RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17097
(130 letters)
>gnl|CDD|216481 pfam01404, Ephrin_lbd, Ephrin receptor ligand binding domain. The
Eph receptors, which bind to ephrins pfam00812 are a
large family of receptor tyrosine kinases. This family
represents the amino terminal domain which binds the
ephrin ligand.
Length = 178
Score = 195 bits (498), Expect = 2e-65
Identities = 73/151 (48%), Positives = 94/151 (62%), Gaps = 22/151 (14%)
Query: 1 WVEESFTNFEKGINWRSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFP 60
W E S + E G R+Y VC+V N NNWL T FIERG A RIY+E+KFT+RDC+ FP
Sbjct: 24 WEEVSGVD-ENGRPIRTYQVCNVMEPNQNNWLRTNFIERGGAQRIYVELKFTVRDCSSFP 82
Query: 61 GNALSCKETFSLLYYEFDA--ATREPPPWEPESYKLI------------------VNINT 100
G A SCKETF+L YYE D A +EPP W Y I + +NT
Sbjct: 83 GVAGSCKETFNLYYYESDTDYAGKEPPNWRESPYTKIDTIAADESFTQRDLGSRVMKLNT 142
Query: 101 EVKSI-PVTKKGVYFAFRDQGACISLLAIKV 130
E +SI P++K+G Y AF+DQGAC++LL+++V
Sbjct: 143 ETRSIGPLSKRGFYLAFQDQGACMALLSVRV 173
>gnl|CDD|198439 cd10319, EphR_LBD, Ligand Binding Domain of Ephrin Receptors.
Ephrin receptors (EphRs) comprise the largest subfamily
of receptor tyrosine kinases (RTKs). They are subdivided
into 2 groups, A and B type receptors, depending on
their ligand ephrin-A or ephrin-B, respectively. In
general, class EphA receptors bind GPI-anchored ephrin-A
ligands. There are ten vertebrate EphA receptors
(EphA1-10), which display promiscuous interactions with
six ephrin-A ligands. Class EphB receptors bind to
transmembrane ephrin-B ligands. There are six vertebrate
EhpB receptors (EphB1-6), which display promiscuous
interactions with three ephrin-B ligands. One exception
is EphB2, which also interacts with ephrin A5. EphRs
contain a ligand binding domain and two fibronectin
repeats extracellularly, a transmembrane segment, and a
cytoplasmic tyrosine kinase domain. Binding of the
ephrin ligand to EphR requires cell-cell contact since
both are anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling). Ephrin/EphR
interaction mainly results in cell-cell repulsion or
adhesion, making it important in neural development and
plasticity, cell morphogenesis, cell-fate determination,
embryonic development, tissue patterning, and
angiogenesis.
Length = 177
Score = 189 bits (483), Expect = 5e-63
Identities = 80/150 (53%), Positives = 99/150 (66%), Gaps = 21/150 (14%)
Query: 1 WVEESFTNFEKGINWRSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFP 60
W EES + + G N R+YVVC+VA N +NWL TPFIER A RIY+E+KFT+RDC FP
Sbjct: 25 WDEESGLDPD-GANIRTYVVCNVAMPNQDNWLRTPFIERRGAQRIYVELKFTVRDCESFP 83
Query: 61 GNALSCKETFSLLYYEFDA--ATREPPPWEPESYKLI-----------------VNINTE 101
GNA SCKETF+L YYE D AT+E PPW + Y I +NTE
Sbjct: 84 GNARSCKETFNLYYYESDHDTATKEFPPWNEDPYTKIDTIAADESFKSSNEDTTEKLNTE 143
Query: 102 VKSI-PVTKKGVYFAFRDQGACISLLAIKV 130
+SI P+TK+G Y AF+DQGAC+SLL++KV
Sbjct: 144 TRSIGPLTKRGFYLAFQDQGACMSLLSVKV 173
>gnl|CDD|128877 smart00615, EPH_lbd, Ephrin receptor ligand binding domain.
Length = 177
Score = 167 bits (425), Expect = 4e-54
Identities = 68/151 (45%), Positives = 88/151 (58%), Gaps = 22/151 (14%)
Query: 1 WVEESFTNFEKGINWRSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFP 60
W E S + E G R+Y VC+V N NNWL T FI R A RIY+E+KFT+RDC+ P
Sbjct: 24 WEEVSGMD-ENGTPIRTYQVCNVQEGNQNNWLRTNFIRRRGAQRIYVELKFTVRDCSSLP 82
Query: 61 GNALSCKETFSLLYYEFDA--ATREPPPWEPESYKLIVNI------------------NT 100
G SCKETF+L YYE D AT P W Y + I NT
Sbjct: 83 GVGGSCKETFNLYYYESDTDTATNTLPNWMENPYTKVDTIAADESFTGGDVGKRNVKLNT 142
Query: 101 EVKSI-PVTKKGVYFAFRDQGACISLLAIKV 130
EV+S+ P++KKG Y AF+DQGAC++L++++V
Sbjct: 143 EVRSLGPLSKKGFYLAFQDQGACVALVSVRV 173
>gnl|CDD|198441 cd10473, EphR_LBD_A, Ligand Binding Domain of Ephrin type-A
Receptors. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphA receptors bind GPI-anchored ephrin-A ligands.
There are ten vertebrate EphA receptors (EphA1-10),
which display promiscuous interactions with six ephrin-A
ligands. EphRs contain a ligand binding domain and two
fibronectin repeats extracellularly, a transmembrane
segment, and a cytoplasmic tyrosine kinase domain.
Binding of the ephrin ligand to EphR requires cell-cell
contact since both are anchored to the plasma membrane.
The resulting downstream signals occur bidirectionally
in both EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling). Ephrin/EphR
interaction mainly results in cell-cell repulsion or
adhesion, making it important in neural development and
plasticity, cell morphogenesis, cell-fate determination,
embryonic development, tissue patterning, and
angiogenesis.
Length = 173
Score = 122 bits (309), Expect = 1e-36
Identities = 61/132 (46%), Positives = 82/132 (62%), Gaps = 17/132 (12%)
Query: 16 RSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLLYY 75
R+Y VC+V N NNWL T +I RG A RIYIE+KFT+RDC FPG +CKETF+L Y
Sbjct: 38 RTYQVCNVMEPNQNNWLRTNWIYRGEAQRIYIELKFTLRDCNSFPGVLGTCKETFNLYYM 97
Query: 76 EFDA----ATREPPPWE------PESYKL------IVNINTEVKSI-PVTKKGVYFAFRD 118
E D RE + ES+ I+ +NTEV+ + P+TKKG Y AF+D
Sbjct: 98 ESDLDLGRNIRENQFTKIDTIAADESFTQGDLGDRIMKLNTEVREVGPLTKKGFYLAFQD 157
Query: 119 QGACISLLAIKV 130
GAC++L++++V
Sbjct: 158 VGACVALVSVRV 169
>gnl|CDD|198440 cd10472, EphR_LBD_B, Ligand Binding Domain of Ephrin type-B
receptors. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphB receptors bind to transmembrane ephrin-B
ligands. They play important roles in synapse formation
and plasticity, spine morphogenesis, axon guidance, and
angiogenesis. In the intestinal epithelium, EphB
receptors are Wnt signaling target genes that control
cell compartmentalization. They function as suppressors
of colon cancer progression. There are six vertebrate
EhpB receptors (EphB1-6), which display promiscuous
interactions with three ephrin-B ligands. One exception
is EphB2, which also interacts with ephrin A5. EphRs
contain a ligand binding domain and two fibronectin
repeats extracellularly, a transmembrane segment, and a
cytoplasmic tyrosine kinase domain. Binding of the
ephrin ligand to EphR requires cell-cell contact since
both are anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling). Ephrin/EphR
interaction mainly results in cell-cell repulsion or
adhesion, making it important in neural development and
plasticity, cell morphogenesis, cell-fate determination,
embryonic development, tissue patterning, and
angiogenesis.
Length = 176
Score = 118 bits (298), Expect = 5e-35
Identities = 59/136 (43%), Positives = 83/136 (61%), Gaps = 21/136 (15%)
Query: 16 RSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLLYY 75
R+Y VC+V N NNWL T FI R A+R+Y+E+KFT+RDC+ P SCKETF+L YY
Sbjct: 37 RTYQVCNVFESNQNNWLRTKFIRRRGAHRVYVEMKFTVRDCSSIPNVPGSCKETFNLYYY 96
Query: 76 E--FDAATREPPPW------------EPESYKLI------VNINTEVKSI-PVTKKGVYF 114
E D AT+ P W ES+ + + +NTEV+S P+++ G Y
Sbjct: 97 ESDSDIATKTSPFWMENPYVKVDTIAADESFSQVDLGGRVMKVNTEVRSFGPLSRNGFYL 156
Query: 115 AFRDQGACISLLAIKV 130
AF+D GAC+SL++++V
Sbjct: 157 AFQDYGACMSLISVRV 172
>gnl|CDD|198445 cd10477, EphR_LBD_B2, Ligand Binding Domain of Ephrin type-B
Receptor 2. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphB receptors bind to transmembrane ephrin-B
ligands. There are six vertebrate EhpB receptors
(EphB1-6), which display promiscuous interactions with
three ephrin-B ligands. EphB2 plays a role in cell
positioning in the gastrointestinal tract by being
expressed in proliferating progenitor cells. It also has
been implicated in colorectal cancer. A loss of EphB2,
as well as EphA4, also precedes memory decline in a
murine model of Alzheimers disease. EphRs contain a
ligand binding domain and two fibronectin repeats
extracellularly, a transmembrane segment, and a
cytoplasmic tyrosine kinase domain. Binding of the
ephrin ligand to EphR requires cell-cell contact since
both are anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling).
Length = 178
Score = 112 bits (281), Expect = 2e-32
Identities = 61/149 (40%), Positives = 91/149 (61%), Gaps = 22/149 (14%)
Query: 4 ESFTNFEKGINW-RSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGN 62
E + +++ +N R+Y VC+V + NNWL T +I R A+RI++E+KF++RDC+ P
Sbjct: 26 EEVSGYDENMNTIRTYQVCNVFESSQNNWLRTKYIRRRGAHRIHVEMKFSVRDCSSIPSV 85
Query: 63 ALSCKETFSLLYYE--FDAATREPPPW------------EPESYKL------IVNINTEV 102
SCKETF+L YYE FD+AT+ P W ES+ ++ INTEV
Sbjct: 86 PGSCKETFNLYYYESDFDSATKTFPNWMENPWVKVDTIAADESFSQVDLGGRVMKINTEV 145
Query: 103 KSI-PVTKKGVYFAFRDQGACISLLAIKV 130
+S PV++ G Y AF+D G C+SL+A++V
Sbjct: 146 RSFGPVSRNGFYLAFQDYGGCMSLIAVRV 174
>gnl|CDD|198446 cd10478, EphR_LBD_B3, Ligand Binding Domain of Ephrin type-B
Receptor 3. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphB receptors bind to transmembrane ephrin-B
ligands. There are six vertebrate EhpB receptors
(EphB1-6), which display promiscuous interactions with
three ephrin-B ligands. EphB3 plays a role in cell
positioning in the gastrointestinal tract by being
preferentially expressed in Paneth cells. It also has
been implicated in early colorectal cancer and early
stage squamous cell lung cancer. EphRs contain a ligand
binding domain and two fibronectin repeats
extracellularly, a transmembrane segment, and a
cytoplasmic tyrosine kinase domain. Binding of the
ephrin ligand to EphR requires cell-cell contact since
both are anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling).
Length = 173
Score = 110 bits (275), Expect = 1e-31
Identities = 56/132 (42%), Positives = 77/132 (58%), Gaps = 17/132 (12%)
Query: 16 RSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLLYY 75
R+Y VC+V N NNWL T FI R + R+Y+E+KFT+RDC P SCKETF+L YY
Sbjct: 38 RTYQVCNVRESNQNNWLRTGFIPRRDVQRVYVELKFTVRDCNSIPNIPGSCKETFNLFYY 97
Query: 76 EFDA--ATREPPPWEPESYKLIVNI--------------NTEVKSI-PVTKKGVYFAFRD 118
E D+ A+ P W Y + I NT+V+S P++K G Y AF+D
Sbjct: 98 ESDSDSASASSPFWMENPYVKVDTIAPDESFSRLDSGRVNTKVRSFGPLSKAGFYLAFQD 157
Query: 119 QGACISLLAIKV 130
GAC+SL++++
Sbjct: 158 LGACMSLISVRA 169
>gnl|CDD|198444 cd10476, EphR_LBD_B1, Ligand Binding Domain of Ephrin type-B
Receptor 1. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphB receptors bind to transmembrane ephrin-B
ligands. There are six vertebrate EhpB receptors
(EphB1-6), which display promiscuous interactions with
three ephrin-B ligands. Using EphB1 knockout-mice, EphB1
has been shown to be essential to the development of
long-term potentiation (LTP), a cellular model of
synaptic plasticity, learning and memory formation.
EphRs contain a ligand binding domain and two
fibronectin repeats extracellularly, a transmembrane
segment, and a cytoplasmic tyrosine kinase domain.
Binding of the ephrin ligand to EphR requires cell-cell
contact since both are anchored to the plasma membrane.
The resulting downstream signals occur bidirectionally
in both EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling).
Length = 176
Score = 107 bits (267), Expect = 2e-30
Identities = 61/149 (40%), Positives = 88/149 (59%), Gaps = 22/149 (14%)
Query: 4 ESFTNFEKGINW-RSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGN 62
E + +++ +N R+Y VC+V N NNWL T FI R A+RIY E++FT+RDC+ P
Sbjct: 24 EEVSGYDENLNTIRTYQVCNVFEPNQNNWLLTTFINRRGAHRIYTEMRFTVRDCSSLPNV 83
Query: 63 ALSCKETFSLLYYEFDA--ATREPPPWEPESY------------------KLIVNINTEV 102
SCKETF+L YYE D+ AT++ W Y ++ +NTEV
Sbjct: 84 PGSCKETFNLYYYETDSVIATKKSAFWTEAPYLKVDTIAADESFSQVDFGGRLMKVNTEV 143
Query: 103 KSI-PVTKKGVYFAFRDQGACISLLAIKV 130
+S P+T+ G Y AF+D GAC+SLL+++V
Sbjct: 144 RSFGPLTRNGFYLAFQDYGACMSLLSVRV 172
>gnl|CDD|198450 cd10482, EphR_LBD_A4, Ligand Binding Domain of Ephrin type-A
Receptor 4. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphA receptors bind GPI-anchored ephrin-A ligands.
There are ten vertebrate EphA receptors (EphA1-10),
which display promiscuous interactions with six ephrin-A
ligands. A loss of EphA4, as well as EphB2, precedes
memory decline in a murine model of Alzheimers disease.
EphA4 has been shown to have a negative effect on axon
regeneration and functional restoration in corticospinal
lesions and is downregulated in some cervical cancers.
EphRs contain a ligand binding domain and two
fibronectin repeats extracellularly, a transmembrane
segment, and a cytoplasmic tyrosine kinase domain.
Binding of the ephrin ligand to EphR requires cell-cell
contact since both are anchored to the plasma membrane.
The resulting downstream signals occur bidirectionally
in both EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling).
Length = 174
Score = 106 bits (265), Expect = 3e-30
Identities = 62/148 (41%), Positives = 87/148 (58%), Gaps = 20/148 (13%)
Query: 1 WVEESFTNFEKGINWRSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFP 60
W E S + EK R+Y VC+V + NNWL T +I R A R+YIEIKFT+RDC P
Sbjct: 25 WEEVSIMD-EKNTPIRTYQVCNVMEPSQNNWLRTDWIPREGAQRVYIEIKFTLRDCNSLP 83
Query: 61 GNALSCKETFSLLYYEFDAATREPPPWEPESYKL-----------------IVNINTEVK 103
G +CKETF+L YYE + +E E + K+ I+ +NTEV+
Sbjct: 84 GVMGTCKETFNLYYYESNN-DKERFIRENQFVKIDTIAADESFTQVDIGDRIMKLNTEVR 142
Query: 104 SI-PVTKKGVYFAFRDQGACISLLAIKV 130
+ P++KKG Y AF+D GACI+L++++V
Sbjct: 143 DVGPLSKKGFYLAFQDVGACIALVSVRV 170
>gnl|CDD|198453 cd10485, EphR_LBD_A7, Ligand Binding Domain of Ephrin type-A
Receptor 7. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphA receptors bind GPI-anchored ephrin-A ligands.
There are ten vertebrate EphA receptors (EphA1-10),
which display promiscuous interactions with six ephrin-A
ligands. EphA7 has been implicated in various cancers,
including prostate, gastic and colorectal cancers. EphRs
contain a ligand binding domain and two fibronectin
repeats extracellularly, a transmembrane segment, and a
cytoplasmic tyrosine kinase domain. Binding of the
ephrin ligand to EphR requires cell-cell contact since
both are anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling).
Length = 177
Score = 105 bits (264), Expect = 6e-30
Identities = 61/132 (46%), Positives = 83/132 (62%), Gaps = 17/132 (12%)
Query: 16 RSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLLYY 75
R+Y VC V N NNWL T +I +GNA RI++E+KFT+RDC PG +CKETF+L YY
Sbjct: 40 RTYQVCQVMEPNQNNWLRTNWISKGNAQRIFVELKFTLRDCNSLPGVLGTCKETFNLYYY 99
Query: 76 EFDAAT----REPPPWE------PESY------KLIVNINTEVKSI-PVTKKGVYFAFRD 118
E D T RE + ES+ + + +NTEV+ I P++KKG Y AF+D
Sbjct: 100 ETDYDTGRNIRENQYVKIDTIAADESFTQGDLGERKMKLNTEVREIGPLSKKGFYLAFQD 159
Query: 119 QGACISLLAIKV 130
GACI+L+++KV
Sbjct: 160 VGACIALVSVKV 171
>gnl|CDD|198448 cd10480, EphR_LBD_A2, Ligand Binding Domain of Ephrin type-A
Receptor 2. EphRs comprise the largest subfamily of
receptor tyr kinases (RTKs). Class EphA receptors bind
GPI-anchored ephrin-A ligands. There are ten vertebrate
EphA receptors (EphA1-10), which display promiscuous
interactions with six ephrin-A ligands. EphA2 negatively
regulates cell differentiation and has been shown to be
overexpressed in tumor cells and tumor blood vessels in
a variety of cancers including breast, prostate, lung,
and colon. As a result, it is an attractive target for
drug design since its inhibition could affect several
aspects of tumor progression. EphRs contain a ligand
binding domain and two fibronectin repeats
extracellularly, a transmembrane segment, and a
cytoplasmic tyrosine kinase domain. Binding of the
ephrin ligand to EphR requires cell-cell contact since
both are anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling). Ephrin/EphR
interaction mainly results in cell-cell repulsion or
adhesion.
Length = 174
Score = 104 bits (262), Expect = 1e-29
Identities = 56/130 (43%), Positives = 74/130 (56%), Gaps = 17/130 (13%)
Query: 18 YVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLLYYEF 77
Y VC+V +NWL T +I R A RI+IE+KFT+RDC FPG A SCKETF+L Y E
Sbjct: 40 YSVCNVMSGEQDNWLRTNWIYRSEAERIFIELKFTVRDCNSFPGGAGSCKETFNLYYAES 99
Query: 78 DA--------------ATREPPPWEPES--YKLIVNINTEVKSI-PVTKKGVYFAFRDQG 120
D T P S V +N E +S+ P+T+KG Y AF+D G
Sbjct: 100 DVDYGTNFQKRQFRKIDTIAPDEITVSSDFETRNVKLNVEERSVGPLTRKGFYLAFQDIG 159
Query: 121 ACISLLAIKV 130
AC++LL+++V
Sbjct: 160 ACVALLSVRV 169
>gnl|CDD|198455 cd10487, EphR_LBD_A10, Ligand Binding Domain of Ephrin type-A
Receptor 10. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphA receptors bind GPI-anchored ephrin-A ligands.
There are ten vertebrate EphA receptors (EphA1-10),
which display promiscuous interactions with six ephrin-A
ligands. EphA10, which contains an inactive tyr kinase
domain, may function to attenuate signals of
co-clustered active receptors. EphA10 is mainly
expressed in the testis. EphRs contain a ligand binding
domain and two fibronectin repeats extracellularly, a
transmembrane segment, and a cytoplasmic tyrosine kinase
domain. Binding of the ephrin ligand to EphR requires
cell-cell contact since both are anchored to the plasma
membrane. The resulting downstream signals occur
bidirectionally in both EphR-expressing cells (forward
signaling) and ephrin-expressing cells (reverse
signaling). Ephrin/EphR interaction results in cell-cell
repulsion or adhesion.
Length = 173
Score = 103 bits (257), Expect = 6e-29
Identities = 55/132 (41%), Positives = 82/132 (62%), Gaps = 17/132 (12%)
Query: 16 RSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLLYY 75
R+Y VC+V N NNWL T +I RG RI+IE++FT+RDC PG A +CKETF+L Y
Sbjct: 38 RTYQVCNVMEPNQNNWLQTGWISRGRGQRIFIELQFTLRDCNSIPGVAGTCKETFNLYYA 97
Query: 76 EFDA----ATREPPPWE------PESY------KLIVNINTEVKSI-PVTKKGVYFAFRD 118
E DA RE P + ES+ + + +NTEV+ I ++++G + AF+D
Sbjct: 98 ESDADLGRRLRESRPRKIDTIAADESFTQGDLGERKMKLNTEVREIGHLSRRGFHLAFQD 157
Query: 119 QGACISLLAIKV 130
GAC++L++++V
Sbjct: 158 VGACVALVSVRV 169
>gnl|CDD|198451 cd10483, EphR_LBD_A5, Ligand Binding Domain of Ephrin type-A
Receptor 5. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphA receptors bind GPI-anchored ephrin-A ligands.
There are ten vertebrate EphA receptors (EphA1-10),
which display promiscuous interactions with six ephrin-A
ligands. EphA5 is almost exclusively expressed in the
nervous system. EphRs contain a ligand binding domain
and two fibronectin repeats extracellularly, a
transmembrane segment, and a cytoplasmic tyrosine kinase
domain. Binding of the ephrin ligand to EphR requires
cell-cell contact since both are anchored to the plasma
membrane. The resulting downstream signals occur
bidirectionally in both EphR-expressing cells (forward
signaling) and ephrin-expressing cells (reverse
signaling).
Length = 173
Score = 100 bits (251), Expect = 5e-28
Identities = 52/131 (39%), Positives = 76/131 (58%), Gaps = 17/131 (12%)
Query: 17 SYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLLYYE 76
+Y VC V N NNWL T +I A+RI+IE+KFT+RDC PG +CKETF++ Y+E
Sbjct: 39 TYQVCKVMEQNQNNWLLTSWISNEGASRIFIELKFTLRDCNSLPGGLGTCKETFNVYYFE 98
Query: 77 ----------------FDAATREPPPWEPESYKLIVNINTEVKSI-PVTKKGVYFAFRDQ 119
D + E + ++ +NTEV+ + P+TKKG Y AF+D
Sbjct: 99 SNDEDGRNIRENQYIKIDTIAADESFTELDLGDRVMKLNTEVRDVGPLTKKGFYLAFQDL 158
Query: 120 GACISLLAIKV 130
GACI+L++++V
Sbjct: 159 GACIALVSVRV 169
>gnl|CDD|198454 cd10486, EphR_LBD_A8, Ligand Binding Domain of Ephrin type-A
Receptor 8. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphA receptors bind GPI-anchored ephrin-A ligands.
There are ten vertebrate EphA receptors (EphA1-10),
which display promiscuous interactions with six ephrin-A
ligands. EphA8 has been implicated in various cancers.
EphRs contain a ligand binding domain and two
fibronectin repeats extracellularly, a transmembrane
segment, and a cytoplasmic tyrosine kinase domain.
Binding of the ephrin ligand to EphR requires cell-cell
contact since both are anchored to the plasma membrane.
The resulting downstream signals occur bidirectionally
in both EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling).
Length = 173
Score = 100 bits (249), Expect = 9e-28
Identities = 54/131 (41%), Positives = 81/131 (61%), Gaps = 17/131 (12%)
Query: 17 SYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLLYYE 76
+Y VC+V N NNWL T +++R A R+Y EIKFT+RDC PG +CKETF+L YYE
Sbjct: 39 TYQVCNVMSPNQNNWLRTNWVQRDGARRVYAEIKFTLRDCNSMPGVLGTCKETFNLYYYE 98
Query: 77 FD----AATREPPPWE------PESYKLI------VNINTEVKSI-PVTKKGVYFAFRDQ 119
D +T E + ES+ + + +NTEV+ + P++K+G Y AF+D
Sbjct: 99 SDRDLGTSTWESQFLKIDTIAADESFTNVDLGVRRLKLNTEVRGVGPLSKRGFYLAFQDI 158
Query: 120 GACISLLAIKV 130
GACI++++++V
Sbjct: 159 GACIAIVSVRV 169
>gnl|CDD|198449 cd10481, EphR_LBD_A3, Ligand Binding Domain of Ephrin type-A
Receptor 3. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphA receptors bind GPI-anchored ephrin-A ligands.
There are ten vertebrate EphA receptors (EphA1-10),
which display promiscuous interactions with six ephrin-A
ligands. EphA3 has been implicated in leukemia, lung and
other cancers. EphRs contain a ligand binding domain and
two fibronectin repeats extracellularly, a transmembrane
segment, and a cytoplasmic tyrosine kinase domain.
Binding of the ephrin ligand to EphR requires cell-cell
contact since both are anchored to the plasma membrane.
The resulting downstream signals occur bidirectionally
in both EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling). Ephrin/EphR
interaction mainly results in cell-cell repulsion or
adhesion.
Length = 173
Score = 99.7 bits (248), Expect = 1e-27
Identities = 55/132 (41%), Positives = 80/132 (60%), Gaps = 17/132 (12%)
Query: 16 RSYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLLYY 75
R+Y VC+V H+ NNWL T +I R +A +IY+E+KFT+RDC P +CKETF+L Y
Sbjct: 38 RTYQVCNVMDHSQNNWLRTNWIPRNSAQKIYVELKFTLRDCNSIPLVLGTCKETFNLYYM 97
Query: 76 EFDAA----------TREPPPWEPESYKL------IVNINTEVKSI-PVTKKGVYFAFRD 118
E D T+ ES+ I+ +NTEV+ + PV+KKG Y AF+D
Sbjct: 98 ESDEDQGVKFREHQFTKIDTIAADESFTQMDLGDRILKLNTEVREVGPVSKKGFYLAFQD 157
Query: 119 QGACISLLAIKV 130
GAC++L++++V
Sbjct: 158 VGACVALVSVRV 169
>gnl|CDD|198442 cd10474, EphR_LBD_B4, Ligand Binding Domain of Ephrin type-B
Receptor 4. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphB receptors bind to transmembrane ephrin-B
ligands. There are six vertebrate EhpB receptors
(EphB1-6), which display promiscuous interactions with
three ephrin-B ligands. EphB4 plays a role in osteoblast
differentiation and has been linked to multiple myeloma.
EphRs contain a ligand binding domain and two
fibronectin repeats extracellularly, a transmembrane
segment, and a cytoplasmic tyrosine kinase domain.
Binding of the ephrin ligand to EphR requires cell-cell
contact since both are anchored to the plasma membrane.
The resulting downstream signals occur bidirectionally
in both EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling).
Length = 180
Score = 98.1 bits (244), Expect = 7e-27
Identities = 48/144 (33%), Positives = 73/144 (50%), Gaps = 24/144 (16%)
Query: 10 EKGINWRSYVVCDVAY-HNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKE 68
E+ + R+Y VCD +WL T ++ R A +Y ++FT+ +C P SCKE
Sbjct: 34 EEQHSVRTYEVCDAQRAGGQAHWLRTGWVPRRGAVHVYATLRFTMLECLSLPRAGRSCKE 93
Query: 69 TFSLLYYEFDA--ATREPPPWEPESYKLI--------------------VNINTEVKSIP 106
TF++ YYE DA AT P W Y + VN+ T ++ P
Sbjct: 94 TFTVFYYESDADTATAHTPAWMENPYIKVDTVAAEHLTRKRPGAEATGKVNVKT-LRLGP 152
Query: 107 VTKKGVYFAFRDQGACISLLAIKV 130
++K G Y AF+DQGAC++LL++ +
Sbjct: 153 LSKAGFYLAFQDQGACMALLSLHL 176
>gnl|CDD|198452 cd10484, EphR_LBD_A6, Ligand Binding Domain of Ephrin type-A
Receptor 6. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphA receptors bind GPI-anchored ephrin-A ligands.
There are ten vertebrate EphA receptors (EphA1-10),
which display promiscuous interactions with six ephrin-A
ligands. EphA6, like other Eph receptors and their
ephrin ligands, seems to play a role in neural
development, underlying learning and memory. EphRs
contain a ligand binding domain and two fibronectin
repeats extracellularly, a transmembrane segment, and a
cytoplasmic tyrosine kinase domain. Binding of the
ephrin ligand to EphR requires cell-cell contact since
both are anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling).
Length = 173
Score = 96.2 bits (239), Expect = 3e-26
Identities = 54/133 (40%), Positives = 77/133 (57%), Gaps = 21/133 (15%)
Query: 17 SYVVCDVAYHNVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLLYYE 76
+Y VC+V N NNWL T +I R A +IY+E+KFT+RDC P +CKETF+L Y E
Sbjct: 39 TYQVCNVMEPNQNNWLRTNWISRDAAQKIYVEMKFTLRDCNSIPWVVGTCKETFNLHYME 98
Query: 77 FDAATREPPPWEPESYKLI------------------VNINTEVKSI-PVTKKGVYFAFR 117
D A ++P Y I + +NTEV+ + P+T+KG Y AF+
Sbjct: 99 SDEA--HAVKFKPNQYSKIDTIAADESFTQMDLGDRILKLNTEVREVGPITRKGFYLAFQ 156
Query: 118 DQGACISLLAIKV 130
D GACI+L++++V
Sbjct: 157 DIGACIALVSVRV 169
>gnl|CDD|198443 cd10475, EphR_LBD_B6, Ligand Binding Domain of Ephrin type-B
Receptor 6. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphB receptors bind to transmembrane ephrin-B
ligands. There are six vertebrate EhpB receptors
(EphB1-6), which display promiscuous interactions with
three ephrin-B ligands. EphB6, a kinase-defective member
of this family, is downregulated in MDA-MB-231-breast
cancer cells and myeloid cancers and upregulated in
neuroblasoma and glioblastoma. EphRs contain a ligand
binding domain and two fibronectin repeats
extracellularly, a transmembrane segment, and a
cytoplasmic tyrosine kinase domain. Binding of the
ephrin ligand to EphR requires cell-cell contact since
both are anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling).
Length = 180
Score = 91.5 bits (227), Expect = 3e-24
Identities = 45/139 (32%), Positives = 74/139 (53%), Gaps = 24/139 (17%)
Query: 16 RSYVVCDVAYH--NVNNWLWTPFIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLL 73
R++ VC+VA +NWL T FIER A+R+++ + F++RDCA +C+ETF+L
Sbjct: 38 RTFEVCNVAAQGPGQDNWLRTHFIERRGAHRVHVRLHFSVRDCASLGVPGGTCRETFTLY 97
Query: 74 YYEFDA--ATREPPPWEPESYKLI-------------------VNINTEVKSI-PVTKKG 111
Y + D + W + + + +N + +S P+T++G
Sbjct: 98 YRQADEPDEPADKSEWHEGPWTKVDTIAADESFPASLGKGGQGLQMNVKERSFGPLTQRG 157
Query: 112 VYFAFRDQGACISLLAIKV 130
Y AF+D GAC+SL+A+KV
Sbjct: 158 FYLAFQDSGACLSLVAVKV 176
>gnl|CDD|198447 cd10479, EphR_LBD_A1, Ligand Binding Domain of Ephrin type-A
Receptor 1. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphA receptors bind GPI-anchored ephrin-A ligands.
There are ten vertebrate EphA receptors (EphA1-10),
which display promiscuous interactions with six ephrin-A
ligands. EphA1 is downregulated in some advanced
colorectal and myeloid cancers and upregulated in
neuroblasoma and glioblastoma. EphRs contain a ligand
binding domain and two fibronectin repeats
extracellularly, a transmembrane segment, and a
cytoplasmic tyrosine kinase domain. Binding of the
ephrin ligand to EphR requires cell-cell contact since
both are anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling). Ephrin/EphR
interaction mainly results in cell-cell repulsion or
adhesion.
Length = 177
Score = 81.2 bits (200), Expect = 2e-20
Identities = 46/126 (36%), Positives = 72/126 (57%), Gaps = 24/126 (19%)
Query: 27 NVNNWLWTPFIERGN-ANRIYIEIKFTIRDCALFPGNA--LSCKETFSLLYYEFD----- 78
+ ++WL + +I RG A+RIY+E++FT+RDC FPG A L CKETF+L Y E D
Sbjct: 50 DTDHWLRSNWIYRGEEASRIYVELQFTVRDCKSFPGGAGPLGCKETFNLYYMESDQDVGI 109
Query: 79 -------------AATREPPPWEPESYKLIVNINTEVKSI-PVTKKGVYFAFRDQGACIS 124
AA + + S V +N E S+ +T++G+Y AF + GAC++
Sbjct: 110 QLRRPLFQKVTTVAADQSFTIRDLASGS--VKLNVERCSLGKLTRRGLYLAFHNPGACVA 167
Query: 125 LLAIKV 130
L++++V
Sbjct: 168 LVSVRV 173
>gnl|CDD|218885 pfam06080, DUF938, Protein of unknown function (DUF938). This
family consists of several hypothetical proteins from
both prokaryotes and eukaryotes. The function of this
family is unknown.
Length = 201
Score = 28.6 bits (64), Expect = 0.82
Identities = 11/24 (45%), Positives = 12/24 (50%), Gaps = 3/24 (12%)
Query: 80 ATREPPPWE---PESYKLIVNINT 100
TR P P E P SY I +IN
Sbjct: 85 VTRPPWPVEAPAPASYDAIFSINM 108
>gnl|CDD|222147 pfam13462, Thioredoxin_4, Thioredoxin.
Length = 170
Score = 27.7 bits (62), Expect = 1.2
Identities = 8/52 (15%), Positives = 15/52 (28%)
Query: 36 FIERGNANRIYIEIKFTIRDCALFPGNALSCKETFSLLYYEFDAATREPPPW 87
+I+ G IY + F +L+ A C ++
Sbjct: 42 YIDTGKVRFIYRDFPFDKEGPSLWAAMAARCAGDQGEFFWPIKDLLYSQQEE 93
>gnl|CDD|143488 cd06813, PLPDE_III_DSD_D-TA_like_2, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzymes Similar to D-Serine Dehydratase
and D-Threonine Aldolase, Unknown Group 2. This
subfamily is composed of uncharacterized bacterial
proteins with similarity to eukaryotic D-serine
dehydratases (DSD) and D-threonine aldolases (D-TA). DSD
catalyzes the dehydration of D-serine to aminoacrylate,
which is rapidly hydrolyzed to pyruvate and ammonia.
D-TA reversibly catalyzes the aldol cleavage of
D-threonine into glycine and acetaldehyde, and the
synthesis of D-threonine from glycine and acetaldehyde.
DSD and D-TA are fold type III PLP-dependent enzymes,
similar to bacterial alanine racemase (AR), which
contains an N-terminal PLP-binding TIM barrel domain and
a C-terminal beta-sandwich domain. AR exists as
homodimers with active sites that lie at the interface
between the TIM barrel domain of one subunit and the
beta-sandwich domain of the other subunit. Based on
their similarity to AR, it is possible members of this
family also form dimers in solution.
Length = 388
Score = 28.0 bits (63), Expect = 1.3
Identities = 11/34 (32%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 79 AATREPPPWEPESYKLIVNINT-EVKSIPVTKKG 111
R P PW P KL+ EV++ P+T
Sbjct: 307 GKDRLPVPWLPAGLKLLPLEGAGEVQT-PLTGPA 339
>gnl|CDD|188611 TIGR04096, dnd_rel_methyl, DNA phosphorothioation-associated
putative methyltransferase. Members of this protein
family show distant local sequence similarity to a
number of S-adenosyl-methionine-dependent
methyltransferases. The family is identified by Partial
Phylogenetic Profiling as closely tied to the DNA
phosphorothioation system (dnd), and members are found
adjacent to dnd genes in at least 13 species
(Streptomyces lividans TK24, Shewanella frigidimarina
NCIMB 400, Mycobacterium abscessus ATCC 19977, Nostoc
punctiforme PCC 73102, Vibrio fischeri MJ11, etc.). The
DNA phosphorothioation enables a novel form of
restriction enzyme activity. Most members of this family
appear in species with the DNA phosphorothioation system
[DNA metabolism, Restriction/modification].
Length = 478
Score = 27.7 bits (62), Expect = 2.2
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 87 WEPESYKLIVNINTEVKSIPVTKKGVYFAFRDQGACISLLAIKV 130
+E E K + V +IP+ G+Y+ FRD+ LA +
Sbjct: 137 YEQEELKSYIEQVLNVDAIPIAP-GIYYVFRDKAEAQEFLASRF 179
>gnl|CDD|180421 PRK06141, PRK06141, ornithine cyclodeaminase; Validated.
Length = 314
Score = 27.2 bits (61), Expect = 2.5
Identities = 14/40 (35%), Positives = 16/40 (40%), Gaps = 6/40 (15%)
Query: 46 YIEIK-FTIRDCALFPGNALSCKETFSLLYYEFDAATREP 84
YI +K T+ FPGN Y FD T EP
Sbjct: 61 YIGVKAVTV-----FPGNPARGLPGLHSTYLLFDGRTGEP 95
>gnl|CDD|184405 PRK13931, PRK13931, stationary phase survival protein SurE;
Provisional.
Length = 261
Score = 27.0 bits (60), Expect = 2.9
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 6/35 (17%)
Query: 83 EPPPWEPESYKLIVNIN------TEVKSIPVTKKG 111
E PW+ E Y+L N+N +VK I V +G
Sbjct: 158 EAGPWDDEDYRLFYNVNFPPVPAADVKGIRVAAQG 192
>gnl|CDD|172788 PRK14300, PRK14300, chaperone protein DnaJ; Provisional.
Length = 372
Score = 26.5 bits (58), Expect = 4.6
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 2 VEESFTNFEKGINWRSYVVCDVAYHN 27
+EE+F EK I++ S V CD + +
Sbjct: 129 LEEAFHGIEKNISFSSEVKCDTCHGS 154
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
0.323 0.138 0.454
Gapped
Lambda K H
0.267 0.0742 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,664,175
Number of extensions: 571392
Number of successful extensions: 404
Number of sequences better than 10.0: 1
Number of HSP's gapped: 384
Number of HSP's successfully gapped: 34
Length of query: 130
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 44
Effective length of database: 7,123,158
Effective search space: 313418952
Effective search space used: 313418952
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.2 bits)