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= 0025.0226.p (753 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311292|ref|YP_003775384.1| (p)ppGpp synthetase I [Herbaspi... 1240 0.0 gi|300311444|ref|YP_003775536.1| bifunctional (P)ppGpp synthetas... 376 e-105 >gi|300311292|ref|YP_003775384.1| (p)ppGpp synthetase I [Herbaspirillum seropedicae SmR1] Length = 749 Score = 1240 bits (3209), Expect = 0.0, Method: Compositional matrix adjust. Identities = 607/753 (80%), Positives = 663/753 (88%), Gaps = 4/753 (0%) Query: 1 MVSVVAVQQEGNASIVAGLSPEDSARVLEALAFVEPIYRGKPITSGQDAMAFVQGVAGVL 60 MVSV + Q EG A++ AGL PED+ARV +ALA +EP+Y + I SGQ+A+ F VA VL Sbjct: 1 MVSVASTQGEGLAALTAGLGPEDAARVAQALAELEPLYADRQILSGQNALQFSISVATVL 60 Query: 61 TALNVDAETRIAGLLFELHLLDLDVAATIEERYGKDIGDLVAGVRQLMRFHGLTFQQPQE 120 TALNVDA TRIA L FE +L ++ +EER+GK+I DLV VRQLMRFH +FQ QE Sbjct: 61 TALNVDAATRIAALAFEAQMLHPELEEKLEERFGKEIADLVGNVRQLMRFHSFSFQPQQE 120 Query: 121 VLRGKNAAQQAAAQIETLRKMLLAMASDMRVVLVRLASRVTTLRYFAENKMENETTAQYA 180 VLRGKNAAQQAAAQIETLRKMLLAMA+DMR VLVRLASRV TLRYFAE K E+E +A YA Sbjct: 121 VLRGKNAAQQAAAQIETLRKMLLAMATDMRAVLVRLASRVATLRYFAETKQEDEASANYA 180 Query: 181 RETFDLYAPLANRLGIWQLKWELEDLSFRFIEPVTYKRIAKMLEEKRIERAEFVATAIER 240 R+TF+LYAPLANRLGIWQLKWELEDLSFRF+EPVTYKRIAKMLEEKR+ER FVA AI R Sbjct: 181 RQTFELYAPLANRLGIWQLKWELEDLSFRFLEPVTYKRIAKMLEEKRLEREAFVANAIAR 240 Query: 241 LRTELTAAEIKAEVSGRPKHIYSIWNKMRGKSIDFSELYDVRAFRVIVDDIKDCYTVLGI 300 LR E+ A +I+AEVSGRPKHIYSIWNKMRGK IDFSELYDVRAFRVIVDD+K CY VLGI Sbjct: 241 LRAEMAAQDIRAEVSGRPKHIYSIWNKMRGKHIDFSELYDVRAFRVIVDDVKTCYAVLGI 300 Query: 301 IHNIWVPIPKEFDDYISRPKQNGYQSLHTVVVAEDGRPLEVQIRTREMHHFAEYGVAAHW 360 +H+IW PIP+EFDDYISRPKQNGYQSLHTVV AEDGR LEVQIRT EMHHFAEYGVAAHW Sbjct: 301 VHDIWTPIPEEFDDYISRPKQNGYQSLHTVVTAEDGRALEVQIRTHEMHHFAEYGVAAHW 360 Query: 361 RYKESGGSNFAAQKYDEKIAWLRQLLAWKSEVSDAVVEQEEVRRDWVEKLKSTTLDERIY 420 RYKESGGSNF+AQKYDEKIAWLRQLLAWK+EV+DAVV+QEEVRRDWVEKLKS TLDERIY Sbjct: 361 RYKESGGSNFSAQKYDEKIAWLRQLLAWKNEVTDAVVDQEEVRRDWVEKLKSATLDERIY 420 Query: 421 VLTPQARVIELPSGATPIDFAYHLHSDVGHRCRGRAXVDGVMVPLNTPLKNGQTVDIITV 480 VLTPQARVIELPSGATPIDFAYHLHSDVGHRCRG A VDGVMVPLNT LKNGQTV+IITV Sbjct: 421 VLTPQARVIELPSGATPIDFAYHLHSDVGHRCRG-ARVDGVMVPLNTALKNGQTVEIITV 479 Query: 481 KSGPGVGPSRDWLSTGYAASSRTRSKVRAWFNAIEQEETLAHGRTVLEKTLQREGKTAVN 540 KSGPGVGPSRDWLS YA SSRTRSK+RAWFNAIEQ+ETL+ GR +LEKTLQREGKTAVN Sbjct: 480 KSGPGVGPSRDWLSPDYAVSSRTRSKIRAWFNAIEQQETLSVGRGLLEKTLQREGKTAVN 539 Query: 541 LEELAHKLGFGKVDDLCLSLGKDEFSPRQIEQMLHEGEEGRENRQTEPDEASITRKSRAS 600 LEELA KLGF KVDDLCLSL K+EFS R +EQ LHEG+E + DE ITRKSRAS Sbjct: 540 LEELAQKLGFAKVDDLCLSLAKEEFSLRHVEQALHEGQEKKPEID---DETLITRKSRAS 596 Query: 601 SVVQGAKSGVLVVGTEGLMTQLARCCKPAPPDTIVGFVTRGKGVSIHRLTCKNFTEMSSK 660 S+VQGAKSGVLVVGT+GL+TQLARCCKPAPPD I GFVTRGKGVSIHR++CKNF EMSS Sbjct: 597 SIVQGAKSGVLVVGTDGLLTQLARCCKPAPPDAIAGFVTRGKGVSIHRVSCKNFAEMSSH 656 Query: 661 APERVIQTEWGASGKDTVYPVDIFVLAGDRQGLLRDISEIFLREKINVIGVSTQSMKGQA 720 APERVIQT WGA ++TVYPVDIFVLA DRQGLLRDIS+IFLR+KINVIGVSTQS+KG A Sbjct: 657 APERVIQTTWGAPARETVYPVDIFVLASDRQGLLRDISDIFLRDKINVIGVSTQSVKGHA 716 Query: 721 RMGFTAEIGSTAQLQKALTVIREVKGVLEARRQ 753 RM FTAEIGST QLQKALTVIREVKGV+EA+RQ Sbjct: 717 RMAFTAEIGSTEQLQKALTVIREVKGVIEAKRQ 749 >gi|300311444|ref|YP_003775536.1| bifunctional (P)ppGpp synthetase II/guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase [Herbaspirillum seropedicae SmR1] Length = 753 Score = 376 bits (965), Expect = e-105, Method: Compositional matrix adjust. Identities = 239/744 (32%), Positives = 378/744 (50%), Gaps = 54/744 (7%) Query: 19 LSPEDSARVLEALAFVEPIYRGKPITSGQDAMAFVQGVAGVLTALNVDAETRIAGLLFEL 78 L+P + +V EA F + ++ G+ SG+ ++ VA + +DA+ +A L ++ Sbjct: 53 LTPSELKKVKEAYRFADEMHLGQMRKSGEPYISHPLAVAEICAEWKLDAQAMMAAFLHDV 112 Query: 79 HLLDLDVAAT-IEERYGKDIGDLVAGVRQLMRFHGLTFQQPQEVLRGKNAAQQAAAQIET 137 + D V + ER+G + LV G+ +L + + FQ Q AQ E Sbjct: 113 -MEDQGVKKEELIERFGASVASLVDGLSKLDK---IEFQS------------QVEAQAEN 156 Query: 138 LRKMLLAMASDMRVVLVRLASRVTTLRYFAENKMENETTAQYARETFDLYAPLANRLGIW 197 RKMLLAMA D+RV+LV+LA R+ +R M E + +RET ++Y P+A+RLG+ Sbjct: 157 FRKMLLAMARDVRVILVKLADRLHNMRTLG--SMPPEKKRRISRETMEVYVPIAHRLGLN 214 Query: 198 QLKWELEDLSFRFIEPVTYKRIAKMLEEKRIERAEFVATAIERLRTELTAAEIKAEVSGR 257 + EL++LSF + P+ ++ ++K ++ R R E V +E + + L AA I A+V GR Sbjct: 215 NIYRELQELSFAHLHPLRHRTLSKAVKAARGNRREVVTKIMESVTSTLIAAGIPAQVDGR 274 Query: 258 PKHIYSIWNKMRGKSIDFSELYDVRAFRVIVDDIKDCYTVLGIIHNIWVPIPKEFDDYIS 317 K +Y I+ KMR K + FS++ DV FRV+VD +CY LG +H+++ P+P +F DYI+ Sbjct: 275 EKTLYGIYRKMRNKHLSFSQVLDVYGFRVVVDSFANCYVALGTLHSLFKPMPGKFKDYIA 334 Query: 318 RPKQNGYQSLHTVVVAEDGRPLEVQIRTREMHHFAEYGVAAHWRYKESGGSNFAAQKYDE 377 PK NGYQSLHT ++ G P+E QIRT EMH AE GVAAHW YK+ GS Q+ Sbjct: 335 IPKLNGYQSLHTTLIGPYGTPVEFQIRTSEMHRVAESGVAAHWLYKDDEGSLTDLQQRTH 394 Query: 378 KIAWLRQLLAWKSEVSDAVVEQEEVRRDWVEKLKSTTLDERIYVLTPQARVIELPSGATP 437 AWL+ LL + + D+ +++E +K + +YV TP++++I LP GAT Sbjct: 395 --AWLQSLLDIQKQTGDSA--------EFLEHVKVDLFPDSVYVFTPKSKIIALPRGATA 444 Query: 438 IDFAYHLHSDVGHRCRGRAXVDGVMVPLNTPLKNGQTVDIITVKSGPGVGPSRDWLSTGY 497 +DFAY +H+D+G + A ++ PL L NG V+IIT P PS +WL GY Sbjct: 445 LDFAYSIHTDIGDQTTS-AIINHEPAPLRAELHNGDIVEIIT---SPTSRPSPNWL--GY 498 Query: 498 AASSRTRSKVRAWFNAIEQEETLAHGRTVLEKTLQREG----KTAVNLEELAHKLGFGKV 553 + + RS +R Q E+ A GR +L L G + +E L ++ + Sbjct: 499 VRTGKARSAIRHRLRTANQVESQAVGRRLLGNALHTLGIEPELPSHIVERLLNESSAKTM 558 Query: 554 DDLCLSLG-KDEFSPRQIEQMLHEGEEGRENRQTEPDEASITRKSRASSVVQGAKSGVLV 612 DDL +G +P ++ + G Q +P+ + K V++ Sbjct: 559 DDLYAEIGIGTRMAPLVARHIMTMMDTGVSVPQLDPEGHMLPNKP----------DPVVI 608 Query: 613 VGTEGLMTQLARCCKPAPPDTIVGFVTRGKGVSIHRLTCKNFTEMSSKAPERVIQTEWGA 672 G+EG QL+ CC P P D + G++ + + +H C + K P+R I+ WG Sbjct: 609 TGSEGASAQLSSCCMPIPGDRLTGYLKADQTLIVHTQECDTAKRLHEKEPDRWIELVWG- 667 Query: 673 SGKDTVYPVDIFVLAGDRQGLLRDISEIFLREKINVIGVSTQSMKGQARMG---FTAEIG 729 + + I +L + +G L I+ N++ V+ G A M FT ++ Sbjct: 668 QDLNRRFDCRITILIHNERGTLARIAAEIGESDANIVSVAMDDEGGNASMKYLRFTIQVE 727 Query: 730 STAQLQKALTVIREVKGVLEARRQ 753 L + + IR + V R+ Sbjct: 728 DRVHLARTMRGIRRIDSVARILRE 751 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 0.134 0.384 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: 2,232,627 Number of extensions: 91967 Number of successful extensions: 300 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 293 Number of HSP's successfully gapped: 2 Length of query: 753 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 661 Effective length of database: 1,184,250 Effective search space: 782789250 Effective search space used: 782789250 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 (21.7 bits) S2: 134 (56.2 bits)