RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7154
(385 letters)
>gnl|CDD|180385 PRK06075, PRK06075, NADH dehydrogenase subunit D; Validated.
Length = 392
Score = 414 bits (1067), Expect = e-144
Identities = 152/281 (54%), Positives = 200/281 (71%), Gaps = 22/281 (7%)
Query: 51 LFAEITRILNHIMAVGTHALDVGAMTPFFWLFEEREKMMEFYERASGARMHAAYVRPGGV 110
LF E+ RIL+H++ +GTHALD+GAMT F W F EREK+++ YE +GARMH AY+RPGGV
Sbjct: 100 LFLELNRILSHLLWLGTHALDLGAMTVFLWGFREREKLLDLYEAVTGARMHHAYIRPGGV 159
Query: 111 ALDIPIGLLDDIYHFISTFSARLDEVEDMLTENRLWIQRTKDVGIVSAEDALNYGFSGVM 170
D+P GLL+DI F+ F RLD+ E +LT+NR+W QR VG+VS E AL GF+G M
Sbjct: 160 RRDLPDGLLEDIRDFLDYFPKRLDDYETLLTDNRIWKQRLVGVGVVSKERALALGFTGPM 219
Query: 171 LRGSGIKWDLRKVQPYDGYENFEFDIPIGTHGN-----VIGMKEMRQSLRIVEQAINKM- 224
LR SG+ WDLRK QPY+ Y+ +FD+P+G +G+ ++ ++EMRQSLRI+EQ ++++
Sbjct: 220 LRASGVAWDLRKSQPYEVYDELDFDVPVGKNGDCYDRYLVRVEEMRQSLRIIEQCLDRLR 279
Query: 225 -PGGEVRTDDMKISTPSRSEMK---------------GYPVPPGATYTAVEAPKGEFGVY 268
P G V DD KI+ P+R EMK G+ VP G Y AVE+PKGEFGVY
Sbjct: 280 PPPGPVMVDDPKIAPPARLEMKTSMEALIHHFKLVTEGFRVPAGEVYAAVESPKGEFGVY 339
Query: 269 LVSDGTSKPYRCKIKAPGFAHLAALEKIGKGSFLADIVAII 309
LVSDG +KPYR KI+AP FAHL AL+++ +G LAD+VAII
Sbjct: 340 LVSDGGNKPYRVKIRAPSFAHLQALDEMCRGHMLADVVAII 380
Score = 144 bits (367), Expect = 1e-39
Identities = 52/71 (73%), Positives = 58/71 (81%)
Query: 304 DIVAIIDPHIGLLHRGTEKLIEYKTYTQALPYFDRLDYVSMMCNEQCYSLAVEKLLNIEV 363
++V DPHIG LHRGTEKL EY+TY QA+PYFDRLDYVS M NE Y LAVEKLL IEV
Sbjct: 31 EVVVRADPHIGYLHRGTEKLAEYRTYLQAIPYFDRLDYVSPMNNEHAYCLAVEKLLGIEV 90
Query: 364 PLRAKYIRVMF 374
P RA+YIRV+F
Sbjct: 91 PERAQYIRVLF 101
Score = 50.2 bits (121), Expect = 9e-07
Identities = 19/28 (67%), Positives = 22/28 (78%)
Query: 28 EKQIRNMVINFGPQHPAAHGVLLLFAEI 55
E +IRN +NFGPQHPAAHGVL L E+
Sbjct: 1 EAEIRNYTLNFGPQHPAAHGVLRLILEL 28
>gnl|CDD|223722 COG0649, NuoD, NADH:ubiquinone oxidoreductase 49 kD subunit 7
[Energy production and conversion].
Length = 398
Score = 384 bits (989), Expect = e-132
Identities = 137/279 (49%), Positives = 194/279 (69%), Gaps = 20/279 (7%)
Query: 51 LFAEITRILNHIMAVGTHALDVGAMTPFFWLFEEREKMMEFYERASGARMHAAYVRPGGV 110
+ +E+ RI +H++ +GT ALD+GAMTPF + F EREK+M+ +E +GARMH AY RPGGV
Sbjct: 108 MLSELNRIASHLLWLGTFALDLGAMTPFLYAFREREKIMDLFEAITGARMHHAYFRPGGV 167
Query: 111 ALDIPIGLLDDIYHFISTFSARLDEVEDMLTENRLWIQRTKDVGIVSAEDALNYGFSGVM 170
D+P G L+ I F+ F RLDE E +LT+NR+W R + VG++S E+AL +G +G M
Sbjct: 168 RRDLPEGWLELIREFLDYFPKRLDEYEKLLTKNRIWRARLEGVGVLSKEEALEWGVTGPM 227
Query: 171 LRGSGIKWDLRKVQPYDGYENFEFDIPIGTHGNV-----IGMKEMRQSLRIVEQAINKMP 225
LR SG+ +D+RK +PY+ Y+ +FD+P+G +G+ + M+EMRQS+RI+EQ ++K+P
Sbjct: 228 LRASGVDYDVRKDEPYEAYDELDFDVPVGKNGDCYARYLVRMEEMRQSIRIIEQCLDKLP 287
Query: 226 GGEVRTDDMKISTPSRSEMK---------------GYPVPPGATYTAVEAPKGEFGVYLV 270
G V+ +D K + PS+ MK G+ VP G Y AVEAPKGE GVY+V
Sbjct: 288 KGPVKNEDPKTTPPSKERMKESMEALIHHFKLVTEGFKVPAGEVYAAVEAPKGELGVYIV 347
Query: 271 SDGTSKPYRCKIKAPGFAHLAALEKIGKGSFLADIVAII 309
SDG++KPYR KI+AP FAHL AL ++ KG LAD++AI+
Sbjct: 348 SDGSNKPYRVKIRAPSFAHLQALPELLKGHRLADLIAIL 386
Score = 130 bits (330), Expect = 2e-34
Identities = 47/71 (66%), Positives = 52/71 (73%)
Query: 304 DIVAIIDPHIGLLHRGTEKLIEYKTYTQALPYFDRLDYVSMMCNEQCYSLAVEKLLNIEV 363
+IV DP IG LHRG EKL E +TY Q +PY DRLDY+S M NE Y LAVEKLL IEV
Sbjct: 39 EIVVDADPDIGYLHRGMEKLAENRTYLQNIPYTDRLDYLSAMNNELAYVLAVEKLLGIEV 98
Query: 364 PLRAKYIRVMF 374
P RA+YIRVM
Sbjct: 99 PERAQYIRVML 109
Score = 45.7 bits (109), Expect = 2e-05
Identities = 16/28 (57%), Positives = 20/28 (71%)
Query: 28 EKQIRNMVINFGPQHPAAHGVLLLFAEI 55
E+ NM +NFGPQHP+ HGVL L E+
Sbjct: 9 EENTENMFLNFGPQHPSTHGVLRLILEL 36
>gnl|CDD|233658 TIGR01962, NuoD, NADH dehydrogenase I, D subunit. This model
recognizes specificially the D subunit of NADH
dehydrogenase I complex. It excludes the related chain
of NAD(P)H-quinone oxidoreductases from chloroplast and
Synechocystis, where the quinone may be plastoquinone
rather than ubiquinone. This subunit often appears as a
C/D fusion [Energy metabolism, Electron transport].
Length = 386
Score = 360 bits (927), Expect = e-123
Identities = 133/279 (47%), Positives = 197/279 (70%), Gaps = 20/279 (7%)
Query: 51 LFAEITRILNHIMAVGTHALDVGAMTPFFWLFEEREKMMEFYERASGARMHAAYVRPGGV 110
+ +E+ RI +H++ +GTHALD+GAMTPF + F EREK+++ +E +GARMH+AY R GGV
Sbjct: 96 MLSELNRISSHLLFIGTHALDLGAMTPFLYAFREREKILDLFEAITGARMHSAYFRIGGV 155
Query: 111 ALDIPIGLLDDIYHFISTFSARLDEVEDMLTENRLWIQRTKDVGIVSAEDALNYGFSGVM 170
ALD+P L++I F+ F RL + E +L ENR+W QRT+ VG+VSA+DAL++G +G M
Sbjct: 156 ALDLPENWLEEIREFLEQFPKRLRDYETLLNENRIWKQRTQGVGVVSAKDALDWGLTGPM 215
Query: 171 LRGSGIKWDLRKVQPYDGYENFEFDIPIGTHGN-----VIGMKEMRQSLRIVEQAINKMP 225
LRGSGI WD+RK +PY+GY+ ++FD+P+G +G+ ++ + EMR+S++I+EQ + KMP
Sbjct: 216 LRGSGIDWDIRKSEPYEGYDEYDFDVPVGGNGDCYDRYLLRVLEMRESIKIIEQCLEKMP 275
Query: 226 GGEVRTDDMKISTPSRSEMK---------------GYPVPPGATYTAVEAPKGEFGVYLV 270
G ++ D+ K++ P + M G+ VP G Y +E+PKGE G Y++
Sbjct: 276 PGPIKADNPKLAPPPKERMLTSMEALIHHFKLVTEGFRVPAGEVYVPIESPKGELGFYII 335
Query: 271 SDGTSKPYRCKIKAPGFAHLAALEKIGKGSFLADIVAII 309
SDG +KPYR KI+AP FAHL ALE + G +LAD++AI+
Sbjct: 336 SDGGTKPYRLKIRAPSFAHLQALEAMCVGHYLADLIAIL 374
Score = 122 bits (308), Expect = 2e-31
Identities = 45/65 (69%), Positives = 49/65 (75%)
Query: 310 DPHIGLLHRGTEKLIEYKTYTQALPYFDRLDYVSMMCNEQCYSLAVEKLLNIEVPLRAKY 369
DPHIG LHRGTEKL E +TY Q +PY DRLDY+S NE Y LAVEKLL IEVP RA+
Sbjct: 33 DPHIGYLHRGTEKLAENRTYQQYIPYTDRLDYLSPFSNELAYCLAVEKLLGIEVPRRAQV 92
Query: 370 IRVMF 374
IRVM
Sbjct: 93 IRVML 97
Score = 43.5 bits (103), Expect = 1e-04
Identities = 13/24 (54%), Positives = 17/24 (70%)
Query: 32 RNMVINFGPQHPAAHGVLLLFAEI 55
M++N GPQHP+ HGVL L E+
Sbjct: 1 EFMILNLGPQHPSTHGVLRLILEL 24
>gnl|CDD|215871 pfam00346, Complex1_49kDa, Respiratory-chain NADH dehydrogenase, 49
Kd subunit.
Length = 272
Score = 354 bits (910), Expect = e-122
Identities = 147/260 (56%), Positives = 192/260 (73%), Gaps = 21/260 (8%)
Query: 71 DVGAMTPFFWLFEEREKMMEFYERASGARMHAAYVRPGGVALDIPIGLLDDIYHFISTFS 130
DVGA+TPFFW+FEEREK+M+FYE SGARMHAAY R GGVA D+P G +DD+ F F
Sbjct: 1 DVGALTPFFWIFEEREKLMDFYEAVSGARMHAAYFRIGGVAQDLPYGWMDDLLEFCDYFL 60
Query: 131 ARLDEVEDMLTENRLWIQRTKDVGIVSAEDALNYGFSGVMLRGSGIKWDLRKVQPYDGYE 190
R+DE E++LT+NR++ R + VG V+AEDALN+G SGVMLRGSGI+WDLRK QPY+ Y+
Sbjct: 61 KRVDEYEELLTQNRIFKLRLRGVGFVTAEDALNWGLSGVMLRGSGIQWDLRKSQPYECYD 120
Query: 191 NFEFDIPIGTHGN-----VIGMKEMRQSLRIVEQAINKMPGGE-VRTDDMKISTPSRSEM 244
F+FD+P+G +G+ ++ ++EMRQSLRI++Q +NKMPGG + + K++ P RSEM
Sbjct: 121 QFDFDVPVGFNGDCYDRYLLRVEEMRQSLRIIQQCLNKMPGGPGEKVEAFKLTPPKRSEM 180
Query: 245 K---------------GYPVPPGATYTAVEAPKGEFGVYLVSDGTSKPYRCKIKAPGFAH 289
K G+ VP G +Y AVEAPKGE GVYLVSDG++ PYR KI+APGFAH
Sbjct: 181 KDFIETLIHHFKLYSPGFKVPAGESYAAVEAPKGELGVYLVSDGSTFPYRWKIRAPGFAH 240
Query: 290 LAALEKIGKGSFLADIVAII 309
L L+ + +G LAD+VAI+
Sbjct: 241 LQILDHLSRGHLLADLVAIL 260
>gnl|CDD|183437 PRK12322, PRK12322, NADH dehydrogenase subunit D; Provisional.
Length = 366
Score = 264 bits (677), Expect = 8e-86
Identities = 108/274 (39%), Positives = 162/274 (59%), Gaps = 19/274 (6%)
Query: 50 LLFAEITRILNHIMAVGTHALDVGAMTPFFWLFEEREKMMEFYERASGARMHAAYVRPGG 109
++ E+ RI +H++ GT+ LD+GA++PF + F ERE ++ GAR+ Y+R GG
Sbjct: 99 VIAMELGRIASHLVWWGTYLLDIGAVSPFLYAFREREMIINLLNELCGARLTFNYMRIGG 158
Query: 110 VALDIPIGLLDDIYHFISTFSARLDEVEDMLTENRLWIQRTKDVGIVSAEDALNYGFSGV 169
V D P G ++ + F+ +L D++T N +++ R K VGI SAE+A++Y SGV
Sbjct: 159 VKWDAPDGWIEKVKEFVPYMREQLAGYHDLVTGNEIFLNRVKGVGIYSAEEAISYSLSGV 218
Query: 170 MLRGSGIKWDLRKVQPYDGYENFEFDIPIGTHGN-----VIGMKEMRQSLRIVEQAINKM 224
LR +G+ WDLRK +PY Y+ F+FDIP+G+ G+ V M+E+ QSL+I+EQA+ +
Sbjct: 219 NLRCTGVNWDLRKDEPYSIYDRFDFDIPVGSVGDCWDRYVCRMQEIEQSLKIIEQAVEQF 278
Query: 225 P-GGEVRTDDMKISTPSRSEMKGYPVPPGATYTAVEAPKGEFGVYLVSDGTSKPYRCKIK 283
P G V KI P G Y +E+P+GE G Y+ SDG KPYR K +
Sbjct: 279 PKEGPVLAKVPKIIKA----------PKGEAYVRIESPRGEIGCYIASDGKKKPYRLKFR 328
Query: 284 APGFAHLAALEKIGKGSFLADIVAI---IDPHIG 314
P F +L L K+ KG +A+++AI ID +G
Sbjct: 329 RPSFYNLQILPKLLKGENIANLIAILGSIDIVLG 362
Score = 93.2 bits (232), Expect = 4e-21
Identities = 36/64 (56%), Positives = 45/64 (70%)
Query: 310 DPHIGLLHRGTEKLIEYKTYTQALPYFDRLDYVSMMCNEQCYSLAVEKLLNIEVPLRAKY 369
P IG LHRGTEKL E YTQ +PY DR+DY+S M N Y AVE ++ +EVP RA+Y
Sbjct: 37 TPVIGYLHRGTEKLAESLQYTQIIPYTDRMDYLSAMTNNYVYCHAVETMMGLEVPERAEY 96
Query: 370 IRVM 373
+RV+
Sbjct: 97 LRVI 100
>gnl|CDD|183955 PRK13292, PRK13292, trifunctional NADH dehydrogenase I subunit
B/C/D; Provisional.
Length = 788
Score = 267 bits (684), Expect = 2e-82
Identities = 118/287 (41%), Positives = 171/287 (59%), Gaps = 20/287 (6%)
Query: 43 PAAHGVLLLFAEITRILNHIMAVGTHALDVGAMTPFFWLFEEREKMMEFYERASGARMHA 102
A + ++ +E+ RI NH++ +GT A DVGAMTP F+ F +REK+ + E +G RMH
Sbjct: 490 DRAIYIRVMLSELFRIANHLVWLGTFAADVGAMTPVFYTFTDREKIFDIVEMITGGRMHP 549
Query: 103 AYVRPGGVALDIPIGLLDDIYHFISTFSARLDEVEDMLTENRLWIQRTKDVGIVSAEDAL 162
A+ R GGVA D+P G + + F+ F RL E ED+LT N ++ R K VG+++ ++A+
Sbjct: 550 AWFRIGGVAEDLPEGWKEAVEAFLRWFPGRLKEYEDLLTGNPIFKARLKGVGVITRDEAV 609
Query: 163 NYGFSGVMLRGSGIKWDLRKVQPYDGYENFEFDIPIGTHGN-----VIGMKEMRQSLRIV 217
+G SG LR G+ WDLRK PY GY+ F+F++P G+ ++ M+EMRQSLRIV
Sbjct: 610 EWGISGPNLRACGLAWDLRKKMPYGGYDRFDFEVPTAEGGDCYARYLVRMEEMRQSLRIV 669
Query: 218 EQAINKMPGGEVRTDDMKISTPSRSE---------------MKGYPVPPGATYTAVEAPK 262
QA MPGG +DD + P + + +G P G Y A+EAPK
Sbjct: 670 RQAAAGMPGGRWISDDYRYVLPQKRDTLKDIESLIHHFVNVTRGPAPPKGECYAAIEAPK 729
Query: 263 GEFGVYLVSDGTSKPYRCKIKAPGFAHLAALEKIGKGSFLADIVAII 309
GE G ++VSDG + YR +I+ P F H+ AL + +G +AD +AII
Sbjct: 730 GENGYFVVSDGLNIAYRMRIRTPSFPHIQALPLLSRGWLVADFLAII 776
Score = 72.9 bits (179), Expect = 7e-14
Identities = 32/65 (49%), Positives = 42/65 (64%)
Query: 309 IDPHIGLLHRGTEKLIEYKTYTQALPYFDRLDYVSMMCNEQCYSLAVEKLLNIEVPLRAK 368
+D IG HRG EK+ E + + Q +PY DR+DY++ + N Y +VE L IEVP RA
Sbjct: 434 MDSDIGYHHRGAEKIGERQHWNQFIPYTDRIDYLAGVQNNLAYVNSVETLCGIEVPDRAI 493
Query: 369 YIRVM 373
YIRVM
Sbjct: 494 YIRVM 498
Score = 32.4 bits (74), Expect = 0.39
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 34 MVINFGPQHPAAHGVL 49
+++N GPQHP HG++
Sbjct: 405 LILNLGPQHPGTHGII 420
>gnl|CDD|236965 PRK11742, PRK11742, bifunctional NADH:ubiquinone oxidoreductase
subunit C/D; Provisional.
Length = 575
Score = 244 bits (625), Expect = 1e-75
Identities = 103/278 (37%), Positives = 164/278 (58%), Gaps = 22/278 (7%)
Query: 53 AEITRILNHIMAVGTHALDVGAMTPFFWLFEEREKMMEFYERASGARMHAAYVRPGGVAL 112
+E+ RI +H++ +GT DVGAMTP F+ F +R+K+ + E +G RMH A+ R GGVA
Sbjct: 287 SELFRINSHLLYIGTFIQDVGAMTPVFFAFTDRQKIYDVIEAITGFRMHPAWFRIGGVAH 346
Query: 113 DIPIGLLDDIYHFISTFSARLDEVEDMLTENRLWIQRTKDVGIVSAEDALNYGFSGVMLR 172
D+P G + F+ RLDE E N + RT+ V +A++AL +G +G LR
Sbjct: 347 DLPRGWDRLLREFLDWMPKRLDEYEKAALRNSILKGRTQGVAAYNAKEALEWGVTGAGLR 406
Query: 173 GSGIKWDLRKVQPYDGYENFEFDIPIGTHGN-----VIGMKEMRQSLRIVEQAINKMPGG 227
+GI +D+RK +PY GYENF+F++P+G +G+ ++ ++EMRQSLRI+EQ ++ MP G
Sbjct: 407 ATGIDFDVRKARPYSGYENFDFEVPVGGNGDCYDRVMVKVEEMRQSLRIIEQCLDNMPEG 466
Query: 228 EVRTDDMKISTPSRSE--MK--------------GYPVPPGATYTAVEAPKGEFGVYLVS 271
+ D ++TP E ++ G +P ++ +EA KG YL S
Sbjct: 467 PFKADH-PLTTPPPKERTLQHIETLITHFLQVSWGPVMPANESFQMIEATKGINSYYLTS 525
Query: 272 DGTSKPYRCKIKAPGFAHLAALEKIGKGSFLADIVAII 309
DG++ YR +I+ P FAHL + + +GS ++D++ +
Sbjct: 526 DGSTMSYRTRIRTPSFAHLQQIPSVIRGSLVSDLIVYL 563
Score = 77.7 bits (192), Expect = 2e-15
Identities = 34/68 (50%), Positives = 42/68 (61%), Gaps = 2/68 (2%)
Query: 308 IID--PHIGLLHRGTEKLIEYKTYTQALPYFDRLDYVSMMCNEQCYSLAVEKLLNIEVPL 365
I+D P IG HRG EK+ E +++ +PY DR+DY+ NE Y LAVEKL I VP
Sbjct: 218 IVDCVPDIGYHHRGAEKMGERQSWHSYIPYTDRIDYLGGCMNEMPYVLAVEKLAGITVPD 277
Query: 366 RAKYIRVM 373
R IRVM
Sbjct: 278 RVNVIRVM 285
Score = 34.1 bits (79), Expect = 0.13
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 34 MVINFGPQHPAAHGVL 49
M +N GP HP+AHG
Sbjct: 192 MFLNLGPNHPSAHGAF 207
>gnl|CDD|180969 PRK07415, PRK07415, NAD(P)H-quinone oxidoreductase subunit H;
Validated.
Length = 394
Score = 227 bits (580), Expect = 4e-71
Identities = 105/282 (37%), Positives = 170/282 (60%), Gaps = 22/282 (7%)
Query: 48 VLLLFAEITRILNHIMAVGTHALDVGAMTPFFWLFEEREKMMEFYERASGARM-HAAYVR 106
V++L E+ RI NH++ +G DVGA TPFF++F ERE + + +E A+G R+ + Y R
Sbjct: 103 VIML--ELNRIANHLLWLGPFLADVGAQTPFFYIFREREMIYDLWEAATGQRLINNNYFR 160
Query: 107 PGGVALDIPIGLLDDIYHFISTFSARLDEVEDMLTENRLWIQRTKDVGIVSAEDALNYGF 166
GGVA D+P G L+ F F ++DE E ++T N ++ +R + +G +S E+A+N+G
Sbjct: 161 IGGVAADLPYGWLEKCLDFCDYFGPKIDEYEKLITNNPIFRRRIEGLGTISREEAINWGL 220
Query: 167 SGVMLRGSGIKWDLRKVQPYDGYENFEFDIPIGTHGN-----VIGMKEMRQSLRIVEQAI 221
SG MLR SG+KWDLRKV Y+ Y++F++D+ T G+ + ++EMR+S++I+ QA
Sbjct: 221 SGPMLRASGVKWDLRKVDHYECYDDFDWDVAWETEGDCLARYRVRIEEMRESVKIIRQAC 280
Query: 222 NKMPGGEVRTDDMK-ISTPSRSEMKG-------------YPVPPGATYTAVEAPKGEFGV 267
+PGG + K ++ +SE G + +P G Y +E+ KGE G+
Sbjct: 281 KGIPGGPYENLEAKRMAEGKKSEWNGFDYQYVAKKVAPTFKIPNGELYVRLESGKGELGI 340
Query: 268 YLVSDGTSKPYRCKIKAPGFAHLAALEKIGKGSFLADIVAII 309
++ + P+R KI+A F +L L + KG+ +ADI+AI+
Sbjct: 341 FIQGNNDVTPWRWKIRAADFNNLQILPHLLKGAKVADIMAIL 382
Score = 70.9 bits (174), Expect = 2e-13
Identities = 33/64 (51%), Positives = 39/64 (60%)
Query: 310 DPHIGLLHRGTEKLIEYKTYTQALPYFDRLDYVSMMCNEQCYSLAVEKLLNIEVPLRAKY 369
+P IG LHRG EK+ E +T +PY R DY + M NE A EKL NI VP RA Y
Sbjct: 41 EPVIGYLHRGMEKIAENRTNVMYVPYVSRWDYAAGMFNEAITVNAPEKLANIPVPKRASY 100
Query: 370 IRVM 373
IRV+
Sbjct: 101 IRVI 104
Score = 38.6 bits (90), Expect = 0.004
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 27 VEKQIRNMVINFGPQHPAAHGVLLL 51
+E + MV+NFGP HP+ HGVL L
Sbjct: 4 LETRTEPMVLNFGPHHPSMHGVLRL 28
>gnl|CDD|176960 CHL00017, ndhH, NADH dehydrogenase subunit 7.
Length = 393
Score = 215 bits (549), Expect = 2e-66
Identities = 101/275 (36%), Positives = 163/275 (59%), Gaps = 19/275 (6%)
Query: 54 EITRILNHIMAVGTHALDVGAMTPFFWLFEEREKMMEFYERASGARMHAAYVRPGGVALD 113
E++RI +H++ +G D+GA TPFF++F ERE + + +E A+G RM Y R GGVA D
Sbjct: 107 ELSRIASHLLWLGPFMADIGAQTPFFYIFRERELIYDLFEAATGMRMMHNYFRIGGVAAD 166
Query: 114 IPIGLLDDIYHFISTFSARLDEVEDMLTENRLWIQRTKDVGIVSAEDALNYGFSGVMLRG 173
+P G +D F F + E + ++T N ++++R + VGI+ E+A+N+G SG MLR
Sbjct: 167 LPYGWIDKCLDFCDYFLTGVAEYQKLITRNPIFLERVEGVGIIGGEEAINWGLSGPMLRA 226
Query: 174 SGIKWDLRKVQPYDGYENFEFDIPIGTHGN-----VIGMKEMRQSLRIVEQAINKMPGG- 227
SGI+WDLRKV Y+ Y+ F++++ G+ ++ + EM +S++I++QA+ +PGG
Sbjct: 227 SGIQWDLRKVDHYECYDEFDWEVQWQKEGDSLARYLVRIGEMTESIKIIQQALEGIPGGP 286
Query: 228 ----EVRTDDMKISTP---------SRSEMKGYPVPPGATYTAVEAPKGEFGVYLVSDGT 274
E R D + + S+ + + Y VEAPKGE G++L+ D +
Sbjct: 287 YENLEARRFDREKDSEWNDFEYRFISKKPSPTFELSKQELYVRVEAPKGELGIFLIGDDS 346
Query: 275 SKPYRCKIKAPGFAHLAALEKIGKGSFLADIVAII 309
P+R KI+ PGF +L L ++ K LADI+ I+
Sbjct: 347 VFPWRWKIRPPGFINLQILPQLVKRMKLADIMTIL 381
Score = 69.0 bits (169), Expect = 8e-13
Identities = 32/64 (50%), Positives = 41/64 (64%)
Query: 310 DPHIGLLHRGTEKLIEYKTYTQALPYFDRLDYVSMMCNEQCYSLAVEKLLNIEVPLRAKY 369
+P +G LHRG EK+ E +T Q LPY R DY++ M E A E+L NI+VP RA Y
Sbjct: 41 EPILGYLHRGMEKIAENRTIIQYLPYVTRWDYLATMFTEAITVNAPEQLGNIQVPKRASY 100
Query: 370 IRVM 373
IRV+
Sbjct: 101 IRVI 104
Score = 33.9 bits (78), Expect = 0.12
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 34 MVINFGPQHPAAHGVLLL 51
M++N GP HP+ HGVL L
Sbjct: 11 MIVNMGPHHPSMHGVLRL 28
>gnl|CDD|225800 COG3261, HycE, Ni,Fe-hydrogenase III large subunit [Energy
production and conversion].
Length = 382
Score = 153 bits (388), Expect = 6e-43
Identities = 79/261 (30%), Positives = 121/261 (46%), Gaps = 15/261 (5%)
Query: 54 EITRILNHIMAVGTHALDVGAMTPFFWLFEEREKMMEFYERASGARMHAAYVRPGGVALD 113
E+ RI +H++ +G DVG T F F REK+M E +G R+ GGV D
Sbjct: 105 ELERIHSHLLNLGLLCHDVGFETGFMQFFRLREKVMRLIELLTGNRVLYGLNVIGGVRRD 164
Query: 114 IPIGLLDDIYHFISTFSARLDEVEDMLTENRLWIQRTKDVGIVSAEDALNYGFSGVMLRG 173
I L+ I I + E+ ++L + R + VG++ EDA G R
Sbjct: 165 ILESDLEQILELIEDIREEVKEIVEVLLSDPNIEDRLQGVGVLDKEDARKLSAVGPTARA 224
Query: 174 SGIKWDLRKVQPYDGYENFEFDIPIGTHGNVIG-----MKEMRQSLRIVEQAINKMPGGE 228
SGI D R P Y+ F++ + G+V + E+ +SL+++EQA++ +PGG
Sbjct: 225 SGIADDARIDHPPVYYDELPFEVIVRDEGDVFARFLVRIDEIFESLKLIEQALDNLPGGP 284
Query: 229 VRTDDMKISTPSRSEMKGYPVPPGATYTAVEAPKGEFGVYLVSDGTSKPYRCKIKAPGFA 288
K+ E G VEAP+GE Y+ K R KI+ P +A
Sbjct: 285 GGLLREKLELKGHGEGLGR----------VEAPRGELVHYVKLGDNGKIKRWKIRTPSYA 334
Query: 289 HLAALEKIGKGSFLADIVAII 309
+L AL+ + +G+ +AD II
Sbjct: 335 NLPALKYMLRGNTVADAPLII 355
Score = 55.4 bits (134), Expect = 2e-08
Identities = 26/64 (40%), Positives = 36/64 (56%)
Query: 309 IDPHIGLLHRGTEKLIEYKTYTQALPYFDRLDYVSMMCNEQCYSLAVEKLLNIEVPLRAK 368
D +G +HRG EK+ E Y +AL +R+ + + + LAVE L IEVP RA+
Sbjct: 38 ADIRLGYVHRGIEKIAEGLPYNKALFLAERVCGICSFAHAVAFVLAVEDALGIEVPERAQ 97
Query: 369 YIRV 372
YIR
Sbjct: 98 YIRA 101
>gnl|CDD|239632 cd03577, NTR_TIMP_like, NTR domain, TIMP-like subfamily; TIMPs, or
tissue inibitors of metalloproteases, are essential
regulators of extracellular matrix turnover and
remodeling. They form complexes with matrix
metalloproteases (MMPs) and inactivate them irreversibly
by non-covalently binding their active zinc-binding
sites. This group contains domains similar to the TIMP
NTR domain, which binds MMPs. Members of this group may
or may not function as MMP inhibitors.
Length = 116
Score = 36.6 bits (85), Expect = 0.004
Identities = 20/73 (27%), Positives = 26/73 (35%), Gaps = 4/73 (5%)
Query: 201 HGNVIGMKEMRQSLRIV-EQAINKMP-GGEVRTDDMKISTPSRSEMKGYPVPPGATYTAV 258
V+ K L I I K+ G E + I TPS G P+ G Y +
Sbjct: 20 KVKVLKKKLDGAGLNIRYTIEIKKVYKGSEKSLLPITIYTPSDDSACGIPLLEGKEY--L 77
Query: 259 EAPKGEFGVYLVS 271
A K E G +
Sbjct: 78 IAGKVEDGALHTT 90
>gnl|CDD|150052 pfam09247, TBP-binding, TATA box-binding protein binding. Members
of this family adopt a structure consisting of three
alpha helices and a beta-hairpin. They bind to TATA
box-binding protein (TBP), inhibiting TBP interaction
with the TATA element, thereby resulting in shutting
down of gene transcription.
Length = 62
Score = 28.5 bits (64), Expect = 0.91
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 289 HLAALEKIGKGSFLADIVA 307
HL++L K+G GS L ++ A
Sbjct: 40 HLSSLSKLGLGSLLTEVTA 58
>gnl|CDD|110723 pfam01745, IPT, Isopentenyl transferase. Isopentenyl transferase /
dimethylallyl transferase synthesises
isopentenyladensosine 5'-monophosphate, a cytokinin that
induces shoot formation on host plants infected with the
Ti plasmid.
Length = 232
Score = 30.1 bits (68), Expect = 1.6
Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 115 PIGLLDDI--YHFISTFSARLDEVEDMLTENRLWI-QRTKDVGIVSAEDA 161
P+ +LD + ++T S R ++ R+++ R GI+ AE+A
Sbjct: 28 PVIVLDRVQCCSQLATGSGR-PLPAELQGTRRIYLDNRPLSEGIIDAEEA 76
>gnl|CDD|143593 cd07569, DCase, N-carbamyl-D-amino acid amidohydrolase (DCase,
class 6 nitrilases). DCase hydrolyses
N-carbamyl-D-amino acids to produce D-amino acids. It is
an important biocatalyst in the pharmaceutical industry,
producing useful D-amino acids for example in the
preparation of beta-lactam antibiotics. This subgroup
belongs to a larger nitrilase superfamily comprised of
nitrile- or amide-hydrolyzing enzymes and
amide-condensing enzymes, which depend on a Glu-Lys-Cys
catalytic triad. This superfamily has been classified in
the literature based on global and structure based
sequence analysis into thirteen different enzyme classes
(referred to as 1-13), this subgroup corresponds to
class 6. Members of this superfamily generally form
homomeric complexes, the basic building block of which
is a homodimer. Agrobacterium radiobacter DCase forms a
tetramer (dimer of dimers). Some DCases may form
trimers.
Length = 302
Score = 28.8 bits (65), Expect = 4.5
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 6/36 (16%)
Query: 74 AMTPFF--WLFEEREKMMEFYERASGARMHAAYVRP 107
A+T FF W F + ++ F+E M +P
Sbjct: 48 ALTTFFPRWYFPDEAELDSFFETE----MPNPETQP 79
>gnl|CDD|182482 PRK10467, PRK10467, hydrogenase 2 large subunit; Provisional.
Length = 567
Score = 28.6 bits (64), Expect = 6.4
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 11/39 (28%)
Query: 354 AVEKLLNIEVPLRAKYIRVMFT-----------FYQWAA 381
A E LNI+VP+ A+YIR + FYQ +A
Sbjct: 75 AAESALNIDVPVNAQYIRNIILAAHTTHDHIVHFYQLSA 113
>gnl|CDD|185689 cd02180, GH16_fungal_KRE6_glucanase, Saccharomyces cerevisiae KRE6
and related glucanses, member of glycosyl hydrolase
family 16. KRE6 is a Saccharomyces cerevisiae glucanase
that participates in the synthesis of beta-1,6-glucan, a
major structural component of the cell wall. It is a
golgi membrane protein required for normal
beta-1,6-glucan levels in the cell wall. KRE6 is
closely realted to laminarinase, a glycosyl hydrolase
family 16 member that hydrolyzes 1,3-beta-D-glucosidic
linkages in 1,3-beta-D-glucans such as laminarins,
curdlans, paramylons, and pachymans, with very limited
action on mixed-link (1,3-1,4-)-beta-D-glucans.
Length = 295
Score = 28.0 bits (63), Expect = 9.1
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 2/62 (3%)
Query: 186 YDGYENFEFDIPIGTHGNVIGMKEMRQSLRIVEQAINKMPGGEVRTDDMKISTPSRSEMK 245
YDG E DI GN +G+ ++ QSL++ P +D + I + + M
Sbjct: 124 YDGRGAPEIDIIEAQVGNGLGIGQVSQSLQVAPFDAWYRPDYS--SDFVTIYNDTTTIMN 181
Query: 246 GY 247
Y
Sbjct: 182 TY 183
>gnl|CDD|130782 TIGR01721, AMN-like, AMP nucleosidase, putative. The sequences in
the clade represented by this model are most closely
related to the AMP nucleosidase found in TIGR01717.
These sequences are found only in Chlamydia and
Porphyromonas and differ sufficiently from the
characterized AMP nucleosidase to put some doubt on
assignment of this name.
Length = 266
Score = 28.0 bits (62), Expect = 9.4
Identities = 11/41 (26%), Positives = 19/41 (46%)
Query: 79 FWLFEEREKMMEFYERASGARMHAAYVRPGGVALDIPIGLL 119
FW F ++ + + +A G M A + G ++P G L
Sbjct: 164 FWEFNKKFRDKLYETKAQGVEMECATLFTAGYRRNLPXGAL 204
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.322 0.139 0.423
Gapped
Lambda K H
0.267 0.0693 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,691,037
Number of extensions: 2066331
Number of successful extensions: 1836
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1810
Number of HSP's successfully gapped: 44
Length of query: 385
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 286
Effective length of database: 6,546,556
Effective search space: 1872315016
Effective search space used: 1872315016
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 60 (27.0 bits)