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= 0545.0003.p (311 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KFY5.1 B3KFY5_9BACI RNA binding S1 domain protein 408 e-112 B1DBK5.1 B1DBK5_9BACL RNA binding S1 domain protein 206 2e-51 C0Z5T3.1 C0Z5T3_BREBN Putative uncharacterized protein yitL 202 2e-50 C5D743.1 C5D743_9BACI RNA binding S1 domain protein 198 5e-49 B7GMA9.1 B7GMA9_ANOFW Uncharacterized protein conserved in bacte... 195 4e-48 >B3KFY5.1 B3KFY5_9BACI RNA binding S1 domain protein Length = 300 Score = 408 bits (1049), Expect = e-112, Method: Compositional matrix adjust. Identities = 209/296 (70%), Positives = 230/296 (77%), Gaps = 1/296 (0%) Query: 1 MSLIAGTTVTLEVLREVSPYGYFLGAGGQEVMLHYTELVGSKPKTGDKVEVFIFFDTEDR 60 MSLIAGT L V REVSPYGYFL G ++V+LHY+EL G K + GD +EVFIFFDTEDR Sbjct: 1 MSLIAGTLTKLVVSREVSPYGYFLDGGDRDVLLHYSELTG-KIEPGDTIEVFIFFDTEDR 59 Query: 61 LAATMKKPFLTLGEMALLEVADIHPRLGCFLEMGLGRQLLLPIRELPELVELRPQVGDKV 120 LAATMKKP+LTLGE A LEVAD+HPRLGCFLEMGLGRQLLLPIRELPE+ EL PQVGD V Sbjct: 60 LAATMKKPYLTLGETAKLEVADVHPRLGCFLEMGLGRQLLLPIRELPEMRELHPQVGDHV 119 Query: 121 FVLMEHDKQGRLRAKLAGEQEXXXXXXXXXXSWMGQTVKARVYKPLQMXXXXXXXXXXXX 180 FV+MEHDKQGRLRAKLAGEQE SW GQ A VYKPLQM Sbjct: 120 FVIMEHDKQGRLRAKLAGEQELAPLAFHAPDSWKGQWFTALVYKPLQMGTFVIIDGGVVG 179 Query: 181 XXXXXXXHSSERSRLLRLGEEFEARVSHIREDGRVNLSMSQRKEIGRDVDSAALLDFLKE 240 HSSER+R+LRLGEE + RVSHIREDGRVNLSM +KEIGR D+ LL FLKE Sbjct: 180 FGAIGMIHSSERTRMLRLGEEVKVRVSHIREDGRVNLSMVPQKEIGRTDDADRLLAFLKE 239 Query: 241 RPGGAMPYSDATPPEIIKQRFGISKSAFKRALGKLMKEGLVTQKENWTYLARSEED 296 RPG AMPYSD TPP+IIKQRFGISKSAFKRALGKLMK+GLVTQK++WTY+ EE+ Sbjct: 240 RPGHAMPYSDETPPDIIKQRFGISKSAFKRALGKLMKDGLVTQKDSWTYMVNQEEN 295 >B1DBK5.1 B1DBK5_9BACL RNA binding S1 domain protein Length = 174 Score = 206 bits (524), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 105/162 (64%), Positives = 120/162 (74%) Query: 1 MSLIAGTTVTLEVLREVSPYGYFLGAGGQEVMLHYTELVGSKPKTGDKVEVFIFFDTEDR 60 MSL AGT VTL V REVSPYGYFL EV+LHYTELVG KPK D+VEVFIF+D+EDR Sbjct: 1 MSLTAGTIVTLRVAREVSPYGYFLTDEESEVLLHYTELVGKKPKMNDEVEVFIFYDSEDR 60 Query: 61 LAATMKKPFLTLGEMALLEVADIHPRLGCFLEMGLGRQLLLPIRELPELVELRPQVGDKV 120 +AATMK+P + LGEMA L+VAD+HPRLGCFLE GLGRQLLLPI ELPE +E RP GD+V Sbjct: 61 IAATMKRPKILLGEMARLKVADVHPRLGCFLEFGLGRQLLLPISELPEKMEFRPLPGDEV 120 Query: 121 FVLMEHDKQGRLRAKLAGEQEXXXXXXXXXXSWMGQTVKARV 162 V++ HDK GRL A+ AGE E SW Q V+ V Sbjct: 121 HVVLGHDKAGRLLARTAGEDELGPLVFEAPQSWRNQWVEGWV 162 >C0Z5T3.1 C0Z5T3_BREBN Putative uncharacterized protein yitL Length = 287 Score = 202 bits (515), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 120/294 (40%), Positives = 170/294 (57%), Gaps = 8/294 (2%) Query: 3 LIAGTTVTLEVLREVSPYGYFLGAGGQEVMLHYTELVGSKPKTGDKVEVFIFFDTEDRLA 62 + AG T+T+ V R+ + GYFL G EV LH E + D+VEVF++ D E+RLA Sbjct: 1 MAAGMTLTMTVARK-TEIGYFLSDGKDEVFLHANE-AHERLHIDDEVEVFLYHDHENRLA 58 Query: 63 ATMKKPFLTLGEMALLEVADIHPRLGCFLEMGLGRQLLLPIRELPELVELRPQVGDKVFV 122 ATM P + +GE LEV DI PR+G FL+ G+ + LLL I +LP+ + P+ D++ V Sbjct: 59 ATMDMPHVGMGEYGWLEVVDISPRMGVFLDNGINKDLLLFIDDLPKHSDEWPRPKDQMLV 118 Query: 123 LMEHDKQGRLRAKLAGEQEXXXXXXXXXXSWMGQTVKARVYKPLQMXXXXXXXXXXXXXX 182 ++ DK GRL AK E E S ++V+ VYK +Q Sbjct: 119 ALKQDKLGRLLAKPVTENEIVKIAAMADESMKNKSVEGTVYKVIQ-----AGAFLLTEDE 173 Query: 183 XXXXXHSSERSRLLRLGEEFEARVSHIREDGRVNLSMSQRKEIGRDVDSAALLDFLKERP 242 H E LRLG+ R+S +REDGR+N SM +RKE+ D+ LL +L R Sbjct: 174 HILFIHRDEMVGRLRLGQTVRCRISFVREDGRLNGSMKERKEVQYGEDADKLLRYLINRD 233 Query: 243 GGAMPYSDATPPEIIKQRFGISKSAFKRALGKLMKEGLVTQKENWTYLARSEED 296 GAMPY+D+T ++I+++F +SKS+FKRALGKLMKE V Q + WT + +SE++ Sbjct: 234 -GAMPYTDSTEADVIREKFQMSKSSFKRALGKLMKERRVEQVDGWTKIIQSEQE 286 >C5D743.1 C5D743_9BACI RNA binding S1 domain protein Length = 286 Score = 198 bits (503), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 114/291 (39%), Positives = 169/291 (58%), Gaps = 8/291 (2%) Query: 3 LIAGTTVTLEVLREVSPYGYFLGAGGQEVMLHYTELVGSKPKTGDKVEVFIFFDTEDRLA 62 LI G +TL V RE+ P+G FL G +EVMLH E + D+ VF++ D + +L Sbjct: 4 LIPGEIMTLTVKREM-PFGCFLTNGTEEVMLHKRE-ANTTLAVDDEATVFLYHDHDGQLC 61 Query: 63 ATMKKPFLTLGEMALLEVADIHPRLGCFLEMGLGRQLLLPIRELPELVELRPQVGDKVFV 122 ATMK P +T + +EV DI P+L F+++G+ + +L+ I +LP L P+ GD+++ Sbjct: 62 ATMKMPKITNHKYDWVEVVDIVPKLDVFVDIGISKDMLVSIDDLPPLRSQWPKRGDQLYC 121 Query: 123 LMEHDKQGRLRAKLAGEQEXXXXXXXXXXSWMGQTVKARVYKPLQMXXXXXXXXXXXXXX 182 ++ DK+GRL AKLA ++ S Q ++ RVY+ +++ Sbjct: 122 SLKTDKRGRLLAKLADDETMKQIAVKAPESAFNQNIRGRVYRVIKV-----GAFLISDVG 176 Query: 183 XXXXXHSSERSRLLRLGEEFEARVSHIREDGRVNLSMSQRKEIGRDVDSAALLDFLKERP 242 H S+ RLGE E R+ ++EDG VN+S+ RK D D+AA+ +L+ R Sbjct: 177 YLGFVHESQWRNAPRLGEVVEGRIIAVKEDGTVNVSLLPRKHESIDEDAAAIYTYLESR- 235 Query: 243 GGAMPYSDATPPEIIKQRFGISKSAFKRALGKLMKEGLVTQKENWTYLARS 293 GGAMPY D + P+ I+ RF +SK+AFKRALG+LMKE V QK+ WTY+ RS Sbjct: 236 GGAMPYHDKSDPDDIQARFHMSKAAFKRALGRLMKEDKVYQKDGWTYIKRS 286 >B7GMA9.1 B7GMA9_ANOFW Uncharacterized protein conserved in bacteria containing two ribosomal protein S1-like RNA-binding domains Length = 285 Score = 195 bits (496), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 109/293 (37%), Positives = 169/293 (57%), Gaps = 8/293 (2%) Query: 4 IAGTTVTLEVLREVSPYGYFLGAGGQEVMLHYTELVGSKPKTGDKVEVFIFFDTEDRLAA 63 + G VT +V +E P+GY + G + +LH ++ G + + GD+V VF++ D + R+ A Sbjct: 1 MIGQIVTWQV-KEQKPFGYIVTNGKESALLHESQCEG-ELQVGDEVTVFLYHDHDGRMRA 58 Query: 64 TMKKPFLTLGEMALLEVADIHPRLGCFLEMGLGRQLLLPIRELPELVELRPQVGDKVFVL 123 TMK P +T +EV D+ P+LG F+ +G+ + +LL I +LP + L PQ GD+++ Sbjct: 59 TMKHPLITTSSYGWVEVVDVVPQLGVFVHIGIEKDVLLSIDDLPSIPTLWPQKGDQLYCS 118 Query: 124 MEHDKQGRLRAKLAGEQEXXXXXXXXXXSWMGQTVKARVYKPLQMXXXXXXXXXXXXXXX 183 ++ DK+GRL AKLA E+ S V+ R+Y+ ++ Sbjct: 119 LQVDKRGRLLAKLADEETMKQISVPAPASAFNTNVRGRIYRLMK-----AGSFLITDVGY 173 Query: 184 XXXXHSSERSRLLRLGEEFEARVSHIREDGRVNLSMSQRKEIGRDVDSAALLDFLKERPG 243 H S+R R RLGE E RV ++EDG +N+S+ RK+ D+ + ++L+ R G Sbjct: 174 IGFIHESQRRREPRLGELVEGRVIAVKEDGTINVSLLPRKQESLQTDAETIYNYLESR-G 232 Query: 244 GAMPYSDATPPEIIKQRFGISKSAFKRALGKLMKEGLVTQKENWTYLARSEED 296 AMPYSD + PE I+ RF +SK+AFKRALG+LMKE V Q++ WTY+ E + Sbjct: 233 DAMPYSDKSDPEDIQTRFHMSKAAFKRALGRLMKEEKVYQQDGWTYIKGRENE 285 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.318 0.136 0.388 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,646,538,238 Number of extensions: 62401903 Number of successful extensions: 146333 Number of sequences better than 1.0e-05: 524 Number of HSP's gapped: 145305 Number of HSP's successfully gapped: 648 Length of query: 311 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 176 Effective length of database: 1,788,859,178 Effective search space: 314839215328 Effective search space used: 314839215328 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: 131 (55.1 bits)