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= 0490.0059.p (278 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KJ23.1 B3KJ23_9BACI Diaminopimelate epimerase EC=5.1.1.7 470 e-131 B1DHM8.1 B1DHM8_9BACL Diaminopimelate epimerase EC=5.1.1.7 444 e-123 B4BGJ1.1 B4BGJ1_CLOTM Diaminopimelate epimerase EC=5.1.1.7 335 2e-90 A3DK16.1 DAPF_CLOTH Diaminopimelate epimerase EC=5.1.1.7 335 2e-90 A6VFK8.1 DAPF_METM7 Diaminopimelate epimerase EC=5.1.1.7 314 6e-84 >B3KJ23.1 B3KJ23_9BACI Diaminopimelate epimerase EC=5.1.1.7 Length = 279 Score = 470 bits (1210), Expect = e-131, Method: Compositional matrix adjust. Identities = 218/278 (78%), Positives = 244/278 (87%) Query: 1 MEFTKMHGLGNDFIIVFGEQELPGNASELAVTLCNRFFGIGADGLVYILPSERGDYMMRI 60 MEFTKMHGLGNDF++V+GE+ELP +ASELAV LCNRFFGIGADGLVYILPS + D+MMRI Sbjct: 2 MEFTKMHGLGNDFVVVYGERELPSDASELAVKLCNRFFGIGADGLVYILPSAKADFMMRI 61 Query: 61 MNSDGTEAEQCGNAIRCVSKYVYEHGLVSSEQIVIETIGAGEQKVSLQVKDGVVETVTVD 120 MNSDG+EAEQCGNAIRCV+KYVY+HG + E+I IETIGAG Q+V L V+DG V +V VD Sbjct: 62 MNSDGSEAEQCGNAIRCVAKYVYDHGHIDREEITIETIGAGVQQVRLTVQDGQVSSVRVD 121 Query: 121 MGEPVLSGTQIPVAIDAEPVLDQPIEADGRAFRFTAVSMGNPHCVIYVDDAVSFDLAAWG 180 MGEPVL+G +P +D PV++ P+E DGR FRFTAVSMGNPHCVIYVDDAV+FDL WG Sbjct: 122 MGEPVLNGLSVPTLVDLNPVVNHPVEVDGREFRFTAVSMGNPHCVIYVDDAVNFDLGVWG 181 Query: 181 PKLEVHPLFPRKVNVEFATVLDRSHVDMRVWERGAGPTLACGTGACATLVSSVLNGLTDR 240 PKLEVHPLFPRK+NVEFATV R VDMRVWERGAGPTLACGTGACATLVSSVLNG TDR Sbjct: 182 PKLEVHPLFPRKINVEFATVNSRGQVDMRVWERGAGPTLACGTGACATLVSSVLNGATDR 241 Query: 241 SATISLKGGDLFIEWNEADNHVYMTGPAQVVYTGSVEI 278 SATISLKGGDLFIEW+E DNHVYMTGPA+VVY G + I Sbjct: 242 SATISLKGGDLFIEWDELDNHVYMTGPAEVVYKGKLAI 279 >B1DHM8.1 B1DHM8_9BACL Diaminopimelate epimerase EC=5.1.1.7 Length = 278 Score = 444 bits (1143), Expect = e-123, Method: Compositional matrix adjust. Identities = 200/274 (72%), Positives = 233/274 (85%) Query: 1 MEFTKMHGLGNDFIIVFGEQELPGNASELAVTLCNRFFGIGADGLVYILPSERGDYMMRI 60 M+FTKMHGLGNDFI++ GEQ+LPGN +ELA CNRFFGIGADGLVYILPSE D+ MRI Sbjct: 2 MKFTKMHGLGNDFIVIAGEQQLPGNVAELAKNQCNRFFGIGADGLVYILPSEVADFRMRI 61 Query: 61 MNSDGTEAEQCGNAIRCVSKYVYEHGLVSSEQIVIETIGAGEQKVSLQVKDGVVETVTVD 120 +NSDG+EAEQCGNAIRC +KY+Y++GL E++ IET+GAG Q V L+V DG V+ V VD Sbjct: 62 INSDGSEAEQCGNAIRCAAKYIYDNGLTDKEELTIETLGAGAQTVQLEVADGKVQQVRVD 121 Query: 121 MGEPVLSGTQIPVAIDAEPVLDQPIEADGRAFRFTAVSMGNPHCVIYVDDAVSFDLAAWG 180 MG P+L+G Q+P +D + V++ PIE DGR FRFTAVSMGNPHCVIYVDDA +FDLA WG Sbjct: 122 MGAPILNGLQVPTTVDEDRVIEHPIEVDGREFRFTAVSMGNPHCVIYVDDAANFDLATWG 181 Query: 181 PKLEVHPLFPRKVNVEFATVLDRSHVDMRVWERGAGPTLACGTGACATLVSSVLNGLTDR 240 PKLE HP+FPRK+NVEF TV+ R H +MRVWERGAGPTLACGTGACAT+VSSVLNGLTDR Sbjct: 182 PKLETHPMFPRKINVEFVTVISREHAEMRVWERGAGPTLACGTGACATVVSSVLNGLTDR 241 Query: 241 SATISLKGGDLFIEWNEADNHVYMTGPAQVVYTG 274 +A ++LKGGDL IEWNEADNHVYMTGPA VY G Sbjct: 242 TAVVTLKGGDLTIEWNEADNHVYMTGPAAEVYRG 275 >B4BGJ1.1 B4BGJ1_CLOTM Diaminopimelate epimerase EC=5.1.1.7 Length = 280 Score = 335 bits (860), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 160/278 (57%), Positives = 202/278 (72%), Gaps = 1/278 (0%) Query: 1 MEFTKMHGLGNDFIIVFGEQELPGNASELAVTLCNRFFGIGADGLVYILPSERGDYMMRI 60 M FTKMHGLGND+I V +E N SE+A + +R FGIG+DGLV I+PSER D+ MR+ Sbjct: 1 MRFTKMHGLGNDYIYVNCFEETVENPSEVAKKVSDRHFGIGSDGLVLIMPSERADFKMRM 60 Query: 61 MNSDGTEAEQCGNAIRCVSKYVYEHGLVSSEQIVIETIGAGEQKVSLQVKDGVVETVTVD 120 NSDG+EAE CGNAIRCV KYV++ G+ + I +ET+ AG + + L V+DG + V VD Sbjct: 61 FNSDGSEAEMCGNAIRCVGKYVFDRGMTNKNVIRVETL-AGIKVLELTVQDGKAKLVKVD 119 Query: 121 MGEPVLSGTQIPVAIDAEPVLDQPIEADGRAFRFTAVSMGNPHCVIYVDDAVSFDLAAWG 180 MGEP+L IPV D E +P+E DG+ F+ T VSMGNPH V YV + F L G Sbjct: 120 MGEPILKPENIPVNSDKEIFRTEPVEIDGKEFKVTCVSMGNPHAVSYVKNVDIFPLEKIG 179 Query: 181 PKLEVHPLFPRKVNVEFATVLDRSHVDMRVWERGAGPTLACGTGACATLVSSVLNGLTDR 240 PK+E HPLFP+++N EF V+DR+ + MRVWERGAG TLACGTGACA LV+SVLNG+++R Sbjct: 180 PKMEHHPLFPKRINAEFVEVIDRTTLKMRVWERGAGETLACGTGACAVLVASVLNGVSER 239 Query: 241 SATISLKGGDLFIEWNEADNHVYMTGPAQVVYTGSVEI 278 AT+ L GGDL IEWNE +NHVYMTGPA V+ G V++ Sbjct: 240 KATVKLLGGDLIIEWNENNNHVYMTGPAVKVFEGEVDL 277 >A3DK16.1 DAPF_CLOTH Diaminopimelate epimerase EC=5.1.1.7 Length = 280 Score = 335 bits (860), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 160/278 (57%), Positives = 202/278 (72%), Gaps = 1/278 (0%) Query: 1 MEFTKMHGLGNDFIIVFGEQELPGNASELAVTLCNRFFGIGADGLVYILPSERGDYMMRI 60 M FTKMHGLGND+I V +E N SE+A + +R FGIG+DGLV I+PSER D+ MR+ Sbjct: 1 MRFTKMHGLGNDYIYVNCFEETVENPSEVAKKVSDRHFGIGSDGLVLIMPSERADFKMRM 60 Query: 61 MNSDGTEAEQCGNAIRCVSKYVYEHGLVSSEQIVIETIGAGEQKVSLQVKDGVVETVTVD 120 NSDG+EAE CGNAIRCV KYV++ G+ + I +ET+ AG + + L V+DG + V VD Sbjct: 61 FNSDGSEAEMCGNAIRCVGKYVFDRGMTNKNVIRVETL-AGIKVLELTVQDGKAKLVKVD 119 Query: 121 MGEPVLSGTQIPVAIDAEPVLDQPIEADGRAFRFTAVSMGNPHCVIYVDDAVSFDLAAWG 180 MGEP+L IPV D E +P+E DG+ F+ T VSMGNPH V YV + F L G Sbjct: 120 MGEPILKPENIPVNSDKEIFRTEPVEIDGKEFKVTCVSMGNPHAVSYVKNVDIFPLEKIG 179 Query: 181 PKLEVHPLFPRKVNVEFATVLDRSHVDMRVWERGAGPTLACGTGACATLVSSVLNGLTDR 240 PK+E HPLFP+++N EF V+DR+ + MRVWERGAG TLACGTGACA LV+SVLNG+++R Sbjct: 180 PKMEHHPLFPKRINAEFVEVIDRTTLKMRVWERGAGETLACGTGACAVLVASVLNGVSER 239 Query: 241 SATISLKGGDLFIEWNEADNHVYMTGPAQVVYTGSVEI 278 AT+ L GGDL IEWNE +NHVYMTGPA V+ G V++ Sbjct: 240 KATVKLLGGDLIIEWNENNNHVYMTGPAVKVFEGEVDL 277 >A6VFK8.1 DAPF_METM7 Diaminopimelate epimerase EC=5.1.1.7 Length = 277 Score = 314 bits (804), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 150/278 (53%), Positives = 190/278 (68%), Gaps = 1/278 (0%) Query: 1 MEFTKMHGLGNDFIIVFGEQELPGNASELAVTLCNRFFGIGADGLVYILPSERGDYMMRI 60 M+FTKMHGLGND+I V + N +E++ + +R FGIG+DGLV ILPSE D+ MR+ Sbjct: 1 MKFTKMHGLGNDYIYVDATSQKIENPNEISRFVSDRHFGIGSDGLVLILPSEIADFKMRM 60 Query: 61 MNSDGTEAEQCGNAIRCVSKYVYEHGLVSSEQIVIETIGAGEQKVSLQVKDGVVETVTVD 120 NSDG+EAE CGNAIRCV K+VY+ + I IET+ AG + + + V++ V V VD Sbjct: 61 FNSDGSEAEMCGNAIRCVGKFVYDKKMTDKSTITIETL-AGIKVLEMTVENDKVVLVKVD 119 Query: 121 MGEPVLSGTQIPVAIDAEPVLDQPIEADGRAFRFTAVSMGNPHCVIYVDDAVSFDLAAWG 180 MGEP+L IPV + PV+D+ I A + FT VSMGNPH + Y+++ F L G Sbjct: 120 MGEPILKAETIPVLSEKHPVIDEEITAKDYCYNFTCVSMGNPHAITYIENVSEFPLEKIG 179 Query: 181 PKLEVHPLFPRKVNVEFATVLDRSHVDMRVWERGAGPTLACGTGACATLVSSVLNGLTDR 240 P E H FPRK NVEF ++D S + MRVWERGAG TLACGTGACA LV+SVL G R Sbjct: 180 PLFEFHEKFPRKTNVEFVELIDDSTIKMRVWERGAGETLACGTGACAVLVASVLKGYVGR 239 Query: 241 SATISLKGGDLFIEWNEADNHVYMTGPAQVVYTGSVEI 278 AT+ L GGDL IEWNE+DNH+YMTGPA V+ G ++I Sbjct: 240 KATVKLLGGDLTIEWNESDNHIYMTGPATTVFEGEIDI 277 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 0.319 0.137 0.410 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: 1,695,098,841 Number of extensions: 70276236 Number of successful extensions: 163161 Number of sequences better than 1.0e-05: 1331 Number of HSP's gapped: 158993 Number of HSP's successfully gapped: 1354 Length of query: 278 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 144 Effective length of database: 1,798,280,193 Effective search space: 258952347792 Effective search space used: 258952347792 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: 130 (54.7 bits)