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= 0001.0985.p (228 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134095642|ref|YP_001100717.1| DNA repair protein RadC [Hermin... 270 4e-74 gi|134095055|ref|YP_001100130.1| putative DNA repair protein in ... 120 4e-29 gi|134093935|ref|YP_001099010.1| putative DNA repair protein; pu... 120 6e-29 gi|134095214|ref|YP_001100289.1| RadC family DNA repair protein ... 114 6e-27 >gi|134095642|ref|YP_001100717.1| DNA repair protein RadC [Herminiimonas arsenicoxydans] Length = 224 Score = 270 bits (691), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 130/223 (58%), Positives = 171/223 (76%) Query: 6 TLTHWPKDQRPRERLLQFGPAALSDAELLAIFLRVGIPGKNVMEVSHSLLKRFGSLEMLF 65 +T WP++QRPRERL++ G A LSDAELLA+FLRVG+ GK+ +++ ++ FGSL LF Sbjct: 2 AITDWPEEQRPRERLIRHGAAILSDAELLAVFLRVGVTGKSAVDLGRDMVAHFGSLNGLF 61 Query: 66 DAAHNKTDLGDGLGPAKCSQLRAALELSRRVIHEQLKTHSVLNSTRAVGDYLKLLFKGRE 125 A N +GLGPAK +QL+A LEL+RR + E+L+ LNS +AV YL+LL GR Sbjct: 62 SATLNDFSKINGLGPAKYAQLQAVLELARRSLCEELQAGVALNSPQAVKQYLQLLLSGRA 121 Query: 126 HECFVALFMNVRNQLIGTEELFRGTLNHSAVYPREVVKAALRHNAASVILAHNHPSGDPE 185 +E FV LF++V+N+LI +E+FRGTL H++VYPRE+VKAAL HNAASVILAHNHPSG PE Sbjct: 122 YESFVILFLDVKNRLIVCDEMFRGTLTHTSVYPREIVKAALGHNAASVILAHNHPSGTPE 181 Query: 186 PSDQDLDMTEALEDALDLVDVELLDHFVVAGTRLYSFADHGKL 228 PS D +T+AL+ AL L+DV +LDHFVVAG ++YSFA+ G+L Sbjct: 182 PSAADQTLTQALKQALMLIDVRVLDHFVVAGKQVYSFAEQGQL 224 >gi|134095055|ref|YP_001100130.1| putative DNA repair protein in putative prophage region (radC-like) [Herminiimonas arsenicoxydans] Length = 166 Score = 120 bits (302), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 57/139 (41%), Positives = 92/139 (66%) Query: 90 LELSRRVIHEQLKTHSVLNSTRAVGDYLKLLFKGREHECFVALFMNVRNQLIGTEELFRG 149 L +++++ ++L L S V ++L+ L + HE F L ++ ++++IG E+FRG Sbjct: 28 LIMAKQLSRKRLNKGRALTSPGDVKEHLRALLQDHPHEVFAILLLDTQHKIIGFHEMFRG 87 Query: 150 TLNHSAVYPREVVKAALRHNAASVILAHNHPSGDPEPSDQDLDMTEALEDALDLVDVELL 209 T++ ++VYPREV K AL HNAA+VIL HNHPSG+P PS D+ +T+ L ++L L+ V +L Sbjct: 88 TIDSTSVYPREVAKLALEHNAAAVILTHNHPSGEPTPSQADIKLTKVLIESLALIGVRVL 147 Query: 210 DHFVVAGTRLYSFADHGKL 228 DH VV+ S A+ G++ Sbjct: 148 DHIVVSSQGCASLAERGEM 166 >gi|134093935|ref|YP_001099010.1| putative DNA repair protein; putative CP4-6 prophage [Herminiimonas arsenicoxydans] Length = 175 Score = 120 bits (301), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 58/134 (43%), Positives = 89/134 (66%), Gaps = 1/134 (0%) Query: 96 VIHEQLKTHS-VLNSTRAVGDYLKLLFKGREHECFVALFMNVRNQLIGTEELFRGTLNHS 154 ++++Q+ H L S + V DYL+L + E F +FM+ +N++I E LF GT++ + Sbjct: 41 ILNDQVIKHGPKLASPQDVKDYLRLQLINEQREVFAVVFMDTQNRVIAYEPLFFGTIHQT 100 Query: 155 AVYPREVVKAALRHNAASVILAHNHPSGDPEPSDQDLDMTEALEDALDLVDVELLDHFVV 214 +VYPR +V+ A+ NAAS+ILAHNHPSG +PSD D +T L+ L+ +DV +LDHF++ Sbjct: 101 SVYPRVIVQRAMSLNAASMILAHNHPSGSTQPSDADKQLTNRLKSLLESIDVRVLDHFII 160 Query: 215 AGTRLYSFADHGKL 228 +SFA+HG L Sbjct: 161 GEEGTFSFAEHGLL 174 >gi|134095214|ref|YP_001100289.1| RadC family DNA repair protein [Herminiimonas arsenicoxydans] Length = 164 Score = 114 bits (284), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 59/137 (43%), Positives = 82/137 (59%), Gaps = 4/137 (2%) Query: 92 LSRRVIHEQLKTHSVLNSTRAVGDYLKLLFKGREHECFVALFMNVRNQLIGTEELFRGTL 151 L RR+ K L+ AV DYL+L +E F +F++ +Q++ E +FRGT+ Sbjct: 32 LERRI----FKVGPCLSRPAAVRDYLRLKLVAEPNEVFAIVFLDSMHQVLAYEPMFRGTI 87 Query: 152 NHSAVYPREVVKAALRHNAASVILAHNHPSGDPEPSDQDLDMTEALEDALDLVDVELLDH 211 N +AVYPR VV+ L AA+V+ AH HPSG EPS D +T+ L+ AL L+DV +LDH Sbjct: 88 NSTAVYPRVVVQRVLELKAAAVVFAHQHPSGVTEPSSADRALTQQLQAALALIDVRVLDH 147 Query: 212 FVVAGTRLYSFADHGKL 228 +V YSFA+H L Sbjct: 148 IIVGQGIPYSFAEHSLL 164 Database: BlastDatabases/690/690 Posted date: Apr 9, 2011 4:48 AM Number of letters in database: 1,000,347 Number of sequences in database: 3295 Lambda K H 0.321 0.136 0.396 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3295 Number of Hits to DB: 382,353 Number of extensions: 13886 Number of successful extensions: 47 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 47 Number of HSP's successfully gapped: 4 Length of query: 228 Length of database: 1,000,347 Length adjustment: 79 Effective length of query: 149 Effective length of database: 740,042 Effective search space: 110266258 Effective search space used: 110266258 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 (21.9 bits) S2: 127 (53.5 bits)