RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12306
(1643 letters)
>gnl|CDD|215968 pfam00520, Ion_trans, Ion transport protein. This family contains
Sodium, Potassium, Calcium ion channels. This family is 6
transmembrane helices in which the last two helices flank
a loop which determines ion selectivity. In some
sub-families (e.g. Na channels) the domain is repeated
four times, whereas in others (e.g. K channels) the
protein forms as a tetramer in the membrane. A bacterial
structure of the protein is known for the last two
helices but is not the Pfam family due to it lacking the
first four helices.
Length = 194
Score = 160 bits (408), Expect = 7e-45
Identities = 67/230 (29%), Positives = 112/230 (48%), Gaps = 42/230 (18%)
Query: 942 MNMFFTTVFALEFVFKLAAFRFK-NYFSDAWNVFDFVIVMGSFIDIFSDSPPHAAAKATI 1000
++ FT +F LE + K A FK YF WN+ DF++V+ S + +
Sbjct: 2 LDYVFTVIFTLEMLLKFIALGFKRKYFRSPWNILDFLVVLPSLVSLIL------------ 49
Query: 1001 PGSHEQTSGRLSINFFRLFRVMRLIKLLSRGEGIRTLLWTFIKSFQALPYVALLIVMLFF 1060
+ RL R++RL++LL R G+RTLL + +S ++L + LL+++L F
Sbjct: 50 ---FLLGEDSGLLRVLRLLRLLRLLRLLRRFPGLRTLLQSLGRSLKSLLNLLLLLLLLLF 106
Query: 1061 IYAVIGMQVFGKIALVFG----GGIHRNNNFQTFPQAVLVLFRSATGEAWQDIMLDCSNR 1116
I+A+IG+Q+FG I+ N+NF ++ +A+L LFR+ T E W D+M D
Sbjct: 107 IFAIIGVQLFGGELDKCCDKNENPINGNSNFDSYGEALLWLFRTLTTEGWGDVMYDT--- 163
Query: 1117 PSEVKCDAASDGNPTNDDNVSCGSDIAYPYFISFYVLCSFLIINLFVAVI 1166
+ G+ + +F+ F +L L++NL + VI
Sbjct: 164 -------------------LVPGTVLGKIFFVIFIILGGVLLLNLLIGVI 194
Score = 133 bits (337), Expect = 2e-35
Identities = 66/269 (24%), Positives = 119/269 (44%), Gaps = 77/269 (28%)
Query: 587 YFDNFFTAVFTIEILLKIISYGFILHDGAFCRSSFNLLDLLVVIVSVVAIYWNSAAI--A 644
D FT +FT+E+LLK I+ GF + RS +N+LD LVV+ S+V++
Sbjct: 1 ILDYVFTVIFTLEMLLKFIALGFKRK---YFRSPWNILDFLVVLPSLVSLILFLLGEDSG 57
Query: 645 FVKILRVLRVLRPLRAINRAKGLKHVVQCVIVAVKTIGNIVLVTCLLQFMFAVIGVQLFK 704
+++LR+LR+LR LR + R GL+ ++Q + ++K++ N+
Sbjct: 58 LLRVLRLLRLLRLLRLLRRFPGLRTLLQSLGRSLKSLLNL-------------------- 97
Query: 705 YVVKCVIVAIKTIGNIMLVTYLLSFMFAVMGVQLFKGKFFQCNDGSKMTKAECHGTYLVF 764
+L+ LL F+FA++GVQLF G+ +C D
Sbjct: 98 ----------------LLLLLLLLFIFAIIGVQLFGGELDKCCD---------------- 125
Query: 765 SNGKIDEPSIEVREWSKHRFHFDDVAKAMLTLFTVSTFEGWPGLLYNSIDSNLENHGPIH 824
+ +FD +A+L LF T EGW ++Y+++
Sbjct: 126 ----------KNENPINGNSNFDSYGEALLWLFRTLTTEGWGDVMYDTLV---------- 165
Query: 825 NYRPIVATYYIIYIIIIAFFMVNIFVGFV 853
+ +++I+II+ ++N+ +G +
Sbjct: 166 PGTVLGKIFFVIFIILGGVLLLNLLIGVI 194
Score = 128 bits (324), Expect = 1e-33
Identities = 57/150 (38%), Positives = 91/150 (60%), Gaps = 6/150 (4%)
Query: 319 VTNIFFVALFTMEMTLKMYSLGF-QGYFVSLFNRFDCFVVIGSIGEMILTRTNIMPPLGV 377
+ + F +FT+EM LK +LGF + YF S +N D VV+ S+ +IL L +
Sbjct: 1 ILDYVFTVIFTLEMLLKFIALGFKRKYFRSPWNILDFLVVLPSLVSLILFLLGEDSGL-L 59
Query: 378 SVLRCVRLLRVFKVTKYWRSLSNLVASLLNSIQSIASLLLLLFLFIVIFALLGMQVFGGK 437
VLR +RLLR+ ++ + + L L+ SL S++S+ +LLLLL L + IFA++G+Q+FGG+
Sbjct: 60 RVLRLLRLLRLLRLLRRFPGLRTLLQSLGRSLKSLLNLLLLLLLLLFIFAIIGVQLFGGE 119
Query: 438 FN----FNPTIAKPRSNFDSFWQSLLTVFQ 463
+ N SNFDS+ ++LL +F+
Sbjct: 120 LDKCCDKNENPINGNSNFDSYGEALLWLFR 149
Score = 71.2 bits (175), Expect = 1e-13
Identities = 28/69 (40%), Positives = 44/69 (63%), Gaps = 1/69 (1%)
Query: 85 WEGPNNGITNFDNFGLAMLTVFQCITLEGWTDVLYNIEDALGRTWQWTYFVSMVILGAFF 144
E P NG +NFD++G A+L +F+ +T EGW DV+Y+ G +FV +ILG
Sbjct: 127 NENPINGNSNFDSYGEALLWLFRTLTTEGWGDVMYDTLVP-GTVLGKIFFVIFIILGGVL 185
Query: 145 VMNLILGVL 153
++NL++GV+
Sbjct: 186 LLNLLIGVI 194
Score = 51.5 bits (124), Expect = 5e-07
Identities = 19/45 (42%), Positives = 30/45 (66%), Gaps = 3/45 (6%)
Query: 38 IEYIFLVIFTVECVMKILAYGFVAHPGAYLRNGWNLLDFTIVVIG 82
++Y+F VIFT+E ++K +A GF Y R+ WN+LDF +V+
Sbjct: 2 LDYVFTVIFTLEMLLKFIALGFKRK---YFRSPWNILDFLVVLPS 43
>gnl|CDD|149732 pfam08763, Ca_chan_IQ, Voltage gated calcium channel IQ domain.
Voltage gated calcium channels control cellular calcium
entry in response to changes in membrane potential. The
isoleucine-glutamine (IQ) motif in the voltage gated
calcium channel IQ domain interacts with hydrophobic
pockets of Ca2+/calmodulin. The interaction regulates two
self-regulatory calcium dependent feedback mechanism,
calcium dependent inactivation (CDI), and
calcium-dependent facilitation (CDF).
Length = 32
Score = 69.1 bits (170), Expect = 9e-15
Identities = 26/31 (83%), Positives = 29/31 (93%)
Query: 1303 EEVTVGKFYATFLIQDYFRRFKKRKEQELKD 1333
+EVTVGKFYATFLIQDYFR+FKKRKEQE +
Sbjct: 1 DEVTVGKFYATFLIQDYFRQFKKRKEQEQQG 31
Score = 69.1 bits (170), Expect = 9e-15
Identities = 26/31 (83%), Positives = 29/31 (93%)
Query: 1483 EEVTVGKFYATFLIQDYFRRFKKRKEQELKD 1513
+EVTVGKFYATFLIQDYFR+FKKRKEQE +
Sbjct: 1 DEVTVGKFYATFLIQDYFRQFKKRKEQEQQG 31
>gnl|CDD|198130 smart01062, Ca_chan_IQ, Voltage gated calcium channel IQ domain.
Voltage gated calcium channels control cellular calcium
entry in response to changes in membrane potential. The
isoleucine-glutamine (IQ) motif in the voltage gated
calcium channel IQ domain interacts with hydrophobic
pockets of Ca2+/calmodulin. The interaction regulates two
self-regulatory calcium dependent feedback mechanism,
calcium dependent inactivation (CDI), and
calcium-dependent facilitation (CDF).
Length = 31
Score = 62.2 bits (152), Expect = 2e-12
Identities = 22/30 (73%), Positives = 25/30 (83%)
Query: 1303 EEVTVGKFYATFLIQDYFRRFKKRKEQELK 1332
+E+TVGK YA LIQDYFR+FK RKEQEL
Sbjct: 1 DELTVGKIYAAMLIQDYFRQFKSRKEQELL 30
Score = 62.2 bits (152), Expect = 2e-12
Identities = 22/30 (73%), Positives = 25/30 (83%)
Query: 1483 EEVTVGKFYATFLIQDYFRRFKKRKEQELK 1512
+E+TVGK YA LIQDYFR+FK RKEQEL
Sbjct: 1 DELTVGKIYAAMLIQDYFRQFKSRKEQELL 30
>gnl|CDD|219699 pfam08016, PKD_channel, Polycystin cation channel. This family
contains the cation channel region of PKD1 and PKD2
proteins.
Length = 423
Score = 45.8 bits (109), Expect = 2e-04
Identities = 53/253 (20%), Positives = 88/253 (34%), Gaps = 70/253 (27%)
Query: 945 FFTTVFALEFVFKLA-AFRF--KNYFSDAWNVFDFVIVMGS----------------FID 985
VF L FV R Y WN+ D IV S
Sbjct: 213 IIFLVFVLYFVVAEITKIRREGPRYLRSVWNLLDLAIVALSVVVIVLHIYRDFLATQLWK 272
Query: 986 IFSDSPPHAAAKATIPGSHEQTSGRLSINFF----RLFRVMRLIK---LLSRGEGIRTLL 1038
SP + + L+ F +LF+V+R + L ++
Sbjct: 273 QVEASPVDFTDFDRVARLDQLYRIILAFLLFLTWLKLFKVLRFNRTMSLFTK-------- 324
Query: 1039 WTFIKSFQALPYVALLIVMLFFIYAVIGMQVFGKIALVFGGGIHRNNNFQTFPQAVLVLF 1098
T ++ + L A++ V+LF YA +G L+FG + +NF F +++L LF
Sbjct: 325 -TLSRALKELLGFAVMFVILFLAYAQLG-------YLLFGSQV---DNFSNFVKSILTLF 373
Query: 1099 RSATGEAWQDIMLDCSNRPSEVKCDAASDGNPTNDDNVSCGSDIAYPYFISFYVLCSFLI 1158
R+ C + S + F++F L F++
Sbjct: 374 RTL--------------------CGDFG-----YTEIFSGNRVLGPLLFLTFVFLVIFIL 408
Query: 1159 INLFVAVIMDNFD 1171
+NLF+A+I D++
Sbjct: 409 LNLFLAIINDSYV 421
Score = 34.2 bits (79), Expect = 0.63
Identities = 40/201 (19%), Positives = 83/201 (41%), Gaps = 46/201 (22%)
Query: 290 SFQEVTNIFFVALFTMEMTLKMYSLGFQEVTNIFFVALFTMEMTLKMYSLGFQGYFVSLF 349
S Q V + FV ++ + L E+ + FV F + K+ G + Y S++
Sbjct: 191 SVQSVKLLRFVTGLSLFLLL-------CEIIFLVFVLYFVVAEITKIRREGPR-YLRSVW 242
Query: 350 NRFDCFVVIGSIGEMIL----------------------------TRTNIMPPLGVSVLR 381
N D +V S+ ++L R + + + ++ L
Sbjct: 243 NLLDLAIVALSVVVIVLHIYRDFLATQLWKQVEASPVDFTDFDRVARLDQLYRIILAFLL 302
Query: 382 CVRLLRVFKVTKYWRSLSNLVASLLNSIQSIASLLLLLFLFIVIFALLGMQVFGGKFNFN 441
+ L++FKV ++ R++S +L +++ + ++ + + +A LG +FG +
Sbjct: 303 FLTWLKLFKVLRFNRTMSLFTKTLSRALKELLGFAVMFVILFLAYAQLGYLLFGSQV--- 359
Query: 442 PTIAKPRSNFDSFWQSLLTVF 462
NF +F +S+LT+F
Sbjct: 360 -------DNFSNFVKSILTLF 373
Score = 31.9 bits (73), Expect = 3.1
Identities = 46/278 (16%), Positives = 97/278 (34%), Gaps = 72/278 (25%)
Query: 584 FLGYFDNF--FTAVFTIEILLKIISYGF-----ILHDGA-FCRSSFNLLDLLVVIVSVVA 635
L + F + I L+ ++ + I +G + RS +NLLDL +V +SVV
Sbjct: 197 LLRFVTGLSLFLLLCEIIFLVFVLYFVVAEITKIRREGPRYLRSVWNLLDLAIVALSVVV 256
Query: 636 IYWNSAAIAFVKILRVLRVLRPLRAINRA-KGLKHVVQCVIVAVKTIGNIVLVTCL--LQ 692
I + + ++ + + A V + + + ++ +T L +
Sbjct: 257 I-----VLHIYRDFLATQLWKQVEASPVDFTDFDRVARLDQLYRIILAFLLFLTWLKLFK 311
Query: 693 FMFAVIGVQLFKYVVKCVIVAIKTIGNIMLVTYLLSFMFAVMGVQLFKGKFFQCNDGSKM 752
+ + LF + A+K + ++ +L +A +G
Sbjct: 312 VLRFNRTMSLFTKTLS---RALKELLGFAVMFVILFLAYAQLG----------------- 351
Query: 753 TKAECHGTYLVFSNGKIDEPSIEVREWSKHRFHFDDVAKAMLTLFTVSTFEGWPGLLYNS 812
YL+F + + F + K++LTLF Y
Sbjct: 352 --------YLLFGSQVDN---------------FSNFVKSILTLFRTL----CGDFGYTE 384
Query: 813 IDSNLENHGPIHNYRPIVATYYIIYIIIIAFFMVNIFV 850
I S GP+ ++ ++ ++ F ++N+F+
Sbjct: 385 IFSGNRVLGPL---------LFLTFVFLVIFILLNLFL 413
>gnl|CDD|117542 pfam08976, DUF1880, Domain of unknown function (DUF1880). This
domain is found predominantly in DJ binding protein. It
has no known function.
Length = 122
Score = 36.7 bits (84), Expect = 0.019
Identities = 21/64 (32%), Positives = 34/64 (53%), Gaps = 6/64 (9%)
Query: 1186 DEFIRLWSEYDPDAKGRIKHLDVVTLL---RKISPPLGFGKLCPHRVACKRLVSMNMPLN 1242
++F RLW+E +AKGR+K+ D ++ R SPP+ G +A + + P
Sbjct: 7 EQFDRLWNELPVNAKGRLKYPDFLSKFSIERAASPPMAAGDSGESAMAQR---GSSAPDF 63
Query: 1243 SDGT 1246
S+GT
Sbjct: 64 SEGT 67
Score = 36.3 bits (83), Expect = 0.028
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 1436 DEFIRLWSEYDPDAKGRIKHLDVVTLL---RKISPPLGFGKLCPHRVA 1480
++F RLW+E +AKGR+K+ D ++ R SPP+ G +A
Sbjct: 7 EQFDRLWNELPVNAKGRLKYPDFLSKFSIERAASPPMAAGDSGESAMA 54
>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM). This
family consists of several Plasmodium falciparum SPAM
(secreted polymorphic antigen associated with
merozoites) proteins. Variation among SPAM alleles is
the result of deletions and amino acid substitutions in
non-repetitive sequences within and flanking the alanine
heptad-repeat domain. Heptad repeats in which the a and
d position contain hydrophobic residues generate
amphipathic alpha-helices which give rise to helical
bundles or coiled-coil structures in proteins. SPAM is
an example of a P. falciparum antigen in which a
repetitive sequence has features characteristic of a
well-defined structural element.
Length = 164
Score = 36.4 bits (84), Expect = 0.042
Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 5/72 (6%)
Query: 463 QQEQKGQEESPPRSIMENEEEEEEGSIIEGEEIEDESVREEEDGVKVQLENCDSEFY--- 519
Q++ + +EE I E E+ E+E I+E +E E+E E+ +K + ++ +
Sbjct: 48 QEDDEEEEEEDEEEIEEPEDIEDEEEIVE-DEEEEEEDEEDNVDLKDIEKKNINDIFNST 106
Query: 520 -DYSYQADIMNN 530
D + Q I N
Sbjct: 107 QDDNAQNLISKN 118
>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207). This
family is found in eukaryotes; it has several conserved
tryptophan residues. The function is not known.
Length = 261
Score = 37.0 bits (86), Expect = 0.062
Identities = 25/93 (26%), Positives = 38/93 (40%), Gaps = 11/93 (11%)
Query: 174 REKQQIEEDLRG------YLDWITQ-AEDIEPEGEERANHHDQKNKSSSETESAD--RLE 224
REK++ E +LR Y +W Q A+ + + ++ SSS + SA R
Sbjct: 116 REKEREEAELRQRLAKEKYEEWCRQKAQQAAKQRTPKHKKEAAESASSSLSGSAKPERNV 175
Query: 225 GDEGENQ--ESWWRKKNKDFDRNNRRMRRACRK 255
E + + W KK K + RR RK
Sbjct: 176 SQEEAKKRLQEWELKKLKQQQQKREEERRKQRK 208
>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A. The CAF-1
or chromatin assembly factor-1 consists of three
subunits, and this is the first, or A. The A domain is
uniquely required for the progression of S phase in
mouse cells, independent of its ability to promote
histone deposition but dependent on its ability to
interact with HP1 - heterochromatin protein 1-rich
heterochromatin domains next to centromeres that are
crucial for chromosome segregation during mitosis. This
HP1-CAF-1 interaction module functions as a built-in
replication control for heterochromatin, which, like a
control barrier, has an impact on S-phase progression in
addition to DNA-based checkpoints.
Length = 76
Score = 33.3 bits (77), Expect = 0.10
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 482 EEEEEGSIIEGEEIEDESVREEED 505
EEEEEG +E E+ EDE +++D
Sbjct: 49 EEEEEGEDLESEDEEDEEEDDDDD 72
>gnl|CDD|184535 PRK14144, PRK14144, heat shock protein GrpE; Provisional.
Length = 199
Score = 35.5 bits (81), Expect = 0.11
Identities = 19/97 (19%), Positives = 38/97 (39%), Gaps = 12/97 (12%)
Query: 165 KARGDFHKLREKQQIEEDLRGYLDWITQAEDIEPEG-EERANHHDQKNKSSSETESADRL 223
+ + D+ K +++ + E +I E +E + H + S T ++L
Sbjct: 4 QNKKDWKKFKDEHKEEH---------KVENEILEEETDEESQHQEPALGHPSYTALEEQL 54
Query: 224 EGDEGENQESWWR--KKNKDFDRNNRRMRRACRKAVK 258
E + E+W + + + + RRM R A K
Sbjct: 55 TLAEQKAHENWEKSVRALAELENVRRRMEREVANAHK 91
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 36.3 bits (83), Expect = 0.20
Identities = 19/95 (20%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 158 SKEREKAKARGDFHKLREKQQIEEDLRGYLDWITQAEDIEPEGEERANHHDQ-KNKSSSE 216
++E EK A + E ++ EE + + +AE+++ EE ++ K ++ +
Sbjct: 1683 AEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEED 1742
Query: 217 TESADRLEGDEGENQESWWRKKNKDFDRNNRRMRR 251
+ A+ + DE E ++ KK ++ R +
Sbjct: 1743 KKKAEEAKKDEEEKKKIAHLKKEEEKKAEEIRKEK 1777
Score = 33.2 bits (75), Expect = 1.8
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 6/73 (8%)
Query: 159 KEREKAKARGDFHKLREKQQIEEDLRGYLDWITQAEDIEPEGEERANHHDQKNKSSSETE 218
E KA D K E ++ EED + AE ++ E EE + K K + E +
Sbjct: 1663 AAEEAKKAEEDKKKAEEAKKAEEDEK------KAAEALKKEAEEAKKAEELKKKEAEEKK 1716
Query: 219 SADRLEGDEGENQ 231
A+ L+ E EN+
Sbjct: 1717 KAEELKKAEEENK 1729
Score = 32.4 bits (73), Expect = 2.8
Identities = 17/101 (16%), Positives = 44/101 (43%)
Query: 160 EREKAKARGDFHKLREKQQIEEDLRGYLDWITQAEDIEPEGEERANHHDQKNKSSSETES 219
E + KA K E ++ + + + +A++ + + EE D+ K+++ +
Sbjct: 1360 EAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKK 1419
Query: 220 ADRLEGDEGENQESWWRKKNKDFDRNNRRMRRACRKAVKSQ 260
AD + E +++ KK + + ++ +A K++
Sbjct: 1420 ADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAE 1460
>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein. This family includes proteins
related to Mpp10 (M phase phosphoprotein 10). The U3
small nucleolar ribonucleoprotein (snoRNP) is required
for three cleavage events that generate the mature 18S
rRNA from the pre-rRNA. In Saccharomyces cerevisiae,
depletion of Mpp10, a U3 snoRNP-specific protein, halts
18S rRNA production and impairs cleavage at the three U3
snoRNP-dependent sites.
Length = 613
Score = 35.7 bits (82), Expect = 0.24
Identities = 20/92 (21%), Positives = 40/92 (43%), Gaps = 7/92 (7%)
Query: 456 QSLLTVFQQEQKGQEESPPR----SIMENEEEEEEGSIIEGEEIEDESVREEEDGVKVQL 511
+ +L Q+ + + +++ E E+GS + ED + EEE+ +
Sbjct: 68 KPILDDLNQKYVEFLINKEHIRVLAKLQDSESHEDGSDGSDMDSEDSADDEEEE---EED 124
Query: 512 ENCDSEFYDYSYQADIMNNEDARPRRLSEFNT 543
E+ + E D +AD+ N ++ LS+ T
Sbjct: 125 ESLEDEMIDDEDEADLFNESESSLEDLSDDET 156
>gnl|CDD|217861 pfam04050, Upf2, Up-frameshift suppressor 2. Transcripts
harbouring premature signals for translation termination
are recognised and rapidly degraded by eukaryotic cells
through a pathway known as nonsense-mediated mRNA decay.
In Saccharomyces cerevisiae, three trans-acting factors
(Upf1 to Upf3) are required for nonsense-mediated mRNA
decay.
Length = 171
Score = 33.9 bits (78), Expect = 0.39
Identities = 17/88 (19%), Positives = 36/88 (40%), Gaps = 8/88 (9%)
Query: 469 QEESPPRSIMENEEEEEEGSIIEGEEIEDESVREEEDGVKV-----QLENCDSEFYDYSY 523
++E P ++E +EE + ++ +DE EE+ + V +++ +D +
Sbjct: 12 EDEELPEEDEDDESSDEEE-VDLPDDEQDEESDSEEEQIFVTRQEEEVDPEAEAEFDREF 70
Query: 524 QADIMNNEDARPRRLSEFNTATKKQPIP 551
+ M E R+ T P+P
Sbjct: 71 EK--MMAESLESRKFESRKKPTFDVPLP 96
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family. Emg1 and Nop14 are novel
proteins whose interaction is required for the
maturation of the 18S rRNA and for 40S ribosome
production.
Length = 809
Score = 34.6 bits (80), Expect = 0.61
Identities = 24/83 (28%), Positives = 36/83 (43%), Gaps = 6/83 (7%)
Query: 479 ENEEEEEEGSIIEGEEIEDESVREEEDGVKVQLENCDSEFYDYSYQADIMNNEDARPRRL 538
E+EEEEE+G E EE +D+ + EEE+ V + E D E D + D E+ + +
Sbjct: 321 EDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEK-- 378
Query: 539 SEFNTATKKQPIPPASSFFIFSA 561
K + F F
Sbjct: 379 ----KKKKSAESTRSELPFTFPC 397
>gnl|CDD|240364 PTZ00332, PTZ00332, paraflagellar rod protein; Provisional.
Length = 589
Score = 33.8 bits (77), Expect = 0.84
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 10/78 (12%)
Query: 172 KLREKQQIEEDLRGYLDWITQAEDIEPEGEERANHHDQKNKSSSETESADRLEGDEGENQ 231
K R KQ+ E DL+ D I +A D+E + E + K KS +R + + Q
Sbjct: 269 KRRLKQRCETDLKHIHDAIQKA-DLE-DAEAMKRYATNKEKS-------ERFIRENEDRQ 319
Query: 232 ESWWRKKNKDFDRNNRRM 249
E W K +D +R +R+
Sbjct: 320 EEAWNKI-QDLERQLQRL 336
>gnl|CDD|107035 PHA01511, PHA01511, coat protein.
Length = 430
Score = 33.2 bits (75), Expect = 1.1
Identities = 21/93 (22%), Positives = 43/93 (46%), Gaps = 8/93 (8%)
Query: 452 DSFWQSLLTVFQQEQKGQEESPPRSIMENEEE------EEEGSIIEGEEIEDESVREEED 505
D +++ + QK ++ +PP + M+ E+E EG ++ D++ E
Sbjct: 14 DEIIETISAITPMAQKAKKYTPPAASMQRSSNTIWMPVEQESPTQEGWDLTDKATGLLEL 73
Query: 506 GVKVQLENCDSEFYDYSYQADIMNNEDARPRRL 538
V V + D++F + +AD + +E A R+
Sbjct: 74 NVAVNMGEPDNDF--FQLRADDLRDETAYRHRI 104
>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon.
Length = 431
Score = 33.5 bits (76), Expect = 1.1
Identities = 20/75 (26%), Positives = 28/75 (37%), Gaps = 5/75 (6%)
Query: 469 QEESPPRSIMENEEEEEEGSIIEGEEIEDESV-REEEDGVKVQLENCDSEFYDYSYQADI 527
QE+S + EEE+EE E E E V + E+ E C E + +
Sbjct: 101 QEDSGAENETVEEEEKEESREEREEVEETEGVTKSEQKNDWRDAEECQKE----EKEPEP 156
Query: 528 MNNEDARPRRLSEFN 542
E + L E N
Sbjct: 157 EEEEKPKRGSLEENN 171
>gnl|CDD|224459 COG1542, COG1542, Uncharacterized conserved protein [Function
unknown].
Length = 593
Score = 33.3 bits (76), Expect = 1.2
Identities = 21/71 (29%), Positives = 30/71 (42%), Gaps = 5/71 (7%)
Query: 1315 LIQDYFRRFKKRKEQELKDGDK-ESHNTV-TLQAGLRTLHDAGPELKRAISGNLEELVDD 1372
LI+D +E+ +K K ES V L L +AG +K AIS + +
Sbjct: 444 LIEDIQGHVGGDEEEVIKSLGKLESKGFVEELPNKGVKLTEAGELVKTAISMAKIQELLA 503
Query: 1373 NPEPSHRVSPT 1383
P V+PT
Sbjct: 504 LKFP---VTPT 511
Score = 32.5 bits (74), Expect = 2.4
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 1495 LIQDYFRRFKKRKEQELKDGDK-ESHNTV-TLQAGLRTLHDAGPELKRAIS 1543
LI+D +E+ +K K ES V L L +AG +K AIS
Sbjct: 444 LIEDIQGHVGGDEEEVIKSLGKLESKGFVEELPNKGVKLTEAGELVKTAIS 494
>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha
subunit (TFIIF-alpha). Transcription initiation factor
IIF, alpha subunit (TFIIF-alpha) or RNA polymerase
II-associating protein 74 (RAP74) is the large subunit
of transcription factor IIF (TFIIF), which is essential
for accurate initiation and stimulates elongation by RNA
polymerase II.
Length = 528
Score = 33.4 bits (76), Expect = 1.2
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 10/93 (10%)
Query: 463 QQEQKGQEESPPRSIMENEEEEEEGSIIEGEEIEDESVREEED----GVKVQLENCDSEF 518
++E K E P + +E +E+ EE + EE S + ++ G K L+ DS+
Sbjct: 299 EREDKLSPEIPAKPEIEQDEDSEESEEEKNEEEGGLSKKGKKLKKLKGKKNGLDKDDSDS 358
Query: 519 YDYSYQADIMNNEDARPRRLSEFNTATKKQPIP 551
D S +DI + ED+ TA K++
Sbjct: 359 GDDSDDSDI-DGEDSVS-----LVTAKKQKEPK 385
>gnl|CDD|224749 COG1836, COG1836, Predicted membrane protein [Function unknown].
Length = 247
Score = 32.7 bits (75), Expect = 1.4
Identities = 15/73 (20%), Positives = 32/73 (43%), Gaps = 9/73 (12%)
Query: 261 GFYWLIIILVFLNTGVLATEHYQQPK-------WLDSFQEVTNIFFVALFTMEMTLKMYS 313
GF W +++L+F G LAT++ + K D + + N+ L + + +Y+
Sbjct: 53 GFKWFLLLLIFFALGSLATKYKYEEKEALGVAEGRDGARSLENVLGNGLAALLFAV-LYA 111
Query: 314 LGFQEVTNIFFVA 326
+ + + F
Sbjct: 112 I-YPDPQLWFLGG 123
>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit. This model
describes Pseudomonas denitrificans CobT gene product,
which is a cobalt chelatase subunit that functions in
cobalamin biosynthesis. Cobalamin (vitamin B12) can be
synthesized via several pathways, including an aerobic
pathway (found in Pseudomonas denitrificans) and an
anaerobic pathway (found in P. shermanii and Salmonella
typhimurium). These pathways differ in the point of
cobalt insertion during corrin ring formation. There are
apparently a number of variations on these two pathways,
where the major differences seem to be concerned with
the process of ring contraction. Confusion regarding the
functions of enzymes found in the aerobic vs. anaerobic
pathways has arisen because nonhomologous genes in these
different pathways were given the same gene symbols.
Thus, cobT in the aerobic pathway (P. denitrificans) is
not a homolog of cobT in the anaerobic pathway (S.
typhimurium). It should be noted that E. coli
synthesizes cobalamin only when it is supplied with the
precursor cobinamide, which is a complex intermediate.
Additionally, all E. coli cobalamin synthesis genes
(cobU, cobS and cobT) were named after their Salmonella
typhimurium homologs which function in the anaerobic
cobalamin synthesis pathway. This model describes the
aerobic cobalamin pathway Pseudomonas denitrificans CobT
gene product, which is a cobalt chelatase subunit, with
a MW ~70 kDa. The aerobic pathway cobalt chelatase is a
heterotrimeric, ATP-dependent enzyme that catalyzes
cobalt insertion during cobalamin biosynthesis. The
other two subunits are the P. denitrificans CobS
(TIGR01650) and CobN (pfam02514 CobN/Magnesium
Chelatase) proteins. To avoid potential confusion with
the nonhomologous Salmonella typhimurium/E.coli cobT
gene product, the P. denitrificans gene symbol is not
used in the name of this model [Biosynthesis of
cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 600
Score = 33.0 bits (75), Expect = 1.6
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 465 EQKGQEESPPRSIMENEEEEEEGSIIEGEEIEDESVREEED 505
E +GQE S P+ + E E G E + + + + +E D
Sbjct: 232 EGEGQEGSAPQESEATDRESESGE-EEMVQSDQDDLPDESD 271
>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13). The
sodium/dicarboxylate cotransporter NaDC-1 has been shown
to translocate Krebs cycle intermediates such as
succinate, citrate, and alpha-ketoglutarate across plasma
membranes rabbit, human, and rat kidney. It is related to
renal and intestinal Na+/sulfate cotransporters and a few
putative bacterial permeases. The SLC13-type proteins
belong to the ArsB/NhaD superfamily of permeases that
translocate sodium and various anions across biological
membranes in all three kingdoms of life. A typical
ArsB/NhaD permease is composed of 8-13 transmembrane
helices.
Length = 382
Score = 32.6 bits (75), Expect = 1.7
Identities = 25/126 (19%), Positives = 52/126 (41%), Gaps = 15/126 (11%)
Query: 976 FVIVMGSFIDIFSDSPPHAAAKATIPGSHEQTSGRLSINFFRLFRVMRLIKLLSRGEGIR 1035
F +G + + +PP+ A + ++ G +FF + + ++ G+
Sbjct: 134 FAASIGGMLTLIG-TPPNLVASGYL-----ESLGGQGFSFFEFTPIGLPLLII----GLL 183
Query: 1036 TLLWTFIKSFQALPYVALLIVMLFFIYAVIGMQVF---GKIALVFGGGIHRNNNFQTFPQ 1092
L + F + + V L L I ++ + V G I LVFGG + ++++
Sbjct: 184 YLWFIFRLAVLIITIVLL--AALAAITGLLPVSVAIAIGAIVLVFGGVLLTKEDYKSIDW 241
Query: 1093 AVLVLF 1098
++ LF
Sbjct: 242 GIIFLF 247
>gnl|CDD|217829 pfam03985, Paf1, Paf1. Members of this family are components of
the RNA polymerase II associated Paf1 complex. The Paf1
complex functions during the elongation phase of
transcription in conjunction with Spt4-Spt5 and
Spt16-Pob3i.
Length = 431
Score = 32.8 bits (75), Expect = 1.8
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 1/77 (1%)
Query: 158 SKEREKAKARGDFHKLREKQQIEEDLRGYLDWITQ-AEDIEPEGEERANHHDQKNKSSSE 216
SK R+K +AR D E + E++ + E + E E + D ++SSS+
Sbjct: 352 SKMRDKRRARLDPIDFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSD 411
Query: 217 TESADRLEGDEGENQES 233
S + D+ +S
Sbjct: 412 VGSDSESKADKESASDS 428
>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT. This family
consists of several bacterial cobalamin biosynthesis
(CobT) proteins. CobT is involved in the transformation
of precorrin-3 into cobyrinic acid.
Length = 282
Score = 32.5 bits (74), Expect = 1.8
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 465 EQKGQEESPPRSIMENEEEEEEGSIIEGEEIEDE--SVREEEDG 506
+ ++E P+ ++++ EEE S ED S E E G
Sbjct: 221 SEDNEDEDDPKEDEDDDQGEEEESGSSDSLSEDSDASSEEMESG 264
>gnl|CDD|221534 pfam12331, DUF3636, Protein of unknown function (DUF3636). This
domain family is found in eukaryotes, and is
approximately 160 amino acids in length.
Length = 155
Score = 31.5 bits (72), Expect = 1.9
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 1258 RTSLRIKTEGNIDDANAELRAVIKKIWKRTSNELLNQVVPPPGGEEEVT 1306
TS+ + G I D+ ++ RA I R +N LL++ P GE T
Sbjct: 56 STSVLPNSFGPIQDSESKQRANENYIIDRVTN-LLSEPPQPDEGEAPYT 103
>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2
subunit 1; Provisional.
Length = 319
Score = 32.3 bits (74), Expect = 1.9
Identities = 15/27 (55%), Positives = 18/27 (66%)
Query: 479 ENEEEEEEGSIIEGEEIEDESVREEED 505
E EEEE++ S E E+ EDE EEED
Sbjct: 287 EEEEEEDDYSESEDEDEEDEDEEEEED 313
>gnl|CDD|110325 pfam01312, Bac_export_2, FlhB HrpN YscU SpaS Family. This family
includes the following members: FlhB, HrpN, YscU, SpaS,
HrcU SsaU and YopU. All of these proteins export
peptides using the type III secretion system. The
peptides exported are quite diverse.
Length = 343
Score = 32.2 bits (74), Expect = 2.1
Identities = 40/191 (20%), Positives = 74/191 (38%), Gaps = 17/191 (8%)
Query: 581 AILFLGYFDNFFTAVFTIEILLKIISYGFILHDGAFCRSSFNLLDLLVVIVSVVAIYWNS 640
A L G F L+ ++ IL F S +L L+V+++ V + +
Sbjct: 33 ASLLAGSAYLFLLGSVFARRLIALLLLTLILIPLPFSLSVTDLFSLVVLLLLTVLLLLSL 92
Query: 641 AAIAFVKI---------LRVLRVLRP-LRAINRAKGLKHV--VQCVIVAVKTIGNIVLVT 688
V + L ++P IN KGLK + + ++ +K+I +V V
Sbjct: 93 FVALLVGLASNLLQVGFLFSTEAIKPDFSKINPIKGLKRIFSARSLVELLKSILKVVAVG 152
Query: 689 CLLQFMF---AVIGVQLFKYVVKCVIVAIKTIGNIMLVTYLLSFMFAVMGVQLFKGKFFQ 745
+ F V+L +IV + T+ +L+ LL ++G+ + + +
Sbjct: 153 LIFYFFLKNDLGTIVRLPGCSPMGIIVIVMTLLKKLLLVVLLF--LLIVGLLDYLFQRYL 210
Query: 746 CNDGSKMTKAE 756
KM+K E
Sbjct: 211 FIKDLKMSKQE 221
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 33.0 bits (75), Expect = 2.1
Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 8/60 (13%)
Query: 463 QQEQKGQEESPPRSIMENEEEEEEGSIIE-----GEEIEDESVREEEDGVKVQLENCDSE 517
+ ++K E+ ++ ENEE E+G + GE ED+++ K+ ++ +
Sbjct: 4057 EDDEKMNEDGFEENVQENEESTEDGVKSDEELEQGEVPEDQAIDNHP---KMDAKSTFAS 4113
>gnl|CDD|227674 COG5384, Mpp10, U3 small nucleolar ribonucleoprotein component
[Translation, ribosomal structure and biogenesis].
Length = 569
Score = 32.7 bits (74), Expect = 2.1
Identities = 11/61 (18%), Positives = 24/61 (39%), Gaps = 1/61 (1%)
Query: 474 PRSIMENEEEEEEGSIIEGEEIEDESVREEEDGVKV-QLENCDSEFYDYSYQADIMNNED 532
+ I E ++ +GS + E+ + E E K Q+ + D + + N++
Sbjct: 71 IQGIQELKDPSLDGSTLNSSSGEESELEEAESVFKEKQMLSADVSEIEEQSNDSLSENDE 130
Query: 533 A 533
Sbjct: 131 E 131
>gnl|CDD|221203 pfam11748, DUF3306, Protein of unknown function (DUF3306). This
family of proteobacterial species proteins has no known
function.
Length = 115
Score = 30.7 bits (70), Expect = 2.2
Identities = 12/56 (21%), Positives = 17/56 (30%)
Query: 450 NFDSFWQSLLTVFQQEQKGQEESPPRSIMENEEEEEEGSIIEGEEIEDESVREEED 505
F S W + E+ + E E+EDE + EE D
Sbjct: 1 GFLSRWSRRKLAVRAEEPAEPAETAEEEAAAAAPAPAPEEEEEAELEDEELLEELD 56
>gnl|CDD|220687 pfam10316, 7TM_GPCR_Srbc, Serpentine type 7TM GPCR chemoreceptor
Srbc. Chemoreception is mediated in Caenorhabditis
elegans by members of the seven-transmembrane
G-protein-coupled receptor class (7TM GPCRs) of proteins
which are of the serpentine type. Srbc is a solo family
amongst the superfamilies of chemoreceptors.
Chemoperception is one of the central senses of soil
nematodes like C. elegans which are otherwise 'blind'
and 'deaf'.
Length = 272
Score = 31.7 bits (73), Expect = 2.5
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 822 PI--HNYRPIVATYYIIYIIIIAFFMVNIFVGFVIVTFQ 858
PI HNYRP + + II I+ I++ + +V F
Sbjct: 112 PIFYHNYRPKIPNF-IILILAISYGLFEQYVLFGFCDNV 149
>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT
(nicotinate-mononucleotide:5, 6-dimethylbenzimidazole
phosphoribosyltransferase) [Coenzyme metabolism].
Length = 620
Score = 32.1 bits (73), Expect = 2.6
Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 464 QEQKGQEESPPRSIMENEEEEEEGSIIEGEEIEDESVREEED 505
+E +G +ES + E EEG ++ E ++S +E D
Sbjct: 252 EESEGSDESEEDEAEATDGEGEEGE-MDAAEASEDSESDESD 292
>gnl|CDD|235569 PRK05702, flhB, flagellar biosynthesis protein FlhB; Reviewed.
Length = 359
Score = 32.0 bits (74), Expect = 3.0
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 400 NLVASLLNSIQSIASLLLLLFLFIVIFALLGMQVFGGKFNFNPTIAKP 447
++++ L + LL + L +V+ ALL + GG F+P KP
Sbjct: 77 DVLSLFLLLLLEALLALLPILLLLVLAALLAPVLQGG-LLFSPKALKP 123
>gnl|CDD|181435 PRK08457, motB, flagellar motor protein MotB; Reviewed.
Length = 257
Score = 31.6 bits (72), Expect = 3.3
Identities = 23/125 (18%), Positives = 46/125 (36%), Gaps = 27/125 (21%)
Query: 415 LLLLLFLFIVIFALLGMQV---------FGGKFNF--NPTIAKPRSNFDSFWQSLLTVFQ 463
L LLL LFI ++A+ + F F++ P + +P +
Sbjct: 24 LSLLLALFIALYAISAVNKAKVEALKTEFIKIFDYTAKPEVKQPVKV-----IPPDSGDA 78
Query: 464 QEQKGQEESPPRSIMENEEEEE----EGSIIEGEEIEDESVREEEDGV-----KVQLENC 514
+E+ + +S S +E E EG + ++I++ + + ++ N
Sbjct: 79 EEEMDELKSLKASQNTQQETIERRKGEGGAL--DQIDNGIALKLPSKLLFENGSAEIINA 136
Query: 515 DSEFY 519
D Y
Sbjct: 137 DMMDY 141
>gnl|CDD|224340 COG1422, COG1422, Predicted membrane protein [Function unknown].
Length = 201
Score = 30.8 bits (70), Expect = 4.1
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 131 WTYFVSMVILGAFFVM---NLI-------LGVLSGEFSKEREKAKARGDFHKLREKQQIE 180
V+ VI G + + LI L + EF KE +A+ GD KL++ Q+ +
Sbjct: 48 LVILVAAVITGLYITILQKLLIDQEKMKELQKMMKEFQKEFREAQESGDMKKLKKLQEKQ 107
Query: 181 EDLRG 185
++
Sbjct: 108 MEMMD 112
>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing
[Transcription / Chromatin structure and dynamics].
Length = 279
Score = 31.1 bits (70), Expect = 4.5
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 461 VFQQEQKGQEESPPRSIMENEEEEEEGSII--EGEEIEDESVREEEDG 506
V +E++ EES E EE+EE GS EG +E EE +G
Sbjct: 174 VDNEEEERLEESDG---REEEEDEEVGSDSYGEGNRELNEEEEEEAEG 218
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 31.5 bits (71), Expect = 5.2
Identities = 17/34 (50%), Positives = 20/34 (58%)
Query: 479 ENEEEEEEGSIIEGEEIEDESVREEEDGVKVQLE 512
E EEEEEE E EE E+E EEE+ + LE
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSLE 897
>gnl|CDD|235086 PRK02919, PRK02919, oxaloacetate decarboxylase subunit gamma;
Provisional.
Length = 82
Score = 28.5 bits (64), Expect = 5.7
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 418 LLFLFIVIFALLGMQVFGGKFNFNPTIAKP 447
L FLF++IFA+ GM +F P A
Sbjct: 22 LAFLFLLIFAIRGMSALINRFFPEPVAAPA 51
>gnl|CDD|131739 TIGR02692, tRNA_CCA_actino, tRNA adenylyltransferase. The enzyme
tRNA adenylyltransferase, also called
tRNA-nucleotidyltransferase and CCA-adding enzyme, can
add or repair the required CCA triplet at the 3'-end of
tRNA molecules. Genes encoding tRNA include the CCA tail
in some but not all bacteria, and this enzyme may be
required for viability. Members of this family represent
a distinct clade within the larger family pfam01743 (tRNA
nucleotidyltransferase/poly(A) polymerase family
protein). The example from Streptomyces coelicolor was
shown to act as a CCA-adding enzyme and not as a poly(A)
polymerase [Protein synthesis, tRNA and rRNA base
modification].
Length = 466
Score = 30.8 bits (70), Expect = 6.3
Identities = 16/84 (19%), Positives = 33/84 (39%), Gaps = 18/84 (21%)
Query: 1531 LHDAGPELKRA----ISGNLEEL-VDDNPEPSHRVLAEYGLGKFAYPELVKYTSKEMQEA 1585
+ + +++R + L++L + D+P ++ E GL PE+ A
Sbjct: 195 MTEMADQIERISAERVRVELDKLLLGDHPRAGIDLMVETGLADRVLPEI---------PA 245
Query: 1586 LNMTQEE----MDRAAHKLIIQER 1605
L + +E D H L + +
Sbjct: 246 LRLEIDEHHQHKDVYEHSLTVLRQ 269
>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 31.2 bits (71), Expect = 6.4
Identities = 34/125 (27%), Positives = 50/125 (40%), Gaps = 12/125 (9%)
Query: 379 VLRCVRLLRVFKVTKYWRSLSNLVASLLNSIQSIASLLLLLFLFIVIFALLGM---QVFG 435
VL ++ + RS LV+ L NS+ I S+LL FI LG +F
Sbjct: 184 VLVWIQQNNSIRSNVLIRSNKYLVSELRNSMARIFSILL----FITCVYYLGRIPSPIFT 239
Query: 436 GKFNFNPTIAKPRSNFDSFWQSLLTVF-----QQEQKGQEESPPRSIMENEEEEEEGSII 490
K + + + + T +QEQ+G E P + +EE E+ I
Sbjct: 240 KKLKETSETEERVESEEETDVEIETASETKGTKQEQEGSTEEDPSPSLFSEEREDPDKID 299
Query: 491 EGEEI 495
E EEI
Sbjct: 300 ETEEI 304
>gnl|CDD|227434 COG5103, CDC39, Cell division control protein, negative regulator
of transcription [Cell division and chromosome
partitioning / Transcription].
Length = 2005
Score = 31.1 bits (70), Expect = 6.5
Identities = 38/184 (20%), Positives = 62/184 (33%), Gaps = 30/184 (16%)
Query: 791 KAMLTLFTVSTFEGWPGL-LYNSIDSNLENHGPIH--------NYRPIVATYYIIYIIII 841
+ + + F F W LY ID G I ++ A I + I
Sbjct: 255 RDVYSCFLDVNFSIWTLEPLYVIIDCWFYISGIITVPYEFFFKRWKNERAQILFIRLHIE 314
Query: 842 A-----FFMVNIFVGFVIVTFQNEGEQEYKNCELDKNQRNCIEF----ALKAKPVRRYIP 892
+ F N+F IV+ ++ +KN ++ NC+E L + P+ YI
Sbjct: 315 SDEKRTFDYSNVF-FTRIVSIEDSRGHRFKNYMGYESNLNCVELFQCIMLGSLPLIEYIA 373
Query: 893 KQRLQYKIWWFVTSQYFEYTIFCLIMINTLTLAMKFYRQPLFYADILDKMNMFFTTVFAL 952
+ L W F F + N P+ + I +++ M F
Sbjct: 374 RLFLNKSPEWCAAGLGFVQPKFSPLAWN-----------PVQESRIFEELLMGFANGAPN 422
Query: 953 EFVF 956
FVF
Sbjct: 423 SFVF 426
>gnl|CDD|188151 TIGR01517, ATPase-IIB_Ca, plasma-membrane calcium-translocating
P-type ATPase. This model describes the P-type ATPase
responsible for translocating calcium ions across the
plasma membrane of eukaryotes , out of the cell. In some
organisms, this type of pump may also be found in
vacuolar membranes. In humans and mice, at least, there
are multiple isoforms of the PMCA pump with overlapping
but not redundant functions. Accordingly, there are no
human diseases linked to PMCA defects, although
alterations of PMCA function do elicit physiological
effects. The calcium P-type ATPases have been
characterized as Type IIB based on a phylogenetic
analysis which distinguishes this group from the Type
IIA SERCA calcium pump. A separate analysis divides Type
IIA into sub-types (SERCA and PMR1) which are modelled
by TIGR01116 and TIGR01522. This model is well separated
from those.
Length = 944
Score = 30.9 bits (70), Expect = 7.0
Identities = 28/144 (19%), Positives = 46/144 (31%), Gaps = 30/144 (20%)
Query: 244 RNNRRMRRACRKAVKSQGFYWLIIILVFLNTGVLATEHYQQPKWLDSFQEVTNIFFVALF 303
RN + R+ K + Q Y L+ V + D
Sbjct: 801 RNAPLISRSMWKNILGQAGYQLV---------VTFILLFAGGSIFDVSGPDEI------- 844
Query: 304 TMEMTLKMYSLGFQEVTNIF-FVALFTMEMTLKMYSLG-FQGYFVSLFNRFDCFVVIGSI 361
T ++ ++ F N F + LF K+Y F+G F NR ++ +
Sbjct: 845 TSHQQGELNTIVF----NTFVLLQLFNEINARKLYERNVFEGLFK---NRIFVTIMGFTF 897
Query: 362 GEMILTRTNIMPPLGVSVLRCVRL 385
G ++ I+ G S V L
Sbjct: 898 GFQVI----IVEFGG-SFFSTVSL 916
>gnl|CDD|225880 COG3343, RpoE, DNA-directed RNA polymerase, delta subunit
[Transcription].
Length = 175
Score = 29.7 bits (67), Expect = 7.7
Identities = 11/43 (25%), Positives = 21/43 (48%)
Query: 465 EQKGQEESPPRSIMENEEEEEEGSIIEGEEIEDESVREEEDGV 507
E+ ++E E EE++E S+ + + EDE E + +
Sbjct: 111 EEGDEDELDYDEDKEEEEDDEVDSLDDENDDEDEDDDEIVEIL 153
>gnl|CDD|225743 COG3202, COG3202, ATP/ADP translocase [Energy production and
conversion].
Length = 509
Score = 30.7 bits (70), Expect = 8.3
Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 2/55 (3%)
Query: 1141 DIAYPYFISFYVLCSFLIINLFVAVIMDNFDYLTRDWSILGPHHLDEFIRLWSEY 1195
I +F+ F+ L +F+I I+ +RD P L FI + E+
Sbjct: 96 YIILGFFLGFFALFAFVI--YPYKDILHPDPEFSRDLFADLPMFLKWFILIVGEW 148
>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation
[Intracellular trafficking and secretion].
Length = 776
Score = 30.7 bits (69), Expect = 8.8
Identities = 17/87 (19%), Positives = 34/87 (39%), Gaps = 10/87 (11%)
Query: 455 WQSLLTVFQQEQKGQEESPPRS-IMENEEEEEEGSIIEGEEIED---ESVREEEDGVKVQ 510
W++L E+ G EE+ + I+++ E + E E+ EE + +
Sbjct: 333 WRNL----NNEKWGNEEAERKDYILDSSSVPLEKQFDDILYFEKMEIENRNPEESEHEEE 388
Query: 511 LENCDSEFYDYSYQADIMNNEDARPRR 537
+E+ + E D ++E R
Sbjct: 389 VEDYEDENDHSKRICD--DDELENHFR 413
>gnl|CDD|238507 cd01036, ClC_euk, Chloride channel, ClC. These domains are found
in the eukaryotic halogen ion (Cl-, Br- and I-) channel
proteins that perform a variety of functions including
cell volume regulation, membrane potential
stabilization, charge compensation necessary for the
acidification of intracellular organelles, signal
transduction and transepithelial transport. They are
also involved in many pathophysiological processes and
are responsible for a number of human diseases. These
proteins belong to the ClC superfamily of chloride ion
channels, which share the unique double-barreled
architecture and voltage-dependent gating mechanism.
The gating is conferred by the permeating anion itself,
acting as the gating charge. Some proteins possess long
C-terminal cytoplasmic regions containing two CBS
(cystathionine beta synthase) domains of putative
regulatory function.
Length = 416
Score = 30.4 bits (69), Expect = 9.9
Identities = 35/150 (23%), Positives = 60/150 (40%), Gaps = 25/150 (16%)
Query: 297 IFFVALFTMEM--TLKMYSLGFQEVTNI--FFVALFTMEMTLKMYSLGFQGYFVSLFNRF 352
+FF AL + + ++ GF+ + F++L E+ + +
Sbjct: 188 VFFAALVSAFVIQIYNSFNSGFELLDRSSAMFLSLTVFELHVPLN-------LYEFIP-- 238
Query: 353 DCFVVIGSIGEM---ILTRTNIMPPLGVSVLRCVRLLRVFKVTKYWRSLSNLVASLLNSI 409
VVIG I + + R +I+ LR R L K +Y L + ++I
Sbjct: 239 --TVVIGVICGLLAALFVRLSII------FLRWRRRLLFRKTARYRVLEPVLFTLIYSTI 290
Query: 410 QSIASLLLLLFLFIVIFAL-LGMQVFGGKF 438
+LLL L ++ + AL G+ V GG F
Sbjct: 291 HYAPTLLLFLLIYFWMSALAFGIAVPGGTF 320
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
0.325 0.140 0.427
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 86,369,535
Number of extensions: 8977507
Number of successful extensions: 15164
Number of sequences better than 10.0: 1
Number of HSP's gapped: 15016
Number of HSP's successfully gapped: 135
Length of query: 1643
Length of database: 10,937,602
Length adjustment: 110
Effective length of query: 1533
Effective length of database: 6,058,662
Effective search space: 9287928846
Effective search space used: 9287928846
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 66 (29.1 bits)