RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17650
(396 letters)
>gnl|CDD|153332 cd07648, F-BAR_FCHO, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of FCH domain Only proteins.
F-BAR domains are dimerization modules that bind and
bend membranes and are found in proteins involved in
membrane dynamics and actin reorganization. Proteins in
this group have been named FCH domain Only (FCHO)
proteins. Vertebrates have two members, FCHO1 and FCHO2.
These proteins contain an F-BAR domain and a C-terminal
domain of unknown function named SAFF which is also
present in endophilin interacting protein 1. F-BAR
domains form banana-shaped dimers with a
positively-charged concave surface that binds to
negatively-charged lipid membranes. They can induce
membrane deformation in the form of long tubules.
Length = 261
Score = 224 bits (573), Expect = 2e-71
Identities = 87/158 (55%), Positives = 116/158 (73%), Gaps = 3/158 (1%)
Query: 1 ANIEENNSKLFGKLAKQSGGS---GTFAPLWQVLKTSIEKIATVQVKMMQKVNDLVKDVC 57
A IEE SK KLAKQ+ S GTFAPLW VL+ S EK++ + ++++QK+ +L+KDV
Sbjct: 32 ATIEETYSKALNKLAKQASNSSQLGTFAPLWLVLRVSTEKLSELHLQLVQKLQELIKDVQ 91
Query: 58 KYTEELQKKHKLVKEEQGPTLEIVQTIQSTTLVLQKAKDVYLQKCEELDKLRRDNGSAKD 117
KY EE KKHK VKEE+ T E VQ IQ+TT LQKAK+ Y +C EL++LRR+N S K+
Sbjct: 92 KYGEEQHKKHKKVKEEESGTAEAVQAIQTTTAALQKAKEAYHARCLELERLRRENASPKE 151
Query: 118 LEKAELKVKKAQEDYKTIVDKYALIKEDFEKRMSTSCK 155
+EKAE K+KKAQ++YK +V+KY I+ DFE +M+ SCK
Sbjct: 152 IEKAEAKLKKAQDEYKALVEKYNNIRADFETKMTDSCK 189
>gnl|CDD|153357 cd07673, F-BAR_FCHO2, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of FCH domain Only 2
protein. F-BAR domains are dimerization modules that
bind and bend membranes and are found in proteins
involved in membrane dynamics and actin reorganization.
The specific function of FCH domain Only 2 (FCHO2) is
still unknown. It contains an N-terminal F-BAR domain
and a C-terminal domain of unknown function named SAFF
which is also present in FCHO1 and endophilin
interacting protein 1. F-BAR domains form banana-shaped
dimers with a positively-charged concave surface that
binds to negatively-charged lipid membranes. They can
induce membrane deformation in the form of long tubules.
Length = 269
Score = 147 bits (373), Expect = 6e-42
Identities = 78/172 (45%), Positives = 113/172 (65%), Gaps = 4/172 (2%)
Query: 1 ANIEENNSKLFGKLAKQSGGS---GTFAPLWQVLKTSIEKIATVQVKMMQKVNDLVKDVC 57
A IEE S+ KLAK + GTFAP+W V KTS EK+A +++++K+ +L+K+V
Sbjct: 39 ATIEEAYSRSMTKLAKSASNYSQLGTFAPVWDVFKTSTEKLANCHLELVRKLQELIKEVQ 98
Query: 58 KYTEELQKKHKLVKEEQGPTLEIVQTIQSTTLVLQKAKDVYLQKCEELDKLRRDNGSAKD 117
KY EE K HK KEE TLE VQ IQS T LQK+K+ Y KC E ++L+++ + ++
Sbjct: 99 KYGEEQVKSHKKTKEEVAGTLEAVQNIQSITQALQKSKENYNAKCLEQERLKKEGATQRE 158
Query: 118 LEKAELKVKKAQEDYKTIVDKYALIKEDFEKRMS-TSCKIRNDDRDHKIHVE 168
+EKA +K KKA E YK V+KYAL K DFE++M+ T+ K ++ + H I ++
Sbjct: 159 IEKAAVKSKKATESYKLYVEKYALAKADFEQKMTETAQKFQDIEETHLIRIK 210
>gnl|CDD|153358 cd07674, F-BAR_FCHO1, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of FCH domain Only 1
protein. F-BAR domains are dimerization modules that
bind and bend membranes and are found in proteins
involved in membrane dynamics and actin reorganization.
FCH domain Only 1 (FCHO1) may be involved in
clathrin-coated vesicle formation. It contains an
N-terminal F-BAR domain and a C-terminal domain of
unknown function named SAFF which is also present in
FCHO2 and endophilin interacting protein 1. F-BAR
domains form banana-shaped dimers with a
positively-charged concave surface that binds to
negatively-charged lipid membranes. They can induce
membrane deformation in the form of long tubules.
Length = 261
Score = 138 bits (349), Expect = 2e-38
Identities = 73/156 (46%), Positives = 103/156 (66%), Gaps = 3/156 (1%)
Query: 1 ANIEENNSKLFGKLAKQ-SGGS--GTFAPLWQVLKTSIEKIATVQVKMMQKVNDLVKDVC 57
A IEE SK KL+K S GS GTFAP+W+V + S +K+A +++M+K+NDL+KD+
Sbjct: 32 AAIEETYSKSMSKLSKMASNGSPLGTFAPMWEVFRVSSDKLALCHLELMRKLNDLIKDIN 91
Query: 58 KYTEELQKKHKLVKEEQGPTLEIVQTIQSTTLVLQKAKDVYLQKCEELDKLRRDNGSAKD 117
+Y +E K HK KEE TLE VQ++Q + LQK+++ Y KC E ++LRR+ K+
Sbjct: 92 RYGDEQVKIHKKTKEEAIGTLEAVQSLQVQSQHLQKSRENYHSKCVEQERLRREGVPQKE 151
Query: 118 LEKAELKVKKAQEDYKTIVDKYALIKEDFEKRMSTS 153
LEKAELK KKA E + V+KY + DFE++M S
Sbjct: 152 LEKAELKTKKAAESLRGSVEKYNRARGDFEQKMLES 187
>gnl|CDD|211376 cd09265, AP_Syp1_like_MHD, Mu-homology domain (MHD) of endocytic
adaptor protein (AP), Syp1. This family corresponds to
the MHD found in the metazoan counterparts of yeast
Syp1, which includes two ubiquitously expressed
membrane-sculpting F-BAR domain-containing Fer/Cip4
homology domain-only proteins 1 and 2 (FCH domain only 1
and 2, or FCHo1/FCHo2), neuronal-specific SH3-containing
GRB2-like protein 3-interacting protein 1 (SGIP1), and
related uncharacterized proteins. FCHo1/FCHo2 represent
key initial proteins ultimately controlling cellular
nutrient uptake, receptor regulation, and synaptic
vesicle retrieval. They are required for plasma membrane
clathrin-coated vesicle (CCV) budding and marked sites
of CCV formation. They bind specifically to the plasma
membrane and recruit the scaffold proteins eps15 and
intersectin, which subsequently engage the adaptor
complex AP2 and clathrin, leading to coated vesicle
formation. Both FCHo1/FCHo2 contain an N-terminal
EFC/F-BAR domain that induces membrane tabulation, a
proline-rich domain (PRD) in the middle region, and a
C-terminal MHD responsible for the binding of eps15 and
intersectin. Another mammalian neuronal-specific
protein, neuronal-specific transcript Scr homology 3
(SH3)-domain growth factor receptor-bound 2 (GRB2)-like
(endophilin) interacting protein 1 [SGIP1] does not
contain EFC/F-BAR domain, but does have a PRD and a
C-terminal MHD and has been classified into this family
as well. SGIP1 is an endophilin-interacting protein that
plays an obligatory role in the regulation of energy
homeostasis. It is also involved in clathrin-mediated
endocytosis by interacting with phospholipids and eps15.
Length = 258
Score = 121 bits (306), Expect = 3e-32
Identities = 45/71 (63%), Positives = 59/71 (83%)
Query: 325 PLAVAFHEIIHSYFRGTDETRCQVKMSGDMMLSFPAGIVSILTSNPSPAQLKFKVSNISH 384
P+AVAF E +H+YF+GTD T+C VK++G++M+SFPAGIV LTSNPSPA L F++ N S
Sbjct: 1 PVAVAFTETVHAYFKGTDSTKCIVKITGEVMMSFPAGIVRALTSNPSPAPLSFRLKNASR 60
Query: 385 IENMLPNKQLI 395
IE++LPN QLI
Sbjct: 61 IESVLPNAQLI 71
>gnl|CDD|211378 cd09267, FCHo2_MHD, mu-homology domain (MHD) of F-BAR
domain-containing Fer/Cip4 homology domain-only protein
2 (FCH domain only 2 or FCHo2) and similar proteins.
This family corresponds to the MHD found in the
ubiquitously expressed mammalian membrane-sculpting
FCHo2 and similar proteins. FCHo2 represents a key
initial protein that ultimately controls cellular
nutrient uptake, receptor regulation, and synaptic
vesicle retrieval. It is required for plasma membrane
clathrin-coated vesicle (CCV) budding and marks sites of
CCV formation. It binds specifically to the plasma
membrane and recruits the scaffold proteins eps15 and
intersectin, which subsequently engages the adaptor
complex AP2 and clathrin, leading to coated vesicle
formation. FCHo2 contains an N-terminal EFC/F-BAR
domain, a proline-rich domain (PRD) in the middle
region, and a C-terminal MHD. The crescent-shaped
EFC/F-BAR domain can form an antiparallel dimer
structure that binds PtdIns(4,5)P2-enriched membranes
and can polymerize into rings to generate membrane
tubules. The MHD is structurally related to the
cargo-binding mu2 subunit of adaptor complex 2 (AP-2)
and is responsible for the binding of eps15 and
intersectin.
Length = 267
Score = 97.0 bits (241), Expect = 5e-23
Identities = 38/71 (53%), Positives = 55/71 (77%)
Query: 325 PLAVAFHEIIHSYFRGTDETRCQVKMSGDMMLSFPAGIVSILTSNPSPAQLKFKVSNISH 384
P+AVA E +++YF+G D T+C VK++GDM +SFP+GI+ + TSNPSPA L F++ N S
Sbjct: 1 PVAVALTESVNAYFKGADPTKCIVKITGDMTVSFPSGIIKVFTSNPSPAVLCFRLKNTSR 60
Query: 385 IENMLPNKQLI 395
+E +LPN QL+
Sbjct: 61 LEQILPNAQLL 71
>gnl|CDD|211379 cd09268, FCHo1_MHD, mu-homology domain (MHD) of F-BAR
domain-containing Fer/Cip4 homology domain-only protein
1 (FCH domain only 1 or FCHo1, also known as KIAA0290)
and similar proteins. This family corresponds to the
MHD found in ubiquitously expressed mammalian
membrane-sculpting FCHo1 and similar proteins. FCHo1
represents a key initial protein that ultimately
controls cellular nutrient uptake, receptor regulation,
and synaptic vesicle retrieval. It is required for
plasma membrane clathrin-coated vesicle (CCV) budding
and marks sites of CCV formation. It binds specifically
to the plasma membrane and recruits the scaffold
proteins eps15 and intersectin, which subsequently
engage the adaptor complex AP2 and clathrin, leading to
coated vesicle formation. FCHo1 contains an N-terminal
EFC/F-BAR domain, a proline-rich domain (PRD) in the
middle region, and a C-terminal MHD. The crescent-shaped
EFC/F-BAR domain can form an antiparallel dimer
structure that binds PtdIns(4,5)P2-enriched membranes
and can polymerize into rings to generate membrane
tubules. The MHD is structurally related to the
cargo-binding mu2 subunit of adaptor complex 2 (AP-2)
and is responsible for the binding of eps15 and
intersectin. Unlike other F-BAR domain containing
proteins, FCHo1 has neither the Src homology 3 (SH3)
domain nor any other known domain for interaction with
dynamin and actin cytoskeleton. However, it can
periodically accumulate at the budding site of clathrin.
FCHo1 may utilize a unique action mode for vesicle
formation as compared with other F-BAR proteins.
Length = 259
Score = 88.1 bits (218), Expect = 7e-20
Identities = 29/71 (40%), Positives = 49/71 (69%)
Query: 325 PLAVAFHEIIHSYFRGTDETRCQVKMSGDMMLSFPAGIVSILTSNPSPAQLKFKVSNISH 384
P+A AF E +H+YFRG C ++++G++ +SFPAGI+ + S P+P L F++ + SH
Sbjct: 1 PVAAAFTEYVHAYFRGGALEGCLLRITGELTMSFPAGILRVFASTPTPPVLSFRLVHTSH 60
Query: 385 IENMLPNKQLI 395
+E+ PN +L+
Sbjct: 61 VEHFAPNSELL 71
>gnl|CDD|211377 cd09266, SGIP1_MHD, mu-homology domain (MHD) of Scr homology 3
(SH3)-domain growth factor receptor-bound 2 (GRB2)-like
(endophilin) interacting protein 1 (also known as
endophilin-3-interacting protein, SGIP1) and similar
proteins. This family corresponds to the MHD found in
mammalian neuronal-specific transcript SGIP1 and similar
proteins. Unlike other members in this family, SGIP1
does not contain EFC/F-BAR domain, but does have a
proline-rich domain (PRD) and a C-terminal MHD. It is an
endophilin-interacting protein that plays an obligatory
role in the regulation of energy homeostasis, and is
also involved in clathrin-mediated endocytosis by
interacting with phospholipids and eps15.
Length = 261
Score = 87.8 bits (217), Expect = 8e-20
Identities = 36/71 (50%), Positives = 55/71 (77%)
Query: 325 PLAVAFHEIIHSYFRGTDETRCQVKMSGDMMLSFPAGIVSILTSNPSPAQLKFKVSNISH 384
P+A AF E +++YF+G D ++C VK++G+M+LSFPAGI +NPSPA L F+++N S
Sbjct: 1 PVAAAFTETVNAYFKGADPSKCIVKITGEMVLSFPAGITRHFANNPSPAVLTFRITNYSR 60
Query: 385 IENMLPNKQLI 395
+E++LPN QL+
Sbjct: 61 LEHVLPNPQLL 71
>gnl|CDD|220677 pfam10291, muHD, Muniscin C-terminal mu homology domain. The
muniscins are a family of endocytic adaptors that is
conserved from yeast to humans.This C-terminal domain is
structurally similar to mu homology domains, and is the
region of the muniscin proteins involved in the
interactions with the endocytic adaptor-scaffold
proteins Ede1-eps15. This interaction influences
muniscin localisation. The muniscins provide a combined
adaptor-membrane-tubulation activity that is important
for regulating endocytosis.
Length = 251
Score = 81.6 bits (202), Expect = 9e-18
Identities = 28/73 (38%), Positives = 46/73 (63%), Gaps = 5/73 (6%)
Query: 323 TIPLAVAFHEIIHSYFRGTDETRCQVKMSGDMMLSFPAGIVSILTSNPSPAQLKFKVSNI 382
T L + E +++YF+G ++ VK+ G++ LS+PAGIV+ T +PA L F+++N
Sbjct: 1 TPGLNASIAETVNAYFKGGQVSK--VKVVGEIALSYPAGIVASFT---NPAPLNFRLNNF 55
Query: 383 SHIENMLPNKQLI 395
S +E +LPN I
Sbjct: 56 SRLEKVLPNPAFI 68
>gnl|CDD|153331 cd07647, F-BAR_PSTPIP, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine
Phosphatase-Interacting Proteins. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Vetebrates contain two
Proline-Serine-Threonine Phosphatase-Interacting
Proteins (PSTPIPs), PSTPIP1 and PSTPIP2. PSTPIPs are
mainly expressed in hematopoietic cells and are involved
in the regulation of cell adhesion and motility.
Mutations in PSTPIPs have been shown to cause
autoinflammatory disorders. PSTPIP1 contains an
N-terminal F-BAR domain, PEST motifs, and a C-terminal
SH3 domain, while PSTPIP2 contains only the N-terminal
F-BAR domain. F-BAR domains form banana-shaped dimers
with a positively-charged concave surface that binds to
negatively-charged lipid membranes. They can induce
membrane deformation in the form of long tubules.
Length = 239
Score = 59.0 bits (143), Expect = 6e-10
Identities = 44/176 (25%), Positives = 75/176 (42%), Gaps = 27/176 (15%)
Query: 1 ANIEENNSKLFGKLAKQSGG---SGTFAPLWQVLKTSIEKIATVQVKMMQKVNDLVKDVC 57
A EE+ K KL+K +G GT W L+ E +A +++ Q + +
Sbjct: 32 AKAEEDYGKALLKLSKSAGPGDEIGTLKSSWDSLRKETENVANAHIQLAQSLREEA---- 87
Query: 58 KYTEELQKKHKLVKEEQGPTLEIVQTIQSTTLVL----QKAKDVYLQKCEELDKLRRD-- 111
E+L++ + KEE+ T +I++ Q L KAK Y QKC E DK +
Sbjct: 88 ---EKLEEFREKQKEERKKTEDIMKRSQKNKKELYKKTMKAKKSYEQKCREKDKAEQAYE 144
Query: 112 ----NGSAKDLEKAELKVK-------KAQEDYKTIVDKYALIKEDFEKRMSTSCKI 156
K+ EK + K +A YK+ + + ++E +T+C++
Sbjct: 145 KSSSGAQPKEAEKLKKKAAQCKTSAEEADSAYKSSIGCLEDARVEWESEHATACQV 200
>gnl|CDD|153335 cd07651, F-BAR_PombeCdc15_like, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe
Cdc15, and similar proteins. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. This subfamily is composed of
Schizosaccharomyces pombe Cdc15 and Imp2, and similar
proteins. These proteins contain an N-terminal F-BAR
domain and a C-terminal SH3 domain. S. pombe Cdc15 and
Imp2 play both distinct and overlapping roles in the
maintenance and strengthening of the contractile ring at
the division site, which is required in cell division.
Cdc15 is a component of the actomyosin ring and is
required in normal cytokinesis. Imp2 colocalizes with
the medial ring during septation and is required for
normal septation. F-BAR domains form banana-shaped
dimers with a positively-charged concave surface that
binds to negatively-charged lipid membranes. They can
induce membrane deformation in the form of long tubules.
Length = 236
Score = 42.3 bits (100), Expect = 2e-04
Identities = 35/167 (20%), Positives = 69/167 (41%), Gaps = 14/167 (8%)
Query: 1 ANIEENNSKLFGKLAKQSGGSGTFAPL---WQVLKTSIEKIATVQVKMMQKVNDLVKDVC 57
A+IEE +K KL+++S G L L+ E +A +K +++ +++
Sbjct: 32 ASIEEEYAKRLEKLSRKSLGGSEEGGLKNSLDTLRLETESMAKSHLKFAKQIRQDLEE-- 89
Query: 58 KYTEELQKKHKLVKEEQGPTLEIVQTIQSTTLVLQKAKDVYLQKCEELDKLRRDNGSA-- 115
K + K+ Q ++++ Q L+KA++ Y C +++ +
Sbjct: 90 KLAAFASSYTQKRKKIQSHMEKLLKKKQDQEKYLEKAREKYEADCSKINSYTLQSQLTWG 149
Query: 116 KDLEKAELKVKKAQ-------EDYKTIVDKYALIKEDFEKRMSTSCK 155
K+LEK K+ KAQ DY+ V + E + + +
Sbjct: 150 KELEKNNAKLNKAQSSINSSRRDYQNAVKALRELNEIWNREWKAALD 196
>gnl|CDD|153294 cd07610, FCH_F-BAR, The Extended FES-CIP4 Homology (FCH) or F-BAR
(FCH and Bin/Amphiphysin/Rvs) domain, a dimerization
module that binds and bends membranes. F-BAR domains
are dimerization modules that bind and bend membranes
and are found in proteins involved in membrane dynamics
and actin reorganization. F-BAR domain containing
proteins, also known as Pombe Cdc15 homology (PCH)
family proteins, include Fes and Fer tyrosine kinases,
PACSINs/Syndapins, FCHO, PSTPIP, CIP4-like proteins and
srGAPs. Many members also contain an SH3 domain and play
roles in endocytosis. F-BAR domains form banana-shaped
dimers with a positively-charged concave surface that
binds to negatively-charged lipid membranes. They can
induce membrane deformation in the form of long tubules.
These tubules have diameters larger than those observed
with N-BARs. The F-BAR domains of some members such as
NOSTRIN and Rgd1 are important for the subcellular
localization of the protein.
Length = 191
Score = 37.7 bits (88), Expect = 0.004
Identities = 27/118 (22%), Positives = 59/118 (50%), Gaps = 8/118 (6%)
Query: 1 ANIEENNSKLFGKLAKQSG-----GSGTFAPLWQVLKTSIEKIATVQVKMMQKVNDLVKD 55
A IEE +K KLAK+ G + W L+ E ATV ++ +K++ L+++
Sbjct: 27 AAIEEEYAKNLQKLAKKFSKKPESGKTSLGTSWNSLREETESAATVHEELSEKLSQLIRE 86
Query: 56 VCKYTEELQKKHKLVKEEQGPTLEIVQTIQSTTL-VLQKAKDVYLQKCEELDKLRRDN 112
+ +E +++ + K+E ++ + +Q + +KA + Y ++ E+L+ + +
Sbjct: 87 PLEKVKEDKEQAR--KKELAEGEKLKKKLQELWAKLAKKADEEYREQVEKLNPAQSEY 142
>gnl|CDD|211368 cd09257, AP_muniscins_like_MHD, Mu-homology domain (MHD) of
muniscins adaptor proteins (AP) and similar proteins.
This family corresponds to the MHD found in muniscins, a
novel family of endocytic adaptor proteins. The term,
muniscins, has been assigned to name the MHD of proteins
with both EFC/F-BAR domain and MHD. These two domains
are responsible for the membrane-tubulation activity
associated with transmembrane cargo proteins. Members in
this family include an endocytic adaptor Syp1, the
mammalian FCH domain only proteins (FCHo1/2),
SH3-containing GRB2-like protein 3-interacting protein 1
(SGIP1), and related uncharacterized proteins. Syp1 is a
poorly characterized yeast protein with multiple
biological functions. Syp1 contains an N-terminal
EFC/F-BAR domain that induces membrane tabulation, a
proline-rich domain (PRD) in the middle region, and a
C-terminal MHD that can directly binds to the endocytic
adaptor/scaffold protein Ede1 or a transmembrane stress
sensor cargo protein Mid2. Thus, Syp1 represents a novel
type of endocytic adaptor protein that participates in
endocytosis, promotes vesicle tabulation, and
contributes to cell polarity and stress response. Syp1
shares the same domain architecture with its two
ubiquitously expressed mammalian counterparts, the
membrane-sculpting F-BAR domain-containing Fer/Cip4
homology domain-only proteins 1 and 2 (FCHo1/2). FCHo1/2
represent key initial proteins ultimately controlling
cellular nutrient uptake, receptor regulation, and
synaptic vesicle retrieval. They are required for plasma
membrane clathrin-coated vesicle (CCV) budding and
marked sites of CCV formation. They bind specifically to
the plasma membrane and recruit the scaffold proteins
eps15 and intersectin, which subsequently engage the
adaptor complex AP2 and clathrin, leading to coated
vesicle formation. Another mammalian neuronal-specific
protein, neuronal-specific transcript Scr homology 3
(SH3)-domain growth factor receptor-bound 2 (GRB2)-like
(endophilin) interacting protein 1 [SGIP1] does not
contain EFC/F-BAR domain, but does have a PRD and a
C-terminal MHD and has been classified into this family
as well. SGIP1 is an endophilin-interacting protein that
plays an obligatory role in the regulation of energy
homeostasis. It is also involved in clathrin-mediated
endocytosis by interacting with phospholipids and eps15.
Length = 246
Score = 38.2 bits (89), Expect = 0.004
Identities = 17/73 (23%), Positives = 35/73 (47%), Gaps = 8/73 (10%)
Query: 325 PLAVAFHEIIHSYFRGTDETRCQVKMSGDMMLSFPAGIVSILTSNPSPAQLKFKVSNISH 384
+++A E +++ F+G+ C V + G + + P+ V P PA ++++ S
Sbjct: 1 TVSLALTEELNAEFKGSSL--CSVGVEGSVQVKVPSSGVK-----PKPAPFNLRLNDASA 53
Query: 385 -IENMLPNKQLIN 396
+EN + N I
Sbjct: 54 SVENAILNVAFIE 66
>gnl|CDD|153333 cd07649, F-BAR_GAS7, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Growth Arrest Specific
protein 7. F-BAR domains are dimerization modules that
bind and bend membranes and are found in proteins
involved in membrane dynamics and actin reorganization.
Growth Arrest Specific protein 7 (GAS7) is mainly
expressed in the brain and is required for neurite
outgrowth. It may also play a role in the protection and
migration of embryonic stem cells. Treatment-related
acute myeloid leukemia (AML) has been reported resulting
from mixed-lineage leukemia (MLL)-GAS7 translocations as
a complication of primary cancer treatment. GAS7
contains an N-terminal SH3 domain, followed by a WW
domain, and a central F-BAR domain. F-BAR domains form
banana-shaped dimers with a positively-charged concave
surface that binds to negatively-charged lipid
membranes. They can induce membrane deformation in the
form of long tubules.
Length = 233
Score = 38.1 bits (88), Expect = 0.005
Identities = 38/161 (23%), Positives = 75/161 (46%), Gaps = 13/161 (8%)
Query: 3 IEENNSKLFGKLAKQSGGS---GTFAPLWQVLKTSIEKIATVQVKMMQKVNDLV-KDVCK 58
IEE +K KL++ S + GT W +K S+ A V +K K+ V K +
Sbjct: 34 IEEEYAKNLSKLSQSSLAAQEEGTLGEAWAQVKKSLADEAEVHLKFSSKLQSEVEKPLLN 93
Query: 59 YTEELQKKHKLVKEEQGPTLEIVQTIQSTTLVLQKAKDVYLQKCEELD------KLRRDN 112
+ E +K K + ++ + + S ++KA+ L++ ++L+ +++ N
Sbjct: 94 FRENFKKDMKKLDHH---IADLRKQLASRYAAVEKARKALLERQKDLEGKTQQLEIKLSN 150
Query: 113 GSAKDLEKAELKVKKAQEDYKTIVDKYALIKEDFEKRMSTS 153
+ +D++KA K +A +D VD Y + + + M T+
Sbjct: 151 KTEEDIKKARRKSTQAGDDLMRCVDLYNQAQSKWFEEMVTT 191
>gnl|CDD|153342 cd07658, F-BAR_NOSTRIN, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Nitric Oxide Synthase
TRaffic INducer (NOSTRIN). F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Nitric Oxide Synthase TRaffic
INducer (NOSTRIN) is expressed in endothelial and
epithelial cells and is involved in the regulation,
trafficking and targeting of endothelial NOS (eNOS).
NOSTRIN facilitates the endocytosis of eNOS by
coordinating the functions of dynamin and the
Wiskott-Aldrich syndrome protein (WASP). Increased
expression of NOSTRIN may be correlated to preeclampsia.
NOSTRIN contains an N-terminal F-BAR domain and a
C-terminal SH3 domain. F-BAR domains form banana-shaped
dimers with a positively-charged concave surface that
binds to negatively-charged lipid membranes. They can
induce membrane deformation in the form of long tubules.
The F-BAR domain of NOSTRIN is necessary and sufficient
for its membrane association and is responsible for its
subcellular localization.
Length = 239
Score = 32.4 bits (74), Expect = 0.35
Identities = 32/138 (23%), Positives = 61/138 (44%), Gaps = 2/138 (1%)
Query: 8 SKLFGKLAKQS-GGSGTFAPLWQVLKTSIEKIATVQVKMMQKVN-DLVKDVCKYTEELQK 65
SKL GKL+K S SGT + W + +E A + + + + +K + + +E K
Sbjct: 43 SKLSGKLSKASKSVSGTLSSAWTCVAEEMESEADIHRNLGSALTEEAIKPLRQVLDEQHK 102
Query: 66 KHKLVKEEQGPTLEIVQTIQSTTLVLQKAKDVYLQKCEELDKLRRDNGSAKDLEKAELKV 125
K V+ E +++ +S + ++K ++ E+L DN + +K K+
Sbjct: 103 TRKPVENEVDKAAKLLTDWRSEQIKVKKKLHGLARENEKLQDQVEDNKQSCTKQKMLNKL 162
Query: 126 KKAQEDYKTIVDKYALIK 143
KK+ E +K +
Sbjct: 163 KKSAEVQDKEDEKLEAKR 180
>gnl|CDD|153336 cd07652, F-BAR_Rgd1, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Saccharomyces cerevisiae
Rho GTPase activating protein Rgd1 and similar proteins.
F-BAR domains are dimerization modules that bind and
bend membranes and are found in proteins involved in
membrane dynamics and actin reorganization.
Saccharomyces cerevisiae Rgd1 is a GTPase activating
protein (GAP) with activity towards Rho3p and Rho4p,
which are involved in bud growth and cytokinesis,
respectively. At low pH, S. cerevisiae Rgd1 is required
for cell survival and the activation of the protein
kinase C pathway, which is important in cell integrity
and the maintenance of cell shape. It contains an
N-terminal F-BAR domain and a C-terminal Rho GAP domain.
The F-BAR domain of S. cerevisiae Rgd1 binds to
phosphoinositides and plays an important role in the
localization of the protein to the bud tip/neck during
the cell cycle. F-BAR domains form banana-shaped dimers
with a positively-charged concave surface that binds to
negatively-charged lipid membranes. They can induce
membrane deformation in the form of long tubules.
Length = 234
Score = 31.9 bits (73), Expect = 0.46
Identities = 35/158 (22%), Positives = 71/158 (44%), Gaps = 24/158 (15%)
Query: 1 ANIEENNSKLFGKLAKQSGGS--------GTFAPLWQVLKTSIEKIATVQVKMMQKVNDL 52
A IEE +++ KLA+ + + G+F+ + EK+A ++ + +N++
Sbjct: 32 AAIEEEHARGLKKLARTTLDTYKRPDHKQGSFSNAYHSSLEFHEKLADNGLRFAKALNEM 91
Query: 53 VKDVCKYTEELQKKHKLVKEEQGPTLEIVQTIQSTTLVLQKAKDVYLQKCEELDKLR--- 109
++ + ++K K +KE G E + +Q +KAK Y ++L++++
Sbjct: 92 SDELSSLAKTVEKSRKSIKET-GKRAE--KKVQDAEAAAEKAKARYDSLADDLERVKTGD 148
Query: 110 ---------RDNGSAKDLEK-AELKVKKAQEDYKTIVD 137
+ N SA E KV+ A +DY + V+
Sbjct: 149 PGKKLKFGLKGNKSAAQHEDELLRKVQAADQDYASKVN 186
>gnl|CDD|153271 cd07307, BAR, The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization
module that binds membranes and detects membrane
curvature. BAR domains are dimerization, lipid binding
and curvature sensing modules found in many different
proteins with diverse functions including organelle
biogenesis, membrane trafficking or remodeling, and cell
division and migration. Mutations in BAR containing
proteins have been linked to diseases and their
inactivation in cells leads to altered membrane
dynamics. A BAR domain with an additional N-terminal
amphipathic helix (an N-BAR) can drive membrane
curvature. These N-BAR domains are found in amphiphysins
and endophilins, among others. BAR domains are also
frequently found alongside domains that determine lipid
specificity, such as the Pleckstrin Homology (PH) and
Phox Homology (PX) domains which are present in beta
centaurins (ACAPs and ASAPs) and sorting nexins,
respectively. A FES-CIP4 Homology (FCH) domain together
with a coiled coil region is called the F-BAR domain and
is present in Pombe/Cdc15 homology (PCH) family
proteins, which include Fes/Fes tyrosine kinases, PACSIN
or syndapin, CIP4-like proteins, and srGAPs, among
others. The Inverse (I)-BAR or IRSp53/MIM homology
Domain (IMD) is found in multi-domain proteins, such as
IRSp53 and MIM, that act as scaffolding proteins and
transducers of a variety of signaling pathways that link
membrane dynamics and the underlying actin cytoskeleton.
BAR domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions. The I-BAR domain
induces membrane protrusions in the opposite direction
compared to classical BAR and F-BAR domains, which
produce membrane invaginations. BAR domains that also
serve as protein interaction domains include those of
arfaptin and OPHN1-like proteins, among others, which
bind to Rac and Rho GAP domains, respectively.
Length = 194
Score = 31.3 bits (71), Expect = 0.54
Identities = 23/122 (18%), Positives = 54/122 (44%), Gaps = 18/122 (14%)
Query: 30 VLKTSIEKIATVQVKMMQKVNDLVKDV-CKYTEELQKKHKLVKEEQGPTLEIVQTIQSTT 88
L ++EK +Q ++ + + L + + K E L++ +K++ ++ I+
Sbjct: 51 DLGEALEKFGKIQKELEEFRDQLEQKLENKVIEPLKE---YLKKD-------LKEIKKRR 100
Query: 89 LVLQKAKDVYLQKCEELDKLRRDNGSAKDLEKAELKVKKAQEDYKTIVDKYALIKEDFEK 148
L KA+ Y D R + +K K+ +A+E+ + +KY ++E+ +
Sbjct: 101 KKLDKARLDY-------DAAREKLKKLRKKKKDSSKLAEAEEELQEAKEKYEELREELIE 153
Query: 149 RM 150
+
Sbjct: 154 DL 155
>gnl|CDD|163064 TIGR02894, DNA_bind_RsfA, transcription factor, RsfA family. In a
subset of endospore-forming members of the Firmcutes,
members of this protein family are found, several to a
genome. Two very strongly conserved sequences regions
are separated by a highly variable linker region. Much
of the linker region was excised from the seed alignment
for this model. A characterized member is the
prespore-specific transcription RsfA from Bacillus
subtilis, previously called YwfN, which is controlled by
sigma factor F and seems to fine-tune expression of some
genes in the sigma-F regulon. A paralog in Bacillus
subtilis is designated YlbO [Regulatory functions, DNA
interactions, Cellular processes, Sporulation and
germination].
Length = 161
Score = 30.9 bits (70), Expect = 0.56
Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 7/83 (8%)
Query: 62 ELQKKHK--LVKEEQGPTLEIV----QTIQSTTLVLQKAKDVYLQKCEELDKLRRDNGS- 114
EL KK + L +E TL+ V Q +++T Q + + + + L++ N
Sbjct: 64 ELAKKQRKELKREAGSLTLQDVISFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEEL 123
Query: 115 AKDLEKAELKVKKAQEDYKTIVD 137
K+LEK ++ +EDY+T++D
Sbjct: 124 EKELEKLRQRLSTIEEDYQTLID 146
>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 = 31.2 bits (71), Expect = 0.69
Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 91 LQKAKDVYLQKCEELDKLRRDNGSAKD-LEKAELKVKKAQEDYKTIVDKYALIKEDFEK 148
LQ K K +L+KL+ G +E+ E ++++A+ + +Y I E ++
Sbjct: 119 LQSLKKDLASKKAQLEKLKAAPGIKPAKVEELEEELEEAESALEEARKRYEEISERLKE 177
>gnl|CDD|214369 CHL00118, atpG, ATP synthase CF0 B' subunit; Validated.
Length = 156
Score = 30.0 bits (68), Expect = 1.2
Identities = 15/59 (25%), Positives = 32/59 (54%), Gaps = 9/59 (15%)
Query: 80 IVQTIQSTTLVLQKAKDVYLQKCEELDKLRRDNGSAKDLEKAELKVKKAQEDYKTIVDK 138
I + + + +L KA ++ Q +EL K R+ +A+L++ ++Q++ K IV+
Sbjct: 58 IRKNLTKASEILAKANELTKQYEQELSKARK---------EAQLEITQSQKEAKEIVEN 107
>gnl|CDD|223571 COG0497, RecN, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 557
Score = 30.6 bits (70), Expect = 1.4
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 8/45 (17%)
Query: 91 LQKAKDVYLQKCEELDKLRRDNGSAKDLEKA------ELKVKKAQ 129
++K K L+ E L +R+ AK+LEK L ++KA+
Sbjct: 351 VKKLKAELLEAAEALSAIRKKA--AKELEKEVTAELKALAMEKAR 393
>gnl|CDD|233689 TIGR02023, BchP-ChlP, geranylgeranyl reductase. This model
represents a group of geranylgeranyl reductases specific
for the biosyntheses of bacteriochlorophyll and
chlorophyll. It is unclear whether the processes of
isoprenoid ligation to the chlorin ring and reduction of
the geranylgeranyl chain to a phytyl chain are
necessarily ordered the same way in all species (see
introduction to ) [Biosynthesis of cofactors, prosthetic
groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 388
Score = 30.5 bits (69), Expect = 1.7
Identities = 11/60 (18%), Positives = 21/60 (35%), Gaps = 10/60 (16%)
Query: 301 TSGVSTTNSSRGPSPLTIGMSDTIPLAVAFHEIIH------SYFRGTDETRCQVKMSGDM 354
V + + P +G+ +P +A+ E I +Y E V G++
Sbjct: 144 ADVVIGADGANSPVAKELGLPKNLPRVIAYQERIKLPDDKMAY----YEELADVYYGGEV 199
>gnl|CDD|237029 PRK12268, PRK12268, methionyl-tRNA synthetase; Reviewed.
Length = 556
Score = 30.6 bits (70), Expect = 1.8
Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 120 KAELKVKKAQEDYKTIVDKY-ALIKEDFEK-RMSTSCKIRNDDRDHK 164
EL KK + + DKY KEDF+K +S R +H
Sbjct: 56 PIELAAKKEGVTPQELADKYHEEHKEDFKKLGISYDLFTRTTSPNHH 102
>gnl|CDD|216021 pfam00611, FCH, Fes/CIP4, and EFC/F-BAR homology domain.
Alignment extended from. Highly alpha-helical. The
cytosolic endocytic adaptor proteins in fungi carry
this domain at the N-terminus; several of these have
been referred to as muniscin proteins. These N-terminal
BAR, N-BAR, and EFC/F-BAR domains are found in proteins
that regulate membrane trafficking events by inducing
membrane tubulation. The domain dimerises into a curved
structure that binds to liposomes and either senses or
induces the curvature of the membrane bilayer to cause
biophysical changes to the shape of the bilayer; it
also thereby recruits other trafficking factors, such
as the GTPase dynamin. Most EFC/F-BAR domain-family
members localise to actin-rich structures.
Length = 91
Score = 28.5 bits (64), Expect = 1.8
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 7/48 (14%)
Query: 1 ANIEENNSKLFGKLAKQSGGS-------GTFAPLWQVLKTSIEKIATV 41
A IE+ +K KLAK+ G+ + W L + EK+A
Sbjct: 36 AEIEKEYAKKLRKLAKKYLKKKEGSSEYGSLSKAWDTLLSETEKLAKQ 83
>gnl|CDD|149105 pfam07851, TMPIT, TMPIT-like protein. A number of members of this
family are annotated as being transmembrane proteins
induced by tumour necrosis factor alpha, but no
literature was found to support this.
Length = 330
Score = 30.1 bits (68), Expect = 1.9
Identities = 20/71 (28%), Positives = 33/71 (46%), Gaps = 8/71 (11%)
Query: 91 LQKAKDVYLQKCEELDKLRRDNGSAKDLEKAELK-VKKAQEDYKTIVDKYALIKEDFEK- 148
LQ+ +Y QK EE++KL+ SA ++ LK + + + K +L ED E
Sbjct: 16 LQETHRLYKQKLEEVEKLQEQCTSAIARQRKRLKQLIVSLKKLKK-----SLTPEDSELV 70
Query: 149 -RMSTSCKIRN 158
++ K R
Sbjct: 71 EQLEEQIKERK 81
>gnl|CDD|222649 pfam14284, PcfJ, PcfJ-like protein. The PcfJ-like protein family
includes the E. faecalis PcfJ protein, which is
functionally uncharacterized. It is found in bacteria
and viruses, and is typically between 159 and 170 amino
acids in length. There is a conserved HCV sequence
motif.
Length = 169
Score = 29.2 bits (66), Expect = 2.5
Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 14/57 (24%)
Query: 91 LQKAKDVYLQKCEELDKLRRDNGSAKDLEKAELKVKKAQEDYKTIVDKYALIKEDFE 147
L+ A D + K + K + K +K ++ Y + + +K FE
Sbjct: 27 LKAAHDRAVAKYQAK--------------KEKEKAEKMRKRYPELEKIFRELKSKFE 69
>gnl|CDD|216167 pfam00875, DNA_photolyase, DNA photolyase. This domain binds a
light harvesting cofactor.
Length = 164
Score = 29.1 bits (66), Expect = 2.7
Identities = 15/67 (22%), Positives = 26/67 (38%), Gaps = 6/67 (8%)
Query: 61 EELQKKH-KLVKEEQGPTLEIVQTIQSTTLVLQKAKDVYLQKCEELDKLRRDNGSAKDLE 119
E L K +LV P + + + A VY + E + +RD + L
Sbjct: 60 ESLAKLGIRLVVRRGDPAEVLPELAKEL-----GASAVYWNRDYEPYERQRDAAVKEALR 114
Query: 120 KAELKVK 126
+A ++V
Sbjct: 115 EAGIEVH 121
>gnl|CDD|212088 cd11519, SLC5sbd_SMCT1, Na(+)/monocarboxylate cotransporter SMCT1
and related proteins; solute-binding domain. SMCT1 is a
high-affinity transporter of various monocarboxylates
including lactate and pyruvate, short-chain fatty acids,
ketone bodies, nicotinate and its structural analogs,
pyroglutamate, benzoate and its derivatives, and iodide.
Human SMCT1 (hSMCT1, also called AIT) is encoded by the
tumor suppressor gene SLC5A8. Its expression is under
the control of the C/EBP transcription factor. Its
tumor-suppressive role is related to uptake of butyrate,
propionate, and pyruvate, these latter are inhibitors of
histone deacetylases. SMCT1 is expressed in the colon,
small intestine, kidney, thyroid gland, retina, and
brain. SMCT1 may contribute to the intestinal/colonic
and oral absorption of monocarboxylate drugs. SMCT1 also
mediates iodide transport from thyrocyte into the
colloid lumen in thyroid gland and through transporting
l-lactate and ketone bodies helps maintain the energy
status and the function of neurons. In the kidney its
expression is limited to the S3 segment of the proximal
convoluted tubule (in contrast to the low-affinity
monocarboxylate transporter SMCT2, belonging to a
different family, which is expressed along the entire
length of the tubule). In the retina, SMCT1 and SMCT2
may play a differential role in monocarboxylate
transport in a cell type-specific manner, SMCT1 is
expressed predominantly in retinal neurons and in
retinal pigmented epithelial (RPE) cells. This subgroup
belongs to the solute carrier 5 (SLC5) transporter
family.
Length = 541
Score = 29.7 bits (67), Expect = 3.3
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 244 EDKPDHFTSKGSSGTRITVELGLVASFMSVLT 275
+ F G S T + V L L ASFMS +T
Sbjct: 33 QKTSKDFLMGGRSMTAVPVALSLTASFMSAVT 64
>gnl|CDD|218704 pfam05701, DUF827, Plant protein of unknown function (DUF827).
This family consists of several plant proteins of
unknown function. Several sequences in this family are
described as being "myosin heavy chain-like".
Length = 484
Score = 29.6 bits (66), Expect = 3.3
Identities = 23/102 (22%), Positives = 46/102 (45%), Gaps = 2/102 (1%)
Query: 31 LKTSIEKIATVQVKMMQKVNDLVKDVCKYTEELQK-KHKLVKEEQGPTLEIVQTIQSTTL 89
LK +E+ ++ +K + + EL + K + + + +EI +Q +
Sbjct: 285 LKQELEEEKKELEELREKEGEAEEAASSLEAELNRTKSEKESKAREKMVEIPLKLQQASS 344
Query: 90 VLQKAKDVYLQKCEELDKLRRDNGSAKD-LEKAELKVKKAQE 130
++A+ EEL KL+ + K LE AEL+++ A +
Sbjct: 345 EAEEARKEAEAAREELRKLKEEAEQTKAALETAELRLEAALK 386
>gnl|CDD|181676 PRK09165, PRK09165, replicative DNA helicase; Provisional.
Length = 497
Score = 29.1 bits (66), Expect = 4.2
Identities = 8/38 (21%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 3 IEENNSKLFGKLAKQSGGSGTFAPLWQVLKTSIEKIAT 40
IE+ KL+ +LA+ G F + +++
Sbjct: 153 IEDAEQKLY-ELAETGRYEGGFQSFGTAITEAVDMANA 189
>gnl|CDD|215756 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 357
Score = 28.8 bits (65), Expect = 5.0
Identities = 13/59 (22%), Positives = 18/59 (30%), Gaps = 6/59 (10%)
Query: 192 NLTLSPL--SVKERRNSIDINPEVNFSQSPHKKINGLAELNHALMKTMGDSASTEDKPD 248
L S +V + N GL EL AL K +G S + +
Sbjct: 11 YLGDSGTLPAVAKAEKDALAGGTRNLYGPTD----GLPELREALAKFLGRSPVLKLDRE 65
>gnl|CDD|164995 PHA02600, FII, major tail tube protein; Provisional.
Length = 169
Score = 28.1 bits (63), Expect = 5.1
Identities = 14/36 (38%), Positives = 18/36 (50%)
Query: 111 DNGSAKDLEKAELKVKKAQEDYKTIVDKYALIKEDF 146
D G+AK E E KV + YK V+ LI+ D
Sbjct: 112 DMGTAKAGEDTEFKVTTSLTYYKLTVNGEELIEIDT 147
>gnl|CDD|212074 cd11505, SLC5sbd_SMCT, Na(+)/monocarboxylate cotransporters SMCT1
and 2 and related proteins; solute-binding domain.
SMCT1 is a high-affinity transporter of various
monocarboxylates including lactate and pyruvate,
short-chain fatty acids, ketone bodies, nicotinate and
its structural analogs, pyroglutamate, benzoate and its
derivatives, and iodide. Human SMCT1 (hSMCT1, also
called AIT) is encoded by the tumor suppressor gene
SLC5A8. SMCT1 is expressed in the colon, small
intestine, kidney, thyroid gland, retina, and brain.
SMCT1 may contribute to the intestinal/colonic and oral
absorption of monocarboxylate drugs. It also mediates
iodide transport from thyrocyte into the colloid lumen
in thyroid gland and, through transporting L-lactate and
ketone bodies, helps maintain the energy status and the
function of neurons. SMCT2 is a low-affinity transporter
for short-chain fatty acids, lactate, pyruvate, and
nicotinate. hSMCT2 is encoded by the SLC5A12 gene. SMCT2
is expressed in the kidney, small intestine, skeletal
muscle, and retina. In the kidney, SMCT2 may initiate
lactate absorption in the early parts of the tubule,
SMCT1 in the latter parts of the tubule. In the retina,
SMCT1 and SMCT2 may play a differential role in
monocarboxylate transport in a cell type-specific
manner. This subgroup belongs to the solute carrier 5
(SLC5) transporter family.
Length = 536
Score = 28.9 bits (65), Expect = 5.3
Identities = 13/29 (44%), Positives = 15/29 (51%)
Query: 247 PDHFTSKGSSGTRITVELGLVASFMSVLT 275
F G S T + V L L ASFMS +T
Sbjct: 36 SKDFLMGGRSMTAVPVALSLTASFMSAVT 64
>gnl|CDD|238105 cd00179, SynN, Syntaxin N-terminus domain; syntaxins are nervous
system-specific proteins implicated in the docking of
synaptic vesicles with the presynaptic plasma membrane;
they are a family of receptors for intracellular
transport vesicles; each target membrane may be
identified by a specific member of the syntaxin family;
syntaxins contain a moderately well conserved
amino-terminal domain, called Habc, whose structure is
an antiparallel three-helix bundle; a linker of about 30
amino acids connects this to the carboxy-terminal
region, designated H3 (t_SNARE), of the syntaxin
cytoplasmic domain; the highly conserved H3 region forms
a single, long alpha-helix when it is part of the core
SNARE complex and anchors the protein on the cytoplasmic
surface of cellular membranes; H3 is not included in
defining this domain.
Length = 151
Score = 28.0 bits (63), Expect = 5.6
Identities = 24/120 (20%), Positives = 54/120 (45%), Gaps = 27/120 (22%)
Query: 36 EKIATVQVKMMQKVNDLVKDVCKYTEELQKKHKLVKEEQGPTLEIVQTIQSTTL-VLQKA 94
E++ ++ + K+++ V EELQK H + E+ Q ++S + + A
Sbjct: 6 EEVEEIR-GNIDKISEDV-------EELQKLHSQLLTAPDADPELKQELESLVQEIKKLA 57
Query: 95 KDV--YLQKCEELDK-LRRDNGSAKDLEKAELKVKKAQEDYKTIVDKYALIKEDFEKRMS 151
K++ L++ EE ++ NGS + +++K Q ++ + + F + M+
Sbjct: 58 KEIKGKLKELEESNEQNEALNGS------SVDRIRKTQ---------HSGLSKKFVEVMT 102
>gnl|CDD|153274 cd07590, BAR_Bin3, The Bin/Amphiphysin/Rvs (BAR) domain of Bridging
integrator 3. BAR domains are dimerization, lipid
binding and curvature sensing modules found in many
different proteins with diverse functions. Bridging
integrator 3 (Bin3) is widely expressed in many tissues
except in the brain. It plays roles in regulating
filamentous actin localization and in cell division. In
humans, the Bin3 gene is located in chromosome 8p21.3, a
region that is implicated in cancer suppression.
Homozygous inactivation of the Bin3 gene in mice led to
the development of cataracts and an increased likelihood
of lymphomas during aging, suggesting a role for Bin3 in
lens development and cancer suppression. BAR domains
form dimers that bind to membranes, induce membrane
bending and curvature, and may also be involved in
protein-protein interactions.
Length = 225
Score = 28.5 bits (64), Expect = 5.9
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 9/53 (16%)
Query: 106 DKLRRDNGSAKDLEKAELKVKKAQEDYKTI-------VDKYAL--IKEDFEKR 149
++R S ++ E+ + KV+K E KT + AL + DFEK+
Sbjct: 112 AAIKRREQSLQEYERLQAKVEKLAEKEKTGPNLAKLEQAEKALAAARADFEKQ 164
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 29.0 bits (64), Expect = 6.7
Identities = 28/143 (19%), Positives = 58/143 (40%), Gaps = 23/143 (16%)
Query: 29 QVLKTSIEKIATVQVKMMQKVNDLVKDVCKYTEELQKKHKLVKEEQGPTLEIVQTIQSTT 88
+ K KI ++K ++ V+ + K E +KK + +K+ +
Sbjct: 1611 EAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAE-------------- 1656
Query: 89 LVLQKAKDVYLQKCEELDKLRRDNGSAKDLEKAELKVKKAQEDYKTIVD---KYALIKED 145
++ ++ EE K D A++ +KAE KKA E K + K +K+
Sbjct: 1657 ------EENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKK 1710
Query: 146 FEKRMSTSCKIRNDDRDHKIHVE 168
+ + +++ + ++KI E
Sbjct: 1711 EAEEKKKAEELKKAEEENKIKAE 1733
Score = 28.2 bits (62), Expect = 9.6
Identities = 25/101 (24%), Positives = 43/101 (42%), Gaps = 8/101 (7%)
Query: 58 KYTEELQKKHKLVKEEQGPTLEIVQTIQSTTLVLQKAKDVYLQKCEELDKLRRDNGSAKD 117
K EE +K +L K E+ ++ + +K + +K EE K +
Sbjct: 1710 KEAEEKKKAEELKKAEEENKIKAEE--------AKKEAEEDKKKAEEAKKDEEEKKKIAH 1761
Query: 118 LEKAELKVKKAQEDYKTIVDKYALIKEDFEKRMSTSCKIRN 158
L+K E K + K V + L +ED ++RM KI++
Sbjct: 1762 LKKEEEKKAEEIRKEKEAVIEEELDEEDEKRRMEVDKKIKD 1802
>gnl|CDD|146741 pfam04260, DUF436, Protein of unknown function (DUF436). Family of
bacterial proteins with undetermined function.
Length = 172
Score = 27.9 bits (63), Expect = 7.0
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 77 TLEIVQTIQSTTLVLQKAKDVYL--QKCEELDK---LRRDNGSAKDLE 119
+LE+ + I T L + +YL Q CE L++ + R+ A LE
Sbjct: 41 SLEVAEAIVETLLEILNETGIYLAVQGCEHLNRALVVEREVAEAYGLE 88
>gnl|CDD|240419 PTZ00440, PTZ00440, reticulocyte binding protein 2-like protein;
Provisional.
Length = 2722
Score = 28.6 bits (64), Expect = 7.0
Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 5/88 (5%)
Query: 29 QVLKTSIEKIATVQV-KMMQKVNDLVKDVCKYTEELQKKHKLVKEEQGPTLEIVQTIQST 87
Q L I KI+ + K ++ +ND D KY + + K+ +L++ E EI + +
Sbjct: 1565 QDLMRDISKISKIVENKNLENLNDKEADYVKYLDNILKEKQLMEAEYKKLNEIYSDVDNI 1624
Query: 88 TLVLQKAKDVY----LQKCEELDKLRRD 111
L+K K Y L+K E++K +
Sbjct: 1625 EKELKKHKKNYEIGLLEKVIEINKNIKL 1652
>gnl|CDD|130672 TIGR01611, tail_tube, phage contractile tail tube protein, P2
family. The tails of some phage are contractile. This
model represents the tail tube, or tail core, protein of
the contractile tail of phage P2, and homologous
proteins from additional phage [Mobile and
extrachromosomal element functions, Prophage functions].
Length = 168
Score = 27.9 bits (62), Expect = 7.3
Identities = 15/37 (40%), Positives = 20/37 (54%)
Query: 111 DNGSAKDLEKAELKVKKAQEDYKTIVDKYALIKEDFE 147
D G+ K EKAE K A YK +VD L++ D+
Sbjct: 111 DLGTWKAGEKAEFKSAFALTYYKQVVDGEELLELDYV 147
>gnl|CDD|226881 COG4475, COG4475, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 180
Score = 27.8 bits (62), Expect = 8.3
Identities = 22/91 (24%), Positives = 39/91 (42%), Gaps = 17/91 (18%)
Query: 45 MMQKVNDLVKDVCKYTEELQKKHKLV-----KEEQG------PTLEIVQTIQSTTLVLQK 93
+ + ++ DV +E L++ V E G ++E+ +TI S L + K
Sbjct: 4 LKKDTRTVLDDVQDQSE-LKQGQLFVLGLSTSEVAGSRIGTVSSMEVAETIVSALLDVLK 62
Query: 94 AKDVYL--QKCEELDK---LRRDNGSAKDLE 119
V+L Q CE L++ + R+ LE
Sbjct: 63 KTGVHLAFQGCEHLNRALVVEREVAEPFGLE 93
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 28.5 bits (64), Expect = 8.7
Identities = 24/135 (17%), Positives = 57/135 (42%), Gaps = 16/135 (11%)
Query: 28 WQVLKTSI-EKIATVQVKMMQKVNDL-------------VKDVCKYTEELQKKHKLVKEE 73
+ + + E+ A ++ ++ +L +KD + E+L+++ +K E
Sbjct: 348 ERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKRE 407
Query: 74 QGPTLEIVQTIQSTTLVLQKAKDVYLQKCEELDKLRRDNGSAKDLEKAELKVKKAQEDYK 133
E +Q + L A K EL++ + D A +++K E K+++ D
Sbjct: 408 LDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKED--KALEIKKQEWKLEQLAADLS 465
Query: 134 TIVDKYALIKEDFEK 148
+ +KE++++
Sbjct: 466 KYEQELYDLKEEYDR 480
>gnl|CDD|203593 pfam07200, Mod_r, Modifier of rudimentary (Mod(r)) protein. This
family represents a conserved region approximately 150
residues long within a number of eukaryotic proteins
that show homology with Drosophila melanogaster Modifier
of rudimentary (Mod(r)) proteins. The N-terminal half of
Mod(r) proteins is acidic, whereas the C-terminal half
is basic, and both of these regions are represented in
this family. Members of this family include the Vps37
subunit of the endosomal sorting complex ESCRT-I, a
complex involved in recruiting transport machinery for
protein sorting at the multivesicular body (MVB). The
yeast ESCRT-I complex consists of three proteins (Vps23,
Vps28 and Vps37). The mammalian homologue of Vps37
interacts with Tsg101 (Pfam: PF05743) through its mod(r)
domain and its function is essential for lysosomal
sorting of EGF receptors.
Length = 150
Score = 27.3 bits (61), Expect = 8.8
Identities = 21/102 (20%), Positives = 48/102 (47%), Gaps = 5/102 (4%)
Query: 47 QKVNDLVKDVCKYTEELQKKHKLVKEEQGPTLEIVQT-IQSTTLVLQKAKDVYLQKCEEL 105
Q +N + E L +++ E+ P LE ++ ++ L+K ++ Y +K ++L
Sbjct: 30 QDLNLEKDALLAQNESLAEEN----LEKEPQLEELKAQLRDKYEELKKLEEKYEEKKQQL 85
Query: 106 DKLRRDNGSAKDLEKAELKVKKAQEDYKTIVDKYALIKEDFE 147
D+L L ++ KA+E+ + + +K+ + D +
Sbjct: 86 DELSSSYSPDALLALLQVAASKAEEESEELAEKFLEGEIDLD 127
>gnl|CDD|153364 cd07680, F-BAR_PACSIN1, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Protein kinase C and
Casein kinase Substrate in Neurons 1 (PACSIN1). F-BAR
domains are dimerization modules that bind and bend
membranes and are found in proteins involved in membrane
dynamics and actin reorganization. Protein kinase C and
Casein kinase Substrate in Neurons (PACSIN) proteins,
also called Synaptic dynamin-associated proteins
(Syndapins), act as regulators of cytoskeletal and
membrane dynamics. Vetebrates harbor three isoforms with
distinct expression patterns and specific functions.
PACSIN 1 or Syndapin I is expressed specifically in the
brain and is localized in neurites and synaptic boutons.
It binds the brain-specific proteins dynamin I,
synaptojanin, synapsin I, and neural Wiskott-Aldrich
syndrome protein (nWASP), and functions as a link
between the cytoskeletal machinery and synaptic vesicle
endocytosis. PACSIN 1 interacts with huntingtin and may
be implicated in the neuropathology of Huntington's
disease. It contains an N-terminal F-BAR domain and a
C-terminal SH3 domain. F-BAR domains form banana-shaped
dimers with a positively-charged concave surface that
binds to negatively-charged lipid membranes. They can
induce membrane deformation in the form of long tubules.
Length = 258
Score = 28.1 bits (62), Expect = 9.0
Identities = 32/157 (20%), Positives = 66/157 (42%), Gaps = 18/157 (11%)
Query: 8 SKLFGKLAKQSGGSGTFAPLWQVLKTSIEKIATVQVKM--------MQKVNDLVKDVCKY 59
+K + +L ++ G+ W + T +K++ + ++ ++KV + KD Y
Sbjct: 46 AKRWRQLIEKGPQYGSLERAWGAIMTEADKVSELHQEVKNNLLNEDLEKVKNWQKDA--Y 103
Query: 60 TEELQKKHKLVKEEQGPTLEIVQTIQSTTLVLQKAKDVYLQKCEE--LDKLRRDNG---- 113
+++ K KE + + + L+ AK Y C+E L R N
Sbjct: 104 HKQIMGGFKETKEAEDGFRKAQKPWAKKMKELEAAKKAYHLACKEEKLAMTREANSKAEQ 163
Query: 114 --SAKDLEKAELKVKKAQEDYKTIVDKYALIKEDFEK 148
+ + +K + KV K ++D + +KY + +D K
Sbjct: 164 SVTPEQQKKLQDKVDKCKQDVQKTQEKYEKVLDDVGK 200
>gnl|CDD|190592 pfam03296, Pox_polyA_pol, Poxvirus poly(A) polymerase
nucleotidyltransferase domain.
Length = 149
Score = 27.3 bits (61), Expect = 9.0
Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 37 KIATVQVKMM--QKVNDLVKDVCKYTEELQKKH 67
+A K+M V+DLV++V K EE ++H
Sbjct: 17 NVANPSEKVMGRHNVSDLVENVNKLMEEYLRRH 49
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
0.311 0.127 0.346
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,888,829
Number of extensions: 1767926
Number of successful extensions: 1449
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1416
Number of HSP's successfully gapped: 98
Length of query: 396
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 297
Effective length of database: 6,546,556
Effective search space: 1944327132
Effective search space used: 1944327132
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 60 (26.9 bits)