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= 0112.0017.p (247 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|NP_242235.1| BH1369~unknown conserved protein [Bacillus halo... 181 2e-44 ref|NP_390406.1| alternate gene name: yqfI~similar to hypothetic... 168 1e-40 ref|NP_470833.1| similar to B. subtilis RecO protein involved in... 167 1e-40 ref|NP_464985.1| similar to B. subtilis RecO protein involved in... 166 6e-40 ref|NP_834007.1| DNA repair protein recO [Bacillus cereus ATCC 1... 161 2e-38 >ref|NP_242235.1| BH1369~unknown conserved protein [Bacillus halodurans] sp|Q9KD50|RECO_BACHD DNA repair protein recO (Recombination protein O) pir||A83821 hypothetical protein BH1369 [imported] - Bacillus halodurans (strain C-125) dbj|BAB05088.1| BH1369~unknown conserved protein [Bacillus halodurans] Length = 254 Score = 181 bits (458), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 92/242 (38%), Positives = 137/242 (56%), Gaps = 3/242 (1%) Query: 2 EGIVIRSMDYGEGNAIITLCTENAGKVGVLVRGAKKVKSRHAALIQLFTAGEYVFFRNNG 61 EGIVIR++DYGE N I+T+ T GK+ ++ RGAK+ KSR A+ QLFT G + F+ N Sbjct: 6 EGIVIRTVDYGESNKIVTVFTREYGKIALMARGAKRPKSRLTAVTQLFTYG-MMMFQKNA 64 Query: 62 GLGTLNAGEITKSHHPLREDLVKAAYASYACELLDRVLHDEETGSFWFRQLTACLNALEE 121 GLGTL GEI +S +R DL +A+Y SY +L +++ DE+ + F L ++ + E Sbjct: 65 GLGTLTQGEIIQSFREVRNDLFRASYVSYVTDLTNKLTEDEKRNPYLFELLYQTIHYMNE 124 Query: 122 DKEPGIIINVFEMKILQAAGYGPQLDNCIVCGLDKPDEELRVSPRLGGVLCRSCRHNDPP 181 +P ++ +FE+K+ AG P+LD C+ C D + S + G LC+ C DP Sbjct: 125 GMDPDVLTRIFEVKMFTVAGIKPELDQCVSC--RSTDVPVGFSIKEAGFLCKRCIEKDPH 182 Query: 182 AMEISPXXXXXXXXXXXXXXXXXGNVNVKEGTRAELKKIMRAFMDHQLGLKLKSQNFLDQ 241 A +I+ G +++K T+A LK I+ + D GL LKS+ FLDQ Sbjct: 183 AYKITAQVAKLLRLFYHFDLQRLGTISLKPETKATLKTIIHQYYDEYSGLHLKSRRFLDQ 242 Query: 242 LD 243 L+ Sbjct: 243 LE 244 >ref|NP_390406.1| alternate gene name: yqfI~similar to hypothetical proteins [Bacillus subtilis] sp|P42095|RECO_BACSU DNA repair protein recO (Recombination protein O) pir||H69968 conserved hypothetical protein yqxN - Bacillus subtilis dbj|BAA12483.1| YqfI [Bacillus subtilis] emb|CAB14457.1| recO [Bacillus subtilis subsp. subtilis str. 168] Length = 255 Score = 168 bits (425), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 91/242 (37%), Positives = 133/242 (54%), Gaps = 3/242 (1%) Query: 2 EGIVIRSMDYGEGNAIITLCTENAGKVGVLVRGAKKVKSRHAALIQLFTAGEYVFFRNNG 61 EGIV+R+ DYGE N I+TL T GK+GV+ RGAKK SR +A+ Q F G ++ + Sbjct: 6 EGIVLRTNDYGETNKIVTLLTREHGKIGVMARGAKKPNSRLSAVSQPFLYGSFLM-QKTS 64 Query: 62 GLGTLNAGEITKSHHPLREDLVKAAYASYACELLDRVLHDEETGSFWFRQLTACLNALEE 121 GLGTL GE+ S +REDL AYA+Y EL+DR +++ + F + L + E Sbjct: 65 GLGTLQQGEMILSMRGIREDLFLTAYAAYVAELVDRGTEEKKPNPYLFEFILESLKQMNE 124 Query: 122 DKEPGIIINVFEMKILQAAGYGPQLDNCIVCGLDKPDEELRVSPRLGGVLCRSCRHNDPP 181 +P +I + +MK+L G P+L++C+ C D S R G +C C DP Sbjct: 125 GTDPDVITFIVQMKMLGVMGLYPELNHCVHC--KSQDGTFHFSVRDNGFICHRCFEKDPY 182 Query: 182 AMEISPXXXXXXXXXXXXXXXXXGNVNVKEGTRAELKKIMRAFMDHQLGLKLKSQNFLDQ 241 + I P GNV++KE T+AELK+++ + + GL LKS+ FLDQ Sbjct: 183 RIPIKPQTARLLRLFYYFDLSRLGNVSLKEETKAELKQVIDLYYEEYSGLYLKSKRFLDQ 242 Query: 242 LD 243 ++ Sbjct: 243 ME 244 >ref|NP_470833.1| similar to B. subtilis RecO protein involved in DNA repair and homologous recombination [Listeria innocua] sp|Q92BQ0|RECO_LISIN DNA repair protein recO (Recombination protein O) pir||AH1619 B. subtilis RecO protein involved in DNA repair and homologous recombination homolog lin1497 [imported] - Listeria innocua (strain Clip11262) emb|CAC96728.1| lin1497 [Listeria innocua] Length = 255 Score = 167 bits (424), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 87/244 (35%), Positives = 130/244 (53%), Gaps = 3/244 (1%) Query: 2 EGIVIRSMDYGEGNAIITLCTENAGKVGVLVRGAKKVKSRHAALIQLFTAGEYVFFRNNG 61 EGIVIR Y E + I+ + T GK+GV+ RGAKK KSR AA+ QLFT G + FF NG Sbjct: 5 EGIVIRQTSYRESDKIVRMYTREFGKIGVVARGAKKTKSRLAAVTQLFTNGYFTFFGGNG 64 Query: 62 GLGTLNAGEITKSHHPLREDLVKAAYASYACELLDRVLHDEETGSFWFRQLTACLNALEE 121 LGTL GE+ ++ +++D+ AYA+Y CELLD+ + + + + L ++E Sbjct: 65 -LGTLQQGEVIENFSSIQQDIFMTAYATYVCELLDKATEERQPNPYLYELTFQILRDIDE 123 Query: 122 DKEPGIIINVFEMKILQAAGYGPQLDNCIVCGLDKPDEELRVSPRLGGVLCRSCRHNDPP 181 +P I+ ++EMK+L G P +D C +CG + S R G++C C D Sbjct: 124 GYDPQILTQIYEMKMLPVLGLYPTMDKCAICG--ETTGHFDFSTRSNGIICHRCFDKDRY 181 Query: 182 AMEISPXXXXXXXXXXXXXXXXXGNVNVKEGTRAELKKIMRAFMDHQLGLKLKSQNFLDQ 241 M + GN++VK+ T+ L+K + + D GL LKS+ FL Sbjct: 182 RMHLPENVVKLLRLFFIFQLDRLGNIDVKQETKEWLQKAIDTYYDEYSGLYLKSRKFLRD 241 Query: 242 LDKY 245 +DK+ Sbjct: 242 MDKW 245 >ref|NP_464985.1| similar to B. subtilis RecO protein involved in DNA repair and homologous recombination [Listeria monocytogenes EGD-e] sp|Q8Y752|RECO_LISMO DNA repair protein recO (Recombination protein O) pir||AD1257 B. subtilis RecO protein involved in DNA repair and homologous recombination homolog lmo1460 [imported] - Listeria monocytogenes (strain EGD-e) emb|CAC99538.1| lmo1460 [Listeria monocytogenes] Length = 255 Score = 166 bits (419), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 85/244 (34%), Positives = 130/244 (53%), Gaps = 3/244 (1%) Query: 2 EGIVIRSMDYGEGNAIITLCTENAGKVGVLVRGAKKVKSRHAALIQLFTAGEYVFFRNNG 61 EGIVIR Y E + I+ + T GK+GV+ RGAKK KSR AA+ QLFT G + FF NG Sbjct: 5 EGIVIRQTSYRESDKIVRMYTREFGKIGVVARGAKKTKSRLAAVTQLFTNGYFTFFGGNG 64 Query: 62 GLGTLNAGEITKSHHPLREDLVKAAYASYACELLDRVLHDEETGSFWFRQLTACLNALEE 121 LGTL GE+ ++ +++D+ AYA+Y CELLD+ + + + + L ++E Sbjct: 65 -LGTLQQGEVIETFSSIQQDIFMTAYATYVCELLDKATEERQPNPYLYELTFQILRDIDE 123 Query: 122 DKEPGIIINVFEMKILQAAGYGPQLDNCIVCGLDKPDEELRVSPRLGGVLCRSCRHNDPP 181 +P I+ ++EMK+L G P +D C +CG + S G++C C D Sbjct: 124 GYDPQILTQIYEMKMLPVLGLYPTMDKCAICG--ETTGHFDFSTSSNGIICHRCFEKDRY 181 Query: 182 AMEISPXXXXXXXXXXXXXXXXXGNVNVKEGTRAELKKIMRAFMDHQLGLKLKSQNFLDQ 241 M + GN++VK+ T+ L+K + + D GL LKS+ F+ + Sbjct: 182 RMHLPENVVKLLRLFFIFQLDRLGNIDVKQETKDWLQKAIDTYYDEYSGLYLKSRKFIRE 241 Query: 242 LDKY 245 +DK+ Sbjct: 242 MDKW 245 >ref|NP_834007.1| DNA repair protein recO [Bacillus cereus ATCC 14579] sp|Q818G3|RECO_BACCR DNA repair protein recO (Recombination protein O) gb|AAP11208.1| DNA repair protein recO [Bacillus cereus ATCC 14579] Length = 248 Score = 161 bits (407), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 86/247 (34%), Positives = 133/247 (53%), Gaps = 3/247 (1%) Query: 1 VEGIVIRSMDYGEGNAIITLCTENAGKVGVLVRGAKKVKSRHAALIQLFTAGEYVFFRNN 60 VEGIVIR+ DYGE N I+T+ + GKV + RG+KK KSR A++ QL T G ++ + Sbjct: 5 VEGIVIRTTDYGETNKIVTIFSRELGKVSAMARGSKKPKSRLASVSQLMTHGHFLI-QMG 63 Query: 61 GGLGTLNAGEITKSHHPLREDLVKAAYASYACELLDRVLHDEETGSFWFRQLTACLNALE 120 GLGTL GEI + +RED+ AYAS+ EL D+ D++ + F L L+ + Sbjct: 64 SGLGTLQQGEIISTMKEIREDIFLTAYASFIVELTDKATEDKKHNPYLFEMLYQTLHYMC 123 Query: 121 EDKEPGIIINVFEMKILQAAGYGPQLDNCIVCGLDKPDEELRVSPRLGGVLCRSCRHNDP 180 E +P ++ +++ K+L G P D C +C + + + S R GG LC DP Sbjct: 124 EGVDPEVLSLIYQTKMLPVLGMRPYFDTCAIC--HQETDFVAFSVREGGFLCSRHAEQDP 181 Query: 181 PAMEISPXXXXXXXXXXXXXXXXXGNVNVKEGTRAELKKIMRAFMDHQLGLKLKSQNFLD 240 + + GNV+VK+ T+ +++ ++ + D G+ LKS+ FL+ Sbjct: 182 YRIPVGEAVHKLLRLFFHFDLHRLGNVSVKDSTKKQMRLVLNTYYDEYCGIYLKSRRFLE 241 Query: 241 QLDKYNI 247 QLDK+ I Sbjct: 242 QLDKFQI 248 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 0.320 0.139 0.412 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: 343,323,139 Number of extensions: 13212609 Number of successful extensions: 25768 Number of sequences better than 1.0e-05: 82 Number of HSP's gapped: 25749 Number of HSP's successfully gapped: 82 Length of query: 247 Length of database: 757,237,578 Length adjustment: 122 Effective length of query: 125 Effective length of database: 425,995,500 Effective search space: 53249437500 Effective search space used: 53249437500 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 (21.8 bits) S2: 124 (52.4 bits)