RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10886
(320 letters)
>gnl|CDD|239585 cd03508, Delta4-sphingolipid-FADS-like, The Delta4-sphingolipid
Fatty Acid Desaturase (Delta4-sphingolipid-FADS)-like CD
includes the integral-membrane enzymes, dihydroceramide
Delta-4 desaturase, involved in the synthesis of
sphingosine; and the human membrane fatty acid (lipid)
desaturase (MLD), reported to modulate biosynthesis of
the epidermal growth factor receptor; and other related
proteins. These proteins are found in various eukaryotes
including vertebrates, higher plants, and fungi. Studies
show that MLD is localized to the endoplasmic reticulum.
As with other members of this superfamily, this domain
family has extensive hydrophobic regions that would be
capable of spanning the membrane bilayer at least twice.
Comparison of sequences also reveals the existence of
three regions of conserved histidine cluster motifs that
contain eight histidine residues: HXXXH, HXXHH, and
HXXHH. These histidine residues are reported to be
catalytically essential and proposed to be the ligands
for the iron atoms contained within the homolog,
stearoyl CoA desaturase.
Length = 289
Score = 463 bits (1194), Expect = e-166
Identities = 189/291 (64%), Positives = 231/291 (79%), Gaps = 3/291 (1%)
Query: 26 ILKKYPEIKKLFGSDPKFKYIVLSMVLVQFVSMYFLRNVSWPVLLTVAYCFGGVINHSLM 85
IL KYPEIKKLFG DP K++VL +VL+Q ++ Y LR+ SW +L VAY FGG INHSL
Sbjct: 1 ILAKYPEIKKLFGPDPLTKWVVLGVVLLQIITAYLLRDSSWWKILLVAYFFGGTINHSLF 60
Query: 86 LSIHEMAHNLAFGHSRPTANRILSLIANLPIGIPFAITFKYYHLEHHRYQGDEKLDTDIP 145
L+IHE++HNLAFG +P NR+ + ANLPIG+P++I+FK YHLEHHRY G++ LDTDIP
Sbjct: 61 LAIHEISHNLAFG--KPLWNRLFGIFANLPIGVPYSISFKKYHLEHHRYLGEDGLDTDIP 118
Query: 146 TYMEARLFCTTFGKFIWVCLQPFFYAFRPIFTYPKAPTALELFNTVVQISFDVFICYFLG 205
T E +LF T GK IWV LQPFFYA RP+F PK PT LE+ N VVQI+FD I YF G
Sbjct: 119 TEFEGKLFSTVLGKAIWVTLQPFFYALRPLFVRPKPPTRLEVINIVVQITFDYLIYYFFG 178
Query: 206 GRMLSYMLLGSLMAMGLHPVAGHFVSEHYMF-KKGYETYSYYGPLNWITFNVGYHNEHHD 264
+ L+Y+LLGS + GLHP+AGHF+SEHY+F KG ETYSYYGPLN +TFNVGYHNEHHD
Sbjct: 179 WKSLAYLLLGSFLGGGLHPLAGHFISEHYVFTGKGQETYSYYGPLNLLTFNVGYHNEHHD 238
Query: 265 FPAVPGSRLPMVKKIASEYYDNLPQHHSWSAVLYDFVMDPDIGPYARMKRK 315
FP +PG+RLP ++KIA E+YDNLPQH SW VLYDF+MD ++GPY+R+KRK
Sbjct: 239 FPYIPGTRLPKLRKIAPEFYDNLPQHTSWPRVLYDFIMDDNVGPYSRVKRK 289
>gnl|CDD|215316 PLN02579, PLN02579, sphingolipid delta-4 desaturase.
Length = 323
Score = 459 bits (1183), Expect = e-164
Identities = 178/311 (57%), Positives = 228/311 (73%), Gaps = 2/311 (0%)
Query: 5 VSRTDFEWTYTEEPHASRRKEILKKYPEIKKLFGSDPKFKYIVLSMVLVQFVSMYFLRNV 64
V TDF W+YT+EPHASRR+EIL KYP+IK+LFG DP + ++VL+Q + L +
Sbjct: 9 VMATDFFWSYTDEPHASRRREILSKYPQIKELFGPDPWAFPKIAAVVLLQLCTATLLHDA 68
Query: 65 SWPVLLTVAYCFGGVINHSLMLSIHEMAHNLAFGHSRPTANRILSLIANLPIGIPFAITF 124
WP +L VAY FGG +NH+L L+IHE++HNLAF P NR L + ANLPIGIP ++TF
Sbjct: 69 GWPKILLVAYFFGGFLNHNLFLAIHELSHNLAF--KTPVYNRWLGIFANLPIGIPMSVTF 126
Query: 125 KYYHLEHHRYQGDEKLDTDIPTYMEARLFCTTFGKFIWVCLQPFFYAFRPIFTYPKAPTA 184
+ YHLEHHR+QG + +D DIP+ EARL T K +WV LQ FFYA RP+F PK P
Sbjct: 127 QKYHLEHHRFQGVDGIDMDIPSQGEARLVRNTLSKIVWVFLQLFFYALRPLFVNPKPPGL 186
Query: 185 LELFNTVVQISFDVFICYFLGGRMLSYMLLGSLMAMGLHPVAGHFVSEHYMFKKGYETYS 244
E N + QI+FD + YF G + L+Y++L + + GLHP+AGHF+SEHY+F G ETYS
Sbjct: 187 WEFINLLTQIAFDAALVYFAGWKSLAYLILSTFLGGGLHPMAGHFISEHYVFNPGQETYS 246
Query: 245 YYGPLNWITFNVGYHNEHHDFPAVPGSRLPMVKKIASEYYDNLPQHHSWSAVLYDFVMDP 304
YYGPLN +T+NVGYHNEHHDFP +PGS+L VK+IA EYYDNL + SWS V+Y ++MDP
Sbjct: 247 YYGPLNLLTWNVGYHNEHHDFPRIPGSKLHKVKEIAPEYYDNLKSYKSWSQVIYMYIMDP 306
Query: 305 DIGPYARMKRK 315
IGP++RMKRK
Sbjct: 307 TIGPFSRMKRK 317
>gnl|CDD|117132 pfam08557, Lipid_DES, Sphingolipid Delta4-desaturase (DES).
Sphingolipids are important membrane signalling
molecules involved in many different cellular functions
in eukaryotes. Sphingolipid delta 4-desaturase
catalyzes the formation of (E)-sphing-4-enine. Some
proteins in this family have bifunctional delta
4-desaturase/C-4-hydroxylase activity. Delta
4-desaturated sphingolipids may play a role in early
signalling required for entry into meiotic and
spermatid differentiation pathways during Drosophila
spermatogenesis. This small domain associates with
FA_desaturase pfam00487 and appears to be specific to
sphingolipid delta 4-desaturase.
Length = 39
Score = 83.1 bits (206), Expect = 1e-20
Identities = 32/39 (82%), Positives = 32/39 (82%)
Query: 5 VSRTDFEWTYTEEPHASRRKEILKKYPEIKKLFGSDPKF 43
V R DF WTYTEEPHASRRKEILKKYPEIKKL G DP
Sbjct: 1 VVRDDFYWTYTEEPHASRRKEILKKYPEIKKLMGPDPLT 39
>gnl|CDD|215943 pfam00487, FA_desaturase, Fatty acid desaturase.
Length = 251
Score = 83.1 bits (205), Expect = 1e-18
Identities = 57/254 (22%), Positives = 94/254 (37%), Gaps = 28/254 (11%)
Query: 65 SWPVLLTVAYCFGGVINHSLMLSIHEMAHNLAFGHSRPTANRILSLIANLPIGIPFAITF 124
S +LL +A G++ L HE AH F N +L + L +GI ++ +
Sbjct: 1 SSWLLLLLALLLAGLLLGILGGLAHEAAHGALFR--SRRLNDLLGRLLALLLGISYS-AW 57
Query: 125 KYYHLEHHRYQGDEKLDTDIPTYMEAR-------------LFCTTFGKFIWVCLQPFFYA 171
+ HL HH + + D D R L+ G + + + F +
Sbjct: 58 RISHLRHHHHTNNPGKDPDSARRRLLRYALRRRLLGLGRLLYRFLLGVLLGLLVFLFRFR 117
Query: 172 FRPIFTYPKAPTALELFNTVVQISFDVFICYFLGGRMLSYMLLGSLMAMGLHPVAGHF-- 229
R + + L + ++ + + G L LL L+A+ L + +
Sbjct: 118 RRRLRKRRRRFRIRLLLLLALLLALALLLAGLGGWGALLLFLLPLLLALTLLLLVNYLEH 177
Query: 230 --------VSEHYMFKKGYETYSYYGPLNWITFNVGYHNEHHDFPAVPGSRLPMVKKIAS 281
+ +++ T S LNW+T N+ YH EHH FP VP RLP + +
Sbjct: 178 YGLDTEPERAARTWYERQLVTTSNSWVLNWLTGNLNYHIEHHLFPGVPWYRLPELHRRLR 237
Query: 282 EYYD--NLPQHHSW 293
E LP
Sbjct: 238 EELPEYGLPYRELR 251
>gnl|CDD|225779 COG3239, DesA, Fatty acid desaturase [Lipid metabolism].
Length = 343
Score = 67.5 bits (165), Expect = 1e-12
Identities = 44/255 (17%), Positives = 78/255 (30%), Gaps = 39/255 (15%)
Query: 51 VLVQFVSMYFLR-----NVSWPVLLTVAYCFGGVINHSLMLSIHEMAHNLAFGHSRPTAN 105
+ ++ L LL +A G++ L H+ H F N
Sbjct: 40 TFLALAGLWALLALSLAYWPSWWLLPLALLLAGLLLTGLFSVGHDCGHGSFF--KNRWIN 97
Query: 106 RILSLIANLPIGIPFAITFKYYHLEHHRYQGDEKLDTDIPTYMEA---------RLFCTT 156
++ +A + P ++ H +HH + D + +L
Sbjct: 98 DLIGHLAAALLLAPPV-FWRISHNQHHAHTNILDDDPETYVSYPEQLRRGPLRFQLIRLP 156
Query: 157 FGKFI------WVCLQPFFYAFRPIFTYPKAPTALELFNTVVQISFDVFICYFLGGRMLS 210
+ F + + F+ PKA L I + ++
Sbjct: 157 WLAFGFGPRWALLHFELLEKLFKRSGKAPKAAALATLL---AAIGLAALLALAFFWGLIP 213
Query: 211 YMLLGSLMAMGL-----------HPVAGHFVSEHYMFKKGYETYSYYGPLNWITFNVGYH 259
+L+G + + L H + S+ + L ++T N+ YH
Sbjct: 214 LLLVGLWLVLVLFVHHTFDLLPHHGLEDWQWSDRALN--ARSNVDAPPLLRFLTGNINYH 271
Query: 260 NEHHDFPAVPGSRLP 274
EHH FP VP RLP
Sbjct: 272 VEHHLFPDVPWYRLP 286
>gnl|CDD|238511 cd01060, Membrane-FADS-like, The membrane fatty acid desaturase
(Membrane_FADS)-like CD includes membrane FADSs, alkane
hydroxylases, beta carotene ketolases (CrtW-like),
hydroxylases (CrtR-like), and other related proteins.
They are present in all groups of organisms with the
exception of archaea. Membrane FADSs are non-heme,
iron-containing, oxygen-dependent enzymes involved in
regioselective introduction of double bonds in fatty
acyl aliphatic chains. They play an important role in
the maintenance of the proper structure and functioning
of biological membranes. Alkane hydroxylases are
bacterial, integral-membrane di-iron enzymes that share
a requirement for iron and oxygen for activity similar
to that of membrane FADSs, and are involved in the
initial oxidation of inactivated alkanes. Beta-carotene
ketolase and beta-carotene hydroxylase are carotenoid
biosynthetic enzymes for astaxanthin and zeaxanthin,
respectively. This superfamily domain has extensive
hydrophobic regions that would be capable of spanning
the membrane bilayer at least twice. Comparison of these
sequences also reveals three regions of conserved
histidine cluster motifs that contain eight histidine
residues: HXXX(X)H, HXX(X)HH, and HXXHH (an additional
conserved histidine residue is seen between clusters 2
and 3). Spectroscopic and genetic evidence point to a
nitrogen-rich coordination environment located in the
cytoplasm with as many as eight histidines coordinating
the two iron ions and a carboxylate residue bridging the
two metals in the Pseudomonas oleovorans alkane
hydroxylase (AlkB). In addition, the eight histidine
residues are reported to be catalytically essential and
proposed to be the ligands for the iron atoms contained
within the rat stearoyl CoA delta-9 desaturase.
Length = 122
Score = 50.9 bits (122), Expect = 4e-08
Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 6/83 (7%)
Query: 68 VLLTVAYCFGGVINHSLMLSIHEMAHNLAFGHSRPTANRILSLIANLPIGIPFAITFKYY 127
+LL + G + L + HE+ H F NR+L + L +G + ++
Sbjct: 1 LLLALLLGLLGGL--GLTVLAHELGHRSFFR--SRWLNRLLGALLGLALGGSY-GWWRRS 55
Query: 128 HLEHHRYQGDEKLDTDIP-TYME 149
H HHRY D D Y+E
Sbjct: 56 HRRHHRYTNTPGKDPDSAVNYLE 78
Score = 36.7 bits (85), Expect = 0.004
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 10/53 (18%)
Query: 224 PVAGHFVSEHYMFKKGYET---------YSYYGPLNWITFN-VGYHNEHHDFP 266
P + EHY + ++T S G LN + +GYHNEHH FP
Sbjct: 70 PDSAVNYLEHYGGDRPFDTDGEWLRTTDNSRNGWLNLLLTGGLGYHNEHHLFP 122
>gnl|CDD|239583 cd03506, Delta6-FADS-like, The Delta6 Fatty Acid Desaturase
(Delta6-FADS)-like CD includes the integral-membrane
enzymes: delta-4, delta-5, delta-6, delta-8,
delta-8-sphingolipid, and delta-11 desaturases found in
vertebrates, higher plants, fungi, and bacteria. These
desaturases are required for the synthesis of highly
unsaturated fatty acids (HUFAs), which are mainly
esterified into phospholipids and contribute to
maintaining membrane fluidity. While HUFAs may be
required for cold tolerance in bacteria, plants and
fish, the primary role of HUFAs in mammals is cell
signaling. These enzymes are described as front-end
desaturases because they introduce a double bond between
the pre-exiting double bond and the carboxyl (front) end
of the fatty acid. Various substrates are involved, with
both acyl-coenzyme A (CoA) and acyl-lipid desaturases
present in this CD. Acyl-lipid desaturases are localized
in the membranes of cyanobacterial thylakoid, plant
endoplasmic reticulum (ER), and plastid; and acyl-CoA
desaturases are present in ER membrane. ER-bound plant
acyl-lipid desaturases and acyl-CoA desaturases require
cytochrome b5 as an electron donor. Most of the
eukaryotic desaturase domains have an adjacent
N-terminal cytochrome b5-like domain. This domain family
has extensive hydrophobic regions that would be capable
of spanning the membrane bilayer at least twice.
Comparison of sequences also reveals the existence of
three regions of conserved histidine cluster motifs that
contain the residues: HXXXH, HXX(X)HH, and Q/HXXHH.
These histidine residues are reported to be
catalytically essential and proposed to be the ligands
for the iron atoms contained within the homolog,
stearoyl CoA desaturase.
Length = 204
Score = 49.6 bits (119), Expect = 3e-07
Identities = 36/230 (15%), Positives = 69/230 (30%), Gaps = 45/230 (19%)
Query: 72 VAYCFGGVINHSLMLSIHEMAHNLAFGHSRPTANRILSLIANLPIGIPFAITFKYYHLEH 131
+ G+ H+ H F + N++L L +G +K H H
Sbjct: 2 LLAILLGLFWAQGGFLAHDAGHGQVFKN--RWLNKLLGLTVGNLLGASAG-WWKNKHNVH 58
Query: 132 HRYQGDEKLDTDIPTYMEARLFCTTFGKFIWVCLQPFFYAFRPIFTYPKAPTALELFNTV 191
H Y D DI + F + F + ++ + +P
Sbjct: 59 HAYTNILGHDPDID-TLPLLARSEPA--FGKDQKKRFLHRYQHFYFFPLLA--------- 106
Query: 192 VQISFDVFICYFLGGRMLSYMLLGSLMAMGLHPVAGHFVSEHYMFKKGYETYSYY----- 246
+ + FL ++ + L + + HF +
Sbjct: 107 ------LLLLAFLVVQLAGGLWLAVVFQLN------HFGMPVEDPPGE-SKNDWLERQVL 153
Query: 247 ------GP--LNWITFNVGYHNEHHDFPAVPGSRL----PMVKKIASEYY 284
G L+W+ + Y EHH FP +P P+V+++ ++
Sbjct: 154 TTRNITGSPFLDWLHGGLNYQIEHHLFPTMPRHNYPKVAPLVRELCKKHG 203
>gnl|CDD|239591 cd03514, CrtR_beta-carotene-hydroxylase, Beta-carotene hydroxylase
(CrtR), the carotenoid zeaxanthin biosynthetic enzyme
catalyzes the addition of hydroxyl groups to the
beta-ionone rings of beta-carotene to form zeaxanthin
and is found in bacteria and red algae. Carotenoids are
important natural pigments; zeaxanthin and lutein are
the only dietary carotenoids that accumulate in the
macular region of the retina and lens. It is proposed
that these carotenoids protect ocular tissues against
photooxidative damage. CrtR does not show overall amino
acid sequence similarity to the beta-carotene
hydroxylases similar to CrtZ, an astaxanthin
biosynthetic beta-carotene hydroxylase. However, CrtR
does show sequence similarity to the green alga,
Haematococcus pluvialis, beta-carotene ketolase (CrtW),
which converts beta-carotene to canthaxanthin. Sequences
of the CrtR_beta-carotene-hydroxylase domain family, as
well as, the CrtW_beta-carotene-ketolase domain family
appear to be structurally related to membrane fatty acid
desaturases and alkane hydroxylases. They all share in
common extensive hydrophobic regions that would be
capable of spanning the membrane bilayer at least twice.
Comparison of these sequences also reveals three regions
of conserved histidine cluster motifs that contain eight
histidine residues: HXXXH, HXXHH, and HXXHH. These
histidine residues are reported to be catalytically
essential and proposed to be the ligands for the iron
atoms contained within homologs, stearoyl CoA desaturase
and alkane hydroxylase.
Length = 207
Score = 42.0 bits (99), Expect = 1e-04
Identities = 28/120 (23%), Positives = 50/120 (41%), Gaps = 9/120 (7%)
Query: 46 IVLSMVLVQFVSMYFLRNVSWPVLLTVAYCFGGVINHSLMLSIHEMAHNLAFGHSRPTAN 105
++SM LV ++S + P L V + + H IH+ +H A N
Sbjct: 3 FLISMALV-WLSTWGYVISYLP--LWVCFILNTLSLHLAGTVIHDASHKAA--SRNRWIN 57
Query: 106 RILSLIANLPIGIPFAITFKYYHLEHHRYQGDEKLDTD---IPTYMEARLFCTTFGKFIW 162
++ ++ +G PF + F+ H++HH + D + D D + + LF T I
Sbjct: 58 ELIGHVSAFFLGFPFPV-FRRVHMQHHAHTNDPEKDPDHFLLEWLVARSLFITLLVIAIL 116
>gnl|CDD|239587 cd03510, Rhizobitoxine-FADS-like, This CD includes the
dihydrorhizobitoxine fatty acid desaturase (RtxC)
characterized in Bradyrhizobium japonicum USDA110, and
other related proteins. Dihydrorhizobitoxine desaturase
is reported to be involved in the final step of
rhizobitoxine biosynthesis. This domain family appears
to be structurally related to the membrane fatty acid
desaturases and the alkane hydroxylases. They all share
in common extensive hydrophobic regions that would be
capable of spanning the membrane bilayer at least twice.
Comparison of sequences also reveals the existence of
three regions of conserved histidine cluster motifs that
contain eight histidine residues: HXXXH, HXX(X)HH, and
HXXHH. These histidine residues are reported to be
catalytically essential and proposed to be the ligands
for the iron atoms contained within homologs, stearoyl
CoA desaturase and alkane hydroxylase.
Length = 175
Score = 39.2 bits (92), Expect = 0.001
Identities = 22/76 (28%), Positives = 33/76 (43%), Gaps = 5/76 (6%)
Query: 65 SWPVLLTVAYCFGGVINHSLMLSIHEMAHNLAFGHSRPTANRILS-LIANLPIGIPFAIT 123
+W L G +L + +H+ AH L F N L +A +PI A
Sbjct: 17 NWLAYLLAVLLIGARQ-RALAILMHDAAHGLLF--RNRRLNDFLGNWLAAVPIFQSLA-A 72
Query: 124 FKYYHLEHHRYQGDEK 139
++ HL+HHR+ G E
Sbjct: 73 YRRSHLKHHRHLGTED 88
Score = 33.8 bits (78), Expect = 0.063
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 255 NVGYHNEHHDFPAVPGSRLPMVKKI 279
N+ YH EHH FPAVP LP +I
Sbjct: 150 NINYHLEHHLFPAVPFYNLPKAHRI 174
>gnl|CDD|239584 cd03507, Delta12-FADS-like, The Delta12 Fatty Acid Desaturase
(Delta12-FADS)-like CD includes the integral-membrane
enzymes, delta-12 acyl-lipid desaturases, oleate
12-hydroxylases, omega3 and omega6 fatty acid
desaturases, and other related proteins, found in a wide
range of organisms including higher plants, green algae,
diatoms, nematodes, fungi, and bacteria. The expression
of these proteins appears to be temperature dependent:
decreases in temperature result in increased levels of
fatty acid desaturation within membrane lipids
subsequently altering cell membrane fluidity. An
important enzyme for the production of polyunsaturates
in plants is the oleate delta-12 desaturase (Arabidopsis
FAD2) of the endoplasmic reticulum. This enzyme accepts
l-acyl-2-oleoyl-sn-glycero-3-phosphocholine as substrate
and requires NADH:cytochrome b oxidoreductase,
cytochrome b, and oxygen for activity. FAD2 converts
oleate(18:1) to linoleate (18:2) and is closely related
to oleate 12-hydroxylase which catalyzes the
hydroxylation of oleate to ricinoleate. Plastid-bound
desaturases (Arabidopsis delta-12 desaturase (FAD6),
omega-3 desaturase (FAD8), omega-6 desaturase (FAD6)),
as well as, the cyanobacterial thylakoid-bound FADSs
require oxygen, ferredoxin, and ferredoxin
oxidoreductase for activity. As in higher plants, the
cyanobacteria delta-12 (DesA) and omega-3 (DesB) FADSs
desaturate oleate (18:1) to linoleate (18:2) and
linoleate (18:2) to linolenate (18:3), respectively.
Omega-3 (DesB/FAD8) and omega-6 (DesD/FAD6) desaturases
catalyze reactions that introduce a double bond between
carbons three and four, and carbons six and seven,
respectively, from the methyl end of fatty acids. As
with other members of this superfamily, this domain
family has extensive hydrophobic regions that would be
capable of spanning the membrane bilayer at least twice.
Comparison of sequences also reveals the existence of
three regions of conserved histidine cluster motifs that
contain eight histidine residues: HXXXH, HXX(X)HH, and
HXXHH. These histidine residues are reported to be
catalytically essential and proposed to be the ligands
for the iron atoms contained within the homologue,
stearoyl CoA desaturase. Mutation of any one of four of
these histidines in the Synechocystis delta-12
acyl-lipid desaturase resulted in complete inactivity.
Length = 222
Score = 36.8 bits (86), Expect = 0.008
Identities = 53/241 (21%), Positives = 85/241 (35%), Gaps = 46/241 (19%)
Query: 47 VLSMVLVQFVSMYFLRNVSWPVLLTVAYCFGGVINHSLMLSIHEMAHNLAFGHSRPTANR 106
+L + L+ + L WP+ V F + L H+ H +F N
Sbjct: 14 ILLLALLALAASLLLSWWLWPLYWIVQGLFLTGL-FVLG---HDCGHG-SF-SDNRRLND 67
Query: 107 ILSLIANLPIGIPFAITFKYYHLEHHRYQGDEKLDTDIPTYMEARLFCTTFGKFIWVCLQ 166
I+ I + P+ +P+ +++ H HH + G L+ D +WV +
Sbjct: 68 IVGHILHSPLLVPYH-SWRISHNRHHAHTG--NLEGDE----------------VWVPVT 108
Query: 167 PFFYAFRPIFTYPKAPTALELFNTVVQISFDVFICYFLGGRMLSYML---LGSLMAMGL- 222
YA PK N + +S L +L Y L L + L
Sbjct: 109 EEEYA-----ELPKRLPYRLYRNPFLMLSLGWPYYLLLN--VLLYYLIPYLVVNAWLVLI 161
Query: 223 ------HPVAGHFVSEHYMFKK----GYETYSYYGPLNWITFNVGYHNEHHDFPAVPGSR 272
P + ++ + F + G Y G LNW+T +G H HH FP +P
Sbjct: 162 TYLQHTFPDIPWYRADEWNFAQAGLLGTVDRDYGGWLNWLTHIIGTHVAHHLFPRIPHYN 221
Query: 273 L 273
L
Sbjct: 222 L 222
>gnl|CDD|239588 cd03511, Rhizopine-oxygenase-like, This CD includes the putative
hydrocarbon oxygenase, MocD, a bacterial rhizopine
(3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and
other related proteins. It has been proposed that MocD,
MocE (Rieske-like ferredoxin), and MocF (ferredoxin
reductase) under the regulation of MocR, act in concert
to form a ferredoxin oxygenase system that demethylates
3-O-MSI to form scyllo-inosamine. This domain family
appears to be structurally related to the membrane fatty
acid desaturases and the alkane hydroxylases. They all
share in common extensive hydrophobic regions that would
be capable of spanning the membrane bilayer at least
twice. Comparison of sequences also reveals the
existence of three regions of conserved histidine
cluster motifs that contain eight histidine residues:
HXXXH, HXXHH, and HXXHH. These histidine residues are
reported to be catalytically essential and proposed to
be the ligands for the iron atoms contained within
homologs, stearoyl CoA desaturase and alkane
hydroxylase.
Length = 285
Score = 36.6 bits (85), Expect = 0.012
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 248 PLNWITFNVGYHNEHHDFPAVPGSRLP 274
PL ++ +N+ YH EHH +P+VP LP
Sbjct: 237 PLRFLYWNMPYHAEHHMYPSVPFHALP 263
Score = 36.2 bits (84), Expect = 0.017
Identities = 24/81 (29%), Positives = 31/81 (38%), Gaps = 12/81 (14%)
Query: 66 WPVLLT--VAYCFGGVINHSLMLSIHEMAHNLAFGHSRPTANRILSLIANLPIGIPFAIT 123
P L V Y L HE H AF +R N + IA L I +P
Sbjct: 45 LPAFLVYGVLYAA-------LFARWHECVHGTAF-ATR-WLNDAVGQIAGLMILLPP-DF 94
Query: 124 FKYYHLEHHRYQGDEKLDTDI 144
F++ H HHRY D ++
Sbjct: 95 FRWSHARHHRYTQIPGRDPEL 115
>gnl|CDD|239590 cd03513, CrtW_beta-carotene-ketolase, Beta-carotene
ketolase/oxygenase (CrtW, also known as CrtO), the
carotenoid astaxanthin biosynthetic enzyme, initially
catalyzes the addition of two keto groups to carbons C4
and C4' of beta-carotene. Carotenoids are important
natural pigments produced by many microorganisms and
plants. Astaxanthin is reported to be an antioxidant, an
anti-cancer agent, and an immune system stimulant. A
number of bacteria and green algae can convert
beta-carotene into astaxanthin by using several
ketocarotenoids as intermediates and CrtW and a
beta-carotene hydroxylase (CrtZ). CrtW initially
converts beta-carotene to canthaxanthin via echinenone,
and CrtZ initially mediates the conversion of
beta-carotene to zeaxanthin via beta-cryptoxanthin.
After a few more intermediates are formed, CrtW and CrtZ
act in combination to produce astaxanthin. Sequences of
this domain family appear to be structurally related to
membrane fatty acid desaturases and alkane hydroxylases.
They all share in common extensive hydrophobic regions
that are capable of spanning the membrane bilayer at
least twice. Comparison of these sequences also reveals
three regions of conserved histidine cluster motifs that
contain eight histidine residues: HXXXH, HXXHH, and
HXXHH. These histidine residues are reported to be
catalytically essential and proposed to be the ligands
for the iron atoms contained within homologs, stearoyl
CoA desaturase and alkane hydroxylase.
Length = 225
Score = 33.4 bits (77), Expect = 0.094
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 254 FNVGYHNEHHDFPAVPGSRLP 274
++ GYH+EHH P+ P RLP
Sbjct: 202 YHFGYHHEHHLSPSTPWWRLP 222
>gnl|CDD|178739 PLN03198, PLN03198, delta6-acyl-lipid desaturase; Provisional.
Length = 526
Score = 33.1 bits (75), Expect = 0.19
Identities = 64/306 (20%), Positives = 112/306 (36%), Gaps = 69/306 (22%)
Query: 25 EILKKYPEIKKLFGSDPKFKYIVLSMVLVQFVSMYFLRNVS-WPVLLTVAYC---FGGVI 80
E+LK + +++ LF + FK L V L N++ + + + C V+
Sbjct: 184 ELLKDFRDLRALFLREQLFKSSKLYYV------FKLLTNIAIFAASIAIICCSKSISAVL 237
Query: 81 NHSLMLSI---------HEMAHNLAFGHSRPTANRILSLIANLPIGIPFAITFKYYHLEH 131
+ M+++ H+ HN F +R + LI N +G + ++L H
Sbjct: 238 ASACMMALCFQQCGWLSHDFLHNQVF-ETRWLNEVVGYLIGNAVLGFSTGWWKEKHNLHH 296
Query: 132 -------HRYQG-DEKLDT--------DIPTYMEARLFCTT-------------FGKFIW 162
YQ DE +DT DI +E + F F + W
Sbjct: 297 AAPNECDQLYQPIDEDIDTLPLIAWSKDILATVENKTFLRILQYQHLFFMALLFFARGSW 356
Query: 163 VCLQPFFYAFRPIFTYPKAPTALELFNTVVQISFDVFI---CYFLGG----------RML 209
+ F+++R T AP L + + FI CY L G ++
Sbjct: 357 L-----FWSWRYTSTAKLAPADRLLEKGTILFHYFWFIGTACYLLPGWKPLVWMAVTELM 411
Query: 210 SYMLLGSLMAMGLHPVAGHFVSEHYMFKKGYETYSYYGPL--NWITFNVGYHNEHHDFPA 267
MLLG + + + + + S+ ++ + T + +W T + EHH FP
Sbjct: 412 CGMLLGFVFVLSHNGMEVYNKSKEFVNAQIVSTRDIKANIFNDWFTGGLNRQIEHHLFPT 471
Query: 268 VPGSRL 273
+P L
Sbjct: 472 MPRHNL 477
>gnl|CDD|239586 cd03509, DesA_FADS-like, Fatty acid desaturase protein family
subgroup, a delta-12 acyl-lipid desaturase-like,
DesA-like, yet uncharacterized subgroup of membrane
fatty acid desaturase proteins found in alpha-, beta-,
and gamma-proteobacteria. Sequences of this domain
family appear to be structurally related to membrane
fatty acid desaturases and alkane hydroxylases. They all
share in common extensive hydrophobic regions that would
be capable of spanning the membrane bilayer at least
twice. Comparison of these sequences also reveals three
regions of conserved histidine cluster motifs that
contain eight histidine residues: HXXXH, HXXHH, and
HXXHH. These histidine residues are reported to be
catalytically essential and proposed to be the ligands
for the iron atoms contained within homologs, stearoyl
CoA desaturase and alkane hydroxylase.
Length = 288
Score = 32.3 bits (74), Expect = 0.27
Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 16/84 (19%)
Query: 60 FLRNVSWPVLLTVAYCFGGVINHSLMLSIHEMAHNLAFGHSRPTANRILS-LIANLPIGI 118
FL L T+ ++ SL HE+ H GH PT +R ++ + P+ +
Sbjct: 20 FLLARLPLPLATLLLIPLAALHSSLQ---HELLH----GH--PTRSRWVNEALGYPPLAL 70
Query: 119 --PFAITFKYYHLEHHRYQGDEKL 140
P+ ++ HL HHR DE L
Sbjct: 71 WYPYTR-YRDTHLAHHR---DEDL 90
Score = 31.6 bits (72), Expect = 0.53
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 247 GPLNWITFNVGYHNEHHDFPAVPGSRLP 274
GPL + N H HHD P +P LP
Sbjct: 220 GPLRLLFLNNNLHVVHHDLPTLPWYDLP 247
>gnl|CDD|214903 smart00906, Fungal_trans, Fungal specific transcription factor
domain. This domain is found in a number of fungal
transcription factors including transcriptional
activator xlnR, yeast regulatory protein GAL4, and other
transcription proteins regulating a variety of cellular
and metabolic processes.
Length = 93
Score = 30.5 bits (69), Expect = 0.31
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 4/38 (10%)
Query: 190 TVVQISFDVFICYFLGGRMLSYMLLGSLM----AMGLH 223
VQ + +LGGR ++MLLG + A+GLH
Sbjct: 3 ETVQALLLALLSLYLGGRDAAWMLLGLAIRLAQALGLH 40
>gnl|CDD|216344 pfam01175, Urocanase, Urocanase.
Length = 545
Score = 31.4 bits (72), Expect = 0.63
Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 143 DIPTYMEA--R-LFCTTFGKFIWVCL 165
D P ++ A R LFC G F WV L
Sbjct: 330 DFPGFVPAYIRPLFCEGKGPFRWVAL 355
>gnl|CDD|235448 PRK05414, PRK05414, urocanate hydratase; Provisional.
Length = 556
Score = 31.3 bits (72), Expect = 0.81
Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 143 DIPTYMEA--R-LFCTTFGKFIWVCL 165
D P ++ A R LFC G F WV L
Sbjct: 341 DFPGFVPAYIRPLFCEGKGPFRWVAL 366
>gnl|CDD|240430 PTZ00473, PTZ00473, Plasmodium Vir superfamily; Provisional.
Length = 420
Score = 29.8 bits (67), Expect = 1.9
Identities = 50/223 (22%), Positives = 76/223 (34%), Gaps = 70/223 (31%)
Query: 23 RKEILKKYPEIKKLFGSDPKFKYIVLSMVLVQFVSMYFLRNVSWPVLLTVAYCFGGVINH 82
+K ILK + + KKL+ ++ + + I M L YF NV G I
Sbjct: 117 QKNILKNFNKFKKLYENNYELEDI---MKL-----FYFTENV-------------GDI-K 154
Query: 83 SLMLSIHEMAHNLA-------------FGHSR-----PTANRILSLIANLPIGIPFAITF 124
SLM + + + + + R ++ L F +
Sbjct: 155 SLMGAPDNEHYASSCKFVNDCLDIYRKYKDEKCSGNSYNTFRGSTICNELN---NFFDKY 211
Query: 125 K---YYHLEHHRYQGDEKLDTDIPTYMEARLFCTTFGKFIWVCLQPFFYAFRPIFT-YPK 180
K Y L+ +R E L I T AR+ C + Y P F+ +
Sbjct: 212 KEHLYPPLK-YRRILIESLGDGIDT---ARVQCKVCER---------EYGSNPFFSFFAN 258
Query: 181 APTALELFNTVVQISFDVFICYFLGGRMLSYML-----LGSLM 218
L F V+ ISF LGG + ++L LGSL
Sbjct: 259 YKPDLSSFGKVLVISFSA-----LGGSLSLFILYKFTPLGSLF 296
>gnl|CDD|185279 PRK15381, PRK15381, pathogenicity island 2 effector protein SseJ;
Provisional.
Length = 408
Score = 29.2 bits (65), Expect = 3.2
Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 9/73 (12%)
Query: 240 YETYSYYGPLNWITFNVGYHNE----HHDFPAVPGSRLPMVKKIASEYYDNLPQ-----H 290
YET + + N+GY E HH + VPG++ P + +++L H
Sbjct: 331 YETADAFKVIMEAASNIGYDTENPYTHHGYVHVPGAKDPQLDICPQYVFNDLVHPTQEVH 390
Query: 291 HSWSAVLYDFVMD 303
H ++ +L F+
Sbjct: 391 HCFAIMLESFIAH 403
>gnl|CDD|200502 cd11241, Sema_5, The Sema domain, a protein interacting module, of
semaphorin 5 (Sema5). Class 5 semaphorins are
transmembrane glycoproteins characterized by unique
thrombospondin specific repeats in the extracellular
region of the protein. There are three subfamilies in
class 5 semaphorins, namely 5A, 5B and 5C. Sema5A and
Sema5B function as guidance cues for optic and
corticofugal nerve development, respectively.
Sema5A-induced cell migration requires Met signaling.
Sema5C is an early development gene and may play a role
in odor-guided behavior. Sema5A is also implicated in
cancer. In a screening model for metastasis, the
Drosophila Sema5A ortholog, Dsema-5C, has been found to
be required in tumorigenicity and metastasis. Sema5A is
highly expressed in human pancreatic cancer cells and is
associated with tumor growth, invasion and metastasis.
Semaphorins are regulatory molecules involved in the
development of the nervous system and in axonal
guidance. They also play important roles in other
biological processes, such as angiogenesis, immune
regulation, respiration systems and cancer. The Sema
domain is located at the N-terminus and contains four
disulfide bonds formed by eight conserved cysteine
residues. It serves as a receptor-recognition and
-binding module.
Length = 438
Score = 28.7 bits (64), Expect = 4.4
Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 7/59 (11%)
Query: 146 TYMEARLFCTTFGKFIWVCLQPFFY-AFRPIFTYPKAPTALELFNTVVQISFDVFICYF 203
T+M+ARL C+ G+F PF+Y + F P+ +F T V IC F
Sbjct: 222 TFMKARLNCSLPGEF------PFYYNEIQGTFYLPETDLIYAVFTTNVNGIAGSAICAF 274
>gnl|CDD|225534 COG2987, HutU, Urocanate hydratase [Amino acid transport and
metabolism].
Length = 561
Score = 28.8 bits (65), Expect = 4.7
Identities = 11/26 (42%), Positives = 13/26 (50%), Gaps = 3/26 (11%)
Query: 143 DIPTYMEAR---LFCTTFGKFIWVCL 165
D P ++ A LFC G F WV L
Sbjct: 341 DFPGFVPAYIRPLFCEGIGPFRWVAL 366
>gnl|CDD|224646 COG1732, OpuBC, Periplasmic glycine betaine/choline-binding
(lipo)protein of an ABC-type transport system
(osmoprotectant binding protein) [Cell envelope
biogenesis, outer membrane].
Length = 300
Score = 28.4 bits (64), Expect = 5.6
Identities = 8/15 (53%), Positives = 13/15 (86%)
Query: 23 RKEILKKYPEIKKLF 37
R+E+LKK+PE+K +
Sbjct: 249 REEVLKKHPELKTIL 263
>gnl|CDD|224097 COG1176, PotB, ABC-type spermidine/putrescine transport system,
permease component I [Amino acid transport and
metabolism].
Length = 287
Score = 28.0 bits (63), Expect = 6.3
Identities = 13/47 (27%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 39 SDPKFKYIVLSMVLVQFVSMYFLRNVSWPVLLTVAYCFGGVINHSLM 85
S P+++ ++L +V++ F + +R +W V+L G+IN +L+
Sbjct: 96 SPPRWRNLLLLLVILPFWTSLLIRTYAWIVILGR----NGLINQALL 138
>gnl|CDD|224316 COG1398, OLE1, Fatty-acid desaturase [Lipid metabolism].
Length = 289
Score = 28.1 bits (63), Expect = 6.6
Identities = 25/85 (29%), Positives = 35/85 (41%), Gaps = 19/85 (22%)
Query: 193 QISFDVFICYFLGGRM-LSYMLLGSLM----AMGLHPVAGHFVSEHYMFKKGYETYS--- 244
QI +FI Y LGG + L + + L+ A GH++ GY +
Sbjct: 170 QIVLPLFIGYALGGWLGLIWGGVQRLVLVQHATWCVNSLGHYI--------GYRPFDCRD 221
Query: 245 YYGPLNW---ITFNVGYHNEHHDFP 266
W +TF G+HN HH FP
Sbjct: 222 TARNCWWVALVTFGEGWHNNHHAFP 246
>gnl|CDD|233132 TIGR00800, ncs1, NCS1 nucleoside transporter family. The
Nucleobase:Cation Symporter-1 (NCS1) Family (TC 2.A.39)
The NCS1 family consists of bacterial and yeast
transporters for nucleobases including purines and
pyrimidines. Members of this family possess twelve
putative transmembrane a-helical spanners (TMSs). At
least some of them have been shown to function in uptake
by substrate:H+ symport mechanism [Transport and binding
proteins, Nucleosides, purines and pyrimidines].
Length = 442
Score = 27.7 bits (62), Expect = 9.2
Identities = 10/53 (18%), Positives = 20/53 (37%), Gaps = 10/53 (18%)
Query: 211 YMLLGSLMAMGLHPVAGHFVSEHYMFKKGYE---------TYSYYGPLNWITF 254
L S+ L P+AG ++++++ ++GY YY
Sbjct: 360 TTFLSSIGGF-LSPIAGVMIADYFVVRRGYLHLTTLYSDSKGEYYPGGIKGVN 411
>gnl|CDD|224374 COG1457, CodB, Purine-cytosine permease and related proteins
[Nucleotide transport and metabolism].
Length = 442
Score = 27.7 bits (62), Expect = 9.3
Identities = 5/35 (14%), Positives = 14/35 (40%)
Query: 224 PVAGHFVSEHYMFKKGYETYSYYGPLNWITFNVGY 258
P G ++++++ ++ Y Y+ G
Sbjct: 345 PWGGVMIADYFIVRRRYSAYNIDDWEKGENLPGGV 379
>gnl|CDD|216094 pfam00747, Viral_DNA_bp, ssDNA binding protein. This protein is
found in herpesviruses and is needed for replication.
Length = 1111
Score = 27.7 bits (62), Expect = 9.8
Identities = 22/83 (26%), Positives = 33/83 (39%), Gaps = 16/83 (19%)
Query: 163 VCLQPFFYAFRPIFTYPKAPTALELFNTVVQ-ISFDVFICYFLG----GRMLSYMLLGSL 217
+ L P+ AF PI T+ + L V+Q ++ YF+ GR S L
Sbjct: 630 LDLNPYAQAFCPILTFLYYRSVL----AVLQDLALIQCHGYFVDNPVTGRNFSKWLTQQ- 684
Query: 218 MAMGLHPVAGHFVSEHYMFKKGY 240
+ G F S+ M KG+
Sbjct: 685 ----FQSILGRFFSD--MLNKGF 701
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
0.327 0.142 0.460
Gapped
Lambda K H
0.267 0.0660 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,109,814
Number of extensions: 1671488
Number of successful extensions: 2234
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2211
Number of HSP's successfully gapped: 61
Length of query: 320
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 223
Effective length of database: 6,635,264
Effective search space: 1479663872
Effective search space used: 1479663872
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 59 (26.6 bits)