RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17232
(313 letters)
>gnl|CDD|132802 cd06892, PX_SNX5_like, The phosphoinositide binding Phox Homology
domain of Sorting Nexins 5 and 6. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. Members of this subfamily
include SNX5, SNX6, and similar proteins. They contain a
Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane
curvature, C-terminal to the PX domain, similar to other
sorting nexins including SNX1-2. The PX-BAR structural
unit helps determine the specific membrane-targeting of
some SNXs. SNX5 and SNX6 may be components of the
retromer complex, a membrane coat multimeric complex
required for endosomal retrieval of lysosomal hydrolase
receptors to the Golgi, acting as a mammalian equivalent
of yeast Vsp17p.
Length = 141
Score = 226 bits (579), Expect = 3e-75
Identities = 104/139 (74%), Positives = 111/139 (79%)
Query: 34 LIVDISDALSEKEKVKFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYII 93
L VDISDALSE++KVKFTVHTK F V RQHEEFVWLHD ENE YAG II
Sbjct: 3 LQVDISDALSERDKVKFTVHTKTTLPTFQKPEFSVTRQHEEFVWLHDTLVENEDYAGLII 62
Query: 94 PPAPPRPDFDSSREKLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEMFLTRL 153
PPAPP+PDFD+SREKLQKLGEGEG+MTKEEF KMKQELEAEYLA FKKTVAMHE+FL RL
Sbjct: 63 PPAPPKPDFDASREKLQKLGEGEGSMTKEEFEKMKQELEAEYLAIFKKTVAMHEVFLRRL 122
Query: 154 AQHPVFRLDHQFHVFLQYN 172
A HPV R D F VFL+Y
Sbjct: 123 ASHPVLRNDANFRVFLEYE 141
>gnl|CDD|132825 cd07292, PX_SNX6, The phosphoinositide binding Phox Homology domain
of Sorting Nexin 6. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions. Sorting nexins (SNXs) make up the
largest group among PX domain containing proteins. They
are involved in regulating membrane traffic and protein
sorting in the endosomal system. The PX domain of SNXs
binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX6 forms a stable complex
with SNX1 and may be a component of the retromer
complex, a membrane coat multimeric complex required for
endosomal retrieval of lysosomal hydrolase receptors to
the Golgi, acting as a mammalian equivalent of yeast
Vsp17p. It interacts with the receptor serine/threonine
kinases from the transforming growth factor-beta family.
It also plays roles in enhancing the degradation of EGFR
and in regulating the activity of Na,K-ATPase through
its interaction with Translationally Controlled Tumor
Protein (TCTP). SNX6 harbors a Bin/Amphiphysin/Rvs (BAR)
domain, which detects membrane curvature, C-terminal to
the PX domain, similar to other sorting nexins including
SNX1-2. The PX-BAR structural unit helps determine the
specific membrane-targeting of some SNXs.
Length = 141
Score = 209 bits (533), Expect = 2e-68
Identities = 107/139 (76%), Positives = 116/139 (83%)
Query: 34 LIVDISDALSEKEKVKFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYII 93
L VDISDALSE++KVKFTVHTK F VVRQHEEF+WLHD F ENE YAGYII
Sbjct: 3 LQVDISDALSERDKVKFTVHTKSSLPNFKQNEFSVVRQHEEFIWLHDSFVENEDYAGYII 62
Query: 94 PPAPPRPDFDSSREKLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEMFLTRL 153
PPAPPRPDFD+SREKLQKLGEGEG+MTKEEF KMKQELEAEYLA FKKTVAMHE+FL R+
Sbjct: 63 PPAPPRPDFDASREKLQKLGEGEGSMTKEEFTKMKQELEAEYLAIFKKTVAMHEVFLCRV 122
Query: 154 AQHPVFRLDHQFHVFLQYN 172
A HP+ R D FHVFL+YN
Sbjct: 123 AAHPILRKDLNFHVFLEYN 141
>gnl|CDD|132824 cd07291, PX_SNX5, The phosphoinositide binding Phox Homology domain
of Sorting Nexin 5. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions. Sorting nexins (SNXs) make up the
largest group among PX domain containing proteins. They
are involved in regulating membrane traffic and protein
sorting in the endosomal system. The PX domain of SNXs
binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX5, abundantly expressed in
macrophages, regulates macropinocytosis, a process that
enables cells to internalize large amounts of external
solutes. It may also be a component of the retromer
complex, a membrane coat multimeric complex required for
endosomal retrieval of lysosomal hydrolase receptors to
the Golgi, acting as a mammalian equivalent of yeast
Vsp17p. It also binds the Fanconi anaemia
complementation group A protein (FANCA). SNX5 harbors a
Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane
curvature, C-terminal to the PX domain, similar to other
sorting nexins including SNX1-2. The PX-BAR structural
unit helps determine the specific membrane-targeting of
some SNXs. The PX domain of SNX5 binds
phosphatidylinositol-3-phosphate (PI3P) and PI(3,4)P2.
SNX5 is localized to a subdomain of early endosome and
is recruited to the plasma membrane following EGF
stimulation and elevation of PI(3,4)P2 levels.
Length = 141
Score = 196 bits (500), Expect = 2e-63
Identities = 92/139 (66%), Positives = 106/139 (76%)
Query: 34 LIVDISDALSEKEKVKFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYII 93
L +DI DALSE++KVKFTVHTK F V RQHE+F+WLHD E E YAG II
Sbjct: 3 LQIDIPDALSERDKVKFTVHTKTTLPSFQSPDFSVTRQHEDFIWLHDALIETEDYAGLII 62
Query: 94 PPAPPRPDFDSSREKLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEMFLTRL 153
PPAPP+PDFD REK+QKLGEGEG+MTKEEF KMKQELEAEYLA FKKTV +HE+FL RL
Sbjct: 63 PPAPPKPDFDGPREKMQKLGEGEGSMTKEEFAKMKQELEAEYLAVFKKTVQVHEVFLQRL 122
Query: 154 AQHPVFRLDHQFHVFLQYN 172
+ HP D FH+FL+Y+
Sbjct: 123 SSHPSLSKDRNFHIFLEYD 141
>gnl|CDD|153305 cd07621, BAR_SNX5_6, The Bin/Amphiphysin/Rvs (BAR) domain of
Sorting Nexins 5 and 6. 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.
Members of this subfamily include SNX5, SNX6, the
mammalian SNX32, and similar proteins. SNX5 and SNX6 may
be components of the retromer complex, a membrane coat
multimeric complex required for endosomal retrieval of
lysosomal hydrolase receptors to the Golgi, acting as a
mammalian equivalent of yeast Vsp17p. The function of
SNX32 is still unknown. BAR domains form dimers that
bind to membranes, induce membrane bending and
curvature, and may also be involved in protein-protein
interactions.
Length = 219
Score = 87.8 bits (218), Expect = 2e-20
Identities = 33/58 (56%), Positives = 41/58 (70%)
Query: 188 GFLNSFSKTTDQVLLSHTVKDHNDFFENENNFLHEYHNHLKEATTRADRMTFKRKDAA 245
GFL S SK+ D+ LL KD ++FFE E NFL EYHN +K+AT +AD+MT K KD A
Sbjct: 1 GFLKSISKSADEELLLSGQKDVDEFFEQEKNFLVEYHNRIKDATAKADKMTRKHKDVA 58
Score = 77.8 bits (192), Expect = 5e-17
Identities = 30/36 (83%), Positives = 33/36 (91%)
Query: 243 DAAKRLLYRRLRCLADYENANRNLERARTKNKDVHA 278
AAK LLYRRLRCLA+YENAN+NLE+AR KNKDVHA
Sbjct: 120 QAAKDLLYRRLRCLANYENANKNLEKARAKNKDVHA 155
>gnl|CDD|216119 pfam00787, PX, PX domain. PX domains bind to phosphoinositides.
Length = 109
Score = 67.4 bits (165), Expect = 3e-14
Identities = 35/145 (24%), Positives = 50/145 (34%), Gaps = 39/145 (26%)
Query: 31 DNVLIVDISDALSEKEK---VKFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEA 87
D +L V + D +K + V TK + V R++ +F LH +
Sbjct: 1 DPILQVVVVDPEKSGKKHTYYLYEVTTKTNLKEWS-----VKRRYSDFEELHKQLLRK-- 53
Query: 88 YAGYIIPPAPPRPDFDSSREKLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHE 147
+ G IIPP PP+ F EEFI+ K E
Sbjct: 54 FPGRIIPPLPPKKLFGR---------------FSEEFIE--------------KRRKGLE 84
Query: 148 MFLTRLAQHPVFRLDHQFHVFLQYN 172
+L RL QHP FL+ +
Sbjct: 85 EYLQRLLQHPELSNSEVVLEFLESD 109
>gnl|CDD|132769 cd06859, PX_SNX1_2_like, The phosphoinositide binding Phox Homology
domain of Sorting Nexins 1 and 2. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. This subfamily consists of
SNX1, SNX2, and similar proteins. They harbor a
Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane
curvature, C-terminal to the PX domain. Both domains
have been shown to determine the specific
membrane-targeting of SNX1. SNX1 and SNX2 are components
of the retromer complex, a membrane coat multimeric
complex required for endosomal retrieval of lysosomal
hydrolase receptors to the Golgi. The retromer consists
of a cargo-recognition subcomplex and a subcomplex
formed by a dimer of sorting nexins (SNX1 and/or SNX2),
which ensures effcient cargo sorting by facilitating
proper membrane localization of the cargo-recognition
subcomplex.
Length = 114
Score = 65.3 bits (160), Expect = 2e-13
Identities = 40/123 (32%), Positives = 57/123 (46%), Gaps = 29/123 (23%)
Query: 48 VKFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSRE 107
V + V TK F V+R++ +F+WL++R E Y G I+PP P E
Sbjct: 19 VVYRVTTKTNLPDFKKSEFSVLRRYSDFLWLYERLVEK--YPGRIVPPPP---------E 67
Query: 108 KLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHV 167
K Q +G K EFI+ ++ A+ E FL R+A HPV R D F +
Sbjct: 68 K-QAVGR---FKVKFEFIEKRR-------------AAL-ERFLRRIAAHPVLRKDPDFRL 109
Query: 168 FLQ 170
FL+
Sbjct: 110 FLE 112
>gnl|CDD|153347 cd07663, BAR_SNX5, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexin 5. 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. SNX5, abundantly expressed in
macrophages, regulates macropinocytosis, a process that
enables cells to internalize large amounts of external
solutes. It may also be a component of the retromer
complex, a membrane coat multimeric complex required for
endosomal retrieval of lysosomal hydrolase receptors to
the Golgi, acting as a mammalian equivalent of yeast
Vsp17p. It also binds the Fanconi anaemia
complementation group A protein (FANCA). SNX5 is
localized to a subdomain of early endosome and is
recruited to the plasma membrane following EGF
stimulation and elevation of PI(3,4)P2 levels. BAR
domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions.
Length = 218
Score = 57.3 bits (138), Expect = 1e-09
Identities = 27/76 (35%), Positives = 43/76 (56%), Gaps = 3/76 (3%)
Query: 188 GFLNSFSKTTDQVLLSHTVKDHNDFFENENNFLHEYHNHLKEATTRADRMTFKRKDAAKR 247
GF + K+ D+VL S VK+ ++FFE E FL Y+N +K++ +AD+MT K+ A
Sbjct: 1 GFFKNMVKSADEVLFS-GVKEVDEFFEQEKTFLVNYYNRIKDSCAKADKMTRSHKNVADD 59
Query: 248 LLYRR--LRCLADYEN 261
++ L +A E
Sbjct: 60 YIHISAALNSVAAEEP 75
Score = 49.2 bits (117), Expect = 5e-07
Identities = 23/34 (67%), Positives = 29/34 (85%)
Query: 243 DAAKRLLYRRLRCLADYENANRNLERARTKNKDV 276
+AAK LLYRR R LADYEN+N+ L++AR K+KDV
Sbjct: 119 EAAKDLLYRRARALADYENSNKALDKARLKSKDV 152
>gnl|CDD|153346 cd07662, BAR_SNX6, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexin 6. 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. SNX6 forms a stable complex with SNX1
and may be a component of the retromer complex, a
membrane coat multimeric complex required for endosomal
retrieval of lysosomal hydrolase receptors to the Golgi,
acting as a mammalian equivalent of yeast Vsp17p. It
interacts with the receptor serine/threonine kinases
from the transforming growth factor-beta family. It also
plays roles in enhancing the degradation of EGFR and in
regulating the activity of Na,K-ATPase through its
interaction with Translationally Controlled Tumor
Protein (TCTP). BAR domains form dimers that bind to
membranes, induce membrane bending and curvature, and
may also be involved in protein-protein interactions.
Length = 218
Score = 52.7 bits (126), Expect = 4e-08
Identities = 27/57 (47%), Positives = 39/57 (68%), Gaps = 1/57 (1%)
Query: 189 FLNSFSKTTDQVLLSHTVKDHNDFFENENNFLHEYHNHLKEATTRADRMTFKRKDAA 245
F + K+ D V++S VKD +DFFE+E FL EYHN +K+++ ++DRMT K AA
Sbjct: 2 FFKNVVKSADGVIVS-GVKDVDDFFEHERTFLLEYHNRVKDSSAKSDRMTRSHKSAA 57
Score = 49.7 bits (118), Expect = 3e-07
Identities = 24/38 (63%), Positives = 28/38 (73%)
Query: 239 FKRKDAAKRLLYRRLRCLADYENANRNLERARTKNKDV 276
+ AAK LLYRR R L DYENAN+ L++AR KNKDV
Sbjct: 115 LRESQAAKDLLYRRSRSLVDYENANKALDKARAKNKDV 152
>gnl|CDD|132775 cd06865, PX_SNX_like, The phosphoinositide binding Phox Homology
domain of SNX-like proteins. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. Some SNXs are localized in
early endosome structures such as clathrin-coated pits,
while others are located in late structures of the
endocytic pathway. This subfamily is composed of
uncharacterized proteins, predominantly from plants,
with similarity to sorting nexins. A few members show a
similar domain architecture as a subfamily of sorting
nexins, containing a Bin/Amphiphysin/Rvs (BAR) domain,
which detects membrane curvature, C-terminal to the PX
domain. The PX-BAR structural unit is known to determine
specific membrane localization.
Length = 120
Score = 48.2 bits (115), Expect = 3e-07
Identities = 35/122 (28%), Positives = 47/122 (38%), Gaps = 30/122 (24%)
Query: 49 KFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSREK 108
K T T + V R+ + V L DR EAY G +PP P + +S
Sbjct: 27 KVTTRTNIPSY--THGEFTVRRRFRDVVALADRL--AEAYRGAFVPPRPDKSVVESQV-- 80
Query: 109 LQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHVF 168
M EFI+ ++ VA+ E +L RLA HPV L + VF
Sbjct: 81 ----------MQSAEFIE-------------QRRVAL-EKYLNRLAAHPVIGLSDELRVF 116
Query: 169 LQ 170
L
Sbjct: 117 LT 118
>gnl|CDD|132768 cd06093, PX_domain, The Phox Homology domain, a phosphoinositide
binding module. The PX domain is a phosphoinositide
(PI) binding module involved in targeting proteins to
membranes. Proteins containing PX domains interact with
PIs and have been implicated in highly diverse functions
such as cell signaling, vesicular trafficking, protein
sorting, lipid modification, cell polarity and division,
activation of T and B cells, and cell survival. Many
members of this superfamily bind
phosphatidylinositol-3-phosphate (PI3P) but in some
cases, other PIs such as PI4P or PI(3,4)P2, among
others, are the preferred substrates. In addition to
protein-lipid interaction, the PX domain may also be
involved in protein-protein interaction, as in the cases
of p40phox, p47phox, and some sorting nexins (SNXs). The
PX domain is conserved from yeast to humans and is found
in more than 100 proteins. The majority of PX
domain-containing proteins are SNXs, which play
important roles in endosomal sorting.
Length = 106
Score = 47.7 bits (114), Expect = 3e-07
Identities = 25/128 (19%), Positives = 47/128 (36%), Gaps = 35/128 (27%)
Query: 43 SEKEKVKFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDF 102
K+ V + + + V R++ +F LH++ ++ + G I+PP PP+ F
Sbjct: 13 GGKKYVVYIIEVTTQG----GEEWTVYRRYSDFEELHEKLKKK--FPGVILPPLPPKKLF 66
Query: 103 DSSREKLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLD 162
G + E + +++LE +L L HP R
Sbjct: 67 --------------GNLDPEFIEERRKQLEQ---------------YLQSLLNHPELRNS 97
Query: 163 HQFHVFLQ 170
+ FL+
Sbjct: 98 EELKEFLE 105
>gnl|CDD|132770 cd06860, PX_SNX7_30_like, The phosphoinositide binding Phox
Homology domain of Sorting Nexins 7 and 30. The PX
domain is a phosphoinositide (PI) binding module present
in many proteins with diverse functions. Sorting nexins
(SNXs) make up the largest group among PX domain
containing proteins. They are involved in regulating
membrane traffic and protein sorting in the endosomal
system. The PX domain of SNXs binds PIs and targets the
protein to PI-enriched membranes. SNXs differ from each
other in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. Some SNXs
are localized in early endosome structures such as
clathrin-coated pits, while others are located in late
structures of the endocytic pathway. This subfamily
consists of SNX7, SNX30, and similar proteins. They
harbor a Bin/Amphiphysin/Rvs (BAR) domain, which detects
membrane curvature, C-terminal to the PX domain, similar
to the sorting nexins SNX1-2, SNX4-6, SNX8, and SNX32.
Both domains have been shown to determine the specific
membrane-targeting of SNX1. The specific function of the
sorting nexins in this subfamily has yet to be
elucidated.
Length = 116
Score = 45.4 bits (108), Expect = 2e-06
Identities = 30/130 (23%), Positives = 47/130 (36%), Gaps = 40/130 (30%)
Query: 53 HTKKKEVYFLYRTV-------------IVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPR 99
H E Y YR V R++++F+WL + EE ++ +IIPP P
Sbjct: 11 HVTTLETYITYRVTTKTTRSEFDSSEYSVRRRYQDFLWLRQKLEE--SHPTHIIPPLP-- 66
Query: 100 PDFDSSREKLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVF 159
K + E++AT + + FL R+ +HPV
Sbjct: 67 --------------------EKHSVKGLLDRFSPEFVATRMRAL---HKFLNRIVEHPVL 103
Query: 160 RLDHQFHVFL 169
+ VFL
Sbjct: 104 SFNEHLKVFL 113
>gnl|CDD|132771 cd06861, PX_Vps5p, The phosphoinositide binding Phox Homology
domain of yeast sorting nexin Vps5p. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. Vsp5p is the yeast counterpart
of human SNX1 and is part of the retromer complex, which
functions in the endosome-to-Golgi retrieval of vacuolar
protein sorting receptor Vps10p, the Golgi-resident
membrane protein A-ALP, and endopeptidase Kex2. The PX
domain of Vps5p binds phosphatidylinositol-3-phosphate
(PI3P). Similar to SNX1, Vps5p contains a
Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane
curvature, C-terminal to the PX domain. Both domains
have been shown to determine the specific
membrane-targeting of SNX1.
Length = 112
Score = 43.9 bits (104), Expect = 8e-06
Identities = 31/123 (25%), Positives = 57/123 (46%), Gaps = 31/123 (25%)
Query: 48 VKFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSRE 107
+TV T+ F + V+R++ +F WL+ + + N + G I+PP P E
Sbjct: 19 TVYTVRTRTTSPNFEVSSFSVLRRYRDFRWLYRQLQNN--HPGVIVPPPP---------E 67
Query: 108 KLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHV 167
K Q +G + + F++ ++ A+ +M L ++A HPV + D F +
Sbjct: 68 K-QSVGRFD-----DNFVEQRR-------------AALEKM-LRKIANHPVLQKDPDFRL 107
Query: 168 FLQ 170
FL+
Sbjct: 108 FLE 110
>gnl|CDD|132817 cd07284, PX_SNX7, The phosphoinositide binding Phox Homology domain
of Sorting Nexin 7. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions. Sorting nexins (SNXs) make up the
largest group among PX domain containing proteins. They
are involved in regulating membrane traffic and protein
sorting in the endosomal system. The PX domain of SNXs
binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. Some SNXs are localized in
early endosome structures such as clathrin-coated pits,
while others are located in late structures of the
endocytic pathway. SNX7 harbors a Bin/Amphiphysin/Rvs
(BAR) domain, which detects membrane curvature,
C-terminal to the PX domain, similar to the sorting
nexins SNX1-2, SNX4-6, SNX8, SNX30, and SNX32. Both
domains have been shown to determine the specific
membrane-targeting of SNX1. The specific function of
SNX7 has yet to be elucidated.
Length = 116
Score = 41.1 bits (96), Expect = 7e-05
Identities = 34/124 (27%), Positives = 54/124 (43%), Gaps = 31/124 (25%)
Query: 48 VKFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSRE 107
+ + V TK F V R++++F+WL R EE A+ IIPP P
Sbjct: 19 ITYRVMTKTSRSEFDSSEFEVRRRYQDFLWLKGRLEE--AHPTLIIPPLP---------- 66
Query: 108 KLQKLGEGEGTMTKEEFI--KMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQF 165
E+F+ M + +++ T +K A+H+ FL R+A HP + F
Sbjct: 67 --------------EKFVMKGMVERFNEDFIETRRK--ALHK-FLNRIADHPTLTFNEDF 109
Query: 166 HVFL 169
+FL
Sbjct: 110 KIFL 113
>gnl|CDD|132815 cd07282, PX_SNX2, The phosphoinositide binding Phox Homology domain
of Sorting Nexin 2. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions. Sorting nexins (SNXs) make up the
largest group among PX domain containing proteins. They
are involved in regulating membrane traffic and protein
sorting in the endosomal system. The PX domain of SNXs
binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX2 is a component of the
retromer complex, a membrane coat multimeric complex
required for endosomal retrieval of lysosomal hydrolase
receptors to the Golgi. The retromer consists of a
cargo-recognition subcomplex and a subcomplex formed by
a dimer of sorting nexins (SNX1 and/or SNX2), which
ensures efficient cargo sorting by facilitating proper
membrane localization of the cargo-recognition
subcomplex. Similar to SNX1, SNX2 contains a
Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane
curvature, C-terminal to the PX domain. The PX domain of
SNX2 preferentially binds
phosphatidylinositol-3-phosphate (PI3P), but not
PI(3,4,5)P3. Studies on mice deficient with SNX1 and/or
SNX2 suggest that they provide an essential function in
embryogenesis and are functionally redundant.
Length = 124
Score = 38.9 bits (90), Expect = 6e-04
Identities = 35/141 (24%), Positives = 56/141 (39%), Gaps = 27/141 (19%)
Query: 38 ISDALSEKEKV--------KFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYA 89
I +S+ EKV + V TK F V R+ +F+ LH + +
Sbjct: 1 IEIGVSDPEKVGDGMNAYMAYRVTTKTSLSMFSRSEFSVRRRFSDFLGLHSKLASKYLHV 60
Query: 90 GYIIPPAPPRPDFDSSREKLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEMF 149
GYI+PPAP + S + K+ G+ + EF++ ++ A E +
Sbjct: 61 GYIVPPAP-----EKSIVGMTKVKVGKEDSSSTEFVEKRR--------------AALERY 101
Query: 150 LTRLAQHPVFRLDHQFHVFLQ 170
L R +HP D FL+
Sbjct: 102 LQRTVKHPTLLQDPDLRQFLE 122
>gnl|CDD|132814 cd07281, PX_SNX1, The phosphoinositide binding Phox Homology domain
of Sorting Nexin 1. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions. Sorting nexins (SNXs) make up the
largest group among PX domain containing proteins. They
are involved in regulating membrane traffic and protein
sorting in the endosomal system. The PX domain of SNXs
binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX1 is both membrane
associated and a cytosolic protein that exists as a
tetramer in protein complexes. It can associate
reversibly with membranes of the endosomal compartment,
thereby coating these vesicles. SNX1 is a component of
the retromer complex, a membrane coat multimeric complex
required for endosomal retrieval of lysosomal hydrolase
receptors to the Golgi. The retromer consists of a
cargo-recognition subcomplex and a subcomplex formed by
a dimer of sorting nexins (SNX1 and/or SNX2), which
ensures efficient cargo sorting by facilitating proper
membrane localization of the cargo-recognition
subcomplex. SNX1 contains a Bin/Amphiphysin/Rvs (BAR)
domain C-terminal to the PX domain. The PX domain of
SNX1 specifically binds phosphatidylinositol-3-phosphate
(PI3P) and PI(3,5)P2, while the BAR domain detects
membrane curvature. Both domains help determine the
specific membrane-targeting of SNX1, which is localized
to a microdomain in early endosomes where it regulates
cation-independent mannose-6-phosphate receptor
retrieval to the trans Golgi network.
Length = 124
Score = 37.3 bits (86), Expect = 0.002
Identities = 28/123 (22%), Positives = 53/123 (43%), Gaps = 19/123 (15%)
Query: 48 VKFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSRE 107
V + V T+ + F + V R+ +F+ L+++ E + G+I+PP P + S
Sbjct: 19 VVYKVTTQTSLLMFRSKHFTVKRRFSDFLGLYEKLSEKHSQNGFIVPPPP-----EKSLI 73
Query: 108 KLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHV 167
+ K+ G+ + EF++ ++ A E +L R+ HP D
Sbjct: 74 GMTKVKVGKEDSSSAEFLERRR--------------AALERYLQRIVSHPSLLQDPDVRE 119
Query: 168 FLQ 170
FL+
Sbjct: 120 FLE 122
>gnl|CDD|214610 smart00312, PX, PhoX homologous domain, present in p47phox and
p40phox. Eukaryotic domain of unknown function present
in phox proteins, PLD isoforms, a PI3K isoform.
Length = 105
Score = 36.2 bits (84), Expect = 0.003
Identities = 24/105 (22%), Positives = 39/105 (37%), Gaps = 31/105 (29%)
Query: 68 VVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSREKLQKLGEGEGTMTKEEFI-K 126
V R++ +F+ LH + +++ + I+PP P + F G EEFI K
Sbjct: 30 VSRRYSDFLELHSKLKKH--FPRSILPPLPGKKLF------------GRLNNFSEEFIEK 75
Query: 127 MKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRL-DHQFHVFLQ 170
++ LE +L L HP FL+
Sbjct: 76 RRRGLEK---------------YLQSLLNHPELINHSEVVLEFLE 105
>gnl|CDD|132808 cd06898, PX_SNX10, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 10. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. Some SNXs are localized in
early endosome structures such as clathrin-coated pits,
while others are located in late structures of the
endocytic pathway. SNX10 may be involved in the
regulation of endosome homeostasis. Its expression
induces the formation of giant vacuoles in mammalian
cells.
Length = 113
Score = 36.5 bits (85), Expect = 0.003
Identities = 29/112 (25%), Positives = 46/112 (41%), Gaps = 30/112 (26%)
Query: 61 FLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSREKLQKLGEGEGTMT 120
F +T V R++ EFVWL +R ++N A I P+ P + G
Sbjct: 32 FTLKTSCVRRRYSEFVWLRNRLQKN---ALLIQLPSLPPKNL-------------FGRFN 75
Query: 121 KEEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHVFLQYN 172
E FI+ +Q+ + FL ++ Q P+ D + H+FLQ
Sbjct: 76 NEGFIEERQQGLQD--------------FLEKVLQTPLLLSDSRLHLFLQTQ 113
>gnl|CDD|132772 cd06862, PX_SNX9_18_like, The phosphoinositide binding Phox
Homology domain of Sorting Nexins 9 and 18. The PX
domain is a phosphoinositide (PI) binding module present
in many proteins with diverse functions. Sorting nexins
(SNXs) make up the largest group among PX domain
containing proteins. They are involved in regulating
membrane traffic and protein sorting in the endosomal
system. The PX domain of SNXs binds PIs and targets the
protein to PI-enriched membranes. SNXs differ from each
other in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. This
subfamily consists of SNX9, SNX18, and similar proteins.
They contain an N-terminal Src Homology 3 (SH3) domain,
a PX domain, and a C-terminal Bin/Amphiphysin/Rvs (BAR)
domain. SNX9 is localized to plasma membrane endocytic
sites and acts primarily in clathrin-mediated
endocytosis, while SNX18 is localized to peripheral
endosomal structures, and acts in a trafficking pathway
that is clathrin-independent but relies on AP-1 and
PACS1.
Length = 125
Score = 36.5 bits (85), Expect = 0.004
Identities = 32/105 (30%), Positives = 46/105 (43%), Gaps = 31/105 (29%)
Query: 66 VIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSREKLQKLGEGEGTMTKEEFI 125
V V R+++ F WL++R E Y+ IPP P EK Q G E E+FI
Sbjct: 32 VTVSRRYKHFDWLYERLVEK--YSCIAIPPLP---------EK-QVTGRFE-----EDFI 74
Query: 126 KMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHVFLQ 170
+ ++E E+++ RLA+HPV F FL
Sbjct: 75 EKRRER--------------LELWMNRLARHPVLSQSEVFRHFLT 105
>gnl|CDD|132816 cd07283, PX_SNX30, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 30. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. Some SNXs are localized in
early endosome structures such as clathrin-coated pits,
while others are located in late structures of the
endocytic pathway. SNX30 harbors a Bin/Amphiphysin/Rvs
(BAR) domain, which detects membrane curvature,
C-terminal to the PX domain, similar to the sorting
nexins SNX1-2, SNX4-8, and SNX32. Both domains have been
shown to determine the specific membrane-targeting of
SNX1. The specific function of SNX30 has yet to be
elucidated.
Length = 116
Score = 35.1 bits (80), Expect = 0.010
Identities = 32/122 (26%), Positives = 53/122 (43%), Gaps = 27/122 (22%)
Query: 48 VKFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSRE 107
+ + V TK F V R++++F WL ++ EE++ ++IPP P E
Sbjct: 19 ITYRVTTKTTRTEFDLPEYSVRRRYQDFDWLRNKLEESQP--THLIPPLP---------E 67
Query: 108 KLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHV 167
K G + E++ T +K + + FL R+A HPV + F+V
Sbjct: 68 KFVVKG-------------VVDRFSEEFVETRRKAL---DKFLKRIADHPVLSFNEHFNV 111
Query: 168 FL 169
FL
Sbjct: 112 FL 113
>gnl|CDD|132773 cd06863, PX_Atg24p, The phosphoinositide binding Phox Homology
domain of yeast Atg24p, an autophagic degradation
protein. The PX domain is a phosphoinositide (PI)
binding module present in many proteins with diverse
functions. The yeast Atg24p is a sorting nexin (SNX)
which is involved in membrane fusion events at the
vacuolar surface during pexophagy. This is facilitated
via binding of Atg24p to phosphatidylinositol
3-phosphate (PI3P) through its PX domain. SNXs make up
the largest group among PX domain containing proteins.
They are involved in regulating membrane traffic and
protein sorting in the endosomal system. The PX domain
of SNXs binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway.
Length = 118
Score = 32.6 bits (75), Expect = 0.066
Identities = 30/141 (21%), Positives = 53/141 (37%), Gaps = 31/141 (21%)
Query: 34 LIVDISDALSEKEK-----VKFTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAY 88
L +SD E + + + + TK F + V R++ +FV+LH+ + +
Sbjct: 1 LECLVSDPQKELDGSSDTYISYLITTKTNLPSFSRKEFKVRRRYSDFVFLHECL--SNDF 58
Query: 89 AGYIIPPAPPRPDFDSSREKLQKLGEGEGTMTKEEFIKMKQELEAEYLATFKKTVAMHEM 148
++PP P + +L G EFI ++ ++
Sbjct: 59 PACVVPPLPDK----------HRLEYITGDRFSPEFIT-------------RRAQSLQR- 94
Query: 149 FLTRLAQHPVFRLDHQFHVFL 169
FL R++ HPV H FL
Sbjct: 95 FLRRISLHPVLSQSKILHQFL 115
>gnl|CDD|132827 cd07294, PX_SNX12, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 12. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. Some SNXs are localized in
early endosome structures such as clathrin-coated pits,
while others are located in late structures of the
endocytic pathway. The specific function of SNX12 has
yet to be elucidated.
Length = 132
Score = 32.7 bits (74), Expect = 0.091
Identities = 25/110 (22%), Positives = 48/110 (43%), Gaps = 23/110 (20%)
Query: 61 FLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSREKLQKLGEGEGTMT 120
F + V R++ +F WL + E + + ++PP P + K Q G+ +
Sbjct: 35 FKLKESCVRRRYSDFEWLKNELERD---SKIVVPPLPGKA------LKRQLPFRGDEGIF 85
Query: 121 KEEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHVFLQ 170
+E FI+ ++ E F+ ++A HP+ + + H+FLQ
Sbjct: 86 EESFIEERR--------------QGLEQFINKIAGHPLAQNERCLHMFLQ 121
>gnl|CDD|132777 cd06867, PX_SNX41_42, The phosphoinositide binding Phox Homology
domain of fungal Sorting Nexins 41 and 42. The PX
domain is a phosphoinositide (PI) binding module present
in many proteins with diverse functions. Sorting nexins
(SNXs) make up the largest group among PX domain
containing proteins. They are involved in regulating
membrane traffic and protein sorting in the endosomal
system. The PX domain of SNXs binds PIs and targets the
protein to PI-enriched membranes. SNXs differ from each
other in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. Some SNXs
are localized in early endosome structures such as
clathrin-coated pits, while others are located in late
structures of the endocytic pathway. SNX41 and SNX42
(also called Atg20p) form dimers with SNX4, and are
required in protein recycling from the sorting endosome
(post-Golgi endosome) back to the late Golgi in yeast.
Length = 112
Score = 31.8 bits (73), Expect = 0.11
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 145 MHEMFLTRLAQHPVFRLDHQFHVFL 169
M + FL R QHP+ R D F FL
Sbjct: 85 MLQRFLNRCLQHPILRNDIVFQKFL 109
>gnl|CDD|132774 cd06864, PX_SNX4, The phosphoinositide binding Phox Homology domain
of Sorting Nexin 4. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions. Sorting nexins (SNXs) make up the
largest group among PX domain containing proteins. They
are involved in regulating membrane traffic and protein
sorting in the endosomal system. The PX domain of SNXs
binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX4 is involved in recycling
traffic from the sorting endosome (post-Golgi endosome)
back to the late Golgi. It shows a similar domain
architecture as SNX1-2, among others, containing a
Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane
curvature, C-terminal to the PX domain. SNX4 is
implicated in the regulation of plasma membrane receptor
trafficking and interacts with receptors for EGF,
insulin, platelet-derived growth factor and the long
form of the leptin receptor.
Length = 129
Score = 30.4 bits (69), Expect = 0.51
Identities = 11/24 (45%), Positives = 12/24 (50%)
Query: 147 EMFLTRLAQHPVFRLDHQFHVFLQ 170
E FL R+A HP D F FL
Sbjct: 104 ENFLLRVAGHPELCQDKIFLEFLT 127
>gnl|CDD|149670 pfam08688, ASD1, Apx/Shroom domain ASD1. This region is found in
the actin binding protein Shroom which mediates apical
contriction in epithelial cells and is required for
neural tube closure. ASD1 has been implicated directly
in F-actin binding.
Length = 181
Score = 30.7 bits (69), Expect = 0.59
Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 9/59 (15%)
Query: 194 SKTTDQVLLSHTVKDHNDFFEN--------ENNFLHEYHNHLKEATTRADRMT-FKRKD 243
SK+T + +D + N E +F + Y HLKEA R R T FKR+D
Sbjct: 6 SKSTATLTADAEREDGTSLWRNKDPSSPSAEGSFSNTYKEHLKEAQARVLRATSFKRRD 64
>gnl|CDD|132818 cd07285, PX_SNX9, The phosphoinositide binding Phox Homology domain
of Sorting Nexin 9. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions. Sorting nexins (SNXs) make up the
largest group among PX domain containing proteins. They
are involved in regulating membrane traffic and protein
sorting in the endosomal system. The PX domain of SNXs
binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX9, also known as SH3PX1, is
a cytosolic protein that interacts with proteins
associated with clathrin-coated pits such as
Cdc-42-associated tyrosine kinase 2 (ACK2). It contains
an N-terminal Src Homology 3 (SH3) domain, a PX domain,
and a C-terminal Bin/Amphiphysin/Rvs (BAR) domain, which
detects membrane curvature. The PX-BAR structural unit
helps determine specific membrane localization. Through
its SH3 domain, SNX9 binds class I polyproline sequences
found in dynamin 1/2 and the WASP/N-WASP actin
regulators. SNX9 is localized to plasma membrane
endocytic sites and acts primarily in clathrin-mediated
endocytosis. Its array of interacting partners suggests
that SNX9 functions at the interface between endocytosis
and actin cytoskeletal organization.
Length = 126
Score = 28.8 bits (64), Expect = 1.5
Identities = 30/108 (27%), Positives = 43/108 (39%), Gaps = 32/108 (29%)
Query: 68 VVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSREKLQKLGEGEGTMTKEEFIKM 127
V +++ F WL++R A P P PD Q G E EEFIKM
Sbjct: 34 VNHRYKHFDWLYERLLVKFGLA----IPIPSLPD-------KQVTGRFE-----EEFIKM 77
Query: 128 KQE-LEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHVFLQYNQD 174
+ E L+A ++TR+ +HPV F FL + +
Sbjct: 78 RMERLQA---------------WMTRMCRHPVISESEVFQQFLNFRDE 110
>gnl|CDD|227680 COG5391, COG5391, Phox homology (PX) domain protein [Intracellular
trafficking and secretion / General function prediction
only].
Length = 524
Score = 29.8 bits (67), Expect = 2.0
Identities = 30/190 (15%), Positives = 65/190 (34%), Gaps = 37/190 (19%)
Query: 61 FLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSREKLQKLGEGEGTMT 120
R ++V R++ +F LH + IPP P + + E G
Sbjct: 168 RESRPLVVRRRYSDFESLHSILIKL--LPLCAIPPLPSK----------KSNSEYYGDRF 215
Query: 121 KEEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHVFLQYNQDLSVRSK 180
+EFI+ +++ FL R++ HP+ + ++ LS
Sbjct: 216 SDEFIEERRQSLQN--------------FLRRVSTHPLLSNYKNSKSWESHSTLLS---- 257
Query: 181 NKMEMLEGFLNSFSKTTDQVL-LSHTVKDHNDFFENENNFLHEYHNHLKEATTRADRMTF 239
N S T L L+ T ++ + + N + +++ + +++
Sbjct: 258 ------SFIENRKSVPTPLSLDLTSTTQELDMERKELNESTSKAIHNILSIFSLFEKILI 311
Query: 240 KRKDAAKRLL 249
+ + + L
Sbjct: 312 QLESEEESLT 321
>gnl|CDD|129605 TIGR00514, accC, acetyl-CoA carboxylase, biotin carboxylase
subunit. This model represents the biotin carboxylase
subunit found usually as a component of acetyl-CoA
carboxylase. Acetyl-CoA carboxylase is designated EC
6.4.1.2 and this component, biotin carboxylase, has its
own designation, EC 6.3.4.14. Homologous domains are
found in eukaryotic forms of acetyl-CoA carboxylase and
in a number of other carboxylases (e.g. pyruvate
carboxylase), but seed members and trusted cutoff are
selected so as to exclude these. In some systems, the
biotin carboxyl carrier protein and this protein (biotin
carboxylase) may be shared by different
carboxyltransferases. However, this model is not
intended to identify the biotin carboxylase domain of
propionyl-coA carboxylase. The model should hit the full
length of proteins, except for chloroplast transit
peptides in plants. If it hits a domain only of a longer
protein, there may be a problem with the identification
[Fatty acid and phospholipid metabolism, Biosynthesis].
Length = 449
Score = 29.7 bits (67), Expect = 2.3
Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 15/79 (18%)
Query: 84 ENEAYAGYIIPPAPPRPDFDSSREKLQKLGEGEGTMTKEEFI-KMKQELEAEYLATFKKT 142
++ Y+GY +PP +DS KL G+ T+E I +MK+ L + K T
Sbjct: 369 DSHVYSGYTVPPY-----YDSMIGKLITYGK-----TREVAIARMKRALSEFIIDGIKTT 418
Query: 143 VAMHEMFLTRLAQHPVFRL 161
+ H+ R+ + F+
Sbjct: 419 IPFHQ----RILEDENFQH 433
>gnl|CDD|153314 cd07630, BAR_SNX_like, The Bin/Amphiphysin/Rvs (BAR) domain of
uncharacterized Sorting Nexins. BAR domains are
dimerization, lipid binding and curvature sensing
modules found in many different proteins with diverse
functions. This subfamily is composed of uncharacterized
proteins with similarity to sorting nexins (SNXs), which
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. BAR domains form dimers that bind to
membranes, induce membrane bending and curvature, and
may also be involved in protein-protein interactions.
Length = 198
Score = 29.0 bits (65), Expect = 2.4
Identities = 12/34 (35%), Positives = 24/34 (70%)
Query: 243 DAAKRLLYRRLRCLADYENANRNLERARTKNKDV 276
++ K +L+RR L ++ENA++ LE+A+ + K+
Sbjct: 103 ESEKDMLFRRTCKLIEFENASKALEKAKPQKKEQ 136
>gnl|CDD|132826 cd07293, PX_SNX3, The phosphoinositide binding Phox Homology domain
of Sorting Nexin 3. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions. Sorting nexins (SNXs) make up the
largest group among PX domain containing proteins. They
are involved in regulating membrane traffic and protein
sorting in the endosomal system. The PX domain of SNXs
binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX3 associates with early
endosomes through a PX domain-mediated interaction with
phosphatidylinositol-3-phosphate (PI3P). It associates
with the retromer complex, a membrane coat multimeric
complex required for endosomal retrieval of lysosomal
hydrolase receptors to the Golgi, and functions as a
cargo-specific adaptor for the retromer. SNX3 is
required for the formation of multivesicular bodies,
which function as transport intermediates to late
endosomes. It also promotes cell surface expression of
the amiloride-sensitive epithelial Na+ channel (ENaC),
which is critical in sodium homeostasis and maintenance
of extracellular fluid volume.
Length = 123
Score = 28.0 bits (62), Expect = 2.7
Identities = 29/122 (23%), Positives = 49/122 (40%), Gaps = 25/122 (20%)
Query: 50 FTVHTKKKEVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSREKL 109
+ + K F + V R++ +F WL E + ++PP P + F
Sbjct: 22 YEIRLKTNLPIFKLKESTVRRRYSDFEWLRSELERE---SKVVVPPLPGKALFR------ 72
Query: 110 QKLGEGEGTMTKEEFIK-MKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHVF 168
Q G+ + + FI+ KQ LE FL ++A HP+ + + H+F
Sbjct: 73 QLPFRGDDGIFDDSFIEERKQGLE---------------QFLNKVAGHPLAQNERCLHMF 117
Query: 169 LQ 170
LQ
Sbjct: 118 LQ 119
>gnl|CDD|132776 cd06866, PX_SNX8_Mvp1p_like, The phosphoinositide binding Phox
Homology domain of Sorting Nexin 8 and yeast Mvp1p. The
PX domain is a phosphoinositide (PI) binding module
present in many proteins with diverse functions. Sorting
nexins (SNXs) make up the largest group among PX domain
containing proteins. They are involved in regulating
membrane traffic and protein sorting in the endosomal
system. The PX domain of SNXs binds PIs and targets the
protein to PI-enriched membranes. SNXs differ from each
other in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. Some SNXs
are localized in early endosome structures such as
clathrin-coated pits, while others are located in late
structures of the endocytic pathway. SNX8 and the yeast
counterpart Mvp1p are involved in sorting and delivery
of late-Golgi proteins, such as carboxypeptidase Y, to
vacuoles.
Length = 105
Score = 28.0 bits (63), Expect = 2.8
Identities = 25/112 (22%), Positives = 41/112 (36%), Gaps = 31/112 (27%)
Query: 58 EVYFLYRTVIVVRQHEEFVWLHDRFEENEAYAGYIIPPAPPRPDFDSSREKLQKLGEGEG 117
EV V R++ +FVWLH+ + Y ++P PP+ ++G
Sbjct: 22 EVSSKRFKSTVYRRYSDFVWLHEYLLKR--YPYRMVPALPPK-----------RIGGS-- 66
Query: 118 TMTKEEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHPVFRLDHQFHVFL 169
EF++ + + FL +A+HPV D FL
Sbjct: 67 --ADREFLE-------------ARRRGLSR-FLNLVARHPVLSEDELVRTFL 102
>gnl|CDD|237278 PRK13029, PRK13029, 2-oxoacid ferredoxin oxidoreductase; Provisional.
Length = 1186
Score = 29.0 bits (65), Expect = 4.0
Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 7/55 (12%)
Query: 228 KEATTRADRMTFKRKDAAKRLLYRRLRCLADYENAN------RNLERARTKNKDV 276
EA R + F+R ++ L+ R L DY+NA ++R R V
Sbjct: 955 GEAAAR-QAIVFQRPESLDDLIESRAAFLTDYQNAAYAARYRARVDRVRAAEAVV 1008
>gnl|CDD|224577 COG1663, LpxK, Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope
biogenesis, outer membrane].
Length = 336
Score = 28.8 bits (65), Expect = 4.1
Identities = 14/60 (23%), Positives = 20/60 (33%), Gaps = 8/60 (13%)
Query: 187 EGFLNSFSKTTDQVLLSHTVKDHNDFFENENNFLHEYHNHLKEATTRADRMTFKRKDAAK 246
+ F + QV+ + DH DF + L + TT KDA K
Sbjct: 246 QRFFATLRNLGIQVVETLAFPDHYDFSAADLEDLAKKAQADGLLTT--------EKDAVK 297
>gnl|CDD|236441 PRK09269, PRK09269, chorismate mutase; Provisional.
Length = 193
Score = 28.4 bits (64), Expect = 4.1
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 94 PPAPPRPDFDSSREKLQKL 112
P PRPD S R +L +L
Sbjct: 117 APPGPRPDLASIRPRLDRL 135
>gnl|CDD|204331 pfam09851, SHOCT, Short C-terminal domain.
Length = 31
Score = 25.0 bits (56), Expect = 6.1
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 107 EKLQKLGE--GEGTMTKEEFIKMKQELEA 133
+ L+KL E G +T+EEF K+EL
Sbjct: 3 DALEKLKELYARGEITEEEFEAKKKELLG 31
>gnl|CDD|216640 pfam01671, ASFV_360, African swine fever virus multigene family 360
protein. The multigene family 360 protein are found
within the African swine fever virus (ASF) genome which
consist of dsDNA and has similar structural features to
the poxyviruses. The biological function of this family
is not known. Although a member from African swine fever
virus is a major structural protein.
Length = 215
Score = 28.0 bits (63), Expect = 6.1
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 180 KNKMEMLEGFLN-SFSKTTDQVLLSHTVKDHNDFFENENN 218
N+ E+L F KT+ ++L H + +N EN NN
Sbjct: 16 LNENEILNIFFKIKDKKTSSNIILCHEIFSNNPLLENVNN 55
>gnl|CDD|173744 cd07847, STKc_CDKL1_4, Catalytic domain of the Serine/Threonine
Kinases, Cyclin-Dependent protein Kinase Like 1 and 4.
Serine/Threonine Kinases (STKs), Cyclin-dependent
protein kinase like 1 (CDKL1) and CDKL4 subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDKL1 and CDKL4
subfamily is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. CDKs belong to a large family of STKs that are
regulated by their cognate cyclins. Together, they are
involved in the control of cell-cycle progression,
transcription, and neuronal function. CDKL1, also called
p42 KKIALRE, is a glial protein that is upregulated in
gliosis. It is present in neuroblastoma and A431 human
carcinoma cells, and may be implicated in neoplastic
transformation. The function of CDKL4 is unknown.
Length = 286
Score = 28.1 bits (63), Expect = 6.2
Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 15/79 (18%)
Query: 107 EKLQKLGEGE-GTMTK------EEFIKMKQELEAEYLATFKKTVAMHEMFLTRLAQHP-- 157
EKL K+GEG G + K + + +K+ +E+E KK +A+ E+ + + +HP
Sbjct: 4 EKLSKIGEGSYGVVFKCRNRETGQIVAIKKFVESEDDPVIKK-IALREIRMLKQLKHPNL 62
Query: 158 -----VFRLDHQFHVFLQY 171
VFR + H+ +Y
Sbjct: 63 VNLIEVFRRKRKLHLVFEY 81
>gnl|CDD|237517 PRK13807, PRK13807, maltose phosphorylase; Provisional.
Length = 756
Score = 27.9 bits (63), Expect = 9.2
Identities = 15/44 (34%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 36 VDISDALSEKEK---VKFTVHTKKKEVYFLYRTVIVV--RQHEE 74
+ + KEK FT K E L + VIVV R +EE
Sbjct: 226 GKVVPGVETKEKYVENSFTADVKAGETVTLEKRVIVVTSRDYEE 269
>gnl|CDD|172382 PRK13861, PRK13861, type IV secretion system protein VirB9;
Provisional.
Length = 292
Score = 27.5 bits (61), Expect = 9.5
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 234 ADRMTFKRKDAAKRLLYRRLRCLADYENANRNL 266
AD +RK+A ++ + RLR A Y+ +L
Sbjct: 140 ADDAAARRKEAEQKAVADRLRAEAQYQRRAEDL 172
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
0.319 0.132 0.384
Gapped
Lambda K H
0.267 0.0693 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,969,306
Number of extensions: 1539294
Number of successful extensions: 1742
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1724
Number of HSP's successfully gapped: 65
Length of query: 313
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 216
Effective length of database: 6,635,264
Effective search space: 1433217024
Effective search space used: 1433217024
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.6 bits)