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= 0392.0004.p (265 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC2358 [J] COG0566 rRNA methylases 184 2e-46 lin1181 [J] COG0566 rRNA methylases 176 4e-44 BH3112 [J] COG0566 rRNA methylases 164 2e-40 SA0984 [J] COG0566 rRNA methylases 162 3e-40 BS_ysgA [J] COG0566 rRNA methylases 159 5e-39 >CAC2358 [J] COG0566 rRNA methylases Length = 261 Score = 184 bits (466), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 99/261 (37%), Positives = 158/261 (60%), Gaps = 10/261 (3%) Query: 3 IMSPQNTRVKEWAGLQEKKHRDKAGKYIIEGIHLVQEALLAEADVECLAY---DLDKGMP 59 I S +N+ +KE L EKKHRD +I+EG+ V+EAL ++ ++ L + DK + Sbjct: 5 IKSKENSIIKEVKKLNEKKHRDLKKSFIVEGLRFVREALESDFKIQYLFVSEKNYDKFIL 64 Query: 60 AELKPLLQSVQGMEVIGVSAAVIAKCSSTGTPQPVFAIVRKGQQGLEAILAKRDSWVMVL 119 ELK L++ + +VI V+ +++ +T TPQ + A+V Q E + M++ Sbjct: 65 KELKELIK--KEFQVIKVTESILKDICNTQTPQGIVAVV----QYKEVAWKLTKGFYMLV 118 Query: 120 DGVQDPGNVGTIIRSADAAGADGVILGKGCADLYNPKTLRSTMGSMFHLPVV-EGELSGI 178 D VQDPGN+GTIIR+A+AAGA GVI+ KG D+YN KTLR+TMGS+F +P++ E + Sbjct: 119 DKVQDPGNMGTIIRTANAAGALGVIITKGTVDIYNNKTLRATMGSIFKIPIIFEDDNFSK 178 Query: 179 LPQARERGALVVSTSLTGVESCYTHDFHGSQWLLIGSEGQGISPQAAALVDKSIIIPMAG 238 + + ++ G ++++SL + Y + + +G+EG GIS + + D + IPM G Sbjct: 179 IKELKKNGFKIIASSLDTEHNFYDVSLNEKLIIAVGNEGNGISDKIVDISDTKVKIPMPG 238 Query: 239 RAESLNAAMAATILLFEGMRQ 259 ESLN +AA I++FE +R+ Sbjct: 239 NVESLNVGVAAAIMMFEYVRK 259 >lin1181 [J] COG0566 rRNA methylases Length = 252 Score = 176 bits (446), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 105/260 (40%), Positives = 154/260 (59%), Gaps = 12/260 (4%) Query: 2 EIMSPQNTRVKEWAGLQEKKHRDKAGKYIIEGIHLVQEALLAEADVECLAYDLDKGMPAE 61 +I S +N RVK W LQ +K RDK G Y++EG HLV+EAL + V L +P E Sbjct: 3 QIQSVKNDRVKTWKKLQTRKGRDKTGTYLVEGFHLVEEALRQDGLVLELLISSGVSVPEE 62 Query: 62 LKPLLQSVQG-MEVIGVSAAVIAKCSSTGTPQPVFAIVRKGQQGLEAILAKRDSWVMVLD 120 ++G +V +S+ + S T T Q VFA+V + + + K+ ++++D Sbjct: 63 W------LKGDYDVFEISSEISHLISDTMTEQGVFAVVAISEPDMMLLYGKK---LLLVD 113 Query: 121 GVQDPGNVGTIIRSADAAGADGVILGKGCADLYNPKTLRSTMGSMFHLPVVEGELSGILP 180 VQDPGNVGT+IR+ADAAG D V+LG+G ADLYNPK +RST GS FH+PV++ +L + Sbjct: 114 AVQDPGNVGTLIRTADAAGYDCVVLGRGSADLYNPKVIRSTQGSHFHIPVIQADLFEWVA 173 Query: 181 QARERGALVVSTSLTG-VESCYTHDFHGSQWLLIGSEGQGISPQAAALVDKSIIIPMAGR 239 E G V+ L +S + L++G+EG GIS + + + + IP+ G Sbjct: 174 NLEEEGVPVIGAVLDDQAKSLNDMPKRETLALMVGNEGNGISEELQDRLSEKVYIPIYGD 233 Query: 240 AESLNAAMAATILLFEGMRQ 259 +ESLN A+AA ILL+ G+R+ Sbjct: 234 SESLNVAVAAGILLY-GLRK 252 >BH3112 [J] COG0566 rRNA methylases Length = 251 Score = 164 bits (414), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 100/253 (39%), Positives = 150/253 (59%), Gaps = 8/253 (3%) Query: 2 EIMSPQNTRVKEWAGLQEKKHRDKAGKYIIEGIHLVQEALLAEADVECLAYDLDKGMPAE 61 +I SP+N VK+W L KK RD++G+++IEG HLV+EAL + +E + +P Sbjct: 3 QIDSPKNELVKKWKKLHTKKGRDQSGQFLIEGYHLVEEALKSTITIETILVTESVTLPTA 62 Query: 62 LKPLLQSVQGMEVIGVSAAVIAKCSSTGTPQPVFAIVRKGQQGLEAILAKRDSWVMVLDG 121 V +VI VS V+A + T TPQ + AI E + + + +D Sbjct: 63 WH-----VDERDVILVSDRVMADLTETKTPQGIAAICHIPD---EPSFQELEGMFLCIDH 114 Query: 122 VQDPGNVGTIIRSADAAGADGVILGKGCADLYNPKTLRSTMGSMFHLPVVEGELSGILPQ 181 VQDPGNVGT+IR+ DAAG VI+ +G D+YN K +R++ GS+FHLPV++G+L G + Q Sbjct: 115 VQDPGNVGTMIRTCDAAGMSAVIVSEGSVDIYNSKVVRASQGSIFHLPVIKGDLHGWVDQ 174 Query: 182 ARERGALVVSTSLTGVESCYTHDFHGSQWLLIGSEGQGISPQAAALVDKSIIIPMAGRAE 241 +E G V T+L G + + LL+G+EG+G+ P+ D+++ IP+ G+AE Sbjct: 175 FKEAGIPVFGTALEGGSTYTAIEPQARFALLVGNEGEGVEPELLDKADQNLYIPLYGKAE 234 Query: 242 SLNAAMAATILLF 254 SLN A+A ILL+ Sbjct: 235 SLNVAVATGILLY 247 >SA0984 [J] COG0566 rRNA methylases Length = 246 Score = 162 bits (411), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 97/253 (38%), Positives = 148/253 (58%), Gaps = 13/253 (5%) Query: 2 EIMSPQNTRVKEWAGLQEKKHRDKAGKYIIEGIHLVQEALLAEADVECLAYDLDKGMPAE 61 +I S QN R+K+ L++K+ RDK G +IEG+HL++EA + + L + ++ PA Sbjct: 3 QITSAQNNRIKQANKLKKKRERDKTGLALIEGVHLIEEAYQSGIVITQL-FAIE---PAR 58 Query: 62 LKPLLQSVQGMEVIGVSAAVIAKCSSTGTPQPVFAIVRKGQQGLEAILAKRDSWVMVLDG 121 L + + EV ++ V S T TPQ FAI+ K + + V+++D Sbjct: 59 LDQQIIAY-AQEVFEINMKVAESLSGTVTPQGFFAIIEKPHYDI-----SKAQQVLLIDR 112 Query: 122 VQDPGNVGTIIRSADAAGADGVILGKGCADLYNPKTLRSTMGSMFHLPVVEGELSGILPQ 181 VQDPGN+GT+IR+ADAAG D VI+ KG D Y K LR++ GS+FHLPV+ +L + Q Sbjct: 113 VQDPGNLGTLIRTADAAGMDAVIMEKGTTDPYQDKVLRASQGSVFHLPVMTQDLDTFITQ 172 Query: 182 ARERGALVVSTSLTGVESCYTHDFHGSQWLLIGSEGQGISPQAAALVDKSIIIPMAGRAE 241 V T+L + S LL+G+EG+G++P+ A +++IIP+ G+AE Sbjct: 173 F---NGPVYGTALENAVAYKEVTSSDSFALLLGNEGEGVNPELLAHTTQNLIIPIYGKAE 229 Query: 242 SLNAAMAATILLF 254 SLN A+A +ILL+ Sbjct: 230 SLNVAIAGSILLY 242 >BS_ysgA [J] COG0566 rRNA methylases Length = 332 Score = 159 bits (402), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 14/253 (5%), Positives = 43/253 (16%), Gaps = 11/253 (4%) Query: 2 EIMSPQNTRVKEWAGLQEKKHRDKAGKYIIEGIHLVQEALLAEADVECLAYDLDKGMPAE 61 + T + L V + + + + Sbjct: 3 LASTIVQTPDDAIVAGFTSIPSQGDNMPAYHARPKQSDGPLPVVIVVQEIFGVHEHIRDI 62 Query: 62 LKPLLQSVQGMEVIGVSAAVIAKCSSTGTPQPVFAIVRKGQQGLEAILAKRDSWVMVLDG 121 + + ++ A + ++ D Sbjct: 63 CR------RLALEGYLAIAPELYFREGDPNDFADIPTLLSGLVAKV--PDS---QVLADL 111 Query: 122 VQDPGNVGTIIRSADAAGADGVILGKGCADLYNPKTLRSTMGSMFHLPVVEGELSGILPQ 181 G G LY + ++ + + Q Sbjct: 112 DHVASWASRNGGDVHRLMITGFCWGGRITWLYAAHNPQLKAAVAWYGKLTGDKSLNSPKQ 171 Query: 182 ARERGALVVSTSLTGVESCYTHDFHGSQWLLIGSEGQGISPQAAALVDKSIIIPMAGRAE 241 + + + + T + G + Q + + A Sbjct: 172 PVDIATDLNAGFSAYMVVRITAFRRRALKPCARRCGLLMRKQRLSCTRTPGMHSTLIIAR 231 Query: 242 SLNAAMAATILLF 254 ++ + Sbjct: 232 AIMPHLQKMAGSV 244 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.317 0.134 0.385 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 19,755,169 Number of extensions: 788480 Number of successful extensions: 1812 Number of sequences better than 1.0e-05: 91 Number of HSP's gapped: 1694 Number of HSP's successfully gapped: 91 Length of query: 265 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 161 Effective length of database: 26,383,695 Effective search space: 4247774895 Effective search space used: 4247774895 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: 115 (48.9 bits)