RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7197
(488 letters)
>gnl|CDD|217293 pfam02931, Neur_chan_LBD, Neurotransmitter-gated ion-channel ligand
binding domain. This family is the extracellular ligand
binding domain of these ion channels. This domain forms
a pentameric arrangement in the known structure.
Length = 215
Score = 232 bits (594), Expect = 5e-74
Identities = 85/163 (52%), Positives = 110/163 (67%), Gaps = 3/163 (1%)
Query: 10 QSWYDYKLTWDPKEYGGVEMLHVPSDHIWRPDIVLYNNADGNFEVTLA-TKATLNYTGRV 68
Q W D +L WDP++YGG+ L +PSD IW+PDIVLYN ADG ++T T + G V
Sbjct: 55 QQWTDERLAWDPEDYGGITSLRLPSDKIWKPDIVLYNKADGIHDITTPNTNVRVYPDGTV 114
Query: 69 EWKPPAIYKSSCEIDVEYFPFDEQTCVMKFGSWTYDGFQVDLRHLDEEKGTNVVDIGVDL 128
W PPAIYKSSC +D+ YFPFD+Q C +KFGSWTY+G +VDLR D+ ++D +DL
Sbjct: 115 LWSPPAIYKSSCPMDLTYFPFDQQNCSLKFGSWTYNGEEVDLRWKDDTPP--ILDEEIDL 172
Query: 129 TAFYTSVEWDILEVPAVRNEKFYTCCDEPYLDITFNITMRRKT 171
+ F + EWDI++VPA RNE Y C E Y D+TF +RRK
Sbjct: 173 SDFTENGEWDIVDVPAKRNEYPYGCYSELYPDVTFYFVLRRKP 215
>gnl|CDD|233155 TIGR00860, LIC, Cation transporter family protein. The
Ligand-gated Ion Channel (LIC) Family of
Neurotransmitter Receptors TC 1.A.9)Members of the LIC
family of ionotropic neurotransmitter receptors are
found only in vertebrate and invertebrate animals. They
exhibit receptor specificity for (1)acetylcholine, (2)
serotonin, (3) glycine, (4) glutamate and (5)
g-aminobutyric acid (GABA). All of these receptor
channels are probably hetero- orhomopentameric. The best
characterized are the nicotinic acetyl-choline receptors
which are pentameric channels of a2bgd subunit
composition. All subunits arehomologous. The three
dimensional structures of the protein complex in both
the open and closed configurations have been solved at
0.9 nm resolution.The channel protein complexes of the
LIC family preferentially transport cations or anions
depending on the channel (e.g., the acetylcholine
receptors are cationselective while glycine receptors
are anion selective) [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 459
Score = 233 bits (596), Expect = 2e-71
Identities = 104/452 (23%), Positives = 161/452 (35%), Gaps = 87/452 (19%)
Query: 10 QSWYDYKLTWDPKEYGGVEMLHVPSDHIWRPDIVLYNNADGNFEVTLATKATLNYT--GR 67
Q W D +L W+P+EY GV ++ P D IW PDI YN D F T + G
Sbjct: 84 QEWTDERLQWNPEEYPGVTLVRTPDDSIWVPDIFFYNEKDARFHGITMTNVLVRIHPNGS 143
Query: 68 VEWKPPAIYKSSCEIDVEYFPFDEQTCVMKFGSWTYDGFQVDLRHLDEEKGTNVVDIGVD 127
V + P +C +D+ FPFD Q C +KF SW Y D++ +E+G VD +
Sbjct: 144 VLYSPRITLTLACPMDLRNFPFDVQNCSLKFESWGYTT--NDIKLEWKEQGAVQVDDSL- 200
Query: 128 LTAFYTSVEWDILEVPAVRNEKFYTCCDEPYLDITFNITMRRKTLFYTVNLIIPCMGISF 187
F + E+++L V R Y +TF+ +RR+ L+Y + L IP + I
Sbjct: 201 ---FISLPEFELLGVYGTRYC-TSETNTGEYPCLTFSFVLRRRPLYYLLQLYIPSILIVI 256
Query: 188 LTILVFYLPSD-SGEKVSLSISILLSLTVFFLLLAEIIPPTSLVVSLSISILLSLTVFFL 246
L+ + F+LP+D SG +VSL I+ LL++T F + E +P S
Sbjct: 257 LSWVSFWLPADASGARVSLGITTLLTMTTFSSGVRESLPAVS------------------ 298
Query: 247 LLAEIIPPTSLVVPLLGKFVLFTMILDTFSICVTVVVLNIHFRSPQTHVMSPWVKKVFIH 306
V + + M ++ T V +H + P + +
Sbjct: 299 -----------YVKAIDVYFAVCMAFVFLALLETAFVNYVHHKDPAQGKR-----HLLLE 342
Query: 307 LLPKLLVMRRPQYDRNKRDMDPSQHQSTCKVHGTPTRPPGDLPLDDIESEPLDPLPPPIP 366
L + P D + +D + S R PPP
Sbjct: 343 RCAWRLCKQEPGEDYRRPALDHASLSSVEMRAKDGGRGLESPTERQRLL----HSPPPAE 398
Query: 367 PLPPMKKVSHHWHLCPELHKAIAGVRFIADHTKTAVNDTKVKPLEVERSLCHGWDYNSPL 426
+ + LE R +
Sbjct: 399 GDLDLAGI-----------------------------------LEEVRIAHRFRKRDESE 423
Query: 427 IIPSP----AMVLDRLFLWIFTLAVLIGSAGI 454
+ A V+D+L F LA L+ + G
Sbjct: 424 EVVRDWKFRAKVIDKLSRMAFPLAFLLFNIGY 455
>gnl|CDD|202474 pfam02932, Neur_chan_memb, Neurotransmitter-gated ion-channel
transmembrane region. This family includes the four
transmembrane helices that form the ion channel.
Length = 228
Score = 207 bits (528), Expect = 5e-64
Identities = 98/278 (35%), Positives = 137/278 (49%), Gaps = 52/278 (18%)
Query: 178 LIIPCMGISFLTILVFYLPSDSG-EKVSLSISILLSLTVFFLLLAEIIPPTSLVVSLSIS 236
LIIPC+ ISFL+ LVF+LP+D+G EKV+L I+ LL++TVF LL+ E +P TS VV
Sbjct: 1 LIIPCVLISFLSWLVFWLPADAGPEKVTLGITTLLTMTVFLLLIRESLPKTSYVV----- 55
Query: 237 ILLSLTVFFLLLAEIIPPTSLVVPLLGKFVLFTMILDTFSICVTVVVLNIHFRSPQTHVM 296
PL+GK+++FTM + T S+ VVVLN+H RSP TH M
Sbjct: 56 -----------------------PLIGKYLVFTMFVFTASVEYAVVVLNVHHRSPSTHKM 92
Query: 297 SPWVKKVFIHLLPKLLVMRRPQYDRNKRDMDPSQHQSTCKVHGTPTRPPGDLPLDDIESE 356
WV+K+F+ LP+LL M+RP + + + G+ P
Sbjct: 93 PEWVRKLFLRKLPRLLFMKRP--PESLSPPAAPNLRRSSSSSGSVLEPASGKES----KG 146
Query: 357 PLDPLPPPIPPLPPMKKVSHHWHLCPELHKAIAGVRFIADHTKTAVNDTKVKPLEVERSL 416
P P + + L PEL KA+ GVRFIA+H ++ +VK
Sbjct: 147 VGGPETSSGLPGGSGSGLGSPFRLSPELKKALEGVRFIAEHLRSRDEFDEVKED------ 200
Query: 417 CHGWDYNSPLIIPSPAMVLDRLFLWIFTLAVLIGSAGI 454
W Y AMV+DRL WIF +A ++G+
Sbjct: 201 ---WKYV--------AMVIDRLSRWIFPIAFVLGTLVY 227
>gnl|CDD|226965 COG4606, CeuB, ABC-type enterochelin transport system, permease
component [Inorganic ion transport and metabolism].
Length = 321
Score = 35.7 bits (83), Expect = 0.048
Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 11/74 (14%)
Query: 193 FYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPTSLVVSLSISILLSL--TVFFLLLAE 250
F PS +G S + ILLSL +F P SL++ + ++ + +L T+ F+++
Sbjct: 78 FVEPSTAGTTESAKLGILLSLLLF--------PSASLLIKMLVAFVFALAGTLLFMMILR 129
Query: 251 IIPPTS-LVVPLLG 263
I L VPL+G
Sbjct: 130 RIKLKDVLFVPLIG 143
>gnl|CDD|226999 COG4652, COG4652, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 657
Score = 35.4 bits (82), Expect = 0.074
Identities = 33/118 (27%), Positives = 49/118 (41%), Gaps = 15/118 (12%)
Query: 170 KTLFYTV--NLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPT 227
TL + + N I G S LTI+ L G + + +L +FF ++
Sbjct: 193 FTLLWIIFRNAIYDIKGWSLLTIISRLL----GFSILWILGLLFLSLLFFRRFG-VLF-- 245
Query: 228 SLVVSLSISILLSLTVFFLLLAEIIPPTSLVVPLLGK-FVLFTMILDTFSICVTVVVL 284
SL+ L ISILLSL LL + + GK +M L T V V+++
Sbjct: 246 SLLFFLMISILLSLISLLLLSRLSLANL-----IKGKLPFKRSMFLLTVCKLVAVLIV 298
>gnl|CDD|214444 MTH00165, ND5, NADH dehydrogenase subunit 5; Provisional.
Length = 573
Score = 33.6 bits (78), Expect = 0.22
Identities = 22/79 (27%), Positives = 39/79 (49%), Gaps = 3/79 (3%)
Query: 171 TLFYTVNLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFF-LLLAEIIPPTSL 229
T+ Y+ LI M F + SD + + S+ +LL +++F +L+ +I P
Sbjct: 388 TVSYSFRLIYYSMSGDF-NLKSLNNLSDESKFMLKSMILLLFMSIFGGSMLSWLIFPEPY 446
Query: 230 VVSLSISILLSLTVFFLLL 248
++ L L LT+F +LL
Sbjct: 447 MICLPF-YLKLLTLFVILL 464
>gnl|CDD|133467 cd06912, GT_MraY_like, This subfamily is composed of
uncharacterized bacterial glycosyltransferases in the
MraY-like family. This family contains both eukaryotic
and prokaryotic UDP-D-N-acetylhexosamine:polyprenol
phosphate D-N-acetylhexosamine-1-phosphate transferases,
which catalyze the transfer of a D-N-acetylhexosamine
1-phosphate to a membrane-bound polyprenol phosphate.
This is the initiation step of protein N-glycosylation
in eukaryotes and peptidoglycan biosynthesis in
bacteria. The three bacterial members MraY, WecA, and
WbpL/WbcO, utilize undecaprenol phosphate as the
acceptor substrate, but use different UDP-sugar donor
substrates. MraY-type transferases are highly specific
for UDP-N-acetylmuramate-pentapeptide, whereas WecA
proteins are selective for UDP-N-acetylglucosamine
(UDP-GlcNAc). The WbcO/WbpL substrate specificity has
not yet been determined, but the structure of their
biosynthetic end products implies that
UDP-N-acetyl-D-fucosamine (UDP-FucNAc) and/or
UDPN-acetyl-D-quinosamine (UDP-QuiNAc) are used. The
prokaryotic enzyme-catalyzed reactions lead to the
formation of polyprenol-linked oligosaccharides involved
in bacterial cell wall and peptidoglycan assembly.
Length = 193
Score = 33.0 bits (76), Expect = 0.23
Identities = 27/105 (25%), Positives = 41/105 (39%), Gaps = 2/105 (1%)
Query: 184 GISFLTILVFYLPSDSGEKVSLSI-SILLSLTVFFLLLAEIIPPTSLV-VSLSISILLSL 241
G++ L+ L S SL + +L +L F L E I + L + L +L
Sbjct: 16 GVAIFLGLLAGLLLLSLLSGSLLLLLLLAALPAFLAGLLEDITKRVSPRIRLLATFLSAL 75
Query: 242 TVFFLLLAEIIPPTSLVVPLLGKFVLFTMILDTFSICVTVVVLNI 286
+LL A I + LL F F +I F++ NI
Sbjct: 76 LAVWLLGASITRLDLPGLDLLLSFPPFAIIFTIFAVAGVANAFNI 120
>gnl|CDD|225105 COG2194, COG2194, Predicted membrane-associated, metal-dependent
hydrolase [General function prediction only].
Length = 555
Score = 32.7 bits (75), Expect = 0.44
Identities = 22/80 (27%), Positives = 33/80 (41%), Gaps = 5/80 (6%)
Query: 193 FYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPTSLVVSLSISILLSLTVFFLLLAEII 252
P + +SL ++ L + F ++ SL +S S S LL+L FLLL
Sbjct: 5 LKRPKLTKLSLSLLLAWYFLLLLNFAFFLQVFLINSLDLSFSFSFLLALVFAFLLLL--- 61
Query: 253 PPTSLVVPLLGKFVLFTMIL 272
L P L K + + L
Sbjct: 62 --LLLSFPRLLKPLAGVLSL 79
>gnl|CDD|217705 pfam03739, YjgP_YjgQ, Predicted permease YjgP/YjgQ family. Members
of this family are predicted integral membrane proteins
of unknown function. They are about 350 amino acids long
and contain about 6 transmembrane regions. They are
predicted to be permeases although there is no
verification of this.
Length = 354
Score = 32.6 bits (75), Expect = 0.47
Identities = 24/109 (22%), Positives = 45/109 (41%), Gaps = 12/109 (11%)
Query: 174 YTVNLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPTSLVVSL 233
Y + + + L +L+ +L D + +S L L LL ++P L + L
Sbjct: 2 YILREFLKPFLLVLLVLLLLFLLVDLLRLLDDILSKGLPLADILRLLLLLLPSI-LELIL 60
Query: 234 SISILLSLTVFFLLLA---EI-------IPPTSLVVPLLGKFVLFTMIL 272
+++LL++ + LA E+ I L+ P+L L +L
Sbjct: 61 PLALLLAVLLTLGRLARDSELTALRAAGISLKRLLRPVL-ILALLLSLL 108
>gnl|CDD|233148 TIGR00844, c_cpa1, na(+)/h(+) antiporter. The Monovalent
Cation:Proton Antiporter-1 (CPA1) Family (TC 2.A.36) The
CPA1 family is a large family of proteins derived from
Gram-positive and Gram-negative bacteria, blue green
bacteria, yeast, plants and animals. Transporters from
eukaryotes have been functionally characterized, and all
of these catalyze Na+:H+ exchange. Their primary
physiological functions may be in (1) cytoplasmic pH
regulation, extruding the H+ generated during
metabolism, and (2) salt tolerance (in plants), due to
Na+ uptake into vacuoles. This model is specific for the
fungal members of this family [Transport and binding
proteins, Cations and iron carrying compounds].
Length = 810
Score = 32.2 bits (73), Expect = 0.75
Identities = 26/116 (22%), Positives = 49/116 (42%), Gaps = 17/116 (14%)
Query: 235 ISILLSLTVFFLLLAEIIPPTSLVVPLLGKFVLFTMILDTFSICVTVVVLNIHFRSPQTH 294
++ + +T F ++ + I+ +S+ V +LG++ L+T ++ T P T
Sbjct: 410 MACIWPITCFSIVTSVIVHGSSVAVIMLGRY------LNTVTLTAT----------PTTR 453
Query: 295 VMSPWVKKVFIHLLPKLLVMRRP-QYDRNKRDMDPSQHQSTCKVHGTPTRPPGDLP 349
+ K ++ LP L RP R ++M S Q + G P RP +
Sbjct: 454 TTNTNTKNSWLQRLPSLDKSGRPFSLQRLDKEMSLSPGQIGVRTSGMPARPALGMR 509
>gnl|CDD|223769 COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT)
superfamily [Carbohydrate transport and metabolism /
Amino acid transport and metabolism / General function
prediction only].
Length = 292
Score = 31.8 bits (72), Expect = 0.84
Identities = 21/113 (18%), Positives = 39/113 (34%), Gaps = 7/113 (6%)
Query: 167 MRRKTLFYTVNLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPP 226
M+R L + L++ + I + + + L + L L + P
Sbjct: 1 MKRALLLGLLALLLWGLLWGLSFIALKLAVESLDPFLFAAALRFLIAALLLLPLLLLEPR 60
Query: 227 TSL-------VVSLSISILLSLTVFFLLLAEIIPPTSLVVPLLGKFVLFTMIL 272
++ L + L+L L LA S+ ++G LFT +L
Sbjct: 61 GLRPALRPWLLLLLLALLGLALPFLLLFLALKYTSASVASLIIGLLPLFTALL 113
Score = 29.4 bits (66), Expect = 3.8
Identities = 18/107 (16%), Positives = 43/107 (40%), Gaps = 10/107 (9%)
Query: 162 TFNITMRRKTLFY--TVNLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLL 219
+ ++ ++ + ++ L +L+F+L +S + +LL L VF
Sbjct: 167 ALYTALVKRLSRLGPVTLALLLQLLLALLLLLLFFLSGFGAPILSRAWLLLLYLGVFSTG 226
Query: 220 LA--------EIIPPTSLVVSLSISILLSLTVFFLLLAEIIPPTSLV 258
LA ++ + + + + + + + LLL E + P L+
Sbjct: 227 LAYLLWYYALRLLGASLVALLSLLEPVFAALLGVLLLGEPLSPAQLL 273
>gnl|CDD|224217 COG1298, FlhA, Flagellar biosynthesis pathway, component FlhA [Cell
motility and secretion / Intracellular trafficking and
secretion].
Length = 696
Score = 31.8 bits (73), Expect = 1.0
Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 3/84 (3%)
Query: 183 MGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPTSLVVSLSISILLSLT 242
M ++ L G+ +++ + I+L L + L L + L ++++S+L+ L
Sbjct: 1 MNLASKLRFPGNLDGLQGKDLAVPLGIVLILAMLILPLPAFLLDFLLTFNIALSVLILLV 60
Query: 243 VFFL---LLAEIIPPTSLVVPLLG 263
F+ L P L+ LL
Sbjct: 61 AMFIQRPLDFSSFPTLLLITTLLR 84
Score = 29.9 bits (68), Expect = 3.6
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 426 LIIPSPAMVLDRLFLWIFTLAVLI 449
LI+P PA +LD L + L+VLI
Sbjct: 34 LILPLPAFLLDFLLTFNIALSVLI 57
>gnl|CDD|235672 PRK06012, flhA, flagellar biosynthesis protein FlhA; Validated.
Length = 697
Score = 31.2 bits (72), Expect = 1.2
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 426 LIIPSPAMVLDRLFLWIFTLAVLI 449
+I+P P +LD L + L+VLI
Sbjct: 34 MILPLPPFLLDLLLTFNIALSVLI 57
>gnl|CDD|223857 COG0786, GltS, Na+/glutamate symporter [Amino acid transport and
metabolism].
Length = 404
Score = 31.1 bits (71), Expect = 1.3
Identities = 26/121 (21%), Positives = 54/121 (44%), Gaps = 12/121 (9%)
Query: 170 KTLFYTVNLIIPCMGISF-----LTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEII 224
+ L T+ +I C+ + L L LP L + ++L + L +
Sbjct: 218 EPLIETLAIIAICLAVGKIINQLLKSLGLALPLFVM---CLFVGVILRNILDLLKKYRVF 274
Query: 225 PPT-SLVVSLSISILLSLTVFFLLLAEIIPPTSLVVPLLGKFVLFTMILDTFSICVTVVV 283
++ ++S+S+ L++ + L L E+ L +PLL + T+++ F+I VT +
Sbjct: 275 RRAVDVIGNVSLSLFLAMALMSLKLWELA---DLALPLLVILAVQTIVMALFAIFVTFRL 331
Query: 284 L 284
+
Sbjct: 332 M 332
>gnl|CDD|226614 COG4129, COG4129, Predicted membrane protein [Function unknown].
Length = 332
Score = 30.8 bits (70), Expect = 1.8
Identities = 18/86 (20%), Positives = 36/86 (41%), Gaps = 6/86 (6%)
Query: 187 FLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPTSLVVSLSISILLSLTVFF- 245
L +L F L + + + I++ L V L ++P T V+ + ++ ++ L + F
Sbjct: 69 ILAVLFFLLFGQNPIAFGVVLLIIIPLLVLLKLENGVVPITVGVLHILVAAMIPLFLIFN 128
Query: 246 -LLLAEIIPPTSLVVPLLGKFVLFTM 270
LL + + V L V+
Sbjct: 129 RFLLVFV----GVGVAFLVNLVMPPP 150
>gnl|CDD|221739 pfam12730, ABC2_membrane_4, ABC-2 family transporter protein. This
family is related to the ABC-2 membrane transporter
family pfam01061.
Length = 230
Score = 30.4 bits (69), Expect = 1.8
Identities = 17/79 (21%), Positives = 36/79 (45%)
Query: 170 KTLFYTVNLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPTSL 229
K L + ++ + + L+++ L SG +SL + LL L + LL +I
Sbjct: 95 KLLVLLILSLLASLLLLLLSLIAGLLLGGSGFSLSLLLGALLLLLLLSLLALLLILLILF 154
Query: 230 VVSLSISILLSLTVFFLLL 248
+ L + +++ + LL+
Sbjct: 155 LSLLLRNSAVAIGIGLLLI 173
>gnl|CDD|223039 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional.
Length = 1352
Score = 30.9 bits (70), Expect = 1.8
Identities = 11/82 (13%), Positives = 17/82 (20%), Gaps = 1/82 (1%)
Query: 308 LPKLLVMRRPQYDRNKRDMDPSQHQSTCKVHGTPTRPPGDLPLDDIESEPLDPLPPPIPP 367
L ++L + + LPL E P
Sbjct: 134 LSEMLRPVGSPGPPPAASPPAAGASPAAVASDAASSRQAALPLS-SPEETARAPSSPPAE 192
Query: 368 LPPMKKVSHHWHLCPELHKAIA 389
PP + P I+
Sbjct: 193 PPPSTPPAAASPRPPRRSSPIS 214
Score = 29.4 bits (66), Expect = 5.3
Identities = 14/83 (16%), Positives = 21/83 (25%), Gaps = 3/83 (3%)
Query: 289 RSPQTHVMSPWVKKVFIHLLPKLLVMRRPQYDRNKRDMDPSQHQSTCKVHGTPTRPPGDL 348
R P P + R + +R P + ++ G P
Sbjct: 837 RPPGAAARPPPARSSESSKSKPAAAGGRARGKNGRRRPRPPEPRAR---PGAAAPPKAAA 893
Query: 349 PLDDIESEPLDPLPPPIPPLPPM 371
+ P P P L PM
Sbjct: 894 AAPPAGAPAPRPRPAPRVKLGPM 916
>gnl|CDD|222436 pfam13886, DUF4203, Domain of unknown function (DUF4203). This is
the N-terminal region of 7tm proteins. The function is
not known.
Length = 210
Score = 30.3 bits (69), Expect = 1.9
Identities = 19/102 (18%), Positives = 36/102 (35%), Gaps = 14/102 (13%)
Query: 186 SFLTILVFYLPSDSGEKVSLSIS---------ILLSLTVFFLLLAEIIPPTSLVVSLSIS 236
S + L+ + L S IL L FL+++ + V L +
Sbjct: 35 SLIVFLLITKITLLVTNARLGASLVAGVVGGAILGLLWWVFLIVSVGL----FCVGLLLG 90
Query: 237 ILLSLTVFFLLLAEIIPPTSLVVPLLGKFVLFTMILDTFSIC 278
LL+ + FL L + S V L+ + ++ ++
Sbjct: 91 FLLASALLFLPLGNLYIYHSDWVLLVT-LLCGAILFALLTLK 131
Score = 28.4 bits (64), Expect = 7.7
Identities = 17/83 (20%), Positives = 28/83 (33%), Gaps = 15/83 (18%)
Query: 184 GISFLTILVFYLPSDSGEKVSLSISI-------LLSLTVFFLLLAEIIPPTSLVVSLSIS 236
G + +L VS+ + LL+ + FL L + S V +
Sbjct: 65 GAILGLLWWVFLI------VSVGLFCVGLLLGFLLASALLFLPLGNLYIYHSDWV--LLV 116
Query: 237 ILLSLTVFFLLLAEIIPPTSLVV 259
LL + F LL L++
Sbjct: 117 TLLCGAILFALLTLKWQKYLLIL 139
>gnl|CDD|216595 pfam01595, DUF21, Domain of unknown function DUF21. This
transmembrane region has no known function. Many of the
sequences in this family are annotated as hemolysins,
however this is due to a similarity to Treponema
hyodysenteriae hemolysin C that does not contain this
domain. This domain is found in the N-terminus of the
proteins adjacent to two intracellular CBS domains
pfam00571.
Length = 182
Score = 29.8 bits (68), Expect = 1.9
Identities = 17/92 (18%), Positives = 38/92 (41%), Gaps = 9/92 (9%)
Query: 176 VNLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPTSLVVSLSI 235
N+++ + L+ + + ++ L+S T+ L+ EI+ P +L
Sbjct: 66 ANILLGALATLAAAELLL-------GSLGVLLATLVS-TLLILVFGEIL-PKTLARRNPE 116
Query: 236 SILLSLTVFFLLLAEIIPPTSLVVPLLGKFVL 267
I L L +L +++ P ++ L +L
Sbjct: 117 RIALRLAPPLRVLMKLLYPLVWLLSKLSNLLL 148
>gnl|CDD|185718 cd08772, GH43_62_32_68, Glycosyl hydrolase families: GH43, GH62,
GH32, GH68. Members of the glycosyl hydrolase families
32, 43, 62 and 68 (GH32, GH43, GH62, GH68) all possess
5-bladed beta-propeller domains and comprise clans F and
J, as classified by the carbohydrate-active enzymes
database (CAZY). Clan F consists of families GH43 and
GH62. GH43 includes beta-xylosidases, beta-xylanases,
alpha-L-arabinases, and alpha-L-arabinofuranosidases,
using aryl-glycosides as substrates, while family GH62
contains alpha-L-arabinofuranosidases (EC 3.2.1.55) that
specifically cleave either alpha-1,2 or
alpha-1,3-L-arabinofuranose sidechains from xylans.
These are inverting enzymes (i.e. they invert the
stereochemistry of the anomeric carbon atom of the
substrate) that have an aspartate as the catalytic
general base, a glutamate as the catalytic general acid
and another aspartate that is responsible for pKa
modulation and orienting the catalytic acid. Clan J
consists of families GH32 and GH68. GH32 comprises
sucrose-6-phosphate hydrolases, invertases, inulinases,
levanases, eukaryotic fructosyltransferases, and
bacterial fructanotransferases while GH68 consists of
frucosyltransferases (FTFs) that include levansucrase
(EC 2.4.1.10); beta-fructofuranosidase (EC 3.2.1.26);
inulosucrase (EC 2.4.1.9), while GH68 consists of
frucosyltransferases (FTFs) that include levansucrase
(EC 2.4.1.10); beta-fructofuranosidase (EC 3.2.1.26);
inulosucrase (EC 2.4.1.9), all of which use sucrose as
their preferential donor substrate. Members of this clan
are retaining enzymes (i.e. they retain the
configuration at anomeric carbon atom of the substrate)
that catalyze hydrolysis in two steps involving a
covalent glycosyl enzyme intermediate: an aspartate
located close to the N-terminus acts as the catalytic
nucleophile and a glutamate acts as the general
acid/base; a conserved aspartate residue in the
Arg-Asp-Pro (RDP) motif stabilizes the transition state.
Structures of all families in the two clans manifest a
funnel-shaped active site that comprises two subsites
with a single route for access by ligands.
Length = 286
Score = 30.5 bits (69), Expect = 1.9
Identities = 19/91 (20%), Positives = 28/91 (30%), Gaps = 18/91 (19%)
Query: 34 SDHIWRPDIVLYNN----------ADGNFE--VTLATKATLNYTGRVEWKPPAIYKSSCE 81
S IW P IV N + + + +AT N P + +
Sbjct: 57 SGGIWAPSIVYIENGKFYLYYTDVSFTKNQQTIGVATAEDGNGPWTDYIGGPVLPDNPPA 116
Query: 82 IDVE------YFPFDEQTCVMKFGSWTYDGF 106
DV F D+ + FGS + F
Sbjct: 117 ADVSNFRDPFVFEDDDGKWYLVFGSGDHHNF 147
>gnl|CDD|237054 PRK12316, PRK12316, peptide synthase; Provisional.
Length = 5163
Score = 30.7 bits (69), Expect = 2.1
Identities = 15/45 (33%), Positives = 19/45 (42%), Gaps = 6/45 (13%)
Query: 335 CKVHGTPTRPPGDLPLDDIESEPLDPLPPP------IPPLPPMKK 373
C P D PL ++ LD LP P I PL PM++
Sbjct: 4066 CCDAERHGVTPSDFPLAGLDQARLDALPLPLGEIEDIYPLSPMQQ 4110
Score = 29.2 bits (65), Expect = 7.5
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 6/35 (17%)
Query: 345 PGDLPLDDIESEPLDPLPPPIP------PLPPMKK 373
P D PL + LD LP P PL PM++
Sbjct: 1530 PSDFPLAGLSQAQLDALPLPAGEIADIYPLSPMQQ 1564
>gnl|CDD|225126 COG2216, KdpB, High-affinity K+ transport system, ATPase chain B
[Inorganic ion transport and metabolism].
Length = 681
Score = 30.3 bits (69), Expect = 2.4
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 5/42 (11%)
Query: 186 SFLTILVFYLPSDSGEK-----VSLSISILLSLTVFFLLLAE 222
S LT + P G +L+I+I+L TV F AE
Sbjct: 42 SILTTFLTIFPDLFGGTGGSRLFNLAITIILWFTVLFANFAE 83
Score = 29.9 bits (68), Expect = 3.2
Identities = 11/44 (25%), Positives = 20/44 (45%)
Query: 207 ISILLSLTVFFLLLAEIIPPTSLVVSLSISILLSLTVFFLLLAE 250
+ +L+ + S + +L+I+I+L TV F AE
Sbjct: 40 VGSILTTFLTIFPDLFGGTGGSRLFNLAITIILWFTVLFANFAE 83
>gnl|CDD|233565 TIGR01770, NDH_I_N, proton-translocating NADH-quinone
oxidoreductase, chain N. This model describes the 14th
(based on E. coli) structural gene, N, of bacterial and
chloroplast energy-transducing NADH (or NADPH)
dehydrogenases. This model does not describe any subunit
of the mitochondrial complex I (for which the subunit
composition is very different), nor NADH dehydrogenases
that are not coupled to ion transport. The Enzyme
Commission designation 1.6.5.3, for NADH dehydrogenase
(ubiquinone), is applied broadly, perhaps unfortunately,
even if the quinone is menaquinone (Thermus,
Mycobacterium) or plastoquinone (chloroplast). For
chloroplast members, the name NADH-plastoquinone
oxidoreductase is used for the complex and this protein
is designated as subunit 2 or B. This model also
includes a subunit of a related complex in the archaeal
methanogen, Methanosarcina mazei, in which F420H2
replaces NADH and 2-hydroxyphenazine replaces the
quinone [Energy metabolism, Electron transport].
Length = 468
Score = 30.3 bits (69), Expect = 2.6
Identities = 21/81 (25%), Positives = 33/81 (40%), Gaps = 13/81 (16%)
Query: 209 ILLSLTVFFLLLAEIIPPTS-----LVVSLSISILLSLTVFFLLLAEIIPPTSLVVPLLG 263
I+L L F LLL + L+ +L +LLSL V L +
Sbjct: 8 IILLLGAFILLLYGLFYSRKKRNPLLLKNLFYIVLLSLLVSLFLTLQYASYLF------- 60
Query: 264 KFVLFTMILDTFSICVTVVVL 284
F I+D FS+ + +++L
Sbjct: 61 -FGFSFFIVDNFSLIIKLILL 80
>gnl|CDD|225245 COG2370, HupE, Hydrogenase/urease accessory protein
[Posttranslational modification, protein turnover,
chaperones].
Length = 201
Score = 29.7 bits (67), Expect = 2.6
Identities = 13/35 (37%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 235 ISILLSLTVFFLLLA-EIIPPTSLVVPLLGKFVLF 268
I S+ LLLA P V L+G F LF
Sbjct: 100 PGIAASVLGLGLLLALAARLPLPAVAALIGIFGLF 134
>gnl|CDD|225892 COG3356, COG3356, Predicted membrane protein [Function unknown].
Length = 578
Score = 30.1 bits (68), Expect = 2.7
Identities = 28/108 (25%), Positives = 43/108 (39%), Gaps = 3/108 (2%)
Query: 169 RKTLFYTVNLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPTS 228
R + + + FL +LV Y + V S++ + S + +L S
Sbjct: 103 RPVDVSLILAVALVLSFRFLIVLVSY-KNSVPSSVLPSMNYVYSPLIVYLKGFVAQY--S 159
Query: 229 LVVSLSISILLSLTVFFLLLAEIIPPTSLVVPLLGKFVLFTMILDTFS 276
L+V IS LL L + LL ++ VV G L IL+ FS
Sbjct: 160 LIVPFIISSLLILLLASLLYGRVLYSFVKVVNRPGVRSLGLKILEFFS 207
>gnl|CDD|226365 COG3846, TrbL, Type IV secretory pathway, TrbL components
[Intracellular trafficking and secretion].
Length = 452
Score = 30.1 bits (68), Expect = 2.8
Identities = 18/91 (19%), Positives = 33/91 (36%), Gaps = 4/91 (4%)
Query: 184 GISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPTSLVVSLSISILLSLTV 243
FL GEK+ I+ ++F + +S+ +S++I L+ V
Sbjct: 206 ETLFLAERFLKTVISVGEKLMALALIIGIGSLFLIQQTAGFLNSSVTKIISLAIYLASLV 265
Query: 244 FFLLLAEIIPPTSLVV---PLLGKF-VLFTM 270
L P + +V P +G V +
Sbjct: 266 LLALFNYGPPIAAGLVIGGPQVGAGAVGAGV 296
>gnl|CDD|184448 PRK14010, PRK14010, potassium-transporting ATPase subunit B;
Provisional.
Length = 673
Score = 30.1 bits (67), Expect = 2.9
Identities = 19/65 (29%), Positives = 37/65 (56%), Gaps = 5/65 (7%)
Query: 184 GISFLTILVFYLPSDSGEKVSLSI---SILLSLTVFFLLLAEIIPP--TSLVVSLSISIL 238
G SFL ++ + + +K I ++L++LT+ FL++ + P L +LSI++L
Sbjct: 193 GHSFLDKMIGLVEGATRKKTPNEIALFTLLMTLTIIFLVVILTMYPLAKFLNFNLSIAML 252
Query: 239 LSLTV 243
++L V
Sbjct: 253 IALAV 257
>gnl|CDD|235564 PRK05691, PRK05691, peptide synthase; Validated.
Length = 4334
Score = 30.1 bits (68), Expect = 3.1
Identities = 15/46 (32%), Positives = 19/46 (41%), Gaps = 6/46 (13%)
Query: 334 TCKVHGTPTRPPGDLPLDDIESEPLDPLPPP------IPPLPPMKK 373
C G P D PL + LD LP P + PL PM++
Sbjct: 3220 HCLADGAGGLTPSDFPLAQLTQAQLDALPVPAAEIEDVYPLTPMQE 3265
>gnl|CDD|238538 cd01118, ArsB_permease, Anion permease ArsB. These permeases have
been shown to export arsenate and antimonite in
eubacteria and archaea. A typical ArsB permease
contains 8-13 transmembrane helices and can function
either independently as a chemiosmotic transporter or as
a channel-forming subunit of an ATP-driven anion pump
(ArsAB). The ArsAB complex is similar in many ways to
ATP-binding cassette transporters, which have two groups
of six transmembrane-spanning helical segments and two
nucleotide-binding domains. The ArsB proteins belong to
the ArsB/NhaD superfamily of permeases that translocate
sodium, arsenate, sulfate, and organic anions across
biological membranes in all three kingdoms of life.
Length = 416
Score = 29.9 bits (68), Expect = 3.2
Identities = 26/101 (25%), Positives = 41/101 (40%), Gaps = 25/101 (24%)
Query: 184 GISFLTIL-VFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPP---TSLVVSLSISI-- 237
GI F + +LPS +SIL + V +L +P T+ V S++I
Sbjct: 167 GIGFTEYAALMFLPS--------IVSILATYVVLYLFFRRALPKRLETASVKKPSLAIKD 218
Query: 238 ----LLSLTVFFLLLAEI-------IPPTSLVVPLLGKFVL 267
L+ T+ LL+ IPP+ + L F+L
Sbjct: 219 PLLFGLAWTLLVLLVVSAFGVDILLIPPSFIAGVLALIFLL 259
>gnl|CDD|223939 COG1007, NuoN, NADH:ubiquinone oxidoreductase subunit 2 (chain N)
[Energy production and conversion].
Length = 475
Score = 29.9 bits (68), Expect = 3.5
Identities = 20/82 (24%), Positives = 33/82 (40%), Gaps = 13/82 (15%)
Query: 205 LSISILLSLTVFFLLLAE--IIPPTSLVVSLSISILLSLTVFFLLLAEIIPPTSLVVPLL 262
L I+L++T LLL I SL+ L++ + L + LL S
Sbjct: 8 LLPEIILAITALVLLLVGLFIRRSRSLLAYLAV-LGLLAALASLLFIAYRG--SAFAGA- 63
Query: 263 GKFVLFTMILDTFSICVTVVVL 284
I+D ++ + +VVL
Sbjct: 64 -------FIVDALALLMKIVVL 78
>gnl|CDD|234052 TIGR02900, spore_V_B, stage V sporulation protein B. SpoVB is the
stage V sporulation protein B of the bacterial endopore
formation program in Bacillus subtilis and various other
Firmcutes. It is nearly universal among
endospore-formers. Paralogs with rather high sequence
similarity to SpoVB exist, including YkvU in B. subtilis
and a number of proteins in the genus Clostridium.
Member sequences for the seed alignment were chosen to
select those proteins, no more than one to a genome,
closest to B. subtilis SpoVB in a neighbor joining tree
[Cellular processes, Sporulation and germination].
Length = 488
Score = 29.6 bits (67), Expect = 3.9
Identities = 12/67 (17%), Positives = 30/67 (44%), Gaps = 6/67 (8%)
Query: 159 LDITFNITMRRKTLFYTVNL------IIPCMGISFLTILVFYLPSDSGEKVSLSISILLS 212
L N+ +K + T++L + + + L+ Y+ + ++L + I+L
Sbjct: 422 LVTILNLAEIKKNIRITIDLSDFLIFALLGILVYLGLSLLKYIIFNPNILINLLLIIILG 481
Query: 213 LTVFFLL 219
+++ LL
Sbjct: 482 FSLYILL 488
>gnl|CDD|218624 pfam05529, Bap31, B-cell receptor-associated protein 31-like.
Bap31 is a polytopic integral protein of the endoplasmic
reticulum membrane and a substrate of caspase-8. Bap31
is cleaved within its cytosolic domain, generating
pro-apoptotic p20 Bap31.
Length = 149
Score = 28.7 bits (65), Expect = 4.2
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 10/62 (16%)
Query: 236 SILLSLTVFFLLLAEIIPPTSLVVPL-------LGKFVLFTMILDTFSIC--VTVVVLNI 286
S+ +L VF LL AE+ LV+PL + K V + F + ++ L +
Sbjct: 2 SLYWTL-VFGLLYAEMAVFLLLVLPLPSPIRRKIFKSVSKLQLSQQFQTGFKILLIFLLV 60
Query: 287 HF 288
F
Sbjct: 61 LF 62
>gnl|CDD|165563 PHA03308, PHA03308, transcriptional regulator ICP4; Provisional.
Length = 1463
Score = 29.8 bits (66), Expect = 4.5
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 332 QSTCKVHGTPTRPPGDLPLDDIESEPLDPLP--PPIPPLPPMKK 373
+ TC + G P P +P D ++ L P P P PP PP ++
Sbjct: 816 KKTCGLQGLPDSLPPAVPETDRDNPLLPPCPITPEGPPCPPREE 859
>gnl|CDD|182589 PRK10614, PRK10614, multidrug efflux system subunit MdtC;
Provisional.
Length = 1025
Score = 29.7 bits (67), Expect = 4.7
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 6/50 (12%)
Query: 232 SLSISILLSLTVFFLLL----AEIIPPTSLVVPLLGKFVLFTMILDTFSI 277
+L+IS+ L + V FL L A +IP ++ V L+G F M L FS+
Sbjct: 337 TLAISVALVILVVFLFLRSGRATLIPAVAVPVSLIGTFA--AMYLCGFSL 384
>gnl|CDD|224287 COG1368, MdoB, Phosphoglycerol transferase and related proteins,
alkaline phosphatase superfamily [Cell envelope
biogenesis, outer membrane].
Length = 650
Score = 29.3 bits (66), Expect = 4.9
Identities = 24/97 (24%), Positives = 38/97 (39%), Gaps = 3/97 (3%)
Query: 163 FNITMRRKTLFYTVNLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAE 222
F + + + +G S L++L P D V L + ILL + + L
Sbjct: 104 FIDFLTIPNALLIEDFNLGKLGFSALSLLY---PEDILFVVDLILLILLLVFYWRLAGLT 160
Query: 223 IIPPTSLVVSLSISILLSLTVFFLLLAEIIPPTSLVV 259
V L +++LL L + L L EI+ P L
Sbjct: 161 SKLIPLFVRLLVLALLLYLFLQLLFLGEILDPALLAA 197
>gnl|CDD|236315 PRK08633, PRK08633, 2-acyl-glycerophospho-ethanolamine
acyltransferase; Validated.
Length = 1146
Score = 29.5 bits (67), Expect = 5.0
Identities = 24/139 (17%), Positives = 56/139 (40%), Gaps = 39/139 (28%)
Query: 179 IIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLL------------------- 219
++P +G L + +F LP+ + S+ L +FFL
Sbjct: 301 LVP-LGALGLALSLFLLPT--------APSLASVLVLFFLFGFSAGLFIVPLNALIQFRA 351
Query: 220 ----LAEIIPPTSLVVSLSISILLSLTVFFLLLAEIIPPTSL-----VVPLLGKFVLFTM 270
L +++ + + ++ + + L+LT F L + P L +V L+G +
Sbjct: 352 PEKELGKVLAANNFLQNVGMLLFLALTTLFSGLG--LSPAGLFYLIALVTLIGTLYTLLL 409
Query: 271 ILDTFSICVTVVVLNIHFR 289
+ D+ + +++++ +R
Sbjct: 410 LPDSLLRFLLLLLMHTRYR 428
>gnl|CDD|237702 PRK14399, PRK14399, membrane protein; Provisional.
Length = 258
Score = 29.1 bits (65), Expect = 5.2
Identities = 21/94 (22%), Positives = 39/94 (41%)
Query: 165 ITMRRKTLFYTVNLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEII 224
++M LF + IPC+ Y G+ VS + +L + +L++ I+
Sbjct: 82 LSMIPNELFSQTSYFIPCIFALIGHCWPIYYKFKGGKAVSCFLGLLFVVNYLYLIIFLIV 141
Query: 225 PPTSLVVSLSISILLSLTVFFLLLAEIIPPTSLV 258
S+ +S +S+ + +LL IP V
Sbjct: 142 WFISVAISRKVSVASIFSAATILLIMWIPYLYGV 175
>gnl|CDD|223843 COG0772, FtsW, Bacterial cell division membrane protein [Cell
division and chromosome partitioning].
Length = 381
Score = 29.1 bits (66), Expect = 5.3
Identities = 25/132 (18%), Positives = 47/132 (35%), Gaps = 33/132 (25%)
Query: 173 FYTVNLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPT----- 227
F L+ +G+ +++ LP K S +I +L + + L+L +
Sbjct: 49 FLIRQLVWLLLGLILALLVILRLPLRFLRKRSFAI-LLYVIILLLLVLVLFFGSSVNGAK 107
Query: 228 ------------------SLVVSLSIS-------ILLSLTVFFLLLAEIIPPTSLVV--P 260
+L++ L+ I L +F L+ + P L++ P
Sbjct: 108 RWIALGGLSIQPSEFAKIALILYLAAYLSRKGDEIKSFLRLFLKLILLVALPALLILLQP 167
Query: 261 LLGKFVLFTMIL 272
LG +L IL
Sbjct: 168 DLGTALLLFAIL 179
>gnl|CDD|218549 pfam05308, Mito_fiss_reg, Mitochondrial fission regulator. In
eukaryotes, this family of proteins induces
mitochondrial fission.
Length = 248
Score = 28.9 bits (65), Expect = 5.6
Identities = 12/37 (32%), Positives = 16/37 (43%)
Query: 339 GTPTRPPGDLPLDDIESEPLDPLPPPIPPLPPMKKVS 375
P+ P+ EP+ +PPP PP PP S
Sbjct: 161 SVPSSSTTSFPISPPTEEPVLEVPPPPPPPPPPPPPS 197
Score = 28.6 bits (64), Expect = 7.6
Identities = 10/34 (29%), Positives = 14/34 (41%)
Query: 338 HGTPTRPPGDLPLDDIESEPLDPLPPPIPPLPPM 371
T + P + + P P PPP PP P +
Sbjct: 165 SSTTSFPISPPTEEPVLEVPPPPPPPPPPPPPSL 198
Score = 28.2 bits (63), Expect = 8.4
Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 4/46 (8%)
Query: 325 DMDPSQHQSTCKVHGTPTRPPGDLPLDDIESEPLDPLPPPIPPLPP 370
D +T P PP + P+ ++ P P PPP P L
Sbjct: 159 DESVPSSSTT----SFPISPPTEEPVLEVPPPPPPPPPPPPPSLQQ 200
>gnl|CDD|165539 PHA03282, PHA03282, envelope glycoprotein E; Provisional.
Length = 540
Score = 29.1 bits (65), Expect = 5.8
Identities = 20/62 (32%), Positives = 25/62 (40%), Gaps = 6/62 (9%)
Query: 339 GTPTRPPGDLPLDDIESEPLDPLPPPIPPLPPMKKVSHHWHLCPELHKAIAGVRFIADHT 398
PT P G P DD E + P PPL P + H H E +A VR +
Sbjct: 164 PVPTPPGGTPPPDDDEGDEAGAPATPAPPLHP--PPAPHPHPIAE----VAHVRGVTVSL 217
Query: 399 KT 400
+T
Sbjct: 218 RT 219
>gnl|CDD|226512 COG4025, COG4025, Predicted membrane protein [Function unknown].
Length = 284
Score = 29.0 bits (65), Expect = 5.9
Identities = 12/59 (20%), Positives = 25/59 (42%)
Query: 201 EKVSLSISILLSLTVFFLLLAEIIPPTSLVVSLSISILLSLTVFFLLLAEIIPPTSLVV 259
E L + + L + F++L EI+ + L+ IL + F L+ + + +
Sbjct: 94 ELPVLRLQLSFLLFLVFVILEEIVLISMLLWEPLALILAFVLEFLLIRYTRVSNSEDIH 152
>gnl|CDD|216110 pfam00771, FHIPEP, FHIPEP family.
Length = 658
Score = 28.9 bits (66), Expect = 6.3
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 426 LIIPSPAMVLDRLFLWIFTLAVLI 449
+I+P P +LD L + L++LI
Sbjct: 6 MILPLPPFLLDLLLAFNIALSLLI 29
>gnl|CDD|162338 TIGR01398, FlhA, flagellar biosynthesis protein FlhA. This model
describes flagellar biosynthesis protein FlhA, one of a
large number of genes associated with the biosynthesis
of functional bacterial flagella. Homologs of many such
proteins, including FlhA, function in type III protein
secretion systems. A separate model describes InvA
(Salmonella enterica), LcrD (Yersinia enterocolitica),
HrcV (Xanthomonas), etc., all of which score below the
noise cutoff for this model [Cellular processes,
Chemotaxis and motility].
Length = 678
Score = 29.2 bits (66), Expect = 6.3
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 426 LIIPSPAMVLDRLFLWIFTLAVLIGSAGIILQAPT 460
+I+P PA +LD L L++LI + +Q P
Sbjct: 17 MILPLPAFLLDILLALNIALSLLILLVTLFIQKPL 51
>gnl|CDD|222703 pfam14351, DUF4401, Domain of unknown function (DUF4401). This
family of proteins is found in bacteria. Proteins in
this family are typically between 357 and 735 amino
acids in length. The family is found in association with
pfam09925. There is a single completely conserved
residue K that may be functionally important.
Length = 321
Score = 28.7 bits (65), Expect = 6.4
Identities = 18/91 (19%), Positives = 33/91 (36%), Gaps = 3/91 (3%)
Query: 182 CMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPTSLVVSLSISILLSL 241
+ ++ +L F L E V ++ LL L + LL ++P L + + +L+L
Sbjct: 65 ALSLAGQLLLAFGLFDLLDESV---LAALLLLALILALLYFLMPDRLLRFLSAAAGVLAL 121
Query: 242 TVFFLLLAEIIPPTSLVVPLLGKFVLFTMIL 272
L L+ V + L
Sbjct: 122 LGLLAELLLSGLAYLLLPLAPLLLVALFVFL 152
>gnl|CDD|217393 pfam03154, Atrophin-1, Atrophin-1 family. Atrophin-1 is the
protein product of the dentatorubral-pallidoluysian
atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
neurodegenerative disorder. It is caused by the
expansion of a CAG repeat in the DRPLA gene on
chromosome 12p. This results in an extended
polyglutamine region in atrophin-1, that is thought to
confer toxicity to the protein, possibly through
altering its interactions with other proteins. The
expansion of a CAG repeat is also the underlying defect
in six other neurodegenerative disorders, including
Huntington's disease. One interaction of expanded
polyglutamine repeats that is thought to be pathogenic
is that with the short glutamine repeat in the
transcriptional coactivator CREB binding protein, CBP.
This interaction draws CBP away from its usual nuclear
location to the expanded polyglutamine repeat protein
aggregates that are characteristic of the polyglutamine
neurodegenerative disorders. This interferes with
CBP-mediated transcription and causes cytotoxicity.
Length = 979
Score = 29.3 bits (65), Expect = 6.8
Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 328 PSQHQSTCKVHGTPTRPPGDLPLDDIESEPLDPLPPPIPPLPPMKKVSH 376
P H + P +PP + PL S P PPP P+P + SH
Sbjct: 315 PHSHTPPSQSALQPQQPPREQPLPPAPSMP-HIKPPPTTPIPQLPNQSH 362
>gnl|CDD|218364 pfam04987, PigN, Phosphatidylinositolglycan class N (PIG-N).
Phosphatidylinositolglycan class N (PIG-N) is a
mammalian homologue of the yeast protein MCD4P and is
expressed in the endoplasmic reticulum. PIG-N is
essential for glycosylphosphatidylinositol anchor
synthesis. Glycosylphosphatidylinositol (GPI)-anchored
proteins are cell surface-localised proteins that serve
many important cellular functions.
Length = 441
Score = 28.8 bits (65), Expect = 6.9
Identities = 22/106 (20%), Positives = 37/106 (34%), Gaps = 7/106 (6%)
Query: 174 YTVNLIIPCMGISFLTILVFYLPSDSGEKVSLSISILLSLTVFFLLLAEIIPPTSLVVSL 233
++ +I F +G L + + L L+VF LL A L+ L
Sbjct: 136 LSLLFLIFAFWPLLNGRRAF---RRNGLLSLLWLLLCLLLSVFTLLPASKGESLPLI--L 190
Query: 234 SISILLSLTVFFLLLAE--IIPPTSLVVPLLGKFVLFTMILDTFSI 277
ILL + LL E + + + +L I+ S+
Sbjct: 191 LGGILLVVVGPLYLLFERSGSRHSRRLWGIQILLLLLAAIVTRSSV 236
>gnl|CDD|234014 TIGR02786, addB_alphas, double-strand break repair protein AddB,
alphaproteobacterial type. AddAB is a system well
described in the Firmicutes as a replacement for RecBCD
in many prokaryotes for the repair of double stranded
break DNA damage. More recently, a distantly related
gene pair conserved in many alphaproteobacteria was
shown also to function in double-stranded break repair
in Rhizobium etli. This family consists of AddB proteins
of the alphaproteobacteial type [DNA metabolism, DNA
replication, recombination, and repair].
Length = 1021
Score = 28.9 bits (65), Expect = 7.1
Identities = 11/30 (36%), Positives = 13/30 (43%), Gaps = 4/30 (13%)
Query: 343 RPPGDLPLDDIESEPL----DPLPPPIPPL 368
RP GD+ D+ LPP I PL
Sbjct: 73 RPLGDVDEDEALFAAEGPAILDLPPAISPL 102
>gnl|CDD|113585 pfam04819, DUF716, Family of unknown function (DUF716). This
family is equally distributed in both metazoa and
plants. Annotation associated with a member from
Nicotiana tabacum suggest that it may be involved in
response to viral attack in plants. However, no clear
function has been assigned to this family.
Length = 137
Score = 27.7 bits (62), Expect = 8.0
Identities = 18/58 (31%), Positives = 24/58 (41%), Gaps = 3/58 (5%)
Query: 187 FLTILVFYLPSDSGEKVSLSISILLSLTVF---FLLLAEIIPPTSLVVSLSISILLSL 241
+L+FY S + LL L VF L E++ P S + L S LL L
Sbjct: 15 AQELLLFYFHSHDHSGLEGHYHSLLLLVVFLCALSTLLEVLLPRSFPLELLRSALLLL 72
>gnl|CDD|224173 COG1253, TlyC, Hemolysins and related proteins containing CBS
domains [General function prediction only].
Length = 429
Score = 28.4 bits (64), Expect = 8.5
Identities = 9/47 (19%), Positives = 19/47 (40%)
Query: 207 ISILLSLTVFFLLLAEIIPPTSLVVSLSISILLSLTVFFLLLAEIIP 253
+S+LL L A + P + + +T ++ E++P
Sbjct: 70 VSLLLGAVGEPALAALLEPLLEALGLSAALSFAIITFLHVVFGELVP 116
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
0.324 0.140 0.444
Gapped
Lambda K H
0.267 0.0647 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 25,717,453
Number of extensions: 2585730
Number of successful extensions: 3562
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3446
Number of HSP's successfully gapped: 245
Length of query: 488
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 387
Effective length of database: 6,457,848
Effective search space: 2499187176
Effective search space used: 2499187176
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: 41 (22.0 bits)
S2: 61 (27.4 bits)