RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12044
(767 letters)
>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat.
Length = 60
Score = 64.5 bits (158), Expect = 3e-13
Identities = 27/60 (45%), Positives = 36/60 (60%)
Query: 76 NLQKIYLSRCRISVIDSKAFRGLTNLVDLDFSHNVLQTVPSDTFPDYPSLMKLTLSGNPI 135
NL+ + LS R++VI AF+GL NL LD S N L ++ + F PSL L LSGN +
Sbjct: 1 NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60
Score = 63.3 bits (155), Expect = 8e-13
Identities = 24/60 (40%), Positives = 30/60 (50%)
Query: 124 SLMKLTLSGNPIKQIKTGAFQPLSYLVTLELSKCGIEVIEDAAFVGLDSLEWLKLDNNKI 183
+L L LS N + I GAF+ L L L+LS + I AF GL SL L L N +
Sbjct: 1 NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60
Score = 57.9 bits (141), Expect = 7e-11
Identities = 23/62 (37%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 50 NTQVLDYTGNNLKTLHNEKFQKMGLVNLQKIYLSRCRISVIDSKAFRGLTNLVDLDFSHN 109
N + LD + N L + + F+ GL NL+ + LS ++ I +AF GL +L LD S N
Sbjct: 1 NLKSLDLSNNRLTVIPDGAFK--GLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGN 58
Query: 110 VL 111
L
Sbjct: 59 NL 60
Score = 49.1 bits (118), Expect = 8e-08
Identities = 23/63 (36%), Positives = 31/63 (49%), Gaps = 11/63 (17%)
Query: 149 LVTLELSKCGIEVIEDAAFVGLDSLEWLKLDNNKITTISGSNILPTGLHG------IDLH 202
L +L+LS + VI D AF GL +L+ L L N +T+IS P G +DL
Sbjct: 2 LKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSIS-----PEAFSGLPSLRSLDLS 56
Query: 203 HNP 205
N
Sbjct: 57 GNN 59
Score = 37.5 bits (88), Expect = 0.001
Identities = 19/57 (33%), Positives = 33/57 (57%), Gaps = 8/57 (14%)
Query: 36 VNKSLITVVE-----GMDPNTQVLDYTGNNLKTLHNEKFQKMGLVNLQKIYLSRCRI 87
++ + +TV+ G+ PN +VLD +GNNL ++ E F GL +L+ + LS +
Sbjct: 7 LSNNRLTVIPDGAFKGL-PNLKVLDLSGNNLTSISPEAFS--GLPSLRSLDLSGNNL 60
>gnl|CDD|191810 pfam07679, I-set, Immunoglobulin I-set domain.
Length = 90
Score = 62.3 bits (152), Expect = 4e-12
Identities = 27/85 (31%), Positives = 40/85 (47%), Gaps = 10/85 (11%)
Query: 264 LEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELL 323
+E+QEG++ C V+ P+ ++W DG P++ S + E GT L
Sbjct: 10 VEVQEGESARFTCTVTGDPDPTVSWFKDGQPLR------SSDRFKVTYEGGT----YTLT 59
Query: 324 IYNSNIDDNGTFVCVAENQAGSTSS 348
I N DD G + CVA N AG +
Sbjct: 60 ISNVQPDDEGKYTCVATNSAGEAEA 84
>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 = 57.1 bits (137), Expect = 2e-10
Identities = 29/80 (36%), Positives = 40/80 (50%), Gaps = 6/80 (7%)
Query: 272 VSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNIDD 331
V+L C S P ITWL +G P+ S + GT S L I N ++D
Sbjct: 1 VTLTCLASGPPPPTITWLKNGKPLP------SSVLTRVRSSRGTSSGSSTLTISNVTLED 54
Query: 332 NGTFVCVAENQAGSTSSNYT 351
+GT+ CVA N AG+ S++ T
Sbjct: 55 SGTYTCVASNSAGTVSASVT 74
>gnl|CDD|197706 smart00408, IGc2, Immunoglobulin C-2 Type.
Length = 63
Score = 56.3 bits (136), Expect = 3e-10
Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 14/77 (18%)
Query: 268 EGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNS 327
EG++V+L C P ITWL DG P+ + S L I +
Sbjct: 1 EGQSVTLTCPAEGNPVPNITWLKDGKPLPESN--------------RFVASGSTLTIKSV 46
Query: 328 NIDDNGTFVCVAENQAG 344
+++D+G + CVAEN AG
Sbjct: 47 SLEDSGLYTCVAENSAG 63
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 53.7 bits (129), Expect = 4e-09
Identities = 28/93 (30%), Positives = 46/93 (49%), Gaps = 13/93 (13%)
Query: 264 LEIQEGKNVSLLCKVSAIPEAKITWLFDG--VPIQNESMSASESHAVYSTEEGTEIKKSE 321
+ ++EG++V+L C+ S P ++TW G + ++ S S S S
Sbjct: 4 VTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLAESGRFSVSRSG-----------STST 52
Query: 322 LLIYNSNIDDNGTFVCVAENQAGSTSSNYTIRI 354
L I N +D+GT+ C A N +GS SS T+ +
Sbjct: 53 LTISNVTPEDSGTYTCAATNSSGSASSGTTLTV 85
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 53.7 bits (129), Expect = 4e-09
Identities = 28/93 (30%), Positives = 46/93 (49%), Gaps = 13/93 (13%)
Query: 264 LEIQEGKNVSLLCKVSAIPEAKITWLFDG--VPIQNESMSASESHAVYSTEEGTEIKKSE 321
+ ++EG++V+L C+ S P ++TW G + ++ S S S S
Sbjct: 4 VTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLAESGRFSVSRSG-----------STST 52
Query: 322 LLIYNSNIDDNGTFVCVAENQAGSTSSNYTIRI 354
L I N +D+GT+ C A N +GS SS T+ +
Sbjct: 53 LTISNVTPEDSGTYTCAATNSSGSASSGTTLTV 85
>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 = 52.2 bits (125), Expect = 2e-08
Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 11/89 (12%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
G++V+L C PE +TW DG PI++ YS E SE+ I + +
Sbjct: 18 GQSVTLACDADGFPEPTMTWTKDGEPIESGEEK-------YSFNE----DGSEMTILDVD 66
Query: 329 IDDNGTFVCVAENQAGSTSSNYTIRIVLK 357
D + C+AEN+AG + +++ K
Sbjct: 67 KLDEAEYTCIAENKAGEQEAEIHLKVFAK 95
>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function
unknown].
Length = 394
Score = 55.0 bits (132), Expect = 7e-08
Identities = 37/177 (20%), Positives = 71/177 (40%), Gaps = 3/177 (1%)
Query: 30 KQTVECVNKSLITVVEGMDPNTQVLDYTGNNLKTLHNEKFQKMGLVNLQKIYLSRCRISV 89
+ ++ + + ++ LD + + + + L+ L + L+ R+
Sbjct: 48 NRLALNLSSNTLLLLPSSLSRLLSLDLLSPSGISSLDGSENLLNLLPLPSLDLNLNRLRS 107
Query: 90 IDSKAFRGLTNLVDLDFSHNVLQTVPSDTFPDYPSLMKLTLSGNPIKQIKTGAFQPLSYL 149
S+ LTNL LD +N + +P +L +L LS N I+ + + + L
Sbjct: 108 NISELLE-LTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPN-L 165
Query: 150 VTLELSKCGIEVIEDAAFVGLDSLEWLKLDNNKITTISGSNILPTGLHGIDLHHNPW 206
L+LS + + L +L L L NKI+ + L + L +DL +N
Sbjct: 166 KNLDLSFNDLSDLPKLLS-NLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSI 221
Score = 29.6 bits (66), Expect = 7.1
Identities = 26/87 (29%), Positives = 40/87 (45%), Gaps = 7/87 (8%)
Query: 31 QTVECVNKSLITVVEGMD--PNTQVLDYTGNNLKTLHNEKFQKMGLVNLQKIYLSRCRIS 88
+ ++ N S+I ++ + N L+ + N L+ L L NL+ + LS +IS
Sbjct: 212 EELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPE---SIGNLSNLETLDLSNNQIS 268
Query: 89 VIDSKAFRGLTNLVDLDFSHNVLQTVP 115
I S LTNL +LD S N L
Sbjct: 269 SISS--LGSLTNLRELDLSGNSLSNAL 293
Score = 29.2 bits (65), Expect = 9.2
Identities = 20/84 (23%), Positives = 35/84 (41%), Gaps = 1/84 (1%)
Query: 124 SLMKLTLSGNPIKQIKTGAFQPLSYLVTLELSKCGIEVIEDAAFVGLDSLEWLKLDNNKI 183
L L L+ N ++ + L+ L +L+L I I + +L+ L L +NKI
Sbjct: 94 PLPSLDLNLNRLRSNISELL-ELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKI 152
Query: 184 TTISGSNILPTGLHGIDLHHNPWT 207
++ L +DL N +
Sbjct: 153 ESLPSPLRNLPNLKNLDLSFNDLS 176
>gnl|CDD|143236 cd05759, Ig2_KIRREL3-like, Second immunoglobulin (Ig)-like domain
of Kirrel (kin of irregular chiasm-like) 3 (also known
as Neph2). Ig2_KIRREL3-like: domain similar to the
second 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 = 82
Score = 46.7 bits (111), Expect = 1e-06
Identities = 26/75 (34%), Positives = 32/75 (42%), Gaps = 14/75 (18%)
Query: 274 LLCKVS-AIPEAKITWLFDGVPIQNESMSASESHAVYSTE---EGT-EIKKSELLIYNSN 328
L C+ A P A+I W DG + A YS E +G E S L I S+
Sbjct: 4 LTCRARGAKPAAEIIWFRDGEVLDG---------ATYSKELLKDGKRETTVSTLPITPSD 54
Query: 329 IDDNGTFVCVAENQA 343
D TF C A N+A
Sbjct: 55 HDTGRTFTCRARNEA 69
>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 = 46.7 bits (111), Expect = 1e-06
Identities = 26/92 (28%), Positives = 42/92 (45%), Gaps = 9/92 (9%)
Query: 256 QITPSTFYLEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGT 315
Q+ EI G++ LC+V P+ I+W E + + +V ++
Sbjct: 2 QVDIVPSQGEISVGESKFFLCQVIGEPK-DISW----FSPNGEKLVTQQQISVVQNDDVR 56
Query: 316 EIKKSELLIYNSNIDDNGTFVCVAENQAGSTS 347
S L IYN+NI+D G + CVA + G+ S
Sbjct: 57 ----STLTIYNANIEDAGIYKCVATDAKGTES 84
>gnl|CDD|206066 pfam13895, Ig_2, Immunoglobulin domain. This domain contains
immunoglobulin-like domains.
Length = 80
Score = 45.5 bits (108), Expect = 3e-06
Identities = 29/97 (29%), Positives = 42/97 (43%), Gaps = 22/97 (22%)
Query: 254 EPQITPSTFYLEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEE 313
+P +TPS + EG++V+L C P TW DGVP+ S S
Sbjct: 1 KPVLTPS--PTVVFEGEDVTLTCSAPGNPPPNYTWYKDGVPL-------SSSQ------- 44
Query: 314 GTEIKKSELLIYNSNIDDNGTFVCVAENQAGSTSSNY 350
+ N + +D+GT+ CVA N G +SN
Sbjct: 45 ------NGFFTPNVSAEDSGTYTCVASNGGGGKTSNP 75
>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 = 45.5 bits (108), Expect = 4e-06
Identities = 25/88 (28%), Positives = 40/88 (45%), Gaps = 13/88 (14%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSE--LLIYN 326
G V L C S P ITWL DG P + E G +++K + L++ +
Sbjct: 9 GSTVRLKCPASGNPRPTITWLKDGKPFKKE-----------HRIGGYKVRKKKWTLILES 57
Query: 327 SNIDDNGTFVCVAENQAGSTSSNYTIRI 354
D+G + C+ EN+ GS + Y + +
Sbjct: 58 VVPSDSGKYTCIVENKYGSINHTYKVDV 85
>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 = 44.5 bits (105), Expect = 7e-06
Identities = 23/97 (23%), Positives = 43/97 (44%), Gaps = 16/97 (16%)
Query: 258 TPSTFYLEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEI 317
S +I G ++ CK S P WL +G P+ ++E E+
Sbjct: 5 VISDTEADI--GSSLRWECKASGNPRPAYRWLKNGQPL--------------ASENRIEV 48
Query: 318 KKSELLIYNSNIDDNGTFVCVAENQAGSTSSNYTIRI 354
+ +L I ++ D+G + CVAEN+ G+ ++ + +
Sbjct: 49 EAGDLRITKLSLSDSGMYQCVAENKHGTIYASAELAV 85
>gnl|CDD|143242 cd05765, Ig_3, Subgroup of the immunoglobulin (Ig) superfamily.
Ig_3: subgroup of the immunoglobulin (Ig) domain found
in the Ig superfamily. The Ig superfamily is a
heterogenous group of proteins, built on a common fold
comprised of a sandwich of two beta sheets. Members of
the Ig superfamily are components of immunoglobulin,
neuroglia, cell surface glycoproteins, such as T-cell
receptors, CD2, CD4, CD8, and membrane glycoproteins,
such as butyrophilin and chondroitin sulfate
proteoglycan core protein. A predominant feature of most
Ig domains is a disulfide bridge connecting the two
beta-sheets with a tryptophan residue packed against the
disulfide bond.
Length = 81
Score = 43.7 bits (103), Expect = 1e-05
Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
G+ S C V+ P +ITW + E++ +H V T I +L+IYN+
Sbjct: 1 GETASFHCDVTGRPPPEITW--EKQVHGKENLIMRPNH-VRGNVVVTNI--GQLVIYNAQ 55
Query: 329 IDDNGTFVCVAENQAGSTSSNYTIRI 354
D G + C A N G +N+ + +
Sbjct: 56 PQDAGLYTCTARNSGGLLRANFPLSV 81
>gnl|CDD|143223 cd05746, Ig4_Peroxidasin, Fourth immunoglobulin (Ig)-like domain of
peroxidasin. Ig4_Peroxidasin: the fourth immunoglobulin
(Ig)-like domain in peroxidasin. Peroxidasin has a
peroxidase domain and interacting extracellular motifs
containing four Ig-like domains. It has been suggested
that peroxidasin is secreted, and has functions related
to the stabilization of the extracellular matrix. It may
play a part in various other important processes such as
removal and destruction of cells, which have undergone
programmed cell death, and protection of the organism
against non-self.
Length = 69
Score = 42.2 bits (99), Expect = 3e-05
Identities = 24/77 (31%), Positives = 32/77 (41%), Gaps = 13/77 (16%)
Query: 272 VSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNIDD 331
V + C PE ITW DGV + +ES + + EG L I + + D
Sbjct: 1 VQIPCSAQGDPEPTITWNKDGVQV-------TESGKFHISPEGY------LAIRDVGVAD 47
Query: 332 NGTFVCVAENQAGSTSS 348
G + CVA N G S
Sbjct: 48 QGRYECVARNTIGYASV 64
>gnl|CDD|205486 pfam13306, LRR_5, Leucine rich repeats (6 copies). This family
includes a number of leucine rich repeats. This family
contains a large number of BSPA-like surface antigens
from Trichomonas vaginalis.
Length = 128
Score = 42.5 bits (101), Expect = 9e-05
Identities = 27/112 (24%), Positives = 51/112 (45%), Gaps = 6/112 (5%)
Query: 76 NLQKIYLSRCRISVIDSKAFRGLTNLVDLDFSHNVLQTVPSDTFPDYPSLMKLTLSGNPI 135
+L I + ++ I AF G T+L + + L ++ S F + SL +T+ + +
Sbjct: 12 SLTSITIPS-SVTSIGEYAFSGCTSLKSITLPSS-LTSIGSYAFYNCSSLTSITIPSS-L 68
Query: 136 KQIKTGAFQPLSYLVTLELSKCGIEVIEDAAFVGLDSLEWLKLDNNKITTIS 187
I AF S L ++ + + I AF SL+ + + ++ +TTI
Sbjct: 69 TSIGEYAFSNCSSLTSITIPS-NLTTIGSYAFSNC-SLKSITIPSS-VTTIG 117
>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 = 40.6 bits (96), Expect = 1e-04
Identities = 20/84 (23%), Positives = 37/84 (44%), Gaps = 10/84 (11%)
Query: 271 NVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNID 330
+V L +S P +TW DG P++ E+ A ++ L+I N+
Sbjct: 1 SVRLEVPISGRPTPTVTWSKDGKPLKLSGRVQIETTASSTS----------LVIKNAERS 50
Query: 331 DNGTFVCVAENQAGSTSSNYTIRI 354
D+G + +N AG S+ +++
Sbjct: 51 DSGKYTLTLKNPAGEKSATINVKV 74
>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 = 40.8 bits (96), Expect = 2e-04
Identities = 18/70 (25%), Positives = 26/70 (37%), Gaps = 12/70 (17%)
Query: 281 IPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNIDDNGTFVCVAE 340
PE ++W DG P+ ++ + LLI + D GT+ CVA
Sbjct: 24 HPEPTVSWRKDGQPLNLDNERV------------RIVDDGNLLIAEARKSDEGTYKCVAT 71
Query: 341 NQAGSTSSNY 350
N G S
Sbjct: 72 NMVGERESAA 81
>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 = 40.4 bits (94), Expect = 2e-04
Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 10/89 (11%)
Query: 264 LEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELL 323
L + EG++ C V P +TW+ +G I +S+ H + STE KS
Sbjct: 13 LTVSEGESARFSCDVDGEPAPTVTWMREGQII-----VSSQRHQITSTE-----YKSTFE 62
Query: 324 IYNSNIDDNGTFVCVAENQAGSTSSNYTI 352
I + D G + V EN G + +T+
Sbjct: 63 ISKVQMSDEGNYTVVVENSEGKQEAQFTL 91
>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 = 39.8 bits (93), Expect = 4e-04
Identities = 24/89 (26%), Positives = 44/89 (49%), Gaps = 9/89 (10%)
Query: 266 IQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIY 325
I EGK ++L C V P+ +++WL +N+ A H E+G K + L I
Sbjct: 13 IMEGKTLNLTCTVFGDPDPEVSWL------KNDQALALSDHYNVKVEQG---KYASLTIK 63
Query: 326 NSNIDDNGTFVCVAENQAGSTSSNYTIRI 354
+ +D+G + V +N+ G + + T+ +
Sbjct: 64 GVSSEDSGKYGIVVKNKYGGETVDVTVSV 92
>gnl|CDD|143179 cd04978, Ig4_L1-NrCAM_like, Fourth immunoglobulin (Ig)-like domain
of L1, Ng-CAM (Neuron-glia CAM cell adhesion molecule),
and NrCAM (Ng-CAM-related). Ig4_L1-NrCAM_like: fourth
immunoglobulin (Ig)-like domain of L1, Ng-CAM
(Neuron-glia CAM cell adhesion molecule), and NrCAM
(Ng-CAM-related). These proteins belong to the L1
subfamily of cell adhesion molecules (CAMs) and are
comprised of an extracellular region having six Ig-like
domains and five fibronectin type III domains, a
transmembrane region and an intracellular domain. These
molecules are primarily expressed in the nervous system.
L1 is associated with an X-linked recessive disorder,
X-linked hydrocephalus, MASA syndrome, or spastic
paraplegia type 1, that involves abnormalities of axonal
growth.
Length = 76
Score = 39.3 bits (92), Expect = 4e-04
Identities = 19/76 (25%), Positives = 30/76 (39%), Gaps = 11/76 (14%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
G+ L C+ IP+ ITW +GVPI+ + + L++ N
Sbjct: 1 GETGRLDCEAEGIPQPTITWRLNGVPIEEL-----------PPDPRRRVDGGTLILSNVQ 49
Query: 329 IDDNGTFVCVAENQAG 344
+D + C A N G
Sbjct: 50 PNDTAVYQCNASNVHG 65
>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 = 39.8 bits (93), Expect = 4e-04
Identities = 18/83 (21%), Positives = 32/83 (38%), Gaps = 12/83 (14%)
Query: 266 IQEGKNVSLLCKVSAIPEAKITWLFDG-VPIQNESMSASESHAVYSTEEGTEIKKSELLI 324
+ EG ++ C P K+ W+ G + IQ + + + +Y+ L +
Sbjct: 12 VYEGGTATIRCTAEGSPLPKVEWIIAGLIVIQTRTDTLETTVDIYN-----------LQL 60
Query: 325 YNSNIDDNGTFVCVAENQAGSTS 347
N + T C AEN G +
Sbjct: 61 SNITSETQTTVTCTAENPVGQAN 83
>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 = 38.7 bits (90), Expect = 5e-04
Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 9/71 (12%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
G +V+L C VS P+ +TW +G ++ ES V + E + L I N
Sbjct: 1 GSSVTLTCSVSGPPQVDVTWFKEGKGLE-------ESTTVGTDE--NRVSSITLTISNVT 51
Query: 329 IDDNGTFVCVA 339
+D+GT+ CV
Sbjct: 52 PEDSGTYTCVV 62
>gnl|CDD|143241 cd05764, Ig_2, Subgroup of the immunoglobulin (Ig) superfamily.
Ig_2: subgroup of the immunoglobulin (Ig) domain found
in the Ig superfamily. The Ig superfamily is a
heterogenous group of proteins, built on a common fold
comprised of a sandwich of two beta sheets. Members of
the Ig superfamily are components of immunoglobulin,
neuroglia, cell surface glycoproteins, such as T-cell
receptors, CD2, CD4, CD8, and membrane glycoproteins,
such as butyrophilin and chondroitin sulfate
proteoglycan core protein. A predominant feature of most
Ig domains is a disulfide bridge connecting the two
beta-sheets with a tryptophan residue packed against the
disulfide bond.
Length = 74
Score = 38.6 bits (90), Expect = 7e-04
Identities = 28/87 (32%), Positives = 40/87 (45%), Gaps = 14/87 (16%)
Query: 269 GKNVSLLCKVSAIPEAKITWLF-DGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNS 327
G+ +L CK PE I W+ DG I N S + VY + GT L I +
Sbjct: 1 GQRATLRCKARGDPEPAIHWISPDGKLISNSSRTL-----VY--DNGT------LDILIT 47
Query: 328 NIDDNGTFVCVAENQAGSTSSNYTIRI 354
+ D G+F C+A N AG ++ + I
Sbjct: 48 TVKDTGSFTCIASNAAGEATATVELHI 74
>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 = 38.2 bits (89), Expect = 8e-04
Identities = 27/79 (34%), Positives = 40/79 (50%), Gaps = 10/79 (12%)
Query: 272 VSLLCKVSAIPEAKITWLFDGVPIQNESMSASESH-AVYSTEEGTEIKKSELLIYNSNID 330
V L C+VSAIP +I W + NE ++ + ++Y G + LLI N+N +
Sbjct: 1 VRLECRVSAIPPPQIFWKKN-----NEMLTYNTDRISLYQDNCG----RICLLIQNANKE 51
Query: 331 DNGTFVCVAENQAGSTSSN 349
D G + A N+AG S N
Sbjct: 52 DAGWYTVSAVNEAGVVSCN 70
>gnl|CDD|219745 pfam08205, C2-set_2, CD80-like C2-set immunoglobulin domain. These
domains belong to the immunoglobulin superfamily.
Length = 89
Score = 38.9 bits (91), Expect = 8e-04
Identities = 22/95 (23%), Positives = 29/95 (30%), Gaps = 7/95 (7%)
Query: 255 PQITPSTFYLEIQEGKNVSLLCKVS-AIPEAKITWLFDGVPIQNESMSASESHAVYSTEE 313
P I P L E V C + P +ITW DG + A + + E
Sbjct: 1 PTIEPPV-SLLEGENLEVVATCSSAGGKPAPRITWYLDGRE-----LEAITTSSEQDPES 54
Query: 314 GTEIKKSELLIYNSNIDDNGTFVCVAENQAGSTSS 348
G S L + S D + C A
Sbjct: 55 GLYTVTSTLKLVPSREDHGRSLTCQVSYGALRGQK 89
>gnl|CDD|143215 cd05738, Ig2_RPTP_IIa_LAR_like, Second immunoglobulin (Ig)-like
domain of the receptor protein tyrosine phosphatase
(RPTP)-F, also known as LAR. Ig2_RPTP_IIa_LAR_like:
domain similar to the second immunoglobulin (Ig)-like
domain found in the receptor protein tyrosine
phosphatase (RPTP)-F, also known as LAR. LAR belongs to
the RPTP type IIa subfamily. Members of this subfamily
are cell adhesion molecule-like proteins involved in
central nervous system (CNS) development. They have
large extracellular portions, comprised of multiple
Ig-like domains and two to nine fibronectin type III
(FNIII) domains, and a cytoplasmic portion having two
tandem phosphatase domains.
Length = 74
Score = 38.1 bits (88), Expect = 0.001
Identities = 25/79 (31%), Positives = 34/79 (43%), Gaps = 17/79 (21%)
Query: 273 SLLCKVSAIPEAKITWLFDGVPIQ---NESMSASESHAVYSTEEGTEIKKSELLIYNSNI 329
++LC S P+ +ITW D +P+ N + S A L I NS
Sbjct: 2 TMLCAASGNPDPEITWFKDFLPVDTTSNGRIKQLRSGA--------------LQIENSEE 47
Query: 330 DDNGTFVCVAENQAGSTSS 348
D G + CVA N AG+ S
Sbjct: 48 SDQGKYECVATNSAGTRYS 66
>gnl|CDD|238064 cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribonuclease
inhibitor (RI)-like subfamily. LRRs are 20-29 residue
sequence motifs present in many proteins that
participate in protein-protein interactions and have
different functions and cellular locations. LRRs
correspond to structural units consisting of a beta
strand (LxxLxLxxN/CxL conserved pattern) and an alpha
helix. This alignment contains 12 strands corresponding
to 11 full repeats, consistent with the extent observed
in the subfamily acting as Ran GTPase Activating
Proteins (RanGAP1).
Length = 319
Score = 41.6 bits (98), Expect = 0.001
Identities = 34/153 (22%), Positives = 51/153 (33%), Gaps = 29/153 (18%)
Query: 60 NLKTLHNEKFQKMGL-----------VNLQKIYLSRCRISVID----SKAFRGLTNLVDL 104
LK L+N GL L+K+ L R R+ +KA R +L +L
Sbjct: 112 ELK-LNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKEL 170
Query: 105 DFSHNVLQ----TVPSDTFPDYPSLMKLTLSGNPIK----QIKTGAFQPLSYLVTLELSK 156
+ ++N + ++ +L L L+ N + L L L L
Sbjct: 171 NLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGD 230
Query: 157 C-----GIEVIEDAAFVGLDSLEWLKLDNNKIT 184
G + A SL L L N IT
Sbjct: 231 NNLTDAGAAALASALLSPNISLLTLSLSCNDIT 263
>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 = 37.8 bits (88), Expect = 0.001
Identities = 22/80 (27%), Positives = 32/80 (40%), Gaps = 13/80 (16%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
G +V + CK A P+ I+W + N S + +G+ L I N
Sbjct: 1 GGDVIIECKPKAAPKPTISWSKGTELLTNSS-------RICIWPDGS------LEILNVT 47
Query: 329 IDDNGTFVCVAENQAGSTSS 348
D G + C AEN G +S
Sbjct: 48 KSDEGKYTCFAENFFGKANS 67
>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 = 38.5 bits (89), Expect = 0.001
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 265 EIQEGKNVSLLCKVSAIPEAK-ITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELL 323
EI G++ LC+V+ + K I+W P + + +V ++ + S L
Sbjct: 11 EISVGESKFFLCQVAGEAKDKDISWF---SPNGEKLTPNQQRISVVRNDDYS----STLT 63
Query: 324 IYNSNIDDNGTFVCVAENQAGSTS 347
IYN+NIDD G + CV N+ S
Sbjct: 64 IYNANIDDAGIYKCVVSNEDEGES 87
>gnl|CDD|143171 cd04970, Ig6_Contactin_like, Sixth Ig domain of contactin.
Ig6_Contactin_like: Sixth 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 neur
onal 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 = 85
Score = 38.2 bits (89), Expect = 0.001
Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 8/86 (9%)
Query: 271 NVSLLCKVSAIPEAKIT--WLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
+++L C S P +T W F+GVPI H Y G + +L+I N+
Sbjct: 2 SITLQCHASHDPTLDLTFTWSFNGVPI---DFDKDGGH--YRRVGGKD-SNGDLMIRNAQ 55
Query: 329 IDDNGTFVCVAENQAGSTSSNYTIRI 354
+ G + C A+ S S++ + +
Sbjct: 56 LKHAGKYTCTAQTVVDSLSASADLIV 81
>gnl|CDD|214507 smart00082, LRRCT, Leucine rich repeat C-terminal domain.
Length = 51
Score = 37.0 bits (86), Expect = 0.001
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 204 NPWTCDCLLIGLRRWLESTK-TPMAIDPICSVPPRLSSVTIKQLSIDELAC 253
NP+ CDC L L RWL++ + +D C+ P L + +L E C
Sbjct: 1 NPFICDCELRWLLRWLQANEHLQDPVDLRCASPSSLRGP-LLELLHSEFKC 50
>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 = 37.8 bits (88), Expect = 0.002
Identities = 27/90 (30%), Positives = 37/90 (41%), Gaps = 13/90 (14%)
Query: 260 STFYLEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKK 319
T + E + VSL C+ P WL +G I +E +S YS G
Sbjct: 10 DTIFPEESDEGKVSLNCRARGSPPPTYRWLMNGTEIDDE----PDSR--YSLVGGN---- 59
Query: 320 SELLIYN-SNIDDNGTFVCVAENQAGSTSS 348
L+I N S D G + C+A N G+ S
Sbjct: 60 --LVISNPSKAKDAGRYQCLASNIVGTVLS 87
>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 = 38.1 bits (88), Expect = 0.002
Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 10/91 (10%)
Query: 256 QITPSTFYLEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGT 315
Q++ S +E+ G++ C PE I W Q E + +S+ V +EG
Sbjct: 2 QVSISLSKVELSVGESKFFTCTAIGEPE-SIDWYNP----QGEKIVSSQRVVVQ--KEGV 54
Query: 316 EIKKSELLIYNSNIDDNGTFVCVAENQAGST 346
+S L IYN+NI+D G + C A + G T
Sbjct: 55 ---RSRLTIYNANIEDAGIYRCQATDAKGQT 82
>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 = 37.6 bits (87), Expect = 0.002
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 9/82 (10%)
Query: 274 LLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNIDDNG 333
L C + P +I W DG + +A E E+ I + I+D G
Sbjct: 3 LECAATGHPTPQIAWQKDG---GTDFPAARERRMHVMPED------DVFFIVDVKIEDTG 53
Query: 334 TFVCVAENQAGSTSSNYTIRIV 355
+ C A+N AGS S+N T+ ++
Sbjct: 54 VYSCTAQNTAGSISANATLTVL 75
>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 = 37.2 bits (86), Expect = 0.002
Identities = 20/87 (22%), Positives = 34/87 (39%), Gaps = 11/87 (12%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
G+ L C+V IP ITW +G PI + + L++ +
Sbjct: 1 GETARLDCQVEGIPTPNITWSINGAPI-----------EGTDPDPRRHVSSGALILTDVQ 49
Query: 329 IDDNGTFVCVAENQAGSTSSNYTIRIV 355
D + C A N+ G+ +N + +V
Sbjct: 50 PSDTAVYQCEARNRHGNLLANAHVHVV 76
>gnl|CDD|205079 pfam12799, LRR_4, Leucine Rich repeats (2 copies). Leucine rich
repeats are short sequence motifs present in a number of
proteins with diverse functions and cellular locations.
These repeats are usually involved in protein-protein
interactions. Each Leucine Rich Repeat is composed of a
beta-alpha unit. These units form elongated non-globular
structures. Leucine Rich Repeats are often flanked by
cysteine rich domains.
Length = 43
Score = 35.9 bits (84), Expect = 0.003
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 76 NLQKIYLSRCRISVIDSKAFRGLTNLVDLDFSHNVLQTVPS 116
NL+ + LS +I+ + L NL LD S N + +
Sbjct: 2 NLETLDLSNNQITDLP--PLSNLPNLETLDLSGNKITDLSP 40
Score = 34.0 bits (79), Expect = 0.011
Identities = 16/40 (40%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 149 LVTLELSKCGIEVIEDAAFVGLDSLEWLKLDNNKITTISG 188
L TL+LS I + L +LE L L NKIT +S
Sbjct: 3 LETLDLSNNQITDLP--PLSNLPNLETLDLSGNKITDLSP 40
Score = 32.8 bits (76), Expect = 0.031
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 99 TNLVDLDFSHNVLQTVPSDTFPDYPSLMKLTLSGNPIKQIK 139
TNL LD S+N + +P + P+L L LSGN I +
Sbjct: 1 TNLETLDLSNNQITDLPP--LSNLPNLETLDLSGNKITDLS 39
Score = 27.5 bits (62), Expect = 3.0
Identities = 10/41 (24%), Positives = 18/41 (43%), Gaps = 4/41 (9%)
Query: 52 QVLDYTGNNLKTLHNEKFQKMGLVNLQKIYLSRCRISVIDS 92
+ LD + N + L L NL+ + LS +I+ +
Sbjct: 4 ETLDLSNNQITDLPPLS----NLPNLETLDLSGNKITDLSP 40
>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 = 36.8 bits (85), Expect = 0.003
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 10/74 (13%)
Query: 273 SLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNIDDN 332
SL C IP ++TWL +G+ I + S + SEL I N +D
Sbjct: 2 SLRCHAEGIPLPRLTWLKNGMDITPK----------LSKQLTLIANGSELHISNVRYEDT 51
Query: 333 GTFVCVAENQAGST 346
G + C+A+N+AG
Sbjct: 52 GAYTCIAKNEAGVD 65
>gnl|CDD|143264 cd05856, Ig2_FGFRL1-like, Second immunoglobulin (Ig)-like domain of
fibroblast growth factor (FGF) receptor_like-1(FGFRL1).
Ig2_FGFRL1-like: second immunoglobulin (Ig)-like domain
of fibroblast growth factor (FGF)
receptor_like-1(FGFRL1). FGFRL1 is comprised of a signal
peptide, three extracellular Ig-like modules, a
transmembrane segment, and a short intracellular domain.
FGFRL1 is expressed preferentially in skeletal tissues.
Similar to FGF receptors, the expressed protein
interacts specifically with heparin and with FGF2.
FGFRL1 does not have a protein tyrosine kinase domain at
its C terminus; neither does its cytoplasmic domain
appear to interact with a signaling partner. It has been
suggested that FGFRL1 may not have any direct signaling
function, but instead acts as a decoy receptor trapping
FGFs and preventing them from binding other receptors.
Length = 82
Score = 37.1 bits (86), Expect = 0.003
Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 16/88 (18%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
G +V L C S P ITWL D P+ + E E +K + + N
Sbjct: 9 GSSVRLKCVASGNPRPDITWLKDNKPL--------------TPTEIGESRKKKWTLSLKN 54
Query: 329 I--DDNGTFVCVAENQAGSTSSNYTIRI 354
+ +D+G + C N+AG ++ Y + +
Sbjct: 55 LKPEDSGKYTCHVSNRAGEINATYKVDV 82
>gnl|CDD|143237 cd05760, Ig2_PTK7, Second immunoglobulin (Ig)-like domain of
protein tyrosine kinase (PTK) 7, also known as CCK4.
Ig2_PTK7: domain similar to the second immunoglobulin
(Ig)-like domain in protein tyrosine kinase (PTK) 7,
also known as CCK4. PTK7 is a subfamily of the receptor
protein tyrosine kinase family, and is referred to as an
RPTK-like molecule. RPTKs transduce extracellular
signals across the cell membrane, and play important
roles in regulating cell proliferation, migration, and
differentiation. PTK7 is organized as an extracellular
portion having seven Ig-like domains, a single
transmembrane region, and a cytoplasmic tyrosine
kinase-like domain. PTK7 is considered a pseudokinase as
it has several unusual residues in some of the highly
conserved tyrosine kinase (TK) motifs; it is predicted
to lack TK activity. PTK7 may function as a
cell-adhesion molecule. PTK7 mRNA is expressed at high
levels in placenta, melanocytes, liver, lung, pancreas,
and kidney. PTK7 is overexpressed in several cancers,
including melanoma and colon cancer lines.
Length = 77
Score = 36.4 bits (84), Expect = 0.004
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 13/86 (15%)
Query: 272 VSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNIDD 331
V+L C + P W DG P+ S+ YS K+ L + ++ DD
Sbjct: 1 VTLRCHIDGHPRPTYQWFRDGTPL-------SDGQGNYSVSS----KERTLTLRSAGPDD 49
Query: 332 NGTFVCVAENQAGS--TSSNYTIRIV 355
+G + C A N GS +S N+T+ I+
Sbjct: 50 SGLYYCCAHNAFGSVCSSQNFTLSII 75
>gnl|CDD|143250 cd05773, Ig8_hNephrin_like, Eighth immunoglobulin-like domain of
nephrin. Ig8_hNephrin_like: domain similar to the
eighth immunoglobulin-like domain in human nephrin.
Nephrin is an integral component of the slit diaphragm,
and is a central component of the glomerular
ultrafilter. Nephrin plays a structural role, and has a
role in signaling. Nephrin is a transmembrane protein
having a short intracellular portion, and an
extracellular portion comprised of eight Ig-like
domains, and one fibronectin type III-like domain. The
extracellular portions of nephrin, from neighboring foot
processes of separate podocyte cells, may interact with
each other, and in association with other components of
the slit diaphragm, form a porous molecular sieve within
the slit pore. The intracellular portion of nephrin is
associated with linker proteins, which connect nephrin
to the actin cytoskeleton. The intracellular portion is
tyrosine phosphorylated, and mediates signaling from the
slit diaphragm into the podocytes.
Length = 109
Score = 36.8 bits (85), Expect = 0.005
Identities = 23/84 (27%), Positives = 36/84 (42%), Gaps = 7/84 (8%)
Query: 268 EGKNVS-LLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYN 326
+G + + L+C+ +P + W +GVP+ + E +TE + S L I N
Sbjct: 21 DGSSDANLVCQAQGVPRVQFRWAKNGVPLDLGNPRYEE-----TTEHTGTVHTSILTIIN 75
Query: 327 -SNIDDNGTFVCVAENQAGSTSSN 349
S D F C A N G S +
Sbjct: 76 VSAALDYALFTCTAHNSLGEDSLD 99
>gnl|CDD|222457 pfam13927, Ig_3, Immunoglobulin domain. This family contains
immunoglobulin-like domains.
Length = 74
Score = 35.8 bits (82), Expect = 0.006
Identities = 18/77 (23%), Positives = 27/77 (35%), Gaps = 15/77 (19%)
Query: 266 IQEGKNVSLLCKVSAIPEA-KITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLI 324
+ G V+L C P I+W +G G S L +
Sbjct: 12 VTSGGGVTLTCSAEGGPPPPTISWYRNGSISGGS--------------GGLGSSGSTLTL 57
Query: 325 YNSNIDDNGTFVCVAEN 341
+ +D+GT+ CVA N
Sbjct: 58 SSVTSEDSGTYTCVASN 74
>gnl|CDD|143300 cd05892, Ig_Myotilin_C, C-terminal immunoglobulin (Ig)-like domain
of myotilin. Ig_Myotilin_C: C-terminal immunoglobulin
(Ig)-like domain of myotilin. Mytolin belongs to the
palladin-myotilin-myopalladin family. Proteins belonging
to the latter family contain multiple Ig-like domains
and function as scaffolds, modulating actin
cytoskeleton. Myotilin is most abundant in skeletal and
cardiac muscle, and is involved in maintaining sarcomere
integrity. It binds to alpha-actinin, filamin and actin.
Mutations in myotilin lead to muscle disorders.
Length = 75
Score = 36.1 bits (83), Expect = 0.006
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 272 VSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNIDD 331
V L C++SAIP KI W + +Q + S +Y G + LLI N N D
Sbjct: 1 VKLECQISAIPPPKIFWKRNNEMVQYNTDRIS----LYQDNSG----RVTLLIKNVNKKD 52
Query: 332 NGTFVCVAENQAGSTSSN 349
G + A N+AG + +
Sbjct: 53 AGWYTVSAVNEAGVATCH 70
>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 = 35.6 bits (82), Expect = 0.007
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 318 KKSELLIYNSNIDDNGTFVCVAENQAGSTSSNYTI 352
K SEL I + + D+G + CV EN G+ + +
Sbjct: 41 KNSELQINKAKLADSGEYTCVVENILGNDTVTANV 75
>gnl|CDD|188093 TIGR00864, PCC, polycystin cation channel protein. The Polycystin
Cation Channel (PCC) Family (TC 1.A.5) Polycystin is a
huge protein of 4303aas. Its repeated leucine-rich (LRR)
segment is found in many proteins. It contains 16
polycystic kidney disease (PKD) domains, one
LDL-receptor class A domain, one C-type lectin family
domain, and 16-18 putative TMSs in positions between
residues 2200 and 4100. Polycystin-L has been shown to
be a cation (Na+, K+ and Ca2+) channel that is activated
by Ca2+. Two members of the PCC family (polycystin 1 and
2) are mutated in autosomal dominant polycystic kidney
disease, and polycystin-L is deleted in mice with renal
and retinal defects. Note: this model is restricted to
the amino half for technical reasons.
Length = 2740
Score = 39.3 bits (91), Expect = 0.009
Identities = 27/81 (33%), Positives = 38/81 (46%), Gaps = 7/81 (8%)
Query: 178 LDNNKITTIS-GSNILPTGLHGIDLHHNPWTCDCLLIGLRRWLES----TKTPMAIDPIC 232
+ NNKI+TI G L IDL NP+ CDC L L RW E + P A +C
Sbjct: 2 ISNNKISTIEEGICANLCNLSEIDLSGNPFECDCGLARLPRWAEEKGVKVRQPEA--ALC 59
Query: 233 SVPPRLSSVTIKQLSIDELAC 253
+ P L+ + + + + C
Sbjct: 60 AGPGALAGQPLLGIPLLDSGC 80
>gnl|CDD|143262 cd05854, Ig6_Contactin-2, Sixth Ig domain of contactin-2.
Ig6_Contactin-2: Sixth Ig domain of the neural cell
adhesion molecule contactin-2-like. Contactins are
comprised of six Ig domains followed by four fibronectin
type III (FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. Contactin-2 (TAG-1,
axonin-1) facilitates cell adhesion by homophilic
binding between molecules in apposed membranes. It may
play a part in the neuronal processes of neurite
outgrowth, axon guidance and fasciculation, and neuronal
migration. The first four Ig domains form the
intermolecular binding fragment, which arranges as a
compact U-shaped module by contacts between IG domains 1
and 4, and domains 2 and 3. The different contactins
show different expression patterns in the central
nervous system. During development and in adulthood,
contactin-2 is transiently expressed in subsets of
central and peripheral neurons. Contactin-2 is also
expressed in retinal amacrine cells in the developing
chick retina, corresponding to the period of formation
and maturation of AC proce sses.
Length = 85
Score = 35.4 bits (81), Expect = 0.013
Identities = 24/87 (27%), Positives = 39/87 (44%), Gaps = 8/87 (9%)
Query: 270 KNVSLLCKVSAIP--EAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNS 327
+N++L C S P + TW D PI + H Y E E +L+I N+
Sbjct: 1 ENLTLQCHASHDPTMDLTFTWSLDDFPI---DLDKPNGH--YRRMEVKE-TIGDLVIVNA 54
Query: 328 NIDDNGTFVCVAENQAGSTSSNYTIRI 354
+ GT+ C A+ S S++ T+ +
Sbjct: 55 QLSHAGTYTCTAQTVVDSASASATLVV 81
>gnl|CDD|143256 cd05848, Ig1_Contactin-5, First Ig domain of contactin-5.
Ig1_Contactin-5: First Ig domain of the neural cell
adhesion molecule contactin-5. Contactins are comprised
of six Ig domains followed by four fibronectin type III
(FnIII) domains, anchored to the membrane by
glycosylphosphatidylinositol. The different contactins
show different expression patterns in the central
nervous system. In rats, a lack of contactin-5 (NB-2)
results in an impairment of the neuronal activity in the
auditory system. Contactin-5 is expressed specifically
in the postnatal nervous system, peaking at about 3
weeks postnatal. Contactin-5 is highly expressed in the
adult human brain in the occipital lobe and in the
amygdala; lower levels of expression have been detected
in the corpus callosum, caudate nucleus, and spinal
cord.
Length = 94
Score = 35.3 bits (81), Expect = 0.014
Identities = 25/82 (30%), Positives = 36/82 (43%), Gaps = 13/82 (15%)
Query: 268 EGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNS 327
+ K V L C+ P WL +G I +ES YS +G L+I N
Sbjct: 18 DEKKVILNCEARGNPVPTYRWLRNGTEID------TESDYRYSLIDGN------LIISNP 65
Query: 328 N-IDDNGTFVCVAENQAGSTSS 348
+ + D+G + C+A N GS S
Sbjct: 66 SEVKDSGRYQCLATNSIGSILS 87
>gnl|CDD|143265 cd05857, Ig2_FGFR, Second immunoglobulin (Ig)-like domain of
fibroblast growth factor (FGF) receptor. Ig2_FGFR:
second immunoglobulin (Ig)-like domain of fibroblast
growth factor (FGF) receptor. FGF receptors bind FGF
signaling polypeptides. FGFs participate in multiple
processes such as morphogenesis, development, and
angiogenesis. FGFs bind to four FGF receptor tyrosine
kinases (FGFR1, -2, -3, -4). Receptor diversity is
controlled by alternative splicing producing splice
variants with different ligand binding characteristics
and different expression patterns. FGFRs have an
extracellular region comprised of three IG-like domains,
a single transmembrane helix, and an intracellular
tyrosine kinase domain. Ligand binding and specificity
reside in the Ig-like domains 2 and 3, and the linker
region that connects these two. FGFR activation and
signaling depend on FGF-induced dimerization, a process
involving cell surface heparin or heparin sulfate
proteoglycans.
Length = 85
Score = 34.5 bits (79), Expect = 0.026
Identities = 20/86 (23%), Positives = 33/86 (38%), Gaps = 13/86 (15%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIK-KSELLIYNS 327
V C + P + WL +G + E G +++ + LI S
Sbjct: 9 ANTVKFRCPAAGNPTPTMRWLKNGKEFKQEHRIG-----------GYKVRNQHWSLIMES 57
Query: 328 NI-DDNGTFVCVAENQAGSTSSNYTI 352
+ D G + CV EN+ GS + Y +
Sbjct: 58 VVPSDKGNYTCVVENEYGSINHTYHL 83
>gnl|CDD|143180 cd04979, Ig_Semaphorin_C, Immunoglobulin (Ig)-like domain of
semaphorin. Ig_Semaphorin_C; Immunoglobulin (Ig)-like
domain in semaphorins. Semaphorins are transmembrane
protein that have important roles in a variety of
tissues. Functionally, semaphorins were initially
characterized for their importance in the development of
the nervous system and in axonal guidance. Later they
have been found to be important for the formation and
functioning of the cardiovascular, endocrine,
gastrointestinal, hepatic, immune, musculoskeletal,
renal, reproductive, and respiratory systems.
Semaphorins function through binding to their receptors
and transmembrane semaphorins also serves as receptors
themselves. Although molecular mechanism of semaphorins
is poorly understood, the Ig-like domains may involve in
ligand binding or dimerization.
Length = 89
Score = 34.3 bits (79), Expect = 0.026
Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 11/74 (14%)
Query: 267 QEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYN 326
EG +V L C A + WLF G P+Q + E + TE+G LLI +
Sbjct: 9 VEGNSVFLECSPK-SNLASVVWLFQGGPLQRKEE--PEERLL-VTEDG-------LLIRS 57
Query: 327 SNIDDNGTFVCVAE 340
+ D G + C +
Sbjct: 58 VSPADAGVYTCQSV 71
>gnl|CDD|223033 PHA03291, PHA03291, envelope glycoprotein I; Provisional.
Length = 401
Score = 37.2 bits (86), Expect = 0.032
Identities = 19/68 (27%), Positives = 23/68 (33%), Gaps = 5/68 (7%)
Query: 640 RYNIEGYPSASPTPYSSAPRVTFTEPLHILQGQPMQSNPPTETTTKNEQTWTESSADEQP 699
S P SAPR+ + P P TT E T T S+ P
Sbjct: 177 LGEGSADGSCDPALPLSAPRLGPADVF-----VPATPRPTPRTTASPETTPTPSTTTSPP 231
Query: 700 STSNPEKS 707
ST+ P S
Sbjct: 232 STTIPAPS 239
>gnl|CDD|143276 cd05868, Ig4_NrCAM, Fourth immunoglobulin (Ig)-like domain of NrCAM
(NgCAM-related cell adhesion molecule). Ig4_ NrCAM:
fourth immunoglobulin (Ig)-like domain of NrCAM
(NgCAM-related cell adhesion molecule). NrCAM belongs to
the L1 subfamily of cell adhesion molecules (CAMs) and
is comprised of an extracellular region having six
IG-like domains and five fibronectin type III domains, a
transmembrane region and an intracellular domain. NrCAM
is primarily expressed in the nervous system.
Length = 76
Score = 33.8 bits (77), Expect = 0.037
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQ 296
G++ +L+C+ + P+ I+WL +GVPI+
Sbjct: 1 GEDGTLICRANGNPKPSISWLTNGVPIE 28
>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 = 34.4 bits (79), Expect = 0.039
Identities = 26/108 (24%), Positives = 41/108 (37%), Gaps = 16/108 (14%)
Query: 255 PQITPSTFYLEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEG 314
P+I L + +G +L CK P I WL +G P++ + V
Sbjct: 2 PRIVEHPSDLIVSKGDPATLNCKAEGRPTPTIQWLKNGQPLETDKDDPRSHRIVLP---- 57
Query: 315 TEIKKSELLIYNSNI------DDNGTFVCVAENQAG-STSSNYTIRIV 355
S L + + D G +VCVA N G + S N ++ +
Sbjct: 58 -----SGSLFFLRVVHGRKGRSDEGVYVCVAHNSLGEAVSRNASLEVA 100
>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 = 33.7 bits (77), Expect = 0.057
Identities = 24/94 (25%), Positives = 37/94 (39%), Gaps = 12/94 (12%)
Query: 254 EPQITPSTFYLEIQ---EGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYS 310
+P+IT YLE Q E + ++L C+ P +ITW S V
Sbjct: 2 QPKIT----YLENQTAVELEQITLTCEAEGDPIPEITWRRATRNFSEGDKSLDGRIVVRG 57
Query: 311 TEEGTEIKKSELLIYNSNIDDNGTFVCVAENQAG 344
+ S L + + + D G + C A N+ G
Sbjct: 58 -----HARVSSLTLKDVQLTDAGRYDCEASNRIG 86
>gnl|CDD|143326 cd07702, Ig2_VEGFR-1, Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor 1 (VEGFR-1).
Ig2_VEGFR-1: Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor 1 (VEGFR-1).
VEGFRs have an extracellular component with seven
Ig-like domains, a transmembrane segment, and an
intracellular tyrosine kinase domain interrupted by a
kinase-insert domain. VEGFRs bind VEGFs with high
affinity at the Ig-like domains. VEGFR-1 binds VEGF-A
strongly; 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-1 may play
an inhibitory rolet in the function of VEGFR-2 by
binding VEGF-A and interfering with its interaction with
VEGFR-2. VEGFR-1 has a signaling role in mediating
monocyte chemotaxis and may mediate a chemotactic and a
survival signal in hematopoietic stem cells or leukemia
cells.
Length = 72
Score = 32.9 bits (75), Expect = 0.075
Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 28/88 (31%)
Query: 274 LLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNIDDNG 333
L KV A P ++ WL DG+P A+E + Y + Y+ I D
Sbjct: 3 LTPKVKAFPAPEVIWLKDGLP-------AAEKCSRYHVDG-----------YSLVIKD-- 42
Query: 334 TFVCVAENQAGSTSSNYTIRIVLKEENV 361
V E AG YTI + +K+ N+
Sbjct: 43 ----VTEEDAG----IYTILLGIKQYNL 62
>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 = 33.4 bits (76), Expect = 0.082
Identities = 26/103 (25%), Positives = 43/103 (41%), Gaps = 10/103 (9%)
Query: 255 PQITPSTFYLEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEG 314
PQI ++++ G++V L CKV+ TW+ IQ E + +TE
Sbjct: 1 PQIIQFPEDMKVRAGESVELFCKVTGTQPITCTWMKFRKQIQE-----GEGIKIENTENS 55
Query: 315 TEIKKSELLIYNSNIDDNGTFVCVAENQAGSTSSNYTIRIVLK 357
S+L I + G + EN+ GS + + +V K
Sbjct: 56 -----SKLTITEGQQEHCGCYTLEVENKLGSRQAQVNLTVVDK 93
>gnl|CDD|107278 cd06283, PBP1_RegR_EndR_KdgR_like, Ligand-binding domain of DNA
transcription repressor RegR and other putative
regulators such as KdgR and EndR. Ligand-binding domain
of DNA transcription repressor RegR and other putative
regulators such as KdgR and EndR, all of which are
members of the LacI-GalR family of bacterial
transcription regulators. RegR regulates bacterial
competence and the expression of virulence factors,
including hyaluronidase. The LacI-GalR family repressors
are composed of two functional domains: an N-terminal
HTH (helix-turn-helix) domain, which is responsible for
the DNA-binding specificity, and a C-terminal
ligand-binding domain, which is homologous to the
sugar-binding domain of ABC-type transport systems that
contain the type I periplasmic binding protein-like
fold. As also observed in the periplasmic binding
proteins, the C-terminal domain of the bacterial
transcription repressor undergoes a conformational
change upon ligand binding which in turn changes the DNA
binding affinity of the repressor.
Length = 267
Score = 35.3 bits (82), Expect = 0.086
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 4/43 (9%)
Query: 149 LVTLELSKC----GIEVIEDAAFVGLDSLEWLKLDNNKITTIS 187
L+ LE+ K GI + ED +G D EW +L ITTI+
Sbjct: 188 LILLEVLKALKELGIRIPEDVGLIGFDDTEWAELIGPGITTIA 230
>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein
kinase; Provisional.
Length = 968
Score = 36.0 bits (83), Expect = 0.088
Identities = 27/107 (25%), Positives = 40/107 (37%), Gaps = 3/107 (2%)
Query: 49 PNTQVLDYTGNNLKTLHNEKFQKMGLVNLQKIYLSRCRISVIDSKAFRGLTNLVDLDFSH 108
P+ Q+L N G L+ + LSR + S + L+ L+ L S
Sbjct: 452 PSLQMLSLARNKF---FGGLPDSFGSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSE 508
Query: 109 NVLQTVPSDTFPDYPSLMKLTLSGNPIKQIKTGAFQPLSYLVTLELS 155
N L D L+ L LS N + +F + L L+LS
Sbjct: 509 NKLSGEIPDELSSCKKLVSLDLSHNQLSGQIPASFSEMPVLSQLDLS 555
Score = 33.7 bits (77), Expect = 0.48
Identities = 20/62 (32%), Positives = 27/62 (43%)
Query: 72 MGLVNLQKIYLSRCRISVIDSKAFRGLTNLVDLDFSHNVLQTVPSDTFPDYPSLMKLTLS 131
L L ++ LS ++S LV LD SHN L +F + P L +L LS
Sbjct: 496 GSLSELMQLKLSENKLSGEIPDELSSCKKLVSLDLSHNQLSGQIPASFSEMPVLSQLDLS 555
Query: 132 GN 133
N
Sbjct: 556 QN 557
>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 = 32.4 bits (74), Expect = 0.11
Identities = 19/84 (22%), Positives = 30/84 (35%), Gaps = 14/84 (16%)
Query: 272 VSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNIDD 331
V L KV A P +I W +G I ++ + H+ L I + +D
Sbjct: 1 VRLPVKVKAYPPPEIQWYKNGKLISEKNRTKKSGHS--------------LTIKDVTEED 46
Query: 332 NGTFVCVAENQAGSTSSNYTIRIV 355
G + V N+ T +V
Sbjct: 47 AGNYTVVLTNKQAKLEKRLTFTLV 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 = 32.4 bits (74), Expect = 0.13
Identities = 24/76 (31%), Positives = 31/76 (40%), Gaps = 14/76 (18%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
G+NV+L C P +I W + SM +S A S L I N
Sbjct: 16 GQNVTLECFALGNPVPQIKW-----RKVDGSMPSS---AEISMSGAV------LKIPNIQ 61
Query: 329 IDDNGTFVCVAENQAG 344
+D GT+ C AEN G
Sbjct: 62 FEDEGTYECEAENIKG 77
>gnl|CDD|197688 smart00370, LRR, Leucine-rich repeats, outliers.
Length = 24
Score = 30.4 bits (70), Expect = 0.16
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 98 LTNLVDLDFSHNVLQTVPSDTF 119
L NL +LD S+N L ++P F
Sbjct: 1 LPNLRELDLSNNQLSSLPPGAF 22
Score = 28.5 bits (65), Expect = 0.77
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 74 LVNLQKIYLSRCRISVIDSKAFRG 97
L NL+++ LS ++S + AF+G
Sbjct: 1 LPNLRELDLSNNQLSSLPPGAFQG 24
Score = 28.1 bits (64), Expect = 1.2
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 123 PSLMKLTLSGNPIKQIKTGAFQP 145
P+L +L LS N + + GAFQ
Sbjct: 2 PNLRELDLSNNQLSSLPPGAFQG 24
Score = 27.3 bits (62), Expect = 2.1
Identities = 6/17 (35%), Positives = 12/17 (70%)
Query: 170 LDSLEWLKLDNNKITTI 186
L +L L L NN+++++
Sbjct: 1 LPNLRELDLSNNQLSSL 17
>gnl|CDD|197687 smart00369, LRR_TYP, Leucine-rich repeats, typical (most populated)
subfamily.
Length = 24
Score = 30.4 bits (70), Expect = 0.16
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 98 LTNLVDLDFSHNVLQTVPSDTF 119
L NL +LD S+N L ++P F
Sbjct: 1 LPNLRELDLSNNQLSSLPPGAF 22
Score = 28.5 bits (65), Expect = 0.77
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 74 LVNLQKIYLSRCRISVIDSKAFRG 97
L NL+++ LS ++S + AF+G
Sbjct: 1 LPNLRELDLSNNQLSSLPPGAFQG 24
Score = 28.1 bits (64), Expect = 1.2
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 123 PSLMKLTLSGNPIKQIKTGAFQP 145
P+L +L LS N + + GAFQ
Sbjct: 2 PNLRELDLSNNQLSSLPPGAFQG 24
Score = 27.3 bits (62), Expect = 2.1
Identities = 6/17 (35%), Positives = 12/17 (70%)
Query: 170 LDSLEWLKLDNNKITTI 186
L +L L L NN+++++
Sbjct: 1 LPNLRELDLSNNQLSSL 17
>gnl|CDD|233430 TIGR01477, RIFIN, variant surface antigen, rifin family. This
model represents the rifin branch of the rifin/stevor
family (pfam02009) of predicted variant surface antigens
as found in Plasmodium falciparum. This model is based
on a set of rifin sequences kindly provided by Matt
Berriman from the Sanger Center. This is a global model
and assesses a penalty for incomplete sequence.
Additional fragmentary sequences may be found with the
fragment model and a cutoff of 20 bits.
Length = 353
Score = 34.7 bits (80), Expect = 0.19
Identities = 31/151 (20%), Positives = 55/151 (36%), Gaps = 14/151 (9%)
Query: 263 YLEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHA----VYSTEEGTEI- 317
L + L ++A + L D + + M S + E
Sbjct: 202 ILGLSTLFGKKLKQIINASNYTNPSLLSDAIYKEYNEMCGVVSSNKGLFCNTMERSINSP 261
Query: 318 -KKSELLIYNSNIDDNGTFVCVAENQAGSTSSNYTIRIVLKEENVEVVTVFPLEYVLIVS 376
++ + +N +D A A ++ T K V Y I++
Sbjct: 262 NQERTVETIVANAED-------AAKAAAKAATKATTATATKATTALVEATTTNYYTPIIA 314
Query: 377 GIISVCSLVLIFLLVLCFLCFRRKKKKLKKK 407
II++ +VLI +++ L +RRKK K+KKK
Sbjct: 315 SIIAILIIVLIMVIIYLILRYRRKK-KMKKK 344
>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 = 31.4 bits (71), Expect = 0.35
Identities = 21/89 (23%), Positives = 39/89 (43%), Gaps = 9/89 (10%)
Query: 266 IQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIY 325
I EGK ++L C V P+ ++ W +N+ H E+G K + L I
Sbjct: 13 IMEGKTLNLTCTVFGNPDPEVIWF------KNDQDIELSEHYSVKLEQG---KYASLTIK 63
Query: 326 NSNIDDNGTFVCVAENQAGSTSSNYTIRI 354
+D+G + +N+ G + + T+ +
Sbjct: 64 GVTSEDSGKYSINVKNKYGGETVDVTVSV 92
>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 = 31.4 bits (71), Expect = 0.36
Identities = 19/93 (20%), Positives = 38/93 (40%), Gaps = 9/93 (9%)
Query: 251 LACEPQITPSTFYLEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYS 310
+A +P F + E + +V A P +I WL D + + + S
Sbjct: 3 IALKPTFGQLEF-ANLHE--VKEFVVEVEAYPPPQIRWLKDNRTL-----IENLTEITTS 54
Query: 311 TEEGTEIK-KSELLIYNSNIDDNGTFVCVAENQ 342
E + S+L + + +D+G + +A+N+
Sbjct: 55 EHNVQETRYVSKLKLIRAKEEDSGLYTALAQNE 87
>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 = 31.5 bits (71), Expect = 0.40
Identities = 26/98 (26%), Positives = 39/98 (39%), Gaps = 13/98 (13%)
Query: 254 EPQITPSTFYLEIQEG----KNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVY 309
+P+IT Y+E Q + ++L C+ S P ITW I +E + V
Sbjct: 2 KPKIT----YVENQTAMELEEQITLTCEASGDPIPSITWRTSTRNISSEEKTLDGHIVVR 57
Query: 310 STEEGTEIKKSELLIYNSNIDDNGTFVCVAENQAGSTS 347
S + S L + D G ++C A N G S
Sbjct: 58 S-----HARVSSLTLKYIQYTDAGEYLCTASNTIGQDS 90
>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 = 30.9 bits (70), Expect = 0.40
Identities = 17/76 (22%), Positives = 27/76 (35%), Gaps = 10/76 (13%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
G+ V C + +P I W + + + + + S Y T L I +
Sbjct: 1 GETVEFTCVATGVPTPIINWRLNWGHVPDSARVSITSEGGYGT----------LTIRDVK 50
Query: 329 IDDNGTFVCVAENQAG 344
D G + C A N G
Sbjct: 51 ESDQGAYTCEAINTRG 66
>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 = 0.41
Identities = 25/100 (25%), Positives = 36/100 (36%), Gaps = 11/100 (11%)
Query: 257 ITPSTFYLEIQEGKNVSLLCKVSAIPEAKITW---LFDGVP---IQNESMSASESHAVYS 310
+T S L +QEG+NV+L C S + W P I S + +S
Sbjct: 1 VTQSPQSLSVQEGENVTLNCNYSTSTFYYLFWYRQYPGQGPQFLIYISSNGEEKEKGRFS 60
Query: 311 TEEGTEIKKSELLIYNSNIDDNGTFVCVAENQAGSTSSNY 350
K S L I + + D+ + C A S S
Sbjct: 61 ATLDKSRKSSSLHISAAQLSDSAVYFC-----ALSESGGT 95
>gnl|CDD|143222 cd05745, Ig3_Peroxidasin, Third immunoglobulin (Ig)-like domain of
peroxidasin. Ig3_Peroxidasin: the third immunoglobulin
(Ig)-like domain in peroxidasin. Peroxidasin has a
peroxidase domain and interacting extracellular motifs
containing four Ig-like domains. It has been suggested
that peroxidasin is secreted and has functions related
to the stabilization of the extracellular matrix. It may
play a part in various other important processes such as
removal and destruction of cells which have undergone
programmed cell death, and protection of the organism
against non-self.
Length = 74
Score = 30.7 bits (69), Expect = 0.41
Identities = 24/80 (30%), Positives = 31/80 (38%), Gaps = 13/80 (16%)
Query: 268 EGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNS 327
EG+ V LC+ P+ I W G +S H V S+ GT L I
Sbjct: 1 EGQTVDFLCEAQGYPQPVIAWTKGGSQ-----LSVDRRHLVLSS--GT------LRISRV 47
Query: 328 NIDDNGTFVCVAENQAGSTS 347
+ D G + C A N GS
Sbjct: 48 ALHDQGQYECQAVNIVGSQR 67
>gnl|CDD|188447 TIGR03932, PIA_icaD, intracellular adhesion protein D. Members of
this protein family are IcaD (intracellular adhesion
protein D), which with catalytic subunit IcaA forms an
N-acetylglucosaminyltransferase. In the absence of IcaC,
this enzyme forms N-acetylglucosamine oligomers up to 20
in length [Cell envelope, Biosynthesis and degradation
of surface polysaccharides and lipopolysaccharides].
Length = 88
Score = 30.9 bits (70), Expect = 0.57
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 351 TIRIVLKEENVEVVTVFPLEYVLIVSGIISVCSLVLIFLLVLCFLCFRRKK 401
TIRI L EN E+V +F E +L II V F L +R+ +
Sbjct: 45 TIRIALNVENREIVDIF--ETLLAFVIIIFV-----FFTSSLILQKWRQGR 88
>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 = 31.4 bits (71), Expect = 0.58
Identities = 20/114 (17%), Positives = 30/114 (26%), Gaps = 24/114 (21%)
Query: 256 QITPSTFYLEIQEGKNVSLLCKVSA-IPEAKITWLFDGVPIQNESMSASESHAVYSTEEG 314
+T + + EG +V+L C S+ + W E Y T
Sbjct: 3 LVTQPPRPVTVAEGGSVTLPCSFSSSSGSTSVYWYKQP------LGKGPELIIHYVTSTP 56
Query: 315 TEIKKSE-----------------LLIYNSNIDDNGTFVCVAENQAGSTSSNYT 351
L I N + D+GT+ C N T
Sbjct: 57 NGKVGPRFKGRVTLSGNGSKNDFSLTISNLRLSDSGTYTCAVSNPNELVFGAGT 110
>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 = 30.4 bits (68), Expect = 0.61
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 318 KKSELLIYNSNIDDNGTFVCVAENQAGSTSSNYTI 352
K SEL I +++ DNG + C+ ++ G+ S +
Sbjct: 42 KSSELQISKASLADNGEYKCMVSSKLGNDSVTANV 76
>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional.
Length = 623
Score = 33.3 bits (76), Expect = 0.63
Identities = 26/111 (23%), Positives = 43/111 (38%), Gaps = 17/111 (15%)
Query: 26 WKGGKQTVECV--NKSLITVVEGMDPNTQVL-DYTGNNLKTLHNEKFQKMGLVNLQKIYL 82
W G +C + ++G+ + Q L + N++ L + LQ I L
Sbjct: 404 WSG----ADCQFDSTKGKWFIDGLGLDNQGLRGFIPNDISKLRH----------LQSINL 449
Query: 83 SRCRISVIDSKAFRGLTNLVDLDFSHNVLQTVPSDTFPDYPSLMKLTLSGN 133
S I + +T+L LD S+N ++ SL L L+GN
Sbjct: 450 SGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNGN 500
>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 = 30.1 bits (68), Expect = 0.64
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 322 LLIYNSNIDDNGTFVCVAENQAGSTSSNYTIRI 354
L I N D G++ C AEN G ++ ++ +
Sbjct: 37 LKIRNVTAGDEGSYTCEAENMVGKIEASASLTV 69
>gnl|CDD|143199 cd05722, Ig1_Neogenin, First immunoglobulin (Ig)-like domain in
neogenin and similar proteins. Ig1_Neogenin: first
immunoglobulin (Ig)-like domain in neogenin and related
proteins. Neogenin is a cell surface protein which is
expressed in the developing nervous system of vertebrate
embryos in the growing nerve cells. It is also expressed
in other embryonic tissues, and may play a general role
in developmental processes such as cell migration,
cell-cell recognition, and tissue growth regulation.
Included in this group is the tumor suppressor protein
DCC, which is deleted in colorectal carcinoma . DCC and
neogenin each have four Ig-like domains followed by six
fibronectin type III domains, a transmembrane domain,
and an intracellular domain.
Length = 95
Score = 30.5 bits (69), Expect = 0.71
Identities = 22/78 (28%), Positives = 27/78 (34%), Gaps = 16/78 (20%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYN-- 326
G V L C P KI W DGV + G+ LLI +
Sbjct: 14 GGPVVLNCSAEGEPPPKIEWKKDGVLLN-----LVSDERRQQLPNGS------LLITSVV 62
Query: 327 ---SNIDDNGTFVCVAEN 341
N D G + CVA+N
Sbjct: 63 HSKHNKPDEGFYQCVAQN 80
>gnl|CDD|220496 pfam09972, DUF2207, Predicted membrane protein (DUF2207). This
domain, found in various hypothetical bacterial
proteins, has no known function.
Length = 503
Score = 32.7 bits (75), Expect = 0.77
Identities = 31/156 (19%), Positives = 54/156 (34%), Gaps = 10/156 (6%)
Query: 305 SHAVYSTEEGTEIKKSELLIYNSNIDDNGTFVCVA---------ENQAGSTSSNYTIRIV 355
+H + K + + + G V V A S N I
Sbjct: 151 AHPGPLGGKTKVDKAGGTVTFTTTNLPAGEGVEVHLLFPKGSVTPPNANIISKNRLAEIE 210
Query: 356 LKEENVEVVTVFPLEYVLIVSGIISVCSLVLIFLLVLCFLCFRRKKKKLKKKDESDKNVN 415
+E +LI+ ++ V ++LI + L +L + R+ K K S +
Sbjct: 211 KQEAKYAREANIRKNLLLILLPLLLVLLILLILIPYLIWLKYGREPKYTKDIIYSFEPPE 270
Query: 416 GSNENVVKNL-RESPKYTSVNATSATCMDKVNGGYI 450
+ +V + + S +A SAT +D GYI
Sbjct: 271 DLSPALVNLIYKGSFDDVDDDALSATLLDLAVRGYI 306
>gnl|CDD|143208 cd05731, Ig3_L1-CAM_like, Third immunoglobulin (Ig)-like domain of
the L1 cell adhesion molecule (CAM). Ig3_L1-CAM_like:
domain similar to the third immunoglobulin (Ig)-like
domain of the L1 cell adhesion molecule (CAM). L1
belongs to the L1 subfamily of cell adhesion molecules
(CAMs) and is comprised of an extracellular region
having six Ig-like domains and five fibronectin type III
domains, a transmembrane region and an intracellular
domain. L1 is primarily expressed in the nervous system
and is involved in its development and function. L1 is
associated with an X-linked recessive disorder, X-linked
hydrocephalus, MASA syndrome, or spastic paraplegia type
1, that involves abnormalities of axonal growth. This
group also contains the chicken neuron-glia cell
adhesion molecule, Ng-CAM and human neurofascin.
Length = 71
Score = 29.6 bits (67), Expect = 0.79
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 322 LLIYNSNIDDNGTFVCVAENQAGSTSSNYTIRI 354
L I N + +D+G + C A N GS ++ +
Sbjct: 38 LKIDNVSEEDDGEYRCTASNSLGSARHTISVTV 70
>gnl|CDD|235066 PRK02746, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase;
Provisional.
Length = 345
Score = 32.6 bits (75), Expect = 0.80
Identities = 25/102 (24%), Positives = 33/102 (32%), Gaps = 37/102 (36%)
Query: 208 CDCLLIGLRRWLESTKTPMAIDPICSVPPRLSSVTI------KQLSIDELACEPQITP-- 259
C L+G R LE T RL S I L I ++ + I P
Sbjct: 40 CQPTLVGCRSLLEQTYQ------------RLKSQGIEPLADPANLDILDIPLDSTIIPGK 87
Query: 260 --------STFYLE-----IQEGKNVSLLCKVSAIPEAKITW 288
S YL G+ ++ V+A P AK W
Sbjct: 88 GNAASGAASFAYLTTAIEITLAGEFDAI---VTA-PIAKSAW 125
>gnl|CDD|143281 cd05873, Ig_Sema4D_like, Immunoglobulin (Ig)-like domain of the
class IV semaphorin Sema4D. Ig_Sema4D_like;
Immunoglobulin (Ig)-like domain of Sema4D. Sema4D is a
Class IV semaphorin. Semaphorins are classified based on
structural features additional to the Sema domain.
Sema4D has extracellular Sema and Ig domains, a
transmembrane domain, and a short cytoplasmic domain.
Sema4D plays a part in the development of GABAergic
synapses. Sema4D in addition is an immune semaphorin. It
is abundant on resting T cells; its expression is weak
on resting B cells and antigen presenting cells (APCs),
but is upregulated by various stimuli. The receptor used
by Sema4D in the immune system is CD72. Sem4D enhances
the activation of B cells and DCs through binding CD72,
perhaps by reducing CD72s inhibitory signals. The
receptor used by Sema4D in the non-lymphatic tissues is
plexin-B1. Sem4D is anchored to the cell surface but its
extracellular domain can be released from the cell
surface by a metalloprotease-dependent process. Sem4D
may mediate its effects in its membrane bound form,
and/or its cleaved form.
Length = 87
Score = 30.2 bits (68), Expect = 0.84
Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 14/75 (18%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
G N L C + A++ W FDG + ES A Y LLI+N++
Sbjct: 11 GNNAELKCSPKS-NLARVVWKFDGKVLTPES-------AKYLLYRDG------LLIFNAS 56
Query: 329 IDDNGTFVCVAENQA 343
D G + C++ ++
Sbjct: 57 EADAGRYQCLSVEKS 71
>gnl|CDD|143260 cd05852, Ig5_Contactin-1, Fifth Ig domain of contactin-1.
Ig5_Contactin-1: fifth Ig domain of the neural cell
adhesion molecule contactin-1. Contactins are comprised
of six Ig domains followed by four fibronectin type III
(FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. Contactin-1 is
differentially expressed in tumor tissues and may
through a RhoA mechanism, facilitate invasion and
metastasis of human lung adenocarcinoma.
Length = 73
Score = 29.6 bits (66), Expect = 0.88
Identities = 22/86 (25%), Positives = 35/86 (40%), Gaps = 13/86 (15%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSN 328
G V + CK A P+ K +W + N S + ++G+ L I N
Sbjct: 1 GGRVIIECKPKAAPKPKFSWSKGTELLVNNSR-------ISIWDDGS------LEILNIT 47
Query: 329 IDDNGTFVCVAENQAGSTSSNYTIRI 354
D G++ C AEN G +S + +
Sbjct: 48 KLDEGSYTCFAENNRGKANSTGVLSV 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 = 30.0 bits (67), Expect = 1.0
Identities = 25/78 (32%), Positives = 31/78 (39%), Gaps = 18/78 (23%)
Query: 269 GKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSE--LLIYN 326
G+NV+L C P I W E M A+ EI S L I+N
Sbjct: 16 GQNVTLECFALGNPVPVIRW-----RKILEPMPAT-----------AEISMSGAVLKIFN 59
Query: 327 SNIDDNGTFVCVAENQAG 344
+D GT+ C AEN G
Sbjct: 60 IQPEDEGTYECEAENIKG 77
>gnl|CDD|143258 cd05850, Ig1_Contactin-2, First Ig domain of contactin-2.
Ig1_Contactin-2: First Ig domain of the neural cell
adhesion molecule contactin-2-like. Contactins are
comprised of six Ig domains followed by four fibronectin
type III (FnIII) domains anchored to the membrane by
glycosylphosphatidylinositol. Contactin-2 (TAG-1,
axonin-1) facilitates cell adhesion by homophilic
binding between molecules in apposed membranes. It may
play a part in the neuronal processes of neurite
outgrowth, axon guidance and fasciculation, and neuronal
migration. The first four Ig domains form the
intermolecular binding fragment, which arranges as a
compact U-shaped module by contacts between IG domains 1
and 4, and domains 2 and 3. The different contactins
show different expression patterns in the central
nervous system. During development and in adulthood,
contactin-2 is transiently expressed in subsets of
central and peripheral neurons. Contactin-2 is also
expressed in retinal amacrine cells in the developing
chick retina, corresponding to the period of formation
and maturation of AC processes.
Length = 94
Score = 29.5 bits (66), Expect = 1.5
Identities = 26/90 (28%), Positives = 39/90 (43%), Gaps = 13/90 (14%)
Query: 260 STFYLEIQEGKNVSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKK 319
S + E + V+L C+ A P A W +G I+ A ES Y+ G
Sbjct: 10 SLLFPEGSPEEKVTLGCRARASPPATYRWKMNGTEIK----FAPESR--YTLVAG----- 58
Query: 320 SELLIYN-SNIDDNGTFVCVAENQAGSTSS 348
L+I N D G++ C+A N+ G+ S
Sbjct: 59 -NLVINNPQKARDAGSYQCLAINRCGTVVS 87
>gnl|CDD|214433 MTH00148, ND3, NADH dehydrogenase subunit 3; Provisional.
Length = 117
Score = 29.8 bits (68), Expect = 1.9
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 361 VEVVTVFPLEYVLIVSGIISVCSLVLIFLLVL 392
VE+V +FP+ L S + + + IFLL+L
Sbjct: 69 VEIVLLFPVLQSLGSSFSVWSLTSLFIFLLIL 100
>gnl|CDD|165173 PHA02826, PHA02826, IL-1 receptor-like protein; Provisional.
Length = 227
Score = 31.0 bits (70), Expect = 1.9
Identities = 27/128 (21%), Positives = 46/128 (35%), Gaps = 32/128 (25%)
Query: 242 TIKQLSIDELACEPQITPSTFYLEIQEGKNVSLLCK-----VSAIPEAKITWLFDGVPIQ 296
TI+ L+ D T + GK+ L C S + +TW +G +
Sbjct: 127 TIR-LTFDS---------GTINYQFNSGKDSKLHCYGTDGISSTFKDYTLTWYKNGNIVL 176
Query: 297 NESMSASESHAVYSTEEGTEIKKSELLIYNSNIDDNGTFVCVAENQAGSTSSNYTIRIVL 356
++ S L+I ++ DD+G + C + S+NY I
Sbjct: 177 YTDRIQLRNN------------NSTLVIKSATHDDSGIYTCNL--RFNKNSNNYNIT--- 219
Query: 357 KEENVEVV 364
KE V ++
Sbjct: 220 KEYKVTII 227
>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 = 28.9 bits (64), Expect = 1.9
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 8/77 (10%)
Query: 272 VSLLCKVSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNIDD 331
V L C+VS +P +I W +NES++ + + I LLI + +D
Sbjct: 1 VRLECRVSGVPHPQIFW-----KKENESLTHNTDRVSMHQDNCGYIC---LLIQGATKED 52
Query: 332 NGTFVCVAENQAGSTSS 348
G + A+N+AG S
Sbjct: 53 AGWYTVSAKNEAGIVSC 69
>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 = 28.7 bits (64), Expect = 2.2
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 322 LLIYNSNIDDNGTFVCVAENQAGSTSSNYTIRI 354
L + N D+G +VC AEN GS +YT+ +
Sbjct: 38 LQLDNVLESDDGEYVCTAENSEGSARHHYTVTV 70
>gnl|CDD|240242 PTZ00046, PTZ00046, rifin; Provisional.
Length = 358
Score = 31.1 bits (71), Expect = 2.2
Identities = 14/34 (41%), Positives = 25/34 (73%), Gaps = 1/34 (2%)
Query: 374 IVSGIISVCSLVLIFLLVLCFLCFRRKKKKLKKK 407
I++ I+++ +VLI +++ L +RRKK K+KKK
Sbjct: 317 IIASIVAIVVIVLIMVIIYLILRYRRKK-KMKKK 349
>gnl|CDD|222432 pfam13882, Bravo_FIGEY, C-terminal domain of Fibronectin type III.
This is the very C-terminal region of neural adhesion
molecule L1 proteins that are also known as Bravo or
NrCAM. It lies upstream of the IG and Fn3 domains and
has the highly conserved motif FIGEY. The function is
not known.
Length = 118
Score = 29.6 bits (67), Expect = 2.2
Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 377 GIISVCSLVLIFLLVLCFLCFRRKKKKLKKKDESDKNV 414
G++ +L+L+ LL++CF R K K K++ D
Sbjct: 10 GLMCAIALLLLILLIVCF-IKRNKGGKYSVKEKEDAPG 46
>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 = 28.9 bits (65), Expect = 2.4
Identities = 17/72 (23%), Positives = 29/72 (40%), Gaps = 3/72 (4%)
Query: 278 VSAIPEAKITWLFDGVPIQNESMSASESHAVYSTEEGTEIKKSELLIYNSNIDDNGTFVC 337
V P+ +TW +G + +E H Y TE ++++ NG +
Sbjct: 7 VRGNPKPTLTWYHNGAVLNESDYIRTEIH--YEVTTPTEYHGCLQFDNPTHVN-NGNYTL 63
Query: 338 VAENQAGSTSSN 349
VA N+ G S +
Sbjct: 64 VASNEYGQDSKS 75
>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 = 29.2 bits (65), Expect = 2.4
Identities = 23/86 (26%), Positives = 34/86 (39%), Gaps = 23/86 (26%)
Query: 269 GKNVSLLCKVSAIPEAKITW--------LFDGVPIQNES-MSASESHAVYSTEEGTEIKK 319
G+ V+ C+ + P+ I W LF P Q+ S S S++
Sbjct: 1 GRTVTFQCEATGNPQPAIFWQKEGSQNLLFSYQPPQSSSRFSVSQT-------------- 46
Query: 320 SELLIYNSNIDDNGTFVCVAENQAGS 345
+L I N D G ++C N AGS
Sbjct: 47 GDLTITNVQRSDVGYYICQTLNVAGS 72
>gnl|CDD|227709 COG5422, ROM1, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases [Signal transduction
mechanisms].
Length = 1175
Score = 31.0 bits (70), Expect = 2.7
Identities = 21/134 (15%), Positives = 40/134 (29%), Gaps = 24/134 (17%)
Query: 598 YRTLPHR-RHTAANPNNRYSREAEFLSRSSQPASYEHYAPADVRYNI----------EGY 646
+ + P + + +S A + S + ++PA + G
Sbjct: 76 FSSSPKLFQRRNSAGPITHSPSATSSTSSLNSNDGDQFSPASDSLSFNPSSTQSRKDSGP 135
Query: 647 PSASPT-----PY-------SSAPRVTFTEPLHILQGQPMQSNPPTETTTKNEQTWTESS 694
SP P + P + FT+ G P + E + Q+ S
Sbjct: 136 GDGSPVQKRKNPLLPSSSTHGTHPPIVFTDNNGSHAGAPNARSRK-EIPSLGSQSMQLPS 194
Query: 695 ADEQPSTSNPEKSN 708
+ S+ + SN
Sbjct: 195 PHFRQKFSSSDTSN 208
>gnl|CDD|233233 TIGR01015, hmgA, homogentisate 1,2-dioxygenase. Missing in human
disease alkaptonuria [Energy metabolism, Amino acids and
amines].
Length = 429
Score = 30.9 bits (70), Expect = 2.8
Identities = 15/74 (20%), Positives = 22/74 (29%), Gaps = 14/74 (18%)
Query: 598 YRTLPHRRHTAANPNNRYSREAEFLSRSSQPASYEHYAPADVRYNIEGYPSASPTPYSSA 657
YR P H + + + P +R++ P P S
Sbjct: 58 YRIRPSAAHEP------FEPRDGNPGHVTANFDEQAPDPNQLRWS--------PFPIPSD 103
Query: 658 PRVTFTEPLHILQG 671
V F + LH L G
Sbjct: 104 EAVDFVDGLHTLCG 117
>gnl|CDD|239215 cd02864, Heme_Cu_Oxidase_III_1, Heme-copper oxidase subunit III
subfamily. Heme-copper oxidases are transmembrane
protein complexes in the respiratory chains of
prokaryotes and mitochondria which couple the reduction
of molecular oxygen to water to, proton pumping across
the membrane. The heme-copper oxidase superfamily is
diverse in terms of electron donors, subunit
composition, and heme types. This superfamily includes
cytochrome c and ubiquinol oxidases. Bacterial oxidases
typically contain 3 or 4 subunits in contrast to the 13
subunit bovine cytochrome c oxidase (CcO). Subunits I,
II, and III of mammalian CcO are encoded within the
mitochondrial genome and the remaining 10 subunits are
encoded within the nuclear genome. Subunits I, II and
III of ubiquinol oxidase are homologous to the
corresponding subunits in CcO. Although not required
for catalytic activity, subunit III is believed to play
a role in assembly of the multimer complex. Rhodobacter
CcO subunit III stabilizes the integrity of the
binuclear center in subunit I. It has been proposed
that Archaea acquired heme-copper oxidases through gene
transfer from Gram-positive bacteria.
Length = 202
Score = 30.2 bits (68), Expect = 2.8
Identities = 13/44 (29%), Positives = 17/44 (38%), Gaps = 10/44 (22%)
Query: 165 AAFVGLDSLEWLKLDNNKITTISGSNILP----------TGLHG 198
A FVG+ + EW KL + G+ TG HG
Sbjct: 104 ATFVGMQAFEWTKLIVEEGVRPWGNPWGAAQFGASFFMITGFHG 147
>gnl|CDD|146748 pfam04276, DUF443, Protein of unknown function (DUF443). Family of
uncharacterized proteins.
Length = 197
Score = 30.3 bits (69), Expect = 2.9
Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 364 VTVFPLEYVLIV--SGIISVCSLVLIFLLVLCFLCFRRKKKKLKKKDESDKN 413
+ PL + +I++ +++ L VL + KK KLK + + N
Sbjct: 73 NLLRPLTDYFNIQSEKLINIIICIIVILGVLILRLYINKKLKLKIYNRNKNN 124
>gnl|CDD|143255 cd05847, IgC_CH2_IgE, CH2 domain (second constant Ig domain of the
heavy chain) in immunoglobulin E (IgE). IgC_CH2_IgE:
The second constant domain of the heavy chain of
immunoglobulin E (IgE). The basic structure of
immunoglobulin (Ig) molecules is a tetramer of two light
chains and two heavy chains linked by disulfide bonds.
There are two types of light chains: kappa and lambda;
each composed of a constant domain and a variable
domain. There are five types of heavy chains: alpha,
delta, epsilon, gamma, and mu, all consisting of a
variable domain (VH) and three (in alpha, delta, and
gamma) or four (in epsilon and mu) constant domains (CH1
to CH4). The different classes of antibodies vary in
their heavy chains; the IgE class has the epsilon type.
This domain (Cepsilon2) of IgE is in place of the
flexible hinge region found in IgG.
Length = 94
Score = 28.5 bits (64), Expect = 3.4
Identities = 11/55 (20%), Positives = 21/55 (38%), Gaps = 5/55 (9%)
Query: 272 VSLLCKVS--AIPEAKITWLFDGVPIQN---ESMSASESHAVYSTEEGTEIKKSE 321
+ LLC +S ++ WL DG + E + +ST + + +
Sbjct: 17 IQLLCLISGYTPGTIEVEWLVDGQVATLVAASTAPQKEEGSTFSTTSELNVTQED 71
>gnl|CDD|178145 PLN02530, PLN02530, histidine-tRNA ligase.
Length = 487
Score = 30.5 bits (69), Expect = 3.5
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 250 ELACEPQITPSTFYLEIQEGKNVSLLCKVSAIPE 283
+A P++TPS L +Q+GK++SL K AI +
Sbjct: 139 RVALRPELTPSLARLVLQKGKSLSLPLKWFAIGQ 172
>gnl|CDD|216842 pfam02009, Rifin_STEVOR, Rifin/stevor family. Several multicopy
gene families have been described in Plasmodium
falciparum, including the stevor family of subtelomeric
open reading frames and the rif interspersed repetitive
elements. Both families contain three predicted
transmembrane segments. It has been proposed that stevor
and rif are members of a larger superfamily that code
for variant surface antigens.
Length = 290
Score = 30.0 bits (68), Expect = 4.0
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 359 ENVEVVTVFPLEYVLIVSGIISVCSLVLIFLLVLCF---LCFRRKKKKLKK 406
E+ E T+ L S ++++I L++L L +RRKKK KK
Sbjct: 231 ESDEAGTIITKATALFEPIYASAIAILIIVLVMLIIYLILRYRRKKKMKKK 281
>gnl|CDD|220828 pfam10630, DUF2476, Protein of unknown function (DUF2476). This is
a family of proteins of unknown function. The family is
rich in proline residues.
Length = 255
Score = 29.8 bits (66), Expect = 4.4
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 647 PSASPTPYSSAPRVTFTEPLHILQ---GQPMQSNPPTETTTKNEQT 689
PSASP S +PR ++ +L+ P+Q PP+ + EQ+
Sbjct: 196 PSASPVAESCSPRFIWSLKGSMLKPLPDSPLQPLPPSPSPNPQEQS 241
>gnl|CDD|143266 cd05858, Ig3_FGFR-2, Third immunoglobulin (Ig)-like domain of
fibroblast growth factor receptor 2 (FGFR2).
Ig3_FGFR-2-like; domain similar to the third
immunoglobulin (Ig)-like domain of human fibroblast
growth factor receptor 2 (FGFR2). Fibroblast growth
factors (FGFs) participate in morphogenesis,
development, angiogenesis, and wound healing. These
FGF-stimulated processes are mediated by four FGFR
tyrosine kinases (FGRF1-4). FGFRs are comprised of an
extracellular portion consisting of three Ig-like
domains, a transmembrane helix, and a cytoplasmic
portion having protein tyrosine kinase activity. The
highly conserved Ig-like domains 2 and 3, and the linker
region between D2 and D3 define a general binding site
for FGFs. FGFR2 is required for male sex determination.
Length = 90
Score = 28.0 bits (62), Expect = 4.8
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 19/87 (21%)
Query: 269 GKNVSLLCKVSAIPEAKITWL-----------FDGVPIQNESMSASESHAVYSTEEGTEI 317
G V +CKV + + I WL DG+P ++ ++ V +T++ E+
Sbjct: 1 GSTVEFVCKVYSDAQPHIQWLKHVEKNGSKYGPDGLP----YVTVLKTAGVNTTDKEMEV 56
Query: 318 KKSELLIYNSNIDDNGTFVCVAENQAG 344
L + N +D G + C+A N G
Sbjct: 57 ----LYLRNVTFEDAGEYTCLAGNSIG 79
>gnl|CDD|177125 MTH00050, ATP6, ATP synthase F0 subunit 6; Validated.
Length = 170
Score = 29.1 bits (66), Expect = 5.9
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 366 VFPLEYVLIVSGIISVCSLVLIFLLVLCFLCFR 398
+F L Y LI+ G +S V++F+++ FL +R
Sbjct: 9 LFSLIYKLILGGSVSYYYSVVLFIVLFLFLLYR 41
>gnl|CDD|223604 COG0530, ECM27, Ca2+/Na+ antiporter [Inorganic ion transport and
metabolism].
Length = 320
Score = 29.5 bits (67), Expect = 5.9
Identities = 16/73 (21%), Positives = 30/73 (41%), Gaps = 16/73 (21%)
Query: 351 TIRIVLKEENVEVVTVF---PLEYVLIVSGIISVCS-------------LVLIFLLVLCF 394
+I K E+ V + +LIV GI ++ VLI + +L
Sbjct: 229 SIVAARKGEDDIAVGNVIGSNIFNILIVLGISALIGPITVEPSALLVDAPVLILVTLLLL 288
Query: 395 LCFRRKKKKLKKK 407
L R+++++ +K
Sbjct: 289 LFLARRRRRIGRK 301
>gnl|CDD|222242 pfam13584, BatD, Oxygen tolerance. This family of proteins carries
up to three membrane spanning regions and is involved in
tolerance to oxygen in in Bacteroides spp.
Length = 488
Score = 29.9 bits (68), Expect = 6.3
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 383 SLVLIFLLVLCFLCFRRKKKKLKKKDESDKNVNGSNENVVKNLRE 427
L+L LL + L RK++ + D + +N+ K L+E
Sbjct: 434 LLLLPLLLFVLLLILYRKRRA-RNADVAGNRTKKANKLAKKRLKE 477
>gnl|CDD|233023 TIGR00557, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase.
This model represents PdxA, an NAD+-dependent
4-hydroxythreonine 4-phosphate dehydrogenase (EC
1.1.1.262) active in pyridoxal phosphate biosynthesis
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Pyridoxine].
Length = 320
Score = 29.4 bits (67), Expect = 7.0
Identities = 11/61 (18%), Positives = 23/61 (37%), Gaps = 2/61 (3%)
Query: 201 LHHNPWTCDCLLIGLRRWLESTKTPMAIDPICSV--PPRLSSVTIKQLSIDELACEPQIT 258
L C ++IG LE+ + + P+ + P ++ L + + +T
Sbjct: 21 LAQLAELCPPVVIGDPALLEARAKLLGLLPLVDIDAPEDAAAAFPGALPVLPVPLAAPVT 80
Query: 259 P 259
P
Sbjct: 81 P 81
>gnl|CDD|143653 cd07912, Tweety_N, N-terminal domain of the protein encoded by the
Drosophila tweety gene and related proteins, a family of
chloride ion channels. The protein product of the
Drosophila tweety (tty) gene is thought to form a
trans-membrane protein with five membrane-spanning
regions and a cytoplasmic C-terminus. This N-terminal
domain contains the putative transmembrane spanning
regions. Tweety has been suggested as a candidate for a
large conductance chloride channel, both in vertebrate
and insect cells. Three human homologs have been
identified and designated TTYH1-3. TTYH2 has been
associated with the progression of cancer, and
Drosophila melanogaster tweety has been assumed to play
a role in development. TTYH2, and TTYH3 bind to and are
ubiquinated by Nedd4-2, a HECT type E3 ubiquitin ligase,
which most likely plays a role in controlling the
cellular levels of tweety family proteins.
Length = 418
Score = 29.6 bits (67), Expect = 7.2
Identities = 11/43 (25%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 369 LEYVLIVSGIISVCSLV-LIFLLV--LCFLCFRRKKKKLKKKD 408
+ +LI++ I + C ++ L+FLLV + C R+ ++ +
Sbjct: 36 QQSLLILASIPAACLILSLLFLLVYLITRCCDRKPTEERPRHS 78
>gnl|CDD|173968 cd08050, TAF6, TATA Binding Protein (TBP) Associated Factor 6
(TAF6) is one of several TAFs that bind TBP and is
involved in forming Transcription Factor IID (TFIID)
complex. The TATA Binding Protein (TBP) Associated
Factor 6 (TAF6) is one of several TAFs that bind TBP and
are involved in forming Transcription Factor IID (TFIID)
complex. TFIID is one of seven General Transcription
Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and
TFIID) that are involved in accurate initiation of
transcription by RNA polymerase II in eukaryotes. TFIID
plays an important role in the recognition of promoter
DNA and assembly of the pre-initiation complex. TFIID
complex is composed of the TBP and at least 13 TAFs.
TAFs are named after their electrophoretic mobility in
polyacrylamide gels in different species. A new, unified
nomenclature has been suggested for the pol II TAFs to
show the relationship between TAF orthologs and
paralogs. Several hypotheses are proposed for TAFs
functions such as serving as activator-binding sites,
core-promoter recognition or a role in essential
catalytic activity. These TAFs, with the help of
specific activators, are required only for expression of
a subset of genes and are not universally involved for
transcription as are GTFs. In yeast and human cells,
TAFs have been found as components of other complexes
besides TFIID. Several TAFs interact via histone-fold
(HFD) motifs; the HFD is the interaction motif involved
in heterodimerization of the core histones and their
assembly into nucleosome octamers. The minimal HFD
contains three alpha-helices linked by two loops and is
found in core histones, TAFs and many other
transcription factors. TFIID has a histone octamer-like
substructure. TAF6 is a shared subunit of histone
acetyltransferase complex SAGA and TFIID complexes. TAF6
domain interacts with TAF9 and makes a novel
histone-like heterodimer that is structurally related to
histones H4 and H3. TAF6 may also interact with the
downstream core promoter element (DPE).
Length = 343
Score = 29.2 bits (66), Expect = 7.8
Identities = 10/31 (32%), Positives = 18/31 (58%), Gaps = 4/31 (12%)
Query: 720 HMIDSLLKNRDVKVGSHLHPHRGLMLPPVLT 750
M+ +LL N ++ + +LH ++P VLT
Sbjct: 239 RMVRALLDNPNLHLEPYLH----QLIPSVLT 265
>gnl|CDD|143287 cd05879, Ig_P0, Immunoglobulin (Ig)-like domain of Protein zero
(P0). Ig_P0ex: immunoglobulin (Ig) domain of Protein
zero (P0). P0 accounts for over 50% of the total protein
in peripheral nervous system (PNS) myelin. P0 is a
single-pass transmembrane glycoprotein with a highly
basic intracellular domain and an Ig domain. The
extracellular domain of P0 (P0-ED) is similar to the Ig
variable domain, carrying one acceptor sequence for
N-linked glycosylation. P0 plays a role in membrane
adhesion in the spiral wraps of the myelin sheath. The
intracellular domain is thought to mediate membrane
apposition of the cytoplasmic faces and may, through
electrostatic interactions, interact directly with lipid
headgroups. It is thought that homophilic interactions
of the P0 extracellular domain mediate membrane
juxtaposition in the extracellular space of PNS myelin.
Length = 116
Score = 27.9 bits (62), Expect = 7.8
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 318 KKSELLIYNSNIDDNGTFVCVAEN 341
K ++I+N + DNGTF C +N
Sbjct: 78 KDGSIVIHNLDYTDNGTFTCDVKN 101
>gnl|CDD|222635 pfam14264, Glucos_trans_II, Glucosyl transferase GtrII. This
family includes glucosyl transferase II from the
Shigella phage SfII, which mediates seroconversion of S.
flexneri when the phage is integrated into the host
chromosome.
Length = 317
Score = 29.1 bits (66), Expect = 8.1
Identities = 9/27 (33%), Positives = 17/27 (62%)
Query: 381 VCSLVLIFLLVLCFLCFRRKKKKLKKK 407
+ L+L+FLL++ + +RKK+K
Sbjct: 246 LIVLLLLFLLLILLVVRKRKKRKKPLA 272
>gnl|CDD|235798 PRK06416, PRK06416, dihydrolipoamide dehydrogenase; Reviewed.
Length = 462
Score = 29.3 bits (67), Expect = 8.9
Identities = 14/37 (37%), Positives = 16/37 (43%), Gaps = 5/37 (13%)
Query: 629 ASYEHYAPADVRYNIEGYPSASPTPYSSAPRVTFTEP 665
AS E A+ I G P P Y P VT+T P
Sbjct: 320 ASAEGIIAAE---AIAGNPH--PIDYRGIPAVTYTHP 351
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.315 0.131 0.389
Gapped
Lambda K H
0.267 0.0637 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 37,684,298
Number of extensions: 3578170
Number of successful extensions: 3043
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2966
Number of HSP's successfully gapped: 140
Length of query: 767
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 663
Effective length of database: 6,324,786
Effective search space: 4193333118
Effective search space used: 4193333118
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: 63 (28.2 bits)