RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12426
(616 letters)
>gnl|CDD|238020 cd00063, FN3, Fibronectin type 3 domain; One of three types of
internal repeats found in the plasma protein
fibronectin. Its tenth fibronectin type III repeat
contains an RGD cell recognition sequence in a flexible
loop between 2 strands. Approximately 2% of all animal
proteins contain the FN3 repeat; including extracellular
and intracellular proteins, membrane spanning cytokine
receptors, growth hormone receptors, tyrosine
phosphatase receptors, and adhesion molecules. FN3-like
domains are also found in bacterial glycosyl hydrolases.
Length = 93
Score = 87.9 bits (218), Expect = 4e-21
Identities = 40/94 (42%), Positives = 54/94 (57%), Gaps = 2/94 (2%)
Query: 410 PDRPGQPTVTDWGKDHVDLEWTPPKKDGGSPISQYIIEKKPKY-GPWEKACIVPANITAT 468
P P VTD V L WTPP+ DGG PI+ Y++E + K G W++ + P + T+
Sbjct: 1 PSPPTNLRVTDVTSTSVTLSWTPPEDDGG-PITGYVVEYREKGSGDWKEVEVTPGSETSY 59
Query: 469 SVPDLKEGEEYEFRVIAVNKGGPGEPSKASAPVT 502
++ LK G EYEFRV AVN GG PS++ T
Sbjct: 60 TLTGLKPGTEYEFRVRAVNGGGESPPSESVTVTT 93
Score = 79.8 bits (197), Expect = 3e-18
Identities = 38/95 (40%), Positives = 49/95 (51%), Gaps = 4/95 (4%)
Query: 310 PSPPEGPLKPSNITKSSCNLEWRAPRDDGGTDILHYVVEKMDMETGRW--VPMGDVSGTY 367
PSPP L+ +++T +S L W P DDGG I YVVE + +G W V + S T
Sbjct: 1 PSPPTN-LRVTDVTSTSVTLSWTPPEDDGG-PITGYVVEYREKGSGDWKEVEVTPGSETS 58
Query: 368 TRAENLIEGHDYNFRVKAVNKIGESLPLVCQSPIT 402
L G +Y FRV+AVN GES P + T
Sbjct: 59 YTLTGLKPGTEYEFRVRAVNGGGESPPSESVTVTT 93
Score = 51.7 bits (124), Expect = 2e-08
Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 557 PGKPSKPEATDVDKDHIKIKWQQPISNGGSAIKGYEVERRERTSGRWIKITPDPIRTKT 615
P P+ TDV + + W P + G I GY VE RE+ SG W ++ P +
Sbjct: 1 PSPPTNLRVTDVTSTSVTLSWTPP-EDDGGPITGYVVEYREKGSGDWKEVEVTPGSETS 58
Score = 47.9 bits (114), Expect = 5e-07
Identities = 19/55 (34%), Positives = 26/55 (47%)
Query: 64 VLDLIEGNHPIWEKCAQTEGDTPKGKVLDLIEGNQYEFRVLAVNKGGPGEPSDPT 118
V++ E W++ T G + L G +YEFRV AVN GG PS+
Sbjct: 35 VVEYREKGSGDWKEVEVTPGSETSYTLTGLKPGTEYEFRVRAVNGGGESPPSESV 89
Score = 47.9 bits (114), Expect = 5e-07
Identities = 17/44 (38%), Positives = 22/44 (50%)
Query: 161 WEKCAQTEGDTPKGKVLDLIEGNQYEFRVLAVNKGGPGEPSDPT 204
W++ T G + L G +YEFRV AVN GG PS+
Sbjct: 46 WKEVEVTPGSETSYTLTGLKPGTEYEFRVRAVNGGGESPPSESV 89
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 78.8 bits (195), Expect = 5e-18
Identities = 26/85 (30%), Positives = 44/85 (51%)
Query: 222 QLSDIKVRAGSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKR 281
+ D++V+ G + F V G+P PT W + + S DRFK+ + + L + + +
Sbjct: 6 KPKDVEVQEGESARFTCTVTGDPDPTVSWFKDGQPLRSSDRFKVTYEGGTYTLTISNVQP 65
Query: 282 GDSGIYTLAVKNSWGTDKGTAKVTV 306
D G YT NS G + +A++TV
Sbjct: 66 DDEGKYTCVATNSAGEAEASAELTV 90
Score = 40.3 bits (95), Expect = 2e-04
Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 2 PHIDRRHLGDIKLSAGTTLKFDANIIGEPVPHVDWRAGGNPLN 44
P + D+++ G + +F + G+P P V W G PL
Sbjct: 1 PKFTQ-KPKDVEVQEGESARFTCTVTGDPDPTVSWFKDGQPLR 42
>gnl|CDD|214495 smart00060, FN3, Fibronectin type 3 domain. One of three types of
internal repeat within the plasma protein, fibronectin.
The tenth fibronectin type III repeat contains a RGD
cell recognition sequence in a flexible loop between 2
strands. Type III modules are present in both
extracellular and intracellular proteins.
Length = 83
Score = 76.5 bits (188), Expect = 3e-17
Identities = 32/84 (38%), Positives = 41/84 (48%), Gaps = 2/84 (2%)
Query: 410 PDRPGQPTVTDWGKDHVDLEWTPPKKDGG-SPISQYIIEKKPKYGPWEKACIVPANITAT 468
P P VTD V L W PP DG I Y +E + + W++ V + T+
Sbjct: 1 PSPPSNLRVTDVTSTSVTLSWEPPPDDGITGYIVGYRVEYREEGSEWKE-VNVTPSSTSY 59
Query: 469 SVPDLKEGEEYEFRVIAVNKGGPG 492
++ LK G EYEFRV AVN G G
Sbjct: 60 TLTGLKPGTEYEFRVRAVNGAGEG 83
Score = 67.6 bits (165), Expect = 3e-14
Identities = 31/84 (36%), Positives = 41/84 (48%), Gaps = 2/84 (2%)
Query: 310 PSPPEGPLKPSNITKSSCNLEWRAPRDDGGTD-ILHYVVEKMDMETGRWVPMGDVSGTYT 368
PSPP L+ +++T +S L W P DDG T I+ Y VE + + S T
Sbjct: 1 PSPPSN-LRVTDVTSTSVTLSWEPPPDDGITGYIVGYRVEYREEGSEWKEVNVTPSSTSY 59
Query: 369 RAENLIEGHDYNFRVKAVNKIGES 392
L G +Y FRV+AVN GE
Sbjct: 60 TLTGLKPGTEYEFRVRAVNGAGEG 83
Score = 41.4 bits (97), Expect = 6e-05
Identities = 18/59 (30%), Positives = 23/59 (38%), Gaps = 2/59 (3%)
Query: 557 PGKPSKPEATDVDKDHIKIKWQQPIS-NGGSAIKGYEVERRERTSGRWIKITPDPIRTK 614
P PS TDV + + W+ P I GY VE RE W ++ P T
Sbjct: 1 PSPPSNLRVTDVTSTSVTLSWEPPPDDGITGYIVGYRVEYRE-EGSEWKEVNVTPSSTS 58
Score = 35.3 bits (81), Expect = 0.011
Identities = 15/38 (39%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 75 WEKCAQTEGDTPKGKVLDLIEGNQYEFRVLAVNKGGPG 112
W++ T T + L G +YEFRV AVN G G
Sbjct: 47 WKEVNVTPSST-SYTLTGLKPGTEYEFRVRAVNGAGEG 83
Score = 35.3 bits (81), Expect = 0.011
Identities = 15/38 (39%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 161 WEKCAQTEGDTPKGKVLDLIEGNQYEFRVLAVNKGGPG 198
W++ T T + L G +YEFRV AVN G G
Sbjct: 47 WKEVNVTPSST-SYTLTGLKPGTEYEFRVRAVNGAGEG 83
>gnl|CDD|200951 pfam00041, fn3, Fibronectin type III domain.
Length = 84
Score = 71.7 bits (176), Expect = 1e-15
Identities = 35/86 (40%), Positives = 43/86 (50%), Gaps = 3/86 (3%)
Query: 411 DRPGQPTVTDWGKDHVDLEWTPPKKDGGSPISQYIIEKKPKYGP-WEKACIVPANITATS 469
P TVTD + L W+PP G PI+ Y +E +P G K VP T+ +
Sbjct: 1 SAPTNLTVTDVTSTSLTLSWSPP--PGNGPITGYEVEYRPVNGGEEWKEITVPGTTTSYT 58
Query: 470 VPDLKEGEEYEFRVIAVNKGGPGEPS 495
+ LK G EYE RV AVN G G PS
Sbjct: 59 LTGLKPGTEYEVRVQAVNGAGEGPPS 84
Score = 57.0 bits (138), Expect = 2e-10
Identities = 29/86 (33%), Positives = 37/86 (43%), Gaps = 5/86 (5%)
Query: 311 SPPEGPLKPSNITKSSCNLEWRAPRDDGGTDILHYVVEKMDMETGRWVPMGDVSGTYTRA 370
S P L +++T +S L W P +G I Y VE + G V GT T
Sbjct: 1 SAPTN-LTVTDVTSTSLTLSWSPPPGNG--PITGYEVEYRPVNGGEEWKEITVPGTTTSY 57
Query: 371 --ENLIEGHDYNFRVKAVNKIGESLP 394
L G +Y RV+AVN GE P
Sbjct: 58 TLTGLKPGTEYEVRVQAVNGAGEGPP 83
Score = 38.2 bits (89), Expect = 0.001
Identities = 18/59 (30%), Positives = 22/59 (37%)
Query: 57 GDTPKGKVLDLIEGNHPIWEKCAQTEGDTPKGKVLDLIEGNQYEFRVLAVNKGGPGEPS 115
G ++ N K G T + L G +YE RV AVN G G PS
Sbjct: 26 NGPITGYEVEYRPVNGGEEWKEITVPGTTTSYTLTGLKPGTEYEVRVQAVNGAGEGPPS 84
Score = 35.1 bits (81), Expect = 0.010
Identities = 13/24 (54%), Positives = 14/24 (58%)
Query: 178 DLIEGNQYEFRVLAVNKGGPGEPS 201
L G +YE RV AVN G G PS
Sbjct: 61 GLKPGTEYEVRVQAVNGAGEGPPS 84
Score = 33.6 bits (77), Expect = 0.046
Identities = 16/48 (33%), Positives = 19/48 (39%), Gaps = 2/48 (4%)
Query: 558 GKPSKPEATDVDKDHIKIKWQQPISNGGSAIKGYEVERRERTSGRWIK 605
P+ TDV + + W P G I GYEVE R G K
Sbjct: 1 SAPTNLTVTDVTSTSLTLSWSPP--PGNGPITGYEVEYRPVNGGEEWK 46
>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 = 64.5 bits (158), Expect = 3e-13
Identities = 23/74 (31%), Positives = 35/74 (47%)
Query: 233 NFEFDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTLAVK 292
+ ++ + G P PT W + + R +I ST L + +++R DSG YTL +K
Sbjct: 1 SVRLEVPISGRPTPTVTWSKDGKPLKLSGRVQIETTASSTSLVIKNAERSDSGKYTLTLK 60
Query: 293 NSWGTDKGTAKVTV 306
N G T V V
Sbjct: 61 NPAGEKSATINVKV 74
Score = 26.8 bits (60), Expect = 8.5
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 19 TLKFDANIIGEPVPHVDWRAGGNPLNLRP 47
+++ + I G P P V W G PL L
Sbjct: 1 SVRLEVPISGRPTPTVTWSKDGKPLKLSG 29
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 64.1 bits (156), Expect = 7e-13
Identities = 20/84 (23%), Positives = 31/84 (36%), Gaps = 1/84 (1%)
Query: 224 SDIKVRAGSNFEFDINVIGEPIPTKEWLCNDIT-IISKDRFKIVNDDKSTKLKVFDSKRG 282
+ V+ G + G P P W + RF + ++ L + +
Sbjct: 2 PSVTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLAESGRFSVSRSGSTSTLTISNVTPE 61
Query: 283 DSGIYTLAVKNSWGTDKGTAKVTV 306
DSG YT A NS G+ +TV
Sbjct: 62 DSGTYTCAATNSSGSASSGTTLTV 85
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 64.1 bits (156), Expect = 7e-13
Identities = 20/84 (23%), Positives = 31/84 (36%), Gaps = 1/84 (1%)
Query: 224 SDIKVRAGSNFEFDINVIGEPIPTKEWLCNDIT-IISKDRFKIVNDDKSTKLKVFDSKRG 282
+ V+ G + G P P W + RF + ++ L + +
Sbjct: 2 PSVTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLAESGRFSVSRSGSTSTLTISNVTPE 61
Query: 283 DSGIYTLAVKNSWGTDKGTAKVTV 306
DSG YT A NS G+ +TV
Sbjct: 62 DSGTYTCAATNSSGSASSGTTLTV 85
>gnl|CDD|143239 cd05762, Ig8_MLCK, Eighth immunoglobulin (Ig)-like domain of human
myosin light-chain kinase (MLCK). Ig8_MLCK: the eighth
immunoglobulin (Ig)-like domain of human myosin
light-chain kinase (MLCK). MLCK is a key regulator of
different forms of cell motility involving actin and
myosin II. Agonist stimulation of smooth muscle cells
increases cytosolic Ca2+, which binds calmodulin. This
Ca2+-calmodulin complex in turn binds to and activates
MLCK. Activated MLCK leads to the phosphorylation of the
20 kDa myosin regulatory light chain (RLC) of myosin II
and the stimulation of actin-activated myosin MgATPase
activity. MLCK is widely present in vertebrate tissues;
it phosphorylates the 20 kDa RLC of both smooth and
nonmuscle myosin II. Phosphorylation leads to the
activation of the myosin motor domain and altered
structural properties of myosin II. In smooth muscle
MLCK it is involved in initiating contraction. In
nonmuscle cells, MLCK may participate in cell division
and cell motility; it has been suggested MLCK plays a
role in cardiomyocyte differentiation and contraction
through regulation of nonmuscle myosin II.
Length = 98
Score = 55.0 bits (132), Expect = 2e-09
Identities = 31/89 (34%), Positives = 46/89 (51%)
Query: 225 DIKVRAGSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRGDS 284
D+KVRAG + E V G T W+ I + KI N + S+KL + + ++
Sbjct: 9 DMKVRAGESVELFCKVTGTQPITCTWMKFRKQIQEGEGIKIENTENSSKLTITEGQQEHC 68
Query: 285 GIYTLAVKNSWGTDKGTAKVTVLDIPSPP 313
G YTL V+N G+ + +TV+D P PP
Sbjct: 69 GCYTLEVENKLGSRQAQVNLTVVDKPDPP 97
>gnl|CDD|143302 cd05894, Ig_C5_MyBP-C, C5 immunoglobulin (Ig) domain of cardiac
myosin binding protein C (MyBP-C). Ig_C5_MyBP_C : the
C5 immunoglobulin (Ig) domain of cardiac myosin binding
protein C (MyBP-C). MyBP_C consists of repeated domains,
Ig and fibronectin type 3, and various linkers. Three
isoforms of MYBP_C exist and are included in this group:
cardiac(c), and fast and slow skeletal muscle (s)
MyBP_C. cMYBP_C has insertions between and inside
domains and an additional cardiac-specific Ig domain at
the N-terminus. For cMYBP_C an interaction has been
demonstrated between this C5 domain and the Ig C8
domain.
Length = 86
Score = 46.0 bits (109), Expect = 2e-06
Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 1/82 (1%)
Query: 226 IKVRAGSNFEFDINVIGEPIPTKEWLCNDITII-SKDRFKIVNDDKSTKLKVFDSKRGDS 284
I V AG+ D+ + GEP PT W D ++ R ++ + + + ++R D
Sbjct: 5 IVVVAGNKLRLDVPISGEPAPTVTWSRGDKAFTETEGRVRVESYKDLSSFVIEGAEREDE 64
Query: 285 GIYTLAVKNSWGTDKGTAKVTV 306
G+YT+ V N G D + V V
Sbjct: 65 GVYTITVTNPVGEDHASLFVKV 86
Score = 28.3 bits (63), Expect = 3.5
Identities = 13/33 (39%), Positives = 15/33 (45%)
Query: 12 IKLSAGTTLKFDANIIGEPVPHVDWRAGGNPLN 44
I + AG L+ D I GEP P V W G
Sbjct: 5 IVVVAGNKLRLDVPISGEPAPTVTWSRGDKAFT 37
>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 = 41.9 bits (98), Expect = 4e-05
Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 3/71 (4%)
Query: 236 FDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTLAVKNSW 295
F+ V G+P PT +W+ N +I D FKIV + L+V + D G Y +N
Sbjct: 4 FECEVTGKPTPTVKWVKNGDMVIPSDYFKIVKEH---NLQVLGLVKSDEGFYQCIAENDV 60
Query: 296 GTDKGTAKVTV 306
G + A++ +
Sbjct: 61 GNVQAGAQLII 71
>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 = 42.3 bits (99), Expect = 4e-05
Identities = 22/71 (30%), Positives = 36/71 (50%)
Query: 226 IKVRAGSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRGDSG 285
+ V G + F +V GEP PT W+ I+S R +I + + + ++ + D G
Sbjct: 13 LTVSEGESARFSCDVDGEPAPTVTWMREGQIIVSSQRHQITSTEYKSTFEISKVQMSDEG 72
Query: 286 IYTLAVKNSWG 296
YT+ V+NS G
Sbjct: 73 NYTVVVENSEG 83
Score = 31.2 bits (70), Expect = 0.37
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 12 IKLSAGTTLKFDANIIGEPVPHVDWRAGGNPL 43
+ +S G + +F ++ GEP P V W G +
Sbjct: 13 LTVSEGESARFSCDVDGEPAPTVTWMREGQII 44
>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 = 40.9 bits (96), Expect = 6e-05
Identities = 28/72 (38%), Positives = 39/72 (54%), Gaps = 4/72 (5%)
Query: 235 EFDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTLAVKNS 294
EF V G+P+PT W D + K R +I+ DDKS LK+ + GD G YT +N
Sbjct: 2 EFQCEVGGDPVPTVLWRKEDGEL-PKGRAEIL-DDKS--LKIRNVTAGDEGSYTCEAENM 57
Query: 295 WGTDKGTAKVTV 306
G + +A +TV
Sbjct: 58 VGKIEASASLTV 69
>gnl|CDD|143165 cd00096, Ig, Immunoglobulin domain. Ig: immunoglobulin (Ig) domain
found in the Ig superfamily. The Ig superfamily is a
heterogenous group of proteins, built on a common fold
comprised of a sandwich of two beta sheets. Members of
this group are components of immunoglobulin, neuroglia,
cell surface glycoproteins, such as, T-cell receptors,
CD2, CD4, CD8, and membrane glycoproteins, such as,
butyrophilin and chondroitin sulfate proteoglycan core
protein. A predominant feature of most Ig domains is a
disulfide bridge connecting the two beta-sheets with a
tryptophan residue packed against the disulfide bond.
Length = 74
Score = 39.0 bits (90), Expect = 4e-04
Identities = 18/68 (26%), Positives = 27/68 (39%), Gaps = 4/68 (5%)
Query: 240 VIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTK----LKVFDSKRGDSGIYTLAVKNSW 295
G P PT WL N + S ++ + ++ L + + DSG YT NS
Sbjct: 7 ASGPPPPTITWLKNGKPLPSSVLTRVRSSRGTSSGSSTLTISNVTLEDSGTYTCVASNSA 66
Query: 296 GTDKGTAK 303
GT +
Sbjct: 67 GTVSASVT 74
>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 = 39.2 bits (91), Expect = 5e-04
Identities = 18/50 (36%), Positives = 30/50 (60%)
Query: 264 KIVNDDKSTKLKVFDSKRGDSGIYTLAVKNSWGTDKGTAKVTVLDIPSPP 313
K V D+ + L++ + R DSG ++ NS+G D+G ++TV + P PP
Sbjct: 39 KEVGDEVISTLQILPTVREDSGFFSCHAINSYGEDRGIIQLTVQEPPDPP 88
>gnl|CDD|143214 cd05737, Ig_Myomesin_like_C, C-temrinal immunoglobulin (Ig)-like
domain of myomesin and M-protein. Ig_Myomesin_like_C:
domain similar to the C-temrinal immunoglobulin
(Ig)-like domain of myomesin and M-protein. Myomesin and
M-protein are both structural proteins localized to the
M-band, a transverse structure in the center of the
sarcomere, and are candidates for M-band bridges. Both
proteins are modular, consisting mainly of repetitive
Ig-like and fibronectin type III (FnIII) domains.
Myomesin is expressed in all types of vertebrate
striated muscle; M-protein has a muscle-type specific
expression pattern. Myomesin is present in both slow and
fast fibers; M-protein is present only in fast fibers.
It has been suggested that myomesin acts as a molecular
spring with alternative splicing as a means of modifying
its elasticity.
Length = 92
Score = 38.6 bits (90), Expect = 7e-04
Identities = 22/69 (31%), Positives = 31/69 (44%), Gaps = 1/69 (1%)
Query: 239 NVIGEPIPTKEWLCNDITIISKDRFKI-VNDDKSTKLKVFDSKRGDSGIYTLAVKNSWGT 297
V G+P P WL ND + D + + V K L + DSG Y + VKN +G
Sbjct: 24 TVFGDPDPEVSWLKNDQALALSDHYNVKVEQGKYASLTIKGVSSEDSGKYGIVVKNKYGG 83
Query: 298 DKGTAKVTV 306
+ V+V
Sbjct: 84 ETVDVTVSV 92
>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 = 38.0 bits (88), Expect = 0.001
Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 6/87 (6%)
Query: 221 DQLSDIKVRAGSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKS-TKLKVFDS 279
+SD + GS+ ++ G P P WL N + S++R ++ D TKL +
Sbjct: 4 KVISDTEADIGSSLRWECKASGNPRPAYRWLKNGQPLASENRIEVEAGDLRITKLSL--- 60
Query: 280 KRGDSGIYTLAVKNSWGTDKGTAKVTV 306
DSG+Y +N GT +A++ V
Sbjct: 61 --SDSGMYQCVAENKHGTIYASAELAV 85
>gnl|CDD|143173 cd04972, Ig_TrkABC_d4, Fourth domain (immunoglobulin-like) of Trk
receptors TrkA, TrkB and TrkC. TrkABC_d4: the fourth
domain of Trk receptors TrkA, TrkB and TrkC, this is an
immunoglobulin (Ig)-like domain which binds to
neurotrophin. The Trk family of receptors are tyrosine
kinase receptors. They are activated by dimerization,
leading to autophosphorylation of intracellular tyrosine
residues, and triggering the signal transduction
pathway. TrkA, TrkB, and TrkC share significant sequence
homology and domain organization. The first three
domains are leucine-rich domains. The fourth and fifth
domains are Ig-like domains playing a part in ligand
binding. TrkA, Band C mediate the trophic effects of the
neurotrophin Nerve growth factor (NGF) family. TrkA is
recognized by NGF. TrKB is recognized by brain-derived
neurotrophic factor (BDNF) and neurotrophin (NT)-4. TrkC
is recognized by NT-3. NT-3 is promiscuous as in some
cell systems it activates TrkA and TrkB receptors. TrkA
is a receptor found in all major NGF targets, including
the sympathetic, trigeminal, and dorsal root ganglia,
cholinergic neurons of the basal forebrain and the
striatum. TrKB transcripts are found throughout multiple
structures of the central and peripheral nervous
systems. The TrkC gene is expressed throughout the
mammalian nervous system.
Length = 90
Score = 34.8 bits (80), Expect = 0.019
Identities = 19/91 (20%), Positives = 30/91 (32%), Gaps = 2/91 (2%)
Query: 217 YINRDQLSDIKVRAGSNFEFDINVIGEPIPTKEW-LCNDITIISKDRFKIVNDDKSTKLK 275
I D + V G G P+P EW + I I ++ D L+
Sbjct: 1 TIPVDGPNATVVYEGGTATIRCTAEGSPLPKVEWIIAGLIVIQTRTDTLETTVDIYN-LQ 59
Query: 276 VFDSKRGDSGIYTLAVKNSWGTDKGTAKVTV 306
+ + T +N G + +VTV
Sbjct: 60 LSNITSETQTTVTCTAENPVGQANVSVQVTV 90
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 33.9 bits (78), Expect = 0.020
Identities = 17/66 (25%), Positives = 25/66 (37%), Gaps = 4/66 (6%)
Query: 231 GSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTLA 290
G + G P+P WL + + +RF L + DSG+YT
Sbjct: 2 GQSVTLTCPAEGNPVPNITWLKDGKPLPESNRFVASGS----TLTIKSVSLEDSGLYTCV 57
Query: 291 VKNSWG 296
+NS G
Sbjct: 58 AENSAG 63
>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 = 34.8 bits (80), Expect = 0.022
Identities = 23/84 (27%), Positives = 33/84 (39%), Gaps = 7/84 (8%)
Query: 221 DQLSDIKVRAGSNFEFDINVIGEPIPTKEWLCN----DITIISKDRFKIVNDDKST-KLK 275
+ SD+ V G + G P PT +WL N + +IV S L+
Sbjct: 6 EHPSDLIVSKGDPATLNCKAEGRPTPTIQWLKNGQPLETDKDDPRSHRIVLPSGSLFFLR 65
Query: 276 VFDSKRG--DSGIYTLAVKNSWGT 297
V ++G D G+Y NS G
Sbjct: 66 VVHGRKGRSDEGVYVCVAHNSLGE 89
>gnl|CDD|143227 cd05750, Ig_Pro_neuregulin, Immunoglobulin (Ig)-like domain in
neuregulins (NRGs). Ig_Pro_neuregulin: immunoglobulin
(Ig)-like domain in neuregulins (NRGs). NRGs are
signaling molecules, which participate in cell-cell
interactions in the nervous system, breast, heart, and
other organ systems, and are implicated in the pathology
of diseases including schizophrenia, multiple sclerosis,
and breast cancer. There are four members of the
neuregulin gene family (NRG1, -2, -3, and -4). The NRG-1
protein, binds to and activates the tyrosine kinases
receptors ErbB3 and ErbB4, initiating signaling
cascades. The other NRGs proteins bind one or the other
or both of these ErbBs. NRG-1 has multiple functions;
for example, in the brain it regulates various processes
such as radial glia formation and neuronal migration,
dendritic development, and expression of
neurotransmitters receptors; in the peripheral nervous
system NRG-1 regulates processes such as target cell
differentiation, and Schwann cell survival. There are
many NRG-1 isoforms, which arise from the alternative
splicing of mRNA. Less is known of the functions of the
other NRGs. NRG-2 and -3 are expressed predominantly in
the nervous system. NRG-2 is expressed by motor neurons
and terminal Schwann cells, and is concentrated near
synaptic sites and may be a signal that regulates
synaptic differentiation. NRG-4 has been shown to direct
pancreatic islet cell development towards the delta-cell
lineage.
Length = 75
Score = 34.0 bits (78), Expect = 0.023
Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 242 GEPIPTKEWLCNDITIISKDR---FKIVNDDKSTKLKVFDSKRGDSGIYTLAVKNSWGTD 298
P +W + + K++ KI N K+++L++ +K DSG YT V+N G D
Sbjct: 10 EYPSLRFKWFKDGKELNRKNKPRNIKIRNKKKNSELQINKAKLADSGEYTCVVENILGND 69
Query: 299 KGTAKV 304
TA V
Sbjct: 70 TVTANV 75
>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 = 33.4 bits (76), Expect = 0.036
Identities = 19/67 (28%), Positives = 32/67 (47%)
Query: 242 GEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTLAVKNSWGTDKGT 301
G P+P WL N + I K ++ ++L + + + D+G YT KN G D+
Sbjct: 9 GIPLPRLTWLKNGMDITPKLSKQLTLIANGSELHISNVRYEDTGAYTCIAKNEAGVDEDI 68
Query: 302 AKVTVLD 308
+ + V D
Sbjct: 69 SSLFVED 75
>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 = 33.7 bits (77), Expect = 0.047
Identities = 21/82 (25%), Positives = 33/82 (40%), Gaps = 1/82 (1%)
Query: 226 IKVRAGSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKI-VNDDKSTKLKVFDSKRGDS 284
+ + G V G P P W ND I + + + + K L + DS
Sbjct: 11 VTIMEGKTLNLTCTVFGNPDPEVIWFKNDQDIELSEHYSVKLEQGKYASLTIKGVTSEDS 70
Query: 285 GIYTLAVKNSWGTDKGTAKVTV 306
G Y++ VKN +G + V+V
Sbjct: 71 GKYSINVKNKYGGETVDVTVSV 92
>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 = 33.1 bits (76), Expect = 0.057
Identities = 17/67 (25%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 242 GEPIPTKEWLCNDITIISKD-RFKIVNDDKSTKLKVFDSKRGDSGIYTLAVKNSWGT-DK 299
G P PT W + + + R +IV+D L + ++++ D G Y N G +
Sbjct: 23 GHPEPTVSWRKDGQPLNLDNERVRIVDDG---NLLIAEARKSDEGTYKCVATNMVGERES 79
Query: 300 GTAKVTV 306
A+++V
Sbjct: 80 AAARLSV 86
>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 = 32.5 bits (74), Expect = 0.085
Identities = 19/67 (28%), Positives = 24/67 (35%)
Query: 231 GSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTLA 290
G EF G P P W N + R I ++ L + D K D G YT
Sbjct: 1 GETVEFTCVATGVPTPIINWRLNWGHVPDSARVSITSEGGYGTLTIRDVKESDQGAYTCE 60
Query: 291 VKNSWGT 297
N+ G
Sbjct: 61 AINTRGM 67
>gnl|CDD|143274 cd05866, Ig1_NCAM-2, First immunoglobulin (Ig)-like domain of
neural cell adhesion molecule NCAM-2. Ig1_NCAM-2:
first immunoglobulin (Ig)-like domain of neural cell
adhesion molecule NCAM-2 (OCAM/mamFas II, 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 = 92
Score = 31.5 bits (71), Expect = 0.22
Identities = 20/85 (23%), Positives = 39/85 (45%), Gaps = 3/85 (3%)
Query: 223 LSDIKVRAGSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRG 282
LS +++ G + F IGEP + I+S R + + ++L ++++
Sbjct: 7 LSKVELSVGESKFFTCTAIGEPESIDWYNPQGEKIVSSQRVVVQKEGVRSRLTIYNANIE 66
Query: 283 DSGIYTLAVKNSWGTDKGTAKVTVL 307
D+GIY ++ G T + TV+
Sbjct: 67 DAGIYRCQATDAKGQ---TQEATVV 88
>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 = 31.9 bits (73), Expect = 0.26
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 8/54 (14%)
Query: 260 KDRFKIVNDDKSTK--LKVFDSKRGDSGIYTLAVKNSWGTDK-----GTAKVTV 306
K RF D + L + + DS +Y AV S GT K GT ++TV
Sbjct: 53 KGRFSGTRDSSKSSFTLTISSLQPEDSAVYYCAVSLSGGTYKLYFGQGT-RLTV 105
>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 = 31.8 bits (72), Expect = 0.27
Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 6/67 (8%)
Query: 233 NFEFDINVIGEPIPTKEWLCN------DITIISKDRFKIVNDDKSTKLKVFDSKRGDSGI 286
EF + V P P WL + ++T I+ + +KLK+ +K DSG+
Sbjct: 20 VKEFVVEVEAYPPPQIRWLKDNRTLIENLTEITTSEHNVQETRYVSKLKLIRAKEEDSGL 79
Query: 287 YTLAVKN 293
YT +N
Sbjct: 80 YTALAQN 86
>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 = 30.8 bits (70), Expect = 0.28
Identities = 18/79 (22%), Positives = 26/79 (32%), Gaps = 5/79 (6%)
Query: 231 GSNFEFDINVIGEPIPTKEWLCNDITI--ISKDRFKIVNDDKSTKLKVFDSKRGDSGIYT 288
G D G P PT W N + I + D L + + + D+ +Y
Sbjct: 1 GETGRLDCEAEGIPQPTITWRLNGVPIEELPPDP---RRRVDGGTLILSNVQPNDTAVYQ 57
Query: 289 LAVKNSWGTDKGTAKVTVL 307
N G A V V+
Sbjct: 58 CNASNVHGYLLANAFVHVV 76
>gnl|CDD|143184 cd04983, IgV_TCR_alpha_like, Immunoglobulin (Ig) variable (V)
domain of T-cell receptor (TCR) alpha chain and similar
proteins. IgV_TCR_alpha: immunoglobulin (Ig) variable
domain of the alpha 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 represents the
variable domain of the alpha chain of TCRs and also
includes the variable domain of delta chains of 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 = 109
Score = 31.4 bits (72), Expect = 0.40
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 8/55 (14%)
Query: 259 SKDRFKIVNDD--KSTKLKVFDSKRGDSGIYTLAVKNSWGTDK-----GTAKVTV 306
K RF D KS+ L + ++ DS +Y A+ S GT K GT ++TV
Sbjct: 55 EKGRFSATLDKSRKSSSLHISAAQLSDSAVYFCALSESGGTGKLTFGKGT-RLTV 108
>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 = 30.3 bits (68), Expect = 0.44
Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 242 GEPIPTKEWL---CNDITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTLAVKNSWGTD 298
G P P W D + R ++ +D + D K D+G+Y+ +N+ G+
Sbjct: 9 GHPTPQIAWQKDGGTDFPAARERRMHVMPEDDV--FFIVDVKIEDTGVYSCTAQNTAGSI 66
Query: 299 KGTAKVTVL 307
A +TVL
Sbjct: 67 SANATLTVL 75
>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 = 29.9 bits (67), Expect = 0.52
Identities = 22/66 (33%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 242 GEPIPTKEWLCNDITIISKDRFKIVNDDKSTKL-KVFDSKRGDSGIYTLAVKNSWGTDKG 300
G P P W D +S +R K +N++K+ +L V +S D G Y +NS G+ +
Sbjct: 9 GLPTPEVHWDRID-GPLSPNRTKKLNNNKTLQLDNVLES---DDGEYVCTAENSEGSARH 64
Query: 301 TAKVTV 306
VTV
Sbjct: 65 HYTVTV 70
>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 = 30.2 bits (68), Expect = 0.63
Identities = 21/86 (24%), Positives = 43/86 (50%), Gaps = 2/86 (2%)
Query: 223 LSDIKVRAGSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKIV-NDDKSTKLKVFDSKR 281
S ++ G + F VIGEP + N ++++ + +V NDD + L ++++
Sbjct: 7 PSQGEISVGESKFFLCQVIGEPKDISWFSPNGEKLVTQQQISVVQNDDVRSTLTIYNANI 66
Query: 282 GDSGIYTLAVKNSWGTD-KGTAKVTV 306
D+GIY ++ GT+ + T + +
Sbjct: 67 EDAGIYKCVATDAKGTESEATVNLKI 92
>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 = 30.3 bits (68), Expect = 1.1
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 3/50 (6%)
Query: 260 KDRFKIVNDDKSTK--LKVFDSKRGDSGIYTLAVKNS-WGTDKGTAKVTV 306
K R + + L + + + DSG YT AV N ++TV
Sbjct: 65 KGRVTLSGNGSKNDFSLTISNLRLSDSGTYTCAVSNPNELVFGAGTRLTV 114
>gnl|CDD|143176 cd04975, Ig4_SCFR_like, Fourth immunoglobulin (Ig)-like domain of
stem cell factor receptor (SCFR) and similar proteins.
Ig4_SCFR_like; fourth immunoglobulin (Ig)-like domain of
stem cell factor receptor (SCFR). In addition to SCFR
this group also includes the fourth Ig domain of
platelet-derived growth factor receptors (PDGFR), alpha
and beta, the fourth Ig domain of macrophage colony
stimulating factor (M-CSF), and the Ig domain of the
receptor tyrosine kinase KIT. SCFR and the PDGFR alpha
and beta have similar organization: an extracellular
component having five Ig-like domains, a transmembrane
segment, and a cytoplasmic portion having protein
tyrosine kinase activity. SCFR and its ligand SCF are
critical for normal hematopoiesis, mast cell
development, melanocytes and gametogenesis. SCF binds to
the second and third Ig-like domains of SCFR, this
fourth Ig-like domain participates in SCFR dimerization,
which follows ligand binding. Deletion of this fourth
SCFR_Ig-like domain abolishes the ligand-induced
dimerization of SCFR and completely inhibits signal
transduction. PDGF is a potent mitogen for connective
tissue cells. PDGF-stimulated processes are mediated by
three different PDGFs (PDGF-A,-B, and C). PDGFR alpha
binds to all three PDGFs, whereas the PDGFR beta, binds
only to PDGF-B. In mice, PDGFR alpha, and PDGFR beta,
are essential for normal development.
Length = 101
Score = 29.6 bits (67), Expect = 1.2
Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 6/75 (8%)
Query: 226 IKVRAGSNFEFDINVIGEP-IPTKEWLCNDITIISKDRFKIVNDDKS-----TKLKVFDS 279
I V G N + V P P W ++ T+ +K + ++++S ++LK+
Sbjct: 13 IFVNLGENLNLVVEVEAYPPPPHINWTYDNRTLTNKLTEIVTSENESEYRYVSELKLVRL 72
Query: 280 KRGDSGIYTLAVKNS 294
K ++G YT NS
Sbjct: 73 KESEAGTYTFLASNS 87
>gnl|CDD|165173 PHA02826, PHA02826, IL-1 receptor-like protein; Provisional.
Length = 227
Score = 31.4 bits (71), Expect = 1.2
Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 247 TKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTLAV---KNSWGTD-KGTA 302
T W N ++ DR ++ N++ + L + + DSGIYT + KNS +
Sbjct: 165 TLTWYKNGNIVLYTDRIQLRNNN--STLVIKSATHDDSGIYTCNLRFNKNSNNYNITKEY 222
Query: 303 KVTVL 307
KVT++
Sbjct: 223 KVTII 227
>gnl|CDD|143170 cd04969, Ig5_Contactin_like, Fifth Ig domain of contactin.
Ig5_Contactin_like: Fifth Ig domain of contactins.
Contactins are neural cell adhesion molecules and are
comprised of six Ig domains followed by four fibronectin
type III(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. The first four Ig domains
form the intermolecular binding fragment, which arranges
as a compact U-shaped module via contacts between Ig
domains 1 and 4, and between Ig domains 2 and 3.
Contactin-2 (TAG-1, axonin-1) may play a part in the
neuronal processes of neurite outgrowth, axon guidance
and fasciculation, and neuronal migration. This group
also includes contactin-1 and contactin-5. The different
contactins show different expression patterns in the
central nervous system. During development and in
adulthood, contactin-2 is transiently expressed in
subsets of central and peripheral neurons. Contactin-5
is expressed specifically in the rat postnatal nervous
system, peaking at about 3 weeks postnatal, and a lack
of contactin-5 (NB-2) results in an impairment of
neuronal act ivity in the rat auditory system.
Contactin-5 is highly expressed in the adult human brain
in the occipital lobe and in the amygdala. Contactin-1
is differentially expressed in tumor tissues and may,
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 73
Score = 28.9 bits (65), Expect = 1.2
Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 3/65 (4%)
Query: 242 GEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTLAVKNSWGTDKGT 301
P PT W + + R I D S L++ + + D G YT +N +G T
Sbjct: 12 AAPKPTISWSKGTELLTNSSRICIW-PDGS--LEILNVTKSDEGKYTCFAENFFGKANST 68
Query: 302 AKVTV 306
++V
Sbjct: 69 GSLSV 73
>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 = 29.2 bits (65), Expect = 1.4
Identities = 20/85 (23%), Positives = 32/85 (37%), Gaps = 4/85 (4%)
Query: 222 QLSDIKVRAGSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKR 281
+ D G N + +G P+P W + + + LK+F+ +
Sbjct: 7 KFKDTYALKGQNVTLECFALGNPVPVIRWRKILEPMPATAEISM----SGAVLKIFNIQP 62
Query: 282 GDSGIYTLAVKNSWGTDKGTAKVTV 306
D G Y +N G DK A+V V
Sbjct: 63 EDEGTYECEAENIKGKDKHQARVYV 87
>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 = 29.3 bits (66), Expect = 1.4
Identities = 25/82 (30%), Positives = 31/82 (37%), Gaps = 1/82 (1%)
Query: 226 IKVRAGSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKIV-NDDKSTKLKVFDSKRGDS 284
V AGS G P PT WL + + R K L + DS
Sbjct: 4 HAVPAGSTVRLKCPASGNPRPTITWLKDGKPFKKEHRIGGYKVRKKKWTLILESVVPSDS 63
Query: 285 GIYTLAVKNSWGTDKGTAKVTV 306
G YT V+N +G+ T KV V
Sbjct: 64 GKYTCIVENKYGSINHTYKVDV 85
>gnl|CDD|143172 cd04971, Ig_TrKABC_d5, Fifth domain (immunoglobulin-like) of Trk
receptors TrkA, TrkB and TrkC. TrkABC_d5: the fifth
domain of Trk receptors TrkA, TrkB and TrkC, this is an
immunoglobulin (Ig)-like domain which binds to
neurotrophin. The Trk family of receptors are tyrosine
kinase receptors. They are activated by dimerization,
leading to autophosphorylation of intracellular tyrosine
residues, and triggering the signal transduction
pathway. TrkA, TrkB, and TrkC share significant sequence
homology and domain organization. The first three
domains are leucine-rich domains. The fourth and fifth
domains are Ig-like domains playing a part in ligand
binding. TrkA, Band C mediate the trophic effects of the
neurotrophin Nerve growth factor (NGF) family. TrkA is
recognized by NGF. TrkB is recognized by brain-derived
neurotrophic factor (BDNF) and neurotrophin (NT)-4. TrkC
is recognized by NT-3. NT-3 is promiscuous as in some
cell systems it activates TrkA and TrkB receptors. TrkA
is a receptor found in all major NGF targets, including
the sympathetic, trigeminal, and dorsal root ganglia,
cholinergic neurons of the basal forebrain and the
striatum. TrKB transcripts are found throughout multiple
structures of the central and peripheral nervous
systems. The TrkC gene is expressed throughout the
mammalian nervous system.
Length = 81
Score = 28.5 bits (64), Expect = 2.1
Identities = 16/72 (22%), Positives = 23/72 (31%), Gaps = 7/72 (9%)
Query: 237 DINVIGEPIPTKEWLCN-------DITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTL 289
V G P PT W N D + L+ + ++G YTL
Sbjct: 4 PFTVRGNPKPTLTWYHNGAVLNESDYIRTEIHYEVTTPTEYHGCLQFDNPTHVNNGNYTL 63
Query: 290 AVKNSWGTDKGT 301
N +G D +
Sbjct: 64 VASNEYGQDSKS 75
>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 = 28.4 bits (63), Expect = 2.9
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 259 SKDRFKIV-NDDKSTKLKVFDSKRGDSGIYTLAVKNSWGTD-KGTAKVTV 306
++ R +V NDD S+ L ++++ D+GIY V N + + T V +
Sbjct: 46 NQQRISVVRNDDYSSTLTIYNANIDDAGIYKCVVSNEDEGESEATVNVKI 95
>gnl|CDD|143208 cd05731, Ig3_L1-CAM_like, Third immunoglobulin (Ig)-like domain of
the L1 cell adhesion molecule (CAM). Ig3_L1-CAM_like:
domain similar to the third immunoglobulin (Ig)-like
domain of the L1 cell adhesion molecule (CAM). L1
belongs to the L1 subfamily of cell adhesion molecules
(CAMs) and is comprised of an extracellular region
having six Ig-like domains and five fibronectin type III
domains, a transmembrane region and an intracellular
domain. L1 is primarily expressed in the nervous system
and is involved in its development and function. L1 is
associated with an X-linked recessive disorder, X-linked
hydrocephalus, MASA syndrome, or spastic paraplegia type
1, that involves abnormalities of axonal growth. This
group also contains the chicken neuron-glia cell
adhesion molecule, Ng-CAM and human neurofascin.
Length = 71
Score = 27.7 bits (62), Expect = 3.2
Identities = 21/66 (31%), Positives = 29/66 (43%), Gaps = 5/66 (7%)
Query: 242 GEPIPTKEWLCNDITIISKDRFKIVNDDKSTKL-KVFDSKRGDSGIYTLAVKNSWGTDKG 300
G P P W+ + DR K N +K+ K+ V + D G Y NS G+ +
Sbjct: 9 GLPTPEISWIKIG-GELPADRTKFENFNKTLKIDNVSEE---DDGEYRCTASNSLGSARH 64
Query: 301 TAKVTV 306
T VTV
Sbjct: 65 TISVTV 70
>gnl|CDD|143303 cd05895, Ig_Pro_neuregulin-1, Immunoglobulin (Ig)-like domain found
in neuregulin (NRG)-1. Ig_Pro_neuregulin-1:
immunoglobulin (Ig)-like domain found in neuregulin
(NRG)-1. There are many NRG-1 isoforms which arise from
the alternative splicing of mRNA. NRG-1 belongs to the
neuregulin gene family, which is comprised of four
genes. This group represents NRG-1. NRGs are signaling
molecules, which participate in cell-cell interactions
in the nervous system, breast, and heart, and other
organ systems, and are implicated in the pathology of
diseases including schizophrenia, multiple sclerosis,
and breast cancer. The NRG-1 protein binds to and
activates the tyrosine kinases receptors ErbB3 and
ErbB4, initiating signaling cascades. NRG-1 has multiple
functions; for example, in the brain it regulates
various processes such as radial glia formation and
neuronal migration, dendritic development, and
expression of neurotransmitters receptors; in the
peripheral nervous system NRG-1 regulates processes such
as target cell differentiation, and Schwann cell
survival.
Length = 76
Score = 28.0 bits (62), Expect = 3.3
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 249 EWLCNDITIISKDR----FKIVNDDKSTKLKVFDSKRGDSGIYTLAVKNSWGTDKGTAKV 304
+W N I +K++ KI KS++L++ + D+G Y V + G D TA V
Sbjct: 17 KWFKNGKEIGAKNKPDNKIKIRKKKKSSELQISKASLADNGEYKCMVSSKLGNDSVTANV 76
>gnl|CDD|214520 smart00112, CA, Cadherin repeats. Cadherins are glycoproteins
involved in Ca2+-mediated cell-cell adhesion. Cadherin
domains occur as repeats in the extracellular regions
which are thought to mediate cell-cell contact when
bound to calcium.
Length = 81
Score = 28.1 bits (63), Expect = 3.5
Identities = 16/38 (42%), Positives = 20/38 (52%), Gaps = 2/38 (5%)
Query: 465 ITATSVPDLKEGEEYEFRVIAVNKGGPGEPSKASAPVT 502
IT T D +E EY V A + GGP P ++A VT
Sbjct: 35 ITTTKPLDREEQPEYTLTVEATDGGGP--PLSSTATVT 70
>gnl|CDD|143169 cd04968, Ig3_Contactin_like, Third Ig domain of contactin.
Ig3_Contactin_like: Third Ig domain of contactins.
Contactins are neural cell adhesion molecules and are
comprised of six Ig domains followed by four fibronectin
type III(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. The first four Ig domains
form the intermolecular binding fragment, which arranges
as a compact U-shaped module via contacts between Ig
domains 1 and 4, and between Ig domains 2 and 3.
Contactin-2 (TAG-1, axonin-1) may play a part in the
neuronal processes of neurite outgrowth, axon guidance
and fasciculation, and neuronal migration. This group
also includes contactin-1 and contactin-5. The different
contactins show different expression patterns in the
central nervous system. During development and in
adulthood, contactin-2 is transiently expressed in
subsets of central and peripheral neurons. Contactin-5
is expressed specifically in the rat postnatal nervous
system, peaking at about 3 weeks postnatal, and a lack
of contactin-5 (NB-2) results in an impairment of
neuronal act ivity in the rat auditory system.
Contactin-5 is highly expressed in the adult human brain
in the occipital lobe and in the amygdala. Contactin-1
is differentially expressed in tumor tissues and may,
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 88
Score = 28.2 bits (63), Expect = 3.9
Identities = 20/91 (21%), Positives = 35/91 (38%), Gaps = 4/91 (4%)
Query: 216 PYINRDQLSDIKVRAGSNFEFDINVIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLK 275
P I D G N + +G P+P +W D ++ S ++ + LK
Sbjct: 1 PSIIVVFPKDTYALKGQNVTLECFALGNPVPQIKWRKVDGSMPSS---AEISMSGAV-LK 56
Query: 276 VFDSKRGDSGIYTLAVKNSWGTDKGTAKVTV 306
+ + + D G Y +N G D ++ V
Sbjct: 57 IPNIQFEDEGTYECEAENIKGKDTHQGRIYV 87
>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 = 28.4 bits (63), Expect = 4.0
Identities = 19/79 (24%), Positives = 32/79 (40%), Gaps = 5/79 (6%)
Query: 222 QLSDIKVRAGSNFEFDINVI----GEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVF 277
+ +V A +N + + G P PT W + I S + N+D S ++ +
Sbjct: 5 RARQSEVNATANLGQSVTLACDADGFPEPTMTWTKDGEPIESGEEKYSFNEDGS-EMTIL 63
Query: 278 DSKRGDSGIYTLAVKNSWG 296
D + D YT +N G
Sbjct: 64 DVDKLDEAEYTCIAENKAG 82
>gnl|CDD|216880 pfam02113, Peptidase_S13, D-Ala-D-Ala carboxypeptidase 3 (S13)
family.
Length = 444
Score = 30.1 bits (68), Expect = 4.1
Identities = 22/95 (23%), Positives = 31/95 (32%), Gaps = 17/95 (17%)
Query: 136 TLLKDSIY---EQLKRSG-------------LFDQFHLCPIWEKCAQTEGDTPKGKVLDL 179
TL + + QLK SG LF L P W T G + +
Sbjct: 93 TLSAEDLDALAAQLKDSGVTPIEGDLVVDDSLFASPDLAPGWPWADLTYGYSAPINAA-M 151
Query: 180 IEGNQYEFRVLAVNKGGPGEPSDPTAPHIARAKKV 214
I+ + N G P + P IA+ + V
Sbjct: 152 IDAGCVIVELTPQNPGEPATITVPPPIPIAQFQNV 186
>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 = 27.9 bits (62), Expect = 4.1
Identities = 25/83 (30%), Positives = 36/83 (43%), Gaps = 7/83 (8%)
Query: 228 VRAGSNFEFDINVIGEPIPTKEWLCNDITIISKDR---FKIVNDDKSTKLK-VFDSKRGD 283
V A + +F G P PT WL N + R +K+ N S ++ V S D
Sbjct: 6 VPAANTVKFRCPAAGNPTPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS---D 62
Query: 284 SGIYTLAVKNSWGTDKGTAKVTV 306
G YT V+N +G+ T + V
Sbjct: 63 KGNYTCVVENEYGSINHTYHLDV 85
>gnl|CDD|215350 PLN02648, PLN02648, allene oxide synthase.
Length = 480
Score = 29.5 bits (67), Expect = 5.1
Identities = 31/97 (31%), Positives = 39/97 (40%), Gaps = 26/97 (26%)
Query: 330 EWRAPRDDGGTDILHYVVEKMDM------ETGRWVPMGDVSGTYTRAEN--LIEGHDYNF 381
E R+ GG + +EKM + E R P V Y RA +IE HD F
Sbjct: 313 EVRSAVKAGGGGVTFAALEKMPLVKSVVYEALRIEP--PVPFQYGRAREDFVIESHDAAF 370
Query: 382 RVKAVNKIGESL----PLVCQSPITAKDP--FGRPDR 412
+K GE L PLV +DP F RP+
Sbjct: 371 EIKK----GEMLFGYQPLVT------RDPKVFDRPEE 397
>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 = 27.4 bits (61), Expect = 5.4
Identities = 16/55 (29%), Positives = 22/55 (40%), Gaps = 4/55 (7%)
Query: 240 VIGEPIPTKEWLCNDITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTLAVKNS 294
V P P +W N I K+R K L + D D+G YT+ + N
Sbjct: 7 VKAYPPPEIQWYKNGKLISEKNRTKK----SGHSLTIKDVTEEDAGNYTVVLTNK 57
>gnl|CDD|217059 pfam02480, Herpes_gE, Alphaherpesvirus glycoprotein E.
Glycoprotein E (gE) of Alphaherpesvirus forms a complex
with glycoprotein I (gI) (pfam01688), functioning as an
immunoglobulin G (IgG) Fc binding protein. gE is
involved in virus spread but is not essential for
propagation.
Length = 437
Score = 29.7 bits (67), Expect = 5.5
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 10/66 (15%)
Query: 263 FKIVNDDKSTKLKVFDSKRGDSGIYTLAVKNSWGTDKGTAK-----VTVLDIPSPPEGPL 317
F + +K L + ++ DSG+YTL V+ D G A VTV+ P P
Sbjct: 81 FPRLTANKGG-LSILNATEQDSGVYTLYVRG----DPGEAHQSAVVVTVVGPAPDPRTPH 135
Query: 318 KPSNIT 323
I
Sbjct: 136 PADPIV 141
>gnl|CDD|223032 PHA03283, PHA03283, envelope glycoprotein E; Provisional.
Length = 542
Score = 29.5 bits (66), Expect = 5.8
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 254 DITIISKDRFKIVNDDKSTKLKVFDSKRGDSGIYTLAVKNSWGTDKGTAKVTVLDIPSPP 313
D+ ++ F I+ ++S L++ + +G+YTL V + VTV P P
Sbjct: 117 DVYFVNGTVFPILTPERSV-LQIQRATPNIAGVYTLHVSSDGMMKHSVFFVTVKKPPKQP 175
Query: 314 EGPLKP 319
+ P P
Sbjct: 176 QTPPAP 181
>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 = 27.6 bits (61), Expect = 5.8
Identities = 17/64 (26%), Positives = 26/64 (40%), Gaps = 18/64 (28%)
Query: 242 GEPIPTKEWLCNDITI-ISKDRFKIV-------NDDKSTKLKVFDSKRGDSGIYTLAVKN 293
P P +W N++ I ++ DR+ +V N DK D+G Y V N
Sbjct: 30 ANPFPIYKWRKNNLDIDLTNDRYSMVGGNLVINNPDKYK----------DAGRYVCIVSN 79
Query: 294 SWGT 297
+G
Sbjct: 80 IYGK 83
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 29.3 bits (65), Expect = 7.4
Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 7/37 (18%)
Query: 567 DVDKDHIKIKWQQPISNGGSAIKG---YEVERRERTS 600
D+ K+HI IKW SN G +G Y+++ +
Sbjct: 33 DIAKNHINIKW----SNNGIHGEGDFKYDIDDGDNLD 65
>gnl|CDD|206637 cd11304, Cadherin_repeat, Cadherin tandem repeat domain. Cadherins
are glycoproteins involved in Ca2+-mediated cell-cell
adhesion. The cadherin repeat domains occur as tandem
repeats in the extracellular regions, which are thought
to mediate cell-cell contact when bound to calcium. They
play numerous roles in cell fate, signalling,
proliferation, differentiation, and migration; members
include E-, N-, P-, T-, VE-, CNR-, proto-, and
FAT-family cadherin, desmocollin, and desmoglein, a
large variety of domain architectures with varying
repeat copy numbers. Cadherin-repeat containing proteins
exist as monomers, homodimers, or heterodimers.
Length = 98
Score = 27.3 bits (61), Expect = 8.0
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 464 NITATSVPDLKEGEEYEFRVIAVNKGGPGEPSKASAPVT 502
IT D +E Y V A + GGP P ++A VT
Sbjct: 53 EITTAKPLDREEQSSYTLTVTATDGGGP--PLSSTATVT 89
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.315 0.137 0.423
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: 31,990,687
Number of extensions: 3120102
Number of successful extensions: 1922
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1898
Number of HSP's successfully gapped: 77
Length of query: 616
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 513
Effective length of database: 6,369,140
Effective search space: 3267368820
Effective search space used: 3267368820
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 62 (27.9 bits)