHMIRAALEGVIFNLYSILPALEELVGPTKRMMATGGFARSA 423 Query: 422 LWRQMMADIFNREVVVPESVESSCLGAAVLGAWALGLVPSLSVISGMVGSTNHHAPEADA 481 LWRQMMADIFNREVVVPESVESSCLGAAVLGAWALGLVPSLSVISGMVGSTNHHAPEA+A Sbjct: 424 LWRQMMADIFNREVVVPESVESSCLGAAVLGAWALGLVPSLSVISGMVGSTNHHAPEAEA 483 Query: 482 VAVYGRLQPIFAAIPAKLEAEYHAIAAFQRETGKQH 517 VAVYGRLQPIFAAIPAKLEAEYHAIAAFQRE G+ H Sbjct: 484 VAVYGRLQPIFAAIPAKLEAEYHAIAAFQREAGRPH 519 >gi|300310306|ref|YP_003774398.1| glycerol kinase [Herbaspirillum seropedicae SmR1] Length = 495 Score = 159 bits (401), Expect = 7e-40, Method: Compositional matrix adjust. Identities = 130/472 (27%), Positives = 208/472 (44%), Gaps = 28/472 (5%) Query: 7 YMLGVDIGTTSTKTVVFTLDGKVVAQYAEEYPVICTEPGMAEQDPDQIVAAALASIGGAV 66 Y+L +D GT+S+++++F G +VA +E+P I +PG E DP + + L + + Sbjct: 3 YLLALDQGTSSSRSIIFDQSGAIVATAQQEFPQIFPQPGWVEHDPMDLWHSQLQTAQKVL 62 Query: 67 KAAKALPEDIALLSFSAAMHSVIALD-ADNRLLCNSITWGDIRASVWAERIKHEHDGNAI 125 + ++ L + + + + A + + N++ W D RA V ++ G AI Sbjct: 63 AQSGIKASELTALGITNQRETTVVWERATGKPVYNAVVWQDRRAEVVCAALRERGLGEAI 122 Query: 126 YRRTGTPIHPMSPLCKLMWLRHEKPEVFQQAAR----FVGIKEYLLYQLFGQW--VVDHS 179 ++TG + P KL W+ + +A R F + +L++ L G V D S Sbjct: 123 QKKTGLVLDPYFSGTKLRWILDHVDGLRARAERGELLFGTVDSWLVWNLTGGRLHVSDVS 182 Query: 180 IASATGMFNLRELAWDQGALALLGVKPEQLPTPVPTIHRLPALSPEMAQRLRLAVDTPFI 239 AS T ++N+ AWD+ L LG+ LP P+ H + AQ L AV I Sbjct: 183 NASRTMLWNIHTGAWDEELLQWLGIPAAMLPQVQPSAHLYGEID---AQHLGAAVKIGGI 239 Query: 240 IGANDGVLSNLGVNAIEVGHVAVTIGTSGAMRTVIDEPLTDPHGRLF----CYALTEKHW 295 G L G + G T GT M + H L C +K + Sbjct: 240 AGDQQSAL--FGQACVRPGMAKNTYGTGCFMLLHTGDQCATSHNGLISTAACQVDEQKQY 297 Query: 296 VVGGPVNNGGNIFRWVRDELATAEAAAAREEGVDPYEALTRIAEQVRPGAEGLLFHPFMA 355 + G V GG + +W+RD L + + E L E + G++F P Sbjct: 298 ALEGSVFIGGAVVQWLRDGLKAIKTST-------DVEGLACSVED----SGGVVFVPSFT 346 Query: 356 GERAPLWNANLRGSFFGLALHHGKHHMIRAALEGVIFNLYSILPAL-EELVGPTKRMMAT 414 G AP WN + +G+ GL+ H+ RAALE + F ++L A+ + V P + Sbjct: 347 GLGAPYWNPSAKGAIVGLSRGSTVAHIARAALESIAFQSTALLNAMVRDAVSPITELRVD 406 Query: 415 GGFARSALWRQMMADIFNREVVVPESVESSCLGAAVLGAWALGLVPSLSVIS 466 GG A + L Q AD+ V+ P+ E++ LGAA L A G+ LS +S Sbjct: 407 GGAAANNLLLQFQADLLGIPVIRPQVTETTALGAAYLAGIATGVYRDLSELS 458 >gi|300309787|ref|YP_003773879.1| sugar (pentulose and hexulose) kinase [Herbaspirillum seropedicae SmR1] Length = 490 Score = 127 bits (319), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 131/453 (28%), Positives = 198/453 (43%), Gaps = 24/453 (5%) Query: 9 LGVDIGTTSTKTVVFTLDGKVVAQYAEEYPVICTEPGMAEQDPDQIVAAALASIGG-AVK 67 LG+D+GT+ K VV G +VA V P +EQ P A ++ + Sbjct: 3 LGIDLGTSEVKAVVIDAQGSLVALAGSTLNVARPHPRWSEQAPADWWQATCDTVAKLRTQ 62 Query: 68 AAKALPEDIALLSFSAAMHSVIALDADNRLLCNSITWGDIRASVWAERIKHEHDGNAIYR 127 I + S MH + LD + +L +I W D R++ E + E ++ Sbjct: 63 LGSERFGSIRAIGLSGQMHGAVLLDERDEVLRPAILWSDSRSA--PECAELESRAPRLHG 120 Query: 128 RTGTPIHPMSPLCKLMWLRHEKPEVFQQAARFVGIKEYLLYQLFGQWVVDHSIASATGMF 187 G P KL+W+ +P++F + A + K++L ++ G+ V D S A+ T Sbjct: 121 IAGNLAMPGFTAPKLLWVARHEPQLFARIATVLLPKDWLRLKMTGRKVSDPSDAAGTLWL 180 Query: 188 NLRELAWDQGALALLGVKPEQLPTPVPTIHRLPALSPEMAQRLRLAVDTPFIIGANDGVL 247 ++ W LA G++ +Q+P V +L PE+AQ L D GA DG Sbjct: 181 DVEGRNWSDELLAASGMRRDQMPALVDGSAVSGSLLPEVAQAWGLRSDVIVAGGAGDGAA 240 Query: 248 SNLGVNAIEVGHVAVTIGTSGAMRTVIDEPLTDPHGR---LFCYALTEKHWVVGGPVNNG 304 S +G+ A++ G +++GTSG + V D +P GR FC+ L ++ W + + Sbjct: 241 SAVGIGAVKPGDGFLSLGTSGVLFVVNDRFRPNP-GRAIHAFCHTLPQR-WHQMSVMLSA 298 Query: 305 GNIFRWVRDELATAEAAAAREEGVDPYEALTRIAEQVRPGA--EGLLFHPFMAGERAPLW 362 + RW R VD L I EQ+ A LF P+++GER P Sbjct: 299 ASCLRWF-----------CRLCSVDEKSLLAEI-EQLDEQACNNAPLFLPYLSGERTPHN 346 Query: 363 NANLRGSFFGLALHHGKHHMIRAALEGVIFNLYSILPALEELVGPTKRMMATGGFARSAL 422 + G F GL H + + A LEGV F + L AL + GG ARSA Sbjct: 347 DPYATGVFHGLTPEHQRAALGYAVLEGVAFGMVDGLDALRAAGTDVAELSLVGGGARSAY 406 Query: 423 WRQMMADIFNREVVVPESVES-SCLGAAVLGAW 454 W Q++AD +V E+ LGAA L AW Sbjct: 407 WAQLLADALQVRIVTHVGSEAGGALGAARL-AW 438 >gi|300312696|ref|YP_003776788.1| D-xylulose kinase [Herbaspirillum seropedicae SmR1] Length = 493 Score = 120 bits (302), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 120/454 (26%), Positives = 189/454 (41%), Gaps = 30/454 (6%) Query: 9 LGVDIGTTSTKTVVFTLDGKVVAQYAEEYPVICTEPGMAEQDPDQIVAAALASIGGAVKA 68 LG+D+GT+ K V+ D V+A + V P +EQ P A L +I Sbjct: 4 LGIDLGTSEVKLVLTDEDSNVIASTSARLRVDNPHPLWSEQAPQSWWNATLDAIAALRTQ 63 Query: 69 AKALPEDIALLSFSAAMHSVIALDADNRLLCNSITWGDIRASVWAERIKHEH---DGNAI 125 A + + + S MH LD + +L +I W D+RA AE ++ E D AI Sbjct: 64 APQAFQALRGIGLSGQMHGATLLDRNGNVLRPAILWNDMRAH--AECVELEALVPDAVAI 121 Query: 126 YRRTGTPIHPMSPLCKLMWLRHEKPEVFQQAARFVGIKEYLLYQLFGQWVVDHSIASATG 185 TG P KL+WL +P V++ + + K++L ++L G++V + S A+ T Sbjct: 122 ---TGNRAMPGFTAPKLLWLSKYEPAVYRAIDKVLLPKDFLGWKLTGEFVSEMSDAAGTL 178 Query: 186 MFNLRELAWDQGALALLGVKPEQLPTPVPTIHRLPALSPEMAQRLRLAVDTPFII--GAN 243 ++ W + L G+ +P V L E+ R + P ++ GA Sbjct: 179 WLDVARRDWSERMLGATGLDRSHMPRLVEGSAVAGQLRDEL--RREWGISGPVVVAGGAG 236 Query: 244 DGVLSNLGVNAIEVGHVAVTIGTSGAM--RTVIDEPLTDPHGRLFCYALTEKHWVVGGPV 301 D S +G+ I G +++G+SG + T P FC+ L + W + Sbjct: 237 DNAASAVGIGVIRAGDAFLSLGSSGVLFAATAHHAPNAQQGVHAFCHCLPGQ-WHQMSVI 295 Query: 302 NNGGNIFRWVRDELATAEAAAAREEGVDPYEALTRIAEQVRPG--AEGLLFHPFMAGERA 359 + W+ A P L AE++ G A+ LF P++ GER Sbjct: 296 LSAAASLHWLSGVTAR------------PVAELVSGAERLSAGQQAQAPLFLPYLNGERT 343 Query: 360 PLWNANLRGSFFGLALHHGKHHMIRAALEGVIFNLYSILPALEELVGPTKRMMATGGFAR 419 P +A +G FG+ H H+ A +EGV F + AL+ + GG +R Sbjct: 344 PHNDAAAKGVLFGMTPAHESAHLAYAVMEGVAFAMADGYAALQAAGTTLESAAFVGGGSR 403 Query: 420 SALWRQMMADIFNREVVVPESVE-SSCLGAAVLG 452 SA W + A + E + LGAA LG Sbjct: 404 SAFWGVLCATALGIPLRRHAGAEVGAALGAARLG 437 >gi|300310399|ref|YP_003774491.1| D-ribulose/ribitol kinase [Herbaspirillum seropedicae SmR1] Length = 548 Score = 85.9 bits (211), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 125/505 (24%), Positives = 192/505 (38%), Gaps = 50/505 (9%) Query: 7 YMLGVDIGTTSTKTVVFTLDGKVVAQYAEEYPVICTEP-GMAEQDPDQIVAAALASIGGA 65 Y++G+D+GT S + VF G+++A + + E EQ QI A ++ A Sbjct: 4 YLIGIDVGTGSARAGVFDPQGQLLASARHDIDLFRDERRARVEQSSAQIWEAVCQAVRAA 63 Query: 66 VKAAKALPEDIALLSFSAAMHSVI-----ALDADNRLLCNSITWGDIRASVWAERIKHEH 120 V + P +A + A V+ + + I W D RA A+RI Sbjct: 64 VTKSGIDPAAVAGIGVDATCSLVVQGASAGVGDPGHPERDVIVWMDHRALEQAQRINRM- 122 Query: 121 DGNAIYRRTGTPIHPMSPLCKLMWLRHEKPEVFQQAARFVGIKEYLLYQLFGQWVVDHSI 180 G+A+ G I P KL+WL+ PEV+ AA F + ++L ++ G Sbjct: 123 -GHAVLSYVGGVISPEMETPKLLWLKENLPEVYASAAHFFDLTDFLTWKATGSLQRSSCT 181 Query: 181 ASATGMFNLRELAWDQ--------GALALLGVKPEQLPTPVPTIHRLPALSPEMAQRLRL 232 + + E WD G LA G P L+ AQ + L Sbjct: 182 VTCKWTYLAHEAGWDASYFRQIGLGDLAEAGFARIGAEVVWPGTPLAGGLTQTAAQAMGL 241 Query: 233 AVDTPFIIGANDGVLSNLGVNAIEVGH------VAVTIGTSGAMRTVIDEPLTDPHGRLF 286 G D +G A G +A GTS T +P+ P G Sbjct: 242 RPGIAVAAGLIDAHAGGVGTVAARGGQGDAAACMAYVFGTSSCTMTSHADPVLVP-GVWG 300 Query: 287 CY--ALTEKHWV-VGGPVNNGGNIFRWVRDELATAEAAAAREEGVDPYEALTR-IAEQVR 342 Y A+ W+ GG G I +R AT + AREE L + +A+Q Sbjct: 301 PYYKAMAPGMWLNEGGQSAAGAAIDHLLRLHPATPQ---AREEAARAQMELPQWLAQQAL 357 Query: 343 PG----------AEGLLFHPFMAGERAPLWNANLRGSFFGLALHHGKHHMIRAALEGVI- 391 A L P G R+PL + R + GL + H ++ + G+ Sbjct: 358 AAVDHPSEAVWLAGQLTVVPEFLGNRSPLADPQARAALVGLGMEHDIDSLVALYVAGLCS 417 Query: 392 --FNLYSILPALEELVGPTKRMMATGGFARSALWRQMMADIFNREVVVPESVESSCLGAA 449 + L I+ A + + +GG L RQ++AD V + S E LG+A Sbjct: 418 LGYGLRQIIEAQAACGVRVQSISVSGGAGVHPLTRQLLADATGMPVEITASPEPVLLGSA 477 Query: 450 VLGAWALGL-------VPSLSVISG 467 +L A A GL +P++S ++G Sbjct: 478 MLAAVAAGLHADLQSAMPAMSSVAG 502 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 0.321 0.135 0.413 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: 1,583,617 Number of extensions: 65908 Number of successful extensions: 206 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 193 Number of HSP's successfully gapped: 5 Length of query: 517 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 428 Effective length of database: 1,198,455 Effective search space: 512938740 Effective search space used: 512938740 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 133 (55.8 bits)