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: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KG40.1 B3KG40_9BACI DNA repair protein RecO 375 e-102 B1DFN8.1 B1DFN8_9BACL DNA repair protein RecO 261 3e-68 Q2B295.1 Q2B295_9BACI DNA repair protein RecO 195 3e-48 A6CSJ7.1 A6CSJ7_9BACI DNA repair protein RecO 192 2e-47 Q9KD50.1 RECO_BACHD DNA repair protein recO 181 7e-44 >B3KG40.1 B3KG40_9BACI DNA repair protein RecO Length = 251 Score = 375 bits (963), Expect = e-102, Method: Compositional matrix adjust. Identities = 182/246 (73%), Positives = 201/246 (81%) Query: 2 EGIVIRSMDYGEGNAIITLCTENAGKVGVLVRGAKKVKSRHAALIQLFTAGEYVFFRNNG 61 EGIVIRSMDYGEGN IITLCT+ +GKVGVLVRGAKKVKSRHAAL QLFT GEYVFFRN Sbjct: 6 EGIVIRSMDYGEGNKIITLCTKESGKVGVLVRGAKKVKSRHAALTQLFTYGEYVFFRNGT 65 Query: 62 GLGTLNAGEITKSHHPLREDLVKAAYASYACELLDRVLHDEETGSFWFRQLTACLNALEE 121 GLG LNAGEI +SHH LREDLVKAAYASYACELLDRVL DEETG+FWF QL ACL AL+E Sbjct: 66 GLGNLNAGEIMESHHGLREDLVKAAYASYACELLDRVLQDEETGAFWFHQLKACLEALQE 125 Query: 122 DKEPGIIINVFEMKILQAAGYGPQLDNCIVCGLDKPDEELRVSPRLGGVLCRSCRHNDPP 181 DK+P IIIN++EMKILQAAGYGP+LD CI C + DE++ VSPRLGGVLCR C+H DPP Sbjct: 126 DKDPQIIINLYEMKILQAAGYGPELDVCISCNQSRKDEDMLVSPRLGGVLCRYCKHLDPP 185 Query: 182 AMEISPXXXXXXXXXXXXXXXXXGNVNVKEGTRAELKKIMRAFMDHQLGLKLKSQNFLDQ 241 AM IS GNV+VK+ T+AELKK+MRA MD QLGL+LKSQNFLDQ Sbjct: 186 AMAISTRTLKLLRLFGRLDLRRLGNVDVKDETKAELKKVMRALMDMQLGLRLKSQNFLDQ 245 Query: 242 LDKYNI 247 +DKYNI Sbjct: 246 MDKYNI 251 >B1DFN8.1 B1DFN8_9BACL DNA repair protein RecO Length = 249 Score = 261 bits (668), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 134/247 (54%), Positives = 170/247 (68%), Gaps = 3/247 (1%) Query: 1 VEGIVIRSMDYGEGNAIITLCTENAGKVGVLVRGAKKVKSRHAALIQLFTAGEYVFFRNN 60 VEGIVIRSMDYGEGN IITL T+ GK+GV+VRGAKKVKSRHA+L Q FT GE+VFFRN Sbjct: 5 VEGIVIRSMDYGEGNKIITLLTKTNGKLGVMVRGAKKVKSRHASLAQPFTYGEFVFFRNK 64 Query: 61 GGLGTLNAGEITKSHHPLREDLVKAAYASYACELLDRVLHDEETGSFWFRQLTACLNALE 120 G LGTLNAGEI +SHH LRE L AAYASY EL D++L ++E+G+ F QL A L A+E Sbjct: 65 G-LGTLNAGEILESHHLLREQLDLAAYASYLAELTDKMLQEDESGAMLFEQLKAGLAAME 123 Query: 121 EDKEPGIIINVFEMKILQAAGYGPQLDNCIVCGLDKPDEELRVSPRLGGVLCRSCRHNDP 180 E K+P I+ ++FEM+IL+AAGY P+L+ C+ C ++ R++P GGVLC C ND Sbjct: 124 EGKDPQIVSHLFEMRILEAAGYAPELEICVNCSSEQGP--FRLNPHAGGVLCTRCARNDA 181 Query: 181 PAMEISPXXXXXXXXXXXXXXXXXGNVNVKEGTRAELKKIMRAFMDHQLGLKLKSQNFLD 240 A+ + G + VK T+ ELKK+MR MD +G+ LKS+ FLD Sbjct: 182 QAIPMGEGAYKLLRLFSRMDLRRLGAIQVKPETKKELKKLMRELMDAHIGIPLKSRTFLD 241 Query: 241 QLDKYNI 247 Q+DKY+ Sbjct: 242 QMDKYSF 248 >Q2B295.1 Q2B295_9BACI DNA repair protein RecO Length = 253 Score = 195 bits (495), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 102/243 (41%), Positives = 142/243 (58%), Gaps = 3/243 (1%) Query: 2 EGIVIRSMDYGEGNAIITLCTENAGKVGVLVRGAKKVKSRHAALIQLFTAGEYVFFRNNG 61 EGIV+R+++YGE N I+TL T GKVGV+ RGAKK SR +A+ Q FT G Y + + Sbjct: 6 EGIVLRTVNYGESNKIVTLYTREWGKVGVMARGAKKPNSRLSAVTQPFTYG-YFLVQRSS 64 Query: 62 GLGTLNAGEITKSHHPLREDLVKAAYASYACELLDRVLHDEETGSFWFRQLTACLNALEE 121 GLG + GE+ S +RED+ AYASY +L D+ + +++ F F L LN + E Sbjct: 65 GLGLMQQGEMVSSMRSIREDIFLTAYASYIVDLTDKTVEEKKPNPFHFELLHQTLNYMNE 124 Query: 122 DKEPGIIINVFEMKILQAAGYGPQLDNCIVCGLDKPDEELRVSPRLGGVLCRSCRHNDPP 181 +P I++N++EMK+L + G P LD C VCG D S R GG++C C DP Sbjct: 125 GYDPEIMVNIYEMKMLNSLGLYPVLDKCSVCG--STDGHFSFSIREGGLICHRCLEKDPY 182 Query: 182 AMEISPXXXXXXXXXXXXXXXXXGNVNVKEGTRAELKKIMRAFMDHQLGLKLKSQNFLDQ 241 +ISP GN++VK T+AELKKI+ A+ + GL LK++ FLDQ Sbjct: 183 HYKISPAALKLLRLFYYFDLSRLGNISVKPETKAELKKIISAYYNEYSGLSLKTRKFLDQ 242 Query: 242 LDK 244 +DK Sbjct: 243 MDK 245 >A6CSJ7.1 A6CSJ7_9BACI DNA repair protein RecO Length = 250 Score = 192 bits (488), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 97/243 (39%), Positives = 141/243 (58%), Gaps = 3/243 (1%) Query: 2 EGIVIRSMDYGEGNAIITLCTENAGKVGVLVRGAKKVKSRHAALIQLFTAGEYVFFRNNG 61 EGIVIR+ +YGE N I+T+ + GK+GV+ RGAKK SR +++ QLFT G Y ++ + Sbjct: 6 EGIVIRTNNYGESNKIVTIYSRENGKLGVMARGAKKTNSRLSSVSQLFTYG-YFLYQKSS 64 Query: 62 GLGTLNAGEITKSHHPLREDLVKAAYASYACELLDRVLHDEETGSFWFRQLTACLNALEE 121 GLGTL + S +REDL K AYA+Y +L+D+ + + F F L L + E Sbjct: 65 GLGTLQQADTIASMRNIREDLFKTAYATYVVDLIDKGTEERKPNPFLFEMLFQTLTYINE 124 Query: 122 DKEPGIIINVFEMKILQAAGYGPQLDNCIVCGLDKPDEELRVSPRLGGVLCRSCRHNDPP 181 + +P I+ ++FEMK+L G P LD C VCG + + E S + G++C C NDP Sbjct: 125 EYDPDIVTHIFEMKMLPVLGLHPSLDKCAVCG--ETEGEFSFSFKENGIICHRCIGNDPY 182 Query: 182 AMEISPXXXXXXXXXXXXXXXXXGNVNVKEGTRAELKKIMRAFMDHQLGLKLKSQNFLDQ 241 ++SP G +++KE T+ ELKKI+R + D GL LKS+ FLDQ Sbjct: 183 HYKVSPQTIKLLRLFYHFDMNRLGTISLKESTKEELKKIIRTYYDEYSGLYLKSRKFLDQ 242 Query: 242 LDK 244 +D+ Sbjct: 243 IDR 245 >Q9KD50.1 RECO_BACHD DNA repair protein recO Length = 254 Score = 181 bits (458), Expect = 7e-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 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 0.320 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: 9421015 Number of Hits to DB: 1,368,375,998 Number of extensions: 52618740 Number of successful extensions: 104153 Number of sequences better than 1.0e-05: 581 Number of HSP's gapped: 103626 Number of HSP's successfully gapped: 581 Length of query: 247 Length of database: 3,060,696,203 Length adjustment: 132 Effective length of query: 115 Effective length of database: 1,817,122,223 Effective search space: 208969055645 Effective search space used: 208969055645 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: 129 (54.3 bits)