RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7035
(70 letters)
>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 = 36.7 bits (85), Expect = 6e-05
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 17 IVSNQSLVLQNVSRARAGHYTCVGSNGEGDGQSNA 51
I + SL + NV+++ G YTC N G S
Sbjct: 35 IWPDGSLEILNVTKSDEGKYTCFAENFFGKANSTG 69
>gnl|CDD|206066 pfam13895, Ig_2, Immunoglobulin domain. This domain contains
immunoglobulin-like domains.
Length = 80
Score = 35.1 bits (81), Expect = 3e-04
Identities = 19/48 (39%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 5 NVQLYNNISAGVIVSNQS--LVLQNVSRARAGHYTCVGSNGEGDGQSN 50
N Y + GV +S+ NVS +G YTCV SNG G SN
Sbjct: 30 NYTWYKD---GVPLSSSQNGFFTPNVSAEDSGTYTCVASNGGGGKTSN 74
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 34.3 bits (79), Expect = 4e-04
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 18 VSNQSLVLQNVSRARAGHYTCVGSNGEG 45
S +L +++VS +G YTCV N G
Sbjct: 36 ASGSTLTIKSVSLEDSGLYTCVAENSAG 63
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 34.0 bits (78), Expect = 8e-04
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 19 SNQSLVLQNVSRARAGHYTCVGSNGEGDGQSNAQ 52
S +L + NV+ +G YTC +N G S
Sbjct: 49 STSTLTISNVTPEDSGTYTCAATNSSGSASSGTT 82
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 34.0 bits (78), Expect = 8e-04
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 19 SNQSLVLQNVSRARAGHYTCVGSNGEGDGQSNAQ 52
S +L + NV+ +G YTC +N G S
Sbjct: 49 STSTLTISNVTPEDSGTYTCAATNSSGSASSGTT 82
>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 = 32.0 bits (73), Expect = 0.005
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 17 IVSNQSLVLQNVSRARAGHYTCVGSNGEGDGQSNA 51
IV + +L++ ++ G Y CV +N G+ +S A
Sbjct: 47 IVDDGNLLIAEARKSDEGTYKCVATNMVGERESAA 81
>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 = 30.9 bits (69), Expect = 0.012
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 19 SNQSLVLQNVSRARAGHYTCVGSNGEGDGQSNAQ 52
+ +L + NV+ +G YTCV SN G ++
Sbjct: 41 GSSTLTISNVTLEDSGTYTCVASNSAGTVSASVT 74
>gnl|CDD|143180 cd04979, Ig_Semaphorin_C, Immunoglobulin (Ig)-like domain of
semaphorin. Ig_Semaphorin_C; Immunoglobulin (Ig)-like
domain in semaphorins. Semaphorins are transmembrane
protein that have important roles in a variety of
tissues. Functionally, semaphorins were initially
characterized for their importance in the development
of the nervous system and in axonal guidance. Later
they have been found to be important for the formation
and functioning of the cardiovascular, endocrine,
gastrointestinal, hepatic, immune, musculoskeletal,
renal, reproductive, and respiratory systems.
Semaphorins function through binding to their receptors
and transmembrane semaphorins also serves as receptors
themselves. Although molecular mechanism of semaphorins
is poorly understood, the Ig-like domains may involve
in ligand binding or dimerization.
Length = 89
Score = 30.4 bits (69), Expect = 0.019
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 4 SNVQLYNNISAGVIVSNQSLVLQNVSRARAGHYTCV 39
+Q ++V+ L++++VS A AG YTC
Sbjct: 34 GPLQRKEEPEERLLVTEDGLLIRSVSPADAGVYTCQ 69
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 29.9 bits (68), Expect = 0.035
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 20 NQSLVLQNVSRARAGHYTCVGSNGEGDGQSNAQ 52
+L + NV G YTCV +N G+ +++A+
Sbjct: 55 TYTLTISNVQPDDEGKYTCVATNSAGEAEASAE 87
>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 = 29.3 bits (66), Expect = 0.037
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 20 NQSLVLQNVSRARAGHYTCVGSNGEG 45
N++L + NVS G Y C SN G
Sbjct: 35 NKTLKIDNVSEEDDGEYRCTASNSLG 60
>gnl|CDD|222457 pfam13927, Ig_3, Immunoglobulin domain. This family contains
immunoglobulin-like domains.
Length = 74
Score = 28.1 bits (62), Expect = 0.12
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 19 SNQSLVLQNVSRARAGHYTCVGSN 42
S +L L +V+ +G YTCV SN
Sbjct: 51 SGSTLTLSSVTSEDSGTYTCVASN 74
>gnl|CDD|143266 cd05858, Ig3_FGFR-2, Third immunoglobulin (Ig)-like domain of
fibroblast growth factor receptor 2 (FGFR2).
Ig3_FGFR-2-like; domain similar to the third
immunoglobulin (Ig)-like domain of human fibroblast
growth factor receptor 2 (FGFR2). Fibroblast growth
factors (FGFs) participate in morphogenesis,
development, angiogenesis, and wound healing. These
FGF-stimulated processes are mediated by four FGFR
tyrosine kinases (FGRF1-4). FGFRs are comprised of an
extracellular portion consisting of three Ig-like
domains, a transmembrane helix, and a cytoplasmic
portion having protein tyrosine kinase activity. The
highly conserved Ig-like domains 2 and 3, and the
linker region between D2 and D3 define a general
binding site for FGFs. FGFR2 is required for male sex
determination.
Length = 90
Score = 28.4 bits (63), Expect = 0.14
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 13 SAGVIVSNQS---LVLQNVSRARAGHYTCVGSNGEG 45
+AGV +++ L L+NV+ AG YTC+ N G
Sbjct: 44 TAGVNTTDKEMEVLYLRNVTFEDAGEYTCLAGNSIG 79
>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 = 28.0 bits (62), Expect = 0.14
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 17 IVSNQSLVLQNVSRARAGHYTCVGSNGEGDGQSNAQ 52
IV +L + + ++ G Y C+ N G+ Q+ AQ
Sbjct: 33 IVKEHNLQVLGLVKSDEGFYQCIAENDVGNVQAGAQ 68
>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 = 28.1 bits (63), Expect = 0.18
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 22 SLVLQNVSRARAGHYTCV 39
L++QNV+ AG+YTC
Sbjct: 53 KLLIQNVTEEDAGNYTCK 70
>gnl|CDD|143270 cd05862, Ig1_VEGFR, First immunoglobulin (Ig)-like domain of
vascular endothelial growth factor (VEGF) receptor(R).
IG1_VEGFR: first immunoglobulin (Ig)-like domain of
vascular endothelial growth factor (VEGF) receptor(R).
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.
Length = 86
Score = 27.9 bits (62), Expect = 0.21
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 23 LVLQNVSRARAGHYTCVGSNGE 44
L ++NV+ + G YTC S+G+
Sbjct: 52 LTIENVTLSDLGRYTCTASSGQ 73
>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 = 27.2 bits (60), Expect = 0.24
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 15 GVIVSNQSLVLQNVSRARAGHYTCVGSNGEG 45
+ +N++L L NV + G Y C N EG
Sbjct: 30 KKLNNNKTLQLDNVLESDDGEYVCTAENSEG 60
>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 = 27.1 bits (60), Expect = 0.37
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 10 NNISAGVIVSN-QSLVLQNVSRARAGHYTCVGSNGEGDGQSN 50
N++ V+V+N LV+ N AG YTC N G ++N
Sbjct: 35 NHVRGNVVVTNIGQLVIYNAQPQDAGLYTCTARNSGGLLRAN 76
>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 = 26.9 bits (59), Expect = 0.44
Identities = 14/45 (31%), Positives = 20/45 (44%)
Query: 7 QLYNNISAGVIVSNQSLVLQNVSRARAGHYTCVGSNGEGDGQSNA 51
+L N S I + SL + N+++ G YTC N G S
Sbjct: 25 ELLVNNSRISIWDDGSLEILNITKLDEGSYTCFAENNRGKANSTG 69
>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 = 26.6 bits (59), Expect = 0.46
Identities = 12/34 (35%), Positives = 15/34 (44%)
Query: 18 VSNQSLVLQNVSRARAGHYTCVGSNGEGDGQSNA 51
V +L+L NV Y C SN G +NA
Sbjct: 38 VDGGTLILSNVQPNDTAVYQCNASNVHGYLLANA 71
>gnl|CDD|143279 cd05871, Ig_Semaphorin_classIII, Immunoglobulin (Ig)-like domain
of class III semaphorin. Ig_Semaphorin_class III;
Immunoglobulin (Ig)-like domain of class III
semaphorins. Semaphorins are classified into various
classes on the basis of structural features additional
to the Sema domain. Class III semaphorins are a
vertebrate class having a Sema domain, an Ig domain, a
short basic domain, and are secreted. They have been
shown to be axonal guidance cues and have a part in the
regulation of the cardiovascular, immune and
respiratory systems. Sema3A, the prototype member of
this class III subfamily, induces growth cone collapse
and is an inhibitor of axonal sprouting. In perinatal
rat cortex as a chemoattractant, it functions to
direct, for pyramidal neurons, the orientated extension
of apical dendrites. It may play a role, prior to the
development of apical dendrites, in signaling the
radial migration of newborn cortical neurons towards
the upper layers. Sema3A selectively inhibits vascular
endothelial growth factor receptor (VEGF)-induced
angiogenesis and induces microvascular permeability.
This group also includes Sema3B, -C, -D, -E, -G.
Length = 91
Score = 27.0 bits (60), Expect = 0.47
Identities = 9/25 (36%), Positives = 17/25 (68%)
Query: 16 VIVSNQSLVLQNVSRARAGHYTCVG 40
+I + + L+L+++ R+ AG YTC
Sbjct: 48 LIHTERGLLLRSLQRSDAGVYTCTA 72
>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 = 26.4 bits (58), Expect = 0.54
Identities = 13/40 (32%), Positives = 24/40 (60%), Gaps = 3/40 (7%)
Query: 17 IVSNQSLVLQNVSRARAGHYTCVGSNGEGDGQSNAQKTAY 56
++SN SL++++V +G+Y C SN G ++A K+
Sbjct: 40 LLSNGSLLIKHVLEEDSGYYLCKVSNDVG---ADASKSMV 76
>gnl|CDD|143231 cd05754, Ig3_Perlecan_like, Third immunoglobulin (Ig)-like domain
found in Perlecan and similar proteins.
Ig3_Perlecan_like: domain similar to the third
immunoglobulin (Ig)-like domain found in Perlecan.
Perlecan is a large multi-domain heparin sulfate
proteoglycan, important in tissue development and
organogenesis. Perlecan can be represented as 5 major
portions; its fourth major portion (domain IV) is a
tandem repeat of immunoglobulin-like domains
(Ig2-Ig15), which can vary in size due to alternative
splicing. Perlecan binds many cellular and
extracellular ligands. Its domain IV region has many
binding sites. Some of these have been mapped at the
level of individual Ig-like domains, including a site
restricted to the Ig5 domain for heparin/sulfatide, a
site restricted to the Ig3 domain for nidogen-1 and
nidogen-2, a site restricted to Ig4-5 for fibronectin,
and sites restricted to Ig2 and to Ig13-15 for
fibulin-2.
Length = 85
Score = 26.4 bits (58), Expect = 0.63
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 19 SNQSLVLQNVSRARAGHYTCVGSN 42
N L ++NV + AG Y C GSN
Sbjct: 50 FNGILTIRNVQLSDAGTYVCTGSN 73
>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 = 25.8 bits (57), Expect = 0.97
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 17 IVSNQSLVLQNVSRARAGHYTCVGSNGEG 45
I+ ++SL ++NV+ G YTC N G
Sbjct: 31 ILDDKSLKIRNVTAGDEGSYTCEAENMVG 59
>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 = 25.8 bits (57), Expect = 1.1
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 20 NQSLVLQNVSRARAGHYTCVGSNGEG 45
+L+L++V + +G YTC+ N G
Sbjct: 50 KWTLILESVVPSDSGKYTCIVENKYG 75
>gnl|CDD|143251 cd05774, Ig_CEACAM_D1, First immunoglobulin (Ig)-like domain of
carcinoembryonic antigen (CEA) related cell adhesion
molecule (CEACAM). IG_CEACAM_D1: immunoglobulin
(Ig)-like domain 1 in carcinoembryonic antigen (CEA)
related cell adhesion molecule (CEACAM) protein
subfamily. 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.
Length = 105
Score = 26.1 bits (58), Expect = 1.1
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 17 IVSNQSLVLQNVSRARAGHYT 37
I N SL++QNV++ G YT
Sbjct: 66 IYPNGSLLIQNVTQKDTGFYT 86
>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 = 25.6 bits (56), Expect = 1.5
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 20 NQSLVLQNVSRARAGHYTCVGSNGEG 45
+ SL++++V + G+YTCV N G
Sbjct: 50 HWSLIMESVVPSDKGNYTCVVENEYG 75
>gnl|CDD|143217 cd05740, Ig_CEACAM_D4, Fourth immunoglobulin (Ig)-like domain of
carcinoembryonic antigen (CEA) related cell adhesion
molecule (CEACAM). Ig_CEACAM_D4: immunoglobulin
(Ig)-like domain 4 in carcinoembryonic antigen (CEA)
related cell adhesion molecule (CEACAM) protein
subfamily. 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 D4 Ig-like domain.
Length = 91
Score = 25.3 bits (55), Expect = 1.8
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 20 NQSLVLQNVSRARAGHYTCVGSN 42
N++L NV+R+ GHY C SN
Sbjct: 54 NRTLTFNNVTRSDTGHYQCEASN 76
>gnl|CDD|226638 COG4168, SapB, ABC-type antimicrobial peptide transport system,
permease component [Defense mechanisms].
Length = 321
Score = 25.8 bits (57), Expect = 1.8
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 7 QLYNNISAGVIVSNQSLVLQNV 28
Q Y +ISAGVIV +++ NV
Sbjct: 279 QDYASISAGVIVIGSLVIIVNV 300
>gnl|CDD|143175 cd04974, Ig3_FGFR, Third immunoglobulin (Ig)-like domain of
fibroblast growth factor receptor (FGFR). Ig3_FGFR:
third immunoglobulin (Ig)-like domain of fibroblast
growth factor receptor (FGFR). Fibroblast growth
factors (FGFs) participate in morphogenesis,
development, angiogenesis, and wound healing. These
FGF-stimulated processes are mediated by four FGFR
tyrosine kinases (FGRF1-4). FGFRs are comprised of an
extracellular portion consisting of three Ig-like
domains, a transmembrane helix, and a cytoplasmic
portion having protein tyrosine kinase activity. The
highly conserved Ig-like domains 2 and 3, and the
linker region between D2 and D3 define a general
binding site for FGFs.
Length = 90
Score = 25.1 bits (55), Expect = 2.5
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 23 LVLQNVSRARAGHYTCVGSNGEGDGQSNAQKT 54
L L+NVS AG YTC+ N G +A T
Sbjct: 57 LYLRNVSFDDAGEYTCLAGNSIGPSHHSAWLT 88
>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 = 24.7 bits (54), Expect = 2.6
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 23 LVLQNVSRARAGHYTCVGSNGEGDGQ 48
L + N + +G YTC S+G D +
Sbjct: 51 LTIPNATLKDSGTYTCAASSGTMDQK 76
>gnl|CDD|165230 PHA02914, PHA02914, Immunoglobulin-like domain protein;
Provisional.
Length = 500
Score = 25.5 bits (55), Expect = 3.0
Identities = 8/38 (21%), Positives = 14/38 (36%)
Query: 2 SFSNVQLYNNISAGVIVSNQSLVLQNVSRARAGHYTCV 39
S +N N G S + +N+ G + C+
Sbjct: 62 SINNAGEDNVCYCGDPDKEYSFIEENIGEHEDGDFKCI 99
>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 = 24.7 bits (54), Expect = 3.1
Identities = 12/25 (48%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 22 SLVLQNVSRAR-AGHYTCVGSNGEG 45
+LV+ N S+A+ AG Y C+ SN G
Sbjct: 59 NLVISNPSKAKDAGRYQCLASNIVG 83
>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 = 24.6 bits (53), Expect = 3.3
Identities = 13/29 (44%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 22 SLVLQNVSRARAGHYTCVGSNGEG-DGQS 49
SL L+ + AG Y C SN G D QS
Sbjct: 64 SLTLKYIQYTDAGEYLCTASNTIGQDSQS 92
>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 = 24.6 bits (54), Expect = 3.8
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 17 IVSNQSLVLQNVSRARAGHYT 37
I N SL++QN+++ +G YT
Sbjct: 53 IYPNGSLLIQNLTKEDSGTYT 73
>gnl|CDD|237507 PRK13790, PRK13790, phosphoribosylamine--glycine ligase;
Provisional.
Length = 379
Score = 24.8 bits (54), Expect = 4.8
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 43 GEGDGQSNAQKTAYDIGLGIPAEPLF 68
G+GD +AQ+ AY+ I ++ LF
Sbjct: 341 GKGDNVQDAQRDAYEKVSQIQSDHLF 366
>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 = 23.7 bits (51), Expect = 8.7
Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 5/47 (10%)
Query: 2 SFSN-VQLYNNISAGVIVSNQSLVLQNVSRARAGHYTCVGSNGEGDG 47
F V L N S ++ SL + N+ + +G YTC SN
Sbjct: 63 RFKGRVTLSGNGSK----NDFSLTISNLRLSDSGTYTCAVSNPNELV 105
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
0.313 0.130 0.364
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: 3,274,152
Number of extensions: 223091
Number of successful extensions: 159
Number of sequences better than 10.0: 1
Number of HSP's gapped: 159
Number of HSP's successfully gapped: 37
Length of query: 70
Length of database: 10,937,602
Length adjustment: 40
Effective length of query: 30
Effective length of database: 9,163,442
Effective search space: 274903260
Effective search space used: 274903260
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.4 bits)