RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780689|ref|YP_003065102.1| flagellar motor switch protein G [Candidatus Liberibacter asiaticus str. psy62] (345 letters) >gnl|CDD|180201 PRK05686, fliG, flagellar motor switch protein G; Validated. Length = 339 Score = 304 bits (780), Expect = 3e-83 Identities = 95/334 (28%), Positives = 175/334 (52%), Gaps = 7/334 (2%) Query: 11 KNLYKEISPVSLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEISPEEL 70 + LT +KA +LLA+ ++ + K+L+H T E++++ A+ L +SPE++ Sbjct: 1 DAEKAKADLDELTGPEKAAILLLALGEEAAAKVLKHLTEEEVQKLSAAMANLRNVSPEQV 60 Query: 71 EDIIDEFESQFIAGIGLTENSKN-IESILEEGLEQNELEKLLNKSDISQENNNSIWDHLK 129 E +++EFE +F AG + + S+LE+ L + + + +L + S S +D L+ Sbjct: 61 EAVLEEFEDEFEAGAYILMGGIDYARSLLEKALGEEKADSILERILESLGT--SGFDFLR 118 Query: 130 ETDPGVIADFLSKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADIMKRTVNLPKISPYI 189 + DP +A+F+ EHPQT A +LS + P A +L P ++ AD+M R L +SP Sbjct: 119 KMDPQQLANFIRNEHPQTIALILSYLKPDQAAEILSLLPEELRADVMMRIATLEGVSPEA 178 Query: 190 QKTIEKCIVEML---PQSNSNTSTGPEKVANLINELEKPQVDKLLTSLQEVSKEAFDKVR 246 K +E+ + + L ++ G + VA ++N L++ +L SL+E E +K++ Sbjct: 179 LKEVEEVLEKKLSSMANADRTKMGGVKTVAEILNNLDRQTEKTILESLEEEDPELAEKIK 238 Query: 247 PKVFLFDDLITLSSHDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKIIEENI 306 +F+F+DL+ L + + + +VL AL G S E + L +S R +++ E++ Sbjct: 239 DLMFVFEDLVDLDDRSIQRLLREVDNDVLALALKGASEELREKFLSNMSKRAAEMLREDL 298 Query: 307 VLNDSSIAPREVAMARRSIVQEAISLLKTNKIEL 340 + +V A++ IVQ A L + +I L Sbjct: 299 E-ALGPVRLSDVEEAQKKIVQIARRLAEAGEIVL 331 >gnl|CDD|161765 TIGR00207, fliG, flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family. Length = 338 Score = 121 bits (304), Expect = 4e-28 Identities = 81/320 (25%), Positives = 166/320 (51%), Gaps = 5/320 (1%) Query: 22 LTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQF 81 LT K KA +L+++ + S ++ +H + E++ + A + +I ++ +D+++EFE Sbjct: 9 LTGKQKAAILLISIGEDRSAEVFKHLSQEEIETLSAEIANVTQIDNQQKDDVLEEFEQIA 68 Query: 82 IAGIGLTENSKN-IESILEEGLEQNELEKLLNKSDISQENNNSIWDHLKETDPGVIADFL 140 A + + +LE+ L + + +LN S + + L++ +P IADF+ Sbjct: 69 EAQAYINIGGLDYAREVLEKALGEEKAASILNDLTSSLQTAPGF-EFLRKAEPQQIADFI 127 Query: 141 SKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADIMKRTVNLPKISPYIQKTIEKCIVEM 200 +EHPQT A +LS + P+ A +L FP ++ A++ +R + + SP + +E+ + Sbjct: 128 QQEHPQTIALILSHLDPAQAADILSLFPEEVQAEVARRIATMGRTSPEVVAEVERVLEGK 187 Query: 201 LPQSNSNTST--GPEKVANLINELEKPQVDKLLTSLQEVSKEAFDKVRPKVFLFDDLITL 258 L NS+ + G VA +IN +++ ++TSL+E E ++++ ++F+F+D++ L Sbjct: 188 LDSLNSDYTKMGGVRAVAEIINLMDRKTEKTIITSLEEFDPELAEEIKKEMFVFEDIVDL 247 Query: 259 SSHDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKIIEENIVLNDSSIAPREV 318 + V + E L AL G + L+ +S R +I++E++ + ++V Sbjct: 248 DDRSIQRVLREVDSEDLLLALKGAEQPLREKFLNNMSQRAAEILKEDME-FLGPVRLKDV 306 Query: 319 AMARRSIVQEAISLLKTNKI 338 A++ IV L +T +I Sbjct: 307 EEAQKKIVSIVRKLEETGEI 326 >gnl|CDD|180874 PRK07194, fliG, flagellar motor switch protein G; Reviewed. Length = 334 Score = 97.4 bits (243), Expect = 4e-21 Identities = 70/320 (21%), Positives = 143/320 (44%), Gaps = 10/320 (3%) Query: 26 DKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQFIAGI 85 ++A +LL+M ++ + +++ + E++ + L I ++ ++ F + Sbjct: 11 EQAAILLLSMGEEAAAMVMQQLSREEVQRLSQKMARLSGIKVDQARQVLQRFFDDYREQS 70 Query: 86 GLTENSKN-IESILEEGLEQNELEKLLNKSDISQENNNSIWDHLKETDPGVIADFLSKEH 144 G+ S++ ++ L + L + + L+N I + L+ DP +A ++ EH Sbjct: 71 GINGASRSYLQRTLNKALGGDIAKSLIN--SIYGDEIRHRMQRLQWVDPQQLARLIANEH 128 Query: 145 PQTTAYVLSMMPPSIGASVLLRFPNKIHADIMKRTVNLPKISPYI----QKTIEKCIVEM 200 Q A L+ +PP A+VL P DI+ R L + + + IE+C + + Sbjct: 129 LQMQAVFLAFLPPESAAAVLKYLPEDRQDDILYRIAQLDDVDRDVVDELDELIERC-LAV 187 Query: 201 LPQSNSNTSTGPEKVANLINELEKPQVDKLLTSLQEVSKEAFDKVRPKVFLFDDLITLSS 260 L + + G ++ A++IN + +L+ L+E +E +++ ++ F L S Sbjct: 188 LSEQSHTKVIGVKQAADIINRFPGDR-QQLMEMLKEHDEEVVNEIEDNMYDFFILSRQSE 246 Query: 261 HDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKIIEENIVLNDSSIAPREVAM 320 L + + + +E+ AL GT + AIL + RQ + +E I + V Sbjct: 247 ETLQRLMDEVPMELWAVALKGTEPALRQAILRVMPKRQAQALEAQIERL-GPVPLSRVEQ 305 Query: 321 ARRSIVQEAISLLKTNKIEL 340 AR+ I+ L + +IEL Sbjct: 306 ARKEIMALVRELAEAGEIEL 325 >gnl|CDD|149215 pfam08006, DUF1700, Protein of unknown function (DUF1700). This family contains many hypothetical bacterial proteins and two putative membrane proteins. Length = 181 Score = 31.4 bits (72), Expect = 0.35 Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 6/49 (12%) Query: 52 LKEIVASAKLLPEISPEELEDIIDEFESQFIAGIGLTENSKNIESILEE 100 L E+ +S K LPE EE +DI+ ++E F G E K+ E I++E Sbjct: 7 LNELESSLKKLPE---EERKDILYDYEEHFYEGE---EEGKSEEEIIKE 49 >gnl|CDD|163200 TIGR03285, methan_mark_14, putative methanogenesis marker protein 14. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it. Length = 445 Score = 31.3 bits (71), Expect = 0.37 Identities = 28/103 (27%), Positives = 44/103 (42%), Gaps = 11/103 (10%) Query: 229 KLLTSLQEVSKEAFDK-VRPKVFL-FDDLITL-------SSHDLSIVFNNISLEVLGKAL 279 LT L E+ +E ++ P +F DD++ L + L ++ +L + G+A Sbjct: 314 SDLTKLTEIGREIYESEGIPTLFAVLDDVMALIAKRLIEQASKLGLIQEKTTLGITGRA- 372 Query: 280 HGTSIETQNAILHCLSNRQRKIIEENIVLNDSSIAPREVAMAR 322 G + IL L N EEN+V D +A MAR Sbjct: 373 -GITGYKPELILEYLKNSFLWDKEENVVFVDDGLALGAAVMAR 414 >gnl|CDD|162183 TIGR01063, gyrA, DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Length = 800 Score = 30.7 bits (70), Expect = 0.56 Identities = 17/67 (25%), Positives = 34/67 (50%), Gaps = 12/67 (17%) Query: 50 AELKEIVASAKLLPEISPEELEDIIDEFESQFIAGIGLTENSKNIESILEEGLEQNELEK 109 A+L++I+AS + + EI EELE+I ++F I+ + E ++E Sbjct: 444 ADLEDILASEERVLEIIREELEEIKEQF------------GDPRRTEIVYDESEDIDIED 491 Query: 110 LLNKSDI 116 L+ + ++ Sbjct: 492 LIARENV 498 >gnl|CDD|181753 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated. Length = 502 Score = 30.0 bits (69), Expect = 0.85 Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 2/44 (4%) Query: 42 KLLRHFT--HAELKEIVASAKLLPEISPEELEDIIDEFESQFIA 83 +LL + HA+L E + K L + +L+ I+EF+ F A Sbjct: 459 ELLAYLRSNHADLLEEIRETKDLSDEIEAKLKAAIEEFKKTFAA 502 >gnl|CDD|180128 PRK05560, PRK05560, DNA gyrase subunit A; Validated. Length = 805 Score = 29.6 bits (68), Expect = 1.2 Identities = 14/28 (50%), Positives = 21/28 (75%) Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77 A+LK+I+AS + L EI EEL +I ++F Sbjct: 447 ADLKDILASPERLLEIIKEELLEIKEKF 474 >gnl|CDD|181200 PRK08025, PRK08025, lipid A biosynthesis palmitoleoyl acyltransferase; Reviewed. Length = 305 Score = 29.3 bits (66), Expect = 1.5 Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 13/55 (23%) Query: 41 GKLLRHFTHAELKEIVASAK-----LLPEISPEELEDIIDE-FESQFIAGIGLTE 89 G++ R F LK + A+ P++S EE E +I E F S G+ L E Sbjct: 45 GRMSRPF----LKRRESIARKNLELCFPQMSAEEREKMIAENFRS---LGMALLE 92 >gnl|CDD|178078 PLN02459, PLN02459, probable adenylate kinase. Length = 261 Score = 29.0 bits (65), Expect = 1.6 Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 5/38 (13%) Query: 50 AELKEIVASAKLLPE-----ISPEELEDIIDEFESQFI 82 A+LKEIV KL+P+ + + LE +E ES FI Sbjct: 76 AQLKEIVNQGKLVPDEIIFSLLSKRLEAGEEEGESGFI 113 >gnl|CDD|150206 pfam09455, Cas_DxTHG, CRISPR-associated (Cas) DxTHG family. Cas are a group of proteins associated with clustered regularly interspaced short palindromic repeats - CRISPS - of DNA found in nearly half of bacterial and archaeal genomes. The family describes Cas proteins of about 400 residues that include the motif [VIL]-D-x-[ST]-H-[GS]. The CRISPR and associated proteins are thought to be involved in the evolution of host resistance. The exact molecular function of this family is currently unknown. Length = 387 Score = 28.5 bits (64), Expect = 2.2 Identities = 14/69 (20%), Positives = 30/69 (43%) Query: 47 FTHAELKEIVASAKLLPEISPEELEDIIDEFESQFIAGIGLTENSKNIESILEEGLEQNE 106 A I EIS EELE +++ F + + + I+++ E ++ + Sbjct: 297 ELRALFINIYKLFLEKSEISLEELEKLLELFFEREVISKIIKNELSKIKNLAENIKDRTK 356 Query: 107 LEKLLNKSD 115 L + ++ S+ Sbjct: 357 LSEYIDNSE 365 >gnl|CDD|183415 PRK12297, obgE, GTPase CgtA; Reviewed. Length = 424 Score = 28.5 bits (65), Expect = 2.7 Identities = 21/98 (21%), Positives = 40/98 (40%), Gaps = 19/98 (19%) Query: 48 THAELKEIV-ASAKLLPEISPEELEDIIDEFESQFIAGIGLTENSKNIE-SILEEG---L 102 T L E++ A A+LL E LE+ E E E K+ + E+G + Sbjct: 311 TGQGLDELLYAVAELLEETPEFPLEEEEVEEEVY----YKFEEEEKDFTITRDEDGVFVV 366 Query: 103 EQNELEKLLNKSDISQENN----------NSIWDHLKE 130 ++E+L ++ +++ + + D L+E Sbjct: 367 SGEKIERLFKMTNFNRDESLRRFARQLRKMGVDDALRE 404 >gnl|CDD|179068 PRK00566, PRK00566, DNA-directed RNA polymerase subunit beta'; Provisional. Length = 1156 Score = 28.5 bits (65), Expect = 2.8 Identities = 6/22 (27%), Positives = 15/22 (68%) Query: 65 ISPEELEDIIDEFESQFIAGIG 86 ++ EE + ++E+ +F+A +G Sbjct: 150 LTEEEYREALEEYGDEFVAKMG 171 >gnl|CDD|152877 pfam12443, AKNA, AT-hook-containing transcription factor. This domain family is found in eukaryotes, and is approximately 110 amino acids in length. This family contains a transcription factor which regulates the expression of the costimulatory molecules on lymphocytes. Length = 106 Score = 28.3 bits (63), Expect = 2.8 Identities = 13/53 (24%), Positives = 20/53 (37%), Gaps = 6/53 (11%) Query: 194 EKCIVEMLPQSNSNTSTGPEKVANLINELE------KPQVDKLLTSLQEVSKE 240 K E+ P S G + I ELE Q+++L + + KE Sbjct: 22 LKACRELHPTPQLAGSKGSPYIFQKIRELEAEIYKLGEQLEELKEHVDQTQKE 74 >gnl|CDD|181589 PRK08943, PRK08943, lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase; Validated. Length = 314 Score = 27.9 bits (63), Expect = 4.5 Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 13/58 (22%) Query: 62 LPEISPEELEDIIDE-FES--QFIAGIG--LTENSKNIES--------ILEEGLEQNE 106 PE S E E IIDE F + Q + + + K+++ ILEE E Sbjct: 74 FPEKSEAEREAIIDEMFATAPQAMLMMAELALRSPKHLQRRVEWHGLEILEEARANGE 131 >gnl|CDD|179806 PRK04270, PRK04270, H/ACA RNA-protein complex component Cbf5p; Reviewed. Length = 300 Score = 27.5 bits (62), Expect = 5.0 Identities = 7/26 (26%), Positives = 12/26 (46%) Query: 53 KEIVASAKLLPEISPEELEDIIDEFE 78 KE V L ++ E++ + EF Sbjct: 84 KEYVCVMHLHGDVPEEDIRKVFKEFT 109 >gnl|CDD|180000 PRK05298, PRK05298, excinuclease ABC subunit B; Provisional. Length = 652 Score = 27.3 bits (62), Expect = 5.4 Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 3/40 (7%) Query: 185 ISPYIQKTIEKCIVEMLPQSNSNTSTGPEKVANLINELEK 224 I+P KTI+K I ++L +++ LI ELEK Sbjct: 584 ITP---KTIKKKIRDILDSVYKKDKLSKKELEKLIKELEK 620 >gnl|CDD|149898 pfam08974, DUF1877, Domain of unknown function (DUF1877). This domain is found in a set of hypothetical bacterial proteins. Length = 165 Score = 27.3 bits (61), Expect = 6.2 Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 6/65 (9%) Query: 19 PVSLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEI--SPEELEDIIDE 76 P L ++ I A+E L F E KE A++ P+I S EE ++I +E Sbjct: 84 PARLITAEEVKEIAEALESLDFDDLRARFDAEEFKE----AEIYPDIWDSEEEKDEIFEE 139 Query: 77 FESQF 81 F Sbjct: 140 LLEYF 144 >gnl|CDD|184842 PRK14833, PRK14833, undecaprenyl pyrophosphate synthase; Provisional. Length = 233 Score = 27.1 bits (60), Expect = 6.4 Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 3/42 (7%) Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEF 77 E ++S LL ++AEL + L P+ +P++LE+II +F Sbjct: 184 EMRLSNFLLWQSSYAEL---FFTPILWPDFTPKDLENIISDF 222 >gnl|CDD|177801 PLN00220, PLN00220, tubulin beta chain; Provisional. Length = 447 Score = 27.1 bits (60), Expect = 6.8 Identities = 10/23 (43%), Positives = 16/23 (69%) Query: 160 GASVLLRFPNKIHADIMKRTVNL 182 G + LRFP ++++D+ K VNL Sbjct: 235 GVTCCLRFPGQLNSDLRKLAVNL 257 >gnl|CDD|180055 PRK05398, PRK05398, formyl-coenzyme A transferase; Provisional. Length = 416 Score = 27.2 bits (61), Expect = 6.9 Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 15/58 (25%) Query: 87 LTENSKNIESILEEGLEQNELEKLLNKSDISQEN--------NNSIWDHLKETDPGVI 136 +T ++K EG E LEKL+ ++D+ EN W+ ++E +P +I Sbjct: 70 ITLDTKT-----PEGKEV--LEKLIREADVLVENFGPGALDRMGFTWERIQEINPRLI 120 >gnl|CDD|180866 PRK07179, PRK07179, hypothetical protein; Provisional. Length = 407 Score = 26.9 bits (60), Expect = 7.1 Identities = 8/35 (22%), Positives = 15/35 (42%) Query: 165 LRFPNKIHADIMKRTVNLPKISPYIQKTIEKCIVE 199 N+ MK P + +I++ ++K I E Sbjct: 1 QTIDNETQYINMKEKHKNPPLPDFIEERLDKYIEE 35 >gnl|CDD|164878 PHA01971, PHA01971, hypothetical protein. Length = 123 Score = 26.8 bits (59), Expect = 7.6 Identities = 10/22 (45%), Positives = 13/22 (59%) Query: 53 KEIVASAKLLPEISPEELEDII 74 KEI A P I+P+ +E II Sbjct: 8 KEIQAKGLTAPRITPQHIESII 29 >gnl|CDD|128479 smart00182, CULLIN, Cullin. Length = 142 Score = 26.9 bits (60), Expect = 8.2 Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 11/68 (16%) Query: 89 ENSKNIESIL--EEGLE-QNELEKLLNKSDISQENNNSIWDHLKETDPGVIADFLSKEHP 145 + +N+ + L E G E ++LE++ +S++ N S D L+ I D Sbjct: 29 DAEENMITKLKQECGYEFTSKLERMFRDISLSKDLNQSFKDMLENNSNKPIIDL------ 82 Query: 146 QTTAYVLS 153 VL+ Sbjct: 83 --NVRVLT 88 >gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional. Length = 623 Score = 26.7 bits (59), Expect = 8.3 Identities = 17/61 (27%), Positives = 23/61 (37%), Gaps = 9/61 (14%) Query: 83 AGIGLTENSKNIESILEEGLEQNELEKLLNKSDIS-----QENNN-SIWDHLKETDPGVI 136 I N+ N E L Q+ L + D+S N N S+W H E D + Sbjct: 238 NVIKKASNAPNF---YPESLYQSALVSTDTQPDLSYTMDVDPNRNYSVWLHFAEIDNSIT 294 Query: 137 A 137 A Sbjct: 295 A 295 >gnl|CDD|181710 PRK09225, PRK09225, threonine synthase; Validated. Length = 462 Score = 26.7 bits (60), Expect = 9.1 Identities = 11/38 (28%), Positives = 20/38 (52%) Query: 44 LRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQF 81 L ++AEL + SA + +I ++L+ II + F Sbjct: 46 LLGLSYAELAFEILSAFVGDDIPEDDLKAIIARAYTTF 83 >gnl|CDD|178561 PLN02980, PLN02980, 2-oxoglutarate decarboxylase/ hydro-lyase/ magnesium ion binding / thiamin pyrophosphate binding. Length = 1655 Score = 26.7 bits (59), Expect = 9.1 Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 19/76 (25%) Query: 289 AILHCLSNRQR----KII-----EENIV----------LNDSSIAPREVAMARRSIVQEA 329 AIL+ ++ R I+ +EN L DS+ +P EVA R +V+E Sbjct: 1046 AILNAIAVRHGSSLLNILDPYQKDENGSEQSHSVQICALLDSNGSPLEVAYVARKLVEEG 1105 Query: 330 ISLLKTNKIELSNPIK 345 S +K +PI+ Sbjct: 1106 FSAIKLKVGRRVSPIQ 1121 >gnl|CDD|150721 pfam10079, DUF2317, Uncharacterized protein conserved in bacteria (DUF2317). Members of this family of hypothetical bacterial proteins have no known function. Length = 541 Score = 26.8 bits (60), Expect = 9.2 Identities = 15/67 (22%), Positives = 31/67 (46%), Gaps = 11/67 (16%) Query: 47 FTHAELKEIVASAKLLPE-------ISPEELEDIIDEFESQFIAGIGLTENSKNIESILE 99 F +LK++ E + E L ++++EF ++ G TE ++ + +LE Sbjct: 147 FGGGKLKKLKWETPRRKEASGAVGRLDTEGLREVLEEFFAEL----GETEYTEELLELLE 202 Query: 100 EGLEQNE 106 E ++E Sbjct: 203 EAYLESE 209 >gnl|CDD|181974 PRK09590, celB, cellobiose phosphotransferase system IIB component; Reviewed. Length = 104 Score = 26.7 bits (59), Expect = 9.6 Identities = 11/27 (40%), Positives = 16/27 (59%) Query: 195 KCIVEMLPQSNSNTSTGPEKVANLINE 221 K +V++ PQ+ G EK+A LI E Sbjct: 76 KPVVQIPPQAYIPIPMGIEKMAKLILE 102 >gnl|CDD|162687 TIGR02076, pyrH_arch, uridylate kinase, putative. This family consists of the archaeal and spirochete proteins most closely related to bacterial uridylate kinases (TIGR02075), an enzyme involved in pyrimidine biosynthesis. Members are likely, but not known, to be functionally equivalent to their bacterial counterparts. However, substantial sequence differences suggest that regulatory mechanisms may be different; the bacterial form is allosterically regulated by GTP. Length = 221 Score = 26.5 bits (59), Expect = 9.9 Identities = 7/18 (38%), Positives = 12/18 (66%) Query: 57 ASAKLLPEISPEELEDII 74 AK +++PEEL +I+ Sbjct: 151 PDAKKFDKLTPEELVEIV 168 >gnl|CDD|162031 TIGR00768, rimK_fam, alpha-L-glutamate ligases, RimK family. This family, related to bacterial glutathione synthetases, contains at least two different alpha-L-glutamate ligases. One is RimK, as in E. coli, which adds additional Glu residues to the native Glu-Glu C-terminus of ribosomal protein S6, but not to Lys-Glu mutants. Most species with a member of this subfamily lack an S6 homolog ending in Glu-Glu, however. Members in Methanococcus jannaschii act instead as a tetrahydromethanopterin:alpha-l-glutamate ligase (MJ0620) and a gamma-F420-2:alpha-l-glutamate ligase (MJ1001). Length = 277 Score = 26.5 bits (59), Expect = 10.0 Identities = 11/31 (35%), Positives = 16/31 (51%) Query: 201 LPQSNSNTSTGPEKVANLINELEKPQVDKLL 231 LPQ + + PE+ LI E+ P V K + Sbjct: 101 LPQPRTGLAGSPEEALKLIEEIGFPVVLKPV 131 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.312 0.130 0.346 Gapped Lambda K H 0.267 0.0829 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 5,379,217 Number of extensions: 345817 Number of successful extensions: 927 Number of sequences better than 10.0: 1 Number of HSP's gapped: 914 Number of HSP's successfully gapped: 65 Length of query: 345 Length of database: 5,994,473 Length adjustment: 94 Effective length of query: 251 Effective length of database: 3,963,321 Effective search space: 994793571 Effective search space used: 994793571 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 58 (25.9 bits)