RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16425
(163 letters)
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 50.6 bits (121), Expect = 3e-09
Identities = 18/41 (43%), Positives = 28/41 (68%)
Query: 98 STDMVIREGSNVTLKCAASGSPKPNITWRREGGELIAQGNG 138
+ ++EG +VTL C ASGSP P +TW ++GG+L+A+
Sbjct: 1 PPSVTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLAESGR 41
Score = 38.3 bits (89), Expect = 2e-04
Identities = 15/73 (20%), Positives = 24/73 (32%), Gaps = 10/73 (13%)
Query: 16 ESTVAWLRVDTQTILTIQTHVITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQVNTD 75
V W + + + + R V+ S + + L I V D G Y C T+
Sbjct: 23 PPEVTWYKQGGKLLAE--------SGRFSVSRSGSTS-TLTISNVTPEDSGTYTCAA-TN 72
Query: 76 PMKSQVGYLEVVV 88
S + V
Sbjct: 73 SSGSASSGTTLTV 85
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 50.6 bits (121), Expect = 3e-09
Identities = 18/41 (43%), Positives = 28/41 (68%)
Query: 98 STDMVIREGSNVTLKCAASGSPKPNITWRREGGELIAQGNG 138
+ ++EG +VTL C ASGSP P +TW ++GG+L+A+
Sbjct: 1 PPSVTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLAESGR 41
Score = 38.3 bits (89), Expect = 2e-04
Identities = 15/73 (20%), Positives = 24/73 (32%), Gaps = 10/73 (13%)
Query: 16 ESTVAWLRVDTQTILTIQTHVITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQVNTD 75
V W + + + + R V+ S + + L I V D G Y C T+
Sbjct: 23 PPEVTWYKQGGKLLAE--------SGRFSVSRSGSTS-TLTISNVTPEDSGTYTCAA-TN 72
Query: 76 PMKSQVGYLEVVV 88
S + V
Sbjct: 73 SSGSASSGTTLTV 85
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 47.4 bits (113), Expect = 3e-08
Identities = 16/28 (57%), Positives = 20/28 (71%)
Query: 105 EGSNVTLKCAASGSPKPNITWRREGGEL 132
EG +VTL C A G+P PNITW ++G L
Sbjct: 1 EGQSVTLTCPAEGNPVPNITWLKDGKPL 28
Score = 30.5 bits (69), Expect = 0.071
Identities = 10/55 (18%), Positives = 13/55 (23%), Gaps = 14/55 (25%)
Query: 18 TVAWLRVDTQTILTIQTHVITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQV 72
+ WL+ S L I+ V D G Y C
Sbjct: 18 NITWLKDGKPL-----------PESNRFVASG---STLTIKSVSLEDSGLYTCVA 58
>gnl|CDD|206066 pfam13895, Ig_2, Immunoglobulin domain. This domain contains
immunoglobulin-like domains.
Length = 80
Score = 46.7 bits (111), Expect = 1e-07
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 102 VIREGSNVTLKCAASGSPKPNITWRREGGELIAQGNG 138
V+ EG +VTL C+A G+P PN TW ++G L + NG
Sbjct: 10 VVFEGEDVTLTCSAPGNPPPNYTWYKDGVPLSSSQNG 46
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 43.0 bits (102), Expect = 3e-06
Identities = 9/39 (23%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 99 TDMVIREGSNVTLKCAASGSPKPNITWRREGGELIAQGN 137
D+ ++EG + C +G P P ++W + G+ + +
Sbjct: 8 KDVEVQEGESARFTCTVTGDPDPTVSWFK-DGQPLRSSD 45
Score = 24.9 bits (55), Expect = 9.2
Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 10/55 (18%)
Query: 18 TVAWLRVDTQTILTIQTHVITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQV 72
TV+W + D Q + + +T G T++ L I V+ D G Y C
Sbjct: 31 TVSWFK-DGQPLRSSDRFKVTYE---GGTYT------LTISNVQPDDEGKYTCVA 75
>gnl|CDD|143169 cd04968, Ig3_Contactin_like, Third Ig domain of contactin.
Ig3_Contactin_like: Third Ig domain of contactins.
Contactins are neural cell adhesion molecules and are
comprised of six Ig domains followed by four fibronectin
type III(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. The first four Ig domains
form the intermolecular binding fragment, which arranges
as a compact U-shaped module via contacts between Ig
domains 1 and 4, and between Ig domains 2 and 3.
Contactin-2 (TAG-1, axonin-1) may play a part in the
neuronal processes of neurite outgrowth, axon guidance
and fasciculation, and neuronal migration. This group
also includes contactin-1 and contactin-5. The different
contactins show different expression patterns in the
central nervous system. During development and in
adulthood, contactin-2 is transiently expressed in
subsets of central and peripheral neurons. Contactin-5
is expressed specifically in the rat postnatal nervous
system, peaking at about 3 weeks postnatal, and a lack
of contactin-5 (NB-2) results in an impairment of
neuronal act ivity in the rat auditory system.
Contactin-5 is highly expressed in the adult human brain
in the occipital lobe and in the amygdala. Contactin-1
is differentially expressed in tumor tissues and may,
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 88
Score = 42.8 bits (101), Expect = 3e-06
Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 89 PPDILDYPTSTDMVIREGSNVTLKCAASGSPKPNITWRREGGELIAQ 135
P I+ +P T + G NVTL+C A G+P P I WR+ G + +
Sbjct: 1 PSIIVVFPKDTYALK--GQNVTLECFALGNPVPQIKWRKVDGSMPSS 45
>gnl|CDD|143317 cd07693, Ig1_Robo, First immunoglobulin (Ig)-like domain in Robo
(roundabout) receptors and similar proteins. Ig1_Robo:
domain similar to the first immunoglobulin (Ig)-like
domain in Robo (roundabout) receptors. Robo receptors
play a role in the development of the central nervous
system (CNS), and are receptors of Slit protein. Slit is
a repellant secreted by the neural cells in the midline.
Slit acts through Robo to prevent most neurons from
crossing the midline from either side. Three mammalian
Robo homologs (robo1, -2, and -3), and three mammalian
Slit homologs (Slit-1,-2, -3), have been identified.
Commissural axons, which cross the midline, express low
levels of Robo; longitudinal axons, which avoid the
midline, express high levels of Robo. robo1, -2, and -3
are expressed by commissural neurons in the vertebrate
spinal cord and Slits 1, -2, -3 are expressed at the
ventral midline. Robo-3 is a divergent member of the
Robo family which instead of being a positive regulator
of slit responsiveness, antagonizes slit responsiveness
in precrossing axons. The Slit-Robo interaction is
mediated by the second leucine-rich repeat (LRR) domain
of Slit and the two N-terminal Ig domains of Robo, Ig1
and Ig2. The primary Robo binding site for Slit2 has
been shown by surface plasmon resonance experiments and
mutational analysis to be is the Ig1 domain, while the
Ig2 domain has been proposed to harbor a weak secondary
binding site.
Length = 100
Score = 42.9 bits (101), Expect = 4e-06
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 89 PPDILDYPTSTDMVIREGSNVTLKCAASGSPKPNITWRREGGEL 132
PP I+++P+ D+++ +G TL C A G P P I W + G L
Sbjct: 1 PPRIVEHPS--DLIVSKGDPATLNCKAEGRPTPTIQWLKNGQPL 42
>gnl|CDD|143264 cd05856, Ig2_FGFRL1-like, Second immunoglobulin (Ig)-like domain of
fibroblast growth factor (FGF) receptor_like-1(FGFRL1).
Ig2_FGFRL1-like: second immunoglobulin (Ig)-like domain
of fibroblast growth factor (FGF)
receptor_like-1(FGFRL1). FGFRL1 is comprised of a signal
peptide, three extracellular Ig-like modules, a
transmembrane segment, and a short intracellular domain.
FGFRL1 is expressed preferentially in skeletal tissues.
Similar to FGF receptors, the expressed protein
interacts specifically with heparin and with FGF2.
FGFRL1 does not have a protein tyrosine kinase domain at
its C terminus; neither does its cytoplasmic domain
appear to interact with a signaling partner. It has been
suggested that FGFRL1 may not have any direct signaling
function, but instead acts as a decoy receptor trapping
FGFs and preventing them from binding other receptors.
Length = 82
Score = 39.8 bits (93), Expect = 3e-05
Identities = 16/34 (47%), Positives = 23/34 (67%)
Query: 106 GSNVTLKCAASGSPKPNITWRREGGELIAQGNGQ 139
GS+V LKC ASG+P+P+ITW ++ L G+
Sbjct: 9 GSSVRLKCVASGNPRPDITWLKDNKPLTPTEIGE 42
>gnl|CDD|143179 cd04978, Ig4_L1-NrCAM_like, Fourth immunoglobulin (Ig)-like domain
of L1, Ng-CAM (Neuron-glia CAM cell adhesion molecule),
and NrCAM (Ng-CAM-related). Ig4_L1-NrCAM_like: fourth
immunoglobulin (Ig)-like domain of L1, Ng-CAM
(Neuron-glia CAM cell adhesion molecule), and NrCAM
(Ng-CAM-related). These proteins belong to the L1
subfamily of cell adhesion molecules (CAMs) and are
comprised of an extracellular region having six Ig-like
domains and five fibronectin type III domains, a
transmembrane region and an intracellular domain. These
molecules are primarily expressed in the nervous system.
L1 is associated with an X-linked recessive disorder,
X-linked hydrocephalus, MASA syndrome, or spastic
paraplegia type 1, that involves abnormalities of axonal
growth.
Length = 76
Score = 39.3 bits (92), Expect = 5e-05
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 106 GSNVTLKCAASGSPKPNITWRREG 129
G L C A G P+P ITWR G
Sbjct: 1 GETGRLDCEAEGIPQPTITWRLNG 24
>gnl|CDD|143202 cd05725, Ig3_Robo, Third immunoglobulin (Ig)-like domain in Robo
(roundabout) receptors. Ig3_Robo: domain similar to the
third immunoglobulin (Ig)-like domain in Robo
(roundabout) receptors. Robo receptors play a role in
the development of the central nervous system (CNS), and
are receptors of Slit protein. Slit is a repellant
secreted by the neural cells in the midline. Slit acts
through Robo to prevent most neurons from crossing the
midline from either side. Three mammalian Robo homologs
(robo1, -2, and -3), and three mammalian Slit homologs
(Slit-1,-2, -3), have been identified. Commissural
axons, which cross the midline, express low levels of
Robo; longitudinal axons, which avoid the midline,
express high levels of Robo. robo1, -2, and -3 are
expressed by commissural neurons in the vertebrate
spinal cord and Slits 1, -2, -3 are expressed at the
ventral midline. Robo-3 is a divergent member of the
Robo family which instead of being a positive regulator
of slit responsiveness, antagonizes slit responsiveness
in precrossing axons. The Slit-Robo interaction is
mediated by the second leucine-rich repeat (LRR) domain
of Slit and the two N-terminal Ig domains of Robo, Ig1
and Ig2. The primary Robo binding site for Slit2 has
been shown by surface plasmon resonance experiments and
mutational analysis to be is the Ig1 domain, while the
Ig2 domain has been proposed to harbor a weak secondary
binding site.
Length = 69
Score = 38.5 bits (90), Expect = 9e-05
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 109 VTLKCAASGSPKPNITWRREGGEL 132
V +C G P P + WR+E GEL
Sbjct: 1 VEFQCEVGGDPVPTVLWRKEDGEL 24
>gnl|CDD|143206 cd05729, Ig2_FGFR_like, Second immunoglobulin (Ig)-like domain of
fibroblast growth factor (FGF) receptor and similar
proteins. Ig2_FGFR_like: domain similar to the second
immunoglobulin (Ig)-like domain of fibroblast growth
factor (FGF) receptor. FGF receptors bind FGF signaling
polypeptides. FGFs participate in multiple processes
such as morphogenesis, development, and angiogenesis.
FGFs bind to four FGF receptor tyrosine kinases (FGFR1,
-2, -3, -4). Receptor diversity is controlled by
alternative splicing producing splice variants with
different ligand binding characteristics and different
expression patterns. FGFRs have an extracellular region
comprised of three Ig-like domains, a single
transmembrane helix, and an intracellular tyrosine
kinase domain. Ligand binding and specificity reside in
the Ig-like domains 2 and 3, and the linker region that
connects these two. FGFR activation and signaling depend
on FGF-induced dimerization, a process involving cell
surface heparin or heparin sulfate proteoglycans. This
group also contains fibroblast growth factor (FGF)
receptor_like-1(FGFRL1). FGFRL1 does not have a protein
tyrosine kinase domain at its C terminus; neither does
its cytoplasmic domain appear to interact with a
signaling partner. It has been suggested that FGFRL1 may
not have any direct signaling function, but instead acts
as a decoy receptor trapping FGFs and preventing them
from binding other receptors.
Length = 85
Score = 38.5 bits (90), Expect = 1e-04
Identities = 15/27 (55%), Positives = 19/27 (70%)
Query: 106 GSNVTLKCAASGSPKPNITWRREGGEL 132
GS V LKC ASG+P+P ITW ++G
Sbjct: 9 GSTVRLKCPASGNPRPTITWLKDGKPF 35
Score = 38.1 bits (89), Expect = 2e-04
Identities = 15/36 (41%), Positives = 16/36 (44%)
Query: 37 ITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQV 72
K HRIG K W L + V SD G Y C V
Sbjct: 35 FKKEHRIGGYKVRKKKWTLILESVVPSDSGKYTCIV 70
>gnl|CDD|143208 cd05731, Ig3_L1-CAM_like, Third immunoglobulin (Ig)-like domain of
the L1 cell adhesion molecule (CAM). Ig3_L1-CAM_like:
domain similar to the third immunoglobulin (Ig)-like
domain of the L1 cell adhesion molecule (CAM). L1
belongs to the L1 subfamily of cell adhesion molecules
(CAMs) and is comprised of an extracellular region
having six Ig-like domains and five fibronectin type III
domains, a transmembrane region and an intracellular
domain. L1 is primarily expressed in the nervous system
and is involved in its development and function. L1 is
associated with an X-linked recessive disorder, X-linked
hydrocephalus, MASA syndrome, or spastic paraplegia type
1, that involves abnormalities of axonal growth. This
group also contains the chicken neuron-glia cell
adhesion molecule, Ng-CAM and human neurofascin.
Length = 71
Score = 37.7 bits (88), Expect = 2e-04
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 109 VTLKCAASGSPKPNITWRREGGELIAQGNGQEDFPFFKRTKK 150
+ L+C A G P P I+W + GGEL A + F F +T K
Sbjct: 1 LLLECIAEGLPTPEISWIKIGGELPA---DRTKFENFNKTLK 39
>gnl|CDD|215677 pfam00047, ig, Immunoglobulin domain. Members of the
immunoglobulin superfamily are found in hundreds of
proteins of different functions. Examples include
antibodies, the giant muscle kinase titin and receptor
tyrosine kinases. Immunoglobulin-like domains may be
involved in protein-protein and protein-ligand
interactions. The Pfam alignments do not include the
first and last strand of the immunoglobulin-like domain.
Length = 62
Score = 37.5 bits (87), Expect = 2e-04
Identities = 14/28 (50%), Positives = 20/28 (71%)
Query: 106 GSNVTLKCAASGSPKPNITWRREGGELI 133
GS+VTL C+ SG P+ ++TW +EG L
Sbjct: 1 GSSVTLTCSVSGPPQVDVTWFKEGKGLE 28
Score = 26.3 bits (58), Expect = 2.0
Identities = 10/55 (18%), Positives = 12/55 (21%), Gaps = 9/55 (16%)
Query: 18 TVAWLRVDTQTILTIQTHVITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQV 72
V W + + L I V D G Y C V
Sbjct: 17 DVTWFKEGKGLEESTTVGTDENRVSSIT---------LTISNVTPEDSGTYTCVV 62
>gnl|CDD|143209 cd05732, Ig5_NCAM-1_like, Fifth immunoglobulin (Ig)-like domain of
Neural Cell Adhesion Molecule NCAM-1 (NCAM) and similar
proteins. Ig5_NCAM-1 like: domain similar to the fifth
immunoglobulin (Ig)-like domain of Neural Cell Adhesion
Molecule NCAM-1 (NCAM). NCAM plays important roles in
the development and regeneration of the central nervous
system, in synaptogenesis and neural migration. NCAM
mediates cell-cell and cell-substratum recognition and
adhesion via homophilic (NCAM-NCAM), and heterophilic
(NCAM-non-NCAM), interactions. NCAM is expressed as
three major isoforms having different intracellular
extensions. The extracellular portion of NCAM has five
N-terminal Ig-like domains and two fibronectin type III
domains. The double zipper adhesion complex model for
NCAM homophilic binding involves Ig1, Ig2, and Ig3. By
this model, Ig1 and Ig2 mediate dimerization of NCAM
molecules situated on the same cell surface (cis
interactions), and Ig3 domains mediate interactions
between NCAM molecules expressed on the surface of
opposing cells (trans interactions), through binding to
the Ig1 and Ig2 domains. The adhesive ability of NCAM is
modulated by the addition of polysialic acid chains to
the fifth Ig-like domain. Also included in this group is
NCAM-2 (also known as OCAM/mamFas II and RNCAM) NCAM-2
is differentially expressed in the developing and mature
olfactory epithelium (OE).
Length = 96
Score = 38.3 bits (89), Expect = 2e-04
Identities = 13/23 (56%), Positives = 14/23 (60%)
Query: 105 EGSNVTLKCAASGSPKPNITWRR 127
E +TL C A G P P ITWRR
Sbjct: 15 ELEQITLTCEAEGDPIPEITWRR 37
>gnl|CDD|143205 cd05728, Ig4_Contactin-2-like, Fourth Ig domain of the neural cell
adhesion molecule contactin-2 and similar proteins.
Ig4_Contactin-2-like: fourth Ig domain of the neural
cell adhesion molecule contactin-2. Contactins are
comprised of six Ig domains followed by four fibronectin
type III (FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. Contactin-2 (aliases
TAG-1, axonin-1) facilitates cell adhesion by homophilic
binding between molecules in apposed membranes. The
first four Ig domains form the intermolecular binding
fragment which arranges as a compact U-shaped module by
contacts between Ig domains 1 and 4, and domains 2 and
3. It has been proposed that a linear zipper-like array
forms, from contactin-2 molecules alternatively provided
by the two apposed membranes.
Length = 85
Score = 38.0 bits (88), Expect = 2e-04
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 91 DILDYPTSTDMVIREGSNVTLKCAASGSPKPNITWRREGGELIAQG 136
+ L + T+ I GS++ +C ASG+P+P W + G L ++
Sbjct: 1 EWLKVISDTEADI--GSSLRWECKASGNPRPAYRWLKNGQPLASEN 44
>gnl|CDD|143173 cd04972, Ig_TrkABC_d4, Fourth domain (immunoglobulin-like) of Trk
receptors TrkA, TrkB and TrkC. TrkABC_d4: the fourth
domain of Trk receptors TrkA, TrkB and TrkC, this is an
immunoglobulin (Ig)-like domain which binds to
neurotrophin. The Trk family of receptors are tyrosine
kinase receptors. They are activated by dimerization,
leading to autophosphorylation of intracellular tyrosine
residues, and triggering the signal transduction
pathway. TrkA, TrkB, and TrkC share significant sequence
homology and domain organization. The first three
domains are leucine-rich domains. The fourth and fifth
domains are Ig-like domains playing a part in ligand
binding. TrkA, Band C mediate the trophic effects of the
neurotrophin Nerve growth factor (NGF) family. TrkA is
recognized by NGF. TrKB is recognized by brain-derived
neurotrophic factor (BDNF) and neurotrophin (NT)-4. TrkC
is recognized by NT-3. NT-3 is promiscuous as in some
cell systems it activates TrkA and TrkB receptors. TrkA
is a receptor found in all major NGF targets, including
the sympathetic, trigeminal, and dorsal root ganglia,
cholinergic neurons of the basal forebrain and the
striatum. TrKB transcripts are found throughout multiple
structures of the central and peripheral nervous
systems. The TrkC gene is expressed throughout the
mammalian nervous system.
Length = 90
Score = 37.9 bits (88), Expect = 3e-04
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 90 PDILDYPTSTDMVIREGSNVTLKCAASGSPKPNITWRREGGELIA 134
+D P +T V+ EG T++C A GSP P + W G +I
Sbjct: 1 TIPVDGPNAT--VVYEGGTATIRCTAEGSPLPKVEWIIAGLIVIQ 43
>gnl|CDD|143165 cd00096, Ig, Immunoglobulin domain. Ig: immunoglobulin (Ig) domain
found in the Ig superfamily. The Ig superfamily is a
heterogenous group of proteins, built on a common fold
comprised of a sandwich of two beta sheets. Members of
this group are components of immunoglobulin, neuroglia,
cell surface glycoproteins, such as, T-cell receptors,
CD2, CD4, CD8, and membrane glycoproteins, such as,
butyrophilin and chondroitin sulfate proteoglycan core
protein. A predominant feature of most Ig domains is a
disulfide bridge connecting the two beta-sheets with a
tryptophan residue packed against the disulfide bond.
Length = 74
Score = 37.5 bits (86), Expect = 3e-04
Identities = 14/24 (58%), Positives = 15/24 (62%)
Query: 109 VTLKCAASGSPKPNITWRREGGEL 132
VTL C ASG P P ITW + G L
Sbjct: 1 VTLTCLASGPPPPTITWLKNGKPL 24
Score = 35.9 bits (82), Expect = 8e-04
Identities = 12/66 (18%), Positives = 20/66 (30%), Gaps = 6/66 (9%)
Query: 18 TVAWLRVDTQTILTIQTHVITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQVNTDPM 77
T+ WL+ ++ T V + + + L I V D G Y C +
Sbjct: 14 TITWLKNGKPLPSSVLTRVRSSRGTSSGSST------LTISNVTLEDSGTYTCVASNSAG 67
Query: 78 KSQVGY 83
Sbjct: 68 TVSASV 73
>gnl|CDD|143203 cd05726, Ig4_Robo, Third immunoglobulin (Ig)-like domain in Robo
(roundabout) receptors. Ig4_Robo: domain similar to the
third immunoglobulin (Ig)-like domain in Robo
(roundabout) receptors. Robo receptors play a role in
the development of the central nervous system (CNS), and
are receptors of Slit protein. Slit is a repellant
secreted by the neural cells in the midline. Slit acts
through Robo to prevent most neurons from crossing the
midline from either side. Three mammalian Robo homologs
(robo1, -2, and -3), and three mammalian Slit homologs
(Slit-1,-2, -3), have been identified. Commissural
axons, which cross the midline, express low levels of
Robo; longitudinal axons, which avoid the midline,
express high levels of Robo. robo1, -2, and -3 are
expressed by commissural neurons in the vertebrate
spinal cord and Slits 1, -2, -3 are expressed at the
ventral midline. Robo-3 is a divergent member of the
Robo family which instead of being a positive regulator
of slit responsiveness, antagonizes slit responsiveness
in precrossing axons. The Slit-Robo interaction is
mediated by the second leucine-rich repeat (LRR) domain
of Slit and the two N-terminal Ig domains of Robo, Ig1
and Ig2. The primary Robo binding site for Slit2 has
been shown by surface plasmon resonance experiments and
mutational analysis to be is the Ig1 domain, while the
Ig2 domain has been proposed to harbor a weak secondary
binding site.
Length = 90
Score = 37.6 bits (87), Expect = 3e-04
Identities = 12/26 (46%), Positives = 19/26 (73%)
Query: 106 GSNVTLKCAASGSPKPNITWRREGGE 131
G VT +C A+G+P+P I W++EG +
Sbjct: 1 GRTVTFQCEATGNPQPAIFWQKEGSQ 26
Score = 26.1 bits (57), Expect = 4.2
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 55 LHIREVRESDRGWYMCQ 71
L I V+ SD G+Y+CQ
Sbjct: 49 LTITNVQRSDVGYYICQ 65
>gnl|CDD|143222 cd05745, Ig3_Peroxidasin, Third immunoglobulin (Ig)-like domain of
peroxidasin. Ig3_Peroxidasin: the third immunoglobulin
(Ig)-like domain in peroxidasin. Peroxidasin has a
peroxidase domain and interacting extracellular motifs
containing four Ig-like domains. It has been suggested
that peroxidasin is secreted and has functions related
to the stabilization of the extracellular matrix. It may
play a part in various other important processes such as
removal and destruction of cells which have undergone
programmed cell death, and protection of the organism
against non-self.
Length = 74
Score = 35.7 bits (82), Expect = 0.001
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 105 EGSNVTLKCAASGSPKPNITWRREGGEL 132
EG V C A G P+P I W + G +L
Sbjct: 1 EGQTVDFLCEAQGYPQPVIAWTKGGSQL 28
>gnl|CDD|143224 cd05747, Ig5_Titin_like, M5, fifth immunoglobulin (Ig)-like domain
of human titin C terminus and similar proteins.
Ig5_Titin_like: domain similar to the M5, fifth
immunoglobulin (Ig)-like domain from the human titin C
terminus. Titin (also called connectin) is a fibrous
sarcomeric protein specifically found in vertebrate
striated muscle. Titin is gigantic; depending on isoform
composition it ranges from 2970 to 3700 kDa, and is of a
length that spans half a sarcomere. Titin largely
consists of multiple repeats of Ig-like and fibronectin
type 3 (FN-III)-like domains. Titin connects the ends of
myosin thick filaments to Z disks and extends along the
thick filament to the H zone, and appears to function
similar to an elastic band, keeping the myosin filaments
centered in the sarcomere during muscle contraction or
stretching.
Length = 92
Score = 35.8 bits (82), Expect = 0.002
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 88 VPPDILDYPTSTDMVIREGSNVTLKCAASGSPKPNITWRREG 129
+P IL P S + + EG + C G P P +TW REG
Sbjct: 2 LPATILTKPRS--LTVSEGESARFSCDVDGEPAPTVTWMREG 41
>gnl|CDD|143207 cd05730, Ig3_NCAM-1_like, Third immunoglobulin (Ig)-like domain of
Neural Cell Adhesion Molecule NCAM-1 (NCAM).
Ig3_NCAM-1_like: domain similar to the third
immunoglobulin (Ig)-like domain of Neural Cell Adhesion
Molecule NCAM-1 (NCAM). NCAM plays important roles in
the development and regeneration of the central nervous
system, in synaptogenesis and neural migration. NCAM
mediates cell-cell and cell-substratum recognition and
adhesion via homophilic (NCAM-NCAM), and heterophilic
(NCAM-non-NCAM), interactions. NCAM is expressed as
three major isoforms having different intracellular
extensions. The extracellular portion of NCAM has five
N-terminal Ig-like domains and two fibronectin type III
domains. The double zipper adhesion complex model for
NCAM homophilic binding involves Ig1, Ig2, and Ig3. By
this model, Ig1,and Ig2 mediate dimerization of NCAM
molecules situated on the same cell surface (cis
interactions), and Ig3 domains mediate interactions
between NCAM molecules expressed on the surface of
opposing cells (trans interactions), through binding to
the Ig1 and Ig2 domains. The adhesive ability of NCAM is
modulated by the addition of polysialic acid chains to
the fifth Ig-like domain.
Length = 95
Score = 35.7 bits (82), Expect = 0.002
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 89 PPDILDYPTSTDMVIREGSNVTLKCAASGSPKPNITWRREGGELIAQGNGQEDF 142
PP I + + G +VTL C A G P+P +TW ++ GE I G + F
Sbjct: 1 PPTIRARQSEVNATANLGQSVTLACDADGFPEPTMTWTKD-GEPIESGEEKYSF 53
>gnl|CDD|219745 pfam08205, C2-set_2, CD80-like C2-set immunoglobulin domain. These
domains belong to the immunoglobulin superfamily.
Length = 89
Score = 35.1 bits (81), Expect = 0.002
Identities = 14/31 (45%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 105 EGSNVTLKC-AASGSPKPNITWRREGGELIA 134
E V C +A G P P ITW +G EL A
Sbjct: 13 ENLEVVATCSSAGGKPAPRITWYLDGRELEA 43
>gnl|CDD|143278 cd05870, Ig5_NCAM-2, Fifth immunoglobulin (Ig)-like domain of
Neural Cell Adhesion Molecule NCAM-2 (also known as
OCAM/mamFas II and RNCAM). Ig5_NCAM-2: the fifth
immunoglobulin (Ig)-like domain of Neural Cell Adhesion
Molecule NCAM-2 (also known as OCAM/mamFas II and
RNCAM). NCAM-2 is organized similarly to NCAM ,
including five N-terminal Ig-like domains and two
fibronectin type III domains. NCAM-2 is differentially
expressed in the developing and mature olfactory
epithelium (OE), and may function like NCAM, as an
adhesion molecule.
Length = 98
Score = 35.0 bits (80), Expect = 0.003
Identities = 12/23 (52%), Positives = 13/23 (56%)
Query: 105 EGSNVTLKCAASGSPKPNITWRR 127
E TL C A G P P ITW+R
Sbjct: 15 ENGAATLSCKAEGEPIPEITWKR 37
>gnl|CDD|143259 cd05851, Ig3_Contactin-1, Third Ig domain of contactin-1.
Ig3_Contactin-1: Third Ig domain of the neural cell
adhesion molecule contactin-1. Contactins are comprised
of six Ig domains followed by four fibronectin type III
(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. Contactin-1 is
differentially expressed in tumor tissues and may
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 88
Score = 34.6 bits (79), Expect = 0.003
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 106 GSNVTLKCAASGSPKPNITWRR 127
G NVTL+C A G+P P I WR+
Sbjct: 16 GQNVTLECFALGNPVPVIRWRK 37
>gnl|CDD|143201 cd05724, Ig2_Robo, Second immunoglobulin (Ig)-like domain in Robo
(roundabout) receptors. Ig2_Robo: domain similar to the
second immunoglobulin (Ig)-like domain in Robo
(roundabout) receptors. Robo receptors play a role in
the development of the central nervous system (CNS), and
are receptors of Slit protein. Slit is a repellant
secreted by the neural cells in the midline. Slit acts
through Robo to prevent most neurons from crossing the
midline from either side. Three mammalian Robo homologs
(robo1, -2, and -3), and three mammalian Slit homologs
(Slit-1,-2, -3), have been identified. Commissural
axons, which cross the midline, express low levels of
Robo; longitudinal axons, which avoid the midline,
express high levels of Robo. robo1, -2, and -3 are
expressed by commissural neurons in the vertebrate
spinal cord and Slits 1, -2, -3 are expressed at the
ventral midline. Robo-3 is a divergent member of the
Robo family which instead of being a positive regulator
of slit responsiveness, antagonizes slit responsiveness
in precrossing axons. The Slit-Robo interaction is
mediated by the second leucine-rich repeat (LRR) domain
of Slit and the two N-terminal Ig domains of Robo, Ig1
and Ig2. The primary Robo binding site for Slit2 has
been shown by surface plasmon resonance experiments and
mutational analysis to be is the Ig1 domain, while the
Ig2 domain has been proposed to harbor a weak secondary
binding site.
Length = 86
Score = 34.7 bits (80), Expect = 0.004
Identities = 11/40 (27%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 100 DMVIREGSNVTLKCAAS-GSPKPNITWRREGGELIAQGNG 138
D + G L+C+ G P+P ++WR++G L
Sbjct: 5 DTQVAVGEMAVLECSPPRGHPEPTVSWRKDGQPLNLDNER 44
Score = 25.4 bits (56), Expect = 6.4
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 12/58 (20%)
Query: 16 ESTVAWLRVDTQTILTIQTHVITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQVN 73
E TV+W + D Q + N R+ + L I E R+SD G Y C
Sbjct: 26 EPTVSWRK-DGQPL-------NLDNERVRIVDDGN----LLIAEARKSDEGTYKCVAT 71
>gnl|CDD|143223 cd05746, Ig4_Peroxidasin, Fourth immunoglobulin (Ig)-like domain of
peroxidasin. Ig4_Peroxidasin: the fourth immunoglobulin
(Ig)-like domain in peroxidasin. Peroxidasin has a
peroxidase domain and interacting extracellular motifs
containing four Ig-like domains. It has been suggested
that peroxidasin is secreted, and has functions related
to the stabilization of the extracellular matrix. It may
play a part in various other important processes such as
removal and destruction of cells, which have undergone
programmed cell death, and protection of the organism
against non-self.
Length = 69
Score = 34.1 bits (78), Expect = 0.004
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 109 VTLKCAASGSPKPNITWRREGGELIAQG 136
V + C+A G P+P ITW ++G ++ G
Sbjct: 1 VQIPCSAQGDPEPTITWNKDGVQVTESG 28
>gnl|CDD|143240 cd05763, Ig_1, Subgroup of the immunoglobulin (Ig) superfamily.
Ig_1: subgroup of the immunoglobulin (Ig) domain found
in the Ig superfamily. The Ig superfamily is a
heterogenous group of proteins, built on a common fold
comprised of a sandwich of two beta sheets. Members of
the Ig superfamily are components of immunoglobulin,
neuroglia, cell surface glycoproteins, such as T-cell
receptors, CD2, CD4, CD8, and membrane glycoproteins,
such as butyrophilin and chondroitin sulfate
proteoglycan core protein. A predominant feature of most
Ig domains is a disulfide bridge connecting the two
beta-sheets with a tryptophan residue packed against the
disulfide bond.
Length = 75
Score = 34.1 bits (78), Expect = 0.005
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 9/33 (27%)
Query: 111 LKCAASGSPKPNITWRREGGELIAQGNGQEDFP 143
L+CAA+G P P I W+++GG DFP
Sbjct: 3 LECAATGHPTPQIAWQKDGG---------TDFP 26
>gnl|CDD|143241 cd05764, Ig_2, Subgroup of the immunoglobulin (Ig) superfamily.
Ig_2: subgroup of the immunoglobulin (Ig) domain found
in the Ig superfamily. The Ig superfamily is a
heterogenous group of proteins, built on a common fold
comprised of a sandwich of two beta sheets. Members of
the Ig superfamily are components of immunoglobulin,
neuroglia, cell surface glycoproteins, such as T-cell
receptors, CD2, CD4, CD8, and membrane glycoproteins,
such as butyrophilin and chondroitin sulfate
proteoglycan core protein. A predominant feature of most
Ig domains is a disulfide bridge connecting the two
beta-sheets with a tryptophan residue packed against the
disulfide bond.
Length = 74
Score = 33.6 bits (77), Expect = 0.006
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 106 GSNVTLKCAASGSPKPNITWRREGGELI 133
G TL+C A G P+P I W G+LI
Sbjct: 1 GQRATLRCKARGDPEPAIHWISPDGKLI 28
>gnl|CDD|143277 cd05869, Ig5_NCAM-1, Fifth immunoglobulin (Ig)-like domain of
Neural Cell Adhesion Molecule NCAM-1 (NCAM).
Ig5_NCAM-1: The fifth immunoglobulin (Ig)-like domain of
Neural Cell Adhesion Molecule NCAM-1 (NCAM). NCAM plays
important roles in the development and regeneration of
the central nervous system, in synaptogenesis and neural
migration. NCAM mediates cell-cell and cell-substratum
recognition and adhesion via homophilic (NCAM-NCAM) and
heterophilic (NCAM-non-NCAM) interactions. NCAM is
expressed as three major isoforms having different
intracellular extensions. The extracellular portion of
NCAM has five N-terminal Ig-like domains and two
fibronectin type III domains. The double zipper adhesion
complex model for NCAM homophilic binding involves Ig1,
Ig2, and Ig3. By this model, Ig1 and Ig2 mediate
dimerization of NCAM molecules situated on the same cell
surface (cis interactions), and Ig3 domains mediate
interactions between NCAM molecules expressed on the
surface of opposing cells (trans interactions), through
binding to the Ig1 and Ig2 domains. The adhesive ability
of NCAM is modulated by the addition of polysialic acid
chains to the fifth Ig-like domain.
Length = 97
Score = 34.2 bits (78), Expect = 0.007
Identities = 17/39 (43%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 88 VPPDILDYPTSTDMVIREGSNVTLKCAASGSPKPNITWR 126
P I T M + E +TL C ASG P P+ITWR
Sbjct: 1 AKPKITYVENQTAMELEE--QITLTCEASGDPIPSITWR 37
>gnl|CDD|143276 cd05868, Ig4_NrCAM, Fourth immunoglobulin (Ig)-like domain of NrCAM
(NgCAM-related cell adhesion molecule). Ig4_ NrCAM:
fourth immunoglobulin (Ig)-like domain of NrCAM
(NgCAM-related cell adhesion molecule). NrCAM belongs to
the L1 subfamily of cell adhesion molecules (CAMs) and
is comprised of an extracellular region having six
IG-like domains and five fibronectin type III domains, a
transmembrane region and an intracellular domain. NrCAM
is primarily expressed in the nervous system.
Length = 76
Score = 33.0 bits (75), Expect = 0.010
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 106 GSNVTLKCAASGSPKPNITWRREG 129
G + TL C A+G+PKP+I+W G
Sbjct: 1 GEDGTLICRANGNPKPSISWLTNG 24
>gnl|CDD|143168 cd04967, Ig1_Contactin, First Ig domain of contactin.
Ig1_Contactin: First Ig domain of contactins. Contactins
are neural cell adhesion molecules and are comprised of
six Ig domains followed by four fibronectin type
III(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. The first four Ig domains
form the intermolecular binding fragment, which arranges
as a compact U-shaped module via contacts between Ig
domains 1 and 4, and between Ig domains 2 and 3.
Contactin-2 (TAG-1, axonin-1) may play a part in the
neuronal processes of neurite outgrowth, axon guidance
and fasciculation, and neuronal migration. This group
also includes contactin-1 and contactin-5. The different
contactins show different expression patterns in the
central nervous system. During development and in
adulthood, contactin-2 is transiently expressed in
subsets of central and peripheral neurons. Contactin-5
is expressed specifically in the rat postnatal nervous
system, peaking at about 3 weeks postnatal, and a lack
of contactin-5 (NB-2) results in an impairment of
neuronal activity in the rat auditory system.
Contactin-5 is highly expressed in the adult human brain
in the occipital lobe and in the amygdala. Contactin-1
is differentially expressed in tumor tissues and may,
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 91
Score = 33.2 bits (76), Expect = 0.011
Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 5/43 (11%)
Query: 90 PDILDYPTSTDMVIREGSNVTLKCAASGSPKPNITWRREGGEL 132
PD +P +D EG V+L C A GSP P W G E+
Sbjct: 8 PDDTIFPEESD----EG-KVSLNCRARGSPPPTYRWLMNGTEI 45
>gnl|CDD|143216 cd05739, Ig3_RPTP_IIa_LAR_like, Third immunoglobulin (Ig)-like
domain of the receptor protein tyrosine phosphatase
(RPTP)-F, also known as LAR. Ig3_RPTP_IIa_LAR_like:
domain similar to the third immunoglobulin (Ig)-like
domain found in the receptor protein tyrosine
phosphatase (RPTP)-F, also known as LAR. LAR belongs to
the RPTP type IIa subfamily. Members of this subfamily
are cell adhesion molecule-like proteins involved in
central nervous system (CNS) development. They have
large extracellular portions, comprised of multiple
IG-like domains and two to nine fibronectin type III
(FNIII) domains, and a cytoplasmic portion having two
tandem phosphatase domains. Included in this group is
Drosophila LAR (DLAR).
Length = 69
Score = 32.6 bits (74), Expect = 0.014
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 106 GSNVTLKCAASGSPKPNITWRREGGEL 132
G +V L C A G+P P + W + G EL
Sbjct: 1 GGSVNLTCVAVGAPMPYVKWMKGGEEL 27
>gnl|CDD|143215 cd05738, Ig2_RPTP_IIa_LAR_like, Second immunoglobulin (Ig)-like
domain of the receptor protein tyrosine phosphatase
(RPTP)-F, also known as LAR. Ig2_RPTP_IIa_LAR_like:
domain similar to the second immunoglobulin (Ig)-like
domain found in the receptor protein tyrosine
phosphatase (RPTP)-F, also known as LAR. LAR belongs to
the RPTP type IIa subfamily. Members of this subfamily
are cell adhesion molecule-like proteins involved in
central nervous system (CNS) development. They have
large extracellular portions, comprised of multiple
Ig-like domains and two to nine fibronectin type III
(FNIII) domains, and a cytoplasmic portion having two
tandem phosphatase domains.
Length = 74
Score = 32.7 bits (74), Expect = 0.014
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 110 TLKCAASGSPKPNITWRREGGELIAQGNGQ 139
T+ CAASG+P P ITW ++ + NG+
Sbjct: 2 TMLCAASGNPDPEITWFKDFLPVDTTSNGR 31
>gnl|CDD|143275 cd05867, Ig4_L1-CAM_like, Fourth immunoglobulin (Ig)-like domain of
the L1 cell adhesion molecule (CAM). Ig4_L1-CAM_like:
fourth immunoglobulin (Ig)-like domain of the L1 cell
adhesion molecule (CAM). L1 is comprised of an
extracellular region having six Ig-like domains and five
fibronectin type III domains, a transmembrane region and
an intracellular domain. L1 is primarily expressed in
the nervous system and is involved in its development
and function. L1 is associated with an X-linked
recessive disorder, X-linked hydrocephalus, MASA
syndrome, or spastic paraplegia type 1, that involves
abnormalities of axonal growth. This group also contains
the chicken neuron-glia cell adhesion molecule, Ng-CAM.
Length = 76
Score = 32.5 bits (74), Expect = 0.016
Identities = 11/24 (45%), Positives = 11/24 (45%)
Query: 106 GSNVTLKCAASGSPKPNITWRREG 129
G L C G P PNITW G
Sbjct: 1 GETARLDCQVEGIPTPNITWSING 24
>gnl|CDD|143248 cd05771, IgC_Tapasin_R, Tapasin-R immunoglobulin-like domain.
IgC_Tapasin_R: Immunoglobulin-like domain on Tapasin-R.
Tapasin is a V-C1 (variable-constant) immunoglobulin
superfamily molecule present in the endoplasmic
reticulum (ER), where it links MHC class I molecules to
the transporter associated with antigen processing
(TAP). Tapasin-R is a tapasin-related protein that
contains similar structural motifs to Tapasin, with some
marked differences, especially in the V domain,
transmembrane and cytoplasmic regions. The majority of
Tapasin-R is located within the ER; however, there may
be some expression of Tapasin-R at the cell surface.
Tapasin-R lacks an obvious ER retention signal.
Length = 139
Score = 33.3 bits (76), Expect = 0.024
Identities = 22/78 (28%), Positives = 31/78 (39%), Gaps = 7/78 (8%)
Query: 55 LHIREVRESDRGWYMCQVNTDPMK-SQVGYLEVVVPPDILDYPTSTDMVIREGSNVTLKC 113
L + + D G Y+C V+T P + Q+ L V PP + V TL C
Sbjct: 3 LTLPGLTVHDEGTYICSVSTPPHQAQQIIQLSVSEPPRVRLSLEKL--VSMIEEPQTLIC 60
Query: 114 AASGSPKP---NITWRRE 128
+G P + W RE
Sbjct: 61 HIAGY-YPLDVQVEWTRE 77
>gnl|CDD|143256 cd05848, Ig1_Contactin-5, First Ig domain of contactin-5.
Ig1_Contactin-5: First Ig domain of the neural cell
adhesion molecule contactin-5. Contactins are comprised
of six Ig domains followed by four fibronectin type III
(FnIII) domains, anchored to the membrane by
glycosylphosphatidylinositol. The different contactins
show different expression patterns in the central
nervous system. In rats, a lack of contactin-5 (NB-2)
results in an impairment of the neuronal activity in the
auditory system. Contactin-5 is expressed specifically
in the postnatal nervous system, peaking at about 3
weeks postnatal. Contactin-5 is highly expressed in the
adult human brain in the occipital lobe and in the
amygdala; lower levels of expression have been detected
in the corpus callosum, caudate nucleus, and spinal
cord.
Length = 94
Score = 32.6 bits (74), Expect = 0.025
Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 87 VVPPDILDYPTSTDMVIREGSNVTLKCAASGSPKPNITWRREGGEL 132
V PD +PT +D V L C A G+P P W R G E+
Sbjct: 5 VQEPDDAIFPTDSD-----EKKVILNCEARGNPVPTYRWLRNGTEI 45
>gnl|CDD|143220 cd05743, Ig_Perlecan_D2_like, Immunoglobulin (Ig)-like domain II
(D2) of the human basement membrane heparan sulfate
proteoglycan perlecan, also known as HSPG2.
Ig_Perlecan_D2_like: the immunoglobulin (Ig)-like domain
II (D2) of the human basement membrane heparan sulfate
proteoglycan perlecan, also known as HSPG2. Perlecan
consists of five domains. Domain I has three putative
heparan sulfate attachment sites; domain II has four LDL
receptor-like repeats, and one Ig-like repeat; domain
III resembles the short arm of laminin chains; domain IV
has multiple Ig-like repeats (21 repeats in human
perlecan); and domain V resembles the globular G domain
of the laminin A chain and internal repeats of EGF.
Perlecan may participate in a variety of biological
functions including cell binding, LDL-metabolism,
basement membrane assembly and selective permeability,
calcium binding, and growth- and neurite-promoting
activities.
Length = 78
Score = 32.1 bits (73), Expect = 0.026
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 106 GSNVTLKCAASGSPKPNITWR 126
G V C A+G P P I WR
Sbjct: 1 GETVEFTCVATGVPTPIINWR 21
Score = 26.7 bits (59), Expect = 2.2
Identities = 12/21 (57%), Positives = 17/21 (80%), Gaps = 1/21 (4%)
Query: 55 LHIREVRESDRGWYMCQ-VNT 74
L IR+V+ESD+G Y C+ +NT
Sbjct: 44 LTIRDVKESDQGAYTCEAINT 64
>gnl|CDD|143210 cd05733, Ig6_L1-CAM_like, Sixth immunoglobulin (Ig)-like domain of
the L1 cell adhesion molecule (CAM) and similar
proteins. Ig6_L1-CAM_like: domain similar to the sixth
immunoglobulin (Ig)-like domain of the L1 cell adhesion
molecule (CAM). L1 belongs to the L1 subfamily of cell
adhesion molecules (CAMs) and is comprised of an
extracellular region having six Ig-like domains and five
fibronectin type III domains, a transmembrane region and
an intracellular domain. L1 is primarily expressed in
the nervous system and is involved in its development
and function. L1 is associated with an X-linked
recessive disorder, X-linked hydrocephalus, MASA
syndrome, or spastic paraplegia type 1, that involves
abnormalities of axonal growth. This group also contains
NrCAM [Ng(neuronglia)CAM-related cell adhesion
molecule], which is primarily expressed in the nervous
system, and human neurofascin.
Length = 77
Score = 32.0 bits (73), Expect = 0.029
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 109 VTLKCAASGSPKPNITWRREG 129
+ +KC A G+P P +W R G
Sbjct: 1 IVIKCEAKGNPPPTFSWTRNG 21
>gnl|CDD|143199 cd05722, Ig1_Neogenin, First immunoglobulin (Ig)-like domain in
neogenin and similar proteins. Ig1_Neogenin: first
immunoglobulin (Ig)-like domain in neogenin and related
proteins. Neogenin is a cell surface protein which is
expressed in the developing nervous system of vertebrate
embryos in the growing nerve cells. It is also expressed
in other embryonic tissues, and may play a general role
in developmental processes such as cell migration,
cell-cell recognition, and tissue growth regulation.
Included in this group is the tumor suppressor protein
DCC, which is deleted in colorectal carcinoma . DCC and
neogenin each have four Ig-like domains followed by six
fibronectin type III domains, a transmembrane domain,
and an intracellular domain.
Length = 95
Score = 32.1 bits (73), Expect = 0.034
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 100 DMVIREGSNVTLKCAASGSPKPNITWRREG 129
D+V G V L C+A G P P I W+++G
Sbjct: 8 DIVAVRGGPVVLNCSAEGEPPPKIEWKKDG 37
>gnl|CDD|143170 cd04969, Ig5_Contactin_like, Fifth Ig domain of contactin.
Ig5_Contactin_like: Fifth Ig domain of contactins.
Contactins are neural cell adhesion molecules and are
comprised of six Ig domains followed by four fibronectin
type III(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. The first four Ig domains
form the intermolecular binding fragment, which arranges
as a compact U-shaped module via contacts between Ig
domains 1 and 4, and between Ig domains 2 and 3.
Contactin-2 (TAG-1, axonin-1) may play a part in the
neuronal processes of neurite outgrowth, axon guidance
and fasciculation, and neuronal migration. This group
also includes contactin-1 and contactin-5. The different
contactins show different expression patterns in the
central nervous system. During development and in
adulthood, contactin-2 is transiently expressed in
subsets of central and peripheral neurons. Contactin-5
is expressed specifically in the rat postnatal nervous
system, peaking at about 3 weeks postnatal, and a lack
of contactin-5 (NB-2) results in an impairment of
neuronal act ivity in the rat auditory system.
Contactin-5 is highly expressed in the adult human brain
in the occipital lobe and in the amygdala. Contactin-1
is differentially expressed in tumor tissues and may,
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 73
Score = 31.3 bits (71), Expect = 0.044
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 106 GSNVTLKCAASGSPKPNITWRREGGELIAQG 136
G +V ++C +PKP I+W + G EL+
Sbjct: 1 GGDVIIECKPKAAPKPTISWSK-GTELLTNS 30
>gnl|CDD|143284 cd05876, Ig3_L1-CAM, Third immunoglobulin (Ig)-like domain of the
L1 cell adhesion molecule (CAM). Ig3_L1-CAM: third
immunoglobulin (Ig)-like domain of the L1 cell adhesion
molecule (CAM). L1 belongs to the L1 subfamily of cell
adhesion molecules (CAMs) and is comprised of an
extracellular region having six Ig-like domains, five
fibronectin type III domains, a transmembrane region and
an intracellular domain. L1 is primarily expressed in
the nervous system and is involved in its development
and function. L1 is associated with an X-linked
recessive disorder, X-linked hydrocephalus, MASA
syndrome, or spastic paraplegia type 1, that involves
abnormalities of axonal growth. This group also contains
the chicken neuron-glia cell adhesion molecule, Ng-CAM.
Length = 71
Score = 31.0 bits (70), Expect = 0.055
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 109 VTLKCAASGSPKPNITWRREGGELIAQGNGQEDF 142
+ L+C A G P P + W R G L + +
Sbjct: 1 LVLECIAEGLPTPEVHWDRIDGPLSPNRTKKLNN 34
>gnl|CDD|143325 cd07701, Ig1_Necl-3, First (N-terminal) immunoglobulin (Ig)-like
domain of nectin-like molecule-3 (Necl-3, also known as
cell adhesion molecule 2 (CADM2)). Ig1_Necl-3: domain
similar to the N-terminal immunoglobulin (Ig)-like
domain of nectin-like molecule-3, Necl-3 (also known as
cell adhesion molecule 2 (CADM2), SynCAM2, IGSF4D).
Nectin-like molecules have similar domain structures to
those of nectins. At least five nectin-like molecules
have been identified (Necl-1 - Necl-5). They all have
an extracellular region containing three Ig-like
domains, a transmembrane region, and a cytoplasmic
region. The N-terminal Ig-like domain of the
extracellular region, belongs to the V-type subfamily
of Ig domains, is essential to cell-cell adhesion, and
plays a part in the interaction with the envelope
glycoprotein D of various viruses. Necl-3 accumulates
in central and peripheral nervous system tissue, and
has been shown to selectively interact with
oligodendrocytes.
Length = 95
Score = 31.6 bits (71), Expect = 0.057
Identities = 15/48 (31%), Positives = 25/48 (52%)
Query: 39 KNHRIGVTHSETKAWYLHIREVRESDRGWYMCQVNTDPMKSQVGYLEV 86
+++RI + + + I +V SD G Y C + T P+K+ YL V
Sbjct: 48 RDNRIELVRASWHELSISISDVSLSDEGQYTCSLFTMPVKTSKAYLTV 95
>gnl|CDD|215525 PLN02972, PLN02972, Histidyl-tRNA synthetase.
Length = 763
Score = 32.6 bits (74), Expect = 0.071
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 128 EGGELIAQGNGQEDFPFFKRTKKKKKKKKKK 158
EGGELI + + + K KK KK KKKK
Sbjct: 228 EGGELIEKPQAEAENEAGKSDKKDKKSKKKK 258
>gnl|CDD|143194 cd05717, Ig1_Necl-1-3_like, First (N-terminal) immunoglobulin
(Ig)-like domain of the nectin-like molecules Necl-1 -
Necl-3 (also known as cell adhesion molecules CADM3,
CADM1, and CADM2 respectively). Ig1_Necl-1-3_like:
N-terminal immunoglobulin (Ig)-like domain of the
nectin-like molecules Necl-1 (also known as cell
adhesion molecule 3 (CADM3)), Necl-2 (CADM1), and
Necl-3 (CADM2). At least five nectin-like molecules
have been identified (Necl-1 - Necl-5). They all have
an extracellular region containing three Ig-like
domains, a transmembrane region, and a cytoplasmic
region. The N-terminal Ig-like domain of the
extracellular region belongs to the V-type subfamily of
Ig domains, is essential to cell-cell adhesion, and
plays a part in the interaction with the envelope
glycoprotein D of various viruses. Necl-1, Necl-2, and
Necl-3 have Ca(2+)-independent homophilic and
heterophilic cell-cell adhesion activity. Necl-1 is
specifically expressed in neural tissue, and is
important to the formation of synapses, axon bundles,
and myelinated axons. Necl-2 is expressed in a wide
variety of tissues, and is a putative tumour suppressor
gene, which is downregulated in aggressive
neuroblastoma. Necl-3 accumulates in central and
peripheral nervous system tissue, and has been shown to
selectively interact with oligodendrocytes. This group
also contains Class-I MHC-restricted T-cell-associated
molecule (CRTAM), whose expression pattern is
consistent with its expression in Class-I
MHC-restricted T-cells.
Length = 95
Score = 30.9 bits (70), Expect = 0.100
Identities = 16/71 (22%), Positives = 31/71 (43%), Gaps = 1/71 (1%)
Query: 16 ESTVAWLRVDTQTILTIQTHVITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQVNTD 75
S++ W + QT+ +++RI + + + I V SD G Y C + T
Sbjct: 26 NSSLQWSNPNQQTLY-FNDKRALRDNRIQLVNFSANELSISISNVSLSDEGRYTCSLYTM 84
Query: 76 PMKSQVGYLEV 86
P+++ + V
Sbjct: 85 PVQTAKATVTV 95
>gnl|CDD|143213 cd05736, Ig2_Follistatin_like, Second immunoglobulin (Ig)-like
domain of a follistatin-like molecule encoded by the
Mahya gene and similar proteins. Ig2_Follistatin_like:
domain similar to the second immunoglobulin (Ig)-like
domain found in a follistatin-like molecule encoded by
the CNS-related Mahya gene. Mahya genes have been
retained in certain Bilaterian branches during
evolution. They are conserved in Hymenoptera and
Deuterostomes, but are absent from other metazoan
species such as fruit fly and nematode. Mahya proteins
are secretory, with a follistatin-like domain
(Kazal-type serine/threonine protease inhibitor domain
and EF-hand calcium-binding domain), two Ig-like
domains, and a novel C-terminal domain. Mahya may be
involved in learning and memory and in processing of
sensory information in Hymenoptera and vertebrates.
Follistatin is a secreted, multidomain protein that
binds activins with high affinity and antagonizes their
signaling.
Length = 76
Score = 30.3 bits (68), Expect = 0.10
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 8/39 (20%)
Query: 110 TLKCAASGSPKPNITWRREG--------GELIAQGNGQE 140
+L+C A G P P +TW + G +L NG E
Sbjct: 2 SLRCHAEGIPLPRLTWLKNGMDITPKLSKQLTLIANGSE 40
Score = 26.4 bits (58), Expect = 2.6
Identities = 9/17 (52%), Positives = 9/17 (52%)
Query: 55 LHIREVRESDRGWYMCQ 71
LHI VR D G Y C
Sbjct: 41 LHISNVRYEDTGAYTCI 57
>gnl|CDD|143242 cd05765, Ig_3, Subgroup of the immunoglobulin (Ig) superfamily.
Ig_3: subgroup of the immunoglobulin (Ig) domain found
in the Ig superfamily. The Ig superfamily is a
heterogenous group of proteins, built on a common fold
comprised of a sandwich of two beta sheets. Members of
the Ig superfamily are components of immunoglobulin,
neuroglia, cell surface glycoproteins, such as T-cell
receptors, CD2, CD4, CD8, and membrane glycoproteins,
such as butyrophilin and chondroitin sulfate
proteoglycan core protein. A predominant feature of most
Ig domains is a disulfide bridge connecting the two
beta-sheets with a tryptophan residue packed against the
disulfide bond.
Length = 81
Score = 30.2 bits (68), Expect = 0.11
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 106 GSNVTLKCAASGSPKPNITWRR--EGGE 131
G + C +G P P ITW + G E
Sbjct: 1 GETASFHCDVTGRPPPEITWEKQVHGKE 28
>gnl|CDD|143265 cd05857, Ig2_FGFR, Second immunoglobulin (Ig)-like domain of
fibroblast growth factor (FGF) receptor. Ig2_FGFR:
second immunoglobulin (Ig)-like domain of fibroblast
growth factor (FGF) receptor. FGF receptors bind FGF
signaling polypeptides. FGFs participate in multiple
processes such as morphogenesis, development, and
angiogenesis. FGFs bind to four FGF receptor tyrosine
kinases (FGFR1, -2, -3, -4). Receptor diversity is
controlled by alternative splicing producing splice
variants with different ligand binding characteristics
and different expression patterns. FGFRs have an
extracellular region comprised of three IG-like domains,
a single transmembrane helix, and an intracellular
tyrosine kinase domain. Ligand binding and specificity
reside in the Ig-like domains 2 and 3, and the linker
region that connects these two. FGFR activation and
signaling depend on FGF-induced dimerization, a process
involving cell surface heparin or heparin sulfate
proteoglycans.
Length = 85
Score = 30.2 bits (68), Expect = 0.12
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 106 GSNVTLKCAASGSPKPNITWRREGGEL 132
+ V +C A+G+P P + W + G E
Sbjct: 9 ANTVKFRCPAAGNPTPTMRWLKNGKEF 35
Score = 29.8 bits (67), Expect = 0.17
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 37 ITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQV 72
+ HRIG + W L + V SD+G Y C V
Sbjct: 35 FKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVV 70
>gnl|CDD|143211 cd05734, Ig7_DSCAM, Seventh immunoglobulin (Ig)-like domain of
Down Syndrome Cell Adhesion molecule (DSCAM).
Ig7_DSCAM: the seventh immunoglobulin (Ig)-like domain
of Down Syndrome Cell Adhesion molecule (DSCAM). DSCAM
is a cell adhesion molecule expressed largely in the
developing nervous system. The gene encoding DSCAM is
located at human chromosome 21q22, the locus associated
with the mental retardation phenotype of Down Syndrome.
DSCAM is predicted to be the largest member of the IG
superfamily. It has been demonstrated that DSCAM can
mediate cation-independent homophilic intercellular
adhesion.
Length = 79
Score = 29.9 bits (67), Expect = 0.14
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 33 QTHVITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQVNTD 75
TH RI + + + L I+ V E D G+Y+C+V+ D
Sbjct: 28 HTHTCCLAGRIQLLSNGS----LLIKHVLEEDSGYYLCKVSND 66
Score = 28.7 bits (64), Expect = 0.44
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 109 VTLKCAASGSPKPNITWRREGG 130
VTL C+A G P P I W+ G
Sbjct: 1 VTLNCSAEGYPPPTIVWKHSKG 22
>gnl|CDD|222457 pfam13927, Ig_3, Immunoglobulin domain. This family contains
immunoglobulin-like domains.
Length = 74
Score = 30.0 bits (67), Expect = 0.15
Identities = 13/29 (44%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 105 EGSNVTLKCAASGSP-KPNITWRREGGEL 132
G VTL C+A G P P I+W R G
Sbjct: 14 SGGGVTLTCSAEGGPPPPTISWYRNGSIS 42
>gnl|CDD|143184 cd04983, IgV_TCR_alpha_like, Immunoglobulin (Ig) variable (V)
domain of T-cell receptor (TCR) alpha chain and similar
proteins. IgV_TCR_alpha: immunoglobulin (Ig) variable
domain of the alpha chain of alpha/beta T-cell antigen
receptors (TCRs). TCRs mediate antigen recognition by T
lymphocytes, and are composed of alpha and beta, or
gamma and delta, polypeptide chains with variable (V)
and constant (C) regions. This group represents the
variable domain of the alpha chain of TCRs and also
includes the variable domain of delta chains of TCRs.
Alpha/beta TCRs recognize antigen as peptide fragments
presented by major histocompatibility complex (MHC)
molecules. The variable domain of TCRs is responsible
for antigen recognition, and is located at the
N-terminus of the receptor. Gamma/delta TCRs recognize
intact protein antigens; they recognize proteins
antigens directly and without antigen processing, and
MHC independently of the bound peptide.
Length = 109
Score = 30.3 bits (69), Expect = 0.16
Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 21/77 (27%)
Query: 97 TSTDMVIREGSNVTLKCAASGSPKPNITWRR----EGGELIAQGNGQEDFPFFKRTKKKK 152
+ + ++EG NVTL C S S + W R +G + + + +
Sbjct: 4 SPQSLSVQEGENVTLNCNYSTSTFYYLFWYRQYPGQGPQFL-----------IYISSNGE 52
Query: 153 KKKKK------KKKKKY 163
+K+K K +K
Sbjct: 53 EKEKGRFSATLDKSRKS 69
Score = 26.1 bits (58), Expect = 5.0
Identities = 10/34 (29%), Positives = 13/34 (38%), Gaps = 1/34 (2%)
Query: 38 TKNHRIGVTH-SETKAWYLHIREVRESDRGWYMC 70
+ R T K+ LHI + SD Y C
Sbjct: 54 KEKGRFSATLDKSRKSSSLHISAAQLSDSAVYFC 87
>gnl|CDD|143237 cd05760, Ig2_PTK7, Second immunoglobulin (Ig)-like domain of
protein tyrosine kinase (PTK) 7, also known as CCK4.
Ig2_PTK7: domain similar to the second immunoglobulin
(Ig)-like domain in protein tyrosine kinase (PTK) 7,
also known as CCK4. PTK7 is a subfamily of the receptor
protein tyrosine kinase family, and is referred to as an
RPTK-like molecule. RPTKs transduce extracellular
signals across the cell membrane, and play important
roles in regulating cell proliferation, migration, and
differentiation. PTK7 is organized as an extracellular
portion having seven Ig-like domains, a single
transmembrane region, and a cytoplasmic tyrosine
kinase-like domain. PTK7 is considered a pseudokinase as
it has several unusual residues in some of the highly
conserved tyrosine kinase (TK) motifs; it is predicted
to lack TK activity. PTK7 may function as a
cell-adhesion molecule. PTK7 mRNA is expressed at high
levels in placenta, melanocytes, liver, lung, pancreas,
and kidney. PTK7 is overexpressed in several cancers,
including melanoma and colon cancer lines.
Length = 77
Score = 29.5 bits (66), Expect = 0.18
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 109 VTLKCAASGSPKPNITWRREGGEL 132
VTL+C G P+P W R+G L
Sbjct: 1 VTLRCHIDGHPRPTYQWFRDGTPL 24
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 31.1 bits (71), Expect = 0.21
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 146 KRTKKKKKKKKKKKKKK 162
KR +KK+K+K+K K KK
Sbjct: 398 KRAEKKEKEKEKPKVKK 414
Score = 29.1 bits (66), Expect = 1.1
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ K+K+K K KK+ +
Sbjct: 402 KKEKEKEKPKVKKRHRD 418
Score = 28.8 bits (65), Expect = 1.2
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 146 KRTKKKKKKKKKKKKKK 162
+ KK+K+K+K K KK+
Sbjct: 399 RAEKKEKEKEKPKVKKR 415
Score = 28.8 bits (65), Expect = 1.4
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 146 KRTKKKKKKKKKKKKKK 162
++ K+K K KK+ + K
Sbjct: 404 EKEKEKPKVKKRHRDTK 420
Score = 28.8 bits (65), Expect = 1.5
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 145 FKRTKKKKKKKKKKKKKK 162
+ +KK+K+K+K K K
Sbjct: 396 LAKRAEKKEKEKEKPKVK 413
Score = 28.0 bits (63), Expect = 2.3
Identities = 7/17 (41%), Positives = 13/17 (76%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ K+ +KK+K+K+K
Sbjct: 393 KKVLAKRAEKKEKEKEK 409
Score = 27.6 bits (62), Expect = 3.2
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+K+K+K K KK+
Sbjct: 400 AEKKEKEKEKPKVKKRH 416
Score = 27.6 bits (62), Expect = 3.8
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K +K+K K KK+ +
Sbjct: 403 KEKEKEKPKVKKRHRDT 419
Score = 27.2 bits (61), Expect = 4.3
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 143 PFFKRTKKKKKKKKKKKKKK 162
P K K+ +KK+K+K+K
Sbjct: 391 PSKKVLAKRAEKKEKEKEKP 410
Score = 27.2 bits (61), Expect = 4.5
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 146 KRTKKKKKKKKKKKKKKY 163
K +K K KK+ + K
Sbjct: 405 KEKEKPKVKKRHRDTKNI 422
Score = 26.8 bits (60), Expect = 6.1
Identities = 6/17 (35%), Positives = 13/17 (76%)
Query: 146 KRTKKKKKKKKKKKKKK 162
++ +K+K+K K KK+ +
Sbjct: 401 EKKEKEKEKPKVKKRHR 417
>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168). This
family consists of several hypothetical eukaryotic
proteins of unknown function.
Length = 142
Score = 30.0 bits (68), Expect = 0.28
Identities = 14/17 (82%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
KR KKK+KKKKKKK KK
Sbjct: 89 KRQKKKQKKKKKKKAKK 105
Score = 26.9 bits (60), Expect = 3.4
Identities = 13/17 (76%), Positives = 16/17 (94%)
Query: 146 KRTKKKKKKKKKKKKKK 162
KR K++KKK+KKKKKKK
Sbjct: 86 KRAKRQKKKQKKKKKKK 102
Score = 26.2 bits (58), Expect = 6.4
Identities = 9/17 (52%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
++T KK+ K++KKK+KK
Sbjct: 81 EKTAKKRAKRQKKKQKK 97
Score = 25.8 bits (57), Expect = 8.8
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ K++KKK+KKKKKK
Sbjct: 85 KKRAKRQKKKQKKKKKK 101
>gnl|CDD|143290 cd05882, Ig1_Necl-1, First (N-terminal) immunoglobulin (Ig)-like
domain of nectin-like molcule-1 (Necl-1, also known as
cell adhesion molecule3 (CADM3)). Ig1_Necl-1: domain
similar to the N-terminal immunoglobulin (Ig)-like
domain of nectin-like molecule-1, Necl-1 (also known as
celll adhesion molecule 3 (CADM3), SynCAM2, IGSF4).
Nectin-like molecules have similar domain structures to
those of nectins. At least five nectin-like molecules
have been identified (Necl-1 - Necl-5). They all have
an extracellular region containing three Ig-like
domains, a transmembrane region, and a cytoplasmic
region. The N-terminal Ig-like domain of the
extracellular region belongs to the V-type subfamily of
Ig domains, is essential to cell-cell adhesion, and
plays a part in the interaction with the envelope
glycoprotein D of various viruses. Necl-1 has
Ca(2+)-independent homophilic and heterophilic
cell-cell adhesion activity. Necl-1 is specifically
expressed in neural tissue, and is important to the
formation of synapses, axon bundles, and myelinated
axons.
Length = 95
Score = 29.6 bits (66), Expect = 0.28
Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 16 ESTVAWLRVDTQTILTIQTHVITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQVNTD 75
S++ W QT+ + + N RI + S + I V+ SD G Y C + T
Sbjct: 26 NSSLQWSNTAQQTLYFGEKRALRDN-RIQLVKSTPTELIISISNVQLSDEGEYTCSIFTM 84
Query: 76 PMKS 79
P+++
Sbjct: 85 PVRT 88
>gnl|CDD|217502 pfam03343, SART-1, SART-1 family. SART-1 is a protein involved in
cell cycle arrest and pre-mRNA splicing. It has been
shown to be a component of U4/U6 x U5 tri-snRNP complex
in human, Schizosaccharomyces pombe and Saccharomyces
cerevisiae. SART-1 is a known tumour antigen in a range
of cancers recognised by T cells.
Length = 603
Score = 30.9 bits (70), Expect = 0.29
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 145 FKRTKKKKKKKKKKKKKK 162
FK+ KKKKKKKKK++K
Sbjct: 275 FKKPKKKKKKKKKRRKDL 292
Score = 29.0 bits (65), Expect = 1.4
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 145 FKRTKKKKKKKKKKKKKK 162
K K KKKKKKKKK++K
Sbjct: 273 VKFKKPKKKKKKKKKRRK 290
Score = 28.6 bits (64), Expect = 1.7
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 139 QEDFPFFKRTKKKKKKKKKKKKKK 162
+ + + K KK KKKKKKKKK
Sbjct: 264 SDYYDVSEMVKFKKPKKKKKKKKK 287
Score = 27.8 bits (62), Expect = 2.7
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 139 QEDFPFFKRTKKKKKKKKKKKKK 161
E F K KKKKKKKK++K
Sbjct: 270 SEMVKFKKPKKKKKKKKKRRKDL 292
>gnl|CDD|143320 cd07696, IgC_CH3, CH3 domain (third constant Ig domain of the heavy
chain) in immunoglobulin. IgC_CH3: The third
immunoglobulin constant domain (IgC) of immunoglobulin
(Ig) heavy chains. This domain is found on the Fc
fragment. The basic structure of Ig molecules is a
tetramer of two light chains and two heavy chains linked
by disulfide bonds. There are two types of light chains:
kappa and lambda; each composed of a constant domain and
a variable domain. There are five types of heavy chains:
alpha, delta, epsilon, gamma and mu, all consisting of a
variable domain (VH) and three (in alpha, delta and
gamma) or four (in epsilon and mu) constant domains (CH1
to CH4). Ig molecules are modular proteins, in which the
variable and constant domains have clear, conserved
sequence patterns.
Length = 96
Score = 29.3 bits (66), Expect = 0.35
Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 4/40 (10%)
Query: 96 PTSTDMVIREGSNVTLKCAASGSPKP---NITWRREGGEL 132
P S ++ S V L C + P N+TW R GE
Sbjct: 5 PPSPKQLLLTKS-VKLTCLVTNLTSPEGVNVTWTRGSGEP 43
>gnl|CDD|143193 cd05716, Ig_pIgR, Immunoglobulin (Ig)-like domain in the
polymeric Ig receptor (pIgR). Ig_pIgR: Immunoglobulin
(Ig)-like domain in the polymeric Ig receptor (pIgR).
pIgR delivers dimeric IgA and pentameric IgM to mucosal
secretions. Polymeric immunoglobulin (pIgs) are the
first defense against pathogens and toxins. IgA and IgM
can form polymers via an 18-residue extension at their
c-termini referred to as the tailpiece. pIgR transports
pIgs across mucosal epithelia into mucosal secretions.
Human pIgR is a glycosylated type I transmembrane
protein, comprised of a 620 residue extracellular
region, a 23 residue transmembrane region, and a 103
residue cytoplasmic tail. The extracellular region
contains five domains that share sequence similarity
with Ig variable (v) regions.
Length = 98
Score = 29.3 bits (66), Expect = 0.36
Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 26 TQTILTIQTHVITKNHRIGVTHSETKAWY-LHIREVRESDRGWYMCQVNTD 75
I++ + R+ +T + + + ++R+ D GWY C V D
Sbjct: 36 CLIIVSEGSVQSQYEGRVSLTDDPDNGVFTVTLNQLRKEDAGWYWCGVGDD 86
>gnl|CDD|143227 cd05750, Ig_Pro_neuregulin, Immunoglobulin (Ig)-like domain in
neuregulins (NRGs). Ig_Pro_neuregulin: immunoglobulin
(Ig)-like domain in neuregulins (NRGs). NRGs are
signaling molecules, which participate in cell-cell
interactions in the nervous system, breast, heart, and
other organ systems, and are implicated in the pathology
of diseases including schizophrenia, multiple sclerosis,
and breast cancer. There are four members of the
neuregulin gene family (NRG1, -2, -3, and -4). The NRG-1
protein, binds to and activates the tyrosine kinases
receptors ErbB3 and ErbB4, initiating signaling
cascades. The other NRGs proteins bind one or the other
or both of these ErbBs. NRG-1 has multiple functions;
for example, in the brain it regulates various processes
such as radial glia formation and neuronal migration,
dendritic development, and expression of
neurotransmitters receptors; in the peripheral nervous
system NRG-1 regulates processes such as target cell
differentiation, and Schwann cell survival. There are
many NRG-1 isoforms, which arise from the alternative
splicing of mRNA. Less is known of the functions of the
other NRGs. NRG-2 and -3 are expressed predominantly in
the nervous system. NRG-2 is expressed by motor neurons
and terminal Schwann cells, and is concentrated near
synaptic sites and may be a signal that regulates
synaptic differentiation. NRG-4 has been shown to direct
pancreatic islet cell development towards the delta-cell
lineage.
Length = 75
Score = 28.6 bits (64), Expect = 0.41
Identities = 16/53 (30%), Positives = 20/53 (37%), Gaps = 14/53 (26%)
Query: 111 LKC-AASGSPKPNITWRREGGELIAQGNGQEDFPFFKRTKKKKKKKKKKKKKK 162
LKC A S P W ++G EL R K + K + KKK
Sbjct: 3 LKCEATSEYPSLRFKWFKDGKEL-------------NRKNKPRNIKIRNKKKN 42
>gnl|CDD|212460 cd05723, Ig4_Neogenin, Fourth immunoglobulin (Ig)-like domain in
neogenin and similar proteins. Ig4_Neogenin: fourth
immunoglobulin (Ig)-like domain in neogenin and related
proteins. Neogenin is a cell surface protein which is
expressed in the developing nervous system of vertebrate
embryos in the growing nerve cells. It is also expressed
in other embryonic tissues, and may play a general role
in developmental processes such as cell migration,
cell-cell recognition, and tissue growth regulation.
Included in this group is the tumor suppressor protein
DCC, which is deleted in colorectal carcinoma . DCC and
neogenin each have four Ig-like domains followed by six
fibronectin type III domains, a transmembrane domain,
and an intracellular domain.
Length = 71
Score = 28.4 bits (63), Expect = 0.41
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 108 NVTLKCAASGSPKPNITWRREGGELI 133
++ +C +G P P + W + G +I
Sbjct: 1 DIVFECEVTGKPTPTVKWVKNGDMVI 26
>gnl|CDD|143301 cd05893, Ig_Palladin_C, C-terminal immunoglobulin (Ig)-like domain
of palladin. Ig_Palladin_C: C-terminal immunoglobulin
(Ig)-like domain of palladin. Palladin belongs to the
palladin-myotilin-myopalladin family. Proteins belonging
to this family contain multiple Ig-like domains and
function as scaffolds, modulating actin cytoskeleton.
Palladin binds to alpha-actinin ezrin,
vasodilator-stimulated phosphoprotein VASP, SPIN90 (DIP,
mDia interacting protein), and Src. Palladin also binds
F-actin directly, via its Ig3 domain. Palladin is
expressed as several alternatively spliced isoforms,
having various combinations of Ig-like domains, in a
cell-type-specific manner. It has been suggested that
palladin's different Ig-like domains may be specialized
for distinct functions.
Length = 75
Score = 28.5 bits (63), Expect = 0.44
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 109 VTLKCAASGSPKPNITWRREGGEL 132
V L+C SG P P I W++E L
Sbjct: 1 VRLECRVSGVPHPQIFWKKENESL 24
>gnl|CDD|143226 cd05749, Ig2_Tyro3_like, Second immunoglobulin (Ig)-like domain of
Axl/Tyro3 receptor tyrosine kinases (RTKs).
Ig2_Tyro3_like: the second immunoglobulin (Ig)-like
domain in the Axl/Tyro3 family of receptor tyrosine
kinases (RTKs). This family includes Axl (also known as
Ark, Ufo, and Tyro7), Tyro3 (also known as Sky, Rse,
Brt, Dtk, and Tif), and Mer (also known as Nyk, c-Eyk,
and Tyro12). Axl/Tyro3 family receptors have an
extracellular portion with two Ig-like domains followed
by two fibronectin-types III (FNIII) domains, a
membrane-spanning single helix, and a cytoplasmic
tyrosine kinase domain. Axl, Tyro3 and Mer are widely
expressed in adult tissues, though they show higher
expression in the brain, in the lymphatic and vascular
systems, and in the testis. Axl, Tyro3, and Mer bind the
vitamin K dependent protein Gas6 with high affinity, and
in doing so activate their tyrosine kinase activity.
Axl/Gas6 signaling may play a part in cell adhesion
processes, prevention of apoptosis, and cell
proliferation.
Length = 81
Score = 28.2 bits (63), Expect = 0.64
Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 100 DMVIREGSNVTLKCAASGSPKP-NITWRREGGELIAQG 136
D+ + + L C A G P+P I W + G L
Sbjct: 7 DLSVTANTPFNLTCQAVGPPEPVEILWWQGGSPLGDPP 44
>gnl|CDD|143214 cd05737, Ig_Myomesin_like_C, C-temrinal immunoglobulin (Ig)-like
domain of myomesin and M-protein. Ig_Myomesin_like_C:
domain similar to the C-temrinal immunoglobulin
(Ig)-like domain of myomesin and M-protein. Myomesin and
M-protein are both structural proteins localized to the
M-band, a transverse structure in the center of the
sarcomere, and are candidates for M-band bridges. Both
proteins are modular, consisting mainly of repetitive
Ig-like and fibronectin type III (FnIII) domains.
Myomesin is expressed in all types of vertebrate
striated muscle; M-protein has a muscle-type specific
expression pattern. Myomesin is present in both slow and
fast fibers; M-protein is present only in fast fibers.
It has been suggested that myomesin acts as a molecular
spring with alternative splicing as a means of modifying
its elasticity.
Length = 92
Score = 28.2 bits (63), Expect = 0.64
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 103 IREGSNVTLKCAASGSPKPNITW 125
I EG + L C G P P ++W
Sbjct: 13 IMEGKTLNLTCTVFGDPDPEVSW 35
>gnl|CDD|143190 cd05713, Ig_MOG_like, Immunoglobulin (Ig)-like domain of myelin
oligodendrocyte glycoprotein (MOG). Ig_MOG_like:
immunoglobulin (Ig)-like domain of myelin
oligodendrocyte glycoprotein (MOG). MOG, a minor
component of the myelin sheath, is an important
CNS-specific autoantigen, linked to the pathogenesis of
multiple sclerosis (MS) and experimental autoimmune
encephalomyelitis (EAE). It is a transmembrane protein
having an extracellular Ig domain. MOG is expressed in
the CNS on the outermost lamellae of the myelin sheath,
and on the surface of oligodendrocytes, and may
participate in the completion, compaction, and/or
maintenance of myelin. This group also includes
butyrophilin (BTN). BTN is the most abundant protein in
bovine milk-fat globule membrane (MFGM).
Length = 100
Score = 28.7 bits (65), Expect = 0.64
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 55 LHIREVRESDRGWYMCQVNTDPMKSQVGYLEVVV 88
L I VR SD G Y C +D + +E+ V
Sbjct: 67 LRIHNVRASDEGLYTCFFQSDGFYEEAT-VELKV 99
>gnl|CDD|143221 cd05744, Ig_Myotilin_C_like, Immunoglobulin (Ig)-like domain of
myotilin, palladin, and myopalladin.
Ig_Myotilin_like_C: immunoglobulin (Ig)-like domain in
myotilin, palladin, and myopalladin. Myotilin,
palladin, and myopalladin function as scaffolds that
regulate actin organization. Myotilin and myopalladin
are most abundant in skeletal and cardiac muscle;
palladin is ubiquitously expressed in the organs of
developing vertebrates and plays a key role in cellular
morphogenesis. The three family members each interact
with specific molecular partners: all three bind to
alpha-actinin; in addition, palladin also binds to
vasodilator-stimulated phosphoprotein (VASP) and ezrin,
myotilin binds to filamin and actin, and myopalladin
also binds to nebulin and cardiac ankyrin repeat protein
(CARP).
Length = 75
Score = 27.8 bits (62), Expect = 0.70
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 109 VTLKCAASGSPKPNITWRRE 128
V L+C S P P I W++
Sbjct: 1 VRLECRVSAIPPPQIFWKKN 20
>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein
complex aNOP56 subunit; Provisional.
Length = 414
Score = 29.2 bits (66), Expect = 1.0
Identities = 13/17 (76%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
KR KKKK+KKK KK+KK
Sbjct: 394 KRKKKKKRKKKGKKRKK 410
Score = 28.4 bits (64), Expect = 2.0
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 145 FKRTKKKKKKKKKKKKKK 162
K+ +KKK KK+KKK +K
Sbjct: 397 KKKKRKKKGKKRKKKGRK 414
Score = 28.0 bits (63), Expect = 2.1
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
++ KKK+KKK KK+KKK
Sbjct: 395 RKKKKKRKKKGKKRKKK 411
Score = 28.0 bits (63), Expect = 2.3
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
++ KKKKK+KKK KK+K
Sbjct: 393 QKRKKKKKRKKKGKKRK 409
Score = 28.0 bits (63), Expect = 2.4
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ +K+KKKKK+KKK K
Sbjct: 390 KKPQKRKKKKKRKKKGK 406
Score = 28.0 bits (63), Expect = 2.4
Identities = 9/17 (52%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ +++KK +K+KKKKK
Sbjct: 384 KKKREEKKPQKRKKKKK 400
Score = 27.6 bits (62), Expect = 2.8
Identities = 12/17 (70%), Positives = 14/17 (82%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K K+KKKKK+KKK KK
Sbjct: 391 KPQKRKKKKKRKKKGKK 407
Score = 27.6 bits (62), Expect = 3.3
Identities = 11/17 (64%), Positives = 14/17 (82%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ KK+KKK KK+KKK
Sbjct: 396 KKKKKRKKKGKKRKKKG 412
Score = 27.6 bits (62), Expect = 3.5
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
KR +KK +K+KKKKK+K
Sbjct: 386 KREEKKPQKRKKKKKRK 402
Score = 27.2 bits (61), Expect = 3.8
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 146 KRTKKKKKKKKKKKKKK 162
+ K +K+KKKKK+KKK
Sbjct: 388 EEKKPQKRKKKKKRKKK 404
Score = 27.2 bits (61), Expect = 4.5
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 146 KRTKKKKKKKKKKKKKK 162
+ +KKKKK+KKK KK+
Sbjct: 392 PQKRKKKKKRKKKGKKR 408
Score = 26.5 bits (59), Expect = 8.1
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 146 KRTKKKKKKKKKKKKKK 162
++ +K+KKKKK+KKK
Sbjct: 389 EKKPQKRKKKKKRKKKG 405
Score = 26.1 bits (58), Expect = 10.0
Identities = 9/17 (52%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ ++KK +K+KKKKK+
Sbjct: 385 KKREEKKPQKRKKKKKR 401
>gnl|CDD|143283 cd05875, Ig6_hNeurofascin_like, Sixth immunoglobulin (Ig)-like
domain of human neurofascin (NF).
Ig6_hNeurofascin_like: the sixth immunoglobulin
(Ig)-like domain of human neurofascin (NF). NF belongs
to the L1 subfamily of cell adhesion molecules (CAMs)
and is comprised of an extracellular region having six
Ig-like domains and five fibronectin type III domains, a
transmembrane region, and a cytoplasmic domain. NF has
many alternatively spliced isoforms having different
temporal expression patterns during development. NF
participates in axon subcellular targeting and synapse
formation, however little is known of the functions of
the different isoforms.
Length = 77
Score = 27.6 bits (61), Expect = 1.0
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 109 VTLKCAASGSPKPNITWRREG 129
+ ++C A G+P P W R G
Sbjct: 1 IIIECEAKGNPVPTFQWTRNG 21
>gnl|CDD|219564 pfam07771, TSGP1, Tick salivary peptide group 1. This contains a
group of peptides derived from a salivary gland cDNA
library of the tick Ixodes scapularis. Also present are
peptides from a related tick species, Ixodes ricinus.
They are characterized by a putative signal peptide
indicative of secretion and conserved cysteine residues.
Length = 120
Score = 28.3 bits (63), Expect = 1.1
Identities = 13/23 (56%), Positives = 14/23 (60%)
Query: 140 EDFPFFKRTKKKKKKKKKKKKKK 162
+D P K KKKKKK KK KK
Sbjct: 90 DDHPPEPTEKPKKKKKKSKKTKK 112
Score = 26.8 bits (59), Expect = 3.3
Identities = 13/20 (65%), Positives = 13/20 (65%)
Query: 143 PFFKRTKKKKKKKKKKKKKK 162
P K KKKKK KK KK KK
Sbjct: 96 PTEKPKKKKKKSKKTKKPKK 115
Score = 26.8 bits (59), Expect = 3.6
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ KKK KK KK KK
Sbjct: 101 KKKKKKSKKTKKPKKSS 117
Score = 26.0 bits (57), Expect = 6.4
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ K KK KK KK KK
Sbjct: 103 KKKKSKKTKKPKKSSKK 119
>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function
(DUF1754). This is a eukaryotic protein family of
unknown function.
Length = 90
Score = 27.8 bits (62), Expect = 1.1
Identities = 12/17 (70%), Positives = 13/17 (76%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ KKKKKKKKKK K
Sbjct: 15 KKIDVKKKKKKKKKKNK 31
Score = 27.8 bits (62), Expect = 1.2
Identities = 12/15 (80%), Positives = 12/15 (80%)
Query: 148 TKKKKKKKKKKKKKK 162
KKKKKKKKKK K K
Sbjct: 19 VKKKKKKKKKKNKSK 33
Score = 26.6 bits (59), Expect = 2.5
Identities = 12/19 (63%), Positives = 12/19 (63%)
Query: 145 FKRTKKKKKKKKKKKKKKY 163
K K KKKKKKKKKK
Sbjct: 12 LKGKKIDVKKKKKKKKKKN 30
Score = 26.6 bits (59), Expect = 2.7
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 149 KKKKKKKKKKKKKKY 163
KKKKKKKKK K K+
Sbjct: 21 KKKKKKKKKNKSKEE 35
>gnl|CDD|143299 cd05891, Ig_M-protein_C, C-terminal immunoglobulin (Ig)-like domain
of M-protein (also known as myomesin-2).
Ig_M-protein_C: the C-terminal immunoglobulin (Ig)-like
domain of M-protein (also known as myomesin-2).
M-protein is a structural protein localized to the
M-band, a transverse structure in the center of the
sarcomere, and is a candidate for M-band bridges.
M-protein is modular consisting mainly of repetitive
IG-like and fibronectin type III (FnIII) domains, and
has a muscle-type specific expression pattern. M-protein
is present in fast fibers.
Length = 92
Score = 28.0 bits (62), Expect = 1.1
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 103 IREGSNVTLKCAASGSPKPNITWRREGGEL 132
I EG + L C G+P P + W + ++
Sbjct: 13 IMEGKTLNLTCTVFGNPDPEVIWFKNDQDI 42
>gnl|CDD|143218 cd05741, Ig_CEACAM_D1_like, First immunoglobulin (Ig)-like domain
of carcinoembryonic antigen (CEA) related cell adhesion
molecule (CEACAM) and similar proteins.
Ig_CEACAM_D1_like : immunoglobulin (IG)-like domain 1
in carcinoembryonic antigen (CEA) related cell adhesion
molecule (CEACAM) protein subfamily-like. The CEA
family is a group of anchored or secreted
glycoproteins, expressed by epithelial cells,
leukocytes, endothelial cells and placenta. The CEA
family is divided into the CEACAM and
pregnancy-specific glycoprotein (PSG) subfamilies. This
group represents the CEACAM subfamily. CEACAM1 has many
important cellular functions, it is a cell adhesion
molecule, and a signaling molecule that regulates the
growth of tumor cells, it is an angiogenic factor, and
is a receptor for bacterial and viral pathogens,
including mouse hepatitis virus (MHV). In mice, four
isoforms of CEACAM1 generated by alternative splicing
have either two [D1, D4] or four [D1-D4] Ig-like
domains on the cell surface. This family corresponds to
the D1 Ig-like domain. Also belonging to this group is
the N-terminal immunoglobulin (Ig)-like domain of the
signaling lymphocyte activation molecule (SLAM) family,
CD84-like family. The SLAM family is a group of
immune-cell specific receptors that can regulate both
adaptive and innate immune responses. SLAM family
proteins are organized as an extracellular domain with
having two or four Ig-like domains, a single
transmembrane segment, and a cytoplasmic region having
tyr-based motifs. The extracellular domain is organized
as a membrane-distal Ig variable (IgV) domain that is
responsible for ligand recognition and a
membrane-proximal truncated Ig constant-2 (IgC2)
domain.
Length = 92
Score = 27.7 bits (62), Expect = 1.3
Identities = 13/68 (19%), Positives = 28/68 (41%), Gaps = 5/68 (7%)
Query: 19 VAWLR-VDTQTILTIQTHVITKNHRIGVTHSETKAWY----LHIREVRESDRGWYMCQVN 73
+ W + D I +++ T + G +S + Y L I+ + + D G Y Q+
Sbjct: 18 ITWYKGKDKSVEAEIASYIATNSTVFGPAYSGRETIYPNGSLLIQNLTKEDSGTYTLQII 77
Query: 74 TDPMKSQV 81
+ ++
Sbjct: 78 STNGVTEN 85
>gnl|CDD|143219 cd05742, Ig1_VEGFR_like, First immunoglobulin (Ig)-like domain of
vascular endothelial growth factor (VEGF) receptor (R)
and similar proteins. Ig1_VEGFR_like: first
immunoglobulin (Ig)-like domain of vascular endothelial
growth factor (VEGF) receptor(R) related proteins. The
VEGFRs have an extracellular component with seven
Ig-like domains, a transmembrane segment, and an
intracellular tyrosine kinase domain interrupted by a
kinase-insert domain. The VEGFR family consists of
three members, VEGFR-1 (Flt-1), VEGFR-2 (KDR/Flk-1) and
VEGFR-3 (Flt-4). VEGF-A interacts with both VEGFR-1 and
VEGFR-2. VEGFR-1 binds strongest to VEGF, VEGF-2 binds
more weakly. VEGFR-3 appears not to bind VEGF, but
binds other members of the VEGF family (VEGF-C and -D).
VEGFRs bind VEGFs with high affinity with the IG-like
domains. VEGF-A is important to the growth and
maintenance of vascular endothelial cells and to the
development of new blood- and lymphatic-vessels in
physiological and pathological states. VEGFR-2 is a
major mediator of the mitogenic, angiogenic and
microvascular permeability-enhancing effects of VEGF-A.
VEGFR-1 may play an inhibitory part in these processes
by binding VEGF and interfering with its interaction
with VEGFR-2. VEGFR-1 has a signaling role in mediating
monocyte chemotaxis. VEGFR-2 and -1 may mediate a
chemotactic and a survival signal in hematopoietic stem
cells or leukemia cells. VEGFR-3 has been shown to be
involved in tumor angiogenesis and growth. This group
also contains alpha-type platelet-derived growth factor
receptor precursor (PDGFR)-alpha (CD140a), and
PDGFR-beta (CD140b). PDGFRs alpha and beta have an
extracellular component with five Ig-like domains, a
transmembrane segment, and a cytoplasmic portion that
has protein tyrosine kinase activity.
Length = 84
Score = 27.3 bits (61), Expect = 1.5
Identities = 7/27 (25%), Positives = 10/27 (37%)
Query: 55 LHIREVRESDRGWYMCQVNTDPMKSQV 81
L I D G Y C ++ M +
Sbjct: 51 LTIPNATLKDSGTYTCAASSGTMDQKE 77
>gnl|CDD|143225 cd05748, Ig_Titin_like, Immunoglobulin (Ig)-like domain of titin
and similar proteins. Ig_Titin_like: immunoglobulin
(Ig)-like domain found in titin-like proteins. Titin
(also called connectin) is a fibrous sarcomeric protein
specifically found in vertebrate striated muscle. Titin
is gigantic, depending on isoform composition it ranges
from 2970 to 3700 kDa, and is of a length that spans
half a sarcomere. Titin largely consists of multiple
repeats of Ig-like and fibronectin type 3 (FN-III)-like
domains. Titin connects the ends of myosin thick
filaments to Z disks and extends along the thick
filament to the H zone. It appears to function
similarly to an elastic band, keeping the myosin
filaments centered in the sarcomere during muscle
contraction or stretching. Within the sarcomere, titin
is also attached to or is associated with myosin binding
protein C (MyBP-C). MyBP-C appears to contribute to the
generation of passive tension by titin, and similar to
titin has repeated Ig-like and FN-III domains. Also
included in this group are worm twitchin and insect
projectin, thick filament proteins of invertebrate
muscle, which also have repeated Ig-like and FN-III
domains.
Length = 74
Score = 27.2 bits (61), Expect = 1.5
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 116 SGSPKPNITWRREGGEL 132
SG P P +TW ++G L
Sbjct: 9 SGRPTPTVTWSKDGKPL 25
>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal. This
domain is found to the N-terminus of bacterial signal
peptidases of the S49 family (pfam01343).
Length = 154
Score = 27.9 bits (63), Expect = 1.5
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 144 FFKRTKKKKKKKKKKKKKK 162
+ K KK +K K K +KKK
Sbjct: 71 WEKAEKKAEKAKAKAEKKK 89
Score = 27.1 bits (61), Expect = 3.1
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 145 FKRTKKKKKKKKKKKKKK 162
K +K +KK +K K K
Sbjct: 68 LKAWEKAEKKAEKAKAKA 85
Score = 26.0 bits (58), Expect = 7.6
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K +KK +K K K +
Sbjct: 70 AWEKAEKKAEKAKAKAE 86
>gnl|CDD|143234 cd05757, Ig2_IL1R_like, Second immunoglobulin (Ig)-like domain of
interleukin-1 receptor (IL1R) and similar proteins.
Ig2_IL1R_like: domain similar to the second
immunoglobulin (Ig)-like domain of interleukin-1
receptor (IL1R). IL-1 alpha and IL-1 beta are
cytokines which participate in the regulation of
inflammation, immune responses, and hematopoiesis.
These cytokines bind to the IL-1 receptor type 1
(IL1R1), which is activated on additional association
with an accessory protein, IL1RAP. IL-1 also binds a
second receptor designated type II (IL1R2). Mature
IL1R1 consists of three IG-like domains, a
transmembrane domain, and a large cytoplasmic domain.
Mature IL1R2 is organized similarly except that it has
a short cytoplasmic domain. The latter does not
initiate signal transduction. A naturally occurring
cytokine IL-1RA (IL-1 receptor antagonist) is widely
expressed and binds to IL-1 receptors, inhibiting the
binding of IL-1 alpha and IL-1 beta. This group also
contains ILIR-like 1 (IL1R1L) which maps to the same
chromosomal location as IL1R1 and IL1R2.
Length = 92
Score = 27.3 bits (61), Expect = 1.6
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 54 YLHIREVRESDRGWYMCQV 72
L I+ V E D G Y C++
Sbjct: 53 KLLIQNVTEEDAGNYTCKL 71
>gnl|CDD|143195 cd05718, Ig1_PVR_like, First immunoglobulin (Ig) domain of
poliovirus receptor (PVR, also known as CD155) and
similar proteins. Ig1_PVR_like: domain similar to the
first immunoglobulin (Ig) domain of poliovirus receptor
(PVR, also known as CD155). Poliovirus (PV) binds to
its cellular receptor (PVR/CD155) to initiate
infection. CD155 is a membrane-anchored, single-span
glycoprotein; its extracellular region has three
Ig-like domains. There are four different isotypes of
CD155 (referred to as alpha, beta, gamma, and delta),
that result from alternate splicing of the CD155 mRNA,
and have identical extracellular domains. CD155-beta
and - gamma, are secreted, CD155-alpha and delta are
membrane-bound and function as PV receptors. The virus
recognition site is contained in the amino-terminal
domain, D1. Having the virus attachment site on the
receptor distal from the plasma membrane, may be
important for successful initiation of infection of
cells by the virus. CD155 binds in the poliovirus
"canyon" with a footprint similar to that of the
intercellular adhesion molecule-1 receptor on human
rhinoviruses. This group also includes the first
Ig-like domain of nectin-1 (also known as poliovirus
receptor related protein(PVRL)1; CD111), nectin-3 (also
known as PVRL 3), nectin-4 (also known as PVRL4; LNIR
receptor)and DNAX accessory molecule 1 (DNAM-1; CD226).
Length = 98
Score = 27.3 bits (61), Expect = 1.6
Identities = 9/35 (25%), Positives = 16/35 (45%)
Query: 55 LHIREVRESDRGWYMCQVNTDPMKSQVGYLEVVVP 89
+ I +R D G Y+C+ T P ++ + V
Sbjct: 64 ISISNLRLEDEGNYICEFATFPQGNRQKVTTLTVL 98
>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2. It is vital for
effective cell-replication that replication is not
stalled at any point by, for instance, damaged bases.
Rtf2 stabilizes the replication fork stalled at the
site-specific replication barrier RTS1 by preventing
replication restart until completion of DNA synthesis by
a converging replication fork initiated at a flanking
origin. The RTS1 element terminates replication forks
that are moving in the cen2-distal direction while
allowing forks moving in the cen2-proximal direction to
pass through the region. Rtf2 contains a C2HC2 motif
related to the C3HC4 RING-finger motif, and would appear
to fold up, creating a RING finger-like structure but
forming only one functional Zn2+ ion-binding site.
Length = 254
Score = 28.5 bits (64), Expect = 1.6
Identities = 12/17 (70%), Positives = 13/17 (76%)
Query: 146 KRTKKKKKKKKKKKKKK 162
+ KKKKKKKKKK KK
Sbjct: 178 EERAKKKKKKKKKKTKK 194
>gnl|CDD|237584 PRK14014, PRK14014, putative acyltransferase; Provisional.
Length = 301
Score = 28.3 bits (64), Expect = 1.7
Identities = 10/22 (45%), Positives = 11/22 (50%)
Query: 141 DFPFFKRTKKKKKKKKKKKKKK 162
DFPF KR K K + K K
Sbjct: 137 DFPFMKRYSKAYLAKNPELKGK 158
>gnl|CDD|143282 cd05874, Ig6_NrCAM, Sixth immunoglobulin (Ig)-like domain of NrCAM
(Ng (neuronglia) CAM-related cell adhesion molecule).
Ig6_NrCAM: sixth immunoglobulin (Ig)-like domain of
NrCAM (Ng (neuronglia) CAM-related cell adhesion
molecule). NrCAM belongs to the L1 subfamily of cell
adhesion molecules (CAMs) and is comprised of an
extracellular region having six Ig-like domains and five
fibronectin type III domains, a transmembrane region,
and an intracellular domain. NrCAM is primarily
expressed in the nervous system.
Length = 77
Score = 26.8 bits (59), Expect = 2.2
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 109 VTLKCAASGSPKPNITWRREG 129
+ ++C A G P P+ +W R G
Sbjct: 1 IVIQCEAKGKPPPSFSWTRNG 21
>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 28.1 bits (63), Expect = 2.3
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 136 GNGQEDFPFFKRTKKKKKKKKKKKKKKY 163
G+ ++ FF+ K+ KKK +K KKKY
Sbjct: 906 GSPRKRPSFFEPIFKELKKKIRKFKKKY 933
>gnl|CDD|216337 pfam01159, Ribosomal_L6e, Ribosomal protein L6e.
Length = 108
Score = 27.2 bits (61), Expect = 2.3
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 5/25 (20%)
Query: 144 FFKRTKKKKKKKKKK-----KKKKY 163
+FKR KKKKKKK + KK+K
Sbjct: 36 YFKREKKKKKKKSEGEFFAEKKEKK 60
>gnl|CDD|143229 cd05752, Ig1_FcgammaR_like, Frst immunoglobulin (Ig)-like domain of
Fcgamma-receptors (FcgammaRs) and similar proteins.
Ig1_FcgammaR_like: domain similar to the first
immunoglobulin (Ig)-like domain of Fcgamma-receptors
(FcgammaRs). Interactions between IgG and FcgammaR are
important to the initiation of cellular and humoral
response. IgG binding to FcgammaR leads to a cascade of
signals and ultimately to functions such as
antibody-dependent-cellular-cytotoxicity (ADCC),
endocytosis, phagocytosis, release of inflammatory
mediators, etc. FcgammaR has two Ig-like domains. This
group also contains FcepsilonRI, which binds IgE with
high affinity.
Length = 78
Score = 26.5 bits (59), Expect = 2.6
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 93 LDYPTSTDMVIREGSNVTLKCAASGSPKPNITWRREGGELI 133
LD P +T I +G VTL C SP+ N T G+L+
Sbjct: 5 LDPPWTT---IFQGEKVTLTCNGFNSPEQNSTQWYHNGKLL 42
>gnl|CDD|143328 cd07704, Ig2_Nectin-3-4_like, Second immunoglobulin (Ig) domain of
nectin-3 (also known as poliovirus receptor related
protein 3), nectin-4 (poliovirus receptor related
protein 4) and similar proteins. Ig2_Nectin-3-4_like:
domain similar to the second immunoglobulin (Ig) domain
of nectin-3 (also known as poliovirus receptor related
protein 3) and nectin-4 (poliovirus receptor related
protein 4). Nectin-3 and nectin-4 belong to the nectin
family comprised of four transmembrane glycoproteins
(nectins-1 through 4). Nectins are synaptic cell
adhesion molecules (CAMs) which facilitate adhesion and
signaling at various intracellular junctions. Nectins
form homophilic cis-dimers, followed by homophilic and
heterophilic trans-dimers involved in cell-cell
adhesion. Nectin-2 and nectin-3 localize at
Sertoli-spermatid junctions where they form heterophilic
trans-interactions between the cells that are essential
for the formation and maintenance of the junctions and
for spermatid development. Nectin-3 has also been shown
to form a heterophilic trans-interaction with nectin-1
in ciliary epithelia, establishing the apex-apex
adhesion between the pigment and non-pigment cell
layers. Nectin-4 has recently been identified in
several types of breast carcinoma and can be used as a
histological and serological marker for breast cancer.
Length = 97
Score = 26.8 bits (59), Expect = 2.8
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 105 EGSNVTLKCAASGSPKPNITW 125
G+ + CAA G P ++TW
Sbjct: 17 NGTTLAACCAAEGRPAADVTW 37
>gnl|CDD|240577 cd12950, RRP7_Rrp7p, RRP7 domain ribosomal RNA-processing protein 7
(Rrp7p) and similar proteins. This CD corresponds to
the RRP7 domain of Rrp7p. Rrp7p is encoded by YCL031C
gene from Saccharomyces cerevisiae. It is an essential
yeast protein involved in pre-rRNA processing and
ribosome assembly. Rrp7p contains an N-terminal RNA
recognition motif (RRM), also termed RBD (RNA binding
domain) or RNP (ribonucleoprotein domain), and a
C-terminal RRP7 domain.
Length = 128
Score = 26.9 bits (60), Expect = 3.0
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 134 AQGNGQEDFPFFKRTKKKKKKKKKKKKKK 162
G+E + KK+K+KKKKKKK+
Sbjct: 63 GPAAGEEAGKAAEEEKKEKEKKKKKKKEL 91
>gnl|CDD|143289 cd05881, Ig1_Necl-2, First (N-terminal) immunoglobulin (Ig)-like
domain of nectin-like molecule 2 (also known as cell
adhesion molecule 1 (CADM1)). Ig1_Necl-2: domain
similar to the N-terminal immunoglobulin (Ig)-like
domain of nectin-like molecule-2, Necl-2 (also known as
cell adhesion molecule 1 (CADM1), SynCAM1, IGSF4A,
Tslc1, sgIGSF, and RA175). Nectin-like molecules have
similar domain structures to those of nectins. At least
five nectin-like molecules have been identified (Necl-1
- Necl-5). They all have an extracellular region
containing three Ig-like domains, a transmembrane
region, and a cytoplasmic region. The N-terminal
Ig-like domain of the extracellular region, belongs to
the V-type subfamily of Ig domains, is essential to
cell-cell adhesion, and plays a part in the interaction
with the envelope glycoprotein D of various viruses.
Necl-2 has Ca(2+)-independent homophilic and
heterophilic cell-cell adhesion activity. Necl-2 is
expressed in a wide variety of tissues, and is a
putative tumour suppressor gene, which is downregulated
in aggressive neuroblastoma.
Length = 95
Score = 26.5 bits (58), Expect = 3.1
Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 3/73 (4%)
Query: 16 ESTVAWLRVDTQTILTIQTHVITKNHRIGVTHSETKAWYLHIREVRESDRGWYMCQVNTD 75
+S + L + QTI + K+ R + + + + + V SD G Y CQ+ TD
Sbjct: 26 DSVIQLLNPNRQTIYFRDVRPL-KDSRFQLVNFSSNELRVSLSNVSLSDEGRYFCQLYTD 84
Query: 76 PMKSQVGYLEVVV 88
P Q Y + V
Sbjct: 85 P--PQEAYTTITV 95
>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR). This
family consists of several bovine specific leukaemia
virus receptors which are thought to function as
transmembrane proteins, although their exact function is
unknown.
Length = 561
Score = 27.7 bits (61), Expect = 3.1
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 139 QEDFPFFKRTKKKKKKKKKKKKKK 162
+ D P ++ KK KKK+KK+K+K
Sbjct: 189 KGDVPAVEKKSKKPKKKEKKEKEK 212
>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase; Provisional.
Length = 330
Score = 27.5 bits (62), Expect = 3.2
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 144 FFKRTKKKKKKKKKKKKKK 162
+ K KKK+K++ K K K
Sbjct: 69 WHKAQKKKEKQEAKAAKAK 87
>gnl|CDD|222592 pfam14204, Ribosomal_L18_c, Ribosomal L18 C-terminal region. This
domain is the C-terminal end of ribosomal L18/L5
proteins.
Length = 93
Score = 26.4 bits (59), Expect = 3.5
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 143 PFFKRTKKKKKKKKKKKKKK 162
P K+ +KK+ K + K+
Sbjct: 59 PSRKKKEKKEVKAESKRYNA 78
>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional.
Length = 135
Score = 27.0 bits (60), Expect = 3.6
Identities = 13/17 (76%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
+ KK+KKKKKKKKKKK
Sbjct: 109 AKQKKQKKKKKKKKKKK 125
Score = 27.0 bits (60), Expect = 3.7
Identities = 13/17 (76%), Positives = 14/17 (82%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ KKKKKKKKKK KK
Sbjct: 113 KQKKKKKKKKKKKTSKK 129
Score = 26.6 bits (59), Expect = 5.1
Identities = 13/17 (76%), Positives = 15/17 (88%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ K+KKKKKKKKKKK
Sbjct: 110 KQKKQKKKKKKKKKKKT 126
Score = 25.8 bits (57), Expect = 7.5
Identities = 11/17 (64%), Positives = 12/17 (70%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K+ KKKKKKK KK K
Sbjct: 116 KKKKKKKKKKTSKKAAK 132
Score = 25.8 bits (57), Expect = 9.3
Identities = 12/17 (70%), Positives = 16/17 (94%)
Query: 146 KRTKKKKKKKKKKKKKK 162
++ K+KK+KKKKKKKKK
Sbjct: 107 EKAKQKKQKKKKKKKKK 123
>gnl|CDD|143258 cd05850, Ig1_Contactin-2, First Ig domain of contactin-2.
Ig1_Contactin-2: First Ig domain of the neural cell
adhesion molecule contactin-2-like. Contactins are
comprised of six Ig domains followed by four fibronectin
type III (FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. Contactin-2 (TAG-1,
axonin-1) facilitates cell adhesion by homophilic
binding between molecules in apposed membranes. It may
play a part in the neuronal processes of neurite
outgrowth, axon guidance and fasciculation, and neuronal
migration. The first four Ig domains form the
intermolecular binding fragment, which arranges as a
compact U-shaped module by contacts between IG domains 1
and 4, and domains 2 and 3. The different contactins
show different expression patterns in the central
nervous system. During development and in adulthood,
contactin-2 is transiently expressed in subsets of
central and peripheral neurons. Contactin-2 is also
expressed in retinal amacrine cells in the developing
chick retina, corresponding to the period of formation
and maturation of AC processes.
Length = 94
Score = 26.4 bits (58), Expect = 3.9
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 90 PDILDYPTSTDMVIREGS---NVTLKCAASGSPKPNITWRREGGEL 132
P + P+S + EGS VTL C A SP W+ G E+
Sbjct: 2 PVFEEQPSSL--LFPEGSPEEKVTLGCRARASPPATYRWKMNGTEI 45
>gnl|CDD|143257 cd05849, Ig1_Contactin-1, First Ig domain of contactin-1.
Ig1_Contactin-1: First Ig domain of the neural cell
adhesion molecule contactin-1. Contactins are comprised
of six Ig domains followed by four fibronectin type III
(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. Contactin-1 is
differentially expressed in tumor tissues and may,
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 93
Score = 26.5 bits (58), Expect = 3.9
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 109 VTLKCAASGSPKPNITWRREGGEL 132
V++ C A +P P WR+ ++
Sbjct: 22 VSVNCRARANPFPIYKWRKNNLDI 45
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation factor
3 (eIF3). In yeast it is called Hcr1. The Saccharomyces
cerevisiae protein eIF3j (HCR1) has been shown to be
required for processing of 20S pre-rRNA and binds to 18S
rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 27.3 bits (61), Expect = 4.1
Identities = 8/16 (50%), Positives = 9/16 (56%)
Query: 147 RTKKKKKKKKKKKKKK 162
+ K KKKK K K K
Sbjct: 199 KAAKGGKKKKGKAKAK 214
Score = 26.2 bits (58), Expect = 9.9
Identities = 9/16 (56%), Positives = 9/16 (56%)
Query: 146 KRTKKKKKKKKKKKKK 161
K K KKKK K K K
Sbjct: 199 KAAKGGKKKKGKAKAK 214
>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19.
Med19 represents a family of conserved proteins which
are members of the multi-protein co-activator Mediator
complex. Mediator is required for activation of RNA
polymerase II transcription by DNA binding
transactivators.
Length = 178
Score = 27.1 bits (60), Expect = 4.2
Identities = 11/16 (68%), Positives = 14/16 (87%)
Query: 146 KRTKKKKKKKKKKKKK 161
+R KKKK+KKKKKK+
Sbjct: 154 ERKKKKKEKKKKKKRH 169
Score = 26.7 bits (59), Expect = 4.5
Identities = 12/17 (70%), Positives = 14/17 (82%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K KKKKK+KKKKKK+
Sbjct: 153 KERKKKKKEKKKKKKRH 169
Score = 25.9 bits (57), Expect = 9.2
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 146 KRTKKKKKKKKKKKKKK 162
K K++KKKKK+KKK
Sbjct: 148 KHEDDKERKKKKKEKKK 164
>gnl|CDD|219514 pfam07686, V-set, Immunoglobulin V-set domain. This domain is
found in antibodies as well as neural protein P0 and
CTL4 amongst others.
Length = 114
Score = 26.4 bits (58), Expect = 4.3
Identities = 15/68 (22%), Positives = 24/68 (35%), Gaps = 5/68 (7%)
Query: 91 DILDYPTSTDMVIREGSNVTLKCAASGS-PKPNITWRR----EGGELIAQGNGQEDFPFF 145
L + + EG +VTL C+ S S ++ W + +G ELI
Sbjct: 1 MSLVTQPPRPVTVAEGGSVTLPCSFSSSSGSTSVYWYKQPLGKGPELIIHYVTSTPNGKV 60
Query: 146 KRTKKKKK 153
K +
Sbjct: 61 GPRFKGRV 68
>gnl|CDD|220628 pfam10198, Ada3, Histone acetyltransferases subunit 3. Ada3 is a
family of proteins conserved from yeasts to humans. It
is an essential component of the Ada transcriptional
coactivator (alteration/deficiency in activation)
complex. Ada3 plays a key role in linking histone
acetyltransferase-containing complexes to p53 (tumour
suppressor protein) thereby regulating p53 acetylation,
stability and transcriptional activation following DNA
damage.
Length = 127
Score = 26.5 bits (59), Expect = 4.8
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 144 FFKRTKKKKKKKKKKKKK 161
+ KR + + KKKKK+K+
Sbjct: 90 YLKRIRARGKKKKKEKRP 107
>gnl|CDD|165149 PHA02785, PHA02785, IL-beta-binding protein; Provisional.
Length = 326
Score = 26.9 bits (59), Expect = 4.8
Identities = 21/71 (29%), Positives = 36/71 (50%), Gaps = 11/71 (15%)
Query: 57 IREVRESDRGWYMCQV-----NTDPMKSQVGYLEV---VVPPDILDYPTSTDMVIREGSN 108
I +VR++D G+Y C + + +++ LEV ++PP + P +V GSN
Sbjct: 181 IEDVRKNDAGYYTCVLKYIYGDKTYNVTRIVKLEVRDRIIPP-TMQLPEG--VVTSIGSN 237
Query: 109 VTLKCAASGSP 119
+T+ C S P
Sbjct: 238 LTIACRVSLRP 248
>gnl|CDD|215521 PLN02967, PLN02967, kinase.
Length = 581
Score = 27.3 bits (60), Expect = 4.9
Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 4/69 (5%)
Query: 94 DYPTSTDMVIREGSNVTLKCAASGSPKPNITWRREGGELIAQGNGQEDFPFFKRTKKKKK 153
+ EGS + + A+ + T RR + A + E+ ++T+KK +
Sbjct: 83 KTVVEISEPLEEGSELVVNEDAALDKESKKTPRRTRRKAAAASSDVEE----EKTEKKVR 138
Query: 154 KKKKKKKKK 162
K++K KK
Sbjct: 139 KRRKVKKMD 147
>gnl|CDD|218332 pfam04929, Herpes_DNAp_acc, Herpes DNA replication accessory
factor. Replicative DNA polymerases are capable of
polymerising tens of thousands of nucleotides without
dissociating from their DNA templates. The high
processivity of these polymerases is dependent upon
accessory proteins that bind to the catalytic subunit of
the polymerase or to the substrate. The Epstein-Barr
virus (EBV) BMRF1 protein is an essential component of
the viral DNA polymerase and is absolutely required for
lytic virus replication. BMRF1 is also a transactivator.
This family is predicted to have a UL42 like structure.
Length = 381
Score = 26.9 bits (60), Expect = 5.2
Identities = 11/17 (64%), Positives = 12/17 (70%)
Query: 146 KRTKKKKKKKKKKKKKK 162
KR KK+KKKK KK K
Sbjct: 358 KREGDKKQKKKKSKKLK 374
>gnl|CDD|214650 smart00406, IGv, Immunoglobulin V-Type.
Length = 81
Score = 25.8 bits (57), Expect = 5.3
Identities = 9/23 (39%), Positives = 14/23 (60%), Gaps = 2/23 (8%)
Query: 108 NVTLKCAASGSPKPN--ITWRRE 128
+VTL C SGS + ++W R+
Sbjct: 1 SVTLSCKFSGSTFSSYYVSWVRQ 23
>gnl|CDD|143239 cd05762, Ig8_MLCK, Eighth immunoglobulin (Ig)-like domain of human
myosin light-chain kinase (MLCK). Ig8_MLCK: the eighth
immunoglobulin (Ig)-like domain of human myosin
light-chain kinase (MLCK). MLCK is a key regulator of
different forms of cell motility involving actin and
myosin II. Agonist stimulation of smooth muscle cells
increases cytosolic Ca2+, which binds calmodulin. This
Ca2+-calmodulin complex in turn binds to and activates
MLCK. Activated MLCK leads to the phosphorylation of the
20 kDa myosin regulatory light chain (RLC) of myosin II
and the stimulation of actin-activated myosin MgATPase
activity. MLCK is widely present in vertebrate tissues;
it phosphorylates the 20 kDa RLC of both smooth and
nonmuscle myosin II. Phosphorylation leads to the
activation of the myosin motor domain and altered
structural properties of myosin II. In smooth muscle
MLCK it is involved in initiating contraction. In
nonmuscle cells, MLCK may participate in cell division
and cell motility; it has been suggested MLCK plays a
role in cardiomyocyte differentiation and contraction
through regulation of nonmuscle myosin II.
Length = 98
Score = 26.1 bits (57), Expect = 5.3
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 90 PDILDYPTSTDMVIREGSNVTLKCAASGSPKPNITW 125
P I+ +P DM +R G +V L C +G+ TW
Sbjct: 1 PQIIQFPE--DMKVRAGESVELFCKVTGTQPITCTW 34
>gnl|CDD|143167 cd00099, IgV, Immunoglobulin variable domain (IgV). IgV:
Immunoglobulin variable domain (IgV). Members of the IgV
family are components of immunoglobulin (Ig) and T cell
receptors. The basic structure of Ig molecules is a
tetramer of two light chains and two heavy chains linked
by disulfide bonds. In Ig, each chain is composed of one
variable domain (IgV) and one or more constant domains
(IgC); these names reflect the fact that the variability
in sequences is higher in the variable domain than in
the constant domain. Within the variable domain, there
are regions of even more variability called the
hypervariable or complementarity-determining regions
(CDRs) which are responsible for antigen binding. A
predominant feature of most Ig domains is the disulfide
bridge connecting 2 beta-sheets with a tryptophan
residue packed against the disulfide bond.
Length = 105
Score = 26.1 bits (58), Expect = 5.4
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 101 MVIREGSNVTLKCAASGSPK-PNITW 125
+ + EG +VTL C SGS I W
Sbjct: 1 LSVSEGESVTLSCTYSGSFSSYYIFW 26
>gnl|CDD|212957 cd12024, SH3_NoxO1_2, Second or C-terminal Src homology 3 domain
of NADPH oxidase (Nox) Organizing protein 1. Nox
Organizing protein 1 (NoxO1) is a critical regulator of
enzyme kinetics of the nonphagocytic NADPH oxidase
Nox1, which catalyzes the transfer of electrons from
NADPH to molecular oxygen to form superoxide. Nox1 is
expressed in colon, stomach, uterus, prostate, and
vascular smooth muscle cells. NoxO1 is involved in
targeting activator subunits (such as NoxA1) to Nox1.
It is co-localized with Nox1 in the membranes of
resting cells and directs the subcellular localization
of Nox1. NoxO1 contains an N-terminal Phox homology
(PX) domain, tandem SH3 domains (N-SH3 and C-SH3), and
a C-terminal proline-rich region (PRR). This model
characterizes the second SH3 domain (or C-SH3) of
NoxO1. The tandem SH3 domains of NoxO1 interact with
the PRR of p22phox, which also complexes with Nox1. SH3
domains are protein interaction domains that bind to
proline-rich ligands with moderate affinity and
selectivity, preferentially to PxxP motifs. They play
versatile and diverse roles in the cell including the
regulation of enzymes, changing the subcellular
localization of signaling pathway components, and
mediating the formation of multiprotein complex
assemblies.
Length = 53
Score = 25.0 bits (55), Expect = 5.6
Identities = 7/31 (22%), Positives = 16/31 (51%), Gaps = 5/31 (16%)
Query: 60 VRESDRGWYMCQVNTDPMKSQVGYLEVVVPP 90
+++SD GW++ + N + GY+ +
Sbjct: 27 LQKSDNGWWLIRYN-----GRAGYVPSMYLQ 52
>gnl|CDD|149438 pfam08374, Protocadherin, Protocadherin. The structure of
protocadherins is similar to that of classic cadherins
(pfam00028), but particularly on the cytoplasmic domains
they also have some unique features. They are expressed
in a variety of organisms and are found in high
concentrations in the brain where they seem to be
localised mainly at cell-cell contact sites. Their
expression seems to be developmentally regulated.
Length = 223
Score = 26.7 bits (59), Expect = 5.6
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 147 RTKKKKKKKKKKKKK 161
+ KKKKK KKKK K
Sbjct: 90 KQKKKKKDKKKKSPK 104
Score = 26.3 bits (58), Expect = 7.7
Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 134 AQGNGQEDFPFF--KRTKKKKKKKKKKKKK 161
Q +E +F + K+KKKKK KKKK
Sbjct: 72 YQAGKKETEDWFSPNQENKQKKKKKDKKKK 101
>gnl|CDD|165539 PHA03282, PHA03282, envelope glycoprotein E; Provisional.
Length = 540
Score = 26.8 bits (59), Expect = 5.7
Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 1/66 (1%)
Query: 55 LHIREVRESDRGWYMCQVNTDPMKS-QVGYLEVVVPPDILDYPTSTDMVIREGSNVTLKC 113
L +RE RE+D G Y+ V+ P + + +VV P + P +
Sbjct: 126 LVLREARETDSGMYVLSVSRAPNSTAARAVVFLVVGPRPVPTPPGGTPPPDDDEGDEAGA 185
Query: 114 AASGSP 119
A+ +P
Sbjct: 186 PATPAP 191
>gnl|CDD|143260 cd05852, Ig5_Contactin-1, Fifth Ig domain of contactin-1.
Ig5_Contactin-1: fifth Ig domain of the neural cell
adhesion molecule contactin-1. Contactins are comprised
of six Ig domains followed by four fibronectin type III
(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. Contactin-1 is
differentially expressed in tumor tissues and may
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 73
Score = 25.4 bits (55), Expect = 5.9
Identities = 10/32 (31%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 106 GSNVTLKCAASGSPKPNITWRREGGELIAQGN 137
G V ++C +PKP +W + G EL+ +
Sbjct: 1 GGRVIIECKPKAAPKPKFSWSK-GTELLVNNS 31
>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6. The surfeit locus
protein SURF-6 is shown to be a component of the
nucleolar matrix and has a strong binding capacity for
nucleic acids.
Length = 206
Score = 26.5 bits (59), Expect = 6.0
Identities = 12/17 (70%), Positives = 12/17 (70%)
Query: 146 KRTKKKKKKKKKKKKKK 162
KR KK KKKKK KKK
Sbjct: 186 KRKDDKKNKKKKKAKKK 202
>gnl|CDD|240520 cd13156, KOW_RPL6, KOW motif of Ribosomal Protein L6. RPL6
contains KOW motif that has an extra ribosomal role as
an oncogenic. KOW domain is known as an RNA-binding
motif that is shared so far among some families of
ribosomal proteins, the essential bacterial
transcriptional elongation factor NusG, the eukaryotic
chromatin elongation factor Spt5, the higher eukaryotic
KIN17 proteins and Mtr4. .
Length = 152
Score = 26.4 bits (59), Expect = 6.1
Identities = 16/25 (64%), Positives = 19/25 (76%), Gaps = 5/25 (20%)
Query: 144 FFKRTKKKKKKKK-----KKKKKKY 163
+FKR KKKKKKKK ++KKKKY
Sbjct: 80 YFKRKKKKKKKKKEGEFFEEKKKKY 104
>gnl|CDD|222466 pfam13945, NST1, Splicing factor, salt tolerance regulator. NST1
is a family of proteins that seem to be involved,
directly or indirectly, in the salt sensitivity of some
cellular functions in yeast. These proteins also
interact with the splicing factor Msl1p.
Length = 189
Score = 26.4 bits (58), Expect = 7.0
Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 8/43 (18%)
Query: 128 EGGELIAQGNGQEDFPFFKR--------TKKKKKKKKKKKKKK 162
+ AQ + Q++ +K KKKKKK+ K
Sbjct: 3 DETHKYAQPHSQQNTDELNTVIHNDSSSSKSKKKKKKRSKATS 45
>gnl|CDD|220633 pfam10214, Rrn6, RNA polymerase I-specific transcription-initiation
factor. RNA polymerase I-specific
transcription-initiation factor Rrn6 and Rrn7 represent
components of a multisubunit transcription factor
essential for the initiation of rDNA transcription by
Pol I. These proteins are found in fungi.
Length = 753
Score = 26.6 bits (59), Expect = 7.1
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 143 PFFKRTKKKKKKKKKKK 159
R+ KKKKKKK+K
Sbjct: 734 LSGGRSASKKKKKKKRK 750
>gnl|CDD|183746 PRK12789, flgI, flagellar basal body P-ring protein; Reviewed.
Length = 367
Score = 26.3 bits (58), Expect = 7.9
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 7/48 (14%)
Query: 3 ARMLIEIGEMLMAESTVAWLRVDTQTILTIQTHVITKNHRI---GVTH 47
R + EIG++ + T A + VD +T T VI +N +I VTH
Sbjct: 238 TRFIAEIGDLTIEPDTPARVVVDQRT----GTVVIGRNVQISTVAVTH 281
>gnl|CDD|238028 cd00073, H15, linker histone 1 and histone 5 domains; the basic
subunit of chromatin is the nucleosome, consisting of an
octamer of core histones, two full turns of DNA, a
linker histone (H1 or H5) and a variable length of
linker DNA; H1/H5 are chromatin-associated proteins that
bind to the exterior of nucleosomes and dramatically
stabilize the highly condensed states of chromatin
fibers; stabilization of higher order folding occurs
through electrostatic neutralization of the linker DNA
segments, through a highly positively charged carboxy-
terminal domain known as the AKP helix (Ala, Lys, Pro);
thought to be involved in specific protein-protein and
protein-DNA interactions and play a role in suppressing
core histone tail domain acetylation in the chromatin
fiber.
Length = 88
Score = 25.3 bits (56), Expect = 8.1
Identities = 12/16 (75%), Positives = 13/16 (81%)
Query: 145 FKRTKKKKKKKKKKKK 160
FK +KKKKKKKK KK
Sbjct: 73 FKLSKKKKKKKKPAKK 88
>gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein;
Validated.
Length = 860
Score = 26.3 bits (58), Expect = 8.3
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 132 LIAQGNGQEDFPFFKRTKKKKKKKKKKKKKK 162
+I + G P+ K+TK KKK K K
Sbjct: 735 VITKYAGTPKTPYEKKTKAKKKSASTKGKAA 765
>gnl|CDD|222572 pfam14155, DUF4307, Domain of unknown function (DUF4307). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria. Proteins
in this family are typically between 132 and 153 amino
acids in length. There is a single completely conserved
residue C that may be functionally important.
Length = 112
Score = 25.3 bits (56), Expect = 9.3
Identities = 19/75 (25%), Positives = 29/75 (38%), Gaps = 10/75 (13%)
Query: 19 VAWLRVDTQTILTIQTHVITKNHRIGVTHSETKAWYLHIREV-RESDRGWYMCQVN-TDP 76
VAW+ + VI + V S + + +V R+ Y C V D
Sbjct: 21 VAWIGYQQVGGPDVSAEVIG--FEV-VDDSTVEVTF----DVTRDPGTPAY-CIVRALDE 72
Query: 77 MKSQVGYLEVVVPPD 91
++VG EV+VP
Sbjct: 73 DGAEVGRREVLVPAG 87
>gnl|CDD|188606 TIGR04091, LTA_dltB, D-alanyl-lipoteichoic acid biosynthesis
protein DltB. Members of this protein family are DltB,
part of a four-gene operon for D-alanyl-lipoteichoic
acid biosynthesis that is present in the vast majority
of low-GC Gram-positive organisms. This protein may be
involved in transport of D-alanine across the plasma
membrane [Cell envelope, Biosynthesis and degradation of
murein sacculus and peptidoglycan].
Length = 380
Score = 26.0 bits (58), Expect = 9.9
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 149 KKKKKKKKKKKKKKY 163
+K KK KK KK K
Sbjct: 343 RKSKKYKKNKKNKWT 357
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
0.317 0.131 0.394
Gapped
Lambda K H
0.267 0.0637 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,216,220
Number of extensions: 733596
Number of successful extensions: 3665
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3254
Number of HSP's successfully gapped: 322
Length of query: 163
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 74
Effective length of database: 6,990,096
Effective search space: 517267104
Effective search space used: 517267104
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.2 bits)