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= 0422.0007.p (270 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1D9M2.1 B1D9M2_9BACL Lipopolysaccharide biosynthesis protein 275 3e-72 B1D9H2.1 B1D9H2_9BACL Lipopolysaccharide biosynthesis protein 173 1e-41 C2ZY53.1 C2ZY53_BACCE Capsular polysaccharide biosynthesis 172 3e-41 C3IZ10.1 C3IZ10_9BACI Lipopolysaccharide biosynthesis protein 171 8e-41 B7Y7I2.1 B7Y7I2_9BACI Lipopolysaccharide biosynthesis protein 171 8e-41 >B1D9M2.1 B1D9M2_9BACL Lipopolysaccharide biosynthesis protein Length = 254 Score = 275 bits (703), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 141/253 (55%), Positives = 185/253 (73%), Gaps = 3/253 (1%) Query: 15 AQELDLRDYFQIVRKRLWMIVSIVVAVCILAGVYSLYIKNPVYEASTKIIVNQTPTQSTV 74 ++ELDLR+YF IVRKRL +IV V+ + +GVY+ K+P+YEASTKI+VNQ Q V Sbjct: 2 SEELDLREYFLIVRKRLLLIVIFVLVCTVASGVYTKMFKDPIYEASTKIVVNQPSQQLAV 61 Query: 75 AXXXXXXXXXXXXXXXXYKEIIKTPAILDVVAKNYPQFNLTAEDLLKKVNVSSVNNTQVM 134 YKE+IKTPAIL VA+ YPQ L+A++L KK++VSSVN TQVM Sbjct: 62 GQLDLNQINSNIKMIDTYKEVIKTPAILGKVAEKYPQLGLSAKELTKKISVSSVNGTQVM 121 Query: 135 TLVVRDNSYQRAAEIVNAISLVFKQEIPSLFNVQNVSILNEAKVDPPVAPGPVEPNVVMN 194 TL V+D SYQ+AA+IVNAISLVF+QEIP++F V+NVSILNEA +D P PV PNV +N Sbjct: 122 TLAVQDVSYQQAAKIVNAISLVFQQEIPNIFQVENVSILNEALLDD--QPAPVSPNVTLN 179 Query: 195 LAIAFIVSLMIGLGIAFLLEYLDDTLKTEEDIEKYLGLPTIAMITRLGQEETKSTELQAQ 254 + IAF+VSLMI +GIAFLLEY+DDT+KTE D+++YLG PT+AM+ R+ E ++ + + Sbjct: 180 IIIAFVVSLMIAVGIAFLLEYMDDTIKTETDVQRYLGQPTLAMVARVEASEFQTGSSRTE 239 Query: 255 KLTRKAGELEHVT 267 +KAG LE+VT Sbjct: 240 N-RQKAGGLENVT 251 >B1D9H2.1 B1D9H2_9BACL Lipopolysaccharide biosynthesis protein Length = 260 Score = 173 bits (439), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 107/256 (41%), Positives = 154/256 (60%), Gaps = 4/256 (1%) Query: 13 LSAQELDLRDYFQIVRKRLWMIVSIVVAVCILAGVYSLYIKNPVYEASTKIIVNQTPTQS 72 LS+Q LDL++ ++RK+LW++V + V AG YS ++ PVYEA TK+IVN T Q+ Sbjct: 7 LSSQ-LDLKEIVWLIRKKLWLVVLVTVLGASAAGAYSAWVMKPVYEAYTKLIVNSTAGQA 65 Query: 73 TVAXXXXXXXXXXXXXXXXYKEIIKTPAILDVVAKNYPQFNLTAEDLLKKVNVSSVNNTQ 132 YKEIIKTPAI+D+V K +P+ LT + L+ + SSVN TQ Sbjct: 66 GSFKLDLNMINTNLSLINTYKEIIKTPAIMDLVVKKHPELGLTTQQLMHNIRFSSVNGTQ 125 Query: 133 VMTLVVRDNSYQRAAEIVNAISLVFKQEIPSLFNVQNVSILNEAKVDPPVAPGPVEPNVV 192 V+T+ D Y+RAA++VN +S VF+Q+IP + V NV IL+ A D P V+P Sbjct: 126 VVTISYLDTDYKRAAQVVNTVSYVFQQQIPLIMKVDNVYILHTA--DSNDQPVKVKPETK 183 Query: 193 MNLAIAFIVSLMIGLGIAFLLEYLDDTLKTEEDIEKYLGLPTIAMITRLGQEETKSTELQ 252 +N+AI F+ + ++ + + L Y DDTL+TE D+E+YLGLPT+A I + Q + K L Sbjct: 184 LNIAIGFVAAFLLSITLVLALNYFDDTLRTESDVERYLGLPTLAAIPNIKQGDLKPKALA 243 Query: 253 AQKLT-RKAGELEHVT 267 K T K GE +V+ Sbjct: 244 IGKTTIGKEGEKNNVS 259 >C2ZY53.1 C2ZY53_BACCE Capsular polysaccharide biosynthesis Length = 245 Score = 172 bits (436), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 92/240 (38%), Positives = 149/240 (62%), Gaps = 6/240 (2%) Query: 16 QELDLRDYFQIVRKRLWMIVSIVVAVCILAGVYSLYIKNPVYEASTKIIVNQTPTQSTVA 75 + + L++ F I+RKRL MI++I + +++ + S Y P+Y+ ST+I+VNQ + V Sbjct: 3 ETISLKELFTILRKRLVMILAITIGAALVSAIVSFYFMTPIYQTSTQILVNQKKQEGIV- 61 Query: 76 XXXXXXXXXXXXXXXXYKEIIKTPAILDVVAKNYPQFNLTAEDLLKKVNVSSVNNTQVMT 135 YK I+K+P ILD V K + N+ +L K+NV++ ++QV+ Sbjct: 62 --QPGEIQTSLQLTNTYKVIMKSPVILDQV-KEKLKLNMPTGELNSKINVANEKDSQVIA 118 Query: 136 LVVRDNSYQRAAEIVNAISLVFKQEIPSLFNVQNVSILNEAKVDPPVAPGPVEPNVVMNL 195 + V+D + A I N + VFK EI + +V NV+IL++A+V P++PN +N+ Sbjct: 119 VTVQDKDAKLARNIANTTAEVFKSEIAKIMSVDNVTILSKAEVTE--GQSPIKPNKTLNV 176 Query: 196 AIAFIVSLMIGLGIAFLLEYLDDTLKTEEDIEKYLGLPTIAMITRLGQEETKSTELQAQK 255 AIAF+V LM +G+AFLLEYLD+T+K EEDIEK LG+P + +++R+ + E+KS+ L + K Sbjct: 177 AIAFVVGLMASVGLAFLLEYLDNTMKKEEDIEKLLGVPVLGVVSRMEENESKSSILSSTK 236 >C3IZ10.1 C3IZ10_9BACI Lipopolysaccharide biosynthesis protein Length = 247 Score = 171 bits (432), Expect = 8e-41, Method: Compositional matrix adjust. Identities = 96/233 (41%), Positives = 149/233 (63%), Gaps = 8/233 (3%) Query: 18 LDLRDYFQIVRKRLWMIVSIVVAVCILAGVYSLYIKNPVYEASTKIIVNQTPTQSTVAXX 77 + LR+ F +RKRLW+IV I +++GV S +I P+YEAST+I+VNQ ++ + Sbjct: 5 ISLRELFDTLRKRLWLIVLITALATVVSGVVSYFILTPIYEASTQILVNQAKSEQQL--Y 62 Query: 78 XXXXXXXXXXXXXXYKEIIKTPAILDVVAKNYPQFNLTAEDLLKKVNVSSVNNTQVMTLV 137 Y IIK+P IL+ V K+ + T ++L +++ VSS ++QV ++ Sbjct: 63 NFNEIQTNVQLINTYSVIIKSPTILEKV-KDELHLDRTLDELNEQIQVSSEKDSQVFSVT 121 Query: 138 VRDNSYQRAAEIVNAISLVFKQEIPSLFNVQNVSILNEAKVDPPVAPGPVEPNVVMNLAI 197 V+D AA+I N + VFK EI + N+ NV+IL++A+V AP V+P ++N+AI Sbjct: 122 VQDPDPAMAAKIANKTAEVFKNEIVKIMNIDNVTILSKAEVKEHQAP--VKPKPLLNMAI 179 Query: 198 AFIVSLMIGLGIAFLLEYLDDTLKTEEDIEKYLGLP---TIAMITRLGQEETK 247 AF+V LM G+G+AFLLEYLD+T+KTEED+EK+LGLP +++IT G ++ + Sbjct: 180 AFVVGLMTGVGLAFLLEYLDNTIKTEEDVEKHLGLPVLGAVSLITAEGGQKAR 232 >B7Y7I2.1 B7Y7I2_9BACI Lipopolysaccharide biosynthesis protein Length = 247 Score = 171 bits (432), Expect = 8e-41, Method: Compositional matrix adjust. Identities = 96/233 (41%), Positives = 149/233 (63%), Gaps = 8/233 (3%) Query: 18 LDLRDYFQIVRKRLWMIVSIVVAVCILAGVYSLYIKNPVYEASTKIIVNQTPTQSTVAXX 77 + LR+ F +RKRLW+IV I +++GV S +I P+YEAST+I+VNQ ++ + Sbjct: 5 ISLRELFDTLRKRLWLIVLITALATVVSGVVSYFILTPIYEASTQILVNQAKSEQQL--Y 62 Query: 78 XXXXXXXXXXXXXXYKEIIKTPAILDVVAKNYPQFNLTAEDLLKKVNVSSVNNTQVMTLV 137 Y IIK+P IL+ V K+ + T ++L +++ VSS ++QV ++ Sbjct: 63 NFNEIQTNVQLINTYSVIIKSPTILEKV-KDELHLDRTLDELNEQIQVSSEKDSQVFSVT 121 Query: 138 VRDNSYQRAAEIVNAISLVFKQEIPSLFNVQNVSILNEAKVDPPVAPGPVEPNVVMNLAI 197 V+D AA+I N + VFK EI + N+ NV+IL++A+V AP V+P ++N+AI Sbjct: 122 VQDPDPAMAAKIANKTAEVFKNEIVKIMNIDNVTILSKAEVKEHQAP--VKPKPLLNMAI 179 Query: 198 AFIVSLMIGLGIAFLLEYLDDTLKTEEDIEKYLGLP---TIAMITRLGQEETK 247 AF+V LM G+G+AFLLEYLD+T+KTEED+EK+LGLP +++IT G ++ + Sbjct: 180 AFVVGLMTGVGLAFLLEYLDNTIKTEEDVEKHLGLPVLGAVSLITAEGGQKAR 232 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 0.133 0.362 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: 1,335,721,189 Number of extensions: 47080459 Number of successful extensions: 154131 Number of sequences better than 1.0e-05: 592 Number of HSP's gapped: 153241 Number of HSP's successfully gapped: 592 Length of query: 270 Length of database: 3,060,696,203 Length adjustment: 133 Effective length of query: 137 Effective length of database: 1,807,701,208 Effective search space: 247655065496 Effective search space used: 247655065496 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: 130 (54.7 bits)