RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17835
(702 letters)
>gnl|CDD|214550 smart00194, PTPc, Protein tyrosine phosphatase, catalytic domain.
Length = 259
Score = 228 bits (583), Expect = 9e-70
Identities = 86/209 (41%), Positives = 108/209 (51%), Gaps = 10/209 (4%)
Query: 497 LVAQFERLYRKKPG-LSMLHANKQENVIKNRYRDISPYDATRVVLH--EAPDGDYINANT 553
L +FE+L R KP S A EN KNRY+D+ PYD TRV L DYINA+
Sbjct: 2 LEEEFEKLDRLKPDDESCTVAAFPENRDKNRYKDVLPYDHTRVKLKPPPGEGSDYINASY 61
Query: 554 VAMEIPGSGIVNRYIATQGPLASTVGDFWHMLVEAGSTLVVMVTTLVERGRTKCHKYWPS 613
I G YIATQGPL STV DFW M+ E T++VM+T LVE+GR KC +YWP
Sbjct: 62 ----IDGPNGPKAYIATQGPLPSTVEDFWRMVWEQKVTVIVMLTELVEKGREKCAQYWPD 117
Query: 614 LGETLELSGGRFNISCAKEEADPSGSFVFREFVLRDSQTGEKRDVTQMQYLAWPDHGVPD 673
L+ G ++ E + R + ++ E R VT Y WPDHGVP+
Sbjct: 118 EEGE-PLTYGDITVTLKSVEKVD--DYTIRTLEVTNTGCSETRTVTHYHYTNWPDHGVPE 174
Query: 674 DVNRFLAFTRQVRHERAGMVEPAIVHCSA 702
L R VR ++ P +VHCSA
Sbjct: 175 SPESILDLIRAVRKSQSTSTGPIVVHCSA 203
>gnl|CDD|238006 cd00047, PTPc, Protein tyrosine phosphatases (PTP) catalyze the
dephosphorylation of phosphotyrosine peptides; they
regulate phosphotyrosine levels in signal transduction
pathways. The depth of the active site cleft renders the
enzyme specific for phosphorylated Tyr (pTyr) residues,
instead of pSer or pThr. This family has a distinctive
active site signature motif, HCSAGxGRxG. Characterized
as either transmembrane, receptor-like or
non-transmembrane (soluble) PTPs. Receptor-like PTP
domains tend to occur in two copies in the cytoplasmic
region of the transmembrane proteins, only one copy may
be active.
Length = 231
Score = 226 bits (579), Expect = 1e-69
Identities = 79/182 (43%), Positives = 100/182 (54%), Gaps = 11/182 (6%)
Query: 524 KNRYRDISPYDATRVVLH--EAPDGDYINANTVAMEIPGSGIVNRYIATQGPLASTVGDF 581
KNRY+DI PYD TRV L + DYINA+ I G YIATQGPL +TV DF
Sbjct: 2 KNRYKDILPYDHTRVKLKPDDDEGSDYINASY----IDGYNPPKAYIATQGPLPNTVEDF 57
Query: 582 WHMLVEAGSTLVVMVTTLVERGRTKCHKYWPSLGETLELSGGRFNISCAKEEADPSGSFV 641
W M+ E ++VM+T LVE+GR KC +YWP +L G ++ EE +
Sbjct: 58 WRMVWEQKVPVIVMLTELVEKGREKCAQYWPEEEGSLTY--GDITVTLVSEEKLD--DYT 113
Query: 642 FREFVLRDSQTGEKRDVTQMQYLAWPDHGVPDDVNRFLAFTRQVRHERAGMVE-PAIVHC 700
R L ++ TGE R VT QY WPDHGVP+ + L R+VR + P +VHC
Sbjct: 114 VRTLKLSNTGTGETRTVTHFQYTGWPDHGVPESPDSLLDLLRKVRKSQQQPGSGPIVVHC 173
Query: 701 SA 702
SA
Sbjct: 174 SA 175
>gnl|CDD|241343 cd13189, FERM_C_PTPN4_PTPN3_like, Protein tyrosine phosphatase
non-receptor proteins 3 and 4 (PTPN4 and PTPN3) FERM
domain C-lobe. PTPN4 (also called PTPMEG, protein
tyrosine phosphatase, megakaryocyte) is a cytoplasmic
protein-tyrosine phosphatase (PTP) thought to play a
role in cerebellar function. PTPMEG-knockout mice have
impaired memory formation and cerebellar long-term
depression. PTPN3/PTPH1 is a membrane-associated PTP
that is implicated in regulating tyrosine
phosphorylation of growth factor receptors, p97 VCP
(valosin-containing protein, or Cdc48 in Saccharomyces
cerevisiae), and HBV (Hepatitis B Virus) gene
expression; it is mutated in a subset of colon cancers.
PTPMEG and PTPN3/PTPH1 contains a N-terminal FERM
domain, a middle PDZ domain, and a C-terminal
phosphatase domain. PTP1/Tyrosine-protein phosphatase 1
from nematodes and a FERM_C repeat 1 from Tetraodon
nigroviridis also included in this cd. 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 within the FERM domain is part of
the PH domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 123
Score = 219 bits (559), Expect = 3e-68
Identities = 75/123 (60%), Positives = 98/123 (79%)
Query: 123 GQSPADAEYNYLEHAKRCEMYGVSVHGAKDSQDRDIQLGVTANGLVIFHAGARLNLLSWV 182
GQSPA+AE+N+L A+ E+YGV +H A+D+ + ++Q+GVT+ G+++F G R+N W
Sbjct: 1 GQSPAEAEFNFLNTARTLELYGVELHSARDASNLELQVGVTSGGILVFQNGIRINTFPWS 60
Query: 183 KIVKISFKRKQFFVQLKREPSENYDTLLGFNMTTYRSCKNLWKSCVEHHTFFRLHSPRRS 242
KIVKISFKRKQFF+QL+REPSE+ DT+LGFNM +YR+CKNLWKSCVEHHTFFRL P
Sbjct: 61 KIVKISFKRKQFFIQLRREPSESRDTILGFNMLSYRACKNLWKSCVEHHTFFRLKRPLPP 120
Query: 243 RKF 245
K
Sbjct: 121 PKR 123
>gnl|CDD|215717 pfam00102, Y_phosphatase, Protein-tyrosine phosphatase.
Length = 233
Score = 217 bits (554), Expect = 6e-66
Identities = 79/183 (43%), Positives = 103/183 (56%), Gaps = 7/183 (3%)
Query: 521 NVIKNRYRDISPYDATRVVLHEAPDGDYINANTVAMEIPGSGIVNRYIATQGPLASTVGD 580
N+ KNRY+DI PYD TRV L DYINA+ I G +IATQGPL +T+ D
Sbjct: 1 NLEKNRYKDILPYDHTRVKLTPGGPSDYINASY----IDGYRKPRAFIATQGPLPNTIED 56
Query: 581 FWHMLVEAGSTLVVMVTTLVERGRTKCHKYWPSLGETLELSGGRFNISCAKEEADPSGSF 640
FW M+ E T +VM+T L E+GR KC +YWP E L+ G +++ KEE + +
Sbjct: 57 FWRMVWEQKVTTIVMLTELEEKGREKCDQYWPEEEEG-SLTYGDISVTLVKEEEEEDD-Y 114
Query: 641 VFREFVLRDSQTGEKRDVTQMQYLAWPDHGVPDDVNRFLAFTRQVRHERA-GMVEPAIVH 699
R F L++ + E R VT Y WPDHGVP+ L R+VR +A P +VH
Sbjct: 115 TVRTFELKNGGSEETRTVTHFHYTGWPDHGVPESPKSLLDLIRKVRKSQADPRSGPIVVH 174
Query: 700 CSA 702
CSA
Sbjct: 175 CSA 177
>gnl|CDD|241338 cd13184, FERM_C_4_1_family, Protein 4.1 family FERM domain C-lobe.
The protein 4.1 family includes four well-defined
members: erythroid protein 4.1 (4.1R), the bestknown and
characterized member, 4.1G (general), 4.1N (neuronal),
and 4.1 B (brain). The less well understood 4.1O/FRMD3
is not a true member of this family and is not included
in this hierarchy. Besides three highly conserved
domains, FERM, SAB (spectrin and actin binding domain)
and CTD (C-terminal domain), the proteins from this
family contain several unique domains: U1, U2 and U3.
FERM domains like other members of the FERM domain
superfamily have a cloverleaf architecture with three
distinct lobes (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.
The brain is a particularly rich source of protein 4.1
isoforms. The various 4.1R, 4.1G, 4.1N, and 4.1B mRNAs
are all expressed in distinct patterns within the brain.
It is likely that 4.1 proteins play important functional
roles in the brain including motor coordination and
spatial learning, postmitotic differentiation, and
synaptic architecture and function. In addition they are
found in nonerythroid, nonneuronal cells where they may
play a general structural role in nuclear architecture
and/or may interact with splicing factors. The FERM C
domain is the third structural domain within the FERM
domain. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 113
Score = 162 bits (412), Expect = 2e-47
Identities = 55/113 (48%), Positives = 81/113 (71%)
Query: 123 GQSPADAEYNYLEHAKRCEMYGVSVHGAKDSQDRDIQLGVTANGLVIFHAGARLNLLSWV 182
GQ+PA+AE ++LE+AK+ +YGV +H AKDS+ DI LGV A G++++ R+N +W
Sbjct: 1 GQTPAEAELHFLENAKKLALYGVDLHPAKDSEGVDIMLGVCAGGILVYRDRLRINRFAWP 60
Query: 183 KIVKISFKRKQFFVQLKREPSENYDTLLGFNMTTYRSCKNLWKSCVEHHTFFR 235
KI+KIS+KR F+++L+ E +T +GF + +R+ K LWK CVEHHTFFR
Sbjct: 61 KILKISYKRNNFYIKLRPGEFEQSETTIGFKLPNHRAAKRLWKVCVEHHTFFR 113
>gnl|CDD|241347 cd13193, FERM_C_FARP1-like, FERM, RhoGEF and pleckstrin
domain-containing protein 1 and related proteins FERM
domain. Members here include FARP1 (also called
Chondrocyte-derived ezrin-like protein; PH
domain-containing family C member 2), FARP2 (also called
FIR/FERM domain including RhoGEF; FGD1-related
Cdc42-GEF/FRG), and FRMD7(FERM domain containing 7).
FARP1 and FARP2 are members of the Dbl family guanine
nucleotide exchange factors (GEFs) which are upstream
positive regulators of Rho GTPases. FARP1 has increased
expression in differentiated chondrocytes. FARP2 is
thought to regulate neurite remodeling by mediating the
signaling pathways from membrane proteins to Rac. It is
found in brain, lung, and testis, as well as embryonic
hippocampal and cortical neurons. These members are
composed of a N-terminal FERM domain, a proline-rich
(PR) domain, Dbl-homology (DH), and two C-terminal PH
domains. Other members in this family do not contain
the DH domains such as the Human FERM domain containing
protein 7 and Caenorhabditis elegans CFRM3, both of
which have unknown functions. They contain an N-terminal
FERM domain, a PH domain, followed by a FA (FERM
adjacent) domain. 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.
The FERM domain is found in the cytoskeletal-associated
proteins such as ezrin, moesin, radixin, 4.1R, and
merlin. These proteins provide a link between the
membrane and cytoskeleton and are involved in signal
transduction pathways. The FERM domain is also found in
protein tyrosine phosphatases (PTPs) , the tyrosine
kinases FAK and JAK, in addition to other proteins
involved in signaling. This domain is structurally
similar to the PH and PTB domains and consequently is
capable of binding to both peptides and phospholipids at
different sites.
Length = 122
Score = 135 bits (342), Expect = 2e-37
Identities = 49/129 (37%), Positives = 72/129 (55%), Gaps = 7/129 (5%)
Query: 135 EHAKRCEMYGVSVHGAKDSQDRDIQLGVTANGLVIFHAGARLNLLSWVKIVKISFKRKQF 194
+ A+RCE+YG+ +H AKD + D+ L V G+++F ++N SW KI K+SFKRK+F
Sbjct: 1 DIARRCELYGIRLHPAKDREGVDLNLAVAHMGILVFQGFTKINTFSWAKIRKLSFKRKRF 60
Query: 195 FVQLKREPSENYDTLLGFNMTTYRSCKNLWKSCVEHHTFFRLHSPRRSRKFLPPPLSLGS 254
++L E Y + F+ + CK+ WK C+EHH FFRL P P S
Sbjct: 61 LIKLHPEAYGYYKDTVEFSFESRNECKSFWKKCIEHHAFFRLSEV-------PKPPSPKP 113
Query: 255 KFFSSGRTE 263
+ FS G +
Sbjct: 114 RLFSRGSSF 122
>gnl|CDD|220216 pfam09380, FERM_C, FERM C-terminal PH-like domain.
Length = 90
Score = 127 bits (322), Expect = 3e-35
Identities = 39/91 (42%), Positives = 58/91 (63%), Gaps = 1/91 (1%)
Query: 152 DSQDRDIQLGVTANGLVIFHAGARLNLLSWVKIVKISFKRKQFFVQLKREPSENYDTLLG 211
D + D+ LGV+A G++++ ++N W +I KISFKRK+F ++L R+ E+ +T L
Sbjct: 1 DKKGTDLWLGVSAKGILVYEDNNKINTFPWSEIRKISFKRKKFLIKL-RDEDESKETTLT 59
Query: 212 FNMTTYRSCKNLWKSCVEHHTFFRLHSPRRS 242
F + R+CK LWK CVE H FFRL P +
Sbjct: 60 FYTPSPRACKYLWKLCVEQHAFFRLRRPPDT 90
>gnl|CDD|241340 cd13186, FERM_C_NBL4_NBL5, Novel band 4.1-like protein 4 and 5 FERM
(NBL4 and 5) domain C-lobe. NBL4 (also called
Erythrocyte protein band 4.1-like 4; Epb4 1l4) plays a
role the beta-catenin/Tcf signaling pathway and is
thought to be involved in establishing the cell polarity
or proliferation. NBL4 may be also involved in adhesion,
in cell motility and/or in cell-to-cell communication.
No role for NBL5 has been proposed to date. Both NBL4
and NBL5 contain a N-terminal FERM domain which 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).
A single FERM_C repeat 2 from Tetraodon nigroviridis
also included in this cdThe C-lobe is a member of the PH
superfamily. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 111
Score = 120 bits (302), Expect = 4e-32
Identities = 41/111 (36%), Positives = 63/111 (56%)
Query: 125 SPADAEYNYLEHAKRCEMYGVSVHGAKDSQDRDIQLGVTANGLVIFHAGARLNLLSWVKI 184
+PA+AE NYL AK EMYGV +H K + LG+T G++++ ++ L W KI
Sbjct: 1 TPAEAELNYLNKAKWLEMYGVDLHPVKGEDGNEYFLGLTPTGILVYENKTKIGLFFWPKI 60
Query: 185 VKISFKRKQFFVQLKREPSENYDTLLGFNMTTYRSCKNLWKSCVEHHTFFR 235
K+ FK K+ + + + + + F + ++CK+LWK VEHH FFR
Sbjct: 61 TKLDFKGKKLKLVVVEKDEQEQEHTFVFRLPNKKACKHLWKCAVEHHAFFR 111
>gnl|CDD|227886 COG5599, PTP2, Protein tyrosine phosphatase [Signal transduction
mechanisms].
Length = 302
Score = 120 bits (303), Expect = 4e-30
Identities = 63/183 (34%), Positives = 84/183 (45%), Gaps = 15/183 (8%)
Query: 524 KNRYRDISPYDATRVVLHEAPDG-DYINANTVAMEIPGSGIVNRYIATQGPLASTVGDFW 582
+NRY +I PY+ TRV L DYINA+ + +YIATQGP T+ DFW
Sbjct: 56 RNRYSNIVPYEHTRVHLKYGKSINDYINASYIKTP------RGKYIATQGPKPETIDDFW 109
Query: 583 HMLVEA--GSTLVVMVTTLVERGRTKCHKYWP-SLGETLELSGGRFNISCAKEEADPSGS 639
M+ + ++VM+T+L E R KC +YWP +TL + G R I K E
Sbjct: 110 KMVWHNVPNNGVIVMLTSLPEYNREKCDQYWPLGYDDTLII-GLRV-IKQKKYELFNDNI 167
Query: 640 FVFREFVLRDSQTGEKRDVTQMQYLAWPDHGVPDDVNRFLAFTRQVRHERAGMVEPAIVH 699
F L S G + + QY+ W D VP D+ + P IVH
Sbjct: 168 VNVHNFEL-TSINGPPKKIHHFQYINWVDFNVP-DIRSLTEVIHSLNDSPVR-TGPIIVH 224
Query: 700 CSA 702
CSA
Sbjct: 225 CSA 227
>gnl|CDD|214604 smart00295, B41, Band 4.1 homologues. Also known as
ezrin/radixin/moesin (ERM) protein domains. Present in
myosins, ezrin, radixin, moesin, protein tyrosine
phosphatases. Plasma membrane-binding domain. These
proteins play structural and regulatory roles in the
assembly and stabilization of specialized plasmamembrane
domains. Some PDZ domain containing proteins bind one or
more of this family. Now includes JAKs.
Length = 201
Score = 117 bits (294), Expect = 6e-30
Identities = 55/154 (35%), Positives = 71/154 (46%), Gaps = 34/154 (22%)
Query: 3 FYFRVKFYVSDPSKLQEEYTRY-HFYLQIRKDILAHRLILAPSTACLLASYTVQCNTYIS 61
YFRVKFY DP++L+E+ TR YLQ+R DIL RL A LLA+ +Q
Sbjct: 74 LYFRVKFYPPDPNQLKEDPTRLNLLYLQVRNDILEGRLPCPEEEALLLAALALQ------ 127
Query: 62 ENFLSLEIMADTKLVWFSISAELGDYHPDEH-KPGYLSGLSLVPGQT------EEMELKI 114
AE GDY + H G LS +P Q +E +I
Sbjct: 128 --------------------AEFGDYDEELHDLRGELSLKRFLPKQLLDSRKLKEWRERI 167
Query: 115 EELHKLHKGQSPADAEYNYLEHAKRCEMYGVSVH 148
ELHK G SP +A+ YLE A++ YGV +
Sbjct: 168 VELHKELIGLSPEEAKLKYLELARKLPTYGVELF 201
>gnl|CDD|165109 PHA02742, PHA02742, protein tyrosine phosphatase; Provisional.
Length = 303
Score = 114 bits (287), Expect = 4e-28
Identities = 65/202 (32%), Positives = 92/202 (45%), Gaps = 29/202 (14%)
Query: 518 KQENVIKNRYRDISPYDATRVVLHEAPDG-DYINANTVAMEIPGSGIVNRYIATQGPLAS 576
+ +N+ K RY D +D RV+L G D+INA+ V G R+I TQ PL
Sbjct: 49 ELKNMKKCRYPDAPCFDRNRVILKIEDGGDDFINASYV----DGHNAKGRFICTQAPLEE 104
Query: 577 TVGDFWHMLVEAGSTLVVMVTTLVERGRTKCHKYWPSLGETLELSGGRFNISCAKEEADP 636
T DFW + + ++VM+T ++E G+ C+ YW E + + G F I K ++
Sbjct: 105 TALDFWQAIFQDQVRVIVMITKIMEDGKEACYPYWMP-HERGKATHGEFKIKTKKIKS-- 161
Query: 637 SGSFVFREFV-----LRDSQTGEKRDVTQMQYLAWPDHGVPDDVNRFLAFTRQVRH---- 687
FR + L D+ TG D+ Y WP G+P D N+FL F VR
Sbjct: 162 -----FRNYAVTNLCLTDTNTGASLDIKHFAYEDWPHGGLPRDPNKFLDFVLAVREADLK 216
Query: 688 -------ERAGMVEPAIVHCSA 702
E P +VHCSA
Sbjct: 217 ADVDIKGENIVKEPPILVHCSA 238
>gnl|CDD|222923 PHA02738, PHA02738, hypothetical protein; Provisional.
Length = 320
Score = 113 bits (283), Expect = 2e-27
Identities = 64/192 (33%), Positives = 90/192 (46%), Gaps = 22/192 (11%)
Query: 525 NRYRDISPYDATRVVL-HEAPDGDYINANTVAMEIPGSGIVNRYIATQGPLASTVGDFWH 583
NRY D +D +RV+L E GDYINAN V G ++I Q P T DF+
Sbjct: 53 NRYLDAVCFDHSRVILPAERNRGDYINANYV----DGFEYKKKFICGQAPTRQTCYDFYR 108
Query: 584 MLVEAGSTLVVMVTTLVERGRTKCHKYWPSLGETLELSGGRFNISCAKEEADPSGSFVFR 643
ML ++VM+ E GR KC YW + E + G+F I+ + E P +V
Sbjct: 109 MLWMEHVQIIVMLCKKKENGREKCFPYWSDV-EQGSIRFGKFKITTTQVETHP--HYVKS 165
Query: 644 EFVLRDSQTGEKRDVTQMQYLAWPDHGVPDDVNRFLAFTRQVRHERAGMVE--------- 694
+L D T + VT + AWPDH VP + + FL F +VR + + +
Sbjct: 166 TLLLTDG-TSATQTVTHFNFTAWPDHDVPKNTSEFLNFVLEVRQCQKELAQESLQIGHNR 224
Query: 695 ----PAIVHCSA 702
P +VHC+A
Sbjct: 225 LQPPPIVVHCNA 236
>gnl|CDD|215882 pfam00373, FERM_M, FERM central domain. This domain is the central
structural domain of the FERM domain.
Length = 113
Score = 102 bits (257), Expect = 4e-26
Identities = 46/139 (33%), Positives = 68/139 (48%), Gaps = 33/139 (23%)
Query: 17 LQEEYTRYHFYLQIRKDILAHRLILAPSTACLLASYTVQCNTYISENFLSLEIMADTKLV 76
LQ+E TR YLQ+++DIL RL + A LLA+ +Q
Sbjct: 1 LQDEVTRELLYLQLKRDILEGRLPCSEEEALLLAALALQ--------------------- 39
Query: 77 WFSISAELGDYHPDEHKPGYLSGL-SLVPG------QTEEMELKIEELHKLHKGQSPADA 129
AE GDY+P++H YL L +P +++E+E +I E HK +G SPA+A
Sbjct: 40 -----AEFGDYNPEKHSSSYLKELEYFLPSRLIKKEKSKELEKRILEAHKNLRGLSPAEA 94
Query: 130 EYNYLEHAKRCEMYGVSVH 148
+ YL+ A+ YGV+
Sbjct: 95 KLKYLQIAQSLPTYGVTFF 113
>gnl|CDD|165113 PHA02746, PHA02746, protein tyrosine phosphatase; Provisional.
Length = 323
Score = 100 bits (250), Expect = 4e-23
Identities = 64/222 (28%), Positives = 100/222 (45%), Gaps = 44/222 (19%)
Query: 515 HANKQENVIKNRYRDISPYDATRVVLH----------------------EAPDGDYINAN 552
H K+EN+ KNR+ DI +D +RVV++ E +YI+AN
Sbjct: 45 HFLKKENLKKNRFHDIPCWDHSRVVINAHESLKMFDVGDSDGKKIEVTSEDNAENYIHAN 104
Query: 553 TVAMEIPGSGIVNRYIATQGPLASTVGDFWHMLVEAGSTLVVMVTTLVERGRTKCHKYWP 612
V G N++I QGP T DF+ ++ E S ++V +T ++ KC + W
Sbjct: 105 FVD----GFKEANKFICAQGPKEDTSEDFFKLISEHESQVIVSLTD-IDDDDEKCFELWT 159
Query: 613 SLGETLELSGGRF--NISCAKEEADPSGSFVFREFVLRDSQTGEKRDVTQMQYLAWPDHG 670
E EL+ GRF I EE SF ++ D + R++ + WPD+G
Sbjct: 160 K-EEDSELAFGRFVAKILDIIEEL----SFTKTRLMITDKISDTSREIHHFWFPDWPDNG 214
Query: 671 VPDDVNRFLAFTRQVRHERAGMVE----------PAIVHCSA 702
+P + FL +V E+A +++ P +VHCSA
Sbjct: 215 IPTGMAEFLELINKVNEEQAELIKQADNDPQTLGPIVVHCSA 256
>gnl|CDD|165114 PHA02747, PHA02747, protein tyrosine phosphatase; Provisional.
Length = 312
Score = 95.8 bits (238), Expect = 1e-21
Identities = 58/198 (29%), Positives = 86/198 (43%), Gaps = 22/198 (11%)
Query: 518 KQENVIKNRYRDISPYDATRVVLHE--APDGDYINANTV-AMEIPGSGIVNRYIATQGPL 574
K EN KNRY DI +D RV+L DYI+AN + E ++IATQGP
Sbjct: 48 KPENQPKNRYWDIPCWDHNRVILDSGGGSTSDYIHANWIDGFEDD-----KKFIATQGPF 102
Query: 575 ASTVGDFWHMLVEAGSTLVVMVT-TLVERGRTKCHKYWPSLGETLELSGGRFNISCAKEE 633
A T DFW + + +++VM+T T G KC++YW L E + F I K
Sbjct: 103 AETCADFWKAVWQEHCSIIVMLTPTKGTNGEEKCYQYW-CLNEDGNIDMEDFRIETLKTS 161
Query: 634 ADPSGSFVFREFVLRDSQTGEKRDVTQMQYLAWPDHGVPDDVNRFLAFTRQVRHERA--- 690
++ + D + R ++ Q W + P D F+ F + + R
Sbjct: 162 VRA--KYILTLIEITDKILKDSRKISHFQCSEWFEDETPSDHPDFIKFIKIIDINRKKSG 219
Query: 691 -------GMVEPAIVHCS 701
++ P +VHCS
Sbjct: 220 KLFNPKDALLCPIVVHCS 237
>gnl|CDD|241346 cd13192, FERM_C_FRMD3_FRMD5, FERM domain-containing protein 3 and 5
FERM (FRMD3 and 5) domain C-lobe. FRMD3 (also called
Band 4.1-like protein 4O/4.1O though it is not a true
member of that family) is a novel putative tumor
suppressor gene that is implicated in the origin and
progression of lung cancer. In humans there are 5
isoforms that are produced by alternative splicing. Less
is known about FRMD5, though there are 2 isoforms of the
human protein are produced by alternative splicing. Both
FRMD3 and FRMD5 contain a N-terminal FERM domain,
followed by a FERM adjacent (FA) domain, and 4.1 protein
C-terminal domain (CTD). 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. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 105
Score = 87.8 bits (218), Expect = 7e-21
Identities = 38/107 (35%), Positives = 56/107 (52%), Gaps = 2/107 (1%)
Query: 129 AEYNYLEHAKRCEMYGVSVHGAKDSQDRDIQLGVTANGLVIFHAGARLNLLSWVKIVKIS 188
AE N+L A E YGV H KD + LG T G+V+F G R++ W I K +
Sbjct: 1 AELNFLRKAHTLETYGVDPHPVKDHYGTQLYLGFTHTGVVVFQGGKRVHHFKWDDISKFN 60
Query: 189 FKRKQFFVQLKREPSENYDTLLGFNMTTYRSCKNLWKSCVEHHTFFR 235
++ K F + + + +E LGF T +CK+LWK VE+ F++
Sbjct: 61 YEGKTFILHVMQ--NEEKKHTLGFKCPTPAACKHLWKCAVENQAFYK 105
>gnl|CDD|241233 cd00836, FERM_C-lobe, FERM domain C-lobe. 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. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs), the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 91
Score = 76.7 bits (189), Expect = 4e-17
Identities = 31/95 (32%), Positives = 48/95 (50%), Gaps = 7/95 (7%)
Query: 144 GVSVHGAKDSQD-RDIQLGVTANGLVIFHA--GARLNLLSWVKIVKISFKRKQFFVQLKR 200
GV KD ++ LGV+ G+ + G L L W +I KISF +K F ++++
Sbjct: 1 GVEFFDVKDKSGGSELILGVSLEGISVLDDNTGNPLTLFRWPEIRKISFSKKTFTIEIRG 60
Query: 201 EPSENYDTLLGFNMTTYRSCKNLWKSCVEHHTFFR 235
+ E L F ++ R K +WK CV +H F+R
Sbjct: 61 DKEEK----LAFQTSSPREAKYIWKLCVGYHRFYR 91
>gnl|CDD|241342 cd13188, FERM_C_PTPN14_PTPN21, Protein tyrosine phosphatase
non-receptor proteins 14 and 21 (PTPN14 and 21) FERM
domain. This CD contains PTP members: pez/PTPN14 and
PTPN21. A number of mutations in Pez have been shown to
be associated with breast and colorectal cancer. The
PTPN protein family belong to larger family of PTPs.
PTPs are known to be signaling molecules that regulate a
variety of cellular processes including cell growth,
differentiation, mitotic cycle, and oncogenic
transformation. The members are composed of a N-terminal
FERM domain and a C-terminal PTP catalytic domain. 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. Like most other ERM
members they have a phosphoinositide-binding site in
their FERM domain. The FERM C domain is the third
structural domain within the FERM domain. The FERM
domain is found in the cytoskeletal-associated proteins
such as ezrin, moesin, radixin, 4.1R, and merlin. These
proteins provide a link between the membrane and
cytoskeleton and are involved in signal transduction
pathways. The FERM domain is also found in protein
tyrosine phosphatases (PTPs) , the tyrosine kinases FAK
and JAK, in addition to other proteins involved in
signaling. This domain is structurally similar to the PH
and PTB domains and consequently is capable of binding
to both peptides and phospholipids at different sites.
Length = 111
Score = 65.4 bits (160), Expect = 5e-13
Identities = 36/115 (31%), Positives = 59/115 (51%), Gaps = 6/115 (5%)
Query: 123 GQSPADAEYNYLEHAKRCEMYGVSVHGAKDSQDRDIQLGVTANGLVIFHAGARLNLL-SW 181
G SPA+AE Y++ ++ + YG + AKD+Q DI +G + G+ + H R ++ W
Sbjct: 1 GLSPAEAELLYIQEVEQLDGYGEESYPAKDNQGNDIFIGASFEGIFVKHKNGRPPVVFKW 60
Query: 182 VKIVKISFKRKQFFVQLKREPSENYDTLLGFNMTTYRSCKNLWKSCVEHHTFFRL 236
I IS + F V+L + +T+ F M + K +W+ CV H F+R
Sbjct: 61 NDIGNISHNKSFFSVELINK----EETIQ-FQMEDAETAKYVWRMCVARHKFYRQ 110
>gnl|CDD|241341 cd13187, FERM_C_PTPH13, Protein tyrosine phosphatase non-receptor
13 (PTPH13) FERM domain C-lobe. There are many
functions of PTPN13 (also called PTPL1, PTP-BAS, hPTP1E,
FAP1, or PTPL1). Mice lacking PTPN13 activity have
abnormal regulation of signal transducer and activator
of transcription signaling in their T cells, mild
impairment of motor nerve repair, and a significant
reduction in the growth of retinal glia cultures. It
also plays a role in adipocyte differentiation. PTPN13
contains a kinase non-catalytic C-lobe domain (KIND), a
FERM domain with two potential phosphatidylinositol
4,5-biphosphate [PtdIns(4,5)P2]-binding motifs, 5 PDZ
domains, and a carboxy-terminal catalytic domain. There
is an nteraction between the FERM domain of PTPL1 and
PtdIns(4,5)P2 which is thought to regulate the membrane
localization of PTPN13. PDZ are protein/protein
interaction domains so there is the potential for
numerous partners that can actively participate in the
regulation of its phosphatase activity or can permit
direct or indirect recruitment of tyrosine
phosphorylated PTPL1 substrates. 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. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs), the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 124
Score = 62.3 bits (152), Expect = 9e-12
Identities = 40/129 (31%), Positives = 59/129 (45%), Gaps = 14/129 (10%)
Query: 123 GQSPADAEYNYLEHAKRCEMYGVSVH---GAKDSQDRDIQLGVTANGLVIF--HAGARLN 177
G S +AE +L+ ++ YGV H K S I LG+ + G++I+ H GAR
Sbjct: 1 GLSEEEAELEFLKVCQKLPEYGVHFHRVYREKKSSTGGIWLGICSRGIIIYEVHNGARTP 60
Query: 178 LLS--WVKIVKISFKRKQFFVQLKREPSENYDTLLGFNMTTYRSCKNLWKSCVEHHTFFR 235
+L W + KISF RK+F + E F +Y+ + L + C H F
Sbjct: 61 VLRFPWRETKKISFDRKKFII----ENRGGSGIKHTFYTDSYKKSQYLLRLCSSQHKF-- 114
Query: 236 LHSPRRSRK 244
H RSR+
Sbjct: 115 -HMKMRSRQ 122
>gnl|CDD|241349 cd13195, FERM_C_MYLIP_IDOL, The E3 ubiquitin ligase myosin
regulatory light chain-interacting protein (MYLIP; also
called inducible degrader of the LDL receptor, IDOL)
FERM domain C-lobe. MYLIP/IDOL is a regulator of the
LDL receptor (LDLR) pathway via the nuclear receptor
liver X receptor (LXR). In response to cellular
cholesterol loading, the activation of LXR leads to the
induction of MYLIP expression. MYLIP stimulates
ubiquitination of the LDLR on its cytoplasmic tail,
directing its degradation. The LXR-MYLIP-LDLR pathway
provides a complementary pathway to sterol regulatory
element-binding proteins for the feedback inhibition of
cholesterol uptake. MYLIP has an N-terminal FERM domain
and in some cases a C-terminal RING domain. 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. The FERM domain is
found in the cytoskeletal-associated proteins such as
ezrin, moesin, radixin, 4.1R, and merlin. These proteins
provide a link between the membrane and cytoskeleton and
are involved in signal transduction pathways. The FERM
domain is also found in protein tyrosine phosphatases
(PTPs) , the tyrosine kinases FAK and JAK, in addition
to other proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 131
Score = 60.3 bits (147), Expect = 5e-11
Identities = 29/121 (23%), Positives = 56/121 (46%), Gaps = 3/121 (2%)
Query: 123 GQSPADAEYNYLEHAKRCEMYGVSVHGAKDSQDRDIQLGVTANGLVIFH-AGARLNLLSW 181
G SP+ AEY +L+ E YGV + + + + +GV +G+ I + G + + +
Sbjct: 1 GMSPSTAEYLFLKEVSELENYGVETFHVRTIEGQKLVIGVGPDGIRICNDDGELIQRIPY 60
Query: 182 VKIVKISFKRKQFFVQLKREPSENYDTLLGFNMTTYRSCKNLWKSCVEHHTFFRLHSPRR 241
I + K F + + + T L F + + R+ L+++ E H F+R + R
Sbjct: 61 TAIQMATSSGKVFTLTYLSD--DGDVTKLEFKLPSTRAASALYRAITEKHAFYRCETVRS 118
Query: 242 S 242
+
Sbjct: 119 A 119
>gnl|CDD|214649 smart00404, PTPc_motif, Protein tyrosine phosphatase, catalytic
domain motif.
Length = 105
Score = 55.8 bits (135), Expect = 1e-09
Identities = 18/47 (38%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 658 VTQMQYLAWPDHGVPDDVNRFLAFTRQVRHERAGMVE--PAIVHCSA 702
V Y WPDHGVP+ + L R V+ P +VHCSA
Sbjct: 2 VKHYHYTGWPDHGVPESPDSILELLRAVKKNLNQSESSGPVVVHCSA 48
>gnl|CDD|214469 smart00012, PTPc_DSPc, Protein tyrosine phosphatase, catalytic
domain, undefined specificity. Protein tyrosine
phosphatases. Homologues detected by this profile and
not by those of "PTPc" or "DSPc" are predicted to be
protein phosphatases with a similar fold to DSPs and
PTPs, yet with unpredicted specificities.
Length = 105
Score = 55.8 bits (135), Expect = 1e-09
Identities = 18/47 (38%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 658 VTQMQYLAWPDHGVPDDVNRFLAFTRQVRHERAGMVE--PAIVHCSA 702
V Y WPDHGVP+ + L R V+ P +VHCSA
Sbjct: 2 VKHYHYTGWPDHGVPESPDSILELLRAVKKNLNQSESSGPVVVHCSA 48
>gnl|CDD|165107 PHA02740, PHA02740, protein tyrosine phosphatase; Provisional.
Length = 298
Score = 53.8 bits (129), Expect = 1e-07
Identities = 43/200 (21%), Positives = 78/200 (39%), Gaps = 28/200 (14%)
Query: 516 ANKQENVIKNRYRD------ISPYDATRVVLHEAPDGDYINANTVAMEIPGSGIVNRYIA 569
ANK +N+ +D I+ R+ L D ++A V G ++I
Sbjct: 42 ANKACAQAENKAKDENLALHITRLLHRRIKLFN--DEKVLDARFV----DGYDFEQKFIC 95
Query: 570 TQGPLASTVGDFWHMLVEAGSTLVVMVTTLVERGRTKCH-KYWPSLGETLELSGGRFNIS 628
F L + ++V+++ ++ KC ++W SL E ++ +F I
Sbjct: 96 IINLCEDACDKFLQALSDNKVQIIVLISRHADK---KCFNQFW-SLKEGCVITSDKFQIE 151
Query: 629 CAKEEADPSGSFVFREFVLRDSQTGEKRDVTQMQYLAWPDHGVPDDVNRFLAFTRQV--- 685
+ P F L D + G+ + ++ QY AWP G D + F+ F +
Sbjct: 152 TLEIIIKPH--FNLTLLSLTD-KFGQAQKISHFQYTAWPADGFSHDPDAFIDFFCNIDDL 208
Query: 686 -----RHERAGMVEPAIVHC 700
+H+ G + P I+ C
Sbjct: 209 CADLEKHKADGKIAPIIIDC 228
>gnl|CDD|241348 cd13194, FERM_C_ERM, ERM family FERM domain C-lobe/F3. The ERM
family includes ezrin, radixin, moesin and merlin. They
are composed of a N-terminal FERM (ERM) domain (also
called N-ERMAD (N-terminal ERM association domain)), a
coiled coil region (CRR), and a C-terminal domain CERMAD
(C-terminal ERM association domain) which has an
F-actin-binding site (ABD). Two actin-binding sites have
been identified in the middle and N-terminal domains.
Merlin is structurally similar to the ERM proteins, but
instead of an actin-binding domain (ABD), it contains a
C-terminal domain (CTD), just like the proteins from the
4.1 family. Activated ezrin, radixin and moesin are
thought to be involved in the linking of actin filaments
to CD43, CD44, ICAM1-3 cell adhesion molecules, various
membrane channels and receptors, such as the Na+/H+
exchanger-3 (NHE3), cystic fibrosis transmembrane
conductance regulator (CFTR), and the beta2-adrenergic
receptor. The ERM proteins exist in two states, a
dormant state in which the FERM domain binds to its own
C-terminal tail and thereby precludes binding of some
partner proteins, and an activated state, in which the
FERM domain binds to one of many membrane binding
proteins and the C-terminal tail binds to F-actin. 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
of ERM is part of the PH domain family. The FERM domain
is found in the cytoskeletal-associated proteins such as
ezrin, moesin, radixin, 4.1R, and merlin. These proteins
provide a link between the membrane and cytoskeleton and
are involved in signal transduction pathways. The FERM
domain is also found in protein tyrosine phosphatases
(PTPs) , the tyrosine kinases FAK and JAK, in addition
to other proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 97
Score = 42.6 bits (101), Expect = 4e-05
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 142 MYGVSVHGAKDSQDRDIQLGVTANGLVIFHAGARLN---LLSWVKIVKISFKRKQFFV 196
MYGV+ K+ + D+ LGV A GL I+ +L W +I ISF K+F +
Sbjct: 1 MYGVNYFEIKNKKGTDLWLGVDALGLNIYELENKLTPKIGFPWSEIRNISFNDKKFVI 58
>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 = 41.8 bits (99), Expect = 5e-05
Identities = 14/36 (38%), Positives = 23/36 (63%), Gaps = 3/36 (8%)
Query: 274 VVLINGCDVSGMHHEQVVNIIRTSRDTHGELVLTVR 309
++ +NG V G+ HE+ V +++ S D E+ LTVR
Sbjct: 50 ILEVNGVSVEGLTHEEAVELLKNSGD---EVTLTVR 82
Score = 32.2 bits (74), Expect = 0.15
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 418 LVLIRIAPDEQGRFGFNVKGGADLGMPILVVR 449
+ + + D G GF+++GG D G I V R
Sbjct: 1 VRTVTLRKDPGGGLGFSLRGGKDSGGGIFVSR 32
>gnl|CDD|241345 cd13191, FERM_C_FRMD4A_FRMD4B, FERM domain-containing protein 4A
and 4B (FRMD4A and 4B) FERM domain C-lobe. FRMD4A is
part of the Par-3/FRMD4A/cytohesin-1 complex that
activates Arf6, a central player in actin cytoskeleton
dynamics and membrane trafficking, during junctional
remodeling and epithelial polarization. The
Par-3/Par-6/aPKC/Cdc42 complex regulates the conversion
of primordial adherens junctions (AJs) into belt-like
AJs and the formation of linear actin cables. When
primordial AJs are formed, Par-3 recruits scaffolding
protein FRMD4A which connects Par-3 and the Arf6
guanine-nucleotide exchange factor (GEF), cytohesin-1.
FRMD4B (also called GRP1-binding protein, GRSP1) is a
novel member of GRP1 signaling complexes that are
recruited to plasma membrane ruffles in response to
insulin receptor signaling. The GRSP1/FRMD4B protein
contains a FERM protein domain as well as two coiled
coil domains and may function as a scaffolding protein.
GRP1 and GRSP1 interact through the coiled coil domains
in the two proteins. 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.
The FERM domain is found in the cytoskeletal-associated
proteins such as ezrin, moesin, radixin, 4.1R, and
merlin. These proteins provide a link between the
membrane and cytoskeleton and are involved in signal
transduction pathways. The FERM domain is also found in
protein tyrosine phosphatases (PTPs) , the tyrosine
kinases FAK and JAK, in addition to other proteins
involved in signaling. This domain is structurally
similar to the PH and PTB domains and consequently is
capable of binding to both peptides and phospholipids at
different sites.
Length = 115
Score = 36.2 bits (84), Expect = 0.012
Identities = 19/117 (16%), Positives = 45/117 (38%), Gaps = 16/117 (13%)
Query: 141 EMYGVSVHGAKDSQDRDIQLGVTANGLVIFHAGARLN---LLSWVKIVKISFKRKQFFVQ 197
YGV + KD LG++ G+ + ++ L W ++ + F+ ++F ++
Sbjct: 1 PTYGVHYYEVKDKNGIPWWLGLSYKGIGQYDLQDKVKPRKLFQWKQLENLYFRDRKFSIE 60
Query: 198 LKREPSENYD----------TLLGFNMTTYRSCKNLWKSCVEHHTFFRLHSPRRSRK 244
+ +P + + T K++W + H F+ ++S+
Sbjct: 61 V-HDPRRISVSRRTFGQSGVAVHVWYGNTPSLIKSIWSMAISQHQFYL--DRKQSKA 114
>gnl|CDD|241339 cd13185, FERM_C_FRMD1_FRMD6, FERM domain containing 1 and 6
proteins FERM domain C-lobe. FRMD6 (also called willin
and hEx/human expanded) is localized throughout the
cytoplasm or along the plasma membrane The Drosophilla
protein Ex is a regulator of the Hippo/SWH (Sav/Wts/Hpo)
signaling pathway, a signaling pathway that plays a
pivotal role in organ size control and is tumor
suppression by restricting proliferation and promoting
apoptosis. Surprisingly, hEx is thought to function
independently of the Hippo pathway. Instead it is
hypothesized that hEx inhibits progression through the S
phase of the cell cycle by upregulating p21(Cip1) and
downregulating Cyclin A. It is also implicated in the
progression of Alzheimer disease. Not much is known
about FRMD1 to date. Both FRMD1 and FRMD6 contains a
single FERM domain which 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 is
a member of the PH superfamily. The FERM domain is found
in the cytoskeletal-associated proteins such as ezrin,
moesin, radixin, 4.1R, and merlin. These proteins
provide a link between the membrane and cytoskeleton and
are involved in signal transduction pathways. The FERM
domain is also found in protein tyrosine phosphatases
(PTPs) , the tyrosine kinases FAK and JAK, in addition
to other proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 109
Score = 35.4 bits (82), Expect = 0.015
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 4/39 (10%)
Query: 160 LGVTANGLVIFH--AGAR--LNLLSWVKIVKISFKRKQF 194
LG+TA G+ I+ G + L W I K+SF RK+F
Sbjct: 23 LGITAKGIQIYQESDGEKQLLRTFPWSNIGKLSFDRKKF 61
>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 = 33.5 bits (77), Expect = 0.044
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 277 INGCDVSGMHHEQVVNIIRTSRDTHGELVLTVRPNG 312
+NG V G+ H + V++++ + + LTV G
Sbjct: 53 VNGTSVEGLTHLEAVDLLKKAGGK---VTLTVLRGG 85
>gnl|CDD|192138 pfam08736, FA, FERM adjacent (FA). This region is found adjacent
to Band 4.1 / FERM domains (pfam00373) in a subset of
FERM containing protein. The region has been
hypothesised to play a role in regulatory adaptation,
based on similarity to other protein kinase substrates.
Length = 47
Score = 31.8 bits (73), Expect = 0.068
Identities = 12/17 (70%), Positives = 13/17 (76%)
Query: 250 LSLGSKFFSSGRTEYQT 266
SLGSKF SGRT+ QT
Sbjct: 4 FSLGSKFRYSGRTQKQT 20
>gnl|CDD|235383 PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional.
Length = 147
Score = 33.1 bits (77), Expect = 0.20
Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 16/58 (27%)
Query: 408 DDVEEDLE---EGLVLIRIAPDEQGRFGFNVKGGADLGMPILVV----------RGRR 452
D EED + E ++ +RI DE+G+ +V+ D+G ILVV +GRR
Sbjct: 36 GDTEEDADYLAEKILNLRIFEDEEGKMNLSVQ---DVGGEILVVSQFTLYADTRKGRR 90
>gnl|CDD|201332 pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ
domains are found in diverse signaling proteins.
Length = 80
Score = 30.7 bits (70), Expect = 0.46
Identities = 10/36 (27%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 274 VVLINGCDVSGMHHEQVVNIIRTSRDTHGELVLTVR 309
++ ING D+ + H++ V + + + GE+ LT+
Sbjct: 48 ILSINGQDLENLSHDEAVLAL---KGSGGEVTLTIL 80
Score = 30.3 bits (69), Expect = 0.63
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 420 LIRIAPDEQGRFGFNVKGGADLGMPILV 447
+ + +G GF++ GG+D I V
Sbjct: 1 EVTLEKSGRGGLGFSLVGGSDGDPGIFV 28
>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 = 30.4 bits (69), Expect = 0.48
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 277 INGCDVSGMHHEQVVNIIRTSRDTHGELVLTVR 309
+NG DV + E V +++ ++ LTVR
Sbjct: 40 VNGTDVKNLTLEDVAELLKKEVG--EKVTLTVR 70
>gnl|CDD|133130 cd06599, GH31_glycosidase_Aec37, Glycosyl hydrolase family 31
(GH31) domain of a bacterial protein family represented
by Escherichia coli protein Aec37. The gene encoding
Aec37 (aec-37) is located within a genomic island
(AGI-3) isolated from the extraintestinal avian
pathogenic Escherichia coli strain BEN2908. The function
of Aec37 and its orthologs is unknown; however, deletion
of a region of the genome that includes aec-37 affects
the assimilation of seven carbohydrates, decreases
growth rate of the strain in minimal medium containing
galacturonate or trehalose, and attenuates the virulence
of E. coli BEN2908 in chickens. All GH31 enzymes cleave
a terminal carbohydrate moiety from a substrate that
varies considerably in size, depending on the enzyme,
and may be either a starch or a glycoprotein.
Length = 317
Score = 31.5 bits (72), Expect = 1.6
Identities = 20/55 (36%), Positives = 24/55 (43%), Gaps = 5/55 (9%)
Query: 295 RTSRDTHGELVLTVRPNGKSRS----TQRSIQISSDDNAKSSRSLRYDNKVTSLG 345
R S + E RP SRS QR Q S DN S ++LRY+ LG
Sbjct: 200 RASHEAQAEHYPNRRPYIVSRSGFAGIQRYAQTWSGDNRTSWKTLRYNIA-MGLG 253
>gnl|CDD|219830 pfam08415, NRPS, Nonribosomal peptide synthase. This domain is
found in bacterial nonribosomal peptide synthetases
(NRPS). NRPS are megaenzymes organised as iterative
modules, one for each amino acid to be built into the
peptide product. NRPS modules are involved in epothilone
biosynthesis (EpoB), myxothiazol biosynthesis (MtaC and
MtaD), and other functions. The NRPS domain tends to be
found together with the condensation domain (pfam00668)
and the phosphopantetheine binding domain (pfam00550).
Length = 57
Score = 28.4 bits (64), Expect = 1.8
Identities = 11/20 (55%), Positives = 13/20 (65%), Gaps = 3/20 (15%)
Query: 450 GRRRGGRGAPLPIRTRVFTS 469
RRRGG A +P+ VFTS
Sbjct: 14 ARRRGGAAALMPV---VFTS 30
>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 = 30.4 bits (69), Expect = 3.5
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 274 VVLINGCDVSGMHHEQVVNIIRTSRDTHGELVLTVRPNGKSR 315
++ ING V+GM + V +IR + T ++ L + GKS+
Sbjct: 86 IIKINGKSVAGMSLDDAVALIRGKKGT--KVSLEILRAGKSK 125
>gnl|CDD|234734 PRK00349, uvrA, excinuclease ABC subunit A; Reviewed.
Length = 943
Score = 30.0 bits (69), Expect = 5.6
Identities = 9/10 (90%), Positives = 9/10 (90%)
Query: 429 GRFGFNVKGG 438
GRF FNVKGG
Sbjct: 730 GRFSFNVKGG 739
>gnl|CDD|220880 pfam10812, DUF2561, Protein of unknown function (DUF2561). This
family of proteins with unknown function appears to be
restricted to Mycobacterium spp.
Length = 207
Score = 29.4 bits (66), Expect = 5.6
Identities = 13/56 (23%), Positives = 17/56 (30%), Gaps = 5/56 (8%)
Query: 439 ADLGMPILVVRGRRRGGRGAPLPIRTRVFTSRGGLNARQCRGPVPVDAPVGGWTGE 494
AD P RRR G+ P+R +R P G W+
Sbjct: 91 ADDEPPPRSQGLRRRPGQ----PVRAGYAAARTE-KESVPATHAPSRTDAGEWSSA 141
>gnl|CDD|184189 PRK13627, PRK13627, carnitine operon protein CaiE; Provisional.
Length = 196
Score = 29.0 bits (65), Expect = 6.7
Identities = 16/35 (45%), Positives = 23/35 (65%), Gaps = 6/35 (17%)
Query: 558 IPGSGIVNRYIATQGPLASTVGDFWHMLVEAGSTL 592
I G+G+ YI GPLAS GD+ ++V+AG+ L
Sbjct: 30 IVGAGV---YI---GPLASLRGDYGRLIVQAGANL 58
>gnl|CDD|214466 MTH00226, ND4, NADH dehydrogenase subunit 4; Provisional.
Length = 505
Score = 29.5 bits (66), Expect = 7.3
Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 4/83 (4%)
Query: 562 GIVNRYIATQGPLASTVGDFWHMLVEA--GSTLVVMVTTLVERGRTKCHKYWPSLGETLE 619
G+V+ + T + T G + ML S L ++VT L +R T+ KY+ L T+
Sbjct: 333 GLVSITLVTHDIIGLT-GSIFIMLAHGIVSSLLFILVTILYDRHHTRLIKYYRGLSITMP 391
Query: 620 LSGGRFNI-SCAKEEADPSGSFV 641
+ G + S A PSG+F+
Sbjct: 392 IWGTIMIVTSLANVAVPPSGNFI 414
>gnl|CDD|222679 pfam14322, SusD-like_3, Starch-binding associating with outer
membrane. SusD is a secreted starch-binding protein
with an N-terminal lipid tail that allows it to
associate with the outer membrane.
Length = 190
Score = 28.9 bits (65), Expect = 7.3
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 383 GPAIRTTEPGPAAILPARTTLNFVDDDVEEDLEEGLVLIRIAPDEQGRFGFNVKGGA 439
G TT P LP R T+ V D + +DLEE + L+ ++ F+ K A
Sbjct: 126 GGVPYTTATEPEQNLP-RATVQEVYDQIIKDLEEAIPLLPDEIPSVPKYRFSKKKAA 181
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
0.319 0.136 0.412
Gapped
Lambda K H
0.267 0.0705 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 36,449,800
Number of extensions: 3642340
Number of successful extensions: 3022
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2977
Number of HSP's successfully gapped: 50
Length of query: 702
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 598
Effective length of database: 6,324,786
Effective search space: 3782222028
Effective search space used: 3782222028
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 63 (28.1 bits)