RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7941
(238 letters)
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 55.9 bits (135), Expect = 7e-11
Identities = 22/70 (31%), Positives = 30/70 (42%), Gaps = 8/70 (11%)
Query: 152 EGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMG 211
EG S L C A+G P P ITW + D K + F L++ V+ + G
Sbjct: 1 EGQSVTLTCPAEGNPVPNITWLK-DGKPL-------PESNRFVASGSTLTIKSVSLEDSG 52
Query: 212 AYQCIAANGV 221
Y C+A N
Sbjct: 53 LYTCVAENSA 62
Score = 35.5 bits (82), Expect = 0.002
Identities = 12/28 (42%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 97 ANTWTLNIRSVRREDRGYYMCQVNTNPM 124
A+ TL I+SV ED G Y C N
Sbjct: 36 ASGSTLTIKSVSLEDSGLYTCVA-ENSA 62
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 56.5 bits (137), Expect = 9e-11
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 8/77 (10%)
Query: 147 DMMVPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLT--K 204
D+ V EG SA+ C G P P ++W + D + + S + + E +LT
Sbjct: 9 DVEVQEGESARFTCTVTGDPDPTVSWFK-DGQPL-----RSSDRFKVTYEGGTYTLTISN 62
Query: 205 VTRSEMGAYQCIAANGV 221
V + G Y C+A N
Sbjct: 63 VQPDDEGKYTCVATNSA 79
Score = 41.1 bits (97), Expect = 3e-05
Identities = 30/127 (23%), Positives = 45/127 (35%), Gaps = 37/127 (29%)
Query: 9 PDFLYPLENVTIAQGRDAIFTCVVNNLGGHRVSSSVTDTHVNTGGSIVFPTDSSAMKVAW 68
P F ++V + +G A FTC V TG P V+W
Sbjct: 1 PKFTQKPKDVEVQEGESARFTCTV------------------TG----DPD----PTVSW 34
Query: 69 IKADTKAVLAIHEHVITNNARLSVTHNDANTWTLNIRSVRREDRGYYMCQVNTNPMTKQM 128
K + ++ R VT+ TL I +V+ +D G Y C TN +
Sbjct: 35 FKDGQP---------LRSSDRFKVTYEGGTY-TLTISNVQPDDEGKYTCVA-TNSAGEAE 83
Query: 129 AFLEVVI 135
A E+ +
Sbjct: 84 ASAELTV 90
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 54.4 bits (131), Expect = 4e-10
Identities = 27/93 (29%), Positives = 39/93 (41%), Gaps = 12/93 (12%)
Query: 145 SGDMMVPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESE----VL 200
+ V EG S L C+A G P P++TW ++ K + FSV L
Sbjct: 1 PPSVTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLAESGR-------FSVSRSGSTSTL 53
Query: 201 SLTKVTRSEMGAYQCIAANGVPPTVSKRLMLHV 233
+++ VT + G Y C A N + S L V
Sbjct: 54 TISNVTPEDSGTYTCAATNSS-GSASSGTTLTV 85
Score = 45.2 bits (107), Expect = 1e-06
Identities = 24/92 (26%), Positives = 36/92 (39%), Gaps = 13/92 (14%)
Query: 46 DTHVNTGGSIVFP---TDSSAMKVAWIKADTKAVLAIHEHVITNNARLSVTHNDANTWTL 102
V G S+ + S +V W K K ++ + R SV+ + +T TL
Sbjct: 3 SVTVKEGESVTLSCEASGSPPPEVTWYKQGGK--------LLAESGRFSVSRSG-STSTL 53
Query: 103 NIRSVRREDRGYYMCQV-NTNPMTKQMAFLEV 133
I +V ED G Y C N++ L V
Sbjct: 54 TISNVTPEDSGTYTCAATNSSGSASSGTTLTV 85
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 54.4 bits (131), Expect = 4e-10
Identities = 27/93 (29%), Positives = 39/93 (41%), Gaps = 12/93 (12%)
Query: 145 SGDMMVPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESE----VL 200
+ V EG S L C+A G P P++TW ++ K + FSV L
Sbjct: 1 PPSVTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLAESGR-------FSVSRSGSTSTL 53
Query: 201 SLTKVTRSEMGAYQCIAANGVPPTVSKRLMLHV 233
+++ VT + G Y C A N + S L V
Sbjct: 54 TISNVTPEDSGTYTCAATNSS-GSASSGTTLTV 85
Score = 45.2 bits (107), Expect = 1e-06
Identities = 24/92 (26%), Positives = 36/92 (39%), Gaps = 13/92 (14%)
Query: 46 DTHVNTGGSIVFP---TDSSAMKVAWIKADTKAVLAIHEHVITNNARLSVTHNDANTWTL 102
V G S+ + S +V W K K ++ + R SV+ + +T TL
Sbjct: 3 SVTVKEGESVTLSCEASGSPPPEVTWYKQGGK--------LLAESGRFSVSRSG-STSTL 53
Query: 103 NIRSVRREDRGYYMCQV-NTNPMTKQMAFLEV 133
I +V ED G Y C N++ L V
Sbjct: 54 TISNVTPEDSGTYTCAATNSSGSASSGTTLTV 85
>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 = 51.0 bits (121), Expect = 8e-09
Identities = 20/66 (30%), Positives = 28/66 (42%)
Query: 156 AKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQC 215
L C A G P P ITW + S + S S L+++ VT + G Y C
Sbjct: 1 VTLTCLASGPPPPTITWLKNGKPLPSSVLTRVRSSRGTSSGSSTLTISNVTLEDSGTYTC 60
Query: 216 IAANGV 221
+A+N
Sbjct: 61 VASNSA 66
Score = 34.0 bits (77), Expect = 0.008
Identities = 13/69 (18%), Positives = 25/69 (36%), Gaps = 6/69 (8%)
Query: 59 TDSSAMKVAWIKADTKAVLAIHEHVITNNARLSVTHNDANTWTLNIRSVRREDRGYYMCQ 118
+ + W+K ++ V ++ + + TL I +V ED G Y C
Sbjct: 8 SGPPPPTITWLKNGKPLPSSVLTRVRSSR------GTSSGSSTLTISNVTLEDSGTYTCV 61
Query: 119 VNTNPMTKQ 127
+ + T
Sbjct: 62 ASNSAGTVS 70
>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 = 50.0 bits (119), Expect = 2e-08
Identities = 24/68 (35%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSV-ESEVLSLTKVTRSEMG 211
G + C+A G P P I W++E ++ ++ PP S FSV ++ L++T V RS++G
Sbjct: 1 GRTVTFQCEATGNPQPAIFWQKEGSQNLLFSYQPPQSSSRFSVSQTGDLTITNVQRSDVG 60
Query: 212 AYQCIAAN 219
Y C N
Sbjct: 61 YYICQTLN 68
Score = 33.0 bits (75), Expect = 0.022
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 5/48 (10%)
Query: 87 NARLSVTHNDANTWTLNIRSVRREDRGYYMCQ-VNTNPMTKQMAFLEV 133
++R SV+ T L I +V+R D GYY+CQ +N A+LEV
Sbjct: 38 SSRFSVSQ----TGDLTITNVQRSDVGYYICQTLNVAGSILTKAYLEV 81
>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 = 47.8 bits (114), Expect = 1e-07
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 7/82 (8%)
Query: 147 DMMVPEGGSAKLVCKA-KGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKV 205
D V G A L C +G+P P ++WR+ D + + + + V V+ L + +
Sbjct: 5 DTQVAVGEMAVLECSPPRGHPEPTVSWRK-DGQPLNLDNER-----VRIVDDGNLLIAEA 58
Query: 206 TRSEMGAYQCIAANGVPPTVSK 227
+S+ G Y+C+A N V S
Sbjct: 59 RKSDEGTYKCVATNMVGERESA 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 = 47.9 bits (114), Expect = 2e-07
Identities = 33/102 (32%), Positives = 49/102 (48%), Gaps = 7/102 (6%)
Query: 136 PPDISSEETSGDMMVPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSV 195
PP I E D++V +G A L CKA+G PTP I W + + + + + P S ++
Sbjct: 1 PPRIV--EHPSDLIVSKGDPATLNCKAEGRPTPTIQWLK-NGQPLETDKDDPRSHRIVLP 57
Query: 196 ESEVLSLTKV----TRSEMGAYQCIAANGVPPTVSKRLMLHV 233
+ L V RS+ G Y C+A N + VS+ L V
Sbjct: 58 SGSLFFLRVVHGRKGRSDEGVYVCVAHNSLGEAVSRNASLEV 99
>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 = 46.8 bits (111), Expect = 4e-07
Identities = 23/84 (27%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 136 PPDISSEETSGDMMVPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSV 195
PP I + ++ + G S L C A G+P P +TW + D + I S F+
Sbjct: 1 PPTIRARQSEVNATANLGQSVTLACDADGFPEPTMTWTK-DGEPIESGEEKYS----FNE 55
Query: 196 ESEVLSLTKVTRSEMGAYQCIAAN 219
+ +++ V + + Y CIA N
Sbjct: 56 DGSEMTILDVDKLDEAEYTCIAEN 79
>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 = 45.9 bits (109), Expect = 5e-07
Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 5/68 (7%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGA 212
G + +L C+A+G P P ITWR N I P ++V L L+ V ++
Sbjct: 1 GETGRLDCEAEGIPQPTITWRL--NGVPIEELPPDPRRRVD---GGTLILSNVQPNDTAV 55
Query: 213 YQCIAANG 220
YQC A+N
Sbjct: 56 YQCNASNV 63
>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 = 45.9 bits (109), Expect = 7e-07
Identities = 20/67 (29%), Positives = 28/67 (41%), Gaps = 8/67 (11%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGA 212
G + L C A G P P+I WR+ D S S+ VL + + + G
Sbjct: 16 GQNVTLECFALGNPVPQIKWRKVD--------GSMPSSAEISMSGAVLKIPNIQFEDEGT 67
Query: 213 YQCIAAN 219
Y+C A N
Sbjct: 68 YECEAEN 74
>gnl|CDD|206066 pfam13895, Ig_2, Immunoglobulin domain. This domain contains
immunoglobulin-like domains.
Length = 80
Score = 45.5 bits (108), Expect = 8e-07
Identities = 24/84 (28%), Positives = 32/84 (38%), Gaps = 14/84 (16%)
Query: 150 VPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSE 209
V EG L C A G P P TW + D + S F+ V+ +
Sbjct: 11 VFEGEDVTLTCSAPGNPPPNYTWYK-DGVPL-----SSSQNGFFT--------PNVSAED 56
Query: 210 MGAYQCIAANGVPPTVSKRLMLHV 233
G Y C+A+NG S + L V
Sbjct: 57 SGTYTCVASNGGGGKTSNPVTLTV 80
>gnl|CDD|143206 cd05729, Ig2_FGFR_like, Second immunoglobulin (Ig)-like domain of
fibroblast growth factor (FGF) receptor and similar
proteins. Ig2_FGFR_like: domain similar to the second
immunoglobulin (Ig)-like domain of fibroblast growth
factor (FGF) receptor. FGF receptors bind FGF signaling
polypeptides. FGFs participate in multiple processes
such as morphogenesis, development, and angiogenesis.
FGFs bind to four FGF receptor tyrosine kinases (FGFR1,
-2, -3, -4). Receptor diversity is controlled by
alternative splicing producing splice variants with
different ligand binding characteristics and different
expression patterns. FGFRs have an extracellular region
comprised of three Ig-like domains, a single
transmembrane helix, and an intracellular tyrosine
kinase domain. Ligand binding and specificity reside in
the Ig-like domains 2 and 3, and the linker region that
connects these two. FGFR activation and signaling depend
on FGF-induced dimerization, a process involving cell
surface heparin or heparin sulfate proteoglycans. This
group also contains fibroblast growth factor (FGF)
receptor_like-1(FGFRL1). FGFRL1 does not have a protein
tyrosine kinase domain at its C terminus; neither does
its cytoplasmic domain appear to interact with a
signaling partner. It has been suggested that FGFRL1 may
not have any direct signaling function, but instead acts
as a decoy receptor trapping FGFs and preventing them
from binding other receptors.
Length = 85
Score = 44.3 bits (105), Expect = 2e-06
Identities = 25/71 (35%), Positives = 32/71 (45%), Gaps = 3/71 (4%)
Query: 149 MVPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRS 208
VP G + +L C A G P P ITW + D K + + KV + L L V S
Sbjct: 5 AVPAGSTVRLKCPASGNPRPTITWLK-DGKP-FKKEHRIGGYKV-RKKKWTLILESVVPS 61
Query: 209 EMGAYQCIAAN 219
+ G Y CI N
Sbjct: 62 DSGKYTCIVEN 72
Score = 35.8 bits (83), Expect = 0.002
Identities = 11/36 (30%), Positives = 13/36 (36%)
Query: 84 ITNNARLSVTHNDANTWTLNIRSVRREDRGYYMCQV 119
R+ WTL + SV D G Y C V
Sbjct: 35 FKKEHRIGGYKVRKKKWTLILESVVPSDSGKYTCIV 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 = 44.4 bits (105), Expect = 2e-06
Identities = 26/78 (33%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 152 EGGSAKLVCKAKGYPTPKITWRR------EDNK----EIIVRSNPPSSQKVFSVESEVLS 201
E L C+A+G P P+ITWRR E +K I+VR + S L+
Sbjct: 15 ELEQITLTCEAEGDPIPEITWRRATRNFSEGDKSLDGRIVVRGHARVSS---------LT 65
Query: 202 LTKVTRSEMGAYQCIAAN 219
L V ++ G Y C A+N
Sbjct: 66 LKDVQLTDAGRYDCEASN 83
>gnl|CDD|143208 cd05731, Ig3_L1-CAM_like, Third immunoglobulin (Ig)-like domain of
the L1 cell adhesion molecule (CAM). Ig3_L1-CAM_like:
domain similar to the third immunoglobulin (Ig)-like
domain of the L1 cell adhesion molecule (CAM). L1
belongs to the L1 subfamily of cell adhesion molecules
(CAMs) and is comprised of an extracellular region
having six Ig-like domains and five fibronectin type III
domains, a transmembrane region and an intracellular
domain. L1 is primarily expressed in the nervous system
and is involved in its development and function. L1 is
associated with an X-linked recessive disorder, X-linked
hydrocephalus, MASA syndrome, or spastic paraplegia type
1, that involves abnormalities of axonal growth. This
group also contains the chicken neuron-glia cell
adhesion molecule, Ng-CAM and human neurofascin.
Length = 71
Score = 43.9 bits (104), Expect = 2e-06
Identities = 18/64 (28%), Positives = 32/64 (50%), Gaps = 7/64 (10%)
Query: 158 LVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQCIA 217
L C A+G PTP+I+W + P+ + F ++ L + V+ + G Y+C A
Sbjct: 3 LECIAEGLPTPEISWIKIG-------GELPADRTKFENFNKTLKIDNVSEEDDGEYRCTA 55
Query: 218 ANGV 221
+N +
Sbjct: 56 SNSL 59
>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 = 43.6 bits (103), Expect = 3e-06
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 7/67 (10%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGA 212
GG + CK K P P I+W + E++ +S ++ L + VT+S+ G
Sbjct: 1 GGDVIIECKPKAAPKPTISWSK--GTELLT-----NSSRICIWPDGSLEILNVTKSDEGK 53
Query: 213 YQCIAAN 219
Y C A N
Sbjct: 54 YTCFAEN 60
Score = 27.0 bits (60), Expect = 2.2
Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 16/70 (22%)
Query: 52 GGSIVF---PTDSSAMKVAWIKADTKAVLAIHEHVITNNARLSVTHNDANTWTLNIRSVR 108
GG ++ P + ++W K ++TN++R+ + + +L I +V
Sbjct: 1 GGDVIIECKPKAAPKPTISWSKGT---------ELLTNSSRICIWPDG----SLEILNVT 47
Query: 109 REDRGYYMCQ 118
+ D G Y C
Sbjct: 48 KSDEGKYTCF 57
>gnl|CDD|143202 cd05725, Ig3_Robo, Third immunoglobulin (Ig)-like domain in Robo
(roundabout) receptors. Ig3_Robo: domain similar to the
third immunoglobulin (Ig)-like domain in Robo
(roundabout) receptors. Robo receptors play a role in
the development of the central nervous system (CNS), and
are receptors of Slit protein. Slit is a repellant
secreted by the neural cells in the midline. Slit acts
through Robo to prevent most neurons from crossing the
midline from either side. Three mammalian Robo homologs
(robo1, -2, and -3), and three mammalian Slit homologs
(Slit-1,-2, -3), have been identified. Commissural
axons, which cross the midline, express low levels of
Robo; longitudinal axons, which avoid the midline,
express high levels of Robo. robo1, -2, and -3 are
expressed by commissural neurons in the vertebrate
spinal cord and Slits 1, -2, -3 are expressed at the
ventral midline. Robo-3 is a divergent member of the
Robo family which instead of being a positive regulator
of slit responsiveness, antagonizes slit responsiveness
in precrossing axons. The Slit-Robo interaction is
mediated by the second leucine-rich repeat (LRR) domain
of Slit and the two N-terminal Ig domains of Robo, Ig1
and Ig2. The primary Robo binding site for Slit2 has
been shown by surface plasmon resonance experiments and
mutational analysis to be is the Ig1 domain, while the
Ig2 domain has been proposed to harbor a weak secondary
binding site.
Length = 69
Score = 43.2 bits (102), Expect = 4e-06
Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 8/66 (12%)
Query: 156 AKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQC 215
+ C+ G P P + WR+ED + R+ ++ + L + VT + G+Y C
Sbjct: 1 VEFQCEVGGDPVPTVLWRKEDGELPKGRAE--------ILDDKSLKIRNVTAGDEGSYTC 52
Query: 216 IAANGV 221
A N V
Sbjct: 53 EAENMV 58
>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 = 43.4 bits (102), Expect = 5e-06
Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 8/67 (11%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGA 212
G S + CKA G P P W + P +S+ VE+ L +TK++ S+ G
Sbjct: 14 GSSLRWECKASGNPRPAYRWLKN--------GQPLASENRIEVEAGDLRITKLSLSDSGM 65
Query: 213 YQCIAAN 219
YQC+A N
Sbjct: 66 YQCVAEN 72
>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 = 42.9 bits (101), Expect = 5e-06
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 6/74 (8%)
Query: 148 MMVPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTR 207
+ P G S +L C A G P P ITW + DNK + S +K ++ LSL +
Sbjct: 4 IARPVGSSVRLKCVASGNPRPDITWLK-DNKPLTPTEIGESRKKKWT-----LSLKNLKP 57
Query: 208 SEMGAYQCIAANGV 221
+ G Y C +N
Sbjct: 58 EDSGKYTCHVSNRA 71
Score = 31.3 bits (71), Expect = 0.096
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 100 WTLNIRSVRREDRGYYMCQV 119
WTL++++++ ED G Y C V
Sbjct: 48 WTLSLKNLKPEDSGKYTCHV 67
>gnl|CDD|143240 cd05763, Ig_1, Subgroup of the immunoglobulin (Ig) superfamily.
Ig_1: subgroup of the immunoglobulin (Ig) domain found
in the Ig superfamily. The Ig superfamily is a
heterogenous group of proteins, built on a common fold
comprised of a sandwich of two beta sheets. Members of
the Ig superfamily are components of immunoglobulin,
neuroglia, cell surface glycoproteins, such as T-cell
receptors, CD2, CD4, CD8, and membrane glycoproteins,
such as butyrophilin and chondroitin sulfate
proteoglycan core protein. A predominant feature of most
Ig domains is a disulfide bridge connecting the two
beta-sheets with a tryptophan residue packed against the
disulfide bond.
Length = 75
Score = 41.1 bits (96), Expect = 2e-05
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 7/66 (10%)
Query: 156 AKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSV--ESEVLSLTKVTRSEMGAY 213
A+L C A G+PTP+I W+++ + P + ++ V E +V + V + G Y
Sbjct: 1 ARLECAATGHPTPQIAWQKDGGTDF-----PAARERRMHVMPEDDVFFIVDVKIEDTGVY 55
Query: 214 QCIAAN 219
C A N
Sbjct: 56 SCTAQN 61
>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 = 40.7 bits (95), Expect = 4e-05
Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 1/77 (1%)
Query: 158 LVCKAKGYPTPKITWRREDNKEIIVRSNP-PSSQKVFSVESEVLSLTKVTRSEMGAYQCI 216
L C A+GYP P I W+ + ++ + ++ + + L + V + G Y C
Sbjct: 3 LNCSAEGYPPPTIVWKHSKGRGHPQHTHTCCLAGRIQLLSNGSLLIKHVLEEDSGYYLCK 62
Query: 217 AANGVPPTVSKRLMLHV 233
+N V SK ++L V
Sbjct: 63 VSNDVGADASKSMVLTV 79
Score = 31.1 bits (70), Expect = 0.085
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 80 HEHVITNNARLSVTHNDANTWTLNIRSVRREDRGYYMCQVNTN 122
H H R+ + N +L I+ V ED GYY+C+V+ +
Sbjct: 28 HTHTCCLAGRIQLLSNG----SLLIKHVLEEDSGYYLCKVSND 66
>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 = 40.3 bits (94), Expect = 4e-05
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 7/63 (11%)
Query: 158 LVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQCIA 217
L C A+G PTP++ W R D P+ K + ++ L L V S+ G Y C A
Sbjct: 3 LECIAEGLPTPEVHWDRIDG------PLSPNRTKKLN-NNKTLQLDNVLESDDGEYVCTA 55
Query: 218 ANG 220
N
Sbjct: 56 ENS 58
>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 = 40.7 bits (95), Expect = 5e-05
Identities = 23/72 (31%), Positives = 35/72 (48%), Gaps = 5/72 (6%)
Query: 152 EGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVE----SEVLSLTKVTR 207
E G+A L CKA+G P P+ITW+R + + ++ V+ L + V
Sbjct: 15 ENGAATLSCKAEGEPIPEITWKRASDGHTFSEGDKSPDGRI-EVKGQHGESSLHIKDVKL 73
Query: 208 SEMGAYQCIAAN 219
S+ G Y C AA+
Sbjct: 74 SDSGRYDCEAAS 85
>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 = 39.4 bits (92), Expect = 1e-04
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 6/67 (8%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGA 212
G A L CKA+G P P I W D K I +S + ++ L + T + G+
Sbjct: 1 GQRATLRCKARGDPEPAIHWISPDGKLI------SNSSRTLVYDNGTLDILITTVKDTGS 54
Query: 213 YQCIAAN 219
+ CIA+N
Sbjct: 55 FTCIASN 61
>gnl|CDD|143222 cd05745, Ig3_Peroxidasin, Third immunoglobulin (Ig)-like domain of
peroxidasin. Ig3_Peroxidasin: the third immunoglobulin
(Ig)-like domain in peroxidasin. Peroxidasin has a
peroxidase domain and interacting extracellular motifs
containing four Ig-like domains. It has been suggested
that peroxidasin is secreted and has functions related
to the stabilization of the extracellular matrix. It may
play a part in various other important processes such as
removal and destruction of cells which have undergone
programmed cell death, and protection of the organism
against non-self.
Length = 74
Score = 38.0 bits (88), Expect = 3e-04
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 10/82 (12%)
Query: 152 EGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMG 211
EG + +C+A+GYP P I W + ++ + R + V S S L +++V + G
Sbjct: 1 EGQTVDFLCEAQGYPQPVIAWTKGGSQLSVDRRH-----LVLS--SGTLRISRVALHDQG 53
Query: 212 AYQCIAANGVPPTVSKRLMLHV 233
Y+C A N S+R + +
Sbjct: 54 QYECQAVN---IVGSQRTVAQL 72
>gnl|CDD|219514 pfam07686, V-set, Immunoglobulin V-set domain. This domain is
found in antibodies as well as neural protein P0 and
CTL4 amongst others.
Length = 114
Score = 38.7 bits (90), Expect = 4e-04
Identities = 22/100 (22%), Positives = 35/100 (35%), Gaps = 15/100 (15%)
Query: 40 VSSSVTDTHVNTGGSIVFP----TDSSAMKVAWIKADTKAVLAIHEHVITNNARLSVT-- 93
V+ V GGS+ P + S + V W K + H +T+ V
Sbjct: 4 VTQPPRPVTVAEGGSVTLPCSFSSSSGSTSVYWYKQPLGKGPELIIHYVTSTPNGKVGPR 63
Query: 94 ---------HNDANTWTLNIRSVRREDRGYYMCQVNTNPM 124
+ N ++L I ++R D G Y C V+
Sbjct: 64 FKGRVTLSGNGSKNDFSLTISNLRLSDSGTYTCAVSNPNE 103
Score = 31.8 bits (72), Expect = 0.10
Identities = 20/114 (17%), Positives = 34/114 (29%), Gaps = 18/114 (15%)
Query: 138 DISSEETSGDMMVPEGGSAKLVCKAK-GYPTPKITWRR----EDNKEIIVRSNPPSSQKV 192
+ + V EGGS L C + + W + + + II + KV
Sbjct: 1 MSLVTQPPRPVTVAEGGSVTLPCSFSSSSGSTSVYWYKQPLGKGPELIIHYVTSTPNGKV 60
Query: 193 FSVESE-------------VLSLTKVTRSEMGAYQCIAANGVPPTVSKRLMLHV 233
L+++ + S+ G Y C +N L V
Sbjct: 61 GPRFKGRVTLSGNGSKNDFSLTISNLRLSDSGTYTCAVSNPNELVFGAGTRLTV 114
>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 = 37.1 bits (86), Expect = 4e-04
Identities = 17/65 (26%), Positives = 25/65 (38%), Gaps = 3/65 (4%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGA 212
G S L C G P +TW +E + V S L+++ VT + G
Sbjct: 1 GSSVTLTCSVSGPPQVDVTWFKEGKGLE---ESTTVGTDENRVSSITLTISNVTPEDSGT 57
Query: 213 YQCIA 217
Y C+
Sbjct: 58 YTCVV 62
Score = 31.4 bits (71), Expect = 0.060
Identities = 14/54 (25%), Positives = 16/54 (29%), Gaps = 9/54 (16%)
Query: 66 VAWIKADTKAVLAIHEHVITNNARLSVTHNDANTWTLNIRSVRREDRGYYMCQV 119
V W K + N TL I +V ED G Y C V
Sbjct: 18 VTWFKEGKGLEESTTVGTDENRVSSI---------TLTISNVTPEDSGTYTCVV 62
>gnl|CDD|222457 pfam13927, Ig_3, Immunoglobulin domain. This family contains
immunoglobulin-like domains.
Length = 74
Score = 37.0 bits (85), Expect = 7e-04
Identities = 27/85 (31%), Positives = 37/85 (43%), Gaps = 12/85 (14%)
Query: 136 PPDISSEETSGDMMVPEGGSAKLVCKAKGYP-TPKITWRREDNKEIIVRSNPPSSQKVFS 194
P I+ + V GG L C A+G P P I+W R S S + S
Sbjct: 1 KPVITVSPSP---SVTSGGGVTLTCSAEGGPPPPTISWYRNG-------SISGGSGGLGS 50
Query: 195 VESEVLSLTKVTRSEMGAYQCIAAN 219
S L+L+ VT + G Y C+A+N
Sbjct: 51 SGS-TLTLSSVTSEDSGTYTCVASN 74
Score = 25.8 bits (56), Expect = 7.8
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 101 TLNIRSVRREDRGYYMCQVNT 121
TL + SV ED G Y C +
Sbjct: 54 TLTLSSVTSEDSGTYTCVASN 74
>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 = 36.9 bits (85), Expect = 9e-04
Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 2/73 (2%)
Query: 160 CKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEM-GAYQCIAA 218
C+AKG P P W R + K V +P S + S + + G YQC A
Sbjct: 5 CEAKGNPVPTFQWTR-NGKFFNVAKDPRVSMRRRSGTLVIDFSGGGRPEDYEGEYQCFAR 63
Query: 219 NGVPPTVSKRLML 231
N + +S +++L
Sbjct: 64 NNLGTALSNKILL 76
>gnl|CDD|212460 cd05723, Ig4_Neogenin, Fourth immunoglobulin (Ig)-like domain in
neogenin and similar proteins. Ig4_Neogenin: fourth
immunoglobulin (Ig)-like domain in neogenin and related
proteins. Neogenin is a cell surface protein which is
expressed in the developing nervous system of vertebrate
embryos in the growing nerve cells. It is also expressed
in other embryonic tissues, and may play a general role
in developmental processes such as cell migration,
cell-cell recognition, and tissue growth regulation.
Included in this group is the tumor suppressor protein
DCC, which is deleted in colorectal carcinoma . DCC and
neogenin each have four Ig-like domains followed by six
fibronectin type III domains, a transmembrane domain,
and an intracellular domain.
Length = 71
Score = 36.5 bits (84), Expect = 0.001
Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 7/62 (11%)
Query: 160 CKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQCIAAN 219
C+ G PTP + W + N ++++ P K+ V+ L + + +S+ G YQCIA N
Sbjct: 6 CEVTGKPTPTVKWVK--NGDMVI---PSDYFKI--VKEHNLQVLGLVKSDEGFYQCIAEN 58
Query: 220 GV 221
V
Sbjct: 59 DV 60
>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 = 35.7 bits (82), Expect = 0.002
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGA 212
G L+C+A G P P I+W + I + PS + V+ + + +KV
Sbjct: 1 GEDGTLICRANGNPKPSISW-LTNGVPIEIAPTDPSRK----VDGDTIIFSKVQERSSAV 55
Query: 213 YQCIAAN 219
YQC A+N
Sbjct: 56 YQCNASN 62
>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 = 35.4 bits (81), Expect = 0.002
Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 7/67 (10%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGA 212
GG + CK K P PK +W + E++V ++ ++ + L + +T+ + G+
Sbjct: 1 GGRVIIECKPKAAPKPKFSWSK--GTELLV-----NNSRISIWDDGSLEILNITKLDEGS 53
Query: 213 YQCIAAN 219
Y C A N
Sbjct: 54 YTCFAEN 60
>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 = 35.6 bits (82), Expect = 0.002
Identities = 26/67 (38%), Positives = 34/67 (50%), Gaps = 5/67 (7%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGA 212
G +A+L C+ +G PTP ITW N I ++P + V S L LT V S+
Sbjct: 1 GETARLDCQVEGIPTPNITWSI--NGAPIEGTDPDPRRH---VSSGALILTDVQPSDTAV 55
Query: 213 YQCIAAN 219
YQC A N
Sbjct: 56 YQCEARN 62
>gnl|CDD|143213 cd05736, Ig2_Follistatin_like, Second immunoglobulin (Ig)-like
domain of a follistatin-like molecule encoded by the
Mahya gene and similar proteins. Ig2_Follistatin_like:
domain similar to the second immunoglobulin (Ig)-like
domain found in a follistatin-like molecule encoded by
the CNS-related Mahya gene. Mahya genes have been
retained in certain Bilaterian branches during
evolution. They are conserved in Hymenoptera and
Deuterostomes, but are absent from other metazoan
species such as fruit fly and nematode. Mahya proteins
are secretory, with a follistatin-like domain
(Kazal-type serine/threonine protease inhibitor domain
and EF-hand calcium-binding domain), two Ig-like
domains, and a novel C-terminal domain. Mahya may be
involved in learning and memory and in processing of
sensory information in Hymenoptera and vertebrates.
Follistatin is a secreted, multidomain protein that
binds activins with high affinity and antagonizes their
signaling.
Length = 76
Score = 35.3 bits (81), Expect = 0.003
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 156 AKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQC 215
A L C A+G P P++TW + + + + + SE L ++ V + GAY C
Sbjct: 1 ASLRCHAEGIPLPRLTWLKNG---MDITPKLSKQLTLIANGSE-LHISNVRYEDTGAYTC 56
Query: 216 IAAN 219
IA N
Sbjct: 57 IAKN 60
Score = 29.9 bits (67), Expect = 0.24
Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 10/45 (22%)
Query: 97 ANTWTLNIRSVRREDRGYYMCQVNTNPMTKQMAFLEVVIPPDISS 141
AN L+I +VR ED G Y C E + DISS
Sbjct: 36 ANGSELHISNVRYEDTGAYTCIAKN----------EAGVDEDISS 70
>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 = 35.0 bits (80), Expect = 0.003
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 5/78 (6%)
Query: 156 AKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQC 215
A ++C A G P P+ITW ++ + + S+ ++ + S L + S+ G Y+C
Sbjct: 1 ATMLCAASGNPDPEITWFKD-----FLPVDTTSNGRIKQLRSGALQIENSEESDQGKYEC 55
Query: 216 IAANGVPPTVSKRLMLHV 233
+A N S L+V
Sbjct: 56 VATNSAGTRYSAPANLYV 73
>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 = 35.5 bits (82), Expect = 0.004
Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 12/88 (13%)
Query: 147 DMMVPEGGSAKLVCKAKGYPTPKITWRR------EDNKEIIVRSNPPSSQKVFSVESEVL 200
D++ GG L C A+G P PKI W++ + E + P S + SV
Sbjct: 8 DIVAVRGGPVVLNCSAEGEPPPKIEWKKDGVLLNLVSDE-RRQQLPNGSLLITSVVH--- 63
Query: 201 SLTKVTRSEMGAYQCIAANGVPPTVSKR 228
+K + + G YQC+A N ++ R
Sbjct: 64 --SKHNKPDEGFYQCVAQNDSLGSIVSR 89
>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 = 35.3 bits (81), Expect = 0.004
Identities = 28/97 (28%), Positives = 43/97 (44%), Gaps = 8/97 (8%)
Query: 137 PDISSEETSGDMMVPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVE 196
P I+S + G+ + L C+A+G T I W + S + S +
Sbjct: 2 PVINSNNSVGNQPPEDNQPVTLTCEAEGQAT-YIWW-------VNNGSLLVPPRLQLSND 53
Query: 197 SEVLSLTKVTRSEMGAYQCIAANGVPPTVSKRLMLHV 233
+ L+ VTRS+ G YQC A+N V S +L+V
Sbjct: 54 NRTLTFNNVTRSDTGHYQCEASNEVSNMTSDPYILNV 90
>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 = 35.0 bits (80), Expect = 0.005
Identities = 27/75 (36%), Positives = 37/75 (49%), Gaps = 10/75 (13%)
Query: 148 MMVPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLS---LTK 204
+ V EG SA+ C G P P +TW RE +IIV SSQ+ +E S ++K
Sbjct: 13 LTVSEGESARFSCDVDGEPAPTVTWMRE--GQIIV-----SSQRHQITSTEYKSTFEISK 65
Query: 205 VTRSEMGAYQCIAAN 219
V S+ G Y + N
Sbjct: 66 VQMSDEGNYTVVVEN 80
>gnl|CDD|214650 smart00406, IGv, Immunoglobulin V-Type.
Length = 81
Score = 34.7 bits (80), Expect = 0.005
Identities = 11/33 (33%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 88 ARLSVTHNDA-NTWTLNIRSVRREDRGYYMCQV 119
R +++ + + N +L I ++R ED G Y C V
Sbjct: 49 GRFTISKDTSKNDVSLTISNLRVEDTGTYYCAV 81
>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 = 34.4 bits (79), Expect = 0.005
Identities = 22/71 (30%), Positives = 29/71 (40%), Gaps = 12/71 (16%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESE----VLSLTKVTRS 208
G + + C A G PTP I WR + S+ SE L++ V S
Sbjct: 1 GETVEFTCVATGVPTPIINWR--------LNWGHVPDSARVSITSEGGYGTLTIRDVKES 52
Query: 209 EMGAYQCIAAN 219
+ GAY C A N
Sbjct: 53 DQGAYTCEAIN 63
Score = 26.3 bits (58), Expect = 5.5
Identities = 16/42 (38%), Positives = 27/42 (64%), Gaps = 2/42 (4%)
Query: 84 ITNNARLSVTHNDANTWTLNIRSVRREDRGYYMCQ-VNTNPM 124
+ ++AR+S+T ++ TL IR V+ D+G Y C+ +NT M
Sbjct: 27 VPDSARVSIT-SEGGYGTLTIRDVKESDQGAYTCEAINTRGM 67
>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 = 34.9 bits (80), Expect = 0.005
Identities = 21/82 (25%), Positives = 32/82 (39%), Gaps = 17/82 (20%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNK-------------EIIVRSNPPSSQKVFSVESEV 199
G + + VCK P I W + K ++ + ++ K E EV
Sbjct: 1 GSTVEFVCKVYSDAQPHIQWLKHVEKNGSKYGPDGLPYVTVLKTAGVNTTDK----EMEV 56
Query: 200 LSLTKVTRSEMGAYQCIAANGV 221
L L VT + G Y C+A N +
Sbjct: 57 LYLRNVTFEDAGEYTCLAGNSI 78
>gnl|CDD|143197 cd05720, Ig_CD8_alpha, Immunoglobulin (Ig) like domain of CD8 alpha
chain. Ig_CD8_alpha: immunoglobulin (Ig)-like domain in
CD8 alpha. The CD8 glycoprotein plays an essential role
in the control of T-cell selection, maturation and the
T-cell receptor (TCR)-mediated response to peptide
antigen. CD8 is comprised of alpha and beta subunits and
is expressed as either an alphaalpha or alphabeta dimer.
Both dimeric isoforms can serve as a coreceptor for T
cell activation and differentiation, however they have
distinct physiological roles, different cellular
distributions, unique binding partners etc. Each CD8
subunit is comprised of an extracellular domain
containing a v-type Ig-like domain, a single pass
transmembrane portion and a short intracellular domain.
The Ig domain of CD8 alpha binds to antibodies.
Length = 104
Score = 35.2 bits (81), Expect = 0.006
Identities = 17/79 (21%), Positives = 37/79 (46%), Gaps = 7/79 (8%)
Query: 49 VNTGGSIVFPTDSSAMK---VAWIKADTKAVLAIHEHVITNNARLSVTHNDANTWTLNIR 105
TG S +F SA + + ++ +K E +++ +N++ L ++
Sbjct: 19 SPTGCSWLFQPPGSAPQPTFLVYLSGSSKITWDEEE----LSSKRFSGSRSSNSFVLTLK 74
Query: 106 SVRREDRGYYMCQVNTNPM 124
+ ++E+ GYY C V +N +
Sbjct: 75 NFQKENEGYYFCSVASNSV 93
>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 = 34.5 bits (79), Expect = 0.007
Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 3/70 (4%)
Query: 150 VPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSE 209
VP + K C A G PTP + W + + KE + + L + V S+
Sbjct: 6 VPAANTVKFRCPAAGNPTPTMRWLK-NGKEF--KQEHRIGGYKVRNQHWSLIMESVVPSD 62
Query: 210 MGAYQCIAAN 219
G Y C+ N
Sbjct: 63 KGNYTCVVEN 72
Score = 26.0 bits (57), Expect = 6.3
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 99 TWTLNIRSVRREDRGYYMCQV 119
W+L + SV D+G Y C V
Sbjct: 50 HWSLIMESVVPSDKGNYTCVV 70
>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 = 34.2 bits (78), Expect = 0.008
Identities = 24/84 (28%), Positives = 38/84 (45%), Gaps = 10/84 (11%)
Query: 136 PPDISSEETSGDMMVPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSV 195
P DI+ + D +G + L C A G P P I WR+ I+ P +++ S+
Sbjct: 1 PADINVKFK--DTYALKGQNVTLECFALGNPVPVIRWRK------ILEPMPATAE--ISM 50
Query: 196 ESEVLSLTKVTRSEMGAYQCIAAN 219
VL + + + G Y+C A N
Sbjct: 51 SGAVLKIFNIQPEDEGTYECEAEN 74
>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 = 34.6 bits (79), Expect = 0.009
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 19/74 (25%)
Query: 158 LVCKAKGYPTPKITWR---REDNKE-------IIVRSNPPSSQKVFSVESEVLSLTKVTR 207
L C+A G P P ITWR R + E I+VRS+ S L+L +
Sbjct: 22 LTCEASGDPIPSITWRTSTRNISSEEKTLDGHIVVRSHARVSS---------LTLKYIQY 72
Query: 208 SEMGAYQCIAANGV 221
++ G Y C A+N +
Sbjct: 73 TDAGEYLCTASNTI 86
>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 = 34.2 bits (79), Expect = 0.009
Identities = 21/92 (22%), Positives = 34/92 (36%), Gaps = 10/92 (10%)
Query: 52 GGSIVFPTDSSAMK---VAWIK-ADTKAVLAIHEHVITN----NARLSVTHNDANTWTLN 103
G S+ P + + W K D I ++ TN S +L
Sbjct: 1 GESVTLPVSNLPENLQEITWYKGKDKSVEAEIASYIATNSTVFGPAYSGRETIYPNGSLL 60
Query: 104 IRSVRREDRGYYMCQVNTNPMTKQMA--FLEV 133
I+++ +ED G Y Q+ + + A FL V
Sbjct: 61 IQNLTKEDSGTYTLQIISTNGVTENAKFFLRV 92
>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 = 32.8 bits (75), Expect = 0.027
Identities = 24/89 (26%), Positives = 36/89 (40%), Gaps = 8/89 (8%)
Query: 142 EETSGDMMVPEGGSAKLV---CKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESE 198
EE D + PE V C+A+G P P W + EI + S V
Sbjct: 5 EEQPDDTIFPEESDEGKVSLNCRARGSPPPTYRWLM-NGTEIDDEPDSRYSL----VGGN 59
Query: 199 VLSLTKVTRSEMGAYQCIAANGVPPTVSK 227
++ + G YQC+A+N V +S+
Sbjct: 60 LVISNPSKAKDAGRYQCLASNIVGTVLSR 88
>gnl|CDD|143273 cd05865, Ig1_NCAM-1, First immunoglobulin (Ig)-like domain of
neural cell adhesion molecule NCAM-1. Ig1_NCAM-1: first
immunoglobulin (Ig)-like domain of neural cell adhesion
molecule NCAM-1. NCAM-1 plays important roles in the
development and regeneration of the central nervous
system, in synaptogenesis and neural migration. NCAM
mediates cell-cell and cell-substratum recognition and
adhesion via homophilic (NCAM-NCAM), and heterophilic
(NCAM-nonNCAM), interactions. NCAM is expressed as three
major isoforms having different intracellular
extensions. The extracellular portion of NCAM has five
N-terminal Ig-like domains and two fibronectin type III
domains. The double zipper adhesion complex model for
NCAM homophilic binding involves the Ig1, Ig2, and Ig3
domains. By this model, Ig1 and Ig2 mediate dimerization
of NCAM molecules situated on the same cell surface (cis
interactions), and Ig3 domains mediate interactions
between NCAM molecules expressed on the surface of
opposing cells (trans interactions), through binding to
the Ig1 and Ig2 domains. The adhesive ability of NCAM is
modulated by the addition of polysialic acid chains to
the fifth Ig-like domain.
Length = 96
Score = 33.1 bits (75), Expect = 0.027
Identities = 18/55 (32%), Positives = 26/55 (47%)
Query: 81 EHVITNNARLSVTHNDANTWTLNIRSVRREDRGYYMCQVNTNPMTKQMAFLEVVI 135
E + N R+SV ND + TL I + +D G Y C V+ + A + V I
Sbjct: 41 EKLTPNQQRISVVRNDDYSSTLTIYNANIDDAGIYKCVVSNEDEGESEATVNVKI 95
>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 = 32.1 bits (73), Expect = 0.042
Identities = 19/69 (27%), Positives = 29/69 (42%), Gaps = 3/69 (4%)
Query: 153 GGSAKLVCKAKGYPTPKITWRR--EDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEM 210
G +A C G P P+ITW + + +I+R N V + + L + +
Sbjct: 1 GETASFHCDVTGRPPPEITWEKQVHGKENLIMRPNHVRGNVVVTNIGQ-LVIYNAQPQDA 59
Query: 211 GAYQCIAAN 219
G Y C A N
Sbjct: 60 GLYTCTARN 68
>gnl|CDD|143167 cd00099, IgV, Immunoglobulin variable domain (IgV). IgV:
Immunoglobulin variable domain (IgV). Members of the IgV
family are components of immunoglobulin (Ig) and T cell
receptors. The basic structure of Ig molecules is a
tetramer of two light chains and two heavy chains linked
by disulfide bonds. In Ig, each chain is composed of one
variable domain (IgV) and one or more constant domains
(IgC); these names reflect the fact that the variability
in sequences is higher in the variable domain than in
the constant domain. Within the variable domain, there
are regions of even more variability called the
hypervariable or complementarity-determining regions
(CDRs) which are responsible for antigen binding. A
predominant feature of most Ig domains is the disulfide
bridge connecting 2 beta-sheets with a tryptophan
residue packed against the disulfide bond.
Length = 105
Score = 32.7 bits (75), Expect = 0.043
Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 89 RLSVTHNDA-NTWTLNIRSVRREDRGYYMCQV 119
R S T + + +++TL I S++ ED Y C V
Sbjct: 55 RFSGTRDSSKSSFTLTISSLQPEDSAVYYCAV 86
Score = 26.1 bits (58), Expect = 8.5
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 4/47 (8%)
Query: 148 MMVPEGGSAKLVCKAKG-YPTPKITW-RREDNK--EIIVRSNPPSSQ 190
+ V EG S L C G + + I W R++ K E+++ + SQ
Sbjct: 1 LSVSEGESVTLSCTYSGSFSSYYIFWYRQKPGKGPELLIYISSNGSQ 47
>gnl|CDD|177613 PHA03376, PHA03376, BARF1; Provisional.
Length = 221
Score = 33.9 bits (77), Expect = 0.043
Identities = 21/81 (25%), Positives = 33/81 (40%), Gaps = 5/81 (6%)
Query: 94 HNDANTWTLNIRSVRREDRGYYMCQ--VNTNPMTKQMAFLEVVIPPDISSEETSGDMMVP 151
H ANT+ L + + G Y+C+ + +TKQ L VV P +S P
Sbjct: 81 HRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQ-EHLSVVKPLTLSVHSERS--QFP 137
Query: 152 EGGSAKLVCKAKGYPTPKITW 172
+ + C +P P + W
Sbjct: 138 DFSVLTVTCTVNAFPHPHVQW 158
>gnl|CDD|143270 cd05862, Ig1_VEGFR, First immunoglobulin (Ig)-like domain of
vascular endothelial growth factor (VEGF) receptor(R).
IG1_VEGFR: first immunoglobulin (Ig)-like domain of
vascular endothelial growth factor (VEGF) receptor(R).
The VEGFRs have an extracellular component with seven
Ig-like domains, a transmembrane segment, and an
intracellular tyrosine kinase domain interrupted by a
kinase-insert domain. The VEGFR family consists of three
members, VEGFR-1 (Flt-1), VEGFR-2 (KDR/Flk-1) and
VEGFR-3 (Flt-4). VEGF_A interacts with both VEGFR-1 and
VEGFR-2. VEGFR-1 binds strongest to VEGF, VEGF-2 binds
more weakly. VEGFR-3 appears not to bind VEGF, but binds
other members of the VEGF family (VEGF-C and -D). VEGFRs
bind VEGFs with high affinity with the IG-like domains.
VEGF-A is important to the growth and maintenance of
vascular endothelial cells and to the development of new
blood- and lymphatic-vessels in physiological and
pathological states. VEGFR-2 is a major mediator of the
mitogenic, angiogenic and microvascular
permeability-enhancing effects of VEGF-A. VEGFR-1 may
play an inhibitory part in these processes by binding
VEGF and interfering with its interaction with VEGFR-2.
VEGFR-1 has a signaling role in mediating monocyte
chemotaxis. VEGFR-2 and -1 may mediate a chemotactic and
a survival signal in hematopoietic stem cells or
leukemia cells. VEGFR-3 has been shown to be involved in
tumor angiogenesis and growth.
Length = 86
Score = 32.1 bits (73), Expect = 0.054
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 101 TLNIRSVRREDRGYYMCQVNTNPMTKQ 127
TL I +V D G Y C ++ M +
Sbjct: 51 TLTIENVTLSDLGRYTCTASSGQMIAK 77
Score = 26.3 bits (58), Expect = 5.6
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 197 SEVLSLTKVTRSEMGAYQCIAANG 220
S L++ VT S++G Y C A++G
Sbjct: 49 SSTLTIENVTLSDLGRYTCTASSG 72
>gnl|CDD|143248 cd05771, IgC_Tapasin_R, Tapasin-R immunoglobulin-like domain.
IgC_Tapasin_R: Immunoglobulin-like domain on Tapasin-R.
Tapasin is a V-C1 (variable-constant) immunoglobulin
superfamily molecule present in the endoplasmic
reticulum (ER), where it links MHC class I molecules to
the transporter associated with antigen processing
(TAP). Tapasin-R is a tapasin-related protein that
contains similar structural motifs to Tapasin, with some
marked differences, especially in the V domain,
transmembrane and cytoplasmic regions. The majority of
Tapasin-R is located within the ER; however, there may
be some expression of Tapasin-R at the cell surface.
Tapasin-R lacks an obvious ER retention signal.
Length = 139
Score = 32.9 bits (75), Expect = 0.055
Identities = 28/132 (21%), Positives = 45/132 (34%), Gaps = 18/132 (13%)
Query: 101 TLNIRSVRREDRGYYMCQVNTNPM-TKQMAFLEVVIPPDISSEETSGDMMVPEGGSAKLV 159
+L + + D G Y+C V+T P +Q+ L V PP + M L+
Sbjct: 2 SLTLPGLTVHDEGTYICSVSTPPHQAQQIIQLSVSEPPRVRLSLEKLVSM--IEEPQTLI 59
Query: 160 CKAKGYPTP---KITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQCI 216
C GY P ++ W RE P V +S + + + G Y
Sbjct: 60 CHIAGY-YPLDVQVEWTRE-----------PPGDSPPPVSLSNVSFSSHRQHQDGTYSLS 107
Query: 217 AANGVPPTVSKR 228
+ + P
Sbjct: 108 SHLTLEPGTEDA 119
>gnl|CDD|143193 cd05716, Ig_pIgR, Immunoglobulin (Ig)-like domain in the polymeric
Ig receptor (pIgR). Ig_pIgR: Immunoglobulin (Ig)-like
domain in the polymeric Ig receptor (pIgR). pIgR
delivers dimeric IgA and pentameric IgM to mucosal
secretions. Polymeric immunoglobulin (pIgs) are the
first defense against pathogens and toxins. IgA and IgM
can form polymers via an 18-residue extension at their
c-termini referred to as the tailpiece. pIgR transports
pIgs across mucosal epithelia into mucosal secretions.
Human pIgR is a glycosylated type I transmembrane
protein, comprised of a 620 residue extracellular
region, a 23 residue transmembrane region, and a 103
residue cytoplasmic tail. The extracellular region
contains five domains that share sequence similarity
with Ig variable (v) regions.
Length = 98
Score = 32.0 bits (73), Expect = 0.057
Identities = 12/35 (34%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 89 RLSVTHNDAN-TWTLNIRSVRREDRGYYMCQVNTN 122
R+S+T + N +T+ + +R+ED G+Y C V +
Sbjct: 52 RVSLTDDPDNGVFTVTLNQLRKEDAGWYWCGVGDD 86
>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 = 31.4 bits (71), Expect = 0.062
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 157 KLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQCI 216
++ C A+G P P ITW NK+ + + S K L++ V ++ G Y+C+
Sbjct: 2 QIPCSAQGDPEPTITW----NKDGVQVT---ESGKFHISPEGYLAIRDVGVADQGRYECV 54
Query: 217 AAN 219
A N
Sbjct: 55 ARN 57
>gnl|CDD|143252 cd05775, Ig_SLAM-CD84_like_N, N-terminal immunoglobulin (Ig)-like
domain of the signaling lymphocyte activation molecule
(SLAM) family, CD84_like. Ig_SLAM-CD84_like_N: The
N-terminal immunoglobulin (Ig)-like domain of the
signaling lymphocyte activation molecule (SLAM) family,
CD84_like. The SLAM family is a group of immune-cell
specific receptors that can regulate both adaptive and
innate immune responses. Members of this group include
proteins such as CD84, SLAM (CD150), Ly-9 (CD229), NTB-A
(ly-108, SLAM6), 19A (CRACC), and SLAMF9. The genes
coding for the SLAM family are nested on chromosome 1,
in humans at 1q23, and in mice at 1H2. The SLAM family
is a subset of the CD2 family, which also includes CD2
and CD58 located on chromosome 1 at 1p13 in humans. In
mice, CD2 is located on chromosome 3, and there is no
CD58 homolog. The SLAM family proteins are organized as
an extracellular domain with either two or four Ig-like
domains, a single transmembrane segment, and a
cytoplasmic region having Tyr-based motifs. The
extracellular domain is organized as a membrane-distal
Ig variable (IgV) domain that is responsible for ligand
recognition and a membrane-proximal truncated Ig
constant-2 (IgC2) domain.
Length = 97
Score = 31.9 bits (73), Expect = 0.064
Identities = 19/84 (22%), Positives = 30/84 (35%), Gaps = 15/84 (17%)
Query: 52 GGSIVFPTDSSAMK----VAWIKADTKAVLAIHEHVITNNARLSVTHN--------DANT 99
GGS+ P + + W LAI + VT N
Sbjct: 4 GGSVTLPLNIPDGTEIESITWSF---NTSLAIITPGEETAPEIIVTDPSYKERVNFSQND 60
Query: 100 WTLNIRSVRREDRGYYMCQVNTNP 123
++L I +++ ED G Y ++NT
Sbjct: 61 YSLQISNLKMEDAGSYRAEINTKN 84
>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 = 31.2 bits (71), Expect = 0.074
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 4/76 (5%)
Query: 158 LVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFS--VESEVLSLTKVTRSEMGAYQC 215
+ C+AKG P P +W R + +P + K S + + ++ + E G YQC
Sbjct: 3 IKCEAKGNPPPTFSWTR-NGTHFDPEKDPRVTMKPDSGTLVIDNMNGGRAEDYE-GEYQC 60
Query: 216 IAANGVPPTVSKRLML 231
A+N + +S + L
Sbjct: 61 YASNELGTAISNEIHL 76
>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 = 31.1 bits (70), Expect = 0.081
Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 10/77 (12%)
Query: 160 CKAKGYPTPKITWRRED-----NKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQ 214
C+AKG P P +W R +K+ V P + V ++ + K E G YQ
Sbjct: 5 CEAKGKPPPSFSWTRNGTHFDIDKDPKVTMKPNTGTLVINIMNGE----KAEAYE-GVYQ 59
Query: 215 CIAANGVPPTVSKRLML 231
C A N VS +++
Sbjct: 60 CTARNERGAAVSNNIVI 76
>gnl|CDD|143219 cd05742, Ig1_VEGFR_like, First immunoglobulin (Ig)-like domain of
vascular endothelial growth factor (VEGF) receptor (R)
and similar proteins. Ig1_VEGFR_like: first
immunoglobulin (Ig)-like domain of vascular endothelial
growth factor (VEGF) receptor(R) related proteins. The
VEGFRs have an extracellular component with seven
Ig-like domains, a transmembrane segment, and an
intracellular tyrosine kinase domain interrupted by a
kinase-insert domain. The VEGFR family consists of three
members, VEGFR-1 (Flt-1), VEGFR-2 (KDR/Flk-1) and
VEGFR-3 (Flt-4). VEGF-A interacts with both VEGFR-1 and
VEGFR-2. VEGFR-1 binds strongest to VEGF, VEGF-2 binds
more weakly. VEGFR-3 appears not to bind VEGF, but binds
other members of the VEGF family (VEGF-C and -D). VEGFRs
bind VEGFs with high affinity with the IG-like domains.
VEGF-A is important to the growth and maintenance of
vascular endothelial cells and to the development of new
blood- and lymphatic-vessels in physiological and
pathological states. VEGFR-2 is a major mediator of the
mitogenic, angiogenic and microvascular
permeability-enhancing effects of VEGF-A. VEGFR-1 may
play an inhibitory part in these processes by binding
VEGF and interfering with its interaction with VEGFR-2.
VEGFR-1 has a signaling role in mediating monocyte
chemotaxis. VEGFR-2 and -1 may mediate a chemotactic and
a survival signal in hematopoietic stem cells or
leukemia cells. VEGFR-3 has been shown to be involved in
tumor angiogenesis and growth. This group also contains
alpha-type platelet-derived growth factor receptor
precursor (PDGFR)-alpha (CD140a), and PDGFR-beta
(CD140b). PDGFRs alpha and beta have an extracellular
component with five Ig-like domains, a transmembrane
segment, and a cytoplasmic portion that has protein
tyrosine kinase activity.
Length = 84
Score = 31.2 bits (71), Expect = 0.087
Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 101 TLNIRSVRREDRGYYMCQVNTNPMTKQMAFLEVVI 135
TL I + +D G Y C ++ M ++ +V I
Sbjct: 50 TLTIPNATLKDSGTYTCAASSGTMDQK-ESTKVNI 83
>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 = 30.9 bits (70), Expect = 0.17
Identities = 25/118 (21%), Positives = 46/118 (38%), Gaps = 27/118 (22%)
Query: 16 ENVTIAQGRDAIFTCVVNNLGGHRVSSSVTDTHVNTGGSIVFPTDSSAMKVAWIKADTKA 75
++VT+ +G A C V N +SS+ N ++ D A++
Sbjct: 5 QDVTVVEGGTATLKCRVKN----NDNSSLQ--WSNPNQQTLYFNDKRALR---------- 48
Query: 76 VLAIHEHVITNNARLSVTHNDANTWTLNIRSVRREDRGYYMCQVNTNPMTKQMAFLEV 133
+ R+ + + AN +++I +V D G Y C + T P+ A + V
Sbjct: 49 -----------DNRIQLVNFSANELSISISNVSLSDEGRYTCSLYTMPVQTAKATVTV 95
Score = 28.5 bits (64), Expect = 1.0
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 5/74 (6%)
Query: 147 DMMVPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPP----SSQKVFSVESEV-LS 201
D+ V EGG+A L C+ K + W + + + Q V +E+ +S
Sbjct: 6 DVTVVEGGTATLKCRVKNNDNSSLQWSNPNQQTLYFNDKRALRDNRIQLVNFSANELSIS 65
Query: 202 LTKVTRSEMGAYQC 215
++ V+ S+ G Y C
Sbjct: 66 ISNVSLSDEGRYTC 79
>gnl|CDD|143234 cd05757, Ig2_IL1R_like, Second immunoglobulin (Ig)-like domain of
interleukin-1 receptor (IL1R) and similar proteins.
Ig2_IL1R_like: domain similar to the second
immunoglobulin (Ig)-like domain of interleukin-1
receptor (IL1R). IL-1 alpha and IL-1 beta are cytokines
which participate in the regulation of inflammation,
immune responses, and hematopoiesis. These cytokines
bind to the IL-1 receptor type 1 (IL1R1), which is
activated on additional association with an accessory
protein, IL1RAP. IL-1 also binds a second receptor
designated type II (IL1R2). Mature IL1R1 consists of
three IG-like domains, a transmembrane domain, and a
large cytoplasmic domain. Mature IL1R2 is organized
similarly except that it has a short cytoplasmic domain.
The latter does not initiate signal transduction. A
naturally occurring cytokine IL-1RA (IL-1 receptor
antagonist) is widely expressed and binds to IL-1
receptors, inhibiting the binding of IL-1 alpha and IL-1
beta. This group also contains ILIR-like 1 (IL1R1L)
which maps to the same chromosomal location as IL1R1 and
IL1R2.
Length = 92
Score = 30.7 bits (70), Expect = 0.18
Identities = 19/78 (24%), Positives = 27/78 (34%), Gaps = 20/78 (25%)
Query: 48 HVNTGGSIVFPT------DSSAMKVAWIKADTKAVLAIHEHVITNNARLSVTHNDANTWT 101
GG IV P +++ V W K D K + R
Sbjct: 8 FSTKGGKIVCPDLDDFKNENTLPPVQWYK-DCKLLE---------GDRKRFVKGS----K 53
Query: 102 LNIRSVRREDRGYYMCQV 119
L I++V ED G Y C++
Sbjct: 54 LLIQNVTEEDAGNYTCKL 71
>gnl|CDD|143254 cd05846, Ig1_MRC-OX-2_like, First immunoglobulin (Ig) domain of rat
MRC OX-2 antigen (also known as CD200) and similar
proteins. Ig1_ MRC-OX-2_like: domain similar to the
first immunoglobulin (Ig) domain of rat MRC OX-2 antigen
(also known as CD200). MRC OX-2 is a membrane
glycoprotein expressed in a variety of lymphoid and
non-lymphoid cells in rats. It has a similar broad
distribution pattern in humans. MRC OX-2 may regulate
myeloid cell activity. The protein has an extracellular
portion containing two Ig-like domains, a transmembrane
portion, and a cytoplasmic portion.
Length = 97
Score = 30.0 bits (68), Expect = 0.29
Identities = 14/35 (40%), Positives = 19/35 (54%)
Query: 89 RLSVTHNDANTWTLNIRSVRREDRGYYMCQVNTNP 123
R S+T N+ ++ I +V ED G Y C NT P
Sbjct: 50 RRSITSLGLNSTSITIWNVTLEDEGCYKCIFNTFP 84
>gnl|CDD|143314 cd07690, Ig1_CD4, First immunoglobulin (Ig) domain of CD4.
Ig1_CD4; first immunoglobulin (Ig) domain of CD4. CD4
and CD8 are the two primary co-receptor proteins found
on the surface of T cells, and the presence of either
CD4 or CD8 determines the function of the T cell. CD4
is found on helper T cells, where it is required for the
binding of MHC (major histocompatibility complex) class
II molecules, while CD8 is found on cytotoxic T cells,
where it is required for the binding of MHC class I
molecules. CD4 contains four immunoglobulin domains,
with the first three included in this hierarchy. The
fourth domain has a general Ig architecture, but has
slight topological changes in the arrangement of beta
strands relative to the other structures in this family
and is not specifically included in the hierarchy.
Length = 94
Score = 29.8 bits (67), Expect = 0.34
Identities = 16/78 (20%), Positives = 32/78 (41%), Gaps = 10/78 (12%)
Query: 52 GGSIVFPTDSS---AMKVAWIKADTKAVLAIHEHVITNNARLSVTHNDA--NTWT----- 101
G + P +S +++ W ++ +L +T D+ N W
Sbjct: 7 GDTAELPCTASQKKSIQFHWKNSNQIKILGNQGSFLTKGPSKLNDRADSRRNLWDQGSFP 66
Query: 102 LNIRSVRREDRGYYMCQV 119
L I++++ ED Y+C+V
Sbjct: 67 LIIKNLKIEDSDTYICEV 84
>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 = 29.9 bits (67), Expect = 0.38
Identities = 22/93 (23%), Positives = 37/93 (39%), Gaps = 8/93 (8%)
Query: 142 EETSGDMMVPEG---GSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESE 198
EE ++ PEG L C+A+ P W+ + ++ P S + V
Sbjct: 5 EEQPSSLLFPEGSPEEKVTLGCRARASPPATYRWKMNGTE---IKFAPESRYTL--VAGN 59
Query: 199 VLSLTKVTRSEMGAYQCIAANGVPPTVSKRLML 231
++ + G+YQC+A N VS+ L
Sbjct: 60 LVINNPQKARDAGSYQCLAINRCGTVVSREANL 92
>gnl|CDD|216544 pfam01514, YscJ_FliF, Secretory protein of YscJ/FliF family. This
family includes proteins that are related to the YscJ
lipoprotein, and the amino terminus of FliF, the
flageller M-ring protein. The members of the YscJ family
are thought to be involved in secretion of several
proteins. The FliF protein ring is thought to be part of
the export apparatus for flageller proteins, based on
the similarity to YscJ proteins.
Length = 206
Score = 30.7 bits (70), Expect = 0.44
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 135 IPPDISSEETSGDMMVPEG--GSAKLVCKAKGYPTPKIT 171
IP + S + G ++VPE A+ + AKG P
Sbjct: 51 IPAEKSPDGDGGTILVPEDDVARARELLAAKGLPREGFV 89
>gnl|CDD|143178 cd04977, Ig1_NCAM-1_like, First immunoglobulin (Ig)-like domain of
neural cell adhesion molecule NCAM-1 and similar
proteins. Ig1_NCAM-1 like: first immunoglobulin
(Ig)-like domain of neural cell adhesion molecule
NCAM-1. NCAM-1 plays important roles in the development
and regeneration of the central nervous system, in
synaptogenesis and neural migration. NCAM mediates
cell-cell and cell-substratum recognition and adhesion
via homophilic (NCAM-NCAM), and heterophilic
(NCAM-nonNCAM), interactions. NCAM is expressed as three
major isoforms having different intracellular
extensions. The extracellular portion of NCAM has five
N-terminal Ig-like domains and two fibronectin type III
domains. The double zipper adhesion complex model for
NCAM homophilic binding involves the Ig1, Ig2, and Ig3
domains. By this model, Ig1 and Ig2 mediate dimerization
of NCAM molecules situated on the same cell surface (cis
interactions), and Ig3 domains mediate interactions
between NCAM molecules expressed on the surface of
opposing cells (trans interactions), through binding to
the Ig1 and Ig2 domains. The adhesive ability of NCAM is
modulated by the addition of polysialic acid chains to
the fifth Ig-like domain. Also included in this group is
NCAM-2 (also known as OCAM/mamFas II and RNCAM). NCAM-2
is differentially expressed in the developing and mature
olfactory epithelium (OE).
Length = 92
Score = 29.0 bits (65), Expect = 0.62
Identities = 15/52 (28%), Positives = 22/52 (42%)
Query: 84 ITNNARLSVTHNDANTWTLNIRSVRREDRGYYMCQVNTNPMTKQMAFLEVVI 135
+ ++SV ND TL I + ED G Y C T+ A + + I
Sbjct: 41 LVTQQQISVVQNDDVRSTLTIYNANIEDAGIYKCVATDAKGTESEATVNLKI 92
>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 = 29.1 bits (65), Expect = 0.63
Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 13/79 (16%)
Query: 158 LVCKAKGYPTPKITWRREDNKEIIVRSNPPSS----QKVFSVESEVLSLTKVTRSEMGAY 213
L C+A+G P P W R + EI S+ S + S SEV + G Y
Sbjct: 24 LNCEARGNPVPTYRWLR-NGTEIDTESDYRYSLIDGNLIISNPSEVK--------DSGRY 74
Query: 214 QCIAANGVPPTVSKRLMLH 232
QC+A N + +S+ +L
Sbjct: 75 QCLATNSIGSILSREALLQ 93
>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 = 28.7 bits (65), Expect = 0.67
Identities = 13/62 (20%), Positives = 23/62 (37%), Gaps = 14/62 (22%)
Query: 163 KGYPTPKITWRRED-----NKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQCIA 217
G PTP +TW ++ + + + + S+ L + RS+ G Y
Sbjct: 9 SGRPTPTVTWSKDGKPLKLSGRVQIETTASST---------SLVIKNAERSDSGKYTLTL 59
Query: 218 AN 219
N
Sbjct: 60 KN 61
>gnl|CDD|143212 cd05735, Ig8_DSCAM, Eight immunoglobulin (Ig) domain of Down
Syndrome Cell Adhesion molecule (DSCAM). Ig8_DSCAM:
the eight immunoglobulin (Ig) 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 = 88
Score = 28.8 bits (64), Expect = 0.67
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 11/73 (15%)
Query: 153 GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVES---EVLSLTKV---T 206
G ++ C A G + W +ED II NP S+ + S + EV+S ++
Sbjct: 1 GQKKEMSCTAHGEKPIIVRWEKEDR--II---NPEMSRYLVSTKEVGDEVISTLQILPTV 55
Query: 207 RSEMGAYQCIAAN 219
R + G + C A N
Sbjct: 56 REDSGFFSCHAIN 68
>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 = 28.2 bits (63), Expect = 0.78
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 156 AKLVCKAKGYPTPKITWRRED 176
+L C+ P P+I W++ +
Sbjct: 1 VRLECRVSAIPPPQIFWKKNN 21
>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 = 28.6 bits (64), Expect = 0.84
Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 6/70 (8%)
Query: 153 GGSAKLVCKAKGY--PTPKITWRREDNKEIIVRSNPPSSQKV---FSVESEVLSLTKVTR 207
GGS L C A G+ P +TW + + + P +SV S L+++
Sbjct: 13 GGSVTLTCLATGFYPPDITVTWLKNGKELTSGVTTTPPVPNSDGTYSVSS-QLTVSPSDW 71
Query: 208 SEMGAYQCIA 217
+ Y C+
Sbjct: 72 NSGDTYTCVV 81
>gnl|CDD|143195 cd05718, Ig1_PVR_like, First immunoglobulin (Ig) domain of
poliovirus receptor (PVR, also known as CD155) and
similar proteins. Ig1_PVR_like: domain similar to the
first immunoglobulin (Ig) domain of poliovirus receptor
(PVR, also known as CD155). Poliovirus (PV) binds to its
cellular receptor (PVR/CD155) to initiate infection.
CD155 is a membrane-anchored, single-span glycoprotein;
its extracellular region has three Ig-like domains.
There are four different isotypes of CD155 (referred to
as alpha, beta, gamma, and delta), that result from
alternate splicing of the CD155 mRNA, and have identical
extracellular domains. CD155-beta and - gamma, are
secreted, CD155-alpha and delta are membrane-bound and
function as PV receptors. The virus recognition site is
contained in the amino-terminal domain, D1. Having the
virus attachment site on the receptor distal from the
plasma membrane, may be important for successful
initiation of infection of cells by the virus. CD155
binds in the poliovirus "canyon" with a footprint
similar to that of the intercellular adhesion molecule-1
receptor on human rhinoviruses. This group also includes
the first Ig-like domain of nectin-1 (also known as
poliovirus receptor related protein(PVRL)1; CD111),
nectin-3 (also known as PVRL 3), nectin-4 (also known as
PVRL4; LNIR receptor)and DNAX accessory molecule 1
(DNAM-1; CD226).
Length = 98
Score = 28.5 bits (64), Expect = 0.99
Identities = 18/74 (24%), Positives = 34/74 (45%), Gaps = 8/74 (10%)
Query: 58 PTDSSAMKVAWIKAD--TKAVLAI----HEHVITNNARLSVTHNDA--NTWTLNIRSVRR 109
P +V W+K +K +A+ + I + V+ ++ T++I ++R
Sbjct: 12 PGPVQITQVTWMKITGGSKQNIAVFHPQYGISIPPSYEGRVSFLNSSLEDATISISNLRL 71
Query: 110 EDRGYYMCQVNTNP 123
ED G Y+C+ T P
Sbjct: 72 EDEGNYICEFATFP 85
>gnl|CDD|143267 cd05859, Ig4_PDGFR-alpha, Fourth immunoglobulin (Ig)-like domain of
platelet-derived growth factor receptor (PDGFR) alpha.
IG4_PDGFR-alpha: The fourth immunoglobulin (Ig)-like
domain of platelet-derived growth factor receptor
(PDGFR) alpha. PDGF is a potent mitogen for connective
tissue cells. PDGF-stimulated processes are mediated by
three different PDGFs (PDGF-A,-B, and C). PDGFR alpha
binds to all three PDGFs, whereas the PDGFR beta (not
included in this group) binds only to PDGF-B. PDGF alpha
is organized as an extracellular component having five
Ig-like domains, a transmembrane segment, and a
cytoplasmic portion having protein tyrosine kinase
activity. In mice, PDGFR alpha and PDGFR beta are
essential for normal development.
Length = 101
Score = 28.7 bits (64), Expect = 1.0
Identities = 15/67 (22%), Positives = 26/67 (38%), Gaps = 8/67 (11%)
Query: 158 LVCKAKGYPTPKITWRRED-----NKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGA 212
V + + YP P+I W +++ N I S + + L L + + G
Sbjct: 23 FVVEVEAYPPPQIRWLKDNRTLIENLTEITTSEHNVQETRY---VSKLKLIRAKEEDSGL 79
Query: 213 YQCIAAN 219
Y +A N
Sbjct: 80 YTALAQN 86
>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 = 28.2 bits (63), Expect = 1.1
Identities = 21/76 (27%), Positives = 27/76 (35%), Gaps = 9/76 (11%)
Query: 153 GGSAKLVCKAKGYPTPKITWRR--EDNKEII-------VRSNPPSSQKVFSVESEVLSLT 203
G + CK P I W + E N V + ESEVL L
Sbjct: 1 GSDVEFHCKVYSDAQPHIQWLKHVEVNGSKYGPDGLPYVTVLKVAGINTTDNESEVLYLR 60
Query: 204 KVTRSEMGAYQCIAAN 219
V+ + G Y C+A N
Sbjct: 61 NVSFDDAGEYTCLAGN 76
>gnl|CDD|143320 cd07696, IgC_CH3, CH3 domain (third constant Ig domain of the heavy
chain) in immunoglobulin. IgC_CH3: The third
immunoglobulin constant domain (IgC) of immunoglobulin
(Ig) heavy chains. This domain is found on the Fc
fragment. The basic structure of Ig molecules is a
tetramer of two light chains and two heavy chains linked
by disulfide bonds. There are two types of light chains:
kappa and lambda; each composed of a constant domain and
a variable domain. There are five types of heavy chains:
alpha, delta, epsilon, gamma and mu, all consisting of a
variable domain (VH) and three (in alpha, delta and
gamma) or four (in epsilon and mu) constant domains (CH1
to CH4). Ig molecules are modular proteins, in which the
variable and constant domains have clear, conserved
sequence patterns.
Length = 96
Score = 28.2 bits (63), Expect = 1.2
Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 5/52 (9%)
Query: 153 GGSAKLVCKAKGYPTPK---ITWRREDNKEIIVRSNPPSSQK--VFSVESEV 199
S KL C +P+ +TW R + + PP S SV S +
Sbjct: 14 TKSVKLTCLVTNLTSPEGVNVTWTRGSGEPVKASIQPPESHNNATLSVTSTL 65
>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 = 28.0 bits (62), Expect = 1.4
Identities = 20/74 (27%), Positives = 27/74 (36%), Gaps = 11/74 (14%)
Query: 158 LVCKAKGYPTPKITWRREDNKEIIVRSNP-PSSQKVFSVESE--VLSLTKVTRSEMGAYQ 214
L C G+P P W R+ P Q +SV S+ L+L + G Y
Sbjct: 3 LRCHIDGHPRPTYQWFRD--------GTPLSDGQGNYSVSSKERTLTLRSAGPDDSGLYY 54
Query: 215 CIAANGVPPTVSKR 228
C A N S +
Sbjct: 55 CCAHNAFGSVCSSQ 68
>gnl|CDD|216449 pfam01348, Intron_maturas2, Type II intron maturase. Group II
introns use intron-encoded reverse transcriptase,
maturase and DNA endonuclease activities for
site-specific insertion into DNA. Although this type of
intron is self splicing in vitro they require a maturase
protein for splicing in vivo. It has been shown that a
specific region of the aI2 intron is needed for the
maturase function. This region was found to be conserved
in group II introns and called domain X.
Length = 142
Score = 28.8 bits (65), Expect = 1.5
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 160 CKAKGYPTPKITWRREDNKEIIVRSN 185
C G+P W +++II R N
Sbjct: 23 CNVNGHPISVPRWTDLSDRDIIDRYN 48
>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 = 27.7 bits (61), Expect = 1.5
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 157 KLVCKAKGYPTPKITWRRED 176
+L C+ G P P+I W++E+
Sbjct: 2 RLECRVSGVPHPQIFWKKEN 21
>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 = 28.4 bits (63), Expect = 1.6
Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 6/69 (8%)
Query: 155 SAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVF---SVESEVLSLTKVTRSEMG 211
A LVC+A+G P + W + N + NP + +V + +L++ V+ +
Sbjct: 25 DANLVCQAQGVPRVQFRWAK--NGVPLDLGNPRYEETTEHTGTVHTSILTIINVSAALDY 82
Query: 212 A-YQCIAAN 219
A + C A N
Sbjct: 83 ALFTCTAHN 91
>gnl|CDD|143299 cd05891, Ig_M-protein_C, C-terminal immunoglobulin (Ig)-like domain
of M-protein (also known as myomesin-2).
Ig_M-protein_C: the C-terminal immunoglobulin (Ig)-like
domain of M-protein (also known as myomesin-2).
M-protein is a structural protein localized to the
M-band, a transverse structure in the center of the
sarcomere, and is a candidate for M-band bridges.
M-protein is modular consisting mainly of repetitive
IG-like and fibronectin type III (FnIII) domains, and
has a muscle-type specific expression pattern. M-protein
is present in fast fibers.
Length = 92
Score = 28.0 bits (62), Expect = 1.7
Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 9/71 (12%)
Query: 152 EGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVES---EVLSLTKVTRS 208
EG + L C G P P++ W + D ++I S +E L++ VT
Sbjct: 15 EGKTLNLTCTVFGNPDPEVIWFKND-QDI-----ELSEHYSVKLEQGKYASLTIKGVTSE 68
Query: 209 EMGAYQCIAAN 219
+ G Y N
Sbjct: 69 DSGKYSINVKN 79
>gnl|CDD|143307 cd05899, IgV_TCR_beta, Immunoglobulin (Ig) variable (V) domain of
T-cell receptor (TCR) bet a chain. IgV_TCR_beta:
immunoglobulin (Ig) variable domain of the beta chain of
alpha/beta T-cell antigen receptors (TCRs). TCRs mediate
antigen recognition by T lymphocytes, and are composed
of alpha and beta, or gamma and delta, polypeptide
chains with variable (V) and constant (C) regions. This
group includes the variable domain of the alpha chain of
alpha/beta TCRs. Alpha/beta TCRs recognize antigen as
peptide fragments presented by major histocompatibility
complex (MHC) molecules. The variable domain of TCRs is
responsible for antigen recognition, and is located at
the N-terminus of the receptor. Gamma/delta TCRs
recognize intact protein antigens; they recognize
proteins antigens directly and without antigen
processing, and MHC independently of the bound peptide.
Length = 110
Score = 28.0 bits (63), Expect = 1.9
Identities = 9/29 (31%), Positives = 13/29 (44%)
Query: 89 RLSVTHNDANTWTLNIRSVRREDRGYYMC 117
R S + +L I+S ED Y+C
Sbjct: 61 RFSASRPSLTRSSLTIKSAEPEDSAVYLC 89
>gnl|CDD|219745 pfam08205, C2-set_2, CD80-like C2-set immunoglobulin domain. These
domains belong to the immunoglobulin superfamily.
Length = 89
Score = 27.8 bits (62), Expect = 2.0
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 2/37 (5%)
Query: 164 GYPTPKITWRREDN--KEIIVRSNPPSSQKVFSVESE 198
G P P+ITW + + I S +++V S
Sbjct: 26 GKPAPRITWYLDGRELEAITTSSEQDPESGLYTVTST 62
>gnl|CDD|143324 cd07700, IgV_CD8_beta, Immunoglobulin (Ig) like domain of CD8 beta
chain. IgV_CD8_beta: immunoglobulin (Ig)-like domain in
CD8 beta. The CD8 glycoprotein plays an essential role
in the control of T-cell selection, maturation and the
T-cell receptor (TCR)-mediated response to peptide
antigen. CD8 is comprised of alpha and beta subunits and
is expressed as either an alpha/alpha or alpha/beta
dimer. Both dimeric isoforms can serve as a coreceptor
for T cell activation and differentiation, however they
have distinct physiological roles, different cellular
distributions, unique binding partners etc. Each CD8
subunit is comprised of an extracellular domain
containing a V-type Ig-like domain, a single pass
transmembrane portion and a short intracellular domain.
Length = 107
Score = 27.9 bits (62), Expect = 2.0
Identities = 11/35 (31%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 96 DANTWTLNIRSVRREDRGYYMCQVNTNPMTKQMAF 130
D++ + L+I V+ ED G Y C +P ++ F
Sbjct: 68 DSSRYRLHINRVKPEDSGTYFCMTVGSP---ELTF 99
>gnl|CDD|143177 cd04976, Ig2_VEGFR, Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor (VEGFR).
Ig2_VEGFR: Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor (VEGFR). The
VEGFRs have an extracellular component with seven
Ig-like domains, a transmembrane segment, and an
intracellular tyrosine kinase domain interrupted by a
kinase-insert domain. The VEGFR family consists of three
members, VEGFR-1 (Flt-1), VEGFR-2 (KDR/Flk-1) and
VEGFR-3 (Flt-4). VEGFRs bind VEGFs with high affinity at
the Ig-like domains. VEGF-A is important to the growth
and maintenance of vascular endothelial cells and to the
development of new blood- and lymphatic-vessels in
physiological and pathological states. VEGFR-2 is a
major mediator of the mitogenic, angiogenic and
microvascular permeability-enhancing effects of VEGF-A.
VEGFR-1 may play an inhibitory part in these processes
by binding VEGF and interfering with its interaction
with VEGFR-2. VEGFR-1 has a signaling role in mediating
monocyte chemotaxis. VEGFR-2 and -1 may mediate a
chemotactic and a survival signal in hematopoietic stem
cells or leukemia cells. VEGFR-3 has been shown to be
involved in tumor angiogenesis and growth.
Length = 71
Score = 27.0 bits (60), Expect = 2.2
Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 8/64 (12%)
Query: 156 AKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQC 215
+L K K YP P+I W + + K I ++ S L++ VT + G Y
Sbjct: 1 VRLPVKVKAYPPPEIQWYK-NGKLISEKNRTKKSG-------HSLTIKDVTEEDAGNYTV 52
Query: 216 IAAN 219
+ N
Sbjct: 53 VLTN 56
>gnl|CDD|143272 cd05864, Ig2_VEGFR-2, Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor 2 (VEGFR-2).
Ig2_VEGF-2: Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor 2 (VEGFR-2).
The VEGFRs have an extracellular component with seven
Ig-like domains, a transmembrane segment, and an
intracellular tyrosine kinase domain interrupted by a
kinase-insert domain. VEGFRs bind VEGFs with high
affinity at the Ig-like domains. VEGFR-2 (KDR/Flk-1) is
a major mediator of the mitogenic, angiogenic and
microvascular permeability-enhancing effects of VEGF-A;
VEGF-A is important to the growth and maintenance of
vascular endothelial cells and to the development of new
blood- and lymphatic-vessels in physiological and
pathological states. VEGF-A also interacts with VEGFR-1,
which it binds more strongly than VEGFR-2. VEGFR-2 and
-1 may mediate a chemotactic and a survival signal in
hematopoietic stem cells or leukemia cells.
Length = 70
Score = 26.8 bits (59), Expect = 2.7
Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 9/64 (14%)
Query: 156 AKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQC 215
K+ K GYP P++ W + ++ N + V L++ +VT + G Y
Sbjct: 1 VKIPVKYYGYPPPEVKWYKNG---QLIVLNHTFKRGV------HLTIYEVTEKDAGNYTV 51
Query: 216 IAAN 219
+ N
Sbjct: 52 VLTN 55
>gnl|CDD|143297 cd05889, Ig1_DNAM-1_like, First immunoglobulin (Ig) domain of DNAX
accessory molecule 1 (DNAM-1, also known as CD226) and
similar proteins. Ig1_DNAM-1_like: domain similar to
the first immunoglobulin (Ig) domain of DNAX accessory
molecule 1 (DNAM-1, also known as CD226). DNAM-1 is a
transmembrane protein having two Ig-like domains. It is
an adhesion molecule which plays a part in
tumor-directed cytotoxicity and adhesion in natural
killer (NK) cells and T lymphocytes. It has been shown
to regulate the NK cell killing of several tumor types,
including myeloma cells and ovarian carcinoma cells.
DNAM-1 interacts specifically with poliovirus receptor
(PVR; CD155) and nectin -2 (CD211), other members of the
Ig superfamily. DNAM-1 is expressed in most peripheral T
cells, NK cells, monocytes and a subset of B
lymphocytes.
Length = 96
Score = 27.5 bits (61), Expect = 2.7
Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 8/76 (10%)
Query: 56 VFPTDSSAMKVAWIK-----ADTKAVLA-IHEHVITNN--ARLSVTHNDANTWTLNIRSV 107
V+P ++V+W K + AV I+ I + R+ ++ +L+ +
Sbjct: 8 VYPKTGVLIQVSWTKHNGSHKENIAVYHPIYGMHIEDKYRGRVYFLNSTREDMSLSFNNA 67
Query: 108 RREDRGYYMCQVNTNP 123
ED G Y C + T P
Sbjct: 68 TEEDVGLYCCSLVTYP 83
>gnl|CDD|143183 cd04982, IgV_TCR_gamma, Immunoglobulin (Ig) variable (V) domain of
T-cell receptor (TCR) gamma chain. IgV_TCR_gamma:
immunoglobulin (Ig) variable (V) domain of the gamma
chain of gamma/delta T-cell receptors (TCRs). TCRs
mediate antigen recognition by T lymphocytes, and are
heterodimers consisting of alpha and beta chains or
gamma and delta chains. Each chain contains a variable
(V) and a constant (C) region. The majority of T cells
contain alpha/beta TCRs but a small subset contain
gamma/delta TCRs. Alpha/beta TCRs recognize antigen as
peptide fragments presented by major histocompatibility
complex (MHC) molecules. Gamma/delta TCRs recognize
intact protein antigens; they recognize protein antigens
directly and without antigen processing, and MHC
independently of the bound peptide. Gamma/delta T cells
can also be stimulated by non-peptide antigens such as
small phosphate- or amine-containing compounds. The
variable domain of gamma/delta TCRs is responsible for
antigen recognition and is located at the N-terminus of
the receptor.
Length = 116
Score = 27.7 bits (62), Expect = 2.7
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 99 TWTLNIRSVRREDRGYYMC 117
T TL I+++ +ED Y C
Sbjct: 76 TSTLTIQNLEKEDSATYYC 94
>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 = 26.8 bits (59), Expect = 2.8
Identities = 21/72 (29%), Positives = 27/72 (37%), Gaps = 20/72 (27%)
Query: 153 GGSAKLVCKAKGYPTPKITWRR-----EDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTR 207
GGS L C A G P P + W + E+ V N VL LT +
Sbjct: 1 GGSVNLTCVAVGAPMPYVKWMKGGEELTKEDEMPVGRN-------------VLELTNIYE 47
Query: 208 SEMGAYQCIAAN 219
S Y C+A +
Sbjct: 48 S--ANYTCVAIS 57
>gnl|CDD|143289 cd05881, Ig1_Necl-2, First (N-terminal) immunoglobulin (Ig)-like
domain of nectin-like molecule 2 (also known as cell
adhesion molecule 1 (CADM1)). Ig1_Necl-2: domain
similar to the N-terminal immunoglobulin (Ig)-like
domain of nectin-like molecule-2, Necl-2 (also known as
cell adhesion molecule 1 (CADM1), SynCAM1, IGSF4A,
Tslc1, sgIGSF, and RA175). Nectin-like molecules have
similar domain structures to those of nectins. 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-2 has Ca(2+)-independent homophilic and
heterophilic cell-cell adhesion activity. Necl-2 is
expressed in a wide variety of tissues, and is a
putative tumour suppressor gene, which is downregulated
in aggressive neuroblastoma.
Length = 95
Score = 26.9 bits (59), Expect = 3.8
Identities = 22/108 (20%), Positives = 42/108 (38%), Gaps = 27/108 (25%)
Query: 16 ENVTIAQGRDAIFTCVVNNLGGHRVSSSVTDTHVNTGGSIVFPTDSSAMKVAWIKADTKA 75
E+VT+ +G AI +C V N + +N ++ D +K
Sbjct: 5 EDVTVVEGEVAIISCRVKN------NDDSVIQLLNPNRQTIYFRDVRPLK---------- 48
Query: 76 VLAIHEHVITNNARLSVTHNDANTWTLNIRSVRREDRGYYMCQVNTNP 123
++R + + +N +++ +V D G Y CQ+ T+P
Sbjct: 49 -----------DSRFQLVNFSSNELRVSLSNVSLSDEGRYFCQLYTDP 85
>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 = 26.5 bits (58), Expect = 4.0
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 80 HEHVITNNARLSVTHNDANTWTLNIRSVRREDRGYY-MCQVNTNPMTKQMAFLEV 133
+E V N R+S+ +++ TL I++V ++D G+Y + VN + A L+V
Sbjct: 21 NEMVQYNTDRISLYQDNSGRVTLLIKNVNKKDAGWYTVSAVNEAGVATCHARLDV 75
Score = 26.1 bits (57), Expect = 4.8
Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 156 AKLVCKAKGYPTPKITWRREDNKEII 181
KL C+ P PKI W+R N E++
Sbjct: 1 VKLECQISAIPPPKIFWKR--NNEMV 24
>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 = 26.6 bits (59), Expect = 4.0
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 102 LNIRSVRREDRGYYMCQ 118
L +RS++R D G Y C
Sbjct: 55 LLLRSLQRSDAGVYTCT 71
>gnl|CDD|143271 cd05863, Ig2_VEGFR-3, Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor 3 (VEGFR-3).
Ig2_VEGFR-3: Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor 3 (VEGFR-3).
The VEGFRs have an extracellular component with seven
Ig-like domains, a transmembrane segment, and an
intracellular tyrosine kinase domain interrupted by a
kinase-insert domain. VEGFRs bind VEGFs with high
affinity at the Ig-like domains. VEGFR-3 (Flt-4) binds
two members of the VEGF family (VEGF-C and -D) and is
involved in tumor angiogenesis and growth.
Length = 67
Score = 26.1 bits (57), Expect = 4.2
Identities = 20/75 (26%), Positives = 29/75 (38%), Gaps = 13/75 (17%)
Query: 157 KLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKVTRSEMGAYQCI 216
KL K YP P+ W + D K I + + S L + VT + G Y +
Sbjct: 2 KLPVKVAAYPPPEFQWYK-DGKLISGKHSQHS-----------LQIKDVTEASAGTYTLV 49
Query: 217 AANGVPPTVSKRLML 231
N + KR+ L
Sbjct: 50 LWNS-AAGLEKRISL 63
>gnl|CDD|239922 cd04476, RPA1_DBD_C, RPA1_DBD_C: A subfamily of OB folds
corresponding to the C-terminal OB fold, the
ssDNA-binding domain (DBD)-C, of human RPA1 (also called
RPA70). RPA1 is the large subunit of Replication protein
A (RPA). RPA is a nuclear ssDNA-binding protein (SSB)
which appears to be involved in all aspects of DNA
metabolism including replication, recombination, and
repair. RPA also mediates specific interactions of
various nuclear proteins. In animals, plants, and fungi,
RPA is a heterotrimer with subunits of 70KDa (RPA1),
32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C,
RPA1 contains three other OB folds: DBD-A, DBD-B, and
RPA1N. The major DNA binding activity of RPA is
associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is
involved in DNA binding and trimerization. It contains
two structural insertions not found to date in other
OB-folds: a zinc ribbon and a three-helix bundle. RPA1
DBD-C also contains a Cys4-type zinc-binding motif,
which plays a role in the ssDNA binding function of this
domain. It appears that zinc itself may not be required
for ssDNA binding.
Length = 166
Score = 27.7 bits (62), Expect = 4.2
Identities = 9/31 (29%), Positives = 13/31 (41%)
Query: 204 KVTRSEMGAYQCIAANGVPPTVSKRLMLHVH 234
KV G Y+C N P R +L ++
Sbjct: 43 KVVEEGNGTYRCEKCNKSVPNPEYRYILSLN 73
>gnl|CDD|143290 cd05882, Ig1_Necl-1, First (N-terminal) immunoglobulin (Ig)-like
domain of nectin-like molcule-1 (Necl-1, also known as
cell adhesion molecule3 (CADM3)). Ig1_Necl-1: domain
similar to the N-terminal immunoglobulin (Ig)-like
domain of nectin-like molecule-1, Necl-1 (also known as
celll adhesion molecule 3 (CADM3), SynCAM2, IGSF4).
Nectin-like molecules have similar domain structures to
those of nectins. 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 has 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.
Length = 95
Score = 26.5 bits (58), Expect = 4.7
Identities = 11/45 (24%), Positives = 21/45 (46%)
Query: 89 RLSVTHNDANTWTLNIRSVRREDRGYYMCQVNTNPMTKQMAFLEV 133
R+ + + ++I +V+ D G Y C + T P+ A + V
Sbjct: 51 RIQLVKSTPTELIISISNVQLSDEGEYTCSIFTMPVRTAKATVTV 95
>gnl|CDD|143325 cd07701, Ig1_Necl-3, First (N-terminal) immunoglobulin (Ig)-like
domain of nectin-like molecule-3 (Necl-3, also known as
cell adhesion molecule 2 (CADM2)). Ig1_Necl-3: domain
similar to the N-terminal immunoglobulin (Ig)-like
domain of nectin-like molecule-3, Necl-3 (also known as
cell adhesion molecule 2 (CADM2), SynCAM2, IGSF4D).
Nectin-like molecules have similar domain structures to
those of nectins. 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-3 accumulates in central and peripheral
nervous system tissue, and has been shown to selectively
interact with oligodendrocytes.
Length = 95
Score = 26.6 bits (58), Expect = 4.7
Identities = 12/45 (26%), Positives = 21/45 (46%)
Query: 89 RLSVTHNDANTWTLNIRSVRREDRGYYMCQVNTNPMTKQMAFLEV 133
R+ + + +++I V D G Y C + T P+ A+L V
Sbjct: 51 RIELVRASWHELSISISDVSLSDEGQYTCSLFTMPVKTSKAYLTV 95
>gnl|CDD|143181 cd04980, IgV_L_kappa, Immunoglobulin (Ig) light chain, kappa type,
variable (V) domain. IgV_L_kappa: Immunoglobulin (Ig)
light chain, kappa type, 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 seem
to be functionally identical, and can associate with any
of the heavy chains.
Length = 106
Score = 26.7 bits (59), Expect = 5.0
Identities = 12/26 (46%), Positives = 12/26 (46%), Gaps = 1/26 (3%)
Query: 101 TLNIRSVRREDRGYYMC-QVNTNPMT 125
TL I V ED Y C Q T P T
Sbjct: 72 TLTISRVEPEDAAVYYCQQYGTFPYT 97
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 27.6 bits (62), Expect = 5.9
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 14 PLENVTIAQGRDAIFTCVVNNLGGHRVSSSVTDTHVNTGGSIVF 57
PL + A R I +N LG R++ + T +GGSIV
Sbjct: 98 PLADADFAHWRAVI---ELNVLGTLRLTQAFTPALAESGGSIVM 138
>gnl|CDD|178673 PLN03127, PLN03127, Elongation factor Tu; Provisional.
Length = 447
Score = 27.5 bits (61), Expect = 6.8
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 2 VPVRGFEPDFLYPLENVTIAQGRDAIFT 29
PVR + FL P+E+V QGR + T
Sbjct: 253 EPVRVLDKPFLMPIEDVFSIQGRGTVAT 280
>gnl|CDD|143180 cd04979, Ig_Semaphorin_C, Immunoglobulin (Ig)-like domain of
semaphorin. Ig_Semaphorin_C; Immunoglobulin (Ig)-like
domain in semaphorins. Semaphorins are transmembrane
protein that have important roles in a variety of
tissues. Functionally, semaphorins were initially
characterized for their importance in the development of
the nervous system and in axonal guidance. Later they
have been found to be important for the formation and
functioning of the cardiovascular, endocrine,
gastrointestinal, hepatic, immune, musculoskeletal,
renal, reproductive, and respiratory systems.
Semaphorins function through binding to their receptors
and transmembrane semaphorins also serves as receptors
themselves. Although molecular mechanism of semaphorins
is poorly understood, the Ig-like domains may involve in
ligand binding or dimerization.
Length = 89
Score = 25.8 bits (57), Expect = 7.2
Identities = 15/87 (17%), Positives = 26/87 (29%), Gaps = 9/87 (10%)
Query: 150 VPEGGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVE--SEVLSLTKVTR 207
V EG S L C K + W + + + + L + V+
Sbjct: 8 VVEGNSVFLECSPKS-NLASVVWLFQG------GPLQRKEEPEERLLVTEDGLLIRSVSP 60
Query: 208 SEMGAYQCIAANGVPPTVSKRLMLHVH 234
++ G Y C + L+V
Sbjct: 61 ADAGVYTCQSVEHGFKQTLATYSLNVL 87
>gnl|CDD|117020 pfam08443, RimK, RimK-like ATP-grasp domain. This ATP-grasp domain
is found in the ribosomal S6 modification enzyme RimK.
Length = 190
Score = 27.0 bits (60), Expect = 8.0
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 109 REDRGYYMCQVNTNPMTK 126
R RG +C+VN++P K
Sbjct: 155 RSKRGLLVCEVNSSPGLK 172
>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 = 26.1 bits (57), Expect = 8.4
Identities = 21/82 (25%), Positives = 37/82 (45%), Gaps = 11/82 (13%)
Query: 142 EETSGDMMVPE---GGSAKLVCKAKGYPTPKITWRREDNKEIIVRSNPPSSQKVFSVESE 198
EE D + PE G + C+A+ P P WR+ +N +I + ++ +S+
Sbjct: 5 EEQPIDTIYPEESTEGKVSVNCRARANPFPIYKWRK-NNLDIDLTNDR------YSMVGG 57
Query: 199 VLSLTKVTRS-EMGAYQCIAAN 219
L + + + G Y CI +N
Sbjct: 58 NLVINNPDKYKDAGRYVCIVSN 79
>gnl|CDD|143226 cd05749, Ig2_Tyro3_like, Second immunoglobulin (Ig)-like domain of
Axl/Tyro3 receptor tyrosine kinases (RTKs).
Ig2_Tyro3_like: the second immunoglobulin (Ig)-like
domain in the Axl/Tyro3 family of receptor tyrosine
kinases (RTKs). This family includes Axl (also known as
Ark, Ufo, and Tyro7), Tyro3 (also known as Sky, Rse,
Brt, Dtk, and Tif), and Mer (also known as Nyk, c-Eyk,
and Tyro12). Axl/Tyro3 family receptors have an
extracellular portion with two Ig-like domains followed
by two fibronectin-types III (FNIII) domains, a
membrane-spanning single helix, and a cytoplasmic
tyrosine kinase domain. Axl, Tyro3 and Mer are widely
expressed in adult tissues, though they show higher
expression in the brain, in the lymphatic and vascular
systems, and in the testis. Axl, Tyro3, and Mer bind the
vitamin K dependent protein Gas6 with high affinity, and
in doing so activate their tyrosine kinase activity.
Axl/Gas6 signaling may play a part in cell adhesion
processes, prevention of apoptosis, and cell
proliferation.
Length = 81
Score = 25.5 bits (56), Expect = 8.5
Identities = 20/82 (24%), Positives = 31/82 (37%), Gaps = 13/82 (15%)
Query: 147 DMMVPEGGSAKLVCKAKGYPTP-KITWRREDNKEIIVRSNPPSSQKVFSVESEVLSLTKV 205
D+ V L C+A G P P +I W + + + PS VL++ +
Sbjct: 7 DLSVTANTPFNLTCQAVGPPEPVEILWWQGGSPLGDPPAPSPS----------VLNVPGL 56
Query: 206 TRSEMGAYQCIAANGVPPTVSK 227
E + C A N T S+
Sbjct: 57 N--ETSKFSCEAHNAKGVTTSR 76
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
0.317 0.131 0.389
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: 11,632,209
Number of extensions: 1026727
Number of successful extensions: 944
Number of sequences better than 10.0: 1
Number of HSP's gapped: 903
Number of HSP's successfully gapped: 131
Length of query: 238
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 144
Effective length of database: 6,768,326
Effective search space: 974638944
Effective search space used: 974638944
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.9 bits)