RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11549
(261 letters)
>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 = 39.4 bits (92), Expect = 7e-05
Identities = 14/63 (22%), Positives = 19/63 (30%), Gaps = 1/63 (1%)
Query: 74 SESVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYTPVTELDYGTLS 133
SV + C+V P W G + L + VT D GT +
Sbjct: 1 GSSVTLTCSVSGPPQV-DVTWFKEGKGLEESTTVGTDENRVSSITLTISNVTPEDSGTYT 59
Query: 134 CAA 136
C
Sbjct: 60 CVV 62
>gnl|CDD|238020 cd00063, FN3, Fibronectin type 3 domain; One of three types of
internal repeats found in the plasma protein
fibronectin. Its tenth fibronectin type III repeat
contains an RGD cell recognition sequence in a flexible
loop between 2 strands. Approximately 2% of all animal
proteins contain the FN3 repeat; including extracellular
and intracellular proteins, membrane spanning cytokine
receptors, growth hormone receptors, tyrosine
phosphatase receptors, and adhesion molecules. FN3-like
domains are also found in bacterial glycosyl hydrolases.
Length = 93
Score = 39.8 bits (93), Expect = 1e-04
Identities = 27/93 (29%), Positives = 37/93 (39%), Gaps = 4/93 (4%)
Query: 157 PQPPQNCSVRNETTSSVHISCT-PGYDGGLPQTFTLELYSASDLNLL-VNLTNLDTPAFT 214
P PP N V + T++SV +S T P DGG + +E + V +T ++T
Sbjct: 1 PSPPTNLRVTDVTSTSVTLSWTPPEDDGGPITGYVVEYREKGSGDWKEVEVTPGSETSYT 60
Query: 215 LEDLGLDGTVLMRVVISGVNAKGRSLPVIWDDF 247
L L RV VN G S P
Sbjct: 61 LTGLKPGTEYEFRVR--AVNGGGESPPSESVTV 91
>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 = 39.0 bits (90), Expect = 1e-04
Identities = 22/70 (31%), Positives = 28/70 (40%), Gaps = 4/70 (5%)
Query: 77 VDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSG---SRGSMLRYTPVTELDYGTLS 133
V + C PP + W N V + SS S S L + VT D GT +
Sbjct: 1 VTLTCLASGPPPP-TITWLKNGKPLPSSVLTRVRSSRGTSSGSSTLTISNVTLEDSGTYT 59
Query: 134 CAAQNAIGTQ 143
C A N+ GT
Sbjct: 60 CVASNSAGTV 69
Score = 30.9 bits (69), Expect = 0.13
Identities = 9/36 (25%), Positives = 19/36 (52%)
Query: 14 RIILSNQSLVLQKVSRQSAGTYKCSAINTKGEATSN 49
+ +L + V+ + +GTY C A N+ G +++
Sbjct: 37 GTSSGSSTLTISNVTLEDSGTYTCVASNSAGTVSAS 72
>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 = 37.6 bits (87), Expect = 7e-04
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 72 SRSESVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYTPVTELDYGT 131
S E V + C A PPA +++WK N G + E + G+++ P D G+
Sbjct: 17 SPEEKVTLGCRARASPPA-TYRWKMN--GTEIKFAPESRYTLVAGNLVINNPQKARDAGS 73
Query: 132 LSCAAQNAIGTQVT 145
C A N GT V+
Sbjct: 74 YQCLAINRCGTVVS 87
>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 = 37.4 bits (87), Expect = 7e-04
Identities = 17/52 (32%), Positives = 26/52 (50%)
Query: 4 GIPLAHNTSARIILSNQSLVLQKVSRQSAGTYKCSAINTKGEATSNQLKLRV 55
G PL + I+ + +L++ + + GTYKC A N GE S +L V
Sbjct: 35 GQPLNLDNERVRIVDDGNLLIAEARKSDEGTYKCVATNMVGERESAAARLSV 86
Score = 30.4 bits (69), Expect = 0.19
Identities = 22/83 (26%), Positives = 37/83 (44%), Gaps = 7/83 (8%)
Query: 63 SDRIVIVGASRSESVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYT 122
SD V VG E + C+ P + W+ + G+ L++ +ER G++L
Sbjct: 4 SDTQVAVG----EMAVLECSPPRGHPEPTVSWRKD--GQPLNLDNERVRIVDDGNLL-IA 56
Query: 123 PVTELDYGTLSCAAQNAIGTQVT 145
+ D GT C A N +G + +
Sbjct: 57 EARKSDEGTYKCVATNMVGERES 79
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 36.2 bits (84), Expect = 0.001
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 75 ESVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYTPVTELDYGTLSC 134
+SV + C E +P + W + G+ L + +SGS L V+ D G +C
Sbjct: 3 QSVTLTCPAEGNPVP-NITWLKD--GKPLPESNRFVASGST---LTIKSVSLEDSGLYTC 56
Query: 135 AAQNAIG 141
A+N+ G
Sbjct: 57 VAENSAG 63
Score = 31.6 bits (72), Expect = 0.044
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 4 GIPLAHNTSARIILSNQSLVLQKVSRQSAGTYKCSAINTKG 44
G PL S R + S +L ++ VS + +G Y C A N+ G
Sbjct: 25 GKPL--PESNRFVASGSTLTIKSVSLEDSGLYTCVAENSAG 63
>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 = 36.7 bits (85), Expect = 0.002
Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 3/74 (4%)
Query: 72 SRSESVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYTPVTELDYGT 131
S V ++C PP +++W N E D R+S G+++ P D G
Sbjct: 17 SDEGKVSLNCRARGSPPP-TYRWLMNG-TEIDDEPDSRYSLVG-GNLVISNPSKAKDAGR 73
Query: 132 LSCAAQNAIGTQVT 145
C A N +GT ++
Sbjct: 74 YQCLASNIVGTVLS 87
>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 = 35.1 bits (81), Expect = 0.003
Identities = 19/66 (28%), Positives = 28/66 (42%), Gaps = 6/66 (9%)
Query: 77 VDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYTPVTELDYGTLSCAA 136
V+ C V DP + W+ GE +E S L+ VT D G+ +C A
Sbjct: 1 VEFQCEVGGDPVP-TVLWR-KEDGELPKGRAEILDDKS----LKIRNVTAGDEGSYTCEA 54
Query: 137 QNAIGT 142
+N +G
Sbjct: 55 ENMVGK 60
Score = 28.9 bits (65), Expect = 0.43
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 16 ILSNQSLVLQKVSRQSAGTYKCSAINTKGEATS 48
IL ++SL ++ V+ G+Y C A N G+ +
Sbjct: 31 ILDDKSLKIRNVTAGDEGSYTCEAENMVGKIEA 63
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 34.4 bits (79), Expect = 0.008
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 18 SNQSLVLQKVSRQSAGTYKCSAINTKGEATSNQLKLRV 55
S +L + V+ + +GTY C+A N+ G A+S L V
Sbjct: 49 STSTLTISNVTPEDSGTYTCAATNSSGSASSG-TTLTV 85
Score = 34.0 bits (78), Expect = 0.012
Identities = 26/74 (35%), Positives = 30/74 (40%), Gaps = 5/74 (6%)
Query: 71 ASRSESVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYT--PVTELD 128
ESV + C PP W G L S RFS GS T VT D
Sbjct: 6 VKEGESVTLSCEASGSPPPE-VTWYKQ--GGKLLAESGRFSVSRSGSTSTLTISNVTPED 62
Query: 129 YGTLSCAAQNAIGT 142
GT +CAA N+ G+
Sbjct: 63 SGTYTCAATNSSGS 76
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 34.4 bits (79), Expect = 0.008
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 18 SNQSLVLQKVSRQSAGTYKCSAINTKGEATSNQLKLRV 55
S +L + V+ + +GTY C+A N+ G A+S L V
Sbjct: 49 STSTLTISNVTPEDSGTYTCAATNSSGSASSG-TTLTV 85
Score = 34.0 bits (78), Expect = 0.012
Identities = 26/74 (35%), Positives = 30/74 (40%), Gaps = 5/74 (6%)
Query: 71 ASRSESVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYT--PVTELD 128
ESV + C PP W G L S RFS GS T VT D
Sbjct: 6 VKEGESVTLSCEASGSPPPE-VTWYKQ--GGKLLAESGRFSVSRSGSTSTLTISNVTPED 62
Query: 129 YGTLSCAAQNAIGT 142
GT +CAA N+ G+
Sbjct: 63 SGTYTCAATNSSGS 76
>gnl|CDD|222457 pfam13927, Ig_3, Immunoglobulin domain. This family contains
immunoglobulin-like domains.
Length = 74
Score = 33.1 bits (75), Expect = 0.018
Identities = 21/65 (32%), Positives = 27/65 (41%), Gaps = 5/65 (7%)
Query: 74 SESVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYTPVTELDYGTLS 133
V + C+ E PP + W N S + GS GS L + VT D GT +
Sbjct: 15 GGGVTLTCSAEGGPPPPTISWYRNGS-----ISGGSGGLGSSGSTLTLSSVTSEDSGTYT 69
Query: 134 CAAQN 138
C A N
Sbjct: 70 CVASN 74
>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 = 32.4 bits (74), Expect = 0.030
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 12 SARI-ILSNQSLVLQKVSRQSAGTYKCSAINTKGEATS 48
S+RI I + SL + V++ G Y C A N G+A S
Sbjct: 30 SSRICIWPDGSLEILNVTKSDEGKYTCFAENFFGKANS 67
Score = 29.7 bits (67), Expect = 0.26
Identities = 21/67 (31%), Positives = 26/67 (38%), Gaps = 5/67 (7%)
Query: 76 SVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYTPVTELDYGTLSCA 135
V I C +A P + W E L S R GS L VT+ D G +C
Sbjct: 3 DVIIECKPKAAPKP-TISWSKG--TELL-TNSSRICIWPDGS-LEILNVTKSDEGKYTCF 57
Query: 136 AQNAIGT 142
A+N G
Sbjct: 58 AENFFGK 64
>gnl|CDD|214495 smart00060, FN3, Fibronectin type 3 domain. One of three types of
internal repeat within the plasma protein, fibronectin.
The tenth fibronectin type III repeat contains a RGD
cell recognition sequence in a flexible loop between 2
strands. Type III modules are present in both
extracellular and intracellular proteins.
Length = 83
Score = 32.6 bits (74), Expect = 0.033
Identities = 21/86 (24%), Positives = 30/86 (34%), Gaps = 6/86 (6%)
Query: 157 PQPPQNCSVRNETTSSVHISCTPGYDGGLPQTFTLE---LYSASDLNLLVNLTNLDTPAF 213
P PP N V + T++SV +S P D G + + Y + ++
Sbjct: 1 PSPPSNLRVTDVTSTSVTLSWEPPPDDG-ITGYIVGYRVEYREEGSEWKEVNVTPSSTSY 59
Query: 214 TLEDLGLDGTVLMRVVISGVNAKGRS 239
TL L RV VN G
Sbjct: 60 TLTGLKPGTEYEFRVR--AVNGAGEG 83
>gnl|CDD|143256 cd05848, Ig1_Contactin-5, First Ig domain of contactin-5.
Ig1_Contactin-5: First Ig domain of the neural cell
adhesion molecule contactin-5. Contactins are comprised
of six Ig domains followed by four fibronectin type III
(FnIII) domains, anchored to the membrane by
glycosylphosphatidylinositol. The different contactins
show different expression patterns in the central
nervous system. In rats, a lack of contactin-5 (NB-2)
results in an impairment of the neuronal activity in the
auditory system. Contactin-5 is expressed specifically
in the postnatal nervous system, peaking at about 3
weeks postnatal. Contactin-5 is highly expressed in the
adult human brain in the occipital lobe and in the
amygdala; lower levels of expression have been detected
in the corpus callosum, caudate nucleus, and spinal
cord.
Length = 94
Score = 32.6 bits (74), Expect = 0.039
Identities = 20/79 (25%), Positives = 35/79 (44%), Gaps = 3/79 (3%)
Query: 64 DRIVIVGASRSESVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYTP 123
D + S + V ++C +P +++W N G +D S+ S G+++ P
Sbjct: 9 DDAIFPTDSDEKKVILNCEARGNP-VPTYRWLRN--GTEIDTESDYRYSLIDGNLIISNP 65
Query: 124 VTELDYGTLSCAAQNAIGT 142
D G C A N+IG+
Sbjct: 66 SEVKDSGRYQCLATNSIGS 84
>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 = 32.2 bits (73), Expect = 0.041
Identities = 21/71 (29%), Positives = 30/71 (42%), Gaps = 5/71 (7%)
Query: 75 ESVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYTPVTELDYGTLSC 134
++VD C + P W S ++D SSG+ LR + V D G C
Sbjct: 3 QTVDFLCEAQGYPQP-VIAWTKGGSQLSVDRRHLVLSSGT----LRISRVALHDQGQYEC 57
Query: 135 AAQNAIGTQVT 145
A N +G+Q T
Sbjct: 58 QAVNIVGSQRT 68
>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 = 32.2 bits (73), Expect = 0.050
Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 5/74 (6%)
Query: 71 ASRSESVDIHCAVEADP-PARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYTPVTELDY 129
A+ +SV + C +AD P + W + GE ++ G E++S GS + V +LD
Sbjct: 15 ANLGQSVTLAC--DADGFPEPTMTWTKD--GEPIESGEEKYSFNEDGSEMTILDVDKLDE 70
Query: 130 GTLSCAAQNAIGTQ 143
+C A+N G Q
Sbjct: 71 AEYTCIAENKAGEQ 84
>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 = 31.8 bits (72), Expect = 0.055
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 5/45 (11%)
Query: 5 IPLAHNTSARIILSNQSLVLQKVSRQSAGTYKCSAINTKGEATSN 49
I L + S R+ +L+++ V+++ AG Y SA+N G AT +
Sbjct: 31 ISLYQDNSGRV-----TLLIKNVNKKDAGWYTVSAVNEAGVATCH 70
>gnl|CDD|200951 pfam00041, fn3, Fibronectin type III domain.
Length = 84
Score = 30.9 bits (70), Expect = 0.12
Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 1/61 (1%)
Query: 159 PPQNCSVRNETTSSVHISCTPGYDGGLPQTFTLELYSASDLNLLVNLTN-LDTPAFTLED 217
P N +V + T++S+ +S +P G + +E + +T T ++TL
Sbjct: 2 APTNLTVTDVTSTSLTLSWSPPPGNGPITGYEVEYRPVNGGEEWKEITVPGTTTSYTLTG 61
Query: 218 L 218
L
Sbjct: 62 L 62
>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 = 30.5 bits (69), Expect = 0.15
Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 7 LAHNTSARIILSNQSLVLQKVSRQSAGTYKCSAINTKGEATSNQLKLRV 55
L N+S ++ N +L + + + G++ C A N GEAT+ ++L +
Sbjct: 27 LISNSSRTLVYDNGTLDILITTVKDTGSFTCIASNAAGEATA-TVELHI 74
>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 = 30.9 bits (70), Expect = 0.16
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 12 SARIILSNQSLVLQKVSRQSAGTYKCSAINTKGEAT 47
SA I +S L + + + GTY+C A N KG+ T
Sbjct: 45 SAEISMSGAVLKIPNIQFEDEGTYECEAENIKGKDT 80
>gnl|CDD|206066 pfam13895, Ig_2, Immunoglobulin domain. This domain contains
immunoglobulin-like domains.
Length = 80
Score = 30.5 bits (69), Expect = 0.17
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 14 RIILSNQSLVLQK-VSRQSAGTYKCSAINTKGEATSNQLKLRV 55
+ S+Q+ VS + +GTY C A N G TSN + L V
Sbjct: 38 VPLSSSQNGFFTPNVSAEDSGTYTCVASNGGGGKTSNPVTLTV 80
>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 = 30.9 bits (70), Expect = 0.18
Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 16/77 (20%)
Query: 71 ASRSESVDIHCAVEADPPARSFKWKFNNSGETLDVGS-ERFSSGSRGSMLRYTPVTEL-- 127
A R V ++C+ E +PP +WK G L++ S ER GS+L +T +
Sbjct: 11 AVRGGPVVLNCSAEGEPPP-KIEWK--KDGVLLNLVSDERRQQLPNGSLL----ITSVVH 63
Query: 128 ------DYGTLSCAAQN 138
D G C AQN
Sbjct: 64 SKHNKPDEGFYQCVAQN 80
>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 = 31.0 bits (70), Expect = 0.19
Identities = 19/49 (38%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 12 SARIILSNQSLVLQKV-----SRQSAGTYKCSAINTKGEATSNQLKLRV 55
S RI+L + SL +V R G Y C A N+ GEA S L V
Sbjct: 51 SHRIVLPSGSLFFLRVVHGRKGRSDEGVYVCVAHNSLGEAVSRNASLEV 99
>gnl|CDD|143279 cd05871, Ig_Semaphorin_classIII, Immunoglobulin (Ig)-like domain
of class III semaphorin. Ig_Semaphorin_class III;
Immunoglobulin (Ig)-like domain of class III
semaphorins. Semaphorins are classified into various
classes on the basis of structural features additional
to the Sema domain. Class III semaphorins are a
vertebrate class having a Sema domain, an Ig domain, a
short basic domain, and are secreted. They have been
shown to be axonal guidance cues and have a part in the
regulation of the cardiovascular, immune and
respiratory systems. Sema3A, the prototype member of
this class III subfamily, induces growth cone collapse
and is an inhibitor of axonal sprouting. In perinatal
rat cortex as a chemoattractant, it functions to
direct, for pyramidal neurons, the orientated extension
of apical dendrites. It may play a role, prior to the
development of apical dendrites, in signaling the
radial migration of newborn cortical neurons towards
the upper layers. Sema3A selectively inhibits vascular
endothelial growth factor receptor (VEGF)-induced
angiogenesis and induces microvascular permeability.
This group also includes Sema3B, -C, -D, -E, -G.
Length = 91
Score = 30.4 bits (69), Expect = 0.22
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 11 TSARIILSNQSLVLQKVSRQSAGTYKCSA 39
T R+I + + L+L+ + R AG Y C+A
Sbjct: 44 TEERLIHTERGLLLRSLQRSDAGVYTCTA 72
>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 = 29.8 bits (67), Expect = 0.25
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 5 IPLAHNTSARIILSNQSLVLQKVSRQSAGTYKCSAINTKGEATSN 49
I L + RI L++Q +++ AG Y SA+N G + N
Sbjct: 31 ISLYQDNCGRI-----CLLIQNANKEDAGWYTVSAVNEAGVVSCN 70
>gnl|CDD|143218 cd05741, Ig_CEACAM_D1_like, First immunoglobulin (Ig)-like domain
of carcinoembryonic antigen (CEA) related cell adhesion
molecule (CEACAM) and similar proteins.
Ig_CEACAM_D1_like : immunoglobulin (IG)-like domain 1
in carcinoembryonic antigen (CEA) related cell adhesion
molecule (CEACAM) protein subfamily-like. The CEA
family is a group of anchored or secreted
glycoproteins, expressed by epithelial cells,
leukocytes, endothelial cells and placenta. The CEA
family is divided into the CEACAM and
pregnancy-specific glycoprotein (PSG) subfamilies. This
group represents the CEACAM subfamily. CEACAM1 has many
important cellular functions, it is a cell adhesion
molecule, and a signaling molecule that regulates the
growth of tumor cells, it is an angiogenic factor, and
is a receptor for bacterial and viral pathogens,
including mouse hepatitis virus (MHV). In mice, four
isoforms of CEACAM1 generated by alternative splicing
have either two [D1, D4] or four [D1-D4] Ig-like
domains on the cell surface. This family corresponds to
the D1 Ig-like domain. Also belonging to this group is
the N-terminal immunoglobulin (Ig)-like domain of the
signaling lymphocyte activation molecule (SLAM) family,
CD84-like family. The SLAM family is a group of
immune-cell specific receptors that can regulate both
adaptive and innate immune responses. SLAM family
proteins are organized as an extracellular domain with
having two or four Ig-like domains, a single
transmembrane segment, and a cytoplasmic region having
tyr-based motifs. The extracellular domain is organized
as a membrane-distal Ig variable (IgV) domain that is
responsible for ligand recognition and a
membrane-proximal truncated Ig constant-2 (IgC2)
domain.
Length = 92
Score = 30.0 bits (68), Expect = 0.30
Identities = 14/41 (34%), Positives = 24/41 (58%)
Query: 15 IILSNQSLVLQKVSRQSAGTYKCSAINTKGEATSNQLKLRV 55
I N SL++Q ++++ +GTY I+T G + + LRV
Sbjct: 52 TIYPNGSLLIQNLTKEDSGTYTLQIISTNGVTENAKFFLRV 92
>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 = 29.6 bits (66), Expect = 0.32
Identities = 23/65 (35%), Positives = 32/65 (49%), Gaps = 5/65 (7%)
Query: 77 VDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSSGSRGSMLRYTPVTELDYGTLSCAA 136
V I C +A P + F W + G L V + R S GS L +T+LD G+ +C A
Sbjct: 4 VIIECKPKAAPKPK-FSW---SKGTELLVNNSRISIWDDGS-LEILNITKLDEGSYTCFA 58
Query: 137 QNAIG 141
+N G
Sbjct: 59 ENNRG 63
Score = 28.4 bits (63), Expect = 0.73
Identities = 15/45 (33%), Positives = 23/45 (51%)
Query: 4 GIPLAHNTSARIILSNQSLVLQKVSRQSAGTYKCSAINTKGEATS 48
G L N S I + SL + +++ G+Y C A N +G+A S
Sbjct: 23 GTELLVNNSRISIWDDGSLEILNITKLDEGSYTCFAENNRGKANS 67
>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 = 0.34
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 19 NQSLVLQKVSRQSAGTYKCSAINTKGEAT 47
N++L + VS + G Y+C+A N+ G A
Sbjct: 35 NKTLKIDNVSEEDDGEYRCTASNSLGSAR 63
Score = 26.9 bits (60), Expect = 2.4
Identities = 10/36 (27%), Positives = 18/36 (50%)
Query: 107 SERFSSGSRGSMLRYTPVTELDYGTLSCAAQNAIGT 142
++R + L+ V+E D G C A N++G+
Sbjct: 26 ADRTKFENFNKTLKIDNVSEEDDGEYRCTASNSLGS 61
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 29.5 bits (67), Expect = 0.41
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 6/50 (12%)
Query: 3 GGIPLAHNTSARIILSN----QSLVLQKVSRQSAGTYKCSAINTKGEATS 48
G PL +S R ++ +L + V G Y C A N+ GEA +
Sbjct: 37 DGQPL--RSSDRFKVTYEGGTYTLTISNVQPDDEGKYTCVATNSAGEAEA 84
>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 = 0.57
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 4/37 (10%)
Query: 12 SARIILSNQ----SLVLQKVSRQSAGTYKCSAINTKG 44
SAR+ ++++ +L ++ V G Y C AINT+G
Sbjct: 30 SARVSITSEGGYGTLTIRDVKESDQGAYTCEAINTRG 66
>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 = 29.5 bits (66), Expect = 0.58
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 10/84 (11%)
Query: 65 RIVIVGASRSESVDIHCAVEADPPARSFKWKFNNSGETLDVGSERFSS------GSRGSM 118
R V S ++ C + P F+W N G LD+G+ R+ S+
Sbjct: 14 RKVASRGDGSSDANLVCQAQGVPRV-QFRWAKN--GVPLDLGNPRYEETTEHTGTVHTSI 70
Query: 119 LRYTPVTE-LDYGTLSCAAQNAIG 141
L V+ LDY +C A N++G
Sbjct: 71 LTIINVSAALDYALFTCTAHNSLG 94
>gnl|CDD|143235 cd05758, Ig5_KIRREL3-like, Fifth immunoglobulin (Ig)-like domain of
Kirrel (kin of irregular chiasm-like) 3 (also known as
Neph2) and similar proteins. Ig5_KIRREL3-like: domain
similar to the fifth immunoglobulin (Ig)-like domain of
Kirrel (kin of irregular chiasm-like) 3 (also known as
Neph2). This protein has five Ig-like domains, one
transmembrane domain, and a cytoplasmic tail. Included
in this group is mammalian Kirrel (Neph1), Kirrel2
(Neph3), and Drosophila RST (irregular chiasm
C-roughest) protein. These proteins contain multiple Ig
domains, have properties of cell adhesion molecules, and
are important in organ development.
Length = 98
Score = 29.3 bits (66), Expect = 0.68
Identities = 18/82 (21%), Positives = 31/82 (37%), Gaps = 10/82 (12%)
Query: 71 ASRSESVDIHCAVEADPPARSFKWKFNNSGETLDVGS-ERFS------SGSRGSMLRYTP 123
A + + C + + PP W + L+ GS R++ G S L +
Sbjct: 13 AILGDKGRVECFIFSTPPPDRIVWTWK--ENELESGSSGRYTVETDPSPGGVLSTLTISN 70
Query: 124 VTELD-YGTLSCAAQNAIGTQV 144
E D + +C A N+ G+
Sbjct: 71 TQESDFQTSYNCTAWNSFGSGT 92
>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 = 28.5 bits (64), Expect = 0.73
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 4 GIPLA-HNTSARIILSNQSLVLQKVSRQSAGTYKCSAINTKGEATSN 49
G+P+ R + +L+L V Y+C+A N G +N
Sbjct: 24 GVPIEELPPDPRRRVDGGTLILSNVQPNDTAVYQCNASNVHGYLLAN 70
>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 = 27.9 bits (62), Expect = 2.2
Identities = 22/76 (28%), Positives = 29/76 (38%), Gaps = 7/76 (9%)
Query: 71 ASRSESVDIHCAVEADPPARSFKWK-----FNNSGETLDVGSERFSSGSRGSMLRYTPVT 125
A E + + C E DP W+ F+ ++LD G +R S L V
Sbjct: 13 AVELEQITLTCEAEGDP-IPEITWRRATRNFSEGDKSLD-GRIVVRGHARVSSLTLKDVQ 70
Query: 126 ELDYGTLSCAAQNAIG 141
D G C A N IG
Sbjct: 71 LTDAGRYDCEASNRIG 86
>gnl|CDD|143237 cd05760, Ig2_PTK7, Second immunoglobulin (Ig)-like domain of
protein tyrosine kinase (PTK) 7, also known as CCK4.
Ig2_PTK7: domain similar to the second immunoglobulin
(Ig)-like domain in protein tyrosine kinase (PTK) 7,
also known as CCK4. PTK7 is a subfamily of the receptor
protein tyrosine kinase family, and is referred to as
an RPTK-like molecule. RPTKs transduce extracellular
signals across the cell membrane, and play important
roles in regulating cell proliferation, migration, and
differentiation. PTK7 is organized as an extracellular
portion having seven Ig-like domains, a single
transmembrane region, and a cytoplasmic tyrosine
kinase-like domain. PTK7 is considered a pseudokinase
as it has several unusual residues in some of the
highly conserved tyrosine kinase (TK) motifs; it is
predicted to lack TK activity. PTK7 may function as a
cell-adhesion molecule. PTK7 mRNA is expressed at high
levels in placenta, melanocytes, liver, lung, pancreas,
and kidney. PTK7 is overexpressed in several cancers,
including melanoma and colon cancer lines.
Length = 77
Score = 27.2 bits (60), Expect = 2.4
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 1/48 (2%)
Query: 4 GIPLAHNTSARIILSNQ-SLVLQKVSRQSAGTYKCSAINTKGEATSNQ 50
G PL+ + S + +L L+ +G Y C A N G S+Q
Sbjct: 21 GTPLSDGQGNYSVSSKERTLTLRSAGPDDSGLYYCCAHNAFGSVCSSQ 68
>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 = 27.2 bits (60), Expect = 3.1
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 4 GIPLAHNTSARIILSNQSLVLQKVSRQSAGTYKCSAINTKGEATSNQLKLRV 55
G PL + RI + L + K+S +G Y+C A N G ++ +L V
Sbjct: 37 GQPL--ASENRIEVEAGDLRITKLSLSDSGMYQCVAENKHGTIYASA-ELAV 85
>gnl|CDD|143176 cd04975, Ig4_SCFR_like, Fourth immunoglobulin (Ig)-like domain of
stem cell factor receptor (SCFR) and similar proteins.
Ig4_SCFR_like; fourth immunoglobulin (Ig)-like domain of
stem cell factor receptor (SCFR). In addition to SCFR
this group also includes the fourth Ig domain of
platelet-derived growth factor receptors (PDGFR), alpha
and beta, the fourth Ig domain of macrophage colony
stimulating factor (M-CSF), and the Ig domain of the
receptor tyrosine kinase KIT. SCFR and the PDGFR alpha
and beta have similar organization: an extracellular
component having five Ig-like domains, a transmembrane
segment, and a cytoplasmic portion having protein
tyrosine kinase activity. SCFR and its ligand SCF are
critical for normal hematopoiesis, mast cell
development, melanocytes and gametogenesis. SCF binds to
the second and third Ig-like domains of SCFR, this
fourth Ig-like domain participates in SCFR dimerization,
which follows ligand binding. Deletion of this fourth
SCFR_Ig-like domain abolishes the ligand-induced
dimerization of SCFR and completely inhibits signal
transduction. PDGF is a potent mitogen for connective
tissue cells. PDGF-stimulated processes are mediated by
three different PDGFs (PDGF-A,-B, and C). PDGFR alpha
binds to all three PDGFs, whereas the PDGFR beta, binds
only to PDGF-B. In mice, PDGFR alpha, and PDGFR beta,
are essential for normal development.
Length = 101
Score = 27.3 bits (61), Expect = 3.2
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 4/68 (5%)
Query: 75 ESVDIHCAVEADPPARSFKWKFNN--SGETLD--VGSERFSSGSRGSMLRYTPVTELDYG 130
E++++ VEA PP W ++N L V SE S S L+ + E + G
Sbjct: 19 ENLNLVVEVEAYPPPPHINWTYDNRTLTNKLTEIVTSENESEYRYVSELKLVRLKESEAG 78
Query: 131 TLSCAAQN 138
T + A N
Sbjct: 79 TYTFLASN 86
>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 = 26.8 bits (59), Expect = 3.4
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 33 GTYKCSAINTKGEATSNQLKLR 54
G Y+C+A N +G A SN + +R
Sbjct: 56 GVYQCTARNERGAAVSNNIVIR 77
>gnl|CDD|143251 cd05774, Ig_CEACAM_D1, First immunoglobulin (Ig)-like domain of
carcinoembryonic antigen (CEA) related cell adhesion
molecule (CEACAM). IG_CEACAM_D1: immunoglobulin
(Ig)-like domain 1 in carcinoembryonic antigen (CEA)
related cell adhesion molecule (CEACAM) protein
subfamily. The CEA family is a group of anchored or
secreted glycoproteins, expressed by epithelial cells,
leukocytes, endothelial cells and placenta. The CEA
family is divided into the CEACAM and
pregnancy-specific glycoprotein (PSG) subfamilies. This
group represents the CEACAM subfamily. CEACAM1 has many
important cellular functions, it is a cell adhesion
molecule, and a signaling molecule that regulates the
growth of tumor cells, it is an angiogenic factor, and
is a receptor for bacterial and viral pathogens,
including mouse hepatitis virus (MHV). In mice, four
isoforms of CEACAM1 generated by alternative splicing
have either two [D1, D4] or four [D1-D4] Ig-like
domains on the cell surface. This family corresponds to
the D1 Ig-like domain.
Length = 105
Score = 27.2 bits (61), Expect = 4.0
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 12 SAR-IILSNQSLVLQKVSRQSAGTYKCSAINTKGE 45
S R I N SL++Q V+++ G Y I T +
Sbjct: 61 SGRETIYPNGSLLIQNVTQKDTGFYTLQTITTNFQ 95
>gnl|CDD|152699 pfam12264, Waikav_capsid_1, Waikavirus capsid protein 1. The rice
tungro spherical waikavirus polyprotein is cleaved into
7 proteins, including three capsid proteins, by the
tungro spherical virus-type peptidase pfam12381. This
family represents the capsid protein 1.
Length = 197
Score = 28.0 bits (62), Expect = 4.5
Identities = 34/150 (22%), Positives = 60/150 (40%), Gaps = 27/150 (18%)
Query: 77 VDIHCAVEADPPARSFKWKFNNSGE----TLDVGSERFSSGSR----GSMLRYTPVTELD 128
D+H A+ + +SFKWK ++ + T + S+ +++ SR S +Y T +
Sbjct: 17 SDMHNAMLQEYLVKSFKWKVSDGQDKVLKTFSLPSDLWAANSRLKDIMSYFQYYTATGMT 76
Query: 129 Y-----------GTLSCAAQNAIGTQVTPCLYQVV-LAGKPQPPQNCSVRNETTSSV--- 173
+ GTL AA +A+G + +V L G P + TT +V
Sbjct: 77 FRITTTCIPMHGGTL-LAAWDALGCATRQGIATMVQLTGLPSMTIEAHSSSITTLTVTSP 135
Query: 174 ---HISCTPGYDGGLPQTFTLELYSASDLN 200
C G + + L++ + LN
Sbjct: 136 AIQSQICLSGSEHSFGRLGILKICCLNVLN 165
>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 = 26.0 bits (57), Expect = 6.3
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 12 SARI-ILSNQSLVLQKVSRQSAGTYKCSAINTKGEATSNQLKLRV 55
+ RI +LSN SL+++ V + +G Y C N G S + L V
Sbjct: 35 AGRIQLLSNGSLLIKHVLEEDSGYYLCKVSNDVGADASKSMVLTV 79
>gnl|CDD|227439 COG5108, RPO41, Mitochondrial DNA-directed RNA polymerase
[Transcription].
Length = 1117
Score = 28.0 bits (62), Expect = 6.3
Identities = 11/46 (23%), Positives = 20/46 (43%)
Query: 191 LELYSASDLNLLVNLTNLDTPAFTLEDLGLDGTVLMRVVISGVNAK 236
++S ++ L+++ N+ FT L L G +V N K
Sbjct: 144 ESVFSPEEVKLIMDQLNIPINNFTPSQLQLLGITNSTIVGESENGK 189
>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 = 26.5 bits (58), Expect = 6.6
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 12 SARIILS--NQSLVLQKVSRQSAGTYKCSAINTKGEATSNQLKLRV 55
R+ LS N++L V+R G Y+C A N TS+ L V
Sbjct: 45 PPRLQLSNDNRTLTFNNVTRSDTGHYQCEASNEVSNMTSDPYILNV 90
>gnl|CDD|176219 cd08258, Zn_ADH4, Alcohol dehydrogenases of the MDR family. This
group shares the zinc coordination sites of the
zinc-dependent alcohol dehydrogenases. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins
related to the first identified member, class I
mammalian ADH. MDRs display a broad range of
activities and are distinguished from the smaller short
chain dehydrogenases (~ 250 amino acids vs. the ~ 350
amino acids of the MDR). The MDR proteins have 2
domains: a C-terminal NAD(P)-binding Rossmann fold
domain of an beta-alpha form and an N-terminal
catalytic domain with distant homology to GroES. The
MDR group contains a host of activities, including the
founding alcohol dehydrogenase (ADH), quinone
reductase, sorbitol dehydrogenase, formaldehyde
dehydrogenase, butanediol DH, ketose reductase,
cinnamyl reductase, and numerous others. The
zinc-dependent alcohol dehydrogenases (ADHs) catalyze
the NAD(P)(H)-dependent interconversion of alcohols to
aldehydes or ketones. Active site zinc has a catalytic
role, while structural zinc aids in stability.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 306
Score = 27.7 bits (62), Expect = 7.2
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 45 EATSNQLKLRVKYAPICKSDR 65
E ++ ++V A IC SD
Sbjct: 23 EPGPGEVLIKVAAAGICGSDL 43
>gnl|CDD|220926 pfam10988, DUF2807, Protein of unknown function (DUF2807). This
bacterial family of proteins shows structural similarity
to other pectin lyase families. Although structures from
this family align with acetyl-transferases, there is no
conservation of catalytic residues found. It is likely
that the function is one of cell-adhesion. In PDB:3jx8,
it is interesting to note that the sequence of contains
several well defined sequence repeats, centred around
GSG motifs defining the tight beta turn between the two
sheets of the super-helix; there are 8 such repeats in
the C-terminal half of the protein, which could be
grouped into 4 repeats of two. It seems likely that this
family belongs to the superfamily of trimeric
autotransporter adhesins (TAAs), which are important
virulence factors in Gram-negative pathogens. In the
case of Parabacteroides distasonis, which is a cmoponent
of the normal distal human gut microbiota, TAA-like
complexes probably modulate adherence to the host
(information derived from TOPSAN).
Length = 181
Score = 27.1 bits (61), Expect = 7.6
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 187 QTFTLELYSASDLNLLVNLTNLDTPAFTLEDLGLDGTV-LMRVVISGV-NAKGRSL 240
L + + D+NL ++ NLD A D+ L G + + +SG + R L
Sbjct: 87 DNLELSISGSGDINLDLDADNLDVSASGSGDIKLSGKADNLELSVSGSGDIDARDL 142
>gnl|CDD|235146 PRK03640, PRK03640, O-succinylbenzoic acid--CoA ligase;
Provisional.
Length = 483
Score = 27.2 bits (61), Expect = 8.9
Identities = 26/87 (29%), Positives = 37/87 (42%), Gaps = 13/87 (14%)
Query: 153 LAGKPQPPQNCSVRNETTSSVHISCTPGYDGGLPQTFTLELYSA--SDLNLLVNLTNLDT 210
+ Q +E + ++ S T G G+ QT+ +SA S LNL LT D
Sbjct: 127 GPKEEAEIQEEFDLDEVATIMYTSGTTGKPKGVIQTYGNHWWSAVGSALNL--GLTEDDC 184
Query: 211 -----PAFTLEDLGLDGTVLMRVVISG 232
P F + L ++LMR VI G
Sbjct: 185 WLAAVPIFHISGL----SILMRSVIYG 207
>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 = 9.1
Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 7/72 (9%)
Query: 75 ESVDIHCAVEADPPARSFKWK-----FNNSGETLDVGSERFSSGSRGSMLRYTPVTELDY 129
E + + C DP S W+ ++ +TLD G S +R S L + D
Sbjct: 18 EQITLTCEASGDPIP-SITWRTSTRNISSEEKTLD-GHIVVRSHARVSSLTLKYIQYTDA 75
Query: 130 GTLSCAAQNAIG 141
G C A N IG
Sbjct: 76 GEYLCTASNTIG 87
>gnl|CDD|165149 PHA02785, PHA02785, IL-beta-binding protein; Provisional.
Length = 326
Score = 27.3 bits (60), Expect = 9.1
Identities = 33/135 (24%), Positives = 52/135 (38%), Gaps = 22/135 (16%)
Query: 22 LVLQKVSRQSAGTYKCSAINTKGEATSN-----QLKLRVKYAPICKSDRIVIVGASRSES 76
+ ++ V + AG Y C G+ T N +L++R + P +V S +
Sbjct: 179 ITIEDVRKNDAGYYTCVLKYIYGDKTYNVTRIVKLEVRDRIIPPTMQLPEGVV-TSIGSN 237
Query: 77 VDIHCAVEADPP---ARSFKWKFNN---------SGETLDVGSERFSSGSR---GSMLRY 121
+ I C V PP A F W N + V ++ +++ R S L
Sbjct: 238 LTIACRVSLRPPTTDADVF-WISNGMYYEEDDEDGDGRISVANKIYTTDKRRVITSRLNI 296
Query: 122 TPVTELDYGTLSCAA 136
PV E D T +C A
Sbjct: 297 NPVKEEDATTFTCMA 311
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 0.131 0.381
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: 12,481,600
Number of extensions: 1114077
Number of successful extensions: 872
Number of sequences better than 10.0: 1
Number of HSP's gapped: 866
Number of HSP's successfully gapped: 59
Length of query: 261
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 166
Effective length of database: 6,723,972
Effective search space: 1116179352
Effective search space used: 1116179352
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 (21.6 bits)
S2: 58 (26.3 bits)