RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5985
(153 letters)
>gnl|CDD|233884 TIGR02478, 6PF1K_euk, 6-phosphofructokinase, eukaryotic type.
Members of this family are eukaryotic (with one
exception) ATP-dependent 6-phosphofructokinases (EC
2.7.1.11) in which two tandem copies of the
phosphofructokinase are found. Members are found, often
including several isozymes, in animals and fungi and in
the bacterium Propionibacterium acnes KPA171202 (a human
skin commensal).
Length = 746
Score = 154 bits (391), Expect = 2e-44
Identities = 58/92 (63%), Positives = 67/92 (72%)
Query: 39 FALKTMGGYCGYLATVAGLAGGADAAYIYEEKFSIKDLQQDLYHMASKMAEGVQRGLILR 98
F ++TMGGY GYLAT+AGLA GADAAYI EE S+KDLQ+D+ H+ AEG LILR
Sbjct: 557 FVVETMGGYSGYLATMAGLATGADAAYIPEEGISLKDLQEDIEHLKETFAEGRAGKLILR 616
Query: 99 NEKCNDNYNTDFIYRLYSEEGKGLFSARQNVL 130
NEK + Y TDFI R+ SEEGKG F AR VL
Sbjct: 617 NEKASKVYTTDFIARIISEEGKGRFDARTAVL 648
Score = 58.9 bits (143), Expect = 7e-11
Identities = 21/44 (47%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 1 MLGTKRTLPEKKLPQIAAKLKELKIQALLIIGGFEVSFFALKTM 44
LGT R+LP L IA ++ KI L+IIGGFE +F AL +
Sbjct: 455 ELGTNRSLPGDDLGTIAYYFQQHKIDGLIIIGGFE-AFEALYQL 497
Score = 42.3 bits (100), Expect = 3e-05
Identities = 15/31 (48%), Positives = 21/31 (67%)
Query: 39 FALKTMGGYCGYLATVAGLAGGADAAYIYEE 69
F ++ MG +CGYLA +A +A GAD +I E
Sbjct: 188 FVVEVMGRHCGYLALMAAIATGADYVFIPER 218
>gnl|CDD|238389 cd00764, Eukaryotic_PFK, Phosphofructokinase, a key regulatory
enzyme in glycolysis, catalyzes the phosphorylation of
fructose-6-phosphate to fructose-1,6-biphosphate. The
members belong to a subfamily of the PFKA family
(cd00363) and include eukaryotic ATP-dependent
phosphofructokinases. These have evolved from the
bacterial PFKs by gene duplication and fusion events and
exhibit complex allosteric behavior.
Length = 762
Score = 142 bits (360), Expect = 4e-40
Identities = 59/92 (64%), Positives = 74/92 (80%)
Query: 39 FALKTMGGYCGYLATVAGLAGGADAAYIYEEKFSIKDLQQDLYHMASKMAEGVQRGLILR 98
F ++TMGGYCGYLAT+ GLA GADAAY++EE F+I+DLQ+++ H+ KM + RGL+LR
Sbjct: 557 FIVETMGGYCGYLATMTGLAVGADAAYVFEEPFNIRDLQENVEHLTEKMKTTIGRGLVLR 616
Query: 99 NEKCNDNYNTDFIYRLYSEEGKGLFSARQNVL 130
NEKCN+NY T F Y LYSEEGKG+F R NVL
Sbjct: 617 NEKCNENYTTVFTYELYSEEGKGVFDCRTNVL 648
Score = 49.8 bits (119), Expect = 9e-08
Identities = 19/35 (54%), Positives = 24/35 (68%)
Query: 1 MLGTKRTLPEKKLPQIAAKLKELKIQALLIIGGFE 35
LGTKRTLP+K L IA ++ I L+I+GGFE
Sbjct: 455 ELGTKRTLPKKDLETIAYNFQKYGIDGLIIVGGFE 489
Score = 39.4 bits (92), Expect = 3e-04
Identities = 18/30 (60%), Positives = 22/30 (73%)
Query: 39 FALKTMGGYCGYLATVAGLAGGADAAYIYE 68
F L+ MG +CGYLA V+GLA GAD +I E
Sbjct: 191 FVLEVMGRHCGYLALVSGLATGADWIFIPE 220
>gnl|CDD|235111 PRK03202, PRK03202, 6-phosphofructokinase; Provisional.
Length = 320
Score = 47.0 bits (113), Expect = 6e-07
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 7/51 (13%)
Query: 44 MGGYCGYLATVAGLAGGADAAYIYEEKFSIKDLQQDLYHMASKMAEGVQRG 94
MG + G LA AG+AGGA+ I E F I++L +K+ +G +RG
Sbjct: 169 MGRHAGDLALHAGIAGGAEVILIPEVPFDIEEL-------CAKIKKGRERG 212
Score = 32.0 bits (74), Expect = 0.085
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 1 MLGTKRTLPEKKL---PQIAAKLKELKIQALLIIGG 33
+LG+ R K + LK+L I AL++IGG
Sbjct: 67 ILGSARFPEFKDEEGRAKAIENLKKLGIDALVVIGG 102
>gnl|CDD|109425 pfam00365, PFK, Phosphofructokinase.
Length = 279
Score = 46.2 bits (110), Expect = 1e-06
Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 7/56 (12%)
Query: 39 FALKTMGGYCGYLATVAGLAGGADAAYIYEEKFSIKDLQQDLYHMASKMAEGVQRG 94
F ++ MG +CG LA VAG+AGGAD +I E F ++ + +++ G +RG
Sbjct: 164 FVVEVMGRHCGDLALVAGIAGGADYIFIPEAPFWEEE-------LCNRLKRGRERG 212
>gnl|CDD|238216 cd00363, PFK, Phosphofructokinase, a key regulatory enzyme in
glycolysis, catalyzes the phosphorylation of
fructose-6-phosphate to fructose-1,6-biphosphate. The
members belong to PFK family that includes ATP- and
pyrophosphate (PPi)- dependent phosphofructokinases.
Some members evolved by gene duplication and thus have a
large C-terminal/N-terminal extension comprising a
second PFK domain. Generally, ATP-PFKs are allosteric
homotetramers, and PPi-PFKs are dimeric and
nonallosteric except for plant PPi-PFKs which are
allosteric heterotetramers.
Length = 338
Score = 46.1 bits (110), Expect = 1e-06
Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 4/56 (7%)
Query: 39 FALKTMGGYCGYLATVAGLAGGADAAYIYEEKFSIKDLQQDLYHMASKMAEGVQRG 94
F ++ MG +CG +A AGLA GAD +I EE + + ++ M + + +RG
Sbjct: 169 FVVEVMGRHCGDIALEAGLATGADIIFIPEEPAADEWEEE----MVDVIKKRRERG 220
Score = 26.1 bits (58), Expect = 10.0
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 5/37 (13%)
Query: 1 MLGTKRTLPEKKLPQIAAK----LKELKIQALLIIGG 33
++G+ R E + + AK LK+ I AL++IGG
Sbjct: 66 IIGSARC-KEFRTEEGRAKAAENLKKHGIDALVVIGG 101
>gnl|CDD|238388 cd00763, Bacterial_PFK, Phosphofructokinase, a key regulatory
enzyme in glycolysis, catalyzes the phosphorylation of
fructose-6-phosphate to fructose-1,6-biphosphate. The
members belong to a subfamily of the PFKA family
(cd00363) and include bacterial ATP-dependent
phosphofructokinases. These are allosrterically
regulated homotetramers; the subunits are of about 320
amino acids.
Length = 317
Score = 40.5 bits (95), Expect = 1e-04
Identities = 18/56 (32%), Positives = 33/56 (58%), Gaps = 7/56 (12%)
Query: 39 FALKTMGGYCGYLATVAGLAGGADAAYIYEEKFSIKDLQQDLYHMASKMAEGVQRG 94
++ MG +CG +A AG+AGGA+ I E +F +++ A+++ G++RG
Sbjct: 163 SVVEVMGRHCGDIALAAGIAGGAEFIVIPEAEFDREEV-------ANRIKAGIERG 211
>gnl|CDD|223283 COG0205, PfkA, 6-phosphofructokinase [Carbohydrate transport and
metabolism].
Length = 347
Score = 40.3 bits (95), Expect = 1e-04
Identities = 20/61 (32%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 38 FFALKTMGGYCGYLATVAGLAGGADAAYIYEEKFSIKDLQQDLYHMASKM-AEGVQRGLI 96
F ++ MG + G+LA AGLA GAD I EE + +++ + + +K A G + +I
Sbjct: 165 IFIVEVMGRHAGWLALAAGLATGADIILIPEEPADL-IIEELIAEIKAKREARGKKHAII 223
Query: 97 L 97
+
Sbjct: 224 V 224
Score = 31.8 bits (73), Expect = 0.11
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 1 MLGTKR---TLPEKKLPQIAAKLKELKIQALLIIGG 33
LG+ R E+ A LK+L I AL++IGG
Sbjct: 68 FLGSARFPEFKTEEGRKVAAENLKKLGIDALVVIGG 103
>gnl|CDD|213713 TIGR02482, PFKA_ATP, 6-phosphofructokinase. 6-phosphofructokinase
(EC 2.7.1.11) catalyzes the addition of phosphate from
ATP to fructose 6-phosphate to give fructose
1,6-bisphosphate. This represents a key control step in
glycolysis. This model hits bacterial ATP-dependent
6-phosphofructokinases which lack a beta-hairpin loop
present in TIGR02483 family members. TIGR02483 contains
members that are ATP-dependent as well as members that
are pyrophosphate-dependent. TIGR02477 represents the
pyrophosphate-dependent phosphofructokinase,
diphosphate--fructose-6-phosphate 1-phosphotransferase
(EC 2.7.1.90) [Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 301
Score = 37.7 bits (88), Expect = 0.001
Identities = 17/42 (40%), Positives = 24/42 (57%)
Query: 39 FALKTMGGYCGYLATVAGLAGGADAAYIYEEKFSIKDLQQDL 80
F ++ MG + G LA AG+A GA+ I E + I +L Q L
Sbjct: 163 FVIEVMGRHAGDLALYAGIATGAEIIIIPEFDYDIDELIQRL 204
Score = 26.5 bits (59), Expect = 6.7
Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 5/36 (13%)
Query: 2 LGTKRTLPEKKLP---QIAAK-LKELKIQALLIIGG 33
LGT R PE K + A + LK+L I+ L++IGG
Sbjct: 66 LGTAR-CPEFKTEEVREKAVENLKKLGIEGLVVIGG 100
>gnl|CDD|233887 TIGR02483, PFK_mixed, phosphofructokinase. Members of this family
that are characterized, save one, are
phosphofructokinases dependent on pyrophosphate (EC
2.7.1.90) rather than ATP (EC 2.7.1.11). The exception
is one of three phosphofructokinases from Streptomyces
coelicolor. Family members are both bacterial and
archaeal [Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 324
Score = 35.4 bits (82), Expect = 0.007
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 41 LKTMGGYCGYLATVAGLAGGADAAYIYEEKFSIKDL 76
++ MG + G++A +G+AGGAD I E F I +
Sbjct: 167 VEVMGRHAGWIALHSGIAGGADVILIPEIPFDIDSV 202
Score = 29.2 bits (66), Expect = 0.83
Identities = 17/36 (47%), Positives = 21/36 (58%), Gaps = 4/36 (11%)
Query: 2 LGTKRTLPEKK----LPQIAAKLKELKIQALLIIGG 33
LG+ RT P K +I A LKEL + AL+ IGG
Sbjct: 68 LGSSRTNPFKYEEDGDDKIVANLKELGLDALIAIGG 103
>gnl|CDD|235930 PRK07085, PRK07085, diphosphate--fructose-6-phosphate
1-phosphotransferase; Provisional.
Length = 555
Score = 31.8 bits (73), Expect = 0.12
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 1 MLGTKRTLPEKK--LPQIAAKLKELKIQALLIIGG 33
M+G+ RT E + +K+LK+ L+IIGG
Sbjct: 139 MIGSGRTKIETEEQKEACLETVKKLKLDGLVIIGG 173
>gnl|CDD|184487 PRK14071, PRK14071, 6-phosphofructokinase; Provisional.
Length = 360
Score = 31.6 bits (72), Expect = 0.14
Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 41 LKTMGGYCGYLATVAGLAGGADAAYIYEEKFSIKDLQQDLYHMASKMAEGVQRGLILRNE 100
L+ MG G++A AG+AGGAD I E ++++++ + + + EG L++ +E
Sbjct: 181 LEVMGRDAGHIALAAGIAGGADVILIPEIPYTLENVCK---KIRERQEEGKNFCLVVVSE 237
Query: 101 KC 102
Sbjct: 238 AV 239
>gnl|CDD|117002 pfam08423, Rad51, Rad51. Rad51 is a DNA repair and recombination
protein and is a homologue of the bacterial ATPase RecA
protein.
Length = 261
Score = 28.8 bits (65), Expect = 0.88
Identities = 18/60 (30%), Positives = 25/60 (41%), Gaps = 10/60 (16%)
Query: 75 DLQQDLYHMAS-KMAEGVQRGLILRNEKCNDNYNTDFIYRLYSEEGKGLFSARQNVLAKH 133
+ Q L A+ M+E LI+ + Y TDF G+G + RQ LAK
Sbjct: 121 EHQMQLLLQAAAMMSESRFALLIV--DSATALYRTDF-------SGRGELAERQQHLAKF 171
>gnl|CDD|185547 PTZ00304, PTZ00304, NADH dehydrogenase [ubiquinone] flavoprotein 1;
Provisional.
Length = 461
Score = 29.0 bits (65), Expect = 1.0
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 12/66 (18%)
Query: 52 ATVAGLAGGADAAYIY---EEKFSIKDLQQDLYHMASKMAEGVQRGLILRNEKCNDNYNT 108
A +AG A A AAYIY E + LQQ + E ++G + +N C Y+
Sbjct: 130 ALLAGFAMRARAAYIYIRGEFYNEARALQQ-------AIDEAYKKGFLGKN-ACGSGYDF 181
Query: 109 D-FIYR 113
D +++R
Sbjct: 182 DVYVHR 187
>gnl|CDD|119320 cd06574, TM_PBP1_branched-chain-AA_like, Transmembrane subunit
(TM) of Periplasmic Binding Protein (PBP)-dependent
ATP-Binding Cassette (ABC) transporters which are
involved in the uptake of branched-chain amino acids
(AAs), as well as TMs of transporters involved in the
uptake of monosaccharides including ribose, galactose,
and arabinose. These transporters generally bind type 1
PBPs. PBP-dependent ABC transporters consist of a PBP,
two TMs, and two cytoplasmic ABCs, and are mainly
involved in importing solutes from the environment. The
solute is captured by the PBP which delivers it to a
gated translocation pathway formed by the two TMs. The
two ABCs bind and hydrolyze ATP and drive the transport
reaction. This group includes Escherichia coli LivM and
LivH, two TMs which heterodimerize to form the
translocation pathway of the E. coli branched-chain AA
LIV-1/LS transporter. This transporter is comprised of
two TMs (LivM and LivH), two ABCs (LivG and LivF), and
one of two alternative PBPs, LivJ (LIV-BP) and LivK
(LS-BP). In addition to transporting branched-chain AAs
including leucine, isoleucine and valine, the E. coli
LIV-1/LS transporter is involved in the uptake of the
aromatic AA, phenylalanine. Included in this group are
proteins from transport systems that contain a single
TM which homodimerizes to generate the transmembrane
pore; for example E. coli RbsC, AlsC, and MglC, the TMs
of the high affinity ribose transporter, the D-allose
transporter and the galactose transporter,
respectively. The D-allose transporter may also to be
involved in low affinity ribose transport.
Length = 266
Score = 28.8 bits (65), Expect = 1.2
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 3/41 (7%)
Query: 39 FALKTMGGYCGYLATVAGLAGGADAAYIY---EEKFSIKDL 76
A+ + GY +LA +A + GA A + + I L
Sbjct: 36 AAILIVAGYNPWLALIAAILAGAAAGLVTGFLHTRLKINGL 76
>gnl|CDD|236332 PRK08668, PRK08668, NADH dehydrogenase subunit M; Validated.
Length = 610
Score = 28.4 bits (64), Expect = 1.7
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 20 LKEL-KIQALLIIGGFEVSFFALKT-MGGYCGYLATVAGLAGGADAAYIY 67
L+E+ KI L IG + + +KT G + + + G AA IY
Sbjct: 470 LQEINKIFGELGIGPIDYEGWEIKTGFGSWNALTVFILFVVGFIIAAIIY 519
>gnl|CDD|212035 cd10325, SLC5sbd_vSGLT, Vibrio parahaemolyticus Na(+)/galactose
cotransporter (vSGLT) and related proteins; solute
binding domain. vSGLT transports D-galactose,
D-glucose, and alpha-D-fucose, with a sugar specificity
in the order of D-galactose >D-fucose >D-glucose. It
transports one Na+ ion for each sugar molecule, and
appears to function as a monomer. vSGLT has 13
transmembrane helices (TMs): TM-1, an inverted topology
repeat: TMs1-5 and TMs6-10, and TMs 11-12 (TMs numbered
to conform to the solute carrier 6 family Aquifex
aeolicus LeuT). This subfamily belongs to the solute
carrier 5 (SLC5) transporter family.
Length = 523
Score = 28.0 bits (63), Expect = 2.1
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 25 IQ-ALLIIGGFEVSFFALKTMGGYCGYLATVAGLAGGA 61
IQ L++GG ++ AL +GG G + L
Sbjct: 178 IQVVFLVLGGLITTYIALSLLGGGEGKVFAGFTLLAAG 215
>gnl|CDD|176877 cd08868, START_STARD1_3_like, Cholesterol-binding START domain of
mammalian STARD1, -3 and related proteins. This
subfamily includes the steroidogenic acute regulatory
protein (StAR)-related lipid transfer (START) domains of
STARD1 (also known as StAR) and STARD3 (also known as
metastatic lymph node 64/MLN64). The START domain family
belongs to the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. This STARD1-like subfamily has a high affinity
for cholesterol. STARD1/StAR can reduce macrophage lipid
content and inflammatory status. It plays an essential
role in steroidogenic tissues: transferring the steroid
precursor, cholesterol, from the outer to the inner
mitochondrial membrane, across the aqueous space.
Mutations in the gene encoding STARD1/StAR can cause
lipid congenital adrenal hyperplasia (CAH), an autosomal
recessive disorder characterized by a steroid synthesis
deficiency and an accumulation of cholesterol in the
adrenal glands and the gonads. STARD3 may function in
trafficking endosomal cholesterol to a cytosolic
acceptor or membrane. In addition to having a
cytoplasmic START cholesterol-binding domain, STARD3
also contains an N-terminal MENTAL cholesterol-binding
and protein-protein interaction domain. The MENTAL
domain contains transmembrane helices and anchors MLN64
to endosome membranes. The gene encoding STARD3 is
overexpressed in about 25% of breast cancers.
Length = 208
Score = 27.3 bits (61), Expect = 2.8
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 107 NTDFIYRLYSEEGKGLFSARQNVLAKH 133
NTD Y++ +E G GL S R V +H
Sbjct: 93 NTDISYQVAAEAGGGLVSPRDFVSLRH 119
>gnl|CDD|217368 pfam03100, CcmE, CcmE. CcmE is the product of one of a cluster of
Ccm genes that are necessary for cytochrome c
biosynthesis in eubacteria. Expression of these proteins
is induced when the organisms are grown under anaerobic
conditions with nitrate or nitrite as the final electron
acceptor.
Length = 130
Score = 26.7 bits (60), Expect = 3.7
Identities = 10/17 (58%), Positives = 12/17 (70%), Gaps = 1/17 (5%)
Query: 121 GLFSARQNVLAKHDSAY 137
G+F A + VLAKHD Y
Sbjct: 111 GVFVADE-VLAKHDENY 126
>gnl|CDD|227295 COG4960, CpaA, Flp pilus assembly protein, protease CpaA
[Posttranslational modification, protein turnover,
chaperones / Intracellular trafficking and secretion].
Length = 168
Score = 26.6 bits (59), Expect = 4.1
Identities = 15/56 (26%), Positives = 20/56 (35%), Gaps = 7/56 (12%)
Query: 16 IAAKLKELKIQALLI-----IGGFEVSF--FALKTMGGYCGYLATVAGLAGGADAA 64
I A + + + + + F FAL MGG L V GL G A
Sbjct: 43 ILAPVAGMPLAGAGLSLAGAAIALALGFGLFALGVMGGGDVKLLAVLGLWLGPLQA 98
>gnl|CDD|131530 TIGR02477, PFKA_PPi, diphosphate--fructose-6-phosphate
1-phosphotransferase. Diphosphate--fructose-6-phosphate
1-phosphotransferase catalyzes the addition of phosphate
from diphosphate (PPi) to fructose 6-phosphate to give
fructose 1,6-bisphosphate (EC 2.7.1.90). The enzyme is
also known as pyrophosphate-dependent
phosphofructokinase. The usage of PPi-dependent enzymes
in glycolysis presumably frees up ATP for other
processes. TIGR02482 represents the ATP-dependent
6-phosphofructokinase enzyme contained within Pfam
pfam00365: Phosphofructokinase. This model hits
primarily bacterial, plant alpha, and plant beta
sequences [Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 539
Score = 26.9 bits (60), Expect = 4.4
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 4/36 (11%)
Query: 1 MLGTKRTLPEKKLPQIAAKL---KELKIQALLIIGG 33
++G+ RT E + Q A L K+LK+ L+IIGG
Sbjct: 136 IIGSGRTKIETE-EQFAKALTTAKKLKLDGLVIIGG 170
>gnl|CDD|100033 cd02197, HypE, HypE (Hydrogenase expression/formation protein).
HypE is involved in Ni-Fe hydrogenase biosynthesis.
HypE dehydrates its own carbamoyl moiety in an
ATP-dependent process to yield the enzyme thiocyanate.
The N-terminal domain of HypE is related to the
ATP-binding domains of the AIR synthases,
selenophosphate synthetase (SelD), and FGAM synthase and
is thought to bind ATP.
Length = 293
Score = 26.6 bits (60), Expect = 5.8
Identities = 27/72 (37%), Positives = 34/72 (47%), Gaps = 16/72 (22%)
Query: 33 GFEVS--FFALKTMGGYCGYLA---TVAGLA-GGAD-----AAYIYEEKFSIKDLQQDLY 81
F VS FF GG G LA TV LA GA +I EE F ++DL++ +
Sbjct: 45 SFVVSPLFFP----GGDIGKLAVCGTVNDLAMMGAKPLYLSLGFILEEGFPLEDLERIVK 100
Query: 82 HMASKMAE-GVQ 92
MA E GV+
Sbjct: 101 SMAEAAREAGVK 112
>gnl|CDD|153308 cd07624, BAR_SNX7_30, The Bin/Amphiphysin/Rvs (BAR) domain of
Sorting Nexins 7 and 30. BAR domains are dimerization,
lipid binding and curvature sensing modules found in
many different proteins with diverse functions. Sorting
nexins (SNXs) are Phox homology (PX) domain containing
proteins that are involved in regulating membrane
traffic and protein sorting in the endosomal system.
SNXs differ from each other in their lipid-binding
specificity, subcellular localization and specific
function in the endocytic pathway. A subset of SNXs also
contain BAR domains. The PX-BAR structural unit
determines the specific membrane targeting of SNXs. This
subfamily consists of SNX7, SNX30, and similar proteins.
The specific functions of SNX7 and SNX30 have not been
elucidated. BAR domains form dimers that bind to
membranes, induce membrane bending and curvature, and
may also be involved in protein-protein interactions.
Length = 200
Score = 26.2 bits (58), Expect = 6.6
Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 5/45 (11%)
Query: 100 EKCNDNYNTDFI-----YRLYSEEGKGLFSARQNVLAKHDSAYEE 139
E ++ F+ Y LYS+ K + R +++ + EE
Sbjct: 87 EVLLSDHEFVFLPPLREYLLYSDAVKDVLKRRDQFQIEYELSVEE 131
>gnl|CDD|233794 TIGR02239, recomb_RAD51, DNA repair protein RAD51. This eukaryotic
sequence family consists of RAD51, a protein involved in
DNA homologous recombination and repair. It is similar
in sequence the exclusively meiotic recombinase DMC1
(TIGR02238), to archaeal families RadA (TIGR02236) and
RadB (TIGR02237), and to bacterial RecA (TIGR02012).
Length = 316
Score = 25.8 bits (57), Expect = 9.8
Identities = 20/59 (33%), Positives = 26/59 (44%), Gaps = 10/59 (16%)
Query: 75 DLQQDLYHMASK-MAEGVQRGLILRNEKCNDNYNTDFIYRLYSEEGKGLFSARQNVLAK 132
D Q L A+ M+E R +L + Y TDF G+G SARQ LA+
Sbjct: 174 DHQLQLLQQAAAMMSE--SRFALLIVDSATALYRTDFS-------GRGELSARQMHLAR 223
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
0.318 0.136 0.380
Gapped
Lambda K H
0.267 0.0784 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,951,988
Number of extensions: 731413
Number of successful extensions: 744
Number of sequences better than 10.0: 1
Number of HSP's gapped: 744
Number of HSP's successfully gapped: 50
Length of query: 153
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 64
Effective length of database: 6,990,096
Effective search space: 447366144
Effective search space used: 447366144
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (24.9 bits)