RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10470
(209 letters)
>gnl|CDD|238248 cd00435, ACBP, Acyl CoA binding protein (ACBP) binds thiol esters
of long fatty acids and coenzyme A in a one-to-one
binding mode with high specificity and affinity.
Acyl-CoAs are important intermediates in fatty lipid
synthesis and fatty acid degradation and play a role in
regulation of intermediary metabolism and gene
regulation. The suggested role of ACBP is to act as a
intracellular acyl-CoA transporter and pool former.
ACBPs are present in a large group of eukaryotic species
and several tissue-specific isoforms have been detected.
Length = 85
Score = 75.4 bits (186), Expect = 3e-18
Identities = 29/44 (65%), Positives = 34/44 (77%)
Query: 164 SKPGMLDFKGKAKWEAWESRKGQSKDDAQAAYIAKVVELVAKYG 207
+PGM D KG+AKW+AW S KG SK+DA AYIAKV EL+AKY
Sbjct: 42 ERPGMFDLKGRAKWDAWNSLKGMSKEDAMKAYIAKVEELIAKYA 85
>gnl|CDD|216174 pfam00887, ACBP, Acyl CoA binding protein.
Length = 87
Score = 71.5 bits (176), Expect = 1e-16
Identities = 24/44 (54%), Positives = 30/44 (68%)
Query: 164 SKPGMLDFKGKAKWEAWESRKGQSKDDAQAAYIAKVVELVAKYG 207
+PGM D GKAKW+AW+ KG SK++A Y+ V ELV KYG
Sbjct: 44 PRPGMFDVIGKAKWDAWKKLKGMSKEEAMKKYVELVEELVEKYG 87
>gnl|CDD|226731 COG4281, ACB, Acyl-CoA-binding protein [Lipid metabolism].
Length = 87
Score = 63.4 bits (154), Expect = 2e-13
Identities = 24/43 (55%), Positives = 30/43 (69%)
Query: 165 KPGMLDFKGKAKWEAWESRKGQSKDDAQAAYIAKVVELVAKYG 207
KPG D G+ K+EAW KG+S++DA+ YIA V EL AKYG
Sbjct: 44 KPGFFDIVGRYKYEAWAGLKGKSQEDARQEYIALVEELKAKYG 86
>gnl|CDD|185637 PTZ00458, PTZ00458, acyl CoA binding protein; Provisional.
Length = 90
Score = 33.3 bits (76), Expect = 0.017
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 166 PGMLDFKGKAKWEAWESRKGQSKDDAQAAYIAKVVELVAKYGKK 209
P M ++ + K+EAW+S + +++DA+ Y+ V EL + K
Sbjct: 46 PSMFKYQDRKKYEAWKSIENLNREDAKKRYVEIVTELFPNWEKG 89
>gnl|CDD|182820 PRK10898, PRK10898, serine endoprotease; Provisional.
Length = 353
Score = 30.4 bits (69), Expect = 0.68
Identities = 9/24 (37%), Positives = 16/24 (66%), Gaps = 2/24 (8%)
Query: 95 YVGAKISGKDLAYLRANNSGLDRV 118
Y+G I G+++A L A G+D++
Sbjct: 257 YIG--IGGREIAPLHAQGGGIDQL 278
>gnl|CDD|203206 pfam05209, MinC_N, Septum formation inhibitor MinC, N-terminal
domain. In Escherichia coli ftsZ assembles into a Z
ring at midcell while assembly at polar sites is
prevented by the min system. MinC, a component of this
system, is an inhibitor of FtsZ assembly that is
positioned within the cell by interaction with MinDE.
MinC is an oligomer, probably a dimer. The C terminal
half of MinC is the most conserved and interacts with
MinD. The N terminal half is thought to interact with
FtsZ.
Length = 99
Score = 28.1 bits (63), Expect = 1.3
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 99 KISGKDLAYLRANNSGLDRVFRALSKKLGQ 128
K S L L + L+R+ +ALSKK+ Q
Sbjct: 9 KGSKFTLLVLHLHTQNLERILQALSKKIAQ 38
>gnl|CDD|131381 TIGR02328, TIGR02328, conserved hypothetical protein. Members of
this protein are found in a small number of
taxonomically well separated species, yet are strongly
conserved, suggesting lateral gene transfer. Members are
found in Treponema denticola, Clostridium
acetobutylicum, and several of the Firmicutes. The
function of this protein is unknown [Hypothetical
proteins, Conserved].
Length = 120
Score = 27.1 bits (60), Expect = 3.9
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 126 LGQHRLSCAFKSKIFGKP 143
LGQHR CA + +GK
Sbjct: 18 LGQHRECCALRGNGWGKK 35
>gnl|CDD|119336 cd06568, GH20_SpHex_like, A subgroup of the Glycosyl hydrolase
family 20 (GH20) catalytic domain found in proteins
similar to the N-acetylhexosaminidase from Streptomyces
plicatus (SpHex). SpHex catalyzes the hydrolysis of
N-acetyl-beta-hexosaminides. An Asp residue within the
active site plays a critical role in substrate-assisted
catalysis by orienting the 2-acetamido group and
stabilizing the transition state. The GH20
hexosaminidases are thought to act via a catalytic
mechanism in which the catalytic nucleophile is not
provided by solvent or the enzyme, but by the substrate
itself. Proteins belonging to this subgroup lack the
C-terminal PKD (polycystic kidney disease I)-like domain
found in the chitobiases.
Length = 329
Score = 27.7 bits (62), Expect = 4.2
Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 1/25 (4%)
Query: 185 GQSKDDAQAAYIAKVVELVAKYGKK 209
DD A ++ +V +VAKYGK
Sbjct: 167 STPHDD-YAYFVNRVRAIVAKYGKT 190
>gnl|CDD|176719 cd01671, CARD, Caspase activation and recruitment domain: a
protein-protein interaction domain. Caspase activation
and recruitment domains (CARDs) are death domains (DDs)
found associated with caspases. Caspases are
aspartate-specific cysteine proteases with functions in
apoptosis, immune signaling, inflammation, and
host-defense mechanisms. In addition to caspases,
proteins containing CARDs include adaptor proteins such
as RAIDD, CARD9, and RIG-I-like helicases, which can
form mutliprotein complexes and play important roles in
mediating the signals to induce immune and inflammatory
responses. In general, DDs are protein-protein
interaction domains found in a variety of domain
architectures. Their common feature is that they form
homodimers by self-association or heterodimers by
associating with other members of the DD superfamily
including PYRIN and DED (Death Effector Domain). They
serve as adaptors in signaling pathways and can recruit
other proteins into signaling complexes.
Length = 80
Score = 26.4 bits (59), Expect = 4.2
Identities = 8/37 (21%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 50 YTKFRGKDSRKERREGERVITSSESKNSTACRRFCQS 86
Y K R + +R+++ +++ K A + F Q+
Sbjct: 33 YEKIRSESTRQDKAR--KLLDILPRKGPKAFQSFLQA 67
>gnl|CDD|237705 PRK14404, PRK14404, membrane protein; Provisional.
Length = 201
Score = 27.3 bits (61), Expect = 4.9
Identities = 17/42 (40%), Positives = 20/42 (47%), Gaps = 5/42 (11%)
Query: 91 FLC-----SYVGAKISGKDLAYLRANNSGLDRVFRALSKKLG 127
FL SY KI GKDL +R N G ++RA K G
Sbjct: 10 FLSGSLMFSYWIGKIVGKDLRKVRDGNPGAFNLWRAAGWKYG 51
>gnl|CDD|119335 cd06565, GH20_GcnA-like, Glycosyl hydrolase family 20 (GH20)
catalytic domain of N-acetyl-beta-D-glucosaminidase
(GcnA, also known as BhsA) and related proteins. GcnA
is an exoglucosidase which cleaves
N-acetyl-beta-D-galactosamine (NAG) and
N-acetyl-beta-D-galactosamine residues from
4-methylumbelliferylated (4MU) substrates, as well as
cleaving NAG from chito-oligosaccharides (i.e. NAG
polymers). In contrast, sulfated forms of the substrate
are unable to be cleaved and act instead as mild
competitive inhibitors. Additionally, the enzyme is
known to be poisoned by several first-row transition
metals as well as by mercury. GcnA forms a homodimer
with subunits comprised of three domains, an N-terminal
zincin-like domain, this central catalytic GH20 domain,
and a C-terminal alpha helical domain. The GH20
hexosaminidases are thought to act via a catalytic
mechanism in which the catalytic nucleophile is not
provided by solvent or the enzyme, but by the substrate
itself.
Length = 301
Score = 27.6 bits (62), Expect = 4.9
Identities = 9/40 (22%), Positives = 19/40 (47%), Gaps = 8/40 (20%)
Query: 178 EAWESRKGQSKDDA--------QAAYIAKVVELVAKYGKK 209
EA++ +G+S ++ KV++++ K G K
Sbjct: 141 EAYDLGRGRSLRKHGNLGRGELYLEHLKKVLKIIKKRGPK 180
>gnl|CDD|233320 TIGR01222, minC, septum site-determining protein MinC. The minC
protein assists in correct placement of the septum for
cell division by inhibiting septum formation at other
sites. Homologs from Deinocoocus, Synechocystis PCC
6803, and Helicobacter pylori do not hit the full length
of the model and score between the trusted and noise
cutoffs [Cellular processes, Cell division].
Length = 217
Score = 27.0 bits (60), Expect = 6.0
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 7/48 (14%)
Query: 95 YVGAKISGKDLAYLRANNSGLDRVFRALSKKLGQHRLSCAFKSKIFGK 142
V K + L L ++ LD + + LS+K+ Q K F K
Sbjct: 1 MVDLKGTKLGLTVLHLDDQNLDELLQELSEKITQ-------APKFFAK 41
>gnl|CDD|221410 pfam12077, DUF3556, Transmembrane protein of unknown function
(DUF3556). This family of transmembrane proteins is
functionally uncharacterized. This protein is found in
bacteria. Proteins in this family are typically between
576 to 592 amino acids in length.
Length = 574
Score = 27.3 bits (61), Expect = 6.4
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 2 LPPWPRFEPSTSGLRVSALD 21
LPPWP P T G + LD
Sbjct: 128 LPPWPDRVPLTKGDTRTVLD 147
>gnl|CDD|220131 pfam09172, DUF1943, Domain of unknown function (DUF1943). Members
of this family adopt a structure consisting of several
large open beta-sheets. Their exact function has not, as
yet, been determined.
Length = 288
Score = 27.2 bits (61), Expect = 7.0
Identities = 9/38 (23%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 89 NNFLCSYVGAKISGKDLAYLRANNSGLDRVFRALSKKL 126
+ L S V K+ G++LA+ + ++++ R + L
Sbjct: 112 SKPLAS-VYLKLFGQELAFASIDKETIEQLIRLFKEAL 148
>gnl|CDD|151793 pfam11352, DUF3155, Protein of unknown function (DUF3155). This
family of proteins with unknown function appears to be
restricted to Cyanobacteria.
Length = 90
Score = 25.6 bits (56), Expect = 9.2
Identities = 17/43 (39%), Positives = 20/43 (46%), Gaps = 10/43 (23%)
Query: 56 KDSRKERR--EGERV--------ITSSESKNSTACRRFCQSVG 88
+ RK RR EG R+ I S E K TA RRF + G
Sbjct: 3 RRKRKSRRRLEGRRILELVPQYSIESGEDKPVTAARRFIHANG 45
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 0.130 0.397
Gapped
Lambda K H
0.267 0.0701 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,111,362
Number of extensions: 871638
Number of successful extensions: 697
Number of sequences better than 10.0: 1
Number of HSP's gapped: 697
Number of HSP's successfully gapped: 18
Length of query: 209
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 116
Effective length of database: 6,812,680
Effective search space: 790270880
Effective search space used: 790270880
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 (21.7 bits)
S2: 57 (25.8 bits)