RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14080
(113 letters)
>gnl|CDD|143167 cd00099, IgV, Immunoglobulin variable domain (IgV). IgV:
Immunoglobulin variable domain (IgV). Members of the
IgV family are components of immunoglobulin (Ig) and T
cell receptors. The basic structure of Ig molecules is
a tetramer of two light chains and two heavy chains
linked by disulfide bonds. In Ig, each chain is
composed of one variable domain (IgV) and one or more
constant domains (IgC); these names reflect the fact
that the variability in sequences is higher in the
variable domain than in the constant domain. Within the
variable domain, there are regions of even more
variability called the hypervariable or
complementarity-determining regions (CDRs) which are
responsible for antigen binding. A predominant feature
of most Ig domains is the disulfide bridge connecting 2
beta-sheets with a tryptophan residue packed against
the disulfide bond.
Length = 105
Score = 36.5 bits (85), Expect = 4e-04
Identities = 13/64 (20%), Positives = 19/64 (29%), Gaps = 8/64 (12%)
Query: 37 RVSWVRRRDWH-----ILTSGVLTYTNDA---RFQVIHTDGSDDWNLQIKFLQKRDNGTY 88
+ W R++ I S + RF + L I LQ D+ Y
Sbjct: 23 YIFWYRQKPGKGPELLIYISSNGSQYAGGVKGRFSGTRDSSKSSFTLTISSLQPEDSAVY 82
Query: 89 ECQA 92
C
Sbjct: 83 YCAV 86
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 34.0 bits (78), Expect = 0.003
Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 10/66 (15%)
Query: 36 VRVSWVRRRDWHILTSGVLTYTNDARFQVIHTDGSDDWNLQIKFLQKRDNGTYECQAQPY 95
V+W ++ + SG RF V + + L I + D+GTY C A
Sbjct: 24 PEVTWYKQGGKLLAESG--------RFSVSRSGST--STLTISNVTPEDSGTYTCAATNS 73
Query: 96 TTTSHS 101
+ ++ S
Sbjct: 74 SGSASS 79
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 34.0 bits (78), Expect = 0.003
Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 10/66 (15%)
Query: 36 VRVSWVRRRDWHILTSGVLTYTNDARFQVIHTDGSDDWNLQIKFLQKRDNGTYECQAQPY 95
V+W ++ + SG RF V + + L I + D+GTY C A
Sbjct: 24 PEVTWYKQGGKLLAESG--------RFSVSRSGST--STLTISNVTPEDSGTYTCAATNS 73
Query: 96 TTTSHS 101
+ ++ S
Sbjct: 74 SGSASS 79
>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 = 34.1 bits (78), Expect = 0.004
Identities = 13/70 (18%), Positives = 23/70 (32%), Gaps = 10/70 (14%)
Query: 32 DIVKVRVSWVRRRDWHILTSGVLTYTNDA----------RFQVIHTDGSDDWNLQIKFLQ 81
V W ++ + T+ R + +D++L I L+
Sbjct: 28 SSGSTSVYWYKQPLGKGPELIIHYVTSTPNGKVGPRFKGRVTLSGNGSKNDFSLTISNLR 87
Query: 82 KRDNGTYECQ 91
D+GTY C
Sbjct: 88 LSDSGTYTCA 97
>gnl|CDD|143252 cd05775, Ig_SLAM-CD84_like_N, N-terminal immunoglobulin (Ig)-like
domain of the signaling lymphocyte activation molecule
(SLAM) family, CD84_like. Ig_SLAM-CD84_like_N: The
N-terminal immunoglobulin (Ig)-like domain of the
signaling lymphocyte activation molecule (SLAM) family,
CD84_like. The SLAM family is a group of immune-cell
specific receptors that can regulate both adaptive and
innate immune responses. Members of this group include
proteins such as CD84, SLAM (CD150), Ly-9 (CD229), NTB-A
(ly-108, SLAM6), 19A (CRACC), and SLAMF9. The genes
coding for the SLAM family are nested on chromosome 1,
in humans at 1q23, and in mice at 1H2. The SLAM family
is a subset of the CD2 family, which also includes CD2
and CD58 located on chromosome 1 at 1p13 in humans. In
mice, CD2 is located on chromosome 3, and there is no
CD58 homolog. The SLAM family proteins are organized as
an extracellular domain with either two or four Ig-like
domains, a single transmembrane segment, and a
cytoplasmic region having Tyr-based motifs. The
extracellular domain is organized as a membrane-distal
Ig variable (IgV) domain that is responsible for ligand
recognition and a membrane-proximal truncated Ig
constant-2 (IgC2) domain.
Length = 97
Score = 31.1 bits (71), Expect = 0.034
Identities = 13/71 (18%), Positives = 25/71 (35%), Gaps = 9/71 (12%)
Query: 38 VSWVRRRD-----WHILTSGVLTYTNDARFQVIHTDGSDDWNLQIKFLQKRDNGTYE--- 89
++W T+ + T+ ++ +D++LQI L+ D G+Y
Sbjct: 22 ITWSFNTSLAIITPGEETAPEIIVTDP-SYKERVNFSQNDYSLQISNLKMEDAGSYRAEI 80
Query: 90 CQAQPYTTTSH 100
T T
Sbjct: 81 NTKNGVTITKE 91
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 29.7 bits (67), Expect = 0.065
Identities = 8/38 (21%), Positives = 14/38 (36%)
Query: 56 YTNDARFQVIHTDGSDDWNLQIKFLQKRDNGTYECQAQ 93
+ + + L IK + D+G Y C A+
Sbjct: 22 LKDGKPLPESNRFVASGSTLTIKSVSLEDSGLYTCVAE 59
>gnl|CDD|143165 cd00096, Ig, Immunoglobulin domain. Ig: immunoglobulin (Ig) domain
found in the Ig superfamily. The Ig superfamily is a
heterogenous group of proteins, built on a common fold
comprised of a sandwich of two beta sheets. Members of
this group are components of immunoglobulin, neuroglia,
cell surface glycoproteins, such as, T-cell receptors,
CD2, CD4, CD8, and membrane glycoproteins, such as,
butyrophilin and chondroitin sulfate proteoglycan core
protein. A predominant feature of most Ig domains is a
disulfide bridge connecting the two beta-sheets with a
tryptophan residue packed against the disulfide bond.
Length = 74
Score = 30.1 bits (67), Expect = 0.075
Identities = 15/74 (20%), Positives = 23/74 (31%), Gaps = 8/74 (10%)
Query: 29 TVRDIVKVRVSWVRRRDWHILTSGVLTYTNDARFQVIHTDGSDDWNLQIKFLQKRDNGTY 88
++W++ L + R + S L I + D+GTY
Sbjct: 6 LASGPPPPTITWLKN-------GKPLPSSVLTRVRSSRGTSSGSSTLTISNVTLEDSGTY 58
Query: 89 ECQAQ-PYTTTSHS 101
C A T S S
Sbjct: 59 TCVASNSAGTVSAS 72
>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 = 30.1 bits (68), Expect = 0.075
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 71 DDWNLQIKFLQKRDNGTYECQAQ 93
DD NL I +K D GTY+C A
Sbjct: 49 DDGNLLIAEARKSDEGTYKCVAT 71
>gnl|CDD|143279 cd05871, Ig_Semaphorin_classIII, Immunoglobulin (Ig)-like domain
of class III semaphorin. Ig_Semaphorin_class III;
Immunoglobulin (Ig)-like domain of class III
semaphorins. Semaphorins are classified into various
classes on the basis of structural features additional
to the Sema domain. Class III semaphorins are a
vertebrate class having a Sema domain, an Ig domain, a
short basic domain, and are secreted. They have been
shown to be axonal guidance cues and have a part in the
regulation of the cardiovascular, immune and
respiratory systems. Sema3A, the prototype member of
this class III subfamily, induces growth cone collapse
and is an inhibitor of axonal sprouting. In perinatal
rat cortex as a chemoattractant, it functions to
direct, for pyramidal neurons, the orientated extension
of apical dendrites. It may play a role, prior to the
development of apical dendrites, in signaling the
radial migration of newborn cortical neurons towards
the upper layers. Sema3A selectively inhibits vascular
endothelial growth factor receptor (VEGF)-induced
angiogenesis and induces microvascular permeability.
This group also includes Sema3B, -C, -D, -E, -G.
Length = 91
Score = 29.3 bits (66), Expect = 0.15
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 64 VIHTDGSDDWNLQIKFLQKRDNGTYECQAQ 93
+IHT+ L ++ LQ+ D G Y C A
Sbjct: 48 LIHTERG----LLLRSLQRSDAGVYTCTAV 73
>gnl|CDD|152702 pfam12267, DUF3614, Protein of unknown function (DUF3614). This
family of proteins is found in viruses. Proteins in this
family are typically between 162 and 495 amino acids in
length.
Length = 173
Score = 29.5 bits (66), Expect = 0.29
Identities = 8/38 (21%), Positives = 11/38 (28%)
Query: 37 RVSWVRRRDWHILTSGVLTYTNDARFQVIHTDGSDDWN 74
RV VR W ++ V N R +
Sbjct: 97 RVDSVRGSGWIVVGGVVHEALNKIREGRLRFRVGGIMR 134
>gnl|CDD|143278 cd05870, Ig5_NCAM-2, Fifth immunoglobulin (Ig)-like domain of
Neural Cell Adhesion Molecule NCAM-2 (also known as
OCAM/mamFas II and RNCAM). Ig5_NCAM-2: the fifth
immunoglobulin (Ig)-like domain of Neural Cell Adhesion
Molecule NCAM-2 (also known as OCAM/mamFas II and
RNCAM). NCAM-2 is organized similarly to NCAM ,
including five N-terminal Ig-like domains and two
fibronectin type III domains. NCAM-2 is differentially
expressed in the developing and mature olfactory
epithelium (OE), and may function like NCAM, as an
adhesion molecule.
Length = 98
Score = 28.4 bits (63), Expect = 0.37
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 38 VSWVRRRDWHILTSGVLTYTNDARFQVIHTDGSDDWNLQIKFLQKRDNGTYECQA 92
++W R D H + G + D R +V G +L IK ++ D+G Y+C+A
Sbjct: 33 ITWKRASDGHTFSEG--DKSPDGRIEVKGQHGES--SLHIKDVKLSDSGRYDCEA 83
>gnl|CDD|143183 cd04982, IgV_TCR_gamma, Immunoglobulin (Ig) variable (V) domain
of T-cell receptor (TCR) gamma chain. IgV_TCR_gamma:
immunoglobulin (Ig) variable (V) domain of the gamma
chain of gamma/delta T-cell receptors (TCRs). TCRs
mediate antigen recognition by T lymphocytes, and are
heterodimers consisting of alpha and beta chains or
gamma and delta chains. Each chain contains a variable
(V) and a constant (C) region. The majority of T cells
contain alpha/beta TCRs but a small subset contain
gamma/delta TCRs. Alpha/beta TCRs recognize antigen as
peptide fragments presented by major histocompatibility
complex (MHC) molecules. Gamma/delta TCRs recognize
intact protein antigens; they recognize protein
antigens directly and without antigen processing, and
MHC independently of the bound peptide. Gamma/delta T
cells can also be stimulated by non-peptide antigens
such as small phosphate- or amine-containing compounds.
The variable domain of gamma/delta TCRs is responsible
for antigen recognition and is located at the
N-terminus of the receptor.
Length = 116
Score = 28.5 bits (64), Expect = 0.44
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 61 RFQVIHTDGSDDWNLQIKFLQKRDNGTYEC 90
+F+ G L I+ L+K D+ TY C
Sbjct: 65 KFEARKDVGKSTSTLTIQNLEKEDSATYYC 94
>gnl|CDD|143169 cd04968, Ig3_Contactin_like, Third Ig domain of contactin.
Ig3_Contactin_like: Third Ig domain of contactins.
Contactins are neural cell adhesion molecules and are
comprised of six Ig domains followed by four
fibronectin type III(FnIII) domains anchored to the
membrane by glycosylphosphatidylinositol. The first
four Ig domains form the intermolecular binding
fragment, which arranges as a compact U-shaped module
via contacts between Ig domains 1 and 4, and between Ig
domains 2 and 3. Contactin-2 (TAG-1, axonin-1) may play
a part in the neuronal processes of neurite outgrowth,
axon guidance and fasciculation, and neuronal
migration. This group also includes contactin-1 and
contactin-5. The different contactins show different
expression patterns in the central nervous system.
During development and in adulthood, contactin-2 is
transiently expressed in subsets of central and
peripheral neurons. Contactin-5 is expressed
specifically in the rat postnatal nervous system,
peaking at about 3 weeks postnatal, and a lack of
contactin-5 (NB-2) results in an impairment of neuronal
act ivity in the rat auditory system. Contactin-5 is
highly expressed in the adult human brain in the
occipital lobe and in the amygdala. Contactin-1 is
differentially expressed in tumor tissues and may,
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 88
Score = 28.2 bits (63), Expect = 0.45
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 75 LQIKFLQKRDNGTYECQAQ 93
L+I +Q D GTYEC+A+
Sbjct: 55 LKIPNIQFEDEGTYECEAE 73
>gnl|CDD|214650 smart00406, IGv, Immunoglobulin V-Type.
Length = 81
Score = 27.3 bits (61), Expect = 0.71
Identities = 17/63 (26%), Positives = 23/63 (36%), Gaps = 9/63 (14%)
Query: 38 VSWVRRRD---------WHILTSGVLTYTNDARFQVIHTDGSDDWNLQIKFLQKRDNGTY 88
VSWVR+ S + RF + +D +L I L+ D GTY
Sbjct: 18 VSWVRQPPGKGLEWLGYIGSNGSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTY 77
Query: 89 ECQ 91
C
Sbjct: 78 YCA 80
>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 = 27.3 bits (60), Expect = 0.95
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 75 LQIKFLQKRDNGTYECQAQPY 95
L+I +Q D GTYEC+A+
Sbjct: 55 LKIFNIQPEDEGTYECEAENI 75
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 26.8 bits (60), Expect = 1.1
Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 57 TNDARFQVIHTDGSDDWNLQIKFLQKRDNGTYECQAQ 93
+ RF+V + G+ L I +Q D G Y C A
Sbjct: 42 RSSDRFKVTYEGGTY--TLTISNVQPDDEGKYTCVAT 76
>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 = 26.0 bits (57), Expect = 1.5
Identities = 7/38 (18%), Positives = 12/38 (31%)
Query: 55 TYTNDARFQVIHTDGSDDWNLQIKFLQKRDNGTYECQA 92
++ + L I + D+GTY C
Sbjct: 25 KGLEESTTVGTDENRVSSITLTISNVTPEDSGTYTCVV 62
>gnl|CDD|143204 cd05727, Ig2_Contactin-2-like, Second Ig domain of the neural
cell adhesion molecule contactin-2 and similar
proteins. Ig2_Contactin-2-like: second 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 = 96
Score = 26.7 bits (59), Expect = 1.6
Identities = 15/44 (34%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 57 TNDARFQVIHTDGSDDWNLQIKFLQKRDNGTYECQAQ-PYTTTS 99
D R V T+G NL I ++ D G Y C P +T S
Sbjct: 48 PEDGRRFVSQTNG----NLYIAKVEASDRGNYSCFVSSPSSTKS 87
>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 = 26.3 bits (58), Expect = 1.6
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 71 DDWNLQIKFLQKRDNGTYECQA 92
D +L+I + K D G Y C A
Sbjct: 37 PDGSLEILNVTKSDEGKYTCFA 58
>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 = 26.2 bits (58), Expect = 1.6
Identities = 10/35 (28%), Positives = 20/35 (57%), Gaps = 5/35 (14%)
Query: 59 DARFQVIHTDGSDDWNLQIKFLQKRDNGTYECQAQ 93
R +++ DD +L+I+ + D G+Y C+A+
Sbjct: 26 KGRAEIL-----DDKSLKIRNVTAGDEGSYTCEAE 55
>gnl|CDD|143192 cd05715, Ig_P0-like, Immunoglobulin (Ig)-like domain of Protein
zero (P0) and similar proteins. Ig_P0ex-like: domain
similar to the immunoglobulin (Ig) domain of Protein
zero (P0). P0 accounts for over 50% of the total
protein in peripheral nervous system (PNS) myelin. P0
is a single-pass transmembrane glycoprotein with a
highly basic intracellular domain and an extracellular
Ig domain. The extracellular domain of P0 (P0-ED) is
similar to the Ig variable domain, carrying one
acceptor sequence for N-linked glycosylation. P0 plays
a role in membrane adhesion in the spiral wraps of the
myelin sheath. The intracellular domain is thought to
mediate membrane apposition of the cytoplasmic faces
and may, through electrostatic interactions, interact
directly with lipid headgroups. It is thought that
homophilic interactions of the P0 extracellular domain
mediate membrane juxtaposition in the extracellular
space of PNS myelin. This group also contains the Ig
domain of Sodium channel subunit beta-2 (SCN2B), and of
epithelial V-like antigen 1 (EVA). EVA, also known as
myelin protein zero-like 2, is an adhesion molecule,
which may play a role in structural organization of the
thymus and early lymphocyte development. SCN2B subunits
play a role in determining sodium channel density and
function in neurons,and in control of electrical
excitability in the brain.
Length = 116
Score = 26.9 bits (60), Expect = 1.7
Identities = 13/39 (33%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 58 NDARFQ-VIHTDGSDDWN---LQIKFLQKRDNGTYECQA 92
D RF+ + G+ + I LQ DNGTY C
Sbjct: 61 KDGRFKDRVEWVGNPSRKDASIVIHNLQFTDNGTYTCDV 99
>gnl|CDD|143260 cd05852, Ig5_Contactin-1, Fifth Ig domain of contactin-1.
Ig5_Contactin-1: fifth Ig domain of the neural cell
adhesion molecule contactin-1. Contactins are comprised
of six Ig domains followed by four fibronectin type III
(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. Contactin-1 is
differentially expressed in tumor tissues and may
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 73
Score = 26.1 bits (57), Expect = 1.7
Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 14/59 (23%)
Query: 35 KVRVSWVRRRDWHILTSGVLTYTNDARFQVIHTDGSDDWNLQIKFLQKRDNGTYECQAQ 93
K + SW + + + S + + DD +L+I + K D G+Y C A+
Sbjct: 15 KPKFSWSKGTELLVNNSRISIW--------------DDGSLEILNITKLDEGSYTCFAE 59
>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 = 26.3 bits (58), Expect = 1.8
Identities = 11/42 (26%), Positives = 17/42 (40%), Gaps = 3/42 (7%)
Query: 53 VLTYTNDARFQVIHTDGSD---DWNLQIKFLQKRDNGTYECQ 91
+T+ D + G W L +K L+ D+G Y C
Sbjct: 25 DITWLKDNKPLTPTEIGESRKKKWTLSLKNLKPEDSGKYTCH 66
>gnl|CDD|131885 TIGR02838, spore_V_AC, stage V sporulation protein AC. This
model describes stage V sporulation protein AC, a
paralog of stage V sporulation protein AE. Both are
proteins found to present in a species if and only if
that species is one of the Firmicutes capable of
endospore formation, as of the time of the publication
of the genome of Carboxydothermus hydrogenoformans.
Mutants in spoVAC have a stage V sproulation defect
[Cellular processes, Sporulation and germination].
Length = 141
Score = 26.9 bits (60), Expect = 1.9
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 6 GGILTAFGQ-ISTGFLAVFSYSDKTVRDIV 34
GG++ GQ IS +L F +S+KT
Sbjct: 27 GGLICLIGQLISDFYLRYFQFSEKTAGSPT 56
>gnl|CDD|238363 cd00707, Pancreat_lipase_like, Pancreatic lipase-like enzymes.
Lipases are esterases that can hydrolyze long-chain
acyl-triglycerides into di- and monoglycerides,
glycerol, and free fatty acids at a water/lipid
interface. A typical feature of lipases is "interfacial
activation," the process of becoming active at the
lipid/water interface, although several examples of
lipases have been identified that do not undergo
interfacial activation . The active site of a lipase
contains a catalytic triad consisting of Ser - His -
Asp/Glu, but unlike most serine proteases, the active
site is buried inside the structure. A "lid" or "flap"
covers the active site, making it inaccessible to
solvent and substrates. The lid opens during the process
of interfacial activation, allowing the lipid substrate
access to the active site.
Length = 275
Score = 26.8 bits (60), Expect = 2.6
Identities = 9/13 (69%), Positives = 11/13 (84%), Gaps = 1/13 (7%)
Query: 58 NDARF-QVIHTDG 69
+DA+F VIHTDG
Sbjct: 162 SDAQFVDVIHTDG 174
>gnl|CDD|222457 pfam13927, Ig_3, Immunoglobulin domain. This family contains
immunoglobulin-like domains.
Length = 74
Score = 25.4 bits (55), Expect = 3.9
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 75 LQIKFLQKRDNGTYECQAQ 93
L + + D+GTY C A
Sbjct: 55 LTLSSVTSEDSGTYTCVAS 73
>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 = 25.0 bits (54), Expect = 4.5
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 75 LQIKFLQKRDNGTYECQAQPYTTTSHSQNA 104
LQI+ ++ D G YEC A T +S A
Sbjct: 40 LQIENSEESDQGKYECVATNSAGTRYSAPA 69
>gnl|CDD|143308 cd05900, Ig_Aggrecan, Immunoglobulin (Ig)-like domain of the
chondroitin sulfate proteoglycan core protein (CSPG),
aggrecan. Ig_Aggrecan: immunoglobulin (Ig)-like domain
of the chondroitin sulfate proteoglycan core protein
(CSPG), aggrecan. These aggregates contribute to the
tissue's load bearing properties. In CSPGs, the 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 HA.
These aggregates contribute to the tissue's load
bearing properties. Aggrecan has a wide distribution in
connective tissue and extracellular matrices. Members
of the vertebrate HPLN (hyaluronan/HA and proteoglycan
binding link) protein family are physically linked
adjacent to CSPG genes.
Length = 112
Score = 25.3 bits (55), Expect = 5.0
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 70 SDDWNLQIKFLQKRDNGTYECQ 91
D L+I L+ D+GTY C+
Sbjct: 71 PSDATLEITELRSNDSGTYRCE 92
>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 = 25.1 bits (55), Expect = 6.3
Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 5/49 (10%)
Query: 46 WHILTSGVLTYTNDARFQVIHTDGSDDWNLQIKFLQKRDNGTYECQAQP 94
W G L + +++ T+ L I+ + D G Y CQ+
Sbjct: 29 WL-FQGGPLQRKEEPEERLLVTED----GLLIRSVSPADAGVYTCQSVE 72
>gnl|CDD|149877 pfam08943, CsiD, CsiD. This family consists of various bacterial
proteins pertaining to the non-haem Fe(II)-dependent
oxygenase family. Exact function is unknown, but a
putative role includes involvement in the control of
utilisation of gamma-aminobutyric acid.
Length = 297
Score = 25.4 bits (56), Expect = 8.5
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 60 ARFQVIHTDGSDDWNLQI-KFLQKRDNGTYECQAQPYT--TTSHSQNAPGLGDLLMH 113
ARF V + D SD + Q + ++ ++GTY + + QN G LL+H
Sbjct: 117 ARFVVKNEDNSDSYLRQAHRLMELHNDGTYVEEITDWVLMMKIDEQNMVGGESLLLH 173
>gnl|CDD|235092 PRK02963, PRK02963, carbon starvation induced protein; Validated.
Length = 316
Score = 25.4 bits (56), Expect = 9.1
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 60 ARFQVIHTDGSDDWNLQI-KFLQKRDNGTYECQAQPYT--TTSHSQNAPGLGDLLMH 113
ARF V + D SD + Q + ++ ++GTY + Y QN G LL+H
Sbjct: 130 ARFVVKNVDNSDSYLRQPHRVMELHNDGTYVEEITDYVLMMKIDEQNMQGGNSLLLH 186
>gnl|CDD|211347 cd02870, PseudoU_synth_RsuA_like, Pseudouridine synthases, RsuA
subfamily. Pseudouridine synthases are responsible
for the synthesis of pseudouridine from uracil in
ribosomal RNA. The RsuA subfamily includes
Pseudouridine Synthase similar to Ribosomal small
subunit pseudouridine 516 synthase. Most of the
proteins in this family are bacterial proteins.
Length = 146
Score = 24.8 bits (55), Expect = 9.4
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 5/38 (13%)
Query: 28 KTVRDIVKV---RVSWVRRRDWHILTSGVLTYTNDARF 62
TV D++K R+ V R D+ T G+L TND
Sbjct: 21 PTVLDLLKDVGERLFPVGRLDYD--TEGLLLLTNDGEL 56
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
0.321 0.135 0.421
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: 5,633,987
Number of extensions: 463806
Number of successful extensions: 416
Number of sequences better than 10.0: 1
Number of HSP's gapped: 416
Number of HSP's successfully gapped: 39
Length of query: 113
Length of database: 10,937,602
Length adjustment: 77
Effective length of query: 36
Effective length of database: 7,522,344
Effective search space: 270804384
Effective search space used: 270804384
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.4 bits)