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= 0003.0039.p (514 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... 778 0.0 gi|300310306|ref|YP_003774398.1| glycerol kinase [Herbaspirillum... 156 4e-39 gi|300309787|ref|YP_003773879.1| sugar (pentulose and hexulose) ... 138 1e-33 gi|300312696|ref|YP_003776788.1| D-xylulose kinase [Herbaspirill... 130 2e-31 gi|300310399|ref|YP_003774491.1| D-ribulose/ribitol kinase [Herb... 83 4e-17 >gi|300310425|ref|YP_003774517.1| gluconokinase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 778 bits (2010), Expect = 0.0, Method: Compositional matrix adjust. Identities = 393/510 (77%), Positives = 444/510 (87%), Gaps = 2/510 (0%) Query: 1 MSHFMLGVDIGTTSTKTVVFTLDGQVVAQHAVEYPVLCTEPGMSEQDPLQMFDAVLGSIA 60 ++ +MLGVDIGTTSTK+VVFTLDG+VVAQHA EYPVLCTEPGM+EQDP Q+ A + Sbjct: 6 LARYMLGVDIGTTSTKSVVFTLDGKVVAQHAEEYPVLCTEPGMAEQDPEQIVAAA--LAS 63 Query: 61 GAVAAXAAKAAPGDIELVSFSAAMHSLIALDGDNCLLSNSITWGDIRASVWAERIKNEFD 120 A A AAKAAP +I L+SFSAAMHS+IALD +N LLSNSITWGDIRASVWAERIK+E D Sbjct: 64 IAGAVKAAKAAPQEIALLSFSAAMHSVIALDAENRLLSNSITWGDIRASVWAERIKHEHD 123 Query: 121 GQAIYRRTGTPIHPMSPLCKLMWMRHEKADIFKQAARFVGIKEYVLFRLFGEWLVDYSIA 180 G AIYRRTGTP+HPMSPLCKLMWMRHEK D+F +AARFVGIKEY+L++LFG+W+VD+SIA Sbjct: 124 GNAIYRRTGTPVHPMSPLCKLMWMRHEKPDVFHRAARFVGIKEYLLYQLFGQWVVDHSIA 183 Query: 181 SATGMFNLEQLDWDEGALALLQVDARQLPKPVPTTHQLQGLDAAVAEQLGLRTDTPFVIG 240 SATGMFNL +L WD+GALALL V QLP PVPTTH+L L + +A++LGL DTPF+IG Sbjct: 184 SATGMFNLRELAWDQGALALLGVRPDQLPTPVPTTHRLPALSSEMAQRLGLSVDTPFIIG 243 Query: 241 ANDGVLSNLGVNAIHPGQVAVTIGTSGAMRTVVERPVTDASGRTFCYALTERHWVVGGPV 300 ANDGVLSNLGVNAI G VAVTIGTSGAMRTV++ P TD GR FCYALTE+HWVVGGPV Sbjct: 244 ANDGVLSNLGVNAIEIGHVAVTIGTSGAMRTVIDEPRTDPQGRLFCYALTEKHWVVGGPV 303 Query: 301 NNGGNVFRWVRDELATAEAEQARKDGVDPYDALTRIAEHIAPGAEGLLFHPYLSGERAPL 360 NNGGN+FRWVRDELATAEA AR++GVDPY+ALTRIAE + PGAEGLLFHP+++GERAPL Sbjct: 304 NNGGNIFRWVRDELATAEAAAAREEGVDPYEALTRIAEKVRPGAEGLLFHPFMAGERAPL 363 Query: 361 WNADLRGSFFGLALHHRKEHMIRAALEGVIFNLYSILPAVEDLIGPTKRMMATGGFARSA 420 WNADLRGSFFGLALHH K HMIRAALEGVIFNLYSILPA+E+L+GPTKRMMATGGFARSA Sbjct: 364 WNADLRGSFFGLALHHGKHHMIRAALEGVIFNLYSILPALEELVGPTKRMMATGGFARSA 423 Query: 421 LWRQMMADIFNREVVVPQSVESSCLGAAVLGLLALGKIKSLDVISDMVGSTNRHLPIPQN 480 LWRQMMADIFNREVVVP+SVESSCLGAAVLG ALG + SL VIS MVGSTN H P + Sbjct: 424 LWRQMMADIFNREVVVPESVESSCLGAAVLGAWALGLVPSLSVISGMVGSTNHHAPEAEA 483 Query: 481 VAIYDRLRPIFMAIPHKLADEYRALSAFQR 510 VA+Y RL+PIF AIP KL EY A++AFQR Sbjct: 484 VAVYGRLQPIFAAIPAKLEAEYHAIAAFQR 513 >gi|300310306|ref|YP_003774398.1| glycerol kinase [Herbaspirillum seropedicae SmR1] Length = 495 Score = 156 bits (394), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 131/477 (27%), Positives = 216/477 (45%), Gaps = 36/477 (7%) Query: 4 FMLGVDIGTTSTKTVVFTLDGQVVAQHAVEYPVLCTEPGMSEQDPLQMFDAVLGSIAGAV 63 ++L +D GT+S+++++F G +VA E+P + +PG E DP+ ++ + L + + Sbjct: 3 YLLALDQGTSSSRSIIFDQSGAIVATAQQEFPQIFPQPGWVEHDPMDLWHSQLQTAQKVL 62 Query: 64 AAXAAKAAPGDIELVSFSAAMHSLIALD-GDNCLLSNSITWGDIRASVWAERIKNEFDGQ 122 A KA+ ++ + + + + + + N++ W D RA V ++ G+ Sbjct: 63 AQSGIKAS--ELTALGITNQRETTVVWERATGKPVYNAVVWQDRRAEVVCAALRERGLGE 120 Query: 123 AIYRRTGTPIHPMSPLCKLMWMRHEKADIFKQAAR----FVGIKEYVLFRLFGEWL--VD 176 AI ++TG + P KL W+ + +A R F + ++++ L G L D Sbjct: 121 AIQKKTGLVLDPYFSGTKLRWILDHVDGLRARAERGELLFGTVDSWLVWNLTGGRLHVSD 180 Query: 177 YSIASATGMFNLEQLDWDEGALALLQVDARQLPKPVPTTHQLQGLDAAVAEQLGLRTDTP 236 S AS T ++N+ WDE L L + A LP+ P+ H +D A+ LG Sbjct: 181 VSNASRTMLWNIHTGAWDEELLQWLGIPAAMLPQVQPSAHLYGEID---AQHLGAAVKIG 237 Query: 237 FVIGANDGVLSNLGVNAIHPGQVAVTIGTSGAMRT-VVERPVTDASG---RTFCYALTER 292 + G L G + PG T GT M ++ T +G C ++ Sbjct: 238 GIAGDQQSAL--FGQACVRPGMAKNTYGTGCFMLLHTGDQCATSHNGLISTAACQVDEQK 295 Query: 293 HWVVGGPVNNGGNVFRWVRDELATAEAEQARKDGVDPYDALTRIAEHIAPGAE---GLLF 349 + + G V GG V +W+RD L +A K D E +A E G++F Sbjct: 296 QYALEGSVFIGGAVVQWLRDGL------KAIKTSTD--------VEGLACSVEDSGGVVF 341 Query: 350 HPYLSGERAPLWNADLRGSFFGLALHHRKEHMIRAALEGVIFNLYSILPA-VEDLIGPTK 408 P +G AP WN +G+ GL+ H+ RAALE + F ++L A V D + P Sbjct: 342 VPSFTGLGAPYWNPSAKGAIVGLSRGSTVAHIARAALESIAFQSTALLNAMVRDAVSPIT 401 Query: 409 RMMATGGFARSALWRQMMADIFNREVVVPQSVESSCLGAAVLGLLALGKIKSLDVIS 465 + GG A + L Q AD+ V+ PQ E++ LGAA L +A G + L +S Sbjct: 402 ELRVDGGAAANNLLLQFQADLLGIPVIRPQVTETTALGAAYLAGIATGVYRDLSELS 458 >gi|300309787|ref|YP_003773879.1| sugar (pentulose and hexulose) kinase [Herbaspirillum seropedicae SmR1] Length = 490 Score = 138 bits (348), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 135/460 (29%), Positives = 204/460 (44%), Gaps = 29/460 (6%) Query: 6 LGVDIGTTSTKTVVFTLDGQVVAQHAVEYPVLCTEPGMSEQDPLQMFDAVLGSIAGAVAA 65 LG+D+GT+ K VV G +VA V P SEQ P + A ++A Sbjct: 3 LGIDLGTSEVKAVVIDAQGSLVALAGSTLNVARPHPRWSEQAPADWWQATCDTVAKLRTQ 62 Query: 66 XAAKAAPGDIELVSFSAAMHSLIALDGDNCLLSNSITWGDIRASVWAERIKNEFDGQAIY 125 ++ G I + S MH + LD + +L +I W D R++ E + E ++ Sbjct: 63 LGSERF-GSIRAIGLSGQMHGAVLLDERDEVLRPAILWSDSRSA--PECAELESRAPRLH 119 Query: 126 RRTGTPIHPMSPLCKLMWMRHEKADIFKQAARFVGIKEYVLFRLFGEWLVDYSIASATGM 185 G P KL+W+ + +F + A + K+++ ++ G + D S A+ T Sbjct: 120 GIAGNLAMPGFTAPKLLWVARHEPQLFARIATVLLPKDWLRLKMTGRKVSDPSDAAGTLW 179 Query: 186 FNLEQLDWDEGALALLQVDARQLPKPVPTTHQLQGLDAAVAEQLGLRTDTPFVIGANDGV 245 ++E +W + LA + Q+P V + L VA+ GLR+D GA DG Sbjct: 180 LDVEGRNWSDELLAASGMRRDQMPALVDGSAVSGSLLPEVAQAWGLRSDVIVAGGAGDGA 239 Query: 246 LSNLGVNAIHPGQVAVTIGTSGAMRTVVE--RPVTDASGRTFCYALTERHWVVGGPVNNG 303 S +G+ A+ PG +++GTSG + V + RP + FC+ L +R W + + Sbjct: 240 ASAVGIGAVKPGDGFLSLGTSGVLFVVNDRFRPNPGRAIHAFCHTLPQR-WHQMSVMLSA 298 Query: 304 GNVFRW------VRDELATAEAEQARKDGVDPYDALTRIAEHIAPGAEGLLFHPYLSGER 357 + RW V ++ AE EQ L A + AP LF PYLSGER Sbjct: 299 ASCLRWFCRLCSVDEKSLLAEIEQ-----------LDEQACNNAP-----LFLPYLSGER 342 Query: 358 APLWNADLRGSFFGLALHHRKEHMIRAALEGVIFNLYSILPAVEDLIGPTKRMMATGGFA 417 P + G F GL H++ + A LEGV F + L A+ + GG A Sbjct: 343 TPHNDPYATGVFHGLTPEHQRAALGYAVLEGVAFGMVDGLDALRAAGTDVAELSLVGGGA 402 Query: 418 RSALWRQMMADIFNREVVVPQSVES-SCLGAAVLGLLALG 456 RSA W Q++AD +V E+ LGAA L LA G Sbjct: 403 RSAYWAQLLADALQVRIVTHVGSEAGGALGAARLAWLADG 442 >gi|300312696|ref|YP_003776788.1| D-xylulose kinase [Herbaspirillum seropedicae SmR1] Length = 493 Score = 130 bits (327), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 136/515 (26%), Positives = 218/515 (42%), Gaps = 41/515 (7%) Query: 6 LGVDIGTTSTKTVVFTLDGQVVAQHAVEYPVLCTEPGMSEQDPLQMFDAVLGSIAGAVAA 65 LG+D+GT+ K V+ D V+A + V P SEQ P ++A L +IA A+ Sbjct: 4 LGIDLGTSEVKLVLTDEDSNVIASTSARLRVDNPHPLWSEQAPQSWWNATLDAIA-ALRT 62 Query: 66 XAAKAAPGDIELVSFSAAMHSLIALDGDNCLLSNSITWGDIRASVWAERIKNEF---DGQ 122 A +A + + S MH LD + +L +I W D+RA AE ++ E D Sbjct: 63 QAPQAFQA-LRGIGLSGQMHGATLLDRNGNVLRPAILWNDMRAH--AECVELEALVPDAV 119 Query: 123 AIYRRTGTPIHPMSPLCKLMWMRHEKADIFKQAARFVGIKEYVLFRLFGEWLVDYSIASA 182 AI TG P KL+W+ + +++ + + K+++ ++L GE++ + S A+ Sbjct: 120 AI---TGNRAMPGFTAPKLLWLSKYEPAVYRAIDKVLLPKDFLGWKLTGEFVSEMSDAAG 176 Query: 183 TGMFNLEQLDWDEGALALLQVDARQLPKPVPTTHQLQGLDAAVAEQLGLRTDTPFVIGAN 242 T ++ + DW E L +D +P+ V + L + + G+ GA Sbjct: 177 TLWLDVARRDWSERMLGATGLDRSHMPRLVEGSAVAGQLRDELRREWGISGPVVVAGGAG 236 Query: 243 DGVLSNLGVNAIHPGQVAVTIGTSGAM--RTVVERPVTDASGRTFCYALTERHWVVGGPV 300 D S +G+ I G +++G+SG + T P FC+ L + W + Sbjct: 237 DNAASAVGIGVIRAGDAFLSLGSSGVLFAATAHHAPNAQQGVHAFCHCLPGQ-WHQMSVI 295 Query: 301 NNGGNVFRWVRDELATAEAEQARKDGVDPYDALTRIAEHIAPG--AEGLLFHPYLSGERA 358 + W+ A AE L AE ++ G A+ LF PYL+GER Sbjct: 296 LSAAASLHWLSGVTARPVAE------------LVSGAERLSAGQQAQAPLFLPYLNGERT 343 Query: 359 PLWNADLRGSFFGLALHHRKEHMIRAALEGVIFNLYSILPAVEDLIGPTKRMMATGGFAR 418 P +A +G FG+ H H+ A +EGV F + A++ + GG +R Sbjct: 344 PHNDAAAKGVLFGMTPAHESAHLAYAVMEGVAFAMADGYAALQAAGTTLESAAFVGGGSR 403 Query: 419 SALWRQMMADIFNREVVVPQSVE-SSCLGAAVLGLLALGKIKSL------DVISDMVGST 471 SA W + A + E + LGAA LG LA + +V+ Sbjct: 404 SAFWGVLCATALGIPLRRHAGAEVGAALGAARLGRLARTGEDAASVCIPPEVLEWYRPDA 463 Query: 472 NRHLPIPQNVAIYDRLRPIFMAIPHKLADEYRALS 506 R + + +A Y RL LADE+ A S Sbjct: 464 ARQAQLQRRLAQYRRLY-------RSLADEFIAFS 491 >gi|300310399|ref|YP_003774491.1| D-ribulose/ribitol kinase [Herbaspirillum seropedicae SmR1] Length = 548 Score = 83.2 bits (204), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 127/539 (23%), Positives = 209/539 (38%), Gaps = 42/539 (7%) Query: 1 MSHFMLGVDIGTTSTKTVVFTLDGQVVAQHAVEYPVLCTEP-GMSEQDPLQMFDAVLGSI 59 M +++G+D+GT S + VF GQ++A + + E EQ Q+++AV ++ Sbjct: 1 METYLIGIDVGTGSARAGVFDPQGQLLASARHDIDLFRDERRARVEQSSAQIWEAVCQAV 60 Query: 60 AGAVAAXAAKAAPGDIELVSFSAAMHSLIALDGDNCLLSNS-------ITWGDIRASVWA 112 AV P + + A SL+ + G + + + I W D RA A Sbjct: 61 RAAVTKSGID--PAAVAGIGVDATC-SLV-VQGASAGVGDPGHPERDVIVWMDHRALEQA 116 Query: 113 ERIKNEFDGQAIYRRTGTPIHPMSPLCKLMWMRHEKADIFKQAARFVGIKEYVLFRLFGE 172 +RI G A+ G I P KL+W++ +++ AA F + +++ ++ G Sbjct: 117 QRINRM--GHAVLSYVGGVISPEMETPKLLWLKENLPEVYASAAHFFDLTDFLTWKATGS 174 Query: 173 WLVDYSIASATGMFNLEQLDWDE------GALALLQVDARQLPKPV--PTTHQLQGLDAA 224 + + + WD G L + ++ V P T GL Sbjct: 175 LQRSSCTVTCKWTYLAHEAGWDASYFRQIGLGDLAEAGFARIGAEVVWPGTPLAGGLTQT 234 Query: 225 VAEQLGLRTDTPFVIGANDGVLSNLGVNAIHPGQ------VAVTIGTSGAMRTVVERPV- 277 A+ +GLR G D +G A GQ +A GTS T PV Sbjct: 235 AAQAMGLRPGIAVAAGLIDAHAGGVGTVAARGGQGDAAACMAYVFGTSSCTMTSHADPVL 294 Query: 278 TDASGRTFCYALTERHWV-VGGPVNNGGNVFRWVRDELATAEA-EQARKDGVDPYDALTR 335 + A+ W+ GG G + +R AT +A E+A + ++ L + Sbjct: 295 VPGVWGPYYKAMAPGMWLNEGGQSAAGAAIDHLLRLHPATPQAREEAARAQMELPQWLAQ 354 Query: 336 IA----EHIAPG---AEGLLFHPYLSGERAPLWNADLRGSFFGLALHHRKEHMIRAALEG 388 A +H + A L P G R+PL + R + GL + H + ++ + G Sbjct: 355 QALAAVDHPSEAVWLAGQLTVVPEFLGNRSPLADPQARAALVGLGMEHDIDSLVALYVAG 414 Query: 389 VI---FNLYSILPAVEDLIGPTKRMMATGGFARSALWRQMMADIFNREVVVPQSVESSCL 445 + + L I+ A + + +GG L RQ++AD V + S E L Sbjct: 415 LCSLGYGLRQIIEAQAACGVRVQSISVSGGAGVHPLTRQLLADATGMPVEITASPEPVLL 474 Query: 446 GAAVLGLLALGKIKSL-DVISDMVGSTNRHLPIPQNVAIYDRLRPIFMAIPHKLADEYR 503 G+A+L +A G L + M R LP +VA R +LA E R Sbjct: 475 GSAMLAAVAAGLHADLQSAMPAMSSVAGRSLPAQGDVAALHAARYQAFLKSQQLARELR 533 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 0.322 0.137 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: 1,546,927 Number of extensions: 63985 Number of successful extensions: 218 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 204 Number of HSP's successfully gapped: 5 Length of query: 514 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 425 Effective length of database: 1,198,455 Effective search space: 509343375 Effective search space used: 509343375 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)