RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4606
(69 letters)
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 46.0 bits (109), Expect = 2e-08
Identities = 11/41 (26%), Positives = 20/41 (48%)
Query: 18 SSDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEIIIKEG 58
+ EG ++ L C+A G P P +TW ++ G+ +
Sbjct: 1 PPSVTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLAESGR 41
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 46.0 bits (109), Expect = 2e-08
Identities = 11/41 (26%), Positives = 20/41 (48%)
Query: 18 SSDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEIIIKEG 58
+ EG ++ L C+A G P P +TW ++ G+ +
Sbjct: 1 PPSVTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLAESGR 41
>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 = 3e-06
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 21 IMAPEGGTIKLVCKAKGYPRPHITWKREDGQEIIIKEG 58
I P G +++L C A G PRP ITW + D + + E
Sbjct: 4 IARPVGSSVRLKCVASGNPRPDITWLK-DNKPLTPTEI 40
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 38.2 bits (89), Expect = 1e-05
Identities = 13/29 (44%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 25 EGGTIKLVCKAKGYPRPHITWKREDGQEI 53
EG ++ L C A+G P P+ITW + DG+ +
Sbjct: 1 EGQSVTLTCPAEGNPVPNITWLK-DGKPL 28
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 37.6 bits (88), Expect = 3e-05
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 19 SDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEI 53
D+ EG + + C G P P ++W + DGQ +
Sbjct: 8 KDVEVQEGESARFTCTVTGDPDPTVSWFK-DGQPL 41
>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 = 36.2 bits (84), Expect = 1e-04
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 21 IMAPEGGTIKLVCKAKGYPRPHITWKREDGQEI 53
P G T++L C A G PRP ITW + DG+
Sbjct: 4 HAVPAGSTVRLKCPASGNPRPTITWLK-DGKPF 35
>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 = 36.1 bits (83), Expect = 1e-04
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 25 EGGTIKLVCKAKGYPRPHITWKREDGQ 51
EG T+ +C+A+GYP+P I W + Q
Sbjct: 1 EGQTVDFLCEAQGYPQPVIAWTKGGSQ 27
>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 = 35.7 bits (82), Expect = 2e-04
Identities = 14/23 (60%), Positives = 15/23 (65%)
Query: 25 EGGTIKLVCKAKGYPRPHITWKR 47
E G L CKA+G P P ITWKR
Sbjct: 15 ENGAATLSCKAEGEPIPEITWKR 37
>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 = 35.6 bits (82), Expect = 2e-04
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 23 APEGGTIKLVCKAKGYPRPHITWKR 47
A E I L C+A+G P P ITW+R
Sbjct: 13 AVELEQITLTCEAEGDPIPEITWRR 37
>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 = 35.6 bits (82), Expect = 3e-04
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 9 PPDILNEESSSDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEIIIKEGNT 60
PP I+ E SD++ +G L CKA+G P P I W + +GQ + + +
Sbjct: 1 PPRIV--EHPSDLIVSKGDPATLNCKAEGRPTPTIQWLK-NGQPLETDKDDP 49
>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 = 34.0 bits (78), Expect = 6e-04
Identities = 8/28 (28%), Positives = 13/28 (46%)
Query: 26 GGTIKLVCKAKGYPRPHITWKREDGQEI 53
G ++ L C G P+ +TW +E
Sbjct: 1 GSSVTLTCSVSGPPQVDVTWFKEGKGLE 28
>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 = 34.5 bits (79), Expect = 7e-04
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 15/64 (23%)
Query: 9 PPDILNEESSSDIMAPEGGTIKLVCKAKGYPRPHITWKR---------------EDGQEI 53
PP I +S + A G ++ L C A G+P P +TW + EDG E+
Sbjct: 1 PPTIRARQSEVNATANLGQSVTLACDADGFPEPTMTWTKDGEPIESGEEKYSFNEDGSEM 60
Query: 54 IIKE 57
I +
Sbjct: 61 TILD 64
>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 = 34.1 bits (78), Expect = 7e-04
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 26 GGTIKLVCKAKGYPRPHITW-KREDGQEIIIKEGNTMV 62
G T C G P P ITW K+ G+E +I N +
Sbjct: 1 GETASFHCDVTGRPPPEITWEKQVHGKENLIMRPNHVR 38
>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 = 34.0 bits (77), Expect = 8e-04
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 29 IKLVCKAKGYPRPHITWKREDGQ 51
+ L C A G P P ITW +
Sbjct: 1 VTLTCLASGPPPPTITWLKNGKP 23
>gnl|CDD|177613 PHA03376, PHA03376, BARF1; Provisional.
Length = 221
Score = 33.9 bits (77), Expect = 0.003
Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 7 VVPPDILNEESSSDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQE 52
VV P L+ S P+ + + C +P PH+ W +G E
Sbjct: 121 VVKPLTLSVHSERSQF-PDFSVLTVTCTVNAFPHPHVQWLMPEGVE 165
>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 = 32.1 bits (73), Expect = 0.005
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 20 DIMAPEGGTIKLVCKAKGYPRPHITWKREDG 50
D A +G + L C A G P P I W++ DG
Sbjct: 10 DTYALKGQNVTLECFALGNPVPQIKWRKVDG 40
>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 = 32.0 bits (73), Expect = 0.005
Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 26 GGTIKLVCKAKG-YPRP-HITWKREDGQEIIIKEGNTMVPKSKD 67
GG++ L C A G YP +TW + +G+E+ T + D
Sbjct: 13 GGSVTLTCLATGFYPPDITVTWLK-NGKELTSGVTTTPPVPNSD 55
>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 = 31.6 bits (72), Expect = 0.005
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 26 GGTIKLVCKAKGYPRPHITW 45
G T +L C+A+G P+P ITW
Sbjct: 1 GETGRLDCEAEGIPQPTITW 20
>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 = 31.8 bits (72), Expect = 0.006
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 26 GGTIKLVCKAKGYPRPHITWKREDGQEII 54
G T+ C+A G P+P I W++E Q ++
Sbjct: 1 GRTVTFQCEATGNPQPAIFWQKEGSQNLL 29
>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 = 31.9 bits (72), Expect = 0.006
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 8 VPPDILNEESSSDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEII 54
+P IL + S + EG + + C G P P +TW RE GQ I+
Sbjct: 2 LPATILTKPRS--LTVSEGESARFSCDVDGEPAPTVTWMRE-GQIIV 45
>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 = 31.4 bits (71), Expect = 0.008
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 26 GGTIKLVCKAKGYPRPHITWK 46
G T +L C+ +G P P+ITW
Sbjct: 1 GETARLDCQVEGIPTPNITWS 21
>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 = 30.8 bits (70), Expect = 0.013
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 19 SDIMAPEGGTIKLVCKA-KGYPRPHITWKREDGQEIIIK 56
SD G L C +G+P P ++W++ DGQ + +
Sbjct: 4 SDTQVAVGEMAVLECSPPRGHPEPTVSWRK-DGQPLNLD 41
>gnl|CDD|206066 pfam13895, Ig_2, Immunoglobulin domain. This domain contains
immunoglobulin-like domains.
Length = 80
Score = 29.7 bits (67), Expect = 0.033
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 17 SSSDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEI 53
+ S + EG + L C A G P P+ TW + DG +
Sbjct: 5 TPSPTVVFEGEDVTLTCSAPGNPPPNYTWYK-DGVPL 40
>gnl|CDD|143301 cd05893, Ig_Palladin_C, C-terminal immunoglobulin (Ig)-like
domain of palladin. Ig_Palladin_C: C-terminal
immunoglobulin (Ig)-like domain of palladin. Palladin
belongs to the palladin-myotilin-myopalladin family.
Proteins belonging to this family contain multiple
Ig-like domains and function as scaffolds, modulating
actin cytoskeleton. Palladin binds to alpha-actinin
ezrin, vasodilator-stimulated phosphoprotein VASP,
SPIN90 (DIP, mDia interacting protein), and Src.
Palladin also binds F-actin directly, via its Ig3
domain. Palladin is expressed as several alternatively
spliced isoforms, having various combinations of
Ig-like domains, in a cell-type-specific manner. It has
been suggested that palladin's different Ig-like
domains may be specialized for distinct functions.
Length = 75
Score = 29.6 bits (66), Expect = 0.037
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 29 IKLVCKAKGYPRPHITWKRED 49
++L C+ G P P I WK+E+
Sbjct: 1 VRLECRVSGVPHPQIFWKKEN 21
>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 = 29.8 bits (67), Expect = 0.037
Identities = 17/32 (53%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 19 SDIMAPEGGTIKLVCKAKGYPRPHITWKREDG 50
SDI+A GG + L C A+G P P I WK+ DG
Sbjct: 7 SDIVAVRGGPVVLNCSAEGEPPPKIEWKK-DG 37
>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 = 29.5 bits (66), Expect = 0.040
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 19 SDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEIIIKEGNTMVPKSKDIF 69
SD A G +++ CKA G PRP W + +GQ + E V
Sbjct: 7 SDTEADIGSSLRWECKASGNPRPAYRWLK-NGQ-PLASENRIEVEAGDLRI 55
>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 = 29.2 bits (65), Expect = 0.045
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 20/56 (35%)
Query: 25 EGGTIKLVCKAKGYPRPHITW---------------KREDGQEII---IKEGNTMV 62
E GT L+C+A G P+P I+W ++ DG II ++E ++ V
Sbjct: 2 EDGT--LICRANGNPKPSISWLTNGVPIEIAPTDPSRKVDGDTIIFSKVQERSSAV 55
>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 = 29.0 bits (65), Expect = 0.058
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 26 GGTIKLVCKAKGYPRPHITWK 46
G T++ C A G P P I W+
Sbjct: 1 GETVEFTCVATGVPTPIINWR 21
>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 = 28.9 bits (65), Expect = 0.067
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 26 GGTIKLVCKAKGYPRPHITWKREDG 50
GG + + CK K P+P I+W +
Sbjct: 1 GGDVIIECKPKAAPKPTISWSKGTE 25
>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 = 28.5 bits (64), Expect = 0.069
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 33 CKAKGYPRPHITWKREDGQ 51
C+ G P P + W++EDG+
Sbjct: 5 CEVGGDPVPTVLWRKEDGE 23
>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 = 28.7 bits (64), Expect = 0.069
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 29 IKLVCKAKGYPRPHITWKREDGQ 51
+++ C A+G P P ITW ++ Q
Sbjct: 1 VQIPCSAQGDPEPTITWNKDGVQ 23
>gnl|CDD|219745 pfam08205, C2-set_2, CD80-like C2-set immunoglobulin domain.
These domains belong to the immunoglobulin superfamily.
Length = 89
Score = 28.9 bits (65), Expect = 0.070
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 37 GYPRPHITWKREDGQEIIIKEGNTMVPKSK 66
G P P ITW + + I + P+S
Sbjct: 26 GKPAPRITWYLDGRELEAITTSSEQDPESG 55
>gnl|CDD|143257 cd05849, Ig1_Contactin-1, First Ig domain of contactin-1.
Ig1_Contactin-1: First Ig domain of the neural cell
adhesion molecule contactin-1. Contactins are comprised
of six Ig domains followed by four fibronectin type III
(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. Contactin-1 is
differentially expressed in tumor tissues and may,
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 93
Score = 28.8 bits (64), Expect = 0.078
Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 15 EESSSDIMAPE---GGTIKLVCKAKGYPRPHITWKREDGQEIIIKEGNTMV 62
EE D + PE G + + C+A+ P P W++ + + + +MV
Sbjct: 5 EEQPIDTIYPEESTEGKVSVNCRARANPFPIYKWRKNNLDIDLTNDRYSMV 55
>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 = 28.7 bits (64), Expect = 0.084
Identities = 11/20 (55%), Positives = 12/20 (60%)
Query: 31 LVCKAKGYPRPHITWKREDG 50
L C A+GYP P I WK G
Sbjct: 3 LNCSAEGYPPPTIVWKHSKG 22
>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 = 28.4 bits (63), Expect = 0.092
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 30 KLVCKAKGYPRPHITWKREDG 50
+L C A G+P P I W+++ G
Sbjct: 2 RLECAATGHPTPQIAWQKDGG 22
>gnl|CDD|143221 cd05744, Ig_Myotilin_C_like, Immunoglobulin (Ig)-like domain of
myotilin, palladin, and myopalladin.
Ig_Myotilin_like_C: immunoglobulin (Ig)-like domain in
myotilin, palladin, and myopalladin. Myotilin,
palladin, and myopalladin function as scaffolds that
regulate actin organization. Myotilin and myopalladin
are most abundant in skeletal and cardiac muscle;
palladin is ubiquitously expressed in the organs of
developing vertebrates and plays a key role in
cellular morphogenesis. The three family members each
interact with specific molecular partners: all three
bind to alpha-actinin; in addition, palladin also binds
to vasodilator-stimulated phosphoprotein (VASP) and
ezrin, myotilin binds to filamin and actin, and
myopalladin also binds to nebulin and cardiac ankyrin
repeat protein (CARP).
Length = 75
Score = 28.6 bits (64), Expect = 0.094
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 29 IKLVCKAKGYPRPHITWKRED 49
++L C+ P P I WK+ +
Sbjct: 1 VRLECRVSAIPPPQIFWKKNN 21
>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 = 28.7 bits (64), Expect = 0.096
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 26 GGTIKLVCKAKGYPRPHITWKR 47
G T++ VCK +PHI W +
Sbjct: 1 GSTVEFVCKVYSDAQPHIQWLK 22
>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 = 28.7 bits (64), Expect = 0.098
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 24 PEGGTIKLVCKAKGYPRPHITWKREDGQEI 53
P T+K C A G P P + W + +G+E
Sbjct: 7 PAANTVKFRCPAAGNPTPTMRWLK-NGKEF 35
>gnl|CDD|143216 cd05739, Ig3_RPTP_IIa_LAR_like, Third immunoglobulin (Ig)-like
domain of the receptor protein tyrosine phosphatase
(RPTP)-F, also known as LAR. Ig3_RPTP_IIa_LAR_like:
domain similar to the third 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. Included in this group is
Drosophila LAR (DLAR).
Length = 69
Score = 27.9 bits (62), Expect = 0.13
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 26 GGTIKLVCKAKGYPRPHITW 45
GG++ L C A G P P++ W
Sbjct: 1 GGSVNLTCVAVGAPMPYVKW 20
>gnl|CDD|182799 PRK10874, PRK10874, cysteine sulfinate desulfinase; Provisional.
Length = 401
Score = 28.9 bits (65), Expect = 0.13
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 8/49 (16%)
Query: 11 DILNEESSSDIMAPEGGT--IKLVCKAKGYPRPHITWKREDGQEIIIKE 57
+LN + +I+ G T I LV A+ Y RP + + G EII+ E
Sbjct: 74 QLLNAPDAKNIVWTRGTTESINLV--AQSYARPRL----QPGDEIIVSE 116
>gnl|CDD|143194 cd05717, Ig1_Necl-1-3_like, First (N-terminal) immunoglobulin
(Ig)-like domain of the nectin-like molecules Necl-1 -
Necl-3 (also known as cell adhesion molecules CADM3,
CADM1, and CADM2 respectively). Ig1_Necl-1-3_like:
N-terminal immunoglobulin (Ig)-like domain of the
nectin-like molecules Necl-1 (also known as cell
adhesion molecule 3 (CADM3)), Necl-2 (CADM1), and
Necl-3 (CADM2). At least five nectin-like molecules
have been identified (Necl-1 - Necl-5). They all have
an extracellular region containing three Ig-like
domains, a transmembrane region, and a 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, Necl-2, and
Necl-3 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 accumulates in central and
peripheral nervous system tissue, and has been shown to
selectively interact with oligodendrocytes. This group
also contains Class-I MHC-restricted T-cell-associated
molecule (CRTAM), whose expression pattern is
consistent with its expression in Class-I
MHC-restricted T-cells.
Length = 95
Score = 28.2 bits (63), Expect = 0.14
Identities = 10/39 (25%), Positives = 16/39 (41%)
Query: 19 SDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEIIIKE 57
D+ EGGT L C+ K + W + Q + +
Sbjct: 5 QDVTVVEGGTATLKCRVKNNDNSSLQWSNPNQQTLYFND 43
>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 = 27.7 bits (62), Expect = 0.15
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 31 LVCKAKGYPRPHITWKREDG 50
L C A+G P P I+W + G
Sbjct: 3 LECIAEGLPTPEISWIKIGG 22
>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 = 27.7 bits (62), Expect = 0.19
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 29 IKLVCKAKGYPRPHITWKREDGQEIIIKEG 58
I + C+AKG P P +W R +G ++
Sbjct: 1 IVIKCEAKGNPPPTFSWTR-NGTHFDPEKD 29
>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 = 28.0 bits (62), Expect = 0.21
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 29 IKLVCKAKGYPRPHITWK 46
I L C+A G P P ITW+
Sbjct: 20 ITLTCEASGDPIPSITWR 37
>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 = 27.4 bits (61), Expect = 0.26
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 4/42 (9%)
Query: 15 EESSSDIMAPEG---GTIKLVCKAKGYPRPHITWKREDGQEI 53
EE D + PE G + L C+A+G P P W +G EI
Sbjct: 5 EEQPDDTIFPEESDEGKVSLNCRARGSPPPTYRWLM-NGTEI 45
>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 = 27.1 bits (60), Expect = 0.31
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 26 GGTIKLVCKAKGYPRPHITWKREDGQEI 53
G L CKA+G P P I W DG+ I
Sbjct: 1 GQRATLRCKARGDPEPAIHWISPDGKLI 28
>gnl|CDD|233337 TIGR01273, speA, arginine decarboxylase, biosynthetic. Two
alternative pathways can convert arginine to putrescine.
One is decarboxylation by this enzyme followed by
removal of the urea moeity by agmatinase. In the other,
the ureohydrolase (arginase) acts first, followed by
ornithine decarboxylase. This pathway leads to
spermidine biosynthesis, hence the gene symbol speA. A
distinct biodegradative form is also pyridoxal
phosphate-dependent but is not similar in sequence
[Central intermediary metabolism, Polyamine
biosynthesis].
Length = 624
Score = 28.1 bits (63), Expect = 0.32
Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 4/29 (13%)
Query: 15 EESSSDIMAPEGGTIKLVCKAKGYPRPHI 43
EE ++DI+ ++ +C+ KG P P I
Sbjct: 306 EEYANDIV----QALREICEEKGVPHPVI 330
>gnl|CDD|143284 cd05876, Ig3_L1-CAM, Third immunoglobulin (Ig)-like domain of the
L1 cell adhesion molecule (CAM). Ig3_L1-CAM: third
immunoglobulin (Ig)-like domain of the L1 cell adhesion
molecule (CAM). L1 belongs to the L1 subfamily of cell
adhesion molecules (CAMs) and is comprised of an
extracellular region having six Ig-like domains, five
fibronectin type III domains, a transmembrane region
and an intracellular domain. L1 is primarily expressed
in the nervous system and is involved in its
development and function. L1 is associated with an
X-linked recessive disorder, X-linked hydrocephalus,
MASA syndrome, or spastic paraplegia type 1, that
involves abnormalities of axonal growth. This group
also contains the chicken neuron-glia cell adhesion
molecule, Ng-CAM.
Length = 71
Score = 26.4 bits (58), Expect = 0.52
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 31 LVCKAKGYPRPHITWKREDG 50
L C A+G P P + W R DG
Sbjct: 3 LECIAEGLPTPEVHWDRIDG 22
>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 = 26.8 bits (59), Expect = 0.53
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 25 EGGTIKLVCKAKGYPRPHITWKREDGQEIIIKE 57
EG T+ L C G P P + W + D Q+I + E
Sbjct: 15 EGKTLNLTCTVFGNPDPEVIWFKND-QDIELSE 46
>gnl|CDD|222457 pfam13927, Ig_3, Immunoglobulin domain. This family contains
immunoglobulin-like domains.
Length = 74
Score = 26.6 bits (58), Expect = 0.57
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 25 EGGTIKLVCKAKGYPRPH-ITWKREDGQE 52
GG + L C A+G P P I+W R
Sbjct: 14 SGGGVTLTCSAEGGPPPPTISWYRNGSIS 42
>gnl|CDD|143250 cd05773, Ig8_hNephrin_like, Eighth immunoglobulin-like domain of
nephrin. Ig8_hNephrin_like: domain similar to the
eighth immunoglobulin-like domain in human nephrin.
Nephrin is an integral component of the slit diaphragm,
and is a central component of the glomerular
ultrafilter. Nephrin plays a structural role, and has a
role in signaling. Nephrin is a transmembrane protein
having a short intracellular portion, and an
extracellular portion comprised of eight Ig-like
domains, and one fibronectin type III-like domain. The
extracellular portions of nephrin, from neighboring
foot processes of separate podocyte cells, may interact
with each other, and in association with other
components of the slit diaphragm, form a porous
molecular sieve within the slit pore. The
intracellular portion of nephrin is associated with
linker proteins, which connect nephrin to the actin
cytoskeleton. The intracellular portion is tyrosine
phosphorylated, and mediates signaling from the slit
diaphragm into the podocytes.
Length = 109
Score = 26.8 bits (59), Expect = 0.59
Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 2/40 (5%)
Query: 10 PDILNEESSSDIMAPEGGT--IKLVCKAKGYPRPHITWKR 47
PD+ + + G+ LVC+A+G PR W +
Sbjct: 5 PDLQKGPQLRKVASRGDGSSDANLVCQAQGVPRVQFRWAK 44
>gnl|CDD|225635 COG3093, VapI, Plasmid maintenance system antidote protein
[General function prediction only].
Length = 104
Score = 26.6 bits (59), Expect = 0.60
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 4/36 (11%)
Query: 9 PPDILNEESSSDIMAPEGGTIKLVCKAKGYPRPHIT 44
P +IL EE + P G T + +A G R I+
Sbjct: 10 PGEILREE----FLEPLGLTQTELAEALGVTRNTIS 41
>gnl|CDD|143175 cd04974, Ig3_FGFR, Third immunoglobulin (Ig)-like domain of
fibroblast growth factor receptor (FGFR). Ig3_FGFR:
third immunoglobulin (Ig)-like domain of fibroblast
growth factor receptor (FGFR). Fibroblast growth
factors (FGFs) participate in morphogenesis,
development, angiogenesis, and wound healing. These
FGF-stimulated processes are mediated by four FGFR
tyrosine kinases (FGRF1-4). FGFRs are comprised of an
extracellular portion consisting of three Ig-like
domains, a transmembrane helix, and a cytoplasmic
portion having protein tyrosine kinase activity. The
highly conserved Ig-like domains 2 and 3, and the
linker region between D2 and D3 define a general
binding site for FGFs.
Length = 90
Score = 26.2 bits (58), Expect = 0.71
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 26 GGTIKLVCKAKGYPRPHITW 45
G ++ CK +PHI W
Sbjct: 1 GSDVEFHCKVYSDAQPHIQW 20
>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 = 0.83
Identities = 10/30 (33%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 26 GGTIKLVCKAKGYPRPHITWKREDGQEIII 55
GG + + CK K P+P +W + G E+++
Sbjct: 1 GGRVIIECKPKAAPKPKFSWSK--GTELLV 28
>gnl|CDD|130134 TIGR01062, parC_Gneg, DNA topoisomerase IV, A subunit,
proteobacterial. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation of
chromosome segregation. Not every bacterium has both a
topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason [DNA metabolism, DNA replication,
recombination, and repair].
Length = 735
Score = 26.8 bits (59), Expect = 0.94
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 4/65 (6%)
Query: 4 LDVVVPPDILNEESSSDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEIIIKEGNTMVP 63
L++V PD E ++I+ K+ +G R WK+EDGQ I+I +
Sbjct: 203 LNIVQGPDFPTE---AEIIDKAEEIRKIYETGRGSFRMRARWKKEDGQ-IVISALPHQIS 258
Query: 64 KSKDI 68
KSK I
Sbjct: 259 KSKVI 263
>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 = 25.6 bits (57), Expect = 0.97
Identities = 6/22 (27%), Positives = 12/22 (54%)
Query: 28 TIKLVCKAKGYPRPHITWKRED 49
+++L G P P +TW ++
Sbjct: 1 SVRLEVPISGRPTPTVTWSKDG 22
>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 = 25.9 bits (57), Expect = 1.1
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 25 EGGTIKLVCKAKGYPRPHITWKRED 49
EG T+ L C G P P ++W + D
Sbjct: 15 EGKTLNLTCTVFGDPDPEVSWLKND 39
>gnl|CDD|132433 TIGR03392, FeS_syn_CsdA, cysteine desulfurase, catalytic subunit
CsdA. Members of this protein family are CsdS. This
protein, found Escherichia coli, Yersinia pestis,
Photorhabdus luminescens, and related species, and
related to SufS, works together with and physically
interacts with CsdE (a paralog of SufE). CsdA has
cysteine desulfurase activity that is enhanced by CsdE,
a sulfur acceptor protein. This gene pair, although
involved in FeS cluster biosynthesis, is not found next
to other such genes as are its paralogs from the Suf or
Isc systems [Biosynthesis of cofactors, prosthetic
groups, and carriers, Other].
Length = 398
Score = 26.3 bits (58), Expect = 1.1
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 11 DILNEESSSDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEIIIKE 57
LN + +I+ G T + A+ Y RP + + G EII+ E
Sbjct: 71 RFLNAPDAENIVWTRGTTESINLVAQSYARPRL----QPGDEIIVSE 113
>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 = 25.8 bits (56), Expect = 1.2
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 9 PPDILNEESSSDIMAPEGGTIKLVCKAKGYPRPHITWKR 47
P DI + D A +G + L C A G P P I W++
Sbjct: 1 PADINVK--FKDTYALKGQNVTLECFALGNPVPVIRWRK 37
>gnl|CDD|143182 cd04981, IgV_H, Immunoglobulin (Ig) heavy chain (H), variable (V)
domain. IgV_H: Immunoglobulin (Ig) heavy chain (H),
variable (V) domain. 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. There are
five types of heavy chains (alpha, gamma, delta,
epsilon, and mu), which determine the type of
immunoglobulin: IgA, IgG, IgD, IgE, and IgM,
respectively. In higher vertebrates, there are two
types of light chain, designated kappa and lambda,
which can associate with any of the heavy chains. This
family includes alpha, gamma, delta, epsilon, and mu
heavy chains.
Length = 117
Score = 25.8 bits (57), Expect = 1.3
Identities = 10/24 (41%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 15 EESSSDIMAPEGGTIKLVCKAKGY 38
ES ++ P G ++KL CKA G+
Sbjct: 2 VESGPGLVKP-GQSLKLSCKASGF 24
>gnl|CDD|143300 cd05892, Ig_Myotilin_C, C-terminal immunoglobulin (Ig)-like
domain of myotilin. Ig_Myotilin_C: C-terminal
immunoglobulin (Ig)-like domain of myotilin. Mytolin
belongs to the palladin-myotilin-myopalladin family.
Proteins belonging to the latter family contain
multiple Ig-like domains and function as scaffolds,
modulating actin cytoskeleton. Myotilin is most
abundant in skeletal and cardiac muscle, and is
involved in maintaining sarcomere integrity. It binds
to alpha-actinin, filamin and actin. Mutations in
myotilin lead to muscle disorders.
Length = 75
Score = 25.3 bits (55), Expect = 1.5
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 29 IKLVCKAKGYPRPHITWKRED 49
+KL C+ P P I WKR +
Sbjct: 1 VKLECQISAIPPPKIFWKRNN 21
>gnl|CDD|223761 COG0689, Rph, RNase PH [Translation, ribosomal structure and
biogenesis].
Length = 230
Score = 25.7 bits (57), Expect = 1.6
Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 4/55 (7%)
Query: 14 NEESSSDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEIIIKEGNTMVPKSKDI 68
+ E SS I E G K++C G P + R G+ + E M+P+S D
Sbjct: 30 HAEGSSLI---EFGNTKVICTVSGPREPVPRFLRGTGKGWLTAEYG-MLPRSTDE 80
>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 = 25.3 bits (55), Expect = 1.7
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 29 IKLVCKAKGYPRPHITWKREDGQEIIIKEGN-TMVPKS 65
I + C+AKG P P +W R I K+ TM P +
Sbjct: 1 IVIQCEAKGKPPPSFSWTRNGTHFDIDKDPKVTMKPNT 38
>gnl|CDD|236837 PRK11081, PRK11081, tRNA guanosine-2'-O-methyltransferase;
Provisional.
Length = 229
Score = 25.7 bits (57), Expect = 1.8
Identities = 11/20 (55%), Positives = 11/20 (55%), Gaps = 3/20 (15%)
Query: 32 VCKAKGYPRPHITWKREDGQ 51
V K KG P PHI E GQ
Sbjct: 198 VAKRKGLPYPHID---EQGQ 214
>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 = 1.9
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 31 LVCKAKGYPRPHITWKRE 48
++C A G P P ITW ++
Sbjct: 3 MLCAASGNPDPEITWFKD 20
>gnl|CDD|143283 cd05875, Ig6_hNeurofascin_like, Sixth immunoglobulin (Ig)-like
domain of human neurofascin (NF).
Ig6_hNeurofascin_like: the sixth immunoglobulin
(Ig)-like domain of human neurofascin (NF). NF belongs
to the L1 subfamily of cell adhesion molecules (CAMs)
and is comprised of an extracellular region having six
Ig-like domains and five fibronectin type III domains,
a transmembrane region, and a cytoplasmic domain. NF
has many alternatively spliced isoforms having
different temporal expression patterns during
development. NF participates in axon subcellular
targeting and synapse formation, however little is
known of the functions of the different isoforms.
Length = 77
Score = 24.9 bits (54), Expect = 2.2
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 29 IKLVCKAKGYPRPHITWKR 47
I + C+AKG P P W R
Sbjct: 1 IIIECEAKGNPVPTFQWTR 19
>gnl|CDD|224088 COG1166, SpeA, Arginine decarboxylase (spermidine biosynthesis)
[Amino acid transport and metabolism].
Length = 652
Score = 25.4 bits (56), Expect = 2.9
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 15 EESSSDIMAPEGGTIKLVCKAKGYPRPHI 43
E ++D++ +K C+ KG P P I
Sbjct: 329 NEYANDVVW----ALKDACEEKGLPHPTI 353
>gnl|CDD|188519 TIGR04004, WcaM, colanic acid biosynthesis protein WcaM. This
protein of uncharacterized function is the final gene in
the conserved colanic acid biosynthesis cluster observed
in Enterobacteraceae.
Length = 464
Score = 24.4 bits (53), Expect = 5.3
Identities = 14/56 (25%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 6 VVVPPDILNEESSSDIMAPEGGTIKLVCKAKGYPRPHITWKREDGQEIIIKEGNTM 61
VVVP ++ E ++ I P G T++++ +G R +DG +++ ++G ++
Sbjct: 61 VVVPAGLVCENINTGIFIPAGKTLRVLGALRGNGRGRFVL--QDGCQVVGEKGGSL 114
>gnl|CDD|143302 cd05894, Ig_C5_MyBP-C, C5 immunoglobulin (Ig) domain of cardiac
myosin binding protein C (MyBP-C). Ig_C5_MyBP_C : the
C5 immunoglobulin (Ig) domain of cardiac myosin binding
protein C (MyBP-C). MyBP_C consists of repeated
domains, Ig and fibronectin type 3, and various
linkers. Three isoforms of MYBP_C exist and are
included in this group: cardiac(c), and fast and slow
skeletal muscle (s) MyBP_C. cMYBP_C has insertions
between and inside domains and an additional
cardiac-specific Ig domain at the N-terminus. For
cMYBP_C an interaction has been demonstrated between
this C5 domain and the Ig C8 domain.
Length = 86
Score = 24.0 bits (52), Expect = 5.6
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 26 GGTIKLVCKAKGYPRPHITWKREDGQEIIIKEGNTMVPKSKD 67
G ++L G P P +TW R D + EG V KD
Sbjct: 10 GNKLRLDVPISGEPAPTVTWSRGD-KAFTETEGRVRVESYKD 50
>gnl|CDD|143503 cd06830, PLPDE_III_ADC, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzyme Arginine Decarboxylase. This
subfamily includes plants and biosynthetic prokaryotic
arginine decarboxylases (ADC, EC 4.1.1.19). ADC is
involved in the biosynthesis of putrescine, which is the
precursor of aliphatic polyamines in many organisms. It
catalyzes the decarboxylation of L-arginine to agmatine,
which is then hydrolyzed to putrescine by agmatinase.
ADC is homologous to eukaryotic ornithine decarboxylase
(ODC) and diaminopimelate decarboxylase (DapDC), which
are fold type III PLP-dependent enzymes that contain an
N-terminal PLP-binding TIM-barrel domain and a
C-terminal beta-sandwich domain, similar to bacterial
alanine racemases. Homodimer formation and the presence
of both PLP and Mg2+ cofactors may be required for
catalytic activity. Prokaryotic ADCs (biodegradative),
which are fold type I PLP-dependent enzymes, are not
included in this family.
Length = 409
Score = 24.5 bits (54), Expect = 5.6
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 4/29 (13%)
Query: 15 EESSSDIMAPEGGTIKLVCKAKGYPRPHI 43
EE ++DI+ T+K +C G P P I
Sbjct: 254 EEYANDIVK----TVKEICDEAGVPHPTI 278
>gnl|CDD|235427 PRK05354, PRK05354, arginine decarboxylase; Provisional.
Length = 634
Score = 23.9 bits (53), Expect = 7.6
Identities = 9/29 (31%), Positives = 17/29 (58%), Gaps = 4/29 (13%)
Query: 15 EESSSDIMAPEGGTIKLVCKAKGYPRPHI 43
+E ++D++ T+K +C+ G P P I
Sbjct: 313 QEYANDVVY----TLKEICEEHGVPHPTI 337
>gnl|CDD|213617 TIGR01417, PTS_I_fam, phosphoenolpyruvate-protein
phosphotransferase. This model recognizes a distinct
clade of phophoenolpyruvate (PEP)-dependent enzymes.
Most members are known or deduced to function as the
phosphoenolpyruvate-protein phosphotransferase (or
enzyme I) of PTS sugar transport systems. However, some
species with both a member of this family and a homolog
of the phosphocarrier protein HPr lack a IIC component
able to serve as a permease. An HPr homolog designated
NPr has been implicated in the regulation of nitrogen
assimilation, which demonstrates that not all
phosphotransferase system components are associated
directly with PTS transport.
Length = 565
Score = 24.0 bits (52), Expect = 8.5
Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 43 ITWKREDGQEIIIKEGNTMV---PKSKDI 68
+T + ++G +II +V P S+ I
Sbjct: 207 VTSQVKNGDTVIIDGVKGIVIFNPSSETI 235
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 0.138 0.414
Gapped
Lambda K H
0.267 0.0637 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,622,117
Number of extensions: 266928
Number of successful extensions: 236
Number of sequences better than 10.0: 1
Number of HSP's gapped: 236
Number of HSP's successfully gapped: 73
Length of query: 69
Length of database: 10,937,602
Length adjustment: 39
Effective length of query: 30
Effective length of database: 9,207,796
Effective search space: 276233880
Effective search space used: 276233880
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 (21.9 bits)
S2: 53 (24.4 bits)