RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2025
(213 letters)
>gnl|CDD|215329 PLN02610, PLN02610, probable methionyl-tRNA synthetase.
Length = 801
Score = 114 bits (286), Expect = 3e-29
Identities = 48/107 (44%), Positives = 67/107 (62%), Gaps = 2/107 (1%)
Query: 52 IGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTRV 111
+GEG R +VSGL Y+ ++ N V V+CNLKPA RGI SQ M+L AS + + T+V
Sbjct: 669 VGEGAPRTVVSGLVKYIPLEEMQNRKVCVLCNLKPAAMRGIKSQAMVLAASNS--DHTKV 726
Query: 112 EVVRPPENCTAGQRVFIHNRTGIPDKMLHPKEMVWPKIQVDLKSDDN 158
E+V PPE+ G+RV G PD +L+PK+ VW +Q DL ++
Sbjct: 727 ELVEPPESAAVGERVTFPGFEGEPDDVLNPKKKVWETLQPDLHTNSE 773
>gnl|CDD|239198 cd02799, tRNA_bind_EMAP-II_like, tRNA-binding-domain-containing
EMAP2-like proteins. This family contains a diverse
fraction of tRNA binding proteins, including
Caenorhabditis elegans methionyl-tRNA synthetase
(CeMetRS), human tyrosyl- tRNA synthetase (hTyrRS),
Saccharomyces cerevisiae Arc1p, human p43 and EMAP2.
CeMetRS and hTyrRS aminoacylate their cognate tRNAs.
Arc1p is a transactivator of yeast methionyl-tRNA and
glutamyl-tRNA synthetases. This domain has general tRNA
binding properties. In a subset of this family this
domain has the added capability of a cytokine. For
example the p43 component of the Human aminoacyl-tRNA
synthetase complex is cleaved to release EMAP-II
cytokine. EMAP-II has multiple activities during
apoptosis, angiogenesis and inflammation and
participates in malignant transformation. A EMAP-II-like
cytokine also is released from hTyrRS upon cleavage. The
active cytokine heptapeptide locates to this domain.
Length = 105
Score = 100 bits (251), Expect = 1e-27
Identities = 37/77 (48%), Positives = 50/77 (64%), Gaps = 2/77 (2%)
Query: 51 QIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTR 110
+GE + R IVSGL ++ Q+ N VVV+CNLKP K RG+ SQGM+LCAS + +
Sbjct: 31 DLGEEEPRTIVSGLVKFVPLEQMQNRLVVVLCNLKPRKMRGVKSQGMVLCAS--NADHEK 88
Query: 111 VEVVRPPENCTAGQRVF 127
VE++ PPE G+RV
Sbjct: 89 VELLEPPEGAKPGERVT 105
>gnl|CDD|239066 cd02153, tRNA_bindingDomain, The tRNA binding domain is also known
as the Myf domain in literature. This domain is found in
a diverse collection of tRNA binding proteins, including
prokaryotic phenylalanyl tRNA synthetases (PheRS),
methionyl-tRNA synthetases (MetRS), human tyrosyl-tRNA
synthetase(hTyrRS), Saccharomyces cerevisiae Arc1p,
Thermus thermophilus CsaA, Aquifex aeolicus Trbp111,
human p43 and human EMAP-II. PheRS, MetRS and hTyrRS
aminoacylate their cognate tRNAs. Arc1p is a
transactivator of yeast methionyl-tRNA and glutamyl-tRNA
synthetases. The molecular chaperones Trbp111 and CsaA
also contain this domain. CsaA has export related
activities; Trbp111 is structure-specific recognizing
the L-shape of the tRNA fold. This domain has general
tRNA binding properties. In a subset of this family
this domain has the added capability of a cytokine. For
example the p43 component of the Human aminoacyl-tRNA
synthetase complex is cleaved to release EMAP-II
cytokine. EMAP-II has multiple activities during
apoptosis, angiogenesis and inflammation and
participates in malignant transformation. An
EMAP-II-like cytokine is released from hTyrRS upon
cleavage. The active cytokine heptapeptide locates to
this domain. For homodimeric members of this group which
include CsaA, Trbp111 and Escherichia coli MetRS this
domain acts as a dimerization domain.
Length = 99
Score = 89.9 bits (224), Expect = 1e-23
Identities = 33/80 (41%), Positives = 44/80 (55%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
L++ IGE + R IVSG AN +L VVV NLKP K RG+ S+GM+L A E
Sbjct: 20 VLKVDIGEEKPRQIVSGAANVYPPEELVGKKVVVAVNLKPKKLRGVESEGMLLSAEELGL 79
Query: 107 NVTRVEVVRPPENCTAGQRV 126
V ++ PE+ G R+
Sbjct: 80 EEGSVGILELPEDAPVGDRI 99
>gnl|CDD|216589 pfam01588, tRNA_bind, Putative tRNA binding domain. This domain is
found in prokaryotic methionyl-tRNA synthetases,
prokaryotic phenylalanyl tRNA synthetases the yeast GU4
nucleic-binding protein (G4p1 or p42, ARC1), human
tyrosyl-tRNA synthetase, and endothelial-monocyte
activating polypeptide II. G4p1 binds specifically to
tRNA form a complex with methionyl-tRNA synthetases. In
human tyrosyl-tRNA synthetase this domain may direct
tRNA to the active site of the enzyme. This domain may
perform a common function in tRNA aminoacylation.
Length = 95
Score = 83.4 bits (207), Expect = 4e-21
Identities = 36/91 (39%), Positives = 47/91 (51%), Gaps = 6/91 (6%)
Query: 38 TIERQKEEAKLR---LQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILS 94
E+ KL + +GE + R IVSG N +L VVVV NLKPAK RG+ S
Sbjct: 8 EAEKHPNADKLLVLKVDVGEEE-RQIVSGAVNVYPPEELVGKLVVVVANLKPAKLRGVES 66
Query: 95 QGMILCASETYNNVTRVEVVRPPENCTAGQR 125
+GMIL A E + V ++ PP + G R
Sbjct: 67 EGMILSAEE--LDGGSVGLLEPPGDVPPGTR 95
>gnl|CDD|239199 cd02800, tRNA_bind_EcMetRS_like, tRNA-binding-domain-containing
Escherichia coli methionyl-tRNA synthetase
(EcMetRS)-like proteins. This family includes EcMetRS
and Aquifex aeolicus Trbp111 (AaTrbp111). This domain
has general tRNA binding properties. MetRS
aminoacylates methionine transfer RNAs (tRNAmet).
AaTrbp111 is structure-specific molecular chaperone
recognizing the L-shape of the tRNA fold. AaTrbp111
plays a role in nuclear trafficking of tRNAs. The
functional unit of EcMetRs and AaTrbp111 is a homodimer,
this domain acts as the dimerization domain.
Length = 105
Score = 82.2 bits (204), Expect = 2e-20
Identities = 35/88 (39%), Positives = 50/88 (56%), Gaps = 5/88 (5%)
Query: 39 IERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMI 98
+E + KL + +GE + R IVSG+A + +L VVVV NLKP K RG+ SQGMI
Sbjct: 22 VEGSDKLLKLTVDLGEEE-RQIVSGIAKFYPPEELVGKKVVVVANLKPRKLRGVESQGMI 80
Query: 99 LCASETYNNVTRVEVVRPPENCTAGQRV 126
L A + +++++ P E G RV
Sbjct: 81 LAAEDG----GKLKLLTPDEEVEPGSRV 104
>gnl|CDD|237028 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 86.0 bits (214), Expect = 1e-19
Identities = 31/80 (38%), Positives = 45/80 (56%), Gaps = 4/80 (5%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
KL++ +GE + R IVSG+A + +L VVVV NLKPAK G SQGMIL A +
Sbjct: 572 KLQVDLGEEEPRQIVSGIAKFYPPEELVGKKVVVVANLKPAKLMGEESQGMILAAEDD-- 629
Query: 107 NVTRVEVVRPPENCTAGQRV 126
++ ++ + G +V
Sbjct: 630 --GKLTLLTVDKEVPNGSKV 647
>gnl|CDD|232958 TIGR00399, metG_C_term, methionyl-tRNA synthetase C-terminal
region/beta chain. The methionyl-tRNA synthetase (metG)
is a class I amino acyl-tRNA ligase. This model
describes a region of the methionyl-tRNA synthetase that
is present at the C-terminus of MetG in some species (E.
coli, B. subtilis, Thermotoga maritima, Methanobacterium
thermoautotrophicum), and as a separate beta chain in
Aquifex aeolicus. It is absent in a number of other
species (e.g. Mycoplasma genitalium, Mycobacterium
tuberculosis), while Pyrococcus horikoshii has both a
full length MetG and a second protein homologous to the
beta chain only. Proteins hit by This model should
called methionyl-tRNA synthetase beta chain if and only
if the model metG hits a separate protein not also hit
by This model [Protein synthesis, tRNA aminoacylation].
Length = 137
Score = 74.0 bits (182), Expect = 6e-17
Identities = 34/88 (38%), Positives = 53/88 (60%), Gaps = 4/88 (4%)
Query: 39 IERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMI 98
+E+ + KL+L +G+ + R IVSG+A Y T +L V+VV NLKPAK G+ S+GMI
Sbjct: 53 VEKSDKLLKLKLDLGDEK-RQIVSGIAGYYTPEELVGKKVIVVANLKPAKLFGVKSEGMI 111
Query: 99 LCASETYNNVTRVEVVRPPENCTAGQRV 126
L A + + ++ P + AG+R+
Sbjct: 112 LAAEDDGKVLF---LLSPDQEAIAGERI 136
>gnl|CDD|234655 PRK00133, metG, methionyl-tRNA synthetase; Reviewed.
Length = 673
Score = 72.5 bits (179), Expect = 6e-15
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106
KL L +GE R + SG+ + +L VV+V NL P K + +S+GM+L A
Sbjct: 597 KLTLDLGEET-RQVFSGIKSAYDPEELVGKLVVMVANLAPRKMKFGVSEGMVLAAGPGGG 655
Query: 107 NVTRVEVVRPPENCTAGQRV 126
++ ++ P E G RV
Sbjct: 656 DLF---LLEPDEGAKPGMRV 672
>gnl|CDD|239197 cd02798, tRNA_bind_CsaA, tRNA-binding-domain-containing CsaA-like
proteins. CsaA is a molecular chaperone with export
related activities. CsaA has a putative tRNA binding
activity. The functional unit of CsaA is a homodimer and
this domain acts as a dimerization domain.
Length = 107
Score = 57.3 bits (139), Expect = 4e-11
Identities = 16/55 (29%), Positives = 27/55 (49%)
Query: 47 KLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCA 101
KL++ GE + + + Y +L VV V N P + G+LS+ ++L A
Sbjct: 31 KLKVDFGEIGVKQSSAQITKYYKPEELIGRQVVAVVNFPPKQIAGVLSEVLVLGA 85
>gnl|CDD|223151 COG0073, ARC1, EMAP domain [General function prediction only].
Length = 123
Score = 57.4 bits (139), Expect = 5e-11
Identities = 24/62 (38%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 46 AKLRLQIGEG-QDRLIVSGLANYMTAFQLYNTSVVVVCN---LKPAKFRGILSQGMILCA 101
L++ +G+ + R IV G N+ +L V V N LKPAK RG+ S+GM+L A
Sbjct: 39 LVLKVDLGDEKEPRQIVCGAPNFYAGEKLVGAKVGAVLNGGKLKPAKLRGVESEGMLLSA 98
Query: 102 SE 103
E
Sbjct: 99 EE 100
>gnl|CDD|182232 PRK10089, PRK10089, tRNA-binding protein; Provisional.
Length = 112
Score = 37.9 bits (89), Expect = 5e-04
Identities = 10/38 (26%), Positives = 18/38 (47%)
Query: 64 LANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCA 101
+ + T +L VV V N P + G +S+ ++L
Sbjct: 52 ITPHYTPEELIGKQVVAVVNFPPKQIAGFMSEVLVLGF 89
>gnl|CDD|239196 cd02796, tRNA_bind_bactPheRS, tRNA-binding-domain-containing
prokaryotic phenylalanly tRNA synthetase (PheRS) beta
chain. PheRS aminoacylate phenylalanine transfer RNAs
(tRNAphe). PheRSs belong structurally to class II
aminoacyl tRNA synthetases (aaRSs) but, as they
aminoacylate the 2'OH of the terminal ribose of tRNA
they belong functionally to class 1 aaRSs. This domain
has general tRNA binding properties and is believed to
direct tRNAphe to the active site of the enzyme.
Length = 103
Score = 34.0 bits (79), Expect = 0.010
Identities = 19/65 (29%), Positives = 26/65 (40%), Gaps = 14/65 (21%)
Query: 48 LRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCN---------LKPAKFRGILSQGMI 98
++ IGE + IV G N VVV +K K RG+ S+GM+
Sbjct: 21 CKVDIGENKPLQIVCGAPNVRA-----GDKVVVALPGAVLPGGLKIKKRKLRGVESEGML 75
Query: 99 LCASE 103
A E
Sbjct: 76 CSAKE 80
>gnl|CDD|232990 TIGR00472, pheT_bact, phenylalanyl-tRNA synthetase, beta subunit,
non-spirochete bacterial. Every known example of the
phenylalanyl-tRNA synthetase, except the monomeric form
of mitochondrial, is an alpha 2 beta 2 heterotetramer.
The beta subunits break into two subfamilies that are
considerably different in sequence, length, and pattern
of gaps. This model represents the subfamily that
includes the beta subunit from Bacteria other than
spirochetes, as well as a chloroplast-encoded form from
Porphyra purpurea. The chloroplast-derived sequence is
considerably shorter at the amino end, however, so This
model was built in fragment mode [Protein synthesis,
tRNA aminoacylation].
Length = 797
Score = 34.6 bits (80), Expect = 0.037
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 7/64 (10%)
Query: 47 KLRL---QIGEGQDRLIVSG----LANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMIL 99
KL++ IGE + IV G A A L + +K +K RG+ S+GM+
Sbjct: 62 KLKVCKVDIGEKEMLQIVCGAPNVEAGKKVAVALPGAKLPNGLKIKKSKLRGVESEGMLC 121
Query: 100 CASE 103
SE
Sbjct: 122 SESE 125
>gnl|CDD|234804 PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta;
Reviewed.
Length = 791
Score = 34.0 bits (79), Expect = 0.048
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 84 LKPAKFRGILSQGMILCASE 103
+K AK RG+ S+GM+ ASE
Sbjct: 104 IKKAKLRGVESEGMLCSASE 123
>gnl|CDD|241240 cd01204, PTB_IRS, Insulin receptor substrate
phosphotyrosine-binding domain (PTBi). Insulin
receptor substrate (IRS) molecules are mediators in
insulin signaling and play a role in maintaining basic
cellular functions such as growth and metabolism. They
act as docking proteins between the insulin receptor
and a complex network of intracellular signaling
molecules containing Src homology 2 (SH2) domains. Four
members (IRS-1, IRS-2, IRS-3, IRS-4) of this family
have been identified that differ as to tissue
distribution, subcellular localization, developmental
expression, binding to the insulin receptor, and
interaction with SH2 domain-containing proteins. IRS
molecules have an N-terminal PH domain, followed by an
IRS-like PTB domain which has a 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 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 IRS-like subgroup.
Length = 106
Score = 29.9 bits (68), Expect = 0.33
Identities = 13/38 (34%), Positives = 17/38 (44%), Gaps = 4/38 (10%)
Query: 5 CGHT--FRLLLIGRQ-PLGNALAW-HVEDCDVDAQMHT 38
CGH+ F + +GR G W V+D V MH
Sbjct: 57 CGHSENFFFIEVGRSAVTGPGELWMQVDDSVVAQNMHE 94
>gnl|CDD|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15). Rab15 colocalizes
with the transferrin receptor in early endosome
compartments, but not with late endosomal markers. It
codistributes with Rab4 and Rab5 on early/sorting
endosomes, and with Rab11 on pericentriolar recycling
endosomes. It is believed to function as an inhibitory
GTPase that regulates distinct steps in early endocytic
trafficking. GTPase activating proteins (GAPs) interact
with GTP-bound Rab and accelerate the hydrolysis of GTP
to GDP. Guanine nucleotide exchange factors (GEFs)
interact with GDP-bound Rabs to promote the formation
of the GTP-bound state. Rabs are further regulated by
guanine nucleotide dissociation inhibitors (GDIs),
which facilitate Rab recycling by masking C-terminal
lipid binding and promoting cytosolic localization.
Most Rab GTPases contain a lipid modification site at
the C-terminus, with sequence motifs CC, CXC, or CCX.
Lipid binding is essential for membrane attachment, a
key feature of most Rab proteins. Due to the presence
of truncated sequences in this CD, the lipid
modification site is not available for annotation.
Length = 164
Score = 28.8 bits (64), Expect = 1.5
Identities = 22/63 (34%), Positives = 31/63 (49%), Gaps = 15/63 (23%)
Query: 9 FRLLLIGRQPLGNAL-----------AWHVEDCDVDAQMHTIERQKEEAKLRLQIGE--G 55
FRLLLIG +G + H+ VD +M TIE + K+R+QI + G
Sbjct: 1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIE--VDGIKVRIQIWDTAG 58
Query: 56 QDR 58
Q+R
Sbjct: 59 QER 61
>gnl|CDD|215130 PLN02217, PLN02217, probable pectinesterase/pectinesterase
inhibitor.
Length = 670
Score = 28.9 bits (64), Expect = 2.5
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 52 IGEGQDRLIVSGLANYMTAFQLYNTSVVVV 81
IG+G D+ ++SG +Y Y T+ V +
Sbjct: 305 IGDGPDKTVISGSKSYKDGITTYKTATVAI 334
>gnl|CDD|222362 pfam13753, SWM_repeat, Putative flagellar system-associated repeat.
This family appears to be a repeated unit that can
occur up to 29 times in these outer membrane proteins.
It is putatively associated with a novel flagellar
system.
Length = 310
Score = 28.6 bits (64), Expect = 2.6
Identities = 17/76 (22%), Positives = 26/76 (34%), Gaps = 3/76 (3%)
Query: 6 GHTFRLLLIGRQPLGNALAWHVEDCDVDAQMHTIERQKEEAKLRLQIGEGQDRLIVSGLA 65
+T R+ + GNA D VD T+ + L GE +G
Sbjct: 207 DNTIRVNADVKDAAGNAGGASTGDFTVDTSPPTVTVTIVTSDNILNAGEAATTFTFTG-- 264
Query: 66 NYMTAFQLYNTSVVVV 81
+T F+ + VV
Sbjct: 265 -SVTGFEANDPVVVTS 279
>gnl|CDD|131277 TIGR02222, chap_CsaA, export-related chaperone protein CsaA. This
model describes Bacillus subtilis CsaA, an
export-related chaperone that interacts with the Sec
system, and related proteins from a number of other
bacteria and archaea. The crystal structure is known for
the homodimer from Thermus thermophilus [Protein fate,
Protein folding and stabilization, Protein fate, Protein
and peptide secretion and trafficking].
Length = 107
Score = 27.0 bits (60), Expect = 3.6
Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 3/64 (4%)
Query: 64 LANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTRVEVVRPPENCTAG 123
+ L VV V N P + G LS+ ++L + RV +++P G
Sbjct: 47 ITKLYKPEDLIGRLVVAVVNFPPKQIAGFLSEVLVLGV---IDEQGRVVLLQPDRPVPNG 103
Query: 124 QRVF 127
++
Sbjct: 104 TKIA 107
>gnl|CDD|165149 PHA02785, PHA02785, IL-beta-binding protein; Provisional.
Length = 326
Score = 28.1 bits (62), Expect = 3.9
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 143 EMVWPKIQVDLKSDDNGHIRWKGHR 167
EMV P I + S+ N I W GHR
Sbjct: 140 EMVCPNINAFIASNVNADIIWSGHR 164
>gnl|CDD|225315 COG2517, COG2517, Predicted RNA-binding protein containing a
C-terminal EMAP domain [General function prediction
only].
Length = 219
Score = 27.9 bits (62), Expect = 4.0
Identities = 21/109 (19%), Positives = 35/109 (32%), Gaps = 25/109 (22%)
Query: 16 RQPLGNALAWHVEDCD----VDAQMHTIERQK------EEAKLRLQIGEGQDRLIVSGLA 65
+ LG W + + V ++TI + + +GE
Sbjct: 78 VEALGGEKDWSTKFLEQADEVRFFLNTILNLDRGEINDPVIAVDIVVGEVMSVGKHPNAD 137
Query: 66 N-YMTAFQLYNTSVVVVCN--------------LKPAKFRGILSQGMIL 99
+T + +V VV N L P F G++S+GM L
Sbjct: 138 KLLVTVVNIGGRAVTVVTNDLDVREGDRVAVALLPPRNFFGVVSEGMFL 186
>gnl|CDD|143410 cd07091, ALDH_F1-2_Ald2-like, ALDH subfamily: ALDH families 1and 2,
including 10-formyltetrahydrofolate dehydrogenase,
NAD+-dependent retinal dehydrogenase 1 and related
proteins. ALDH subfamily which includes the
NAD+-dependent retinal dehydrogenase 1 (RALDH 1, ALDH1,
EC=1.2.1.36), also known as aldehyde dehydrogenase
family 1 member A1 (ALDH1A1), in humans, a
homotetrameric, cytosolic enzyme that catalyzes the
oxidation of retinaldehyde to retinoic acid. Human
ALDH1B1 and ALDH2 are also in this cluster; both are
mitochrondrial homotetramers which play important roles
in acetaldehyde oxidation; ALDH1B1 in response to UV
light exposure and ALDH2 during ethanol metabolism.
10-formyltetrahydrofolate dehydrogenase (FTHFDH,
EC=1.5.1.6), also known as aldehyde dehydrogenase family
1 member L1 (ALDH1L1), in humans, a multi-domain
homotetramer with an N-terminal formyl transferase
domain and a C-terminal ALDH domain. FTHFDH catalyzes an
NADP+-dependent dehydrogenase reaction resulting in the
conversion of 10-formyltetrahydrofolate to
tetrahydrofolate and CO2. Also included in this
subfamily is the Arabidosis aldehyde dehydrogenase
family 2 members B4 and B7 (EC=1.2.1.3), which are
mitochondrial, homotetramers that oxidize acetaldehyde
and glycolaldehyde, as well as, the Arabidosis
cytosolic, homotetramer ALDH2C4 (EC=1.2.1.3), an enzyme
involved in the oxidation of sinapalehyde and
coniferaldehyde. Also included is the AldA aldehyde
dehydrogenase of Aspergillus nidulans (locus AN0554),
the aldehyde dehydrogenase 2 (YMR170c, ALD5, EC=1.2.1.5)
of Saccharomyces cerevisiae, and other similar
sequences.
Length = 476
Score = 27.6 bits (62), Expect = 5.0
Identities = 7/22 (31%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 118 ENCTAGQRVFIHNRTGIPDKML 139
+ C AG R+F+ I D+ +
Sbjct: 283 QCCCAGSRIFVQE--SIYDEFV 302
>gnl|CDD|185771 cd09248, BRO1_Rhophilin_1, Protein-interacting Bro1-like domain of
RhoA-binding protein Rhophilin-1. This subfamily
contains the Bro1-like domain of the RhoA-binding
protein, Rhophilin-1. It belongs to the BRO1_Alix_like
superfamily which also includes the Bro1-like domains of
mammalian Alix (apoptosis-linked gene-2 interacting
protein X), His-Domain type N23 protein tyrosine
phosphatase (HD-PTP, also known as PTPN23), RhoA-binding
protein Rhophilin-2, Brox, Bro1 and Rim20 (also known as
PalA) from Saccharomyces cerevisiae, Ustilago maydis
Rim23 (also known as PalC), and related domains.
Rhophilin-1 binds both GDP- and GTP-bound RhoA.
Bro1-like domains are boomerang-shaped, and part of the
domain is a tetratricopeptide repeat (TPR)-like
structure. In addition to this Bro1-like domain,
Rhophilin-1 contains an N-terminal Rho-binding domain
and a C-terminal PDZ (PS.D.-95, Disc-large, ZO-1)
domain. The Drosophila knockout of the Rhophilin-1 is
embryonic lethal, suggesting an essential role in
embryonic development. The isolated Bro1-like domain of
Rhophilin-1 binds human immunodeficiency virus type 1
(HIV-1) nucleocapsid. Rhophilin-1 lacks the V-shaped (V)
domain found in many members of the BRO1_Alix_ like
superfamily.
Length = 384
Score = 27.5 bits (61), Expect = 6.1
Identities = 11/25 (44%), Positives = 12/25 (48%)
Query: 48 LRLQIGEGQDRLIVSGLANYMTAFQ 72
L QIG QDR G + AFQ
Sbjct: 115 LHTQIGARQDRSCTEGTRRAIDAFQ 139
>gnl|CDD|216297 pfam01095, Pectinesterase, Pectinesterase.
Length = 298
Score = 27.2 bits (61), Expect = 6.4
Identities = 7/30 (23%), Positives = 16/30 (53%)
Query: 52 IGEGQDRLIVSGLANYMTAFQLYNTSVVVV 81
+G+G + I++G N++ + T+ V
Sbjct: 55 VGDGPGKTIITGSLNFIDGGTTFRTATFAV 84
>gnl|CDD|225918 COG3383, COG3383, Uncharacterized anaerobic dehydrogenase [General
function prediction only].
Length = 978
Score = 27.4 bits (61), Expect = 6.7
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 3/37 (8%)
Query: 33 DAQMHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMT 69
D + H E A L L G D ++ +A Y+
Sbjct: 457 DPRKH---EMAERADLFLHPKPGTDLAWLTAVAKYII 490
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
0.322 0.137 0.431
Gapped
Lambda K H
0.267 0.0635 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,647,725
Number of extensions: 970775
Number of successful extensions: 776
Number of sequences better than 10.0: 1
Number of HSP's gapped: 773
Number of HSP's successfully gapped: 28
Length of query: 213
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 120
Effective length of database: 6,812,680
Effective search space: 817521600
Effective search space used: 817521600
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.9 bits)