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= 0001.0041.p (360 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309368|ref|YP_003773460.1| hypothetical protein Hsero_0022... 595 e-171 gi|300309369|ref|YP_003773461.1| hypothetical protein Hsero_0023... 577 e-166 gi|300309374|ref|YP_003773466.1| hypothetical protein Hsero_0028... 487 e-139 gi|300309371|ref|YP_003773463.1| signal peptide protein [Herbasp... 436 e-123 gi|300313608|ref|YP_003777700.1| hypothetical protein Hsero_4323... 64 2e-11 >gi|300309368|ref|YP_003773460.1| hypothetical protein Hsero_0022 [Herbaspirillum seropedicae SmR1] Length = 357 Score = 595 bits (1534), Expect = e-171, Method: Compositional matrix adjust. Identities = 280/349 (80%), Positives = 309/349 (88%) Query: 1 MKKKLRLIAIPTLVVWFFLSGDISLQKGLHIMNTAKASESAPALSTFCTGHFLLDMPAGS 60 +KK LR IAI VW FLSGD S Q+G HIMNT++A ES A STFCTG FL+DMPAGS Sbjct: 3 IKKSLRRIAISAFTVWLFLSGDFSPQQGSHIMNTSQAHESGSAPSTFCTGRFLIDMPAGS 62 Query: 61 VLSGGNYRYDFARLERPKAMSLEEFETEMATTEKTLRSTKHKVEPSLLRLLVKPDPQSWI 120 VLSGGNYRYDF RL++PKAM+LEEFE EMAT EKTL STKHKVEPSLLRLLVKPDP SWI Sbjct: 63 VLSGGNYRYDFVRLDKPKAMTLEEFEVEMATKEKTLSSTKHKVEPSLLRLLVKPDPYSWI 122 Query: 121 FVYWEEDFITSVVQVDGYRWIDGTRYLFKAEAGHGKPATGTRSYQDNTVERVRKILSSLH 180 F+YWEE F+TS+ QVDGYRWI+GTRYLF++ AG KP TGT S QD +E +RK+LSSL Sbjct: 123 FIYWEESFVTSIAQVDGYRWINGTRYLFRSHAGMSKPRTGTMSRQDYAIEGMRKMLSSLK 182 Query: 181 KRSTHEIPTEPGYCFEDGFIANPKWEMEEAGIDIDIAGHPDAFVSVWFYPLAMRAHSQPL 240 KRSTHEIP+EPGYCFE GFIANP+WEMEEA IDIDIAGHPDAFVS+WFYPL+ RAHS PL Sbjct: 183 KRSTHEIPSEPGYCFEGGFIANPEWEMEEAAIDIDIAGHPDAFVSIWFYPLSRRAHSAPL 242 Query: 241 LDRMGGVLQMLGRMATSVHVLRRGDRQVGPYKGQEFLVTAPNSGGMRGHSFIWETEGEGT 300 LDR+GGVLQ LGRMATSVHVLRRGDRQVGPYKGQEFLVTAPNSGG+RGHSFIWETEGEGT Sbjct: 243 LDRVGGVLQALGRMATSVHVLRRGDRQVGPYKGQEFLVTAPNSGGLRGHSFIWETEGEGT 302 Query: 301 LDTPALKIELTTGHRAKDGNPQKTRLTDEQAMKLWDDVLNSFRLRPVDA 349 LD PALKIELTTGHR K+GNPQ+TRLT+E+AMKLWD+VL+SFRLRPV A Sbjct: 303 LDAPALKIELTTGHRDKNGNPQQTRLTNEEAMKLWDEVLDSFRLRPVVA 351 >gi|300309369|ref|YP_003773461.1| hypothetical protein Hsero_0023 [Herbaspirillum seropedicae SmR1] Length = 353 Score = 577 bits (1487), Expect = e-166, Method: Compositional matrix adjust. Identities = 270/347 (77%), Positives = 311/347 (89%), Gaps = 2/347 (0%) Query: 1 MKKKLRLIAIPTLVVWFFLSGDISLQKGLHIMNTAKASESAPALSTFCTGHFLLDMPAGS 60 M K LRLI + + +LSGDIS ++GLHI+NTA+A+ESAPA+STFCTG FL+DMPAGS Sbjct: 1 MGKPLRLIVTAAMPILLWLSGDISSRQGLHIINTAQANESAPAVSTFCTGRFLIDMPAGS 60 Query: 61 VLSGGNYRYDFARLERPKAMSLEEFETEMATTEKTLRSTKHKVEPSLLRLLVKPDPQSWI 120 VLSGGNYRYDFARL++P+AMSLEEFE EMAT EK LRSTKH+ EPSLLRLL+K DP SWI Sbjct: 61 VLSGGNYRYDFARLDKPRAMSLEEFEAEMATKEKKLRSTKHETEPSLLRLLIKSDPHSWI 120 Query: 121 FVYWEEDFITSVVQVDGYRWIDGTRYLFKAEAGHGKPATGTRSYQDNTVERVRKILSSLH 180 F +WE DF +V VDGYRWIDGTR+LF+++AG KP +GT+SYQ++ ++R++ IL+ L Sbjct: 121 FAHWEYDFSEHIVLVDGYRWIDGTRFLFRSKAGMSKPPSGTKSYQEDAIDRMQTILAGLR 180 Query: 181 KRSTHEIPTEPGYCFEDGFIANPKWEMEEAGIDIDIAGHPDAFVSVWFYPLAMRAHSQPL 240 KRSTHEIPTEPGYCFE GFIANP+WEMEEAG IDIAGHPDA+VSVWFYPL++RAHSQPL Sbjct: 181 KRSTHEIPTEPGYCFEGGFIANPEWEMEEAG--IDIAGHPDAYVSVWFYPLSLRAHSQPL 238 Query: 241 LDRMGGVLQMLGRMATSVHVLRRGDRQVGPYKGQEFLVTAPNSGGMRGHSFIWETEGEGT 300 LDR+GGVLQMLGRMATSVH LRRGDRQVGPYKGQEFLVTAPNSGG+RGHSFIWETEGEGT Sbjct: 239 LDRVGGVLQMLGRMATSVHALRRGDRQVGPYKGQEFLVTAPNSGGLRGHSFIWETEGEGT 298 Query: 301 LDTPALKIELTTGHRAKDGNPQKTRLTDEQAMKLWDDVLNSFRLRPV 347 LD PALKIELTTGHR K+GNPQ+TRLT+EQAMKLWD+VL+SFRLRPV Sbjct: 299 LDAPALKIELTTGHRDKNGNPQQTRLTNEQAMKLWDEVLDSFRLRPV 345 >gi|300309374|ref|YP_003773466.1| hypothetical protein Hsero_0028 [Herbaspirillum seropedicae SmR1] Length = 326 Score = 487 bits (1254), Expect = e-139, Method: Compositional matrix adjust. Identities = 227/328 (69%), Positives = 263/328 (80%), Gaps = 2/328 (0%) Query: 32 MNTAKASESAPALSTFCTGHFLLDMPAGSVLSGGNYRYDFARLERPKAMSLEEFETEMAT 91 MN A+AS + P++STFCTG F+LDMPAGS LSGGNYRYDFARLE P+AMSLEEFE E+ Sbjct: 1 MNFAQASRAVPSVSTFCTGRFMLDMPAGSTLSGGNYRYDFARLEAPQAMSLEEFEAELDA 60 Query: 92 TEKTLRSTKHKVEPSLLRLLVKPDPQSWIFVYWEEDFITSVVQVDGYRWIDGTRYLFKAE 151 KTLRS KH+ EPSLLR+L+KPD S I VYWEE FI + QV+GYRWIDGTRYLFK E Sbjct: 61 KVKTLRSIKHETEPSLLRMLIKPDQHSRILVYWEESFIEEIAQVEGYRWIDGTRYLFKTE 120 Query: 152 AGHGKPATGTRSYQDNTVERVRKILSSLHKRSTHEIPTEPGYCFEDGFIANPKWEMEEAG 211 AG P G SYQ + +ER+R L++L KR+TH+IP +PGYCFE GFIANP WE EEAG Sbjct: 121 AGMSPPPAGMPSYQADAIERMRLTLAALRKRATHDIPQDPGYCFEGGFIANPDWENEEAG 180 Query: 212 IDIDIAGHPDAFVSVWFYPLAMRAHSQPLLDRMGGVLQMLGRMATSVHVLRRGDRQVGPY 271 IDIDIAGHPDAFVS+WFYPLAM H +PLLDRM LQ LG +AT+V LR+GDRQVGPY Sbjct: 181 IDIDIAGHPDAFVSLWFYPLAMSKHDRPLLDRMSSGLQTLGHLATAVRTLRKGDRQVGPY 240 Query: 272 KGQEFLVTAPNSGGMRGHSFIWETEGEGTLDTPALKIELTTGHRAKDGNPQKTRLTDEQA 331 +GQEFL T PN GG R HSFIWETEG+GTLDTPA+KIELTTGH K+ N Q TR++D QA Sbjct: 241 QGQEFLATTPNRGGGRSHSFIWETEGQGTLDTPAIKIELTTGHHDKNSNAQATRMSDAQA 300 Query: 332 MKLWDDVLNSFRLRPVDAVPPSATPTQP 359 ++LWD+VLNSFRLRP A+PP A+ P Sbjct: 301 LQLWDEVLNSFRLRP--AIPPQASSPSP 326 >gi|300309371|ref|YP_003773463.1| signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 436 bits (1121), Expect = e-123, Method: Compositional matrix adjust. Identities = 207/347 (59%), Positives = 250/347 (72%), Gaps = 5/347 (1%) Query: 1 MKKKLRLIAIPTLVVWFFLSGDISLQKGLHIMNTAKASESAPALSTFCTGHFLLDMPAGS 60 +K + I ++ +SGD+S+ G M + ++TFC G FL+D+P GS Sbjct: 3 LKSSFFINGISIVLCTVAMSGDLSIYPGSGSMKKPPS-----PMTTFCVGRFLIDVPKGS 57 Query: 61 VLSGGNYRYDFARLERPKAMSLEEFETEMATTEKTLRSTKHKVEPSLLRLLVKPDPQSWI 120 LSGGNY YDF +ERP+A+ EEF +A E+ L+ KH EPSLLR++ PD S I Sbjct: 58 TLSGGNYIYDFTHIERPQALEFEEFSARLAERERLLKEEKHNSEPSLLRVVESPDVHSRI 117 Query: 121 FVYWEEDFITSVVQVDGYRWIDGTRYLFKAEAGHGKPATGTRSYQDNTVERVRKILSSLH 180 VYWE FIT+ +VDGY W+DG ++L K AG P G S QD V R+R+ L++L Sbjct: 118 HVYWESAFITAAAEVDGYLWMDGVQFLLKTWAGTSPPPPGITSRQDYAVARMRETLANLR 177 Query: 181 KRSTHEIPTEPGYCFEDGFIANPKWEMEEAGIDIDIAGHPDAFVSVWFYPLAMRAHSQPL 240 R +IPTEPGYCFE GFIANP+WE EEAGIDIDIAGHPDAFVSVWFYPL M H +PL Sbjct: 178 TRQDDDIPTEPGYCFEGGFIANPEWENEEAGIDIDIAGHPDAFVSVWFYPLLMSKHDKPL 237 Query: 241 LDRMGGVLQMLGRMATSVHVLRRGDRQVGPYKGQEFLVTAPNSGGMRGHSFIWETEGEGT 300 L RM +Q LGR+A +V VLR+G+RQVGPY GQEFLV+APNSGGMRGHSFIWETEGEGT Sbjct: 238 LTRMSSAIQSLGRLAAAVRVLRKGERQVGPYTGQEFLVSAPNSGGMRGHSFIWETEGEGT 297 Query: 301 LDTPALKIELTTGHRAKDGNPQKTRLTDEQAMKLWDDVLNSFRLRPV 347 LDTPALKIEL TGH KD NPQKT+L+D QA++LWD+VLNSFRLRPV Sbjct: 298 LDTPALKIELITGHHDKDSNPQKTKLSDAQAIQLWDEVLNSFRLRPV 344 >gi|300313608|ref|YP_003777700.1| hypothetical protein Hsero_4323 [Herbaspirillum seropedicae SmR1] Length = 367 Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 85/347 (24%), Positives = 144/347 (41%), Gaps = 47/347 (13%) Query: 34 TAKASESAPALST----FCTGHFLLDMPAGSVLSG-GNYRYDFARLERPKAMSLEEFETE 88 TAK ++ A++ C G +L+D+P VL+ G D ++ KA S EF+ Sbjct: 31 TAKETQKMNAITEKMIPRCFGRYLIDLPESFVLNTEGGQEIDGVTID-IKAQSETEFQRA 89 Query: 89 MATTEKTLRSTKHKVEP---SLLRLLVKPDPQSWIFVYWEEDFITSVVQVDGYRWIDGTR 145 + ++ L S VEP +L ++ P+ + IF E +F ++ W DG + Sbjct: 90 LEARKRVLESETLLVEPRTATLKEIVALPNRRGVIFNRAESEFNNVFRILELMDWRDGYQ 149 Query: 146 YLFKAEA---GHGKPATGTRSYQDNTVERVRKILSSLHKRST--HEIPTEPGYCFEDGFI 200 K +A + K + ER+ +L H+ +EIP+ G C +GF+ Sbjct: 150 IKMKIDARDRHYSKEKLPAGTVISTVPERMATLLKVYHRTRPRGNEIPSGQGICILNGFV 209 Query: 201 ANPKWEMEEAGIDIDIAGHPDAFVSVWFYPLAMRA--HSQPLLDRMGGVLQML----GRM 254 P E I H + V+F + + LLDRM + + GR+ Sbjct: 210 EGPASSAE----SIRFFYHLNEVDDVYFTLATLSGPRDADTLLDRMKFLAPIWKTDGGRL 265 Query: 255 ATSVHVLRRGDRQVGPYKGQEFLVTAPNS-GGMRGHSFIWET--EGEGTLDTPALKIELT 311 S + R GQE L AP+ + F +E G+G + P++++ + Sbjct: 266 IRSGRIYRE-------LPGQEVLYMAPDEHTKIPALEFRYEDTRRGDGATN-PSIEVGMN 317 Query: 312 TGHRAKDGNPQKTR------------LTDEQAMKLWDDVLNSFRLRP 346 G R + +P+ L++ +A+ LWD VL + R RP Sbjct: 318 VGTRKPEPDPEDPDEHAYPPPIFTPSLSEAEAIHLWDKVLPTLRTRP 364 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 0.414 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: 1,244,848 Number of extensions: 53718 Number of successful extensions: 130 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 128 Number of HSP's successfully gapped: 5 Length of query: 360 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 274 Effective length of database: 1,212,660 Effective search space: 332268840 Effective search space used: 332268840 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: 131 (55.1 bits)