RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780524|ref|YP_003064937.1| flagellar hook-associated protein FlgK [Candidatus Liberibacter asiaticus str. psy62] (480 letters) >gnl|CDD|181014 PRK07521, flgK, flagellar hook-associated protein FlgK; Validated. Length = 483 Score = 390 bits (1004), Expect = e-109 Identities = 163/486 (33%), Positives = 256/486 (52%), Gaps = 10/486 (2%) Query: 1 MSLLAVFNKAQNICNNASQQFASIVRNIENADNKNYVRRDTMTTISPE-NVTVVTQRSEN 59 MSL + N AQ+ S+Q + + RNI NA Y RR+ P V R+++ Sbjct: 1 MSLSSALNTAQSGLTATSRQTSVVSRNIANAGTPGYSRREASLVSGPAGGQVVGISRAQD 60 Query: 60 KNMFDKVLHAHSSAIGQQRLLQSFEALKEMMSADDHYNNSPTHYISKLRDSLESYSKNLS 119 + + L A S+A Q L E L + +D Y SP+ +S + +L++ + + Sbjct: 61 PALLAQRLLATSAAAAQDTLADGLERLASTVGDND-YEGSPSARLSDFQAALQTAASSPD 119 Query: 120 EDILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAIKF 179 L + +D A+++ + N ++ VQ RADAD EI + L L++ N+A+ Sbjct: 120 NTTLAQAAVDAAQDLANSLNDASDAVQSARADADAEIADSVDTLNDLLAQFEDANNAVVS 179 Query: 180 KTASKHDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMVVYTSDGTTLFETVPRDINFEK 239 TA+ DA D LDQRD LL++IS+I+G++T+ R+NNDM +YT G TLFET PR + F Sbjct: 180 GTATGRDASDALDQRDKLLKQISQIVGVTTVTRDNNDMALYTDGGVTLFETTPRTVTFTP 239 Query: 240 MNSYTVTSESNPIFIDGVVVS-SNQGSAVPKGKIKALLQIRDSVVPIFQNQLDEMARVLI 298 +YT + N ++IDGV ++ + + G + ALLQ+RD + P +Q QLDE+AR LI Sbjct: 240 TATYTAGTTGNAVYIDGVPLTGGSGVMPLAGGSLAALLQLRDEIAPTYQAQLDEIARGLI 299 Query: 299 GSFSEKDPIAGNSENVPGLFIADGIKDLDNKLCQGISETICVNPQYRS----NPSFLRDG 354 F+E DP PGLF G G++ I VN +P LRDG Sbjct: 300 TRFAESDPTGAAG--DPGLFTDSGAPADPAAGEAGLAGRISVNAAVDPSQGGDPWLLRDG 357 Query: 355 G-SVSKKFLWNVKNLAGYPDLINHYCDSFNKNFIFDPVAGINTNVTLLEYARNSIGWLEK 413 G + + N AG+ +N D+ + FD AG++ + +L++ A +S+ WLE+ Sbjct: 358 GINGAAYLGANTTGAAGFSTRLNALVDALSAPRTFDSAAGLSGSSSLMDLAASSLSWLEQ 417 Query: 414 NRSDSHDLHMKSQVVFNHISESYSNTVGVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQ 473 RS + + + + E+ SN GV+ +E++ L+ +EQSY S K+I D+ML Sbjct: 418 QRSSASSEASYASALLSRADEALSNATGVDTDDEMALLLDLEQSYAASAKVISTVDEMLD 477 Query: 474 TLLEGV 479 +LL+ V Sbjct: 478 SLLDAV 483 >gnl|CDD|162886 TIGR02492, flgK_ends, flagellar hook-associated protein FlgK. The flagellar hook-associated protein FlgK of bacterial flagella has conserved N- and C-terminal domains. The central region is highly variable in length and sequence, and often contains substantial runs of low-complexity sequence. This model is built from an alignment of FlgK sequences with the central region excised. Note that several other proteins of the flagellar apparatus also are homologous in the N- and C-terminal regions to FlgK, but are excluded from this model. Length = 322 Score = 139 bits (351), Expect = 2e-33 Identities = 80/306 (26%), Positives = 150/306 (49%), Gaps = 24/306 (7%) Query: 16 NASQ-QFASIVRNIENADNKNYVRRDTMTTISP----------ENVTVVT-QRSENKNMF 63 +ASQ + NI NA+ Y R+ + T P V V + +R +++ + Sbjct: 11 SASQIALSVTSNNIANANTPGYSRQRAVLTAVPGGGQGGLQIGTGVRVTSIRRIQDQFLD 70 Query: 64 DKVLHAHSSAIGQQRLLQSFEALKEMMSADDHYNNSPTHYISKLRDSLESYSKNLSEDIL 123 ++ A+SSA + ++ + + D + + Y++ ++L+ +KN + L Sbjct: 71 NQYRRANSSAGYADSRASALSQIENLFNDLD--ESGLSTYLNNFFNALQELAKNPDSEAL 128 Query: 124 GKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFKTA- 182 + V+++A+ + +FN ++ E+Q +R + EI+ ++ + L ++ +N I+ A Sbjct: 129 RQAVLESAQALANSFNQTSNELQDLRKGINAEIKSAVTEINSLLKQIASLNKEIQQVEAK 188 Query: 183 SKHDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMVVYTSDGTTLFETVPRDINFEKMNS 242 S DA+D LDQRD+LL+++S++IGIS + + VYT G L + + Sbjct: 189 SGQDANDLLDQRDLLLKELSQLIGISVSENEDGTVNVYTGSGQVLVDGGTGSST----SP 244 Query: 243 YTVTSESNPIFIDGVVVSS-----NQGSAVPKGKIKALLQIRDSVVPIFQNQLDEMARVL 297 T + + DGV + S S GK+ LL +RD V+P Q+QLD++A+ L Sbjct: 245 LTADTAGGKVGGDGVYLPSGSEKVTISSDSQGGKLGGLLDLRDGVLPDLQSQLDQLAKTL 304 Query: 298 IGSFSE 303 F+E Sbjct: 305 ANEFNE 310 >gnl|CDD|181099 PRK07739, flgK, flagellar hook-associated protein FlgK; Validated. Length = 507 Score = 85.1 bits (211), Expect = 4e-17 Identities = 88/399 (22%), Positives = 167/399 (41%), Gaps = 54/399 (13%) Query: 110 SLESYSKNLSEDILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSE 169 SL+ SKN V A+ + + FN ++ + I+ D EI++ + + S+ Sbjct: 127 SLQELSKNPENLGARSVVRQRAQALAETFNYLSQSLTDIQNDLKSEIDVTVKEINSLASQ 186 Query: 170 LTVVNDAIKFKTASKHDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMVVY-TSDGT--- 225 ++ +N I + + +D DQRD+LL ++S+I+ I T+ N + ++GT Sbjct: 187 ISDLNKQIAKVEPNGYLPNDLYDQRDLLLDELSKIVNI-TVEYNKSGGNALEDAEGTFRI 245 Query: 226 ---------TLFETVPRDINFEKMNSYTVTSESNPIFIDGVVVS---SNQGSAVPKGKIK 273 TL + +N +N VT + + G VS + Q GK+K Sbjct: 246 DILGGNGKGTLVDGKDSTVNELSVNKDDVTGLVTDLSLGGTTVSWDDTGQPVNPSSGKLK 305 Query: 274 ALLQIRDS---------VVPIFQNQLDEMARVLIGSFSEKDPIAGNSENVPGLFIADGIK 324 LL++ + P N LD++A +F+E G+ DG Sbjct: 306 GLLEMYGYMSGNGEEKGLYPEMLNDLDKLAYTFATAFNEVHKQGYGLNGSTGIDFFDGTG 365 Query: 325 DLDNKLCQGI--SETICVNPQYR---SNPSFLRDGGSVSKKFLWNVKNLAGYPDLINHYC 379 D + I S+ I + S+ L DG + L N+K+ Sbjct: 366 DSTKGAAKTIKVSDDILADLNNIAAASDDGELGDGSNALN--LANLKD------------ 411 Query: 380 DSFNKNFIFDPVAGINTNVTLLEYARNSIGWLEKNRSDSHDLHMKSQVVFNHISESYSNT 439 F +G++T T ++ ++ IG L + +++ + +V+ + + + Sbjct: 412 --------FKLNSGLDT-TTFDDFYQSLIGNLGVDAQEANRMAENQEVLVDQVDNRRQSV 462 Query: 440 VGVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLLEG 478 GV+L EE++ +IK + +YN + ++I D+ML ++ G Sbjct: 463 SGVSLDEEMTNMIKFQHAYNAAARMITAIDEMLDKIING 501 >gnl|CDD|180650 PRK06665, flgK, flagellar hook-associated protein FlgK; Validated. Length = 627 Score = 62.4 bits (152), Expect = 2e-10 Identities = 63/298 (21%), Positives = 125/298 (41%), Gaps = 51/298 (17%) Query: 27 NIENADNKNYVR-RDTMTTISPENVTVVTQRSENKNMFDKVLHAHSSA--IGQQRLLQSF 83 NI NA K Y R R TM T P ++ L+ IGQ +QS Sbjct: 28 NISNASTKGYSRQRVTMKTFDP--------------LYAPSLNRAEKPGQIGQGVEIQSI 73 Query: 84 EALKE--------MMSADDHYNNSPTHYISKLR-------------------DSLESYSK 116 E +++ S Y + Y+S+L DS + S Sbjct: 74 ERIRDELLDSRIIEESGRLGYWKTKDKYLSQLEQVYNEPEDQSLRTRLDDFWDSWQDLSN 133 Query: 117 NLSEDILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDA 176 + V++ A+ + + + R +++IR A+ EIE+ + + L + +N+ Sbjct: 134 YPEGLAERQVVLERAQSLGERIHDRYRSLERIRDMANDEIEITVEEINNILRNIADLNEQ 193 Query: 177 IKFKTASKHDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMVVYTSDGTTLFETVPRDIN 236 I A + +D LD+RD+L+ K+S +I +S + ++ +++ + + +++ Sbjct: 194 IVKSQAMGDNPNDLLDRRDLLVDKLSSLIDVSIERSDPDEFMIHIGGRHLVQGNIANELD 253 Query: 237 FEKMNSYTVTSESNPIFIDGVVVSSNQGSAVPKGKIKALLQIRDSVVPIFQNQLDEMA 294 E + N + D + ++ + + GK+ AL+++RD+ + N+LD +A Sbjct: 254 LEA-------NPPNEGYWDILWSANGDPALLRTGKLGALIELRDTDIRDEINELDTLA 304 Score = 37.0 bits (86), Expect = 0.011 Identities = 14/36 (38%), Positives = 25/36 (69%) Query: 441 GVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLL 476 GVNL EEL+ +I+ + YN S + I ++++L T++ Sbjct: 587 GVNLDEELANMIEFQHGYNASARFISVSNELLDTII 622 >gnl|CDD|180769 PRK06945, flgK, flagellar hook-associated protein FlgK; Validated. Length = 651 Score = 54.3 bits (131), Expect = 6e-08 Identities = 61/301 (20%), Positives = 132/301 (43%), Gaps = 39/301 (12%) Query: 27 NIENADNKNYVRRDTMTTIS----------PENVTVVT-QRSENKNMFDKVLHAHSSAIG 75 NI NA Y R+ + + + V VVT +R ++ + ++ +A +++ Sbjct: 25 NISNAATPGYSRQRVVQAEAGGQYTGSGYLGQGVNVVTVKRQYSQYLSAQLNNAQAAS-- 82 Query: 76 QQRLLQSFEALKEMMSADDHYNNSPTH----YISKLRDSLESYSKNLSEDILGKTVIDNA 131 S +S ++Y PT I+ L++ + N S+ +T++ NA Sbjct: 83 -----SSLSTYYSQISQLNNYLADPTAGLSPAITSFFTGLQNVANNPSDPSARQTMLSNA 137 Query: 132 EEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAI-KFKTASKHDAHDF 190 + + FN + +++ ++R + ++ ++ + + ++ +ND I K +++ +D Sbjct: 138 QTLASQFNAAGQQLDQLRQSVNTQLTSSVTQINSYTKQIAQLNDQIAKAESSQGQPPNDL 197 Query: 191 LDQRDVLLQKISEIIGISTIVRNNNDMVVYTSDGTTLFETVPRDINFEKMNSYTVTSESN 250 LDQRD L+ ++S+++G++ + +++ V+ +G L + + TV S S+ Sbjct: 198 LDQRDQLVSELSKLVGVTVVQQDDGGYNVFVGNGQPLV------VGNQSYQLTTVPSPSD 251 Query: 251 PIFIDGVVVSSNQG--------SAVPKGKIKALLQIRDSVVPIFQNQLDEMARVLIGSFS 302 P + V S++ G + LL R + QNQL +A L F+ Sbjct: 252 PSRL--TVAGYKPPGTTQELPDSSLTGGTLGGLLAFRSQTLDPAQNQLGRLAASLAAQFN 309 Query: 303 E 303 Sbjct: 310 A 310 Score = 31.9 bits (73), Expect = 0.39 Identities = 14/36 (38%), Positives = 22/36 (61%) Query: 441 GVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLL 476 GVNL EE + L++ +Q+Y + K+I + TLL Sbjct: 613 GVNLDEEAANLLRYQQAYQANAKVIQTASTLFDTLL 648 >gnl|CDD|181252 PRK08147, flgK, flagellar hook-associated protein FlgK; Validated. Length = 547 Score = 50.4 bits (121), Expect = 1e-06 Identities = 59/303 (19%), Positives = 125/303 (41%), Gaps = 19/303 (6%) Query: 16 NASQQFASIV-RNIENADNKNYVRRDTMT-----TISPEN-----VTVVT-QRSENKNMF 63 NA+Q + V NI N + Y R+ T+ T++ V V QR + + Sbjct: 13 NAAQAALNTVSNNISNYNVAGYTRQTTILAQAGSTLTAGGWIGNGVYVSGVQREYDAFIT 72 Query: 64 DKVLHAHSSAIGQQRLLQSFEALKEMMSADDHYNNSPTHYISKLRDSLESYSKNLSEDIL 123 +++ A + + G + + ++S D + S T + SL++ N + Sbjct: 73 NQLRAAQTQSSGLTTRYEQMSKIDNLLS-DSTNSLSTT--MQDFFTSLQTLVSNAEDPAA 129 Query: 124 GKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFKT-- 181 + +I AE +V F T+ + ++ + I + + + ++ +ND I T Sbjct: 130 RQALIGKAEGLVNQFKTTDQYLRDQDKGVNTAIGSSVDQINNYAKQIASLNDQITRLTGV 189 Query: 182 ASKHDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMVVYTSDGTTLFETVPRDINFEKMN 241 + +D LDQRD L+ ++++I+G+ V++ + ++G +L + + Sbjct: 190 GAGASPNDLLDQRDQLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQG-STAYQLAAVP 248 Query: 242 SYTVTSESNPIFIDGV-VVSSNQGSAVPKGKIKALLQIRDSVVPIFQNQLDEMARVLIGS 300 S + + ++DG + G + LL R + +NQL ++A + Sbjct: 249 SSADPTRTTVAYVDGTAGNIEIPEKLLTTGSLGGLLTFRSQDLDQTRNQLGQLALAFADA 308 Query: 301 FSE 303 F+ Sbjct: 309 FNT 311 >gnl|CDD|181438 PRK08471, flgK, flagellar hook-associated protein FlgK; Validated. Length = 613 Score = 43.5 bits (103), Expect = 1e-04 Identities = 27/84 (32%), Positives = 47/84 (55%), Gaps = 1/84 (1%) Query: 397 NVTLLEYARNSIGWLEKNRSDSHDLHMKSQVVFNHISESYSNTVGVNLQEELSFLIKVEQ 456 N+T+ EY R + + ++ ++ ++ + N + + Y + GV+ EEL LIK + Sbjct: 530 NMTIEEYYRFLTTKIASDTEKNNRINDTNKALLNSVKKEYQSISGVSTDEELVNLIKFQS 589 Query: 457 SYNISNKLIMFTDKMLQTLLEGVK 480 SY + K+I D+ML TLL G+K Sbjct: 590 SYGAAAKIITTIDQMLDTLL-GIK 612 Score = 31.9 bits (73), Expect = 0.32 Identities = 16/104 (15%), Positives = 46/104 (44%), Gaps = 2/104 (1%) Query: 109 DSLESYSKNLSEDILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLS 168 ++ ++ N + + + E + N + + ++ ++E+++ + + Sbjct: 119 NAWNDFASNPKDSAQKQALAQKTETLTNNIKDTRERLDTLQKKVNEELKVTVDEINSLGK 178 Query: 169 ELTVVNDAIKFKTASKHD--AHDFLDQRDVLLQKISEIIGISTI 210 ++ +N IK A K A++ D+RD L +S+++G + Sbjct: 179 QIAEINKQIKEVEAGKTLKHANELRDKRDELELTLSKLVGANVF 222 >gnl|CDD|168176 PRK05683, flgK, flagellar hook-associated protein FlgK; Validated. Length = 676 Score = 43.2 bits (102), Expect = 2e-04 Identities = 59/301 (19%), Positives = 127/301 (42%), Gaps = 32/301 (10%) Query: 16 NASQQ-FASIVRNIENADNKNYVRRDTM-TTISPENVTVV-----TQRSENKNMFDKVLH 68 ASQ A NI N D Y R+ T+ TT + + T ++ + +++ L Sbjct: 12 GASQTALAVTGNNIANVDTAGYSRQQTVQTTKASQQSGAGYIGTGTTLADVRRIYNSFLD 71 Query: 69 AH-SSAIGQQRLLQSFEALKEMMSADDHYNNSPTHYISKLRD---SLESYSKNLSEDILG 124 +A ++ L ++ D ++S T L+ +L++ + N ++ Sbjct: 72 TQLRTATSLNSDASAY--LGQISQLDKLLSDSTTGISPALQRFFTALQTAAANPTDTAAR 129 Query: 125 KTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFKTASK 184 + ++ A+ + + FN+ + ++ + ++ + ++ + + + N I +AS Sbjct: 130 QLLLTQAQGLSKRFNSLSSQLNQQNSNINSQLSAMTDQVNNLTTSIASYNKQIAQASASG 189 Query: 185 HDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMVVYTSDGTTL--------FETVPRDIN 236 +D LD RD +++++E++G++ + R+ N VY G L VP Sbjct: 190 ATPNDLLDARDEAVRQLNELVGVTVVERDGN-YDVYIGSGQPLVVGNTANTLSVVP---- 244 Query: 237 FEKMNSYTVTSESNPIFIDGVVVSSNQGSAVPKGKIKALLQIRDSVVPIFQNQLDEMARV 296 + S N + ++ + + S V G+I LL+ R V+ N+L +A V Sbjct: 245 -----GPSDPSRYN-VQLNRGSSTQDVTSVVSGGEIGGLLRYRSDVLDPAMNELGRLALV 298 Query: 297 L 297 + Sbjct: 299 V 299 Score = 30.9 bits (70), Expect = 0.77 Identities = 16/52 (30%), Positives = 27/52 (51%) Query: 425 SQVVFNHISESYSNTVGVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLL 476 + V +S + GV+L EE + LIK +Q Y S+++I + TL+ Sbjct: 622 TAAVLKQAKDSRDSLSGVSLDEEAANLIKFQQYYTASSQIIKAAQETFSTLI 673 >gnl|CDD|183697 PRK12714, flgK, flagellar hook-associated protein FlgK; Provisional. Length = 624 Score = 41.9 bits (98), Expect = 3e-04 Identities = 44/206 (21%), Positives = 90/206 (43%), Gaps = 18/206 (8%) Query: 105 SKLRDSLESYSKNLSEDILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLR 164 S DS + S N S ++++D+ + F ++ + + + + + + Sbjct: 110 SNFFDSTSALSSNASSTAERQSMLDSGNSLATRFKQLNGQMDSLSNEVNSGLTSSVDEVN 169 Query: 165 RFLSELTVVNDAIKFKTASKHDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMVVYTSDG 224 R ++ +N I +++++ A D LDQRD L+ K+ G + ++++ M V+T+ G Sbjct: 170 RLTQQIAKINGTIG--SSAQNAAPDLLDQRDALVSKLVGYTGGTAVIQDGGFMNVFTAGG 227 Query: 225 TTLFETVPRDINFEKMNSYTVTSESNPIFIDGVVVS-SNQGSAVP------KGKIKALLQ 277 L + +T+ ++P + V+ QG V G+I LL+ Sbjct: 228 QALVVGT---------TASKLTTVADPYQPTKLQVAMQTQGQNVSLSPSSLGGQIGGLLE 278 Query: 278 IRDSVVPIFQNQLDEMARVLIGSFSE 303 R SV+ Q +L +A + SF+ Sbjct: 279 FRSSVLEPTQAELGRLAVGMASSFNA 304 Score = 37.6 bits (87), Expect = 0.008 Identities = 18/57 (31%), Positives = 36/57 (63%), Gaps = 1/57 (1%) Query: 425 SQVVFNHISESYSNTV-GVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLLEGVK 480 +Q V N +++ +++ GVNL EE + ++K++Q+Y + ++I D M Q +L V+ Sbjct: 568 AQKVINDQAQASRDSISGVNLDEEAANMLKLQQAYQAAAQMISTADTMFQAILGAVR 624 >gnl|CDD|181572 PRK08871, flgK, flagellar hook-associated protein FlgK; Validated. Length = 626 Score = 41.8 bits (98), Expect = 4e-04 Identities = 53/261 (20%), Positives = 114/261 (43%), Gaps = 35/261 (13%) Query: 45 ISPENVTVVTQRSENKNMFDKVLHAHSSAIGQQRLLQSFEALKEMMSADDHYNNSPTHYI 104 +S N+ T N +M +L + +S + L + F+A+K + AD SP Sbjct: 78 LSTTNLANKTDTEANLDMLSSMLSSVASKKIPENLNEWFDAVKTL--AD-----SPNDLG 130 Query: 105 SKLRDSLESYSKNLSEDILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLR 164 ++ K V++ A+ + Q N V++ + +K+++L + + Sbjct: 131 AR------------------KVVLEKAKLISQTLNDFHETVRQQKDVTNKKLDLGVERIN 172 Query: 165 RFLSELTVVNDAIKFKTASKHDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMV-VYTSD 223 + E+ ++ + +T H+ D +DQ + L++++S+ ++ R N + V+ + Sbjct: 173 QIALEIRDIHRLM-MRTPGPHN--DLMDQHEKLVKELSQYTKVTVTPRKNAEGFNVHIGN 229 Query: 224 GTTLFETVPRDINFEKMNSYTVTSESNPIFIDGVVVSSNQGSAVPKGKIKALLQIRDSVV 283 G TL + ++ Y + ++G + + + + GK+ ALL +RD + Sbjct: 230 GHTLVSGTEAS-QLKMIDGYPDPHQRRLAMVEGKGLKAIKADDI-GGKLGALLDMRDEHI 287 Query: 284 PIFQNQLDEMARVLIGSFSEK 304 P DE+ R+ G FS + Sbjct: 288 PYLM---DELGRLATG-FSSE 304 Score = 28.3 bits (63), Expect = 4.0 Identities = 12/37 (32%), Positives = 24/37 (64%) Query: 441 GVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLLE 477 GVNL EE + ++K +Q+Y S++++ + T+L+ Sbjct: 588 GVNLDEEAANMMKFQQAYMASSRIMQAANDTFNTILQ 624 >gnl|CDD|183688 PRK12694, flgG, flagellar basal body rod protein FlgG; Reviewed. Length = 260 Score = 34.0 bits (78), Expect = 0.097 Identities = 15/44 (34%), Positives = 29/44 (65%) Query: 432 ISESYSNTVGVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTL 475 +++ Y VN+ EEL +I+ +++Y I++K + +D+MLQ L Sbjct: 214 LNQGYVEASNVNVVEELVNMIQTQRAYEINSKAVTTSDQMLQRL 257 >gnl|CDD|180871 PRK07191, flgK, flagellar hook-associated protein FlgK; Validated. Length = 456 Score = 32.5 bits (74), Expect = 0.26 Identities = 22/87 (25%), Positives = 43/87 (49%), Gaps = 1/87 (1%) Query: 390 PVAGINTNVTLLEYARNSIGWLEKNRSDSHDLHMKSQVVFNHISESYSNTVGVNLQEELS 449 + G+ NV+L + A +G++ + +H ++ V N + + GVN EE Sbjct: 368 DLPGMG-NVSLGDAATALVGYIAITSNQNHSELENAENVRNQAERYWESFSGVNNDEEAM 426 Query: 450 FLIKVEQSYNISNKLIMFTDKMLQTLL 476 L++ +++Y + K+I DK+ LL Sbjct: 427 NLMEYQRAYQSNMKVIATGDKLFSDLL 453 >gnl|CDD|183687 PRK12693, flgG, flagellar basal body rod protein FlgG; Provisional. Length = 261 Score = 32.1 bits (74), Expect = 0.29 Identities = 15/39 (38%), Positives = 25/39 (64%), Gaps = 3/39 (7%) Query: 437 SNTVGVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTL 475 SN VN+ EEL +I +++Y +++K I D+MLQ + Sbjct: 222 SN---VNVVEELVNMITGQRAYEMNSKAISTADQMLQYV 257 >gnl|CDD|161920 TIGR00545, lipoyltrans, lipoyltransferase and lipoate-protein ligase. One member of this group of proteins is bovine lipoyltransferase, which transfers the lipoyl group from lipoyl-AMP to the specific Lys of lipoate-dependent enzymes. However, it does not first activate lipoic acid with ATP to create lipoyl-AMP and pyrophosphate. Another member of this group, lipoate-protein ligase A from E. coli, catalyzes both the activation and the transfer of lipoate. Homology between the two is full-length, except for the bovine mitochondrial targeting signal, but is strongest toward the N-terminus. Length = 324 Score = 31.7 bits (72), Expect = 0.44 Identities = 19/65 (29%), Positives = 27/65 (41%) Query: 105 SKLRDSLESYSKNLSEDILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLR 164 SK S+ S N+ E + T EE+ Q F T V+ D +K ++E Sbjct: 173 SKGITSVRSRVVNVKEYLPNITTEQFLEEMTQAFFTYTERVETYILDENKTPDVEKRAKE 232 Query: 165 RFLSE 169 RF S Sbjct: 233 RFQSW 237 >gnl|CDD|139158 PRK12692, flgG, flagellar basal body rod protein FlgG; Reviewed. Length = 262 Score = 31.4 bits (71), Expect = 0.58 Identities = 13/52 (25%), Positives = 31/52 (59%) Query: 429 FNHISESYSNTVGVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLLEGVK 480 F I + Y V+ +E++ LI ++++ +++K+I D+M T+ +G++ Sbjct: 211 FGKIQQGYLEGSNVDPVKEITSLITAQRAFEMNSKVIQAADEMAGTVSKGIR 262 >gnl|CDD|180699 PRK06799, flgK, flagellar hook-associated protein FlgK; Validated. Length = 431 Score = 31.0 bits (70), Expect = 0.71 Identities = 24/118 (20%), Positives = 47/118 (39%), Gaps = 2/118 (1%) Query: 98 NSPTHYISKLRDSLESYSKNLSEDILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIE 157 NS + + ++ +KN + T+I + N A+ + ++ A ++IE Sbjct: 108 NSLSSLMDGFFNAFREVAKNPEQANYYDTLISETGKFTSQLNRLAKGLDELEAQTTEDIE 167 Query: 158 LEISNLRRFLSELTVVNDAIKFKTASKHDAHDFLDQRDVLLQKISEIIGISTIVRNNN 215 ++ R L N I A + LD+RD +L ++S+ I + N Sbjct: 168 AHVNEFNRLAKSLAEANKKIG--QAGTQVPNQLLDERDRILTEMSKYANIEVSYESMN 223 >gnl|CDD|148188 pfam06429, DUF1078, Domain of unknown function (DUF1078). This family consists of a number of C-terminal domains of unknown function. This domain seems to be specific to flagellar basal-body rod and flagellar hook proteins in which pfam00460 is often present at the extreme N terminus. Length = 39 Score = 30.2 bits (69), Expect = 1.3 Identities = 15/37 (40%), Positives = 24/37 (64%) Query: 441 GVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLLE 477 V+L EE+ LI+ +++Y + K+I D+ML TLL Sbjct: 2 NVDLVEEMVNLIEAQRAYEANAKVIQTADEMLGTLLN 38 >gnl|CDD|183686 PRK12691, flgG, flagellar basal body rod protein FlgG; Reviewed. Length = 262 Score = 30.3 bits (69), Expect = 1.3 Identities = 15/46 (32%), Positives = 29/46 (63%) Query: 429 FNHISESYSNTVGVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQT 474 F I + Y V++ +E++ LI +++Y +++K+I D+MLQT Sbjct: 211 FGTIRQGYLEASNVDVVKEITDLITAQRAYEMNSKVITAADEMLQT 256 >gnl|CDD|131541 TIGR02488, flgG_G_neg, flagellar basal-body rod protein FlgG, Gram-negative bacteria. This family consists of the FlgG protein of the flagellar apparatus in the Proteobacteria and spirochetes. Length = 259 Score = 29.6 bits (67), Expect = 1.8 Identities = 12/34 (35%), Positives = 25/34 (73%) Query: 442 VNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTL 475 VN+ +E+ +I +++Y +++K I +D+MLQT+ Sbjct: 222 VNVVQEMVDMITAQRAYEMNSKAIQASDQMLQTV 255 >gnl|CDD|184953 PRK14991, PRK14991, tetrathionate reductase subunit A; Provisional. Length = 1031 Score = 29.6 bits (67), Expect = 1.9 Identities = 21/91 (23%), Positives = 36/91 (39%), Gaps = 34/91 (37%) Query: 222 SDGTTLFETVPRD------INFEK--MNSYTVTSE-------SNPIFI------------ 254 +DGT L E P I+F+ M+S ++ S +NP+ + Sbjct: 873 ADGTPLREQFPESQWPLLLISFKSNLMSSMSIASPRLRQVKPANPVALNPQDAARLGIQH 932 Query: 255 -DGVVVSSNQGSAVPKGKIKALLQIRDSVVP 284 D V +S+ P G + A + + V+P Sbjct: 933 GDRVRIST------PGGSVVAQASVLNGVMP 957 >gnl|CDD|131542 TIGR02489, flgE_epsilon, flagellar hook protein FlgE, epsilon proteobacterial. Members of this family are flagellar hook proteins, designated FlgE, as found in the epsilon subdivision of the Proteobacteria (Helicobacter, Wolinella, and Campylobacter). These proteins differ significantly in architecture from proteins designated FlgE in other lineages; the N-terminal and C-terminal domains are homologous, but members of this family only contain a large central domain that is surface-exposed and variable between strains. Length = 719 Score = 29.5 bits (66), Expect = 2.0 Identities = 14/46 (30%), Positives = 27/46 (58%) Query: 432 ISESYSNTVGVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLLE 477 +S S V+L L+ LI V++ + ++K + +D++L TLL+ Sbjct: 671 MSTSALEMSNVDLSRSLTQLIVVQRGFQANSKTVTTSDQILNTLLQ 716 >gnl|CDD|179729 PRK04049, PRK04049, 30S ribosomal protein S8e; Validated. Length = 127 Score = 29.4 bits (67), Expect = 2.3 Identities = 8/22 (36%), Positives = 13/22 (59%) Query: 22 ASIVRNIENADNKNYVRRDTMT 43 I+ +EN N +Y RR+ +T Sbjct: 75 VKILTVVENPANPHYARRNIIT 96 >gnl|CDD|162544 TIGR01817, nifA, Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms. Length = 534 Score = 29.3 bits (66), Expect = 2.5 Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 7/47 (14%) Query: 265 SAVPKGKIKALLQIRDSVVPIF-------QNQLDEMARVLIGSFSEK 304 AV KG+ +A L R +VVPIF + + +A + F+ + Sbjct: 344 EAVAKGEFRADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRE 390 >gnl|CDD|150387 pfam09703, Cas_Csa4, CRISPR-associated protein (Cas_Csa4). CRISPR loci appear to be mobile elements with a wide host range. This entry represents a protein that tends to be found near CRISPR repeats. The species range for this species, so far, is exclusively archaeal. It is found so far in only four different species, and includes two tandem genes in Pyrococcus furiosus DSM 3638. CRISPR is a term for Clustered, Regularly Interspaced Short Palindromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. Length = 361 Score = 29.0 bits (65), Expect = 2.7 Identities = 32/153 (20%), Positives = 53/153 (34%), Gaps = 35/153 (22%) Query: 77 QRLLQSFEALKEMMSADDHYNNSPTHYISKLRDSLESYSKNLSEDIL------GKTVIDN 130 + LLQ A +M Y+N ++ L Y L+E +L G TV+ Sbjct: 208 EILLQKDLAKSILMVQGPRYDNVINRLLALL------YVLLLTETLLELLTESGFTVLVY 261 Query: 131 AEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFKTASKHDAHDF 190 E N Q +R+ E+E+S L FL L + T D Sbjct: 262 GLEDSGNN-------QAVRSFR----EVELSRLMDFLWYLKAR---DFYHTIKWPKFLDQ 307 Query: 191 LDQRD--VLLQKISEIIGISTIVRNNNDMVVYT 221 L + +L + I ++ ++ +Y Sbjct: 308 LARYAPEILHRLIEALL-------FEDEDGLYG 333 >gnl|CDD|181421 PRK08425, flgE, flagellar hook protein FlgE; Validated. Length = 731 Score = 28.9 bits (65), Expect = 3.1 Identities = 13/36 (36%), Positives = 24/36 (66%) Query: 442 VNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLLE 477 V+L L+ LI +++ + ++K I +D+ML TLL+ Sbjct: 693 VDLSRSLTQLIVIQRGFQANSKTITTSDQMLNTLLQ 728 >gnl|CDD|183633 PRK12627, flgB, flagellar basal body rod protein FlgB; Provisional. Length = 128 Score = 28.5 bits (64), Expect = 3.5 Identities = 13/40 (32%), Positives = 20/40 (50%) Query: 1 MSLLAVFNKAQNICNNASQQFASIVRNIENADNKNYVRRD 40 L +F A + +A ++ A + RN+ NAD Y RD Sbjct: 2 FEKLEIFRMASAMARHAGERQAVVARNVANADTPGYRARD 41 >gnl|CDD|180232 PRK05748, PRK05748, replicative DNA helicase; Provisional. Length = 448 Score = 28.8 bits (65), Expect = 3.6 Identities = 26/113 (23%), Positives = 52/113 (46%), Gaps = 18/113 (15%) Query: 103 YISKLRDS------LESYSKNLSEDILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEI 156 Y+++L +S +E Y+K ++E + + +I A E+ + + +I +A+K+I Sbjct: 88 YLAELANSVPTAANIEYYAKIVAEKAMLRRLIRTATEIANDAYEPEDDADEILDEAEKKI 147 Query: 157 ELEISNLRRFLSELTVVNDAIKFKTASKHDAHDFLDQRDVLLQKISEIIGIST 209 E+S RR S + D + D+ ++L + +I GI T Sbjct: 148 -FEVSE-RRNKSGFKNIKDVLV----------KAYDRIEMLHNQTGDITGIPT 188 >gnl|CDD|180452 PRK06186, PRK06186, hypothetical protein; Validated. Length = 229 Score = 28.4 bits (64), Expect = 4.7 Identities = 9/12 (75%), Positives = 10/12 (83%) Query: 399 TLLEYARNSIGW 410 LLEYARN +GW Sbjct: 95 ALLEYARNVLGW 106 >gnl|CDD|184634 PRK14339, PRK14339, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional. Length = 420 Score = 28.1 bits (63), Expect = 4.9 Identities = 23/68 (33%), Positives = 32/68 (47%), Gaps = 15/68 (22%) Query: 143 REVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFKTASKHDAHDFLDQRDVLLQKIS 202 +E +K + KEI FL V N +F +S+H+ DF D LL K+S Sbjct: 163 KEAEKAVNNGAKEI---------FLLGQNVNNYGKRF--SSEHEKVDFSD----LLDKLS 207 Query: 203 EIIGISTI 210 EI G+ I Sbjct: 208 EIEGLERI 215 >gnl|CDD|178001 PLN02373, PLN02373, soluble inorganic pyrophosphatase. Length = 188 Score = 27.8 bits (62), Expect = 6.6 Identities = 22/81 (27%), Positives = 35/81 (43%), Gaps = 18/81 (22%) Query: 92 ADD----HYNNS---PTHYISKLRDSLESYSKNLSEDILGKTVIDNAEEVVQNFNTSARE 144 ADD HY + P H ++++R E Y KN +N E V +F + Sbjct: 119 ADDPEYRHYTDIKELPPHRLAEIRRFFEDYKKN-----------ENKEVAVNDFLPAEAA 167 Query: 145 VQKIRADADKEIELEISNLRR 165 ++ I+ D E + +LRR Sbjct: 168 IEAIQYSMDLYAEYIVESLRR 188 >gnl|CDD|182223 PRK10073, PRK10073, putative glycosyl transferase; Provisional. Length = 328 Score = 27.7 bits (62), Expect = 6.8 Identities = 16/40 (40%), Positives = 17/40 (42%) Query: 256 GVVVSSNQGSAVPKGKIKALLQIRDSVVPIFQNQLDEMAR 295 GV V+ N G AV GK A D V P L MA Sbjct: 72 GVSVARNTGLAVATGKYVAFPDADDVVYPTMYETLMTMAL 111 >gnl|CDD|163380 TIGR03659, IsdE, heme ABC transporter, heme-binding protein isdE. This family of ABC substrate-binding proteins is observed primarily in close proximity with proteins localized to the cell wall and bearing the NEAT (NEAr Transporter, pfam05031) heme-binding domain. IsdE has been shown to bind heme and is involved in the process of scavenging heme for the purpose of obtaining iron. Length = 289 Score = 27.6 bits (62), Expect = 7.2 Identities = 15/75 (20%), Positives = 32/75 (42%), Gaps = 6/75 (8%) Query: 82 SFEALKEMMSADDHYNNSPTHYISKLRDSLESYSKNLSE--DILGKTVIDNAEEVVQNFN 139 S L+E + +++ S++ K+++E + G+ + AE++V+ N Sbjct: 97 SVTTLEEDLGPKFKQLGVEATFLN--LTSVDGMKKSITELGEKYGRE--EQAEKLVKEIN 152 Query: 140 TSAREVQKIRADADK 154 EV+K K Sbjct: 153 EKEAEVKKKVKGKKK 167 >gnl|CDD|180144 PRK05580, PRK05580, primosome assembly protein PriA; Validated. Length = 679 Score = 27.1 bits (61), Expect = 9.8 Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 3/45 (6%) Query: 254 IDGVVVSSNQGSAVPKGKIKALLQIRDSVVPIFQNQ---LDEMAR 295 + GVVV +GS VP K+K +L++ D + LD A Sbjct: 42 LIGVVVGVEEGSEVPADKLKPILEVLDLEPLLPPELLRLLDWAAD 86 >gnl|CDD|128805 smart00532, LIGANc, Ligase N family. Length = 441 Score = 27.2 bits (61), Expect = 10.0 Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 2/35 (5%) Query: 229 ETVPRDINFE--KMNSYTVTSESNPIFIDGVVVSS 261 ET DI + + T +E P+F+ G VS Sbjct: 315 ETKLLDIIVQVGRTGKITPVAELEPVFLAGSTVSR 349 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 0.315 0.131 0.362 Gapped Lambda K H 0.267 0.0753 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 7,482,950 Number of extensions: 480035 Number of successful extensions: 976 Number of sequences better than 10.0: 1 Number of HSP's gapped: 957 Number of HSP's successfully gapped: 72 Length of query: 480 Length of database: 5,994,473 Length adjustment: 97 Effective length of query: 383 Effective length of database: 3,898,497 Effective search space: 1493124351 Effective search space used: 1493124351 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 (21.6 bits) S2: 59 (26.5 bits)