RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2827
(373 letters)
>gnl|CDD|176372 cd01777, SNX27_RA, Ubiquitin domain of SNX27 (sorting nexin protein
27). SNX27_RA SNX27 (sorting nexin protein 27)
belongs to a large family of endosome-localized proteins
related to sorting nexin1 which is implicated in
regulating membrane traffic. The domain architecture of
SNX27 includes an amino-terminal PDZ domain, a PX (PhoX
homologous) domain, and a carboxy-terminal RA
(RAS-associated) domain.
Length = 87
Score = 122 bits (307), Expect = 1e-34
Identities = 44/88 (50%), Positives = 60/88 (68%), Gaps = 2/88 (2%)
Query: 214 PVDIKILLPDREVITVSVRKSATADEVYASAVPKLYLQSPSSAAYFYLFEIVEYSFERKL 273
V+++I LPD+ +TV VRK+AT D+VY + V K + S + YF LFE++ +SF RKL
Sbjct: 1 DVELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDS-YTQNYFALFEVINHSFVRKL 59
Query: 274 EAKEFPHHLYIQNYSTA-SATCLCIRKW 300
EFPH LY+QNY++A TCL RKW
Sbjct: 60 APNEFPHKLYVQNYTSAVPGTCLTARKW 87
>gnl|CDD|132796 cd06886, PX_SNX27, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 27. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX27 contains an N-terminal
PDZ domain followed by a PX domain and a Ras-Associated
(RA) domain. It binds G protein-gated potassium (Kir3)
channels, which play a role in neuronal excitability
control, through its PDZ domain. SNX27 downregulates
Kir3 channels by promoting their movement in the
endosome, reducing surface expression and increasing
degradation. SNX27 also associates with
5-hydroxytryptamine type 4 receptor (5-HT4R), cytohesin
associated scaffolding protein (CASP), and
diacylglycerol kinase zeta, and may play a role in their
intracellular trafficking and endocytic recycling. The
SNX27 PX domain preferentially binds to
phosphatidylinositol-3-phosphate (PI3P) and is important
for targeting to the early endosome.
Length = 106
Score = 122 bits (308), Expect = 2e-34
Identities = 55/105 (52%), Positives = 66/105 (62%), Gaps = 30/105 (28%)
Query: 128 KRSLPISIPDYSYVNTEDESFVVFNIYMAGRHLCSRR----------------------- 164
KRS+PISIPDY +V E FVV+NIYMAGR LCSRR
Sbjct: 1 KRSVPISIPDYKHVEQNGEKFVVYNIYMAGRQLCSRRYREFANLHQNLKKEFPDFQFPKL 60
Query: 165 -------LTEQQLDSRRRGLEIYLEKVCAVRVIAESELMQEFLTD 202
L+EQQLD+RRRGLE YLEKVC++RVI ES++MQ+FL+D
Sbjct: 61 PGKWPFSLSEQQLDARRRGLEQYLEKVCSIRVIGESDIMQDFLSD 105
>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 = 92.2 bits (230), Expect = 2e-23
Identities = 40/94 (42%), Positives = 53/94 (56%), Gaps = 13/94 (13%)
Query: 9 PREVQIAKSDT-GFGFNVRGQVSEGGQLRSINGELYAPLQHVSAVLAGGAAEKAGIRKGD 67
R V + K G GF++RG G+ VS V GG AE+ G+R GD
Sbjct: 1 VRTVTLRKDPGGGLGFSLRG------------GKDSGGGIFVSRVEPGGPAERGGLRVGD 48
Query: 68 RILAVNNVNVEGATHKQVVELIKSGGDVLSLTVI 101
RIL VN V+VEG TH++ VEL+K+ GD ++LTV
Sbjct: 49 RILEVNGVSVEGLTHEEAVELLKNSGDEVTLTVR 82
>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 = 88.2 bits (219), Expect = 7e-22
Identities = 38/93 (40%), Positives = 53/93 (56%), Gaps = 12/93 (12%)
Query: 9 PREVQIAKSDTGFGFNVRGQVSEGGQLRSINGELYAPLQHVSAVLAGGAAEKAGIRKGDR 68
PR V++ K G GF++ G EGG + VS+V+ G A KAG+R GD
Sbjct: 2 PRLVELEKGGGGLGFSLVGGKDEGGGVV------------VSSVVPGSPAAKAGLRVGDV 49
Query: 69 ILAVNNVNVEGATHKQVVELIKSGGDVLSLTVI 101
IL VN +VEG TH + V+L+K G ++LTV+
Sbjct: 50 ILEVNGTSVEGLTHLEAVDLLKKAGGKVTLTVL 82
>gnl|CDD|201332 pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ
domains are found in diverse signaling proteins.
Length = 80
Score = 69.6 bits (171), Expect = 4e-15
Identities = 28/82 (34%), Positives = 44/82 (53%), Gaps = 12/82 (14%)
Query: 20 GFGFNVRGQVSEGGQLRSINGELYAPLQHVSAVLAGGAAEKAGIRKGDRILAVNNVNVEG 79
G GF++ G I VS VL GGAAE G+++GDRIL++N ++E
Sbjct: 11 GLGFSLVG---GSDGDPGI---------FVSEVLPGGAAEAGGLQEGDRILSINGQDLEN 58
Query: 80 ATHKQVVELIKSGGDVLSLTVI 101
+H + V +K G ++LT++
Sbjct: 59 LSHDEAVLALKGSGGEVTLTIL 80
>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 = 62.3 bits (152), Expect = 1e-12
Identities = 24/54 (44%), Positives = 35/54 (64%), Gaps = 1/54 (1%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQVVELIK-SGGDVLSLTVI 101
V +V G AE+AG++ GD ILAVN +V+ T + V EL+K G+ ++LTV
Sbjct: 17 VLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEKVTLTVR 70
>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 = 54.2 bits (131), Expect = 1e-09
Identities = 20/64 (31%), Positives = 38/64 (59%), Gaps = 2/64 (3%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQVVELIKSGGDVLSLTVISVSPEEA 108
+++VL G A KAGI+ GD I+A++ V+G + + VV+L++ G + +++ +
Sbjct: 17 ITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLR--GKAGTKVRLTLKRGDG 74
Query: 109 ERLE 112
E E
Sbjct: 75 EPRE 78
>gnl|CDD|176363 cd01768, RA, RA (Ras-associating) ubiquitin domain. The RA
(Ras-associating) domain is structurally similar to
ubiquitin and is present in one or two copies in a
number of signalling molecules that bind and regulate a
small GTPase called Ras or the Ras-related GTPases, Ral
and Rap. RA-containing proteins include RalGDS, AF6,
RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C
epsilon.
Length = 87
Score = 54.2 bits (131), Expect = 1e-09
Identities = 17/74 (22%), Positives = 26/74 (35%), Gaps = 3/74 (4%)
Query: 228 TVSVRKSATADEVYASAVPKLYLQSPSSAAYFYLFEIVEY-SFERKLEAKEFPHHLYIQN 286
T+ V K TA +V + K L + L E++ ER L E P + +
Sbjct: 16 TLRVSKDTTAQDVIQQLLKKFGLDD--DPEDYALVEVLGDGGLERLLLPDECPLQIQLNA 73
Query: 287 YSTASATCLCIRKW 300
+RK
Sbjct: 74 PRQREDLRFLLRKR 87
>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 = 52.6 bits (127), Expect = 5e-09
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQVVELIKS--GGDVLSLTVI 101
V++V G A KAG++ GD ILAVN V+ + + GD ++LTV+
Sbjct: 28 VASVDPGSPAAKAGLKPGDVILAVNGKPVKSVA--DLRRALAELKPGDKVTLTVL 80
>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 = 51.5 bits (124), Expect = 1e-08
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 3/53 (5%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQVVELI-KSGGDVLSLTV 100
+ V+ G A KAG++ GDRILA+N ++ +V+ + ++ G L+LTV
Sbjct: 16 IGEVVPGSPAAKAGLKAGDRILAINGQKIKSWE--DLVDAVQENPGKPLTLTV 66
>gnl|CDD|201444 pfam00788, RA, Ras association (RalGDS/AF-6) domain. RasGTP
effectors (in cases of AF6, canoe and RalGDS); putative
RasGTP effectors in other cases. Recent evidence (not
yet in MEDLINE) shows that some RA domains do NOT bind
RasGTP. Predicted structure similar to that determined,
and that of the RasGTP-binding domain of Raf kinase.
Length = 87
Score = 48.5 bits (116), Expect = 1e-07
Identities = 19/73 (26%), Positives = 30/73 (41%), Gaps = 3/73 (4%)
Query: 228 TVSVRKSATADEVYASAVPKLYLQSPSSAAYFYLFEIVEYSFERKLEAKEFPHHLYIQNY 287
T+ V + TA EV +A+ K L + L + ER L E P + +Q
Sbjct: 16 TILVSSTTTAQEVIRAALKKFGL--ADDPEDYVLVVLERGGEERVLPDDEKPLQIQLQLP 73
Query: 288 STASATCLCIRKW 300
AS + +R+
Sbjct: 74 GDAS-SRFLLRRR 85
>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 = 52.0 bits (125), Expect = 2e-07
Identities = 27/103 (26%), Positives = 42/103 (40%), Gaps = 6/103 (5%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQVVELIKSG-GDVLSLTVISVSPEE 107
+ + G AEKAGI+ GD+I+ +N +V G + V LI+ G +SL ++ +
Sbjct: 66 IVSPFEGSPAEKAGIKPGDKIIKINGKSVAGMSLDDAVALIRGKKGTKVSLEILRAGKSK 125
Query: 108 A-----ERLEPPDDHSGYQQIDYTEKRSLPISIPDYSYVNTED 145
+R K I I +S TED
Sbjct: 126 PLTFTLKRDRIELQTVKASVKKVGGKSVGYIRISSFSEHTTED 168
>gnl|CDD|132768 cd06093, PX_domain, The Phox Homology domain, a phosphoinositide
binding module. The PX domain is a phosphoinositide
(PI) binding module involved in targeting proteins to
membranes. Proteins containing PX domains interact with
PIs and have been implicated in highly diverse functions
such as cell signaling, vesicular trafficking, protein
sorting, lipid modification, cell polarity and division,
activation of T and B cells, and cell survival. Many
members of this superfamily bind
phosphatidylinositol-3-phosphate (PI3P) but in some
cases, other PIs such as PI4P or PI(3,4)P2, among
others, are the preferred substrates. In addition to
protein-lipid interaction, the PX domain may also be
involved in protein-protein interaction, as in the cases
of p40phox, p47phox, and some sorting nexins (SNXs). The
PX domain is conserved from yeast to humans and is found
in more than 100 proteins. The majority of PX
domain-containing proteins are SNXs, which play
important roles in endosomal sorting.
Length = 106
Score = 43.9 bits (104), Expect = 1e-05
Identities = 23/104 (22%), Positives = 37/104 (35%), Gaps = 35/104 (33%)
Query: 133 ISIPDYSYVNTEDESFVVFNIYM----AGRHLCSRR------------------------ 164
+SIPDY V + +VV+ I + RR
Sbjct: 2 VSIPDYEKVKDGGKKYVVYIIEVTTQGGEEWTVYRRYSDFEELHEKLKKKFPGVILPPLP 61
Query: 165 -------LTEQQLDSRRRGLEIYLEKVCAVRVIAESELMQEFLT 201
L + ++ RR+ LE YL+ + + SE ++EFL
Sbjct: 62 PKKLFGNLDPEFIEERRKQLEQYLQSLLNHPELRNSEELKEFLE 105
>gnl|CDD|223864 COG0793, Prc, Periplasmic protease [Cell envelope biogenesis, outer
membrane].
Length = 406
Score = 46.6 bits (111), Expect = 1e-05
Identities = 16/62 (25%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQVVELIKSGGDVLSLTVISVSPEEA 108
V + + G A KAGI+ GD I+ ++ +V G + + V+LI+ G + +++
Sbjct: 116 VVSPIDGSPAAKAGIKPGDVIIKIDGKSVGGVSLDEAVKLIR--GKPGTKVTLTILRAGG 173
Query: 109 ER 110
+
Sbjct: 174 GK 175
>gnl|CDD|132795 cd06885, PX_SNX17_31, The phosphoinositide binding Phox Homology
domain of Sorting Nexins 17 and 31. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Members of this
subfamily include sorting nexin 17 (SNX17), SNX31, and
similar proteins. They contain an N-terminal PX domain
followed by a truncated FERM (4.1, ezrin, radixin, and
moesin) domain and a unique C-terminal region. SNXs make
up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX17 is known to regulate the
trafficking and processing of a number of proteins. It
binds some members of the low-density lipoprotein
receptor (LDLR) family such as LDLR, VLDLR, ApoER2, and
others, regulating their endocytosis. It also binds
P-selectin and may regulate its lysosomal degradation.
SNX17 is highly expressed in neurons. It binds amyloid
precursor protein (APP) and may be involved in its
intracellular trafficking and processing to amyloid beta
peptide, which plays a central role in the pathogenesis
of Alzheimer's disease. The biological function of SNX31
is unknown.
Length = 104
Score = 43.1 bits (102), Expect = 2e-05
Identities = 27/99 (27%), Positives = 37/99 (37%), Gaps = 31/99 (31%)
Query: 133 ISIPD-YSYVNTEDESFVVFNIYMAGRHLCSRR--------------------------- 164
SIPD + ++V +NI++ G CS R
Sbjct: 2 FSIPDTQELSDEGGSTYVAYNIHINGVLHCSVRYSQLHGLNEQLKKEFGNRKLPPFPPKK 61
Query: 165 ---LTEQQLDSRRRGLEIYLEKVCAVRVIAESELMQEFL 200
LT QL+ RR LE YL+ V IA S++ FL
Sbjct: 62 LLPLTPAQLEERRLQLEKYLQAVVQDPRIANSDIFNSFL 100
>gnl|CDD|216119 pfam00787, PX, PX domain. PX domains bind to phosphoinositides.
Length = 109
Score = 42.3 bits (100), Expect = 3e-05
Identities = 14/39 (35%), Positives = 26/39 (66%)
Query: 163 RRLTEQQLDSRRRGLEIYLEKVCAVRVIAESELMQEFLT 201
R +E+ ++ RR+GLE YL+++ ++ SE++ EFL
Sbjct: 69 GRFSEEFIEKRRKGLEEYLQRLLQHPELSNSEVVLEFLE 107
>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 = 43.0 bits (102), Expect = 2e-04
Identities = 28/103 (27%), Positives = 36/103 (34%), Gaps = 32/103 (31%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVE-------------------------GATHK 83
V+ VL G AEKAG++ GD I +VN + G
Sbjct: 261 VAQVLPGSPAEKAGLKAGDVITSVNGKPISSFADLRRAIGTLKPGKKVTLGILRKGKEKT 320
Query: 84 QVVEL-------IKSGGDVLSLTVISVSPEEAERLEPPDDHSG 119
V L S L LTV ++SPE + L D G
Sbjct: 321 ITVTLGASPEEQASSSNPFLGLTVANLSPEIRKELRLKGDVKG 363
Score = 40.7 bits (96), Expect = 9e-04
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVE-GATHKQVVELIKSGGDVL 96
V+ V++G A +AG++ GD IL+VN V A ++V+ K GG V
Sbjct: 366 VTKVVSGSPAARAGLQPGDVILSVNQQPVSSVAELRKVLARAKKGGRVA 414
>gnl|CDD|221961 pfam13180, PDZ_2, PDZ domain.
Length = 81
Score = 38.8 bits (91), Expect = 3e-04
Identities = 20/55 (36%), Positives = 33/55 (60%), Gaps = 4/55 (7%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQVVELIKSG--GDVLSLTVI 101
V +V G A KAG++ GD IL+++ V + +++E+I +G GD + LTV
Sbjct: 17 VVSVKEGSPAAKAGLKPGDIILSIDGKKVN--SLTELIEVILNGKPGDTVKLTVY 69
>gnl|CDD|223343 COG0265, DegQ, Trypsin-like serine proteases, typically
periplasmic, contain C-terminal PDZ domain
[Posttranslational modification, protein turnover,
chaperones].
Length = 347
Score = 40.6 bits (95), Expect = 8e-04
Identities = 19/53 (35%), Positives = 25/53 (47%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQVVELIKSGGDVLSLTVI 101
V VL G A KAGI+ GD I AVN V + GD ++L ++
Sbjct: 274 VLGVLPGSPAAKAGIKAGDIITAVNGKPVASLSDLVAAVASNRPGDEVALKLL 326
>gnl|CDD|234035 TIGR02860, spore_IV_B, stage IV sporulation protein B. SpoIVB, the
stage IV sporulation protein B of endospore-forming
bacteria such as Bacillus subtilis, is a serine
proteinase, expressed in the spore (rather than mother
cell) compartment, that participates in a proteolytic
activation cascade for Sigma-K. It appears to be
universal among endospore-forming bacteria and occurs
nowhere else [Cellular processes, Sporulation and
germination].
Length = 402
Score = 40.4 bits (95), Expect = 0.001
Identities = 18/44 (40%), Positives = 28/44 (63%), Gaps = 3/44 (6%)
Query: 58 AEKAGIRKGDRILAVNNVNVEGATHKQVVELI-KSGGDVLSLTV 100
E+AGI+ GDRIL +N ++ + LI K+GG+ L+LT+
Sbjct: 126 GEEAGIQIGDRILKINGEKIKNMDD--LANLINKAGGEKLTLTI 167
>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 = 36.3 bits (84), Expect = 0.002
Identities = 15/65 (23%), Positives = 27/65 (41%), Gaps = 8/65 (12%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVN-------NVNVEGATHKQVVEL-IKSGGDVLSLTV 100
V+ V A+KAG+ GD ++AVN ++ VEL + ++ + +
Sbjct: 16 VTFVRDDSPADKAGLVAGDELVAVNGWRVDALQDRLKEYQAGDPVELTVFRDDRLIEVPL 75
Query: 101 ISVSP 105
P
Sbjct: 76 TLADP 80
>gnl|CDD|177681 PLN00049, PLN00049, carboxyl-terminal processing protease;
Provisional.
Length = 389
Score = 38.9 bits (91), Expect = 0.003
Identities = 29/102 (28%), Positives = 48/102 (47%), Gaps = 17/102 (16%)
Query: 40 GELYAPLQHVSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQV-----------VEL 88
A L V+ GG A +AGIR GD ILA++ + EG + + VEL
Sbjct: 98 DGPPAGLVVVAPA-PGGPAARAGIRPGDVILAIDGTSTEGLSLYEAADRLQGPEGSSVEL 156
Query: 89 -IKSGGDVLSLTV----ISVSPEEAERLEPPDDHSGYQQIDY 125
++ G + +T+ +S++P ++ E P +G +I Y
Sbjct: 157 TLRRGPETRLVTLTREKVSLNPVKSRLCEVPGPGAGSPKIGY 198
>gnl|CDD|132790 cd06880, PX_SNX22, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 22. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX22 may be involved in
recruiting other proteins to the membrane via
protein-protein and protein-ligand interaction. The
biological function of SNX22 is not yet known.
Length = 110
Score = 36.5 bits (85), Expect = 0.004
Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 36/100 (36%)
Query: 133 ISIPDYSYVNTEDE-SFVVF--NIYMAGR-HLCSRRLTEQQ------------------- 169
+SIP Y E E + VF + + GR H +R +E
Sbjct: 3 VSIPSYRLEVDESEKPYTVFTIEVLVNGRRHTVEKRYSEFHALHKKLKKSIKTPDFPPKR 62
Query: 170 --------LDSRRRGLEIYLEKVCAVRVIAESELMQEFLT 201
L+ RR+GLE YL+ ++ +EL ++ L
Sbjct: 63 VRNWNPKVLEQRRQGLEAYLQG-----LLKINELPKQLLD 97
>gnl|CDD|182820 PRK10898, PRK10898, serine endoprotease; Provisional.
Length = 353
Score = 38.4 bits (90), Expect = 0.004
Identities = 27/82 (32%), Positives = 35/82 (42%), Gaps = 18/82 (21%)
Query: 24 NVRGQVSEGGQLRSINGELYAPLQHVSAVLAGGAAEKAGIRKGDRILAVNNVNVEGA--T 81
+ Q QL+ I V+ V G A KAGI+ D I++VNN A T
Sbjct: 267 PLHAQGGGIDQLQGIV---------VNEVSPDGPAAKAGIQVNDLIISVNNKPAISALET 317
Query: 82 HKQVVELIKSGGDVLSLTVISV 103
QV E I+ G +VI V
Sbjct: 318 MDQVAE-IRPG------SVIPV 332
>gnl|CDD|223821 COG0750, COG0750, Predicted membrane-associated Zn-dependent
proteases 1 [Cell envelope biogenesis, outer membrane].
Length = 375
Score = 37.5 bits (87), Expect = 0.008
Identities = 23/66 (34%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQVVE-LIKSGGDVLSLTVISVSPEE 107
V V AA AG+R GDRI+AV+ V V L+ + GDV +L I V +
Sbjct: 133 VGEVAPKSAAALAGLRPGDRIVAVDGEKVASWD--DVRRLLVAAAGDVFNLLTILVIRLD 190
Query: 108 AERLEP 113
E
Sbjct: 191 GEAHAV 196
>gnl|CDD|214610 smart00312, PX, PhoX homologous domain, present in p47phox and
p40phox. Eukaryotic domain of unknown function present
in phox proteins, PLD isoforms, a PI3K isoform.
Length = 105
Score = 35.0 bits (81), Expect = 0.010
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 162 SRRLTEQQLDSRRRGLEIYLEKVCAVRV-IAESELMQEFLT 201
+E+ ++ RRRGLE YL+ + I SE++ EFL
Sbjct: 65 LNNFSEEFIEKRRRGLEKYLQSLLNHPELINHSEVVLEFLE 105
>gnl|CDD|132813 cd07280, PX_YPT35, The phosphoinositide binding Phox Homology
domain of the fungal protein YPT35. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions such as cell signaling,
vesicular trafficking, protein sorting, and lipid
modification, among others. This subfamily is composed
of YPT35 proteins from the fungal subkingdom Dikarya.
The PX domain is involved in targeting of proteins to
PI-enriched membranes, and may also be involved in
protein-protein interaction. The PX domain of YPT35
binds to phosphatidylinositol 3-phosphate (PI3P). It
also serves as a protein interaction domain, binding to
members of the Yip1p protein family, which localize to
the ER and Golgi. YPT35 is mainly associated with
endosomes and together with Yip1p proteins, may be
involved in a specific function in the endocytic
pathway.
Length = 120
Score = 35.0 bits (81), Expect = 0.013
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 170 LDSRRRGLEIYLEKVCAVRVIAESELMQEFL 200
L+ RRRGL+ +L V V S +++EFL
Sbjct: 88 LEKRRRGLQYFLNCVLLNPVFGGSPVVKEFL 118
>gnl|CDD|132776 cd06866, PX_SNX8_Mvp1p_like, The phosphoinositide binding Phox
Homology domain of Sorting Nexin 8 and yeast Mvp1p. The
PX domain is a phosphoinositide (PI) binding module
present in many proteins with diverse functions. Sorting
nexins (SNXs) make up the largest group among PX domain
containing proteins. They are involved in regulating
membrane traffic and protein sorting in the endosomal
system. The PX domain of SNXs binds PIs and targets the
protein to PI-enriched membranes. SNXs differ from each
other in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. Some SNXs
are localized in early endosome structures such as
clathrin-coated pits, while others are located in late
structures of the endocytic pathway. SNX8 and the yeast
counterpart Mvp1p are involved in sorting and delivery
of late-Golgi proteins, such as carboxypeptidase Y, to
vacuoles.
Length = 105
Score = 33.4 bits (77), Expect = 0.041
Identities = 15/33 (45%), Positives = 23/33 (69%)
Query: 170 LDSRRRGLEIYLEKVCAVRVIAESELMQEFLTD 202
L++RRRGL +L V V++E EL++ FLT+
Sbjct: 72 LEARRRGLSRFLNLVARHPVLSEDELVRTFLTE 104
>gnl|CDD|182723 PRK10779, PRK10779, zinc metallopeptidase RseP; Provisional.
Length = 449
Score = 35.4 bits (82), Expect = 0.041
Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 10/63 (15%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEG----------ATHKQVVELIKSGGDVLSL 98
++ V AA KAG++ GDRI+ V+ + K + I+ G LSL
Sbjct: 225 LAEVQPNSAASKAGLQAGDRIVKVDGQPLTQWQTFVTLVRDNPGKPLALEIERQGSPLSL 284
Query: 99 TVI 101
T+
Sbjct: 285 TLT 287
>gnl|CDD|132803 cd06893, PX_SNX19, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 19. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX19 contains an N-terminal
PXA domain, a central PX domain, and a C-terminal domain
that is conserved in some SNXs. These domains are also
found in SNX13 and SNX14, which also contain a regulator
of G protein signaling (RGS) domain in between the PXA
and PX domains. SNX19 interacts with IA-2, a major
autoantigen found in type-1 diabetes. It inhibits the
conversion of phosphatidylinositol-4,5-bisphosphate
[PI(4,5)P2] to PI(3,4,5)P3, which leads in the decrease
of protein phosphorylation in the Akt signaling pathway,
resulting in apoptosis. SNX19 may also be implicated in
coronary heart disease and thyroid oncocytic tumors.
Length = 132
Score = 33.7 bits (77), Expect = 0.050
Identities = 13/36 (36%), Positives = 26/36 (72%)
Query: 165 LTEQQLDSRRRGLEIYLEKVCAVRVIAESELMQEFL 200
+ + ++++RR LE +L ++C++ I+ SE +QEFL
Sbjct: 94 MDKDKIEARRGLLETFLRQLCSIPEISNSEEVQEFL 129
>gnl|CDD|236802 PRK10942, PRK10942, serine endoprotease; Provisional.
Length = 473
Score = 33.6 bits (77), Expect = 0.17
Identities = 26/79 (32%), Positives = 35/79 (44%), Gaps = 24/79 (30%)
Query: 20 GFGF--------NVRGQVSEGGQLR----SING-ELYAPLQH-----------VSAVLAG 55
G GF N+ Q+ E GQ++ I G EL + L VS VL
Sbjct: 262 GIGFAIPSNMVKNLTSQMVEYGQVKRGELGIMGTELNSELAKAMKVDAQRGAFVSQVLPN 321
Query: 56 GAAEKAGIRKGDRILAVNN 74
+A KAGI+ GD I ++N
Sbjct: 322 SSAAKAGIKAGDVITSLNG 340
Score = 30.9 bits (70), Expect = 1.1
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVE 78
V V G A + G++KGD I+ N V+
Sbjct: 412 VDNVKPGTPAAQIGLKKGDVIIGANQQPVK 441
>gnl|CDD|214612 smart00314, RA, Ras association (RalGDS/AF-6) domain. RasGTP
effectors (in cases of AF6, canoe and RalGDS); putative
RasGTP effectors in other cases. Kalhammer et al. have
shown that not all RA domains bind RasGTP. Predicted
structure similar to that determined, and that of the
RasGTP-binding domain of Raf kinase. Predicted RA
domains in PLC210 and nore1 found to bind RasGTP.
Included outliers (Grb7, Grb14, adenylyl cyclases etc.).
Length = 90
Score = 31.1 bits (71), Expect = 0.19
Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 7/71 (9%)
Query: 216 DIKI---LLPDREVITVSVRKSATADEVYASAVPKLYLQS-PSSAAYFYLFEIVEYSFER 271
+++ LP T+ V TA +V + K +L P + L E++ ER
Sbjct: 4 VLRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEE---YVLVEVLPDGKER 60
Query: 272 KLEAKEFPHHL 282
L E P L
Sbjct: 61 VLPDDENPLQL 71
>gnl|CDD|226483 COG3975, COG3975, Predicted protease with the C-terminal PDZ domain
[General function prediction only].
Length = 558
Score = 33.6 bits (77), Expect = 0.19
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVN 73
++ V GG A KAG+ GD+I+A+N
Sbjct: 466 ITFVFPGGPAYKAGLSPGDKIVAIN 490
>gnl|CDD|132772 cd06862, PX_SNX9_18_like, The phosphoinositide binding Phox
Homology domain of Sorting Nexins 9 and 18. The PX
domain is a phosphoinositide (PI) binding module present
in many proteins with diverse functions. Sorting nexins
(SNXs) make up the largest group among PX domain
containing proteins. They are involved in regulating
membrane traffic and protein sorting in the endosomal
system. The PX domain of SNXs binds PIs and targets the
protein to PI-enriched membranes. SNXs differ from each
other in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. This
subfamily consists of SNX9, SNX18, and similar proteins.
They contain an N-terminal Src Homology 3 (SH3) domain,
a PX domain, and a C-terminal Bin/Amphiphysin/Rvs (BAR)
domain. SNX9 is localized to plasma membrane endocytic
sites and acts primarily in clathrin-mediated
endocytosis, while SNX18 is localized to peripheral
endosomal structures, and acts in a trafficking pathway
that is clathrin-independent but relies on AP-1 and
PACS1.
Length = 125
Score = 31.9 bits (73), Expect = 0.19
Identities = 12/38 (31%), Positives = 24/38 (63%)
Query: 164 RLTEQQLDSRRRGLEIYLEKVCAVRVIAESELMQEFLT 201
R E ++ RR LE+++ ++ V+++SE+ + FLT
Sbjct: 68 RFEEDFIEKRRERLELWMNRLARHPVLSQSEVFRHFLT 105
>gnl|CDD|132819 cd07286, PX_SNX18, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 18. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX18, like SNX9, contains an
N-terminal Src Homology 3 (SH3) domain, a PX domain, and
a C-terminal Bin/Amphiphysin/Rvs (BAR) domain, which
detects membrane curvature. The PX-BAR structural unit
helps determine specific membrane localization. SNX18 is
localized to peripheral endosomal structures, and acts
in a trafficking pathway that is clathrin-independent
but relies on AP-1 and PACS1.
Length = 127
Score = 31.6 bits (71), Expect = 0.29
Identities = 16/56 (28%), Positives = 28/56 (50%)
Query: 146 ESFVVFNIYMAGRHLCSRRLTEQQLDSRRRGLEIYLEKVCAVRVIAESELMQEFLT 201
E F V ++ + R E + RR+GL +++ +C+ V+A + Q FLT
Sbjct: 50 EKFPVISVPHIPEKQATGRFEEDFISKRRKGLIWWMDHMCSHPVLARCDAFQHFLT 105
>gnl|CDD|132786 cd06876, PX_MDM1p, The phosphoinositide binding Phox Homology
domain of yeast MDM1p. The PX domain is a
phosphoinositide binding (PI) module present in many
proteins with diverse functions such as cell signaling,
vesicular trafficking, protein sorting, and lipid
modification, among others. Yeast MDM1p is a
filament-like protein localized in punctate structures
distributed throughout the cytoplasm. It plays an
important role in nuclear and mitochondrial transmission
to daughter buds. Members of this subfamily show similar
domain architectures as some sorting nexins (SNXs). Some
members are similar to SNX19 in that they contain an
N-terminal PXA domain, a central PX domain, and a
C-terminal domain that is conserved in some SNXs. Others
are similar to SNX13 and SNX14, which also harbor these
three domains as well as a regulator of G protein
signaling (RGS) domain in between the PXA and PX
domains. SNXs make up the largest group among PX domain
containing proteins. They are involved in regulating
membrane traffic and protein sorting in the endosomal
system. The PX domain of SNXs binds PIs and targets the
protein to PI-enriched membranes. SNXs differ from each
other in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway.
Length = 133
Score = 31.1 bits (71), Expect = 0.36
Identities = 10/33 (30%), Positives = 21/33 (63%)
Query: 170 LDSRRRGLEIYLEKVCAVRVIAESELMQEFLTD 202
++ RR+ LE YL+++ + + E E ++FL+
Sbjct: 101 VEERRKALEKYLQELLKIPEVCEDEEFRKFLSQ 133
>gnl|CDD|181466 PRK08558, PRK08558, adenine phosphoribosyltransferase; Provisional.
Length = 238
Score = 31.5 bits (72), Expect = 0.57
Identities = 15/55 (27%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 60 KAGIRKGDRILAVNNVNVEGATHKQVVELI-KSGGDVLSL-TVISVSPEEAERLE 112
+ ++KGDR+L V+++ G T + +++L ++G DV+ + +I+V +R
Sbjct: 170 ASALKKGDRVLIVDDIIRSGETQRALLDLARQAGADVVGVFFLIAVGEVGIDRAR 224
>gnl|CDD|132787 cd06877, PX_SNX14, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 14. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX14 may be involved in
recruiting other proteins to the membrane via
protein-protein and protein-ligand interaction. It is
expressed in the embryonic nervous system of mice, and
is co-expressed in the motoneurons and the anterior
pituary with Islet-1. SNX14 shows a similar domain
architecture as SNX13, containing an N-terminal PXA
domain, a regulator of G protein signaling (RGS) domain,
a PX domain, and a C-terminal domain that is conserved
in some SNXs.
Length = 119
Score = 30.0 bits (68), Expect = 0.69
Identities = 11/34 (32%), Positives = 21/34 (61%)
Query: 168 QQLDSRRRGLEIYLEKVCAVRVIAESELMQEFLT 201
+ L+S+R E +L+K+ + SEL+ +FL+
Sbjct: 84 EFLESKREIFEEFLQKLLQKPELRGSELLYDFLS 117
>gnl|CDD|235984 PRK07272, PRK07272, amidophosphoribosyltransferase; Provisional.
Length = 484
Score = 31.6 bits (72), Expect = 0.72
Identities = 12/32 (37%), Positives = 22/32 (68%)
Query: 62 GIRKGDRILAVNNVNVEGATHKQVVELIKSGG 93
G+ KG R++ V++ V G T +++V+L+K G
Sbjct: 346 GVVKGKRVVMVDDSIVRGTTSRRIVQLLKEAG 377
>gnl|CDD|132769 cd06859, PX_SNX1_2_like, The phosphoinositide binding Phox Homology
domain of Sorting Nexins 1 and 2. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. This subfamily consists of
SNX1, SNX2, and similar proteins. They harbor a
Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane
curvature, C-terminal to the PX domain. Both domains
have been shown to determine the specific
membrane-targeting of SNX1. SNX1 and SNX2 are components
of the retromer complex, a membrane coat multimeric
complex required for endosomal retrieval of lysosomal
hydrolase receptors to the Golgi. The retromer consists
of a cargo-recognition subcomplex and a subcomplex
formed by a dimer of sorting nexins (SNX1 and/or SNX2),
which ensures effcient cargo sorting by facilitating
proper membrane localization of the cargo-recognition
subcomplex.
Length = 114
Score = 29.1 bits (66), Expect = 1.2
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 173 RRRGLEIYLEKVCAVRVIAESELMQEFLT 201
RR LE +L ++ A V+ + + FL
Sbjct: 84 RRAALERFLRRIAAHPVLRKDPDFRLFLE 112
>gnl|CDD|132774 cd06864, PX_SNX4, The phosphoinositide binding Phox Homology domain
of Sorting Nexin 4. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions. Sorting nexins (SNXs) make up the
largest group among PX domain containing proteins. They
are involved in regulating membrane traffic and protein
sorting in the endosomal system. The PX domain of SNXs
binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX4 is involved in recycling
traffic from the sorting endosome (post-Golgi endosome)
back to the late Golgi. It shows a similar domain
architecture as SNX1-2, among others, containing a
Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane
curvature, C-terminal to the PX domain. SNX4 is
implicated in the regulation of plasma membrane receptor
trafficking and interacts with receptors for EGF,
insulin, platelet-derived growth factor and the long
form of the leptin receptor.
Length = 129
Score = 28.9 bits (65), Expect = 1.8
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 170 LDSRRRGLEIYLEKVCAVRVIAESELMQEFLTDA 203
++ RR GLE +L +V + + ++ EFLT
Sbjct: 96 VERRRAGLENFLLRVAGHPELCQDKIFLEFLTHE 129
>gnl|CDD|132833 cd07300, PX_SNX20, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 20. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. Some SNXs are localized in
early endosome structures such as clathrin-coated pits,
while others are located in late structures of the
endocytic pathway. SNX20 interacts with P-Selectin
glycoprotein ligand-1 (PSGL-1), a surface-expressed
mucin that acts as a ligand for the selectin family of
adhesion proteins. The PX domain of SNX20 binds PIs and
targets the SNX20/PSGL-1 complex to endosomes. SNX20 may
function in the sorting and cycling of PSGL-1 into
endosomes.
Length = 114
Score = 28.6 bits (64), Expect = 2.0
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 162 SRRLTEQQLDSRRRGLEIYLEKVCAVRVIAESELMQEFLT 201
+ +E+ + RR L YL + ++R + S+ Q+FLT
Sbjct: 71 TGNFSEEIIAERRVALRDYLTLLYSLRFVRRSQAFQDFLT 110
>gnl|CDD|234191 TIGR03377, glycerol3P_GlpA, glycerol-3-phosphate dehydrogenase,
anaerobic, A subunit. Members of this protein family
are the A subunit, product of the glpA gene, of a
three-subunit, membrane-anchored, FAD-dependent
anaerobic glycerol-3-phosphate dehydrogenase [Energy
metabolism, Anaerobic].
Length = 516
Score = 30.0 bits (68), Expect = 2.1
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 81 THKQVVELIKSGGDVLSLTVISVSPEEAERLE 112
T+ +V LI+ GG V + V E ER+E
Sbjct: 147 TYTKVTGLIREGGRVTGVKVEDHKTGEEERIE 178
>gnl|CDD|238943 cd01985, ETF, The electron transfer flavoprotein (ETF) serves as
a specific electron acceptor for various mitochondrial
dehydrogenases. ETF transfers electrons to the main
respiratory chain via ETF-ubiquinone oxidoreductase.
ETF is an heterodimer that consists of an alpha and a
beta subunit which binds one molecule of FAD per dimer
. A similar system also exists in some bacteria. The
homologous pair of proteins (FixA/FixB) are essential
for nitrogen fixation. The alpha subunit of ETF is
structurally related to the bacterial nitrogen fixation
protein fixB which could play a role in a redox process
and feed electrons to ferredoxin. The beta subunit
protein is distantly related to and forms a heterodimer
with the alpha subunit.
Length = 181
Score = 29.1 bits (66), Expect = 2.4
Identities = 17/74 (22%), Positives = 30/74 (40%), Gaps = 16/74 (21%)
Query: 29 VSEGGQLRSINGELYAPLQHVSAVLAGGAAEKAGIRKG-----DRILAVNNVNVEGATH- 82
V +L+ GE V+A++ G A + +R+ D++L V + + G
Sbjct: 25 VEAALRLKEYGGE-------VTALVIGPPAAEVALREALAMGADKVLLVEDPALAGYDPE 77
Query: 83 ---KQVVELIKSGG 93
K + LIK
Sbjct: 78 ATAKALAALIKKEK 91
>gnl|CDD|132779 cd06869, PX_UP2_fungi, The phosphoinositide binding Phox Homology
domain of uncharacterized fungal proteins. The PX
domain is a phosphoinositide (PI) binding module
involved in targeting proteins to PI-enriched membranes.
Members in this subfamily are uncharacterized fungal
proteins containing a PX domain. PX domain harboring
proteins have been implicated in highly diverse
functions such as cell signaling, vesicular trafficking,
protein sorting, lipid modification, cell polarity and
division, activation of T and B cells, and cell
survival. In addition to protein-lipid interaction, the
PX domain may also be involved in protein-protein
interaction.
Length = 119
Score = 28.4 bits (64), Expect = 2.4
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 174 RRGLEIYLEKVCAVRVIAESELMQEFLTD 202
R L YL + +A S ++QEFLT
Sbjct: 90 RLSLRQYLRSLLKDPEVAHSSILQEFLTS 118
>gnl|CDD|132809 cd07276, PX_SNX16, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 16. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX16 contains a central PX
domain followed by a coiled-coil region. SNX16 is
localized in early and recycling endosomes through the
binding of its PX domain to
phosphatidylinositol-3-phosphate (PI3P). It plays a role
in epidermal growth factor (EGF) signaling by regulating
EGF receptor membrane trafficking.
Length = 110
Score = 28.5 bits (64), Expect = 2.4
Identities = 10/31 (32%), Positives = 21/31 (67%)
Query: 170 LDSRRRGLEIYLEKVCAVRVIAESELMQEFL 200
L+ R+ GL+ ++ + A + IA+ +L++EF
Sbjct: 77 LEERQLGLQAFVNNIMAHKDIAKCKLVREFF 107
>gnl|CDD|132770 cd06860, PX_SNX7_30_like, The phosphoinositide binding Phox
Homology domain of Sorting Nexins 7 and 30. The PX
domain is a phosphoinositide (PI) binding module present
in many proteins with diverse functions. Sorting nexins
(SNXs) make up the largest group among PX domain
containing proteins. They are involved in regulating
membrane traffic and protein sorting in the endosomal
system. The PX domain of SNXs binds PIs and targets the
protein to PI-enriched membranes. SNXs differ from each
other in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. Some SNXs
are localized in early endosome structures such as
clathrin-coated pits, while others are located in late
structures of the endocytic pathway. This subfamily
consists of SNX7, SNX30, and similar proteins. They
harbor a Bin/Amphiphysin/Rvs (BAR) domain, which detects
membrane curvature, C-terminal to the PX domain, similar
to the sorting nexins SNX1-2, SNX4-6, SNX8, and SNX32.
Both domains have been shown to determine the specific
membrane-targeting of SNX1. The specific function of the
sorting nexins in this subfamily has yet to be
elucidated.
Length = 116
Score = 28.5 bits (64), Expect = 2.6
Identities = 10/39 (25%), Positives = 22/39 (56%)
Query: 164 RLTEQQLDSRRRGLEIYLEKVCAVRVIAESELMQEFLTD 202
R + + + +R R L +L ++ V++ +E ++ FLT
Sbjct: 77 RFSPEFVATRMRALHKFLNRIVEHPVLSFNEHLKVFLTA 115
>gnl|CDD|132818 cd07285, PX_SNX9, The phosphoinositide binding Phox Homology domain
of Sorting Nexin 9. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions. Sorting nexins (SNXs) make up the
largest group among PX domain containing proteins. They
are involved in regulating membrane traffic and protein
sorting in the endosomal system. The PX domain of SNXs
binds PIs and targets the protein to PI-enriched
membranes. SNXs differ from each other in PI-binding
specificity and affinity, and the presence of other
protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX9, also known as SH3PX1, is
a cytosolic protein that interacts with proteins
associated with clathrin-coated pits such as
Cdc-42-associated tyrosine kinase 2 (ACK2). It contains
an N-terminal Src Homology 3 (SH3) domain, a PX domain,
and a C-terminal Bin/Amphiphysin/Rvs (BAR) domain, which
detects membrane curvature. The PX-BAR structural unit
helps determine specific membrane localization. Through
its SH3 domain, SNX9 binds class I polyproline sequences
found in dynamin 1/2 and the WASP/N-WASP actin
regulators. SNX9 is localized to plasma membrane
endocytic sites and acts primarily in clathrin-mediated
endocytosis. Its array of interacting partners suggests
that SNX9 functions at the interface between endocytosis
and actin cytoskeletal organization.
Length = 126
Score = 28.5 bits (63), Expect = 2.6
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 164 RLTEQQLDSRRRGLEIYLEKVCAVRVIAESELMQEFL 200
R E+ + R L+ ++ ++C VI+ESE+ Q+FL
Sbjct: 69 RFEEEFIKMRMERLQAWMTRMCRHPVISESEVFQQFL 105
>gnl|CDD|238491 cd00991, PDZ_archaeal_metalloprotease, PDZ domain of archaeal 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 = 27.3 bits (61), Expect = 2.8
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQVVELIKSG--GDVLSLTVIS 102
+ V+ G AE A + GD I ++N + +E +K G+V+++TV+
Sbjct: 14 IVGVIVGSPAENAVLHTGDVIYSINGTPITTLE--DFMEALKPTKPGEVITVTVLP 67
>gnl|CDD|132812 cd07279, PX_SNX20_21_like, The phosphoinositide binding Phox
Homology domain of Sorting Nexins 20 and 21. The PX
domain is a phosphoinositide (PI) binding module present
in many proteins with diverse functions. Sorting nexins
(SNXs) make up the largest group among PX domain
containing proteins. They are involved in regulating
membrane traffic and protein sorting in the endosomal
system. The PX domain of SNXs binds PIs and targets the
protein to PI-enriched membranes. SNXs differ from each
other in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. This
subfamily consists of SNX20, SNX21, and similar
proteins. SNX20 interacts with P-Selectin glycoprotein
ligand-1 (PSGL-1), a surface-expressed mucin that acts
as a ligand for the selectin family of adhesion
proteins. It may function in the sorting and cycling of
PSGL-1 into endosomes. SNX21, also called SNX-L, is
distinctly and highly-expressed in fetal liver and may
be involved in protein sorting and degradation during
embryonic liver development.
Length = 112
Score = 28.1 bits (63), Expect = 2.9
Identities = 7/29 (24%), Positives = 15/29 (51%)
Query: 173 RRRGLEIYLEKVCAVRVIAESELMQEFLT 201
R R E +L + ++ + +S+ +FL
Sbjct: 82 RSRAFEQFLGHILSIPNLRDSKAFLDFLQ 110
>gnl|CDD|234386 TIGR03900, prc_long_Delta, putative carboxyl-terminal-processing
protease, deltaproteobacterial. This model describes a
multidomain protein of about 1070 residues, restricted
to the order Myxococcales in the Deltaproteobacteria.
Members contain a PDZ domain (pfam00595), an S41 family
peptidase domain (pfam03572), and an SH3 domain
(pfam06347). A core region of this family, including PDZ
and S41 regions, is described by TIGR00225, C-terminal
processing peptidase, which recognizes the Prc protease.
The species distribution of this family approximates
that of largely Deltaproteobacterial C-terminal putative
protein-sorting domain, TIGR03901, analogous to LPXTG
and PEP-CTERM, but the co-occurrence may reflect shared
restriction to the Myxococcales rather than a
substrate/target relationship.
Length = 973
Score = 29.7 bits (67), Expect = 2.9
Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVNVEGATHKQVVELIKSGGDV-LSLTVISVSPEE 107
V V+ G A +AG+++ D I+ +++ + T V ++ D +++ V +E
Sbjct: 155 VVRVIPGTPAARAGLQRNDVIVKIDDESTVNMTLNDAVGRLRGPPDTKVTIWVRREGWDE 214
Query: 108 AERLE 112
A+R E
Sbjct: 215 AKRFE 219
>gnl|CDD|132322 TIGR03279, cyano_FeS_chp, putative FeS-containing
Cyanobacterial-specific oxidoreductase. Members of
this protein family are predicted FeS-containing
oxidoreductases of unknown function, apparently
restricted to and universal across the Cyanobacteria.
The high trusted cutoff score for this model, 700 bits,
excludes homologs from other lineages. This exclusion
seems justified because a significant number of
sequence positions are simultaneously unique to and
invariant across the Cyanobacteria, suggesting a
specialized, conserved function, perhaps related to
photosynthesis. A distantly related protein family,
TIGR03278, in universal in and restricted to archaeal
methanogens, and may be linked to methanogenesis.
Length = 433
Score = 29.3 bits (66), Expect = 3.6
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNV 75
+SAVL G AE+ G GD ++++N V
Sbjct: 2 ISAVLPGSIAEELGFEPGDALVSINGV 28
>gnl|CDD|132805 cd06895, PX_PLD, The phosphoinositide binding Phox Homology domain
of Phospholipase D. The PX domain is a phosphoinositide
(PI) binding module present in many proteins with
diverse functions such as cell signaling, vesicular
trafficking, protein sorting, and lipid modification,
among others. Phospholipase D (PLD) catalyzes the
hydrolysis of the phosphodiester bond of
phosphatidylcholine to generate membrane-bound
phosphatidic acid and choline. Members of this subfamily
contain PX and Pleckstrin Homology (PH) domains in
addition to the catalytic domain. PLD activity has been
detected in viruses, bacteria, yeast, plants, and
mammals, but the PX domain is not present in PLDs from
viruses and bacteria. PLDs are implicated in many
cellular functions like signaling, cytoskeletal
reorganization, vesicular transport, stress responses,
and the control of differentiation, proliferation, and
survival. Vertebrates contain two PLD isozymes, PLD1 and
PLD2. PLD1 is located mainly in intracellular membranes
while PLD2 is associated with plasma membranes. The PX
domain is involved in targeting of proteins to
PI-enriched membranes, and may also be involved in
protein-protein interaction.
Length = 140
Score = 28.1 bits (63), Expect = 3.6
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 164 RLTEQQLDSRRRGLEIYLEKVCAVRVIAESELMQEFL 200
++E+QLDSR++ LE YL+ + + EFL
Sbjct: 101 LVSEEQLDSRKKQLENYLQNLLKIPDYRNHPETLEFL 137
>gnl|CDD|176044 cd08399, C2_PI3K_class_I_gamma, C2 domain present in class I gamma
phosphatidylinositol 3-kinases (PI3Ks). PI3Ks (AKA
phosphatidylinositol (PtdIns) 3-kinases) regulate cell
processes such as cell growth, differentiation,
proliferation, and motility. PI3Ks work on
phosphorylation of phosphatidylinositol,
phosphatidylinositide (4)P (PtdIns (4)P),2 or
PtdIns(4,5)P2. Specifically they phosphorylate the D3
hydroxyl group of phosphoinositol lipids on the inositol
ring. There are 3 classes of PI3Ks based on structure,
regulation, and specificity. All classes contain a C2
domain, a PIK domain, and a kinase catalytic domain. The
members here are class I, gamma isoform PI3Ks and
contain both a Ras-binding domain and a p85-binding
domain. Class II PI3Ks contain both of these as well as
a PX domain, and a C-terminal C2 domain containing a
nuclear localization signal. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. Members have a type-I
topology.
Length = 178
Score = 28.7 bits (64), Expect = 3.6
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 141 VNTEDESFVVFNIYMAGRHLCSRRLT 166
NT+ FV NI + LC RR +
Sbjct: 26 RNTDLTVFVEANIQHGQQVLCQRRTS 51
>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 = 29.0 bits (65), Expect = 4.0
Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 10/66 (15%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVNNVN----------VEGATHKQVVELIKSGGDVLSL 98
+S V AEKAG+++GD I ++N V+ K + ++ G+ LS+
Sbjct: 206 LSDVTPNSPAEKAGLKEGDYIQSINGEKLRSWTDFVSAVKENPGKSMDIKVERNGETLSI 265
Query: 99 TVISVS 104
++ +
Sbjct: 266 SLTPEA 271
>gnl|CDD|236235 PRK08314, PRK08314, long-chain-fatty-acid--CoA ligase; Validated.
Length = 546
Score = 29.2 bits (66), Expect = 4.3
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 43 YAPLQHVSAVLAGGAAEKAGIRKGDRIL 70
Y L + LAG ++ G+RKGDR+L
Sbjct: 38 YRELLEEAERLAGYLQQECGVRKGDRVL 65
>gnl|CDD|132173 TIGR03129, one_C_dehyd_B, formylmethanofuran dehydrogenase subunit
B. Members of this largely archaeal protein family are
subunit B of the formylmethanofuran dehydrogenase.
Nomenclature in some bacteria may reflect inclusion of
the formyltransferase described by TIGR03119 as part of
the complex, and therefore call this protein
formyltransferase/hydrolase complex Fhc subunit C. Note
that this model does not distinguish tungsten (FwdB)
from molybdenum-containing (FmdB) forms of this enzyme.
Length = 421
Score = 29.2 bits (66), Expect = 4.4
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 223 DREVITVSVRKSATA 237
DR VI V RK+ TA
Sbjct: 174 DRTVIVVDPRKTDTA 188
>gnl|CDD|235134 PRK03584, PRK03584, acetoacetyl-CoA synthetase; Provisional.
Length = 655
Score = 29.0 bits (66), Expect = 4.5
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 6/45 (13%)
Query: 29 VSEGGQLRSIN-GELYAPLQHVSAVLAGGAAEKAGIRKGDRILAV 72
E G R ++ EL V+A+ A A G+ GDR+ A
Sbjct: 106 RGEDGPRRELSWAELRR---QVAALAAALRA--LGVGPGDRVAAY 145
>gnl|CDD|182262 PRK10139, PRK10139, serine endoprotease; Provisional.
Length = 455
Score = 28.8 bits (64), Expect = 5.0
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 49 VSAVLAGGAAEKAGIRKGDRILAVN 73
VS VL + KAG++ GD I ++N
Sbjct: 294 VSEVLPNSGSAKAGVKAGDIITSLN 318
>gnl|CDD|233377 TIGR01367, pyrE_Therm, orotate phosphoribosyltransferase, Thermus
family. This model represents a distinct clade of
orotate phosphoribosyltransferases. Members include the
experimentally determined example from Thermus aquaticus
and additional examples from Caulobacter crescentus,
Helicobacter pylori, Mesorhizobium loti, and related
species [Purines, pyrimidines, nucleosides, and
nucleotides, Pyrimidine ribonucleotide biosynthesis].
Length = 187
Score = 28.2 bits (63), Expect = 5.9
Identities = 11/40 (27%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 63 IRKGDRILAVNNVNVEGATHKQVVELIKS-GGDVLSLTVI 101
++ G++ +AV +V G + + + I+ GG V+ L I
Sbjct: 102 VKPGEKFVAVEDVVTTGGSLLEAIRAIEGQGGQVVGLACI 141
>gnl|CDD|100001 cd04955, GT1_like_6, This family is most closely related to the GT1
family of glycosyltransferases. Glycosyltransferases
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. The acceptor molecule can be a lipid,
a protein, a heterocyclic compound, or another
carbohydrate residue. This group of glycosyltransferases
is most closely related to the previously defined
glycosyltransferase family 1 (GT1). The members of this
family may transfer UDP, ADP, GDP, or CMP linked sugars.
The diverse enzymatic activities among members of this
family reflect a wide range of biological functions. The
protein structure available for this family has the GTB
topology, one of the two protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility. The members of this family are found in
certain bacteria and Archaea.
Length = 363
Score = 28.3 bits (64), Expect = 7.3
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 8/57 (14%)
Query: 58 AEKAGIRKGDRILAVNNV--NVEGATHKQVVELIKSGGDVLSLTVISVSPEEAERLE 112
EK ++ DR++A + + + I G D + VS EE E L+
Sbjct: 136 GEKLAVKFADRLIADSPGIKEYLKEKYGRDSTYIPYGADHV------VSSEEDEILK 186
>gnl|CDD|216553 pfam01528, Herpes_glycop, Herpesvirus glycoprotein M. The
herpesvirus glycoprotein M (gM) is an integral membrane
protein predicted to contain 8 transmembrane segments.
Glycoprotein M is not essential for viral replication.
Length = 374
Score = 28.0 bits (63), Expect = 8.5
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 244 AVPKLYLQSPSSAAYFYLFEIV 265
P L+L++P Y Y +V
Sbjct: 66 LTPTLFLETPEMVFYVYFTFLV 87
>gnl|CDD|223019 PHA03237, PHA03237, envelope glycoprotein M; Provisional.
Length = 424
Score = 28.2 bits (63), Expect = 8.8
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 245 VPKLYLQSPSSAAYFYLFEIV 265
VP L+ ++ S+ A+FY +V
Sbjct: 84 VPTLFFETKSTVAFFYYTTLV 104
>gnl|CDD|216651 pfam01697, Glyco_transf_92, Glycosyltransferase family 92. Members
of this family act as galactosyltransferases, belonging
to glycosyltransferase family 92. The aligned region
contains several conserved cysteine residues and several
charged residues that may be catalytic residues. This is
supported by the inclusion of this family in the GT-A
glycosyl transferase superfamily.
Length = 266
Score = 27.8 bits (62), Expect = 9.0
Identities = 16/71 (22%), Positives = 24/71 (33%), Gaps = 6/71 (8%)
Query: 109 ERLEPPDDHSGYQQIDYTEKRSLPISIPDYSYVNTE------DESFVVFNIYMAGRHLCS 162
ERL P + + ++ + ISI Y + N SF + L S
Sbjct: 107 ERLVPRNAPTYGEEFLDLLRSLPDISIGSYGFRNQWVVKYSFLPSFFENSPSELVTSLYS 166
Query: 163 RRLTEQQLDSR 173
R E L+
Sbjct: 167 CRTRETGLEQE 177
>gnl|CDD|216082 pfam00723, Glyco_hydro_15, Glycosyl hydrolases family 15. In
higher organisms this family is represented by
phosphorylase kinase subunits.
Length = 416
Score = 27.8 bits (62), Expect = 9.2
Identities = 20/86 (23%), Positives = 30/86 (34%), Gaps = 2/86 (2%)
Query: 130 SLPISIPDYSYVNTEDESFVVFNIYMAGRHLCSRRLTEQQLDSRRRGLEIYLEKVCAVRV 189
S S+PDY Y D ++ + + G S + + YL+ R
Sbjct: 28 SPSTSLPDYYYTWVRDSAYTILAVLGLGYRDEDDAFRYGLETSLAKLMRGYLQ--AMYRQ 85
Query: 190 IAESELMQEFLTDALDENGTNISSPV 215
+S E + L E G N PV
Sbjct: 86 QGKSNPSGERESGGLGEPGFNGDGPV 111
>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 = 27.6 bits (62), Expect = 9.6
Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 217 IKILLPDREVITVSVRKSATADEVYASAVPKLYLQSPSSAAYFYLFEI 264
+K+ L D + V S TA+E+ + KL ++ YF L
Sbjct: 2 LKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESE---YFGLQFE 46
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
0.317 0.132 0.373
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,048,132
Number of extensions: 1874336
Number of successful extensions: 1746
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1738
Number of HSP's successfully gapped: 85
Length of query: 373
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 275
Effective length of database: 6,590,910
Effective search space: 1812500250
Effective search space used: 1812500250
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (26.9 bits)