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= 0109.0020.p (347 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH3415_2 [C] COG1252 NADH dehydrogenase, FAD-containing subunit 389 e-108 BS_yutJ [C] COG1252 NADH dehydrogenase, FAD-containing subunit 334 2e-91 SA0799 [C] COG1252 NADH dehydrogenase, FAD-containing subunit 326 4e-89 BH3407 [C] COG1252 NADH dehydrogenase, FAD-containing subunit 105 8e-23 BS_ndhF [CP] COG1009 NADH:ubiquinone oxidoreductase subunit 5 (c... 101 2e-21 >BH3415_2 [C] COG1252 NADH dehydrogenase, FAD-containing subunit Length = 341 Score = 389 bits (1000), Expect = e-108, Method: Compositional matrix adjust. Identities = 185/340 (54%), Positives = 244/340 (71%), Gaps = 2/340 (0%) Query: 10 LIQKLLDNHLPHDVEIVLVDRMPYQGIKTEYYALAAGTVTDYHLRIQFPVHPRLTVRYGE 69 ++Q+LL N LP D EI LVDR+PY +KTEYYALAAGT +D+HLR+ FP PRL+ RYG Sbjct: 2 ILQRLLPNDLPSDWEITLVDRLPYHCLKTEYYALAAGTASDHHLRVSFPEDPRLSTRYGS 61 Query: 70 VGSIDLESRMIFLKTGEPMSYDILAIALGCTDNYHNVPGAEEHTCSIQSFSSTRETYRRL 129 V SIDL S+ + + GEP++YD L I LGC D YH VPGA+EHT SIQS +TR TY L Sbjct: 62 VSSIDLASKTVLFEEGEPLTYDTLIIGLGCEDKYHGVPGAKEHTYSIQSMEATRRTYEAL 121 Query: 130 NDVRPYGTVNIVGGGLSGVEIAAELRESRPDLNISILDRGERVLSSFPAKLSQYVEEWFS 189 N+VRP G V IVG GLSGVE+A+ELRESRPDL I +LDRG+ +LS FP +LS YV+ WF Sbjct: 122 NNVRPEGVVTIVGAGLSGVELASELRESRPDLTIKLLDRGDIILSMFPRRLSNYVQNWFI 181 Query: 190 EHHVETLGHISVSHVEKDAIFNGTQAIPGDVTVWTAGIQPVEVVQQLELPKDRGGRIIVE 249 +H V+ + +V+ VE+ A++N + I D +WTAGIQP VV+ L++ KD+ GR+++ Sbjct: 182 DHGVDIINKSNVTKVEEGAVYNHDERIESDAIIWTAGIQPNVVVRNLDVEKDQQGRVVLT 241 Query: 250 PYYNVADYPEVYVIGDCASLPFAPSXXXXXXXXXXXXXIMQALWRDET--PKLHKIKLKG 307 P++++ +V+V+GDCASLP APS +++ W +E+ + +IKLKG Sbjct: 242 PHHHLPTDEDVFVVGDCASLPHAPSAQLAEGQAEQIVTVLKKRWNNESLPDEFPRIKLKG 301 Query: 308 TLGSLGKNAGFGLMGRRSVMGRVPRLLKSGVLWMSKRHFG 347 LGSLGK GFGLMG R+++GRVPR+LKSGVLWM K H G Sbjct: 302 VLGSLGKKHGFGLMGERTLIGRVPRVLKSGVLWMYKYHSG 341 >BS_yutJ [C] COG1252 NADH dehydrogenase, FAD-containing subunit Length = 330 Score = 334 bits (856), Expect = 2e-91, Method: Compositional matrix adjust. Identities = 158/318 (49%), Positives = 214/318 (67%), Gaps = 2/318 (0%) Query: 1 LGGGYGGLALIQKLLDNHLPHDVEIVLVDRMPYQGIKTEYYALAAGTVTDYHLRIQFPVH 60 +GGGYG + ++ +LL N LP DV I L+DR PY +KTEYYALAAGT++D+H+R+ FP H Sbjct: 7 IGGGYGNMRVLHRLLPNQLPDDVSITLIDRNPYHCLKTEYYALAAGTISDHHIRVSFPEH 66 Query: 61 PRLTVRYGEVGSIDLESRMIFLKTGEPMSYDILAIALGCTDNYHNVPGAEEHTCSIQSFS 120 PRL V+YG++ SID+ + + + EP+SYD I LGC D YHNVPGA E T SIQ+ Sbjct: 67 PRLDVQYGDITSIDIVQKQVLFQDREPISYDDAIIGLGCEDKYHNVPGAPEFTYSIQTID 126 Query: 121 STRETYRRLNDVRPYGTVNIVGGGLSGVEIAAELRESRPDLNISILDRGERVLSSFPAKL 180 +RETY++LN++ TV IVG GLSGVE+A+ELRESR DLNI + DRG +LSSFP +L Sbjct: 127 QSRETYQKLNNLSANATVAIVGAGLSGVELASELRESRDDLNIILFDRGNLILSSFPERL 186 Query: 181 SQYVEEWFSEHHVETLGHISVSHVEKDAIFNGTQAIPGDVTVWTAGIQPVEVVQQLELPK 240 S+YV++WF EH V + +++ VE+ ++N I D VWTAGIQP +VV+ L++ K Sbjct: 187 SKYVQKWFEEHGVRIINRANITKVEEGVVYNHDDPISADAIVWTAGIQPNKVVRDLDVEK 246 Query: 241 DRGGRIIVEPYYNVADYPEVYVIGDCASLPFAPSXXXXXXXXXXXXXIMQALWRDET--P 298 D GRI++ P++N+ +YV+GDCASLP APS I+Q W E Sbjct: 247 DAQGRIVLTPHHNLPGDEHLYVVGDCASLPHAPSAQLAEAQAEQIVQILQKRWNGEALPE 306 Query: 299 KLHKIKLKGTLGSLGKNA 316 + + KLKG LGS K + Sbjct: 307 SMPQFKLKGVLGSTRKKS 324 >SA0799 [C] COG1252 NADH dehydrogenase, FAD-containing subunit Length = 354 Score = 326 bits (835), Expect = 4e-89, Method: Compositional matrix adjust. Identities = 158/349 (45%), Positives = 231/349 (66%), Gaps = 3/349 (0%) Query: 1 LGGGYGGLALIQKLLDNHLPHDVEIVLVDRMPYQGIKTEYYALAAGTVTDYHLRIQFPVH 60 LGGGYG + ++ ++L LP D + LVDRMP+ G+K E+YALAAGT +D +R++FP H Sbjct: 7 LGGGYGNMRIMSRILTTSLPQDYTVTLVDRMPFHGLKPEFYALAAGTKSDKDVRMKFPNH 66 Query: 61 PRLTVRYGEVGSIDLESRMIFLKTGEPMSYDILAIALGCTDNYHNVPGAEEHTCSIQSFS 120 P++ YGE+ IDL+++++ + + + YD L I LGC D YHNVPGAEE+T SIQ+ S Sbjct: 67 PQVNTVYGEINDIDLDAQIVSVGNSK-IDYDELIIGLGCEDKYHNVPGAEEYTHSIQTLS 125 Query: 121 STRETYRRLNDVRPYGTVNIVGGGLSGVEIAAELRESRPDLNISILDRGERVLSSFPAKL 180 R+T+ ++++ V IVG GLSG+E+A+ELRESR DL I + DRG R+L +FP KL Sbjct: 126 KARDTFHSISELPEGAKVGIVGAGLSGIELASELRESRSDLEIYLYDRGPRILRNFPEKL 185 Query: 181 SQYVEEWFSEHHVETLGHISVSHVEKDAIFNGTQAIPGDVTVWTAGIQPVEVVQQLELPK 240 S+YV +WF++++V + + +++ VE I+N + D+ VWTAGIQPVEVV+ L + Sbjct: 186 SKYVAKWFAKNNVTVVPNSNINKVEPGKIYNCDEPKDIDLVVWTAGIQPVEVVRNLPIDI 245 Query: 241 DRGGRIIVEPYYNVADYPEVYVIGDCASLPFAPSXXXXXXXXXXXXXIMQALWRDE--TP 298 + GR+IV Y+ V Y VYV+GDCA LP APS +++ W +E Sbjct: 246 NSNGRVIVNQYHQVPTYRNVYVVGDCADLPHAPSAQLAEVQGDQIADVLKKQWLNEPLPD 305 Query: 299 KLHKIKLKGTLGSLGKNAGFGLMGRRSVMGRVPRLLKSGVLWMSKRHFG 347 K+ ++K++G +GSLG GF + R+V GR+ +LKSGVLW+ K H G Sbjct: 306 KMPELKVQGIVGSLGDKQGFAYIMDRTVTGRLASILKSGVLWLYKYHNG 354 >BH3407 [C] COG1252 NADH dehydrogenase, FAD-containing subunit Length = 400 Score = 105 bits (263), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 95/373 (25%), Positives = 155/373 (41%), Gaps = 42/373 (11%) Query: 1 LGGGYGGLALIQKLLDNHLPHDVEIVLVDRMPYQGIKTEYYALAAGTVTDYHLRIQFPVH 60 LG GYGG+ +L +D I LV++ Y T + AAGT+ R+ P+ Sbjct: 9 LGAGYGGIITASRLSKQLGHNDANITLVNKHSYHYQTTWLHEPAAGTIPAEKARV--PIK 66 Query: 61 PRLTVR-----YGEVGSIDLESRMIFLKTGEPMSYDILAIALGCTDNYHNVPGAEEHTCS 115 L + ID +++ + L+ GE + YD L +ALG VPG EH S Sbjct: 67 DVLDLNKVNFVQDTAVEIDRDAKKVVLENGE-LEYDYLVVALGSVAETFGVPGVFEHAFS 125 Query: 116 IQSFSSTRE----------TYRRLNDVR-PYGTVNIVGGGLSGVEIAAELRESRPDL--- 161 + + R+ TY L + + T + G G +G+E EL + P+L Sbjct: 126 KWTVNGARQVKEHIEYMFATYNNLEEKKDELLTFIVAGAGFTGIEFVGELSKRVPELCAT 185 Query: 162 --------NISILDRGERVLSSFPAKLSQYVEEWFSEHHVETLGHISVSHVEKDAIF--N 211 + +++ L F +L +Y VE + + V KD + N Sbjct: 186 YDVPREKVKMYVIEAAPTALPGFDPELVEYAMNLLESRGVEFKINCPIKEVVKDGVILAN 245 Query: 212 GTQAIPGDVTVWTAGIQPVEVVQQLELPKDRGGRIIVEPYYNVADYPEVYVIGDCASL-- 269 G + I + VW G++ E++++ R GRI VE + E++VIGDCA + Sbjct: 246 GDE-IKSNTVVWATGVRGPEIIEKSGFEAMR-GRIKVESDLRAPGHEEIFVIGDCALIIN 303 Query: 270 -----PFAPSXXXXXXXXXXXXXIMQALWRDETP-KLHKIKLKGTLGSLGKNAGFGLMGR 323 P+ P+ + L + + K K ++KGT+ SLG G++G Sbjct: 304 EEINRPYPPTAQIAIQMAETCAHNLATLVKGGSELKNFKPEIKGTVASLGGKEAIGVVGT 363 Query: 324 RSVMGRVPRLLKS 336 R + G +K Sbjct: 364 RKLFGSSASFMKK 376 >BS_ndhF [CP] COG1009 NADH:ubiquinone oxidoreductase subunit 5 (chain L)/Multisubunit Na+/H+ antiporter, MnhA subunit Length = 346 Score = 101 bits (252), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 0/363 (0%), Positives = 0/363 (0%), Gaps = 51/363 (14%) Query: 23 VEIVLVDRMPYQGIKTEYYALAAGTVTDYHLRIQFPVHPR---LTVRYGEVGSIDLESRM 79 ++ I L + + + + S Sbjct: 34 AQLDYAVAQGINLIDVAEMYPVPPRPETQGLTETYVGNWLAKHGSREKLIIASKVSGPSR 93 Query: 80 IFL-----KTGE------PMSYDILAIALGCTDNYHNVPGAEEHTCSIQSFSSTRETYRR 128 +D L + + V + T + Sbjct: 94 NNDKGIRPDQALDRKNIREALHDSLKRLQTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAP 153 Query: 129 -LNDVRPY-------GTVNI--VGGGLSGVEIAAELRE-------------SRPDLNISI 165 ++ + I +G P ++ Sbjct: 154 AVSLLDTLDALAEYQRAGKIRYIGVSNETAFGVMRYLHLADKHDLPRIVTIQNPYSLLNR 213 Query: 166 LDRGERVLSSFPAKLSQYVEEWFSEHHVETLGHISVSHVEKDAIFNGT-QAIPGDVTVWT 224 S + + G+ T Sbjct: 214 SFEVGLAEVSQYEGVELLAYSCLGFGTLTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKA 273 Query: 225 AGIQPVEVVQQLE-LPKDRGGRIIVEPYYNVADYPEVYVIGDCASLP------FAPSXXX 277 + + + +P+ + ++ Sbjct: 274 VAAYVDIARRHGLDPAQMALAFVRRQPFVASTLLGATTMDQLKTNIESLHLELSEDVLAE 333 Query: 278 XXXXXXXXXXIMQALWRDETPKLHKIKLKGTLGSLGKNAGFG-LMG---RRSVM--GRVP 331 Sbjct: 334 393 Query: 332 RLL 334 Sbjct: 394 396 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 0.320 0.139 0.420 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: 27,410,337 Number of extensions: 1143410 Number of successful extensions: 2269 Number of sequences better than 1.0e-05: 62 Number of HSP's gapped: 2206 Number of HSP's successfully gapped: 63 Length of query: 347 Length of database: 38,378,431 Length adjustment: 107 Effective length of query: 240 Effective length of database: 26,037,693 Effective search space: 6249046320 Effective search space used: 6249046320 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: 116 (49.3 bits)