RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16902
(90 letters)
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 58.8 bits (143), Expect = 3e-13
Identities = 27/73 (36%), Positives = 43/73 (58%), Gaps = 2/73 (2%)
Query: 10 FEARIEPVGDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTN 69
F + GDP V WF +G+PL +S R T++ G +L + ++ D G+YT TN
Sbjct: 20 FTCTVT--GDPDPTVSWFKDGQPLRSSDRFKVTYEGGTYTLTISNVQPDDEGKYTCVATN 77
Query: 70 NSGSAESTALLSV 82
++G AE++A L+V
Sbjct: 78 SAGEAEASAELTV 90
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 45.2 bits (107), Expect = 6e-08
Identities = 23/66 (34%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 18 GDPSMRVDWFING-RPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAES 76
G P V W+ G + L S R + + +L + ++ DSG YT TN+SGSA S
Sbjct: 20 GSPPPEVTWYKQGGKLLAESGRFSVSRSGSTSTLTISNVTPEDSGTYTCAATNSSGSASS 79
Query: 77 TALLSV 82
L+V
Sbjct: 80 GTTLTV 85
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 45.2 bits (107), Expect = 6e-08
Identities = 23/66 (34%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 18 GDPSMRVDWFING-RPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAES 76
G P V W+ G + L S R + + +L + ++ DSG YT TN+SGSA S
Sbjct: 20 GSPPPEVTWYKQGGKLLAESGRFSVSRSGSTSTLTISNVTPEDSGTYTCAATNSSGSASS 79
Query: 77 TALLSV 82
L+V
Sbjct: 80 GTTLTV 85
>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 = 44.0 bits (103), Expect = 2e-07
Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 4/65 (6%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTFKFGFI----SLDLLSIVLHDSGEYTVRVTNNSGS 73
G P + W NG+PLP+S G +L + ++ L DSG YT +N++G+
Sbjct: 9 GPPPPTITWLKNGKPLPSSVLTRVRSSRGTSSGSSTLTISNVTLEDSGTYTCVASNSAGT 68
Query: 74 AESTA 78
++
Sbjct: 69 VSASV 73
>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 = 40.1 bits (94), Expect = 5e-06
Identities = 22/68 (32%), Positives = 29/68 (42%), Gaps = 3/68 (4%)
Query: 15 EPVGDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSA 74
+P P + W L SSR SL++L++ D G+YT N G A
Sbjct: 9 KPKAAPKPTISWSKGTELLTNSSRICIWPDG---SLEILNVTKSDEGKYTCFAENFFGKA 65
Query: 75 ESTALLSV 82
ST LSV
Sbjct: 66 NSTGSLSV 73
>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 = 40.2 bits (94), Expect = 8e-06
Identities = 20/66 (30%), Positives = 28/66 (42%), Gaps = 1/66 (1%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTFKFG-FISLDLLSIVLHDSGEYTVRVTNNSGSAES 76
GDP V W N + L S + G + SL + + DSG+Y + V N G
Sbjct: 27 GDPDPEVSWLKNDQALALSDHYNVKVEQGKYASLTIKGVSSEDSGKYGIVVKNKYGGETV 86
Query: 77 TALLSV 82
+SV
Sbjct: 87 DVTVSV 92
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 37.8 bits (88), Expect = 4e-05
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 4/55 (7%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSG 72
G+P + W +G+PLP S+R + L + S+ L DSG YT N++G
Sbjct: 13 GNPVPNITWLKDGKPLPESNRFVASGST----LTIKSVSLEDSGLYTCVAENSAG 63
>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 = 36.8 bits (85), Expect = 1e-04
Identities = 21/66 (31%), Positives = 28/66 (42%), Gaps = 1/66 (1%)
Query: 18 GDPSMRVDWFINGRPLPASSR-ATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAES 76
G+P+ + W NG+ R + SL + S+V D G YT V N GS
Sbjct: 20 GNPTPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINH 79
Query: 77 TALLSV 82
T L V
Sbjct: 80 TYHLDV 85
>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 = 36.0 bits (83), Expect = 3e-04
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTFKFG-FISLDLLSIVLHDSGEYTVRVTNNSGSAES 76
G+P V WF N + + S + + G + SL + + DSG+Y++ V N G
Sbjct: 27 GNPDPEVIWFKNDQDIELSEHYSVKLEQGKYASLTIKGVTSEDSGKYSINVKNKYGGETV 86
Query: 77 TALLSV 82
+SV
Sbjct: 87 DVTVSV 92
>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 = 35.4 bits (82), Expect = 4e-04
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 18 GDPSMRVDWFINGRPLPASSR-ATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAES 76
G+P + W +G+P R + +L L S+V DSG+YT V N GS
Sbjct: 20 GNPRPTITWLKDGKPFKKEHRIGGYKVRKKKWTLILESVVPSDSGKYTCIVENKYGSINH 79
Query: 77 TALLSV 82
T + V
Sbjct: 80 TYKVDV 85
>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 = 35.2 bits (81), Expect = 4e-04
Identities = 22/71 (30%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 13 RIEPVGDPSMRVDW-FINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNS 71
R + GDP + W +G+ + SSR T + G +LD+L + D+G +T +N +
Sbjct: 7 RCKARGDPEPAIHWISPDGKLISNSSR-TLVYDNG--TLDILITTVKDTGSFTCIASNAA 63
Query: 72 GSAESTALLSV 82
G A +T L +
Sbjct: 64 GEATATVELHI 74
>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 = 35.2 bits (82), Expect = 4e-04
Identities = 20/65 (30%), Positives = 31/65 (47%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAEST 77
G P+ V W +G+PL S R SL + + DSG+YT+ + N +G +T
Sbjct: 10 GRPTPTVTWSKDGKPLKLSGRVQIETTASSTSLVIKNAERSDSGKYTLTLKNPAGEKSAT 69
Query: 78 ALLSV 82
+ V
Sbjct: 70 INVKV 74
>gnl|CDD|143303 cd05895, Ig_Pro_neuregulin-1, Immunoglobulin (Ig)-like domain
found in neuregulin (NRG)-1. Ig_Pro_neuregulin-1:
immunoglobulin (Ig)-like domain found in neuregulin
(NRG)-1. There are many NRG-1 isoforms which arise from
the alternative splicing of mRNA. NRG-1 belongs to the
neuregulin gene family, which is comprised of four
genes. This group represents NRG-1. NRGs are signaling
molecules, which participate in cell-cell interactions
in the nervous system, breast, and heart, and other
organ systems, and are implicated in the pathology of
diseases including schizophrenia, multiple sclerosis,
and breast cancer. The NRG-1 protein binds to and
activates the tyrosine kinases receptors ErbB3 and
ErbB4, initiating signaling cascades. 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.
Length = 76
Score = 35.0 bits (80), Expect = 6e-04
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 4/63 (6%)
Query: 20 PSMRVDWFINGRPLPASSRATTTFKF----GFISLDLLSIVLHDSGEYTVRVTNNSGSAE 75
PS+R WF NG+ + A ++ K L + L D+GEY V++ G+
Sbjct: 12 PSLRFKWFKNGKEIGAKNKPDNKIKIRKKKKSSELQISKASLADNGEYKCMVSSKLGNDS 71
Query: 76 STA 78
TA
Sbjct: 72 VTA 74
>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 = 33.1 bits (75), Expect = 0.003
Identities = 17/34 (50%), Positives = 21/34 (61%)
Query: 49 SLDLLSIVLHDSGEYTVRVTNNSGSAESTALLSV 82
SL++L+I D G YT NN G A ST +LSV
Sbjct: 40 SLEILNITKLDEGSYTCFAENNRGKANSTGVLSV 73
>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 = 33.3 bits (76), Expect = 0.003
Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTF---KFGFISLDLLSIVLHDSGEYTVRVTNNSGSA 74
PS+R WF +G+ L ++ K L + L DSGEYT V N G+
Sbjct: 10 EYPSLRFKWFKDGKELNRKNKPRNIKIRNKKKNSELQINKAKLADSGEYTCVVENILGND 69
Query: 75 ESTA 78
TA
Sbjct: 70 TVTA 73
>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 = 33.1 bits (75), Expect = 0.004
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 6/62 (9%)
Query: 18 GDPSMRVDWFINGRPLPASSR---ATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSA 74
G+P+ V W G+ + +S R +T +K F ++ + + D G YTV V N+ G
Sbjct: 29 GEPAPTVTWMREGQIIVSSQRHQITSTEYKSTF---EISKVQMSDEGNYTVVVENSEGKQ 85
Query: 75 ES 76
E+
Sbjct: 86 EA 87
>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 = 32.2 bits (73), Expect = 0.009
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAEST 77
G+P W NG+PL + +R L + + L DSG Y N G+ ++
Sbjct: 25 GNPRPAYRWLKNGQPLASENRIEVEAG----DLRITKLSLSDSGMYQCVAENKHGTIYAS 80
Query: 78 ALLSV 82
A L+V
Sbjct: 81 AELAV 85
>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 = 31.4 bits (71), Expect = 0.011
Identities = 19/68 (27%), Positives = 27/68 (39%), Gaps = 3/68 (4%)
Query: 15 EPVGDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSA 74
E G P + W G L R +L + + LHD G+Y + N GS
Sbjct: 10 EAQGYPQPVIAWTKGGSQLSVDRRHLV---LSSGTLRISRVALHDQGQYECQAVNIVGSQ 66
Query: 75 ESTALLSV 82
+ A L+V
Sbjct: 67 RTVAQLTV 74
>gnl|CDD|143172 cd04971, Ig_TrKABC_d5, Fifth domain (immunoglobulin-like) of Trk
receptors TrkA, TrkB and TrkC. TrkABC_d5: the fifth
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 = 81
Score = 31.6 bits (72), Expect = 0.012
Identities = 17/69 (24%), Positives = 27/69 (39%), Gaps = 11/69 (15%)
Query: 18 GDPSMRVDWFINGRPLPAS---------SRATTTFKFGFISLDLLSIVLHDSGEYTVRVT 68
G+P + W+ NG L S T T G + D + V ++G YT+ +
Sbjct: 9 GNPKPTLTWYHNGAVLNESDYIRTEIHYEVTTPTEYHGCLQFDNPTHV--NNGNYTLVAS 66
Query: 69 NNSGSAEST 77
N G +
Sbjct: 67 NEYGQDSKS 75
>gnl|CDD|143177 cd04976, Ig2_VEGFR, Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor (VEGFR).
Ig2_VEGFR: Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor (VEGFR).
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). VEGFRs bind VEGFs with high affinity
at 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 = 71
Score = 31.2 bits (71), Expect = 0.012
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 20 PSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTN 69
P + W+ NG+ + +R T K G SL + + D+G YTV +TN
Sbjct: 11 PPPEIQWYKNGKLISEKNR---TKKSGH-SLTIKDVTEEDAGNYTVVLTN 56
>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 = 31.3 bits (71), Expect = 0.013
Identities = 17/63 (26%), Positives = 29/63 (46%)
Query: 10 FEARIEPVGDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTN 69
E G P+ ++W +N +P S+R + T + G+ +L + + D G YT N
Sbjct: 4 VEFTCVATGVPTPIINWRLNWGHVPDSARVSITSEGGYGTLTIRDVKESDQGAYTCEAIN 63
Query: 70 NSG 72
G
Sbjct: 64 TRG 66
>gnl|CDD|143272 cd05864, Ig2_VEGFR-2, Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor 2
(VEGFR-2). Ig2_VEGF-2: Second immunoglobulin (Ig)-like
domain of vascular endothelial growth factor receptor 2
(VEGFR-2). 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. VEGFRs bind VEGFs with high
affinity at the Ig-like domains. VEGFR-2 (KDR/Flk-1) is
a major mediator of the mitogenic, angiogenic and
microvascular permeability-enhancing effects of VEGF-A;
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. VEGF-A also interacts with
VEGFR-1, which it binds more strongly than VEGFR-2.
VEGFR-2 and -1 may mediate a chemotactic and a survival
signal in hematopoietic stem cells or leukemia cells.
Length = 70
Score = 31.1 bits (70), Expect = 0.016
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 5/52 (9%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTN 69
G P V W+ NG+ + TFK G L + + D+G YTV +TN
Sbjct: 9 GYPPPEVKWYKNGQLI----VLNHTFKRGVH-LTIYEVTEKDAGNYTVVLTN 55
>gnl|CDD|227289 COG4953, PbpC, Membrane carboxypeptidase/penicillin-binding protein
PbpC [Cell envelope biogenesis, outer membrane].
Length = 733
Score = 32.0 bits (73), Expect = 0.021
Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 11/54 (20%)
Query: 23 RVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAES 76
+ WF+NG PL +SR D+G Y + V + SG + S
Sbjct: 684 PIYWFLNGEPLGEASRNRPVTWK-----------PEDAGYYKLTVIDASGRSAS 726
>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 = 30.0 bits (67), Expect = 0.046
Identities = 20/77 (25%), Positives = 32/77 (41%), Gaps = 4/77 (5%)
Query: 8 IHFEARIEPVGDPSMRVDWFINGRPLPASSRATTTFK--FGFISLDLLSIVLHDSGEYTV 65
+ E R+ G P ++ W L ++ + + G+I L + D+G YTV
Sbjct: 1 VRLECRV--SGVPHPQIFWKKENESLTHNTDRVSMHQDNCGYICLLIQGATKEDAGWYTV 58
Query: 66 RVTNNSGSAESTALLSV 82
N +G TA L V
Sbjct: 59 SAKNEAGIVSCTARLDV 75
>gnl|CDD|192763 pfam11465, Receptor_2B4, Natural killer cell receptor 2B4. 2B4
is a transmembrane receptor which is expressed
primarily on natural killer cells. It plays a role in
activating NK-mediated cytotoxicity through its
interaction with CD48 on target cells in a subset of
CD8 T cells. The structure of 2B4 consists of an
immunoglobulin variable domain fold and contains two
beta-sheets. One of the beta-sheets, the six-stranded
sheet, contains structural features that may have a
role in ligand recognition and receptor function.
Length = 108
Score = 29.5 bits (66), Expect = 0.11
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 7/53 (13%)
Query: 24 VDWFINGRPLPASSRATTTFKFGFISLDL-LSI---VLHDSGEYTVRVTNNSG 72
++W +G P+ S +++ +GF + LSI L DSG Y + +TN G
Sbjct: 46 LNWENDG---PSWSNVSSSDIYGFDYENFALSIKSAQLQDSGHYLLEITNTGG 95
>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 = 0.11
Identities = 22/68 (32%), Positives = 27/68 (39%), Gaps = 3/68 (4%)
Query: 16 PVGDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAE 75
P G P V W +G+PL + G +L + D G Y TN G E
Sbjct: 21 PRGHPEPTVSWRKDGQPLNLDNERVRIVDDG--NLLIAEARKSDEGTYKCVATNMVGERE 78
Query: 76 S-TALLSV 82
S A LSV
Sbjct: 79 SAAARLSV 86
>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 = 29.0 bits (65), Expect = 0.11
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 4/61 (6%)
Query: 18 GDPSMRVDWFINGRPL-PASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAES 76
G+P + W + +PL P + K+ +L L ++ DSG+YT V+N +G +
Sbjct: 20 GNPRPDITWLKDNKPLTPTEIGESRKKKW---TLSLKNLKPEDSGKYTCHVSNRAGEINA 76
Query: 77 T 77
T
Sbjct: 77 T 77
>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 = 28.8 bits (65), Expect = 0.16
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 32 PLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAEST 77
PA S T + G SL + ++ DSG YT+++ + +G E+
Sbjct: 43 FGPAYSGRETIYPNG--SLLIQNLTKEDSGTYTLQIISTNGVTENA 86
>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 = 27.8 bits (62), Expect = 0.23
Identities = 21/73 (28%), Positives = 29/73 (39%), Gaps = 6/73 (8%)
Query: 10 FEARIEPVGDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTN 69
F+ + GDP V W LP K SL + ++ D G YT N
Sbjct: 3 FQCEVG--GDPVPTVLWRKEDGELPKGRAEILDDK----SLKIRNVTAGDEGSYTCEAEN 56
Query: 70 NSGSAESTALLSV 82
G E++A L+V
Sbjct: 57 MVGKIEASASLTV 69
>gnl|CDD|239031 cd02113, bact_SoxC_Moco, bacterial SoxC is a member of the sulfite
oxidase (SO) family of molybdopterin binding domains.
SoxC is involved in oxidation of sulfur compounds during
chemolithothrophic growth. Together with SoxD, a small
c-type heme containing subunit, it forms a
hetrotetrameric sulfite dehydrogenase. This
molybdopterin cofactor (Moco) binding domain is found in
a variety of oxidoreductases, main members of this
family are nitrate reductase (NR) and sulfite oxidase
(SO). Common features of all known members of this
family are that they contain one single pterin cofactor
and part of the coordination of the metal (Mo) is a
cysteine ligand of the protein and that they catalyze
the transfer of an oxygen to or from a lone pair of
electrons on the substrate.
Length = 326
Score = 28.9 bits (65), Expect = 0.26
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 11 EARIE-PVGDPSM---RVDWFINGRPLPASSRAT 40
+AR+E PV ++ R+ W +GRP SRAT
Sbjct: 255 DARLEGPVLPKALTRFRLPWKWDGRPAVLQSRAT 288
>gnl|CDD|219195 pfam06832, BiPBP_C, Penicillin-Binding Protein C-terminus Family.
This conserved region of approximately 90 residues is
found in a sub-group of bacterial Penicillin-Binding
Proteins (PBPs). A variable length loop region
separates this region from the transpeptidase unit
(pfam00905). It is predicted by PROF to be an all beta
fold.
Length = 90
Score = 27.7 bits (62), Expect = 0.36
Identities = 10/54 (18%), Positives = 20/54 (37%), Gaps = 11/54 (20%)
Query: 23 RVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAES 76
+ WF++G+PL + R L G + + V + +G +
Sbjct: 45 PLYWFLDGKPLGETKRGRE-----------LFWQPPGPGFHRLTVVDAAGRSAR 87
>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 = 27.2 bits (61), Expect = 0.59
Identities = 7/29 (24%), Positives = 14/29 (48%)
Query: 49 SLDLLSIVLHDSGEYTVRVTNNSGSAEST 77
SL + ++ D+G YT++ + E
Sbjct: 71 SLLIQNVTQKDTGFYTLQTITTNFQVEQA 99
>gnl|CDD|219744 pfam08204, V-set_CD47, CD47 immunoglobulin-like domain. This
family represents the CD47 leukocyte antigen V-set like
Ig domain.
Length = 93
Score = 27.0 bits (60), Expect = 0.63
Identities = 16/68 (23%), Positives = 24/68 (35%), Gaps = 14/68 (20%)
Query: 18 GDPSMRVDWFINGRPL----PASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGS 73
+ V W N + + ++ +T F F S L SG YT VT
Sbjct: 31 NISEVHVKWKFNNKDIFIFNGTNNISTLKFDF---SDAL-------SGNYTCEVTELFNE 80
Query: 74 AESTALLS 81
++T L
Sbjct: 81 GKTTIELK 88
>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 = 26.4 bits (58), Expect = 0.84
Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 3/68 (4%)
Query: 16 PVGDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAE 75
G P+ V W PL + T +L L +++ D GEY N+ GSA
Sbjct: 7 AEGLPTPEVHWDRIDGPLSPNR---TKKLNNNKTLQLDNVLESDDGEYVCTAENSEGSAR 63
Query: 76 STALLSVQ 83
++V+
Sbjct: 64 HHYTVTVE 71
>gnl|CDD|218898 pfam06101, DUF946, Plant protein of unknown function (DUF946).
This family consists of several hypothetical proteins
from Arabidopsis thaliana and Oryza sativa. The function
of this family is unknown.
Length = 537
Score = 27.7 bits (62), Expect = 0.86
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 42 TFKFGFISLDLLSIVLH--DSGEYTVRVTNNSG 72
T K GFIS+ L I H D +T+R++N SG
Sbjct: 348 TLKVGFISIPLGKIGEHVGDWEHFTLRISNFSG 380
>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 = 26.8 bits (59), Expect = 1.0
Identities = 24/78 (30%), Positives = 36/78 (46%), Gaps = 11/78 (14%)
Query: 2 DPQKRKIHFEARIEPVGDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLL---SIVLH 58
D +K ++ EAR PV P+ R W NG + S +++ I +L+ +
Sbjct: 18 DEKKVILNCEARGNPV--PTYR--WLRNGTEIDTES----DYRYSLIDGNLIISNPSEVK 69
Query: 59 DSGEYTVRVTNNSGSAES 76
DSG Y TN+ GS S
Sbjct: 70 DSGRYQCLATNSIGSILS 87
>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 = 26.3 bits (58), Expect = 1.1
Identities = 13/37 (35%), Positives = 17/37 (45%)
Query: 46 GFISLDLLSIVLHDSGEYTVRVTNNSGSAESTALLSV 82
G I L + + D+G YTV N +G A L V
Sbjct: 39 GRICLLIQNANKEDAGWYTVSAVNEAGVVSCNARLDV 75
>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 = 26.4 bits (58), Expect = 1.1
Identities = 18/60 (30%), Positives = 23/60 (38%), Gaps = 1/60 (1%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAEST 77
G P WF +G PL + + +L L S DSG Y N GS S+
Sbjct: 9 GHPRPTYQWFRDGTPLS-DGQGNYSVSSKERTLTLRSAGPDDSGLYYCCAHNAFGSVCSS 67
>gnl|CDD|143267 cd05859, Ig4_PDGFR-alpha, Fourth immunoglobulin (Ig)-like domain of
platelet-derived growth factor receptor (PDGFR) alpha.
IG4_PDGFR-alpha: The fourth immunoglobulin (Ig)-like
domain of platelet-derived growth factor receptor
(PDGFR) alpha. PDGF is a potent mitogen for connective
tissue cells. PDGF-stimulated processes are mediated by
three different PDGFs (PDGF-A,-B, and C). PDGFR alpha
binds to all three PDGFs, whereas the PDGFR beta (not
included in this group) binds only to PDGF-B. PDGF alpha
is organized as an extracellular component having five
Ig-like domains, a transmembrane segment, and a
cytoplasmic portion having protein tyrosine kinase
activity. In mice, PDGFR alpha and PDGFR beta are
essential for normal development.
Length = 101
Score = 26.4 bits (58), Expect = 1.4
Identities = 16/71 (22%), Positives = 23/71 (32%), Gaps = 8/71 (11%)
Query: 20 PSMRVDWFINGRPLPA-------SSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSG 72
P ++ W + R L S ++ L L+ DSG YT N
Sbjct: 31 PPPQIRWLKDNRTLIENLTEITTSEHNVQETRYVSK-LKLIRAKEEDSGLYTALAQNEDA 89
Query: 73 SAESTALLSVQ 83
T L +Q
Sbjct: 90 VKSYTFALQIQ 100
>gnl|CDD|238076 cd00131, PAX, Paired Box domain.
Length = 128
Score = 26.6 bits (59), Expect = 1.5
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 27 FINGRPLPASSR 38
F+NGRPLP S R
Sbjct: 12 FVNGRPLPDSIR 23
>gnl|CDD|206066 pfam13895, Ig_2, Immunoglobulin domain. This domain contains
immunoglobulin-like domains.
Length = 80
Score = 25.9 bits (57), Expect = 1.5
Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 10/56 (17%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGS 73
G+P W+ +G PL +S T ++ DSG YT +N G
Sbjct: 25 GNPPPNYTWYKDGVPLSSSQNGFFT----------PNVSAEDSGTYTCVASNGGGG 70
>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 = 25.8 bits (57), Expect = 1.7
Identities = 18/70 (25%), Positives = 29/70 (41%), Gaps = 10/70 (14%)
Query: 13 RIEPVGDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSG 72
+ P G P + V L + TT + L ++ D+GEYT N+ G
Sbjct: 30 KYGPDGLPYVTV--------LKVAG-INTTDNESEVLY-LRNVSFDDAGEYTCLAGNSIG 79
Query: 73 SAESTALLSV 82
+ +A L+V
Sbjct: 80 PSHHSAWLTV 89
>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 = 25.9 bits (57), Expect = 1.7
Identities = 15/65 (23%), Positives = 24/65 (36%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAEST 77
G P +V+W I G + + T +L L +I T N G A +
Sbjct: 26 GSPLPKVEWIIAGLIVIQTRTDTLETTVDIYNLQLSNITSETQTTVTCTAENPVGQANVS 85
Query: 78 ALLSV 82
++V
Sbjct: 86 VQVTV 90
>gnl|CDD|214510 smart00089, PKD, Repeats in polycystic kidney disease 1 (PKD1)
and other proteins. Polycystic kidney disease 1
protein contains 14 repeats, present elsewhere such as
in microbial collagenases.
Length = 79
Score = 25.9 bits (57), Expect = 1.8
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 60 SGEYTVRVT--NNSGSAESTALLSVQ 83
G YTV +T N GSA +T + VQ
Sbjct: 54 PGTYTVTLTVTNAVGSASATVTVVVQ 79
>gnl|CDD|226185 COG3659, OprB, Carbohydrate-selective porin [Cell envelope
biogenesis, outer membrane].
Length = 439
Score = 26.3 bits (58), Expect = 2.5
Identities = 17/65 (26%), Positives = 25/65 (38%), Gaps = 3/65 (4%)
Query: 28 INGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGS--AESTALLSVQGR 85
++G + R T F G LDL + E+ V + +G A S+QG
Sbjct: 69 LDGGTDHKTGRYTDQFALG-ADLDLEKALGWKGAEFQFTVLDRNGQPLNNDPAAGSIQGV 127
Query: 86 REGEV 90
E E
Sbjct: 128 NEIEG 132
>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 = 25.2 bits (55), Expect = 2.7
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 6/63 (9%)
Query: 19 DPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAESTA 78
P+ + W G LP+ + F I L + ++ L D+G Y +N + E+TA
Sbjct: 29 SPAYTLVWTRVGGGLPSRAM-----DFNGI-LTIRNVQLSDAGTYVCTGSNMLDTDEATA 82
Query: 79 LLS 81
L
Sbjct: 83 TLY 85
>gnl|CDD|233402 TIGR01414, autotrans_barl, outer membrane autotransporter barrel
domain. A number of Gram-negative bacterial proteins,
mostly found in pathogens and associated with
virulence, contain a conserved C-terminal domain that
integrates into the outer membrane and enables the
N-terminal region to be delivered across the membrane.
This C-terminal autotransporter domain is about 400
amino acids in length and includes the aromatic amino
acid-rich OMP signal, typically ending with a Phe or
Trp residue, at the extreme C-terminus [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 429
Score = 25.8 bits (57), Expect = 3.3
Identities = 12/38 (31%), Positives = 15/38 (39%), Gaps = 4/38 (10%)
Query: 51 DLLSIVLHDSGEYTVRVTNNSGSAESTA----LLSVQG 84
D L + + SG V V N G T L+ V G
Sbjct: 34 DRLVVNGNASGTTGVVVNNIGGEGAQTGDGITLVEVNG 71
>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 = 3.3
Identities = 14/66 (21%), Positives = 24/66 (36%), Gaps = 3/66 (4%)
Query: 18 GDPSMRVDWFINGRPL-PASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAES 76
G P + W +NG P+ G + L + +D+ Y +N G +
Sbjct: 12 GIPQPTITWRLNGVPIEELPPDPRRRVDGGTLILSNVQP--NDTAVYQCNASNVHGYLLA 69
Query: 77 TALLSV 82
A + V
Sbjct: 70 NAFVHV 75
>gnl|CDD|143176 cd04975, Ig4_SCFR_like, Fourth immunoglobulin (Ig)-like domain of
stem cell factor receptor (SCFR) and similar proteins.
Ig4_SCFR_like; fourth immunoglobulin (Ig)-like domain of
stem cell factor receptor (SCFR). In addition to SCFR
this group also includes the fourth Ig domain of
platelet-derived growth factor receptors (PDGFR), alpha
and beta, the fourth Ig domain of macrophage colony
stimulating factor (M-CSF), and the Ig domain of the
receptor tyrosine kinase KIT. SCFR and the PDGFR alpha
and beta have similar organization: an extracellular
component having five Ig-like domains, a transmembrane
segment, and a cytoplasmic portion having protein
tyrosine kinase activity. SCFR and its ligand SCF are
critical for normal hematopoiesis, mast cell
development, melanocytes and gametogenesis. SCF binds to
the second and third Ig-like domains of SCFR, this
fourth Ig-like domain participates in SCFR dimerization,
which follows ligand binding. Deletion of this fourth
SCFR_Ig-like domain abolishes the ligand-induced
dimerization of SCFR and completely inhibits signal
transduction. PDGF is a potent mitogen for connective
tissue cells. PDGF-stimulated processes are mediated by
three different PDGFs (PDGF-A,-B, and C). PDGFR alpha
binds to all three PDGFs, whereas the PDGFR beta, binds
only to PDGF-B. In mice, PDGFR alpha, and PDGFR beta,
are essential for normal development.
Length = 101
Score = 25.4 bits (56), Expect = 3.4
Identities = 18/83 (21%), Positives = 32/83 (38%), Gaps = 12/83 (14%)
Query: 7 KIHFEARIEPVGDPSMRVDWFINGRPL------PASSRATTTFKFGFISLDLLSIVLHDS 60
+ EA P P + W + R L +S + +++ L L+ + ++
Sbjct: 24 VVEVEAYPPP---PHIN--WTYDNRTLTNKLTEIVTSENESEYRYVSE-LKLVRLKESEA 77
Query: 61 GEYTVRVTNNSGSAESTALLSVQ 83
G YT +N+ S T L V
Sbjct: 78 GTYTFLASNSDASKSLTFELYVN 100
>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 = 25.3 bits (55), Expect = 3.6
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 50 LDLLSIVLHDSGEYTVRVTNNSGSAESTALLSV 82
L L ++ D+GEYT N+ G + +A L+V
Sbjct: 57 LYLRNVTFEDAGEYTCLAGNSIGISHHSAWLTV 89
>gnl|CDD|143305 cd05897, Ig2_IL1R2_like, Second immunoglobulin (Ig)-like domain
of interleukin-1 receptor-2 (IL1R2). Ig2_IL1R2_like:
domain similar to the second immunoglobulin (Ig)-like
domain of interleukin-1 receptor-2 (IL1R2). 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 the type II (IL1R2) represented
in this group. Mature IL1R2 consists of three IG-like
domains, a transmembrane domain, and a short
cytoplasmic domain. It lacks the large cytoplasmic
domain of Mature IL1R1, and 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.
Length = 95
Score = 25.1 bits (55), Expect = 3.7
Identities = 11/47 (23%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 22 MRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVT 68
+ + W+ + L + + K G L ++ + L+DSG YT ++
Sbjct: 30 VELQWYKDSVLLDKDNEKFYSLK-GSTYLHIIDVSLNDSGYYTCKLQ 75
>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 = 24.6 bits (54), Expect = 4.1
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 18 GDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSGSAEST 77
G P+ + W G LPA T F +L + ++ D GEY +N+ GSA T
Sbjct: 9 GLPTPEISWIKIGGELPADR--TKFENFN-KTLKIDNVSEEDDGEYRCTASNSLGSARHT 65
>gnl|CDD|109353 pfam00292, PAX, 'Paired box' domain.
Length = 125
Score = 25.2 bits (55), Expect = 4.5
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 27 FINGRPLPASSR 38
F+NGRPLP R
Sbjct: 12 FVNGRPLPNHIR 23
>gnl|CDD|143171 cd04970, Ig6_Contactin_like, Sixth Ig domain of contactin.
Ig6_Contactin_like: Sixth 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 neur
onal 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 = 85
Score = 24.8 bits (54), Expect = 5.1
Identities = 10/35 (28%), Positives = 17/35 (48%)
Query: 50 LDLLSIVLHDSGEYTVRVTNNSGSAESTALLSVQG 84
L + + L +G+YT S ++A L V+G
Sbjct: 49 LMIRNAQLKHAGKYTCTAQTVVDSLSASADLIVRG 83
>gnl|CDD|203711 pfam07654, C1-set, Immunoglobulin C1-set domain.
Length = 83
Score = 24.5 bits (54), Expect = 5.7
Identities = 6/25 (24%), Positives = 10/25 (40%)
Query: 20 PSMRVDWFINGRPLPASSRATTTFK 44
P + V W NG+ + +T
Sbjct: 23 PDITVTWLKNGQEVTEGVESTEELP 47
>gnl|CDD|183049 PRK11240, PRK11240, penicillin-binding protein 1C; Provisional.
Length = 772
Score = 25.0 bits (55), Expect = 5.7
Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 13/47 (27%)
Query: 26 WFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVTNNSG 72
WF+NG PL R T + L D G Y + V + SG
Sbjct: 729 WFLNGEPLTERGRNVT-------------LHLTDPGRYQLLVMDESG 762
>gnl|CDD|128645 smart00351, PAX, Paired Box domain.
Length = 125
Score = 24.6 bits (54), Expect = 6.4
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 27 FINGRPLPASSR 38
F+NGRPLP R
Sbjct: 12 FVNGRPLPDEER 23
>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 = 24.3 bits (53), Expect = 6.5
Identities = 10/46 (21%), Positives = 15/46 (32%), Gaps = 8/46 (17%)
Query: 23 RVDWFINGRPLPASSRATTTFKFGFISLD----LLSIVLHDSGEYT 64
V W G PL + + + S+ D+G YT
Sbjct: 26 SVVWLFQGGPLQRKEEPE----ERLLVTEDGLLIRSVSPADAGVYT 67
>gnl|CDD|240236 PTZ00037, PTZ00037, DnaJ_C chaperone protein; Provisional.
Length = 421
Score = 25.2 bits (55), Expect = 6.6
Identities = 12/35 (34%), Positives = 14/35 (40%), Gaps = 6/35 (17%)
Query: 2 DPQKRKIHFEARIE------PVGDPSMRVDWFING 30
DP+KRKI+ E E D S D G
Sbjct: 79 DPEKRKIYDEYGEEGLEGGEQPADASDLFDLIFGG 113
>gnl|CDD|238084 cd00146, PKD, polycystic kidney disease I (PKD) domain; similar
to other cell-surface modules, with an IG-like fold;
domain probably functions as a ligand binding site in
protein-protein or protein-carbohydrate interactions; a
single instance of the repeat is presented here. The
domain is also found in microbial collagenases and
chitinases.
Length = 81
Score = 24.0 bits (52), Expect = 7.5
Identities = 13/64 (20%), Positives = 20/64 (31%), Gaps = 14/64 (21%)
Query: 16 PVGDPSMRVDWFINGRPLPASSRATTTFKFGFISLDLLSIVLHDSGEYTVRVT--NNSGS 73
G + W + +S T T + G YTV +T N GS
Sbjct: 24 SSGGSIVSYKWDFGDGEVSSSGEPTVTHTYT------------KPGTYTVTLTVTNAVGS 71
Query: 74 AEST 77
+ +
Sbjct: 72 SSTK 75
>gnl|CDD|143302 cd05894, Ig_C5_MyBP-C, C5 immunoglobulin (Ig) domain of cardiac
myosin binding protein C (MyBP-C). Ig_C5_MyBP_C : the
C5 immunoglobulin (Ig) domain of cardiac myosin binding
protein C (MyBP-C). MyBP_C consists of repeated
domains, Ig and fibronectin type 3, and various
linkers. Three isoforms of MYBP_C exist and are
included in this group: cardiac(c), and fast and slow
skeletal muscle (s) MyBP_C. cMYBP_C has insertions
between and inside domains and an additional
cardiac-specific Ig domain at the N-terminus. For
cMYBP_C an interaction has been demonstrated between
this C5 domain and the Ig C8 domain.
Length = 86
Score = 24.0 bits (52), Expect = 8.4
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 59 DSGEYTVRVTNNSGSAESTALLSV 82
D G YT+ VTN G ++ + V
Sbjct: 63 DEGVYTITVTNPVGEDHASLFVKV 86
>gnl|CDD|233001 TIGR00509, bisC_fam, molybdopterin guanine
dinucleotide-containing S/N-oxide reductases. This
enzyme family shares sequence similarity and a
requirement for a molydenum cofactor as the only
prosthetic group. The form of the cofactor is a single
molybdenum atom coordinated by two molybdopterin
guanine dinucleotide molecules. Members of the family
include biotin sulfoxide reductase, dimethylsulfoxide
reductase, and trimethylamine-N-oxide reductase,
although a single member may show all those activities
and related activities; it may not be possible to
resolve the primary function for members of this family
by sequence comparison alone. A number of similar
molybdoproteins in which the N-terminal region contains
a CXXXC motif and may bind an iron-sulfur cluster are
excluded from this set, including formate
dehydrogenases and nitrate reductases. Also excluded is
the A chain of a heteromeric, anaerobic DMSO reductase,
which also contains the CXXXC motif.
Length = 770
Score = 24.7 bits (54), Expect = 9.1
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 3/36 (8%)
Query: 8 IHFEARIEPVGDPSMRVDWFINGRPLPASSRATTTF 43
++ E+RI+ P +R + NG S R F
Sbjct: 39 VYSESRIK---YPMVRKGFLENGVKSDRSGRGREEF 71
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.134 0.387
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: 4,471,402
Number of extensions: 349767
Number of successful extensions: 389
Number of sequences better than 10.0: 1
Number of HSP's gapped: 378
Number of HSP's successfully gapped: 67
Length of query: 90
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 32
Effective length of database: 8,365,070
Effective search space: 267682240
Effective search space used: 267682240
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: 53 (24.4 bits)