RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12725
(119 letters)
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 63.2 bits (154), Expect = 9e-15
Identities = 27/55 (49%), Positives = 32/55 (58%), Gaps = 5/55 (9%)
Query: 7 FTCKYEGNPVKTISWMKDGKPVPDHNEPVF-----RIDSVRKEDKGMYQCVIRNE 56
TC EGNPV I+W+KDGKP+P+ N V I SV ED G+Y CV N
Sbjct: 7 LTCPAEGNPVPNITWLKDGKPLPESNRFVASGSTLTIKSVSLEDSGLYTCVAENS 61
Score = 38.2 bits (89), Expect = 6e-05
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 94 FKCIASGNPTPEISWYLDGKKL 115
C A GNP P I+W DGK L
Sbjct: 7 LTCPAEGNPVPNITWLKDGKPL 28
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 62.3 bits (152), Expect = 4e-14
Identities = 25/71 (35%), Positives = 35/71 (49%), Gaps = 9/71 (12%)
Query: 6 FFTCKYEGNPVKTISWMKDGKPVP---------DHNEPVFRIDSVRKEDKGMYQCVIRNE 56
FTC G+P T+SW KDG+P+ + I +V+ +D+G Y CV N
Sbjct: 19 RFTCTVTGDPDPTVSWFKDGQPLRSSDRFKVTYEGGTYTLTISNVQPDDEGKYTCVATNS 78
Query: 57 QESAQASGELK 67
A+AS EL
Sbjct: 79 AGEAEASAELT 89
Score = 39.9 bits (94), Expect = 2e-05
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 94 FKCIASGNPTPEISWYLDGKKL 115
F C +G+P P +SW+ DG+ L
Sbjct: 20 FTCTVTGDPDPTVSWFKDGQPL 41
>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 = 57.6 bits (139), Expect = 3e-12
Identities = 24/68 (35%), Positives = 33/68 (48%), Gaps = 5/68 (7%)
Query: 6 FFTCKYEGNPVKTISWMKDGKPVPDHNE-----PVFRIDSVRKEDKGMYQCVIRNEQESA 60
+ CK GNP W+K+G+P+ N RI + D GMYQCV N+ +
Sbjct: 18 RWECKASGNPRPAYRWLKNGQPLASENRIEVEAGDLRITKLSLSDSGMYQCVAENKHGTI 77
Query: 61 QASGELKL 68
AS EL +
Sbjct: 78 YASAELAV 85
Score = 33.0 bits (75), Expect = 0.008
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 82 SDETLNPGPNYYFKCIASGNPTPEISWYLDGKKL 115
SD + G + ++C ASGNP P W +G+ L
Sbjct: 7 SDTEADIGSSLRWECKASGNPRPAYRWLKNGQPL 40
>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 = 56.0 bits (134), Expect = 1e-11
Identities = 24/70 (34%), Positives = 30/70 (42%), Gaps = 13/70 (18%)
Query: 7 FTCKYEGNPVKTISWMKDGKPVPDHNEPVFR-------------IDSVRKEDKGMYQCVI 53
TC G P TI+W+K+GKP+P R I +V ED G Y CV
Sbjct: 3 LTCLASGPPPPTITWLKNGKPLPSSVLTRVRSSRGTSSGSSTLTISNVTLEDSGTYTCVA 62
Query: 54 RNEQESAQAS 63
N + AS
Sbjct: 63 SNSAGTVSAS 72
Score = 36.7 bits (84), Expect = 3e-04
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 94 FKCIASGNPTPEISWYLDGKKLVN 117
C+ASG P P I+W +GK L +
Sbjct: 3 LTCLASGPPPPTITWLKNGKPLPS 26
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 52.1 bits (125), Expect = 3e-10
Identities = 17/71 (23%), Positives = 25/71 (35%), Gaps = 10/71 (14%)
Query: 7 FTCKYEGNPVKTISWMKDG----------KPVPDHNEPVFRIDSVRKEDKGMYQCVIRNE 56
+C+ G+P ++W K G + I +V ED G Y C N
Sbjct: 14 LSCEASGSPPPEVTWYKQGGKLLAESGRFSVSRSGSTSTLTISNVTPEDSGTYTCAATNS 73
Query: 57 QESAQASGELK 67
SA + L
Sbjct: 74 SGSASSGTTLT 84
Score = 35.2 bits (81), Expect = 0.001
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 94 FKCIASGNPTPEISWYLDGKKLV 116
C ASG+P PE++WY G KL+
Sbjct: 14 LSCEASGSPPPEVTWYKQGGKLL 36
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 52.1 bits (125), Expect = 3e-10
Identities = 17/71 (23%), Positives = 25/71 (35%), Gaps = 10/71 (14%)
Query: 7 FTCKYEGNPVKTISWMKDG----------KPVPDHNEPVFRIDSVRKEDKGMYQCVIRNE 56
+C+ G+P ++W K G + I +V ED G Y C N
Sbjct: 14 LSCEASGSPPPEVTWYKQGGKLLAESGRFSVSRSGSTSTLTISNVTPEDSGTYTCAATNS 73
Query: 57 QESAQASGELK 67
SA + L
Sbjct: 74 SGSASSGTTLT 84
Score = 35.2 bits (81), Expect = 0.001
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 94 FKCIASGNPTPEISWYLDGKKLV 116
C ASG+P PE++WY G KL+
Sbjct: 14 LSCEASGSPPPEVTWYKQGGKLL 36
>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 = 48.5 bits (116), Expect = 1e-08
Identities = 26/60 (43%), Positives = 33/60 (55%), Gaps = 10/60 (16%)
Query: 13 GNPVKTISWMKDGKPVPDHNEPV-------FRIDSVRKEDKGMYQCVIRN---EQESAQA 62
G+P T+SW KDG+P+ NE V I RK D+G Y+CV N E+ESA A
Sbjct: 23 GHPEPTVSWRKDGQPLNLDNERVRIVDDGNLLIAEARKSDEGTYKCVATNMVGERESAAA 82
Score = 27.0 bits (60), Expect = 1.3
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 100 GNPTPEISWYLDGKKLV 116
G+P P +SW DG+ L
Sbjct: 23 GHPEPTVSWRKDGQPLN 39
>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 = 46.1 bits (109), Expect = 6e-08
Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 12/69 (17%)
Query: 7 FTCKYEGNPVKTISWMKDG---------KPVPDHNEPVFRIDSVRKEDKGMYQCVIRNEQ 57
F C+ G P T+ W+K+G K V +HN V + K D+G YQC+ N+
Sbjct: 4 FECEVTGKPTPTVKWVKNGDMVIPSDYFKIVKEHNLQVL---GLVKSDEGFYQCIAENDV 60
Query: 58 ESAQASGEL 66
+ QA +L
Sbjct: 61 GNVQAGAQL 69
Score = 27.6 bits (61), Expect = 0.58
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 94 FKCIASGNPTPEISWYLDGKKLVNAE 119
F+C +G PTP + W +G ++ ++
Sbjct: 4 FECEVTGKPTPTVKWVKNGDMVIPSD 29
>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 = 46.0 bits (109), Expect = 1e-07
Identities = 21/66 (31%), Positives = 29/66 (43%), Gaps = 16/66 (24%)
Query: 7 FTCKYEGNPVKTISWMKDGKPV--------------PDHNEPVFRIDSVRK--EDKGMYQ 50
CK EG P TI W+K+G+P+ P + R+ RK D+G+Y
Sbjct: 21 LNCKAEGRPTPTIQWLKNGQPLETDKDDPRSHRIVLPSGSLFFLRVVHGRKGRSDEGVYV 80
Query: 51 CVIRNE 56
CV N
Sbjct: 81 CVAHNS 86
Score = 43.3 bits (102), Expect = 1e-06
Identities = 17/43 (39%), Positives = 21/43 (48%)
Query: 74 PPVIKESFSDETLNPGPNYYFKCIASGNPTPEISWYLDGKKLV 116
PP I E SD ++ G C A G PTP I W +G+ L
Sbjct: 1 PPRIVEHPSDLIVSKGDPATLNCKAEGRPTPTIQWLKNGQPLE 43
>gnl|CDD|206066 pfam13895, Ig_2, Immunoglobulin domain. This domain contains
immunoglobulin-like domains.
Length = 80
Score = 45.1 bits (107), Expect = 2e-07
Identities = 19/53 (35%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 7 FTCKYEGNPVKTISWMKDGKPVPDHNEPVFRIDSVRKEDKGMYQCVIRNEQES 59
TC GNP +W KDG P+ F +V ED G Y CV N
Sbjct: 19 LTCSAPGNPPPNYTWYKDGVPLSSSQNGFF-TPNVSAEDSGTYTCVASNGGGG 70
Score = 37.8 bits (88), Expect = 9e-05
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 74 PPVIKESFSDETLNPGPNYYFKCIASGNPTPEISWYLDGKKL 115
PV+ S + + G + C A GNP P +WY DG L
Sbjct: 1 KPVLTPSPT--VVFEGEDVTLTCSAPGNPPPNYTWYKDGVPL 40
>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 = 44.7 bits (106), Expect = 2e-07
Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 10/71 (14%)
Query: 7 FTCKYEGNPVKTISWMKDGKP-VPDHNEPVFR---------IDSVRKEDKGMYQCVIRNE 56
C GNP TI+W+KDGKP +H ++ ++SV D G Y C++ N+
Sbjct: 14 LKCPASGNPRPTITWLKDGKPFKKEHRIGGYKVRKKKWTLILESVVPSDSGKYTCIVENK 73
Query: 57 QESAQASGELK 67
S + ++
Sbjct: 74 YGSINHTYKVD 84
Score = 41.2 bits (97), Expect = 6e-06
Identities = 13/23 (56%), Positives = 14/23 (60%)
Query: 94 FKCIASGNPTPEISWYLDGKKLV 116
KC ASGNP P I+W DGK
Sbjct: 14 LKCPASGNPRPTITWLKDGKPFK 36
>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 = 43.5 bits (103), Expect = 4e-07
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 5/65 (7%)
Query: 7 FTCKYEGNPVKTISWMKDGKPVPDH-----NEPVFRIDSVRKEDKGMYQCVIRNEQESAQ 61
F C+ G+PV T+ W K+ +P ++ +I +V D+G Y C N +
Sbjct: 3 FQCEVGGDPVPTVLWRKEDGELPKGRAEILDDKSLKIRNVTAGDEGSYTCEAENMVGKIE 62
Query: 62 ASGEL 66
AS L
Sbjct: 63 ASASL 67
Score = 27.0 bits (60), Expect = 1.0
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 94 FKCIASGNPTPEISWYLDGKKL 115
F+C G+P P + W + +L
Sbjct: 3 FQCEVGGDPVPTVLWRKEDGEL 24
>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 = 43.5 bits (103), Expect = 5e-07
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 6/59 (10%)
Query: 9 CKYEGNPVKTISWMKDGKPVP------DHNEPVFRIDSVRKEDKGMYQCVIRNEQESAQ 61
C EG P ISW+K G +P ++ +ID+V +ED G Y+C N SA+
Sbjct: 5 CIAEGLPTPEISWIKIGGELPADRTKFENFNKTLKIDNVSEEDDGEYRCTASNSLGSAR 63
Score = 32.7 bits (75), Expect = 0.006
Identities = 11/14 (78%), Positives = 11/14 (78%)
Query: 96 CIASGNPTPEISWY 109
CIA G PTPEISW
Sbjct: 5 CIAEGLPTPEISWI 18
>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 = 42.9 bits (101), Expect = 1e-06
Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 10/70 (14%)
Query: 7 FTCKYEGNPVKTISWMKDGKPV-PDHNEPVFRI---------DSVRKEDKGMYQCVIRNE 56
F C GNP T+ W+K+GK +H +++ +SV DKG Y CV+ NE
Sbjct: 14 FRCPAAGNPTPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENE 73
Query: 57 QESAQASGEL 66
S + L
Sbjct: 74 YGSINHTYHL 83
Score = 34.1 bits (78), Expect = 0.003
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 94 FKCIASGNPTPEISWYLDGK 113
F+C A+GNPTP + W +GK
Sbjct: 14 FRCPAAGNPTPTMRWLKNGK 33
>gnl|CDD|222457 pfam13927, Ig_3, Immunoglobulin domain. This family contains
immunoglobulin-like domains.
Length = 74
Score = 42.7 bits (100), Expect = 1e-06
Identities = 19/55 (34%), Positives = 23/55 (41%), Gaps = 6/55 (10%)
Query: 7 FTCKYEGNPVK-TISWMKDGK-----PVPDHNEPVFRIDSVRKEDKGMYQCVIRN 55
TC EG P TISW ++G + + SV ED G Y CV N
Sbjct: 20 LTCSAEGGPPPPTISWYRNGSISGGSGGLGSSGSTLTLSSVTSEDSGTYTCVASN 74
>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 = 42.0 bits (99), Expect = 2e-06
Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 8/64 (12%)
Query: 7 FTCKYEGNPVKTISWMKDGKPVPDHNE-PVFRIDS-------VRKEDKGMYQCVIRNEQE 58
C+ EG P TI+W +G P+ + P R+D V+ D +YQC N
Sbjct: 6 LDCEAEGIPQPTITWRLNGVPIEELPPDPRRRVDGGTLILSNVQPNDTAVYQCNASNVHG 65
Query: 59 SAQA 62
A
Sbjct: 66 YLLA 69
Score = 34.3 bits (79), Expect = 0.002
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 89 GPNYYFKCIASGNPTPEISWYLDGKKLVNA 118
G C A G P P I+W L+G +
Sbjct: 1 GETGRLDCEAEGIPQPTITWRLNGVPIEEL 30
>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 = 41.5 bits (97), Expect = 4e-06
Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 14/70 (20%)
Query: 9 CKYEGNPVKTISWMKDG------------KPVPDHNEPVFRIDSVRKEDKGMYQCVIRNE 56
C G+P I+W KDG +P+ + VF I V+ ED G+Y C +N
Sbjct: 5 CAATGHPTPQIAWQKDGGTDFPAARERRMHVMPE--DDVFFIVDVKIEDTGVYSCTAQNT 62
Query: 57 QESAQASGEL 66
S A+ L
Sbjct: 63 AGSISANATL 72
Score = 29.9 bits (67), Expect = 0.082
Identities = 10/18 (55%), Positives = 15/18 (83%)
Query: 95 KCIASGNPTPEISWYLDG 112
+C A+G+PTP+I+W DG
Sbjct: 4 ECAATGHPTPQIAWQKDG 21
>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 = 41.7 bits (98), Expect = 4e-06
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 13 GNPVKTISWMK-DGKPVP----DHNEPVFRIDSVRKEDKGMYQCVIRN 55
GNPV I W K DG + V +I +++ ED+G Y+C N
Sbjct: 27 GNPVPQIKWRKVDGSMPSSAEISMSGAVLKIPNIQFEDEGTYECEAEN 74
Score = 31.7 bits (72), Expect = 0.023
Identities = 13/35 (37%), Positives = 16/35 (45%)
Query: 74 PPVIKESFSDETLNPGPNYYFKCIASGNPTPEISW 108
P +I D G N +C A GNP P+I W
Sbjct: 1 PSIIVVFPKDTYALKGQNVTLECFALGNPVPQIKW 35
>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 = 41.6 bits (97), Expect = 5e-06
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 9/65 (13%)
Query: 7 FTCKYEGNPVKTISWMKDGKPVPDHN---------EPVFRIDSVRKEDKGMYQCVIRNEQ 57
F+C +G P T++WM++G+ + + F I V+ D+G Y V+ N +
Sbjct: 23 FSCDVDGEPAPTVTWMREGQIIVSSQRHQITSTEYKSTFEISKVQMSDEGNYTVVVENSE 82
Query: 58 ESAQA 62
+A
Sbjct: 83 GKQEA 87
Score = 27.3 bits (60), Expect = 0.89
Identities = 10/35 (28%), Positives = 21/35 (60%)
Query: 85 TLNPGPNYYFKCIASGNPTPEISWYLDGKKLVNAE 119
T++ G + F C G P P ++W +G+ +V+++
Sbjct: 14 TVSEGESARFSCDVDGEPAPTVTWMREGQIIVSSQ 48
>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 = 40.2 bits (94), Expect = 1e-05
Identities = 14/25 (56%), Positives = 17/25 (68%)
Query: 95 KCIASGNPTPEISWYLDGKKLVNAE 119
KC+ASGNP P+I+W D K L E
Sbjct: 15 KCVASGNPRPDITWLKDNKPLTPTE 39
Score = 36.3 bits (84), Expect = 3e-04
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 7/54 (12%)
Query: 9 CKYEGNPVKTISWMKDGKPVPDHN-------EPVFRIDSVRKEDKGMYQCVIRN 55
C GNP I+W+KD KP+ + + +++ ED G Y C + N
Sbjct: 16 CVASGNPRPDITWLKDNKPLTPTEIGESRKKKWTLSLKNLKPEDSGKYTCHVSN 69
>gnl|CDD|143178 cd04977, Ig1_NCAM-1_like, First immunoglobulin (Ig)-like domain
of neural cell adhesion molecule NCAM-1 and similar
proteins. Ig1_NCAM-1 like: first immunoglobulin
(Ig)-like domain of neural cell adhesion molecule
NCAM-1. NCAM-1 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-nonNCAM), 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 the Ig1, Ig2, and Ig3
domains. 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 = 92
Score = 39.8 bits (93), Expect = 2e-05
Identities = 22/68 (32%), Positives = 29/68 (42%), Gaps = 12/68 (17%)
Query: 5 KFFTCKYEGNPVKTISWMKDG--KPVPDHNEPVFRIDSVRK---------EDKGMYQCVI 53
KFF C+ G P K ISW K V V + D VR ED G+Y+CV
Sbjct: 18 KFFLCQVIGEP-KDISWFSPNGEKLVTQQQISVVQNDDVRSTLTIYNANIEDAGIYKCVA 76
Query: 54 RNEQESAQ 61
+ + +
Sbjct: 77 TDAKGTES 84
>gnl|CDD|143207 cd05730, Ig3_NCAM-1_like, Third immunoglobulin (Ig)-like domain
of Neural Cell Adhesion Molecule NCAM-1 (NCAM).
Ig3_NCAM-1_like: domain similar to the third
immunoglobulin (Ig)-like domain of Neural Cell Adhesion
Molecule NCAM-1 (NCAM). NCAM plays important roles in
the development and regeneration of the central nervous
system, in synaptogenesis and neural migration. NCAM
mediates cell-cell and cell-substratum recognition and
adhesion via homophilic (NCAM-NCAM), and heterophilic
(NCAM-non-NCAM), interactions. NCAM is expressed as
three major isoforms having different intracellular
extensions. The extracellular portion of NCAM has five
N-terminal Ig-like domains and two fibronectin type III
domains. The double zipper adhesion complex model for
NCAM homophilic binding involves Ig1, Ig2, and Ig3. By
this model, Ig1,and Ig2 mediate dimerization of NCAM
molecules situated on the same cell surface (cis
interactions), and Ig3 domains mediate interactions
between NCAM molecules expressed on the surface of
opposing cells (trans interactions), through binding to
the Ig1 and Ig2 domains. The adhesive ability of NCAM
is modulated by the addition of polysialic acid chains
to the fifth Ig-like domain.
Length = 95
Score = 39.5 bits (92), Expect = 3e-05
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 8/68 (11%)
Query: 9 CKYEGNPVKTISWMKDGKPVPDHNEPV-FRIDS-------VRKEDKGMYQCVIRNEQESA 60
C +G P T++W KDG+P+ E F D V K D+ Y C+ N+
Sbjct: 25 CDADGFPEPTMTWTKDGEPIESGEEKYSFNEDGSEMTILDVDKLDEAEYTCIAENKAGEQ 84
Query: 61 QASGELKL 68
+A LK+
Sbjct: 85 EAEIHLKV 92
Score = 29.9 bits (67), Expect = 0.14
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 74 PPVI--KESFSDETLNPGPNYYFKCIASGNPTPEISWYLDGKKLVNAE 119
PP I ++S + T N G + C A G P P ++W DG+ + + E
Sbjct: 1 PPTIRARQSEVNATANLGQSVTLACDADGFPEPTMTWTKDGEPIESGE 48
>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 = 38.4 bits (89), Expect = 5e-05
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 6/51 (11%)
Query: 7 FTCKYEGNPVKTISWMKDGKPVP-DHNEPV-----FRIDSVRKEDKGMYQC 51
F C+ +G P I+W K G + D V RI V D+G Y+C
Sbjct: 7 FLCEAQGYPQPVIAWTKGGSQLSVDRRHLVLSSGTLRISRVALHDQGQYEC 57
Score = 29.9 bits (67), Expect = 0.099
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 94 FKCIASGNPTPEISWYLDGKKL 115
F C A G P P I+W G +L
Sbjct: 7 FLCEAQGYPQPVIAWTKGGSQL 28
>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 = 37.5 bits (87), Expect = 9e-05
Identities = 24/65 (36%), Positives = 30/65 (46%), Gaps = 6/65 (9%)
Query: 8 TCKYEGNPVKTISWMKDGKPVPD----HNEP--VFRIDSVRKEDKGMYQCVIRNEQESAQ 61
C +G+P TI+W KDG V + H P I V D+G Y+CV RN A
Sbjct: 4 PCSAQGDPEPTITWNKDGVQVTESGKFHISPEGYLAIRDVGVADQGRYECVARNTIGYAS 63
Query: 62 ASGEL 66
S L
Sbjct: 64 VSMVL 68
Score = 26.4 bits (58), Expect = 1.7
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 96 CIASGNPTPEISWYLDG 112
C A G+P P I+W DG
Sbjct: 5 CSAQGDPEPTITWNKDG 21
>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 = 37.5 bits (87), Expect = 1e-04
Identities = 17/60 (28%), Positives = 23/60 (38%), Gaps = 9/60 (15%)
Query: 7 FTCKYEGNPVKTISWMKDGKPVPDHNEPV---------FRIDSVRKEDKGMYQCVIRNEQ 57
FTC G P I+W + VPD I V++ D+G Y C N +
Sbjct: 6 FTCVATGVPTPIINWRLNWGHVPDSARVSITSEGGYGTLTIRDVKESDQGAYTCEAINTR 65
Score = 28.2 bits (63), Expect = 0.31
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 94 FKCIASGNPTPEISWYLD 111
F C+A+G PTP I+W L+
Sbjct: 6 FTCVATGVPTPIINWRLN 23
>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 = 37.0 bits (86), Expect = 2e-04
Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 12/67 (17%)
Query: 9 CKYEGNPVKTISWMKDGKPV---------PDHNEPVFRIDSVRKEDKGMYQCVIRNEQES 59
CK + P TISW K + + PD + I +V K D+G Y C N
Sbjct: 8 CKPKAAPKPTISWSKGTELLTNSSRICIWPDGS---LEILNVTKSDEGKYTCFAENFFGK 64
Query: 60 AQASGEL 66
A ++G L
Sbjct: 65 ANSTGSL 71
>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 = 36.8 bits (85), Expect = 2e-04
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 9/57 (15%)
Query: 9 CKYEGNPVKTISWMKDGKPV----PDH-----NEPVFRIDSVRKEDKGMYQCVIRNE 56
C EG P+ ++W+K+G + N I +VR ED G Y C+ +NE
Sbjct: 5 CHAEGIPLPRLTWLKNGMDITPKLSKQLTLIANGSELHISNVRYEDTGAYTCIAKNE 61
Score = 25.3 bits (55), Expect = 4.0
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 95 KCIASGNPTPEISWYLDGKKL 115
+C A G P P ++W +G +
Sbjct: 4 RCHAEGIPLPRLTWLKNGMDI 24
>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 = 36.4 bits (84), Expect = 2e-04
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 6/59 (10%)
Query: 9 CKYEGNPVKTISWMKDGKPVP------DHNEPVFRIDSVRKEDKGMYQCVIRNEQESAQ 61
C EG P + W + P+ +N ++D+V + D G Y C N + SA+
Sbjct: 5 CIAEGLPTPEVHWDRIDGPLSPNRTKKLNNNKTLQLDNVLESDDGEYVCTAENSEGSAR 63
Score = 27.2 bits (60), Expect = 0.81
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 95 KCIASGNPTPEISW 108
+CIA G PTPE+ W
Sbjct: 4 ECIAEGLPTPEVHW 17
>gnl|CDD|143259 cd05851, Ig3_Contactin-1, Third Ig domain of contactin-1.
Ig3_Contactin-1: Third Ig domain of the neural cell
adhesion molecule contactin-1. Contactins are comprised
of six Ig domains followed by four fibronectin type III
(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. Contactin-1 is
differentially expressed in tumor tissues and may
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 88
Score = 36.5 bits (84), Expect = 3e-04
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 9 CKYEGNPVKTISWMKDGKPVPDHNE-----PVFRIDSVRKEDKGMYQCVIRN 55
C GNPV I W K +P+P E V +I +++ ED+G Y+C N
Sbjct: 23 CFALGNPVPVIRWRKILEPMPATAEISMSGAVLKIFNIQPEDEGTYECEAEN 74
Score = 35.8 bits (82), Expect = 6e-04
Identities = 14/35 (40%), Positives = 15/35 (42%)
Query: 74 PPVIKESFSDETLNPGPNYYFKCIASGNPTPEISW 108
P I F D G N +C A GNP P I W
Sbjct: 1 PADINVKFKDTYALKGQNVTLECFALGNPVPVIRW 35
>gnl|CDD|219745 pfam08205, C2-set_2, CD80-like C2-set immunoglobulin domain. These
domains belong to the immunoglobulin superfamily.
Length = 89
Score = 36.2 bits (84), Expect = 5e-04
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 87 NPGPNYYFKCIAS-GNPTPEISWYLDGKKLVNAE 119
C ++ G P P I+WYLDG++L
Sbjct: 12 GENLEVVATCSSAGGKPAPRITWYLDGRELEAIT 45
Score = 27.4 bits (61), Expect = 0.89
Identities = 8/28 (28%), Positives = 11/28 (39%), Gaps = 1/28 (3%)
Query: 7 FTCKYE-GNPVKTISWMKDGKPVPDHNE 33
TC G P I+W DG+ +
Sbjct: 19 ATCSSAGGKPAPRITWYLDGRELEAITT 46
>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 = 34.8 bits (80), Expect = 0.001
Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 10/56 (17%)
Query: 7 FTCKYEGNPVKTISWMKDGKPVP-------DHNEP---VFRIDSVRKEDKGMYQCV 52
TC G P ++W K+GK + D N I +V ED G Y CV
Sbjct: 6 LTCSVSGPPQVDVTWFKEGKGLEESTTVGTDENRVSSITLTISNVTPEDSGTYTCV 61
Score = 24.8 bits (54), Expect = 4.6
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 96 CIASGNPTPEISWYLDGKKLV 116
C SG P +++W+ +GK L
Sbjct: 8 CSVSGPPQVDVTWFKEGKGLE 28
>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 = 34.3 bits (79), Expect = 0.002
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 5/53 (9%)
Query: 10 KYEGNPVKTISWMKDGKPVPDHNEPVFR-----IDSVRKEDKGMYQCVIRNEQ 57
K + P I W K+GK + + N I V +ED G Y V+ N+Q
Sbjct: 6 KVKAYPPPEIQWYKNGKLISEKNRTKKSGHSLTIKDVTEEDAGNYTVVLTNKQ 58
Score = 25.8 bits (57), Expect = 2.8
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 102 PTPEISWYLDGKKLV 116
P PEI WY +GK +
Sbjct: 11 PPPEIQWYKNGKLIS 25
>gnl|CDD|143276 cd05868, Ig4_NrCAM, Fourth immunoglobulin (Ig)-like domain of
NrCAM (NgCAM-related cell adhesion molecule). Ig4_
NrCAM: fourth immunoglobulin (Ig)-like domain of NrCAM
(NgCAM-related cell adhesion molecule). NrCAM belongs
to the L1 subfamily of cell adhesion molecules (CAMs)
and is comprised of an extracellular region having six
IG-like domains and five fibronectin type III domains,
a transmembrane region and an intracellular domain.
NrCAM is primarily expressed in the nervous system.
Length = 76
Score = 34.2 bits (78), Expect = 0.002
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 12/58 (20%)
Query: 9 CKYEGNPVKTISWMKDGKPV---PDHNEPVFRID-------SVRKEDKGMYQCVIRNE 56
C+ GNP +ISW+ +G P+ P +P ++D V++ +YQC NE
Sbjct: 8 CRANGNPKPSISWLTNGVPIEIAPT--DPSRKVDGDTIIFSKVQERSSAVYQCNASNE 63
Score = 30.7 bits (69), Expect = 0.037
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 96 CIASGNPTPEISWYLDG 112
C A+GNP P ISW +G
Sbjct: 8 CRANGNPKPSISWLTNG 24
>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 = 34.1 bits (78), Expect = 0.002
Identities = 19/68 (27%), Positives = 27/68 (39%), Gaps = 8/68 (11%)
Query: 9 CKYEGNPVKTISWMKDGKPVPD--------HNEPVFRIDSVRKEDKGMYQCVIRNEQESA 60
C +G+P T W +DG P+ D E + S +D G+Y C N S
Sbjct: 5 CHIDGHPRPTYQWFRDGTPLSDGQGNYSVSSKERTLTLRSAGPDDSGLYYCCAHNAFGSV 64
Query: 61 QASGELKL 68
+S L
Sbjct: 65 CSSQNFTL 72
>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 = 33.6 bits (77), Expect = 0.004
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 10/59 (16%)
Query: 8 TCKYEGNPVKTISWMKDGKPVP--DH--------NEPVFRIDSVRKEDKGMYQCVIRNE 56
TC G+P +SW+K+ + + DH I V ED G Y V++N+
Sbjct: 22 TCTVFGDPDPEVSWLKNDQALALSDHYNVKVEQGKYASLTIKGVSSEDSGKYGIVVKNK 80
Score = 30.6 bits (69), Expect = 0.066
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 9/48 (18%)
Query: 68 LGGRFDPPVIKESFSDETLNPGPNYYFKCIASGNPTPEISWYLDGKKL 115
+GG D I E +TLN C G+P PE+SW + + L
Sbjct: 4 VGGLPDVVTIME---GKTLN------LTCTVFGDPDPEVSWLKNDQAL 42
>gnl|CDD|143199 cd05722, Ig1_Neogenin, First immunoglobulin (Ig)-like domain in
neogenin and similar proteins. Ig1_Neogenin: first
immunoglobulin (Ig)-like domain in neogenin and related
proteins. Neogenin is a cell surface protein which is
expressed in the developing nervous system of
vertebrate embryos in the growing nerve cells. It is
also expressed in other embryonic tissues, and may play
a general role in developmental processes such as cell
migration, cell-cell recognition, and tissue growth
regulation. Included in this group is the tumor
suppressor protein DCC, which is deleted in colorectal
carcinoma . DCC and neogenin each have four Ig-like
domains followed by six fibronectin type III domains, a
transmembrane domain, and an intracellular domain.
Length = 95
Score = 33.6 bits (77), Expect = 0.004
Identities = 21/61 (34%), Positives = 26/61 (42%), Gaps = 13/61 (21%)
Query: 9 CKYEGNPVKTISWMKDGKPVP-DHNEPV-------FRIDSVR-----KEDKGMYQCVIRN 55
C EG P I W KDG + +E I SV K D+G YQCV +N
Sbjct: 21 CSAEGEPPPKIEWKKDGVLLNLVSDERRQQLPNGSLLITSVVHSKHNKPDEGFYQCVAQN 80
Query: 56 E 56
+
Sbjct: 81 D 81
>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 = 33.1 bits (76), Expect = 0.005
Identities = 21/66 (31%), Positives = 28/66 (42%), Gaps = 13/66 (19%)
Query: 8 TCKYEGNPVKTISWMKDGKPVPDHNEP---------VFRID---SVRKED-KGMYQCVIR 54
C+ +GNP T SW ++G +P ID R ED +G YQC
Sbjct: 4 KCEAKGNPPPTFSWTRNGTHFDPEKDPRVTMKPDSGTLVIDNMNGGRAEDYEGEYQCYAS 63
Query: 55 NEQESA 60
NE +A
Sbjct: 64 NELGTA 69
Score = 29.3 bits (66), Expect = 0.17
Identities = 10/19 (52%), Positives = 11/19 (57%)
Query: 95 KCIASGNPTPEISWYLDGK 113
KC A GNP P SW +G
Sbjct: 4 KCEAKGNPPPTFSWTRNGT 22
>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 = 33.7 bits (77), Expect = 0.005
Identities = 19/77 (24%), Positives = 30/77 (38%), Gaps = 15/77 (19%)
Query: 5 KFFTCKYEGNPVKTISWMKDGKPVPD---------HNEPVFRIDS------VRKEDKGMY 49
K F + E P I W+KD + + + HN R S ++ED G+Y
Sbjct: 21 KEFVVEVEAYPPPQIRWLKDNRTLIENLTEITTSEHNVQETRYVSKLKLIRAKEEDSGLY 80
Query: 50 QCVIRNEQESAQASGEL 66
+ +NE + L
Sbjct: 81 TALAQNEDAVKSYTFAL 97
>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 = 33.3 bits (76), Expect = 0.006
Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 10/66 (15%)
Query: 13 GNPVKTISWMKDGKPVPDHNEPV----------FRIDSVRKEDKGMYQCVIRNEQESAQA 62
G P T++W + K + V F I+ +ED+G+Y + N A
Sbjct: 21 GEPAPTVTWSRGDKAFTETEGRVRVESYKDLSSFVIEGAEREDEGVYTITVTNPVGEDHA 80
Query: 63 SGELKL 68
S +K+
Sbjct: 81 SLFVKV 86
>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 = 32.9 bits (75), Expect = 0.008
Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 6/65 (9%)
Query: 7 FTCKYEG-NPVKTISWMKDGKPVP----DHNEPVFRIDSVRKEDKGMYQCVIRNEQESAQ 61
F C+ + +P T+ W + G +P D N + I +V+ D G Y C N ++ +
Sbjct: 21 FICRAKSKSPAYTLVWTRVGGGLPSRAMDFNG-ILTIRNVQLSDAGTYVCTGSNMLDTDE 79
Query: 62 ASGEL 66
A+ L
Sbjct: 80 ATATL 84
>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 = 32.2 bits (74), Expect = 0.011
Identities = 16/66 (24%), Positives = 25/66 (37%), Gaps = 9/66 (13%)
Query: 11 YEGNPVKTISWMKDGKPVPDHNE---------PVFRIDSVRKEDKGMYQCVIRNEQESAQ 61
G P T++W KDGKP+ I + + D G Y ++N
Sbjct: 8 ISGRPTPTVTWSKDGKPLKLSGRVQIETTASSTSLVIKNAERSDSGKYTLTLKNPAGEKS 67
Query: 62 ASGELK 67
A+ +K
Sbjct: 68 ATINVK 73
Score = 28.7 bits (65), Expect = 0.23
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 99 SGNPTPEISWYLDGKKL 115
SG PTP ++W DGK L
Sbjct: 9 SGRPTPTVTWSKDGKPL 25
>gnl|CDD|143174 cd04973, Ig1_FGFR, First immunoglobulin (Ig)-like domain of
fibroblast growth factor receptor (FGFR). Ig1_FGFR:
The first 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 all FGFs.
Length = 79
Score = 32.2 bits (73), Expect = 0.015
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 5/42 (11%)
Query: 16 VKTISWMKDGKPVPDHNEPVF-----RIDSVRKEDKGMYQCV 52
V++I+W KDG + ++N +I D G+Y CV
Sbjct: 22 VQSINWTKDGVQLGENNRTRITGEEVQIKDAVPRDSGLYACV 63
>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 = 31.9 bits (72), Expect = 0.016
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 96 CIASGNPTPEISWYLD 111
C ASGNP PEI+W+ D
Sbjct: 5 CAASGNPDPEITWFKD 20
Score = 31.6 bits (71), Expect = 0.019
Identities = 21/71 (29%), Positives = 28/71 (39%), Gaps = 11/71 (15%)
Query: 9 CKYEGNPVKTISWMKDGKPVPDHNEPVFRIDSVRKEDKGMYQCVIRNEQESAQASGEL-- 66
C GNP I+W KD PV + +++ G Q I N +ES Q E
Sbjct: 5 CAASGNPDPEITWFKDFLPVDTTSN-----GRIKQLRSGALQ--IENSEESDQGKYECVA 57
Query: 67 --KLGGRFDPP 75
G R+ P
Sbjct: 58 TNSAGTRYSAP 68
>gnl|CDD|143190 cd05713, Ig_MOG_like, Immunoglobulin (Ig)-like domain of myelin
oligodendrocyte glycoprotein (MOG). Ig_MOG_like:
immunoglobulin (Ig)-like domain of myelin
oligodendrocyte glycoprotein (MOG). MOG, a minor
component of the myelin sheath, is an important
CNS-specific autoantigen, linked to the pathogenesis of
multiple sclerosis (MS) and experimental autoimmune
encephalomyelitis (EAE). It is a transmembrane protein
having an extracellular Ig domain. MOG is expressed in
the CNS on the outermost lamellae of the myelin sheath,
and on the surface of oligodendrocytes, and may
participate in the completion, compaction, and/or
maintenance of myelin. This group also includes
butyrophilin (BTN). BTN is the most abundant protein in
bovine milk-fat globule membrane (MFGM).
Length = 100
Score = 32.2 bits (74), Expect = 0.016
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 37 RIDSVRKEDKGMYQCVIRNEQESAQASGELK 67
RI +VR D+G+Y C +++ +A+ ELK
Sbjct: 68 RIHNVRASDEGLYTCFFQSDGFYEEATVELK 98
>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 = 31.1 bits (70), Expect = 0.028
Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 13/71 (18%)
Query: 6 FFTCKYEGNPVKTISWMKDGKPVPDHNEP---------VFRIDSV---RKED-KGMYQCV 52
C+ +GNPV T W ++GK +P ID R ED +G YQC
Sbjct: 2 IIECEAKGNPVPTFQWTRNGKFFNVAKDPRVSMRRRSGTLVIDFSGGGRPEDYEGEYQCF 61
Query: 53 IRNEQESAQAS 63
RN +A ++
Sbjct: 62 ARNNLGTALSN 72
Score = 25.7 bits (56), Expect = 3.0
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 93 YFKCIASGNPTPEISWYLDGK 113
+C A GNP P W +GK
Sbjct: 2 IIECEAKGNPVPTFQWTRNGK 22
>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 = 31.3 bits (71), Expect = 0.032
Identities = 12/71 (16%), Positives = 27/71 (38%), Gaps = 9/71 (12%)
Query: 7 FTCKYEGNPVKTISWMKDGKPV-------PDHNEPVF--RIDSVRKEDKGMYQCVIRNEQ 57
C EG+P+ + W+ G V + ++ ++ ++ E + C N
Sbjct: 20 IRCTAEGSPLPKVEWIIAGLIVIQTRTDTLETTVDIYNLQLSNITSETQTTVTCTAENPV 79
Query: 58 ESAQASGELKL 68
A S ++ +
Sbjct: 80 GQANVSVQVTV 90
Score = 29.0 bits (65), Expect = 0.26
Identities = 8/29 (27%), Positives = 14/29 (48%)
Query: 85 TLNPGPNYYFKCIASGNPTPEISWYLDGK 113
+ G +C A G+P P++ W + G
Sbjct: 11 VVYEGGTATIRCTAEGSPLPKVEWIIAGL 39
>gnl|CDD|143239 cd05762, Ig8_MLCK, Eighth immunoglobulin (Ig)-like domain of
human myosin light-chain kinase (MLCK). Ig8_MLCK: the
eighth immunoglobulin (Ig)-like domain of human myosin
light-chain kinase (MLCK). MLCK is a key regulator of
different forms of cell motility involving actin and
myosin II. Agonist stimulation of smooth muscle cells
increases cytosolic Ca2+, which binds calmodulin. This
Ca2+-calmodulin complex in turn binds to and activates
MLCK. Activated MLCK leads to the phosphorylation of
the 20 kDa myosin regulatory light chain (RLC) of
myosin II and the stimulation of actin-activated myosin
MgATPase activity. MLCK is widely present in vertebrate
tissues; it phosphorylates the 20 kDa RLC of both
smooth and nonmuscle myosin II. Phosphorylation leads
to the activation of the myosin motor domain and
altered structural properties of myosin II. In smooth
muscle MLCK it is involved in initiating contraction.
In nonmuscle cells, MLCK may participate in cell
division and cell motility; it has been suggested MLCK
plays a role in cardiomyocyte differentiation and
contraction through regulation of nonmuscle myosin II.
Length = 98
Score = 31.1 bits (70), Expect = 0.039
Identities = 21/76 (27%), Positives = 30/76 (39%), Gaps = 9/76 (11%)
Query: 9 CKYEGNPVKTISWMKDGKPVPD---------HNEPVFRIDSVRKEDKGMYQCVIRNEQES 59
CK G T +WMK K + + N I ++E G Y + N+ S
Sbjct: 22 CKVTGTQPITCTWMKFRKQIQEGEGIKIENTENSSKLTITEGQQEHCGCYTLEVENKLGS 81
Query: 60 AQASGELKLGGRFDPP 75
QA L + + DPP
Sbjct: 82 RQAQVNLTVVDKPDPP 97
>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 = 31.1 bits (70), Expect = 0.040
Identities = 18/62 (29%), Positives = 22/62 (35%), Gaps = 14/62 (22%)
Query: 9 CKYEGNPVKTISW-MKDGKPVPDHNEPV-------------FRIDSVRKEDKGMYQCVIR 54
C EG P TI W G+ P H I V +ED G Y C +
Sbjct: 5 CSAEGYPPPTIVWKHSKGRGHPQHTHTCCLAGRIQLLSNGSLLIKHVLEEDSGYYLCKVS 64
Query: 55 NE 56
N+
Sbjct: 65 ND 66
>gnl|CDD|143234 cd05757, Ig2_IL1R_like, Second immunoglobulin (Ig)-like domain of
interleukin-1 receptor (IL1R) and similar proteins.
Ig2_IL1R_like: domain similar to the second
immunoglobulin (Ig)-like domain of interleukin-1
receptor (IL1R). IL-1 alpha and IL-1 beta are
cytokines which participate in the regulation of
inflammation, immune responses, and hematopoiesis.
These cytokines bind to the IL-1 receptor type 1
(IL1R1), which is activated on additional association
with an accessory protein, IL1RAP. IL-1 also binds a
second receptor designated type II (IL1R2). Mature
IL1R1 consists of three IG-like domains, a
transmembrane domain, and a large cytoplasmic domain.
Mature IL1R2 is organized similarly except that it has
a short cytoplasmic domain. The latter does not
initiate signal transduction. A naturally occurring
cytokine IL-1RA (IL-1 receptor antagonist) is widely
expressed and binds to IL-1 receptors, inhibiting the
binding of IL-1 alpha and IL-1 beta. This group also
contains ILIR-like 1 (IL1R1L) which maps to the same
chromosomal location as IL1R1 and IL1R2.
Length = 92
Score = 30.7 bits (70), Expect = 0.052
Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 8/55 (14%)
Query: 4 LKFFTCKYEGNPVKTISWMKDGKPVPDHNEPVFR-----IDSVRKEDKGMYQCVI 53
L F + PV+ W KD K + + + I +V +ED G Y C +
Sbjct: 20 LDDFKNENTLPPVQ---WYKDCKLLEGDRKRFVKGSKLLIQNVTEEDAGNYTCKL 71
>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 = 30.7 bits (69), Expect = 0.070
Identities = 18/60 (30%), Positives = 24/60 (40%), Gaps = 16/60 (26%)
Query: 8 TCKYEGNPVKTISWMK--------DGKPVPD--------HNEPVFRIDSVRKEDKGMYQC 51
+CK EG P+ I+W + +G PD H E I V+ D G Y C
Sbjct: 22 SCKAEGEPIPEITWKRASDGHTFSEGDKSPDGRIEVKGQHGESSLHIKDVKLSDSGRYDC 81
Score = 26.5 bits (58), Expect = 2.1
Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 2/35 (5%)
Query: 74 PPVIKESFSDETLNPGPNYYFKCIASGNPTPEISW 108
P +I+ +ET C A G P PEI+W
Sbjct: 3 PHIIQ--LKNETTVENGAATLSCKAEGEPIPEITW 35
>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 = 29.9 bits (67), Expect = 0.077
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 8/55 (14%)
Query: 9 CKYEGNPVKTISWMKDGKPVPDHN-EPVFRIDS-------VRKEDKGMYQCVIRN 55
C+ EG P I+W +G P+ + +P + S V+ D +YQC RN
Sbjct: 8 CQVEGIPTPNITWSINGAPIEGTDPDPRRHVSSGALILTDVQPSDTAVYQCEARN 62
Score = 27.2 bits (60), Expect = 0.76
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 96 CIASGNPTPEISWYLDG 112
C G PTP I+W ++G
Sbjct: 8 CQVEGIPTPNITWSING 24
>gnl|CDD|143271 cd05863, Ig2_VEGFR-3, Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor 3
(VEGFR-3). Ig2_VEGFR-3: Second immunoglobulin
(Ig)-like domain of vascular endothelial growth factor
receptor 3 (VEGFR-3). 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-3 (Flt-4) binds two members of the VEGF family
(VEGF-C and -D) and is involved in tumor angiogenesis
and growth.
Length = 67
Score = 29.9 bits (67), Expect = 0.085
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 15 PVKTISWMKDGKPV-PDHNEPVFRIDSVRKEDKGMYQCVIRN 55
P W KDGK + H++ +I V + G Y V+ N
Sbjct: 11 PPPEFQWYKDGKLISGKHSQHSLQIKDVTEASAGTYTLVLWN 52
Score = 25.7 bits (56), Expect = 2.4
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 102 PTPEISWYLDGKKL 115
P PE WY DGK +
Sbjct: 11 PPPEFQWYKDGKLI 24
>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 = 29.7 bits (67), Expect = 0.10
Identities = 11/24 (45%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 96 CIASG-NPTPEISWYLDGKKLVNA 118
C A G P EI W+ DG+ L A
Sbjct: 6 CRARGAKPAAEIIWFRDGEVLDGA 29
>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 = 29.4 bits (66), Expect = 0.13
Identities = 15/55 (27%), Positives = 21/55 (38%), Gaps = 12/55 (21%)
Query: 13 GNPVKTISWMKDGKPVPDHNEP------------VFRIDSVRKEDKGMYQCVIRN 55
P W KDGK + N+P +I+ + D G Y CV+ N
Sbjct: 10 EYPSLRFKWFKDGKELNRKNKPRNIKIRNKKKNSELQINKAKLADSGEYTCVVEN 64
Score = 25.2 bits (55), Expect = 4.5
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 95 KCIA-SGNPTPEISWYLDGKKL 115
KC A S P+ W+ DGK+L
Sbjct: 4 KCEATSEYPSLRFKWFKDGKEL 25
>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 = 29.8 bits (67), Expect = 0.13
Identities = 15/62 (24%), Positives = 22/62 (35%), Gaps = 14/62 (22%)
Query: 8 TCKYEGNPVKTISW------MKDGKPVPD--------HNEPVFRIDSVRKEDKGMYQCVI 53
TC+ EG+P+ I+W +G D + V+ D G Y C
Sbjct: 22 TCEAEGDPIPEITWRRATRNFSEGDKSLDGRIVVRGHARVSSLTLKDVQLTDAGRYDCEA 81
Query: 54 RN 55
N
Sbjct: 82 SN 83
Score = 28.6 bits (64), Expect = 0.32
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 96 CIASGNPTPEISW 108
C A G+P PEI+W
Sbjct: 23 CEAEGDPIPEITW 35
>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 = 29.3 bits (66), Expect = 0.16
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 9/44 (20%)
Query: 18 TISWMKDGKPVPDHNEPVFRID---------SVRKEDKGMYQCV 52
++ W+ G P+ EP R+ SV D G+Y C
Sbjct: 26 SVVWLFQGGPLQRKEEPEERLLVTEDGLLIRSVSPADAGVYTCQ 69
>gnl|CDD|143274 cd05866, Ig1_NCAM-2, First immunoglobulin (Ig)-like domain of
neural cell adhesion molecule NCAM-2. Ig1_NCAM-2:
first immunoglobulin (Ig)-like domain of neural cell
adhesion molecule NCAM-2 (OCAM/mamFas II, 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 = 92
Score = 29.6 bits (66), Expect = 0.17
Identities = 19/67 (28%), Positives = 26/67 (38%), Gaps = 11/67 (16%)
Query: 5 KFFTCKYEGNPVKTISW-------MKDGKPVPDHNEPV---FRIDSVRKEDKGMYQCVIR 54
KFFTC G P I W + + V E V I + ED G+Y+C
Sbjct: 18 KFFTCTAIGEPES-IDWYNPQGEKIVSSQRVVVQKEGVRSRLTIYNANIEDAGIYRCQAT 76
Query: 55 NEQESAQ 61
+ + Q
Sbjct: 77 DAKGQTQ 83
>gnl|CDD|143217 cd05740, Ig_CEACAM_D4, Fourth immunoglobulin (Ig)-like domain of
carcinoembryonic antigen (CEA) related cell adhesion
molecule (CEACAM). Ig_CEACAM_D4: immunoglobulin
(Ig)-like domain 4 in carcinoembryonic antigen (CEA)
related cell adhesion molecule (CEACAM) protein
subfamily. The CEA family is a group of anchored or
secreted glycoproteins, expressed by epithelial cells,
leukocytes, endothelial cells and placenta. The CEA
family is divided into the CEACAM and
pregnancy-specific glycoprotein (PSG) subfamilies. This
group represents the CEACAM subfamily. CEACAM1 has many
important cellular functions, it is a cell adhesion
molecule, and a signaling molecule that regulates the
growth of tumor cells, it is an angiogenic factor, and
is a receptor for bacterial and viral pathogens,
including mouse hepatitis virus (MHV). In mice, four
isoforms of CEACAM1 generated by alternative splicing
have either two [D1, D4] or four [D1-D4] Ig-like
domains on the cell surface. This family corresponds to
the D4 Ig-like domain.
Length = 91
Score = 29.2 bits (65), Expect = 0.20
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 7/56 (12%)
Query: 7 FTCKYEGNPVKTISWMKDGKPVPDH------NEPVFRIDSVRKEDKGMYQCVIRNE 56
TC+ EG I W+ +G + + ++V + D G YQC NE
Sbjct: 23 LTCEAEGQ-ATYIWWVNNGSLLVPPRLQLSNDNRTLTFNNVTRSDTGHYQCEASNE 77
>gnl|CDD|143273 cd05865, Ig1_NCAM-1, First immunoglobulin (Ig)-like domain of
neural cell adhesion molecule NCAM-1. Ig1_NCAM-1:
first immunoglobulin (Ig)-like domain of neural cell
adhesion molecule NCAM-1. NCAM-1 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-nonNCAM), 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 the Ig1, Ig2, and Ig3 domains. By this model,
Ig1 and Ig2 mediate dimerization of NCAM molecules
situated on the same cell surface (cis interactions),
and Ig3 domains mediate interactions between NCAM
molecules expressed on the surface of opposing cells
(trans interactions), through binding to the Ig1 and
Ig2 domains. The adhesive ability of NCAM is modulated
by the addition of polysialic acid chains to the fifth
Ig-like domain.
Length = 96
Score = 29.2 bits (65), Expect = 0.21
Identities = 23/78 (29%), Positives = 34/78 (43%), Gaps = 14/78 (17%)
Query: 5 KFFTCKYEGNPV-KTISWMKDG--KPVP----------DHNEPVFRIDSVRKEDKGMYQC 51
KFF C+ G K ISW K P D I + +D G+Y+C
Sbjct: 18 KFFLCQVAGEAKDKDISWFSPNGEKLTPNQQRISVVRNDDYSSTLTIYNANIDDAGIYKC 77
Query: 52 VIRNEQES-AQASGELKL 68
V+ NE E ++A+ +K+
Sbjct: 78 VVSNEDEGESEATVNVKI 95
>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 = 29.0 bits (65), Expect = 0.26
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 12/58 (20%)
Query: 8 TCKYEGNPVKTISWMKDGKPVPDHNEPVFRIDSV----------RKEDKGMYQCVIRN 55
C+ G+P T W+ +G + D EP R V + +D G YQC+ N
Sbjct: 25 NCRARGSPPPTYRWLMNGTEIDD--EPDSRYSLVGGNLVISNPSKAKDAGRYQCLASN 80
>gnl|CDD|143242 cd05765, Ig_3, Subgroup of the immunoglobulin (Ig) superfamily.
Ig_3: subgroup of the immunoglobulin (Ig) domain found
in the Ig superfamily. The Ig superfamily is a
heterogenous group of proteins, built on a common fold
comprised of a sandwich of two beta sheets. Members of
the Ig superfamily are components of immunoglobulin,
neuroglia, cell surface glycoproteins, such as T-cell
receptors, CD2, CD4, CD8, and membrane glycoproteins,
such as butyrophilin and chondroitin sulfate
proteoglycan core protein. A predominant feature of
most Ig domains is a disulfide bridge connecting the
two beta-sheets with a tryptophan residue packed
against the disulfide bond.
Length = 81
Score = 28.3 bits (63), Expect = 0.37
Identities = 20/70 (28%), Positives = 27/70 (38%), Gaps = 14/70 (20%)
Query: 7 FTCKYEGNPVKTISWMK--DGKP----VPDH--------NEPVFRIDSVRKEDKGMYQCV 52
F C G P I+W K GK P+H N I + + +D G+Y C
Sbjct: 6 FHCDVTGRPPPEITWEKQVHGKENLIMRPNHVRGNVVVTNIGQLVIYNAQPQDAGLYTCT 65
Query: 53 IRNEQESAQA 62
RN +A
Sbjct: 66 ARNSGGLLRA 75
Score = 25.6 bits (56), Expect = 3.1
Identities = 10/25 (40%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 94 FKCIASGNPTPEISW--YLDGKKLV 116
F C +G P PEI+W + GK+ +
Sbjct: 6 FHCDVTGRPPPEITWEKQVHGKENL 30
>gnl|CDD|143203 cd05726, Ig4_Robo, Third immunoglobulin (Ig)-like domain in Robo
(roundabout) receptors. Ig4_Robo: domain similar to the
third immunoglobulin (Ig)-like domain in Robo
(roundabout) receptors. Robo receptors play a role in
the development of the central nervous system (CNS), and
are receptors of Slit protein. Slit is a repellant
secreted by the neural cells in the midline. Slit acts
through Robo to prevent most neurons from crossing the
midline from either side. Three mammalian Robo homologs
(robo1, -2, and -3), and three mammalian Slit homologs
(Slit-1,-2, -3), have been identified. Commissural
axons, which cross the midline, express low levels of
Robo; longitudinal axons, which avoid the midline,
express high levels of Robo. robo1, -2, and -3 are
expressed by commissural neurons in the vertebrate
spinal cord and Slits 1, -2, -3 are expressed at the
ventral midline. Robo-3 is a divergent member of the
Robo family which instead of being a positive regulator
of slit responsiveness, antagonizes slit responsiveness
in precrossing axons. The Slit-Robo interaction is
mediated by the second leucine-rich repeat (LRR) domain
of Slit and the two N-terminal Ig domains of Robo, Ig1
and Ig2. The primary Robo binding site for Slit2 has
been shown by surface plasmon resonance experiments and
mutational analysis to be is the Ig1 domain, while the
Ig2 domain has been proposed to harbor a weak secondary
binding site.
Length = 90
Score = 28.4 bits (63), Expect = 0.39
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 89 GPNYYFKCIASGNPTPEISWYLDGKK 114
G F+C A+GNP P I W +G +
Sbjct: 1 GRTVTFQCEATGNPQPAIFWQKEGSQ 26
Score = 26.1 bits (57), Expect = 2.6
Identities = 17/59 (28%), Positives = 22/59 (37%), Gaps = 14/59 (23%)
Query: 7 FTCKYEGNPVKTISWMKDGK---------PVPDHNEPV-----FRIDSVRKEDKGMYQC 51
F C+ GNP I W K+G P V I +V++ D G Y C
Sbjct: 6 FQCEATGNPQPAIFWQKEGSQNLLFSYQPPQSSSRFSVSQTGDLTITNVQRSDVGYYIC 64
>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 = 28.4 bits (63), Expect = 0.43
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 12/57 (21%)
Query: 9 CKYEGNPVKTISWMKDGKPVPDHNEPVFR---IDSV-------RKEDKGMYQCVIRN 55
C+ GNPV T W+++G + E +R ID +D G YQC+ N
Sbjct: 26 CEARGNPVPTYRWLRNGTEI--DTESDYRYSLIDGNLIISNPSEVKDSGRYQCLATN 80
Score = 25.3 bits (55), Expect = 5.3
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 96 CIASGNPTPEISWYLDGKKL 115
C A GNP P W +G ++
Sbjct: 26 CEARGNPVPTYRWLRNGTEI 45
>gnl|CDD|214650 smart00406, IGv, Immunoglobulin V-Type.
Length = 81
Score = 27.7 bits (62), Expect = 0.54
Identities = 12/43 (27%), Positives = 16/43 (37%), Gaps = 5/43 (11%)
Query: 10 KYEGNPVKT-ISWMKDGKPVPDHNEPVFRIDSVRKEDKGMYQC 51
Y K + KD N+ I ++R ED G Y C
Sbjct: 41 SYYQESYKGRFTISKD----TSKNDVSLTISNLRVEDTGTYYC 79
>gnl|CDD|203711 pfam07654, C1-set, Immunoglobulin C1-set domain.
Length = 83
Score = 27.6 bits (62), Expect = 0.60
Identities = 6/16 (37%), Positives = 12/16 (75%)
Query: 18 TISWMKDGKPVPDHNE 33
T++W+K+G+ V + E
Sbjct: 26 TVTWLKNGQEVTEGVE 41
>gnl|CDD|143299 cd05891, Ig_M-protein_C, C-terminal immunoglobulin (Ig)-like
domain of M-protein (also known as myomesin-2).
Ig_M-protein_C: the C-terminal immunoglobulin (Ig)-like
domain of M-protein (also known as myomesin-2).
M-protein is a structural protein localized to the
M-band, a transverse structure in the center of the
sarcomere, and is a candidate for M-band bridges.
M-protein is modular consisting mainly of repetitive
IG-like and fibronectin type III (FnIII) domains, and
has a muscle-type specific expression pattern.
M-protein is present in fast fibers.
Length = 92
Score = 28.0 bits (62), Expect = 0.61
Identities = 13/60 (21%), Positives = 23/60 (38%), Gaps = 10/60 (16%)
Query: 7 FTCKYEGNPVKTISWMKDGKPVPDHNEPVFRIDS----------VRKEDKGMYQCVIRNE 56
TC GNP + W K+ + + +++ V ED G Y ++N+
Sbjct: 21 LTCTVFGNPDPEVIWFKNDQDIELSEHYSVKLEQGKYASLTIKGVTSEDSGKYSINVKNK 80
Score = 26.0 bits (57), Expect = 3.1
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 85 TLNPGPNYYFKCIASGNPTPEISWYLDGKKL 115
T+ G C GNP PE+ W+ + + +
Sbjct: 12 TIMEGKTLNLTCTVFGNPDPEVIWFKNDQDI 42
>gnl|CDD|143282 cd05874, Ig6_NrCAM, Sixth immunoglobulin (Ig)-like domain of
NrCAM (Ng (neuronglia) CAM-related cell adhesion
molecule). Ig6_NrCAM: sixth immunoglobulin (Ig)-like
domain of NrCAM (Ng (neuronglia) CAM-related cell
adhesion molecule). NrCAM belongs to the L1 subfamily
of cell adhesion molecules (CAMs) and is comprised of
an extracellular region having six Ig-like domains and
five fibronectin type III domains, a transmembrane
region, and an intracellular domain. NrCAM is primarily
expressed in the nervous system.
Length = 77
Score = 27.6 bits (61), Expect = 0.64
Identities = 18/68 (26%), Positives = 32/68 (47%), Gaps = 13/68 (19%)
Query: 9 CKYEGNPVKTISWMKDGKPVPDHNEP-----------VFRIDSVRKED--KGMYQCVIRN 55
C+ +G P + SW ++G +P V I + K + +G+YQC RN
Sbjct: 5 CEAKGKPPPSFSWTRNGTHFDIDKDPKVTMKPNTGTLVINIMNGEKAEAYEGVYQCTARN 64
Query: 56 EQESAQAS 63
E+ +A ++
Sbjct: 65 ERGAAVSN 72
>gnl|CDD|143238 cd05761, Ig2_Necl-1-4_like, Second immunoglobulin (Ig)-like
domain of the nectin-like molecules Necl-1 - Necl-4
(also known as cell adhesion molecules CADM3, CADM1,
CADM2, and CADM4, respectively). Ig2_Necl-1-4_like:
domain similar to the second immunoglobulin (Ig)-like
domain of the nectin-like molecules Necl-1 (also known
as cell adhesion molecule 3 (CADM3)), Necl-2 (CADM1),
Necl-3 (CADM2) and Necl-4 (CADM4). These nectin-like
molecules have similar domain structures to those of
nectins. At least five nectin-like molecules have been
identified (Necl-1 - Necl-5). These have an
extracellular region containing three Ig-like domains,
one transmembrane region, and one cytoplasmic region.
The N-terminal Ig-like domain of the extracellular
region belongs to the V-type subfamily of Ig domains,
is essential to cell-cell adhesion, and plays a part in
the interaction with the envelope glycoprotein D of
various viruses. Necl-1 and Necl-2 have
Ca(2+)-independent homophilic and heterophilic
cell-cell adhesion activity. Necl-1 is specifically
expressed in neural tissue and is important to the
formation of synapses, axon bundles, and myelinated
axons. Necl-2 is expressed in a wide variety of
tissues, and is a putative tumour suppressor gene,
which is downregulated in aggressive neuroblastoma.
Necl-3 has been shown to accumulate in tissues of the
central and peripheral nervous system, where it is
expressed in ependymal cells and myelinated axons. It
is observed at the interface between the axon shaft and
the myelin sheath. Necl-4 is expressed on Schwann
cells, and plays a key part in initiating peripheral
nervous system (PNS) myelination. Necl-4 participates
in cell-cell adhesion and is proposed to play a role in
tumor suppression.
Length = 82
Score = 27.7 bits (62), Expect = 0.64
Identities = 17/53 (32%), Positives = 21/53 (39%), Gaps = 13/53 (24%)
Query: 8 TCKYEGN-PVKTISWMKDGKPVP-------DHNEPVFRIDS-----VRKEDKG 47
TC G+ P TI W K K + D N F + S V +ED G
Sbjct: 5 TCTSSGSKPAATIRWFKGDKELKGVKLKEEDENGKTFTVTSSLRFQVDREDDG 57
>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 = 27.3 bits (60), Expect = 0.71
Identities = 16/66 (24%), Positives = 28/66 (42%), Gaps = 6/66 (9%)
Query: 9 CKYEGNPVKTISWMK------DGKPVPDHNEPVFRIDSVRKEDKGMYQCVIRNEQESAQA 62
CK + P SW K + + ++ I ++ K D+G Y C N + A +
Sbjct: 8 CKPKAAPKPKFSWSKGTELLVNNSRISIWDDGSLEILNITKLDEGSYTCFAENNRGKANS 67
Query: 63 SGELKL 68
+G L +
Sbjct: 68 TGVLSV 73
>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 = 27.2 bits (60), Expect = 1.1
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 10/34 (29%)
Query: 85 TLNPGPNYYFK----------CIASGNPTPEISW 108
+L+PGP+ C A G P +++W
Sbjct: 4 SLSPGPSLLIDGGNGTTLAACCAAEGRPAADVTW 37
>gnl|CDD|240382 PTZ00365, PTZ00365, 60S ribosomal protein L7Ae-like; Provisional.
Length = 266
Score = 27.9 bits (62), Expect = 1.1
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 25 GKPVPDHNEPVFRIDSVRKEDKGMYQCVIRN 55
GK V V ID+VRKED+ + + +N
Sbjct: 188 GKLVHQKTAAVVAIDNVRKEDQAEFDNLCKN 218
>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 = 26.6 bits (59), Expect = 1.4
Identities = 10/24 (41%), Positives = 13/24 (54%), Gaps = 3/24 (12%)
Query: 95 KCI---ASGNPTPEISWYLDGKKL 115
CI GNP P ++WY +G L
Sbjct: 1 WCIPFTVRGNPKPTLTWYHNGAVL 24
>gnl|CDD|143193 cd05716, Ig_pIgR, Immunoglobulin (Ig)-like domain in the
polymeric Ig receptor (pIgR). Ig_pIgR: Immunoglobulin
(Ig)-like domain in the polymeric Ig receptor (pIgR).
pIgR delivers dimeric IgA and pentameric IgM to mucosal
secretions. Polymeric immunoglobulin (pIgs) are the
first defense against pathogens and toxins. IgA and IgM
can form polymers via an 18-residue extension at their
c-termini referred to as the tailpiece. pIgR transports
pIgs across mucosal epithelia into mucosal secretions.
Human pIgR is a glycosylated type I transmembrane
protein, comprised of a 620 residue extracellular
region, a 23 residue transmembrane region, and a 103
residue cytoplasmic tail. The extracellular region
contains five domains that share sequence similarity
with Ig variable (v) regions.
Length = 98
Score = 27.0 bits (60), Expect = 1.5
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 38 IDSVRKEDKGMYQCVIRNE 56
++ +RKED G Y C + ++
Sbjct: 68 LNQLRKEDAGWYWCGVGDD 86
>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 = 26.4 bits (58), Expect = 1.6
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 6/51 (11%)
Query: 10 KYEGNPVKTISWMKDGKPVPDHNEPVFR-----IDSVRKEDKGMYQCVIRN 55
KY G P + W K+G+ + N R I V ++D G Y V+ N
Sbjct: 6 KYYGYPPPEVKWYKNGQLI-VLNHTFKRGVHLTIYEVTEKDAGNYTVVLTN 55
>gnl|CDD|143277 cd05869, Ig5_NCAM-1, Fifth immunoglobulin (Ig)-like domain of
Neural Cell Adhesion Molecule NCAM-1 (NCAM).
Ig5_NCAM-1: The fifth immunoglobulin (Ig)-like domain of
Neural Cell Adhesion Molecule NCAM-1 (NCAM). NCAM plays
important roles in the development and regeneration of
the central nervous system, in synaptogenesis and neural
migration. NCAM mediates cell-cell and cell-substratum
recognition and adhesion via homophilic (NCAM-NCAM) and
heterophilic (NCAM-non-NCAM) interactions. NCAM is
expressed as three major isoforms having different
intracellular extensions. The extracellular portion of
NCAM has five N-terminal Ig-like domains and two
fibronectin type III domains. The double zipper adhesion
complex model for NCAM homophilic binding involves Ig1,
Ig2, and Ig3. By this model, Ig1 and Ig2 mediate
dimerization of NCAM molecules situated on the same cell
surface (cis interactions), and Ig3 domains mediate
interactions between NCAM molecules expressed on the
surface of opposing cells (trans interactions), through
binding to the Ig1 and Ig2 domains. The adhesive ability
of NCAM is modulated by the addition of polysialic acid
chains to the fifth Ig-like domain.
Length = 97
Score = 26.9 bits (59), Expect = 1.6
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 96 CIASGNPTPEISW 108
C ASG+P P I+W
Sbjct: 24 CEASGDPIPSITW 36
>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 = 26.9 bits (60), Expect = 1.7
Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 14/68 (20%)
Query: 15 PVKTISWMKDGKPVPDH--------NEPVFRIDS------VRKEDKGMYQCVIRNEQESA 60
P I+W D + + + NE +R S +++ + G Y + N S
Sbjct: 32 PPPHINWTYDNRTLTNKLTEIVTSENESEYRYVSELKLVRLKESEAGTYTFLASNSDASK 91
Query: 61 QASGELKL 68
+ EL +
Sbjct: 92 SLTFELYV 99
>gnl|CDD|143166 cd00098, IgC, Immunoglobulin Constant domain. IgC:
Immunoglobulin constant domain (IgC). Members of the
IgC family are components of immunoglobulin, T-cell
receptors, CD1 cell surface glycoproteins, secretory
glycoproteins A/C, and Major Histocompatibility Complex
(MHC) class I/II molecules. In immunoglobulins, each
chain is composed of one variable domain (IgV) and one
or more IgC domains. These names reflect the fact that
the variability in sequences is higher in the variable
domain than in the constant domain. The IgV domain is
responsible for antigen binding, and the IgC domain is
involved in oligomerization and molecular interactions.
Length = 95
Score = 26.6 bits (59), Expect = 1.9
Identities = 7/33 (21%), Positives = 12/33 (36%), Gaps = 4/33 (12%)
Query: 18 TISWMKDGKPVPDHNEPVFRIDSVRKEDKGMYQ 50
T++W+K+GK + G Y
Sbjct: 31 TVTWLKNGKELTSGVT----TTPPVPNSDGTYS 59
>gnl|CDD|143233 cd05756, Ig1_IL1R_like, First immunoglobulin (Ig)-like domain of
interleukin-1 receptor (IL1R) and similar proteins.
Ig1_IL1R_like: domain similar to the first
immunoglobulin (Ig)-like domain of interleukin-1
receptor (IL1R). IL-1 alpha and IL-1 beta are cytokines
which participate in the regulation of inflammation,
immune responses, and hematopoiesis. These cytokines
bind to the IL-1 receptor type 1 (IL1R1), which is
activated on additional association with an accessory
protein, IL1RAP. IL-1 also binds a second receptor
designated type II (IL1R2). Mature IL1R1 consists of
three Ig-like domains, a transmembrane domain, and a
large cytoplasmic domain. Mature IL1R2 is organized
similarly except that it has a short cytoplasmic
domain. The latter does not initiate signal
transduction. A naturally occurring cytokine IL-1RA
(IL-1 receptor antagonist) is widely expressed and
binds to IL-1 receptors, inhibiting the binding of IL-1
alpha and IL-1 beta.
Length = 94
Score = 26.6 bits (59), Expect = 2.0
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 44 EDKGMYQCVIRNEQESAQASGELK 67
ED G+Y CV+RN + S L
Sbjct: 70 EDSGLYTCVVRNSTYCMKVSISLT 93
>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 = 26.3 bits (58), Expect = 2.2
Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 8/51 (15%)
Query: 19 ISWMKDGKPVPDHNE--------PVFRIDSVRKEDKGMYQCVIRNEQESAQ 61
+ W KD + NE I V D G Y C ++ E +
Sbjct: 32 LQWYKDSVLLDKDNEKFYSLKGSTYLHIIDVSLNDSGYYTCKLQFTHEGKK 82
>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 = 25.9 bits (57), Expect = 2.4
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 95 KCIASGNPTPEISWYLDGKKLV 116
+C A G+P P I W KL+
Sbjct: 7 RCKARGDPEPAIHWISPDGKLI 28
>gnl|CDD|143191 cd05714, Ig_CSPGs_LP, Immunoglobulin (Ig)-like domain of
chondroitin sulfate proteoglycans (CSPGs), human
cartilage link protein (LP) and similar proteins.
Ig_CSPGs_LP: immunoglobulin (Ig)-like domain similar to
that found in chondroitin sulfate proteoglycans (CSPGs)
and human cartilage link protein (LP). Included in this
group are the CSPGs aggrecan, versican, and neurocan. In
CSPGs this Ig-like domain is followed by hyaluronan
(HA)-binding tandem repeats, and a C-terminal region
with epidermal growth factor-like, lectin-like, and
complement regulatory protein-like domains. Separating
these N- and C-terminal regions is a nonhomologous
glycosaminoglycan attachment region. In cartilage,
aggrecan forms cartilage link protein stabilized
aggregates with hyaluronan (HA). These aggregates
contribute to the tissue's load bearing properties.
Aggrecan and versican have a wide distribution in
connective tissue and extracellular matrices. Neurocan
is localized almost exclusively in nervous tissue.
Aggregates having other CSPGs substituting for aggrecan
may contribute to the structural integrity of many
different tissues. There is considerable evidence that
HA-binding CSPGs are involved in developmental processes
in the central nervous system. Members of the vertebrate
HPLN (hyaluronan/HA and proteoglycan binding link)
protein family are physically linked adjacent to CSPG
genes.
Length = 106
Score = 26.1 bits (58), Expect = 3.6
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 38 IDSVRKEDKGMYQCVIRNEQESAQASGELKLGG 70
I +R ED G Y+C + + E Q + EL++ G
Sbjct: 72 ITDLRLEDSGRYRCEVIDGIEDEQDTVELEVRG 104
>gnl|CDD|143244 cd05767, IgC_MHC_II_alpha, Class II major histocompatibility
complex (MHC) alpha chain immunoglobulin domain.
IgC_MHC_II_alpha: Immunoglobulin (Ig) domain of major
histocompatibility complex (MHC) class II alpha chain.
MHC class II molecules play a key role in the
initiation of the antigen-specific immune reponse. In
both humans and in mice these molecules have been shown
to be expressed constitutively on the cell surface of
professional antigen-presenting cells (APCs), for
example on B-lymphocytes, monocytes, and macrophages.
The expression of these molecules has been shown to be
induced in nonprofessional APCs such as keratinocyctes,
and they are expressed on the surface of activated
human T cells and on T cells from other species. The
MHC II molecules present antigenic peptides to CD4(+)
T-lymphocytes. These peptides derive mostly from
protelytic processing via the endocytic pathway, of
antigens internalized by the APC. These peptides bind
to the MHC class II molecules in the endosome before
they are transported to the cell surface. MHC class II
molecules are heterodimers, comprised of two
similarly-sized membrane-spanning chains, alpha and
beta. Each chain had two globular domains (N- and
C-terminal), and a membrane-anchoring transmembrane
segment. The two chains form a compact four-domain
structure. The peptide-binding site is a cleft in the
structure.
Length = 94
Score = 25.8 bits (57), Expect = 3.8
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 15 PVKTISWMKDGKPVPD 30
PV ++W+K+G PV D
Sbjct: 30 PVLNVTWLKNGVPVTD 45
>gnl|CDD|235020 PRK02264, PRK02264, N(5),N(10)-methenyltetrahydromethanopterin
cyclohydrolase; Provisional.
Length = 317
Score = 26.3 bits (59), Expect = 4.2
Identities = 8/45 (17%), Positives = 21/45 (46%), Gaps = 8/45 (17%)
Query: 43 KEDKGMY---QCVIRNEQESAQASGELKLGGRFDPPVIKESFSDE 84
K D G++ + + + +G+ G+ +P ++ +SF +
Sbjct: 277 KIDPGLFAPAEVTV-----NDLDTGKTFHAGKLNPDLLLKSFGLK 316
>gnl|CDD|178317 PLN02715, PLN02715, lipid phosphate phosphatase.
Length = 327
Score = 26.2 bits (57), Expect = 4.9
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 76 VIKESFSDETLNPGPNYYFKCIASG 100
VI +S T P PN+Y++C G
Sbjct: 137 VITDSIKVATGRPRPNFYWRCFPDG 161
>gnl|CDD|143219 cd05742, Ig1_VEGFR_like, First immunoglobulin (Ig)-like domain of
vascular endothelial growth factor (VEGF) receptor (R)
and similar proteins. Ig1_VEGFR_like: first
immunoglobulin (Ig)-like domain of vascular endothelial
growth factor (VEGF) receptor(R) related proteins. The
VEGFRs have an extracellular component with seven
Ig-like domains, a transmembrane segment, and an
intracellular tyrosine kinase domain interrupted by a
kinase-insert domain. The VEGFR family consists of
three members, VEGFR-1 (Flt-1), VEGFR-2 (KDR/Flk-1) and
VEGFR-3 (Flt-4). VEGF-A interacts with both VEGFR-1 and
VEGFR-2. VEGFR-1 binds strongest to VEGF, VEGF-2 binds
more weakly. VEGFR-3 appears not to bind VEGF, but
binds other members of the VEGF family (VEGF-C and -D).
VEGFRs bind VEGFs with high affinity with the IG-like
domains. VEGF-A is important to the growth and
maintenance of vascular endothelial cells and to the
development of new blood- and lymphatic-vessels in
physiological and pathological states. VEGFR-2 is a
major mediator of the mitogenic, angiogenic and
microvascular permeability-enhancing effects of VEGF-A.
VEGFR-1 may play an inhibitory part in these processes
by binding VEGF and interfering with its interaction
with VEGFR-2. VEGFR-1 has a signaling role in mediating
monocyte chemotaxis. VEGFR-2 and -1 may mediate a
chemotactic and a survival signal in hematopoietic stem
cells or leukemia cells. VEGFR-3 has been shown to be
involved in tumor angiogenesis and growth. This group
also contains alpha-type platelet-derived growth factor
receptor precursor (PDGFR)-alpha (CD140a), and
PDGFR-beta (CD140b). PDGFRs alpha and beta have an
extracellular component with five Ig-like domains, a
transmembrane segment, and a cytoplasmic portion that
has protein tyrosine kinase activity.
Length = 84
Score = 25.0 bits (55), Expect = 4.9
Identities = 6/26 (23%), Positives = 10/26 (38%)
Query: 38 IDSVRKEDKGMYQCVIRNEQESAQAS 63
I + +D G Y C + + S
Sbjct: 53 IPNATLKDSGTYTCAASSGTMDQKES 78
>gnl|CDD|143263 cd05855, Ig_TrkB_d5, Fifth domain (immunoglobulin-like) of Trk
receptor TrkB. TrkB_d5: the fifth domain of Trk
receptor TrkB, this is an immunoglobulin (Ig)-like
domain which binds to neurotrophin. The Trk family of
receptors are tyrosine kinase receptors, which mediate
the trophic effects of the neurotrophin Nerve growth
factor (NGF) family. The Trks are activated by
dimerization, leading to autophosphorylation of
intracellular tyrosine residues, and triggering the
signal transduction pathway. TrkB shares significant
sequence homology and domain organization with TrkA, and
TrkC. The first three domains are leucine-rich domains.
The fourth and fifth domains are Ig-like domains playing
a part in ligand binding. TrKB is recognized by
brain-derived neurotrophic factor (BDNF) and
neurotrophin (NT)-4. In some cell systems NT-3 can
activate TrkA and TrkB receptors. TrKB transcripts are
found throughout multiple structures of the central and
peripheral nervous systems.
Length = 79
Score = 25.2 bits (55), Expect = 5.3
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 96 CI---ASGNPTPEISWYLDGKKLVNAE 119
CI GNP P + W+ +G L +E
Sbjct: 2 CIPFTVKGNPKPTLQWFHEGAILNESE 28
>gnl|CDD|214651 smart00407, IGc1, Immunoglobulin C-Type.
Length = 75
Score = 25.0 bits (55), Expect = 5.8
Identities = 8/36 (22%), Positives = 15/36 (41%), Gaps = 4/36 (11%)
Query: 15 PVKTISWMKDGKPVPDHNEPVFRIDSVRKEDKGMYQ 50
P T++W+++G+ V + K G Y
Sbjct: 14 PDITVTWLRNGQEVTEGVSTT----DPLKNSDGTYF 45
>gnl|CDD|215551 PLN03050, PLN03050, pyridoxine (pyridoxamine) 5'-phosphate oxidase;
Provisional.
Length = 246
Score = 25.6 bits (56), Expect = 6.8
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 68 LGGRFDPPVIKESF 81
+GGRF PP I E +
Sbjct: 217 VGGRFLPPAIAEKY 230
>gnl|CDD|219514 pfam07686, V-set, Immunoglobulin V-set domain. This domain is
found in antibodies as well as neural protein P0 and
CTL4 amongst others.
Length = 114
Score = 25.3 bits (55), Expect = 6.9
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 29 PDHNEPVFRIDSVRKEDKGMYQCVIRNEQE 58
N+ I ++R D G Y C + N E
Sbjct: 74 GSKNDFSLTISNLRLSDSGTYTCAVSNPNE 103
>gnl|CDD|149159 pfam07925, RdRP_5, Reovirus RNA-dependent RNA polymerase lambda 3.
The sequences in this family are similar to the reoviral
minor core protein lambda 3, which functions as a
RNA-dependent RNA polymerase within the protein capsid.
It is organised into 3 domains. N- and C-terminal
domains create a 'cage' that encloses a conserved
central catalytic domain within a hollow centre; this
catalytic domain is arranged to form 'fingers', 'palm'
and 'thumb' subdomains. Unlike other RNA polymerases,
like HIV reverse transcriptase and T7 RNA polymerase,
lambda 3 protein binds template and substrate with only
localised rearrangements, and catalytic activity can
occur with little structural change. However, the
structure of the catalytic complex is similar to that of
other polymerase catalytic complexes with known
structure.
Length = 1271
Score = 26.0 bits (57), Expect = 6.9
Identities = 15/66 (22%), Positives = 22/66 (33%), Gaps = 7/66 (10%)
Query: 19 ISWMKDGKPVPDHNEPVFRIDSVRK--EDKGMYQCVIRNEQESAQASGELKLGGRFDPPV 76
W P D PV+ + V + G+YQ +AQ R P
Sbjct: 915 TRWAVANGPPLDRCHPVWGLADVPSLLSEIGVYQ-----GYYAAQLPRRPTPSPRAAPRE 969
Query: 77 IKESFS 82
+E F+
Sbjct: 970 SREQFT 975
>gnl|CDD|220751 pfam10433, MMS1_N, Mono-functional DNA-alkylating methyl
methanesulfonate N-term. MMS1 is a protein that
protects against replication-dependent DNA damage in
Saccharomyces cerevisiae. MMS1 belongs to the DDB1
family of cullin 4 adaptors and the two proteins are
homologous. MMS1 bridges the interaction of MMS22 and
Crt10 with Cul8/Rtt101. Cul8/Rtt101 is a cullin protein
involved in the regulation of DNA replication subsequent
to DNA damage. The N-terminal region of MMS1 and the
C-terminal of MMS22 are required for the the MMS1-MMS22
interaction. The human HIV-1 virion-associated protein
Vpr assembles with DDB1 through interaction with DCAF1
(chromatin assembly factor) to form an E3 ubiquitin
ligase that targets cellular substrates for
proteasome-mediated degradation and subsequent G2
arrest.
Length = 513
Score = 25.8 bits (57), Expect = 7.3
Identities = 6/38 (15%), Positives = 12/38 (31%)
Query: 4 LKFFTCKYEGNPVKTISWMKDGKPVPDHNEPVFRIDSV 41
+ + + + S M +G P E +D
Sbjct: 67 FGVYPLQRDNKTQELQSQMAEGPLSPIEEERFRLVDGD 104
>gnl|CDD|165149 PHA02785, PHA02785, IL-beta-binding protein; Provisional.
Length = 326
Score = 25.7 bits (56), Expect = 7.4
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 35 VFRIDSVRKEDKGMYQCVIR 54
+ I+ VRK D G Y CV++
Sbjct: 178 IITIEDVRKNDAGYYTCVLK 197
>gnl|CDD|219478 pfam07586, HXXSHH, Protein of unknown function (DUF1552). A family
of proteins identified in Rhodopirellula baltica.
Length = 298
Score = 25.7 bits (57), Expect = 7.4
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 15 PVKTISWMKDGKPVPDHNEP 34
++SW G+P+P N+P
Sbjct: 113 YGSSLSWNGPGQPIPAENDP 132
>gnl|CDD|165173 PHA02826, PHA02826, IL-1 receptor-like protein; Provisional.
Length = 227
Score = 25.3 bits (55), Expect = 8.4
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 7/45 (15%)
Query: 17 KTISWMKDGKPVP--DH-----NEPVFRIDSVRKEDKGMYQCVIR 54
T++W K+G V D N I S +D G+Y C +R
Sbjct: 164 YTLTWYKNGNIVLYTDRIQLRNNNSTLVIKSATHDDSGIYTCNLR 208
>gnl|CDD|131459 TIGR02406, ectoine_EctA, diaminobutyrate acetyltransferase. This
enzyme family is the EctA of ectoine biosynthesis.
Ectoine is a compatible solute, analagous to trehalose,
betaines, etc., found often in halotolerant organisms.
EctA is L-2,4-diaminobutyric acid acetyltransferase,
also called DABA acetyltransferase [Cellular processes,
Adaptations to atypical conditions].
Length = 157
Score = 25.1 bits (55), Expect = 8.5
Identities = 13/34 (38%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 58 ESAQASGEL--KLGGRFDPPVIKESFSDETLNPG 89
QAS L L R +I+E F D L PG
Sbjct: 109 PDNQASRALFKALARRRGVHLIEEPFFDGELFPG 142
>gnl|CDD|215550 PLN03049, PLN03049, pyridoxine (pyridoxamine) 5'-phosphate oxidase;
Provisional.
Length = 462
Score = 25.6 bits (56), Expect = 9.1
Identities = 10/15 (66%), Positives = 10/15 (66%)
Query: 68 LGGRFDPPVIKESFS 82
LGGRF PP I E F
Sbjct: 212 LGGRFVPPAIVEKFK 226
>gnl|CDD|143304 cd05896, Ig1_IL1RAPL-1_like, First immunoglobulin (Ig)-like
domain of X-linked interleukin-1 receptor accessory
protein-like 1 (IL1RAPL-1). Ig1_ IL1RAPL-1_like:
domain similar to the first immunoglobulin (Ig)-like
domain of X-linked interleukin-1 receptor accessory
protein-like 1 (IL1RAPL-1). IL-1 alpha and IL-1 beta
are cytokines which participates in the regulation of
inflammation, immune responses, and hematopoiesis.
These cytokines bind to the IL-1 receptor type 1
(IL1R1), which is activated on additional association
with an accessory protein, IL1RAP. IL-1 also binds a
second receptor designated type II (IL1R2). Mature
IL1R1 consists of three Ig-like domains, a
transmembrane domain, and a large cytoplasmic domain.
Mature IL1R2 is organized similarly except that it has
a short cytoplasmic domain. The latter does not
initiate signal transduction. A naturally occurring
cytokine IL-1RA (IL-1 receptor antagonist) is widely
expressed and binds to IL-1 receptors, inhibiting the
binding of IL-1 alpha and IL-1 beta. IL1RAPL is encoded
by a gene on the X-chromosome, this gene is wholly or
partially deleted in multiple cases of non-syndromic
mental retardation. This group also contains IL1RAPL-2,
which is also encoded by a gene on the X-chromosome and
is a candidate for another non-syndromic mental
retardation loci.
Length = 104
Score = 24.9 bits (54), Expect = 9.3
Identities = 7/12 (58%), Positives = 10/12 (83%)
Query: 44 EDKGMYQCVIRN 55
+D G+Y CV+RN
Sbjct: 80 QDSGLYTCVLRN 91
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
0.315 0.136 0.423
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: 6,142,384
Number of extensions: 516461
Number of successful extensions: 485
Number of sequences better than 10.0: 1
Number of HSP's gapped: 445
Number of HSP's successfully gapped: 153
Length of query: 119
Length of database: 10,937,602
Length adjustment: 82
Effective length of query: 37
Effective length of database: 7,300,574
Effective search space: 270121238
Effective search space used: 270121238
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: 42 (22.0 bits)
S2: 53 (24.4 bits)