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= 0020.0013.p (335 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|ZP_00061851.1| COG2206: HD-GYP domain [Clostridium thermocel... 220 5e-56 ref|NP_244661.1| BH3794~unknown conserved protein in others [Bac... 197 3e-49 ref|NP_350232.1| HD-GYP domain containing protein [Clostridium a... 189 9e-47 ref|NP_240874.1| BH0008~unknown conserved protein in others [Bac... 164 3e-39 ref|NP_900038.1| conserved hypothetical protein [Chromobacterium... 161 2e-38 >ref|ZP_00061851.1| COG2206: HD-GYP domain [Clostridium thermocellum ATCC 27405] Length = 345 Score = 220 bits (560), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 122/335 (36%), Positives = 185/335 (55%), Gaps = 12/335 (3%) Query: 6 GKKIKNDLINSYGVTVIPANSILNAEHLELIRKQKINILDIIFAGEEGQAPSCKE---LA 62 G +I ++N YG VI +IL+ ++ + + +I + + E ++ Sbjct: 14 GMRIAETIMNDYGSVVISEGTILDDHMIKKLVNLNYTKVRVIEKDKNFVSSEISESFNVS 73 Query: 63 YDV-VNKSKDLFESFRISRKVPLADIRKEVVPAIQEISRHSDIFALFDAIQGKDDYTYQH 121 Y+ VN K + + + + + + K V+ + + DI + I+ D YTY H Sbjct: 74 YNASVNCFKSILYDAAVGKNINMEKVDKVVMSVVARLDEKRDIVRCINQIKSADQYTYTH 133 Query: 122 NIGVGVLSTLIGRWLNMSESDLSVLSLAATLHDIGKLKIPSEILNKPGKLTPDEYELVKK 181 + V +L L+G+WL S+ L L A LHDIGK K+P EILNKP KLTP+EYE +KK Sbjct: 134 CVNVSLLCMLLGKWLGYSKDSLIKLVQAGLLHDIGKAKVPKEILNKPSKLTPEEYEEIKK 193 Query: 182 HTILGYEMLKETTGANSHITLTALQHHERNDGRGYPLGLKEEQIDAYAKIVAVADIFHAM 241 HT+ GY +L++ + + + L HHER DG GYP G K +QI+ A+++AVADI+ AM Sbjct: 194 HTVYGYRILEKEHEIDRDVAIAVLMHHERMDGSGYPTGAKSDQINMMARVIAVADIYDAM 253 Query: 242 SSRRPYHEPVP----FHIIVDQMRRGSFGALDPHIVSVFLENIVKRTVGREVILTDGRVG 297 +S R Y E FHII ++ + G LD +V+ FL NI +G L G + Sbjct: 254 TSNRVYREKESPFEVFHIIEEE----AVGKLDVRVVNAFLSNIAAYYIGDFAKLNTGEIC 309 Query: 298 EIVYLNPHDIETPLVKVDDEYIDLSKLNTIKIKEI 332 EIVY+NP + P+++VDD+YIDL+ +KI EI Sbjct: 310 EIVYINPRYVSRPIIRVDDQYIDLTVEKDLKILEI 344 >ref|NP_244661.1| BH3794~unknown conserved protein in others [Bacillus halodurans] pir||B84124 hypothetical protein BH3794 [imported] - Bacillus halodurans (strain C-125) dbj|BAB07513.1| BH3794~unknown conserved protein in others [Bacillus halodurans] Length = 231 Score = 197 bits (501), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 97/223 (43%), Positives = 144/223 (64%), Gaps = 1/223 (0%) Query: 110 AIQGKDDYTYQHNIGVGVLSTLIGRWLNMSESDLSVLSLAATLHDIGKLKIPSEILNKPG 169 I+ KDDYTY+H +GV +LS LIG WL + E L L+L A LHDIGK++IP ILNKPG Sbjct: 3 VIKAKDDYTYRHTVGVSILSRLIGTWLKLDEVILKELTLGAVLHDIGKVEIPDAILNKPG 62 Query: 170 KLTPDEYELVKKHTILGYEMLKETTGANSHITLTALQHHERNDGRGYPLGLKEEQIDAYA 229 LT DEY +++ HT+ GY +++E+ + + L AL+HHER DG GYP +I + Sbjct: 63 ALTKDEYRIIQDHTVKGYRIIQESGIYSDTVALMALEHHEREDGTGYPYQKTRNEIHLLS 122 Query: 230 KIVAVADIFHAMSSRRPYHEPVPFHIIVDQMRRGSFGALDPHIVSVFLENIVKRTVGREV 289 KI+AVAD+FHAM+S R Y + + + ++ QMR+ FG L+P I F+ +++ +G + Sbjct: 123 KILAVADVFHAMTSDRIYRKGMALYDVLLQMRQDRFGKLEPRITDFFVRRFMEQCIGSKA 182 Query: 290 ILTDGRVGEIVYLNPHDIETPLVKVDDEYIDLSKLNTIKIKEI 332 L DG EIV++ + P+VK YIDL +++ + I+E+ Sbjct: 183 RLNDGSRVEIVFIPYENPICPIVKQGTNYIDL-RMSPLYIQEL 224 >ref|NP_350232.1| HD-GYP domain containing protein [Clostridium acetobutylicum] pir||A97348 HD-GYP domain containing protein [imported] - Clostridium acetobutylicum gb|AAK81572.1| HD-GYP domain containing protein [Clostridium acetobutylicum] Length = 355 Score = 189 bits (479), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 93/223 (41%), Positives = 141/223 (63%), Gaps = 2/223 (0%) Query: 111 IQGKDDYTYQHNIGVGVLSTLIGRWLNMSESDLSVLSLAATLHDIGKLKIPSEILNKPGK 170 I+ KD+YT+ H++ V LI +W+N+SE + + A LHD+GK KI + ILNKPG+ Sbjct: 131 IRDKDEYTFYHSVNVSFYGMLIAKWMNLSEKQIREVISAGLLHDLGKTKIKNSILNKPGR 190 Query: 171 LTPDEYELVKKHTILGYEMLKETTGANSHITLTALQHHERNDGRGYPLGLKEEQIDAYAK 230 LT +E+E +KKH + GYE++K+ N I LQHHER +G GYP G+K +++ Y++ Sbjct: 191 LTDEEFEEMKKHPLYGYEIIKDDPTINDDIKNVILQHHERINGTGYPYGIKADEMGLYSR 250 Query: 231 IVAVADIFHAMSSRRPY-HEPVPFHIIVDQMRRGSFGALDPHIVSVFLENIVKRTVGREV 289 I+A+AD++ AM+S R Y + PF + + D I+ VFL NI +G EV Sbjct: 251 IIAIADVYDAMTSDRVYKKKKSPFRAF-EMFKTEGISIFDTDILRVFLNNINVYFIGAEV 309 Query: 290 ILTDGRVGEIVYLNPHDIETPLVKVDDEYIDLSKLNTIKIKEI 332 +L DGR G+IVY+ P+++ P++K++ YID SK N I E+ Sbjct: 310 LLNDGRKGKIVYIPPNNLLKPILKMNSTYIDFSKDNGYSISEV 352 >ref|NP_240874.1| BH0008~unknown conserved protein in others [Bacillus halodurans] pir||H83650 hypothetical protein BH0008 [imported] - Bacillus halodurans (strain C-125) dbj|BAA82692.1| ORF14 [Bacillus halodurans] dbj|BAB03727.1| BH0008 [Bacillus halodurans] Length = 360 Score = 164 bits (415), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 88/270 (32%), Positives = 147/270 (54%), Gaps = 1/270 (0%) Query: 64 DVVNKSKDLFESFRISRKVPLADIRKEVVPAIQEISRHSDIFALFDAIQGKDDYTYQHNI 123 V K +F+ + V + +R ++P +EI D+ K+DY Y H + Sbjct: 88 QAVANYKKVFQEWAAGTPVEMECVRHILLPLFEEIVEKKDVLLQLHHYSTKEDYLYHHAV 147 Query: 124 GVGVLSTLIGRWLNMSESDLSVLSLAATLHDIGKLKIPSEILNKPGKLTPDEYELVKKHT 183 VG+LS +G L + + ++LA L D G K+P+ +L K G T E ++ H Sbjct: 148 SVGLLSAFLGAKLGYEKGEWLKIALAGALADCGMAKLPTSLLTKNGLYTLKEKHEMRDHP 207 Query: 184 ILGYEMLKETTGANSHITLTALQHHERNDGRGYPLGLKEEQIDAYAKIVAVADIFHAMSS 243 Y+MLK+ + + LQHHER DG GYPLG++ ++I YA+I+AVAD++HAM S Sbjct: 208 KYSYQMLKKRPEIDGSLLSAVLQHHEREDGTGYPLGVRGQKIHFYAQILAVADVYHAMIS 267 Query: 244 RRPYHEPVPFHIIVDQMRRGSFGALDPHIVSVFLENIVKRTVGREVILTDGRVGEIVYLN 303 R Y + +++++ + + FG +P IV V + + + +V V LT+ R+GEIV+++ Sbjct: 268 ERKYRKKKSPYMVLEDLAKERFGKFNPRIVHVLVSQLTQLSVRTSVRLTNNRLGEIVFID 327 Query: 304 PHDIETPLVKVDD-EYIDLSKLNTIKIKEI 332 P P+V++ E I L K T+ I+++ Sbjct: 328 PMAPTRPMVQLQTGEMIYLMKNYTVHIEDV 357 >ref|NP_900038.1| conserved hypothetical protein [Chromobacterium violaceum ATCC 12472] gb|AAQ58046.1| conserved hypothetical protein [Chromobacterium violaceum ATCC 12472] Length = 404 Score = 161 bits (407), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 94/287 (32%), Positives = 152/287 (52%), Gaps = 3/287 (1%) Query: 28 LNAEHLELIRKQKINILDIIFAGEEGQAPSCKELAYDVVNKSKDLFESFRISRKVPLADI 87 L +E E+ +++ + A E G+A + A ++ +D+ + R+ ++V L + Sbjct: 75 LESELREIASRERTVTRHVEAAEEFGRAQTIHHEANQII---RDILQDVRLGKQVELEQV 131 Query: 88 RKEVVPAIQEISRHSDIFALFDAIQGKDDYTYQHNIGVGVLSTLIGRWLNMSESDLSVLS 147 +V I R+ I+ KD+YT+QH++ VG L L MS+ + Sbjct: 132 EPQVEKLTGSILRNGGALLSLCRIKDKDNYTFQHSVSVGALMVSFCNALGMSKEVIHHAG 191 Query: 148 LAATLHDIGKLKIPSEILNKPGKLTPDEYELVKKHTILGYEMLKETTGANSHITLTALQH 207 + LHDIGK+K+P ILNKPGKLT E+ ++K H + ++L T G + L A QH Sbjct: 192 IGGMLHDIGKMKVPDSILNKPGKLTEQEFMVMKCHVVESQKILHATRGISETAVLVAGQH 251 Query: 208 HERNDGRGYPLGLKEEQIDAYAKIVAVADIFHAMSSRRPYHEPVPFHIIVDQMRRGSFGA 267 HER+DG GYP GLK E+I ++ A+ D++ A++S R YH+ +P + ++ S Sbjct: 252 HERHDGSGYPAGLKGEEISQLGQMAAIVDVYDALTSNRCYHKGMPPTDALRKIYEWSKFH 311 Query: 268 LDPHIVSVFLENIVKRTVGREVILTDGRVGEIVYLNPHDIETPLVKV 314 +P +V F+ I VG V L GR+G +V N ++ +P VKV Sbjct: 312 FNPELVQAFMRVIGIYPVGTLVRLESGRLGVVVEQNEDNLVSPKVKV 358 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 0.318 0.138 0.390 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: 494,865,986 Number of extensions: 20639010 Number of successful extensions: 56880 Number of sequences better than 1.0e-05: 390 Number of HSP's gapped: 56582 Number of HSP's successfully gapped: 390 Length of query: 335 Length of database: 757,237,578 Length adjustment: 126 Effective length of query: 209 Effective length of database: 415,135,104 Effective search space: 86763236736 Effective search space used: 86763236736 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 (21.7 bits) S2: 126 (53.1 bits)