RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13327
(154 letters)
>gnl|CDD|218299 pfam04869, Uso1_p115_head, Uso1 / p115 like vesicle tethering
protein, head region. Also known as General vesicular
transport factor, Transcytosis associated protein (TAP)
and Vesicle docking protein, this myosin-shaped molecule
consists of an N-terminal globular head region, a
coiled-coil tail which mediates dimerisation, and a
short C-terminal acidic region. p115 tethers COP1
vesicles to the Golgi by binding the coiled coil
proteins giantin (on the vesicles) and GM130 (on the
Golgi), via its C-terminal acidic region. It is required
for intercisternal transport in the golgi stack. This
family consists of part of the head region. The head
region is highly conserved, but its function is unknown.
It does not seem to be essential for vesicle tethering.
The N-terminal part of the head region, not within this
family, contains context-detected
Armadillo/beta-catenin-like repeats (pfam00514).
Length = 308
Score = 75.8 bits (187), Expect = 4e-17
Identities = 33/83 (39%), Positives = 39/83 (46%), Gaps = 15/83 (18%)
Query: 84 SNHENQEHFANVYAP-------------SDPPRQAIVVLLMSMVNQK--QSYPLRCSVLY 128
N NQE FA V P DPP IV LL M+N+ Q + LRC+ LY
Sbjct: 1 GNARNQEEFAQVDVPYFDPSLPGQSQSNGDPPVPVIVALLNWMLNENSVQPFDLRCAALY 60
Query: 129 CFLCYLYRNENNQAKIIATLLPS 151
C YLY NE Q + T +PS
Sbjct: 61 CLKAYLYNNEEGQLHFLKTQIPS 83
>gnl|CDD|238862 cd01824, Phospholipase_B_like, Phospholipase-B_like. This subgroup
of the SGNH-family of lipolytic enzymes may have both
esterase and phospholipase-A/lysophospholipase activity.
It's members may be involved in the conversion of
phosphatidylcholine to fatty acids and
glycerophosphocholine, perhaps in the context of dietary
lipid uptake. Members may be membrane proteins. The
tertiary fold of the SGNH-hydrolases is substantially
different from that of the alpha/beta hydrolase family
and unique among all known hydrolases; Its active site
closely resembles two of the three components of typical
Ser-His-Asp(Glu) triad from other serine hydrolases.
Length = 288
Score = 32.7 bits (75), Expect = 0.046
Identities = 28/106 (26%), Positives = 40/106 (37%), Gaps = 14/106 (13%)
Query: 7 CESEEGWSAQR-ESNILALLKVIR--------SLVTPGNPAQVVSSCQFVLQVSGILGSL 57
CE S Q N+ L ++R +LV N A + S + LQ +L
Sbjct: 136 CEDANPGSPQTFVKNLRKALDILRDEVPRAFVNLVGLLNVASLRSLTKKPLQCETLLAPE 195
Query: 58 CNLLMAAGVPA-----CILTETINTVAEIIRSNHENQEHFANVYAP 98
C L+ + E N V EI+ S ++E FA V P
Sbjct: 196 CPCLLGPTENSYQDLKKFYKEYQNEVEEIVESGEFDREDFAVVVQP 241
>gnl|CDD|130972 TIGR01917, gly_red_sel_B, glycine reductase, selenoprotein B.
Glycine reductase is a complex with two selenoprotein
subunits, A and B. This model represents the glycine
reductase selenoprotein B. Closely related to it, but
excluded from this model, are selenoprotein B subunits
of betaine reductase and sarcosine reductase. All
contain selenocysteine incorporated during translation
at a specific UGA codon.
Length = 431
Score = 30.4 bits (68), Expect = 0.33
Identities = 28/77 (36%), Positives = 34/77 (44%), Gaps = 17/77 (22%)
Query: 16 QRESNILALLKVIRSLVTPGNPAQVVSSCQFVLQVSGILGSLCNLLMAAGVPACILTETI 75
++E I L K S T GN V +S QF + S L+AAGV A ILT T
Sbjct: 296 EKEGKIGELFKYFYS--TTGNGTAVANSKQFAKEFS-------KELLAAGVDAVILTSTU 346
Query: 76 NT--------VAEIIRS 84
T V EI R+
Sbjct: 347 GTCTRCGATMVKEIERA 363
>gnl|CDD|179491 PRK02886, PRK02886, hypothetical protein; Provisional.
Length = 87
Score = 27.7 bits (62), Expect = 0.98
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 10/39 (25%)
Query: 101 PPRQAIVVLLMSMVNQKQ----------SYPLRCSVLYC 129
RQ I+V L S+ KQ S L+ +VLYC
Sbjct: 3 NNRQGIIVWLHSLKQAKQLRKFGNVHYVSKRLKYAVLYC 41
>gnl|CDD|130973 TIGR01918, various_sel_PB, selenoprotein B,
glycine/betaine/sarcosine/D-proline reductase family.
This model represents selenoprotein B of glycine
reductase, sarcosine reductase, betaine reductase,
D-proline reductase, and perhaps others. This model is
built in fragment mode to assist in recognizing
fragmentary translations. All members are expected to
contain an internal TGA codon, encoding selenocysteine,
which may be misinterpreted as a stop codon.
Length = 431
Score = 28.0 bits (62), Expect = 2.1
Identities = 20/60 (33%), Positives = 22/60 (36%), Gaps = 15/60 (25%)
Query: 33 TPGNPAQVVSSCQFVLQVSGILGSLCNLLMAAGVPACILTETINT--------VAEIIRS 84
T GN V S QF + L GV A ILT T T V EI R+
Sbjct: 311 TVGNGTTVAESKQFAKEFV-------VELKQGGVDAVILTSTUGTCTRCGATMVKEIERA 363
>gnl|CDD|150561 pfam09902, DUF2129, Uncharacterized protein conserved in bacteria
(DUF2129). This domain, found in various hypothetical
prokaryotic proteins, has no known function. Structural
modelling suggests this domain may bind nucleic acids.
Length = 71
Score = 25.6 bits (57), Expect = 4.2
Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 17/56 (30%)
Query: 103 RQAIVVLLMSMVNQKQ----------SYPLRCSVLYCFLCYLYRNENNQAKIIATL 148
RQ ++V L S+ + +Q S ++ VLY N+ +I+ L
Sbjct: 1 RQGLIVYLYSLKDARQLRKFGDIVYVSKKMKYVVLYV-------NQEEVEEIVEKL 49
>gnl|CDD|179941 PRK05114, PRK05114, hypothetical protein; Provisional.
Length = 59
Score = 25.4 bits (56), Expect = 4.6
Identities = 12/29 (41%), Positives = 18/29 (62%), Gaps = 3/29 (10%)
Query: 61 LMAAGVPACILTETINTVAEIIRSNHENQ 89
LMA G+ + E I VAE +R+NH+ +
Sbjct: 23 LMAQGMSS---GEAIALVAEELRANHQGE 48
>gnl|CDD|129265 TIGR00161, TIGR00161, TIGR00161 family protein. This model
represents one out of two closely related ortholgous
sets of proteins that, so far, are found only in the
Archaea. This ortholog set includes MJ0106 from
Methanococcus jannaschii and AF1251 from Archaeoglobus
fulgidus, but not MJ1210 or AF0525 [Hypothetical
proteins, Conserved].
Length = 238
Score = 26.3 bits (58), Expect = 5.9
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 50 VSGILGSLCNLLMAAGVPA-CILTETIN 76
++GI G+L +PA C+L ET+
Sbjct: 151 LNGISGTLLTRCAVNDIPAICLLAETLG 178
>gnl|CDD|236614 PRK09705, cynX, putative cyanate transporter; Provisional.
Length = 393
Score = 26.7 bits (59), Expect = 6.6
Identities = 23/88 (26%), Positives = 35/88 (39%), Gaps = 20/88 (22%)
Query: 4 LPECESEEGWSAQRESNILALLKVI-----------------RSLVTPGNPAQVVSSCQF 46
LP E G SAQ ++LAL+ + R L+ Q+V C F
Sbjct: 228 LPAFYIEIGASAQYSGSLLALMTLGQAAGALLMPAMARHQDRRKLLMLALVLQLVGFCGF 287
Query: 47 V---LQVSGILGSLCNLLMAAGVPACIL 71
+ LQ+ + +C L + P C+L
Sbjct: 288 IWLPLQLPVLWAMVCGLGLGGAFPLCLL 315
>gnl|CDD|217679 pfam03701, UPF0181, Uncharacterized protein family (UPF0181).
This family contains small proteins of about 50 amino
acids of unknown function. The family includes YoaH.
Length = 52
Score = 24.2 bits (53), Expect = 8.5
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 61 LMAAGVPACILTETINTVAEIIRSNHENQE 90
LMA G+ + E I VA+ IR H+ +
Sbjct: 23 LMAQGMSS---GEAIAIVAQEIREKHQKKR 49
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
0.321 0.132 0.392
Gapped
Lambda K H
0.267 0.0744 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,332,159
Number of extensions: 617566
Number of successful extensions: 570
Number of sequences better than 10.0: 1
Number of HSP's gapped: 568
Number of HSP's successfully gapped: 16
Length of query: 154
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 65
Effective length of database: 6,990,096
Effective search space: 454356240
Effective search space used: 454356240
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: 55 (24.9 bits)