RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17920
(393 letters)
>gnl|CDD|153310 cd07626, BAR_SNX9_like, The Bin/Amphiphysin/Rvs (BAR) domain of
Sorting Nexin 9 and Similar Proteins. 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 SNX9, SNX18, SNX33, and
similar proteins. 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. BAR domains form dimers that bind to membranes,
induce membrane bending and curvature, and may also be
involved in protein-protein interactions.
Length = 199
Score = 214 bits (546), Expect = 3e-68
Identities = 81/187 (43%), Positives = 119/187 (63%), Gaps = 15/187 (8%)
Query: 151 NLEQETESCSRFIHGLDSAVKSLVAVVADQTKKCQTLYKREYQKIG-------------- 196
++EQ+ ++ +F+ +D +VK+L+ + +Q KK Q YK+EYQKIG
Sbjct: 1 DVEQQVDAFKKFVKSMDDSVKNLINIAQEQAKKHQGPYKKEYQKIGQAFTSLGTAFELDE 60
Query: 197 -IDRSHLRDALKKTGDTYNELGKLFEEQPKLDWEPLGDVLHIYKGIITSMPDILGLHKDI 255
L A+K TG Y E+G+LF EQPK D PL D LH YKG++++ PDI+G+HK
Sbjct: 61 TPTSVPLTQAIKHTGQAYEEIGELFAEQPKHDLIPLLDGLHEYKGLLSTFPDIIGVHKGA 120
Query: 256 LNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAMKSFLTE 315
+ K +E E++ E KM + L+EV +RTD +SYALL EINHFH+E+V + M+++L +
Sbjct: 121 VQKVKECERLVDEGKMSSAELEEVKRRTDVISYALLAEINHFHRERVRDFKSMMRNYLQQ 180
Query: 316 QINFYQK 322
QI FYQK
Sbjct: 181 QIEFYQK 187
Score = 90.0 bits (224), Expect = 3e-21
Identities = 34/71 (47%), Positives = 49/71 (69%)
Query: 321 QKDILNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAMKS 380
K + K +E E++ E KM + L+EV +RTD +SYALL EINHFH+E+V + M++
Sbjct: 117 HKGAVQKVKECERLVDEGKMSSAELEEVKRRTDVISYALLAEINHFHRERVRDFKSMMRN 176
Query: 381 FLTEQINFYQK 391
+L +QI FYQK
Sbjct: 177 YLQQQIEFYQK 187
Score = 63.1 bits (154), Expect = 1e-11
Identities = 19/46 (41%), Positives = 33/46 (71%)
Query: 29 NLEQETESCSRFIHGLDSAVKSLVAVVADQTKKCQTLYKREYQKIG 74
++EQ+ ++ +F+ +D +VK+L+ + +Q KK Q YK+EYQKIG
Sbjct: 1 DVEQQVDAFKKFVKSMDDSVKNLINIAQEQAKKHQGPYKKEYQKIG 46
>gnl|CDD|151029 pfam10456, BAR_3_WASP_bdg, WASP-binding domain of Sorting nexin
protein. The C-terminal region of the Sorting nexin
group of proteins appears to carry a BAR-like
(Bin/amphiphysin/Rvs) domain. This domain is very
diverse and the similarities with other BAR domains are
few. In the Sorting nexins it is associated with family
PX, pfam00787.13, and in combination with PX appears to
be necessary to bind WASP along with p85 to form a
multimeric signalling complex.
Length = 237
Score = 181 bits (461), Expect = 4e-55
Identities = 90/224 (40%), Positives = 128/224 (57%), Gaps = 16/224 (7%)
Query: 115 DEKRWKAGKRMAEKDNLLGPSLFLAIETPER-SISHFNLEQETESCSRFIHGLDSAVKSL 173
DEK WK GKR AEKD L+G + FL IE PE + +EQ+ E RF +D VK L
Sbjct: 1 DEKAWKQGKRKAEKDELVGANFFLTIEVPEAPPLDLQEVEQKVEGFKRFTKKMDEGVKVL 60
Query: 174 VAVVADQTKKCQTLYKREYQKIG-----------ID----RSHLRDALKKTGDTYNELGK 218
+ V + KKC +K+EYQKIG +D + L +A+ TG TY E+G+
Sbjct: 61 LTVGNEFWKKCAGPFKKEYQKIGKAFQLLSQAFEMDGYVGSAGLNEAIAATGKTYEEIGE 120
Query: 219 LFEEQPKLDWEPLGDVLHIYKGIITSMPDILGLHKDILNKKREYEKMTTENKMEANRLQE 278
+F EQPK D PL + L YKG++ + PDI+ +HK + K +E +K+ E K+
Sbjct: 121 MFAEQPKKDLHPLLETLAEYKGLLGNFPDIIHVHKGAITKVKESDKLVEEGKISQQDAST 180
Query: 279 VLKRTDTVSYALLGEINHFHQEQVSQINAAMKSFLTEQINFYQK 322
+ KR + +SYAL E+NHFH ++ + M+ +L +QI FYQK
Sbjct: 181 MKKRCNIMSYALQAEMNHFHSNRIYDFKSQMQHYLEQQIKFYQK 224
Score = 38.2 bits (89), Expect = 0.004
Identities = 20/46 (43%), Positives = 27/46 (58%)
Query: 29 NLEQETESCSRFIHGLDSAVKSLVAVVADQTKKCQTLYKREYQKIG 74
+EQ+ E RF +D VK L+ V + KKC +K+EYQKIG
Sbjct: 38 EVEQKVEGFKRFTKKMDEGVKVLLTVGNEFWKKCAGPFKKEYQKIG 83
>gnl|CDD|153352 cd07668, BAR_SNX9, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexin 9. 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. 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 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.
BAR domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions.
Length = 210
Score = 122 bits (306), Expect = 7e-33
Identities = 64/185 (34%), Positives = 98/185 (52%), Gaps = 15/185 (8%)
Query: 152 LEQETESCSRFIHGLDSAVKSLVAVVADQTKKCQTLYKREYQKIGI-------------- 197
+EQ+ E+ RF +D VK L+ V + K+C +EYQKIG
Sbjct: 10 IEQKCEAVGRFTKAMDDGVKELLTVGQEHWKRCTGPLPKEYQKIGKALQSLATVFSTSGY 69
Query: 198 -DRSHLRDALKKTGDTYNELGKLFEEQPKLDWEPLGDVLHIYKGIITSMPDILGLHKDIL 256
+ L DA+ + G TY E+ L EQPK D L + H YKG + PDI+G HK +
Sbjct: 70 QGETDLNDAITEAGKTYEEIASLVAEQPKKDLHFLMETNHEYKGFLGCFPDIIGAHKGAI 129
Query: 257 NKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAMKSFLTEQ 316
K +E +K+ +K+ Q ++KR T+SYAL E+NHFH ++ N+ ++ +L +Q
Sbjct: 130 EKVKESDKLVATSKITLQDKQNMVKRVSTMSYALQAEMNHFHSNRIYDYNSVIRLYLEQQ 189
Query: 317 INFYQ 321
+ FY+
Sbjct: 190 VQFYE 194
Score = 40.0 bits (93), Expect = 8e-04
Identities = 18/46 (39%), Positives = 27/46 (58%)
Query: 30 LEQETESCSRFIHGLDSAVKSLVAVVADQTKKCQTLYKREYQKIGR 75
+EQ+ E+ RF +D VK L+ V + K+C +EYQKIG+
Sbjct: 10 IEQKCEAVGRFTKAMDDGVKELLTVGQEHWKRCTGPLPKEYQKIGK 55
>gnl|CDD|153354 cd07670, BAR_SNX18, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexin 18. 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. SNX18 is localized to peripheral
endosomal structures, and acts in a trafficking pathway
that is clathrin-independent but relies on AP-1 and
PACS1. BAR domains form dimers that bind to membranes,
induce membrane bending and curvature, and may also be
involved in protein-protein interactions.
Length = 207
Score = 113 bits (283), Expect = 2e-29
Identities = 60/176 (34%), Positives = 97/176 (55%), Gaps = 15/176 (8%)
Query: 162 FIHGLDSAVKSLVAVVADQTKKCQTLYKREYQKIG-----------IDRSH----LRDAL 206
F +D +V L + +K T +K+EYQK+G +D+ L A+
Sbjct: 20 FTKKMDESVLQLNHTANEFARKQVTGFKKEYQKVGQSFKGLSQAFELDQQAFSAGLNQAI 79
Query: 207 KKTGDTYNELGKLFEEQPKLDWEPLGDVLHIYKGIITSMPDILGLHKDILNKKREYEKMT 266
TG+ Y +G+LF EQP+ D +P+ D+L +Y+G + + PDI+ + K L K +E +K
Sbjct: 80 AFTGEAYEAIGELFAEQPRQDLDPVMDLLALYQGHLANFPDIIHVQKGALTKVKESKKHV 139
Query: 267 TENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAMKSFLTEQINFYQK 322
E KME + + R + +S+A L EI+HFH+ +V + M+ FL +QI F+QK
Sbjct: 140 EEGKMELQKADGIQDRCNIISFATLAEIHHFHKIRVRDFKSQMQHFLQQQIRFFQK 195
Score = 65.7 bits (160), Expect = 2e-12
Identities = 29/73 (39%), Positives = 43/73 (58%)
Query: 321 QKDILNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAMKS 380
QK L K +E +K E KME + + R + +S+A L EI+HFH+ +V + M+
Sbjct: 125 QKGALTKVKESKKHVEEGKMELQKADGIQDRCNIISFATLAEIHHFHKIRVRDFKSQMQH 184
Query: 381 FLTEQINFYQKST 393
FL +QI F+QK T
Sbjct: 185 FLQQQIRFFQKVT 197
>gnl|CDD|153353 cd07669, BAR_SNX33, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexin 33. 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. SNX33 interacts with Wiskott-Aldrich
syndrome protein (WASP) and plays a role in the
maintenance of cell shape and cell cycle progression. It
modulates the shedding and endocytosis of cellular prion
protein (PrP(c)) and amyloid precursor protein (APP).
BAR domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions.
Length = 207
Score = 108 bits (271), Expect = 8e-28
Identities = 58/187 (31%), Positives = 99/187 (52%), Gaps = 15/187 (8%)
Query: 151 NLEQETESCSRFIHGLDSAVKSLVAVVADQTKKCQTLYKREYQKIG-----IDRSHLRD- 204
++E+ + F +D +V L V ++ +K +++E+QK+G I S D
Sbjct: 9 DVEERVDVFKAFSKKMDDSVLQLSNVASELVRKHLGGFRKEFQKLGNAFQAISHSFQLDP 68
Query: 205 ---------ALKKTGDTYNELGKLFEEQPKLDWEPLGDVLHIYKGIITSMPDILGLHKDI 255
A+ TG TY +G++F EQPK D + D L +Y+G++++ PDI+ L K
Sbjct: 69 PYSSEALNNAISHTGRTYEAVGEMFAEQPKNDLFQMLDTLSLYQGLLSNFPDIIHLQKGA 128
Query: 256 LNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAMKSFLTE 315
K +E ++M+ E +M+ + + KR V +AL E+NHFHQ + M+ +L +
Sbjct: 129 FAKVKESQRMSDEGRMDQDEADGIRKRCRVVGFALQAEMNHFHQRRELDFKQMMQHYLRQ 188
Query: 316 QINFYQK 322
QI FYQ+
Sbjct: 189 QIIFYQR 195
Score = 60.0 bits (145), Expect = 2e-10
Identities = 25/71 (35%), Positives = 40/71 (56%)
Query: 321 QKDILNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAMKS 380
QK K +E ++M+ E +M+ + + KR V +AL E+NHFHQ + M+
Sbjct: 125 QKGAFAKVKESQRMSDEGRMDQDEADGIRKRCRVVGFALQAEMNHFHQRRELDFKQMMQH 184
Query: 381 FLTEQINFYQK 391
+L +QI FYQ+
Sbjct: 185 YLRQQIIFYQR 195
>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 = 105 bits (264), Expect = 1e-27
Identities = 36/64 (56%), Positives = 50/64 (78%)
Query: 69 EYQKIGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFITCTDEKRWKAGKRMAEK 128
E Q GR+EE FIE R+ +L+ +++ + RHPVL +S V++HF+TCTDEK WK+GKR AEK
Sbjct: 62 EKQVTGRFEEDFIEKRRERLELWMNRLARHPVLSQSEVFRHFLTCTDEKDWKSGKRKAEK 121
Query: 129 DNLL 132
D L+
Sbjct: 122 DELV 125
>gnl|CDD|132819 cd07286, PX_SNX18, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 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. SNX18, like SNX9, 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. 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 = 127
Score = 75.5 bits (185), Expect = 1e-16
Identities = 35/66 (53%), Positives = 45/66 (68%), Gaps = 2/66 (3%)
Query: 69 EYQKIGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFITC--TDEKRWKAGKRMA 126
E Q GR+EE FI R+ L ++D++C HPVL R +QHF+TC TDEK WK GKR A
Sbjct: 62 EKQATGRFEEDFISKRRKGLIWWMDHMCSHPVLARCDAFQHFLTCPSTDEKAWKQGKRKA 121
Query: 127 EKDNLL 132
EKD ++
Sbjct: 122 EKDEMV 127
>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 = 70.8 bits (173), Expect = 5e-15
Identities = 31/62 (50%), Positives = 43/62 (69%)
Query: 71 QKIGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFITCTDEKRWKAGKRMAEKDN 130
Q GR+EE+FI+ R +LQ+++ +CRHPV+ S V+Q F+ DEK WK GKR AEKD
Sbjct: 65 QVTGRFEEEFIKMRMERLQAWMTRMCRHPVISESEVFQQFLNFRDEKEWKTGKRKAEKDE 124
Query: 131 LL 132
+
Sbjct: 125 TV 126
>gnl|CDD|153280 cd07596, BAR_SNX, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexins. 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. 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 = 50.8 bits (122), Expect = 3e-07
Identities = 46/205 (22%), Positives = 80/205 (39%), Gaps = 35/205 (17%)
Query: 153 EQETESCSRFIHGLDSAVKSLVAVVADQTKKCQTLYK------REYQKIG----IDRSHL 202
+QE E +I L+ +K L K+ + L + K+ L
Sbjct: 3 DQEFEEAKDYILKLEEQLKKLSKQAQRLVKRRRELGSALGEFGKALIKLAKCEEEVGGEL 62
Query: 203 RDALKKTGDTYNELGKLFEEQPKLDWEPLGDVLHIYKGIITSMPDILG-----------L 251
+AL K G EL L E Q + L + L Y ++ + L L
Sbjct: 63 GEALSKLGKAAEELSSLSEAQANQELVKLLEPLKEYLRYCQAVKETLDDRADALLTLQSL 122
Query: 252 HKDILNKKREYEKMTTENKMEANRLQEVL--------------KRTDTVSYALLGEINHF 297
KD+ +KK + EK+ ++ +++E+ KR + +S L E+ F
Sbjct: 123 KKDLASKKAQLEKLKAAPGIKPAKVEELEEELEEAESALEEARKRYEEISERLKEELKRF 182
Query: 298 HQEQVSQINAAMKSFLTEQINFYQK 322
H+E+ + AA+K F Q+ + +K
Sbjct: 183 HEERARDLKAALKEFARLQVQYAEK 207
>gnl|CDD|216119 pfam00787, PX, PX domain. PX domains bind to phosphoinositides.
Length = 109
Score = 47.3 bits (113), Expect = 7e-07
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 71 QKIGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFIT 112
+ GR+ E+FIE R+ L+ ++ + +HP L S V F+
Sbjct: 66 KLFGRFSEEFIEKRRKGLEEYLQRLLQHPELSNSEVVLEFLE 107
>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 = 47.0 bits (112), Expect = 1e-06
Identities = 14/44 (31%), Positives = 27/44 (61%)
Query: 69 EYQKIGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFIT 112
E Q +GR+++ F+E R+ L+ + + HPVL + P ++ F+
Sbjct: 67 EKQSVGRFDDNFVEQRRAALEKMLRKIANHPVLQKDPDFRLFLE 110
>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 = 45.7 bits (109), Expect = 3e-06
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 66 YKREYQKIGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFIT 112
++ EY R+ +FI R LQ F+ + HPVL +S + F+
Sbjct: 70 HRLEYITGDRFSPEFITRRAQSLQRFLRRISLHPVLSQSKILHQFLE 116
>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 = 42.6 bits (101), Expect = 3e-05
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 78 EQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFIT 112
+F+E R+ L F++ V RHPVL + + F+T
Sbjct: 69 REFLEARRRGLSRFLNLVARHPVLSEDELVRTFLT 103
>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 = 42.2 bits (100), Expect = 4e-05
Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 2/46 (4%)
Query: 69 EYQKIGRYEEQ--FIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFIT 112
E Q +GR++ + FIE R+ L+ F+ + HPVL + P ++ F+
Sbjct: 67 EKQAVGRFKVKFEFIEKRRAALERFLRRIAAHPVLRKDPDFRLFLE 112
>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 = 37.7 bits (88), Expect = 0.001
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 73 IGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFIT 112
G + +FIE R+ QL+ ++ + HP L S + F+
Sbjct: 66 FGNLDPEFIEERRKQLEQYLQSLLNHPELRNSEELKEFLE 105
>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 = 36.6 bits (85), Expect = 0.003
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 78 EQFIEHRKNQLQSFVDYVCRHPVLCR-SPVWQHFIT 112
E+FIE R+ L+ ++ + HP L S V F+
Sbjct: 70 EEFIEKRRRGLEKYLQSLLNHPELINHSEVVLEFLE 105
>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 = 35.7 bits (83), Expect = 0.007
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 77 EEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFITCT 114
+ + IE RK LQ F++ +HP+L V+Q F+
Sbjct: 75 DAKIIERRKRMLQRFLNRCLQHPILRNDIVFQKFLDPN 112
>gnl|CDD|132781 cd06871, PX_MONaKA, The phosphoinositide binding Phox Homology
domain of Modulator of Na,K-ATPase. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions such as cell signaling,
vesicular trafficking, protein sorting, and lipid
modification, among others. MONaKA (Modulator of
Na,K-ATPase) binds the plasma membrane ion transporter,
Na,K-ATPase, and modulates its enzymatic and ion pump
activities. It modulates brain Na,K-ATPase and may be
involved in regulating electrical excitability and
synaptic transmission. MONaKA contains an N-terminal PX
domain and a C-terminal catalytic kinase domain. The PX
domain interacts with PIs and plays a role in targeting
proteins to PI-enriched membranes.
Length = 120
Score = 35.4 bits (82), Expect = 0.010
Identities = 9/32 (28%), Positives = 19/32 (59%)
Query: 73 IGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRS 104
IG + +FI R+ LQ++++ + +P+L
Sbjct: 69 IGNMDREFIAERQQGLQNYLNVILMNPILASC 100
>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 = 35.0 bits (81), Expect = 0.018
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 80 FIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFIT 112
F+E R+ L++F+ V HP LC+ ++ F+T
Sbjct: 95 FVERRRAGLENFLLRVAGHPELCQDKIFLEFLT 127
>gnl|CDD|132791 cd06881, PX_SNX15_like, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 15-like proteins. The PX domain
is a phosphoinositide (PI) binding module present in
many proteins with diverse functions such as cell
signaling, vesicular trafficking, protein sorting, and
lipid modification, among others. Members of this
subfamily have similarity to sorting nexin 15 (SNX15),
which contains an N-terminal PX domain and a C-terminal
Microtubule Interacting and Trafficking (MIT) 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. SNX15 plays a role in
protein trafficking processes in the endocytic pathway
and the trans-Golgi network. The PX domain of SNX15
interacts with the PDGF receptor and is responsible for
the membrane association of the protein. Other members
of this subfamily contain an additional C-terminal
kinase domain, similar to human RPK118, which binds
sphingosine kinase and the antioxidant peroxiredoxin-3
(PRDX3). RPK118 may be involved in the transport of
proteins such as PRDX3 from the cytoplasm to its site of
function in the mitochondria.
Length = 117
Score = 34.6 bits (80), Expect = 0.020
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 73 IGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHF 110
GR++ IE R+ + +D+V HP L +S +Q F
Sbjct: 76 FGRFDAAVIEERRQAILELLDFVGNHPALYQSSAFQQF 113
>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 = 33.5 bits (77), Expect = 0.047
Identities = 11/38 (28%), Positives = 20/38 (52%)
Query: 75 RYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFIT 112
R+ +F+ R L F++ + HPVL + + F+T
Sbjct: 77 RFSPEFVATRMRALHKFLNRIVEHPVLSFNEHLKVFLT 114
>gnl|CDD|132804 cd06894, PX_SNX3_like, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 3 and related 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. This
subfamily is composed of SNX3, SNX12, and fungal Grd19.
Grd19 is involved in the localization of late Golgi
membrane proteins in yeast. SNX3/Grp19 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.
Length = 123
Score = 33.6 bits (77), Expect = 0.051
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 74 GRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFI 111
G +EE+FIE R+ L++F++ V HP+ F+
Sbjct: 81 GIFEEEFIEERRKGLETFINKVAGHPLAQNEKCLHMFL 118
>gnl|CDD|132803 cd06893, PX_SNX19, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 19. 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. SNX19 contains an N-terminal
PXA domain, a central PX domain, and a C-terminal domain
that is conserved in some SNXs. These domains are also
found in SNX13 and SNX14, which also contain a regulator
of G protein signaling (RGS) domain in between the PXA
and PX domains. SNX19 interacts with IA-2, a major
autoantigen found in type-1 diabetes. It inhibits the
conversion of phosphatidylinositol-4,5-bisphosphate
[PI(4,5)P2] to PI(3,4,5)P3, which leads in the decrease
of protein phosphorylation in the Akt signaling pathway,
resulting in apoptosis. SNX19 may also be implicated in
coronary heart disease and thyroid oncocytic tumors.
Length = 132
Score = 33.3 bits (76), Expect = 0.082
Identities = 11/39 (28%), Positives = 20/39 (51%)
Query: 73 IGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFI 111
G ++ IE R+ L++F+ +C P + S Q F+
Sbjct: 91 FGNMDKDKIEARRGLLETFLRQLCSIPEISNSEEVQEFL 129
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3. This
protein, which interacts with both microtubules and
TRAF3 (tumour necrosis factor receptor-associated factor
3), is conserved from worms to humans. The N-terminal
region is the microtubule binding domain and is
well-conserved; the C-terminal 100 residues, also
well-conserved, constitute the coiled-coil region which
binds to TRAF3. The central region of the protein is
rich in lysine and glutamic acid and carries KKE motifs
which may also be necessary for tubulin-binding, but
this region is the least well-conserved.
Length = 506
Score = 34.5 bits (79), Expect = 0.086
Identities = 31/131 (23%), Positives = 57/131 (43%), Gaps = 8/131 (6%)
Query: 250 GLHKDILNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAM 309
GL + IL K+EYE + K+ S EI +E + + +
Sbjct: 363 GLVQKILETKKEYETGSGSASPGETEASSAAKKERDSSAR---EIE-QLRESIQTLTKSA 418
Query: 310 KSFLTEQINFYQKDILNKKREYEKMTTENKMEANRLQEVLKRTDTVS---YALLGEINHF 366
+ L + ++F Q+DI + +RE E +E + +A LQ+ + T+ L E+
Sbjct: 419 -NPLGKLLDFIQEDIDSMQRELEMWRSEYRQQAQALQQERRATEEALEPLKDQLAELEQA 477
Query: 367 HQEQVSQINAA 377
++Q S+I+
Sbjct: 478 IKDQRSKISNV 488
>gnl|CDD|240419 PTZ00440, PTZ00440, reticulocyte binding protein 2-like protein;
Provisional.
Length = 2722
Score = 33.7 bits (77), Expect = 0.22
Identities = 40/257 (15%), Positives = 97/257 (37%), Gaps = 30/257 (11%)
Query: 155 ETESCSRFIHGLDSAVKSLVAVVADQTKKCQTLYKREYQKIGIDRSHLRDALKKTGDTYN 214
E + ++S +K +V + K + Y + + + L + +K +
Sbjct: 496 YQEKVDELLQIINS-IKEKNNIVNNNFKNIEDYYI-TIEGLKNEIEGLIELIKYYLQSIE 553
Query: 215 ELGKLFEEQPKLDWEPLGDVLHIYKGIITSMPDILGLHKDILNKKREYEKMTTENKMEAN 274
L K + + + + + +I + + + DI+ L+ +I N ++ E++ E
Sbjct: 554 TLIKDEKLKRSMKNDIKNKIKYI-EENVDHIKDIISLNDEIDNIIQQIEELINEALFNKE 612
Query: 275 RLQEVLKRTDTVSYALLGEINH-FHQEQVSQINAAMKSFLTEQINFYQ--------KDIL 325
+ + I + F++ + ++ + FL + Y + +L
Sbjct: 613 KF----INEKNDLQEKVKYILNKFYKGDLQELLDELSHFLDDHKYLYHEAKSKEDLQTLL 668
Query: 326 NK-KREYEKMTTENKMEANRLQEVLKRTDTVSYALLG--------EINHFHQEQVSQINA 376
N K EYEK+ M+++ + ++K LL ++N+ Q+ + +N
Sbjct: 669 NTSKNEYEKL---EFMKSDNIDNIIKNLKKELQNLLSLKENIIKKQLNNIEQDISNSLNQ 725
Query: 377 AMKSF--LTEQINFYQK 391
+ L I Y++
Sbjct: 726 YTIKYNDLKSSIEEYKE 742
>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 = 30.8 bits (69), Expect = 0.36
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 73 IGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFIT 112
+ R+ E+F+E R+ L F+ + HPVL + + F+T
Sbjct: 75 VDRFSEEFVETRRKALDKFLKRIADHPVLSFNEHFNVFLT 114
>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 = 30.7 bits (69), Expect = 0.46
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 73 IGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFIT 112
+ R+ E FIE R+ L F++ + HP L + ++ F+T
Sbjct: 75 VERFNEDFIETRRKALHKFLNRIADHPTLTFNEDFKIFLT 114
>gnl|CDD|220535 pfam10037, MRP-S27, Mitochondrial 28S ribosomal protein S27.
Members of this family of small ribosomal proteins
possess one of three conserved blocks of sequence found
in proteins that stimulate the dissociation of guanine
nucleotides from G-proteins, leaving open the
possibility that MRP-S27 might be a functional partner
of GTP-binding ribosomal proteins.
Length = 417
Score = 31.7 bits (72), Expect = 0.78
Identities = 18/131 (13%), Positives = 45/131 (34%), Gaps = 14/131 (10%)
Query: 249 LGLHKDILNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAA 308
+ L ++ L+ + + ++++ L+++ + D + L E+V +
Sbjct: 275 VALSEEALDLLQSILE-KLSSELDEASLKKLQEAIDKSESSEL--DEDLLLEEVEKSKQK 331
Query: 309 MKSFLTEQINFYQKDILNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALL----GEIN 364
+ L + +Q+ K + K+E+ L V +R T+ L
Sbjct: 332 FEPLLAQYGESFQE--WRSKLQ-----ALAKVESRSLLSVEERLPTIEKEDLELYEQRQQ 384
Query: 365 HFHQEQVSQIN 375
+ E
Sbjct: 385 LWFFENRKLWQ 395
>gnl|CDD|227680 COG5391, COG5391, Phox homology (PX) domain protein [Intracellular
trafficking and secretion / General function prediction
only].
Length = 524
Score = 31.3 bits (71), Expect = 0.86
Identities = 53/332 (15%), Positives = 108/332 (32%), Gaps = 41/332 (12%)
Query: 69 EYQKIGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPV---WQHFITCTDEKRWKAGKRM 125
R+ ++FIE R+ LQ+F+ V HP+L W+ T + R
Sbjct: 208 SEYYGDRFSDEFIEERRQSLQNFLRRVSTHPLLSNYKNSKSWESHS--TLLSSFIEN-RK 264
Query: 126 AEKDNLLGPSLFLAIETPERSISHFNLEQETESCSRFIHGLDSAVKSLVAVVADQTKKCQ 185
+ L L + + N ES S+ IH + S +K
Sbjct: 265 SVPTPLS-LDLTSTTQELDMERKELN-----ESTSKAIHNILSIFSLF--------EKIL 310
Query: 186 TLYKREYQKIGIDRSHLRDALKKTGDTYNELGKLFEEQPKLDWEPLGDVLHIYKGIITSM 245
+ E + + L + L + K E + L + + + + +S+
Sbjct: 311 IQLESEEESLTRLLESLNNLLLLVLNFSGVFAKRLE---QNQNSILNEGVVQAETLRSSL 367
Query: 246 PDILGLHKDILNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQI 305
++L K RE +T N + + S Q +
Sbjct: 368 KELLTQ-LQDEIKSRESLILTDSNLEKLTDQNLEDVEELSRSLRKN-SSQRAVVSQQPEG 425
Query: 306 NAA-------MKSFLTEQINFYQKDILNKKREYEKMTTENKMEANRLQEVLKRTDTVSYA 358
+ ++ F+ E+ K I + +++ EK+ + A ++ + + +
Sbjct: 426 LTSFSKLSYKLRDFVQEK--SRSKSIESLQQDKEKLE---EQLAIAEKDAQEINEELKN- 479
Query: 359 LLGEINHFHQEQVSQINAAMKSFLTEQINFYQ 390
E+ F + S + +KS I + +
Sbjct: 480 ---ELKFFFSVRNSDLEKILKSVADSHIEWAE 508
>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 = 30.0 bits (67), Expect = 0.88
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 74 GRYEEQFIEHRKNQLQSFVDYVCRHPV 100
G +EE FIE R+ L+ F++ + HP+
Sbjct: 83 GIFEESFIEERRQGLEQFINKIAGHPL 109
>gnl|CDD|227608 COG5283, COG5283, Phage-related tail protein [Function unknown].
Length = 1213
Score = 31.4 bits (71), Expect = 0.93
Identities = 34/195 (17%), Positives = 73/195 (37%), Gaps = 15/195 (7%)
Query: 204 DALKKTGDTYNELGKLFEEQPKLDWEPLGDVLHIYKGIITSMPDILGLHKDILNKKREYE 263
+ LK + + K+ E+Q KL + L Y+G+ +M ++D+ + +E
Sbjct: 25 NVLKSSIKDSTQFWKMLEKQQKLTKDGLSASKGKYEGLSEAMEKQKKAYEDLKQEVKEVN 84
Query: 264 KMTTENKMEANRLQEVLKRTD------TVSYALLGEINHFHQEQV----SQINAAMKSFL 313
+ T +K + + + + + E Q+++ I+ KS +
Sbjct: 85 RATQASKKAYQEYNAQYTQAENKLRSLSGQFGVASEQLMLQQKEIQRLQYAISTLNKS-M 143
Query: 314 TEQINFYQK---DILNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQ 370
Q ++ + + + L + L+RT V+ A L + Q++
Sbjct: 144 AAQARLLEQTGNKFGTADAKVVGLRESFGRQTEALNKQLERTKKVADA-LTYVLDEAQQK 202
Query: 371 VSQINAAMKSFLTEQ 385
+SQ +A L E
Sbjct: 203 LSQALSARLERLQES 217
>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 = 29.7 bits (67), Expect = 1.1
Identities = 11/35 (31%), Positives = 21/35 (60%)
Query: 78 EQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFIT 112
+FIE R+ L+ +++ + HPV+ S + F+T
Sbjct: 84 AEFIEQRRVALEKYLNRLAAHPVIGLSDELRVFLT 118
>gnl|CDD|177987 PLN02354, PLN02354, copper ion binding / oxidoreductase.
Length = 552
Score = 30.5 bits (69), Expect = 1.8
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 5/80 (6%)
Query: 82 EHRKNQLQSFVDYVCRHPVLCRSPVWQH-FITCTDEKRWKAGKRMAEKDNLLGPSLFLAI 140
E RKN + +D V RH V W +T + W E+ LG L+ ++
Sbjct: 462 EKRKNY--NLLDAVSRHTVQVYPKSWAAILLTFDNAGMWNIRSENWER-RYLGQQLYASV 518
Query: 141 ETPERSI-SHFNLEQETESC 159
+PERS+ +N+ + C
Sbjct: 519 LSPERSLRDEYNMPENALLC 538
>gnl|CDD|220458 pfam09890, DUF2117, Uncharacterized protein conserved in archaea
(DUF2117). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 209
Score = 29.6 bits (67), Expect = 2.0
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 120 KAGKRMAEKDNLLGPSLFLAIETPERSISHFNLEQETESCSRFIHGLD 167
+ K +AEK L L L I +PE +S+ E + R I G+
Sbjct: 51 RKAKTLAEK---LSELLGLKIVSPENCVSNGECRNEGKRIVRRISGVF 95
>gnl|CDD|224202 COG1283, NptA, Na+/phosphate symporter [Inorganic ion transport and
metabolism].
Length = 533
Score = 30.3 bits (69), Expect = 2.1
Identities = 14/71 (19%), Positives = 31/71 (43%), Gaps = 4/71 (5%)
Query: 291 LGEINHFHQEQVSQINAAMKSFLTEQINFYQKDILNKK--REYEKMTTENKMEANRLQEV 348
L E++ + + A+ +T + ++ + KK R E+ + +K +RL++
Sbjct: 441 LEELDALFALTLENLRLAISVLVTGDLELARRLVERKKRVRRLERRS--SKRHLDRLRDG 498
Query: 349 LKRTDTVSYAL 359
+T S L
Sbjct: 499 AASVETSSLHL 509
>gnl|CDD|240103 cd04755, Commd7, COMM_Domain containing protein 7. The COMM Domain
is found at the C-terminus of a variety of proteins;
presumably all COMM_Domain containing proteins are
located in the nucleus and the COMM domain plays a role
in protein-protein interactions. Several family members
have been shown to bind and inhibit NF-kappaB.
Length = 180
Score = 29.3 bits (66), Expect = 2.4
Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 291 LGEINHFHQEQVSQINAAMKSFLTEQINFYQKDILNKKREYEKMTTENKMEANRLQEVLK 350
+ +N ++Q S++ + FL E + +LN+ E+ EN + L+ ++K
Sbjct: 1 IQNLNQLSEQQFSRLTEILFEFLLEPKE--SERLLNQLDEF---AGENGISLGPLKNIVK 55
>gnl|CDD|132809 cd07276, PX_SNX16, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 16. 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. SNX16 contains a central PX
domain followed by a coiled-coil region. SNX16 is
localized in early and recycling endosomes through the
binding of its PX domain to
phosphatidylinositol-3-phosphate (PI3P). It plays a role
in epidermal growth factor (EGF) signaling by regulating
EGF receptor membrane trafficking.
Length = 110
Score = 28.5 bits (64), Expect = 2.5
Identities = 11/40 (27%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 76 YEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFITCTD 115
++ F+E R+ LQ+FV+ + H + + + + F C D
Sbjct: 72 FDPDFLEERQLGLQAFVNNIMAHKDIAKCKLVREFF-CLD 110
>gnl|CDD|132801 cd06891, PX_Vps17p, The phosphoinositide binding Phox Homology
domain of yeast sorting nexin Vps17p. 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. Vsp17p forms a dimer with
Vps5p, the yeast counterpart of human SNX1, and is part
of the retromer complex that mediates the transport of
the carboxypeptidase Y receptor Vps10p from endosomes to
Golgi. Similar to Vps5p and SNX1, Vps17p harbors a
Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane
curvature, C-terminal to the PX domain. The PX-BAR
structural unit helps determine specific membrane
localization.
Length = 140
Score = 28.9 bits (65), Expect = 2.6
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 85 KNQLQSFVDYVCRHPVLCRSPVWQHFI 111
K LQ + + VC P+L R + FI
Sbjct: 111 KANLQRWFNRVCSDPILIRDEELRFFI 137
>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 = 28.4 bits (63), Expect = 2.7
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 74 GRYEEQFIEHRKNQLQSFVDYVCRHPV 100
G +++ FIE RK L+ F++ V HP+
Sbjct: 81 GIFDDSFIEERKQGLEQFLNKVAGHPL 107
>gnl|CDD|217495 pfam03326, Herpes_TAF50, Herpesvirus transcription activation
factor (transactivator). This family includes EBV BRLF1
and similar ORF 50 proteins from other herpesviruses.
Length = 500
Score = 29.4 bits (66), Expect = 3.7
Identities = 22/102 (21%), Positives = 37/102 (36%), Gaps = 18/102 (17%)
Query: 171 KSLVAVVADQTKKCQTLYKREYQKIGIDRSHLRDALKKTGDTYNEL---GKLFEEQ---- 223
K+L ++ + KKC ++R +G R L K+ YN L G + +
Sbjct: 58 KALFKLLKECRKKCLGAWRR----LGGGRRALMTLGKQVLTCYNTLRAEGLISPKVKAFI 113
Query: 224 ----PKLDWEPLGDVLHIY-KGIITSMPDILGLHKDILNKKR 260
P D E + L GI+ + + +KR
Sbjct: 114 KLVFPPPDLENVFQPLFQSATGILKDDVKL--CTQGSAERKR 153
>gnl|CDD|132821 cd07288, PX_SNX15, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 15. 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. SNX15 contains an N-terminal
PX domain and a C-terminal Microtubule Interacting and
Trafficking (MIT) domain. It plays a role in protein
trafficking processes in the endocytic pathway and the
trans-Golgi network. The PX domain of SNX15 interacts
with the PDGF receptor and is responsible for the
membrane association of the protein.
Length = 118
Score = 28.0 bits (62), Expect = 3.7
Identities = 13/40 (32%), Positives = 20/40 (50%)
Query: 71 QKIGRYEEQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHF 110
Q GR+E IE R+N ++ + + P L SP + F
Sbjct: 75 QVFGRFEAAVIEERRNAAEAMLLFTVNIPALYNSPQLKEF 114
>gnl|CDD|147730 pfam05735, TSP_C, Thrombospondin C-terminal region. This region is
found at the C-terminus of thrombospondin and related
proteins.
Length = 201
Score = 28.5 bits (64), Expect = 4.5
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 201 HLRDALKKTGDTYNELGKLFEEQPKLDWEP 230
LR+AL TGDT N++ L+++ + W+P
Sbjct: 104 ALRNALWHTGDTTNQVRLLWKDPRNIGWKP 133
>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 = 27.7 bits (62), Expect = 4.6
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 73 IGRYE-EQFIEHRKNQLQSFVDYVCRHPVLCRSPVWQHFI 111
GR+ E FIE R+ LQ F++ V + P+L F+
Sbjct: 71 FGRFNNEGFIEERQQGLQDFLEKVLQTPLLLSDSRLHLFL 110
>gnl|CDD|178629 PLN03080, PLN03080, Probable beta-xylosidase; Provisional.
Length = 779
Score = 29.1 bits (65), Expect = 4.8
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 17 KVMDHILSISHFNLEQETESCSRFIHGLDSAVKSLVAVVADQTKK 61
K D ++ ++ +L QETE R L L++ VA +KK
Sbjct: 486 KRADFVVVVAGLDLSQETEDHDRVSLLLPGKQMDLISSVASVSKK 530
>gnl|CDD|202832 pfam03960, ArsC, ArsC family. This family is related to
glutaredoxins pfam00462.
Length = 109
Score = 27.5 bits (62), Expect = 4.8
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 190 REYQKIGIDRSHLRDALKKTGDTYNEL----GKLFEE 222
+Y + + L+D L KTGD + EL G + E
Sbjct: 26 IDYLETPPSKEELKDILSKTGDGWEELLNTRGTTYRE 62
>gnl|CDD|148617 pfam07111, HCR, Alpha helical coiled-coil rod protein (HCR). This
family consists of several mammalian alpha helical
coiled-coil rod HCR proteins. The function of HCR is
unknown but it has been implicated in psoriasis in
humans and is thought to affect keratinocyte
proliferation.
Length = 739
Score = 29.3 bits (65), Expect = 5.0
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 6/84 (7%)
Query: 275 RLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAMK---SFLTEQINFYQKDI--LNKKR 329
+EV K + L E HQEQ+S + A S L + +K + L +R
Sbjct: 126 GAEEVRKNLEEGGQQELEEAQRLHQEQLSSLTQAHLEALSSLRSKAEGLEKSLQSLETRR 185
Query: 330 EYEKMT-TENKMEANRLQEVLKRT 352
E + EA+ L+E L +T
Sbjct: 186 AGEAKALAAAQAEADTLREQLSKT 209
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 28.9 bits (65), Expect = 5.3
Identities = 20/108 (18%), Positives = 43/108 (39%), Gaps = 2/108 (1%)
Query: 247 DILGLHKDILNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQIN 306
++ +I N+ E ++ + RL E L+ L E+ Q ++ ++N
Sbjct: 387 ELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEEL-QTELEELN 445
Query: 307 AAMKSFLTEQINFYQKDILNKKREYEKMTTENKMEANRLQEVLKRTDT 354
++ L EQ+ + + +RE ++ E + L + R D
Sbjct: 446 EELEE-LEEQLEELRDRLKELERELAELQEELQRLEKELSSLEARLDR 492
>gnl|CDD|237515 PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol
dehydrogenase; Provisional.
Length = 862
Score = 28.2 bits (64), Expect = 8.4
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 266 TTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAM 309
T+ +M + E+ + A E F QEQV +I A
Sbjct: 1 MTKEEMAVTNVAELDALVEKAKKAQE-EFATFTQEQVDKIVRAA 43
Score = 28.2 bits (64), Expect = 8.4
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 335 TTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAM 378
T+ +M + E+ + A E F QEQV +I A
Sbjct: 1 MTKEEMAVTNVAELDALVEKAKKAQE-EFATFTQEQVDKIVRAA 43
>gnl|CDD|233255 TIGR01061, parC_Gpos, DNA topoisomerase IV, A subunit,
Gram-positive. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation of
chromosome segregation. Not every bacterium has both a
topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason [DNA metabolism, DNA replication,
recombination, and repair].
Length = 738
Score = 28.2 bits (63), Expect = 8.9
Identities = 16/105 (15%), Positives = 34/105 (32%), Gaps = 3/105 (2%)
Query: 254 DILNKKREYEKMTTENKMEANRLQEVLKRTDTVSYALLGEINHFHQEQVSQINAAMKSFL 313
DI K E ++ + + R + L F Q++ SQI +
Sbjct: 428 DIFELKEEQNELEKKIISLEQIIASEKARNKLLKKQLEEYKKQFAQQRRSQIEDFINQIK 487
Query: 314 TEQINFYQKDILN---KKREYEKMTTENKMEANRLQEVLKRTDTV 355
+ + + K Y K T+ +++ + + D +
Sbjct: 488 INESELIENEDYYVLITKAGYIKRTSNRSFASSKYTDFGSKDDDI 532
>gnl|CDD|150843 pfam10232, Med8, Mediator of RNA polymerase II transcription
complex subunit 8. Arc32, or Med8, is one of the
subunits of the Mediator complex of RNA polymerase II.
The region conserved contains two alpha helices
putatively necessary for binding to other subunits
within the core of the Mediator complex. The N-terminus
of Med8 binds to the essential core Head part of
Mediator and the C-terminus hinges to Med18 on the
non-essential part of the Head that also includes Med20.
Length = 226
Score = 27.9 bits (62), Expect = 9.1
Identities = 35/177 (19%), Positives = 59/177 (33%), Gaps = 23/177 (12%)
Query: 216 LGKLFEEQPKLDWEPLGDVLHIYKGIITSMPDILGLHKDILNKKREYEKMTTENKMEANR 275
+ KL +E W D I + S+ IL KD+L Y + +
Sbjct: 31 IDKLEQEYELPSWPTFQDQFAILSSQLVSLTKILAHEKDLLRNTVVYPLPLFPTRDQEPL 90
Query: 276 LQEVLKRTDTVSYALLGEINHFHQEQVSQINAAMKSFLTEQINFYQKDILNKKREYEKMT 335
+ +L RT E+ +E + Q ++ KD K+ +
Sbjct: 91 VTTLL-RTK-----PDPEV----EEWMKQARQKAENS--------TKDTAAKQEVEIDIL 132
Query: 336 TENKMEANRLQEVLKRTD---TVSYALLGEINHFHQEQVSQINAA--MKSFLTEQIN 387
+NK +N L +V K + S + +E +Q+ AA L I
Sbjct: 133 QQNKEVSNWLDKVTKLREEWEFESSHRVEIEQTSEEEDTNQLVAAVKDGKGLRPAIR 189
>gnl|CDD|218083 pfam04426, Bul1_C, Bul1 C terminus. This family contains the C
terminus of Saccharomyces cerevisiae Bul1. Bul1 binds
the ubiquitin ligase Rsp5, via an N terminal PPSY motif.
The complex containing Bul1 and Rsp5 is involved in
intracellular trafficking of the general amino acid
permease Gap1, degradation of Rog1 in cooperation with
Bul2 and GSK-3, and mitochondrial inheritance. Bul1 may
contain HEAT repeats.
Length = 226
Score = 27.7 bits (62), Expect = 9.9
Identities = 26/103 (25%), Positives = 42/103 (40%), Gaps = 12/103 (11%)
Query: 245 MPDILGLHKDILNKKREYEKMTTENKMEANRL---------QEVLKRTDTVSYALLGEIN 295
+ +I KD L K +EY+K ENK + N L LK TD +S L ++
Sbjct: 77 LKNIKKTFKDFLKKIKEYKKKFNENKEKLNELYNLNRTISTNRELKFTDFISTQLANDVE 136
Query: 296 HFHQEQVSQINAAMKSFLTEQINFYQKDILNKKREYEKMTTEN 338
+V+ N + +Q+ K + +YE+ N
Sbjct: 137 SLANLKVNVTN--LNDIFKKQVVT-LKWLKKGSLQYERDVNVN 176
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 0.133 0.381
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,519,787
Number of extensions: 1855905
Number of successful extensions: 2032
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2002
Number of HSP's successfully gapped: 104
Length of query: 393
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 294
Effective length of database: 6,546,556
Effective search space: 1924687464
Effective search space used: 1924687464
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: 60 (26.9 bits)