RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11018
(121 letters)
>gnl|CDD|227670 COG5379, BtaA, S-adenosylmethionine:diacylglycerol
3-amino-3-carboxypropyl transferase [Lipid metabolism].
Length = 414
Score = 33.0 bits (75), Expect = 0.022
Identities = 13/47 (27%), Positives = 19/47 (40%)
Query: 25 REVLHLVWNSGVRSWKKRLARFKRLKYRTGNFSAYFSLGPVLKRVFG 71
W + ++R+A F R YRTG + S G R+ G
Sbjct: 142 DAHTRAYWEARALRGRRRIAVFGRNFYRTGLLGRFISAGHRTARLHG 188
>gnl|CDD|188996 cd06457, M3A_MIP, Peptidase M3 mitochondrial intermediate peptidase
(MIP). Peptidase M3 mitochondrial intermediate
peptidase (MIP; EC 3.4.24.59) belongs to the widespread
subfamily M3A, that show similarity to the Thimet
oligopeptidase (TOP). It is one of three peptidases
responsible for the proteolytic processing of both,
nuclear and mitochondrial encoded precursor polypeptides
targeted to the various subcompartments of the
mitochondria. It cleaves intermediate-size proteins
initially processed by mitochondrial processing
peptidase (MPP) to yield a processing intermediate with
a typical N-terminal octapeptide that is sequentially
cleaved by MIP to mature-size protein. MIP cleaves
precursor proteins of respiratory components, including
subunits of the electron transport chain and
tri-carboxylic acid cycle enzymes, and components of the
mitochondrial genetic machinery, including ribosomal
proteins, translation factors, and proteins required for
mitochondrial DNA metabolism. It has been suggested that
the human MIP (HMIP polypeptide; gene symbol MIPEP) may
be one of the loci predicted to influence the clinical
manifestations of Friedreich's ataxia (FRDA), an
autosomal recessive neurodegenerative disease caused by
lack of human frataxin. These proteins are enriched in
cysteine residues, two of which are highly conserved,
suggesting their importance to stability as well as in
formation of metal binding sites, thus playing a role in
MIP activity.
Length = 606
Score = 27.5 bits (62), Expect = 2.1
Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 7/44 (15%)
Query: 43 LARFKRLKYRTGNFSAYFSLGPVLK-------RVFGTEFFPSAI 79
AR + S YFSLG V++ R++G P
Sbjct: 271 KARQAACPSDSQELSPYFSLGTVMEGLSRLFSRLYGIRLVPVPT 314
>gnl|CDD|109573 pfam00522, VPR, VPR/VPX protein.
Length = 83
Score = 25.8 bits (57), Expect = 2.8
Identities = 7/27 (25%), Positives = 9/27 (33%)
Query: 23 FDREVLHLVWNSGVRSWKKRLARFKRL 49
F RE+L VW W +
Sbjct: 34 FPRELLFAVWQYIYEYWGDEQGGAYKY 60
>gnl|CDD|217347 pfam03063, Prismane, Prismane/CO dehydrogenase family. This family
includes both hybrid-cluster proteins and the beta chain
of carbon monoxide dehydrogenase. The hybrid-cluster
proteins contain two Fe/S centres - a [4Fe-4S] cubane
cluster, and a hybrid [4Fe-2S-2O] cluster. The
physiological role of this protein is as yet unknown,
although a role in nitrate/nitrite respiration has been
suggested. The prismane protein from Escherichia coli
was shown to contain hydroxylamine reductase activity
(NH2OH + 2e + 2 H+ -> NH3 + H2O). This activity is
rather low. Hydroxylamine reductase activity was also
found in CO-dehydrogenase in which the active site Ni
was replaced by Fe. The CO dehydrogenase contains a
Ni-3Fe-2S-3O centre.
Length = 505
Score = 26.3 bits (59), Expect = 4.4
Identities = 11/34 (32%), Positives = 14/34 (41%), Gaps = 6/34 (17%)
Query: 75 FPSAIVV------PPVTQPFHCVQIRLFTTGDTI 102
P AIVV PP+ C + R+ TT
Sbjct: 237 APDAIVVDTNCIMPPLASVAECYKTRVITTSPVG 270
>gnl|CDD|238427 cd00831, CHS_like, Chalcone and stilbene synthases; plant-specific
polyketide synthases (PKS) and related enzymes, also
called type III PKSs. PKS generate an array of different
products, dependent on the nature of the starter
molecule. They share a common chemical strategy, after
the starter molecule is loaded onto the active site
cysteine, a carboxylative condensation reation extends
the polyketide chain. Plant-specific PKS are dimeric
iterative PKSs, using coenzyme A esters to deliver
substrate to the active site, but they differ in the
choice of starter molecule and the number of
condensation reactions.
Length = 361
Score = 26.4 bits (59), Expect = 4.7
Identities = 11/44 (25%), Positives = 18/44 (40%)
Query: 11 SFRITHEGWDVNFDREVLHLVWNSGVRSWKKRLARFKRLKYRTG 54
+ + EG R+V LV + R +K LAR ++
Sbjct: 237 GWHLGEEGLTFVLSRDVPRLVEKNLERVLRKLLARLGIGLFKLA 280
>gnl|CDD|226757 COG4307, COG4307, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 349
Score = 26.0 bits (57), Expect = 6.1
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 23 FDREVLHLVWNSGVRSWKKRLARFKRL 49
F E+ H ++ + RL+ F+ L
Sbjct: 175 FRHEIGHYYFDRLIADSADRLSAFRAL 201
>gnl|CDD|225242 COG2367, PenP, Beta-lactamase class A [Defense mechanisms].
Length = 329
Score = 25.9 bits (57), Expect = 7.1
Identities = 13/48 (27%), Positives = 17/48 (35%), Gaps = 2/48 (4%)
Query: 33 NSGVRSWKKRLARFKRLKYRTGNFSAYFSL--GPVLKRVFGTEFFPSA 78
V RLA+ +R G Y L + G E FP+A
Sbjct: 42 TDAVAPLADRLAQLERPAATDGRVGVYVLDVDTGELIAINGDERFPAA 89
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
0.327 0.139 0.451
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,438,002
Number of extensions: 566702
Number of successful extensions: 550
Number of sequences better than 10.0: 1
Number of HSP's gapped: 550
Number of HSP's successfully gapped: 17
Length of query: 121
Length of database: 10,937,602
Length adjustment: 84
Effective length of query: 37
Effective length of database: 7,211,866
Effective search space: 266839042
Effective search space used: 266839042
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.1 bits)