RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13917
(135 letters)
>gnl|CDD|211386 cd11300, Fut8_like, Alpha 1-6-fucosyltransferase. Alpha
1,6-fucosyltransferase (Fut8) transfers a fucose moiety
from GDP-fucose to the reducing terminal
N-acetylglucosamine of the core structure of Asn-linked
oligosaccharides, in a process termed core fucosylation.
Core fucosylation is essential for the function of
growth factor receptors. O-fucosyltransferase-like
proteins are GDP-fucose dependent enzymes with
similarities to the family 1 glycosyltransferases (GT1).
They are soluble ER proteins that may be proteolytically
cleaved from a membrane-associated preprotein, and are
involved in the O-fucosylation of protein substrates,
the core fucosylation of growth factor receptors, and
other processes.
Length = 328
Score = 186 bits (475), Expect = 9e-60
Identities = 67/108 (62%), Positives = 78/108 (72%)
Query: 21 DSFDDWRLKESLDLSDLVQRRLEYLQNPPDCRTARKLVCELNKGCGYGCQLHHVVYCFIV 80
D +WR KE LS LVQ+R+ LQNP DC A+KLVC LNKGCG+GCQLHHVVYC IV
Sbjct: 1 DGDSEWRRKELKKLSKLVQKRIHKLQNPKDCSKAKKLVCNLNKGCGFGCQLHHVVYCLIV 60
Query: 81 AYATRRTLILDSKEWSYSRGGWEEVFQPVSKTCTSPEGVSNSGWPGKG 128
AY T RTLILDSK W YS GGWE+VF P+S+TCT G + + W +
Sbjct: 61 AYGTNRTLILDSKGWRYSPGGWEKVFLPLSETCTDRSGDNTAVWWWEP 108
>gnl|CDD|211383 cd11296, O-FucT_like, GDP-fucose protein O-fucosyltransferase and
related proteins. O-fucosyltransferase-like proteins
are GDP-fucose dependent enzymes with similarities to
the family 1 glycosyltransferases (GT1). They are
soluble ER proteins that may be proteolytically cleaved
from a membrane-associated preprotein, and are involved
in the O-fucosylation of protein substrates, the core
fucosylation of growth factor receptors, and other
processes.
Length = 206
Score = 35.1 bits (81), Expect = 0.004
Identities = 9/36 (25%), Positives = 15/36 (41%)
Query: 64 GCGYGCQLHHVVYCFIVAYATRRTLILDSKEWSYSR 99
G G+ Q + + ++A RTL+L R
Sbjct: 8 GGGFNNQRNEFLNALLLAILLGRTLVLPLCLACPIR 43
>gnl|CDD|226183 COG3657, COG3657, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 100
Score = 31.6 bits (72), Expect = 0.043
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 7/58 (12%)
Query: 16 TLKARDSFDDWR--LKESLDLSDLVQRRLEYLQ--NPPDCRTARKLVCEL--NKGCGY 67
TLK D+F +W LK+ + + RL+ L N D + + V EL + G GY
Sbjct: 5 TLKGTDTFSEWLKKLKDRRAKAKI-AARLDRLALGNFGDVKPVGEGVSELRIDHGPGY 61
>gnl|CDD|218910 pfam06144, DNA_pol3_delta, DNA polymerase III, delta subunit.
DNA polymerase III, delta subunit (EC 2.7.7.7) is
required for, along with delta' subunit, the assembly
of the processivity factor beta(2) onto primed DNA in
the DNA polymerase III holoenzyme-catalyzed reaction.
The delta subunit is also known as HolA.
Length = 172
Score = 28.8 bits (65), Expect = 0.59
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 23 FDDWRLKESLDLSDLVQRRLEYLQNPPD 50
++ LKES L++R EYL NPP+
Sbjct: 63 LNNPNLKESKLNEKLLKRLEEYLSNPPE 90
>gnl|CDD|148455 pfam06851, DUF1247, Protein of unknown function (DUF1247). This
family contains a number of hypothetical viral proteins
of unknown function approximately 200 residues long.
Length = 148
Score = 26.9 bits (60), Expect = 2.4
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 17 LKARDSFDDWRLKESLDLSDLVQRRLEYLQN 47
L R +D+ + E+++LSD + L LQ
Sbjct: 14 LLQRKKDEDFDINETIELSDETRDYLNALQT 44
>gnl|CDD|185730 cd08989, GH43_XYL, Glycosyl hydrolase family 43, beta-D-xylosidase.
This glycosyl hydrolase family 43 (GH43) includes
mostly enzymes that have been characterized to have
beta-1,4-xylosidase (beta-D-xylosidase;xylan
1,4-beta-xylosidase; EC 3.2.1.37) activity. They are
part of an array of hemicellulases that are involved in
the final breakdown of plant cell-wall whereby they
degrade xylan. They hydrolyze beta-1,4 glycosidic bonds
between two xylose units in short xylooligosaccharides.
These are inverting enzymes (i.e. they invert the
stereochemistry of the anomeric carbon atom of the
substrate) that have an aspartate as the catalytic
general base, a glutamate as the catalytic general acid
and another aspartate that is responsible for pKa
modulation and orienting the catalytic acid. A common
structural feature of GH43 enzymes is a 5-bladed
beta-propeller domain that contains the catalytic acid
and catalytic base. A long V-shaped groove, partially
enclosed at one end, forms a single extended
substrate-binding surface across the face of the
propeller.
Length = 269
Score = 27.1 bits (60), Expect = 3.0
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 68 GCQLHH---VVYCFIVAYATRRTLILDSKEWSYSRGGW 102
G Q+HH +V ++ + R LD K YS G W
Sbjct: 32 GVQIHHSTDLVNWHLIGHPLDRLEDLDMKGNPYSGGIW 69
>gnl|CDD|237433 PRK13576, PRK13576, 3-dehydroquinate dehydratase; Provisional.
Length = 216
Score = 26.3 bits (58), Expect = 5.2
Identities = 8/24 (33%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 27 RLKESLDLSDLVQRRLEYLQNPPD 50
+ LD +DL++ RL+YL++
Sbjct: 19 LIGNFLD-ADLIELRLDYLKDREV 41
>gnl|CDD|235941 PRK07118, PRK07118, ferredoxin; Validated.
Length = 280
Score = 26.4 bits (59), Expect = 5.7
Identities = 15/34 (44%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 36 DLVQRRLEYLQNPPDCRTARKLVCELNKGCGYGC 69
D + R EY Q DC A L+ KGC YGC
Sbjct: 110 DKAKERYEY-QGIKDCAAA-ALLFGGPKGCSYGC 141
>gnl|CDD|148527 pfam06956, RtcR, Regulator of RNA terminal phosphate cyclase.
RtcR is a sigma54-dependent enhancer binding protein
that activates transcription of the rtcBA operon. The
product of the rtcA gene is an RNA 3'-terminal
phosphate cyclase. This domain is found at the N
terminus of the RtcR sequence. RtcR, and other
sigma54-dependent activators, contain pfam00158 in the
central region of the protein sequence.
Length = 183
Score = 26.1 bits (58), Expect = 6.1
Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 13 VLDTLKARDSFDDWRLKESL-DLSDLVQRRLEYLQNPPDCRTARKLV 58
LD K ++ WR SL DL RLE L + D A ++
Sbjct: 13 TLDRGKGAARWEKWRPTVSLCQQPDLPVDRLELLHDARDRSLAERVR 59
>gnl|CDD|217332 pfam03038, Herpes_UL95, UL95 family. Members of this family, found
in several herpesviruses, include EBV BGLF3 and other
UL95 proteins (e.g. HCMV UL95, HVS-1 34, HSV6 U67).
Their function is unknown.
Length = 330
Score = 26.1 bits (58), Expect = 6.9
Identities = 8/25 (32%), Positives = 15/25 (60%)
Query: 24 DDWRLKESLDLSDLVQRRLEYLQNP 48
++W+ SL+ D+++ LE L P
Sbjct: 122 EEWQTALSLNKDDIIEAALELLATP 146
>gnl|CDD|237798 PRK14714, PRK14714, DNA polymerase II large subunit; Provisional.
Length = 1337
Score = 26.2 bits (58), Expect = 8.4
Identities = 19/59 (32%), Positives = 25/59 (42%), Gaps = 4/59 (6%)
Query: 8 RSLLHVLDTLKARDS---FDDWR-LKESLDLSDLVQRRLEYLQNPPDCRTARKLVCELN 62
R+L +L R+ DWR L SL L + LE+ P D A L+ EL
Sbjct: 539 RTLELLLVPHTVREDRIRIPDWRPLLRSLGLDLSSEAALEWEFAPKDGHNAIDLINELA 597
>gnl|CDD|179388 PRK02230, PRK02230, inorganic pyrophosphatase; Provisional.
Length = 184
Score = 25.4 bits (56), Expect = 9.9
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 24 DDWRLKESLDLSDLVQRRLEYLQN 47
DD+RL L DL Q L+ ++
Sbjct: 100 DDYRLDHINSLKDLPQHWLDEIEY 123
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 0.139 0.457
Gapped
Lambda K H
0.267 0.0755 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,915,499
Number of extensions: 586758
Number of successful extensions: 420
Number of sequences better than 10.0: 1
Number of HSP's gapped: 420
Number of HSP's successfully gapped: 17
Length of query: 135
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 48
Effective length of database: 7,078,804
Effective search space: 339782592
Effective search space used: 339782592
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: 53 (24.1 bits)