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= 0225.0045.p (734 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309349|ref|YP_003773441.1| DNA gyrase subunit B [Herbaspir... 1085 0.0 gi|300311161|ref|YP_003775253.1| DNA topoisomerase IV subunit B ... 312 7e-86 >gi|300309349|ref|YP_003773441.1| DNA gyrase subunit B [Herbaspirillum seropedicae SmR1] Length = 832 Score = 1085 bits (2805), Expect = 0.0, Method: Compositional matrix adjust. Identities = 529/575 (92%), Positives = 555/575 (96%) Query: 1 MYIGDTSDGTGLHHLVFEVLDNSIDEALAGHCTEIHVTIHSDNSISVTDNGRGIPTGLKM 60 MYIGDTSDGTGLHHLVFEVLDNSIDEALAG+C+EIHVTIH+DNSIS+TDNGRGIPTGLKM Sbjct: 36 MYIGDTSDGTGLHHLVFEVLDNSIDEALAGYCSEIHVTIHADNSISITDNGRGIPTGLKM 95 Query: 61 DDKHEPKRSAAEIVMTELHAGGKFDQNSYKVSGGLHGVGVSCVNGLSKLLRLTIRRDGKM 120 DDKHEPKRSAAEIVMTELHAGGKFDQNSYKVSGGLHGVGVSCVN LSK L+LTIRRDGK+ Sbjct: 96 DDKHEPKRSAAEIVMTELHAGGKFDQNSYKVSGGLHGVGVSCVNALSKKLKLTIRRDGKV 155 Query: 121 YGMEFVRGIPQDRQIEVIDGVQVSPIKVLGDTDKRGTEVHFWADEEIFTHVEFHYEILAK 180 + MEF +GI Q+R++E++DGVQVSPIKV+G++DKRGTEVHFWADEEIFTHVEFHYEILAK Sbjct: 156 HAMEFAKGIVQNRELEMVDGVQVSPIKVIGESDKRGTEVHFWADEEIFTHVEFHYEILAK 215 Query: 181 RIRELSFLNNGVHIKLTDQRTGKEEDFAFEGGTRGFVEYINKNKSILNPTIFQATGERMS 240 RIRELSFLNNGVHIKLTDQRTGKEEDFAFEGGTRGFVEYINKNKSILNPTIFQATGE+ S Sbjct: 216 RIRELSFLNNGVHIKLTDQRTGKEEDFAFEGGTRGFVEYINKNKSILNPTIFQATGEKQS 275 Query: 241 DQNTNISVDVSMQWNDAYNEQVLCFTNNIPQRDGGTHLTGLRAAMTRVINKYIEENDFAK 300 DQ T I+VDVSMQWNDA+NEQVLCFTNNIPQRDGGTHLTGLRAAMTRVINKYIEEND AK Sbjct: 276 DQGTMITVDVSMQWNDAFNEQVLCFTNNIPQRDGGTHLTGLRAAMTRVINKYIEENDLAK 335 Query: 301 KAKVEVSGDDMREGLTCVLSVKVPEPKFSSQTKDKLVSSEVRGPVEEIVAKTLTDFLQER 360 KAKVE+SGDDMREGLTCVLSVKVPEPKFSSQTKDKLVSSEVRGPVEEIVAKTLTDFL E+ Sbjct: 336 KAKVEISGDDMREGLTCVLSVKVPEPKFSSQTKDKLVSSEVRGPVEEIVAKTLTDFLAEK 395 Query: 361 PNDAKIICGKIVEAARAREAARKARELTRRKGVMDGLGLSAKLADCQEKDPALCELYIVE 420 PNDAKIICGKIVEAARAREAARKARELTRRKGVMDGLGLS+KLADCQE+DPALCELYIVE Sbjct: 396 PNDAKIICGKIVEAARAREAARKARELTRRKGVMDGLGLSSKLADCQERDPALCELYIVE 455 Query: 421 GDSAGGSAKQGRDRKFQAILPLRGKVLNVEKARFEKMLSSEQITTLIATLGTSIGPDEFN 480 GDSAGGSAKQGRDRKFQAILPLRGKVLNVEKARFEKMLSSEQITTLIATLGTSIG DEFN Sbjct: 456 GDSAGGSAKQGRDRKFQAILPLRGKVLNVEKARFEKMLSSEQITTLIATLGTSIGADEFN 515 Query: 481 ADKLRYHRIIIMTDADVDGAHIRTLLLTLFYRQMPQLVERGHIYIAQPPLYKVKAGKDER 540 DKLRYHRIIIMTDADVDGAHIRTLLLTLFYRQMP LVERGHIYIAQPPLYKVKAGKDER Sbjct: 516 PDKLRYHRIIIMTDADVDGAHIRTLLLTLFYRQMPALVERGHIYIAQPPLYKVKAGKDER 575 Query: 541 YLKDDVEEAHYMMQIALNDAELVPSEGAAPISGPA 575 YLKDD EEA YMMQIALNDAE+ P+E A I+G A Sbjct: 576 YLKDDFEEAQYMMQIALNDAEIKPAEDAPAITGEA 610 >gi|300311161|ref|YP_003775253.1| DNA topoisomerase IV subunit B [Herbaspirillum seropedicae SmR1] Length = 662 Score = 312 bits (799), Expect = 7e-86, Method: Compositional matrix adjust. Identities = 197/537 (36%), Positives = 303/537 (56%), Gaps = 37/537 (6%) Query: 14 HLVFEVLDNSIDEALAGHCTEIHVTIHSDNSISVTDNGRGIPTGLKMDDKHEPKRSAAEI 73 H++ EV+DN+ DEAL G+ I VT+++D S+SV D+GRGIP GL E K EI Sbjct: 40 HILQEVIDNASDEALGGYGKSIIVTMNADGSVSVEDDGRGIPVGLH----PEEKVPTVEI 95 Query: 74 VMTELHAGGKFDQNS---YKVSGGLHGVGVSCVNGLSKLLRLTIRRDGKMYGMEFVRGIP 130 V T LHAGGKFD+ S Y SGGLHGVGVS N L+ L +T+ R+G ++ + F G Sbjct: 96 VFTRLHAGGKFDKGSGGAYAFSGGLHGVGVSVTNALATRLEITVWREGGVHTLAFSGG-- 153 Query: 131 QDRQIEVIDGVQVSPIKVLGDTDKRGTEVHFWADEEIFTHVEFHYEILAKRIRELSFLNN 190 +VI+ ++ P D K GT V W D + F L + +R + L Sbjct: 154 -----DVIEKLKSRP--ATRDDKKSGTRVTVWPDAKYFDSPTIPMGELQRLLRSKAVLLP 206 Query: 191 GVHIKLTDQRTGKEEDFAFEGGTRGFV-EYINKNKS--ILNPTIFQATGERMSDQNTN-I 246 GV + LT+ +TG + + ++ G RG++ E + + S L P +F+ GE+ + ++ + Sbjct: 207 GVKVTLTNGKTGDSQSWQYDQGLRGYLMEQLAQTGSGETLIP-LFE--GEQFAGKDADGF 263 Query: 247 SVDVSMQWNDAYNEQVLC----FTNNIPQRDGGTHLTGLRAAMTRVINKYIEENDFAKKA 302 + W A+ E+ + N IP +GGTH +GLR + + + E + K Sbjct: 264 AEGEGASWVVAWTEEGAVVRESYVNLIPTSNGGTHESGLREGLFSAVKSFAEMHSLLPKG 323 Query: 303 KVEVSGDDMREGLTCVLSVKVPEPKFSSQTKDKLVSSEVRGPVEEIVAKTLTDFLQERPN 362 V++ +D+ ++ VLS KV +P+F Q K++L S + V L +L + + Sbjct: 324 -VKLLAEDVFARVSFVLSAKVLDPQFQGQIKERLNSRDAVRLVAGFSRPALELWLNQHVD 382 Query: 363 DAKIICGKIVEAARAREAARKARELTRRKGVMDGLGLSAKLADCQEKDPALCELYIVEGD 422 K + +++ A++R + + E + GV L KL DC+ D + EL++VEGD Sbjct: 383 YGKKLAELVIKQAQSRLRSAQKVEKKKSSGVAV---LPGKLTDCESSDVSRNELFLVEGD 439 Query: 423 SAGGSAKQGRDRKFQAILPLRGKVLNVEKARFEKMLSSEQITTLIATLGTSIGP----DE 478 SAGGSAK GRD++FQAILPLRGKVLN + +++ ++ +I + +G + P D Sbjct: 440 SAGGSAKMGRDKEFQAILPLRGKVLNAWETERDRLFANNEIHDIAVAIG--VDPHGINDT 497 Query: 479 FNADKLRYHRIIIMTDADVDGAHIRTLLLTLFYRQMPQLVERGHIYIAQPPLYKVKA 535 + LRY +I I++DADVDG+HI+ LLLTLF+R P+L+E G+I +A+PPLY+V A Sbjct: 498 PDLSGLRYGKICILSDADVDGSHIQVLLLTLFFRHFPKLIENGNICVARPPLYRVDA 554 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 0.319 0.135 0.399 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: 1,889,151 Number of extensions: 71629 Number of successful extensions: 208 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 201 Number of HSP's successfully gapped: 2 Length of query: 734 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 642 Effective length of database: 1,184,250 Effective search space: 760288500 Effective search space used: 760288500 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: 134 (56.2 bits)