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= 0050.0003.p (198 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|ZP_00061143.1| COG1318: Predicted transcriptional regulators... 96 6e-19 ref|NP_465821.1| putative scaffolding protein [Bacteriophage A11... 81 2e-14 ref|NP_690671.1| scaffolding protein [Bacteriophage SPP1] >gi|21... 79 6e-14 ref|NP_469454.1| putative scaffolding protein [Bacteriophage A11... 73 4e-12 ref|NP_463466.1| putative scaffolding protein [Bacteriophage A11... 72 5e-12 >ref|ZP_00061143.1| COG1318: Predicted transcriptional regulators [Clostridium thermocellum ATCC 27405] Length = 228 Score = 95.5 bits (236), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 61/154 (39%), Positives = 93/154 (60%), Gaps = 2/154 (1%) Query: 1 MEWLKELLKKAGVEESKVDGLIGDVNKELPKHFVPKSQYNELTDTKKKLEKDITDRDTQL 60 ME KE L + G+ E + + ++ + KE K F+PK++++E+ + KK LE+ + DRD QL Sbjct: 42 MEMTKEQLMEMGLTEEQAEKVLV-IYKEDLKSFIPKARFDEVNEAKKNLEEQLKDRDKQL 100 Query: 61 EALSKDAGASETLKAEIARLQGENKTTKEKYEADLKDMTLNNAITAAL-NGKVHNEKVVT 119 + L + +E L +I LQ NK KE+YE +K++TL+NAI AL K E ++ Sbjct: 101 KDLGEKVKDNEELTKQIKDLQEANKKAKEEYETKIKNLTLDNAIKLALKEHKAKYEDLLV 160 Query: 120 GLIDKNKLVIGDDGKVVGLDEQLTTLKTSDAYLF 153 D+ KLVI DDG + GL+EQ+ LK + LF Sbjct: 161 NKFDREKLVIKDDGTIEGLNEQIAALKENYKDLF 194 >ref|NP_465821.1| putative scaffolding protein [Bacteriophage A118] [Listeria monocytogenes EGD-e] pir||AI1361 probable scaffolding protein [Bacteriophage A118] lmo2297 [imported] - Listeria monocytogenes (strain EGD-e) emb|CAD00375.1| putative scaffolding protein [Bacteriophage A118] [Listeria monocytogenes] Length = 196 Score = 80.9 bits (198), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 54/150 (36%), Positives = 88/150 (58%), Gaps = 5/150 (3%) Query: 5 KELLKKAGVEESKVDGLIGDVNKELPKHFVPKSQYNELTDTKKKLEKDITDRDTQLEALS 64 +E LK G+E+ ++ ++ + K++ K Q +E+ + L+ +T RD ++ L Sbjct: 3 REYLKGLGLEDEVINKVMAENGKDVT---AAKQQLSEVEAERDGLKSQLTQRDKDIDDLK 59 Query: 65 KDAGASETLKAEIARLQGENKTTKEKYEADLKDMTLNNAITAALNG-KVHNEKVVTGLID 123 K++G E LK +I LQ +NK + Y++++ + N+AI AL G K N K V L+D Sbjct: 60 KNSGTGEELKKQIEDLQQKNKDLESDYQSEIAETKKNSAIELALAGAKARNPKAVKALLD 119 Query: 124 KNKLVIGDDGKVVGLDEQLTTLKTSDAYLF 153 +KL + D+G + GLDEQL L+ SDAYLF Sbjct: 120 NDKLELTDEG-LKGLDEQLGALQESDAYLF 148 >ref|NP_690671.1| scaffolding protein [Bacteriophage SPP1] pir||S58140 scaffold protein - phage SPP1 emb|CAA61868.1| scaffold protein [Bacteriophage SPP1] emb|CAA66589.1| unnamed protein product [Bacteriophage SPP1] Length = 214 Score = 79.0 bits (193), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 46/127 (36%), Positives = 74/127 (58%), Gaps = 2/127 (1%) Query: 33 FVPKSQYNELTDTKKKLEKDITDRDTQLEALSKDAGASETLKAEIARLQGENKTTKEKYE 92 F+PK +++ + KK LE+ +TDRD QL+ LS A + L A+IA LQ N+ K+ +E Sbjct: 33 FIPKEKFDAVNSEKKSLEQQLTDRDQQLQELSTKATGHDELSAKIADLQKANEEAKQAFE 92 Query: 93 ADLKDMTLNNAITAAL-NGKVHNEKVVTGLIDKNKLVIGDDGKVVGLDEQLTTLKTSDAY 151 A+ + + +A+ AL + N K V L+D + + D K++G ++Q+ LK + Y Sbjct: 93 AEKQQLKYEHALETALRDSGAKNPKAVKALLDTESIKL-DGDKLLGFEDQIKALKEQEDY 151 Query: 152 LFKPDEP 158 LFK EP Sbjct: 152 LFKGTEP 158 >ref|NP_469454.1| putative scaffolding protein [Bacteriophage A118] [Listeria innocua] pir||AE1446 probable scaffolding protein (Bacteriophage A118) lin0108 [imported] - Listeria innocua (strain Clip11262) emb|CAC95341.1| putative scaffolding protein [Bacteriophage A118] [Listeria innocua] Length = 189 Score = 72.8 bits (177), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 55/150 (36%), Positives = 89/150 (59%), Gaps = 5/150 (3%) Query: 5 KELLKKAGVEESKVDGLIGDVNKELPKHFVPKSQYNELTDTKKKLEKDITDRDTQLEALS 64 +E LK G+E+ ++ ++ + K++ K Q +E+ + L+ +T RD ++ L Sbjct: 3 REYLKGLGLEDEVINKVMAENGKDIT---AAKQQLSEVEAERDGLKSQLTQRDKDIDDLK 59 Query: 65 KDAGASETLKAEIARLQGENKTTKEKYEADLKDMTLNNAITAAL-NGKVHNEKVVTGLID 123 KD+G SE LK +I LQ +NK + Y++++ + N+AI AL + K N K V L+D Sbjct: 60 KDSGTSEELKKQIEDLQQKNKDLESDYQSEIAETKKNSAIELALASAKAKNPKAVRALLD 119 Query: 124 KNKLVIGDDGKVVGLDEQLTTLKTSDAYLF 153 +KL + D+G + GLDEQL L+ SDAYLF Sbjct: 120 NDKLELTDEG-LKGLDEQLEALQESDAYLF 148 >ref|NP_463466.1| putative scaffolding protein [Bacteriophage A118] emb|CAB53791.1| putative scaffolding protein [Bacteriophage A118] Length = 189 Score = 72.4 bits (176), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 55/150 (36%), Positives = 89/150 (59%), Gaps = 5/150 (3%) Query: 5 KELLKKAGVEESKVDGLIGDVNKELPKHFVPKSQYNELTDTKKKLEKDITDRDTQLEALS 64 +E LK G+E+ ++ ++ + K++ K Q +E+ + L+ +T RD ++ L Sbjct: 3 REYLKGLGLEDEVINKVMAENGKDIT---AAKQQLSEVEAERDGLKSQLTQRDKDIDDLK 59 Query: 65 KDAGASETLKAEIARLQGENKTTKEKYEADLKDMTLNNAITAAL-NGKVHNEKVVTGLID 123 KD+G SE LK +I LQ +NK + Y++++ + N+AI AL + K N K V L+D Sbjct: 60 KDSGTSEELKKQIEDLQQKNKDLESDYQSEIAETKKNSAIELALASAKAKNPKAVRALLD 119 Query: 124 KNKLVIGDDGKVVGLDEQLTTLKTSDAYLF 153 +KL + D+G + GLDEQL L+ SDAYLF Sbjct: 120 NDKLELTDEG-LKGLDEQLGALQESDAYLF 148 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.307 0.129 0.343 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 250,421,561 Number of extensions: 9643581 Number of successful extensions: 40936 Number of sequences better than 1.0e-05: 13 Number of HSP's gapped: 40934 Number of HSP's successfully gapped: 13 Length of query: 198 Length of database: 757,237,578 Length adjustment: 119 Effective length of query: 79 Effective length of database: 434,140,797 Effective search space: 34297122963 Effective search space used: 34297122963 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.6 bits) S2: 123 (52.0 bits)