RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11558
(74 letters)
>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 = 34.9 bits (80), Expect = 6e-04
Identities = 20/58 (34%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 18 GPIFIKEPPNRIDFSNTTGAQV--ECTARGSPNPEIIWIRSDGTAVGDVPGLRKYKYI 73
GP+F++EP + I +++ +V C ARG+P P W+R +GT + D +Y I
Sbjct: 1 GPVFVQEPDDAIFPTDSDEKKVILNCEARGNPVPTYRWLR-NGTEI-DTESDYRYSLI 56
>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 = 33.6 bits (77), Expect = 0.001
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 3/53 (5%)
Query: 18 GPIFIKEPPNRIDFSNTTGAQV--ECTARGSPNPEIIWIRSDGTAVGDVPGLR 68
GP+F ++P + I + +V C ARGSP P W +GT + D P R
Sbjct: 1 GPVFEEQPDDTIFPEESDEGKVSLNCRARGSPPPTYRW-LMNGTEIDDEPDSR 52
>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 = 33.0 bits (75), Expect = 0.002
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 37 AQVECTARGSPNPEIIWIRSDGTAVGDVPGLRK 69
A++EC A G P P+I W + GT D P R+
Sbjct: 1 ARLECAATGHPTPQIAWQKDGGT---DFPAARE 30
>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 = 32.5 bits (74), Expect = 0.004
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 24 EPPNRIDFSNTTGAQVECTARGSPNPEIIWI 54
+ PN A + CTA GSP P++ WI
Sbjct: 5 DGPNATVVYEGGTATIRCTAEGSPLPKVEWI 35
>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 = 31.2 bits (71), Expect = 0.009
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 38 QVECTARGSPNPEIIWIRSDG 58
+EC A G P PEI WI+ G
Sbjct: 2 LLECIAEGLPTPEISWIKIGG 22
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 30.5 bits (69), Expect = 0.012
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 37 AQVECTARGSPNPEIIWIRSDGTAVGD 63
+ C A G+P P I W++ DG + +
Sbjct: 5 VTLTCPAEGNPVPNITWLK-DGKPLPE 30
>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 = 30.5 bits (69), Expect = 0.018
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 21 FIKEPPNRIDFSNTTGAQVECTARGSPNP-EIIWIRSDGTAVGDVP 65
F EP + +NT + C A G P P EI+W + G+ +GD P
Sbjct: 1 FTVEPEDLSVTANTP-FNLTCQAVGPPEPVEILWWQ-GGSPLGDPP 44
>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 = 30.1 bits (68), Expect = 0.023
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 36 GAQVECTARGSPNPEIIWIRSDGTAVGD 63
A + C ARG P P I WI DG + +
Sbjct: 3 RATLRCKARGDPEPAIHWISPDGKLISN 30
>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 = 30.2 bits (68), Expect = 0.027
Identities = 10/29 (34%), Positives = 12/29 (41%)
Query: 25 PPNRIDFSNTTGAQVECTARGSPNPEIIW 53
P ID N T C A G P ++ W
Sbjct: 9 PSLLIDGGNGTTLAACCAAEGRPAADVTW 37
>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 = 29.4 bits (65), Expect = 0.046
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 37 AQVECTARGSPNPEIIWIRSDG 58
+ C A G P P I W+++
Sbjct: 1 VTLTCLASGPPPPTITWLKNGK 22
>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 = 29.2 bits (65), Expect = 0.074
Identities = 13/43 (30%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 18 GPIFIKEPPNRIDFSNTTGAQVE--CTARGSPNPEIIWIRSDG 58
GP+F ++P + I +T +V C AR +P P W +++
Sbjct: 1 GPVFEEQPIDTIYPEESTEGKVSVNCRARANPFPIYKWRKNNL 43
>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 = 28.7 bits (64), Expect = 0.081
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 39 VECTARGSPNPEIIWIRSDG 58
+EC A G P PE+ W R DG
Sbjct: 3 LECIAEGLPTPEVHWDRIDG 22
>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 = 28.9 bits (65), Expect = 0.084
Identities = 9/22 (40%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 38 QVECTARGSPNPEIIWIRSDGT 59
+++C A G+P P I W++ DG
Sbjct: 13 RLKCPASGNPRPTITWLK-DGK 33
>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 = 28.9 bits (65), Expect = 0.085
Identities = 10/33 (30%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 37 AQVECTA-RGSPNPEIIWIRSDGTAVGDVPGLR 68
A +EC+ RG P P + W + D +R
Sbjct: 14 AVLECSPPRGHPEPTVSWRKDGQPLNLDNERVR 46
>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 = 28.6 bits (64), Expect = 0.12
Identities = 9/34 (26%), Positives = 18/34 (52%)
Query: 38 QVECTARGSPNPEIIWIRSDGTAVGDVPGLRKYK 71
+++C A G+P P+I W++ + G + K
Sbjct: 13 RLKCVASGNPRPDITWLKDNKPLTPTEIGESRKK 46
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 28.6 bits (64), Expect = 0.12
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 37 AQVECTARGSPNPEIIWIRSDGTAV 61
+ C A GSP PE+ W + G +
Sbjct: 12 VTLSCEASGSPPPEVTWYKQGGKLL 36
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 28.6 bits (64), Expect = 0.12
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 37 AQVECTARGSPNPEIIWIRSDGTAV 61
+ C A GSP PE+ W + G +
Sbjct: 12 VTLSCEASGSPPPEVTWYKQGGKLL 36
>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 = 28.7 bits (64), Expect = 0.12
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 41 CTARGSPNPEIIWIRSD 57
CT G+P+PE+IW ++D
Sbjct: 23 CTVFGNPDPEVIWFKND 39
>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 = 28.4 bits (63), Expect = 0.14
Identities = 17/44 (38%), Positives = 20/44 (45%), Gaps = 6/44 (13%)
Query: 26 PNRIDFSNTTG-----AQVECTARGSPNPEIIWIR-SDGTAVGD 63
P+ I N T A + C A G P PEI W R SDG +
Sbjct: 3 PHIIQLKNETTVENGAATLSCKAEGEPIPEITWKRASDGHTFSE 46
>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 = 0.17
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 41 CTARGSPNPEIIWIRSD 57
CT G P+PE+ W+++D
Sbjct: 23 CTVFGDPDPEVSWLKND 39
>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 = 28.2 bits (63), Expect = 0.18
Identities = 13/31 (41%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 30 DFSNTTGAQV--ECTARGSPNPEIIWIRSDG 58
D G V EC A G+P P+I W + DG
Sbjct: 10 DTYALKGQNVTLECFALGNPVPQIKWRKVDG 40
>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 = 27.4 bits (61), Expect = 0.27
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 37 AQVECTARGSPNPEIIWIRSDG 58
+ +C G P P ++W + DG
Sbjct: 1 VEFQCEVGGDPVPTVLWRKEDG 22
>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 = 27.3 bits (60), Expect = 0.32
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 4/36 (11%)
Query: 37 AQVECTARGSPNPEIIWIRS----DGTAVGDVPGLR 68
A + C A G+P+PEI W + D T+ G + LR
Sbjct: 1 ATMLCAASGNPDPEITWFKDFLPVDTTSNGRIKQLR 36
>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 = 27.2 bits (60), Expect = 0.40
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 37 AQVECTARGSPNPEIIWIRSD 57
A + C A G P P + W+++
Sbjct: 1 ASLRCHAEGIPLPRLTWLKNG 21
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 26.4 bits (59), Expect = 0.65
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 40 ECTARGSPNPEIIWIRSD 57
CT G P+P + W +
Sbjct: 21 TCTVTGDPDPTVSWFKDG 38
>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 = 26.4 bits (58), Expect = 0.73
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 40 ECTARGSPNPEIIWIR 55
EC A G+P P W++
Sbjct: 20 ECKASGNPRPAYRWLK 35
>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 = 26.3 bits (58), Expect = 0.79
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 41 CTARGSPNPEIIWIRS 56
C A G P PEI W R+
Sbjct: 23 CEAEGDPIPEITWRRA 38
>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 = 26.0 bits (57), Expect = 0.95
Identities = 11/24 (45%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 38 QVECTARGSPNPEIIWIRSDGTAV 61
Q+ C+A+G P P I W + DG V
Sbjct: 2 QIPCSAQGDPEPTITWNK-DGVQV 24
>gnl|CDD|237227 PRK12846, PRK12846, peptide deformylase; Reviewed.
Length = 165
Score = 26.3 bits (59), Expect = 1.0
Identities = 12/26 (46%), Positives = 12/26 (46%), Gaps = 6/26 (23%)
Query: 48 NPEIIWIRSDGTAVGD-----VPGLR 68
NPEI S VG VPGLR
Sbjct: 76 NPEITE-LSPEEEVGWEGCLSVPGLR 100
>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 = 26.0 bits (57), Expect = 1.1
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 41 CTARGSPNPEIIWIRSDGTAV 61
C+A G P P I+W S G
Sbjct: 5 CSAEGYPPPTIVWKHSKGRGH 25
>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 = 26.0 bits (57), Expect = 1.1
Identities = 9/37 (24%), Positives = 13/37 (35%), Gaps = 1/37 (2%)
Query: 24 EPPNRIDFSNTTGAQVECTARG-SPNPEIIWIRSDGT 59
E P + C A+ SP ++W R G
Sbjct: 6 EEPRSQEVRPGADVSFICRAKSKSPAYTLVWTRVGGG 42
>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 = 25.6 bits (56), Expect = 1.2
Identities = 4/19 (21%), Positives = 8/19 (42%)
Query: 41 CTARGSPNPEIIWIRSDGT 59
C+ G P ++ W +
Sbjct: 8 CSVSGPPQVDVTWFKEGKG 26
>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 = 25.8 bits (56), Expect = 1.5
Identities = 11/38 (28%), Positives = 15/38 (39%)
Query: 19 PIFIKEPPNRIDFSNTTGAQVECTARGSPNPEIIWIRS 56
P I P + S A+ C G P P + W+R
Sbjct: 3 PATILTKPRSLTVSEGESARFSCDVDGEPAPTVTWMRE 40
>gnl|CDD|235310 PRK04750, ubiB, putative ubiquinone biosynthesis protein UbiB;
Reviewed.
Length = 537
Score = 26.0 bits (58), Expect = 1.6
Identities = 10/17 (58%), Positives = 13/17 (76%), Gaps = 2/17 (11%)
Query: 7 RLTMAAEDDTLGPIFIK 23
RL +A E+ LGPIF+K
Sbjct: 54 RLRLALEE--LGPIFVK 68
>gnl|CDD|218098 pfam04464, Glyphos_transf, CDP-Glycerol:Poly(glycerophosphate)
glycerophosphotransferase. Wall-associated teichoic
acids are a heterogeneous class of phosphate-rich
polymers that are covalently linked to the cell wall
peptidoglycan of gram-positive bacteria. They consist
of a main chain of phosphodiester-linked polyols and/or
sugar moieties attached to peptidoglycan via a linkage
unit. CDP-glycerol:poly(glycerophosphate)
glycerophosphotransferase is responsible for the
polymerisation of the main chain of the teichoic acid
by sequential transfer of glycerol-phosphate units from
CDP-glycerol to the linkage unit lipid.
Length = 357
Score = 26.1 bits (58), Expect = 1.8
Identities = 10/55 (18%), Positives = 19/55 (34%), Gaps = 8/55 (14%)
Query: 26 PNRIDFSNTTGAQVECTARG--------SPNPEIIWIRSDGTAVGDVPGLRKYKY 72
PN I F + +G + PN ++W+ ++ G+ K
Sbjct: 2 PNLIVFESFSGRGYSDNPKALYEYLRELYPNYRLVWVVKKDSSKLLPEGVNVVKR 56
>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 = 25.4 bits (55), Expect = 1.8
Identities = 7/20 (35%), Positives = 13/20 (65%)
Query: 38 QVECTARGSPNPEIIWIRSD 57
++EC G P+P+I W + +
Sbjct: 2 RLECRVSGVPHPQIFWKKEN 21
>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 = 25.2 bits (55), Expect = 2.0
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 37 AQVECTARGSPNPEIIW 53
A+++C G P P I W
Sbjct: 4 ARLDCQVEGIPTPNITW 20
>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 = 25.1 bits (55), Expect = 2.1
Identities = 6/23 (26%), Positives = 10/23 (43%)
Query: 39 VECTARGSPNPEIIWIRSDGTAV 61
+EC + +P P I W +
Sbjct: 6 IECKPKAAPKPTISWSKGTELLT 28
>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 = 25.1 bits (55), Expect = 2.2
Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 37 AQVECTARGSPNPEIIWIRSDGTAVGDVPGLRKYK 71
+++C A G P P I W R +G + ++P + +
Sbjct: 4 GRLDCEAEGIPQPTITW-RLNGVPIEELPPDPRRR 37
>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 = 24.9 bits (54), Expect = 2.4
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 39 VECTARGSPNPEIIWIRS 56
+EC A+G+P P W R+
Sbjct: 3 IECEAKGNPVPTFQWTRN 20
>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 = 25.0 bits (55), Expect = 2.5
Identities = 9/21 (42%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 39 VECTARGSPNPEIIWIRSDGT 59
++C A+G+P P W R +GT
Sbjct: 3 IKCEAKGNPPPTFSWTR-NGT 22
>gnl|CDD|215605 PLN03153, PLN03153, hypothetical protein; Provisional.
Length = 537
Score = 25.6 bits (56), Expect = 2.7
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 14 DDTLGPIFIKEPPNRIDFSNTTG 36
DD+L PI + E +R ++N TG
Sbjct: 167 DDSLPPIMVSEDTSRFRYTNPTG 189
>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 = 24.9 bits (54), Expect = 2.7
Identities = 8/22 (36%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 40 ECTARGSPNPEIIWIRSDGTAV 61
EC G P P + W++ +G V
Sbjct: 5 ECEVTGKPTPTVKWVK-NGDMV 25
>gnl|CDD|237683 PRK14344, PRK14344, lipoate-protein ligase B; Provisional.
Length = 223
Score = 25.4 bits (56), Expect = 2.8
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 3/40 (7%)
Query: 18 GPIFIKEPPNRIDFSNTTGAQVECTAR---GSPNPEIIWI 54
+ EP N + F + Q E NP+ +W+
Sbjct: 16 RSAILFEPDNIVPFEDAWKWQKEWQQALIEDPSNPQAVWL 55
>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 = 24.8 bits (54), Expect = 3.4
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 22 IKEPPNRIDFSNTTGAQVECTARGSPNPEIIWIR 55
I E P+ + S A + C A G P P I W++
Sbjct: 4 IVEHPSDLIVSKGDPATLNCKAEGRPTPTIQWLK 37
>gnl|CDD|219745 pfam08205, C2-set_2, CD80-like C2-set immunoglobulin domain.
These domains belong to the immunoglobulin superfamily.
Length = 89
Score = 24.7 bits (54), Expect = 3.7
Identities = 6/25 (24%), Positives = 8/25 (32%), Gaps = 1/25 (4%)
Query: 39 VECTARGS-PNPEIIWIRSDGTAVG 62
C++ G P P I W
Sbjct: 19 ATCSSAGGKPAPRITWYLDGRELEA 43
>gnl|CDD|143236 cd05759, Ig2_KIRREL3-like, Second immunoglobulin (Ig)-like domain
of Kirrel (kin of irregular chiasm-like) 3 (also known
as Neph2). Ig2_KIRREL3-like: domain similar to the
second immunoglobulin (Ig)-like domain of Kirrel (kin
of irregular chiasm-like) 3 (also known as Neph2). This
protein has five Ig-like domains, one transmembrane
domain, and a cytoplasmic tail. Included in this group
is mammalian Kirrel (Neph1), Kirrel2 (Neph3), and
Drosophila RST (irregular chiasm C-roughest) protein.
These proteins contain multiple Ig domains, have
properties of cell adhesion molecules, and are
important in organ development.
Length = 82
Score = 24.3 bits (53), Expect = 4.0
Identities = 12/20 (60%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 41 CTARGS-PNPEIIWIRSDGT 59
C ARG+ P EIIW R DG
Sbjct: 6 CRARGAKPAAEIIWFR-DGE 24
>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 = 24.1 bits (52), Expect = 5.4
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 18 GPIFIKEPPNRIDFSNTTGAQV--ECTARGSPNPEIIWIRSDGTAVGDVPGLR 68
GP+F ++P + + + +V C AR SP W + +GT + P R
Sbjct: 1 GPVFEEQPSSLLFPEGSPEEKVTLGCRARASPPATYRW-KMNGTEIKFAPESR 52
>gnl|CDD|143235 cd05758, Ig5_KIRREL3-like, Fifth immunoglobulin (Ig)-like domain
of Kirrel (kin of irregular chiasm-like) 3 (also known
as Neph2) and similar proteins. Ig5_KIRREL3-like:
domain similar to the fifth immunoglobulin (Ig)-like
domain of Kirrel (kin of irregular chiasm-like) 3 (also
known as Neph2). This protein has five Ig-like domains,
one transmembrane domain, and a cytoplasmic tail.
Included in this group is mammalian Kirrel (Neph1),
Kirrel2 (Neph3), and Drosophila RST (irregular chiasm
C-roughest) protein. These proteins contain multiple Ig
domains, have properties of cell adhesion molecules,
and are important in organ development.
Length = 98
Score = 23.9 bits (52), Expect = 8.2
Identities = 7/19 (36%), Positives = 11/19 (57%), Gaps = 1/19 (5%)
Query: 36 GAQVECTARGSPNPE-IIW 53
+VEC +P P+ I+W
Sbjct: 18 KGRVECFIFSTPPPDRIVW 36
>gnl|CDD|233667 TIGR01982, UbiB, 2-polyprenylphenol 6-hydroxylase. This model
represents the enzyme (UbiB) which catalyzes the first
hydroxylation step in the ubiquinone biosynthetic
pathway in bacteria. It is believed that the reaction
is 2-polyprenylphenol -> 6-hydroxy-2-polyprenylphenol.
This model finds hits primarily in the proteobacteria.
The gene is also known as AarF in certain species
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Menaquinone and ubiquinone].
Length = 437
Score = 24.2 bits (53), Expect = 8.5
Identities = 10/17 (58%), Positives = 12/17 (70%), Gaps = 2/17 (11%)
Query: 7 RLTMAAEDDTLGPIFIK 23
RL +A E+ LGP FIK
Sbjct: 52 RLRLALEE--LGPTFIK 66
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
0.320 0.140 0.426
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: 3,862,393
Number of extensions: 287822
Number of successful extensions: 254
Number of sequences better than 10.0: 1
Number of HSP's gapped: 251
Number of HSP's successfully gapped: 51
Length of query: 74
Length of database: 10,937,602
Length adjustment: 44
Effective length of query: 30
Effective length of database: 8,986,026
Effective search space: 269580780
Effective search space used: 269580780
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.4 bits)