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= 0423.0001.p (242 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KG24.1 B3KG24_9BACI SMC domain protein 346 9e-94 A7Z370.1 A7Z370_BACA2 YirY 259 2e-67 O06714.3 SBCC_BACSU Nuclease sbcCD subunit C 256 2e-66 Q5L261.1 Q5L261_GEOKA DNA exonuclease 252 2e-65 C3J2Q3.1 C3J2Q3_9BACI SMC domain protein 252 2e-65 >B3KG24.1 B3KG24_9BACI SMC domain protein Length = 1147 Score = 346 bits (888), Expect = 9e-94, Method: Compositional matrix adjust. Identities = 170/241 (70%), Positives = 193/241 (80%) Query: 1 VKPILLKVAGLQSYREQQEIDFGSLTETGLFGIFGPTGSGKSSVLDAITLAMYGKVERAV 60 +KPILLK++GLQSYR QEIDF +L ETGLFGIFGPTGSGKS++LDAITLAMYGKVERAV Sbjct: 1 MKPILLKLSGLQSYRSTQEIDFETLCETGLFGIFGPTGSGKSTLLDAITLAMYGKVERAV 60 Query: 61 NGTQGIMNHSEDQLSVSFTFELTSSSGPRRYRVERKFKRTGDQSVSNTISRFIEVAADGD 120 NGTQGIMNHSED LSVSFTFEL+S++G RYRVER+FKR + S+SNT+SRFI V +GD Sbjct: 61 NGTQGIMNHSEDGLSVSFTFELSSAAGLERYRVERRFKRVNELSISNTVSRFIRVTPEGD 120 Query: 121 HVLADKLADVTRCVEEHIGLKMDDFTRAVVLPQGKFAEFLSLRGVDRRQMLQRLFHLEQY 180 V+ADKLA+VTRCVEE IGLKMDDFTRAVVLPQGKFAEFLSL+G +RRQMLQRLFHLE+Y Sbjct: 121 QVVADKLAEVTRCVEEKIGLKMDDFTRAVVLPQGKFAEFLSLKGSERRQMLQRLFHLERY 180 Query: 181 GDGLAMKLSRRVKXXXXXXXXXXXXQQGLGSAGKADVEAAAGRLQXXXXNGGGGATLPQA 240 GD LA+KLSRRVK QQGLGSAGK + A L+ + QA Sbjct: 181 GDQLAIKLSRRVKDTEGSLKSVEAEQQGLGSAGKEALAEATAVLEHAKKHAALSRNQLQA 240 Query: 241 A 241 A Sbjct: 241 A 241 >A7Z370.1 A7Z370_BACA2 YirY Length = 1130 Score = 259 bits (661), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 131/215 (60%), Positives = 156/215 (72%), Gaps = 4/215 (1%) Query: 1 VKPILLKVAGLQSYREQQEIDFGSLTETGLFGIFGPTGSGKSSVLDAITLAMYGKVERAV 60 +KPILL + GL S+RE+Q IDF L+ G+FGIFGPTGSGKSS+LDA+TLA+YGKVERA Sbjct: 1 MKPILLTIKGLHSFREEQTIDFAGLSGAGVFGIFGPTGSGKSSILDAMTLALYGKVERAA 60 Query: 61 NGTQGIMNHSEDQLSVSFTFELTSSSGPR-RYRVERKFKRTGDQSVSNTISRFIEVAADG 119 N T GI+NH+EDQL+VSFTF L SG R Y+VER FKRT + V + R IE+ D Sbjct: 61 NNTHGILNHAEDQLAVSFTFAL--QSGHRVSYKVERVFKRTDETKVKTALCRLIEI-KDE 117 Query: 120 DHVLADKLADVTRCVEEHIGLKMDDFTRAVVLPQGKFAEFLSLRGVDRRQMLQRLFHLEQ 179 VLADK +V + VEE +GL +DDFTRAVVLPQGKFAEFLSL+G +RR MLQRLF+LEQ Sbjct: 118 QTVLADKANEVNKKVEELLGLTIDDFTRAVVLPQGKFAEFLSLKGAERRHMLQRLFNLEQ 177 Query: 180 YGDGLAMKLSRRVKXXXXXXXXXXXXQQGLGSAGK 214 YGD L KL RR + Q GLG AG+ Sbjct: 178 YGDRLVKKLRRRAQEAAAKKNEMLAEQSGLGDAGE 212 >O06714.3 SBCC_BACSU Nuclease sbcCD subunit C Length = 1130 Score = 256 bits (653), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 130/225 (57%), Positives = 158/225 (70%), Gaps = 2/225 (0%) Query: 1 VKPILLKVAGLQSYREQQEIDFGSLTETGLFGIFGPTGSGKSSVLDAITLAMYGKVERAV 60 +KPI L + GL S+RE+Q IDF L+ G+FGIFGPTGSGKSS+LDA+TLA+YGKVERA Sbjct: 1 MKPIALSIKGLHSFREEQTIDFEGLSGAGVFGIFGPTGSGKSSILDAMTLALYGKVERAA 60 Query: 61 NGTQGIMNHSEDQLSVSFTFELTSSSGPRRYRVERKFKRTGDQSVSNTISRFIEVAADGD 120 N T GI+NH+ED LSVSFTF L ++ Y+VER FKRT + V + RFIE+ D Sbjct: 61 NNTHGILNHAEDTLSVSFTFALQTNHQI-SYKVERVFKRTDEMKVKTALCRFIEI-KDEH 118 Query: 121 HVLADKLADVTRCVEEHIGLKMDDFTRAVVLPQGKFAEFLSLRGVDRRQMLQRLFHLEQY 180 VLADK ++V + VEE +GL +DDFTRAVVLPQGKFAEFLSL+G +RR MLQRLF+LEQY Sbjct: 119 TVLADKASEVNKRVEELLGLTIDDFTRAVVLPQGKFAEFLSLKGAERRHMLQRLFNLEQY 178 Query: 181 GDGLAMKLSRRVKXXXXXXXXXXXXQQGLGSAGKADVEAAAGRLQ 225 GD L KL R+ + Q GLG A VE A L+ Sbjct: 179 GDRLVKKLRRQAQEANARKNEMLAEQSGLGEASSEAVEQAEKVLE 223 >Q5L261.1 Q5L261_GEOKA DNA exonuclease Length = 1114 Score = 252 bits (644), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 123/220 (55%), Positives = 160/220 (72%), Gaps = 1/220 (0%) Query: 1 VKPILLKVAGLQSYREQQEIDFGSLTETGLFGIFGPTGSGKSSVLDAITLAMYGKVERAV 60 +KPI L +AGL S+RE+Q IDF +L E G+FGIFGPTGSGKS++LDA+TLA++G VERA Sbjct: 1 MKPISLTIAGLHSFREKQTIDFTALCEGGVFGIFGPTGSGKSTILDAMTLALFGSVERAA 60 Query: 61 NGTQGIMNHSEDQLSVSFTFELTSSSGPRRYRVERKFKRTGDQSVSNTISRFIEVAADGD 120 N TQ I+NH+E +L VSFTFEL +++G +RY VER K+ + + + R IE ++ Sbjct: 61 NRTQAIINHAEQELFVSFTFELENAAGAKRYTVERSLKKVDEWRTRSAVCRLIEHRSEPV 120 Query: 121 HVLADKLADVTRCVEEHIGLKMDDFTRAVVLPQGKFAEFLSLRGVDRRQMLQRLFHLEQY 180 VLADKL++V + +E+ +GL M+DFTRAVVLPQGKFAEFLSL+G +RRQMLQRLFHLE+Y Sbjct: 121 -VLADKLSEVDKAIEQLLGLTMEDFTRAVVLPQGKFAEFLSLKGSERRQMLQRLFHLERY 179 Query: 181 GDGLAMKLSRRVKXXXXXXXXXXXXQQGLGSAGKADVEAA 220 GD L KL R+ + GLG A KA +E A Sbjct: 180 GDQLNKKLKDRLAAARQEWEKIEAEKAGLGDASKAALEQA 219 >C3J2Q3.1 C3J2Q3_9BACI SMC domain protein Length = 1114 Score = 252 bits (644), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 123/220 (55%), Positives = 160/220 (72%), Gaps = 1/220 (0%) Query: 1 VKPILLKVAGLQSYREQQEIDFGSLTETGLFGIFGPTGSGKSSVLDAITLAMYGKVERAV 60 +KPI L +AGL S+RE+Q IDF +L E G+FGIFGPTGSGKS++LDA+TLA++G VERA Sbjct: 1 MKPISLTIAGLHSFREKQTIDFTALCEGGVFGIFGPTGSGKSTILDAMTLALFGSVERAA 60 Query: 61 NGTQGIMNHSEDQLSVSFTFELTSSSGPRRYRVERKFKRTGDQSVSNTISRFIEVAADGD 120 N TQ I+NH+E +L VSFTFEL +++G +RY VER K+ + + + R IE ++ Sbjct: 61 NRTQAIINHAEQELFVSFTFELENAAGAKRYTVERSLKKVDEWRTRSAVCRLIEHRSEPV 120 Query: 121 HVLADKLADVTRCVEEHIGLKMDDFTRAVVLPQGKFAEFLSLRGVDRRQMLQRLFHLEQY 180 VLADKL++V + +E+ +GL M+DFTRAVVLPQGKFAEFLSL+G +RRQMLQRLFHLE+Y Sbjct: 121 -VLADKLSEVDKAIEQLLGLTMEDFTRAVVLPQGKFAEFLSLKGSERRQMLQRLFHLERY 179 Query: 181 GDGLAMKLSRRVKXXXXXXXXXXXXQQGLGSAGKADVEAA 220 GD L KL R+ + GLG A KA +E A Sbjct: 180 GDQLNKKLKDRLAAARQEWEKIEAEKAGLGDASKAALEQA 219 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 0.318 0.135 0.376 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: 1,246,037,349 Number of extensions: 45676374 Number of successful extensions: 218214 Number of sequences better than 1.0e-05: 693 Number of HSP's gapped: 217671 Number of HSP's successfully gapped: 693 Length of query: 242 Length of database: 3,060,696,203 Length adjustment: 132 Effective length of query: 110 Effective length of database: 1,817,122,223 Effective search space: 199883444530 Effective search space used: 199883444530 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 129 (54.3 bits)