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= 0136.0004.p (503 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311444|ref|YP_003775536.1| bifunctional (P)ppGpp synthetas... 920 0.0 gi|300311292|ref|YP_003775384.1| (p)ppGpp synthetase I [Herbaspi... 263 3e-71 >gi|300311444|ref|YP_003775536.1| bifunctional (P)ppGpp synthetase II/guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase [Herbaspirillum seropedicae SmR1] Length = 753 Score = 920 bits (2377), Expect = 0.0, Method: Compositional matrix adjust. Identities = 435/503 (86%), Positives = 474/503 (94%), Gaps = 1/503 (0%) Query: 1 VVTKILESVTSTLIAAGIPAQVDGREKTLYGIYRKMRNKHLTFSQVLDVYGFRVVVDSFA 60 VVTKI+ESVTSTLIAAGIPAQVDGREKTLYGIYRKMRNKHL+FSQVLDVYGFRVVVDSFA Sbjct: 250 VVTKIMESVTSTLIAAGIPAQVDGREKTLYGIYRKMRNKHLSFSQVLDVYGFRVVVDSFA 309 Query: 61 NCYVALGTLHSLFKPMPGKFKDYIAIPKLNGYQSLHTTLIGPYGTPVEFQIRTQDMHRVA 120 NCYVALGTLHSLFKPMPGKFKDYIAIPKLNGYQSLHTTLIGPYGTPVEFQIRT +MHRVA Sbjct: 310 NCYVALGTLHSLFKPMPGKFKDYIAIPKLNGYQSLHTTLIGPYGTPVEFQIRTSEMHRVA 369 Query: 121 ESGVAAHWLYKDDEGSLTDLQQRTHAWLQSLLDIQKQTGDSAEFLEHVKVDLFPDSVYVF 180 ESGVAAHWLYKDDEGSLTDLQQRTHAWLQSLLDIQKQTGDSAEFLEHVKVDLFPDSVYVF Sbjct: 370 ESGVAAHWLYKDDEGSLTDLQQRTHAWLQSLLDIQKQTGDSAEFLEHVKVDLFPDSVYVF 429 Query: 181 TPKSKIIALPRGATALDFAYNIHTDIGDQTTSVVINHEPAPLRTELHNGDIVEIITSPSS 240 TPKSKIIALPRGATALDFAY+IHTDIGDQTTS +INHEPAPLR ELHNGDIVEIITSP+S Sbjct: 430 TPKSKIIALPRGATALDFAYSIHTDIGDQTTSAIINHEPAPLRAELHNGDIVEIITSPTS 489 Query: 241 RPSPNWLGYVRTGKARSAIRHRLRTVNLAESQALGKRLLTNALNTLGLDPDLPTLLIERL 300 RPSPNWLGYVRTGKARSAIRHRLRT N ESQA+G+RLL NAL+TLG++P+LP+ ++ERL Sbjct: 490 RPSPNWLGYVRTGKARSAIRHRLRTANQVESQAVGRRLLGNALHTLGIEPELPSHIVERL 549 Query: 301 LNESSAKTMDELYADIGIGTRMAPLVARHIMGMTENGGAVPQLDVEGHMLPSKPDPVVIT 360 LNESSAKTMD+LYA+IGIGTRMAPLVARHIM M + G +VPQLD EGHMLP+KPDPVVIT Sbjct: 550 LNESSAKTMDDLYAEIGIGTRMAPLVARHIMTMMDTGVSVPQLDPEGHMLPNKPDPVVIT 609 Query: 361 GNEGATVQLATCCQPIPGDKLIGHLKHDQALIVHVDDCETAKRHREKEPDRWIEVTWAGE 420 G+EGA+ QL++CC PIPGD+L G+LK DQ LIVH +C+TAKR EKEPDRWIE+ W + Sbjct: 610 GSEGASAQLSSCCMPIPGDRLTGYLKADQTLIVHTQECDTAKRLHEKEPDRWIELVWGQD 669 Query: 421 LNRRFECRITILAHNQKGTLARIAAEIGEADAHIVSVSMDDD-GDPSMKHLRFTIQVEDR 479 LNRRF+CRITIL HN++GTLARIAAEIGE+DA+IVSV+MDD+ G+ SMK+LRFTIQVEDR Sbjct: 670 LNRRFDCRITILIHNERGTLARIAAEIGESDANIVSVAMDDEGGNASMKYLRFTIQVEDR 729 Query: 480 VHLARTMRGIRSIDSVARILRER 502 VHLARTMRGIR IDSVARILRER Sbjct: 730 VHLARTMRGIRRIDSVARILRER 752 >gi|300311292|ref|YP_003775384.1| (p)ppGpp synthetase I [Herbaspirillum seropedicae SmR1] Length = 749 Score = 263 bits (672), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 164/527 (31%), Positives = 255/527 (48%), Gaps = 38/527 (7%) Query: 2 VTKILESVTSTLIAAGIPAQVDGREKTLYGIYRKMRNKHLTFSQVLDVYGFRVVVDSFAN 61 V + + + + A I A+V GR K +Y I+ KMR KH+ FS++ DV FRV+VD Sbjct: 234 VANAIARLRAEMAAQDIRAEVSGRPKHIYSIWNKMRGKHIDFSELYDVRAFRVIVDDVKT 293 Query: 62 CYVALGTLHSLFKPMPGKFKDYIAIPKLNGYQSLHTTLIGPYGTPVEFQIRTQDMHRVAE 121 CY LG +H ++ P+P +F DYI+ PK NGYQSLHT + G +E QIRT +MH AE Sbjct: 294 CYAVLGIVHDIWTPIPEEFDDYISRPKQNGYQSLHTVVTAEDGRALEVQIRTHEMHHFAE 353 Query: 122 SGVAAHWLYKDDEGSLTDLQQRTH--AWLQSLLDIQKQTGDSA--------EFLEHVKVD 171 GVAAHW YK+ GS Q+ AWL+ LL + + D+ +++E +K Sbjct: 354 YGVAAHWRYKESGGSNFSAQKYDEKIAWLRQLLAWKNEVTDAVVDQEEVRRDWVEKLKSA 413 Query: 172 LFPDSVYVFTPKSKIIALPRGATALDFAYNIHTDIGDQTTSVVINHEPAPLRTELHNGDI 231 + +YV TP++++I LP GAT +DFAY++H+D+G + ++ PL T L NG Sbjct: 414 TLDERIYVLTPQARVIELPSGATPIDFAYHLHSDVGHRCRGARVDGVMVPLNTALKNGQT 473 Query: 232 VEIIT---SPSSRPSPNWLG--YVRTGKARSAIRHRLRTVNLAESQALGKRLLTNALNTL 286 VEIIT P PS +WL Y + + RS IR + E+ ++G+ LL L Sbjct: 474 VEIITVKSGPGVGPSRDWLSPDYAVSSRTRSKIRAWFNAIEQQETLSVGRGLLEKTLQRE 533 Query: 287 GLDPDLPTLLIERLLNESSAKTMDELYADIGIGTRMAPLVARHI-MGMTENGGAVPQLDV 345 G + +E L + +D D+ + RH+ + E P++D Sbjct: 534 G----KTAVNLEELAQKLGFAKVD----DLCLSLAKEEFSLRHVEQALHEGQEKKPEIDD 585 Query: 346 E---------GHMLPSKPDPVVITGNEGATVQLATCCQPIPGDKLIGHLKHDQALIVHVD 396 E ++ V++ G +G QLA CC+P P D + G + + + +H Sbjct: 586 ETLITRKSRASSIVQGAKSGVLVVGTDGLLTQLARCCKPAPPDAIAGFVTRGKGVSIHRV 645 Query: 397 DCETAKRHREKEPDRWIEVTWAGELNRR-FECRITILAHNQKGTLARIAAEIGEADAHIV 455 C+ P+R I+ TW + I +LA +++G L I+ +++ Sbjct: 646 SCKNFAEMSSHAPERVIQTTWGAPARETVYPVDIFVLASDRQGLLRDISDIFLRDKINVI 705 Query: 456 SVSMDD-DGDPSMKHLRFTIQVEDRVHLARTMRGIRSIDSVARILRE 501 VS G M FT ++ L + + IR + V R+ Sbjct: 706 GVSTQSVKGHARMA---FTAEIGSTEQLQKALTVIREVKGVIEAKRQ 749 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 0.320 0.136 0.401 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: 1,543,538 Number of extensions: 64818 Number of successful extensions: 179 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 176 Number of HSP's successfully gapped: 2 Length of query: 503 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 414 Effective length of database: 1,198,455 Effective search space: 496160370 Effective search space used: 496160370 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 (21.8 bits) S2: 133 (55.8 bits)