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= 0001.3195.p (258 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312530|ref|YP_003776622.1| transmembrane protein [Herbaspi... 316 1e-87 gi|300312046|ref|YP_003776138.1| hypothetical protein Hsero_2734... 186 2e-48 >gi|300312530|ref|YP_003776622.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 316 bits (809), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 185/256 (72%), Positives = 210/256 (82%), Gaps = 6/256 (2%) Query: 1 MPLSVLLSALASSLLLPPVSPVLLSLAGCWLRRRAPR---TGLALMLLGVALLLVLSTRV 57 MPLSVL+SALAS+LLLPPVSP+LL+LAG LRR APR GL L++LGVA LLVLSTRV Sbjct: 16 MPLSVLVSALASTLLLPPVSPLLLALAGLLLRRHAPRWRRFGLLLIVLGVATLLVLSTRV 75 Query: 58 AALWLIQPLQRQYPPLTHPGQIKQAQAIVILGSGRIDAAPEYGGSDEPTPIGMKRLQYGA 117 +L LI PL+ YP L PGQ AQAIVILGSGRID APEYGG D+ IGMKRLQYGA Sbjct: 76 GSLLLIAPLENSYPVLRSPGQ---AQAIVILGSGRIDRAPEYGGLDDANAIGMKRLQYGA 132 Query: 118 FLQRQSGLPILVSGGSPDGSPESEAALMARSLQRDFGVPVRWQETHSDTTAQNARDSAAL 177 +L RQSGLPILV+GG+PDGSPESEAA+MAR+L+RDF VPVRWQE S+TT NA SAA+ Sbjct: 133 YLHRQSGLPILVTGGNPDGSPESEAAVMARTLERDFAVPVRWQEGRSNTTYDNATLSAAM 192 Query: 178 LKAEGITRILLVTDSVHMPRAMRAFAQTGLQVQAAPTLLLQPARARVSDYLPGASHLQMS 237 LK GI+RILLVTDS+HMPRAM+ FA TGLQVQAAPT+ AR RV+DYLP A+ LQ++ Sbjct: 193 LKEAGISRILLVTDSLHMPRAMQVFATTGLQVQAAPTVFAGQARTRVTDYLPNAASLQLA 252 Query: 238 SYALRERIGQWWYRVR 253 SYALRE IGQ WYRVR Sbjct: 253 SYALREWIGQLWYRVR 268 >gi|300312046|ref|YP_003776138.1| hypothetical protein Hsero_2734 [Herbaspirillum seropedicae SmR1] Length = 263 Score = 186 bits (472), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 111/230 (48%), Positives = 147/230 (63%), Gaps = 5/230 (2%) Query: 32 RRRAP--RTGLALMLLGVALLLVLSTRVAALWLIQPLQRQYPPLTHPGQIKQAQAIVILG 89 RR AP G ++ LGVALL ++ A +++PL++ YP L+ +QAQAIV+L Sbjct: 29 RRPAPIGHIGQVMVALGVALLTLICMPAVADLMVRPLEQGYPVLSAEAA-RQAQAIVVLA 87 Query: 90 SGRIDAAPEYGGSDEPTPIGMKRLQYGAFLQRQSGLPILVSGGSP-DGSPESEAAL-MAR 147 +G +D APEY G D+P + + RL+Y A LQ Q+GLP+LVSGG+ + +PE AL MA Sbjct: 88 AGSLDQAPEYEGRDQPDYVALARLRYAARLQHQTGLPVLVSGGNAREETPEQNKALAMAE 147 Query: 148 SLQRDFGVPVRWQETHSDTTAQNARDSAALLKAEGITRILLVTDSVHMPRAMRAFAQTGL 207 +L+ DF PVRW E S+ T +NA SAALL+A+G+ R+LLVTD++HMPRAM AFAQ GL Sbjct: 148 ALREDFRTPVRWIEGGSENTEENALRSAALLRADGVQRVLLVTDAMHMPRAMLAFAQAGL 207 Query: 208 QVQAAPTLLLQPARARVSDYLPGASHLQMSSYALRERIGQWWYRVRGATA 257 AAPT R R LP A L+ S YA E +G WYR+R A Sbjct: 208 VPTAAPTAFFSLPRWRWPALLPSAEGLRRSWYASYEWLGLGWYRLRAGQA 257 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 0.134 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: 685,752 Number of extensions: 26292 Number of successful extensions: 99 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 95 Number of HSP's successfully gapped: 2 Length of query: 258 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 175 Effective length of database: 1,226,865 Effective search space: 214701375 Effective search space used: 214701375 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: 129 (54.3 bits)