RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14479
(125 letters)
>gnl|CDD|215754 pfam00153, Mito_carr, Mitochondrial carrier protein.
Length = 96
Score = 61.1 bits (149), Expect = 1e-13
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 2/75 (2%)
Query: 9 ACSATNPIWFVKTRLQLAHVQHGSQVT-AMHIIRREYLTSGIKGFYKGITASYFG-ITET 66
A + T P+ VKTRLQ + + + ++ Y GI+G YKG+ +
Sbjct: 19 AATVTYPLDVVKTRLQSSAAGGSRKYKGILDCFKKIYKEEGIRGLYKGLLPNLLRVAPAA 78
Query: 67 IIHFVIYEAIKAKLM 81
I+F YE +K L+
Sbjct: 79 AIYFGTYETLKKLLL 93
Score = 25.3 bits (56), Expect = 6.6
Identities = 6/21 (28%), Positives = 13/21 (61%)
Query: 98 FVEFMMAGAVSKTCASCIAYP 118
F+ ++AG ++ A+ + YP
Sbjct: 5 FLASLLAGGIAGAIAATVTYP 25
>gnl|CDD|131258 TIGR02203, MsbA_lipidA, lipid A export permease/ATP-binding protein
MsbA. This family consists of a single polypeptide
chain transporter in the ATP-binding cassette (ABC)
transporter family, MsbA, which exports lipid A. It may
also act in multidrug resistance. Lipid A, a part of
lipopolysaccharide, is found in the outer leaflet of the
outer membrane of most Gram-negative bacteria. Members
of this family are restricted to the Proteobacteria
(although lipid A is more broadly distributed) and often
are clustered with lipid A biosynthesis genes [Cell
envelope, Biosynthesis and degradation of surface
polysaccharides and lipopolysaccharides, Transport and
binding proteins, Other].
Length = 571
Score = 28.1 bits (63), Expect = 1.1
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 62 GITETIIHFVIYEAIKAKLMAVRAHQSLDGDKKTRDFVEFMMA 104
I+ I + A+ A ++ + Q+ G DF F+ A
Sbjct: 238 SISSPITQLIASLAL-AVVLFIALFQAQAGSLTAGDFTAFITA 279
>gnl|CDD|219240 pfam06957, COPI_C, Coatomer (COPI) alpha subunit C-terminus. This
family represents the C-terminus (approximately 500
residues) of the eukaryotic coatomer alpha subunit.
Coatomer (COPI) is a large cytosolic protein complex
which forms a coat around vesicles budding from the
Golgi apparatus. Such coatomer-coated vesicles have been
proposed to play a role in many distinct steps of
intracellular transport. Note that many family members
also contain the pfam04053 domain.
Length = 421
Score = 27.5 bits (61), Expect = 2.3
Identities = 12/37 (32%), Positives = 16/37 (43%), Gaps = 3/37 (8%)
Query: 16 IWFVKTRLQLAHVQHGSQVTAMHIIRREYLTSGIKGF 52
IW + L HV GS TAM ++ G+ F
Sbjct: 116 IWPNNSSLAADHVAAGSFETAMRLLHD---QLGVVNF 149
>gnl|CDD|185311 PRK15413, PRK15413, glutathione ABC transporter substrate-binding
protein GsiB; Provisional.
Length = 512
Score = 26.8 bits (59), Expect = 3.4
Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 7/46 (15%)
Query: 21 TRLQLAHVQHGSQVTAMHIIRREYLT-------SGIKGFYKGITAS 59
T+ QLA V +QVTAM +R SG++ FY G +AS
Sbjct: 367 TQQQLAQVGIKAQVTAMDAGQRAAEVEGKGQKESGVRMFYTGWSAS 412
>gnl|CDD|117933 pfam09391, DUF2000, Protein of unknown function (DUF2000). This is
a family of proteins of unknown function. The structure
of one of the proteins in this family has been shown to
adopt an alpha beta fold.
Length = 133
Score = 25.6 bits (57), Expect = 5.1
Identities = 11/40 (27%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 66 TIIHFVIYEAIKAKLMAVRAHQSLDGDKKTRDFVEFMMAG 105
+ +I +A KL +R ++L+ D DF E M +
Sbjct: 52 SGQPIIILKANSEKLRKLR-QRALERDLTFVDFTEAMFST 90
>gnl|CDD|227048 COG4704, COG4704, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 151
Score = 26.0 bits (57), Expect = 5.3
Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 63 ITETIIHFVIYEAIKAKLMAVRAHQSLDGDKK 94
IT + Y +K AV A Q +GD K
Sbjct: 72 ITGDPVSKSFY-GLKPGKYAVAAFQDENGDGK 102
>gnl|CDD|235982 PRK07259, PRK07259, dihydroorotate dehydrogenase 1B; Reviewed.
Length = 301
Score = 26.3 bits (59), Expect = 5.4
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 96 RDFVEFMMAGA 106
D +EF+MAGA
Sbjct: 247 EDAIEFIMAGA 257
>gnl|CDD|182353 PRK10280, PRK10280, dipeptidyl carboxypeptidase II; Provisional.
Length = 681
Score = 26.3 bits (58), Expect = 6.2
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 80 LMAVRAHQSLDGDKKTRDFVEF 101
L A + + +L G RDFVEF
Sbjct: 479 LFARQRYATLSGTNTPRDFVEF 500
>gnl|CDD|217300 pfam02950, Conotoxin, Conotoxin. Conotoxins are small snail toxins
that block ion channels.
Length = 73
Score = 24.7 bits (54), Expect = 6.9
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 80 LMAVRAHQSLDGDKKTRDFVEFMM 103
L+ A LDGD+ + + +
Sbjct: 13 LLTTLATADLDGDQPAKRDAKALS 36
>gnl|CDD|219974 pfam08696, Dna2, DNA replication factor Dna2. Dna2 is a DNA
replication factor with single-stranded DNA-dependent
ATPase, ATP-dependent nuclease, ( 5'-flap endonuclease)
and helicase activities. It is required for Okazaki
fragment processing and is involved in DNA repair
pathways.
Length = 209
Score = 25.7 bits (57), Expect = 7.2
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 41 RREYLTSGIKGFYKGITASYFGITETIIHFVIYEAIKAK 79
RR L KG S + TI+H + EA++A
Sbjct: 73 RRAVLQERFKG---SGEPSKPMLIGTIVHEIFQEALRAN 108
>gnl|CDD|220705 pfam10344, Fmp27, Mitochondrial protein from FMP27. This family
contains mitochondrial FMP27 proteins which in yeasts
together with SEN1 are long genes that exist in a looped
conformation, effectively bringing together their
promoter and terminator regions. Pol-II is located at
both ends of FMP27 when this gene is transcribed from a
GAL1 promoter under induced and non-induced conditions.
The exact function of the Fmp27 protein is not certain.
Length = 861
Score = 25.5 bits (56), Expect = 9.3
Identities = 12/67 (17%), Positives = 22/67 (32%), Gaps = 1/67 (1%)
Query: 56 ITASYFGITETIIHFVIYEAIKAKLMAVRAHQSLDGDKKTRDFVEFMMAGAVSKTCASCI 115
+ S + T I + + R + + R+ V F + G ++ C
Sbjct: 130 TSISDLDVGITQIGSLSLTDDSRRSKVDRESRPAEFSINLRN-VLFTLEGNEAEILDHCT 188
Query: 116 AYPHGKY 122
HGK
Sbjct: 189 LSLHGKL 195
>gnl|CDD|132872 cd07186, CofD_like, LPPG:FO 2-phospho-L-lactate transferase;
important in F420 biosynthesis. CofD is a
2-phospho-L-lactate transferase that catalyzes the last
step in the biosynthesis of coenzyme F(420)-0 (F(420)
without polyglutamate) by transferring the lactyl
phosphate moiety of lactyl(2)diphospho-(5')guanosine
(LPPG) to 7,8-didemethyl-8-hydroxy-5-deazariboflavin
ribitol (F0). F420 is a hydride carrier, important for
energy metabolism of methanogenic archaea, as well as
for the biosynthesis of other natural products, like
tetracycline in Streptomyces. F420 and some of its
precursors are also utilized as cofactors for enzymes,
like DNA photolyase in Mycobacterium tuberculosis.
Length = 303
Score = 25.3 bits (56), Expect = 9.9
Identities = 12/36 (33%), Positives = 15/36 (41%), Gaps = 5/36 (13%)
Query: 36 AMHIIRREYLTSGIKGFYKGIT---ASYFGITETII 68
A HI+R E L G +T A GI I+
Sbjct: 94 ATHILRTEMLREGKS--LSEVTAELAERLGIKARIL 127
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
0.326 0.135 0.413
Gapped
Lambda K H
0.267 0.0772 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,210,873
Number of extensions: 524298
Number of successful extensions: 513
Number of sequences better than 10.0: 1
Number of HSP's gapped: 510
Number of HSP's successfully gapped: 26
Length of query: 125
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 40
Effective length of database: 7,167,512
Effective search space: 286700480
Effective search space used: 286700480
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)