RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3479
(518 letters)
>gnl|CDD|241244 cd01208, PTB_X11, X11-like Phosphotyrosine-binding (PTB) domain.
The function of the neuronal protein X11 is unknown to
date. X11 has a PTB domain followed by two PDZ domains.
PTB domains have a common PH-like fold and are found in
various eukaryotic signaling molecules. This domain was
initially shown to binds peptides with a NPXY motif with
differing requirements for phosphorylation of the
tyrosine, although more recent studies have found that
some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 161
Score = 239 bits (611), Expect = 4e-77
Identities = 81/119 (68%), Positives = 91/119 (76%), Gaps = 7/119 (5%)
Query: 205 KAPEGETQPSTEVDLFISTEKIMVLNTDLKEIMMDHALRTISYIADIGDLVVLMARRRFV 264
KAPEGE+QPSTEVDLFISTE+I VLN D +E MMDHALRTISYIADIG++VVLMARRR
Sbjct: 43 KAPEGESQPSTEVDLFISTERIKVLNADTQETMMDHALRTISYIADIGNIVVLMARRRMP 102
Query: 265 SQEADEP-------PKISRTPKMICHVFESDEAQFIAQSIGQAFQVAYMEFLKANGIED 316
+ E + R KMICHVFES++AQ IAQSIGQAF VAY EFL+ANGI
Sbjct: 103 RSSSQECIETTPPAQEGKRQYKMICHVFESEDAQLIAQSIGQAFSVAYQEFLRANGINP 161
Score = 111 bits (281), Expect = 5e-29
Identities = 36/63 (57%), Positives = 43/63 (68%), Gaps = 7/63 (11%)
Query: 10 KEIMMDHALRTISYIADIGDLVVLMARRRFVSQEADEP-------PKISRTPKMICHVFE 62
+E MMDHALRTISYIADIG++VVLMARRR + E + R KMICHVFE
Sbjct: 72 QETMMDHALRTISYIADIGNIVVLMARRRMPRSSSQECIETTPPAQEGKRQYKMICHVFE 131
Query: 63 SDE 65
S++
Sbjct: 132 SED 134
>gnl|CDD|144292 pfam00640, PID, Phosphotyrosine interaction domain (PTB/PID).
Length = 133
Score = 107 bits (269), Expect = 1e-27
Identities = 42/108 (38%), Positives = 62/108 (57%), Gaps = 10/108 (9%)
Query: 205 KAPEGETQPSTEVDLFISTEKIMVLNTDLKEIMMDHALRTISYIADIGDLVVLMARRRFV 264
G QP T +DL IST+ + +L+ KE++ DH LR+IS+IA + ++
Sbjct: 35 AGLTGHRQPGTSIDLSISTDGLKLLDEKTKELLHDHPLRSISFIAVGD--PDDLRTFAYI 92
Query: 265 SQEADEPPKISRTPKMICHVFESDE-AQFIAQSIGQAFQVAYMEFLKA 311
A + T + CHVFE ++ A+ IAQ++GQAF VAY EFL+A
Sbjct: 93 ---AADGA----TGRFACHVFECEKGAEDIAQAVGQAFAVAYQEFLRA 133
Score = 51.2 bits (123), Expect = 6e-08
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 9/56 (16%)
Query: 10 KEIMMDHALRTISYIADIGDLVVLMARRRFVSQEADEPPKISRTPKMICHVFESDE 65
KE++ DH LR+IS+IA + ++ A + T + CHVFE ++
Sbjct: 64 KELLHDHPLRSISFIAVGD--PDDLRTFAYI---AADGA----TGRFACHVFECEK 110
>gnl|CDD|214675 smart00462, PTB, Phosphotyrosine-binding domain,
phosphotyrosine-interaction (PI) domain. PTB/PI domain
structure similar to those of pleckstrin homology (PH)
and IRS-1-like PTB domains.
Length = 134
Score = 77.4 bits (191), Expect = 5e-17
Identities = 35/115 (30%), Positives = 55/115 (47%), Gaps = 17/115 (14%)
Query: 204 LKAPEGETQPSTEVDLFISTEKIMVLNTDLKEIMMDHALRTISYIADI---GDLVVLMAR 260
A E + +V L IS+ + +++ D K ++ +H LR IS+ A D+ +AR
Sbjct: 33 RAAQGSEKKEPQKVILSISSRGVKLIDEDTKAVLHEHPLRRISFCAVGPDDLDVFGYIAR 92
Query: 261 RRFVSQEADEPPKISRTPKMICHVFESDE-AQFIAQSIGQAFQVAYMEFLKANGI 314
+ + CHVF ++ A+ IA +IGQAFQ+AY LKA
Sbjct: 93 D-------------PGSSRFACHVFRCEKAAEDIALAIGQAFQLAYELKLKARSE 134
Score = 36.5 bits (85), Expect = 0.008
Identities = 15/69 (21%), Positives = 26/69 (37%), Gaps = 16/69 (23%)
Query: 1 MLTFNDRVHKEIMMDHALRTISYIADI---GDLVVLMARRRFVSQEADEPPKISRTPKMI 57
+ D K ++ +H LR IS+ A D+ +AR + +
Sbjct: 54 GVKLIDEDTKAVLHEHPLRRISFCAVGPDDLDVFGYIARD-------------PGSSRFA 100
Query: 58 CHVFESDEV 66
CHVF ++
Sbjct: 101 CHVFRCEKA 109
>gnl|CDD|201332 pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ
domains are found in diverse signaling proteins.
Length = 80
Score = 61.1 bits (149), Expect = 5e-12
Identities = 26/84 (30%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 65 EVVVPKAKGEILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLV 124
EV + K+ LG +V G P + ++ + P GAA G L GD+I+++NG L
Sbjct: 1 EVTLEKSGRGGLGFSLVGGSDGD--PGIFVSEVLPGGAAEA-GGLQEGDRILSINGQDLE 57
Query: 125 GLPLSTCQTYIKNSKNQTVVKLTV 148
L +K S V LT+
Sbjct: 58 NLSHDEAVLALKGSGG--EVTLTI 79
Score = 55.3 bits (134), Expect = 6e-10
Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 350 EVVVPKAKGEILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLV 409
EV + K+ LG +V G P + ++ + P GAA G L GD+I+++NG L
Sbjct: 1 EVTLEKSGRGGLGFSLVGGSDGD--PGIFVSEVLPGGAAEA-GGLQEGDRILSINGQDLE 57
Query: 410 GLPLSTCQTYIK 421
L +K
Sbjct: 58 NLSHDEAVLALK 69
Score = 54.2 bits (131), Expect = 1e-09
Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 3/71 (4%)
Query: 442 VVVPKAKGEILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVG 501
V + K+ LG +V G P + ++ + P GAA G L GD+I+++NG L
Sbjct: 2 VTLEKSGRGGLGFSLVGGSDGD--PGIFVSEVLPGGAAEA-GGLQEGDRILSINGQDLEN 58
Query: 502 LPLSTCQTYIK 512
L +K
Sbjct: 59 LSHDEAVLALK 69
>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 = 61.0 bits (149), Expect = 6e-12
Identities = 28/85 (32%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 65 EVVVPKAKGEILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLV 124
V + K G LG + + ++ + P G A R G L +GD+I+ VNGVS+
Sbjct: 3 TVTLRKDPGGGLGFSLRGGKDSGG--GIFVSRVEPGGPAER-GGLRVGDRILEVNGVSVE 59
Query: 125 GLPLSTCQTYIKNSKNQTVVKLTVV 149
GL +KNS ++ V LTV
Sbjct: 60 GLTHEEAVELLKNSGDE--VTLTVR 82
Score = 54.9 bits (133), Expect = 9e-10
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 3/73 (4%)
Query: 349 KEVVVPKAKGEILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSL 408
+ V + K G LG + + ++ + P G A R G L +GD+I+ VNGVS+
Sbjct: 2 RTVTLRKDPGGGLGFSLRGGKDSGG--GIFVSRVEPGGPAER-GGLRVGDRILEVNGVSV 58
Query: 409 VGLPLSTCQTYIK 421
GL +K
Sbjct: 59 EGLTHEEAVELLK 71
Score = 53.3 bits (129), Expect = 3e-09
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 3/71 (4%)
Query: 442 VVVPKAKGEILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVG 501
V + K G LG + + ++ + P G A R G L +GD+I+ VNGVS+ G
Sbjct: 4 VTLRKDPGGGLGFSLRGGKDSGG--GIFVSRVEPGGPAER-GGLRVGDRILEVNGVSVEG 60
Query: 502 LPLSTCQTYIK 512
L +K
Sbjct: 61 LTHEEAVELLK 71
>gnl|CDD|241303 cd01273, PTB_CED-6, Cell death protein 6 homolog (CED-6/GULP1)
Phosphotyrosine-binding (PTB) domain. CED6 (also known
as GULP1: engulfment adaptor PTB domain containing 1) is
an adaptor protein involved in the specific recognition
and engulfment of apoptotic cells. CED6 has been shown
to interact with the cytoplasmic tail of another protein
involved in the engulfment of apoptotic cells, CED1.
CED6 has a C-terminal PTB domain, which can bind to NPXY
motifs. PTB domains have a common PH-like fold and are
found in various eukaryotic signaling molecules. This
domain was initially shown to binds peptides with a NPXY
motif with differing requirements for phosphorylation of
the tyrosine, although more recent studies have found
that some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 144
Score = 60.7 bits (148), Expect = 3e-11
Identities = 41/115 (35%), Positives = 59/115 (51%), Gaps = 15/115 (13%)
Query: 201 NTDLKAPEGETQPSTEVDLFISTEKIMVLNTDLKEIMMDHALRTISYIAD-IGDLVVLMA 259
+K EG P +V+L IS + + + + KEIM L IS+ AD D
Sbjct: 43 ARQIKKSEGAKLP--KVELQISIDGVKIQDPKTKEIMHQFPLHRISFCADDKTD------ 94
Query: 260 RRRFVSQEADEPPKISRTPKMICHVFESD-EAQFIAQSIGQAFQVAYMEFLKANG 313
+R S A K S + K +C VF+S+ A+ I +IGQAF +AY FL++NG
Sbjct: 95 -KRIFSFIA----KDSESNKHLCFVFDSEKLAEEITLTIGQAFDLAYKRFLESNG 144
Score = 28.0 bits (63), Expect = 6.2
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 12/56 (21%)
Query: 10 KEIMMDHALRTISYIAD-IGDLVVLMARRRFVSQEADEPPKISRTPKMICHVFESD 64
KEIM L IS+ AD D +R S A K S + K +C VF+S+
Sbjct: 74 KEIMHQFPLHRISFCADDKTD-------KRIFSFIA----KDSESNKHLCFVFDSE 118
>gnl|CDD|241236 cd00934, PTB, Phosphotyrosine-binding (PTB) PH-like fold. PTB
domains have a common PH-like fold and are found in
various eukaryotic signaling molecules. This domain was
initially shown to bind peptides with a NPXY motif with
differing requirements for phosphorylation of the
tyrosine, although more recent studies have found that
some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains.
Length = 119
Score = 51.8 bits (124), Expect = 3e-08
Identities = 28/106 (26%), Positives = 46/106 (43%), Gaps = 13/106 (12%)
Query: 198 MVLNTDLKAPEGETQPSTEVDLFISTEKIMVLNTDLKEIMMDHALRTISYIADIGDLVVL 257
L + + V L +S E + +L+ D KE+++ H L ISY D +
Sbjct: 24 EALKLLALLLKSSKRKPGPVLLEVSPEGVKLLDLDTKELLLRHPLSRISYCGRDPDNPKV 83
Query: 258 MARRRFVSQEADEPPKISRTPKMICHVFESD---EAQFIAQSIGQA 300
A F+++ S CHVF+ + EA+ I ++GQA
Sbjct: 84 FA---FIARR-------SGGSGFRCHVFQCEDKEEAEEILNALGQA 119
Score = 33.3 bits (76), Expect = 0.069
Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 10/64 (15%)
Query: 1 MLTFNDRVHKEIMMDHALRTISYIADIGDLVVLMARRRFVSQEADEPPKISRTPKMICHV 60
+ D KE+++ H L ISY D + A F+++ S CHV
Sbjct: 51 GVKLLDLDTKELLLRHPLSRISYCGRDPDNPKVFA---FIARR-------SGGSGFRCHV 100
Query: 61 FESD 64
F+ +
Sbjct: 101 FQCE 104
>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 = 50.8 bits (122), Expect = 3e-08
Identities = 28/89 (31%), Positives = 42/89 (47%), Gaps = 6/89 (6%)
Query: 62 ESDEVVVPKAKGEILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGV 121
E V + K G LG +V VV++++ P AA+ G L +GD I+ VNG
Sbjct: 1 EPRLVELEK-GGGGLGFSLVGGKDEGG--GVVVSSVVPGSPAAKAG-LRVGDVILEVNGT 56
Query: 122 SLVGLPLSTCQTYIKNSKNQTVVKLTVVP 150
S+ GL +K + + V LTV+
Sbjct: 57 SVEGLTHLEAVDLLKKAGGK--VTLTVLR 83
Score = 45.1 bits (107), Expect = 3e-06
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 4/73 (5%)
Query: 349 KEVVVPKAKGEILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSL 408
+ V + K G LG +V VV++++ P AA+ G L +GD I+ VNG S+
Sbjct: 3 RLVELEK-GGGGLGFSLVGGKDEGG--GVVVSSVVPGSPAAKAG-LRVGDVILEVNGTSV 58
Query: 409 VGLPLSTCQTYIK 421
GL +K
Sbjct: 59 EGLTHLEAVDLLK 71
Score = 43.9 bits (104), Expect = 6e-06
Identities = 23/71 (32%), Positives = 34/71 (47%), Gaps = 4/71 (5%)
Query: 442 VVVPKAKGEILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVG 501
V + K G LG +V VV++++ P AA+ G L +GD I+ VNG S+ G
Sbjct: 5 VELEK-GGGGLGFSLVGGKDEGG--GVVVSSVVPGSPAAKAG-LRVGDVILEVNGTSVEG 60
Query: 502 LPLSTCQTYIK 512
L +K
Sbjct: 61 LTHLEAVDLLK 71
>gnl|CDD|241304 cd01274, PTB_Anks, Ankyrin repeat and sterile alpha motif (SAM)
domain-containing (Anks) protein family
Phosphotyrosine-binding (PTB) domain. Both AIDA-1b
(AbetaPP intracellular domain-associated protein 1b) and
Odin (also known as ankyrin repeat and sterile alpha
motif domain-containing 1A; ANKS1A) belong to the Anks
protein family. Both of these family members interacts
with the EphA8 receptor. Ank members consists of
ankyrin repeats, a SAM domain and a C-terminal PTB
domain which is crucial for interaction with the
juxtamembrane (JM) region of EphA8. PTB domains are
classified into three groups, namely,
phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains of
which the Anks PTB is a member. PTB domains have a
common PH-like fold and are found in various eukaryotic
signaling molecules. This domain was initially shown to
binds peptides with a NPXY motif with differing
requirements for phosphorylation of the tyrosine,
although more recent studies have found that some types
of PTB domains can bind to peptides lack tyrosine
residues altogether. In contrast to SH2 domains, which
recognize phosphotyrosine and adjacent carboxy-terminal
residues, PTB-domain binding specificity is conferred by
residues amino-terminal to the phosphotyrosine. PTB
domains are classified into three groups:
phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 146
Score = 50.3 bits (121), Expect = 2e-07
Identities = 33/123 (26%), Positives = 54/123 (43%), Gaps = 18/123 (14%)
Query: 193 STEKIMVLNTDLKAPEGETQPSTEVDLFISTEKIMVLNTDLKEIMMDHALRTISYIA-DI 251
ST+ LK E + + L IS + + ++ K ++ +H +R IS D
Sbjct: 35 STKDAC---QKLKKSTEEMKKIPTIILSISYKGVKFIDATTKNLICEHEIRNISCACQDP 91
Query: 252 GDLVVLMARRRFVSQEADEPPKISRTPKMICHVF---ESDEAQFIAQSIGQAFQVAYMEF 308
DL +++++ +T CHVF D A I ++GQAF+VAY
Sbjct: 92 EDLNTFA----YITKDL-------KTDHHYCHVFCVLTVDLAYEIILTLGQAFEVAYQLA 140
Query: 309 LKA 311
L+A
Sbjct: 141 LQA 143
>gnl|CDD|241315 cd13161, PTB_TK_HMTK, Tyrosine-specific kinase/HM-motif TK
(TM/HMTK) Phosphotyrosine-binding (PTB) PH-like fold.
TK kinases catalyzes the transfer of the terminal
phosphate of ATP to a specific tyrosine residue on its
target protein. TK kinases play significant roles in
development and cell division. Tyrosine-protein kinases
can be divided into two subfamilies: receptor tyrosine
kinases, which have an intracellular tyrosine kinase
domain, a transmembrane domain and an extracellular
ligand-binding domain; and non-receptor (cytoplasmic)
tyrosine kinases, which are soluble, cytoplasmic
kinases. In HMTK the conserved His-Arg-Asp sequence
within the catalytic loop is replaced by a His-Met
sequence. TM/HMTK have are 2-3 N-terminal PTB domains.
PTB domains in TKs are thought to function analogously
to the membrane targeting (PH, myristoylation) and pTyr
binding (SH2) domains of Src subgroup kinases. PTB
domains have a common PH-like fold and are found in
various eukaryotic signaling molecules. This domain was
initially shown to binds peptides with a NPXY motif with
differing requirements for phosphorylation of the
tyrosine, although more recent studies have found that
some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 120
Score = 49.2 bits (118), Expect = 2e-07
Identities = 24/98 (24%), Positives = 45/98 (45%), Gaps = 17/98 (17%)
Query: 212 QPSTEVDLFISTEKIMVLNTDLKEIMMDHALRTISYIADIGDLVVLMARRR---FVSQEA 268
+V L +++E I V+ E++ + ++ IS++ V ++ F+S +
Sbjct: 35 LKPKKVVLVVTSEGIRVVERKTGEVLTNVPIKDISFVT------VDPRDKKLFAFISHD- 87
Query: 269 DEPPKISRTPKMICHVFES-DEAQFIAQSIGQAFQVAY 305
SR ++ CHVF AQ I +I +AF+ A
Sbjct: 88 ------SRLGRITCHVFRCKKGAQAICDTIAEAFKAAA 119
>gnl|CDD|241311 cd13157, PTB_tensin-related, Tensin-related Phosphotyrosine-binding
(PTB) domain. Tensin plays critical roles in renal
function, muscle regeneration, and cell migration. It
binds to actin filaments and interacts with the
cytoplasmic tails of beta-integrin via its PTB domain,
allowing tensin to link actin filaments to integrin
receptors. Tensin functions as a platform for assembly
and disassembly of signaling complexes at focal
adhesions by recruiting tyrosine-phosphorylated
signaling molecules, and also by providing interaction
sites for other proteins. In addition to its PTB
domain, it contains a C-terminal SH2 domain. PTB domains
have a common PH-like fold and are found in various
eukaryotic signaling molecules. This domain was
initially shown to binds peptides with a NPXY motif with
differing requirements for phosphorylation of the
tyrosine, although more recent studies have found that
some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains.
Length = 129
Score = 49.3 bits (118), Expect = 3e-07
Identities = 30/97 (30%), Positives = 45/97 (46%), Gaps = 16/97 (16%)
Query: 214 STEVDLFISTEKIMVLNTDLKEIMMDHALRTISYIADIGDLVVLMARRR--FVSQEADEP 271
V L IS I + + D + ++M HALR +SY A + FV++
Sbjct: 40 GRPVILSISLSGIKICSEDGETVLMAHALRRVSYST------CRPADAQFAFVARN---- 89
Query: 272 PKISRTPKMICHVFES---DEAQFIAQSIGQAFQVAY 305
P T + CHVF + EAQ + + +AFQ+AY
Sbjct: 90 PG-GPTSRQYCHVFVTPSPGEAQELNLLLCRAFQLAY 125
Score = 31.2 bits (71), Expect = 0.46
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 13/54 (24%)
Query: 10 KEIMMDHALRTISYIADIGDLVVLMARRR--FVSQEADEPPKISRTPKMICHVF 61
+ ++M HALR +SY A + FV++ P T + CHVF
Sbjct: 60 ETVLMAHALRRVSYST------CRPADAQFAFVARN----PG-GPTSRQYCHVF 102
>gnl|CDD|241248 cd01212, PTB_JIP, JNK-interacting protein-like (JIP)
Phosphotyrosine-binding (PTB) domain. JIP is a
mitogen-activated protein kinase scaffold protein. JIP
consists of a C-terminal SH3 domain, followed by a PTB
domain. PTB domains have a common PH-like fold and are
found in various eukaryotic signaling molecules. This
domain was initially shown to binds peptides with a NPXY
motif with differing requirements for phosphorylation of
the tyrosine, although more recent studies have found
that some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 149
Score = 45.3 bits (108), Expect = 8e-06
Identities = 19/37 (51%), Positives = 25/37 (67%), Gaps = 2/37 (5%)
Query: 282 CHVFESDE-AQFIAQSIGQAFQVAYMEFLK-ANGIED 316
CHVF S E + +A+S+G+AFQ Y EFL+ A ED
Sbjct: 109 CHVFVSQESTRPVAESVGRAFQRFYQEFLEYACPTED 145
>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 = 41.1 bits (97), Expect = 5e-05
Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 92 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQTYIKNSKNQTVVKLTVV 149
VV+ ++ P A R G L GD I+AVNG + L L +K + V LTV
Sbjct: 15 VVVLSVEPGSPAERAG-LQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEK-VTLTVR 70
Score = 34.2 bits (79), Expect = 0.014
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 377 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQTYIK 421
VV+ ++ P A R G L GD I+AVNG + L L +K
Sbjct: 15 VVVLSVEPGSPAERAG-LQAGDVILAVNGTDVKNLTLEDVAELLK 58
Score = 34.2 bits (79), Expect = 0.014
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 468 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQTYIK 512
VV+ ++ P A R G L GD I+AVNG + L L +K
Sbjct: 15 VVVLSVEPGSPAERAG-LQAGDVILAVNGTDVKNLTLEDVAELLK 58
>gnl|CDD|238488 cd00988, PDZ_CTP_protease, PDZ domain of C-terminal processing-,
tail-specific-, and tricorn proteases, which function in
posttranslational protein processing, maturation, and
disassembly or degradation, in Bacteria, Archaea, and
plant chloroplasts. 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 = 85
Score = 41.1 bits (97), Expect = 8e-05
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 8/87 (9%)
Query: 76 LGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQTYI 135
+G+ + G +VI ++ P AA+ G + GD I+A++G + GL L +
Sbjct: 4 IGLELKYDDGG-----LVITSVLPGSPAAKAG-IKAGDIIVAIDGEPVDGLSLEDVVKLL 57
Query: 136 KNSKNQTVVKLTVV-PCAPVVEVKIKR 161
+ T V+LT+ EV + R
Sbjct: 58 RGKAG-TKVRLTLKRGDGEPREVTLTR 83
Score = 32.2 bits (74), Expect = 0.099
Identities = 21/97 (21%), Positives = 39/97 (40%), Gaps = 18/97 (18%)
Query: 361 LGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQTYI 420
+G+ + G +VI ++ P AA+ G + GD I+A++G + GL L
Sbjct: 4 IGLELKYDDGG-----LVITSVLPGSPAAKAG-IKAGDIIVAIDGEPVDGLSLED----- 52
Query: 421 KILMKTMPTSMFRLLTGQETPVVVPKAKGEILGVVIV 457
+ R G + + + + GE V +
Sbjct: 53 -------VVKLLRGKAGTKVRLTLKRGDGEPREVTLT 82
Score = 31.8 bits (73), Expect = 0.12
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 452 LGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPL 504
+G+ + G +VI ++ P AA+ G + GD I+A++G + GL L
Sbjct: 4 IGLELKYDDGG-----LVITSVLPGSPAAKAG-IKAGDIIVAIDGEPVDGLSL 50
>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 = 36.8 bits (86), Expect = 0.002
Identities = 21/77 (27%), Positives = 34/77 (44%), Gaps = 15/77 (19%)
Query: 75 ILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQ-- 132
ILG V G VI + P AA+ G L GD+I+A+NG + + +
Sbjct: 2 ILGFVP-----GGPPIEPVIGEVVPGSPAAKAG-LKAGDRILAINGQ-----KIKSWEDL 50
Query: 133 -TYIKNSKNQTVVKLTV 148
++ + + + LTV
Sbjct: 51 VDAVQENPGKP-LTLTV 66
Score = 34.5 bits (80), Expect = 0.011
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 360 ILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNG 405
ILG V G VI + P AA+ G L GD+I+A+NG
Sbjct: 2 ILGFVP-----GGPPIEPVIGEVVPGSPAAKAG-LKAGDRILAING 41
Score = 34.5 bits (80), Expect = 0.011
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 451 ILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQIIAVNG 496
ILG V G VI + P AA+ G L GD+I+A+NG
Sbjct: 2 ILGFVP-----GGPPIEPVIGEVVPGSPAAKAG-LKAGDRILAING 41
>gnl|CDD|241245 cd01209, PTB_Shc, Shc-like phosphotyrosine-binding (PTB) domain.
Shc is a substrate for receptor tyrosine kinases, which
can interact with phosphoproteins at NPXY motifs. Shc
contains an PTB domain followed by an SH2 domain. PTB
domains have a common PH-like fold and are found in
various eukaryotic signaling molecules. This domain was
initially shown to binds peptides with a NPXY motif with
differing requirements for phosphorylation of the
tyrosine, although more recent studies have found that
some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Shc-like subgroup.
Length = 170
Score = 37.6 bits (88), Expect = 0.005
Identities = 30/100 (30%), Positives = 50/100 (50%), Gaps = 20/100 (20%)
Query: 217 VDLFISTEKIMVLNTDLKEIMMDHALRTISY----IADIGDLVVLMARRRFVSQEADEPP 272
+ L IST + + D +I+ +H +++IS+ D D V +A+ V+Q A
Sbjct: 85 ISLTISTSGLNLSTPDTGQIIANHHMQSISFASGGDPDTTDYVAYVAKDP-VNQRA---- 139
Query: 273 KISRTPKMICHVFE-SDE-AQFIAQSIGQAFQVAYMEFLK 310
CHV E D AQ + +IGQAF++ + ++LK
Sbjct: 140 ---------CHVLECGDGLAQDVIATIGQAFELRFKQYLK 170
>gnl|CDD|223864 COG0793, Prc, Periplasmic protease [Cell envelope biogenesis, outer
membrane].
Length = 406
Score = 35.4 bits (82), Expect = 0.065
Identities = 19/72 (26%), Positives = 31/72 (43%), Gaps = 4/72 (5%)
Query: 92 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQTYIKNSKNQTVVKLTVVPC 151
V + + AA+ G + GD II ++G S+ G+ L I+ T V LT++
Sbjct: 114 VKVVSPIDGSPAAKAG-IKPGDVIIKIDGKSVGGVSLDEAVKLIRGKPG-TKVTLTILRA 171
Query: 152 APV--VEVKIKR 161
V + R
Sbjct: 172 GGGKPFTVTLTR 183
Score = 31.1 bits (71), Expect = 1.3
Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 377 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPL 413
V + + AA+ G + GD II ++G S+ G+ L
Sbjct: 114 VKVVSPIDGSPAAKAG-IKPGDVIIKIDGKSVGGVSL 149
Score = 31.1 bits (71), Expect = 1.3
Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 468 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPL 504
V + + AA+ G + GD II ++G S+ G+ L
Sbjct: 114 VKVVSPIDGSPAAKAG-IKPGDVIIKIDGKSVGGVSL 149
>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 = 34.6 bits (80), Expect = 0.11
Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 4/72 (5%)
Query: 92 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQTYIKNSKNQTVVKLTVVPC 151
+VI + A + G + GD+II +NG S+ G+ L I+ K T V L ++
Sbjct: 64 IVIVSPFEGSPAEKAG-IKPGDKIIKINGKSVAGMSLDDAVALIRGKKG-TKVSLEILRA 121
Query: 152 AP--VVEVKIKR 161
+ +KR
Sbjct: 122 GKSKPLTFTLKR 133
Score = 28.9 bits (65), Expect = 7.3
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 377 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPL 413
+VI + A + G + GD+II +NG S+ G+ L
Sbjct: 64 IVIVSPFEGSPAEKAG-IKPGDKIIKINGKSVAGMSL 99
Score = 28.9 bits (65), Expect = 7.3
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 468 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPL 504
+VI + A + G + GD+II +NG S+ G+ L
Sbjct: 64 IVIVSPFEGSPAEKAG-IKPGDKIIKINGKSVAGMSL 99
>gnl|CDD|238487 cd00987, PDZ_serine_protease, PDZ domain of tryspin-like serine
proteases, such as DegP/HtrA, which are oligomeric
proteins involved in heat-shock response, chaperone
function, and apoptosis. May be responsible for
substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, though 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 = 90
Score = 30.3 bits (69), Expect = 0.49
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 92 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQTYIKNSKNQTVVKLTVV 149
V++A++ P AA+ G L GD I+AVNG + ++ + + K V LTV+
Sbjct: 26 VLVASVDPGSPAAKAG-LKPGDVILAVNGKPVKS--VADLRRALAELKPGDKVTLTVL 80
Score = 29.9 bits (68), Expect = 0.81
Identities = 14/30 (46%), Positives = 20/30 (66%), Gaps = 1/30 (3%)
Query: 377 VVIANLAPAGAAARCGQLNIGDQIIAVNGV 406
V++A++ P AA+ G L GD I+AVNG
Sbjct: 26 VLVASVDPGSPAAKAG-LKPGDVILAVNGK 54
Score = 29.9 bits (68), Expect = 0.81
Identities = 14/30 (46%), Positives = 20/30 (66%), Gaps = 1/30 (3%)
Query: 468 VVIANLAPAGAAARCGQLNIGDQIIAVNGV 497
V++A++ P AA+ G L GD I+AVNG
Sbjct: 26 VLVASVDPGSPAAKAG-LKPGDVILAVNGK 54
>gnl|CDD|226483 COG3975, COG3975, Predicted protease with the C-terminal PDZ domain
[General function prediction only].
Length = 558
Score = 32.0 bits (73), Expect = 0.91
Identities = 19/81 (23%), Positives = 34/81 (41%), Gaps = 14/81 (17%)
Query: 91 TVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQTYIKNSKNQTVVKLTVVP 150
I + P G A + G L+ GD+I+A+NG+S + K +++ V
Sbjct: 463 HEKITFVFPGGPAYKAG-LSPGDKIVAINGISD----------QLDRYKVNDKIQVHVFR 511
Query: 151 CAPVVEVKIK---RPDTKYQL 168
+ E +K P +Y +
Sbjct: 512 EGRLREFLVKLGGDPTAQYII 532
Score = 31.3 bits (71), Expect = 1.4
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 12/76 (15%)
Query: 433 RLLTGQETPVVVPKAKGEILGVVIV----ESGW-GSML----PTVVIANLAPAGAAARCG 483
+ G E P + P + G+ E+ + G + I + P G A + G
Sbjct: 422 EYIEGTEPPPLNPLLER--FGLTFTPKPREAYYLGLKVKSEGGHEKITFVFPGGPAYKAG 479
Query: 484 QLNIGDQIIAVNGVSL 499
L+ GD+I+A+NG+S
Sbjct: 480 -LSPGDKIVAINGISD 494
Score = 30.1 bits (68), Expect = 2.9
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 376 TVVIANLAPAGAAARCGQLNIGDQIIAVNGVSL 408
I + P G A + G L+ GD+I+A+NG+S
Sbjct: 463 HEKITFVFPGGPAYKAG-LSPGDKIVAINGISD 494
>gnl|CDD|241312 cd13158, PTB_APPL, Adaptor protein containing PH domain, PTB
domain, and Leucine zipper motif (APPL; also called
DCC-interacting protein (DIP)-13alpha)
Phosphotyrosine-binding (PTB) domain. APPL 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. PTB domains have a common PH-like fold
and are found in various eukaryotic signaling molecules.
This domain was initially shown to binds peptides with a
NPXY motif with differing requirements for
phosphorylation of the tyrosine, although more recent
studies have found that some types of PTB domains can
bind to peptides lack tyrosine residues altogether. In
contrast to SH2 domains, which recognize phosphotyrosine
and adjacent carboxy-terminal residues, PTB-domain
binding specificity is conferred by residues
amino-terminal to the phosphotyrosine. PTB domains are
classified into three groups: phosphotyrosine-dependent
Shc-like, phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains.
Length = 135
Score = 30.4 bits (69), Expect = 0.96
Identities = 19/90 (21%), Positives = 37/90 (41%), Gaps = 7/90 (7%)
Query: 215 TEVDLFISTEKIMVLNTDLKEIMMDHALRTISYIADIGDLVVLMARRRFVSQEADEPPKI 274
TE L ++++ + +++ + L +S A + L FV +
Sbjct: 52 TESHLLVTSDCLRLIDPQTQVTRARFPLANVSQFAAHQENKRLFG---FVVRSRGGD--- 105
Query: 275 SRTPKMICHVFESD-EAQFIAQSIGQAFQV 303
P C+VFES+ E + I +I A ++
Sbjct: 106 GGRPSYSCYVFESNTEGEKICDAISLAKEI 135
>gnl|CDD|241305 cd10569, FERM_C_Talin, Talin FERM domain C-lobe/F3. Talin (also
called filopodin) plays an important role in initiating
actin filament growth in motile cell protrusions. It is
responsible for linking the cytoplasmic domains of
integrins to the actin-based cytoskeleton, and is
involved in vinculin, integrin and actin interactions.
At the leading edge of motile cells, talin colocalises
with the hyaluronan receptor layilin in transient
adhesions, some of which become more stable focal
adhesions (FA). During this maturation process, layilin
is replaced with integrins, where localized production
of PI(4,5)P(2) by type 1 phosphatidyl inositol phosphate
kinase type 1gamma (PIPK1gamma) is thought to play a
role in FA assembly. Talins are composed of a N-terminal
region FERM domain which us made up of 3 subdomains (N,
alpha-, and C-lobe-or- A-lobe, B-lobe, C-lobe -or- F1,
F2, F3) connected by short linkers, a talin rod which
binds vinculin, and a conserved C-terminal with actin-
and integrin-binding sites. There are 2 additional
actin-binding domains, one in the talin rod and the
other in the FERM domain. Both the F2 and F3 FERM
subdomains contribute to F-actin binding. Subdomain F3
of the FERM domain contains overlapping binding sites
for integrin cytoplasmic domains and for the type 1
gamma isoform of PIP-kinase (phosphatidylinositol
4-phosphate 5-kinase). The FERM domain has a cloverleaf
tripart structure . 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 = 92
Score = 29.2 bits (66), Expect = 1.3
Identities = 16/67 (23%), Positives = 29/67 (43%), Gaps = 13/67 (19%)
Query: 219 LFISTEKIMVLNTDLKEIMMDHALRTI--------SYIADIGDLVVLMARRRFVSQEADE 270
L I+ E ++ ++ + KE++ L TI S+ D GD + S + E
Sbjct: 22 LGITKESVLRVDEETKEVLKVWPLTTIKRWAASPKSFTLDFGDY-----SDNYYSVQTTE 76
Query: 271 PPKISRT 277
+IS+
Sbjct: 77 GEQISQL 83
>gnl|CDD|109373 pfam00312, Ribosomal_S15, Ribosomal protein S15.
Length = 83
Score = 28.8 bits (65), Expect = 1.3
Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 193 STEKIMVLNTDLKAPEGETQPSTEVDLFISTEKIMVLNTDLKEIMMDHA 241
+T I+ E +T S EV + + TE+I+ L L+E D+
Sbjct: 2 ATGLIISE---FLKAEKDT-GSVEVQIALLTERIVRLRKHLEEHKKDYH 46
>gnl|CDD|232801 TIGR00054, TIGR00054, RIP metalloprotease RseP. Members of this
nearly universal bacterial protein family are regulated
intramembrane proteolysis (RIP) proteases. Older and
synonymous gene symbols include yaeL in E. coli, mmpA in
Caulobacter crescentus, etc. This family includes a
region that hits the PDZ domain, found in a number of
proteins targeted to the membrane by binding to a
peptide ligand. The N-terminal region of this family
contains a perfectly conserved motif HEXGH as found in a
number of metalloproteinases, where the Glu is the
active site and the His residues coordinate the metal
cation [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 419
Score = 30.9 bits (70), Expect = 1.7
Identities = 37/187 (19%), Positives = 61/187 (32%), Gaps = 23/187 (12%)
Query: 319 FVKEMDYQEVLNSQEIFGDELQMFAKKELQKEVVVPKAK------GEILGVVIVESGWGS 372
+VK + + + D K QK +++ + + I G
Sbjct: 65 YVKMKGLDKEMEVKPPETDGDLFNNKSVFQKAIIIFAGPLANFIFAIFVYIFISLIGVPG 124
Query: 373 MLPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQTYIKILMKTMPTSMF 432
VI L A G GD+I++VNG + G Q + M
Sbjct: 125 YEVGPVIELLDKNSIALEAGIEP-GDEILSVNGNKIPGFKDVRQQ-----IADIAGEPMV 178
Query: 433 RLLTGQETPVVVPKAKGEILGVVIVESGWGSMLPTVVIANLAPAGAAARCGQLNIGDQII 492
+L +E + G I V++++ P A + G L GD I
Sbjct: 179 EILAERENWTFEVMKELIPRGPKIE----------PVLSDVTPNSPAEKAG-LKEGDYIQ 227
Query: 493 AVNGVSL 499
++NG L
Sbjct: 228 SINGEKL 234
>gnl|CDD|238490 cd00990, PDZ_glycyl_aminopeptidase, PDZ domain associated with
archaeal and bacterial M61 glycyl-aminopeptidases. 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 is presumed to form the peptide-binding
groove base, a circular permutation with respect to PDZ
domains found in Eumetazoan signaling proteins.
Length = 80
Score = 28.6 bits (64), Expect = 1.8
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 6/57 (10%)
Query: 92 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPLSTCQTYIKNSKNQTVVKLTV 148
+ + A + G L GD+++AVNG + Q +K + V+LTV
Sbjct: 14 GKVTFVRDDSPADKAG-LVAGDELVAVNGWR-----VDALQDRLKEYQAGDPVELTV 64
Score = 27.4 bits (61), Expect = 4.0
Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 377 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSL 408
+ + A + G L GD+++AVNG +
Sbjct: 14 GKVTFVRDDSPADKAG-LVAGDELVAVNGWRV 44
Score = 27.4 bits (61), Expect = 4.0
Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 468 VVIANLAPAGAAARCGQLNIGDQIIAVNGVSL 499
+ + A + G L GD+++AVNG +
Sbjct: 14 GKVTFVRDDSPADKAG-LVAGDELVAVNGWRV 44
>gnl|CDD|234029 TIGR02830, spore_III_AG, stage III sporulation protein AG. CC A
comparative genome analysis of all sequenced genomes of
shows a number of proteins conserved strictly among the
endospore-forming subset of the Firmicutes. This
protein, a member of this panel, is found in a spore
formation operon and is designated stage III sporulation
protein AG [Cellular processes, Sporulation and
germination].
Length = 186
Score = 30.0 bits (68), Expect = 1.9
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 438 QETPVVVPKAKGEILGVVIVESG 460
QETPVV+ K EI GV++V G
Sbjct: 133 QETPVVLKTEKPEIRGVLVVAEG 155
>gnl|CDD|236873 PRK11186, PRK11186, carboxy-terminal protease; Provisional.
Length = 667
Score = 30.6 bits (70), Expect = 2.0
Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 6/63 (9%)
Query: 93 VIANLAPAGAAARCGQLNIGDQIIAV---NG--VSLVGLPLSTCQTYIKNSKNQTVVKLT 147
VI +L G AA+ +L++GD+I+ V V ++G L IK K + V+L
Sbjct: 258 VINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLDDVVALIKGPKG-SKVRLE 316
Query: 148 VVP 150
++P
Sbjct: 317 ILP 319
Score = 30.6 bits (70), Expect = 2.6
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 378 VIANLAPAGAAARCGQLNIGDQIIAV 403
VI +L G AA+ +L++GD+I+ V
Sbjct: 258 VINSLVAGGPAAKSKKLSVGDKIVGV 283
Score = 30.6 bits (70), Expect = 2.6
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 469 VIANLAPAGAAARCGQLNIGDQIIAV 494
VI +L G AA+ +L++GD+I+ V
Sbjct: 258 VINSLVAGGPAAKSKKLSVGDKIVGV 283
>gnl|CDD|177681 PLN00049, PLN00049, carboxyl-terminal processing protease;
Provisional.
Length = 389
Score = 30.1 bits (68), Expect = 3.1
Identities = 32/95 (33%), Positives = 47/95 (49%), Gaps = 10/95 (10%)
Query: 417 QTY--IKILMKTMPTSMFRLLTGQETPVVVPKAKGEILGVVIVESGWG---SMLPT--VV 469
+TY I+ ++ T+ R L ++ + KG + GV +E G+ P VV
Sbjct: 48 ETYAAIRKMLATLDDPFTRFLEPEKFKSLRSGTKGAVTGVG-LEVGYPTGSDGPPAGLVV 106
Query: 470 IANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLPL 504
+A AP G AAR G GD I+A++G S GL L
Sbjct: 107 VAP-APGGPAARAGIRP-GDVILAIDGTSTEGLSL 139
Score = 28.5 bits (64), Expect = 8.4
Identities = 26/62 (41%), Positives = 33/62 (53%), Gaps = 8/62 (12%)
Query: 72 KGEILGVVIVESGWG---SMLPT--VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGL 126
KG + GV +E G+ P VV+A AP G AAR G GD I+A++G S GL
Sbjct: 81 KGAVTGVG-LEVGYPTGSDGPPAGLVVVAP-APGGPAARAGIRP-GDVILAIDGTSTEGL 137
Query: 127 PL 128
L
Sbjct: 138 SL 139
Score = 28.5 bits (64), Expect = 8.4
Identities = 26/62 (41%), Positives = 33/62 (53%), Gaps = 8/62 (12%)
Query: 357 KGEILGVVIVESGWG---SMLPT--VVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGL 411
KG + GV +E G+ P VV+A AP G AAR G GD I+A++G S GL
Sbjct: 81 KGAVTGVG-LEVGYPTGSDGPPAGLVVVAP-APGGPAARAGIRP-GDVILAIDGTSTEGL 137
Query: 412 PL 413
L
Sbjct: 138 SL 139
>gnl|CDD|148706 pfam07256, DUF1435, Protein of unknown function (DUF1435). This
family consists of several hypothetical Enterobacterial
proteins of around 80 residues in length. The function
of this family is unknown.
Length = 78
Score = 27.7 bits (62), Expect = 3.3
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 82 ESGWGSMLPTVVIANLAPAGAAA 104
SGWG +LP +I LA AG +A
Sbjct: 7 GSGWGVLLPGALIPGLAWAGLSA 29
Score = 27.7 bits (62), Expect = 3.3
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 367 ESGWGSMLPTVVIANLAPAGAAA 389
SGWG +LP +I LA AG +A
Sbjct: 7 GSGWGVLLPGALIPGLAWAGLSA 29
Score = 27.7 bits (62), Expect = 3.3
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 458 ESGWGSMLPTVVIANLAPAGAAA 480
SGWG +LP +I LA AG +A
Sbjct: 7 GSGWGVLLPGALIPGLAWAGLSA 29
>gnl|CDD|182774 PRK10846, PRK10846, bifunctional folylpolyglutamate synthase/
dihydrofolate synthase; Provisional.
Length = 416
Score = 29.3 bits (66), Expect = 4.8
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 89 LPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLP 127
LP V + N A A AA R L + +Q I +G++ LP
Sbjct: 250 LPNVPLPNAATALAALRASGLEVSEQAI-RDGIASAILP 287
Score = 29.3 bits (66), Expect = 4.8
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 374 LPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLP 412
LP V + N A A AA R L + +Q I +G++ LP
Sbjct: 250 LPNVPLPNAATALAALRASGLEVSEQAI-RDGIASAILP 287
Score = 29.3 bits (66), Expect = 4.8
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 465 LPTVVIANLAPAGAAARCGQLNIGDQIIAVNGVSLVGLP 503
LP V + N A A AA R L + +Q I +G++ LP
Sbjct: 250 LPNVPLPNAATALAALRASGLEVSEQAI-RDGIASAILP 287
>gnl|CDD|233695 TIGR02037, degP_htrA_DO, periplasmic serine protease, Do/DeqQ
family. This family consists of a set proteins various
designated DegP, heat shock protein HtrA, and protease
DO. The ortholog in Pseudomonas aeruginosa is designated
MucD and is found in an operon that controls mucoid
phenotype. This family also includes the DegQ (HhoA)
paralog in E. coli which can rescue a DegP mutant, but
not the smaller DegS paralog, which cannot. Members of
this family are located in the periplasm and have
separable functions as both protease and chaperone.
Members have a trypsin domain and two copies of a PDZ
domain. This protein protects bacteria from thermal and
other stresses and may be important for the survival of
bacterial pathogens.// The chaperone function is
dominant at low temperatures, whereas the proteolytic
activity is turned on at elevated temperatures [Protein
fate, Protein folding and stabilization, Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 428
Score = 28.7 bits (65), Expect = 8.3
Identities = 22/96 (22%), Positives = 34/96 (35%), Gaps = 21/96 (21%)
Query: 92 VVIANLAPAGAAARCGQLNIGDQIIAVNGV---------SLVGL--PLSTCQ-TYIKNSK 139
++A + P A + G L GD I +VNG +G P ++ K
Sbjct: 259 ALVAQVLPGSPAEKAG-LKAGDVITSVNGKPISSFADLRRAIGTLKPGKKVTLGILRKGK 317
Query: 140 NQTV-VKLTVVPCAPVVEVKIKRPDTKYQLGFSVQN 174
+T+ V L P + LG +V N
Sbjct: 318 EKTITVTLGASPEEQASS-------SNPFLGLTVAN 346
>gnl|CDD|238859 cd01821, Rhamnogalacturan_acetylesterase_like,
Rhamnogalacturan_acetylesterase_like subgroup of
SGNH-hydrolases. Rhamnogalacturan acetylesterase removes
acetyl esters from rhamnogalacturonan substrates, and
renders them susceptible to degradation by
rhamnogalacturonases. Rhamnogalacturonans are highly
branched regions in pectic polysaccharides, consisting
of repeating -(1,2)-L-Rha-(1,4)-D-GalUA disaccharide
units, with many rhamnose residues substituted by
neutral oligosaccharides such as arabinans, galactans
and arabinogalactans. Extracellular enzymes
participating in the degradation of plant cell wall
polymers, such as Rhamnogalacturonan acetylesterase,
would typically be found in saprophytic and plant
pathogenic fungi and bacteria.
Length = 198
Score = 27.9 bits (63), Expect = 8.9
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 5/29 (17%)
Query: 82 ESGWGSMLP-----TVVIANLAPAGAAAR 105
++GWG LP + + N A G ++R
Sbjct: 20 QAGWGQALPQYLDTGITVVNHAKGGRSSR 48
Score = 27.9 bits (63), Expect = 8.9
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 5/29 (17%)
Query: 367 ESGWGSMLP-----TVVIANLAPAGAAAR 390
++GWG LP + + N A G ++R
Sbjct: 20 QAGWGQALPQYLDTGITVVNHAKGGRSSR 48
Score = 27.9 bits (63), Expect = 8.9
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 5/29 (17%)
Query: 458 ESGWGSMLP-----TVVIANLAPAGAAAR 481
++GWG LP + + N A G ++R
Sbjct: 20 QAGWGQALPQYLDTGITVVNHAKGGRSSR 48
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 0.135 0.387
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,477,097
Number of extensions: 2672467
Number of successful extensions: 2249
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2211
Number of HSP's successfully gapped: 105
Length of query: 518
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 417
Effective length of database: 6,457,848
Effective search space: 2692922616
Effective search space used: 2692922616
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 (21.8 bits)
S2: 61 (27.3 bits)