RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3718
(543 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 = 72.9 bits (179), Expect = 6e-16
Identities = 34/99 (34%), Positives = 49/99 (49%), Gaps = 7/99 (7%)
Query: 250 GPPTHIKVEATDQNTLKVSWSPPERDHWNGVIQGYYVGYKETSTDKPFLFETVDFSKEEG 309
PPT+++V ++ +SW+PPE D G I GY V Y+E + + + G
Sbjct: 2 SPPTNLRVTDVTSTSVTLSWTPPEDD--GGPITGYVVEYREKGSG-----DWKEVEVTPG 54
Query: 310 KEHHLTLSSLKTYTQYSVVVQALNKLGPGPMSEEVKQYT 348
E TL+ LK T+Y V+A+N G P SE V T
Sbjct: 55 SETSYTLTGLKPGTEYEFRVRAVNGGGESPPSESVTVTT 93
Score = 34.0 bits (78), Expect = 0.027
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 217 WKTYHIRIVAENEIGSSEPSDTVTILT 243
Y R+ A N G S PS++VT+ T
Sbjct: 67 GTEYEFRVRAVNGGGESPPSESVTVTT 93
Score = 33.2 bits (76), Expect = 0.053
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 356 PPQDNTCTTLTSQTIRVSWVSPPLITANGVIKGYKVVYGPSDT 398
PP + T +TS ++ +SW P G I GY V Y +
Sbjct: 3 PPTNLRVTDVTSTSVTLSWTPPEDD--GGPITGYVVEYREKGS 43
Score = 30.9 bits (70), Expect = 0.35
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 138 SSQQMTYEASGLKKKQNYIFYVTASTNIGEGQPSKNVT 175
+ +Y +GLK Y F V A GE PS++VT
Sbjct: 53 PGSETSYTLTGLKPGTEYEFRVRAVNGGGESPPSESVT 90
>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 = 63.0 bits (153), Expect = 2e-12
Identities = 27/89 (30%), Positives = 45/89 (50%), Gaps = 7/89 (7%)
Query: 250 GPPTHIKVEATDQNTLKVSWSPPERDHWNGVIQGYYVGYKETSTDKPFLFETVDFSKEEG 309
PP++++V ++ +SW PP D G I GY V Y+E ++ ++ V+ +
Sbjct: 2 SPPSNLRVTDVTSTSVTLSWEPPPDDGITGYIVGYRVEYREEGSE----WKEVNVT---P 54
Query: 310 KEHHLTLSSLKTYTQYSVVVQALNKLGPG 338
TL+ LK T+Y V+A+N G G
Sbjct: 55 SSTSYTLTGLKPGTEYEFRVRAVNGAGEG 83
Score = 33.7 bits (77), Expect = 0.030
Identities = 15/43 (34%), Positives = 22/43 (51%)
Query: 356 PPQDNTCTTLTSQTIRVSWVSPPLITANGVIKGYKVVYGPSDT 398
PP + T +TS ++ +SW PP G I GY+V Y +
Sbjct: 3 PPSNLRVTDVTSTSVTLSWEPPPDDGITGYIVGYRVEYREEGS 45
>gnl|CDD|200951 pfam00041, fn3, Fibronectin type III domain.
Length = 84
Score = 57.8 bits (140), Expect = 8e-11
Identities = 34/92 (36%), Positives = 45/92 (48%), Gaps = 8/92 (8%)
Query: 250 GPPTHIKVEATDQNTLKVSWSPPERDHWNGVIQGYYVGYKETSTDKPFLFETVDFSKEEG 309
PT++ V +L +SWSPP NG I GY V Y+ + + + TV G
Sbjct: 1 SAPTNLTVTDVTSTSLTLSWSPPP---GNGPITGYEVEYRPVNGGEEWKEITVP-----G 52
Query: 310 KEHHLTLSSLKTYTQYSVVVQALNKLGPGPMS 341
TL+ LK T+Y V VQA+N G GP S
Sbjct: 53 TTTSYTLTGLKPGTEYEVRVQAVNGAGEGPPS 84
Score = 33.6 bits (77), Expect = 0.034
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 356 PPQDNTCTTLTSQTIRVSWVSPPLITANGVIKGYKVVYGPSDT 398
P + T T +TS ++ +SW PP NG I GY+V Y P +
Sbjct: 2 APTNLTVTDVTSTSLTLSWSPPPG---NGPITGYEVEYRPVNG 41
Score = 33.6 bits (77), Expect = 0.037
Identities = 14/41 (34%), Positives = 17/41 (41%)
Query: 131 EIKSQKISSQQMTYEASGLKKKQNYIFYVTASTNIGEGQPS 171
E K + +Y +GLK Y V A GEG PS
Sbjct: 44 EWKEITVPGTTTSYTLTGLKPGTEYEVRVQAVNGAGEGPPS 84
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 46.5 bits (111), Expect = 1e-06
Identities = 18/79 (22%), Positives = 34/79 (43%), Gaps = 6/79 (7%)
Query: 52 PEFEIKLRNQTSRRGEPSVLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGV 111
P+F K ++ + GE + C G+ + W + + L +S +R+ + E G
Sbjct: 1 PKFTQKPKDVEVQEGESARFTCTVTGDPDPTVSWFKDGQPL--RSSDRFKVTYE----GG 54
Query: 112 LSDLSIKRTERGDSALFTC 130
L+I + D +TC
Sbjct: 55 TYTLTISNVQPDDEGKYTC 73
Score = 27.2 bits (61), Expect = 6.5
Identities = 16/82 (19%), Positives = 23/82 (28%), Gaps = 32/82 (39%)
Query: 192 NFTATYTEDIKLPCLTVGVPAPEIIWK-------------------TYHIRI-------- 224
+ E + C G P P + W TY + I
Sbjct: 9 DVEVQEGESARFTCTVTGDPDPTVSWFKDGQPLRSSDRFKVTYEGGTYTLTISNVQPDDE 68
Query: 225 -----VAENEIGSSEPSDTVTI 241
VA N G +E S +T+
Sbjct: 69 GKYTCVATNSAGEAEASAELTV 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 = 41.7 bits (98), Expect = 4e-05
Identities = 21/80 (26%), Positives = 32/80 (40%), Gaps = 5/80 (6%)
Query: 59 RNQTSRRGEPSVLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLSIK 118
+ T + GE L CEA G P + W +L R+++ +G S L+I
Sbjct: 2 PSVTVKEGESVTLSCEASGSPPPEVTWYKQGGKL-LAESGRFSVSR----SGSTSTLTIS 56
Query: 119 RTERGDSALFTCEIKSQKIS 138
DS +TC + S
Sbjct: 57 NVTPEDSGTYTCAATNSSGS 76
Score = 28.6 bits (64), Expect = 2.2
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 199 EDIKLPCLTVGVPAPEIIWKTYHIRIVAENEIGSSEPSDTVTILT 243
E + L C G P PE+ W +++AE+ S S + + LT
Sbjct: 10 ESVTLSCEASGSPPPEVTWYKQGGKLLAESGRFSVSRSGSTSTLT 54
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 41.7 bits (98), Expect = 4e-05
Identities = 21/80 (26%), Positives = 32/80 (40%), Gaps = 5/80 (6%)
Query: 59 RNQTSRRGEPSVLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLSIK 118
+ T + GE L CEA G P + W +L R+++ +G S L+I
Sbjct: 2 PSVTVKEGESVTLSCEASGSPPPEVTWYKQGGKL-LAESGRFSVSR----SGSTSTLTIS 56
Query: 119 RTERGDSALFTCEIKSQKIS 138
DS +TC + S
Sbjct: 57 NVTPEDSGTYTCAATNSSGS 76
Score = 28.6 bits (64), Expect = 2.2
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 199 EDIKLPCLTVGVPAPEIIWKTYHIRIVAENEIGSSEPSDTVTILT 243
E + L C G P PE+ W +++AE+ S S + + LT
Sbjct: 10 ESVTLSCEASGSPPPEVTWYKQGGKLLAESGRFSVSRSGSTSTLT 54
>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 = 41.9 bits (98), Expect = 5e-05
Identities = 22/65 (33%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Query: 66 GEPSVLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLSIKRTERGDS 125
G+ + C A GEKPI + W ++ ++P+ +RY + + + + V+S L I T R DS
Sbjct: 1 GQKKEMSCTAHGEKPIIVRWEKEDRIINPEM-SRYLVSTKEVGDEVISTLQILPTVREDS 59
Query: 126 ALFTC 130
F+C
Sbjct: 60 GFFSC 64
>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 = 41.7 bits (98), Expect = 6e-05
Identities = 23/72 (31%), Positives = 33/72 (45%), Gaps = 6/72 (8%)
Query: 62 TSRRGEPSVLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVL--SDLSIKR 119
+ RG P VL C A+GE P I W + L+ SD R + LPNG L + + +
Sbjct: 10 VAVRGGPVVLNCSAEGEPPPKIEWKKDGVLLNLVSDERR----QQLPNGSLLITSVVHSK 65
Query: 120 TERGDSALFTCE 131
+ D + C
Sbjct: 66 HNKPDEGFYQCV 77
>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 = 39.4 bits (91), Expect = 2e-04
Identities = 18/64 (28%), Positives = 20/64 (31%), Gaps = 2/64 (3%)
Query: 70 VLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLSIKRTERGDSALFT 129
L C A G P I W N K L R S L+I DS +T
Sbjct: 2 TLTCLASGPPPPTITWLKNGKPLPSSVLTRVRSSRGTSSGS--STLTISNVTLEDSGTYT 59
Query: 130 CEIK 133
C
Sbjct: 60 CVAS 63
Score = 27.8 bits (61), Expect = 3.4
Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 6/56 (10%)
Query: 201 IKLPCLTVGVPAPEIIWK------TYHIRIVAENEIGSSEPSDTVTILTAEEAPSG 250
+ L CL G P P I W + + G+S S T+TI SG
Sbjct: 1 VTLTCLASGPPPPTITWLKNGKPLPSSVLTRVRSSRGTSSGSSTLTISNVTLEDSG 56
>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 = 36.2 bits (84), Expect = 0.002
Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 10/62 (16%)
Query: 70 VLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLSIKRTERGDSALFT 129
QCE G+ +LW + L PK R I ++ L I+ GD +T
Sbjct: 2 EFQCEVGGDPVPTVLWRKEDGEL-PKG--RAEILDD-------KSLKIRNVTAGDEGSYT 51
Query: 130 CE 131
CE
Sbjct: 52 CE 53
>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 = 37.1 bits (86), Expect = 0.003
Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 64 RRGEPSVLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLSI--KRTE 121
+G+P+ L C+A+G I W N + L+ D+ + +LP+G L L + R
Sbjct: 14 SKGDPATLNCKAEGRPTPTIQWLKNGQPLETDKDDPRS-HRIVLPSGSLFFLRVVHGRKG 72
Query: 122 RGDSALFTCEIK 133
R D ++ C
Sbjct: 73 RSDEGVYVCVAH 84
>gnl|CDD|143235 cd05758, Ig5_KIRREL3-like, Fifth immunoglobulin (Ig)-like domain of
Kirrel (kin of irregular chiasm-like) 3 (also known as
Neph2) and similar proteins. Ig5_KIRREL3-like: domain
similar to the fifth immunoglobulin (Ig)-like domain of
Kirrel (kin of irregular chiasm-like) 3 (also known as
Neph2). This protein has five Ig-like domains, one
transmembrane domain, and a cytoplasmic tail. Included
in this group is mammalian Kirrel (Neph1), Kirrel2
(Neph3), and Drosophila RST (irregular chiasm
C-roughest) protein. These proteins contain multiple Ig
domains, have properties of cell adhesion molecules, and
are important in organ development.
Length = 98
Score = 36.6 bits (85), Expect = 0.004
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 1/68 (1%)
Query: 58 LRNQTSRRGEPSVLQCEAKGE-KPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLS 116
Q + G+ ++C P I+W L+ S RYT+ + P GVLS L+
Sbjct: 8 EATQYAILGDKGRVECFIFSTPPPDRIVWTWKENELESGSSGRYTVETDPSPGGVLSTLT 67
Query: 117 IKRTERGD 124
I T+ D
Sbjct: 68 ISNTQESD 75
>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 = 36.0 bits (83), Expect = 0.007
Identities = 26/92 (28%), Positives = 38/92 (41%), Gaps = 7/92 (7%)
Query: 56 IKLRNQTSRRGEPSVLQCEAKGEKPIGILWNMNNKRL---DPKSDNRYTIREEILPNGVL 112
L NQT+ E L CEA+G+ I W + D D R +R V
Sbjct: 6 TYLENQTAVELEQITLTCEAEGDPIPEITWRRATRNFSEGDKSLDGRIVVRGHA---RV- 61
Query: 113 SDLSIKRTERGDSALFTCEIKSQKISSQQMTY 144
S L++K + D+ + CE ++ QQ Y
Sbjct: 62 SSLTLKDVQLTDAGRYDCEASNRIGGDQQSMY 93
Score = 29.8 bits (67), Expect = 0.97
Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 192 NFTATYTEDIKLPCLTVGVPAPEIIWKTYHIRIVAENE 229
N TA E I L C G P PEI W+ R +E +
Sbjct: 10 NQTAVELEQITLTCEAEGDPIPEITWRR-ATRNFSEGD 46
Score = 29.8 bits (67), Expect = 0.98
Identities = 13/28 (46%), Positives = 14/28 (50%)
Query: 514 NFTATYTEDIKLPCLTVGVPAPEIIWKT 541
N TA E I L C G P PEI W+
Sbjct: 10 NQTAVELEQITLTCEAEGDPIPEITWRR 37
>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 = 33.9 bits (78), Expect = 0.021
Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 11/68 (16%)
Query: 66 GEPSVLQCEAKGE-KPIGILWNMNNKRLDPKS-DNRYTIREEILPNGVLSDLSIKRTERG 123
GE L CEA+G +P I W +N ++ D R + L +LS++
Sbjct: 1 GETGRLDCEAEGIPQPT-ITWRLNGVPIEELPPDPRRRVDGGTL---ILSNVQ-----PN 51
Query: 124 DSALFTCE 131
D+A++ C
Sbjct: 52 DTAVYQCN 59
>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 = 33.1 bits (76), Expect = 0.041
Identities = 14/35 (40%), Positives = 19/35 (54%)
Query: 70 VLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIRE 104
V++CEAKG P W N DP+ D R T++
Sbjct: 2 VIKCEAKGNPPPTFSWTRNGTHFDPEKDPRVTMKP 36
>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 = 33.4 bits (76), Expect = 0.049
Identities = 26/94 (27%), Positives = 42/94 (44%), Gaps = 9/94 (9%)
Query: 56 IKLRNQTSRRGEPSVLQCEAKGEKPIGILWNMNNKRL-----DPKSDNRYTIREEILPNG 110
I+L+N+T+ + L C+A+GE I W + D D R ++ + +G
Sbjct: 6 IQLKNETTVENGAATLSCKAEGEPIPEITWKRASDGHTFSEGDKSPDGRIEVKGQ---HG 62
Query: 111 VLSDLSIKRTERGDSALFTCEIKSQKISSQQMTY 144
S L IK + DS + CE S+ Q+ Y
Sbjct: 63 E-SSLHIKDVKLSDSGRYDCEAASRIGGHQKSMY 95
>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 = 32.1 bits (73), Expect = 0.062
Identities = 13/66 (19%), Positives = 19/66 (28%), Gaps = 5/66 (7%)
Query: 66 GEPSVLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLSIKRTERGDS 125
G L C G + + W K L+ + L+I DS
Sbjct: 1 GSSVTLTCSVSGPPQVDVTWFKEGKGLEESTTVG-----TDENRVSSITLTISNVTPEDS 55
Query: 126 ALFTCE 131
+TC
Sbjct: 56 GTYTCV 61
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 32.0 bits (73), Expect = 0.067
Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 10/71 (14%)
Query: 66 GEPSVLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLSIKRTERGDS 125
G+ L C A+G I W + K L + + +G S L+IK DS
Sbjct: 2 GQSVTLTCPAEGNPVPNITWLKDGKPLPESN--------RFVASG--STLTIKSVSLEDS 51
Query: 126 ALFTCEIKSQK 136
L+TC ++
Sbjct: 52 GLYTCVAENSA 62
Score = 30.1 bits (68), Expect = 0.34
Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 2/52 (3%)
Query: 199 EDIKLPCLTVGVPAPEIIWKTYHIRIVAENEIGSSEPSDTVTILTAEEAPSG 250
+ + L C G P P I W + N +S T+TI + SG
Sbjct: 3 QSVTLTCPAEGNPVPNITWLKDGKPLPESNRFVASGS--TLTIKSVSLEDSG 52
>gnl|CDD|206066 pfam13895, Ig_2, Immunoglobulin domain. This domain contains
immunoglobulin-like domains.
Length = 80
Score = 32.4 bits (74), Expect = 0.080
Identities = 13/79 (16%), Positives = 19/79 (24%), Gaps = 16/79 (20%)
Query: 53 EFEIKLRNQTSRRGEPSVLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVL 112
+ + GE L C A G P W + L + +
Sbjct: 1 KPVLTPSPTVVFEGEDVTLTCSAPGNPPPNYTWYKDGVPLSSSQNGFF------------ 48
Query: 113 SDLSIKRTERGDSALFTCE 131
DS +TC
Sbjct: 49 ----TPNVSAEDSGTYTCV 63
>gnl|CDD|143207 cd05730, Ig3_NCAM-1_like, Third immunoglobulin (Ig)-like domain of
Neural Cell Adhesion Molecule NCAM-1 (NCAM).
Ig3_NCAM-1_like: domain similar to the third
immunoglobulin (Ig)-like domain of Neural Cell Adhesion
Molecule NCAM-1 (NCAM). NCAM plays important roles in
the development and regeneration of the central nervous
system, in synaptogenesis and neural migration. NCAM
mediates cell-cell and cell-substratum recognition and
adhesion via homophilic (NCAM-NCAM), and heterophilic
(NCAM-non-NCAM), interactions. NCAM is expressed as
three major isoforms having different intracellular
extensions. The extracellular portion of NCAM has five
N-terminal Ig-like domains and two fibronectin type III
domains. The double zipper adhesion complex model for
NCAM homophilic binding involves Ig1, Ig2, and Ig3. By
this model, Ig1,and Ig2 mediate dimerization of NCAM
molecules situated on the same cell surface (cis
interactions), and Ig3 domains mediate interactions
between NCAM molecules expressed on the surface of
opposing cells (trans interactions), through binding to
the Ig1 and Ig2 domains. The adhesive ability of NCAM is
modulated by the addition of polysialic acid chains to
the fifth Ig-like domain.
Length = 95
Score = 32.2 bits (73), Expect = 0.14
Identities = 18/93 (19%), Positives = 41/93 (44%), Gaps = 9/93 (9%)
Query: 51 PPEFEIK--LRNQTSRRGEPSVLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILP 108
PP + N T+ G+ L C+A G + W + + ++ + +Y+ E+
Sbjct: 1 PPTIRARQSEVNATANLGQSVTLACDADGFPEPTMTWTKDGEPIE-SGEEKYSFNED--- 56
Query: 109 NGVLSDLSIKRTERGDSALFTCEIKSQKISSQQ 141
S+++I ++ D A +TC +++ +
Sbjct: 57 ---GSEMTILDVDKLDEAEYTCIAENKAGEQEA 86
>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 = 31.0 bits (70), Expect = 0.22
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 6/65 (9%)
Query: 71 LQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLSIKRTERGDSALFTC 130
L+C A+G + W N + PK + T ++ NG S+L I D+ +TC
Sbjct: 3 LRCHAEGIPLPRLTWLKNGMDITPKLSKQLT----LIANG--SELHISNVRYEDTGAYTC 56
Query: 131 EIKSQ 135
K++
Sbjct: 57 IAKNE 61
>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 = 30.7 bits (69), Expect = 0.40
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 188 SFNDNFTATYTED-IKLPCLTVGVPAPEIIWKTYHIRIVAENE 229
++ +N TA E+ I L C G P P I W+T R ++ E
Sbjct: 6 TYVENQTAMELEEQITLTCEASGDPIPSITWRT-STRNISSEE 47
Score = 28.8 bits (64), Expect = 2.0
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 510 SFNDNFTATYTED-IKLPCLTVGVPAPEIIWKT 541
++ +N TA E+ I L C G P P I W+T
Sbjct: 6 TYVENQTAMELEEQITLTCEASGDPIPSITWRT 38
>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 = 29.9 bits (67), Expect = 0.64
Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 13/73 (17%)
Query: 66 GEPSVLQCEAKGEKPIGILWNMNN---KRLDPKSDNRYTIREEILPNGVLSDLSIKRTER 122
GE + L C+ +G I W++N + DP D R + L +L+D+
Sbjct: 1 GETARLDCQVEGIPTPNITWSINGAPIEGTDP--DPRRHVSSGAL---ILTDVQPS---- 51
Query: 123 GDSALFTCEIKSQ 135
D+A++ CE +++
Sbjct: 52 -DTAVYQCEARNR 63
>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 = 29.9 bits (67), Expect = 0.68
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 70 VLQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIR 103
V+QCEAKG+ P W N D D + T++
Sbjct: 2 VIQCEAKGKPPPSFSWTRNGTHFDIDKDPKVTMK 35
>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 = 29.1 bits (65), Expect = 1.0
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 70 VLQCEAKGEKPIGILWNMNNKRLDPKSDN--RYTIREEILPNGVLSDLSIKRTERGDSAL 127
L C A+G P I+W + R P+ + R ++L NG L IK DS
Sbjct: 2 TLNCSAEGYPPPTIVWKHSKGRGHPQHTHTCCLAGRIQLLSNG---SLLIKHVLEEDSGY 58
Query: 128 FTCEI 132
+ C++
Sbjct: 59 YLCKV 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 = 29.4 bits (66), Expect = 1.1
Identities = 14/53 (26%), Positives = 24/53 (45%)
Query: 183 PARIASFNDNFTATYTEDIKLPCLTVGVPAPEIIWKTYHIRIVAENEIGSSEP 235
P+ I F + A +++ L C +G P P+I W+ + + EI S
Sbjct: 1 PSIIVVFPKDTYALKGQNVTLECFALGNPVPQIKWRKVDGSMPSSAEISMSGA 53
>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 = 29.5 bits (66), Expect = 1.1
Identities = 17/68 (25%), Positives = 25/68 (36%), Gaps = 5/68 (7%)
Query: 66 GEPSVLQCEAKGEKPIGILWNMNNKR--LDPKSDNRYTIREEILPNGVLSDLSIKRTERG 123
G QCEA G I W + L + + R + G DL+I +R
Sbjct: 1 GRTVTFQCEATGNPQPAIFWQKEGSQNLLFSYQPPQSSSRFSVSQTG---DLTITNVQRS 57
Query: 124 DSALFTCE 131
D + C+
Sbjct: 58 DVGYYICQ 65
>gnl|CDD|223956 COG1025, Ptr, Secreted/periplasmic Zn-dependent peptidases,
insulinase-like [Posttranslational modification, protein
turnover, chaperones].
Length = 937
Score = 31.6 bits (72), Expect = 1.4
Identities = 8/51 (15%), Positives = 19/51 (37%), Gaps = 3/51 (5%)
Query: 362 CTTLTSQTIRVSWVSPPLITANGVIKGYKVVYGPSDTWYGDPKTDICTDIR 412
++ + P L++ + ++ Y D + +PK + IR
Sbjct: 487 PDDVSLIKSEKKFTFPQLLSED---PNLRLWYLKEDYFAVEPKASVSLAIR 534
>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 = 1.5
Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 187 ASFNDNFTATYT---EDIKLPCLTVGVPAPEIIWKTYHIRIVAENEIGSS 233
A N F TY +++ L C +G P P I W+ + A EI S
Sbjct: 2 ADINVKFKDTYALKGQNVTLECFALGNPVPVIRWRKILEPMPATAEISMS 51
>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 = 27.8 bits (62), Expect = 3.0
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 201 IKLPCLTVGVPAPEIIWK 218
++L C +P P+I WK
Sbjct: 1 VRLECRVSAIPPPQIFWK 18
Score = 27.8 bits (62), Expect = 3.0
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 523 IKLPCLTVGVPAPEIIWK 540
++L C +P P+I WK
Sbjct: 1 VRLECRVSAIPPPQIFWK 18
>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 = 28.1 bits (63), Expect = 3.2
Identities = 19/75 (25%), Positives = 28/75 (37%), Gaps = 6/75 (8%)
Query: 71 LQCEAKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLSIKRTERGDSALFTC 130
L+C A G I W + K K ++R + L ++ DS +TC
Sbjct: 14 LKCPASGNPRPTITWLKDGKPF--KKEHRIGGYKVRKKKWT---LILESVVPSDSGKYTC 68
Query: 131 EIKSQKISSQQMTYE 145
I K S TY+
Sbjct: 69 -IVENKYGSINHTYK 82
>gnl|CDD|119332 cd06562, GH20_HexA_HexB-like, Beta-N-acetylhexosaminidases catalyze
the removal of beta-1,4-linked N-acetyl-D-hexosamine
residues from the non-reducing ends of
N-acetyl-beta-D-hexosaminides including
N-acetylglucosides and N-acetylgalactosides. The hexA
and hexB genes encode the alpha- and beta-subunits of
the two major beta-N-acetylhexosaminidase isoenzymes,
N-acetyl-beta-D-hexosaminidase A (HexA) and
beta-N-acetylhexosaminidase B (HexB). Both the alpha
and the beta catalytic subunits have a TIM-barrel fold
and belong to the glycosyl hydrolase family 20 (GH20).
The HexA enzyme is a heterodimer containing one alpha
and one beta subunit while the HexB enzyme is a
homodimer containing two beta-subunits. Hexosaminidase
mutations cause an inability to properly hydrolyze
certain sphingolipids which accumulate in lysosomes
within the brain, resulting in the lipid storage
disorders Tay-Sachs and Sandhoff. Mutations in the
alpha subunit cause in a deficiency in the HexA enzyme
and result in Tay-Sachs, mutations in the beta-subunit
cause in a deficiency in both HexA and HexB enzymes and
result in Sandhoff disease. In both disorders GM(2)
gangliosides accumulate in lysosomes. The GH20
hexosaminidases are thought to act via a catalytic
mechanism in which the catalytic nucleophile is not
provided by solvent or the enzyme, but by the substrate
itself.
Length = 348
Score = 29.9 bits (68), Expect = 3.3
Identities = 11/38 (28%), Positives = 14/38 (36%), Gaps = 7/38 (18%)
Query: 428 KGYKVVYGPSDTWY---GHPGSFRNHCTWDPRGRNMYE 462
GYKV+ D WY G G W + Y+
Sbjct: 240 AGYKVILSSYDFWYLDCGFGGWVGPGNDW----CDPYK 273
Score = 28.7 bits (65), Expect = 8.5
Identities = 15/44 (34%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 359 DNTCTTLTSQTIRVSWVSPPLITANGVIKGYKVVYGPSDTWYGD 402
DN L TI W + N + GYKV+ D WY D
Sbjct: 213 DNGVYLLPKDTIVQVWGGSDEL-KNVLAAGYKVILSSYDFWYLD 255
>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 = 3.3
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 201 IKLPCLTVGVPAPEIIWK 218
++L C GVP P+I WK
Sbjct: 1 VRLECRVSGVPHPQIFWK 18
Score = 27.7 bits (61), Expect = 3.3
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 523 IKLPCLTVGVPAPEIIWK 540
++L C GVP P+I WK
Sbjct: 1 VRLECRVSGVPHPQIFWK 18
>gnl|CDD|222457 pfam13927, Ig_3, Immunoglobulin domain. This family contains
immunoglobulin-like domains.
Length = 74
Score = 27.3 bits (60), Expect = 4.1
Identities = 17/82 (20%), Positives = 23/82 (28%), Gaps = 12/82 (14%)
Query: 55 EIKLRNQTSRRGEPSV-LQCEAKG-EKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVL 112
I + S V L C A+G P I W N
Sbjct: 3 VITVSPSPSVTSGGGVTLTCSAEGGPPPPTISWYRNGSISGGSGG----------LGSSG 52
Query: 113 SDLSIKRTERGDSALFTCEIKS 134
S L++ DS +TC +
Sbjct: 53 STLTLSSVTSEDSGTYTCVASN 74
>gnl|CDD|143168 cd04967, Ig1_Contactin, First Ig domain of contactin.
Ig1_Contactin: First Ig domain of contactins. Contactins
are neural cell adhesion molecules and are comprised of
six Ig domains followed by four fibronectin type
III(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. The first four Ig domains
form the intermolecular binding fragment, which arranges
as a compact U-shaped module via contacts between Ig
domains 1 and 4, and between Ig domains 2 and 3.
Contactin-2 (TAG-1, axonin-1) may play a part in the
neuronal processes of neurite outgrowth, axon guidance
and fasciculation, and neuronal migration. This group
also includes contactin-1 and contactin-5. The different
contactins show different expression patterns in the
central nervous system. During development and in
adulthood, contactin-2 is transiently expressed in
subsets of central and peripheral neurons. Contactin-5
is expressed specifically in the rat postnatal nervous
system, peaking at about 3 weeks postnatal, and a lack
of contactin-5 (NB-2) results in an impairment of
neuronal activity in the rat auditory system.
Contactin-5 is highly expressed in the adult human brain
in the occipital lobe and in the amygdala. Contactin-1
is differentially expressed in tumor tissues and may,
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 91
Score = 27.8 bits (62), Expect = 4.1
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 71 LQCEAKGEKPIGILWNMNNKRLDPKSDNRYTI 102
L C A+G P W MN +D + D+RY++
Sbjct: 24 LNCRARGSPPPTYRWLMNGTEIDDEPDSRYSL 55
>gnl|CDD|143220 cd05743, Ig_Perlecan_D2_like, Immunoglobulin (Ig)-like domain II
(D2) of the human basement membrane heparan sulfate
proteoglycan perlecan, also known as HSPG2.
Ig_Perlecan_D2_like: the immunoglobulin (Ig)-like domain
II (D2) of the human basement membrane heparan sulfate
proteoglycan perlecan, also known as HSPG2. Perlecan
consists of five domains. Domain I has three putative
heparan sulfate attachment sites; domain II has four LDL
receptor-like repeats, and one Ig-like repeat; domain
III resembles the short arm of laminin chains; domain IV
has multiple Ig-like repeats (21 repeats in human
perlecan); and domain V resembles the globular G domain
of the laminin A chain and internal repeats of EGF.
Perlecan may participate in a variety of biological
functions including cell binding, LDL-metabolism,
basement membrane assembly and selective permeability,
calcium binding, and growth- and neurite-promoting
activities.
Length = 78
Score = 27.1 bits (60), Expect = 5.7
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 199 EDIKLPCLTVGVPAPEIIWKTY--HIRIVAENEIGSSEPSDTVTILTAEEAPSGPPT 253
E ++ C+ GVP P I W+ H+ A I S T+TI +E+ G T
Sbjct: 2 ETVEFTCVATGVPTPIINWRLNWGHVPDSARVSITSEGGYGTLTIRDVKESDQGAYT 58
>gnl|CDD|216086 pfam00728, Glyco_hydro_20, Glycosyl hydrolase family 20, catalytic
domain. This domain has a TIM barrel fold.
Length = 335
Score = 29.2 bits (66), Expect = 5.7
Identities = 13/42 (30%), Positives = 16/42 (38%)
Query: 363 TTLTSQTIRVSWVSPPLITANGVIKGYKVVYGPSDTWYGDPK 404
T L T SW + +GYKV+ P D Y D
Sbjct: 217 TLLPPDTTVQSWRNGGAQARQAANQGYKVILSPGDFLYLDHG 258
>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 = 26.7 bits (59), Expect = 7.0
Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 6/68 (8%)
Query: 70 VLQCEAKGEKP-IGILWNMNNKRLDPKSDNRYTIREEILPNGV-LSDLSIKRTERGDSAL 127
VL+CEA E P + W + K L+ K+ R + N S+L I + + DS
Sbjct: 2 VLKCEATSEYPSLRFKWFKDGKELNRKNK----PRNIKIRNKKKNSELQINKAKLADSGE 57
Query: 128 FTCEIKSQ 135
+TC +++
Sbjct: 58 YTCVVENI 65
>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 = 26.9 bits (59), Expect = 8.1
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 2/71 (2%)
Query: 182 VPARIASFNDNFTATYTEDIKLPCLTVGVPAPEIIW--KTYHIRIVAENEIGSSEPSDTV 239
+PA I + + T + E + C G PAP + W + I ++I S+E T
Sbjct: 2 LPATILTKPRSLTVSEGESARFSCDVDGEPAPTVTWMREGQIIVSSQRHQITSTEYKSTF 61
Query: 240 TILTAEEAPSG 250
I + + G
Sbjct: 62 EISKVQMSDEG 72
Score = 26.9 bits (59), Expect = 8.8
Identities = 11/36 (30%), Positives = 17/36 (47%)
Query: 504 VPARIASFNDNFTATYTEDIKLPCLTVGVPAPEIIW 539
+PA I + + T + E + C G PAP + W
Sbjct: 2 LPATILTKPRSLTVSEGESARFSCDVDGEPAPTVTW 37
>gnl|CDD|143306 cd05898, Ig5_KIRREL3, Fifth immunoglobulin (Ig)-like domain of
Kirrel (kin of irregular chiasm-like) 3 protein (also
known as Neph2). Ig5_KIRREL3: the fifth immunoglobulin
(Ig)-like domain of Kirrel (kin of irregular
chiasm-like) 3 protein (also known as Neph2). This
protein has five Ig-like domains, one transmembrane
domain, and a cytoplasmic tail. Included in this group
is mammalian Kirrel (Neph1). These proteins contain
multiple Ig domains, have properties of cell adhesion
molecules, and are important in organ development. Neph1
and 2 may mediate axonal guidance and synapse formation
in certain areas of the CNS. In the kidney, they
participate in the formation of the slit diaphragm.
Length = 98
Score = 26.8 bits (59), Expect = 9.6
Identities = 19/65 (29%), Positives = 27/65 (41%), Gaps = 1/65 (1%)
Query: 61 QTSRRGEPSVLQCE-AKGEKPIGILWNMNNKRLDPKSDNRYTIREEILPNGVLSDLSIKR 119
Q + RGE ++C P I W L+ + RYT+ +GVLS L+I
Sbjct: 11 QYAVRGERGKVKCFIGSTPPPDRIAWAWKENVLESGTSERYTVERTSTGSGVLSTLTINN 70
Query: 120 TERGD 124
D
Sbjct: 71 IMEAD 75
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 0.134 0.413
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: 27,875,289
Number of extensions: 2667948
Number of successful extensions: 1518
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1504
Number of HSP's successfully gapped: 71
Length of query: 543
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 441
Effective length of database: 6,413,494
Effective search space: 2828350854
Effective search space used: 2828350854
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 (22.0 bits)
S2: 61 (27.5 bits)