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= 0021.0086.p (866 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312097|ref|YP_003776189.1| lysyl-tRNA synthetase [Herbaspi... 978 0.0 gi|300312096|ref|YP_003776188.1| peptide chain release factor 2 ... 686 0.0 gi|300313560|ref|YP_003777652.1| peptide chain release factor 1 ... 222 9e-59 gi|300309541|ref|YP_003773633.1| aspartyl-tRNA synthetase [Herba... 72 2e-13 >gi|300312097|ref|YP_003776189.1| lysyl-tRNA synthetase [Herbaspirillum seropedicae SmR1] Length = 513 Score = 978 bits (2527), Expect = 0.0, Method: Compositional matrix adjust. Identities = 473/482 (98%), Positives = 478/482 (99%) Query: 354 MTTQNTPAAQPAADENSIIAERRAKLAAIREQGVAFPNDFRPANNAADLHAKYDGLENEA 413 MTTQNTPAAQPAADENSIIAERRAKLAAIREQGVAFPNDFRPAN AADLHAKYDG ENEA Sbjct: 1 MTTQNTPAAQPAADENSIIAERRAKLAAIREQGVAFPNDFRPANQAADLHAKYDGFENEA 60 Query: 414 LEAEPVQVTVAGRMMLKRVMGKAAFATLQDASGVRADGRIQLYVTRDVTGEEAMAAFKHY 473 LEAEPV VTVAGRMMLKRVMGKAAFATLQDASGVRADGRIQLY+TRDVTGEEAMAAFKHY Sbjct: 61 LEAEPVTVTVAGRMMLKRVMGKAAFATLQDASGVRADGRIQLYITRDVTGEEAMAAFKHY 120 Query: 474 DLGDILGAEGTLFKTKTGELSIKVTKLKLITKSLRPLPDKFHGLADQEMKYRQRYVDLIM 533 DLGDILGAEGTLFKTKTGELS+KVTKLKLITKSLRPLPDKFHGLADQEMKYRQRYVDLIM Sbjct: 121 DLGDILGAEGTLFKTKTGELSVKVTKLKLITKSLRPLPDKFHGLADQEMKYRQRYVDLIM 180 Query: 534 SEETRRTFKARTAAMSSIRRFMETNGFMEVETPMLHPIPGGAAAKPFITHHNALDMQMFM 593 SEETRRTFKARTAAMSSIRRFMET+GFMEVETPMLHPIPGGAAAKPFITHHNALDMQMFM Sbjct: 181 SEETRRTFKARTAAMSSIRRFMETHGFMEVETPMLHPIPGGAAAKPFITHHNALDMQMFM 240 Query: 594 RIAPELYLKRLVVGGFERVFEVNRNFRNEGVSPRHNPEFTMMEFYAAYVDYQWLMGFTEQ 653 RIAPELYLKRLVVGGFERVFE+NRNFRNEGVSPRHNPEFTMMEFYAAYVDYQWLMGFTEQ Sbjct: 241 RIAPELYLKRLVVGGFERVFEINRNFRNEGVSPRHNPEFTMMEFYAAYVDYQWLMGFTEQ 300 Query: 654 VIRQAAIDAHGTAVLTYQGRELDLSKPFDRLTITGAILKYAPNYTEAQLADIDFLRTELK 713 VIRQAAIDAHGTAVL+YQGRELDLSKPFDRLTITGAILKYAPNYTEAQLADIDFLRTELK Sbjct: 301 VIRQAAIDAHGTAVLSYQGRELDLSKPFDRLTITGAILKYAPNYTEAQLADIDFLRTELK 360 Query: 714 KFGVKTDQAPLAGAGIGALQLALFEETAESQLWNPTYIIDYPVEVSPLARASDTVAGITE 773 KFGVKTDQAPLAGAGIGALQLALFEETAESQLWNPTYIIDYPVEVSPLARASDTVAGITE Sbjct: 361 KFGVKTDQAPLAGAGIGALQLALFEETAESQLWNPTYIIDYPVEVSPLARASDTVAGITE 420 Query: 774 RFELFITGREIANGFSELNDAEDQAARFQAQVAAKDAGDEEAMYYDADYIRALEYGMPPA 833 RFELFITGREIANGFSELNDAEDQAARF AQVAAKDAGDEEAMYYDADYIRALEYGMPPA Sbjct: 421 RFELFITGREIANGFSELNDAEDQAARFHAQVAAKDAGDEEAMYYDADYIRALEYGMPPA 480 Query: 834 GG 835 GG Sbjct: 481 GG 482 >gi|300312096|ref|YP_003776188.1| peptide chain release factor 2 [Herbaspirillum seropedicae SmR1] Length = 337 Score = 686 bits (1769), Expect = 0.0, Method: Compositional matrix adjust. Identities = 327/334 (97%), Positives = 332/334 (99%) Query: 13 VKSEKLEQVNAELEDPNVWNDQKRAQDLGKEKKSLEAIVHTLIKIDSELTDARDLFEMAR 72 +KSEKLEQVNAELEDPNVWNDQKRAQDLGKEKKSLEAIVHTLIKIDSELTDARDLFEMAR Sbjct: 1 MKSEKLEQVNAELEDPNVWNDQKRAQDLGKEKKSLEAIVHTLIKIDSELTDARDLFEMAR 60 Query: 73 EEKDEDTIVAIEADAETLKKLVEDMEFRRMFSGPMDANNCFIDIQAGAGGTEAQDWASML 132 EEKDEDTI+AIE DAE LKK+VE+MEFRRMFSGPMDANNCFIDIQAGAGGTEAQDWASML Sbjct: 61 EEKDEDTIIAIEGDAENLKKMVEEMEFRRMFSGPMDANNCFIDIQAGAGGTEAQDWASML 120 Query: 133 LRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGVHRLVRKSPFD 192 LRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGVHRLVRKSPFD Sbjct: 121 LRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGVHRLVRKSPFD 180 Query: 193 SSNGRHTSFSSLFVYPEVDESFEIEINPADVRVDTYRASGAGGQHINKTDSAVRLTHAPT 252 SSNGRHTSFSSLFVYPEVDESFEIEINPADVRVDTYRASGAGGQHINKTDSAVRLTHAP+ Sbjct: 181 SSNGRHTSFSSLFVYPEVDESFEIEINPADVRVDTYRASGAGGQHINKTDSAVRLTHAPS 240 Query: 253 GIVVQCQNDRSQHRNRAEAWDMLRAKLFELELRKRMSEQQKLEDSKTDVGWGHQIRSYVL 312 GIVVQCQNDRSQHRNRAEAWDMLRAKLFELELRKRMSEQQKLEDSKTDVGWGHQIRSYVL Sbjct: 241 GIVVQCQNDRSQHRNRAEAWDMLRAKLFELELRKRMSEQQKLEDSKTDVGWGHQIRSYVL 300 Query: 313 DQSRIKDLRTNFETGNTKAVLDGDIDDFIAASLK 346 DQSRIKDLRTNFETGNTKAVLDGDIDDFIAASLK Sbjct: 301 DQSRIKDLRTNFETGNTKAVLDGDIDDFIAASLK 334 >gi|300313560|ref|YP_003777652.1| peptide chain release factor 1 [Herbaspirillum seropedicae SmR1] Length = 359 Score = 222 bits (566), Expect = 9e-59, Method: Compositional matrix adjust. Identities = 131/344 (38%), Positives = 202/344 (58%), Gaps = 20/344 (5%) Query: 11 FDVKSEKLEQVNAELEDPNVWNDQKRAQDLGKEKKSLEAIV---HTLIKIDSELTDARDL 67 D +E+LE++N+ L + + + +E L +V H ++ ++ A++L Sbjct: 9 LDQLAERLEELNSLLAQEDATASMDNFRKMTREHAELGPLVALYHEYVQAAEDIRTAQEL 68 Query: 68 FEMAREEKDEDTIVAIEADAETLKKLVEDMEF--RRMF--SGPMDANNCFIDIQAGAGGT 123 D D + + + K +E +E ++M P D N F++I+AG GG Sbjct: 69 L------ADPDMKAFAQEEIDGAKARMEGLELDLQKMLLPKDPNDERNIFLEIRAGTGGD 122 Query: 124 EAQDWASMLLRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGVH 183 E+ +A LLR Y RY ER+ ++ EI+ S+ E+ G K ++ G AY L+ E+G H Sbjct: 123 ESALFAGDLLRMYTRYAERQRWQVEIVSASESELGGYKEVIARIVGLGAYSRLKFESGGH 182 Query: 184 RLVRKSPFDSSNGR-HTSFSSLFVYPEVDESFEIEINPADVRVDTYRASGAGGQHINKTD 242 R V++ P + GR HTS ++ V PE DE ++EINPAD+R+DTYRASGAGGQHINKTD Sbjct: 183 R-VQRVPATETQGRIHTSACTVAVMPEADEVGDVEINPADIRIDTYRASGAGGQHINKTD 241 Query: 243 SAVRLTHAPTGIVVQCQNDRSQHRNRAEAWDMLRAKLFELELRKRMSEQQKLEDSKTDVG 302 SAVR+TH PTGIVV+CQ+DRSQH+N+A+A +L A++ +++LR++ SE+ K+ +G Sbjct: 242 SAVRITHLPTGIVVECQDDRSQHKNKAQAMKVLAARIKDVQLRQQQSEEAATR--KSLIG 299 Query: 303 WG---HQIRSYVLDQSRIKDLRTNFETGNTKAVLDGDIDDFIAA 343 G +IR+Y Q R+ D R N ++DGD+D+ A Sbjct: 300 SGDRSERIRTYNFPQGRMTDHRINLTLYKLDFIMDGDLDELTNA 343 >gi|300309541|ref|YP_003773633.1| aspartyl-tRNA synthetase [Herbaspirillum seropedicae SmR1] Length = 599 Score = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/303 (22%), Positives = 133/303 (43%), Gaps = 27/303 (8%) Query: 402 LHAKYDGLENEALEAEPVQVTVAGRMMLKRVMGKAAFATLQDASGVRADGRIQLYVTRD- 460 + +Y GL EAL + V++ G + +R G F L+D G+ +Q+ D Sbjct: 1 MRTQYCGLTTEALLGQ--TVSLCGWVHRRRDHGGVIFIDLRDREGL-----VQVVCDPDR 53 Query: 461 ----VTGEEAMAAFKHYDLGDILG-AEGTL-FKTKTGELSIKVTKLKLITKSLRPLPDKF 514 E F G + EGT K+G++ + +L+++ S+ P Sbjct: 54 ADVFKNAESVRNEFCLRITGLVRNRPEGTTNANLKSGKIEVLCHELEVLNPSVTPPFQLD 113 Query: 515 HGLADQEMKYRQRYVDLIMSEETRRTFKARTAAMSSIRRFMETNGFMEVETPML-HPIPG 573 + + R +DL + + + R +R+F++ GF+++ETPML P Sbjct: 114 DDSLSETTRLTHRVLDL-RRPQMQNNLRLRYKVAMEVRKFLDAQGFIDIETPMLTKSTPE 172 Query: 574 GAAAKPFITHHNALDMQMFMRIAPELYLKRLVVGGFERVFEVNRNFRNEGVSPRHNPEFT 633 GA + NA + + +P+L+ + L+V F+R +++ + FR+E + PEFT Sbjct: 173 GARDYLVPSRVNAGEF-FALPQSPQLFKQLLMVANFDRYYQITKCFRDEDLRADRQPEFT 231 Query: 634 MMEFYAAYVDYQWLMGFTEQVIRQAAIDAHGTAVLTYQGRELDLSKPFDRLTITGAILKY 693 ++ ++++ Q + E +IR ++ ++DL PF + A+ KY Sbjct: 232 QIDCETSFLNEQEIRDLFEGMIR----------LVFKNALDIDLPNPFPVMDFATAMGKY 281 Query: 694 APN 696 + Sbjct: 282 GSD 284 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 0.133 0.382 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: 2,473,360 Number of extensions: 98713 Number of successful extensions: 266 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 264 Number of HSP's successfully gapped: 4 Length of query: 866 Length of database: 1,619,870 Length adjustment: 94 Effective length of query: 772 Effective length of database: 1,174,780 Effective search space: 906930160 Effective search space used: 906930160 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 (21.7 bits) S2: 135 (56.6 bits)