RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12134
(139 letters)
>gnl|CDD|143241 cd05764, Ig_2, Subgroup of the immunoglobulin (Ig) superfamily.
Ig_2: subgroup of the immunoglobulin (Ig) domain found
in the Ig superfamily. The Ig superfamily is a
heterogenous group of proteins, built on a common fold
comprised of a sandwich of two beta sheets. Members of
the Ig superfamily are components of immunoglobulin,
neuroglia, cell surface glycoproteins, such as T-cell
receptors, CD2, CD4, CD8, and membrane glycoproteins,
such as butyrophilin and chondroitin sulfate
proteoglycan core protein. A predominant feature of
most Ig domains is a disulfide bridge connecting the
two beta-sheets with a tryptophan residue packed
against the disulfide bond.
Length = 74
Score = 35.9 bits (83), Expect = 6e-04
Identities = 15/35 (42%), Positives = 23/35 (65%)
Query: 11 LLYNRESLDLDRVTLKLAGLYQCIASNNIGESTSK 45
L+Y+ +LD+ T+K G + CIASN GE+T+
Sbjct: 35 LVYDNGTLDILITTVKDTGSFTCIASNAAGEATAT 69
>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 = 31.2 bits (71), Expect = 0.030
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 17 SLDLDRVTLKLAGLYQCIASNNIGESTSK 45
SL + VT G Y C A N +G+ +
Sbjct: 36 SLKIRNVTAGDEGSYTCEAENMVGKIEAS 64
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 30.8 bits (70), Expect = 0.034
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 14 NRESLDLDRVTLKLAGLYQCIASNNIG 40
+ +L + V+L+ +GLY C+A N+ G
Sbjct: 37 SGSTLTIKSVSLEDSGLYTCVAENSAG 63
>gnl|CDD|143165 cd00096, Ig, Immunoglobulin domain. Ig: immunoglobulin (Ig)
domain found in the Ig superfamily. The Ig superfamily
is a heterogenous group of proteins, built on a common
fold comprised of a sandwich of two beta sheets.
Members of this group are components of immunoglobulin,
neuroglia, cell surface glycoproteins, such as, T-cell
receptors, CD2, CD4, CD8, and membrane glycoproteins,
such as, butyrophilin and chondroitin sulfate
proteoglycan core protein. A predominant feature of
most Ig domains is a disulfide bridge connecting the
two beta-sheets with a tryptophan residue packed
against the disulfide bond.
Length = 74
Score = 30.9 bits (69), Expect = 0.055
Identities = 13/45 (28%), Positives = 22/45 (48%)
Query: 1 MLVIFFSKIELLYNRESLDLDRVTLKLAGLYQCIASNNIGESTSK 45
+L S +L + VTL+ +G Y C+ASN+ G ++
Sbjct: 28 VLTRVRSSRGTSSGSSTLTISNVTLEDSGTYTCVASNSAGTVSAS 72
>gnl|CDD|143266 cd05858, Ig3_FGFR-2, Third immunoglobulin (Ig)-like domain of
fibroblast growth factor receptor 2 (FGFR2).
Ig3_FGFR-2-like; domain similar to the third
immunoglobulin (Ig)-like domain of human fibroblast
growth factor receptor 2 (FGFR2). Fibroblast growth
factors (FGFs) participate in morphogenesis,
development, angiogenesis, and wound healing. These
FGF-stimulated processes are mediated by four FGFR
tyrosine kinases (FGRF1-4). FGFRs are comprised of an
extracellular portion consisting of three Ig-like
domains, a transmembrane helix, and a cytoplasmic
portion having protein tyrosine kinase activity. The
highly conserved Ig-like domains 2 and 3, and the
linker region between D2 and D3 define a general
binding site for FGFs. FGFR2 is required for male sex
determination.
Length = 90
Score = 29.9 bits (67), Expect = 0.14
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 16 ESLDLDRVTLKLAGLYQCIASNNIGES 42
E L L VT + AG Y C+A N+IG S
Sbjct: 55 EVLYLRNVTFEDAGEYTCLAGNSIGIS 81
>gnl|CDD|143208 cd05731, Ig3_L1-CAM_like, Third immunoglobulin (Ig)-like domain
of the L1 cell adhesion molecule (CAM).
Ig3_L1-CAM_like: domain similar to the third
immunoglobulin (Ig)-like domain of the L1 cell adhesion
molecule (CAM). L1 belongs to the L1 subfamily of cell
adhesion molecules (CAMs) and is comprised of an
extracellular region having six Ig-like domains and
five fibronectin type III domains, a transmembrane
region and an intracellular domain. L1 is primarily
expressed in the nervous system and is involved in its
development and function. L1 is associated with an
X-linked recessive disorder, X-linked hydrocephalus,
MASA syndrome, or spastic paraplegia type 1, that
involves abnormalities of axonal growth. This group
also contains the chicken neuron-glia cell adhesion
molecule, Ng-CAM and human neurofascin.
Length = 71
Score = 29.3 bits (66), Expect = 0.16
Identities = 13/44 (29%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 8 KIELLYNRESLDLDRVTLKLAGLYQCIASNNIGESTSKNFIVNV 51
+ + ++L +D V+ + G Y+C ASN++G S V V
Sbjct: 28 RTKFENFNKTLKIDNVSEEDDGEYRCTASNSLG-SARHTISVTV 70
>gnl|CDD|237941 PRK15315, PRK15315, outer membrane protein RatA; Provisional.
Length = 1865
Score = 30.8 bits (69), Expect = 0.20
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 28 AGLYQCIASNNIGESTSKNFIVNVIYPPEVSVEKQWIHTAPDMRA 72
A LY+ N S S + I V+ P+VSV + W H AP + A
Sbjct: 1119 ATLYE-----NAAVSASIDTIFTVVTSPDVSVARMWGHMAPSLTA 1158
>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 = 29.4 bits (66), Expect = 0.22
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 28 AGLYQCIASNNIGESTSKN 46
G+Y C+A N++GE+ S+N
Sbjct: 76 EGVYVCVAHNSLGEAVSRN 94
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 29.0 bits (65), Expect = 0.24
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 14 NRESLDLDRVTLKLAGLYQCIASNNIGESTS 44
+ +L + VT + +G Y C A+N+ G ++S
Sbjct: 49 STSTLTISNVTPEDSGTYTCAATNSSGSASS 79
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 29.0 bits (65), Expect = 0.24
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 14 NRESLDLDRVTLKLAGLYQCIASNNIGESTS 44
+ +L + VT + +G Y C A+N+ G ++S
Sbjct: 49 STSTLTISNVTPEDSGTYTCAATNSSGSASS 79
>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 = 28.8 bits (64), Expect = 0.38
Identities = 16/44 (36%), Positives = 25/44 (56%)
Query: 8 KIELLYNRESLDLDRVTLKLAGLYQCIASNNIGESTSKNFIVNV 51
+++L + +L + VT G YQC ASN + TS +I+NV
Sbjct: 47 RLQLSNDNRTLTFNNVTRSDTGHYQCEASNEVSNMTSDPYILNV 90
>gnl|CDD|206066 pfam13895, Ig_2, Immunoglobulin domain. This domain contains
immunoglobulin-like domains.
Length = 80
Score = 28.2 bits (63), Expect = 0.47
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 22 RVTLKLAGLYQCIASNNIGESTSKNFIVNV 51
V+ + +G Y C+ASN G TS + V
Sbjct: 51 NVSAEDSGTYTCVASNGGGGKTSNPVTLTV 80
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 28.4 bits (64), Expect = 0.47
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 14 NRESLDLDRVTLKLAGLYQCIASNNIGESTSKNFIVNV 51
+L + V G Y C+A+N+ GE+ + + V
Sbjct: 54 GTYTLTISNVQPDDEGKYTCVATNSAGEAEAS-AELTV 90
>gnl|CDD|218345 pfam04952, AstE_AspA, Succinylglutamate desuccinylase /
Aspartoacylase family. This family includes
Succinylglutamate desuccinylase EC:3.1.-.- that
catalyzes the fifth and last step in arginine
catabolism by the arginine succinyltransferase pathway.
The family also include aspartoacylase EC:3.5.1.15
which cleaves acylaspartate into a fatty acid and
aspartate. Mutations in human ASPA lead to Canavan
disease disease. This family is probably structurally
related to pfam00246 (Bateman A pers. obs.).
Length = 289
Score = 28.1 bits (63), Expect = 1.4
Identities = 8/38 (21%), Positives = 13/38 (34%), Gaps = 4/38 (10%)
Query: 61 KQWIH--TAPDMRAEIICNVYANPPAKRFDEGTRFDEG 96
++ + ANPPA F G+R+
Sbjct: 23 RRLLRQLDPAQRAGTRTLVPLANPPA--FRAGSRYIPI 58
>gnl|CDD|233340 TIGR01279, DPOR_bchN, light-independent protochlorophyllide
reductase, N subunit. This enzyme describes the N
subunit of the dark form protochlorophyllide reductase,
a nitrogenase-like enzyme involved in
bacteriochlorophyll biosynthesis. This subunit shows
homology to the nitrogenase molybdenum-iron protein NifN
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 407
Score = 28.2 bits (63), Expect = 1.4
Identities = 12/30 (40%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 83 PAKRFDEGTRFDEGTVTAKVLQPFSERTLS 112
PA F E GTV A LQP+ T +
Sbjct: 186 PASHFTELPVIGPGTVVAP-LQPYLSDTAT 214
>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 = 27.0 bits (60), Expect = 1.5
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 29 GLYQCIASNNIGESTSKN 46
G YQC ASN +G + S
Sbjct: 56 GEYQCYASNELGTAISNE 73
>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 = 27.0 bits (60), Expect = 1.6
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 28 AGLYQCIASNNIG 40
AG YQC+ASN +G
Sbjct: 71 AGRYQCLASNIVG 83
>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 = 26.6 bits (59), Expect = 1.8
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 28 AGLYQCIASNNIGESTSK 45
G Y+C+A+N +GE S
Sbjct: 63 EGTYKCVATNMVGERESA 80
>gnl|CDD|235024 PRK02287, PRK02287, hypothetical protein; Provisional.
Length = 171
Score = 27.5 bits (62), Expect = 1.9
Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 84 AKRFDEGTRFDEGTVTAKVLQPFSERTLSVQDKI 117
A+ + G++ VL PF+E+ LS D+
Sbjct: 28 ARLVRSIRKIPRGSI---VLNPFAEKALSPADRD 58
>gnl|CDD|222457 pfam13927, Ig_3, Immunoglobulin domain. This family contains
immunoglobulin-like domains.
Length = 74
Score = 26.2 bits (57), Expect = 2.3
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 17 SLDLDRVTLKLAGLYQCIASN 37
+L L VT + +G Y C+ASN
Sbjct: 54 TLTLSSVTSEDSGTYTCVASN 74
>gnl|CDD|143209 cd05732, Ig5_NCAM-1_like, Fifth immunoglobulin (Ig)-like domain
of Neural Cell Adhesion Molecule NCAM-1 (NCAM) and
similar proteins. Ig5_NCAM-1 like: domain similar to
the fifth immunoglobulin (Ig)-like domain of Neural
Cell Adhesion Molecule NCAM-1 (NCAM). NCAM plays
important roles in the development and regeneration of
the central nervous system, in synaptogenesis and
neural migration. NCAM mediates cell-cell and
cell-substratum recognition and adhesion via homophilic
(NCAM-NCAM), and heterophilic (NCAM-non-NCAM),
interactions. NCAM is expressed as three major isoforms
having different intracellular extensions. The
extracellular portion of NCAM has five N-terminal
Ig-like domains and two fibronectin type III domains.
The double zipper adhesion complex model for NCAM
homophilic binding involves Ig1, Ig2, and Ig3. By this
model, Ig1 and Ig2 mediate dimerization of NCAM
molecules situated on the same cell surface (cis
interactions), and Ig3 domains mediate interactions
between NCAM molecules expressed on the surface of
opposing cells (trans interactions), through binding to
the Ig1 and Ig2 domains. The adhesive ability of NCAM
is modulated by the addition of polysialic acid chains
to the fifth Ig-like domain. Also included in this
group is NCAM-2 (also known as OCAM/mamFas II and
RNCAM) NCAM-2 is differentially expressed in the
developing and mature olfactory epithelium (OE).
Length = 96
Score = 26.3 bits (58), Expect = 2.8
Identities = 14/28 (50%), Positives = 14/28 (50%)
Query: 13 YNRESLDLDRVTLKLAGLYQCIASNNIG 40
SL L V L AG Y C ASN IG
Sbjct: 59 ARVSSLTLKDVQLTDAGRYDCEASNRIG 86
>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 = 3.0
Identities = 14/43 (32%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 2 LVIFFSKIELLYNRESLDLDRVTLKLAGLYQCIASNNIGESTS 44
L++ S+I +++ SL++ +T G Y C A NN G++ S
Sbjct: 26 LLVNNSRI-SIWDDGSLEILNITKLDEGSYTCFAENNRGKANS 67
>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 = 26.1 bits (57), Expect = 3.1
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 29 GLYQCIASNNIGESTSKNFIV 49
G+YQC A N G + S N ++
Sbjct: 56 GVYQCTARNERGAAVSNNIVI 76
>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 = 26.1 bits (57), Expect = 3.5
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 17 SLDLDRVTLKLAGLYQCIASNNIGE 41
SL L + AG Y C ASN IG+
Sbjct: 64 SLTLKYIQYTDAGEYLCTASNTIGQ 88
>gnl|CDD|236212 PRK08270, PRK08270, anaerobic ribonucleoside triphosphate
reductase; Provisional.
Length = 656
Score = 27.1 bits (61), Expect = 3.6
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 5/31 (16%)
Query: 27 LAGLYQCIASNNIGESTSKNFIVNVIYPPEV 57
L GL NI + N+ +N +YPPE+
Sbjct: 126 LQGLI-----LNISGKVTANYWLNKVYPPEI 151
>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 = 25.7 bits (56), Expect = 3.6
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 8 KIELLYNRESLDLDRVTLKLAGLYQCIASNNIGESTSKNFIVNV 51
+I+LL N SL + V + +G Y C SN++G SK+ ++ V
Sbjct: 37 RIQLLSN-GSLLIKHVLEEDSGYYLCKVSNDVGADASKSMVLTV 79
>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 = 25.3 bits (55), Expect = 4.6
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 12 LYNRESLDLDRVTLKLAGLYQCIASNNIG 40
L N ++L LD V G Y C A N+ G
Sbjct: 32 LNNNKTLQLDNVLESDDGEYVCTAENSEG 60
>gnl|CDD|216403 pfam01271, Granin, Granin (chromogranin or secretogranin).
Length = 585
Score = 26.9 bits (59), Expect = 4.8
Identities = 11/45 (24%), Positives = 16/45 (35%), Gaps = 2/45 (4%)
Query: 82 PPAKRFDEGTRFDEGTVTAKVLQPFSERTLSVQDKIGPGPDSNLR 126
+F EG +E T + F E +K P P +L
Sbjct: 464 LYEDKFLEGE--EENDYTLSMKNSFPEYNYDGYEKRVPSPGLDLD 506
>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 = 25.3 bits (55), Expect = 6.3
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 18 LDLDRVTLKLAGLYQCIASNNIG 40
L + +++L +G+YQC+A N G
Sbjct: 53 LRITKLSLSDSGMYQCVAENKHG 75
>gnl|CDD|143258 cd05850, Ig1_Contactin-2, First Ig domain of contactin-2.
Ig1_Contactin-2: First Ig domain of the neural cell
adhesion molecule contactin-2-like. Contactins are
comprised of six Ig domains followed by four
fibronectin type III (FnIII) domains anchored to the
membrane by glycosylphosphatidylinositol. Contactin-2
(TAG-1, axonin-1) facilitates cell adhesion by
homophilic binding between molecules in apposed
membranes. It may play a part in the neuronal processes
of neurite outgrowth, axon guidance and fasciculation,
and neuronal migration. The first four Ig domains form
the intermolecular binding fragment, which arranges as
a compact U-shaped module by contacts between IG
domains 1 and 4, and domains 2 and 3. The different
contactins show different expression patterns in the
central nervous system. During development and in
adulthood, contactin-2 is transiently expressed in
subsets of central and peripheral neurons. Contactin-2
is also expressed in retinal amacrine cells in the
developing chick retina, corresponding to the period of
formation and maturation of AC processes.
Length = 94
Score = 25.3 bits (55), Expect = 6.9
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 28 AGLYQCIASNNIGESTSK 45
AG YQC+A N G S+
Sbjct: 71 AGSYQCLAINRCGTVVSR 88
>gnl|CDD|143219 cd05742, Ig1_VEGFR_like, First immunoglobulin (Ig)-like domain of
vascular endothelial growth factor (VEGF) receptor (R)
and similar proteins. Ig1_VEGFR_like: first
immunoglobulin (Ig)-like domain of vascular endothelial
growth factor (VEGF) receptor(R) related proteins. The
VEGFRs have an extracellular component with seven
Ig-like domains, a transmembrane segment, and an
intracellular tyrosine kinase domain interrupted by a
kinase-insert domain. The VEGFR family consists of
three members, VEGFR-1 (Flt-1), VEGFR-2 (KDR/Flk-1) and
VEGFR-3 (Flt-4). VEGF-A interacts with both VEGFR-1 and
VEGFR-2. VEGFR-1 binds strongest to VEGF, VEGF-2 binds
more weakly. VEGFR-3 appears not to bind VEGF, but
binds other members of the VEGF family (VEGF-C and -D).
VEGFRs bind VEGFs with high affinity with the IG-like
domains. VEGF-A is important to the growth and
maintenance of vascular endothelial cells and to the
development of new blood- and lymphatic-vessels in
physiological and pathological states. VEGFR-2 is a
major mediator of the mitogenic, angiogenic and
microvascular permeability-enhancing effects of VEGF-A.
VEGFR-1 may play an inhibitory part in these processes
by binding VEGF and interfering with its interaction
with VEGFR-2. VEGFR-1 has a signaling role in mediating
monocyte chemotaxis. VEGFR-2 and -1 may mediate a
chemotactic and a survival signal in hematopoietic stem
cells or leukemia cells. VEGFR-3 has been shown to be
involved in tumor angiogenesis and growth. This group
also contains alpha-type platelet-derived growth factor
receptor precursor (PDGFR)-alpha (CD140a), and
PDGFR-beta (CD140b). PDGFRs alpha and beta have an
extracellular component with five Ig-like domains, a
transmembrane segment, and a cytoplasmic portion that
has protein tyrosine kinase activity.
Length = 84
Score = 25.0 bits (55), Expect = 7.2
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 18 LDLDRVTLKLAGLYQCIASNNIGESTSKNF-IVNV 51
L + TLK +G Y C AS+ G K VN+
Sbjct: 51 LTIPNATLKDSGTYTCAASS--GTMDQKESTKVNI 83
>gnl|CDD|181873 PRK09457, astD, succinylglutamic semialdehyde dehydrogenase;
Reviewed.
Length = 487
Score = 26.1 bits (58), Expect = 7.3
Identities = 9/15 (60%), Positives = 9/15 (60%)
Query: 118 GPGPDSNLRPSAYMA 132
G G N RPSAY A
Sbjct: 444 GVGASGNHRPSAYYA 458
>gnl|CDD|212460 cd05723, Ig4_Neogenin, Fourth immunoglobulin (Ig)-like domain in
neogenin and similar proteins. Ig4_Neogenin: fourth
immunoglobulin (Ig)-like domain in neogenin and related
proteins. Neogenin is a cell surface protein which is
expressed in the developing nervous system of
vertebrate embryos in the growing nerve cells. It is
also expressed in other embryonic tissues, and may play
a general role in developmental processes such as cell
migration, cell-cell recognition, and tissue growth
regulation. Included in this group is the tumor
suppressor protein DCC, which is deleted in colorectal
carcinoma . DCC and neogenin each have four Ig-like
domains followed by six fibronectin type III domains, a
transmembrane domain, and an intracellular domain.
Length = 71
Score = 24.5 bits (53), Expect = 8.2
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 29 GLYQCIASNNIGESTS 44
G YQCIA N++G +
Sbjct: 50 GFYQCIAENDVGNVQA 65
>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 = 24.8 bits (54), Expect = 8.3
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 18 LDLDRVTLKLAGLYQCIASNNIGESTSK 45
L +++ L +G Y C+ N +G T
Sbjct: 45 LQINKAKLADSGEYTCVVENILGNDTVT 72
>gnl|CDD|235076 PRK02842, PRK02842, light-independent protochlorophyllide reductase
subunit N; Provisional.
Length = 427
Score = 26.0 bits (58), Expect = 8.9
Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 83 PAKRFDEGTRFDEGTVTAKVLQPFSERT 110
PA+RF E GTV A + QPF T
Sbjct: 199 PARRFTELPAIGPGTVVA-LAQPFLSDT 225
>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 = 24.7 bits (54), Expect = 8.9
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 7 SKIELLYNRESLDLDRVTLKLAGLYQCIASNNIGESTS 44
S+I + + SL++ VT G Y C A N G++ S
Sbjct: 31 SRICIWPDG-SLEILNVTKSDEGKYTCFAENFFGKANS 67
>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 = 24.7 bits (54), Expect = 9.1
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 14 NRESLDLDRVTLKLAGLYQCIASNNIG 40
+ +L L V +YQC ASN G
Sbjct: 39 DGGTLILSNVQPNDTAVYQCNASNVHG 65
>gnl|CDD|236080 PRK07734, motB, flagellar motor protein MotB; Reviewed.
Length = 259
Score = 25.9 bits (57), Expect = 9.5
Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 1 MLVIFFSKIELLYNRESLDLDRVTLKLAGLYQCIASNNIGESTSKNFIVNVIYPPEVSVE 60
M + F ++ LL N+E LD ++ + K G Y+ IASN+ E +KN V V+ P
Sbjct: 201 MRAVNFMQV-LLENKE-LDPEKFSAKGYGEYKPIASNDTAEGRAKNRRVEVLILPLTEKN 258
Query: 61 K 61
K
Sbjct: 259 K 259
>gnl|CDD|178549 PLN02965, PLN02965, Probable pheophorbidase.
Length = 255
Score = 25.6 bits (56), Expect = 9.9
Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 70 MRAEIICNVYANPPAKRFDEGTRFDEGTVTAKVLQPFSERTLSVQDKIGPGPDSNLRPSA 129
M+ E + + Y N + ++ T+++K+L+P R DK+ P P++ P
Sbjct: 146 MKPEFVRHYYYNQ--------SPLEDYTLSSKLLRPAPVRAFQDLDKLPPNPEAEKVPRV 197
Query: 130 YMADA 134
Y+ A
Sbjct: 198 YIKTA 202
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.135 0.396
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: 7,010,473
Number of extensions: 601913
Number of successful extensions: 417
Number of sequences better than 10.0: 1
Number of HSP's gapped: 417
Number of HSP's successfully gapped: 42
Length of query: 139
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 52
Effective length of database: 7,078,804
Effective search space: 368097808
Effective search space used: 368097808
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (24.8 bits)