RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780925|ref|YP_003065338.1| bifunctional preprotein
translocase subunit SecD/SecF [Candidatus Liberibacter asiaticus str.
psy62]
(833 letters)
>gnl|CDD|183848 PRK13024, PRK13024, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 755
Score = 722 bits (1865), Expect = 0.0
Identities = 288/691 (41%), Positives = 426/691 (61%), Gaps = 28/691 (4%)
Query: 159 AIEQSMEIIRQRIDQIGISESTIQRLGSHRILIQLPGEQDPSRLRQLLGTTAKMSFHKVL 218
A++ ++E++R RID +G+SE IQR G++RI ++LPG QDP R R+LLG+TAK++F V
Sbjct: 60 ALDSTVEVLRNRIDGLGVSEPNIQREGNNRIRVELPGVQDPERARELLGSTAKLTFRDVT 119
Query: 219 PNNSKKGFMFGVRFLRDSDGNQYLVEDKVEISGIHLNGATANFDPKT-HKPVVDISFDEM 277
G + +G V + V +SG L A A FD ++P V +
Sbjct: 120 DPPPPGV---GGPVVGPDEGKDTAVLNPVLLSGDDLTDAGAKFDQDQTNRPSVSLKLKSE 176
Query: 278 GARRFFEVTRDNI-----GKPLAVVLDGRVLTAPVINQAIPSGKAQISGNFTIETAGILA 332
GA+++ +VT N +A+VLD +V++AP +NQ I G QISGNFT+E A LA
Sbjct: 177 GAKKWAKVTEKNSKKGPPNNRIAIVLDPKVISAPTVNQPINGGSVQISGNFTVEEAKDLA 236
Query: 333 AMLRAGSLPIKLNIVEERNVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADF 392
+L AG+LP L I+E R+VG LG D+I G A + G LI LFM+V YG GL+A+
Sbjct: 237 NLLNAGALPAPLKIIESRSVGPTLGQDAIDAGIIAGIIGFALIFLFMLVYYGLPGLIANI 296
Query: 393 SIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSL 452
++ L + LTL LS LGA LTLP IAG+VLGIG+AVD+N+L+ ERI+EE RK +S+ +
Sbjct: 297 ALLLYIFLTLGALSSLGAVLTLPGIAGLVLGIGMAVDANVLIFERIKEELRKGKSLKKAF 356
Query: 453 DMGFSRAYSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMI 512
GF A+STI DSNIT LIA +LFFFG G V+GFA T+ + IL S+FTA+ + R ++
Sbjct: 357 KKGFKNAFSTILDSNITTLIAAAILFFFGTGPVKGFATTLIIGILASLFTAVFLTRLLLE 416
Query: 513 FIIR----------YKKMKSIDINPLSRFFLIPDCIAIQFMRARFWGVGISILFSICSIC 562
+++ KK K +IN + I F++ R W + SI+ I I
Sbjct: 417 LLVKRGDKKPFLFGVKKKKIHNINE-----GVTIFDRIDFVKKRKWFLIFSIVLVIAGII 471
Query: 563 LLFTHGLNYGIDFKGGIQLGVLANRPVDLSVVRSNLESLQIGDISFQNF-DGEKNFLVRL 621
+ F GLN GIDF GG + + ++PVDL VR++L+ L +G+++ F LVR
Sbjct: 472 IFFIFGLNLGIDFTGGTRYEIRTDQPVDLEQVRADLKELGLGEVNIVTFGSDNNQVLVRT 531
Query: 622 -QYQPGDSVAQTRVLEMVKKKITEIVPLSTIQNTEIVGPKISRELIRKGIVGVIISAIAM 680
D A T ++ +K + TI ++E VGP + +EL R I+ V+I+ I +
Sbjct: 532 YGILSDDEEADTEIVAKLKNALKND-KGGTIPSSETVGPTVGKELARNAIIAVLIALIGI 590
Query: 681 LIYIWIRFKWYFALGAITTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVV 740
L+YI IRF+W F+LGAI L+ D+ +GFF+LF +E +LT +AA+LT+IGYS+ND VVV
Sbjct: 591 LLYILIRFEWTFSLGAILALLHDVLIVIGFFSLFRLEVDLTFIAAILTIIGYSINDTVVV 650
Query: 741 YDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTSMAAFISVLPMAVWGGSVIGSFAIP 800
+DR+R+N++LY R++++KSIN+TL R++ TS+ + +L + ++GGS + +F++
Sbjct: 651 FDRIRENLRLYKKK-DLREIVNKSINQTLSRTINTSLTTLLVLLALLIFGGSSLRNFSLA 709
Query: 801 MAFGIVVAASSSIFIAAPILLFIYDWRAKNA 831
+ G++V SSIFIAAP+ L + R K
Sbjct: 710 LLVGLIVGTYSSIFIAAPLWLDLEKRRLKKK 740
Score = 51.0 bits (123), Expect = 1e-06
Identities = 21/64 (32%), Positives = 33/64 (51%), Gaps = 13/64 (20%)
Query: 1 MRNNPWLVILYSMICCIGLLIALPNFLPQSMLDRFPSAMPKNRISLGLDLRGGSHLVLEV 60
MRN W++ +++ IG+ A P F+ + I+LGLDL+GG ++LEV
Sbjct: 1 MRNKRWVIFFLTLLLLIGIYYASPKFVTK-------------NINLGLDLQGGFEVLLEV 47
Query: 61 DEDD 64
D
Sbjct: 48 SPAD 51
>gnl|CDD|173189 PRK14726, PRK14726, bifunctional preprotein translocase subunit
SecD/SecF; Provisional.
Length = 855
Score = 691 bits (1784), Expect = 0.0
Identities = 338/834 (40%), Positives = 508/834 (60%), Gaps = 29/834 (3%)
Query: 5 PWLVILYSMICCIGLLIALPNFLPQSMLDRFPSAMPKNRISLGLDLRGGSHLVLEVDEDD 64
W IL ++ G+ IA PN L ++ L PS +P +++LGLDL+GGSH+VL+V+ D
Sbjct: 6 RWKTILIWLVVLAGVAIAAPNLLSEAQLASLPSWLPHRQVTLGLDLQGGSHIVLKVERSD 65
Query: 65 FVNGFLQMYSDELRSFLKKEGIGVFSM----RQIQNKIT----LSFADSRFKENIADKVT 116
V L+ +R+ L+ GI + + +Q +IT A K + V+
Sbjct: 66 IVKDRLEETVANIRNALRDAGIRYTGLTGNGQTVQVRITDPAQTQAAVDALKP-LTAPVS 124
Query: 117 LFLQGVNSKLNVDPKKNLLVTTTEKEISIVLSQNNIDQVISHAIEQSMEIIRQRIDQIGI 176
G +S + L E ++ + L+ ID +S A+ QS+E++R+R+ ++G
Sbjct: 125 AGGLGGSSIQEL-----TLQEGGEGQLRLQLTDAGIDYRVSSALTQSIEVVRRRVAELGT 179
Query: 177 SESTIQRLGSHRILIQLPGEQDPSRLRQLLGTTAKMSFHKVLPNNSKKGFMFG------- 229
+E I+R G RI++Q+PG DP RL+ LL AK+SF V + + + G
Sbjct: 180 TEPLIRRQGDDRIVVQVPGLVDPQRLKNLLNQPAKLSFRLVDSSMPAQEALNGRPPATSE 239
Query: 230 VRFLRDSDGNQYLVEDKVEISGIHLNGATANFDPKTHKPVVDISFDEMGARRFFEVTRDN 289
V + D YLVE + +SG +L A FDP+T++PVV D G +RF + T+ N
Sbjct: 240 VLYSLDDPPVPYLVERRAFVSGENLVDAQPVFDPQTNEPVVTFRLDAEGTQRFAQATQQN 299
Query: 290 IGKPLAVVLDGRVLTAPVINQAIPSGKAQISGNFTIETAGILAAMLRAGSLPIKLNIVEE 349
+GK A+VLDG+V++APVI++AI G+ +ISGNF+ + A LA +LRAG+LP L +VEE
Sbjct: 300 VGKHFAIVLDGQVISAPVIDEAITGGEGRISGNFSEQGANDLAVLLRAGALPATLTVVEE 359
Query: 350 RNVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLG 409
R VG LG+DSI G A + +L+ MI YG G++A ++ +NV+L +A+LSLLG
Sbjct: 360 RTVGPGLGADSIAAGLVAGLIAAILVAALMIGFYGFLGVIAVIALIVNVVLIIAVLSLLG 419
Query: 410 ATLTLPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNIT 469
ATLTLP IAGIVL IG+AVDSN+L+ ERIREE + S+ +LD GFSRA +TI D+N+T
Sbjct: 420 ATLTLPGIAGIVLTIGMAVDSNVLIYERIREEEKTGHSLIQALDRGFSRALATIVDANVT 479
Query: 470 ALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFIIRYKKMKSIDINPLS 529
LIA V+LFF G GAVRGFA+T+ + IL ++FTA ++ R+++ +R ++ K + P
Sbjct: 480 ILIAAVILFFLGSGAVRGFAVTLAVGILTTVFTAFTLTRSLVAVWLRRRRPKHL---PKG 536
Query: 530 RFFLIPDCIAIQFMRARFWGVGISILFSICSICLLFTHGLNYGIDFKGGIQLGVLANRPV 589
+ + I+FM R + +S S+ S+ L T GLN GIDF GG + V A +
Sbjct: 537 VRTGLFEGANIRFMGIRRYVFTLSAALSLASLVLFATVGLNLGIDFTGGSLIEVRAKQGN 596
Query: 590 -DLSVVRSNLESLQIGDISFQNFDGEKNFLVRLQYQPGDSVAQTRVLEMVKKKITEIVPL 648
D++ +R+ L L +G++ + F ++ L+R+ Q G A+ + +V+ ++ +
Sbjct: 597 ADIADIRARLNELNLGEVQVERFGSPRDALIRIASQDGGENAEQSAVTLVRGELEDDY-- 654
Query: 649 STIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYIWIRFKWYFALGAITTLILDITKTL 708
+ E+VGP +S EL +GV+ + A+LIYIWIRF+W FA+GAI + D+ TL
Sbjct: 655 -DFRRVEVVGPAVSGELTMAATLGVLAALAAILIYIWIRFEWQFAVGAIIATLHDVILTL 713
Query: 709 GFFALFGIEFNLTAVAAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINET 768
G F L GIEFNLT++AA+LT++GYS+ND VVVYDR+R+N++ Y + LID SIN+T
Sbjct: 714 GLFVLTGIEFNLTSIAAILTIVGYSLNDTVVVYDRVRENLRRY-KKMPLPILIDASINQT 772
Query: 769 LGRSVYTSMAAFISVLPMAVWGGSVIGSFAIPMAFGIVVAASSSIFIAAPILLF 822
L R+V TS +++L + ++GG VI SF M FG+ V SSI+IAAP+L+
Sbjct: 773 LSRTVLTSATTLLALLALYLFGGEVIRSFTFAMLFGVAVGTFSSIYIAAPVLIV 826
>gnl|CDD|180271 PRK05812, secD, preprotein translocase subunit SecD; Reviewed.
Length = 498
Score = 510 bits (1315), Expect = e-145
Identities = 218/532 (40%), Positives = 323/532 (60%), Gaps = 45/532 (8%)
Query: 6 WLVILYSMICCIGLLIALPNFLPQ--SMLDRFPSAMPKNRISLGLDLRGGSHLVLEVDED 63
W +L ++ IGLL ALPN + A+ + LGLDLRGG H +LEVD D
Sbjct: 1 WKYLLILLVLLIGLLYALPNLRGALAPATPEWLPALGAKPMKLGLDLRGGVHFLLEVDMD 60
Query: 64 DFVNGFLQMYSDELRSFLKKEGIGVFSMRQIQNKITLSFADSRFKENIADKVTLFLQGVN 123
D + L+ +D+LRS L+++ I + ++F D DK L+ ++
Sbjct: 61 DALKKRLESLADDLRSLLREKKIRY-------GGVEITFRD----AEDRDKAIALLRKLS 109
Query: 124 SKLNVDPKKNLLVTTTEKEISIVLSQNNIDQVISHAIEQSMEIIRQRIDQIGISESTIQR 183
S L++ + ++ A+EQ++EIIR R++++G++E IQR
Sbjct: 110 S----------------------LTEAELKEITEEALEQAIEIIRNRVNELGVAEPVIQR 147
Query: 184 LGSHRILIQLPGEQDPSRLRQLLGTTAKMSFHKVLPNNSKKGFMF--------GVRFLRD 235
G+ RI+++LPG QD +R +++LG TA + F V N
Sbjct: 148 QGADRIVVELPGVQDTARAKEILGKTATLEFRLVDENADAAAAAAASGRVPPGSELLPER 207
Query: 236 SDGNQYLVEDKVEISGIHLNGATANFDPKTHKPVVDISFDEMGARRFFEVTRDNIGKPLA 295
L++ V ++G + A+A+FD +PVV+I+ D GA++F ++T+ NIGK +A
Sbjct: 208 DGQQPVLLKKPVILTGDDITDASASFDQ-QGQPVVNITLDSEGAKKFADITKANIGKRMA 266
Query: 296 VVLDGRVLTAPVINQAIPSGKAQISGNFTIETAGILAAMLRAGSLPIKLNIVEERNVGAD 355
+VLDG V++APVI AI G AQI+GNFT E A LA +LRAG+LP L IVEER +G
Sbjct: 267 IVLDGEVISAPVIQSAITGGSAQITGNFTAEEARDLALLLRAGALPAPLEIVEERTIGPS 326
Query: 356 LGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLP 415
LG+DSI G A + GL L++LFMI+ Y +GL+A+ ++ N++L LA+LSLLGATLTLP
Sbjct: 327 LGADSIRAGLIAGLIGLALVLLFMILYYRLFGLIANIALVANLVLILAVLSLLGATLTLP 386
Query: 416 SIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATV 475
IAGIVL IG+AVD+N+L+ ERIREE R+ +S+ +++ GF RA+STI DSNIT LIA +
Sbjct: 387 GIAGIVLTIGMAVDANVLIFERIREELREGRSLRSAIEAGFKRAFSTILDSNITTLIAAI 446
Query: 476 VLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFI-IRYKKMKSIDIN 526
+L+ G G V+GFA+T+G+ IL SMFTAI++ RA++ + R K++K + I
Sbjct: 447 ILYALGTGPVKGFAVTLGIGILTSMFTAITVTRALVNLLYGRRKRLKKLSIG 498
Score = 48.3 bits (116), Expect = 8e-06
Identities = 44/209 (21%), Positives = 91/209 (43%), Gaps = 45/209 (21%)
Query: 645 IVPLSTIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYIWIRFKWYFALGAITT--LIL 702
PL I +GP + + IR G++ +I +L+++ + +Y G I L+
Sbjct: 312 PAPL-EIVEERTIGPSLGADSIRAGLIAGLIGLALVLLFMIL---YYRLFGLIANIALVA 367
Query: 703 DITKTLGFFALFGIEFNLTAVAA-VLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLI 761
++ L +L G L +A VLT IG +V+ V++++R+R+ ++
Sbjct: 368 NLVLILAVLSLLGATLTLPGIAGIVLT-IGMAVDANVLIFERIREELR------------ 414
Query: 762 DKSINETLGRSVYTSMAA----------------FISVLPMAVWG-GSVIGSFAIPMAFG 804
GRS+ +++ A I+ + + G G V G FA+ + G
Sbjct: 415 -------EGRSLRSAIEAGFKRAFSTILDSNITTLIAAIILYALGTGPVKG-FAVTLGIG 466
Query: 805 IVVAASSSIFIAAPILLFIYDWRAKNARI 833
I+ + ++I + ++ +Y R + ++
Sbjct: 467 ILTSMFTAITVTRALVNLLYGRRKRLKKL 495
>gnl|CDD|171842 PRK13023, PRK13023, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 758
Score = 428 bits (1101), Expect = e-120
Identities = 240/671 (35%), Positives = 394/671 (58%), Gaps = 17/671 (2%)
Query: 160 IEQSMEIIRQRIDQIGISESTIQRLGSHRILIQLPGEQDPSRLRQLLGTTAKMSFHKVLP 219
+E + I+RQR++++G ++ G ++I +++PG D L+ +L +SF +
Sbjct: 69 LETTANIMRQRLEELGYGNPVVEGEGRNQIRVEVPGLYDAQLLKDILTIRGNLSFRAMDD 128
Query: 220 NNSKKGFMFG-------VRFLRDSDGNQYLVEDKVEISGIHLNGATANFDPKTHKPVVDI 272
S + G + + D YL++ ++G + A A+ +PV+ +
Sbjct: 129 TMSPDDAIRGTPPADSEIVYSFDDPPVGYLLKKTPILTGHDITDAKASISADDGQPVITL 188
Query: 273 SFDEMGARRFFEVTRDNIGKPLAVVLDGRVLTAPVINQAIPSGKAQISGNFTIETAGILA 332
+ D+ G RR ++T A+V+D +V++AP ++ + + + QI G F ++ A +A
Sbjct: 189 TLDDNGRRRLADLTAQGNENSFAIVVDNQVVSAPTVSGPLDTSELQIEGAFDLQAANNMA 248
Query: 333 AMLRAGSLPIKLNIVEERNVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADF 392
+LR+G+LP + ++EER + + LG D A + +++ LFM++ YG G++A
Sbjct: 249 VVLRSGALPQAVTVLEERTIASALGEDYASAAVLAALLAALVVGLFMVLSYGILGVIALV 308
Query: 393 SIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSL 452
++ +N+I+ A+LSL+GA+++L SIAG+VL IGLAVD++IL+ ER+RE+ RK SV ++
Sbjct: 309 ALVVNIIILTAVLSLIGASISLASIAGLVLTIGLAVDAHILIYERVREDRRKGYSVVQAM 368
Query: 453 DMGFSRAYSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMI 512
+ GF RA STI D+N+T LIA +VLF G G V GFA+T+ + I ++FT ++ R ++
Sbjct: 369 ESGFYRALSTIVDANLTTLIAALVLFLLGSGTVHGFALTVAIGIGTTLFTTLTFTRLLIA 428
Query: 513 FIIRYKKMKSIDINPLSRFFLIPDCIAIQFMRARFWGVGISILFSICSICLLFTHGLNYG 572
+R K K + P R L+P I FMR +F +GIS+L + L G NYG
Sbjct: 429 QWVRTAKPKEV---PKRRLKLVPTVTHIPFMRLQFVTLGISVLACAIVVALFVNIGFNYG 485
Query: 573 IDFKGGIQLGVLA-NRPVDLSVVRSNLESLQIGDISFQNFDGEKNFLVRLQYQP-GDSVA 630
IDF+GG + + A N +L + L L I ++ LV + Q GD
Sbjct: 486 IDFRGGSMVELQARNGDANLEDINERLAELNIDSARVLPAKSPRSALVIIGSQEVGDDAE 545
Query: 631 QTRVLEMVKKKITEIVPLSTIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYIWIRFKW 690
QT +++ E + Q ++VGP +S +L R G++ VI+S I + IY+W RF+W
Sbjct: 546 QTVAVKLRG----EFEQDYSFQRVDVVGPTVSEQLSRAGVLAVILSLIGIFIYVWFRFRW 601
Query: 691 YFALGAITTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVVYDRMRKNMKL 750
ALGA+ + + D+ G F +F +EFNL +VAA+LT+IGYS+ND VV+YDR+R+N++
Sbjct: 602 QLALGAVLSTLHDVVILSGMFIVFRMEFNLWSVAAILTIIGYSLNDTVVIYDRVRENLRR 661
Query: 751 YTTSISFRDLIDKSINETLGRSVYTSMAAFISVLPMAVWGGSVIGSFAIPMAFGIVVAAS 810
Y S +ID SIN+TL R++ TS F++ +P+ +GGS I FA+ ++ GI+VA+
Sbjct: 662 Y-KSAPLPAIIDASINQTLSRTLLTSFVTFLAHVPLYAFGGSEIRMFALALSVGIIVASY 720
Query: 811 SSIFIAAPILL 821
SSIFIAAP+L+
Sbjct: 721 SSIFIAAPLLV 731
Score = 53.1 bits (127), Expect = 3e-07
Identities = 31/82 (37%), Positives = 45/82 (54%), Gaps = 8/82 (9%)
Query: 6 WLVILYSMICCIGLLIALPNFLPQSMLDRFPSAMPKNRISLGLDLRGGSHLVLEVDEDDF 65
WL +L S+I IA PNF + L P +PK ++SLGLDL GGS L+L+V
Sbjct: 13 WLAVLVSLI------IASPNFFSRETLANLPDFLPKKQVSLGLDLSGGSRLILQVQNAG- 65
Query: 66 VNGFLQMYSDELRSFLKKEGIG 87
L+ ++ +R L++ G G
Sbjct: 66 -KTDLETTANIMRQRLEELGYG 86
>gnl|CDD|162214 TIGR01129, secD, protein-export membrane protein SecD. SecD from
Mycobacterium tuberculosis has a long Pro-rich insert.
Length = 397
Score = 400 bits (1030), Expect = e-112
Identities = 170/401 (42%), Positives = 254/401 (63%), Gaps = 21/401 (5%)
Query: 121 GVNSKLNVDPKKNLLVTTTEKEISIVLSQNNIDQVISHAIEQSMEIIRQRIDQIGISEST 180
G L VD +++ +E E++ + A+EQ + I+R R++ +G+SE
Sbjct: 8 GARVLLEVDMSTAVVLKLSEAEVN---------AIRKDALEQVITILRNRVNALGVSEPV 58
Query: 181 IQRLGSHRILIQLPGEQDPSRLRQLLGTTAKMSFHKVLPN----------NSKKGFMFGV 230
+QR G RI+++LPG D SR + +LG TA + F V N G +
Sbjct: 59 VQRQGKDRIVVELPGVTDTSRAKDILGGTATLEFRLVDDESTSPDDALAGNVPAGSE--L 116
Query: 231 RFLRDSDGNQYLVEDKVEISGIHLNGATANFDPKTHKPVVDISFDEMGARRFFEVTRDNI 290
R D YL++ ++G H+ AT++ D ++ +PVV S D GAR F + T+ NI
Sbjct: 117 LDSRSGDPKYYLLKKSPVLTGDHITDATSSVDQRSGQPVVSFSLDSEGARIFGDFTQANI 176
Query: 291 GKPLAVVLDGRVLTAPVINQAIPSGKAQISGNFTIETAGILAAMLRAGSLPIKLNIVEER 350
GK LA+VLD +V++AP I +AI G QI+GNFT E A LA +LR+G+LP L I+EER
Sbjct: 177 GKRLAIVLDNKVVSAPTIQEAITGGSGQITGNFTAEEANDLALVLRSGALPAPLQILEER 236
Query: 351 NVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGA 410
+G LG+DSI G A + GLVL+++FMI+ Y +GL+A ++ +N++L LA+LS GA
Sbjct: 237 TIGPSLGADSIEAGIKAGLIGLVLVLVFMILYYRLFGLIAAIALVINIVLILAILSAFGA 296
Query: 411 TLTLPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITA 470
TLTLP IAG++L IG+AVD+N+L+ ERI+EE R +SV +++ GF RA+STIFD+NIT
Sbjct: 297 TLTLPGIAGLILTIGMAVDANVLIYERIKEELRLGKSVRQAIEAGFERAFSTIFDANITT 356
Query: 471 LIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMM 511
LIA ++L+ FG G V+GFA+T+ + I+ S+FTA+ R ++
Sbjct: 357 LIAALILYVFGTGPVKGFAVTLAIGIIASLFTALVFTRLLL 397
Score = 61.5 bits (150), Expect = 9e-10
Identities = 40/180 (22%), Positives = 88/180 (48%), Gaps = 13/180 (7%)
Query: 645 IVPLSTIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYIWIRFKWYFALGAITTLILDI 704
PL ++ +GP + + I GI +I + +L+++ + ++ F L A L+++I
Sbjct: 227 PAPLQILEER-TIGPSLGADSIEAGIKAGLIGLVLVLVFMILYYRL-FGLIAAIALVINI 284
Query: 705 TKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKS 764
L + FG L +A ++ IG +V+ V++Y+R+++ ++L + + ++
Sbjct: 285 VLILAILSAFGATLTLPGIAGLILTIGMAVDANVLIYERIKEELRLGKS-------VRQA 337
Query: 765 INETLGRSVYTSMAA----FISVLPMAVWGGSVIGSFAIPMAFGIVVAASSSIFIAAPIL 820
I R+ T A I+ L + V+G + FA+ +A GI+ + +++ +L
Sbjct: 338 IEAGFERAFSTIFDANITTLIAALILYVFGTGPVKGFAVTLAIGIIASLFTALVFTRLLL 397
Score = 34.2 bits (79), Expect = 0.15
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 46 LGLDLRGGSHLVLEVDEDD-FVNGFLQMYSDELRSFLKKEGIGVFSMR 92
LGLDLRGG+ ++LEVD V + + +R ++ I + R
Sbjct: 1 LGLDLRGGARVLLEVDMSTAVVLKLSEAEVNAIRKDALEQVITILRNR 48
>gnl|CDD|183831 PRK12933, secD, preprotein translocase subunit SecD; Reviewed.
Length = 604
Score = 300 bits (770), Expect = 9e-82
Identities = 167/487 (34%), Positives = 276/487 (56%), Gaps = 43/487 (8%)
Query: 44 ISLGLDLRGGSHLVLEVDEDDFVNGFLQMYSDELRSFLKKEGIGVFSMRQIQ-NKITLSF 102
I LGLDLRGG +L+VD D D +R FL+++ I S+R +++ ++
Sbjct: 126 IKLGLDLRGGVQFLLDVDVDPVYQEQRDALVDSVRQFLREQRIRGVSVRLDDSDQLAVTT 185
Query: 103 ADSRFKENIADKVTLFLQGVNSKLNVDPKKNL----LVTTTEKEISIVLSQNNIDQVISH 158
D+ + V F+Q +N + + ++ + + LSQ + +
Sbjct: 186 PDNDARS----AVRQFIQ-----------QNYPGWQVTNSDDRGLQLKLSQQEKTKFRNL 230
Query: 159 AIEQSMEIIRQRIDQIGISESTIQRLGSHRILIQLPGEQDPSRLRQLLGTTAKMSFHKVL 218
++Q+++I+R RI+++GI+E+ +QR G HRI I+LPG QDP+ + ++G TA ++F++V
Sbjct: 231 TVQQNLQIMRSRIEELGITEALVQRQGEHRIRIELPGVQDPAAAKNVIGATASLAFYEVK 290
Query: 219 PNNSKKGFMFGVRFLRDSDGNQYLVEDKVEISGIHLNGATANFDPKTHKPVVDISFDEMG 278
+ S + L+D +G V + + G H+ A A+ + V+IS D G
Sbjct: 291 ESGS-----VNAKVLKDKNGRPVYVARRPVLGGEHIVDARASLG-EMGMAEVNISLDRAG 344
Query: 279 ARRFFEVTRDNIGKPLAVVL--------DGRVLTAPVINQAIPSGKAQISGNFTIETAGI 330
++ + +RDNIGKP+A + VI+ A + ++Q+ F I AG
Sbjct: 345 GKKMSDFSRDNIGKPMATSYSEYSRDEQGKTKQSEEVISVA--TIQSQLGDRFRITGAGS 402
Query: 331 ------LAAMLRAGSLPIKLNIVEERNVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYG 384
LA +LRAGSL + IVEER +G LG+++I G A+ G+ + +LFM + Y
Sbjct: 403 YQEAQQLALLLRAGSLTAPVTIVEERTIGPSLGAENIENGFAALALGMGITLLFMALWYR 462
Query: 385 KWGLVADFSIFLNVILTLALLSLL-GATLTLPSIAGIVLGIGLAVDSNILVNERIREENR 443
+ G VA+ ++ N++ LL+L+ GA LTLP IAG+VL +G+AVD+N+L+ ERI+++ +
Sbjct: 463 RLGWVANVALIANMVCLFGLLALIPGAVLTLPGIAGLVLTVGMAVDTNVLIFERIKDKLK 522
Query: 444 KNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSILISMFTA 503
+ +S ++D GF A+STIFD+N T +I VVL+ G G ++GFA+T+GL +L SMFT
Sbjct: 523 EGRSFAQAIDTGFDSAFSTIFDANFTTMITAVVLYSIGNGPIQGFALTLGLGLLTSMFTG 582
Query: 504 ISIVRAM 510
I RA+
Sbjct: 583 IFASRAL 589
>gnl|CDD|183847 PRK13022, secF, preprotein translocase subunit SecF; Reviewed.
Length = 289
Score = 289 bits (743), Expect = 2e-78
Identities = 118/282 (41%), Positives = 175/282 (62%), Gaps = 5/282 (1%)
Query: 540 IQFMRARFWGVGISILFSICSICLLFTHGLNYGIDFKGGIQLGVLANRPVDLSVVRSNLE 599
I FMR R IS+L + SI LFT GLN GIDF GG + V +P DL VR LE
Sbjct: 4 IDFMRWRKIWFIISLLLILASIISLFTRGLNLGIDFTGGTVIEVRFEQPADLEQVREALE 63
Query: 600 SLQIGDISFQNFDGEKNFLVRLQYQPGDSVAQTRVLEMVKKKITEIVPLSTIQNTEIVGP 659
D QNF ++ L+RL P +V + + K + ++ E VGP
Sbjct: 64 KAGFEDAQVQNFGSSRDVLIRLP--PASEELSEKVKKALNKAYGP--NDAEVRRVEFVGP 119
Query: 660 KISRELIRKGIVGVIISAIAMLIYIWIRFKWYFALGAITTLILDITKTLGFFALFGIEFN 719
++ +EL +KG++ ++++ + +LIYI RF+W FALGAI L+ D+ TLG F+LF IEF+
Sbjct: 120 QVGKELAQKGLLALLVALVGILIYIAFRFEWRFALGAIIALLHDVIITLGIFSLFQIEFD 179
Query: 720 LTAVAAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTSMAA 779
LT +AA+LT+IGYS+ND VVV+DR+R+N + +F ++I+ SIN+TL R++ TS+
Sbjct: 180 LTVIAALLTIIGYSLNDTVVVFDRIRENFRKIRRK-TFAEIINLSINQTLSRTIITSLTT 238
Query: 780 FISVLPMAVWGGSVIGSFAIPMAFGIVVAASSSIFIAAPILL 821
+ VL + ++GG + FA+ + GI+V SSIF+A+P+LL
Sbjct: 239 LLVVLALYLFGGGTLHDFALALLIGIIVGTYSSIFVASPLLL 280
Score = 64.4 bits (158), Expect = 1e-10
Identities = 52/172 (30%), Positives = 88/172 (51%), Gaps = 25/172 (14%)
Query: 352 VGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKW--GLVADFSIFLNVILTLALLSLLG 409
VG +G + KG A++ LV I+++ I +W L A ++ +VI+TL + SL
Sbjct: 117 VGPQVGKELAQKGLLALLVALVGILIY-IAFRFEWRFALGAIIALLHDVIITLGIFSLFQ 175
Query: 410 ATLTLPSIAGIVLGIGLAVDSNILVNERIREENRK----------NQSVFCSLDMGFSRA 459
L IA ++ IG +++ ++V +RIRE RK N S+ +L SR
Sbjct: 176 IEFDLTVIAALLTIIGYSLNDTVVVFDRIRENFRKIRRKTFAEIINLSINQTL----SR- 230
Query: 460 YSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSILI----SMFTAISIV 507
TI S +T L+ + L+ FGGG + FA+ + + I++ S+F A ++
Sbjct: 231 --TIITS-LTTLLVVLALYLFGGGTLHDFALALLIGIIVGTYSSIFVASPLL 279
>gnl|CDD|171815 PRK12911, PRK12911, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 1403
Score = 261 bits (669), Expect = 4e-70
Identities = 184/566 (32%), Positives = 311/566 (54%), Gaps = 49/566 (8%)
Query: 294 LAVVLDGRVLTAPVINQAIPSGKAQISGNFTIETAGILAAMLRAGSLPIKLNIVEERNVG 353
+AVVLDG V++ PV+N + A +SG F+ LA L++G++ ++ E +
Sbjct: 842 MAVVLDGYVVSDPVLNVPLKD-HASVSGKFSHREVHRLATDLKSGAMSFVPEVLSEEVIS 900
Query: 354 ADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLT 413
+LG +G ++ GL ++++ M V Y G++A ++ LN++L A L L A LT
Sbjct: 901 PELGKSQRTQGIISVCLGLAVLIVLMSVYYRFGGVIASGAVLLNLLLIWAALQYLDAPLT 960
Query: 414 LPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIA 473
L +AGIVL +G+AVD+N+LV ERIREE ++S+ S++ G+ +A+S IFDSN+T ++A
Sbjct: 961 LSGLAGIVLAMGMAVDANVLVFERIREEYLLSRSLSESVEAGYKKAFSAIFDSNLTTILA 1020
Query: 474 TVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFIIRYKKMKSIDINPLSRFFL 533
+ +L G ++GFA+T+ + I SMFTA+ + + F+I K + ++ +++F
Sbjct: 1021 SALLLMLDTGPIKGFALTLIIGIFSSMFTALFMTK--FFFMIWMNKTQETQLHMMNKFIG 1078
Query: 534 IPDCIAIQFMRA--RFWGVGISILFSICSICLLFTHGLN-YGIDFKGG--IQLGVLANRP 588
I F++ R W V S+L C + L F + G+DFKGG + L
Sbjct: 1079 IKH----DFLKECKRLWVVSGSVLVLGC-VALGFGAWNSVLGMDFKGGYALTLDPSDVCE 1133
Query: 589 VDLSVVRSNLES--LQIG----DISFQNFD-GEK-------NFLVRLQYQPGDSVAQ--- 631
D+ +RS L QIG D + FD EK N L R++ G Q
Sbjct: 1134 YDVEQMRSKLRKKFQQIGLSSRDFRIRTFDSSEKIKIYFSQNALDRVEAIEGAGSEQSDH 1193
Query: 632 --TRVLEMVKKKITEIVP--LSTIQNTEI-VGPKISRELIRKGIVGVIISAIAMLIYIWI 686
VL ++ ++ QN V ++S ++ + ++ + + +L+Y+ +
Sbjct: 1194 HLALVLGVLSDTGSDTSSEVFDATQNFWFKVSGQLSNKMRTQAVIALFGALGIILLYVSL 1253
Query: 687 RFKWYFALGAITTLILDITKT------LGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVV 740
RF+W +A AI LI D+ T L FF L I+ +L A+ A++T++GYS+N+ +++
Sbjct: 1254 RFEWRYAFSAICALIHDLLATCAVLVALHFF-LQKIQIDLQAIGALMTVLGYSLNNTLII 1312
Query: 741 YDRMRKNM--KLYTTSISFRDLIDKSINETLGRSVYTSMAAFISVLPMAVW-GGSVIGSF 797
+DR+R++ KL+T LI+ ++ +TLGR+V T+ A +SVL + ++ GG I +F
Sbjct: 1313 FDRIREDRQEKLFT---PMPILINDALQKTLGRTVMTT-ATTLSVLLILLFVGGGSIFNF 1368
Query: 798 AIPMAFGIVVAASSSIFIAAPILLFI 823
A M GI++ SS++IA P+LLF+
Sbjct: 1369 AFIMTIGILLGTLSSLYIAPPLLLFM 1394
Score = 44.8 bits (106), Expect = 1e-04
Identities = 38/179 (21%), Positives = 86/179 (48%), Gaps = 17/179 (9%)
Query: 358 SDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTL-ALLSLLGAT----- 411
S+ + + G + I+L + L +W FS +I L A ++L A
Sbjct: 1229 SNKMRTQAVIALFGALGIILLYVSLRFEWRYA--FSAICALIHDLLATCAVLVALHFFLQ 1286
Query: 412 ---LTLPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNI 468
+ L +I ++ +G ++++ +++ +RIRE+ ++ +F + + + A +
Sbjct: 1287 KIQIDLQAIGALMTVLGYSLNNTLIIFDRIREDRQEK--LFTPMPILINDALQKTLGRTV 1344
Query: 469 ----TALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFIIRYKKMKSI 523
T L ++L F GGG++ FA M + IL+ +++ I +++F++R ++ S+
Sbjct: 1345 MTTATTLSVLLILLFVGGGSIFNFAFIMTIGILLGTLSSLYIAPPLLLFMVRKEERNSL 1403
Score = 34.8 bits (80), Expect = 0.080
Identities = 20/48 (41%), Positives = 32/48 (66%), Gaps = 3/48 (6%)
Query: 170 RIDQIGISESTIQRLGSHRILIQLPGEQDPSRLRQLLGTTAKMSFHKV 217
R++++G+SE ++R G H I + +PG S ++LGT+ KMSFH V
Sbjct: 618 RLNKLGVSEVEMRREGDH-IHLSVPGSAGISS-AEILGTS-KMSFHVV 662
>gnl|CDD|162137 TIGR00966, 3a0501s07, protein-export membrane protein SecF. This
bacterial protein is always found with the homologous
protein-export membrane protein SecD. In numerous
lineages, this protein occurs as a SecDF fusion protein.
Length = 246
Score = 227 bits (580), Expect = 1e-59
Identities = 99/249 (39%), Positives = 159/249 (63%), Gaps = 3/249 (1%)
Query: 568 GLNYGIDFKGGIQLGVLANRPVDLSVVRSNLESLQIGDISFQNFDGEKNFLVRLQYQPGD 627
G N+GIDF GG + + D++ VR LE I + Q F ++R+ +
Sbjct: 1 GFNFGIDFTGGTVIETRLEQAADVAEVRDVLEKAGIEGVVIQEFGSSHTIMIRIPTLDTE 60
Query: 628 SVAQTRVLEMVKKKITEIVPLSTIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYIWIR 687
+ R E +++ + + P + I++ + VGP + EL RK ++ ++ + + +LIYI +R
Sbjct: 61 QSEELR--EALEEALKNVDPDAEIRSIDAVGPSVGGELARKAVLALLAALVLILIYITVR 118
Query: 688 FKWYFALGAITTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVVYDRMRKN 747
F+W FALGAI L+ D+ T+G ++LFGIE NLT VAA+LT+IGYS+ND VVV+DR+R+N
Sbjct: 119 FEWRFALGAIVALVHDVIITVGVYSLFGIEVNLTTVAALLTIIGYSINDTVVVFDRIREN 178
Query: 748 MKLYTTSISFRDLIDKSINETLGRSVYTSMAAFISVLPMAVWGGSVIGSFAIPMAFGIVV 807
++ YT +F ++I+ SIN+TL R++ TS+ ++VL + V+GG VI F++ + G++V
Sbjct: 179 LRKYTRK-TFTEVINLSINQTLSRTINTSLTTLLAVLALYVFGGGVIKDFSLALLVGVIV 237
Query: 808 AASSSIFIA 816
SSIFIA
Sbjct: 238 GTYSSIFIA 246
Score = 65.0 bits (159), Expect = 8e-11
Identities = 51/195 (26%), Positives = 102/195 (52%), Gaps = 13/195 (6%)
Query: 319 ISGNFTIETAGILAAMLRAGSLPIKLNIVEERNVGADLGSDSIYKGTCAIVAGLVLIVLF 378
+ + E L L+ I VG +G + K A++A LVLI+++
Sbjct: 57 LDTEQSEELREALEEALKNVDPDA--EIRSIDAVGPSVGGELARKAVLALLAALVLILIY 114
Query: 379 MIVLYG-KWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSNILVNER 437
+ V + ++ L A ++ +VI+T+ + SL G + L ++A ++ IG +++ ++V +R
Sbjct: 115 ITVRFEWRFALGAIVALVHDVIITVGVYSLFGIEVNLTTVAALLTIIGYSINDTVVVFDR 174
Query: 438 IREENRK------NQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAVRGFAIT 491
IRE RK + + S++ SR TI S +T L+A + L+ FGGG ++ F++
Sbjct: 175 IRENLRKYTRKTFTEVINLSINQTLSR---TINTS-LTTLLAVLALYVFGGGVIKDFSLA 230
Query: 492 MGLSILISMFTAISI 506
+ + +++ +++I I
Sbjct: 231 LLVGVIVGTYSSIFI 245
>gnl|CDD|162105 TIGR00916, 2A0604s01, protein-export membrane protein, SecD/SecF
family. The SecA,SecB,SecD,SecE,SecF,SecG and SecY
proteins form the protein translocation appartus in
prokaryotes. This family is specific for the SecD and
SecF proteins.
Length = 192
Score = 153 bits (388), Expect = 2e-37
Identities = 64/158 (40%), Positives = 107/158 (67%), Gaps = 3/158 (1%)
Query: 350 RNVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLN-VILTLALLSLL 408
VG LG + I G A++ GLVL++L+M++ Y G +A + ++ VIL L +LSL
Sbjct: 35 GTVGPTLGGELIKAGIIALLIGLVLVLLYMLLRYEWRGAIAAIAALVHDVILILGVLSLF 94
Query: 409 GATLTLPSIAGIVLGIGLAVDSNILVNERIREENRK--NQSVFCSLDMGFSRAYSTIFDS 466
GATLTLP IAG++ IG +VD +++ +RIREE RK ++ ++++G ++ S I D+
Sbjct: 95 GATLTLPGIAGLLTIIGYSVDDTVVIFDRIREELRKYKGRTFREAINLGINQTLSRIIDT 154
Query: 467 NITALIATVVLFFFGGGAVRGFAITMGLSILISMFTAI 504
N+T L+A + L+ FGGGA++GFA+T+G+ ++ +++I
Sbjct: 155 NVTTLLAVLALYVFGGGAIKGFALTLGIGVIAGTYSSI 192
Score = 147 bits (372), Expect = 1e-35
Identities = 60/158 (37%), Positives = 101/158 (63%), Gaps = 1/158 (0%)
Query: 656 IVGPKISRELIRKGIVGVIISAIAMLIYIWIRFKWYFALGAITTLILDITKTLGFFALFG 715
VGP + ELI+ GI+ ++I + +L+Y+ +R++W A+ AI L+ D+ LG +LFG
Sbjct: 36 TVGPTLGGELIKAGIIALLIGLVLVLLYMLLRYEWRGAIAAIAALVHDVILILGVLSLFG 95
Query: 716 IEFNLTAVAAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYT 775
L +A +LT+IGYSV+D VV++DR+R+ ++ Y +FR+ I+ IN+TL R + T
Sbjct: 96 ATLTLPGIAGLLTIIGYSVDDTVVIFDRIREELRKYKGR-TFREAINLGINQTLSRIIDT 154
Query: 776 SMAAFISVLPMAVWGGSVIGSFAIPMAFGIVVAASSSI 813
++ ++VL + V+GG I FA+ + G++ SSI
Sbjct: 155 NVTTLLAVLALYVFGGGAIKGFALTLGIGVIAGTYSSI 192
>gnl|CDD|171840 PRK13021, secF, preprotein translocase subunit SecF; Reviewed.
Length = 297
Score = 151 bits (384), Expect = 6e-37
Identities = 80/274 (29%), Positives = 151/274 (55%), Gaps = 6/274 (2%)
Query: 544 RARFWGVGISILFSICSICLLFTHGLNYGIDFKGGIQLGVLANRPVDLSVVRSNLESLQI 603
+ R+ ISI+ + S+ ++ G N+G+DF GG+ V +R + S ++ L +
Sbjct: 8 KWRYISSAISIVLMLLSLTIIGVKGFNWGLDFTGGVVTEVQLDRKITSSELQPLLNAAYQ 67
Query: 604 GDISFQNFDGEKNFLVRLQYQPGDSVAQTRVLEMVKKKITEIVPLSTIQNTEIVGPKISR 663
++S + E V L+Y P D+ ++ + V + N+ IVGP++ +
Sbjct: 68 QEVSVIS-ASEPGRWV-LRYAPADTAQSNVDIQQALAPLGTEV---QVLNSSIVGPQVGQ 122
Query: 664 ELIRKGIVGVIISAIAMLIYIWIRFKWYFALGAITTLILDITKTLGFFALFGIEFNLTAV 723
EL +G + ++++ + +L Y+ RF+W A GA+ L+ D+ L FFAL +EFNLT +
Sbjct: 123 ELAEQGGLALLVAMLCILGYLSYRFEWRLASGALFALVHDVIFVLAFFALTQMEFNLTVL 182
Query: 724 AAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTSMAAFISV 783
AAVL ++GYS+ND +++ DR+R+ + + ++ +++ +++I T R++ TS ++V
Sbjct: 183 AAVLAILGYSLNDSIIIADRIRELL-IAKPKLAIQEINNQAIVATFSRTMVTSGTTLMTV 241
Query: 784 LPMAVWGGSVIGSFAIPMAFGIVVAASSSIFIAA 817
+ + GG + F+I M GI+ SSI +
Sbjct: 242 GALWIMGGGPLEGFSIAMFIGILTGTFSSISVGT 275
Score = 58.3 bits (141), Expect = 7e-09
Identities = 39/159 (24%), Positives = 79/159 (49%), Gaps = 5/159 (3%)
Query: 352 VGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLV--ADFSIFLNVILTLALLSLLG 409
VG +G + +G A++ ++ I+ ++ + +W L A F++ +VI LA +L
Sbjct: 116 VGPQVGQELAEQGGLALLVAMLCILGYLSYRF-EWRLASGALFALVHDVIFVLAFFALTQ 174
Query: 410 ATLTLPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCS--LDMGFSRAYSTIFDSN 467
L +A ++ +G +++ +I++ +RIRE + + +S ++
Sbjct: 175 MEFNLTVLAAVLAILGYSLNDSIIIADRIRELLIAKPKLAIQEINNQAIVATFSRTMVTS 234
Query: 468 ITALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISI 506
T L+ L+ GGG + GF+I M + IL F++IS+
Sbjct: 235 GTTLMTVGALWIMGGGPLEGFSIAMFIGILTGTFSSISV 273
>gnl|CDD|181396 PRK08343, secD, preprotein translocase subunit SecD; Reviewed.
Length = 417
Score = 125 bits (317), Expect = 4e-29
Identities = 99/364 (27%), Positives = 163/364 (44%), Gaps = 52/364 (14%)
Query: 161 EQSMEIIRQRIDQIGISESTIQRLGSHRILIQLPGEQDPSRLRQLLGTTAKMSFHKVLPN 220
+ +EI+ R++ +G+ + + +G I++++PG D ++++
Sbjct: 66 DLVVEILESRLNALGLKDIKVYPVGDQYIVVEVPGV-DADTAKEIIEKQGV--------- 115
Query: 221 NSKKGFMFGVRFLRDSDGNQY-LVEDKVEISGIHLNGATANFDPKTHKPVVDISFDEMGA 279
F R + N+ L D +E G + + DP V + E GA
Sbjct: 116 -------FEARIQTPGNNNETVLTGDDIESVG------SPSQDPSGGAWGVPFTLSEDGA 162
Query: 280 RRFFEV------TRDNIGKPLAVVLDGRVLTAPVIN----QAIPSGKAQISGNFTIET-- 327
+F EV T D G PL + LDG ++ A ++ + SG I+ T T
Sbjct: 163 EKFAEVAKGKGATDDPSGHPLDMYLDGELIYAAPLSPDLASGLASGPVVITVGSTGTTEE 222
Query: 328 ----AGILAAMLRAGSLPIKLNIVEERNVGADLGSDSIYKGTCAIVAGL--VLIVLFMIV 381
A L LR+G+LP+KL+I +V LG +K +++AGL +L V ++
Sbjct: 223 AKEEAKELYIHLRSGALPVKLDIEGSGSVSPSLGEQ--FK-KGSLIAGLLALLAVALVVF 279
Query: 382 L-YGKWGLVAD--FSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSNILV-NER 437
L Y + + + VI+ L +L+G L L SIAGI+ IG VD I++ +E
Sbjct: 280 LRYREPRIALPMVITSLSEVIIILGFAALIGWQLDLASIAGIIAVIGTGVDDLIIITDEV 339
Query: 438 IREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSIL 497
+ E ++ VF S RA+ IF + T + A L G G ++GFAIT L +L
Sbjct: 340 LHEGKVPSRKVFLS---RIKRAFFIIFAAAATTIAAMSPLAVMGLGDLKGFAITTILGVL 396
Query: 498 ISMF 501
I +
Sbjct: 397 IGVL 400
Score = 36.0 bits (84), Expect = 0.044
Identities = 39/178 (21%), Positives = 86/178 (48%), Gaps = 19/178 (10%)
Query: 646 VPLSTIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYIWIRFK-WYFALGAITTLILDI 704
V L I+ + V P + + + ++ +++ +A+ + +++R++ AL + T + ++
Sbjct: 241 VKLD-IEGSGSVSPSLGEQFKKGSLIAGLLALLAVALVVFLRYREPRIALPMVITSLSEV 299
Query: 705 TKTLGFFALFGIEFNLTAVAAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKS 764
LGF AL G + +L ++A ++ +IG V+D +++ D + L+ + R +
Sbjct: 300 IIILGFAALIGWQLDLASIAGIIAVIGTGVDDLIIITDEV-----LHEGKVPSRKVFLSR 354
Query: 765 INETLGRSVYTSMAA----FISVLPMAVWGGSVIGSFAIPMAFGIVVAASSSIFIAAP 818
I R+ + AA ++ P+AV G + FAI G+++ + I P
Sbjct: 355 I----KRAFFIIFAAAATTIAAMSPLAVMGLGDLKGFAITTILGVLIG----VLITRP 404
Score = 29.1 bits (66), Expect = 4.6
Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 8/51 (15%)
Query: 548 WGVGISILFSICSICLLFTH--------GLNYGIDFKGGIQLGVLANRPVD 590
W V + I+ + SI +F L YG+D GG + + PV
Sbjct: 11 WRVLLLIVLVLASIVAIFPPGGGPGGFTNLQYGLDLSGGSWIQLKLEGPVT 61
>gnl|CDD|181485 PRK08578, PRK08578, preprotein translocase subunit SecF; Reviewed.
Length = 292
Score = 78.0 bits (193), Expect = 8e-15
Identities = 43/170 (25%), Positives = 72/170 (42%), Gaps = 9/170 (5%)
Query: 567 HGLNYGIDFKGGIQLGVLANRPVDLSVVRSNLESLQIGDISFQNFDGEKNFLVRLQYQPG 626
+ GIDF GG ++ + N + S L D+ + +G + + G
Sbjct: 40 SPVKLGIDFTGGTEITIQTN-DASPDELESALSGEPGVDVRKGSGNG-----YIITFGSG 93
Query: 627 DSVAQTRVLEMVKKKIT-EIVPLSTIQNTEIVGPKISRELIRKGIVGVIISAIAMLIYIW 685
D ++ + VK+ + + +I GP + + + V + I M + ++
Sbjct: 94 DDTDVDKLADAVKEFFNVDSISELNYSEKQI-GPTFGSQFQEQALKAVGFAFIGMAVVVF 152
Query: 686 IRFKWYFALGA-ITTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSV 734
+ F+ A I + DI L LFGIE +L VAA+L LIGYSV
Sbjct: 153 LIFRTPVPSLAVILSAFSDIIIALALMNLFGIELSLATVAALLMLIGYSV 202
Score = 52.2 bits (126), Expect = 5e-07
Identities = 27/89 (30%), Positives = 47/89 (52%), Gaps = 7/89 (7%)
Query: 392 FSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCS 451
S F ++I+ LAL++L G L+L ++A +++ IG +VDS+IL+ R+ + +
Sbjct: 166 LSAFSDIIIALALMNLFGIELSLATVAALLMLIGYSVDSDILLTTRVLKRRG-------T 218
Query: 452 LDMGFSRAYSTIFDSNITALIATVVLFFF 480
D RA T +T + A VL+
Sbjct: 219 FDESIKRAMRTGITMTLTTIAAMAVLYIV 247
>gnl|CDD|162109 TIGR00921, 2A067, The (Largely Archaeal Putative)
Hydrophobe/Amphiphile Efflux-3 (HAE3) Family.
Characterized members of the RND superfamily all
probably catalyze substrate efflux via an H+ antiport
mechanism. These proteins are found ubiquitously in
bacteria, archaea and eukaryotes. They fall into seven
phylogenetic families, this family (2.A.6.7) consists of
uncharacterised putative transporters, largely in the
Archaea.
Length = 719
Score = 54.8 bits (132), Expect = 9e-08
Identities = 41/188 (21%), Positives = 73/188 (38%), Gaps = 10/188 (5%)
Query: 338 GSLPIKLNIVEERNVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLN 397
GS I +I ER G D+G+ T AI LV++VL + L+ I
Sbjct: 179 GSPAINYDI--EREFGKDMGT------TMAISGILVVLVLLLDFKRWWRPLLPLVIILFG 230
Query: 398 VILTLALLSLLGATLTLPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFS 457
V L ++ LG L ++ + + IG+ +D I R EE ++ ++
Sbjct: 231 VAWVLGIMGWLGIPLYATTLLAVPMLIGVGIDYGIQTLNRYEEERDIGRAKGEAIVTAVR 290
Query: 458 RAYSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFI--I 515
R + + +T L V F + + ++ + + ++ A++ I
Sbjct: 291 RTGRAVLIALLTTSAGFAALALSEFPMVSEFGLGLVAGLITAYLLTLLVLPALLQSIDIG 350
Query: 516 RYKKMKSI 523
R K K I
Sbjct: 351 REKVKKEI 358
Score = 49.5 bits (118), Expect = 4e-06
Identities = 37/179 (20%), Positives = 70/179 (39%), Gaps = 18/179 (10%)
Query: 660 KISRELIRKGIVGVIISAIAMLIYIWIRFK-WYFALGAITTLILDITKTLGFFALFGIEF 718
I RE + + IS I +++ + + FK W+ L + ++ + LG GI
Sbjct: 186 DIEREFGKDMGTTMAISGILVVLVLLLDFKRWWRPLLPLVIILFGVAWVLGIMGWLGIPL 245
Query: 719 NLTAVAAVLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINET----LGRSVY 774
T + AV LIG ++ + +R + + + I ++ T L +
Sbjct: 246 YATTLLAVPMLIGVGIDYGIQTLNRYEEE---RDIGRAKGEAIVTAVRRTGRAVLIALLT 302
Query: 775 TS---MAAFISVLPMAVWGGSVIGSFAIPMAFGIVVAASSSIFIAAPILLFIYDWRAKN 830
TS A +S PM + F + + G++ A ++ + +L I R K
Sbjct: 303 TSAGFAALALSEFPM-------VSEFGLGLVAGLITAYLLTLLVLPALLQSIDIGREKV 354
Score = 46.4 bits (110), Expect = 3e-05
Identities = 32/141 (22%), Positives = 60/141 (42%), Gaps = 1/141 (0%)
Query: 372 LVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSN 431
LVL++L + + +I ++ + L+ L G L I + +GL +D +
Sbjct: 579 LVLMILLAVFRNPIKAVFPLIAIGSGILWAIGLMGLRGIPSFLAMATTISIILGLGMDYS 638
Query: 432 ILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAVRGFAIT 491
I + ER EE RK ++ R I S +T + L +R F +
Sbjct: 639 IHLAERYFEE-RKEHGPKEAITHTMERTGPGILFSGLTTAGGFLSLLLSHFPIMRNFGLV 697
Query: 492 MGLSILISMFTAISIVRAMMI 512
G+ +L S+ A+ + A+++
Sbjct: 698 QGIGVLSSLTAALVVFPALLV 718
>gnl|CDD|163284 TIGR03480, HpnN, hopanoid biosynthesis associated RND transporter
like protein HpnN. The genomes containing members of
this family share the machinery for the biosynthesis of
hopanoid lipids. Furthermore, the genes of this family
are usually located proximal to other components of this
biological process. The proteins appear to be related to
the RND family of export proteins, particularly the
hydrophobe/amphiphile efflux-3 (HAE3) family represented
by TIGR00921.
Length = 862
Score = 48.8 bits (117), Expect = 6e-06
Identities = 55/222 (24%), Positives = 89/222 (40%), Gaps = 50/222 (22%)
Query: 367 AIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGA--------TLTLPSIA 418
A VAGL+ VL +++L+ L + + V++TL + +L A L L S+A
Sbjct: 271 ATVAGLLSFVLVLVLLW--LALRS-PRLVFAVLVTLIVGLILTAAFATLAVGHLNLISVA 327
Query: 419 GIVLGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITAL----IAT 474
VL IGL VD I + R REE A S AL +AT
Sbjct: 328 FAVLFIGLGVDFAIQFSLRYREER--------FRGGNHREALSVAARRMGAALLLAALAT 379
Query: 475 VVLFF-FGGGAVRGFA---ITMGLSILISMFTAISIVRAMMIFI--------IRYKKMKS 522
FF F +G + I G + I++F ++++ A++ + Y +
Sbjct: 380 AAGFFAFLPTDYKGVSELGIIAGTGMFIALFVTLTVLPALLRLLRPPRRRKPPGYATLA- 438
Query: 523 IDINPLSRFFLIPDCIAIQFMRARFWGVGISILFSICSICLL 564
PL F R R +G++++ I ++ LL
Sbjct: 439 ----PLDAF----------LRRHRRPVLGVTLILGIAALALL 466
Score = 31.5 bits (72), Expect = 0.82
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 4/79 (5%)
Query: 364 GTCAIVA-GLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVL 422
A+VA ++L++ V L + L +LT+A + LLG +I + L
Sbjct: 718 FIYALVAITVLLLLTLRRVRDVLLVLAP---LLLAGLLTVAAMVLLGIPFNFANIIALPL 774
Query: 423 GIGLAVDSNILVNERIREE 441
+GL VD I + R R
Sbjct: 775 LLGLGVDFGIYMVHRWRNG 793
Score = 29.6 bits (67), Expect = 3.1
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 8/106 (7%)
Query: 677 AIAMLIYIWIRFKWYFALGAITTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSVND 736
AI +L+ + +R L L+L T+ L GI FN + A+ L+G V+
Sbjct: 724 AITVLLLLTLRRVRDVLLVLAP-LLLAGLLTVAAMVLLGIPFNFANIIALPLLLGLGVDF 782
Query: 737 KVVVYDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTSMAAFIS 782
+ + R R + +L+ S + S T+ AF S
Sbjct: 783 GIYMVHRWRNGVDS-------GNLLQSSTARAVFFSALTTATAFGS 821
>gnl|CDD|162104 TIGR00915, 2A0602, The (Largely Gram-negative Bacterial)
Hydrophobe/Amphiphile Efflux-1 (HAE1) Family. This
family is one of several subfamilies within the scope of
pfam model pfam00873.
Length = 1044
Score = 45.9 bits (109), Expect = 5e-05
Identities = 48/190 (25%), Positives = 82/190 (43%), Gaps = 17/190 (8%)
Query: 636 EMVKKKITEIVPLSTIQNTEIVGPKISRELIRKGIVGVI---ISAIAMLIYIWIRFKWYF 692
+ VK ++ E+ P Q + V P + + I V+ I AI ++ + F F
Sbjct: 304 KAVKAELAELEPFFP-QGMKYVYPYDTTPFVSASIEEVVHTLIEAIVLVFLVMYLFLQNF 362
Query: 693 ALGAITTLILDIT--KTLGFFALFGIEFN-LTAVAAVLTLIGYSVNDKVVVYDRMRKNMK 749
I T+ + + T A FG N LT A VL IG V+D +VV + + + M
Sbjct: 363 RATLIPTIAVPVVLLGTFAVLAAFGFSINTLTMFAMVLA-IGLLVDDAIVVVENVERVMA 421
Query: 750 LYTTSISFRDLIDKSINETLGRSVYTSMAAFISVLPMAVWGGS---VIGSFAIPMAFGIV 806
+ ++ KS+ + G V +M +PMA +GGS + F+I + +
Sbjct: 422 --EEGLPPKEATRKSMGQIQGALVGIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMA 479
Query: 807 VAASSSIFIA 816
+ S+ +A
Sbjct: 480 L----SVLVA 485
Score = 42.0 bits (99), Expect = 6e-04
Identities = 42/169 (24%), Positives = 80/169 (47%), Gaps = 26/169 (15%)
Query: 358 SDSIYKGTCAIVAGLVLIVLFMIVLYGKW--GLVADFSIFLNVILTLALLSLLGATLTLP 415
S SI + ++ +VL+ L M + + L+ ++ + ++ T A+L+ G ++
Sbjct: 334 SASIEEVVHTLIEAIVLVFLVMYLFLQNFRATLIPTIAVPVVLLGTFAVLAAFGFSINTL 393
Query: 416 SIAGIVLGIGLAVDSNILVNERI-----------REENRKNQSVFCSLDMGFSRAYSTIF 464
++ +VL IGL VD I+V E + +E RK+ +G + S +F
Sbjct: 394 TMFAMVLAIGLLVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQGALVGIAMVLSAVF 453
Query: 465 DSNITALIATVVLFFFGG--GAV-RGFAITMGLSILISMFTAISIVRAM 510
V + FFGG GA+ R F+IT+ ++ +S+ A+ + A+
Sbjct: 454 ----------VPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPAL 492
>gnl|CDD|169983 PRK09579, PRK09579, multidrug efflux protein; Reviewed.
Length = 1017
Score = 45.2 bits (107), Expect = 7e-05
Identities = 42/164 (25%), Positives = 83/164 (50%), Gaps = 3/164 (1%)
Query: 372 LVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSN 431
+V++V+F+ + + L+ +I L++I L + ++G ++ L ++ +VL IGL VD
Sbjct: 343 IVIVVVFLFLGALRSVLIPVVTIPLSMIGVLFFMQMMGYSINLLTLLAMVLAIGLVVDDA 402
Query: 432 ILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNIT-ALIATVVLFFFG--GGAVRGF 488
I+V E I + +S F + G + IT A + + F G G + F
Sbjct: 403 IVVVENIHRHIEEGKSPFDAALEGAREIAMPVVSMTITLAAVYAPIGFLTGLTGALFKEF 462
Query: 489 AITMGLSILISMFTAISIVRAMMIFIIRYKKMKSIDINPLSRFF 532
A+T+ +++IS A+++ M ++R+++ S + L R F
Sbjct: 463 ALTLAGAVIISGIVALTLSPMMCALLLRHEENPSGLAHRLDRLF 506
Score = 30.6 bits (69), Expect = 2.0
Identities = 21/75 (28%), Positives = 40/75 (53%), Gaps = 4/75 (5%)
Query: 679 AMLIYIWIRFKWYFALGA----ITTLILDITKTLGFFALFGIEFNLTAVAAVLTLIGYSV 734
A+LI I + F + AL + + T+ L + L F + G NL + A++ IG V
Sbjct: 340 AVLIVIVVVFLFLGALRSVLIPVVTIPLSMIGVLFFMQMMGYSINLLTLLAMVLAIGLVV 399
Query: 735 NDKVVVYDRMRKNMK 749
+D +VV + + ++++
Sbjct: 400 DDAIVVVENIHRHIE 414
>gnl|CDD|182589 PRK10614, PRK10614, multidrug efflux system subunit MdtC;
Provisional.
Length = 1025
Score = 44.3 bits (105), Expect = 1e-04
Identities = 47/196 (23%), Positives = 93/196 (47%), Gaps = 13/196 (6%)
Query: 335 LRAGSLP--IKLNIVEERN--VGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVA 390
LR ++P I L I ++R+ + A L + T AI LV++V+F+ + G+ L+
Sbjct: 307 LRE-TIPAAIDLQIAQDRSPTIRASLEE---VEQTLAISVALVILVVFLFLRSGRATLIP 362
Query: 391 DFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSNILVNERIREENRKNQSVFC 450
++ +++I T A + L G +L S+ + + G VD I+V E I
Sbjct: 363 AVAVPVSLIGTFAAMYLCGFSLNNLSLMALTIATGFVVDDAIVVLENISRHLEAGMKPLQ 422
Query: 451 SLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAV----RGFAITMGLSILISMFTAISI 506
+ G T+ +++ L+A + GG R FA+T+ ++I IS+ ++++
Sbjct: 423 AALQGVREVGFTVLSMSLS-LVAVFLPLLLMGGLPGRLFREFAVTLSVAIGISLLVSLTL 481
Query: 507 VRAMMIFIIRYKKMKS 522
M ++++ K +
Sbjct: 482 TPMMCAWLLKSSKPRE 497
>gnl|CDD|185081 PRK15127, PRK15127, multidrug efflux system protein AcrB;
Provisional.
Length = 1049
Score = 43.4 bits (102), Expect = 2e-04
Identities = 43/163 (26%), Positives = 80/163 (49%), Gaps = 30/163 (18%)
Query: 367 AIVAGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGL 426
AI+ LV +V+++ + + L+ ++ + ++ T A+L+ G ++ ++ G+VL IGL
Sbjct: 347 AII--LVFLVMYLFLQNFRATLIPTIAVPVVLLGTFAVLAAFGFSINTLTMFGMVLAIGL 404
Query: 427 AVDSNILVNERI-----------REENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATV 475
VD I+V E + +E RK+ +G + S +F V
Sbjct: 405 LVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQGALVGIAMVLSAVF----------V 454
Query: 476 VLFFFGG--GAV-RGFAIT----MGLSILISMFTAISIVRAMM 511
+ FFGG GA+ R F+IT M LS+L+++ ++ M+
Sbjct: 455 PMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATML 497
Score = 37.2 bits (86), Expect = 0.018
Identities = 38/150 (25%), Positives = 69/150 (46%), Gaps = 7/150 (4%)
Query: 670 IVGVIISAIAMLIYIWIRFKWYFALGAITTLILDITKTLGFFAL---FGIEFNLTAVAAV 726
+V ++ AI ++ + F F I T+ + + LG FA+ FG N + +
Sbjct: 340 VVKTLVEAIILVFLVMYLFLQNFRATLIPTIAVPVV-LLGTFAVLAAFGFSINTLTMFGM 398
Query: 727 LTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTSMAAFISVLPM 786
+ IG V+D +VV + + + M + ++ KS+ + G V +M +PM
Sbjct: 399 VLAIGLLVDDAIVVVENVERVMA--EEGLPPKEATRKSMGQIQGALVGIAMVLSAVFVPM 456
Query: 787 AVWGGSVIGSFAIPMAFGIVVAASSSIFIA 816
A +GGS G+ + IV A + S+ +A
Sbjct: 457 AFFGGST-GAIYRQFSITIVSAMALSVLVA 485
>gnl|CDD|129913 TIGR00833, actII, Transport protein. Characterized members of the
RND superfamily all probably catalyze substrate efflux
via an H+ antiport mechanism. These proteins are found
ubiquitously in bacteria, archaea and eukaryotes. This
sub-family includes the S. coelicolor ActII3 protein,
which may play a role in drug resistance, and the M.
tuberculosis MmpL7 protein, which catalyzes export of an
outer membrane lipid, phthiocerol dimycocerosate.
Length = 910
Score = 43.0 bits (101), Expect = 3e-04
Identities = 37/170 (21%), Positives = 73/170 (42%), Gaps = 8/170 (4%)
Query: 360 SIYKGTCAIVAGLVLIVLFMIVLYGK---WGLVADFSIFLNVILTLALLSLLG----ATL 412
S K I A +IVL +++L + LV S+ +V++ ++SLLG +
Sbjct: 170 SGDKDMNRITATTGIIVLIILLLVYRSPITMLVPLVSVGFSVVVAQGIVSLLGIPGLIGV 229
Query: 413 TLPSIAGIV-LGIGLAVDSNILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDSNITAL 471
+ + L IG D + + R EE RK +S+ + I S +T
Sbjct: 230 NAQTTVLLTALVIGAGTDYAVFLTGRYHEERRKGESLEEAAAEALRGTGKAILGSALTVA 289
Query: 472 IATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFIIRYKKMK 521
+A + L + + ++ + +L+++ A+++ A++ R MK
Sbjct: 290 VAFLALSLARLPSFKTLGVSCAVGVLVALLNAVTLTPALLTLEGREGLMK 339
Score = 34.9 bits (80), Expect = 0.078
Identities = 32/163 (19%), Positives = 66/163 (40%), Gaps = 26/163 (15%)
Query: 367 AIVAGLVLIVLFMIVLYGKW--GLVADFSIFLNVILTLALLSLL-------GATLTLPSI 417
+ L ++ + + +L +V S+ L+ + L L L ++ +
Sbjct: 749 ISIITLAIVFMILALLLRAPVAPIVLIGSVALSYLWALGLSVLAFQHILGAELHWSVLAG 808
Query: 418 AGIVLGIGLAVDSNILVNERIREENRK--NQSV---FCSLDMGFSRAYSTIFDSNITALI 472
++L + L VD N+L+ RI+EE+ + S + A +F + AL
Sbjct: 809 VFVLL-VALGVDYNMLLVSRIKEESPAGNRTGIIRALGSTGGVITAA-GLVFAGTMAALA 866
Query: 473 ATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFII 515
+ + + F T+G+ IL+ F IVR++ + +
Sbjct: 867 SAQLTA------IAQFGFTVGVGILLDTF----IVRSVTVPAL 899
>gnl|CDD|182544 PRK10555, PRK10555, aminoglycoside/multidrug efflux system;
Provisional.
Length = 1037
Score = 41.0 bits (96), Expect = 0.001
Identities = 40/147 (27%), Positives = 71/147 (48%), Gaps = 28/147 (19%)
Query: 372 LVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSN 431
LV +V+++ + + L+ ++ + ++ T ++L G ++ ++ +VL IGL VD
Sbjct: 350 LVFLVMYLFLQNFRATLIPTIAVPVVLMGTFSVLYAFGYSINTLTMFAMVLAIGLLVDDA 409
Query: 432 ILVNERI-----------REENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFF 480
I+V E + RE RK+ +G + S +F V + FF
Sbjct: 410 IVVVENVERIMSEEGLTPREATRKSMGQIQGALVGIAMVLSAVF----------VPMAFF 459
Query: 481 GG--GAV-RGFAIT----MGLSILISM 500
GG GA+ R F+IT M LS+L++M
Sbjct: 460 GGTTGAIYRQFSITIVSAMVLSVLVAM 486
Score = 39.4 bits (92), Expect = 0.004
Identities = 42/151 (27%), Positives = 72/151 (47%), Gaps = 9/151 (5%)
Query: 670 IVGVIISAIAMLIYIWIRFKWYFALGAITTLILDITKTLGFFAL---FGIEFN-LTAVAA 725
+V ++ AIA++ + F F I T+ + + +G F++ FG N LT A
Sbjct: 340 VVKTLLEAIALVFLVMYLFLQNFRATLIPTIAVPVV-LMGTFSVLYAFGYSINTLTMFAM 398
Query: 726 VLTLIGYSVNDKVVVYDRMRKNMKLYTTSISFRDLIDKSINETLGRSVYTSMAAFISVLP 785
VL IG V+D +VV + + + M ++ R+ KS+ + G V +M +P
Sbjct: 399 VLA-IGLLVDDAIVVVENVERIMS--EEGLTPREATRKSMGQIQGALVGIAMVLSAVFVP 455
Query: 786 MAVWGGSVIGSFAIPMAFGIVVAASSSIFIA 816
MA +GG+ G+ + IV A S+ +A
Sbjct: 456 MAFFGGTT-GAIYRQFSITIVSAMVLSVLVA 485
>gnl|CDD|162106 TIGR00917, 2A060601, Niemann-Pick C type protein family. The model
describes Niemann-Pick C type protein in eukaryotes. The
defective protein has been associated with Niemann-Pick
disease which is described in humans as autosomal
recessive lipidosis. It is characterized by the
lysosomal accumulation of unestrified cholesterol. It is
an integral membrane protein, which indicates that this
protein is most likely involved in cholesterol transport
or acts as some component of cholesterol homeostasis.
Length = 1204
Score = 41.0 bits (96), Expect = 0.001
Identities = 33/148 (22%), Positives = 62/148 (41%), Gaps = 17/148 (11%)
Query: 394 IFLNVILTLALLSLLGATLTL---PSIAGIVLGIGLAVDSNILV-------NERIREENR 443
+ +V+ ++ + S +G TL I +VL +G+ NI + ER E
Sbjct: 615 VLASVVGSVGVFSYIGLKATLIIMEVIPFLVLAVGV---DNIFILVQTYQRLERFYREVG 671
Query: 444 KNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGG----GAVRGFAITMGLSILIS 499
+ +L+ RA + S A ++ + FF G AVR F++ GL++ I
Sbjct: 672 VDNEQELTLEQQLGRALGEVGPSITLASLSESLAFFLGALSKMPAVRAFSLFAGLAVFID 731
Query: 500 MFTAISIVRAMMIFIIRYKKMKSIDINP 527
I+ A+++ + + +D P
Sbjct: 732 FLLQITAFVALLVLDFKRTEDNRVDCFP 759
>gnl|CDD|169981 PRK09577, PRK09577, multidrug efflux protein; Reviewed.
Length = 1032
Score = 37.9 bits (88), Expect = 0.010
Identities = 39/146 (26%), Positives = 74/146 (50%), Gaps = 10/146 (6%)
Query: 372 LVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSN 431
LV +V+F+ + + L+ + + ++ T ++ G ++ + ++ G+VL IG+ VD
Sbjct: 349 LVFLVMFLFMQNFRATLIPTLVVPVALLGTFGVMLAAGFSINVLTMFGMVLAIGILVDDA 408
Query: 432 ILVNERIREENRKNQSVFCSLDMGFSRAYSTIFDS--NITALIATVVL-FFFGGGAV--- 485
I+V E + E + D +A I + IT ++ +V + F GGAV
Sbjct: 409 IVVVENV--ERLMVEEGLSPYDATV-KAMKQISGAIVGITVVLTSVFVPMAFFGGAVGNI 465
Query: 486 -RGFAITMGLSILISMFTAISIVRAM 510
R FA+++ +SI S F A+S+ A+
Sbjct: 466 YRQFALSLAVSIGFSAFLALSLTPAL 491
>gnl|CDD|182501 PRK10503, PRK10503, multidrug efflux system subunit MdtB;
Provisional.
Length = 1040
Score = 38.2 bits (89), Expect = 0.010
Identities = 49/196 (25%), Positives = 95/196 (48%), Gaps = 14/196 (7%)
Query: 325 IETAGILAAMLRA--GSLP--IKLNIVEER--NVGADLGSDSIYKGTCAIVAGLVLIVLF 378
I TA + ML SLP +K+ ++ +R N+ A + D+ ++ AI LV+++++
Sbjct: 303 IATADSIRQMLPQLTESLPKSVKVTVLSDRTTNIRASV-DDTQFELMLAIA--LVVMIIY 359
Query: 379 MIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVDSNILVNERI 438
+ + ++ ++ L++I T A++ L ++ ++ + + G VD I+V E I
Sbjct: 360 LFLRNIPATIIPGVAVPLSLIGTFAVMVFLDFSINNLTLMALTIATGFVVDDAIVVIENI 419
Query: 439 REENRKNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAV----RGFAITMGL 494
K + + G TI S +LIA ++ F G V R FA+T+ +
Sbjct: 420 SRYIEKGEKPLAAALKGAGEIGFTII-SLTFSLIAVLIPLLFMGDIVGRLFREFAVTLAV 478
Query: 495 SILISMFTAISIVRAM 510
+ILIS ++++ M
Sbjct: 479 AILISAVVSLTLTPMM 494
>gnl|CDD|116168 pfam07549, Sec_GG, SecD/SecF GG Motif. This family consists of
various prokaryotic SecD and SecF protein export
membrane proteins. This SecD and SecF proteins are part
of the multimeric protein export complex comprising
SecA, D, E, F, G, Y, and YajC. SecD and SecF are
required to maintain a proton motive force. This
alignment encompasses a -GG- motif typically found in
N-terminal half of the SecD/SecF proteins.
Length = 29
Score = 35.4 bits (83), Expect = 0.065
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 39 MPKNRISLGLDLRGGSHLVLEVDEDD 64
+ ++LGLD GG+ ++LEVD+
Sbjct: 2 LATRGLNLGLDFTGGTQILLEVDQPV 27
Score = 32.3 bits (75), Expect = 0.48
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 563 LLFTHGLNYGIDFKGGIQL 581
L T GLN G+DF GG Q+
Sbjct: 1 SLATRGLNLGLDFTGGTQI 19
>gnl|CDD|152784 pfam12349, Sterol-sensing, Sterol-sensing domain of SREBP
cleavage-activation. Sterol regulatory element-binding
proteins (SREBPs) are membrane-bound transcription
factors that promote lipid synthesis in animal cells.
They are embedded in the membranes of the endoplasmic
reticulum (ER) in a helical hairpin orientation and are
released from the ER by a two-step proteolytic process.
Proteolysis begins when the SREBPs are cleaved at
Site-1, which is located at a leucine residue in the
middle of the hydrophobic loop in the lumen of the ER.
Upon proteolytic processing SREBP can activate the
expression of genes involved in cholesterol biosynthesis
and uptake. SCAP stimulates cleavage of SREBPs via
fusion of the their two C-termini. This domain is the
transmembrane region that traverses the membrane eight
times and is the sterol-sensing domain of the cleavage
protein. WD40 domains are found towards the C-terminus.
Length = 153
Score = 33.7 bits (78), Expect = 0.21
Identities = 28/127 (22%), Positives = 53/127 (41%), Gaps = 12/127 (9%)
Query: 387 GLVADFSIFLNVILTLALLSLLGATLTLPSIAGI---VLGIGLAVDSNILVNERIREENR 443
GL + L+V + L + G TL I VL +G+ + ILV+ R
Sbjct: 9 GLAGVIQVLLSVASSFGLCAYFGVPFTLIPGEVIPFLVLAVGVD-NMFILVHAVQRTS-- 65
Query: 444 KNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSIL------ 497
++ V + +I +++T L+A ++ AV+ F + +++L
Sbjct: 66 RSLDVEERIAEALGEVGPSITLTSLTELLAFLIGALTPMPAVQEFCLFAAVAVLFDFLLQ 125
Query: 498 ISMFTAI 504
I+ F A+
Sbjct: 126 ITFFVAV 132
Score = 31.4 bits (72), Expect = 1.0
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 685 WIRFKWYFALGAITTLILDITKTLGFFALFGIEFNL 720
W++ K+ L + ++L + + G A FG+ F L
Sbjct: 1 WVKSKFGLGLAGVIQVLLSVASSFGLCAYFGVPFTL 36
>gnl|CDD|184670 PRK14419, PRK14419, membrane protein; Provisional.
Length = 199
Score = 30.3 bits (69), Expect = 2.2
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 7/58 (12%)
Query: 770 GRSVYTSMAAFISVLPMAVW--GGSVIGSFAIPMA-FGIVVAASSSIFIAAPILLFIY 824
G++V T + L ++ W G + +G F I +A IV +S S IA P+L+F+
Sbjct: 104 GKAVATGLGML---LALS-WPVGLASLGIFLIVLALSRIVSLSSISAAIALPLLMFLL 157
>gnl|CDD|129992 TIGR00914, 2A0601, heavy metal efflux pump (cobalt-zinc-cadmium).
This model represents a family of H+/heavy metal cation
antiporters. This family is one of several subfamilies
within the scope of pfam model pfam00873.
Length = 1051
Score = 29.3 bits (66), Expect = 3.6
Identities = 41/180 (22%), Positives = 77/180 (42%), Gaps = 27/180 (15%)
Query: 370 AGLVLIVLFMIVLYGKWGLVADFSIFLNVILTLALLSLLGATLTLPSIAGIVLGIGLAVD 429
A LV+++LF+ + + L+A I L++++T + G + L S+ L GL VD
Sbjct: 351 ALLVIVILFLFLGNIRAALIAATVIPLSLLITFIGMVFQGISANLMSLGA--LDFGLIVD 408
Query: 430 SNILVNE----RIREENRKNQSVFCSLDMGFSRAYSTIFDSN--------ITALIATVV- 476
+++ E R+ E + + +F ++ LI T+V
Sbjct: 409 GAVVIVENAHRRLAEAQHHHGRQ-----LTLKERLHEVFAASREVRRPLIFGQLIITLVF 463
Query: 477 --LFFFGGGAVRGF---AITMGLSILISMFTAISIVRAMMIFIIRYKKMKSIDINPLSRF 531
+F G + F A T+ L++ +M +++ V A + IR K+ + N L R
Sbjct: 464 LPIFTLTGVEGKMFHPMAFTVVLALAGAMILSLTFVPAAVALFIR-GKVAEKE-NRLMRV 521
>gnl|CDD|183023 PRK11186, PRK11186, carboxy-terminal protease; Provisional.
Length = 667
Score = 29.5 bits (67), Expect = 4.0
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 613 GEKNFLVRLQYQPGDSVAQTRVLEMVKKKI 642
G K VRL+ P +TR++ + + KI
Sbjct: 307 GPKGSKVRLEILPAGKGTKTRIVTLTRDKI 336
>gnl|CDD|150640 pfam09990, DUF2231, Predicted membrane protein (DUF2231). This
domain, found in various hypothetical bacterial
proteins, has no known function.
Length = 100
Score = 29.5 bits (67), Expect = 4.1
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 8/48 (16%)
Query: 669 GIVGVIISAIAMLIYIWIRFK-------WYFALGAITTLILDITKTLG 709
GI GV + A+A Y+W R + AL + +L + LG
Sbjct: 44 GIGGVSLLALAAARYVW-RLRDPRQVSPSGLALSLVVVALLGVQGWLG 90
>gnl|CDD|185009 PRK15049, PRK15049, L-asparagine permease; Provisional.
Length = 499
Score = 29.2 bits (65), Expect = 4.8
Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 9/73 (12%)
Query: 665 LIRKGIVGVI-ISAIAMLIYIWIRF----KWYFALGAITTLILDITKTLG--FFALFGIE 717
I + G++ I+A+A+ ++ W F +W FAL A+T I+ +G +FA
Sbjct: 115 FINWAMTGIVDITAVALYMHYWGAFGGVPQWVFALAALT--IVGTMNMIGVKWFAEMEFW 172
Query: 718 FNLTAVAAVLTLI 730
F L V A++T +
Sbjct: 173 FALIKVLAIVTFL 185
>gnl|CDD|148191 pfam06437, ISN1, IMP-specific 5'-nucleotidase. The Saccharomyces
cerevisiae ISN1 (YOR155c) gene encodes an IMP-specific
5'-nucleotidase, which catalyses degradation of IMP to
inosine as part of the purine salvage pathway.
Length = 404
Score = 29.2 bits (66), Expect = 5.0
Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 3/46 (6%)
Query: 160 IEQSMEIIRQRIDQIGISESTIQRLGSHRILIQLPGEQDPSRLRQL 205
++ E R+R +I +++L I SRL+ L
Sbjct: 45 ESETAEETRRRYAEI---FRDVEKLIDDHIEHDKDNSPGRSRLKLL 87
>gnl|CDD|162816 TIGR02350, prok_dnaK, chaperone protein DnaK. Members of this
family are the chaperone DnaK, of the DnaK-DnaJ-GrpE
chaperone system. All members of the seed alignment were
taken from completely sequenced bacterial or archaeal
genomes and (except for Mycoplasma sequence) found
clustered with other genes of this systems. This model
excludes DnaK homologs that are not DnaK itself, such as
the heat shock cognate protein HscA (TIGR01991).
However, it is not designed to distinguish among DnaK
paralogs in eukaryotes. Note that a number of dnaK genes
have shadow ORFs in the same reverse (relative to dnaK)
reading frame, a few of which have been assigned
glutamate dehydrogenase activity. The significance of
this observation is unclear; lengths of such shadow ORFs
are highly variable as if the presumptive protein
product is not conserved.
Length = 595
Score = 28.8 bits (65), Expect = 5.3
Identities = 34/137 (24%), Positives = 58/137 (42%), Gaps = 30/137 (21%)
Query: 63 DDFVNGFLQMYSDELRSFLKKEGIGVFSMRQIQNKITLSFADSRFKENIADKVTLFLQGV 122
DDF + +DE F K+EGI + + A R KE A+K + L V
Sbjct: 221 DDFDQRIIDWLADE---FKKEEGIDLSKDKM---------ALQRLKE-AAEKAKIELSSV 267
Query: 123 NSK------LNVDPKKNLLVTTTEKEISIVLSQNNIDQVISHAIEQSMEIIRQRIDQIGI 176
S + D + K + + L++ +++ + +E++ E +RQ + G+
Sbjct: 268 LSTEINLPFITADA-------SGPKHLEMTLTRAKFEELTADLVERTKEPVRQALKDAGL 320
Query: 177 SESTIQRL----GSHRI 189
S S I + GS RI
Sbjct: 321 SASDIDEVILVGGSTRI 337
>gnl|CDD|182892 PRK10999, malF, maltose transporter membrane protein; Provisional.
Length = 520
Score = 28.8 bits (65), Expect = 5.9
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 4 NPWLVILYSMICCIGLLIALP 24
N WL Y MI C+GLL A+P
Sbjct: 382 NTWLGYPYMMILCMGLLKAIP 402
>gnl|CDD|183128 PRK11423, PRK11423, methylmalonyl-CoA decarboxylase; Provisional.
Length = 261
Score = 28.8 bits (65), Expect = 6.5
Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 767 ETLGRSVYTSMAAFISVLPMAVWGGSVIGSFAIPMAFGIVVAASSSIFIAAP 818
+ R + I+++ +VWG G+F + M+ +++AAS+S F P
Sbjct: 86 RQILRMIQKFPKPVIAMVEGSVWG----GAFELIMSCDLIIAASTSTFAMTP 133
>gnl|CDD|162210 TIGR01123, ilvE_II, branched-chain amino acid aminotransferase,
group II. Among the class IV aminotransferases are two
phylogenetically separable groups of branched-chain
amino acid aminotransferase (IlvE). The last common
ancestor of the two lineages appears also to have given
rise to a family of D-amino acid aminotransferases
(DAAT). This model represents the IlvE family less
similar to the DAAT family.
Length = 313
Score = 28.6 bits (64), Expect = 6.6
Identities = 15/68 (22%), Positives = 26/68 (38%), Gaps = 7/68 (10%)
Query: 261 FDPKTHKPVVDISFDEMGARRFFEVTRDN--IGKPLAVVLDGRVLTAPVINQAIPSGKAQ 318
DP H + +E+GA FF +T D + PL+ + + ++ A G
Sbjct: 181 LDPVEHTYI-----EEVGAMNFFFITGDGELVTPPLSGSILPGITRDSLLQLAKDLGMEV 235
Query: 319 ISGNFTIE 326
I+
Sbjct: 236 EERRIDID 243
>gnl|CDD|182833 PRK10913, PRK10913, dipeptide transporter; Provisional.
Length = 300
Score = 28.6 bits (64), Expect = 6.7
Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 7/75 (9%)
Query: 351 NVGADLGSDSIYKGTCAIVAGLVLIVLFMI------VLYGKWGLVADFSIFLNVILTLAL 404
+VG D+ S +Y +++ G +++VL ++ ++ G +G + D I V + LAL
Sbjct: 85 DVGRDVLSRLMYGARLSLLVGCLVVVLSLVMGVILGLIAGYFGGLVDNIIMRVVDIMLAL 144
Query: 405 LSLLGATLTLPSIAG 419
SLL A L L +I G
Sbjct: 145 PSLLLA-LVLVAIFG 158
>gnl|CDD|172088 PRK13498, PRK13498, chemoreceptor glutamine deamidase CheD;
Provisional.
Length = 167
Score = 28.6 bits (64), Expect = 6.7
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 16/56 (28%)
Query: 184 LGSHRILIQLPGE----QDPSRLRQLLGTTAKMSF-----------HKVLPNNSKK 224
+G+ I++Q PGE P+RLR LLG+ ++F H +LP +K
Sbjct: 5 VGTKEIVLQ-PGEVVFATRPTRLRTLLGSCVAITFWHPQQHIGGMCHFMLPGRIRK 59
>gnl|CDD|162966 TIGR02666, moaA, molybdenum cofactor biosynthesis protein A,
bacterial. The model for this family describes
molybdenum cofactor biosynthesis protein A, or MoaA, as
found in bacteria. It does not include the family of
probable functional equivalent proteins from the
archaea. MoaA works together with MoaC to synthesize
precursor Z from guanine.
Length = 334
Score = 28.3 bits (64), Expect = 7.7
Identities = 24/86 (27%), Positives = 31/86 (36%), Gaps = 32/86 (37%)
Query: 270 VDISFDEMGARRFFEVTRDNIGKPLAVVLDGRVLTAPVINQAIPSGKAQISGNFTIETAG 329
V++S D + RF ++TR L VL G I+ A
Sbjct: 116 VNVSLDSLDPERFAKITRRGGR--LEQVLAG------------------------IDAA- 148
Query: 330 ILAAMLRAGSLPIKLNIVEERNVGAD 355
L AG P+KLN V R V D
Sbjct: 149 -----LAAGLEPVKLNTVVMRGVNDD 169
>gnl|CDD|181438 PRK08471, flgK, flagellar hook-associated protein FlgK; Validated.
Length = 613
Score = 28.5 bits (64), Expect = 8.2
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 48 LDLRGGSHLVLEVDEDDFVNGFLQMYSDELRSFLK 82
LDLRG ++ + ++G +Q Y D L +F K
Sbjct: 300 LDLRGRNY---DGGSGGTLDGKIQDYIDNLDTFAK 331
>gnl|CDD|118166 pfam09632, Rac1, Rac1-binding domain. The Rac1-binding domain is
the C-terminal portion of YpkA from Yersinia. It is an
all-helical molecule consisting of two distinct
subdomains connected by a linker. the N-terminal end,
residues 434-615, consists of six helices organized into
two three-helix bundles packed against each other. This
region is involved with binding to GTPases. The
C-terminal end, residues 705-732. is a novel and
elongated fold consisting of four helices clustered into
two pairs, and this fold carries the helix implicated in
actin activation. Rac1-binding domain mimics host
guanidine nucleotide dissociation inhibitors (GDIs) of
the Rho GTPases, thereby inhibiting nucleotide exchange
in Rac1 and causing cytoskeletal disruption in the host.
It is usually found downstream of pfam00069.
Length = 297
Score = 28.1 bits (62), Expect = 8.7
Identities = 25/135 (18%), Positives = 57/135 (42%), Gaps = 7/135 (5%)
Query: 90 SMRQIQNKI--TLSFAD----SRFKENIADKVTLFLQGVNSKLNVDPKK-NLLVTTTEKE 142
S+++IQ + T S +D R +++ + + + V + + L E +
Sbjct: 107 SLQRIQKHLDQTHSLSDIGSLERAHKHLETLLEVLVTLSQQGQPVSSETYDFLNRLAEAK 166
Query: 143 ISIVLSQNNIDQVISHAIEQSMEIIRQRIDQIGISESTIQRLGSHRILIQLPGEQDPSRL 202
++ N + Q A Q +I + ++ ++QR S R +++ EQ +
Sbjct: 167 GTLSQQLNTLQQQQESAKAQLSILINRSGSWADVARQSLQRFDSTRPVVKFGTEQYTAIH 226
Query: 203 RQLLGTTAKMSFHKV 217
RQ++ A ++ +V
Sbjct: 227 RQMMAAHAAITLQEV 241
>gnl|CDD|147888 pfam05975, EcsB, Bacterial ABC transporter protein EcsB. This
family consists of several bacterial ABC transporter
proteins which are homologous to the EcsB protein of
Bacillus subtilis. EcsB is thought to encode a
hydrophobic protein with six membrane-spanning helices
in a pattern found in other hydrophobic components of
ABC transporters.
Length = 385
Score = 28.4 bits (64), Expect = 8.9
Identities = 22/125 (17%), Positives = 51/125 (40%), Gaps = 4/125 (3%)
Query: 457 SRAYSTIFDSNITALIATVVLFFFGGGAVRGFAITMGLSILISMFTAISIVRAMMIFIIR 516
+ YS I + L+A ++L + G +I + +L+ + + + I+
Sbjct: 100 AIRYSLILQLILQVLLAILLLPLLL--KILGLSILQYVLLLLFLLLLKAWNLLLKWRILY 157
Query: 517 YKKMKSIDINPLSRFFLIPDCIAIQFMRARFWGVGISILFSICSICLLFTHGLNYGIDFK 576
+ K D+ L R L + + F+ A + + ++ + + LL +D++
Sbjct: 158 LVEGKRWDL--LIRLILNLLLLYLLFLLAPLLALILFLILLVVLLLLLRKLKKKKLLDWE 215
Query: 577 GGIQL 581
I+L
Sbjct: 216 KLIEL 220
>gnl|CDD|178617 PLN03065, PLN03065, isocitrate dehydrogenase (NADP+); Provisional.
Length = 483
Score = 28.3 bits (63), Expect = 9.1
Identities = 17/95 (17%), Positives = 37/95 (38%), Gaps = 6/95 (6%)
Query: 200 SRLRQLLGTTAKMSFHKVLPNNSKKGFMFGVRFLRDSDGNQYLVEDKVEISGIHLNGATA 259
L + +++ + + +L +N +G G + S + + A
Sbjct: 14 PALALMPSSSSSAAANPLLASNPCRGIFNGGLSKNRRAFHVQFHRA----SSVRCFASAA 69
Query: 260 NFDP-KTHKPVVDISFDEMGARRFFEVTRDNIGKP 293
D K P+V++ DEM R +++ +D + P
Sbjct: 70 AADRIKVQNPIVEMDGDEM-TRVIWQMIKDKLIFP 103
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
0.326 0.141 0.405
Gapped
Lambda K H
0.267 0.0819 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 13,715,683
Number of extensions: 954386
Number of successful extensions: 3595
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3479
Number of HSP's successfully gapped: 163
Length of query: 833
Length of database: 5,994,473
Length adjustment: 101
Effective length of query: 732
Effective length of database: 3,812,065
Effective search space: 2790431580
Effective search space used: 2790431580
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 61 (27.1 bits)