RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780855|ref|YP_003065268.1| NADH dehydrogenase subunit D [Candidatus Liberibacter asiaticus str. psy62] (396 letters) >gnl|CDD|30994 COG0649, NuoD, NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]. Length = 398 Score = 629 bits (1623), Expect = 0.0 Identities = 238/396 (60%), Positives = 296/396 (74%), Gaps = 4/396 (1%) Query: 1 MDKKKSRSFTINFGPQHPAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQ 60 ++ + + +NFGPQHP+ HGVLRLILELDGEIV DP IG LHRG EKL E +T+LQ Sbjct: 7 RSEENTENMFLNFGPQHPSTHGVLRLILELDGEIVVDADPDIGYLHRGMEKLAENRTYLQ 66 Query: 61 AVPYFDRLDYVAPMNQEHAYALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQA 120 +PY DRLDY++ MN E AY LAVEKLLGIE+P R Q IRV+ SE+ RI SHLL + T A Sbjct: 67 NIPYTDRLDYLSAMNNELAYVLAVEKLLGIEVPERAQYIRVMLSELNRIASHLLWLGTFA 126 Query: 121 MDVGALTPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDIPPELVEDIGCWCDSF 180 +D+GA+TP L+ F EREK+M +E +G+RMH AYFRPGGV +D+P +E I + D F Sbjct: 127 LDLGAMTPFLYAFREREKIMDLFEAITGARMHHAYFRPGGVRRDLPEGWLELIREFLDYF 186 Query: 181 PSALNDISDLLTGNRIFKQRNVNIGTVKLEDAWGWGFSGVMIRGSGAAWDLRKSQPYECY 240 P L++ LLT NRI++ R +G + E+A WG +G M+R SG +D+RK +PYE Y Sbjct: 187 PKRLDEYEKLLTKNRIWRARLEGVGVLSKEEALEWGVTGPMLRASGVDYDVRKDEPYEAY 246 Query: 241 SELDFDIPIGKHGDCYDRYLVRMMEMRESVKIIRQCVNRLLGKNKVGPVSASDPKIVPPK 300 ELDFD+P+GK+GDCY RYLVRM EMR+S++II QC+++L GPV DPK PP Sbjct: 247 DELDFDVPVGKNGDCYARYLVRMEEMRQSIRIIEQCLDKLPK----GPVKNEDPKTTPPS 302 Query: 301 RADMKRSMESLIHHFKLYTEGYHVPVGEVYAAVEAPKGEFGVYLISDGGNKPYRCKIRAP 360 + MK SME+LIHHFKL TEG+ VP GEVYAAVEAPKGE GVY++SDG NKPYR KIRAP Sbjct: 303 KERMKESMEALIHHFKLVTEGFKVPAGEVYAAVEAPKGELGVYIVSDGSNKPYRVKIRAP 362 Query: 361 GYAHLQAMEFLCKGHQLADVSAILGSLDIVFGEVDR 396 +AHLQA+ L KGH+LAD+ AILGS+DIV GEVDR Sbjct: 363 SFAHLQALPELLKGHRLADLIAILGSIDIVMGEVDR 398 >gnl|CDD|38081 KOG2870, KOG2870, KOG2870, NADH:ubiquinone oxidoreductase, NDUFS2/49 kDa subunit [Energy production and conversion]. Length = 452 Score = 595 bits (1534), Expect = e-171 Identities = 250/394 (63%), Positives = 313/394 (79%), Gaps = 4/394 (1%) Query: 3 KKKSRSFTINFGPQHPAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAV 62 + R+ +NFGPQHPAAHGVLRL+LELDGE+V + +PHIGLLHRGTEKLIE KT+ QA+ Sbjct: 63 ETGKRNMILNFGPQHPAAHGVLRLVLELDGEVVVKAEPHIGLLHRGTEKLIEYKTYTQAL 122 Query: 63 PYFDRLDYVAPMNQEHAYALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMD 122 PYFDRLDYV+ M E AY+LAVEKLL I++P+R + IRVL+ EI RI +H++ + T A+D Sbjct: 123 PYFDRLDYVSMMCNEQAYSLAVEKLLNIDVPLRAKYIRVLFGEITRIANHIMALGTHALD 182 Query: 123 VGALTPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDIPPELVEDIGCWCDSFPS 182 VGA+TP W FEEREKL FYER SG+RMHA Y RPGGV QD+P L++DI +CD F Sbjct: 183 VGAMTPFFWLFEEREKLYEFYERVSGARMHANYIRPGGVAQDLPLGLMDDIYDFCDQFAE 242 Query: 183 ALNDISDLLTGNRIFKQRNVNIGTVKLEDAWGWGFSGVMIRGSGAAWDLRKSQPYECYSE 242 L+++ D+LT NRI+KQR ++IG V E+A WGFSGVM+RGSG WDLRK+QPY+ Y E Sbjct: 243 RLDELEDMLTRNRIWKQRTIDIGIVTAEEALNWGFSGVMLRGSGIKWDLRKTQPYDAYDE 302 Query: 243 LDFDIPIGKHGDCYDRYLVRMMEMRESVKIIRQCVNRLLGKNKVGPVSASDPKIVPPKRA 302 ++FD+P+G GDCYDRYL R+ EMR+S++II+QC+N++ G + D K+ PPKRA Sbjct: 303 MEFDVPVGTKGDCYDRYLCRVEEMRQSLRIIQQCLNKMPP----GEIKVDDSKVCPPKRA 358 Query: 303 DMKRSMESLIHHFKLYTEGYHVPVGEVYAAVEAPKGEFGVYLISDGGNKPYRCKIRAPGY 362 +MK SMESLIHHFKL+TEG+ VP G Y AVEAPKGEFGV+LISDG +PYRCKIRAPG+ Sbjct: 359 EMKESMESLIHHFKLFTEGFQVPPGATYVAVEAPKGEFGVFLISDGSGRPYRCKIRAPGF 418 Query: 363 AHLQAMEFLCKGHQLADVSAILGSLDIVFGEVDR 396 AHL A++ + K H LADV AI+G+LDIVFGEVDR Sbjct: 419 AHLAALDKMSKRHMLADVVAIIGTLDIVFGEVDR 452 >gnl|CDD|144077 pfam00346, Complex1_49kDa, Respiratory-chain NADH dehydrogenase, 49 Kd subunit. Length = 272 Score = 414 bits (1065), Expect = e-116 Identities = 172/276 (62%), Positives = 211/276 (76%), Gaps = 5/276 (1%) Query: 122 DVGALTPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDIPPELVEDIGCWCDSFP 181 DVGALTP W FEEREKLM FYE SG+RMHAAYFR GGV QD+P ++D+ +CD F Sbjct: 1 DVGALTPFFWIFEEREKLMDFYEAVSGARMHAAYFRIGGVAQDLPYGWMDDLLEFCDYFL 60 Query: 182 SALNDISDLLTGNRIFKQRNVNIGTVKLEDAWGWGFSGVMIRGSGAAWDLRKSQPYECYS 241 +++ +LLT NRIFK R +G V EDA WG SGVM+RGSG WDLRKSQPYECY Sbjct: 61 KRVDEYEELLTQNRIFKLRLRGVGFVTAEDALNWGLSGVMLRGSGIQWDLRKSQPYECYD 120 Query: 242 ELDFDIPIGKHGDCYDRYLVRMMEMRESVKIIRQCVNRLLGKNKVGP-VSASDPKIVPPK 300 + DFD+P+G +GDCYDRYL+R+ EMR+S++II+QC+N++ G GP K+ PPK Sbjct: 121 QFDFDVPVGFNGDCYDRYLLRVEEMRQSLRIIQQCLNKMPG----GPGEKVEAFKLTPPK 176 Query: 301 RADMKRSMESLIHHFKLYTEGYHVPVGEVYAAVEAPKGEFGVYLISDGGNKPYRCKIRAP 360 R++MK +E+LIHHFKLY+ G+ VP GE YAAVEAPKGE GVYL+SDG PYR KIRAP Sbjct: 177 RSEMKDFIETLIHHFKLYSPGFKVPAGESYAAVEAPKGELGVYLVSDGSTFPYRWKIRAP 236 Query: 361 GYAHLQAMEFLCKGHQLADVSAILGSLDIVFGEVDR 396 G+AHLQ ++ L +GH LAD+ AILGS+DIVFGEVDR Sbjct: 237 GFAHLQILDHLSRGHLLADLVAILGSIDIVFGEVDR 272 >gnl|CDD|176960 CHL00017, ndhH, NADH dehydrogenase subunit 7. Length = 393 Score = 336 bits (863), Expect = 8e-93 Identities = 167/400 (41%), Positives = 230/400 (57%), Gaps = 13/400 (3%) Query: 1 MDKKKSRSFTINFGPQHPAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQ 60 + + +N GP HP+ HGVLRLI+ LDGE V +P +G LHRG EK+ E +T +Q Sbjct: 3 VPATRKDLMIVNMGPHHPSMHGVLRLIVTLDGEDVIDCEPILGYLHRGMEKIAENRTIIQ 62 Query: 61 AVPYFDRLDYVAPMNQEHAYALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQA 120 +PY R DY+A M E A E+L I++P R IRV+ E+ RI SHLL + Sbjct: 63 YLPYVTRWDYLATMFTEAITVNAPEQLGNIQVPKRASYIRVIMLELSRIASHLLWLGPFM 122 Query: 121 MDVGALTPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDIPPELVEDIGCWCDSF 180 D+GA TP + F ERE + +E A+G RM YFR GGV D+P ++ +CD F Sbjct: 123 ADIGAQTPFFYIFRERELIYDLFEAATGMRMMHNYFRIGGVAADLPYGWIDKCLDFCDYF 182 Query: 181 PSALNDISDLLTGNRIFKQRNVNIGTVKLEDAWGWGFSGVMIRGSGAAWDLRKSQPYECY 240 + + + L+T N IF +R +G + E+A WG SG M+R SG WDLRK YECY Sbjct: 183 LTGVAEYQKLITRNPIFLERVEGVGIIGGEEAINWGLSGPMLRASGIQWDLRKVDHYECY 242 Query: 241 SELDFDIPIGKHGDCYDRYLVRMMEMRESVKIIRQCVNRLLGKNKVGPVSASDPKIVPPK 300 E D+++ K GD RYLVR+ EM ES+KII+Q + + G GP + + Sbjct: 243 DEFDWEVQWQKEGDSLARYLVRIGEMTESIKIIQQALEGIPG----GPYEN-----LEAR 293 Query: 301 RADMKRSME--SLIHHF--KLYTEGYHVPVGEVYAAVEAPKGEFGVYLISDGGNKPYRCK 356 R D ++ E + F K + + + E+Y VEAPKGE G++LI D P+R K Sbjct: 294 RFDREKDSEWNDFEYRFISKKPSPTFELSKQELYVRVEAPKGELGIFLIGDDSVFPWRWK 353 Query: 357 IRAPGYAHLQAMEFLCKGHQLADVSAILGSLDIVFGEVDR 396 IR PG+ +LQ + L K +LAD+ ILGS+DI+ GEVDR Sbjct: 354 IRPPGFINLQILPQLVKRMKLADIMTILGSIDIIMGEVDR 393 >gnl|CDD|33072 COG3261, HycE, Ni,Fe-hydrogenase III large subunit [Energy production and conversion]. Length = 382 Score = 225 bits (576), Expect = 1e-59 Identities = 125/397 (31%), Positives = 182/397 (45%), Gaps = 31/397 (7%) Query: 1 MDKKKSRSFTINFGPQHPAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQ 60 + K F I GP HP L +DGE + D +G +HRG EK+ E + + Sbjct: 1 LGKGGEGEFEIPVGPVHPGLIEPGHFRLFVDGEKIVDADIRLGYVHRGIEKIAEGLPYNK 60 Query: 61 AVPYFDRLDYVAPMNQEHAYALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQA 120 A+ +R+ + A+ LAVE LGIE+P R Q IR + E+ RI SHLLN+ Sbjct: 61 ALFLAERVCGICSFAHAVAFVLAVEDALGIEVPERAQYIRAIILELERIHSHLLNLGLLC 120 Query: 121 MDVGALTPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDIPPELVEDIGCWCDSF 180 DVG T + F REK+M E +G+R+ GGV +DI +E I + Sbjct: 121 HDVGFETGFMQFFRLREKVMRLIELLTGNRVLYGLNVIGGVRRDILESDLEQILELIEDI 180 Query: 181 PSALNDISDLLTGNRIFKQRNVNIGTVKLEDAWGWGFSGVMIRGSGAAWDLRKSQPYECY 240 + +I ++L + + R +G + EDA G R SG A D R P Y Sbjct: 181 REEVKEIVEVLLSDPNIEDRLQGVGVLDKEDARKLSAVGPTARASGIADDARIDHPPVYY 240 Query: 241 SELDFDIPIGKHGDCYDRYLVRMMEMRESVKIIRQCVNRLLGKNKVGPVSASDPKIVPPK 300 EL F++ + GD + R+LVR+ E+ ES+K+I Q ++ L G Sbjct: 241 DELPFEVIVRDEGDVFARFLVRIDEIFESLKLIEQALDNLPGGP---------------- 284 Query: 301 RADMKRSMESLIHHFKLYTEGYHV-PVGEVYAAVEAPKGEFGVYLISDGGNKPYRCKIRA 359 L E + GE VEAP+GE Y+ K R KIR Sbjct: 285 --------------GGLLREKLELKGHGEGLGRVEAPRGELVHYVKLGDNGKIKRWKIRT 330 Query: 360 PGYAHLQAMEFLCKGHQLADVSAILGSLDIVFGEVDR 396 P YA+L A++++ +G+ +AD I+ SLD + DR Sbjct: 331 PSYANLPALKYMLRGNTVADAPLIIASLDPCYSCTDR 367 >gnl|CDD|33070 COG3259, FrhA, Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]. Length = 441 Score = 42.6 bits (100), Expect = 2e-04 Identities = 43/166 (25%), Positives = 66/166 (39%), Gaps = 15/166 (9%) Query: 22 GVLRLILELDGE-IVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAY 80 G ++ +E+D + IVE HI + RG EK + K +A R+ + P + A Sbjct: 15 GHAKVTIEVDDDGIVEDARFHITEV-RGFEKFVLGKPIEEAPRIVPRICGICPASHHLAS 73 Query: 81 ALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGALTPPLWGFEEREKLM 140 A E LG+EIP + +R L + I SH L++ A P E Sbjct: 74 VEAAEAALGVEIPEEAEKLRELLNIGNIIESHALHLYFLAAPDFLGPPDADPGMIDEYPE 133 Query: 141 VFYE----RASGSRM---------HAAYFRPGGVHQDIPPELVEDI 173 + E R G + H PGGV +++ E E + Sbjct: 134 LAKEAIRLRKIGQTIVEVLGGKAIHPVNAVPGGVAKNLSEEAREKL 179 >gnl|CDD|30723 COG0374, HyaB, Ni,Fe-hydrogenase I large subunit [Energy production and conversion]. Length = 545 Score = 36.5 bits (84), Expect = 0.013 Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 1/81 (1%) Query: 22 GVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYA 81 G LR+ +E++ ++ G L RG E +++ + A R+ V + A Sbjct: 14 GHLRIEVEVEDGVITDAWSS-GTLFRGFEIILKGRDPRDAWAITQRICGVCTTSHALASV 72 Query: 82 LAVEKLLGIEIPIRGQLIRVL 102 A+E LGI +P+ LIR + Sbjct: 73 RALEDALGITVPVNALLIRNI 93 >gnl|CDD|145066 pfam01717, Meth_synt_2, Cobalamin-independent synthase, Catalytic domain. This is a family of vitamin-B12 independent methionine synthases or 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferases, EC:2.1.1.14 from bacteria and plants. Plants are the only higher eukaryotes that have the required enzymes for methionine synthesis. This enzyme catalyses the last step in the production of methionine by transferring a methyl group from 5-methyltetrahydrofolate to homocysteine. The aligned region makes up the carboxy region of the approximately 750 amino acid protein except in some hypothetical archaeal proteins present in the family, where this region corresponds to the entire length. This domain contains the catalytic residues of the enzyme. Length = 324 Score = 28.5 bits (64), Expect = 2.9 Identities = 6/36 (16%), Positives = 16/36 (44%) Query: 65 FDRLDYVAPMNQEHAYALAVEKLLGIEIPIRGQLIR 100 +Y + A+ ++ LG+++ + G+ R Sbjct: 27 ISEEEYEDAIKGAIERAVRDQERLGVDVLVHGEPER 62 >gnl|CDD|37222 KOG2011, KOG2011, KOG2011, Sister chromatid cohesion complex Cohesin, subunit STAG/IRR1/SCC3 [Cell cycle control, cell division, chromosome partitioning]. Length = 1048 Score = 28.0 bits (62), Expect = 4.8 Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 6/46 (13%) Query: 151 MHAAYFRPGGVHQ--DIPPEL----VEDIGCWCDSFPSALNDISDL 190 M F VH+ D+ P++ ++++G W S+P S L Sbjct: 283 MINDIFDSVFVHRYRDVDPDIRAICIQELGIWIKSYPEIFLSDSYL 328 >gnl|CDD|145468 pfam02333, Phytase, Phytase. Phytase is a secreted enzyme which hydrolyses phytate to release inorganic phosphate. This family appears to represent a novel enzyme that shows phytase activity and has been shown to have a six- bladed propeller folding architecture. Length = 353 Score = 27.7 bits (61), Expect = 5.6 Identities = 23/79 (29%), Positives = 30/79 (37%), Gaps = 12/79 (15%) Query: 278 NRLLGKNKVGPVSASDPK------IVPPKRADMKRSMESLIHHFKLYTEGYHVPVGEVYA 331 NR GKN + + A D I P E ++ F LY + G YA Sbjct: 93 NRSEGKNTI-EIYAIDGDKGKLKSITDPNHPIASAIDE--VYGFSLY---HSQKTGAFYA 146 Query: 332 AVEAPKGEFGVYLISDGGN 350 V +GEF Y I+ G Sbjct: 147 LVTGKEGEFEQYEINADGK 165 >gnl|CDD|144094 pfam00374, NiFeSe_Hases, Nickel-dependent hydrogenase. Length = 504 Score = 27.8 bits (62), Expect = 5.9 Identities = 15/27 (55%), Positives = 17/27 (62%), Gaps = 2/27 (7%) Query: 78 HAYA--LAVEKLLGIEIPIRGQLIRVL 102 HA A AVE LGI+IP +LIR L Sbjct: 30 HALASVRAVEDALGIKIPKNARLIRNL 56 >gnl|CDD|33569 COG3774, OCH1, Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]. Length = 347 Score = 27.7 bits (61), Expect = 6.4 Identities = 12/43 (27%), Positives = 17/43 (39%) Query: 159 GGVHQDIPPELVEDIGCWCDSFPSALNDISDLLTGNRIFKQRN 201 GG++ DI LV+ I D + L L GN + Sbjct: 160 GGIYLDIDTGLVKPIDPLLDDAEAWLRRTIPLGVGNGVMGSAP 202 >gnl|CDD|36611 KOG1397, KOG1397, KOG1397, Ca2+/H+ antiporter VCX1 and related proteins [Inorganic ion transport and metabolism]. Length = 441 Score = 27.2 bits (60), Expect = 9.0 Identities = 14/44 (31%), Positives = 24/44 (54%) Query: 83 AVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGAL 126 A+E ++ I G++ V S +G ILS+LL V ++ G + Sbjct: 139 AIELIIYILALKNGKVRIVQGSLLGSILSNLLLVLGLSLFCGGI 182 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.322 0.141 0.433 Gapped Lambda K H 0.267 0.0766 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 5,037,096 Number of extensions: 275551 Number of successful extensions: 581 Number of sequences better than 10.0: 1 Number of HSP's gapped: 574 Number of HSP's successfully gapped: 19 Length of query: 396 Length of database: 6,263,737 Length adjustment: 96 Effective length of query: 300 Effective length of database: 4,189,273 Effective search space: 1256781900 Effective search space used: 1256781900 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 (21.9 bits) S2: 58 (26.0 bits)