RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy84
(2182 letters)
>gnl|CDD|218183 pfam04628, Sedlin_N, Sedlin, N-terminal conserved region. Mutations
in this protein are associated with the X-linked
spondyloepiphyseal dysplasia tarda syndrome
(OMIM:313400). This family represents an N-terminal
conserved region.
Length = 127
Score = 157 bits (398), Expect = 2e-44
Identities = 54/112 (48%), Positives = 83/112 (74%), Gaps = 3/112 (2%)
Query: 1038 VGREDNPLYQRGFSCKEANDNENKYYYEFIAHASLDLLDEQVWQTDHMYLKTIDKFNDMM 1097
+G++DNPLY++ FS E + K+ +FIAHASLD+++E W+T++MYL +D FND+
Sbjct: 2 IGKKDNPLYEQEFS-SEGKTSIPKHLNQFIAHASLDIVEELQWKTNNMYLGLVDSFNDLA 60
Query: 1098 VSAFVTPTGVKFLMVHDS--KNEEGIKKFFTSVYELFIKYSLNPFYKINTPI 1147
VS +VT T +KF+++HDS + ++ IK+FF V+EL+IK +NPFY+ N PI
Sbjct: 61 VSGYVTNTHIKFILLHDSSTERDDDIKQFFREVHELYIKTLMNPFYEPNDPI 112
>gnl|CDD|241480 cd13326, PH_CNK_insect-like, Connector enhancer of KSR (Kinase
suppressor of ras) (CNK) pleckstrin homology (PH)
domain. CNK family members function as protein
scaffolds, regulating the activity and the subcellular
localization of RAS activated RAF. There is a single CNK
protein present in Drosophila and Caenorhabditis elegans
in contrast to mammals which have 3 CNK proteins (CNK1,
CNK2, and CNK3). All of the CNK members contain a
sterile a motif (SAM), a conserved region in CNK (CRIC)
domain, and a PSD-95/DLG-1/ZO-1 (PDZ) domain, and a PH
domain. A CNK2 splice variant CNK2A also has a PDZ
domain-binding motif at its C terminus and Drosophila
CNK (D-CNK) also has a domain known as the
Raf-interacting region (RIR) that mediates binding of
the Drosophila Raf kinase. This cd contains CNKs from
insects, spiders, mollusks, and nematodes. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 90
Score = 139 bits (352), Expect = 1e-38
Identities = 49/89 (55%), Positives = 66/89 (74%)
Query: 712 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVKS 771
+GWL+QR RK +W + WF++KG++ YGF ++STKA I+LPGFTV+PA EVKS
Sbjct: 1 YQGWLYQRRRKGKGGGKWAKRWFVLKGSNLYGFRSQESTKADCVIFLPGFTVSPAPEVKS 60
Query: 772 RKYALKIYHTGTTFYLSADSQDEFSSWLG 800
RKYA K+YHTGT FY +A+SQ++ WL
Sbjct: 61 RKYAFKVYHTGTVFYFAAESQEDMKKWLD 89
Score = 139 bits (352), Expect = 1e-38
Identities = 49/89 (55%), Positives = 66/89 (74%)
Query: 1858 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVKS 1917
+GWL+QR RK +W + WF++KG++ YGF ++STKA I+LPGFTV+PA EVKS
Sbjct: 1 YQGWLYQRRRKGKGGGKWAKRWFVLKGSNLYGFRSQESTKADCVIFLPGFTVSPAPEVKS 60
Query: 1918 RKYALKIYHTGTTFYLSADSQDEFSSWLG 1946
RKYA K+YHTGT FY +A+SQ++ WL
Sbjct: 61 RKYAFKVYHTGTVFYFAAESQEDMKKWLD 89
>gnl|CDD|188910 cd09511, SAM_CNK1,2,3-suppressor, SAM domain of
CNK1,2,3-suppressor subfamily. SAM (sterile alpha
motif) domain of CNK (connector enhancer of kinase
suppressor of ras (Ksr)) subfamily is a protein-protein
interaction domain. CNK proteins are multidomain
scaffold proteins containing a few protein-protein
interaction domains and are required for connecting Rho
and Ras signaling pathways. In Drosophila, the SAM
domain of CNK is known to interact with the SAM domain
of the aveugle protein, forming a heterodimer. Mutation
of the SAM domain in human CNK1 abolishes the ability
to cooperate with the Ras effector, supporting the idea
that this interaction is necessary for proper Ras
signal transduction.
Length = 69
Score = 116 bits (293), Expect = 5e-31
Identities = 37/69 (53%), Positives = 47/69 (68%)
Query: 6 VADWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIIL 65
VA W P QV DWLKGLD + +Y+ +F V G+ LLNL P DLE+ G+ K+GHQE+IL
Sbjct: 1 VAKWSPKQVTDWLKGLDDCLQQYIYTFEREKVTGEQLLNLSPQDLENLGVTKIGHQELIL 60
Query: 66 EAVDHLRNF 74
EAV+ L
Sbjct: 61 EAVELLCAL 69
Score = 112 bits (283), Expect = 1e-29
Identities = 35/69 (50%), Positives = 46/69 (66%)
Query: 1147 INNWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIIL 1206
+ W P QV DWLKGLD + +Y+ +F V G+ LLNL P DLE+ G+ K+GHQE+IL
Sbjct: 1 VAKWSPKQVTDWLKGLDDCLQQYIYTFEREKVTGEQLLNLSPQDLENLGVTKIGHQELIL 60
Query: 1207 EAVDHLRNF 1215
EAV+ L
Sbjct: 61 EAVELLCAL 69
>gnl|CDD|227890 COG5603, TRS20, Subunit of TRAPP, an ER-Golgi tethering complex [Cell
motility and secretion].
Length = 136
Score = 111 bits (279), Expect = 2e-28
Identities = 38/118 (32%), Positives = 71/118 (60%), Gaps = 2/118 (1%)
Query: 1034 YFVMVGREDNPLYQRGFSC--KEANDNENKYYYEFIAHASLDLLDEQVWQTDHMYLKTID 1091
Y ++G +DNP+Y+R + K ++ + +FI HASLD++ W + Y +D
Sbjct: 4 YLAIIGEKDNPVYEREYDPINKTSDGEYCRLLNQFIIHASLDIVVWLQWSVNTSYFDCLD 63
Query: 1092 KFNDMMVSAFVTPTGVKFLMVHDSKNEEGIKKFFTSVYELFIKYSLNPFYKINTPINN 1149
F D+ +SA++ P+G+KFL +H +++ + + F V+EL+ K ++PFY+ + PI +
Sbjct: 64 SFGDLRISAYIMPSGMKFLFIHQNQSRKNARSFLQEVHELYAKTLMSPFYEPDEPIRS 121
>gnl|CDD|241291 cd01260, PH_CNK_mammalian-like, Connector enhancer of KSR (Kinase
suppressor of ras) (CNK) pleckstrin homology (PH)
domain. CNK family members function as protein
scaffolds, regulating the activity and the subcellular
localization of RAS activated RAF. There is a single CNK
protein present in Drosophila and Caenorhabditis elegans
in contrast to mammals which have 3 CNK proteins (CNK1,
CNK2, and CNK3). All of the CNK members contain a
sterile a motif (SAM), a conserved region in CNK (CRIC)
domain, and a PSD-95/DLG-1/ZO-1 (PDZ) domain, and, with
the exception of CNK3, a PH domain. A CNK2 splice
variant CNK2A also has a PDZ domain-binding motif at its
C terminus and Drosophila CNK (D-CNK) also has a domain
known as the Raf-interacting region (RIR) that mediates
binding of the Drosophila Raf kinase. This cd contains
CNKs from mammals, chickens, amphibians, fish, and
crustacea. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 114
Score = 96.3 bits (240), Expect = 3e-23
Identities = 43/113 (38%), Positives = 61/113 (53%), Gaps = 3/113 (2%)
Query: 699 RRNISVKDLVMPDCEGWLFQRDRKISTVPQ-WIRGWFIIKGNHFYGFTDKDSTKAHLFIY 757
RR +S KDL DC+GWL+++ Q W R WF++KG+ Y + + KA FI
Sbjct: 2 RRRVSCKDLGRGDCDGWLWKKKEAKGFFGQKWKRYWFVLKGSSLYWYNNPQDEKAEGFIN 61
Query: 758 LPGFTVAPAVEVKSRKYALKIYH-TGTTFYLSADSQDEFSSWLGCLSQATIAH 809
LP F + A E K +KYA K H TFY +A++ D+ + WL L A +
Sbjct: 62 LPDFKIERASECK-KKYAFKASHPKIKTFYFAAENLDDMNKWLSKLITAINKY 113
Score = 96.3 bits (240), Expect = 3e-23
Identities = 43/113 (38%), Positives = 61/113 (53%), Gaps = 3/113 (2%)
Query: 1845 RRNISVKDLVMPDCEGWLFQRDRKISTVPQ-WIRGWFIIKGNHFYGFTDKDSTKAHLFIY 1903
RR +S KDL DC+GWL+++ Q W R WF++KG+ Y + + KA FI
Sbjct: 2 RRRVSCKDLGRGDCDGWLWKKKEAKGFFGQKWKRYWFVLKGSSLYWYNNPQDEKAEGFIN 61
Query: 1904 LPGFTVAPAVEVKSRKYALKIYH-TGTTFYLSADSQDEFSSWLGCLSQATIAH 1955
LP F + A E K +KYA K H TFY +A++ D+ + WL L A +
Sbjct: 62 LPDFKIERASECK-KKYAFKASHPKIKTFYFAAENLDDMNKWLSKLITAINKY 113
>gnl|CDD|241402 cd13248, PH_PEPP1_2_3, Phosphoinositol 3-phosphate binding proteins
1, 2, and 3 pleckstrin homology (PH) domain. PEPP1
(also called PLEKHA4/PH domain-containing family A
member 4 and RHOXF1/Rhox homeobox family member 1), and
related homologs PEPP2 (also called PLEKHA5/PH
domain-containing family A member 5) and PEPP3 (also
called PLEKHA6/PH domain-containing family A member 6),
have PH domains that interact specifically with
PtdIns(3,4)P3. Other proteins that bind PtdIns(3,4)P3
specifically are: TAPP1 (tandem PH-domain-containing
protein-1) and TAPP2], PtdIns3P AtPH1, and Ptd-
Ins(3,5)P2 (centaurin-beta2). All of these proteins
contain at least 5 of the 6 conserved amino acids that
make up the putative phosphatidylinositol 3,4,5-
trisphosphate-binding motif (PPBM) located at their
N-terminus. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 104
Score = 71.5 bits (176), Expect = 1e-14
Identities = 35/99 (35%), Positives = 53/99 (53%), Gaps = 5/99 (5%)
Query: 710 PDCEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEV 769
GWL ++ S + W + WF++K N Y + D + KA I LP +T++PA
Sbjct: 7 VVFSGWLHKQGG--SGLKNWKKRWFVLKDNCLYYYKDPEEEKALGSILLPSYTISPASPS 64
Query: 770 K--SRKYALKIYHTGT-TFYLSADSQDEFSSWLGCLSQA 805
+RK+A K H G T+Y +AD+Q+E W+ LS A
Sbjct: 65 DEINRKFAFKAEHAGMRTYYFAADTQEEMEQWMKALSLA 103
Score = 71.5 bits (176), Expect = 1e-14
Identities = 35/99 (35%), Positives = 53/99 (53%), Gaps = 5/99 (5%)
Query: 1856 PDCEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEV 1915
GWL ++ S + W + WF++K N Y + D + KA I LP +T++PA
Sbjct: 7 VVFSGWLHKQGG--SGLKNWKKRWFVLKDNCLYYYKDPEEEKALGSILLPSYTISPASPS 64
Query: 1916 K--SRKYALKIYHTGT-TFYLSADSQDEFSSWLGCLSQA 1951
+RK+A K H G T+Y +AD+Q+E W+ LS A
Sbjct: 65 DEINRKFAFKAEHAGMRTYYFAADTQEEMEQWMKALSLA 103
>gnl|CDD|215981 pfam00536, SAM_1, SAM domain (Sterile alpha motif). It has been
suggested that SAM is an evolutionarily conserved
protein binding domain that is involved in the
regulation of numerous developmental processes in
diverse eukaryotes. The SAM domain can potentially
function as a protein interaction module through its
ability to homo- and heterooligomerise with other SAM
domains.
Length = 62
Score = 63.8 bits (156), Expect = 2e-12
Identities = 18/64 (28%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 9 WKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 68
W + V +WL+ + + +Y ++F +++G LL L +DL G+ GH++ IL ++
Sbjct: 1 WSVEDVGEWLESIG--LGQYADNFRAGYIDGDALLLLTEEDLLKLGVTLPGHRKKILSSI 58
Query: 69 DHLR 72
L+
Sbjct: 59 QGLK 62
Score = 63.8 bits (156), Expect = 2e-12
Identities = 18/64 (28%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 1150 WKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 1209
W + V +WL+ + + +Y ++F +++G LL L +DL G+ GH++ IL ++
Sbjct: 1 WSVEDVGEWLESIG--LGQYADNFRAGYIDGDALLLLTEEDLLKLGVTLPGHRKKILSSI 58
Query: 1210 DHLR 1213
L+
Sbjct: 59 QGLK 62
>gnl|CDD|197735 smart00454, SAM, Sterile alpha motif. Widespread domain in
signalling and nuclear proteins. In EPH-related
tyrosine kinases, appears to mediate cell-cell
initiated signal transduction via the binding of
SH2-containing proteins to a conserved tyrosine that is
phosphorylated. In many cases mediates
homodimerisation.
Length = 68
Score = 61.9 bits (151), Expect = 9e-12
Identities = 26/70 (37%), Positives = 44/70 (62%), Gaps = 3/70 (4%)
Query: 6 VADWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNL-QPDDLEHHGICKVGHQEII 64
V+ W P+ VADWL+ + + +Y ++F N ++G LL L +DL+ GI K+GH++ I
Sbjct: 1 VSQWSPESVADWLESIG--LEQYADNFRKNGIDGALLLLLTSEEDLKELGITKLGHRKKI 58
Query: 65 LEAVDHLRNF 74
L+A+ L+
Sbjct: 59 LKAIQKLKEQ 68
Score = 61.2 bits (149), Expect = 1e-11
Identities = 25/68 (36%), Positives = 42/68 (61%), Gaps = 3/68 (4%)
Query: 1149 NWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNL-QPDDLEHHGICKVGHQEIILE 1207
W P+ VADWL+ + + +Y ++F N ++G LL L +DL+ GI K+GH++ IL+
Sbjct: 3 QWSPESVADWLESIG--LEQYADNFRKNGIDGALLLLLTSEEDLKELGITKLGHRKKILK 60
Query: 1208 AVDHLRNF 1215
A+ L+
Sbjct: 61 AIQKLKEQ 68
>gnl|CDD|241430 cd13276, PH_AtPH1, Arabidopsis thaliana Pleckstrin homolog (PH) 1
(AtPH1) PH domain. AtPH1 is expressed in all plant
tissue and is proposed to be the plant homolog of human
pleckstrin. Pleckstrin consists of two PH domains
separated by a linker region, while AtPH has a single PH
domain with a short N-terminal extension. AtPH1 binds
PtdIns3P specifically and is thought to be an adaptor
molecule since it has no obvious catalytic functions. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 117
Score = 62.8 bits (153), Expect = 2e-11
Identities = 31/105 (29%), Positives = 51/105 (48%), Gaps = 5/105 (4%)
Query: 710 PDCEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGF-TDKDSTKAHLFIYLPGF-TVAPAV 767
P+ GWL ++ I T W R WF++K + F + ++ I L TV A
Sbjct: 7 PEKAGWLTKQGGSIKT---WRRRWFVLKQGKLFYFKDEDPDSEPRGVIDLSDCLTVKSAE 63
Query: 768 EVKSRKYALKIYHTGTTFYLSADSQDEFSSWLGCLSQATIAHDRS 812
E ++++A ++ TFYL ADS+ E W+ + +A + RS
Sbjct: 64 EATNKEFAFEVSTPERTFYLIADSEKEKEEWISAIGRAIVKLSRS 108
Score = 62.8 bits (153), Expect = 2e-11
Identities = 31/105 (29%), Positives = 51/105 (48%), Gaps = 5/105 (4%)
Query: 1856 PDCEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGF-TDKDSTKAHLFIYLPGF-TVAPAV 1913
P+ GWL ++ I T W R WF++K + F + ++ I L TV A
Sbjct: 7 PEKAGWLTKQGGSIKT---WRRRWFVLKQGKLFYFKDEDPDSEPRGVIDLSDCLTVKSAE 63
Query: 1914 EVKSRKYALKIYHTGTTFYLSADSQDEFSSWLGCLSQATIAHDRS 1958
E ++++A ++ TFYL ADS+ E W+ + +A + RS
Sbjct: 64 EATNKEFAFEVSTPERTFYLIADSEKEKEEWISAIGRAIVKLSRS 108
>gnl|CDD|188906 cd09507, SAM_DGK-delta-eta, SAM domain of diacylglycerol kinase delta
and eta subunits. SAM (sterile alpha motif) domain of
DGK-eta-delta subfamily proteins is a protein-protein
interaction domain. Proteins of this subfamily are
multidomain diacylglycerol kinases with a SAM domain
located at the C-terminus. DGK proteins participate in
signal transduction. They regulate the level of second
messengers such as diacylglycerol and phosphatidic acid.
The SAM domain of DGK proteins can form high molecular
weight homooligomers through head-to-tail interactions as
well as heterooligomers between the SAM domains of DGK
delta and eta proteins. The oligomerization plays a role
in the regulation of DGK intracellular localization.
Length = 65
Score = 60.9 bits (148), Expect = 2e-11
Identities = 26/67 (38%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 1146 PINNWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEII 1205
P+ NW ++V WL+ L + Y + F N + G LL+L+ DL+ GI KVGH + I
Sbjct: 1 PVTNWTTEEVGAWLESL--QLGEYRDIFARNDIRGSELLHLERRDLKDLGITKVGHVKRI 58
Query: 1206 LEAVDHL 1212
L+A+ L
Sbjct: 59 LQAIKDL 65
Score = 57.4 bits (139), Expect = 3e-10
Identities = 25/67 (37%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 5 NVADWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEII 64
V +W ++V WL+ L + Y + F N + G LL+L+ DL+ GI KVGH + I
Sbjct: 1 PVTNWTTEEVGAWLESL--QLGEYRDIFARNDIRGSELLHLERRDLKDLGITKVGHVKRI 58
Query: 65 LEAVDHL 71
L+A+ L
Sbjct: 59 LQAIKDL 65
>gnl|CDD|188905 cd09506, SAM_Shank1,2,3, SAM domain of Shank1,2,3 family proteins.
SAM (sterile alpha motif) domain of Shank1,2,3 family
proteins is a protein-protein interaction domain.
Shank1,2,3 proteins are scaffold proteins that are known
to interact with a variety of cytoplasmic and membrane
proteins. SAM domains of the Shank1,2,3 family are prone
to homooligomerization. They are highly enriched in the
postsynaptic density, acting as scaffolds to organize
assembly of postsynaptic proteins. SAM domains of Shank3
proteins can form large sheets of helical fibers. Shank
genes show distinct patterns of expression, in rat Shank1
mRNA is found almost exclusively in brain, Shank2 in
brain, kidney and liver, and Shank3 in heart, brain and
spleen.
Length = 66
Score = 58.1 bits (141), Expect = 2e-10
Identities = 27/67 (40%), Positives = 41/67 (61%), Gaps = 2/67 (2%)
Query: 1146 PINNWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEII 1205
P++ W D V DWL+ L++ HR E F++N ++G HL NL +DL G+ +VGH+ I
Sbjct: 1 PVHEWTVDDVGDWLESLNLGEHR--ERFMDNEIDGSHLPNLDKEDLTELGVTRVGHRMNI 58
Query: 1206 LEAVDHL 1212
A+ L
Sbjct: 59 ERALKKL 65
Score = 57.7 bits (140), Expect = 3e-10
Identities = 27/66 (40%), Positives = 40/66 (60%), Gaps = 2/66 (3%)
Query: 6 VADWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIIL 65
V +W D V DWL+ L++ HR E F++N ++G HL NL +DL G+ +VGH+ I
Sbjct: 2 VHEWTVDDVGDWLESLNLGEHR--ERFMDNEIDGSHLPNLDKEDLTELGVTRVGHRMNIE 59
Query: 66 EAVDHL 71
A+ L
Sbjct: 60 RALKKL 65
>gnl|CDD|241462 cd13308, PH_3BP2, SH3 domain-binding protein 2 Pleckstrin homology
(PH) domain. SH3BP2 (the gene that encodes the adaptor
protein 3BP2), HD, ITU, IT10C3, and ADD1 are located
near the Huntington's Disease Gene on Human Chromosome
4pl6.3. SH3BP2 lies in a region that is often missing in
individuals with Wolf-Hirschhorn syndrome (WHS). Gain of
function mutations in SH3BP2 causes enhanced B-cell
antigen receptor (BCR)-mediated activation of nuclear
factor of activated T cells (NFAT), resulting in a rare,
genetic disorder called cherubism. This results in an
increase in the signaling complex formation with Syk,
phospholipase C-gamma2 (PLC-gamma2), and Vav1. It was
recently discovered that Tankyrase regulates 3BP2
stability through ADP-ribosylation and ubiquitylation by
the E3-ubiquitin ligase. Cherubism mutations uncouple
3BP2 from Tankyrase-mediated protein destruction, which
results in its stabilization and subsequent
hyperactivation of the Src, Syk, and Vav signaling
pathways. SH3BP2 is also a potential negative regulator
of the abl oncogene. PH domains have diverse functions,
but in general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 113
Score = 58.2 bits (141), Expect = 6e-10
Identities = 28/100 (28%), Positives = 42/100 (42%), Gaps = 7/100 (7%)
Query: 707 LVMPDC---EGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTV 763
L +P G+L ++ + +W + II Y F + S K L G+
Sbjct: 3 LTLPRDVTHSGYLTKKGGSQKQLLKWPLRYVIIHKGCVYYFKNSQSAKPKGVFSLNGYNR 62
Query: 764 APAVEVKS-RKYALKIYHTG---TTFYLSADSQDEFSSWL 799
A E S +K+ KI H T+Y SA S+DE W+
Sbjct: 63 RAAEETTSKKKFVFKIIHLSKDHRTWYFSAKSEDEMKEWM 102
Score = 58.2 bits (141), Expect = 6e-10
Identities = 28/100 (28%), Positives = 42/100 (42%), Gaps = 7/100 (7%)
Query: 1853 LVMPDC---EGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTV 1909
L +P G+L ++ + +W + II Y F + S K L G+
Sbjct: 3 LTLPRDVTHSGYLTKKGGSQKQLLKWPLRYVIIHKGCVYYFKNSQSAKPKGVFSLNGYNR 62
Query: 1910 APAVEVKS-RKYALKIYHTG---TTFYLSADSQDEFSSWL 1945
A E S +K+ KI H T+Y SA S+DE W+
Sbjct: 63 RAAEETTSKKKFVFKIIHLSKDHRTWYFSAKSEDEMKEWM 102
>gnl|CDD|214574 smart00233, PH, Pleckstrin homology domain. Domain commonly found
in eukaryotic signalling proteins. The domain family
possesses multiple functions including the abilities to
bind inositol phosphates, and various proteins. PH
domains have been found to possess inserted domains
(such as in PLC gamma, syntrophins) and to be inserted
within other domains. Mutations in Brutons tyrosine
kinase (Btk) within its PH domain cause X-linked
agammaglobulinaemia (XLA) in patients. Point mutations
cluster into the positively charged end of the molecule
around the predicted binding site for
phosphatidylinositol lipids.
Length = 102
Score = 56.4 bits (136), Expect = 2e-09
Identities = 24/103 (23%), Positives = 42/103 (40%), Gaps = 8/103 (7%)
Query: 710 PDCEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKD---STKAHLFIYLPGFTVAPA 766
EGWL+++ W + +F++ + + K S K I L G TV A
Sbjct: 1 VIKEGWLYKKSGGGK--KSWKKRYFVLFNSTLLYYKSKKDKKSYKPKGSIDLSGCTVREA 58
Query: 767 VE--VKSRKYALKIYH-TGTTFYLSADSQDEFSSWLGCLSQAT 806
+ + + +I T L A+S++E W+ L +A
Sbjct: 59 PDPDSSKKPHCFEIKTSDRKTLLLQAESEEEREKWVEALRKAI 101
Score = 56.4 bits (136), Expect = 2e-09
Identities = 24/103 (23%), Positives = 42/103 (40%), Gaps = 8/103 (7%)
Query: 1856 PDCEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKD---STKAHLFIYLPGFTVAPA 1912
EGWL+++ W + +F++ + + K S K I L G TV A
Sbjct: 1 VIKEGWLYKKSGGGK--KSWKKRYFVLFNSTLLYYKSKKDKKSYKPKGSIDLSGCTVREA 58
Query: 1913 VE--VKSRKYALKIYH-TGTTFYLSADSQDEFSSWLGCLSQAT 1952
+ + + +I T L A+S++E W+ L +A
Sbjct: 59 PDPDSSKKPHCFEIKTSDRKTLLLQAESEEEREKWVEALRKAI 101
>gnl|CDD|203706 pfam07647, SAM_2, SAM domain (Sterile alpha motif).
Length = 66
Score = 54.6 bits (132), Expect = 3e-09
Identities = 22/66 (33%), Positives = 41/66 (62%), Gaps = 3/66 (4%)
Query: 1149 NWKPDQVADWLKGLDVSIHRYVESFLNNHVNG-QHLLNLQPDDLEHHGICKVGHQEIILE 1207
+W P+ VA+WL+ + + +Y ++F + + G + LL L +DL+ GI VGH++ IL+
Sbjct: 3 SWSPEDVAEWLRSIGL--PQYADNFRDQGITGGELLLRLTEEDLKALGITSVGHRKKILK 60
Query: 1208 AVDHLR 1213
+ L+
Sbjct: 61 KIQRLK 66
Score = 53.8 bits (130), Expect = 7e-09
Identities = 22/65 (33%), Positives = 40/65 (61%), Gaps = 3/65 (4%)
Query: 9 WKPDQVADWLKGLDVSIHRYVESFLNNHVNG-QHLLNLQPDDLEHHGICKVGHQEIILEA 67
W P+ VA+WL+ + + +Y ++F + + G + LL L +DL+ GI VGH++ IL+
Sbjct: 4 WSPEDVAEWLRSIGL--PQYADNFRDQGITGGELLLRLTEEDLKALGITSVGHRKKILKK 61
Query: 68 VDHLR 72
+ L+
Sbjct: 62 IQRLK 66
>gnl|CDD|238492 cd00992, PDZ_signaling, PDZ domain found in a variety of Eumetazoan
signaling molecules, often in tandem arrangements. May
be responsible for specific protein-protein
interactions, as most PDZ domains bind C-terminal
polypeptides, and binding to internal (non-C-terminal)
polypeptides and even to lipids has been demonstrated.
In this subfamily of PDZ domains an N-terminal
beta-strand forms the peptide-binding groove base, a
circular permutation with respect to PDZ domains found
in proteases.
Length = 82
Score = 54.1 bits (131), Expect = 8e-09
Identities = 21/79 (26%), Positives = 40/79 (50%), Gaps = 3/79 (3%)
Query: 206 TLKKRPGEHLGFCI--IPSFHGIHQIGDIKCNSTAYQSGKIECGDEIVQINYQTVVGWDV 263
TL+K PG LGF + G + ++ A + G + GD I+++N +V G
Sbjct: 5 TLRKDPGGGLGFSLRGGKDSGGGIFVSRVEPGGPAER-GGLRVGDRILEVNGVSVEGLTH 63
Query: 264 KQVMALFEESSSDIFLTLK 282
++ + L + S ++ LT++
Sbjct: 64 EEAVELLKNSGDEVTLTVR 82
Score = 54.1 bits (131), Expect = 8e-09
Identities = 21/79 (26%), Positives = 40/79 (50%), Gaps = 3/79 (3%)
Query: 1347 TLKKRPGEHLGFCI--IPSFHGIHQIGDIKCNSTAYQSGKIECGDEIVQINYQTVVGWDV 1404
TL+K PG LGF + G + ++ A + G + GD I+++N +V G
Sbjct: 5 TLRKDPGGGLGFSLRGGKDSGGGIFVSRVEPGGPAER-GGLRVGDRILEVNGVSVEGLTH 63
Query: 1405 KQVMALFEESSSDIFLTLK 1423
++ + L + S ++ LT++
Sbjct: 64 EEAVELLKNSGDEVTLTVR 82
>gnl|CDD|188886 cd09487, SAM_superfamily, SAM (Sterile alpha motif ). SAM
(Sterile Alpha Motif) domain is a module consisting of
approximately 70 amino acids. This domain is found in
the Fungi/Metazoa group and in a restricted number of
bacteria. Proteins with SAM domains are represented by
a wide variety of domain architectures and have
different intracellular localization, including
nucleus, cytoplasm and membranes. SAM domains have
diverse functions. They can interact with proteins,
RNAs and membrane lipids, contain site of
phosphorylation and/or kinase docking site, and play a
role in protein homo and hetero
dimerization/oligomerization in processes ranging from
signal transduction to regulation of transcription.
Mutations in SAM domains have been linked to several
diseases.
Length = 56
Score = 52.2 bits (126), Expect = 2e-08
Identities = 21/58 (36%), Positives = 33/58 (56%), Gaps = 2/58 (3%)
Query: 13 QVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDH 70
VA+WL+ L + +Y + F N ++G LL L +DL+ GI GH++ IL A+
Sbjct: 1 DVAEWLESL--GLEQYADLFRKNEIDGDALLLLTDEDLKELGITSPGHRKKILRAIQR 56
Score = 52.2 bits (126), Expect = 2e-08
Identities = 21/58 (36%), Positives = 33/58 (56%), Gaps = 2/58 (3%)
Query: 1154 QVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDH 1211
VA+WL+ L + +Y + F N ++G LL L +DL+ GI GH++ IL A+
Sbjct: 1 DVAEWLESL--GLEQYADLFRKNEIDGDALLLLTDEDLKELGITSPGHRKKILRAIQR 56
>gnl|CDD|188975 cd09576, SAM_DGK-eta, SAM domain of diacylglycerol kinase eta. SAM
(sterile alpha motif) domain of DGK-eta subfamily
proteins is a protein-protein interaction domain.
Proteins of this subfamily are multidomain diacylglycerol
kinases. The SAM domain is located at the C-terminus of
two out of three isoforms of DGK-eta protein. DGK-eta
proteins participate in signal transduction. They
regulate the level of second messengers such as
diacylglycerol and phosphatidic acid. The SAM domain of
DCK-eta proteins can form high molecular weight
homooligomers through head-to-tail interactions as well
as heterooligomers with the SAM domain of DGK-delta
proteins. The oligomerization plays a role in the
regulation of the DGK-delta intracellular localization:
it is responsible for sustained endosomal localization of
the protein and resulted in negative regulation of
DCK-eta catalytic activity.
Length = 65
Score = 51.1 bits (122), Expect = 5e-08
Identities = 27/67 (40%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 1146 PINNWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEII 1205
P+ W D+VA WL L S+ Y E F+ + + G LL+L+ DL+ GI KVGH + I
Sbjct: 1 PVQKWGTDEVAAWLDLL--SLGEYKEIFIRHDIRGSELLHLERRDLKDLGIPKVGHMKRI 58
Query: 1206 LEAVDHL 1212
L+ + L
Sbjct: 59 LQGIKEL 65
Score = 48.4 bits (115), Expect = 6e-07
Identities = 27/66 (40%), Positives = 38/66 (57%), Gaps = 2/66 (3%)
Query: 6 VADWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIIL 65
V W D+VA WL L S+ Y E F+ + + G LL+L+ DL+ GI KVGH + IL
Sbjct: 2 VQKWGTDEVAAWLDLL--SLGEYKEIFIRHDIRGSELLHLERRDLKDLGIPKVGHMKRIL 59
Query: 66 EAVDHL 71
+ + L
Sbjct: 60 QGIKEL 65
>gnl|CDD|215766 pfam00169, PH, PH domain. PH stands for pleckstrin homology.
Length = 101
Score = 51.7 bits (124), Expect = 9e-08
Identities = 23/100 (23%), Positives = 38/100 (38%), Gaps = 7/100 (7%)
Query: 712 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHL--FIYLPGFTVAPAV-- 767
EGWL ++ W + +F++ + D + + I L G V
Sbjct: 3 KEGWLLKK--GSGGRKSWKKRYFVLFDGVLLYYKDSKKSSSRPKGSIPLSGCQVTKVPDS 60
Query: 768 EVKSRKYALKIYH-TGTTFYLSADSQDEFSSWLGCLSQAT 806
E RK +I TF L A+S++E W+ + A
Sbjct: 61 EDGKRKNCFEIRTGDRETFLLQAESEEERKEWVKAIRSAI 100
Score = 51.7 bits (124), Expect = 9e-08
Identities = 23/100 (23%), Positives = 38/100 (38%), Gaps = 7/100 (7%)
Query: 1858 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHL--FIYLPGFTVAPAV-- 1913
EGWL ++ W + +F++ + D + + I L G V
Sbjct: 3 KEGWLLKK--GSGGRKSWKKRYFVLFDGVLLYYKDSKKSSSRPKGSIPLSGCQVTKVPDS 60
Query: 1914 EVKSRKYALKIYH-TGTTFYLSADSQDEFSSWLGCLSQAT 1952
E RK +I TF L A+S++E W+ + A
Sbjct: 61 EDGKRKNCFEIRTGDRETFLLQAESEEERKEWVKAIRSAI 100
>gnl|CDD|241231 cd00821, PH, Pleckstrin homology (PH) domain. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 92
Score = 50.8 bits (121), Expect = 2e-07
Identities = 23/94 (24%), Positives = 36/94 (38%), Gaps = 6/94 (6%)
Query: 712 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKD--STKAHLFIYLPGFTVAPAVEV 769
EGWL +R K W + WF++ + + K S K I L V
Sbjct: 1 KEGWLKKRGGKGLK--SWKKRWFVLFDDVLLYYKSKKDSSKKPKGLIPLSDGLEVELVSS 58
Query: 770 KSRKYALKIYHTGT--TFYLSADSQDEFSSWLGC 801
+ ++ T+YL A+S++E WL
Sbjct: 59 SGKPNCFELVTPDRGRTYYLQAESEEEREEWLEA 92
Score = 50.8 bits (121), Expect = 2e-07
Identities = 23/94 (24%), Positives = 36/94 (38%), Gaps = 6/94 (6%)
Query: 1858 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKD--STKAHLFIYLPGFTVAPAVEV 1915
EGWL +R K W + WF++ + + K S K I L V
Sbjct: 1 KEGWLKKRGGKGLK--SWKKRWFVLFDDVLLYYKSKKDSSKKPKGLIPLSDGLEVELVSS 58
Query: 1916 KSRKYALKIYHTGT--TFYLSADSQDEFSSWLGC 1947
+ ++ T+YL A+S++E WL
Sbjct: 59 SGKPNCFELVTPDRGRTYYLQAESEEEREEWLEA 92
>gnl|CDD|188932 cd09533, SAM_Ste50-like_fungal, SAM domain of Ste50_like (ubc2)
subfamily. SAM (sterile alpha motif) domain of
Ste50-like (or Ubc2 for Ustilago bypass of cyclase)
subfamily is a putative protein-protein interaction
domain. This group includes only fungal proteins.
Basidiomycetes have an N-terminal SAM domain, central
UBQ domain, and C-terminal SH3 domain, while
Ascomycetes lack the SH3 domain. Ubc2 of Ustilago
maydis is a major virulence and maize pathogenicity
factor. It is required for filamentous growth (the
budding haploid form of Ustilago maydis is a
saprophyte, while filamentous dikaryotic form is a
pathogen). Also the Ubc2 protein is involved in the
pheromone-responsive morphogenesis via the MAP kinase
cascade. The SAM domain is necessary for ubc2 function;
deletion of SAM eliminates this function. A Lys-to-Glu
mutation in the SAM domain of ubc2 gene induces
temperature sensitivity.
Length = 58
Score = 48.5 bits (116), Expect = 4e-07
Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 2/56 (3%)
Query: 13 QVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 68
VADWL L + +Y + F+ N + G L+ L +DL+ GI VGH+ IL+AV
Sbjct: 1 DVADWLSSLGLP--QYEDQFIENGITGDVLVALDHEDLKEMGITSVGHRLTILKAV 54
Score = 48.5 bits (116), Expect = 4e-07
Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 2/56 (3%)
Query: 1154 QVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 1209
VADWL L + +Y + F+ N + G L+ L +DL+ GI VGH+ IL+AV
Sbjct: 1 DVADWLSSLGLP--QYEDQFIENGITGDVLVALDHEDLKEMGITSVGHRLTILKAV 54
>gnl|CDD|188911 cd09512, SAM_Neurabin-like, SAM domain of SAM_Neurabin-like
subfamily. SAM (sterile alpha motif) domain of
Neurabin-like (Neural actin-binding) subfamily is a
putative protein-protein interaction domain. This group
currently includes the SAM domains of neurobin-I, SAMD14
and neurobin-I/SAMD14-like proteins. Most are
multidomain proteins and in addition to SAM domain they
contain other protein-binding domains such as PDZ and
actin-binding domains. Members of this subfamily
participate in signal transduction. Neurabin-I is
involved in the regulation of Ca signaling intensity in
alpha-adrenergic receptors; it forms a functional pair of
opposing regulators with neurabin-II. Neurabins are
expressed almost exclusively in neuronal cells. They are
known to interact with protein phosphatase 1 and inhibit
its activity; they also can bind actin filaments;
however, the exact role of the SAM domain is unclear,
since SAM doesn't participate in these interactions.
Length = 70
Score = 48.4 bits (116), Expect = 5e-07
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 1144 NTPINNWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGIC 1197
+ P++ W QV WL GL + +Y+ F N+++GQ LL L L+ GI
Sbjct: 1 SRPVSEWSVQQVCQWLMGL--GLEQYIPEFTANNIDGQQLLQLDSSKLKALGIT 52
Score = 46.9 bits (112), Expect = 2e-06
Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 2/51 (3%)
Query: 6 VADWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGIC 56
V++W QV WL GL + +Y+ F N+++GQ LL L L+ GI
Sbjct: 4 VSEWSVQQVCQWLMGL--GLEQYIPEFTANNIDGQQLLQLDSSKLKALGIT 52
>gnl|CDD|188974 cd09575, SAM_DGK-delta, SAM domain of diacylglycerol kinase delta.
SAM (sterile alpha motif) domain of DGK-delta subfamily
proteins is a protein-protein interaction domain.
Proteins of this subfamily are multidomain diacylglycerol
kinases with a SAM domain located at the C-terminus.
DGK-delta proteins participate in signal transduction.
They regulate the level of second messengers such as
diacylglycerol and phosphatidic acid. In particular
DGK-delta is involved in the regulation of
clathrin-dependent endocytosis. The SAM domain of
DGK-delta proteins can form high molecular weight
homooligomers through head-to-tail interactions as well
as heterooligomers with the SAM domain of DGK-eta
proteins. The oligomerization plays a role in the
regulation of the DGK-delta intracellular localization:
it inhibits the translocation of the protein to the
plasma membrane from the cytoplasm. The SAM domain also
can bind Zn at multiple (not conserved) sites driving the
formation of highly ordered large sheets of polymers,
thus suggesting that Zn may play important role in the
function of DCK-delta.
Length = 65
Score = 47.3 bits (112), Expect = 1e-06
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 1146 PINNWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEII 1205
P++ W ++VA WL+ L S+ Y + F + V G LL+L+ DL+ G+ KVGH + I
Sbjct: 1 PVHLWGTEEVAAWLEHL--SLCEYKDIFTRHDVRGSELLHLERRDLKDLGVTKVGHMKRI 58
Query: 1206 LEAVDHL 1212
L + L
Sbjct: 59 LCGIKEL 65
Score = 43.8 bits (103), Expect = 2e-05
Identities = 24/63 (38%), Positives = 36/63 (57%), Gaps = 2/63 (3%)
Query: 9 WKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 68
W ++VA WL+ L S+ Y + F + V G LL+L+ DL+ G+ KVGH + IL +
Sbjct: 5 WGTEEVAAWLEHL--SLCEYKDIFTRHDVRGSELLHLERRDLKDLGVTKVGHMKRILCGI 62
Query: 69 DHL 71
L
Sbjct: 63 KEL 65
>gnl|CDD|241470 cd13316, PH_Boi, Boi family Pleckstrin homology domain. Yeast Boi
proteins Boi1 and Boi2 are functionally redundant and
important for cell growth with Boi mutants displaying
defects in bud formation and in the maintenance of cell
polarity.They appear to be linked to Rho-type GTPase,
Cdc42 and Rho3. Boi1 and Boi2 display two-hybrid
interactions with the GTP-bound ("active") form of
Cdc42, while Rho3 can suppress of the lethality caused
by deletion of Boi1 and Boi2. These findings suggest
that Boi1 and Boi2 are targets of Cdc42 that promote
cell growth in a manner that is regulated by Rho3. Boi
proteins contain a N-terminal SH3 domain, followed by a
SAM (sterile alpha motif) domain, a proline-rich region,
which mediates binding to the second SH3 domain of Bem1,
and C-terminal PH domain. The PH domain is essential for
its function in cell growth and is important for
localization to the bud, while the SH3 domain is needed
for localization to the neck. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 95
Score = 47.4 bits (113), Expect = 3e-06
Identities = 22/98 (22%), Positives = 38/98 (38%), Gaps = 6/98 (6%)
Query: 712 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVKS 771
GW+ +R + T W +F++KG Y ++ +K I L G V
Sbjct: 1 HSGWMKKRGERYGT---WKTRYFVLKGTRLYYLKSENDSKEKGLIDLTGHRVTVDDSNSK 57
Query: 772 R-KYALKIYH--TGTTFYLSADSQDEFSSWLGCLSQAT 806
+Y K+ Y + D ++ W+ L +AT
Sbjct: 58 PGRYGFKLVPPAVEKVHYFAVDEKEVLREWMKALMKAT 95
Score = 47.4 bits (113), Expect = 3e-06
Identities = 22/98 (22%), Positives = 38/98 (38%), Gaps = 6/98 (6%)
Query: 1858 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVKS 1917
GW+ +R + T W +F++KG Y ++ +K I L G V
Sbjct: 1 HSGWMKKRGERYGT---WKTRYFVLKGTRLYYLKSENDSKEKGLIDLTGHRVTVDDSNSK 57
Query: 1918 R-KYALKIYH--TGTTFYLSADSQDEFSSWLGCLSQAT 1952
+Y K+ Y + D ++ W+ L +AT
Sbjct: 58 PGRYGFKLVPPAVEKVHYFAVDEKEVLREWMKALMKAT 95
>gnl|CDD|241417 cd13263, PH_RhoGap25-like, Rho GTPase activating protein 25 and
related proteins Pleckstrin homology (PH) domain.
RhoGAP25 (also called ArhGap25) like other RhoGaps are
involved in cell polarity, cell morphology and
cytoskeletal organization. They act as GTPase activators
for the Rac-type GTPases by converting them to an
inactive GDP-bound state and control actin remodeling by
inactivating Rac downstream of Rho leading to suppress
leading edge protrusion and promotes cell retraction to
achieve cellular polarity and are able to suppress RAC1
and CDC42 activity in vitro. Overexpression of these
proteins induces cell rounding with partial or complete
disruption of actin stress fibers and formation of
membrane ruffles, lamellipodia, and filopodia. This
hierarchy contains RhoGAP22, RhoGAP24, and RhoGAP25.
Members here contain an N-terminal PH domain followed by
a RhoGAP domain and either a BAR or TATA Binding Protein
(TBP) Associated Factor 4 (TAF4) domain. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 114
Score = 47.4 bits (113), Expect = 4e-06
Identities = 29/97 (29%), Positives = 43/97 (44%), Gaps = 16/97 (16%)
Query: 714 GWLFQRDRKI-STVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVA--PAVEVK 770
GWL +K V W R WF+++G+ Y + D+D +K I LPG TV P +
Sbjct: 7 GWL----KKQGGIVKNWQRRWFVLRGDQLYYYKDEDESKPQGCIPLPGNTVKELPFNPEE 62
Query: 771 SRKYALKIYHTGT---------TFYLSADSQDEFSSW 798
K+ +I ++ L A+SQ E W
Sbjct: 63 PGKFLFEIIPGDGGTRRSANHDSYLLMANSQAEMEEW 99
Score = 47.4 bits (113), Expect = 4e-06
Identities = 29/97 (29%), Positives = 43/97 (44%), Gaps = 16/97 (16%)
Query: 1860 GWLFQRDRKI-STVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVA--PAVEVK 1916
GWL +K V W R WF+++G+ Y + D+D +K I LPG TV P +
Sbjct: 7 GWL----KKQGGIVKNWQRRWFVLRGDQLYYYKDEDESKPQGCIPLPGNTVKELPFNPEE 62
Query: 1917 SRKYALKIYHTGT---------TFYLSADSQDEFSSW 1944
K+ +I ++ L A+SQ E W
Sbjct: 63 PGKFLFEIIPGDGGTRRSANHDSYLLMANSQAEMEEW 99
>gnl|CDD|241390 cd13236, PH2_FGD1-4, FYVE, RhoGEF and PH domain
containing/faciogenital dysplasia proteins pleckstrin
homology (PH) domain, C-terminus. In general, FGDs have
a RhoGEF (DH) domain, followed by an N-terminal PH
domain, a FYVE domain and a C-terminal PH domain. All
FGDs are guanine nucleotide exchange factors that
activates the Rho GTPase Cdc42, an important regulator
of membrane trafficking. The RhoGEF domain is
responsible for GEF catalytic activity, while the
N-terminal PH domain is involved in intracellular
targeting of the DH domain. Not much is known about
FGD2. FGD1 is the best characterized member of the
group with mutations here leading to the X-linked
disorder known as faciogenital dysplasia (FGDY). Both
FGD1 and FGD3 are targeted by the ubiquitin ligase
SCF(FWD1/beta-TrCP) upon phosphorylation of two serine
residues in its DSGIDS motif and subsequently degraded
by the proteasome. However, FGD1 and FGD3 induced
significantly different morphological changes in HeLa
Tet-Off cells and while FGD1 induced long finger-like
protrusions, FGD3 induced broad sheet-like protrusions
when the level of GTP-bound Cdc42 was significantly
increased by the inducible expression of FGD3. They also
reciprocally regulated cell motility in inducibly
expressed in HeLa Tet-Off cells, FGD1 stimulated cell
migration while FGD3 inhibited it. FGD1 and FGD3
therefore play different roles to regulate cellular
functions, even though their intracellular levels are
tightly controlled by the same destruction pathway
through SCF(FWD1/beta-TrCP). FGD4 is one of the genes
associated with Charcot-Marie-Tooth neuropathy type 4
(CMT4), a group of progressive motor and sensory axonal
and demyelinating neuropathies that are distinguished
from other forms of CMT by autosomal recessive
inheritance. Those affected have distal muscle weakness
and atrophy associated with sensory loss and,
frequently, pes cavus foot deformity. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 105
Score = 46.9 bits (112), Expect = 5e-06
Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 9/84 (10%)
Query: 729 WIRGWFIIKGN-----HFYGFTDKDSTKAHLFIYLPGFTV--APAVEVKSRKYALKIYHT 781
W + W +I + YG +D +A I LPG+ V P E K+ K+ +
Sbjct: 23 WQKVWCVIPRTEPLVLYLYG-APQDV-RAPRTIPLPGYEVSVPPPEERLDGKHVFKLSQS 80
Query: 782 GTTFYLSADSQDEFSSWLGCLSQA 805
+ Y SA+S++ WL LS+A
Sbjct: 81 KQSHYFSAESEELQQRWLEALSRA 104
Score = 46.9 bits (112), Expect = 5e-06
Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 9/84 (10%)
Query: 1875 WIRGWFIIKGN-----HFYGFTDKDSTKAHLFIYLPGFTV--APAVEVKSRKYALKIYHT 1927
W + W +I + YG +D +A I LPG+ V P E K+ K+ +
Sbjct: 23 WQKVWCVIPRTEPLVLYLYG-APQDV-RAPRTIPLPGYEVSVPPPEERLDGKHVFKLSQS 80
Query: 1928 GTTFYLSADSQDEFSSWLGCLSQA 1951
+ Y SA+S++ WL LS+A
Sbjct: 81 KQSHYFSAESEELQQRWLEALSRA 104
>gnl|CDD|241442 cd13288, PH_Ses, Sesquipedalian family Pleckstrin homology (PH)
domain. The sesquipedalian family has 2 mammalian
members: Ses1 and Ses2, which are also callled 7 kDa
inositol polyphosphate phosphatase-interacting protein 1
and 2. They play a role in endocytic trafficking and are
required for receptor recycling from endosomes, both to
the trans-Golgi network and the plasma membrane. Members
of this family form homodimers and heterodimers.
Sesquipedalian interacts with inositol polyphosphate
5-phosphatase OCRL-1 (INPP5F) also known as Lowe
oculocerebrorenal syndrome protein, a phosphatase enzyme
that is involved in actin polymerization and is found in
the trans-Golgi network and INPP5B. Sesquipedalian
contains a single PH domain. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 120
Score = 47.2 bits (113), Expect = 6e-06
Identities = 35/111 (31%), Positives = 57/111 (51%), Gaps = 12/111 (10%)
Query: 710 PDCEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEV 769
D EG+L+++ + +T Q + WF++KGN + F K + I L G TV E+
Sbjct: 8 VDKEGYLWKK-GERNTSYQ--KRWFVLKGNLLFYFEKKGDREPLGVIVLEGCTV----EL 60
Query: 770 --KSRKYALKIYHTGT---TFYLSADSQDEFSSWLGCLSQATIAHDRSPVE 815
YA I G ++ L+A+SQ++ SW+ LS+A+ + R VE
Sbjct: 61 SEDEEPYAFAIRFDGPGSRSYVLAAESQEDMESWMKALSRASYDYLRLVVE 111
Score = 47.2 bits (113), Expect = 6e-06
Identities = 35/111 (31%), Positives = 57/111 (51%), Gaps = 12/111 (10%)
Query: 1856 PDCEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEV 1915
D EG+L+++ + +T Q + WF++KGN + F K + I L G TV E+
Sbjct: 8 VDKEGYLWKK-GERNTSYQ--KRWFVLKGNLLFYFEKKGDREPLGVIVLEGCTV----EL 60
Query: 1916 --KSRKYALKIYHTGT---TFYLSADSQDEFSSWLGCLSQATIAHDRSPVE 1961
YA I G ++ L+A+SQ++ SW+ LS+A+ + R VE
Sbjct: 61 SEDEEPYAFAIRFDGPGSRSYVLAAESQEDMESWMKALSRASYDYLRLVVE 111
>gnl|CDD|241530 cd13379, PH_RhoGap24, Rho GTPase activating protein 24 Pleckstrin
homology (PH) domain. RhoGap24 (also called ARHGAP24,
p73RhoGAp, and Filamin-A-associated RhoGAP) like other
RhoGAPs are involved in cell polarity, cell morphology
and cytoskeletal organization. They act as GTPase
activators for the Rac-type GTPases by converting them
to an inactive GDP-bound state and control actin
remodeling by inactivating Rac downstream of Rho leading
to suppress leading edge protrusion and promotes cell
retraction to achieve cellular polarity and are able to
suppress RAC1 and CDC42 activity in vitro.
Overexpression of these proteins induces cell rounding
with partial or complete disruption of actin stress
fibers and formation of membrane ruffles, lamellipodia,
and filopodia. Members here contain an N-terminal PH
domain followed by a RhoGAP domain and either a BAR or
TATA Binding Protein (TBP) Associated Factor 4 (TAF4)
domain. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 114
Score = 46.5 bits (110), Expect = 8e-06
Identities = 29/97 (29%), Positives = 46/97 (47%), Gaps = 14/97 (14%)
Query: 714 GWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVA--PAVEVKS 771
GWL ++ + T W WF++KG+ Y F D+D TK I+LPG V P E +
Sbjct: 7 GWLRKQGGFVKT---WHTRWFVLKGDQLYYFKDEDETKPLGTIFLPGNRVTEHPCNEEEP 63
Query: 772 RKYALKIYHTG---------TTFYLSADSQDEFSSWL 799
K+ ++ G T+ L A +Q++ W+
Sbjct: 64 GKFLFEVVPGGDRERMTANHETYLLMASTQNDMEDWV 100
Score = 46.5 bits (110), Expect = 8e-06
Identities = 29/97 (29%), Positives = 46/97 (47%), Gaps = 14/97 (14%)
Query: 1860 GWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVA--PAVEVKS 1917
GWL ++ + T W WF++KG+ Y F D+D TK I+LPG V P E +
Sbjct: 7 GWLRKQGGFVKT---WHTRWFVLKGDQLYYFKDEDETKPLGTIFLPGNRVTEHPCNEEEP 63
Query: 1918 RKYALKIYHTG---------TTFYLSADSQDEFSSWL 1945
K+ ++ G T+ L A +Q++ W+
Sbjct: 64 GKFLFEVVPGGDRERMTANHETYLLMASTQNDMEDWV 100
>gnl|CDD|241391 cd13237, PH2_FGD5_FGD6, FYVE, RhoGEF and PH domain
containing/faciogenital dysplasia proteins 5 and 6
pleckstrin homology (PH) domain, C-terminus. FGD5
regulates promotes angiogenesis of vascular endothelial
growth factor (VEGF) in vascular endothelial cells,
including network formation, permeability, directional
movement, and proliferation. The specific function of
FGD6 is unknown. In general, FGDs have a RhoGEF (DH)
domain, followed by a PH domain, a FYVE domain and a
C-terminal PH domain. All FGDs are guanine nucleotide
exchange factors that activate the Rho GTPase Cdc42, an
important regulator of membrane trafficking. The RhoGEF
domain is responsible for GEF catalytic activity, while
the PH domain is involved in intracellular targeting of
the DH domain. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 90
Score = 45.1 bits (107), Expect = 1e-05
Identities = 26/89 (29%), Positives = 38/89 (42%), Gaps = 6/89 (6%)
Query: 714 GWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVK--S 771
G+L++R RK W R WF++K Y + + A I L G+TV PA E
Sbjct: 3 GYLYRRKRKKK---SWKRLWFVLKDKVLYTYKASEDVVALESIPLLGYTVVPAKEGFEGD 59
Query: 772 RKYALKIYHTGTTFY-LSADSQDEFSSWL 799
++ H G Y AD + W+
Sbjct: 60 ESLVFQLLHKGQLPYIFRADDAETAQRWI 88
Score = 45.1 bits (107), Expect = 1e-05
Identities = 26/89 (29%), Positives = 38/89 (42%), Gaps = 6/89 (6%)
Query: 1860 GWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVK--S 1917
G+L++R RK W R WF++K Y + + A I L G+TV PA E
Sbjct: 3 GYLYRRKRKKK---SWKRLWFVLKDKVLYTYKASEDVVALESIPLLGYTVVPAKEGFEGD 59
Query: 1918 RKYALKIYHTGTTFY-LSADSQDEFSSWL 1945
++ H G Y AD + W+
Sbjct: 60 ESLVFQLLHKGQLPYIFRADDAETAQRWI 88
>gnl|CDD|188904 cd09505, SAM_WDSUB1, SAM domain of WDSUB1 proteins. SAM (sterile
alpha motif) domain of WDSUB1 subfamily proteins is a
putative protein-protein interaction domain. Proteins
of this group contain multiple domains: SAM, one or
more WD40 repeats and U-box (derived version of the
RING-finger domain). Apparently the WDSUB1 subfamily
proteins participate in protein degradation through
ubiquitination, since U-box domain are known as a
member of E3 ubiquitin ligase family, while SAM and
WD40 domains most probably are responsible for an E2
ubiquitin-conjugating enzyme binding and a target
protein binding.
Length = 72
Score = 44.6 bits (106), Expect = 1e-05
Identities = 24/71 (33%), Positives = 39/71 (54%), Gaps = 7/71 (9%)
Query: 6 VADWKPDQVADWLK--GLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHH-GICKVGHQE 62
+ DW + V WL+ GL+ +YVE F N+++G+ LLNL + L I +GH+
Sbjct: 2 LQDWSEEDVCTWLRSIGLE----QYVEVFRANNIDGKELLNLTKESLSKDLKIESLGHRN 57
Query: 63 IILEAVDHLRN 73
IL ++ L+
Sbjct: 58 KILRKIEELKM 68
Score = 44.2 bits (105), Expect = 2e-05
Identities = 23/72 (31%), Positives = 39/72 (54%), Gaps = 7/72 (9%)
Query: 1146 PINNWKPDQVADWLK--GLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHH-GICKVGHQ 1202
+ +W + V WL+ GL+ +YVE F N+++G+ LLNL + L I +GH+
Sbjct: 1 SLQDWSEEDVCTWLRSIGLE----QYVEVFRANNIDGKELLNLTKESLSKDLKIESLGHR 56
Query: 1203 EIILEAVDHLRN 1214
IL ++ L+
Sbjct: 57 NKILRKIEELKM 68
>gnl|CDD|146632 pfam04099, Sybindin, Sybindin-like family. Sybindin is a
physiological syndecan-2 ligand on dendritic spines, the
small protrusions on the surface of dendrites that
receive the vast majority of excitatory synapses.
Length = 135
Score = 46.2 bits (110), Expect = 2e-05
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 1101 FVTPTGVKFLMVHDSKNEEGIKKFFTSVYELFIKYSL-NPFYKINTPI 1147
T TG+KF++V D YEL+ Y L NPFY + PI
Sbjct: 72 LQTLTGIKFVLVTDPGTGPNRDSLLRKYYELYSDYVLKNPFYSLEMPI 119
>gnl|CDD|241404 cd13250, PH_ACAP, ArfGAP with coiled-coil, ankyrin repeat and PH
domains Pleckstrin homology (PH) domain. ACAP (also
called centaurin beta) functions both as a Rab35
effector and as an Arf6-GTPase-activating protein (GAP)
by which it controls actin remodeling and membrane
trafficking. ACAP contain an NH2-terminal
bin/amphiphysin/Rvs (BAR) domain, a phospholipid-binding
domain, a PH domain, a GAP domain, and four ankyrin
repeats. The AZAPs constitute a family of Arf GAPs that
are characterized by an NH2-terminal pleckstrin homology
(PH) domain and a central Arf GAP domain followed by two
or more ankyrin repeats. On the basis of sequence and
domain organization, the AZAP family is further
subdivided into four subfamilies: 1) the ACAPs contain
an NH2-terminal bin/amphiphysin/Rvs (BAR) domain (a
phospholipid-binding domain that is thought to sense
membrane curvature), a single PH domain followed by the
GAP domain, and four ankyrin repeats; 2) the ASAPs also
contain an NH2-terminal BAR domain, the tandem PH
domain/GAP domain, three ankyrin repeats, two
proline-rich regions, and a COOH-terminal Src homology 3
domain; 3) the AGAPs contain an NH2-terminal GTPase-like
domain (GLD), a split PH domain, and the GAP domain
followed by four ankyrin repeats; and 4) the ARAPs
contain both an Arf GAP domain and a Rho GAP domain, as
well as an NH2-terminal sterile-a motif (SAM), a
proline-rich region, a GTPase-binding domain, and five
PH domains. PMID 18003747 and 19055940 Centaurin can
bind to phosphatidlyinositol (3,4,5)P3. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 98
Score = 44.5 bits (106), Expect = 2e-05
Identities = 26/103 (25%), Positives = 46/103 (44%), Gaps = 15/103 (14%)
Query: 713 EGWLFQRDRKISTVPQ-WIRGWFIIKGNHFY---GFTDKDSTKAH--LFIYLPGFTVAPA 766
EG+LF+R S + W R WF I+ F T L + TV P
Sbjct: 2 EGYLFKRS---SNAFKTWKRRWFSIQNGQLVYQKRFKKDTPTVVVEDLRLC----TVKPC 54
Query: 767 VEVKSRKYALKIYHTGTTFYLSADSQDEFSSWLGCLSQATIAH 809
++ R++ ++ ++ L A+S+++ +W+ + QA IA
Sbjct: 55 EDI-DRRFCFEVVSPTKSYMLQAESEEDRQAWIQAI-QAAIAS 95
Score = 44.5 bits (106), Expect = 2e-05
Identities = 26/103 (25%), Positives = 46/103 (44%), Gaps = 15/103 (14%)
Query: 1859 EGWLFQRDRKISTVPQ-WIRGWFIIKGNHFY---GFTDKDSTKAH--LFIYLPGFTVAPA 1912
EG+LF+R S + W R WF I+ F T L + TV P
Sbjct: 2 EGYLFKRS---SNAFKTWKRRWFSIQNGQLVYQKRFKKDTPTVVVEDLRLC----TVKPC 54
Query: 1913 VEVKSRKYALKIYHTGTTFYLSADSQDEFSSWLGCLSQATIAH 1955
++ R++ ++ ++ L A+S+++ +W+ + QA IA
Sbjct: 55 EDI-DRRFCFEVVSPTKSYMLQAESEEDRQAWIQAI-QAAIAS 95
>gnl|CDD|241283 cd01252, PH_GRP1-like, General Receptor for
Phosphoinositides-1-like Pleckstrin homology (PH)
domain. GRP1/cytohesin3 and the related proteins ARNO
(ARF nucleotide-binding site opener)/cytohesin-2 and
cytohesin-1 are ARF exchange factors that contain a
pleckstrin homology (PH) domain thought to target these
proteins to cell membranes through binding
polyphosphoinositides. The PH domains of all three
proteins exhibit relatively high affinity for
PtdIns(3,4,5)P3. Within the Grp1 family, diglycine (2G)
and triglycine (3G) splice variants, differing only in
the number of glycine residues in the PH domain,
strongly influence the affinity and specificity for
phosphoinositides. The 2G variants selectively bind
PtdIns(3,4,5)P3 with high affinity,the 3G variants bind
PtdIns(3,4,5)P3 with about 30-fold lower affinity and
require the polybasic region for plasma membrane
targeting. These ARF-GEFs share a common, tripartite
structure consisting of an N-terminal coiled-coil
domain, a central domain with homology to the yeast
protein Sec7, a PH domain, and a C-terminal polybasic
region. The Sec7 domain is autoinhibited by conserved
elements proximal to the PH domain. GRP1 binds to the
DNA binding domain of certain nuclear receptors
(TRalpha, TRbeta, AR, ER, but not RXR), and can repress
thyroid hormone receptor (TR)-mediated transactivation
by decreasing TR-complex formation on thyroid hormone
response elements. ARNO promotes sequential activation
of Arf6, Cdc42 and Rac1 and insulin secretion. Cytohesin
acts as a PI 3-kinase effector mediating biological
responses including cell spreading and adhesion,
chemotaxis, protein trafficking, and cytoskeletal
rearrangements, only some of which appear to depend on
their ability to activate ARFs. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 118
Score = 43.8 bits (104), Expect = 8e-05
Identities = 35/122 (28%), Positives = 54/122 (44%), Gaps = 27/122 (22%)
Query: 710 PDCEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGF---TDK-----------------DS 749
PD EGWL + ++ + W R WFI+ N Y F TDK DS
Sbjct: 3 PDREGWLLKLGGRVKS---WKRRWFILTDNCLYYFEYTTDKEPRGIIPLENLSVREVEDS 59
Query: 750 TKAHLF-IYLPGFTVAPAVEVKSRKYALKIYHTGTTFYLSADSQDEFSSWLGCLSQATIA 808
K F +Y P V A + S ++ H T + +SA +++E W+ + +A+I+
Sbjct: 60 KKPFCFELYSPSNEVIKACKTDSDGKVVEGNH--TVYRISAATEEEMDEWIKSI-KASIS 116
Query: 809 HD 810
D
Sbjct: 117 RD 118
Score = 43.8 bits (104), Expect = 8e-05
Identities = 35/122 (28%), Positives = 54/122 (44%), Gaps = 27/122 (22%)
Query: 1856 PDCEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGF---TDK-----------------DS 1895
PD EGWL + ++ + W R WFI+ N Y F TDK DS
Sbjct: 3 PDREGWLLKLGGRVKS---WKRRWFILTDNCLYYFEYTTDKEPRGIIPLENLSVREVEDS 59
Query: 1896 TKAHLF-IYLPGFTVAPAVEVKSRKYALKIYHTGTTFYLSADSQDEFSSWLGCLSQATIA 1954
K F +Y P V A + S ++ H T + +SA +++E W+ + +A+I+
Sbjct: 60 KKPFCFELYSPSNEVIKACKTDSDGKVVEGNH--TVYRISAATEEEMDEWIKSI-KASIS 116
Query: 1955 HD 1956
D
Sbjct: 117 RD 118
>gnl|CDD|188933 cd09534, SAM_Ste11_fungal, SAM domain of Ste11_fungal subfamily.
SAM (sterile alpha motif) domain of Ste11 subfamily is
a protein-protein interaction domain. Proteins of this
subfamily have SAM domain at the N-terminus and protein
kinase domain at the C-terminus. They participate in
regulation of mating pheromone response, invasive
growth and high osmolarity growth response. MAP triple
kinase Ste11 from S.cerevisia is known to interact with
Ste20 kinase and Ste50 regulator. These kinases are
able to form homodimers interacting through their SAM
domains as well as heterodimers or heterogenous
complexes when either SAM domain of monomeric or
homodimeric form of Ste11 interacts with Ste50
regulator.
Length = 62
Score = 41.8 bits (99), Expect = 1e-04
Identities = 21/64 (32%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 9 WKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 68
W + V +WL +++ +Y++ F N + G LL L + L+ GI KVG + +L A+
Sbjct: 1 WDEEFVEEWLN--ELNCGQYLDIFEKNLITGDLLLELDKEALKELGITKVGDRIRLLRAI 58
Query: 69 DHLR 72
LR
Sbjct: 59 KSLR 62
Score = 41.8 bits (99), Expect = 1e-04
Identities = 21/64 (32%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 1150 WKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 1209
W + V +WL +++ +Y++ F N + G LL L + L+ GI KVG + +L A+
Sbjct: 1 WDEEFVEEWLN--ELNCGQYLDIFEKNLITGDLLLELDKEALKELGITKVGDRIRLLRAI 58
Query: 1210 DHLR 1213
LR
Sbjct: 59 KSLR 62
>gnl|CDD|188897 cd09498, SAM_caskin1,2_repeat2, SAM domain of caskin protein repeat
2. SAM (sterile alpha motif) domain repeat 2 of
caskin1,2 proteins is a protein-protein interaction
domain. Caskin has two tandem SAM domains. Caskin protein
is known to interact with membrane-associated guanylate
kinase CASK, and may play a role in neural development,
synaptic protein targeting, and regulation of gene
expression.
Length = 71
Score = 40.4 bits (95), Expect = 4e-04
Identities = 17/69 (24%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 1146 PINNWKPDQVADWLKGLDVSIHRYVESFLNNHVNG-QHLLNLQPDDLEHHGICKVGHQEI 1204
+ ++ P+ + +WL L + +Y + + N + + +L +DL+ GI K+GHQ+
Sbjct: 1 WLPDYPPNDLLEWLSLLGLP--QYHKVLVENGYDSIDFVTDLTWEDLQDIGITKLGHQKK 58
Query: 1205 ILEAVDHLR 1213
++ A+ L+
Sbjct: 59 LMLAIKKLK 67
Score = 40.0 bits (94), Expect = 5e-04
Identities = 18/66 (27%), Positives = 37/66 (56%), Gaps = 3/66 (4%)
Query: 8 DWKPDQVADWLKGLDVSIHRYVESFLNNHVNG-QHLLNLQPDDLEHHGICKVGHQEIILE 66
D+ P+ + +WL L + +Y + + N + + +L +DL+ GI K+GHQ+ ++
Sbjct: 4 DYPPNDLLEWLSLLGLP--QYHKVLVENGYDSIDFVTDLTWEDLQDIGITKLGHQKKLML 61
Query: 67 AVDHLR 72
A+ L+
Sbjct: 62 AIKKLK 67
>gnl|CDD|188900 cd09501, SAM_SARM1-like_repeat1, SAM domain ot SARM1-like proteins,
repeat 1. SAM (sterile alpha motif) domain repeat 1 of
SARM1-like adaptor proteins is a protein-protein
interaction domain. SARM1-like proteins contain two
tandem SAM domains. SARM1-like proteins are involved in
TLR (Toll-like receptor) signaling. They are responsible
for targeted localization of the whole protein to
post-synaptic regions of axons. In humans SARM1
expression is detected in kidney and liver.
Length = 69
Score = 40.0 bits (94), Expect = 5e-04
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 2/45 (4%)
Query: 1149 NWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEH 1193
W V WLK + Y E F + V+G LL L D+L+
Sbjct: 3 LWSVADVQTWLKQIGFE--DYAEKFSESQVDGDLLLQLTEDELKQ 45
Score = 39.6 bits (93), Expect = 6e-04
Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 6 VADWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEH 52
V W V WLK + Y E F + V+G LL L D+L+
Sbjct: 1 VPLWSVADVQTWLKQIGFE--DYAEKFSESQVDGDLLLQLTEDELKQ 45
>gnl|CDD|188934 cd09535, SAM_BOI-like_fungal, SAM domain of BOI-like fungal
subfamily. SAM (sterile alpha motif) domain of BOI-like
fungal subfamily is a potential protein-protein
interaction domain. Proteins of this subfamily are
apparently scaffold proteins, since most contain SH3 and
PH domains, which are also protein-protein interaction
domains, in addition to SAM domain. BOI-like proteins
participate in cell cycle regulation. In particular BOI1
and BOI2 proteins of budding yeast S.cerevisiae are
involved in bud formation, and POB1 protein of fission
yeast S.pombe plays a role in cell elongation and
separation. Among binding partners of BOI-like fungal
subfamily members are such proteins as Bem1 and Cdc42
(they are known to be involved in cell polarization and
bud formation).
Length = 65
Score = 39.8 bits (94), Expect = 5e-04
Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 5/67 (7%)
Query: 1149 NWKPDQVADWL--KGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIIL 1206
+W P+QVA+WL G D S+ E F N + G LL L +DL+ I G + +
Sbjct: 2 SWSPEQVAEWLLSAGFDDSV---CEKFRENEITGDILLELDLEDLKELDIGSFGKRFKLW 58
Query: 1207 EAVDHLR 1213
+ LR
Sbjct: 59 NEIKSLR 65
Score = 38.7 bits (91), Expect = 0.001
Identities = 23/66 (34%), Positives = 32/66 (48%), Gaps = 5/66 (7%)
Query: 9 WKPDQVADWL--KGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILE 66
W P+QVA+WL G D S+ E F N + G LL L +DL+ I G + +
Sbjct: 3 WSPEQVAEWLLSAGFDDSV---CEKFRENEITGDILLELDLEDLKELDIGSFGKRFKLWN 59
Query: 67 AVDHLR 72
+ LR
Sbjct: 60 EIKSLR 65
>gnl|CDD|188912 cd09513, SAM_BAR, SAM domain of BAR subfamily. SAM (sterile
alpha motif) domain of BAR (Bifunctional Apoptosis
Regulator) subfamily is a protein-protein interaction
domain. In addition to the SAM domain, this type of
regulator has a RING finger domain. Proteins of this
subfamily are involved in the apoptosis signal network.
Their overexpression in human neuronal cells
significantly protects cells from a broad range of cell
death stimuli. SAM domain can interact with Caspase8,
Bcl-2 and Bcl-X resulting in suppression of Bax-induced
cell death.
Length = 71
Score = 39.8 bits (93), Expect = 6e-04
Identities = 22/69 (31%), Positives = 36/69 (52%), Gaps = 2/69 (2%)
Query: 6 VADWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEH--HGICKVGHQEI 63
V+ W P++V WL+ L Y E FL+ +VNG+ LL L ++L I H+
Sbjct: 1 VSKWTPEEVVLWLEQLGPWASLYRERFLSENVNGRLLLTLTEEELSKPPFNIENSLHRRA 60
Query: 64 ILEAVDHLR 72
IL ++ ++
Sbjct: 61 ILTELERVK 69
Score = 37.5 bits (87), Expect = 0.004
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 1150 WKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEH--HGICKVGHQEIILE 1207
W P++V WL+ L Y E FL+ +VNG+ LL L ++L I H+ IL
Sbjct: 4 WTPEEVVLWLEQLGPWASLYRERFLSENVNGRLLLTLTEEELSKPPFNIENSLHRRAILT 63
Query: 1208 AVDHLR 1213
++ ++
Sbjct: 64 ELERVK 69
>gnl|CDD|188929 cd09530, SAM_Samd14, SAM domain of Samd14 subfamily. SAM (sterile
alpha motif) domain of SamD14 (or FAM15A) subfamily is a
putative protein-protein interaction domain. SAM is
widespread domain in proteins involved in signal
transduction and regulation. In many cases SAM mediates
homodimerization/oligomerization. The exact function of
proteins belonging to this subfamily is unknown.
Length = 67
Score = 39.2 bits (92), Expect = 9e-04
Identities = 17/67 (25%), Positives = 31/67 (46%), Gaps = 2/67 (2%)
Query: 1149 NWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEA 1208
+W + VA+W++GL +Y E F N ++G+ L+ + L G+ H + I
Sbjct: 2 SWDTEDVAEWIEGL--GFPQYRECFTTNFIDGRKLILVDASTLPRMGVTDFEHIKAIARK 59
Query: 1209 VDHLRNF 1215
+ L
Sbjct: 60 IRELLGI 66
Score = 38.1 bits (89), Expect = 0.002
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 9 WKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 68
W + VA+W++GL +Y E F N ++G+ L+ + L G+ H + I +
Sbjct: 3 WDTEDVAEWIEGL--GFPQYRECFTTNFIDGRKLILVDASTLPRMGVTDFEHIKAIARKI 60
Query: 69 DHLRNF 74
L
Sbjct: 61 RELLGI 66
>gnl|CDD|241529 cd13378, PH_RhoGAP2, Rho GTPase activating protein 2 Pleckstrin
homology (PH) domain. RhoGAP2 (also called RhoGap22 or
ArhGap22) are involved in cell polarity, cell morphology
and cytoskeletal organization. They activate a GTPase
belonging to the RAS superfamily of small GTP-binding
proteins. The encoded protein is insulin-responsive, is
dependent on the kinase Akt, and requires the
Akt-dependent 14-3-3 binding protein which binds
sequentially to two serine residues resulting in
regulation of cell motility. Members here contain an
N-terminal PH domain followed by a RhoGAP domain and
either a BAR or TATA Binding Protein (TBP) Associated
Factor 4 (TAF4) domain. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 116
Score = 40.7 bits (95), Expect = 0.001
Identities = 23/103 (22%), Positives = 42/103 (40%), Gaps = 24/103 (23%)
Query: 714 GWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPG------------- 760
GWL ++ S + W + WF+++G+ + + D++ TK I L G
Sbjct: 7 GWL---KKQRSIMKNWQQRWFVLRGDQLFYYKDEEETKPQGCISLQGSQVNELPPNPEEP 63
Query: 761 ----FTVAPAVEVKSRKYALKIYHTGTTFYLSADSQDEFSSWL 799
F + P + + + H F L A+SQ + W+
Sbjct: 64 GKHLFEILPGGA--GDREKVPMNH--EAFLLMANSQSDMEDWV 102
Score = 40.7 bits (95), Expect = 0.001
Identities = 23/103 (22%), Positives = 42/103 (40%), Gaps = 24/103 (23%)
Query: 1860 GWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPG------------- 1906
GWL ++ S + W + WF+++G+ + + D++ TK I L G
Sbjct: 7 GWL---KKQRSIMKNWQQRWFVLRGDQLFYYKDEEETKPQGCISLQGSQVNELPPNPEEP 63
Query: 1907 ----FTVAPAVEVKSRKYALKIYHTGTTFYLSADSQDEFSSWL 1945
F + P + + + H F L A+SQ + W+
Sbjct: 64 GKHLFEILPGGA--GDREKVPMNH--EAFLLMANSQSDMEDWV 102
>gnl|CDD|241450 cd13296, PH2_MyoX, Myosin X Pleckstrin homology (PH) domain, repeat
2. MyoX, a MyTH-FERM myosin, is a molecular motor that
has crucial functions in the transport and/or tethering
of integrins in the actin-based extensions known as
filopodia, microtubule binding, and in netrin-mediated
axon guidance. It functions as a dimer. MyoX walks on
bundles of actin, rather than single filaments, unlike
the other unconventional myosins. MyoX is present in
organisms ranging from humans to choanoflagellates, but
not in Drosophila and Caenorhabditis elegans.MyoX
consists of a N-terminal motor/head region, a neck made
of 3 IQ motifs, and a tail consisting of a coiled-coil
domain, a PEST region, 3 PH domains, a myosin tail
homology 4 (MyTH4), and a FERM domain at its very
C-terminus. The first PH domain in the MyoX tail is a
split-PH domain, interupted by the second PH domain such
that PH 1a and PH 1b flanks PH 2. The third PH domain
(PH 3) follows the PH 1b domain. This cd contains the
second PH repeat. PH domains have diverse functions, but
in general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 111
Score = 40.1 bits (94), Expect = 0.001
Identities = 21/94 (22%), Positives = 42/94 (44%), Gaps = 5/94 (5%)
Query: 714 GWLFQRDRKISTVP--QWIRGWFIIKGNHF-YGFTDKDSTKAHLFIYLPGFTVAPAVEVK 770
GWL+++ ST+ W WF+++ Y D++ KA I + + V+
Sbjct: 11 GWLYKKGGGSSTLSRKNWKSRWFVLRDTVLKYYENDQEGAKALGTIDIR--SAKEIVDNT 68
Query: 771 SRKYALKIYHTGTTFYLSADSQDEFSSWLGCLSQ 804
++ I T++ A+S ++ S W L++
Sbjct: 69 PKENGFDITTPSRTYHFVAESPEDASQWFSVLTR 102
Score = 40.1 bits (94), Expect = 0.001
Identities = 21/94 (22%), Positives = 42/94 (44%), Gaps = 5/94 (5%)
Query: 1860 GWLFQRDRKISTVP--QWIRGWFIIKGNHF-YGFTDKDSTKAHLFIYLPGFTVAPAVEVK 1916
GWL+++ ST+ W WF+++ Y D++ KA I + + V+
Sbjct: 11 GWLYKKGGGSSTLSRKNWKSRWFVLRDTVLKYYENDQEGAKALGTIDIR--SAKEIVDNT 68
Query: 1917 SRKYALKIYHTGTTFYLSADSQDEFSSWLGCLSQ 1950
++ I T++ A+S ++ S W L++
Sbjct: 69 PKENGFDITTPSRTYHFVAESPEDASQWFSVLTR 102
>gnl|CDD|214570 smart00228, PDZ, Domain present in PSD-95, Dlg, and ZO-1/2. Also
called DHR (Dlg homologous region) or GLGF (relatively
well conserved tetrapeptide in these domains). Some PDZs
have been shown to bind C-terminal polypeptides; others
appear to bind internal (non-C-terminal) polypeptides.
Different PDZs possess different binding specificities.
Length = 85
Score = 38.9 bits (91), Expect = 0.002
Identities = 20/85 (23%), Positives = 41/85 (48%), Gaps = 6/85 (7%)
Query: 204 LATLKKRPGEHLGFCII---PSFHGIHQIGDIKCNSTAYQSGKIECGDEIVQINYQTVVG 260
L L+K G LGF ++ G+ + + S A ++G + GD I+++N +V G
Sbjct: 4 LVELEKGGGG-LGFSLVGGKDEGGGV-VVSSVVPGSPAAKAG-LRVGDVILEVNGTSVEG 60
Query: 261 WDVKQVMALFEESSSDIFLTLKKRP 285
+ + L +++ + LT+ +
Sbjct: 61 LTHLEAVDLLKKAGGKVTLTVLRGG 85
Score = 38.9 bits (91), Expect = 0.002
Identities = 20/85 (23%), Positives = 41/85 (48%), Gaps = 6/85 (7%)
Query: 1345 LATLKKRPGEHLGFCII---PSFHGIHQIGDIKCNSTAYQSGKIECGDEIVQINYQTVVG 1401
L L+K G LGF ++ G+ + + S A ++G + GD I+++N +V G
Sbjct: 4 LVELEKGGGG-LGFSLVGGKDEGGGV-VVSSVVPGSPAAKAG-LRVGDVILEVNGTSVEG 60
Query: 1402 WDVKQVMALFEESSSDIFLTLKKRP 1426
+ + L +++ + LT+ +
Sbjct: 61 LTHLEAVDLLKKAGGKVTLTVLRGG 85
>gnl|CDD|241434 cd13280, PH_SIP3, Snf1p-interacting protein 3 Pleckstrin homology
(PH) domain. SIP3 interacts with SNF1 protein kinase
and activates transcription when anchored to DNA. It may
function in the SNF1 pathway. SIP3 contain an N-terminal
Bin/Amphiphysin/Rvs (BAR) domain followed by a PH
domain. BAR domains form dimers that bind to membranes,
induce membrane bending and curvature, and may also be
involved in protein-protein interactions. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 105
Score = 39.2 bits (92), Expect = 0.002
Identities = 23/107 (21%), Positives = 36/107 (33%), Gaps = 24/107 (22%)
Query: 713 EGWLFQRDRKISTV-PQWIRGWFIIKGNHFYGF------------TDKDSTKAHLFIYLP 759
GWL+ + W+R W +K F G TDK + L
Sbjct: 3 SGWLYMKTSVGKPNRTIWVRRWCFVKNGVF-GMLSLSPSKTYVEETDKFG------VLLC 55
Query: 760 GFTVAPAVEVKSRKYALKIY-HTGTTFYLSADSQDEFSSWLGCLSQA 805
AP + R++ ++ + L A++ E SWL A
Sbjct: 56 NVRYAPEED---RRFCFEVKIFKDISIILQAETLKELKSWLTVFENA 99
Score = 39.2 bits (92), Expect = 0.002
Identities = 23/107 (21%), Positives = 36/107 (33%), Gaps = 24/107 (22%)
Query: 1859 EGWLFQRDRKISTV-PQWIRGWFIIKGNHFYGF------------TDKDSTKAHLFIYLP 1905
GWL+ + W+R W +K F G TDK + L
Sbjct: 3 SGWLYMKTSVGKPNRTIWVRRWCFVKNGVF-GMLSLSPSKTYVEETDKFG------VLLC 55
Query: 1906 GFTVAPAVEVKSRKYALKIY-HTGTTFYLSADSQDEFSSWLGCLSQA 1951
AP + R++ ++ + L A++ E SWL A
Sbjct: 56 NVRYAPEED---RRFCFEVKIFKDISIILQAETLKELKSWLTVFENA 99
>gnl|CDD|241452 cd13298, PH1_PH_fungal, Fungal proteins Pleckstrin homology (PH)
domain, repeat 1. The functions of these fungal
proteins are unknown, but they all contain 2 PH domains.
This cd represents the first PH repeat. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 106
Score = 38.8 bits (91), Expect = 0.003
Identities = 25/96 (26%), Positives = 43/96 (44%), Gaps = 5/96 (5%)
Query: 712 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFT-VAPAVEVK 770
GWL +R RK W + WF+++ + D+ K I L T VAP ++ K
Sbjct: 8 KSGWLLKRSRKTK---TWKKRWFVLRPCQLSYYKDEKEYKLRRVINLSELTAVAP-LKDK 63
Query: 771 SRKYALKIYHTGTTFYLSADSQDEFSSWLGCLSQAT 806
RK IY ++ A S+ + + W+ + + +
Sbjct: 64 KRKNVFAIYTPSKNYHFQASSEKDANEWVEAIREES 99
Score = 38.8 bits (91), Expect = 0.003
Identities = 25/96 (26%), Positives = 43/96 (44%), Gaps = 5/96 (5%)
Query: 1858 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFT-VAPAVEVK 1916
GWL +R RK W + WF+++ + D+ K I L T VAP ++ K
Sbjct: 8 KSGWLLKRSRKTK---TWKKRWFVLRPCQLSYYKDEKEYKLRRVINLSELTAVAP-LKDK 63
Query: 1917 SRKYALKIYHTGTTFYLSADSQDEFSSWLGCLSQAT 1952
RK IY ++ A S+ + + W+ + + +
Sbjct: 64 KRKNVFAIYTPSKNYHFQASSEKDANEWVEAIREES 99
>gnl|CDD|188953 cd09554, SAM_EPH-B4, SAM domain of EPH-B4 subfamily of tyrosine
kinase receptors. SAM (sterile alpha motif) domain of
EPH-B4 subfamily of receptor tyrosine kinases is a
C-terminal potential protein-protein interaction
domain. This domain is located in the cytoplasmic
region of EPH-B4 receptors and appears to mediate
cell-cell initiated signal transduction. EPH-B4 protein
kinase performs kinase-dependent and kinase-independent
functions. These receptors play a role in the regular
vascular system development during embryogenesis. They
were found overexpressed in a variety of cancers,
including carcinoma of the head and neck, ovarian
cancer, bladder cancer, and downregulated in bone
myeloma. Thus, EphB4 is a potential biomarker and a
target for drug design.
Length = 67
Score = 37.5 bits (87), Expect = 0.003
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 3/59 (5%)
Query: 14 VADWLKGLDVSIHRYVESFLN-NHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDHL 71
V +WL+ + + RY +SFL Q + + +DL G+ GHQ+ IL ++ +
Sbjct: 6 VGEWLRA--IKMERYEDSFLQAGFTTFQLVSQISTEDLLRMGVTLAGHQKKILSSIQAM 62
Score = 37.5 bits (87), Expect = 0.003
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 3/59 (5%)
Query: 1155 VADWLKGLDVSIHRYVESFLN-NHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDHL 1212
V +WL+ + + RY +SFL Q + + +DL G+ GHQ+ IL ++ +
Sbjct: 6 VGEWLRA--IKMERYEDSFLQAGFTTFQLVSQISTEDLLRMGVTLAGHQKKILSSIQAM 62
>gnl|CDD|188962 cd09563, SAM_liprin-beta1,2_repeat1, SAM domain of liprin-beta1,2
proteins repeat 1. SAM (sterile alpha motif) domain
repeat 1 of liprin-beta1,2 proteins is a
protein-protein interaction domain. Liprin-beta protein
contain three copies (repeats) of SAM domain. They may
form heterodimers with liprins-alpha through their SAM
domains. It was suggested based on bioinformatic
approaches that the second SAM domain of liprin-beta is
potentially able to form polymers. Liprins were
originally identified as LAR (leukocyte common
antigen-related) transmembrane protein-tyrosine
phosphatase-interacting proteins. They participate in
mammary gland development, in axon guidance, and in the
maintenance of lymphatic vessel integrity.
Length = 64
Score = 37.2 bits (87), Expect = 0.004
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 7 ADWKPDQVADWLKGLDVSIHRYVESFLNNHV-NGQHLLNLQPDDLE 51
A+W +QV DWL ++ + +YV+ V +GQ LL P +LE
Sbjct: 2 AEWSTEQVCDWLA--ELGLGQYVD-ECRRWVKSGQTLLKASPQELE 44
Score = 34.5 bits (80), Expect = 0.040
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 4/44 (9%)
Query: 1150 WKPDQVADWLKGLDVSIHRYVESFLNNHV-NGQHLLNLQPDDLE 1192
W +QV DWL ++ + +YV+ V +GQ LL P +LE
Sbjct: 4 WSTEQVCDWLA--ELGLGQYVD-ECRRWVKSGQTLLKASPQELE 44
>gnl|CDD|188909 cd09510, SAM_aveugle-like, SAM domain of aveugle-like subfamily. SAM
(sterile alpha motif) domain of SAM_aveugle-like
subfamily is a protein-protein interaction domain. In
Drosophila, the aveugle (AVE) protein (also known as HYP
(Hyphen)) is involved in normal photoreceptor
differentiation, and required for epidermal growth factor
receptor (EGFR) signaling between ras and raf genes
during eye development and wing vein formation. SAM
domain of the HYP(AVE) protein interacts with SAM domain
of CNK, the multidomain scaffold protein connector
enhancer of kinase suppressor of ras. CNK/HYP(AVE)
complex interacts with KSR (kinase suppressor of Ras)
protein. This interaction leads to stimulation of
Ras-dependent Raf activation. This subfamily also
includes vertebrate AVE homologs - Samd10 and Samd12
proteins. Their exact function is unknown, but they may
play a role in signal transduction during embryogenesis.
Length = 75
Score = 37.7 bits (88), Expect = 0.004
Identities = 24/78 (30%), Positives = 32/78 (41%), Gaps = 11/78 (14%)
Query: 1146 PINNWKPDQVADWLKGLDVSIHR------YVESFLNNHVNGQHLLNLQPDDLEHHGICKV 1199
P+ W V WLK H Y E FL + + G+ LL L + LE GI
Sbjct: 2 PVYLWSVQDVCKWLKR-----HCPDYYLLYAELFLQHDITGRALLRLNDNKLERMGITDE 56
Query: 1200 GHQEIILEAVDHLRNFHY 1217
H++ IL + LR
Sbjct: 57 DHRQDILREILKLRLKTE 74
Score = 36.9 bits (86), Expect = 0.008
Identities = 24/77 (31%), Positives = 31/77 (40%), Gaps = 11/77 (14%)
Query: 6 VADWKPDQVADWLKGLDVSIHR------YVESFLNNHVNGQHLLNLQPDDLEHHGICKVG 59
V W V WLK H Y E FL + + G+ LL L + LE GI
Sbjct: 3 VYLWSVQDVCKWLKR-----HCPDYYLLYAELFLQHDITGRALLRLNDNKLERMGITDED 57
Query: 60 HQEIILEAVDHLRNFHY 76
H++ IL + LR
Sbjct: 58 HRQDILREILKLRLKTE 74
>gnl|CDD|241535 cd13384, PH_Gab2_2, Grb2-associated binding protein family
pleckstrin homology (PH) domain. The Gab subfamily
includes several Gab proteins, Drosophila DOS and C.
elegans SOC-1. They are scaffolding adaptor proteins,
which possess N-terminal PH domains and a C-terminus
with proline-rich regions and multiple phosphorylation
sites. Following activation of growth factor receptors,
Gab proteins are tyrosine phosphorylated and activate
PI3K, which generates 3-phosphoinositide lipids. By
binding to these lipids via the PH domain, Gab proteins
remain in proximity to the receptor, leading to further
signaling. While not all Gab proteins depend on the PH
domain for recruitment, it is required for Gab activity.
Members here include insect, nematodes, and crustacean
Gab2s. PH domains have diverse functions, but in general
are involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 115
Score = 38.6 bits (90), Expect = 0.006
Identities = 29/111 (26%), Positives = 50/111 (45%), Gaps = 23/111 (20%)
Query: 713 EGWLFQR--DRKISTVPQWIRGWFIIKGNHFYG------FTDKDSTKAHLFIYL------ 758
EGWL + +++I +W R +F+++ + G +TD+ K I L
Sbjct: 6 EGWLTKSPPEKRIWRA-KWRRRYFVLRQSEIPGQYFLEYYTDRTCRKLKGSIDLDQCEQV 64
Query: 759 -PGFTVAPAVEVKSRKYALKIYHTGT---TFYLSADSQDEFSSWLGCLSQA 805
G T E K++ I+ T T+YL AD++DE + W+ C+
Sbjct: 65 DAGLTF----ETKNKLKDQHIFDIRTPKRTYYLVADTEDEMNKWVNCICTV 111
Score = 38.6 bits (90), Expect = 0.006
Identities = 29/111 (26%), Positives = 50/111 (45%), Gaps = 23/111 (20%)
Query: 1859 EGWLFQR--DRKISTVPQWIRGWFIIKGNHFYG------FTDKDSTKAHLFIYL------ 1904
EGWL + +++I +W R +F+++ + G +TD+ K I L
Sbjct: 6 EGWLTKSPPEKRIWRA-KWRRRYFVLRQSEIPGQYFLEYYTDRTCRKLKGSIDLDQCEQV 64
Query: 1905 -PGFTVAPAVEVKSRKYALKIYHTGT---TFYLSADSQDEFSSWLGCLSQA 1951
G T E K++ I+ T T+YL AD++DE + W+ C+
Sbjct: 65 DAGLTF----ETKNKLKDQHIFDIRTPKRTYYLVADTEDEMNKWVNCICTV 111
>gnl|CDD|241463 cd13309, PH_SKIP, SifA and kinesin-interacting protein Pleckstrin
homology (PH) domain. SKIP (also called
PLEKHM2/Pleckstrin homology domain-containing family M
member 2) is a soluble cytosolic protein that contains a
RUN domain and a PH domain separated by a unstructured
linker region. SKIP is a target of the Salmonella
effector protein SifA and the SifA-SKIP complex
regulates kinesin-1 on the bacterial vacuole. The PH
domain of SKIP binds to the N-terminal region of SifA
while the N-terminus of SKIP is proposed to bind the TPR
domain of the kinesin light chain. The opposite side of
the SKIP PH domain is proposed to bind
phosphoinositides. TSifA, SKIP, SseJ, and RhoA family
GTPases are also thought to promote host membrane
tubulation. Recently, it was shown that the lysosomal
GTPase Arl8 binds to the kinesin-1 linker SKIP and that
both are required for the normal intracellular
distribution of lysosomes. Interestingly, two kinesin
light chain binding motifs (WD) in SKIP have now been
identified to match a consensus sequence for a kinesin
light chain binding site found in several proteins
including calsyntenin-1/alcadein, caytaxin, and vaccinia
virus A36. SKIP has also been shown to interact with
Rab1A. PH domains have diverse functions, but in general
are involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 103
Score = 38.1 bits (89), Expect = 0.006
Identities = 23/97 (23%), Positives = 40/97 (41%), Gaps = 4/97 (4%)
Query: 713 EGWL-FQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVKS 771
EG L ++ W G+F++K Y + D+ L I L G + +
Sbjct: 3 EGPLMYKTGTSYLGGETWKPGYFLLKNGVLYQYPDRSDRLPLLSISLGGEQCGGCRRINN 62
Query: 772 --RKYALKIYHTG-TTFYLSADSQDEFSSWLGCLSQA 805
R ++ ++ T + L+A + E S WL L Q+
Sbjct: 63 TDRPHSFELILTDRPSLELAAPDEYEASEWLQSLCQS 99
Score = 38.1 bits (89), Expect = 0.006
Identities = 23/97 (23%), Positives = 40/97 (41%), Gaps = 4/97 (4%)
Query: 1859 EGWL-FQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVKS 1917
EG L ++ W G+F++K Y + D+ L I L G + +
Sbjct: 3 EGPLMYKTGTSYLGGETWKPGYFLLKNGVLYQYPDRSDRLPLLSISLGGEQCGGCRRINN 62
Query: 1918 --RKYALKIYHTG-TTFYLSADSQDEFSSWLGCLSQA 1951
R ++ ++ T + L+A + E S WL L Q+
Sbjct: 63 TDRPHSFELILTDRPSLELAAPDEYEASEWLQSLCQS 99
>gnl|CDD|188928 cd09529, SAM_MLTK, SAM domain of MLTK subfamily. SAM (sterile
alpha motif) domain of MLTK subfamily is a
protein-protein interaction domain. Besides SAM domain,
these proteins have N-terminal protein tyrosine kinase
domain and leucine-zipper motif. Proteins of this group
act as mitogen-activated protein triple kinase in a
number of MAPK cascades. They can be activated by
autophosphorylation in response to stress signals.
MLTK-alpha is known to phosphorylate histone H3. In
mammals, MLTKs participate in the activation of the
JNK/SAPK, p38, ERK5 pathways, the transcriptional
factor NF-kB, in the regulation of the cell cycle
checkpoint, and in the induction of apoptosis in a
hepatoma cell line. Some members of this subfamily are
proto-oncogenes, thus MLTK-alpha is involved in
neoplasmic cell transformation and/or skin cancer
development in athymic nude mice. Based on in vivo
coprecipitation experiments in mammalian cells, it has
been demonstrated that MLTK proteins might form
homodimers/oligomers via their SAM domains.
Length = 71
Score = 37.1 bits (86), Expect = 0.006
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 6/58 (10%)
Query: 9 WKPDQVADWL-----KGLDVS-IHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGH 60
W + V W+ KG S + +Y + F NH+ G+ LL L +DL GI GH
Sbjct: 2 WTEEDVHFWMQQLVRKGGHPSELSQYADLFKENHITGKRLLLLTEEDLRDMGIGSKGH 59
Score = 37.1 bits (86), Expect = 0.006
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 6/58 (10%)
Query: 1150 WKPDQVADWL-----KGLDVS-IHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGH 1201
W + V W+ KG S + +Y + F NH+ G+ LL L +DL GI GH
Sbjct: 2 WTEEDVHFWMQQLVRKGGHPSELSQYADLFKENHITGKRLLLLTEEDLRDMGIGSKGH 59
>gnl|CDD|188887 cd09488, SAM_EPH-R, SAM domain of EPH family of tyrosine kinase
receptors. SAM (sterile alpha motif) domain of EPH
(erythropoietin-producing hepatocyte) family of
receptor tyrosine kinases is a C-terminal signal
transduction module located in the cytoplasmic region
of these receptors. SAM appears to mediate cell-cell
initiated signal transduction via binding proteins to a
conserved tyrosine that is phosphorylated. In some
cases the SAM domain mediates
homodimerization/oligomerization and plays a role in
the clustering process necessary for signaling. EPH
kinases are the largest family of receptor tyrosine
kinases. They are classified into two groups based on
their abilities to bind ephrin-A and ephrin-B ligands.
The EPH receptors are involved in regulation of cell
movement, shape, and attachment during embryonic
development; they control cell-cell interactions in the
vascular, nervous, epithelial, and immune systems, and
in many tumors. They are potential molecular markers
for cancer diagnostics and potential targets for cancer
therapy.
Length = 61
Score = 36.1 bits (84), Expect = 0.010
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 3/59 (5%)
Query: 14 VADWLKGLDVSIHRYVESFLNNHVNGQHL-LNLQPDDLEHHGICKVGHQEIILEAVDHL 71
V +WL+ + + RY E+F + +DL G+ VGHQ+ IL ++ L
Sbjct: 5 VGEWLESIKMG--RYKENFTAAGYTSLDAVAQMTAEDLTRLGVTLVGHQKKILNSIQAL 61
Score = 36.1 bits (84), Expect = 0.010
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 3/59 (5%)
Query: 1155 VADWLKGLDVSIHRYVESFLNNHVNGQHL-LNLQPDDLEHHGICKVGHQEIILEAVDHL 1212
V +WL+ + + RY E+F + +DL G+ VGHQ+ IL ++ L
Sbjct: 5 VGEWLESIKMG--RYKENFTAAGYTSLDAVAQMTAEDLTRLGVTLVGHQKKILNSIQAL 61
>gnl|CDD|188914 cd09515, SAM_SGMS1-like, SAM domain of sphingomyelin synthase related
subfamily. SAM (sterile alpha motif) domain of SGMS-like
(sphingomyelin synthase) subfamily is a potential
protein-protein interaction domain. This group of
proteins is related to sphingomyelin synthase 1, and
contains an N-terminal SAM domain. The function of
SGMS1-like proteins is unknown; they may play a role in
sphingolipid metabolism.
Length = 70
Score = 36.1 bits (84), Expect = 0.014
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 1147 INNWKPDQVADWLKGLDVSIHRYVESFLNNH-VNGQHLLNLQPDDL 1191
++ W + VA WLK +YV+ N H ++G+ LL+L +DL
Sbjct: 1 VHEWTCEDVAKWLK--KEGFSKYVDLLCNKHRIDGKVLLSLTEEDL 44
Score = 35.3 bits (82), Expect = 0.022
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 6 VADWKPDQVADWLKGLDVSIHRYVESFLNNH-VNGQHLLNLQPDDL 50
V +W + VA WLK +YV+ N H ++G+ LL+L +DL
Sbjct: 1 VHEWTCEDVAKWLK--KEGFSKYVDLLCNKHRIDGKVLLSLTEEDL 44
>gnl|CDD|188952 cd09553, SAM_EPH-B3, SAM domain of EPH-B3 subfamily of tyrosine
kinase receptors. SAM (sterile alpha motif) domain of
EPH-B3 subfamily of receptor tyrosine kinases is a
C-terminal potential protein-protein interaction
domain. This domain is located in the cytoplasmic
region of EPH-B3 receptors and appears to mediate
cell-cell initiated signal transduction. EPH-B3
receptor protein kinase performs kinase-dependent and
kinase-independent functions. It is known to be
involved in thymus morphogenesis, in regulation of cell
adhesion and migration. Also EphB3 controls cell
positioning and ordered migration in the intestinal
epithelium and plays a role in the regulation of adult
retinal ganglion cell axon plasticity after optic nerve
injury. In some experimental models overexpression of
EphB3 enhances cell/cell contacts and suppresses colon
tumor growth.
Length = 69
Score = 36.2 bits (83), Expect = 0.014
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 14 VADWLKGLDVSIHRYVESFLNNHVNGQHLL-NLQPDDLEHHGICKVGHQEIILEAVDHLR 72
V DWL + + RY E+F++ L+ + +DL G+ GHQ+ IL ++ +R
Sbjct: 9 VGDWLDA--IKMGRYKENFVSAGFASFDLVAQMTAEDLLRIGVTLAGHQKKILSSIQDMR 66
Score = 36.2 bits (83), Expect = 0.014
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 1155 VADWLKGLDVSIHRYVESFLNNHVNGQHLL-NLQPDDLEHHGICKVGHQEIILEAVDHLR 1213
V DWL + + RY E+F++ L+ + +DL G+ GHQ+ IL ++ +R
Sbjct: 9 VGDWLDA--IKMGRYKENFVSAGFASFDLVAQMTAEDLLRIGVTLAGHQKKILSSIQDMR 66
>gnl|CDD|188979 cd09580, SAM_Scm-like-4MBT, SAM domain of Scm-like-4MBT proteins of
Polycomb group. SAM (sterile alpha motif) domain of
Scm-like-4MBT (Sex comb on midleg like, Malignant Brain
Tumor) subfamily proteins of the polycomb group is a
putative protein-protein interaction domain. Additionally
to the SAM domain, most of the proteins of this subfamily
have 4 MBT repeats. In Drosophila SAM-Scm-like-4MBT
protein (known as dSfmbt) is a member of Pho repressive
complex (PhoRC). Additionally to dSfmbt, the PhoRC
complex includes Pho or Pho-like proteins. This complex
is responsible for HOX (Homeobox) gene silencing: Pho or
Pho-like proteins bind DNA and dSmbt binds methylated
histones. dSmbt can interact with mono- and di-methylated
histones H3 and H4 (however this activity has been shown
for the MBT repeats, while exact function of the SAM
domain is unclear). Besides interaction with histones,
dSmbt can interact with Scm (a member of PRC complex),
but this interaction also seems to be SAM domain
independent.
Length = 67
Score = 35.4 bits (82), Expect = 0.020
Identities = 16/68 (23%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 1147 INNWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIIL 1206
+ W V+ +L+ D Y E F +++G+ LL+L + + KVG I
Sbjct: 1 PSTWGVKDVSQFLRENDCGA--YCECFCRQNIDGKRLLSLTKEQIMTLTGMKVGPSLKIY 58
Query: 1207 EAVDHLRN 1214
+ + L+
Sbjct: 59 DLIQQLKC 66
Score = 34.7 bits (80), Expect = 0.035
Identities = 16/65 (24%), Positives = 29/65 (44%), Gaps = 2/65 (3%)
Query: 9 WKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 68
W V+ +L+ D Y E F +++G+ LL+L + + KVG I + +
Sbjct: 4 WGVKDVSQFLRENDCGA--YCECFCRQNIDGKRLLSLTKEQIMTLTGMKVGPSLKIYDLI 61
Query: 69 DHLRN 73
L+
Sbjct: 62 QQLKC 66
>gnl|CDD|188966 cd09567, SAM_kazrin_repeat2, SAM domain of kazrin proteins repeat
2. SAM (sterile alpha motif) domain repeat 2 of kazrin
proteins is a protein-protein interaction domain. The
long isoform of kazrins contains three copies (repeats)
of SAM domain. Kazrin can interact with periplakin. It
is involved in interplay between desmosomes and in
adheren junctions. Additionally kazrins play a role in
regulation of intercellular differentiation, junction
assembly, and cytoskeletal organization.
Length = 65
Score = 35.5 bits (82), Expect = 0.022
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 17 WLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHH-GICKVGHQEIILEAVDHLR 72
WL+ D+ + +Y E+F + V+G+ L L DLE H G+ K HQ +L ++ LR
Sbjct: 11 WLR--DLGLPQYSEAFREHLVDGRVLDTLSRKDLEKHLGVSKKFHQASLLRGIELLR 65
Score = 35.5 bits (82), Expect = 0.022
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 1158 WLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHH-GICKVGHQEIILEAVDHLR 1213
WL+ D+ + +Y E+F + V+G+ L L DLE H G+ K HQ +L ++ LR
Sbjct: 11 WLR--DLGLPQYSEAFREHLVDGRVLDTLSRKDLEKHLGVSKKFHQASLLRGIELLR 65
>gnl|CDD|238080 cd00136, PDZ, PDZ domain, also called DHR (Dlg homologous region)
or GLGF (after a conserved sequence motif). Many PDZ
domains bind C-terminal polypeptides, though binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. Heterodimerization through
PDZ-PDZ domain interactions adds to the domain's
versatility, and PDZ domain-mediated interactions may be
modulated dynamically through target phosphorylation.
Some PDZ domains play a role in scaffolding
supramolecular complexes. PDZ domains are found in
diverse signaling proteins in bacteria, archebacteria,
and eurkayotes. This CD contains two distinct structural
subgroups with either a N- or C-terminal beta-strand
forming the peptide-binding groove base. The circular
permutation placing the strand on the N-terminus appears
to be found in Eumetazoa only, while the C-terminal
variant is found in all three kingdoms of life, and
seems to co-occur with protease domains. PDZ domains
have been named after PSD95(post synaptic density
protein), DlgA (Drosophila disc large tumor suppressor),
and ZO1, a mammalian tight junction protein.
Length = 70
Score = 35.4 bits (82), Expect = 0.023
Identities = 12/48 (25%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 235 NSTAYQSGKIECGDEIVQINYQTVVGWDVKQVMALFEESSSDIFLTLK 282
S A ++G ++ GD I+ +N V ++ V L ++ + +TL
Sbjct: 23 GSPAERAG-LQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEK-VTLT 68
Score = 35.4 bits (82), Expect = 0.023
Identities = 12/48 (25%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 1376 NSTAYQSGKIECGDEIVQINYQTVVGWDVKQVMALFEESSSDIFLTLK 1423
S A ++G ++ GD I+ +N V ++ V L ++ + +TL
Sbjct: 23 GSPAERAG-LQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEK-VTLT 68
>gnl|CDD|241409 cd13255, PH_TAAP2-like, Tandem PH-domain-containing protein 2
Pleckstrin homology (PH) domain. The binding of TAPP2
(also called PLEKHA2) adaptors to PtdIns(3,4)P(2), but
not PI(3,4, 5)P3, function as negative regulators of
insulin and PI3K signalling pathways (i.e.
TAPP/utrophin/syntrophin complex). TAPP2 contains two
sequential PH domains in which the C-terminal PH domain
specifically binds PtdIns(3,4)P2 with high affinity. The
N-terminal PH domain does not interact with any
phosphoinositide tested. They also contain a C-terminal
PDZ-binding motif that interacts with several
PDZ-binding proteins, including PTPN13 (known previously
as PTPL1 or FAP-1) as well as the scaffolding proteins
MUPP1 (multiple PDZ-domain-containing protein 1),
syntrophin and utrophin. The members here are most
sequence similar to TAPP2 proteins, but may not be
actual TAPP2 proteins. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 110
Score = 36.2 bits (84), Expect = 0.027
Identities = 23/86 (26%), Positives = 34/86 (39%), Gaps = 18/86 (20%)
Query: 729 WIRGWFIIKGNHF-YGFTDK--------DSTKAHLFIYLPGFTVAPAVEVKSRKYALKIY 779
W + WF+++ Y DK D T H T V++K I
Sbjct: 22 WKKRWFVLRPTKLAYYKNDKEYRLLRLIDLTDIH--------TCTE-VQLKKHDNTFGIV 72
Query: 780 HTGTTFYLSADSQDEFSSWLGCLSQA 805
TFY+ ADS+ E SW+ ++ A
Sbjct: 73 TPARTFYVQADSKAEMESWISAINLA 98
Score = 36.2 bits (84), Expect = 0.027
Identities = 23/86 (26%), Positives = 34/86 (39%), Gaps = 18/86 (20%)
Query: 1875 WIRGWFIIKGNHF-YGFTDK--------DSTKAHLFIYLPGFTVAPAVEVKSRKYALKIY 1925
W + WF+++ Y DK D T H T V++K I
Sbjct: 22 WKKRWFVLRPTKLAYYKNDKEYRLLRLIDLTDIH--------TCTE-VQLKKHDNTFGIV 72
Query: 1926 HTGTTFYLSADSQDEFSSWLGCLSQA 1951
TFY+ ADS+ E SW+ ++ A
Sbjct: 73 TPARTFYVQADSKAEMESWISAINLA 98
>gnl|CDD|237047 PRK12298, obgE, GTPase CgtA; Reviewed.
Length = 390
Score = 38.7 bits (91), Expect = 0.029
Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 5/75 (6%)
Query: 327 IKPLGHALVNSVTSFTKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDD 386
+K L L+ F + A E V ++ ++ Q EE E++ +DD DDD
Sbjct: 321 VKELCWDLMT----FIEENPREEAEEAEAPEKVEFMWDDYHRE-QLEEVEEEDDDDWDDD 375
Query: 387 EDNEPEEEEESISSP 401
D + +E E I
Sbjct: 376 WDEDDDEGVEVIYKR 390
Score = 38.7 bits (91), Expect = 0.029
Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 5/75 (6%)
Query: 1468 IKPLGHALVNSVTSFTKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDD 1527
+K L L+ F + A E V ++ ++ Q EE E++ +DD DDD
Sbjct: 321 VKELCWDLMT----FIEENPREEAEEAEAPEKVEFMWDDYHRE-QLEEVEEEDDDDWDDD 375
Query: 1528 EDNEPEEEEESISSP 1542
D + +E E I
Sbjct: 376 WDEDDDEGVEVIYKR 390
>gnl|CDD|241309 cd10573, PH_DAPP1, Dual Adaptor for Phosphotyrosine and
3-Phosphoinositides Pleckstrin homology (PH) domain.
DAPP1 (also known as PHISH/3'
phosphoinositide-interacting SH2 domain-containing
protein or Bam32) plays a role in B-cell activation and
has potential roles in T-cell and mast cell function.
DAPP1 promotes B cell receptor (BCR) induced activation
of Rho GTPases Rac1 and Cdc42, which feed into
mitogen-activated protein kinases (MAPK) activation
pathways and affect cytoskeletal rearrangement. DAPP1can
also regulate BCR-induced activation of extracellular
signal-regulated kinase (ERK), and c-jun NH2-terminal
kinase (JNK). DAPP1 contains an N-terminal SH2 domain
and a C-terminal pleckstrin homology (PH) domain with a
single tyrosine phosphorylation site located centrally.
DAPP1 binds strongly to both PtdIns(3,4,5)P3 and
PtdIns(3,4)P2. The PH domain is essential for plasma
membrane recruitment of PI3K upon cell activation. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 96
Score = 35.7 bits (83), Expect = 0.037
Identities = 16/74 (21%), Positives = 30/74 (40%)
Query: 725 TVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVKSRKYALKIYHTGTT 784
V W WF+++ N F + TK + L + A + + ++ T
Sbjct: 15 IVKNWKTRWFVLRKNELKYFKTRTDTKPIRTLDLTECSSVQADYSQGKPNCFRLVFPDRT 74
Query: 785 FYLSADSQDEFSSW 798
FY+ A +++E W
Sbjct: 75 FYMYAKTEEEADEW 88
Score = 35.7 bits (83), Expect = 0.037
Identities = 16/74 (21%), Positives = 30/74 (40%)
Query: 1871 TVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVKSRKYALKIYHTGTT 1930
V W WF+++ N F + TK + L + A + + ++ T
Sbjct: 15 IVKNWKTRWFVLRKNELKYFKTRTDTKPIRTLDLTECSSVQADYSQGKPNCFRLVFPDRT 74
Query: 1931 FYLSADSQDEFSSW 1944
FY+ A +++E W
Sbjct: 75 FYMYAKTEEEADEW 88
>gnl|CDD|241453 cd13299, PH2_PH_fungal, Fungal proteins Pleckstrin homology (PH)
domain, repeat 2. The functions of these fungal
proteins are unknown, but they all contain 2 PH domains.
This cd represents the second PH repeat. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 102
Score = 35.7 bits (83), Expect = 0.039
Identities = 23/95 (24%), Positives = 39/95 (41%), Gaps = 8/95 (8%)
Query: 712 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEV-- 769
+G+L +K V QW + W +++ + D+ I P + VE+
Sbjct: 8 EQGYLQVLKKK--GVNQWKKYWLVLRNRSLSFYKDQSEYSPVKII--PIDDIIDVVELDP 63
Query: 770 --KSRKYALKIYHTGTTFYLSADSQDEFSSWLGCL 802
KS+K+ L+I AD ++ WLG L
Sbjct: 64 LSKSKKWCLQIITPEKRIRFCADDEESLIKWLGAL 98
Score = 35.7 bits (83), Expect = 0.039
Identities = 23/95 (24%), Positives = 39/95 (41%), Gaps = 8/95 (8%)
Query: 1858 CEGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEV-- 1915
+G+L +K V QW + W +++ + D+ I P + VE+
Sbjct: 8 EQGYLQVLKKK--GVNQWKKYWLVLRNRSLSFYKDQSEYSPVKII--PIDDIIDVVELDP 63
Query: 1916 --KSRKYALKIYHTGTTFYLSADSQDEFSSWLGCL 1948
KS+K+ L+I AD ++ WLG L
Sbjct: 64 LSKSKKWCLQIITPEKRIRFCADDEESLIKWLGAL 98
>gnl|CDD|188907 cd09508, SAM_HD, SAM domain of HD-phosphohydrolase. SAM (sterile
alpha motif) domain of SAM_HD subfamily proteins is a
putative protein-protein interaction domain. Proteins
of this group, additionally to the SAM domain, contain
a HD hydrolase domain. Human SAM-HD1 is a nuclear
protein involved in innate immune response and may act
as a negative regulator of the cell-intrinsic antiviral
response. Mutations in this gene lead to
Aicardi-Goutieres syndrome (symptoms include cerebral
atrophy, leukoencephalopathy, hepatosplenomegaly, and
increased production of alpha-interferon).
Length = 70
Score = 34.6 bits (80), Expect = 0.039
Identities = 18/64 (28%), Positives = 30/64 (46%)
Query: 9 WKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 68
W P+ V +L+G +E F N + G HL +L LE G+ +G + +L+ +
Sbjct: 5 WDPEDVCQFLRGNGFGEPELLEIFRENEITGAHLPDLTESRLEKLGVSSLGERLKLLKCL 64
Query: 69 DHLR 72
L
Sbjct: 65 QKLS 68
Score = 34.6 bits (80), Expect = 0.039
Identities = 18/64 (28%), Positives = 30/64 (46%)
Query: 1150 WKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 1209
W P+ V +L+G +E F N + G HL +L LE G+ +G + +L+ +
Sbjct: 5 WDPEDVCQFLRGNGFGEPELLEIFRENEITGAHLPDLTESRLEKLGVSSLGERLKLLKCL 64
Query: 1210 DHLR 1213
L
Sbjct: 65 QKLS 68
>gnl|CDD|238489 cd00989, PDZ_metalloprotease, PDZ domain of bacterial and plant
zinc metalloprotases, presumably membrane-associated or
integral membrane proteases, which may be involved in
signalling and regulatory mechanisms. May be responsible
for substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, and binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins.
Length = 79
Score = 34.9 bits (81), Expect = 0.039
Identities = 13/54 (24%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 217 FCIIPSFHGIHQIGDIKCNSTAYQSGKIECGDEIVQINYQTVVGW-DVKQVMAL 269
+ IG++ S A ++G ++ GD I+ IN Q + W D+ +
Sbjct: 4 GFVPGGPPIEPVIGEVVPGSPAAKAG-LKAGDRILAINGQKIKSWEDLVDAVQE 56
Score = 34.9 bits (81), Expect = 0.039
Identities = 13/54 (24%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 1358 FCIIPSFHGIHQIGDIKCNSTAYQSGKIECGDEIVQINYQTVVGW-DVKQVMAL 1410
+ IG++ S A ++G ++ GD I+ IN Q + W D+ +
Sbjct: 4 GFVPGGPPIEPVIGEVVPGSPAAKAG-LKAGDRILAINGQKIKSWEDLVDAVQE 56
>gnl|CDD|241419 cd13265, PH_evt, Evectin Pleckstrin homology (PH) domain. There
are 2 members of the evectin family (also called
pleckstrin homology domain containing, family B): evt-1
(also called PLEKHB1) and evt-2 (also called PLEKHB2).
evt-1 is specific to the nervous system, where it is
expressed in photoreceptors and myelinating glia. evt-2
is widely expressed in both neural and nonneural
tissues. Evectins possess a single N-terminal PH domain
and a C-terminal hydrophobic region. evt-1 is thought to
function as a mediator of post-Golgi trafficking in
cells that produce large membrane-rich organelles. It is
a candidate gene for the inherited human retinopathy
autosomal dominant familial exudative vitreoretinopathy
and a susceptibility gene for multiple sclerosis. evt-2
is essential for retrograde endosomal membrane transport
from the plasma membrane (PM) to the Golgi. Two membrane
trafficking pathways pass through recycling endosomes: a
recycling pathway and a retrograde pathway that links
the PM to the Golgi/ER. Its PH domain that is unique in
that it specifically recognizes phosphatidylserine (PS),
but not polyphosphoinositides. PS is an anionic
phospholipid class in eukaryotic biomembranes, is highly
enriched in the PM, and plays key roles in various
physiological processes such as the coagulation cascade,
recruitment and activation of signaling molecules, and
clearance of apoptotic cells. PH domains are only found
in eukaryotes. They share little sequence conservation,
but all have a common fold, which is electrostatically
polarized. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 108
Score = 35.7 bits (83), Expect = 0.045
Identities = 25/105 (23%), Positives = 41/105 (39%), Gaps = 17/105 (16%)
Query: 714 GWLFQRDRKISTV-PQWIRGWFIIKGN-HFYGFTDKDSTKAHLFIYLP--------GFTV 763
GWL ++ ST+ +W + WF++ + + D+ I +P G
Sbjct: 7 GWLLRQ----STILKRWKKNWFVLYSDGELSYYEDESRRDVEGRINMPIECRNIRVGLEC 62
Query: 764 APAV--EVKSRKYALKIY-HTGTTFYLSADSQDEFSSWLGCLSQA 805
E +SR L+I G L A+S D+ +W L A
Sbjct: 63 RDVQPPEGRSRDCLLQIVTRDGKRLILCAESADDALAWKLALEDA 107
Score = 35.7 bits (83), Expect = 0.045
Identities = 25/105 (23%), Positives = 41/105 (39%), Gaps = 17/105 (16%)
Query: 1860 GWLFQRDRKISTV-PQWIRGWFIIKGN-HFYGFTDKDSTKAHLFIYLP--------GFTV 1909
GWL ++ ST+ +W + WF++ + + D+ I +P G
Sbjct: 7 GWLLRQ----STILKRWKKNWFVLYSDGELSYYEDESRRDVEGRINMPIECRNIRVGLEC 62
Query: 1910 APAV--EVKSRKYALKIY-HTGTTFYLSADSQDEFSSWLGCLSQA 1951
E +SR L+I G L A+S D+ +W L A
Sbjct: 63 RDVQPPEGRSRDCLLQIVTRDGKRLILCAESADDALAWKLALEDA 107
>gnl|CDD|215079 PLN00151, PLN00151, potassium transporter; Provisional.
Length = 852
Score = 38.6 bits (90), Expect = 0.046
Identities = 24/95 (25%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 341 FTKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISS 400
+ RK +FE + IE+ K I++E E LE D +DD D+E +
Sbjct: 677 YKDVRKENHQAFEQ------LLIESLEKFIRREAQERALESDGNDDTDDEDSVTSSRVLI 730
Query: 401 PTSVRLYHPK-PRLPVQRRATITGTGASPTSKRAP 434
+ +Y P L R + AS + + +P
Sbjct: 731 APNGSVYSLGVPLLADYRLTSKPIPEASTSEEVSP 765
Score = 38.6 bits (90), Expect = 0.046
Identities = 24/95 (25%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 1482 FTKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISS 1541
+ RK +FE + IE+ K I++E E LE D +DD D+E +
Sbjct: 677 YKDVRKENHQAFEQ------LLIESLEKFIRREAQERALESDGNDDTDDEDSVTSSRVLI 730
Query: 1542 PTSVRLYHPK-PRLPVQRRATITGTGASPTSKRAP 1575
+ +Y P L R + AS + + +P
Sbjct: 731 APNGSVYSLGVPLLADYRLTSKPIPEASTSEEVSP 765
>gnl|CDD|241435 cd13281, PH_PLEKHD1, Pleckstrin homology (PH) domain containing,
family D (with coiled-coil domains) member 1 PH domain.
Human PLEKHD1 (also called UPF0639, pleckstrin homology
domain containing, family D (with M protein repeats)
member 1) is a single transcript and contains a single
PH domain. PLEKHD1 is conserved in human, chimpanzee, ,
dog, cow, mouse, chicken, zebrafish, and Caenorhabditis
elegans. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 139
Score = 36.2 bits (84), Expect = 0.048
Identities = 27/94 (28%), Positives = 37/94 (39%), Gaps = 21/94 (22%)
Query: 729 WIRGWFIIKGNHFYGF-------TDKDSTKAHLF-------IYLPGFTVAPAVEVKSRKY 774
W + +F++K F KD K F I L G ++ A R Y
Sbjct: 30 WSKRFFVLKE----CFLLYYAESEKKDFEKTRRFNIHPKGVIPLGGCSIE-AGRDPGRPY 84
Query: 775 ALKIYHTGTT--FYLSADSQDEFSSWLGCLSQAT 806
I H L+ADS++E SWL L +AT
Sbjct: 85 CFLISHPDFKGSIILAADSEEEQESWLDMLREAT 118
Score = 36.2 bits (84), Expect = 0.048
Identities = 27/94 (28%), Positives = 37/94 (39%), Gaps = 21/94 (22%)
Query: 1875 WIRGWFIIKGNHFYGF-------TDKDSTKAHLF-------IYLPGFTVAPAVEVKSRKY 1920
W + +F++K F KD K F I L G ++ A R Y
Sbjct: 30 WSKRFFVLKE----CFLLYYAESEKKDFEKTRRFNIHPKGVIPLGGCSIE-AGRDPGRPY 84
Query: 1921 ALKIYHTGTT--FYLSADSQDEFSSWLGCLSQAT 1952
I H L+ADS++E SWL L +AT
Sbjct: 85 CFLISHPDFKGSIILAADSEEEQESWLDMLREAT 118
>gnl|CDD|188908 cd09509, SAM_Polycomb, SAM domain of Polycomb group. SAM (sterile
alpha motif) domain of Polycomb group is a
protein-protein interaction domain. The Polycomb group
includes transcriptional repressors which are involved in
the regulation of some key regulatory genes during
development in many organisms. They are best known for
silencing Hox (Homeobox) genes. Polycomb proteins work
together in large multimeric and chromatin-associated
complexes. They organize chromatin of the target genes
and maintain repressed states during many cell divisions.
Polycomb proteins are classified based on their common
function, but not on conserved domains and/or motifs;
however many Polycomb proteins (members of PRC1 class
complex) contain SAM domains which are more similar to
each other inside of the Polycomb group than to SAM
domains outside of it. Most information about structure
and function of Polycomb SAM domains comes from studies
of Ph (Polyhomeotic) and Scm (Sex comb on midleg)
proteins. Polycomb SAM domains usually can be found at
the C-terminus of the proteins. Some members of this
group contain, in addition to the SAM domain, MTB
repeats, Zn finger, and/or DUF3588 domains. Polycomb SAM
domains can form homo- and/or heterooligomers through ML
and EH surfaces. SAM/SAM oligomers apparently play a role
in transcriptional repression through polymerization
along the chromosome. Polycomb proteins are known to be
highly expressed in some cells years before their cancer
pathology; thus they are attractive markers for early
cancer therapy.
Length = 64
Score = 34.0 bits (79), Expect = 0.058
Identities = 18/45 (40%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 1147 INNWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDL 1191
+ W D VA ++K LD Y E F ++GQ LL L DDL
Sbjct: 1 PSKWSVDDVAQFIKSLDGC-AEYAEVFREQEIDGQALLLLTEDDL 44
Score = 34.0 bits (79), Expect = 0.068
Identities = 18/45 (40%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 6 VADWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDL 50
+ W D VA ++K LD Y E F ++GQ LL L DDL
Sbjct: 1 PSKWSVDDVAQFIKSLDGC-AEYAEVFREQEIDGQALLLLTEDDL 44
>gnl|CDD|241478 cd13324, PH_Gab-like, Grb2-associated binding protein family
Pleckstrin homology (PH) domain. Gab proteins are
scaffolding adaptor proteins, which possess N-terminal
PH domains and a C-terminus with proline-rich regions
and multiple phosphorylation sites. Following activation
of growth factor receptors, Gab proteins are tyrosine
phosphorylated and activate PI3K, which generates
3-phosphoinositide lipids. By binding to these lipids
via the PH domain, Gab proteins remain in proximity to
the receptor, leading to further signaling. While not
all Gab proteins depend on the PH domain for
recruitment, it is required for Gab activity. There are
3 families: Gab1, Gab2, and Gab3. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 103
Score = 35.1 bits (81), Expect = 0.059
Identities = 23/104 (22%), Positives = 43/104 (41%), Gaps = 15/104 (14%)
Query: 712 CEGWLFQR--DRKISTVPQWIRGWFIIKGNHFYG-------FTDKDSTKAHLFIYLPGFT 762
EGWL + ++KI W + WF+++ G + D K I L
Sbjct: 1 YEGWLRKSPPEKKIK-RAAWKKRWFVLRSGRLSGDPDVLEYYKDDHCKKPIGAIDLDECE 59
Query: 763 VAPA-VEVKSRK----YALKIYHTGTTFYLSADSQDEFSSWLGC 801
A + + ++ + I T+YL A++++E + W+ C
Sbjct: 60 QVDAGLTFEYKEFKNQFIFDIVTPKRTYYLVAETEEEMNKWVRC 103
Score = 35.1 bits (81), Expect = 0.059
Identities = 23/104 (22%), Positives = 43/104 (41%), Gaps = 15/104 (14%)
Query: 1858 CEGWLFQR--DRKISTVPQWIRGWFIIKGNHFYG-------FTDKDSTKAHLFIYLPGFT 1908
EGWL + ++KI W + WF+++ G + D K I L
Sbjct: 1 YEGWLRKSPPEKKIK-RAAWKKRWFVLRSGRLSGDPDVLEYYKDDHCKKPIGAIDLDECE 59
Query: 1909 VAPA-VEVKSRK----YALKIYHTGTTFYLSADSQDEFSSWLGC 1947
A + + ++ + I T+YL A++++E + W+ C
Sbjct: 60 QVDAGLTFEYKEFKNQFIFDIVTPKRTYYLVAETEEEMNKWVRC 103
>gnl|CDD|188965 cd09566, SAM_liprin-beta1,2_repeat2, SAM domain of liprin-beta1,2
proteins repeat 2. SAM (sterile alpha motif) domain
repeat 2 of liprin-beta1,2 proteins is a
protein-protein interaction domain. Liprin-beta
proteins contain three copies (repeats) of SAM domain.
They may form heterodimers with liprin-alpha proteins
through their SAM domains. It was suggested based on
bioinformatic approaches that the second SAM domain of
liprin-beta potentially is able to form polymers.
Liprins were originally identified as LAR (leukocyte
common antigen-related) transmembrane protein-tyrosine
phosphatase-interacting proteins. They participate in
mammary gland development, in axon guidance, and in the
maintenance of lymphatic vessel integrity.
Length = 63
Score = 33.8 bits (78), Expect = 0.063
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 13 QVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDHLR 72
V WL D+ + +Y ++F V+G+ L L DDL H + H I + LR
Sbjct: 6 WVLRWLD--DIGLPQYKDAFSEAKVDGRMLHYLTVDDLLHLKVTSALHHASIRRGIQVLR 63
Score = 33.8 bits (78), Expect = 0.063
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 1154 QVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDHLR 1213
V WL D+ + +Y ++F V+G+ L L DDL H + H I + LR
Sbjct: 6 WVLRWLD--DIGLPQYKDAFSEAKVDGRMLHYLTVDDLLHLKVTSALHHASIRRGIQVLR 63
>gnl|CDD|241392 cd13238, PH2_FGD4_insect-like, FYVE, RhoGEF and PH domain
containing/faciogenital dysplasia protein 4 pleckstrin
homology (PH) domain, C-terminus, in insect and related
arthropods. In general, FGDs have a RhoGEF (DH) domain,
followed by an N-terminal PH domain, a FYVE domain and a
C-terminal PH domain. All FGDs are guanine nucleotide
exchange factors that activates the Rho GTPase Cdc42, an
important regulator of membrane trafficking. The RhoGEF
domain is responsible for GEF catalytic activity, while
the N-terminal PH domain is involved in intracellular
targeting of the DH domain. FGD4 is one of the genes
associated with Charcot-Marie-Tooth neuropathy type 4
(CMT4), a group of progressive motor and sensory axonal
and demyelinating neuropathies that are distinguished
from other forms of CMT by autosomal recessive
inheritance. Those affected have distal muscle weakness
and atrophy associated with sensory loss and,
frequently, pes cavus foot deformity. This cd contains
insects, crustaceans, and chelicerates. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 96
Score = 34.9 bits (80), Expect = 0.067
Identities = 24/95 (25%), Positives = 39/95 (41%), Gaps = 12/95 (12%)
Query: 714 GWLFQRDRKISTVPQWIRGWFIIKGNH-FYGFTDKDSTKAHLFIYLPGFTVA-------- 764
G+L + T WIR WF + + Y + ++ A +PGF V
Sbjct: 3 GYLKLKTNGRKT---WIRRWFALHPDFVLYSYKSEEDKLALTATPVPGFLVTLGEKGSAE 59
Query: 765 PAVEVKSRKYALKIYHTGTTFYLSADSQDEFSSWL 799
+ K R A K++H ++Y A+ DE W+
Sbjct: 60 DPLNDKDRIRAFKMFHVKKSYYFQANDGDEKDKWV 94
Score = 34.9 bits (80), Expect = 0.067
Identities = 24/95 (25%), Positives = 39/95 (41%), Gaps = 12/95 (12%)
Query: 1860 GWLFQRDRKISTVPQWIRGWFIIKGNH-FYGFTDKDSTKAHLFIYLPGFTVA-------- 1910
G+L + T WIR WF + + Y + ++ A +PGF V
Sbjct: 3 GYLKLKTNGRKT---WIRRWFALHPDFVLYSYKSEEDKLALTATPVPGFLVTLGEKGSAE 59
Query: 1911 PAVEVKSRKYALKIYHTGTTFYLSADSQDEFSSWL 1945
+ K R A K++H ++Y A+ DE W+
Sbjct: 60 DPLNDKDRIRAFKMFHVKKSYYFQANDGDEKDKWV 94
>gnl|CDD|241461 cd13307, PH2_AFAP, Actin filament associated protein family
Pleckstrin homology (PH) domain, repeat 2. There are 3
members of the AFAP family of adaptor proteins: AFAP1,
AFAP1L1, and AFAP1L2/XB130. AFAP1 is a cSrc binding
partner and actin cross-linking protein. AFAP1L1 is
thought to play a similar role to AFAP1 in terms of
being an actin cross-linking protein, but it
preferentially binds to cortactin and not cSrc, thereby
playing a role in invadosome formation. AFAP1L2 is a
cSrc binding protein, but does not bind to actin
filaments. AFAP1L2 acts as an intermediary between the
RET/PTC kinase and PI-3kinase pathway in the thyroid.
The AFAPs share a similar structure of a SH3 binding
motif, 3 SH2 binding motifs, 2 PH domains, a coiled-coil
region corresponding to the AFAP1 leucine zipper, and an
actin binding domain. This cd is the second PH domain of
AFAP. PH domains have diverse functions, but in general
are involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 101
Score = 35.0 bits (81), Expect = 0.072
Identities = 21/77 (27%), Positives = 32/77 (41%), Gaps = 3/77 (3%)
Query: 728 QWIRGWFIIKGNHFYGFTDKDSTK-AHLFIYLPGFTVAPAVEVKSRKYALKIYHTGTTF- 785
QW W +K + + D++ K + L G V P + K Y+ +I G
Sbjct: 15 QWRSRWCCVKDGQLHFYQDRNKLKSPQQPLPLRGCEVIPGPDPK-HPYSFRILRNGEEVA 73
Query: 786 YLSADSQDEFSSWLGCL 802
L A S ++ WLG L
Sbjct: 74 VLEASSSEDMGRWLGLL 90
Score = 35.0 bits (81), Expect = 0.072
Identities = 21/77 (27%), Positives = 32/77 (41%), Gaps = 3/77 (3%)
Query: 1874 QWIRGWFIIKGNHFYGFTDKDSTK-AHLFIYLPGFTVAPAVEVKSRKYALKIYHTGTTF- 1931
QW W +K + + D++ K + L G V P + K Y+ +I G
Sbjct: 15 QWRSRWCCVKDGQLHFYQDRNKLKSPQQPLPLRGCEVIPGPDPK-HPYSFRILRNGEEVA 73
Query: 1932 YLSADSQDEFSSWLGCL 1948
L A S ++ WLG L
Sbjct: 74 VLEASSSEDMGRWLGLL 90
>gnl|CDD|188945 cd09546, SAM_EPH-A5, SAM domain of EPH-A5 subfamily of tyrosine
kinase receptors. SAM (sterile alpha motif) domain of
EPH-A5 subfamily of receptor tyrosine kinases is a
C-terminal potential protein-protein interaction
domain. This domain is located in the cytoplasmic
region of EPH-A5 receptors and appears to mediate
cell-cell initiated signal transduction. Eph-A5 gene is
almost exclusively expressed in the nervous system.
Murine EPH-A5 receptors participate in axon guidance
during embryogenesis and play a role in the adult
synaptic plasticity, particularly in neuron-target
interactions in multiple neural circuits. Additionally
EPH-A5 receptors and its ligand ephrin A5 regulate
dopaminergic axon outgrowth and influence the formation
of the midbrain dopaminergic pathways. EphA5 gene
expression was found decreased in a few different
breast cancer cell lines, thus it might be a potential
molecular marker for breast cancer carcinogenesis and
progression.
Length = 66
Score = 33.8 bits (77), Expect = 0.073
Identities = 17/60 (28%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 14 VADWLKGLDVSIHRYVESFLNNHVNG-QHLLNLQPDDLEHHGICKVGHQEIILEAVDHLR 72
V +WL+ + + RY E F+ N + + + +DL G+ VGHQ+ I+ ++ +R
Sbjct: 6 VGEWLEA--IKMGRYTEIFMENGYSSMDAVAQVTLEDLRRLGVTLVGHQKKIMNSIQEMR 63
Score = 33.8 bits (77), Expect = 0.073
Identities = 17/60 (28%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 1155 VADWLKGLDVSIHRYVESFLNNHVNG-QHLLNLQPDDLEHHGICKVGHQEIILEAVDHLR 1213
V +WL+ + + RY E F+ N + + + +DL G+ VGHQ+ I+ ++ +R
Sbjct: 6 VGEWLEA--IKMGRYTEIFMENGYSSMDAVAQVTLEDLRRLGVTLVGHQKKIMNSIQEMR 63
>gnl|CDD|188913 cd09514, SAM_SGMS1, SAM domain of sphingomyelin synthase. SAM
(sterile alpha motif) domain of SGMS-1 (sphingomyelin
synthase) subfamily is a potential protein-protein
interaction domain. Sphingomyelin synthase 1 is a
transmembrane protein with a SAM domain at the
N-terminus and a catalytic domain at the C-terminus.
Sphingomyelin synthase 1 is a Golgi-associated enzyme,
and depending on the concentration of diacylglycerol
and ceramide, can catalyze synthesis phosphocholine or
sphingomyelin, respectively. It plays a central role in
sphingolipid and glycerophospholipid metabolism.
Length = 72
Score = 34.0 bits (78), Expect = 0.077
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 6 VADWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDD 49
V W P +V+DWL + + Y E+ +GQ LLNL +D
Sbjct: 4 VVQWSPKEVSDWL--SEEGMQEYSEAL--RSFDGQALLNLTEED 43
Score = 32.5 bits (74), Expect = 0.29
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 4/41 (9%)
Query: 1150 WKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDD 1190
W P +V+DWL + + Y E+ +GQ LLNL +D
Sbjct: 7 WSPKEVSDWL--SEEGMQEYSEAL--RSFDGQALLNLTEED 43
>gnl|CDD|151082 pfam10534, CRIC_ras_sig, Connector enhancer of kinase suppressor of
ras. The CRIC - Connector enhancer of kinase suppressor
of ras - domain functions as a scaffold in several
signal cascades and acts on proliferation,
differentiation and apoptosis.
Length = 95
Score = 34.8 bits (80), Expect = 0.077
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 9/84 (10%)
Query: 82 NLQLLALRVSCLAHSLH-----RELWNYSSPVVSTQTLSDVAT----IIKAVKPLVCWLD 132
NL+ L ++ H+L R S + +DV T +I A K L+ WL+
Sbjct: 1 NLKSLVEKLRAATHNLQNAIQGRRRSPAYDGGTSRKLPNDVLTAVVELIIAAKSLLAWLN 60
Query: 133 RPPFSGQLAFIDKKAELLRLSLEM 156
R PF+G F K ++++L LE+
Sbjct: 61 RYPFTGLTDFSATKNKIIQLCLEL 84
Score = 34.8 bits (80), Expect = 0.077
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 9/84 (10%)
Query: 1223 NLQLLALRVSCLAHSLH-----RELWNYSSPVVSTQTLSDVAT----IIKAVKPLVCWLD 1273
NL+ L ++ H+L R S + +DV T +I A K L+ WL+
Sbjct: 1 NLKSLVEKLRAATHNLQNAIQGRRRSPAYDGGTSRKLPNDVLTAVVELIIAAKSLLAWLN 60
Query: 1274 RPPFSGQLAFIDKKAELLRLSLEM 1297
R PF+G F K ++++L LE+
Sbjct: 61 RYPFTGLTDFSATKNKIIQLCLEL 84
>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin. Nucleoplasmins are also
known as chromatin decondensation proteins. They bind to
core histones and transfer DNA to them in a reaction
that requires ATP. This is thought to play a role in the
assembly of regular nucleosomal arrays.
Length = 146
Score = 35.8 bits (83), Expect = 0.083
Identities = 11/31 (35%), Positives = 22/31 (70%)
Query: 368 KSIQKEEPEDDLEDDDDDDEDNEPEEEEESI 398
+ + ++ E+D E++DD+++D+E E EEE
Sbjct: 110 EEDESDDDEEDEEEEDDEEDDDEDESEEEES 140
Score = 35.8 bits (83), Expect = 0.083
Identities = 11/31 (35%), Positives = 22/31 (70%)
Query: 1509 KSIQKEEPEDDLEDDDDDDEDNEPEEEEESI 1539
+ + ++ E+D E++DD+++D+E E EEE
Sbjct: 110 EEDESDDDEEDEEEEDDEEDDDEDESEEEES 140
Score = 35.4 bits (82), Expect = 0.092
Identities = 10/33 (30%), Positives = 22/33 (66%)
Query: 373 EEPEDDLEDDDDDDEDNEPEEEEESISSPTSVR 405
+ +++ E+++DD+ED++ +E EE S V+
Sbjct: 114 SDDDEEDEEEEDDEEDDDEDESEEEESPVKKVK 146
Score = 35.4 bits (82), Expect = 0.092
Identities = 10/33 (30%), Positives = 22/33 (66%)
Query: 1514 EEPEDDLEDDDDDDEDNEPEEEEESISSPTSVR 1546
+ +++ E+++DD+ED++ +E EE S V+
Sbjct: 114 SDDDEEDEEEEDDEEDDDEDESEEEESPVKKVK 146
Score = 31.5 bits (72), Expect = 2.2
Identities = 13/30 (43%), Positives = 22/30 (73%), Gaps = 1/30 (3%)
Query: 373 EEPEDDLED-DDDDDEDNEPEEEEESISSP 401
+E +DD ED +++DDE+++ E+E E SP
Sbjct: 112 DESDDDEEDEEEEDDEEDDDEDESEEEESP 141
Score = 31.5 bits (72), Expect = 2.2
Identities = 13/30 (43%), Positives = 22/30 (73%), Gaps = 1/30 (3%)
Query: 1514 EEPEDDLED-DDDDDEDNEPEEEEESISSP 1542
+E +DD ED +++DDE+++ E+E E SP
Sbjct: 112 DESDDDEEDEEEEDDEEDDDEDESEEEESP 141
>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A. The CAF-1
or chromatin assembly factor-1 consists of three
subunits, and this is the first, or A. The A domain is
uniquely required for the progression of S phase in
mouse cells, independent of its ability to promote
histone deposition but dependent on its ability to
interact with HP1 - heterochromatin protein 1-rich
heterochromatin domains next to centromeres that are
crucial for chromosome segregation during mitosis. This
HP1-CAF-1 interaction module functions as a built-in
replication control for heterochromatin, which, like a
control barrier, has an impact on S-phase progression in
addition to DNA-based checkpoints.
Length = 76
Score = 33.7 bits (78), Expect = 0.12
Identities = 8/26 (30%), Positives = 20/26 (76%)
Query: 371 QKEEPEDDLEDDDDDDEDNEPEEEEE 396
++EE +DLE +D++DE+ + +++ +
Sbjct: 49 EEEEEGEDLESEDEEDEEEDDDDDMD 74
Score = 33.7 bits (78), Expect = 0.12
Identities = 8/26 (30%), Positives = 20/26 (76%)
Query: 1512 QKEEPEDDLEDDDDDDEDNEPEEEEE 1537
++EE +DLE +D++DE+ + +++ +
Sbjct: 49 EEEEEGEDLESEDEEDEEEDDDDDMD 74
>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366). This
family of proteins is found in bacteria and eukaryotes.
Proteins in this family are typically between 227 and
387 amino acids in length.
Length = 213
Score = 36.2 bits (84), Expect = 0.12
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 366 QNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 396
+ K +K P+DDL++ D DED E ++E
Sbjct: 182 KPKQQEKGAPDDDLDEYDYGDEDEEEDDEPP 212
Score = 36.2 bits (84), Expect = 0.12
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 1507 QNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 1537
+ K +K P+DDL++ D DED E ++E
Sbjct: 182 KPKQQEKGAPDDDLDEYDYGDEDEEEDDEPP 212
Score = 30.4 bits (69), Expect = 9.4
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 368 KSIQKEEPEDDLEDDDDDDEDNEPEEEEE 396
K + ++ E DDD D+ D E+EEE
Sbjct: 179 KFYKPKQQEKGAPDDDLDEYDYGDEDEEE 207
Score = 30.4 bits (69), Expect = 9.4
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 1509 KSIQKEEPEDDLEDDDDDDEDNEPEEEEE 1537
K + ++ E DDD D+ D E+EEE
Sbjct: 179 KFYKPKQQEKGAPDDDLDEYDYGDEDEEE 207
>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region. The domain
is found in the primary vegetative sigma factor. The
function of this domain is unclear and can be removed
without loss of function.
Length = 211
Score = 36.0 bits (84), Expect = 0.13
Identities = 18/32 (56%), Positives = 24/32 (75%)
Query: 370 IQKEEPEDDLEDDDDDDEDNEPEEEEESISSP 401
I+ E E+DLEDDDDDDED + ++EEE+ P
Sbjct: 44 IESELDEEDLEDDDDDDEDEDEDDEEEADLGP 75
Score = 36.0 bits (84), Expect = 0.13
Identities = 18/32 (56%), Positives = 24/32 (75%)
Query: 1511 IQKEEPEDDLEDDDDDDEDNEPEEEEESISSP 1542
I+ E E+DLEDDDDDDED + ++EEE+ P
Sbjct: 44 IESELDEEDLEDDDDDDEDEDEDDEEEADLGP 75
Score = 34.1 bits (79), Expect = 0.51
Identities = 10/40 (25%), Positives = 21/40 (52%)
Query: 361 IDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISS 400
ID + E +L+++D +D+D++ E+E+E
Sbjct: 30 IDPNAAAAAATAAAIESELDEEDLEDDDDDDEDEDEDDEE 69
Score = 34.1 bits (79), Expect = 0.51
Identities = 10/40 (25%), Positives = 21/40 (52%)
Query: 1502 IDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISS 1541
ID + E +L+++D +D+D++ E+E+E
Sbjct: 30 IDPNAAAAAATAAAIESELDEEDLEDDDDDDEDEDEDDEE 69
Score = 32.5 bits (75), Expect = 1.8
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 373 EEPEDDLEDDDDDDEDNEPEEEEESISSPTS 403
E E D ED +DDD+D+E E+E++ +
Sbjct: 44 IESELDEEDLEDDDDDDEDEDEDDEEEADLG 74
Score = 32.5 bits (75), Expect = 1.8
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 1514 EEPEDDLEDDDDDDEDNEPEEEEESISSPTS 1544
E E D ED +DDD+D+E E+E++ +
Sbjct: 44 IESELDEEDLEDDDDDDEDEDEDDEEEADLG 74
Score = 31.8 bits (73), Expect = 2.8
Identities = 7/28 (25%), Positives = 16/28 (57%)
Query: 373 EEPEDDLEDDDDDDEDNEPEEEEESISS 400
+ E+D +DD+D++ +E+E+
Sbjct: 43 AIESELDEEDLEDDDDDDEDEDEDDEEE 70
Score = 31.8 bits (73), Expect = 2.8
Identities = 7/28 (25%), Positives = 16/28 (57%)
Query: 1514 EEPEDDLEDDDDDDEDNEPEEEEESISS 1541
+ E+D +DD+D++ +E+E+
Sbjct: 43 AIESELDEEDLEDDDDDDEDEDEDDEEE 70
>gnl|CDD|217450 pfam03247, Prothymosin, Prothymosin/parathymosin family.
Prothymosin alpha and parathymosin are two ubiquitous
small acidic nuclear proteins that are thought to be
involved in cell cycle progression, proliferation, and
cell differentiation.
Length = 106
Score = 34.2 bits (78), Expect = 0.16
Identities = 12/43 (27%), Positives = 21/43 (48%)
Query: 354 NAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 396
N E+ + ++E EDD E++ + +E+ EEEE
Sbjct: 37 NENEENGAQEGDDEMEEEEEVDEDDEEEEGEGEEEEGEEEEET 79
Score = 34.2 bits (78), Expect = 0.16
Identities = 12/43 (27%), Positives = 21/43 (48%)
Query: 1495 NAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 1537
N E+ + ++E EDD E++ + +E+ EEEE
Sbjct: 37 NENEENGAQEGDDEMEEEEEVDEDDEEEEGEGEEEEGEEEEET 79
Score = 29.9 bits (67), Expect = 4.8
Identities = 15/44 (34%), Positives = 26/44 (59%)
Query: 353 ENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 396
+NA + + + EN + E E++ D+DD++E+ E EEEE
Sbjct: 30 KNAPANGNENEENGAQEGDDEMEEEEEVDEDDEEEEGEGEEEEG 73
Score = 29.9 bits (67), Expect = 4.8
Identities = 15/44 (34%), Positives = 26/44 (59%)
Query: 1494 ENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 1537
+NA + + + EN + E E++ D+DD++E+ E EEEE
Sbjct: 30 KNAPANGNENEENGAQEGDDEMEEEEEVDEDDEEEEGEGEEEEG 73
>gnl|CDD|201332 pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ
domains are found in diverse signaling proteins.
Length = 80
Score = 33.4 bits (77), Expect = 0.16
Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 5/80 (6%)
Query: 206 TLKKRPGEHLGFCI---IPSFHGIHQIGDIKCNSTAYQSGKIECGDEIVQINYQTVVGWD 262
TL+K LGF + GI + ++ A G ++ GD I+ IN Q +
Sbjct: 3 TLEKSGRGGLGFSLVGGSDGDPGIF-VSEVLPGGAAEAGG-LQEGDRILSINGQDLENLS 60
Query: 263 VKQVMALFEESSSDIFLTLK 282
+ + + S ++ LT+
Sbjct: 61 HDEAVLALKGSGGEVTLTIL 80
Score = 33.4 bits (77), Expect = 0.16
Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 5/80 (6%)
Query: 1347 TLKKRPGEHLGFCI---IPSFHGIHQIGDIKCNSTAYQSGKIECGDEIVQINYQTVVGWD 1403
TL+K LGF + GI + ++ A G ++ GD I+ IN Q +
Sbjct: 3 TLEKSGRGGLGFSLVGGSDGDPGIF-VSEVLPGGAAEAGG-LQEGDRILSINGQDLENLS 60
Query: 1404 VKQVMALFEESSSDIFLTLK 1423
+ + + S ++ LT+
Sbjct: 61 HDEAVLALKGSGGEVTLTIL 80
>gnl|CDD|188926 cd09527, SAM_Samd5, SAM domain of Samd5 subfamily. SAM (sterile
alpha motif) domain of Samd5 subfamily is a putative
protein-protein interaction domain. Proteins of this
subfamily have a SAM domain at the N-terminus. SAM is a
widespread domain in signaling and regulatory proteins.
In many cases SAM mediates
dimerization/oligomerization. The exact function of
proteins belonging to this subfamily is unknown.
Length = 63
Score = 32.8 bits (75), Expect = 0.19
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 14 VADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPD-DLEHHGICKVGHQEIILEAVDHLR 72
V DWL+ L + +Y E F++N + + D DL+ G+ H++ ILEAV L+
Sbjct: 5 VYDWLRTL--QLEQYAEKFVDNGYDDLEVCKQIGDPDLDAIGVMNPAHRKRILEAVRRLK 62
Query: 73 N 73
Sbjct: 63 E 63
Score = 32.8 bits (75), Expect = 0.19
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 1155 VADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPD-DLEHHGICKVGHQEIILEAVDHLR 1213
V DWL+ L + +Y E F++N + + D DL+ G+ H++ ILEAV L+
Sbjct: 5 VYDWLRTL--QLEQYAEKFVDNGYDDLEVCKQIGDPDLDAIGVMNPAHRKRILEAVRRLK 62
Query: 1214 N 1214
Sbjct: 63 E 63
>gnl|CDD|220135 pfam09184, PPP4R2, PPP4R2. PPP4R2 (protein phosphatase 4 core
regulatory subunit R2) is the regulatory subunit of the
histone H2A phosphatase complex. It has been shown to
confer resistance to the anticancer drug cisplatin in
yeast, and may confer resistance in higher eukaryotes.
Length = 285
Score = 36.0 bits (83), Expect = 0.19
Identities = 13/60 (21%), Positives = 34/60 (56%)
Query: 336 NSVTSFTKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEE 395
+S + +++ P +N K D D + ++++E ++D E+++ ++E+ E +E+E
Sbjct: 226 SSDAAASQDDGPKGSDVKNKKSDDEEDDDQDGDYVEEKELKEDEEEEETEEEEEEEDEDE 285
Score = 36.0 bits (83), Expect = 0.19
Identities = 13/60 (21%), Positives = 34/60 (56%)
Query: 1477 NSVTSFTKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEE 1536
+S + +++ P +N K D D + ++++E ++D E+++ ++E+ E +E+E
Sbjct: 226 SSDAAASQDDGPKGSDVKNKKSDDEEDDDQDGDYVEEKELKEDEEEEETEEEEEEEDEDE 285
>gnl|CDD|241436 cd13282, PH1_PLEKHH1_PLEKHH2, Pleckstrin homology (PH) domain
containing, family H (with MyTH4 domain) members 1 and 2
(PLEKHH1) PH domain, repeat 1. PLEKHH1 and PLEKHH2
(also called PLEKHH1L) are thought to function in
phospholipid binding and signal transduction. There are
3 Human PLEKHH genes: PLEKHH1, PLEKHH2, and PLEKHH3.
There are many isoforms, the longest of which contain a
FERM domain, a MyTH4 domain, two PH domains, a peroximal
domain, a vacuolar domain, and a coiled coil stretch.
The FERM domain has a cloverleaf tripart structure
(FERM_N, FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe,
B-lobe, C-lobe/F1, F2, F3). The C-lobe/F3 within the
FERM domain is part of the PH domain family. PH domains
have diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 96
Score = 33.4 bits (77), Expect = 0.22
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 713 EGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDST--KAHLFIYLPGFT-VAPAVEV 769
G+L + K+ T W R WF++K + + + K I L G +A A
Sbjct: 2 AGYLTKLGGKVKT---WKRRWFVLKNGELFYYKSPNDVIRKPQGQIALDGSCEIARAEGA 58
Query: 770 KSRKYALKIYHTGTTFYLSADSQDEFSSWL 799
++ +I T+YL+ADS+++ W+
Sbjct: 59 QT----FEIVTEKRTYYLTADSENDLDEWI 84
Score = 33.4 bits (77), Expect = 0.22
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 1859 EGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDST--KAHLFIYLPGFT-VAPAVEV 1915
G+L + K+ T W R WF++K + + + K I L G +A A
Sbjct: 2 AGYLTKLGGKVKT---WKRRWFVLKNGELFYYKSPNDVIRKPQGQIALDGSCEIARAEGA 58
Query: 1916 KSRKYALKIYHTGTTFYLSADSQDEFSSWL 1945
++ +I T+YL+ADS+++ W+
Sbjct: 59 QT----FEIVTEKRTYYLTADSENDLDEWI 84
>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2
subunit 1; Provisional.
Length = 319
Score = 35.8 bits (83), Expect = 0.23
Identities = 8/41 (19%), Positives = 26/41 (63%)
Query: 357 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 397
ED+ +E + ++++ + ++D++D+++ E E+++E
Sbjct: 277 EDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEG 317
Score = 35.8 bits (83), Expect = 0.23
Identities = 8/41 (19%), Positives = 26/41 (63%)
Query: 1498 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 1538
ED+ +E + ++++ + ++D++D+++ E E+++E
Sbjct: 277 EDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEG 317
Score = 31.6 bits (72), Expect = 4.2
Identities = 11/44 (25%), Positives = 26/44 (59%)
Query: 354 NAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 397
E+ ++ + + ++E+ + ED+D++DED E EE+++
Sbjct: 273 GGDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDE 316
Score = 31.6 bits (72), Expect = 4.2
Identities = 11/44 (25%), Positives = 26/44 (59%)
Query: 1495 NAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 1538
E+ ++ + + ++E+ + ED+D++DED E EE+++
Sbjct: 273 GGDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDE 316
>gnl|CDD|215094 PLN00188, PLN00188, enhanced disease resistance protein (EDR2);
Provisional.
Length = 719
Score = 36.3 bits (84), Expect = 0.24
Identities = 24/97 (24%), Positives = 43/97 (44%), Gaps = 19/97 (19%)
Query: 311 WF--LDDKITPPRISHFDIKPLGHALVNSVTSFTKNRKPLSGSFENAKEDVSIDIENQNK 368
WF D++ PPRI P+ + ++ S KN+KP E++ + ++N
Sbjct: 389 WFSQTDERGAPPRI------PVMVNMASASVSSKKNQKPQ----ESSPSLDQTNAASRNS 438
Query: 369 SIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVR 405
+ E+ DDD+E PE E+E ++ +
Sbjct: 439 VMMDED-------SDDDEEFQIPESEQEPETTKNETK 468
Score = 36.3 bits (84), Expect = 0.24
Identities = 24/97 (24%), Positives = 43/97 (44%), Gaps = 19/97 (19%)
Query: 1452 WF--LDDKITPPRISHFDIKPLGHALVNSVTSFTKNRKPLSGSFENAKEDVSIDIENQNK 1509
WF D++ PPRI P+ + ++ S KN+KP E++ + ++N
Sbjct: 389 WFSQTDERGAPPRI------PVMVNMASASVSSKKNQKPQ----ESSPSLDQTNAASRNS 438
Query: 1510 SIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVR 1546
+ E+ DDD+E PE E+E ++ +
Sbjct: 439 VMMDED-------SDDDEEFQIPESEQEPETTKNETK 468
>gnl|CDD|225880 COG3343, RpoE, DNA-directed RNA polymerase, delta subunit
[Transcription].
Length = 175
Score = 34.7 bits (80), Expect = 0.28
Identities = 14/65 (21%), Positives = 29/65 (44%), Gaps = 2/65 (3%)
Query: 337 SVTSFTKNRKPLSGSFENAKEDVSIDIENQNKSIQKEE--PEDDLEDDDDDDEDNEPEEE 394
K +A E+ D + ++ ++EE D L+D++DD+++++ E
Sbjct: 91 IQAMTEKKDIKAKDKEVDAFEEGDEDELDYDEDKEEEEDDEVDSLDDENDDEDEDDDEIV 150
Query: 395 EESIS 399
E I
Sbjct: 151 EILIE 155
Score = 34.7 bits (80), Expect = 0.28
Identities = 14/65 (21%), Positives = 29/65 (44%), Gaps = 2/65 (3%)
Query: 1478 SVTSFTKNRKPLSGSFENAKEDVSIDIENQNKSIQKEE--PEDDLEDDDDDDEDNEPEEE 1535
K +A E+ D + ++ ++EE D L+D++DD+++++ E
Sbjct: 91 IQAMTEKKDIKAKDKEVDAFEEGDEDELDYDEDKEEEEDDEVDSLDDENDDEDEDDDEIV 150
Query: 1536 EESIS 1540
E I
Sbjct: 151 EILIE 155
>gnl|CDD|188903 cd09504, SAM_STIM-1,2-like, SAM domain of STIM-1,2-like proteins.
SAM (sterile alpha motif) domain of STIM-1,2-like
(Stromal interaction molecule) proteins is a putative
protein-protein interaction domain. STIM1 and STIM2 human
proteins are type I transmembrane proteins. The
N-terminal part of them includes "hidden" EF-hand and SAM
domains. This region is responsible for sensing changes
in store-operated and basal cytoplasmic Ca2+ levels and
initiates oligomerization. "Hidden" EF hand and SAM
domains have a stable intramolecular association, and the
SAM domain is a component that regulates stability within
STIM proteins. Destabilization of the EF-SAM association
during Ca2+ depletion leads to partial unfolding and
aggregation (homooligomerization), thus activating the
store-operated Ca2+ entry. Immunoprecipitation analysis
indicates that STIM1 and STIM2 can form co-precipitable
oligomeric associations in vivo. It was suggested that
STIM1 and STIM2 are involved in opposite regulation of
store operated channels in plasma membrane.
Length = 74
Score = 32.3 bits (74), Expect = 0.28
Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 10/72 (13%)
Query: 1146 PINNWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHH------GICKV 1199
++NW + +WL V + +YVE+F N V+G L L GI
Sbjct: 1 EVHNWTVEDTVEWLVN-SVELPQYVEAFKENGVDGSALPRLA--VNNPSFLTSVLGIKDP 57
Query: 1200 GH-QEIILEAVD 1210
H Q++ L+A+D
Sbjct: 58 IHRQKLSLKAMD 69
Score = 30.0 bits (68), Expect = 2.0
Identities = 21/71 (29%), Positives = 32/71 (45%), Gaps = 10/71 (14%)
Query: 6 VADWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHH------GICKVG 59
V +W + +WL V + +YVE+F N V+G L L GI
Sbjct: 2 VHNWTVEDTVEWLVN-SVELPQYVEAFKENGVDGSALPRLA--VNNPSFLTSVLGIKDPI 58
Query: 60 H-QEIILEAVD 69
H Q++ L+A+D
Sbjct: 59 HRQKLSLKAMD 69
>gnl|CDD|188950 cd09551, SAM_EPH-B1, SAM domain of EPH-B1 subfamily of tyrosine
kinase receptors. SAM (sterile alpha motif) domain of
EPH-B1 subfamily of receptor tyrosine kinases is a
C-terminal potential protein-protein interaction
domain. This domain is located in the cytoplasmic
region of EPH- B1 receptors. In human vascular
endothelial cells it appears to mediate cell-cell
initiated signal transduction via the binding of the
adaptor protein GRB10 (growth factor) through its SH2
domain to a conserved tyrosine that is phosphorylated.
EPH-B1 receptors play a role in neurogenesis, in
particular in regulation of proliferation and migration
of neural progenitors in the hippocampus and in corneal
neovascularization; they are involved in converting the
crossed retinal projection to ipsilateral retinal
projection. They may be potential targets in
angiogenesis-related disorders.
Length = 68
Score = 32.3 bits (73), Expect = 0.29
Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 14 VADWLKGLDVSIHRYVESFLNNHVNGQHLL-NLQPDDLEHHGICKVGHQEIILEAVDHLR 72
V DWL + +S +Y ++FL++ L+ + +DL G+ GHQ+ IL ++ +R
Sbjct: 9 VEDWLSAIKMS--QYRDNFLSSGFTSLQLVAQMTSEDLLRIGVTLAGHQKKILNSIQSMR 66
Score = 32.3 bits (73), Expect = 0.29
Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 1155 VADWLKGLDVSIHRYVESFLNNHVNGQHLL-NLQPDDLEHHGICKVGHQEIILEAVDHLR 1213
V DWL + +S +Y ++FL++ L+ + +DL G+ GHQ+ IL ++ +R
Sbjct: 9 VEDWLSAIKMS--QYRDNFLSSGFTSLQLVAQMTSEDLLRIGVTLAGHQKKILNSIQSMR 66
>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit.
Transcription initiation factor IIA (TFIIA) is a
heterotrimer, the three subunits being known as alpha,
beta, and gamma, in order of molecular weight. The N and
C-terminal domains of the gamma subunit are represented
in pfam02268 and pfam02751, respectively. This family
represents the precursor that yields both the alpha and
beta subunits. The TFIIA heterotrimer is an essential
general transcription initiation factor for the
expression of genes transcribed by RNA polymerase II.
Together with TFIID, TFIIA binds to the promoter region;
this is the first step in the formation of a
pre-initiation complex (PIC). Binding of the rest of the
transcription machinery follows this step. After
initiation, the PIC does not completely dissociate from
the promoter. Some components, including TFIIA, remain
attached and re-initiate a subsequent round of
transcription.
Length = 332
Score = 35.5 bits (82), Expect = 0.32
Identities = 10/51 (19%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 351 SFENAKEDVSIDIENQNKSIQKEEPEDDLEDDD-----DDDEDNEPEEEEE 396
+++K I+ + + + +DD ++D DD +D+ +E+ E
Sbjct: 232 QAKSSKRRTIAQIDGIDSDDEGDGSDDDDDEDAIESDLDDSDDDVSDEDGE 282
Score = 35.5 bits (82), Expect = 0.32
Identities = 10/51 (19%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 1492 SFENAKEDVSIDIENQNKSIQKEEPEDDLEDDD-----DDDEDNEPEEEEE 1537
+++K I+ + + + +DD ++D DD +D+ +E+ E
Sbjct: 232 QAKSSKRRTIAQIDGIDSDDEGDGSDDDDDEDAIESDLDDSDDDVSDEDGE 282
Score = 31.3 bits (71), Expect = 5.3
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 1/47 (2%)
Query: 356 KEDVSIDI-ENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSP 401
K+ + Q + + D E D DD+D+E E + S
Sbjct: 227 KQPKKQAKSSKRRTIAQIDGIDSDDEGDGSDDDDDEDAIESDLDDSD 273
Score = 31.3 bits (71), Expect = 5.3
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 1/47 (2%)
Query: 1497 KEDVSIDI-ENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSP 1542
K+ + Q + + D E D DD+D+E E + S
Sbjct: 227 KQPKKQAKSSKRRTIAQIDGIDSDDEGDGSDDDDDEDAIESDLDDSD 273
>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation
domain. The centromere protein B (CENP-B) dimerisation
domain is composed of two alpha-helices, which are
folded into an antiparallel configuration. Dimerisation
of CENP-B is mediated by this domain, in which monomers
dimerise to form a symmetrical, antiparallel, four-helix
bundle structure with a large hydrophobic patch in which
23 residues of one monomer form van der Waals contacts
with the other monomer. This CENP-B dimer configuration
may be suitable for capturing two distant CENP-B boxes
during centromeric heterochromatin formation.
Length = 101
Score = 32.8 bits (74), Expect = 0.37
Identities = 15/37 (40%), Positives = 25/37 (67%)
Query: 364 ENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISS 400
E + S EE +DD ED++DDDED++ +++E + S
Sbjct: 9 EEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDEVPVPS 45
Score = 32.8 bits (74), Expect = 0.37
Identities = 15/37 (40%), Positives = 25/37 (67%)
Query: 1505 ENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISS 1541
E + S EE +DD ED++DDDED++ +++E + S
Sbjct: 9 EEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDEVPVPS 45
Score = 30.5 bits (68), Expect = 2.5
Identities = 10/40 (25%), Positives = 26/40 (65%)
Query: 363 IENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPT 402
+E + S + E+D +D+D++D+D + +E+++ + P+
Sbjct: 6 LEGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDEVPVPS 45
Score = 30.5 bits (68), Expect = 2.5
Identities = 10/40 (25%), Positives = 26/40 (65%)
Query: 1504 IENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPT 1543
+E + S + E+D +D+D++D+D + +E+++ + P+
Sbjct: 6 LEGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDEVPVPS 45
>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22. The
mitochondrial protein translocase family, which is
responsible for movement of nuclear encoded pre-proteins
into mitochondria, is very complex with at least 19
components. These proteins include several chaperone
proteins, four proteins of the outer membrane
translocase (Tom) import receptor, five proteins of the
Tom channel complex, five proteins of the inner membrane
translocase (Tim) and three "motor" proteins. This
family represents the Tom22 proteins. The N terminal
region of Tom22 has been shown to have chaperone-like
activity, and the C terminal region faces the
intermembrane face.
Length = 136
Score = 33.8 bits (78), Expect = 0.38
Identities = 14/65 (21%), Positives = 32/65 (49%), Gaps = 4/65 (6%)
Query: 366 QNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRLPVQRRATITGTG 425
+N + ++ + +D+ + D D D ++ + E E++ R+ K +P R I+
Sbjct: 20 KNLAQEESDDDDEDDTDTDSDISDDSDFENETLYD----RIVALKDIVPPTTRRKISSKV 75
Query: 426 ASPTS 430
++ TS
Sbjct: 76 STTTS 80
Score = 33.8 bits (78), Expect = 0.38
Identities = 14/65 (21%), Positives = 32/65 (49%), Gaps = 4/65 (6%)
Query: 1507 QNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRLPVQRRATITGTG 1566
+N + ++ + +D+ + D D D ++ + E E++ R+ K +P R I+
Sbjct: 20 KNLAQEESDDDDEDDTDTDSDISDDSDFENETLYD----RIVALKDIVPPTTRRKISSKV 75
Query: 1567 ASPTS 1571
++ TS
Sbjct: 76 STTTS 80
>gnl|CDD|221620 pfam12527, DUF3727, Protein of unknown function (DUF3727). This
domain family is found in bacteria and eukaryotes, and
is approximately 100 amino acids in length.
Length = 100
Score = 32.6 bits (75), Expect = 0.43
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 373 EEPEDDLEDDDDDDEDNEPEEEE 395
E ED++ + +++D+D+E EEEE
Sbjct: 20 EPEEDEILELEEEDDDDEDEEEE 42
Score = 32.6 bits (75), Expect = 0.43
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 1514 EEPEDDLEDDDDDDEDNEPEEEE 1536
E ED++ + +++D+D+E EEEE
Sbjct: 20 EPEEDEILELEEEDDDDEDEEEE 42
Score = 32.2 bits (74), Expect = 0.58
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 374 EPEDDLEDDDDDDEDNEPEEEEE 396
E ++ LE +++DD+D + EEE E
Sbjct: 22 EEDEILELEEEDDDDEDEEEEYE 44
Score = 32.2 bits (74), Expect = 0.58
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 1515 EPEDDLEDDDDDDEDNEPEEEEE 1537
E ++ LE +++DD+D + EEE E
Sbjct: 22 EEDEILELEEEDDDDEDEEEEYE 44
Score = 29.9 bits (68), Expect = 3.9
Identities = 11/24 (45%), Positives = 18/24 (75%), Gaps = 1/24 (4%)
Query: 373 EEPEDDLEDDDDDDEDNEPEEEEE 396
EPE+D E + ++ED++ E+EEE
Sbjct: 19 PEPEED-EILELEEEDDDDEDEEE 41
Score = 29.9 bits (68), Expect = 3.9
Identities = 11/24 (45%), Positives = 18/24 (75%), Gaps = 1/24 (4%)
Query: 1514 EEPEDDLEDDDDDDEDNEPEEEEE 1537
EPE+D E + ++ED++ E+EEE
Sbjct: 19 PEPEED-EILELEEEDDDDEDEEE 41
>gnl|CDD|177433 PHA02608, 67, prohead core protein; Provisional.
Length = 80
Score = 32.1 bits (73), Expect = 0.45
Identities = 16/53 (30%), Positives = 31/53 (58%), Gaps = 7/53 (13%)
Query: 352 FENAKEDVSIDIENQNKS-------IQKEEPEDDLEDDDDDDEDNEPEEEEES 397
F + E + + + K I+ EEPEDD +D+DDDD+D++ +++++
Sbjct: 20 FASIMEARTEALIEEEKVEIARSVMIEGEEPEDDDDDEDDDDDDDKDDKDDDD 72
Score = 32.1 bits (73), Expect = 0.45
Identities = 16/53 (30%), Positives = 31/53 (58%), Gaps = 7/53 (13%)
Query: 1493 FENAKEDVSIDIENQNKS-------IQKEEPEDDLEDDDDDDEDNEPEEEEES 1538
F + E + + + K I+ EEPEDD +D+DDDD+D++ +++++
Sbjct: 20 FASIMEARTEALIEEEKVEIARSVMIEGEEPEDDDDDEDDDDDDDKDDKDDDD 72
>gnl|CDD|235033 PRK02363, PRK02363, DNA-directed RNA polymerase subunit delta;
Reviewed.
Length = 129
Score = 33.1 bits (76), Expect = 0.47
Identities = 12/25 (48%), Positives = 19/25 (76%)
Query: 372 KEEPEDDLEDDDDDDEDNEPEEEEE 396
P+DD +++D D+ED+E EE+EE
Sbjct: 105 DILPDDDFDEEDLDEEDDEDEEDEE 129
Score = 33.1 bits (76), Expect = 0.47
Identities = 12/25 (48%), Positives = 19/25 (76%)
Query: 1513 KEEPEDDLEDDDDDDEDNEPEEEEE 1537
P+DD +++D D+ED+E EE+EE
Sbjct: 105 DILPDDDFDEEDLDEEDDEDEEDEE 129
Score = 32.7 bits (75), Expect = 0.64
Identities = 12/45 (26%), Positives = 21/45 (46%)
Query: 351 SFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEE 395
+ E++ E +K +K DD DDD D++ +EE+
Sbjct: 72 PVDEIDEEIIPLEEKFDKKKKKFMDGDDDIIDDDILPDDDFDEED 116
Score = 32.7 bits (75), Expect = 0.64
Identities = 12/45 (26%), Positives = 21/45 (46%)
Query: 1492 SFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEE 1536
+ E++ E +K +K DD DDD D++ +EE+
Sbjct: 72 PVDEIDEEIIPLEEKFDKKKKKFMDGDDDIIDDDILPDDDFDEED 116
>gnl|CDD|218333 pfam04931, DNA_pol_phi, DNA polymerase phi. This family includes
the fifth essential DNA polymerase in yeast EC:2.7.7.7.
Pol5p is localised exclusively to the nucleolus and
binds near or at the enhancer region of rRNA-encoding
DNA repeating units.
Length = 784
Score = 34.8 bits (80), Expect = 0.65
Identities = 16/61 (26%), Positives = 26/61 (42%)
Query: 344 NRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTS 403
N+ FE +ED E + + E ED + + D ED E +E+E+ +
Sbjct: 637 NKSRHQQLFEGEEEDEDDLEETDDDEDECEAIEDSESESESDGEDGEEDEQEDDAEANEG 696
Query: 404 V 404
V
Sbjct: 697 V 697
Score = 34.8 bits (80), Expect = 0.65
Identities = 16/61 (26%), Positives = 26/61 (42%)
Query: 1485 NRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTS 1544
N+ FE +ED E + + E ED + + D ED E +E+E+ +
Sbjct: 637 NKSRHQQLFEGEEEDEDDLEETDDDEDECEAIEDSESESESDGEDGEEDEQEDDAEANEG 696
Query: 1545 V 1545
V
Sbjct: 697 V 697
>gnl|CDD|188920 cd09521, SAM_ASZ1, SAM domain of ASZ1 subfamily. SAM (sterile
alpha motif) domain of ASZ1 (Ankyrin, SAM, leucine
Zipper) also known as GASZ (Germ cell-specific Ankyrin,
SAM, leucine Zipper) subfamily is a potential
protein-protein interaction domain. Proteins of this
group are involved in the repression of transposable
elements during spermatogenesis, oogenesis, and
preimplantation embryogenesis. They support synthesis
of PIWI-interacting RNA via association with some PIWI
proteins, such as MILI and MIWI. This association is
required for initiation and maintenance of
retrotransposon repression during the meiosis. In mice
lacking ASZ1, DNA damage and delayed germ cell
maturation was observed due to retrotransposons
releasing from their repressed state.
Length = 64
Score = 31.1 bits (71), Expect = 0.70
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 18 LKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 68
L GL++ F + V LL + +DLE GI + G Q+ IL+A+
Sbjct: 12 LHGLELG--HLTPLFKEHDVTFSQLLKMTEEDLEKIGITQPGDQKKILDAI 60
Score = 31.1 bits (71), Expect = 0.70
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 1159 LKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAV 1209
L GL++ F + V LL + +DLE GI + G Q+ IL+A+
Sbjct: 12 LHGLELG--HLTPLFKEHDVTFSQLLKMTEEDLEKIGITQPGDQKKILDAI 60
>gnl|CDD|227303 COG4968, PilE, Tfp pilus assembly protein PilE [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 139
Score = 32.8 bits (75), Expect = 0.70
Identities = 18/77 (23%), Positives = 28/77 (36%), Gaps = 1/77 (1%)
Query: 2105 LASLARAGHTTNVQREHNTTLEAFMM-SRQGEERRQNQSTSALRPPQQFAPSVPNSQLED 2163
LA +A + V R + +A ++ + Q ER AP VP S ED
Sbjct: 23 LALIAYPSYQNYVLRSRRSAAKAALLENAQFMERYYALQNGYAGTTSTLAPKVPPSANED 82
Query: 2164 AACRTHIMRQSHPSTSH 2180
R + + +T
Sbjct: 83 FDYRLSAVTPAGKATLT 99
Score = 30.9 bits (70), Expect = 3.1
Identities = 16/60 (26%), Positives = 23/60 (38%), Gaps = 1/60 (1%)
Query: 959 LASLARAGHTTNVQREHNTTLEAFMM-SRQGEERRQNQSTSALRPPQQFAPSVPNSQLED 1017
LA +A + V R + +A ++ + Q ER AP VP S ED
Sbjct: 23 LALIAYPSYQNYVLRSRRSAAKAALLENAQFMERYYALQNGYAGTTSTLAPKVPPSANED 82
>gnl|CDD|233222 TIGR00986, 3a0801s05tom22, mitochondrial import receptor subunit
Tom22. The mitochondrial protein translocase (MPT)
family, which brings nuclearly encoded preproteins into
mitochondria, is very complex with 19 currently
identified protein constituents.These proteins include
several chaperone proteins, four proteins of the outer
membrane translocase (Tom) import receptor, five
proteins of the Tom channel complex, five proteins of
the inner membrane translocase (Tim) and three "motor"
proteins. This family is specific for the Tom22 proteins
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 145
Score = 32.6 bits (74), Expect = 0.80
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 357 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSV-RLYHPKPRLPV 415
+V + Q + EPE+D ED D D ++ + + ES+ T R+Y K +P
Sbjct: 5 TEVEDEHFQQPEQQTVVEPEEDDEDFTDVDSEDSVDSDFESLEEETFTDRIYALKDIVPP 64
Query: 416 QRRATI 421
R I
Sbjct: 65 TTRGWI 70
Score = 32.6 bits (74), Expect = 0.80
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 1498 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSV-RLYHPKPRLPV 1556
+V + Q + EPE+D ED D D ++ + + ES+ T R+Y K +P
Sbjct: 5 TEVEDEHFQQPEQQTVVEPEEDDEDFTDVDSEDSVDSDFESLEEETFTDRIYALKDIVPP 64
Query: 1557 QRRATI 1562
R I
Sbjct: 65 TTRGWI 70
>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein. This is a family of
fungal and plant proteins and contains many hypothetical
proteins. VID27 is a cytoplasmic protein that plays a
potential role in vacuolar protein degradation.
Length = 794
Score = 34.3 bits (79), Expect = 0.82
Identities = 13/51 (25%), Positives = 28/51 (54%), Gaps = 7/51 (13%)
Query: 352 FENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDD-------EDNEPEEEE 395
+A + I+ N + ++EE E++ E++D+D+ +D E EE++
Sbjct: 372 ILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDD 422
Score = 34.3 bits (79), Expect = 0.82
Identities = 13/51 (25%), Positives = 28/51 (54%), Gaps = 7/51 (13%)
Query: 1493 FENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDD-------EDNEPEEEE 1536
+A + I+ N + ++EE E++ E++D+D+ +D E EE++
Sbjct: 372 ILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDD 422
>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa). Members of this
family of proteins are part of the yeast nuclear pore
complex-associated pre-60S ribosomal subunit. The family
functions as a highly conserved exonuclease that is
required for the 5'-end maturation of 5.8S and 25S
rRNAs, demonstrating that 5'-end processing also has a
redundant pathway. Nop25 binds late pre-60S ribosomes,
accompanying them from the nucleolus to the nuclear
periphery; and there is evidence for both physical and
functional links between late 60S subunit processing and
export.
Length = 134
Score = 32.7 bits (75), Expect = 0.86
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 5/56 (8%)
Query: 354 NAKEDVSIDIENQNKSIQK-----EEPEDDLEDDDDDDEDNEPEEEEESISSPTSV 404
+E+ ++E Q K ++ EE DD ED + +D ++ ++E E PT
Sbjct: 56 RIREERKQELEKQLKERKEALKLLEEENDDEEDAETEDTEDVEDDEWEGFPEPTVT 111
Score = 32.7 bits (75), Expect = 0.86
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 5/56 (8%)
Query: 1495 NAKEDVSIDIENQNKSIQK-----EEPEDDLEDDDDDDEDNEPEEEEESISSPTSV 1545
+E+ ++E Q K ++ EE DD ED + +D ++ ++E E PT
Sbjct: 56 RIREERKQELEKQLKERKEALKLLEEENDDEEDAETEDTEDVEDDEWEGFPEPTVT 111
>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890). This
family is conserved in dsDNA adenoviruses of
vertebrates. The function is not known.
Length = 172
Score = 33.0 bits (75), Expect = 0.89
Identities = 20/90 (22%), Positives = 37/90 (41%), Gaps = 3/90 (3%)
Query: 343 KNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPT 402
N K L +D D ++Q + + EE E+++ED +D ++ + E EE +
Sbjct: 5 GNAKKLKVR-PPPTKDEEEDWDSQ--AEEVEEDEEEMEDWEDSLDEEDEEAEEVEEETAA 61
Query: 403 SVRLYHPKPRLPVQRRATITGTGASPTSKR 432
S + + Q +I T + R
Sbjct: 62 SSKAPSSSSKSSSQETISIPPTPPARRPSR 91
Score = 33.0 bits (75), Expect = 0.89
Identities = 20/90 (22%), Positives = 37/90 (41%), Gaps = 3/90 (3%)
Query: 1484 KNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPT 1543
N K L +D D ++Q + + EE E+++ED +D ++ + E EE +
Sbjct: 5 GNAKKLKVR-PPPTKDEEEDWDSQ--AEEVEEDEEEMEDWEDSLDEEDEEAEEVEEETAA 61
Query: 1544 SVRLYHPKPRLPVQRRATITGTGASPTSKR 1573
S + + Q +I T + R
Sbjct: 62 SSKAPSSSSKSSSQETISIPPTPPARRPSR 91
>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit
Rpc31. RNA polymerase III contains seventeen subunits
in yeasts and in human cells. Twelve of these are akin
to RNA polymerase I or II and the other five are RNA pol
III-specific, and form the functionally distinct groups
(i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31,
Rpc34 and Rpc82 form a cluster of enzyme-specific
subunits that contribute to transcription initiation in
S.cerevisiae and H.sapiens. There is evidence that these
subunits are anchored at or near the N-terminal Zn-fold
of Rpc1, itself prolonged by a highly conserved but RNA
polymerase III-specific domain.
Length = 221
Score = 33.6 bits (77), Expect = 0.89
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 343 KNRKPLSGSFENAKEDVS----IDIENQNKSIQKEEPE-DDLEDDDDDDEDNEPEEEEES 397
K K L+ S K + DI+ + ++K+ E + + D++D++D E EEEEE
Sbjct: 125 KAGKKLALSKFKRKVGLFTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEE 184
Query: 398 I 398
Sbjct: 185 E 185
Score = 33.6 bits (77), Expect = 0.89
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 1484 KNRKPLSGSFENAKEDVS----IDIENQNKSIQKEEPE-DDLEDDDDDDEDNEPEEEEES 1538
K K L+ S K + DI+ + ++K+ E + + D++D++D E EEEEE
Sbjct: 125 KAGKKLALSKFKRKVGLFTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEE 184
Query: 1539 I 1539
Sbjct: 185 E 185
Score = 32.0 bits (73), Expect = 2.5
Identities = 13/34 (38%), Positives = 23/34 (67%)
Query: 357 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNE 390
E +D E++ ++EE E++ ED DDDD+D++
Sbjct: 164 EAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDD 197
Score = 32.0 bits (73), Expect = 2.5
Identities = 13/34 (38%), Positives = 23/34 (67%)
Query: 1498 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNE 1531
E +D E++ ++EE E++ ED DDDD+D++
Sbjct: 164 EAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDD 197
Score = 31.6 bits (72), Expect = 3.2
Identities = 18/51 (35%), Positives = 29/51 (56%)
Query: 346 KPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 396
K G F +ED+ + K +++ E ED E+D+ D+E+ E EEEE+
Sbjct: 136 KRKVGLFTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEED 186
Score = 31.6 bits (72), Expect = 3.2
Identities = 18/51 (35%), Positives = 29/51 (56%)
Query: 1487 KPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 1537
K G F +ED+ + K +++ E ED E+D+ D+E+ E EEEE+
Sbjct: 136 KRKVGLFTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEED 186
Score = 30.9 bits (70), Expect = 5.6
Identities = 15/33 (45%), Positives = 22/33 (66%)
Query: 357 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDN 389
EDV + E + ++EE ED+ DDDDDD+D+
Sbjct: 166 EDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDDD 198
Score = 30.9 bits (70), Expect = 5.6
Identities = 15/33 (45%), Positives = 22/33 (66%)
Query: 1498 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDN 1530
EDV + E + ++EE ED+ DDDDDD+D+
Sbjct: 166 EDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDDD 198
Score = 30.9 bits (70), Expect = 5.7
Identities = 12/38 (31%), Positives = 24/38 (63%)
Query: 351 SFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDED 388
A++ D +++ + ++EE ++D +DDDDDD+D
Sbjct: 161 KELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDDD 198
Score = 30.9 bits (70), Expect = 5.7
Identities = 12/38 (31%), Positives = 24/38 (63%)
Query: 1492 SFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDED 1529
A++ D +++ + ++EE ++D +DDDDDD+D
Sbjct: 161 KELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDDD 198
Score = 30.5 bits (69), Expect = 8.0
Identities = 10/39 (25%), Positives = 27/39 (69%), Gaps = 2/39 (5%)
Query: 356 KEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEE 394
KE + D++ +++ EE E++ E++D+D +D++ +++
Sbjct: 161 KELEAEDVDEEDEK--DEEEEEEEEEEDEDFDDDDDDDD 197
Score = 30.5 bits (69), Expect = 8.0
Identities = 10/39 (25%), Positives = 27/39 (69%), Gaps = 2/39 (5%)
Query: 1497 KEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEE 1535
KE + D++ +++ EE E++ E++D+D +D++ +++
Sbjct: 161 KELEAEDVDEEDEK--DEEEEEEEEEEDEDFDDDDDDDD 197
Score = 30.5 bits (69), Expect = 8.4
Identities = 12/55 (21%), Positives = 26/55 (47%)
Query: 342 TKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 396
RK + E D + + + + E D+ ++ D+++E+ E EE+E+
Sbjct: 134 KFKRKVGLFTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDED 188
Score = 30.5 bits (69), Expect = 8.4
Identities = 12/55 (21%), Positives = 26/55 (47%)
Query: 1483 TKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 1537
RK + E D + + + + E D+ ++ D+++E+ E EE+E+
Sbjct: 134 KFKRKVGLFTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDED 188
>gnl|CDD|241536 cd13385, PH_Gab3, Grb2-associated binding protein 3 pleckstrin
homology (PH) domain. The Gab subfamily includes
several Gab proteins, Drosophila DOS and C. elegans
SOC-1. They are scaffolding adaptor proteins, which
possess N-terminal PH domains and a C-terminus with
proline-rich regions and multiple phosphorylation sites.
Following activation of growth factor receptors, Gab
proteins are tyrosine phosphorylated and activate PI3K,
which generates 3-phosphoinositide lipids. By binding to
these lipids via the PH domain, Gab proteins remain in
proximity to the receptor, leading to further signaling.
While not all Gab proteins depend on the PH domain for
recruitment, it is required for Gab activity. The
members in this cd include the Gab1, Gab2, and Gab3
proteins. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 125
Score = 32.2 bits (73), Expect = 0.90
Identities = 27/108 (25%), Positives = 44/108 (40%), Gaps = 16/108 (14%)
Query: 712 CEGWLFQR--DRKISTVPQWIRGWFIIKGNHFYG-------FTDKDSTKAHLFIYLPGFT 762
C GWL + ++K+ W + WF+++ G + +K S K I L
Sbjct: 8 CTGWLIKSPPEKKLKRY-AWRKRWFVLRRGRMSGNPDVLEYYRNKHSKKPIRVIDLNECE 66
Query: 763 VAPAVEVKSRK------YALKIYHTGTTFYLSADSQDEFSSWLGCLSQ 804
V V K + + T TFYL A +++E W+ +SQ
Sbjct: 67 VTKHAGVNFIKKEFQNNFVFIVKTTTRTFYLVAKTEEEMQDWVQNISQ 114
Score = 32.2 bits (73), Expect = 0.90
Identities = 27/108 (25%), Positives = 44/108 (40%), Gaps = 16/108 (14%)
Query: 1858 CEGWLFQR--DRKISTVPQWIRGWFIIKGNHFYG-------FTDKDSTKAHLFIYLPGFT 1908
C GWL + ++K+ W + WF+++ G + +K S K I L
Sbjct: 8 CTGWLIKSPPEKKLKRY-AWRKRWFVLRRGRMSGNPDVLEYYRNKHSKKPIRVIDLNECE 66
Query: 1909 VAPAVEVKSRK------YALKIYHTGTTFYLSADSQDEFSSWLGCLSQ 1950
V V K + + T TFYL A +++E W+ +SQ
Sbjct: 67 VTKHAGVNFIKKEFQNNFVFIVKTTTRTFYLVAKTEEEMQDWVQNISQ 114
>gnl|CDD|188949 cd09550, SAM_EPH-A8, SAM domain of EPH-A8 subfamily of tyrosine
kinase receptors. SAM (sterile alpha motif) domain of
EPH-A8 subfamily of receptor tyrosine kinases is a
C-terminal potential protein-protein interaction
domain. This domain is located in the cytoplasmic
region of EPH-A8 receptors and appears to mediate
cell-cell initiated signal transduction. EPH-A8
receptors are involved in ligand dependent (ephirin A2,
A3, A5) regulation of cell adhesion and migration, and
in ligand independent regulation of neurite outgrowth
in neuronal cells. They perform signaling in kinase
dependent and kinase independent manner. EPH-A8
receptors are known to interact with a number of
different proteins including PI 3-kinase and AIDA1-like
subfamily SAM repeat domain containing proteins.
However other domains (not SAM) of EPH-A8 receptors are
involved in these interactions.
Length = 65
Score = 30.6 bits (69), Expect = 0.93
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 14 VADWLKGLDVSIHRYVESFL-NNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDHLR 72
V DWL + + RY + F + + ++ + +D+ GI +GHQ+ IL ++ +R
Sbjct: 5 VDDWLD--SIKMGRYKDHFAAGGYSSLGMVMRMNIEDIRRLGITLMGHQKKILTSIQVMR 62
Score = 30.6 bits (69), Expect = 0.93
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 1155 VADWLKGLDVSIHRYVESFL-NNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDHLR 1213
V DWL + + RY + F + + ++ + +D+ GI +GHQ+ IL ++ +R
Sbjct: 5 VDDWLD--SIKMGRYKDHFAAGGYSSLGMVMRMNIEDIRRLGITLMGHQKKILTSIQVMR 62
>gnl|CDD|188898 cd09499, SAM_AIDA1AB-like_repeat1, SAM domain of AIDA1AB-like
proteins, repeat 1. SAM (sterile alpha motif) domain
repeat 1 of AIDA1AB-like proteins is a protein-protein
interaction domain. AIDA1AB-like proteins have two
tandem SAM domains. They may form an intramolecular
head-to-tail homodimer. One of two basic motifs of the
nuclear localization signal (NLS) is located within
helix 5 of SAM2 (motif HKRK). This signal plays a role
in decoupling of SAM2 from SAM1, thus facilitating
translocation of this type proteins into the nucleus.
SAM1 domain has a potential phosphorylation site for
CMGC group of serine/threonine kinases. SAM domains of
the AIDA1-like subfamily can directly bind ubiquitin
and participate in regulating the degradation of
ubiquitinated EphA receptors, particularly EPH-A8
receptor. Additionally AIDA1AB-like proteins may
participate in the regulation of nucleoplasmic coilin
protein interactions.
Length = 67
Score = 30.7 bits (70), Expect = 1.1
Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 5/65 (7%)
Query: 10 KPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLN---LQPDDLEHHGICKVGHQEIILE 66
V WL+ + + +Y L N + L ++ DL+ GI H++IIL+
Sbjct: 1 VVQSVGQWLESI--GLPQYESKLLLNGFDDVDFLGSGVMEDQDLKEIGITDEQHRQIILQ 58
Query: 67 AVDHL 71
A L
Sbjct: 59 AARSL 63
Score = 30.7 bits (70), Expect = 1.1
Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 5/65 (7%)
Query: 1151 KPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLN---LQPDDLEHHGICKVGHQEIILE 1207
V WL+ + + +Y L N + L ++ DL+ GI H++IIL+
Sbjct: 1 VVQSVGQWLESI--GLPQYESKLLLNGFDDVDFLGSGVMEDQDLKEIGITDEQHRQIILQ 58
Query: 1208 AVDHL 1212
A L
Sbjct: 59 AARSL 63
>gnl|CDD|188944 cd09545, SAM_EPH-A4, SAM domain of EPH-A4 subfamily of tyrosine
kinase receptors. SAM (sterile alpha motif) domain of
EPH-A4 subfamily of receptor tyrosine kinases is a
C-terminal potential protein-protein interaction
domain. This domain is located in the cytoplasmic
region of EPH-A4 receptors and appears to mediate
cell-cell initiated signal transduction. SAM domains of
EPH-A4 receptors can form homodimers. EPH-A4 receptors
bind ligands such as erphirin A1, A4, A5. They are
known to interact with a number of different proteins,
including meltrin beta metalloprotease, Cdk5, and
EFS2alpha, however SAM domain doesn't participate in
these interactions. EPH-A4 receptors are involved in
regulation of corticospinal tract formation, in pathway
controlling voluntary movements, in formation of motor
neurons, and in axon guidance (SAM domain is not
required for axon guidance or for EPH-A4 kinase
signaling). In Xenopus embryos EPH-A4 induces loss of
cell adhesion, ventro-lateral protrusions, and severely
expanded posterior structures. Mutations in SAM domain
conserved tyrosine (Y928F) enhance the ability of
EPH-A4 to induce these phenotypes, thus supporting the
idea that the SAM domain may negatively regulate some
aspects of EPH-A4 activity. EphA4 gene was found
overexpressed in a number of different cancers
including human gastric cancer, colorectal cancer, and
pancreatic ductal adenocarcinoma. It is likely to be a
promising molecular target for the cancer therapy.
Length = 71
Score = 30.7 bits (69), Expect = 1.1
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 14 VADWLKGLDVSIHRYVESFLN-NHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDHLR 72
V DWL+ + + RY ++F + + ++++ DDL GI + HQ IL +V +R
Sbjct: 6 VDDWLQA--IKMERYKDNFTAAGYTTLEAVVHMNQDDLARIGISAIAHQNKILSSVQGMR 63
Score = 30.7 bits (69), Expect = 1.1
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 1155 VADWLKGLDVSIHRYVESFLN-NHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDHLR 1213
V DWL+ + + RY ++F + + ++++ DDL GI + HQ IL +V +R
Sbjct: 6 VDDWLQA--IKMERYKDNFTAAGYTTLEAVVHMNQDDLARIGISAIAHQNKILSSVQGMR 63
>gnl|CDD|221668 pfam12619, MCM2_N, Mini-chromosome maintenance protein 2. This
domain family is found in eukaryotes, and is typically
between 138 and 153 amino acids in length. The family is
found in association with pfam00493. Mini-chromosome
maintenance (MCM) proteins are essential for DNA
replication. These proteins use ATPase activity to
perform this function.
Length = 145
Score = 32.3 bits (74), Expect = 1.1
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 373 EEPEDDLEDDDDDDEDNEPEEEEE 396
+EP+++ E +DD D+ +E EEEE
Sbjct: 2 DEPDEEEELEDDIDDLDEEAEEEE 25
Score = 32.3 bits (74), Expect = 1.1
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 1514 EEPEDDLEDDDDDDEDNEPEEEEE 1537
+EP+++ E +DD D+ +E EEEE
Sbjct: 2 DEPDEEEELEDDIDDLDEEAEEEE 25
Score = 29.6 bits (67), Expect = 8.8
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 373 EEPEDDLEDDDDDDEDNEPEEEEE 396
+ E++LEDD DD ++ EEE+
Sbjct: 4 PDEEEELEDDIDDLDEEAEEEEDG 27
Score = 29.6 bits (67), Expect = 8.8
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 1514 EEPEDDLEDDDDDDEDNEPEEEEE 1537
+ E++LEDD DD ++ EEE+
Sbjct: 4 PDEEEELEDDIDDLDEEAEEEEDG 27
>gnl|CDD|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid).
Members of this family are bacterial proteins with a
conserved motif [KR]FYDLN, sometimes flanked by a pair
of CXXC motifs, followed by a long region of low
complexity sequence in which roughly half the residues
are Asp and Glu, including multiple runs of five or more
acidic residues. The function of members of this family
is unknown.
Length = 104
Score = 31.5 bits (72), Expect = 1.1
Identities = 12/41 (29%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 357 EDVSI-DIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 396
+DV + D ++ + + +DD D DDDD+D ++++E
Sbjct: 64 DDVVLDDDDDDDDDDDLPDLDDDDVDLDDDDDDFLEDDDDE 104
Score = 31.5 bits (72), Expect = 1.1
Identities = 12/41 (29%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 1498 EDVSI-DIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 1537
+DV + D ++ + + +DD D DDDD+D ++++E
Sbjct: 64 DDVVLDDDDDDDDDDDLPDLDDDDVDLDDDDDDFLEDDDDE 104
Score = 29.6 bits (67), Expect = 5.0
Identities = 14/38 (36%), Positives = 23/38 (60%)
Query: 359 VSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 396
+ D E+ K + EE EDD+ DDDDD+D++ + +
Sbjct: 46 PAADAEDAAKKDEDEEDEDDVVLDDDDDDDDDDDLPDL 83
Score = 29.6 bits (67), Expect = 5.0
Identities = 14/38 (36%), Positives = 23/38 (60%)
Query: 1500 VSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 1537
+ D E+ K + EE EDD+ DDDDD+D++ + +
Sbjct: 46 PAADAEDAAKKDEDEEDEDDVVLDDDDDDDDDDDLPDL 83
Score = 29.2 bits (66), Expect = 6.8
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 373 EEPEDDLEDDDDDDEDNEPEEEEE 396
E+ +D + DDDDDD+D++ + +
Sbjct: 61 EDEDDVVLDDDDDDDDDDDLPDLD 84
Score = 29.2 bits (66), Expect = 6.8
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 1514 EEPEDDLEDDDDDDEDNEPEEEEE 1537
E+ +D + DDDDDD+D++ + +
Sbjct: 61 EDEDDVVLDDDDDDDDDDDLPDLD 84
>gnl|CDD|241411 cd13257, PH4_ARAP, ArfGAP with RhoGAP domain, ankyrin repeat and PH
domain Pleckstrin homology (PH) domain, repeat 4. ARAP
proteins (also called centaurin delta) are
phosphatidylinositol 3,4,5-trisphosphate-dependent
GTPase-activating proteins that modulate actin
cytoskeleton remodeling by regulating ARF and RHO family
members. They bind phosphatidylinositol
3,4,5-trisphosphate (PtdIns(3,4,5)P3) and
phosphatidylinositol 3,4-bisphosphate (PtdIns(3,4,5)P2)
binding. There are 3 mammalian ARAP proteins: ARAP1,
ARAP2, and ARAP3. All ARAP proteins contain a N-terminal
SAM (sterile alpha motif) domain, 5 PH domains, an
ArfGAP domain, 2 ankyrin domain, A RhoGap domain, and a
Ras-associating domain. This hierarchy contains the
fourth PH domain in ARAP. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 95
Score = 31.4 bits (71), Expect = 1.2
Identities = 14/79 (17%), Positives = 35/79 (44%), Gaps = 1/79 (1%)
Query: 728 QWIRGWFIIKGNHFYGFTDKDSTKAHLFIY-LPGFTVAPAVEVKSRKYALKIYHTGTTFY 786
+W GWF ++G+ Y F + + + + L ++ + + + L + T Y
Sbjct: 17 RWREGWFALEGSSLYFFLEGSEQEELIHLRKLQELSIQLSQQNGEKNDVLVLVERRRTLY 76
Query: 787 LSADSQDEFSSWLGCLSQA 805
+ +++ +F W + +A
Sbjct: 77 IHGETKLDFEGWFAAIQKA 95
Score = 31.4 bits (71), Expect = 1.2
Identities = 14/79 (17%), Positives = 35/79 (44%), Gaps = 1/79 (1%)
Query: 1874 QWIRGWFIIKGNHFYGFTDKDSTKAHLFIY-LPGFTVAPAVEVKSRKYALKIYHTGTTFY 1932
+W GWF ++G+ Y F + + + + L ++ + + + L + T Y
Sbjct: 17 RWREGWFALEGSSLYFFLEGSEQEELIHLRKLQELSIQLSQQNGEKNDVLVLVERRRTLY 76
Query: 1933 LSADSQDEFSSWLGCLSQA 1951
+ +++ +F W + +A
Sbjct: 77 IHGETKLDFEGWFAAIQKA 95
>gnl|CDD|237629 PRK14160, PRK14160, heat shock protein GrpE; Provisional.
Length = 211
Score = 32.8 bits (75), Expect = 1.3
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 353 ENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISS 400
EN +ED + EN+ + KEE DLE ++ + E+ + EE +
Sbjct: 11 ENMEEDCCKENENKEEDKGKEE---DLEFEEIEKEEIIEDSEESNEVK 55
Score = 32.8 bits (75), Expect = 1.3
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 1494 ENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISS 1541
EN +ED + EN+ + KEE DLE ++ + E+ + EE +
Sbjct: 11 ENMEEDCCKENENKEEDKGKEE---DLEFEEIEKEEIIEDSEESNEVK 55
>gnl|CDD|188921 cd09522, SAM_SLP76, SAM domain of SLP76 subfamily. SAM (sterile
alpha motif) domain of SLP76 (SH2 domain-containing
leukocyte protein 76), also known as LCP2 (Lymphocyte
cytosolic protein), subfamily is a protein-protein
interaction domain. Proteins of this group have an
N-terminal SAM domain, 3 phosphotyrosine motifs, a
proline-rich region and a C-terminal SH2 domain. They
are scaffold proteins involved in protein complex
formation. The complexes play a role in T-cell receptor
mediated signaling pathways such as integrin
activation, cytoskeletal organization, MARK activation,
and calcium flux. SAM domain deleted SLP76 knockin
mice show a number of defects, including partially
blocked thymocyte development, impaired positive and
negative thymic selection and changes in T-cell
receptor mediated signaling.
Length = 69
Score = 30.5 bits (69), Expect = 1.4
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 6 VADWKPDQVADWLKGLDVS-IHRYVESFLNNHVNGQHLLNLQPDDLE 51
V W P +AD+ K L++ + V+ ++NGQ LN+ +D++
Sbjct: 3 VMGWNPHSLADYFKKLNLKGCDKVVKKS---NINGQRFLNMTENDIQ 46
Score = 29.0 bits (65), Expect = 4.4
Identities = 13/45 (28%), Positives = 25/45 (55%), Gaps = 4/45 (8%)
Query: 1149 NWKPDQVADWLKGLDVS-IHRYVESFLNNHVNGQHLLNLQPDDLE 1192
W P +AD+ K L++ + V+ ++NGQ LN+ +D++
Sbjct: 5 GWNPHSLADYFKKLNLKGCDKVVKKS---NINGQRFLNMTENDIQ 46
>gnl|CDD|232883 TIGR00225, prc, C-terminal peptidase (prc). A C-terminal peptidase
with different substrates in different species including
processing of D1 protein of the photosystem II reaction
center in higher plants and cleavage of a peptide of 11
residues from the precursor form of penicillin-binding
protein in E.coli E.coli and H influenza have the most
distal branch of the tree and their proteins have an
N-terminal 200 amino acids that show no homology to
other proteins in the database [Protein fate,
Degradation of proteins, peptides, and glycopeptides,
Protein fate, Protein modification and repair].
Length = 334
Score = 33.1 bits (76), Expect = 1.4
Identities = 13/34 (38%), Positives = 23/34 (67%), Gaps = 1/34 (2%)
Query: 236 STAYQSGKIECGDEIVQINYQTVVGWDVKQVMAL 269
S A ++G I+ GD+I++IN ++V G + +AL
Sbjct: 73 SPAEKAG-IKPGDKIIKINGKSVAGMSLDDAVAL 105
Score = 33.1 bits (76), Expect = 1.4
Identities = 13/34 (38%), Positives = 23/34 (67%), Gaps = 1/34 (2%)
Query: 1377 STAYQSGKIECGDEIVQINYQTVVGWDVKQVMAL 1410
S A ++G I+ GD+I++IN ++V G + +AL
Sbjct: 73 SPAEKAG-IKPGDKIIKINGKSVAGMSLDDAVAL 105
>gnl|CDD|241407 cd13253, PH1_ARAP, ArfGAP with RhoGAP domain, ankyrin repeat and PH
domain Pleckstrin homology (PH) domain, repeat 1. ARAP
proteins (also called centaurin delta) are
phosphatidylinositol 3,4,5-trisphosphate-dependent
GTPase-activating proteins that modulate actin
cytoskeleton remodeling by regulating ARF and RHO family
members. They bind phosphatidylinositol
3,4,5-trisphosphate (PtdIns(3,4,5)P3) and
phosphatidylinositol 3,4-bisphosphate (PtdIns(3,4,5)P2)
binding. There are 3 mammalian ARAP proteins: ARAP1,
ARAP2, and ARAP3. All ARAP proteins contain a N-terminal
SAM (sterile alpha motif) domain, 5 PH domains, an
ArfGAP domain, 2 ankyrin domain, A RhoGap domain, and a
Ras-associating domain. This hierarchy contains the
first PH domain in ARAP. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 93
Score = 30.7 bits (70), Expect = 1.5
Identities = 25/98 (25%), Positives = 40/98 (40%), Gaps = 16/98 (16%)
Query: 713 EGWLFQRDRKISTVPQ----WIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVE 768
GWL K+S PQ + + W + G+ F + + I P ++
Sbjct: 3 SGWLD----KLS--PQGNYVFQKRWVVFDGDSLRYFNSEKEMYSKGII--PLSSIKTVRS 54
Query: 769 VKSRKYALKIYHTGT-TFYLSADSQDEFSSWLGCLSQA 805
V K+ + TG TF A+S+DE + W+ L A
Sbjct: 55 VGDNKFEV---VTGNRTFVFRAESEDERNLWVSTLMAA 89
Score = 30.7 bits (70), Expect = 1.5
Identities = 25/98 (25%), Positives = 40/98 (40%), Gaps = 16/98 (16%)
Query: 1859 EGWLFQRDRKISTVPQ----WIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVE 1914
GWL K+S PQ + + W + G+ F + + I P ++
Sbjct: 3 SGWLD----KLS--PQGNYVFQKRWVVFDGDSLRYFNSEKEMYSKGII--PLSSIKTVRS 54
Query: 1915 VKSRKYALKIYHTGT-TFYLSADSQDEFSSWLGCLSQA 1951
V K+ + TG TF A+S+DE + W+ L A
Sbjct: 55 VGDNKFEV---VTGNRTFVFRAESEDERNLWVSTLMAA 89
>gnl|CDD|177755 PLN00152, PLN00152, DNA-directed RNA polymerase; Provisional.
Length = 130
Score = 31.8 bits (72), Expect = 1.6
Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 3/82 (3%)
Query: 360 SIDIENQNKSIQK---EEPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRLPVQ 416
+D+ +++ + E E+D E +++D+ E E+ R P +
Sbjct: 4 DMDMGYEDEPSEPEIEEGAEEDSESNNNDEVKGSIGENEDKEEQEPVQRPRKTTPYMTKY 63
Query: 417 RRATITGTGASPTSKRAPLNLE 438
RA I GT A S AP+ +E
Sbjct: 64 ERARILGTRALQISMNAPVMVE 85
Score = 31.8 bits (72), Expect = 1.6
Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 3/82 (3%)
Query: 1501 SIDIENQNKSIQK---EEPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRLPVQ 1557
+D+ +++ + E E+D E +++D+ E E+ R P +
Sbjct: 4 DMDMGYEDEPSEPEIEEGAEEDSESNNNDEVKGSIGENEDKEEQEPVQRPRKTTPYMTKY 63
Query: 1558 RRATITGTGASPTSKRAPLNLE 1579
RA I GT A S AP+ +E
Sbjct: 64 ERARILGTRALQISMNAPVMVE 85
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 33.4 bits (76), Expect = 1.8
Identities = 13/33 (39%), Positives = 24/33 (72%)
Query: 372 KEEPEDDLEDDDDDDEDNEPEEEEESISSPTSV 404
+EE E++ E++++++E+ E EEEEE P S+
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSL 896
Score = 33.4 bits (76), Expect = 1.8
Identities = 13/33 (39%), Positives = 24/33 (72%)
Query: 1513 KEEPEDDLEDDDDDDEDNEPEEEEESISSPTSV 1545
+EE E++ E++++++E+ E EEEEE P S+
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSL 896
Score = 32.3 bits (73), Expect = 3.5
Identities = 13/45 (28%), Positives = 27/45 (60%)
Query: 353 ENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 397
E +++ +D + EE E++ E++++++E+ E EEEEE
Sbjct: 844 EAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEE 888
Score = 32.3 bits (73), Expect = 3.5
Identities = 13/45 (28%), Positives = 27/45 (60%)
Query: 1494 ENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 1538
E +++ +D + EE E++ E++++++E+ E EEEEE
Sbjct: 844 EAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEE 888
Score = 32.3 bits (73), Expect = 4.1
Identities = 11/27 (40%), Positives = 23/27 (85%)
Query: 371 QKEEPEDDLEDDDDDDEDNEPEEEEES 397
++EE E++ E++++++E+ E EEEEE+
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEEN 890
Score = 32.3 bits (73), Expect = 4.1
Identities = 11/27 (40%), Positives = 23/27 (85%)
Query: 1512 QKEEPEDDLEDDDDDDEDNEPEEEEES 1538
++EE E++ E++++++E+ E EEEEE+
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEEN 890
Score = 31.5 bits (71), Expect = 7.4
Identities = 13/39 (33%), Positives = 25/39 (64%)
Query: 374 EPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPR 412
E E++ E++++++E+ E EEEEE + + L P+ R
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSLEWPETR 902
Score = 31.5 bits (71), Expect = 7.4
Identities = 13/39 (33%), Positives = 25/39 (64%)
Query: 1515 EPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPR 1553
E E++ E++++++E+ E EEEEE + + L P+ R
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSLEWPETR 902
>gnl|CDD|217861 pfam04050, Upf2, Up-frameshift suppressor 2. Transcripts
harbouring premature signals for translation termination
are recognised and rapidly degraded by eukaryotic cells
through a pathway known as nonsense-mediated mRNA decay.
In Saccharomyces cerevisiae, three trans-acting factors
(Upf1 to Upf3) are required for nonsense-mediated mRNA
decay.
Length = 171
Score = 32.0 bits (73), Expect = 2.0
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 4/42 (9%)
Query: 357 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESI 398
ED + E+++ E +++ D DD++D E + EEE I
Sbjct: 12 EDEELPEEDEDD----ESSDEEEVDLPDDEQDEESDSEEEQI 49
Score = 32.0 bits (73), Expect = 2.0
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 4/42 (9%)
Query: 1498 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESI 1539
ED + E+++ E +++ D DD++D E + EEE I
Sbjct: 12 EDEELPEEDEDD----ESSDEEEVDLPDDEQDEESDSEEEQI 49
>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional.
Length = 509
Score = 32.7 bits (75), Expect = 2.4
Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 337 SVTSFTKNRKPLSGSFENAKE-DVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEE 395
+ S K K + ++ ID+ NQ ++ +DDL+DDD DD+D++ +++E
Sbjct: 99 ELDSSKKAEKKNALDKDDDLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDE 158
Query: 396 ES 397
+
Sbjct: 159 DD 160
Score = 32.7 bits (75), Expect = 2.4
Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 1478 SVTSFTKNRKPLSGSFENAKE-DVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEE 1536
+ S K K + ++ ID+ NQ ++ +DDL+DDD DD+D++ +++E
Sbjct: 99 ELDSSKKAEKKNALDKDDDLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDE 158
Query: 1537 ES 1538
+
Sbjct: 159 DD 160
Score = 31.5 bits (72), Expect = 5.3
Identities = 15/61 (24%), Positives = 28/61 (45%)
Query: 342 TKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSP 401
N A +D D ++ ++ +DD +DD+DDD+D+ +E+EE +
Sbjct: 117 DLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDEDEEKKEAK 176
Query: 402 T 402
Sbjct: 177 E 177
Score = 31.5 bits (72), Expect = 5.3
Identities = 15/61 (24%), Positives = 28/61 (45%)
Query: 1483 TKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSP 1542
N A +D D ++ ++ +DD +DD+DDD+D+ +E+EE +
Sbjct: 117 DLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDEDEEKKEAK 176
Query: 1543 T 1543
Sbjct: 177 E 177
>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457). This is
a family of uncharacterized proteins.
Length = 449
Score = 32.7 bits (74), Expect = 2.4
Identities = 15/45 (33%), Positives = 31/45 (68%)
Query: 353 ENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 397
+ A+E+ + ++ + ++ ED+ +DDDDDDED+E E++++S
Sbjct: 43 KEAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDS 87
Score = 32.7 bits (74), Expect = 2.4
Identities = 15/45 (33%), Positives = 31/45 (68%)
Query: 1494 ENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 1538
+ A+E+ + ++ + ++ ED+ +DDDDDDED+E E++++S
Sbjct: 43 KEAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDS 87
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family. Emg1 and Nop14 are novel
proteins whose interaction is required for the
maturation of the 18S rRNA and for 40S ribosome
production.
Length = 809
Score = 33.0 bits (76), Expect = 2.4
Identities = 17/41 (41%), Positives = 25/41 (60%)
Query: 362 DIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPT 402
D+E + + + + E+D ED+D DDED+E EEEEE
Sbjct: 341 DLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKK 381
Score = 33.0 bits (76), Expect = 2.4
Identities = 17/41 (41%), Positives = 25/41 (60%)
Query: 1503 DIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPT 1543
D+E + + + + E+D ED+D DDED+E EEEEE
Sbjct: 341 DLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKK 381
Score = 33.0 bits (76), Expect = 2.5
Identities = 11/49 (22%), Positives = 29/49 (59%)
Query: 349 SGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 397
E+ +D + ++ + ++E+ + E++D++DED++ E++EE
Sbjct: 323 EEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEE 371
Score = 33.0 bits (76), Expect = 2.5
Identities = 11/49 (22%), Positives = 29/49 (59%)
Query: 1490 SGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 1538
E+ +D + ++ + ++E+ + E++D++DED++ E++EE
Sbjct: 323 EEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEE 371
Score = 32.7 bits (75), Expect = 2.7
Identities = 14/40 (35%), Positives = 25/40 (62%)
Query: 357 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 396
ED D ++ + + + D+ ED++D+D D+E +EEEE
Sbjct: 333 EDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEE 372
Score = 32.7 bits (75), Expect = 2.7
Identities = 14/40 (35%), Positives = 25/40 (62%)
Query: 1498 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 1537
ED D ++ + + + D+ ED++D+D D+E +EEEE
Sbjct: 333 EDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEE 372
Score = 32.7 bits (75), Expect = 2.8
Identities = 17/49 (34%), Positives = 32/49 (65%)
Query: 357 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVR 405
+D+ + E+ + S ++E+ ED+ DD+DD+E+ E E+E++ S S R
Sbjct: 340 DDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTR 388
Score = 32.7 bits (75), Expect = 2.8
Identities = 17/49 (34%), Positives = 32/49 (65%)
Query: 1498 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVR 1546
+D+ + E+ + S ++E+ ED+ DD+DD+E+ E E+E++ S S R
Sbjct: 340 DDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTR 388
Score = 32.7 bits (75), Expect = 3.0
Identities = 13/51 (25%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 353 ENAKEDVSI-DIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPT 402
E ++ V D E+ + +++EE + DL D+++D+ED + ++E++
Sbjct: 324 EEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEE 374
Score = 32.7 bits (75), Expect = 3.0
Identities = 13/51 (25%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 1494 ENAKEDVSI-DIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPT 1543
E ++ V D E+ + +++EE + DL D+++D+ED + ++E++
Sbjct: 324 EEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEE 374
Score = 31.1 bits (71), Expect = 8.4
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 357 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISS 400
D + +EE ED ++D+D++D+D++ EEEEE +
Sbjct: 308 PDDDDNFGLGQGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDL 351
Score = 31.1 bits (71), Expect = 8.4
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 1498 EDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISS 1541
D + +EE ED ++D+D++D+D++ EEEEE +
Sbjct: 308 PDDDDNFGLGQGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDL 351
>gnl|CDD|215153 PLN02271, PLN02271, serine hydroxymethyltransferase.
Length = 586
Score = 32.9 bits (75), Expect = 2.5
Identities = 23/65 (35%), Positives = 35/65 (53%), Gaps = 8/65 (12%)
Query: 371 QKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRLPVQRRATITGTGASPTS 430
QKEE E+D ++ D+DE+ + E+E SI L HP L R + + +S +S
Sbjct: 54 QKEEKEEDAGEEGDEDEEEQGEDEHFSI-------LGHPM-CLKRPRDGDSSSSSSSSSS 105
Query: 431 KRAPL 435
KRA +
Sbjct: 106 KRAAV 110
Score = 32.9 bits (75), Expect = 2.5
Identities = 23/65 (35%), Positives = 35/65 (53%), Gaps = 8/65 (12%)
Query: 1512 QKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRLPVQRRATITGTGASPTS 1571
QKEE E+D ++ D+DE+ + E+E SI L HP L R + + +S +S
Sbjct: 54 QKEEKEEDAGEEGDEDEEEQGEDEHFSI-------LGHPM-CLKRPRDGDSSSSSSSSSS 105
Query: 1572 KRAPL 1576
KRA +
Sbjct: 106 KRAAV 110
>gnl|CDD|188942 cd09543, SAM_EPH-A2, SAM domain of EPH-A2 family of tyrosine
kinase receptors. SAM (sterile alpha motif) domain of
EPH-A2 subfamily of receptor tyrosine kinases is a
C-terminal protein-protein interaction domain. This
domain is located in the cytoplasmic region of EPH-A2
receptors and appears to mediate cell-cell initiated
signal transduction. For example, SAM domain of EPH-A2
receptors interacts with SAM domain of Ship2 proteins
(SH2 containing phosphoinositide 5-phosphotase-2)
forming heterodimers; such recruitment of Ship2 by
EPH-A2 attenuates the positive signal for receptor
endocytosis. Eph-A2 is found overexpressed in many
types of human cancer, including breast, prostate, lung
and colon cancer. High level of expression could induce
cancer progression by a variety of mechanisms and could
be used as a novel tag for cancer immunotherapy. EPH-A2
receptors are attractive targets for drag design.
Length = 70
Score = 29.8 bits (67), Expect = 2.6
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 3/52 (5%)
Query: 14 VADWLKGLDVSIHRYVESFLNNHVNG-QHLLNLQPDDLEHHGICKVGHQEII 64
VA+WL+ + + +Y E F+ N +L + +D++H G+ GHQ+ I
Sbjct: 8 VAEWLE--SIKMQQYTEHFMAAGYNSIDKVLQMTQEDIKHIGVRLPGHQKRI 57
Score = 29.8 bits (67), Expect = 2.6
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 3/52 (5%)
Query: 1155 VADWLKGLDVSIHRYVESFLNNHVNG-QHLLNLQPDDLEHHGICKVGHQEII 1205
VA+WL+ + + +Y E F+ N +L + +D++H G+ GHQ+ I
Sbjct: 8 VAEWLE--SIKMQQYTEHFMAAGYNSIDKVLQMTQEDIKHIGVRLPGHQKRI 57
>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230;
Provisional.
Length = 2849
Score = 32.7 bits (74), Expect = 2.9
Identities = 33/140 (23%), Positives = 52/140 (37%), Gaps = 25/140 (17%)
Query: 284 RPCHSKILGQIYMKPYRLPSKKQVSYRWF-------LDDKITPPRISHFDIKPLGHALVN 336
+ H I +I + K + L D I + + IK
Sbjct: 41 KRFHLFIHREILEGTHESKEGKNKKECFDKNGGIYNLGDAIRMGKDTSVKIKQRTCPFHK 100
Query: 337 SVTSFTKNRK------PLSGSFENAKEDVSI------------DIENQNKSIQKEEPEDD 378
+SF K P+ G E D+ I D+ ++ + ++ ED+
Sbjct: 101 EGSSFEMGSKNITCFYPIHGKAEIGDLDMIIIKRRRARHLAEEDMSPRDNFVIDDDDEDE 160
Query: 379 LEDDDDDDEDNEPEEEEESI 398
EDDDD+++D E EEEEE I
Sbjct: 161 DEDDDDEEDDEEEEEEEEEI 180
Score = 32.7 bits (74), Expect = 2.9
Identities = 33/140 (23%), Positives = 52/140 (37%), Gaps = 25/140 (17%)
Query: 1425 RPCHSKILGQIYMKPYRLPSKKQVSYRWF-------LDDKITPPRISHFDIKPLGHALVN 1477
+ H I +I + K + L D I + + IK
Sbjct: 41 KRFHLFIHREILEGTHESKEGKNKKECFDKNGGIYNLGDAIRMGKDTSVKIKQRTCPFHK 100
Query: 1478 SVTSFTKNRK------PLSGSFENAKEDVSI------------DIENQNKSIQKEEPEDD 1519
+SF K P+ G E D+ I D+ ++ + ++ ED+
Sbjct: 101 EGSSFEMGSKNITCFYPIHGKAEIGDLDMIIIKRRRARHLAEEDMSPRDNFVIDDDDEDE 160
Query: 1520 LEDDDDDDEDNEPEEEEESI 1539
EDDDD+++D E EEEEE I
Sbjct: 161 DEDDDDEEDDEEEEEEEEEI 180
>gnl|CDD|188896 cd09497, SAM_caskin1,2_repeat1, SAM domain of caskin protein
repeat 1. SAM (sterile alpha motif) domain repeat 1 of
caskin1,2 proteins is a protein-protein interaction
domain. Caskin has two tandem SAM domains. Caskin
protein is known to interact with membrane-associated
guanylate kinase CASK, and apparently may play a role
in neural development, synaptic protein targeting, and
regulation of gene expression.
Length = 66
Score = 29.1 bits (66), Expect = 3.2
Identities = 14/61 (22%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 12 DQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDHL 71
+ + DWL+ + + Y +F+ + + + P+DL GI K GH++ + + L
Sbjct: 5 EAIFDWLR--EFGLEEYTPNFIKAGYDLPTISRMTPEDLTAIGITKPGHRKKLKSEIAQL 62
Query: 72 R 72
+
Sbjct: 63 Q 63
Score = 29.1 bits (66), Expect = 3.2
Identities = 14/61 (22%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 1153 DQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEIILEAVDHL 1212
+ + DWL+ + + Y +F+ + + + P+DL GI K GH++ + + L
Sbjct: 5 EAIFDWLR--EFGLEEYTPNFIKAGYDLPTISRMTPEDLTAIGITKPGHRKKLKSEIAQL 62
Query: 1213 R 1213
+
Sbjct: 63 Q 63
>gnl|CDD|177475 PHA02693, PHA02693, hypothetical protein; Provisional.
Length = 710
Score = 32.3 bits (73), Expect = 3.4
Identities = 27/113 (23%), Positives = 43/113 (38%), Gaps = 29/113 (25%)
Query: 376 EDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRL-------------------PVQ 416
E D D D D +D+E +E ++ + + P+ + P+
Sbjct: 302 ETDTTDPDLDPDDDESFDEVGPLTRRFTATSFAPRASVRSSSASMRLHARGSTRISEPLM 361
Query: 417 RRAT-ITGTGASPTSKRAPLNLEQLWHELKLEKEWRLSGKQRKGEKSTSELLL 468
A + +PT A E +WH L +EWR K R + +T E LL
Sbjct: 362 SSAARVPKVSMAPTLDTAE---ELMWH---LSEEWR---KGRHAKTATLEKLL 405
Score = 32.3 bits (73), Expect = 3.4
Identities = 27/113 (23%), Positives = 43/113 (38%), Gaps = 29/113 (25%)
Query: 1517 EDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRL-------------------PVQ 1557
E D D D D +D+E +E ++ + + P+ + P+
Sbjct: 302 ETDTTDPDLDPDDDESFDEVGPLTRRFTATSFAPRASVRSSSASMRLHARGSTRISEPLM 361
Query: 1558 RRAT-ITGTGASPTSKRAPLNLEQLWHELKLEKEWRLSGKQRKGEKSTSELLL 1609
A + +PT A E +WH L +EWR K R + +T E LL
Sbjct: 362 SSAARVPKVSMAPTLDTAE---ELMWH---LSEEWR---KGRHAKTATLEKLL 405
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 32.3 bits (74), Expect = 3.8
Identities = 17/93 (18%), Positives = 37/93 (39%), Gaps = 6/93 (6%)
Query: 314 DDKITPPRISHFDIKPLGHALVNSVTSFTKNRKPLSGSFENAKEDVSIDIENQNKS---- 369
+ + S K + L S+ + K +K + K + + ++S
Sbjct: 1294 GESNGGSKPSSPTKKKVKKRLEGSLAALKKKKKSEKKTARKKKSKTRVKQASASQSSRLL 1353
Query: 370 --IQKEEPEDDLEDDDDDDEDNEPEEEEESISS 400
+K++ + EDDDD + D+ +E++E
Sbjct: 1354 RRPRKKKSDSSSEDDDDSEVDDSEDEDDEDDED 1386
Score = 32.3 bits (74), Expect = 3.8
Identities = 17/93 (18%), Positives = 37/93 (39%), Gaps = 6/93 (6%)
Query: 1455 DDKITPPRISHFDIKPLGHALVNSVTSFTKNRKPLSGSFENAKEDVSIDIENQNKS---- 1510
+ + S K + L S+ + K +K + K + + ++S
Sbjct: 1294 GESNGGSKPSSPTKKKVKKRLEGSLAALKKKKKSEKKTARKKKSKTRVKQASASQSSRLL 1353
Query: 1511 --IQKEEPEDDLEDDDDDDEDNEPEEEEESISS 1541
+K++ + EDDDD + D+ +E++E
Sbjct: 1354 RRPRKKKSDSSSEDDDDSEVDDSEDEDDEDDED 1386
>gnl|CDD|217503 pfam03344, Daxx, Daxx Family. The Daxx protein (also known as the
Fas-binding protein) is thought to play a role in
apoptosis, but precise role played by Daxx remains to be
determined. Daxx forms a complex with Axin.
Length = 715
Score = 32.2 bits (73), Expect = 3.9
Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 4/65 (6%)
Query: 336 NSVTSFTKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNE----P 391
S S T P S E+ +E+ + E + + ++EE E + E+ +D++E+ E
Sbjct: 421 PSKASSTSGESPSMASQESEEEESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEADN 480
Query: 392 EEEEE 396
EEE
Sbjct: 481 GSEEE 485
Score = 32.2 bits (73), Expect = 3.9
Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 4/65 (6%)
Query: 1477 NSVTSFTKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNE----P 1532
S S T P S E+ +E+ + E + + ++EE E + E+ +D++E+ E
Sbjct: 421 PSKASSTSGESPSMASQESEEEESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEADN 480
Query: 1533 EEEEE 1537
EEE
Sbjct: 481 GSEEE 485
>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein. The proteins in this family
are designated YL1. These proteins have been shown to be
DNA-binding and may be a transcription factor.
Length = 238
Score = 31.6 bits (72), Expect = 4.0
Identities = 15/47 (31%), Positives = 28/47 (59%), Gaps = 3/47 (6%)
Query: 350 GSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 396
FE ++D +IE + ++EE + D +D +DD+ +++ EEE E
Sbjct: 32 LLFEEEEDDEEFEIEEEE---EEEEVDSDFDDSEDDEPESDDEEEGE 75
Score = 31.6 bits (72), Expect = 4.0
Identities = 15/47 (31%), Positives = 28/47 (59%), Gaps = 3/47 (6%)
Query: 1491 GSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEE 1537
FE ++D +IE + ++EE + D +D +DD+ +++ EEE E
Sbjct: 32 LLFEEEEDDEEFEIEEEE---EEEEVDSDFDDSEDDEPESDDEEEGE 75
Score = 30.4 bits (69), Expect = 9.5
Identities = 13/28 (46%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 371 QKEEPEDDLEDDD-DDDEDNEPEEEEES 397
+EE E++ D D DD ED+EPE ++E
Sbjct: 45 IEEEEEEEEVDSDFDDSEDDEPESDDEE 72
Score = 30.4 bits (69), Expect = 9.5
Identities = 13/28 (46%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 1512 QKEEPEDDLEDDD-DDDEDNEPEEEEES 1538
+EE E++ D D DD ED+EPE ++E
Sbjct: 45 IEEEEEEEEVDSDFDDSEDDEPESDDEE 72
>gnl|CDD|223052 PHA03346, PHA03346, US22 family homolog; Provisional.
Length = 520
Score = 32.1 bits (73), Expect = 4.0
Identities = 9/42 (21%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 373 EEPEDDLEDDDDDDEDNEP-EEEEESISSPTSVRLYHPKPRL 413
+ +D+ +D+DDDD ++ + +E+ + V + + R+
Sbjct: 426 PDDDDEGDDEDDDDWEDLGFDLDEDDVYDLKDVDEWRLERRI 467
Score = 32.1 bits (73), Expect = 4.0
Identities = 9/42 (21%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 1514 EEPEDDLEDDDDDDEDNEP-EEEEESISSPTSVRLYHPKPRL 1554
+ +D+ +D+DDDD ++ + +E+ + V + + R+
Sbjct: 426 PDDDDEGDDEDDDDWEDLGFDLDEDDVYDLKDVDEWRLERRI 467
>gnl|CDD|188927 cd09528, SAM_Samd9_Samd9L, SAM domain of Samd9/Samd9L subfamily.
SAM (sterile alpha motif) domain of Samd9/Samd9L
subfamily is a putative protein-protein interaction
domain. SAM is a widespread domain in signaling
proteins. Samd9 is a tumor suppressor gene. It is
involved in death signaling of malignant glioblastoma.
Samd9 suppression blocks cancer cell death induced by
HVJ-E or IFN-beta treatment. Deleterious mutations in
Samd9 lead to normophosphatemic familial tumoral
calcinosis, a cutaneous disorder characterized by
cutaneous calcification or ossification.
Length = 64
Score = 28.9 bits (65), Expect = 4.7
Identities = 17/57 (29%), Positives = 22/57 (38%), Gaps = 1/57 (1%)
Query: 8 DWKPDQVADWLKGLDVSIHRYVESFLNNHVNGQHLLNLQPDDLEHHGICKVGHQEII 64
DW + V WL D+ +Y E V G L L +DL G+ II
Sbjct: 2 DWTKEHVKQWLIE-DLIDKKYAEILYEEEVTGAVLKELTEEDLVDMGLPHGPALLII 57
>gnl|CDD|241294 cd01263, PH_anillin, Anillin Pleckstrin homology (PH) domain.
Anillin (Rhotekin/RTKN; also called PLEKHK/Pleckstrin
homology domain-containing family K) is an actin binding
protein involved in cytokinesis. It interacts with
GTP-bound Rho proteins and results in the inhibition of
their GTPase activity. Dysregulation of the Rho signal
transduction pathway has been implicated in many forms
of cancer. Anillin proteins have a N-terminal HRI
domain/ACC (anti-parallel coiled-coil) finger domain or
Rho-binding domain binds small GTPases from the Rho
family. The C-terminal PH domain helps target anillin to
ectopic septin containing foci. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 119
Score = 30.0 bits (68), Expect = 5.6
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 787 LSADSQDEFSSWLGCLSQA 805
LSAD+++E WL L+Q
Sbjct: 96 LSADTKEERIEWLDALNQT 114
Score = 30.0 bits (68), Expect = 5.6
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 1933 LSADSQDEFSSWLGCLSQA 1951
LSAD+++E WL L+Q
Sbjct: 96 LSADTKEERIEWLDALNQT 114
>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain
fusion protein; Provisional.
Length = 131
Score = 29.9 bits (67), Expect = 5.9
Identities = 10/45 (22%), Positives = 24/45 (53%)
Query: 353 ENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 397
E A+ D + + + + ++ + + D D + ++ D E +EE E+
Sbjct: 87 EAAEADAADEADEEEETDEAVDETADEADAEAEEADEEEDEEAEA 131
Score = 29.9 bits (67), Expect = 5.9
Identities = 10/45 (22%), Positives = 24/45 (53%)
Query: 1494 ENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 1538
E A+ D + + + + ++ + + D D + ++ D E +EE E+
Sbjct: 87 EAAEADAADEADEEEETDEAVDETADEADAEAEEADEEEDEEAEA 131
>gnl|CDD|217050 pfam02460, Patched, Patched family. The transmembrane protein
Patched is a receptor for the morphogene Sonic Hedgehog.
This protein associates with the smoothened protein to
transduce hedgehog signals.
Length = 801
Score = 31.5 bits (72), Expect = 5.9
Identities = 16/67 (23%), Positives = 23/67 (34%), Gaps = 5/67 (7%)
Query: 1042 DNPLYQRGFSCKEANDNENKYYYEFIAHASLDLLDEQVWQTDHMYLKTIDKFNDMMVSAF 1101
+N G E D E + Y+ + L WQ D ++ D N V+ F
Sbjct: 541 ENFYKTNGS---ELEDEEKSWSYDEL-KWFLKWPGNSPWQGDLVWDNKSDD-NTTEVTKF 595
Query: 1102 VTPTGVK 1108
T K
Sbjct: 596 RFTTAGK 602
>gnl|CDD|218673 pfam05642, Sporozoite_P67, Sporozoite P67 surface antigen. This
family consists of several Theileria P67 surface
antigens. A stage specific surface antigen of Theileria
parva, p67, is the basis for the development of an
anti-sporozoite vaccine for the control of East Coast
fever (ECF) in cattle. The antigen has been shown to
contain five distinct linear peptide sequences
recognised by sporozoite-neutralising murine monoclonal
antibodies.
Length = 727
Score = 31.6 bits (71), Expect = 6.0
Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 3/76 (3%)
Query: 356 KEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRLPV 415
+E VS + E Q+ + Q ++ + D ++DD+D EE+ +S SS K + V
Sbjct: 90 QEPVSQESEVQDNTEQNQDTKGSKTDSEEDDDD-SEEEDNKSTSSKDGKGS--KKTQPGV 146
Query: 416 QRRATITGTGASPTSK 431
+ T +G +K
Sbjct: 147 STSSGSTTSGTDLNTK 162
Score = 31.6 bits (71), Expect = 6.0
Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 3/76 (3%)
Query: 1497 KEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRLPV 1556
+E VS + E Q+ + Q ++ + D ++DD+D EE+ +S SS K + V
Sbjct: 90 QEPVSQESEVQDNTEQNQDTKGSKTDSEEDDDD-SEEEDNKSTSSKDGKGS--KKTQPGV 146
Query: 1557 QRRATITGTGASPTSK 1572
+ T +G +K
Sbjct: 147 STSSGSTTSGTDLNTK 162
>gnl|CDD|241369 cd13215, PH-GRAM1_AGT26, Autophagy-related protein 26/Sterol
3-beta-glucosyltransferase Pleckstrin homology (PH)
domain, repeat 1. ATG26 (also called
UGT51/UDP-glycosyltransferase 51), a member of the
glycosyltransferase 28 family, resulting in the
biosynthesis of sterol glucoside. ATG26 in decane
metabolism and autophagy. There are 32 known
autophagy-related (ATG) proteins, 17 are components of
the core autophagic machinery essential for all
autophagy-related pathways and 15 are the additional
components required only for certain pathways or
species. The core autophagic machinery includes 1) the
ATG9 cycling system (ATG1, ATG2, ATG9, ATG13, ATG18, and
ATG27), 2) the phosphatidylinositol 3-kinase complex
(ATG6/VPS30, ATG14, VPS15, and ATG34), and 3) the
ubiquitin-like protein system (ATG3, ATG4, ATG5, ATG7,
ATG8, ATG10, ATG12, and ATG16). Less is known about how
the core machinery is adapted or modulated with
additional components to accommodate the nonselective
sequestration of bulk cytosol (autophagosome formation)
or selective sequestration of specific cargos (Cvt
vesicle, pexophagosome, or bacteria-containing
autophagosome formation). The pexophagosome-specific
additions include the ATG30-ATG11-ATG17
receptor-adaptors complex, the coiled-coil protein
ATG25, and the sterol glucosyltransferase ATG26. ATG26
is necessary for the degradation of medium peroxisomes.
It contains 2 GRAM domains and a single PH domain. PH
domains are only found in eukaryotes. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. PH domains also have
diverse functions. They are often involved in targeting
proteins to the plasma membrane, but few display strong
specificity in lipid binding. Any specificity is usually
determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 130
Score = 29.8 bits (68), Expect = 6.3
Identities = 23/97 (23%), Positives = 39/97 (40%), Gaps = 16/97 (16%)
Query: 713 EGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTV-------AP 765
G+L +R ++ P++ R WF++KG+ + ST +Y P T+ A
Sbjct: 32 SGYLSKRGKRT---PRYNRYWFVLKGDVLSWYR--SSTD----LYFPHGTIDLRYGISAE 82
Query: 766 AVEVKSRKYALKIYHTGTTFYLSADSQDEFSSWLGCL 802
+ KI T+ ADS+ W+ L
Sbjct: 83 ITDKDKETTHFKITTNSRTYTFKADSEPSAKEWVKAL 119
Score = 29.8 bits (68), Expect = 6.3
Identities = 23/97 (23%), Positives = 39/97 (40%), Gaps = 16/97 (16%)
Query: 1859 EGWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTV-------AP 1911
G+L +R ++ P++ R WF++KG+ + ST +Y P T+ A
Sbjct: 32 SGYLSKRGKRT---PRYNRYWFVLKGDVLSWYR--SSTD----LYFPHGTIDLRYGISAE 82
Query: 1912 AVEVKSRKYALKIYHTGTTFYLSADSQDEFSSWLGCL 1948
+ KI T+ ADS+ W+ L
Sbjct: 83 ITDKDKETTHFKITTNSRTYTFKADSEPSAKEWVKAL 119
>gnl|CDD|223347 COG0269, SgbH, 3-hexulose-6-phosphate synthase and related proteins
[Carbohydrate transport and metabolism].
Length = 217
Score = 30.7 bits (70), Expect = 6.4
Identities = 12/25 (48%), Positives = 13/25 (52%), Gaps = 3/25 (12%)
Query: 1147 INNWKPDQVADWLKGLDVSI---HR 1168
I W P+Q A WLK L V HR
Sbjct: 114 IGVWDPEQRAKWLKELGVDQVILHR 138
>gnl|CDD|241401 cd13247, BAR-PH_APPL, Adaptor protein containing PH domain, PTB
domain, and Leucine zipper motif Bin1/amphiphysin/Rvs167
(BAR)-Pleckstrin homology (PH) domain. APPL (also
called DCC-interacting protein (DIP)-13alpha) interacts
with oncoprotein serine/threonine kinase AKT2, tumor
suppressor protein DCC (deleted in colorectal cancer),
Rab5, GIPC (GAIP-interacting protein, C terminus), human
follicle-stimulating hormone receptor (FSHR), and the
adiponectin receptors AdipoR1 and AdipoR2. There are two
isoforms of human APPL: APPL1 and APPL2, which share
about 50% sequence identity. APPL has a BAR and a PH
domain near its N terminus, and the two domains are
thought to function as a unit (BAR-PH domain).
C-terminal to this is a PTB domain. Lipid binding assays
show that the BAR, PH, and PTB domains can bind
phospholipids. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction with
a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH domains
bind phosphoinositide phosphates (PIPs) with high
affinity and specificity. PH domains are distinguished
from other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal phosphate
groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3
which results in targeting some PH domain proteins to
the plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 125
Score = 29.6 bits (67), Expect = 6.4
Identities = 19/87 (21%), Positives = 35/87 (40%), Gaps = 4/87 (4%)
Query: 714 GWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVKSRK 773
G+LF R + +W R +F +G + +D L + L T A + + R+
Sbjct: 31 GYLFLRSKTGLVTNRWDRVYFFTQGGNLM-SQPRDEVAGSLVLDLDN-TSVQAADCEDRR 88
Query: 774 YALKI--YHTGTTFYLSADSQDEFSSW 798
+ +I L A+S+ + W
Sbjct: 89 FVFQITSPDGKKAIVLQAESEKDREEW 115
Score = 29.6 bits (67), Expect = 6.4
Identities = 19/87 (21%), Positives = 35/87 (40%), Gaps = 4/87 (4%)
Query: 1860 GWLFQRDRKISTVPQWIRGWFIIKGNHFYGFTDKDSTKAHLFIYLPGFTVAPAVEVKSRK 1919
G+LF R + +W R +F +G + +D L + L T A + + R+
Sbjct: 31 GYLFLRSKTGLVTNRWDRVYFFTQGGNLM-SQPRDEVAGSLVLDLDN-TSVQAADCEDRR 88
Query: 1920 YALKI--YHTGTTFYLSADSQDEFSSW 1944
+ +I L A+S+ + W
Sbjct: 89 FVFQITSPDGKKAIVLQAESEKDREEW 115
>gnl|CDD|221586 pfam12457, TIP_N, Tuftelin interacting protein N terminal. This
domain family is found in eukaryotes, and is typically
between 99 and 114 amino acids in length. The family is
found in association with pfam08697, pfam01585. There
are two completely conserved residues (G and F) that may
be functionally important. TIP is involved in enamel
assembly by interacting with one of the major proteins
responsible for biomineralisation of enamel - tuftelin.
Length = 106
Score = 29.3 bits (66), Expect = 6.5
Identities = 13/35 (37%), Positives = 24/35 (68%)
Query: 359 VSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEE 393
VS I+ K ++++ ED+ EDDD+ DED++ ++
Sbjct: 72 VSGGIKQAAKEPEEDDKEDESEDDDESDEDDDEDD 106
Score = 29.3 bits (66), Expect = 6.5
Identities = 13/35 (37%), Positives = 24/35 (68%)
Query: 1500 VSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEE 1534
VS I+ K ++++ ED+ EDDD+ DED++ ++
Sbjct: 72 VSGGIKQAAKEPEEDDKEDESEDDDESDEDDDEDD 106
>gnl|CDD|218556 pfam05327, RRN3, RNA polymerase I specific transcription initiation
factor RRN3. This family consists of several eukaryotic
proteins which are homologous to the yeast RRN3 protein.
RRN3 is one of the RRN genes specifically required for
the transcription of rDNA by RNA polymerase I (Pol I) in
Saccharomyces cerevisiae.
Length = 554
Score = 31.5 bits (72), Expect = 6.6
Identities = 22/62 (35%), Positives = 30/62 (48%), Gaps = 14/62 (22%)
Query: 359 VSIDIENQNK--SIQKEE-----------PEDDLEDDDDDDEDN-EPEEEEESISSPTSV 404
+ +D+E QN+ I EE EDD+ D DDDDE+ +PE E S S
Sbjct: 212 LKLDVEIQNELDDIDDEEEERVLADEDDDDEDDMFDMDDDDEEESDPEVERTSTIKEVSE 271
Query: 405 RL 406
+L
Sbjct: 272 KL 273
Score = 31.5 bits (72), Expect = 6.6
Identities = 22/62 (35%), Positives = 30/62 (48%), Gaps = 14/62 (22%)
Query: 1500 VSIDIENQNK--SIQKEE-----------PEDDLEDDDDDDEDN-EPEEEEESISSPTSV 1545
+ +D+E QN+ I EE EDD+ D DDDDE+ +PE E S S
Sbjct: 212 LKLDVEIQNELDDIDDEEEERVLADEDDDDEDDMFDMDDDDEEESDPEVERTSTIKEVSE 271
Query: 1546 RL 1547
+L
Sbjct: 272 KL 273
>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit. This model
describes Pseudomonas denitrificans CobT gene product,
which is a cobalt chelatase subunit that functions in
cobalamin biosynthesis. Cobalamin (vitamin B12) can be
synthesized via several pathways, including an aerobic
pathway (found in Pseudomonas denitrificans) and an
anaerobic pathway (found in P. shermanii and Salmonella
typhimurium). These pathways differ in the point of
cobalt insertion during corrin ring formation. There are
apparently a number of variations on these two pathways,
where the major differences seem to be concerned with
the process of ring contraction. Confusion regarding the
functions of enzymes found in the aerobic vs. anaerobic
pathways has arisen because nonhomologous genes in these
different pathways were given the same gene symbols.
Thus, cobT in the aerobic pathway (P. denitrificans) is
not a homolog of cobT in the anaerobic pathway (S.
typhimurium). It should be noted that E. coli
synthesizes cobalamin only when it is supplied with the
precursor cobinamide, which is a complex intermediate.
Additionally, all E. coli cobalamin synthesis genes
(cobU, cobS and cobT) were named after their Salmonella
typhimurium homologs which function in the anaerobic
cobalamin synthesis pathway. This model describes the
aerobic cobalamin pathway Pseudomonas denitrificans CobT
gene product, which is a cobalt chelatase subunit, with
a MW ~70 kDa. The aerobic pathway cobalt chelatase is a
heterotrimeric, ATP-dependent enzyme that catalyzes
cobalt insertion during cobalamin biosynthesis. The
other two subunits are the P. denitrificans CobS
(TIGR01650) and CobN (pfam02514 CobN/Magnesium
Chelatase) proteins. To avoid potential confusion with
the nonhomologous Salmonella typhimurium/E.coli cobT
gene product, the P. denitrificans gene symbol is not
used in the name of this model [Biosynthesis of
cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 600
Score = 31.5 bits (71), Expect = 7.1
Identities = 13/56 (23%), Positives = 28/56 (50%)
Query: 342 TKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 397
T+N + G E ++ S E++ + E E+++ D DD +E +++ E+
Sbjct: 221 TENEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDLPDESDDDSET 276
Score = 31.5 bits (71), Expect = 7.1
Identities = 13/56 (23%), Positives = 28/56 (50%)
Query: 1483 TKNRKPLSGSFENAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEES 1538
T+N + G E ++ S E++ + E E+++ D DD +E +++ E+
Sbjct: 221 TENEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDLPDESDDDSET 276
>gnl|CDD|217059 pfam02480, Herpes_gE, Alphaherpesvirus glycoprotein E.
Glycoprotein E (gE) of Alphaherpesvirus forms a complex
with glycoprotein I (gI) (pfam01688), functioning as an
immunoglobulin G (IgG) Fc binding protein. gE is
involved in virus spread but is not essential for
propagation.
Length = 437
Score = 31.2 bits (71), Expect = 7.2
Identities = 7/37 (18%), Positives = 16/37 (43%)
Query: 369 SIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVR 405
S+ E +D+ D + D++ + + S P+
Sbjct: 397 SLPTNELFEDVSSDSESDDEEFDSDSDREPSGPSKSG 433
Score = 31.2 bits (71), Expect = 7.2
Identities = 7/37 (18%), Positives = 16/37 (43%)
Query: 1510 SIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVR 1546
S+ E +D+ D + D++ + + S P+
Sbjct: 397 SLPTNELFEDVSSDSESDDEEFDSDSDREPSGPSKSG 433
>gnl|CDD|220785 pfam10498, IFT57, Intra-flagellar transport protein 57. Eukaryotic
cilia and flagella are specialised organelles found at
the periphery of cells of diverse organisms.
Intra-flagellar transport (IFT) is required for the
assembly and maintenance of eukaryotic cilia and
flagella, and consists of the bidirectional movement of
large protein particles between the base and the distal
tip of the organelle. IFT particles contain multiple
copies of two distinct protein complexes, A and B, which
contain at least 6 and 11 protein subunits. IFT57 is
part of complex B but is not, however, required for the
core subunits to stay associated. This protein is known
as Huntington-interacting protein-1 in humans.
Length = 355
Score = 30.8 bits (70), Expect = 7.4
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 368 KSIQKEEPEDDLEDDDDDDEDNEPEEEEE 396
K + ED+ E+ D+DD + EE EE
Sbjct: 122 KRPKYPNEEDEEENVDEDDAEIILEEVEE 150
Score = 30.8 bits (70), Expect = 7.4
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 1509 KSIQKEEPEDDLEDDDDDDEDNEPEEEEE 1537
K + ED+ E+ D+DD + EE EE
Sbjct: 122 KRPKYPNEEDEEENVDEDDAEIILEEVEE 150
>gnl|CDD|217509 pfam03353, Lin-8, Ras-mediated vulval-induction antagonist. LIN-8
is a nuclear protein, present at the sites of
transcriptional repressor complexes, which interacts
with LIN-35 Rb.Lin35 Rb is a product of the class B
synMuv gene lin-35 which silences genes required for
vulval specification through chromatin modification and
remodelling. The biological role of the interaction has
not yet been determined however predictions have been
made. The interaction shows that class A synMuv genes
control vulval induction through the transcriptional
regulation of gene expression. LIN-8 normally functions
as part of a protein complex however when the complex is
absent, other family members can partially replace LIN-8
activity.
Length = 316
Score = 30.8 bits (70), Expect = 7.8
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 4/88 (4%)
Query: 355 AKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRLP 414
+ S D+E N + + E E+ +D + E E+ ++S P V+ P + P
Sbjct: 152 DRTRESQDMEE-NDEVDEVEVEEVPDDYGANLAV--DEPEQSTMSRPQEVKQSVPAQQAP 208
Query: 415 -VQRRATITGTGASPTSKRAPLNLEQLW 441
++ + + S TSK A + E
Sbjct: 209 PNPQQPMPSASSESATSKSASTSRESSP 236
Score = 30.8 bits (70), Expect = 7.8
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 4/88 (4%)
Query: 1496 AKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESISSPTSVRLYHPKPRLP 1555
+ S D+E N + + E E+ +D + E E+ ++S P V+ P + P
Sbjct: 152 DRTRESQDMEE-NDEVDEVEVEEVPDDYGANLAV--DEPEQSTMSRPQEVKQSVPAQQAP 208
Query: 1556 -VQRRATITGTGASPTSKRAPLNLEQLW 1582
++ + + S TSK A + E
Sbjct: 209 PNPQQPMPSASSESATSKSASTSRESSP 236
>gnl|CDD|241268 cd01235, PH_Sbf1_hMTMR5, Set binding factor 1 (also called Human
MTMR5) Pleckstrin Homology (PH) domain. Sbf1 is a
myotubularin-related pseudo-phosphatase. Both Sbf1 and
myotubularin interact with the SET domains of Hrx and
other epigenetic regulatory proteins, but Sbf1 lacks
phosphatase activity due to several amino acid changes
in its structurally preserved catalytic pocket. It
contains pleckstrin (PH), GEF, and myotubularin homology
domains that are thought to be responsible for signaling
and growth control. Sbf1 functions as an inhibitor of
cellular growth. The N-terminal GEF homology domain
serves to inhibit the transforming effects of Sbf1. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 106
Score = 29.2 bits (66), Expect = 8.5
Identities = 20/99 (20%), Positives = 35/99 (35%), Gaps = 16/99 (16%)
Query: 712 CEGWLFQRDRKISTVPQWIRGWFIIKGNH----FYGFTDKDSTKAHLFIYL-------PG 760
CEG+L++R + W + WF++ +Y K+ TK I L P
Sbjct: 5 CEGYLYKRGALLK---GWKQRWFVLDLTKHQLRYY--ESKEDTKCKGVIDLQEVESVYPD 59
Query: 761 FTVAPAVEVKSRKYALKIYHTGTTFYLSADSQDEFSSWL 799
A + ++ +Y A S + W+
Sbjct: 60 TPSIGAPKSPDPGAFFELKTNKRVYYFLAPSAEAAQQWI 98
Score = 29.2 bits (66), Expect = 8.5
Identities = 20/99 (20%), Positives = 35/99 (35%), Gaps = 16/99 (16%)
Query: 1858 CEGWLFQRDRKISTVPQWIRGWFIIKGNH----FYGFTDKDSTKAHLFIYL-------PG 1906
CEG+L++R + W + WF++ +Y K+ TK I L P
Sbjct: 5 CEGYLYKRGALLK---GWKQRWFVLDLTKHQLRYY--ESKEDTKCKGVIDLQEVESVYPD 59
Query: 1907 FTVAPAVEVKSRKYALKIYHTGTTFYLSADSQDEFSSWL 1945
A + ++ +Y A S + W+
Sbjct: 60 TPSIGAPKSPDPGAFFELKTNKRVYYFLAPSAEAAQQWI 98
>gnl|CDD|227447 COG5117, NOC3, Protein involved in the nuclear export of
pre-ribosomes [Translation, ribosomal structure and
biogenesis / Intracellular trafficking and secretion].
Length = 657
Score = 31.1 bits (70), Expect = 8.8
Identities = 17/80 (21%), Positives = 34/80 (42%), Gaps = 6/80 (7%)
Query: 343 KNRKPLSGSFE----NAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESI 398
+ + S+ K++V D+ N + + + E E LE D D ++ + EE+ I
Sbjct: 64 VSSSWNNESYNRLPIKTKDNVVADVNNGEEFLSESESEASLEIDSDIKDEKQKSLEEQKI 123
Query: 399 SS--PTSVRLYHPKPRLPVQ 416
+ P ++ K R+
Sbjct: 124 APEIPVKQQIDSEKERIASI 143
Score = 31.1 bits (70), Expect = 8.8
Identities = 17/80 (21%), Positives = 34/80 (42%), Gaps = 6/80 (7%)
Query: 1484 KNRKPLSGSFE----NAKEDVSIDIENQNKSIQKEEPEDDLEDDDDDDEDNEPEEEEESI 1539
+ + S+ K++V D+ N + + + E E LE D D ++ + EE+ I
Sbjct: 64 VSSSWNNESYNRLPIKTKDNVVADVNNGEEFLSESESEASLEIDSDIKDEKQKSLEEQKI 123
Query: 1540 SS--PTSVRLYHPKPRLPVQ 1557
+ P ++ K R+
Sbjct: 124 APEIPVKQQIDSEKERIASI 143
>gnl|CDD|184899 PRK14906, PRK14906, DNA-directed RNA polymerase subunit beta'/alpha
domain fusion protein; Provisional.
Length = 1460
Score = 31.0 bits (70), Expect = 9.2
Identities = 28/109 (25%), Positives = 41/109 (37%), Gaps = 18/109 (16%)
Query: 307 VSYRWFLDDKITPPRISHF-DIKP--------LGHALVNSVTSFTKN------RKPLSGS 351
VS+ W+ K +P R+ + DIKP ++ SV + R L+
Sbjct: 103 VSHIWYF--KGSPSRLGYLLDIKPKDLEKVLYFASYIITSVDKEAREEDADDLRDELAAD 160
Query: 352 FENAKEDVSIDIENQNKSIQKEEPEDD-LEDDDDDDEDNEPEEEEESIS 399
E + IE + PEDD DD DDE EE ++
Sbjct: 161 LEELDAERDRLIEATRRLSVDYVPEDDEFVDDIGDDERLTAEEVRAEVA 209
Score = 31.0 bits (70), Expect = 9.2
Identities = 28/109 (25%), Positives = 41/109 (37%), Gaps = 18/109 (16%)
Query: 1448 VSYRWFLDDKITPPRISHF-DIKP--------LGHALVNSVTSFTKN------RKPLSGS 1492
VS+ W+ K +P R+ + DIKP ++ SV + R L+
Sbjct: 103 VSHIWYF--KGSPSRLGYLLDIKPKDLEKVLYFASYIITSVDKEAREEDADDLRDELAAD 160
Query: 1493 FENAKEDVSIDIENQNKSIQKEEPEDD-LEDDDDDDEDNEPEEEEESIS 1540
E + IE + PEDD DD DDE EE ++
Sbjct: 161 LEELDAERDRLIEATRRLSVDYVPEDDEFVDDIGDDERLTAEEVRAEVA 209
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
0.314 0.131 0.383
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 109,538,941
Number of extensions: 10826743
Number of successful extensions: 13442
Number of sequences better than 10.0: 1
Number of HSP's gapped: 11776
Number of HSP's successfully gapped: 517
Length of query: 2182
Length of database: 10,937,602
Length adjustment: 112
Effective length of query: 2070
Effective length of database: 5,969,954
Effective search space: 12357804780
Effective search space used: 12357804780
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: 67 (29.6 bits)