RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11889
(123 letters)
>gnl|CDD|215968 pfam00520, Ion_trans, Ion transport protein. This family contains
Sodium, Potassium, Calcium ion channels. This family is
6 transmembrane helices in which the last two helices
flank a loop which determines ion selectivity. In some
sub-families (e.g. Na channels) the domain is repeated
four times, whereas in others (e.g. K channels) the
protein forms as a tetramer in the membrane. A bacterial
structure of the protein is known for the last two
helices but is not the Pfam family due to it lacking the
first four helices.
Length = 194
Score = 51.9 bits (125), Expect = 3e-09
Identities = 23/63 (36%), Positives = 32/63 (50%), Gaps = 6/63 (9%)
Query: 4 NPENDFNSIPLGLWWALVTMTTVGYGD-----MVPKTYVGM-FVGALCALAGVLTIALPV 57
N ++F+S L W T+TT G+GD +VP T +G F L GVL + L +
Sbjct: 132 NGNSNFDSYGEALLWLFRTLTTEGWGDVMYDTLVPGTVLGKIFFVIFIILGGVLLLNLLI 191
Query: 58 PVI 60
VI
Sbjct: 192 GVI 194
>gnl|CDD|219619 pfam07885, Ion_trans_2, Ion channel. This family includes the
two membrane helix type ion channels found in bacteria.
Length = 74
Score = 49.1 bits (118), Expect = 4e-09
Identities = 17/50 (34%), Positives = 25/50 (50%)
Query: 6 ENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIAL 55
E L+++ VT+TT+GYGD+VP T G + L G+ L
Sbjct: 19 EGWGWDFLDALYFSFVTLTTIGYGDIVPLTDAGRLFTIIYILIGIPLFLL 68
>gnl|CDD|236711 PRK10537, PRK10537, voltage-gated potassium channel; Provisional.
Length = 393
Score = 41.5 bits (98), Expect = 3e-05
Identities = 21/63 (33%), Positives = 35/63 (55%), Gaps = 9/63 (14%)
Query: 11 SIPLGLWWALVTMTTVGYGDMVPKTYVG-MFVGALCALAGVLTI------ALPVPVIVSN 63
S+ ++++VTM+TVGYGD+VP + +F ++ L +T+ A+ PVI N
Sbjct: 168 SLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILG--ITVFATSISAIFGPVIRGN 225
Query: 64 FSR 66
R
Sbjct: 226 LKR 228
>gnl|CDD|215625 PLN03192, PLN03192, Voltage-dependent potassium channel;
Provisional.
Length = 823
Score = 35.2 bits (81), Expect = 0.005
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 16 LWWALVTMTTVGYGDMVPKTYVGM 39
++W++ TMTTVGYGD+ + M
Sbjct: 255 IYWSITTMTTVGYGDLHAVNTIEM 278
>gnl|CDD|224147 COG1226, Kch, Kef-type K+ transport systems, predicted NAD-binding
component [Inorganic ion transport and metabolism].
Length = 212
Score = 34.3 bits (78), Expect = 0.008
Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVP---KTYVGMFVGALCALAGVLTIALPVP 58
NPE + + L A+ T+TTVG ++VP ++ + + AL L G A+
Sbjct: 108 AINPELEILARARDLDEAVETLTTVGADEVVPPTFESALLLARAALVGLGGDSVEAILAL 167
Query: 59 VIV 61
+ +
Sbjct: 168 IEI 170
>gnl|CDD|178518 PLN02930, PLN02930, CDP-diacylglycerol-serine
O-phosphatidyltransferase.
Length = 353
Score = 32.4 bits (74), Expect = 0.037
Identities = 16/66 (24%), Positives = 23/66 (34%), Gaps = 2/66 (3%)
Query: 1 MHANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVI 60
+ P N L LWW + T Y + +GA C L+ L I + +I
Sbjct: 284 LWIPPRNPLIVYRLILWWLIAIPTIREYNSFLQDRKPVKKLGAFCWLS--LAICIVELLI 341
Query: 61 VSNFSR 66
F
Sbjct: 342 CIKFGH 347
>gnl|CDD|224173 COG1253, TlyC, Hemolysins and related proteins containing CBS
domains [General function prediction only].
Length = 429
Score = 31.1 bits (71), Expect = 0.11
Identities = 18/94 (19%), Positives = 35/94 (37%), Gaps = 12/94 (12%)
Query: 1 MHANPENDFNSIPLGLWWALVTMTT--VGYGDMVPKTYVGMFVGALCALAGVLTIALPVP 58
+ A E ++ L + +T V +G++VPK+ A+ +AL +
Sbjct: 82 LAALLEPLLEALGLSAALSFAIITFLHVVFGELVPKSI---------AIRNPEKVALLIA 132
Query: 59 VIVSNFSR-FYSHAQARSKLPKKRRRVLPVEQPR 91
+ F R Y +++ R+ VE
Sbjct: 133 PPLRFFYRLLYPLIWLLNRIANAILRLFGVEPVE 166
>gnl|CDD|212067 cd11498, SLC6sbd_GlyT1, Na(+)- and Cl(-)-dependent glycine
transporter GlyT1; solute-binding domain. GlyT1 is a
membrane-bound transporter that re-uptakes glycine from
the synaptic cleft. Human GlyT1 is encoded by the SLC6A9
gene. GlyT1 is expressed in brain, pancreas, uterus,
stomach, spleen, liver, and retina. GlyT1 may play a
role in schizophrenia. This subgroup belongs to the
solute carrier 6 (SLC6) transporter family.
Length = 585
Score = 29.5 bits (66), Expect = 0.49
Identities = 13/35 (37%), Positives = 19/35 (54%)
Query: 14 LGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALA 48
LG+W VGYG MV TY+G++ + +A
Sbjct: 86 LGVWRVSPMFKGVGYGMMVVSTYIGIYYNVVICIA 120
>gnl|CDD|220660 pfam10261, Scs3p, Inositol phospholipid synthesis and
fat-storage-inducing TM. This is a family of
transmembrane proteins which are variously annotated as
possibly being inositol phospholipid synthesis protein
and fat-storage-inducing. The members are conserved from
yeasts to humans and are localised to the endoplasmic
reticulum where they are involved in triglyceride lipid
droplet formation.
Length = 223
Score = 28.5 bits (64), Expect = 0.79
Identities = 10/38 (26%), Positives = 15/38 (39%), Gaps = 5/38 (13%)
Query: 14 LGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVL 51
LGLW ++ MT + + K +G L G
Sbjct: 188 LGLWVWMLLMTAIYFHTFPEK-----LLGLLFGYLGWY 220
>gnl|CDD|183124 PRK11412, PRK11412, putative uracil/xanthine transporter;
Provisional.
Length = 433
Score = 28.6 bits (64), Expect = 0.84
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 13 PLGLWWALVTMTTVGYGDM-VPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYS 69
P GLWW + T+G P + + AL+GV+TI + + +R ++
Sbjct: 74 PGGLWWGTILTITLGEASRGTPINDIATSLAVGIALSGVVTILIGFSGLGHRLARLFT 131
>gnl|CDD|216289 pfam01080, Presenilin, Presenilin. Mutations in presenilin-1 are a
major cause of early onset Alzheimer's disease. It has
been found that presenilin-1 binds to beta-catenin
in-vivo. This family also contains SPE proteins from
C.elegans.
Length = 403
Score = 28.3 bits (63), Expect = 0.97
Identities = 16/80 (20%), Positives = 28/80 (35%), Gaps = 15/80 (18%)
Query: 5 PENDFNSIPLGL----WWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTI------- 53
E + + LGL +++++ GD T + FV L L L +
Sbjct: 319 EEEEERGVKLGLGDFIFYSVLVGKASATGD--WNTTIACFVAILIGLCLTLLLLAVFKKA 376
Query: 54 --ALPVPVIVSNFSRFYSHA 71
ALP+ + F +
Sbjct: 377 LPALPISITFGLIFYFSTMF 396
>gnl|CDD|139913 PRK13853, PRK13853, type IV secretion system protein VirB4;
Provisional.
Length = 789
Score = 27.9 bits (62), Expect = 1.8
Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 9/59 (15%)
Query: 27 GYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQARSKLPKKRRRVL 85
+ + KT GM L +L++ P+ V+ +FS F + AQA +KL K ++
Sbjct: 240 SFREYPAKTRPGM-------LNTLLSLDFPL-VLTQSFS-FLTRAQAHAKLSLKSSQMT 289
>gnl|CDD|238424 cd00828, elong_cond_enzymes, "elongating" condensing enzymes are a
subclass of decarboxylating condensing enzymes,
including beta-ketoacyl [ACP] synthase, type I and II
and polyketide synthases.They are characterized by the
utlization of acyl carrier protein (ACP) thioesters as
primer substrates, as well as the nature of their active
site residues.
Length = 407
Score = 27.4 bits (61), Expect = 2.3
Identities = 13/44 (29%), Positives = 16/44 (36%)
Query: 19 ALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVS 62
A TT G G VP G+ ALA + VI +
Sbjct: 256 AGTASTTDGAGRSVPAGGKGIARAIRTALAKAGLSLDDLDVISA 299
>gnl|CDD|172945 PRK14470, PRK14470, ribosomal RNA large subunit methyltransferase
N; Provisional.
Length = 336
Score = 26.0 bits (57), Expect = 5.5
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 75 SKLPKKRRRVLPVEQPRP 92
+ +P KRR ++P+EQ P
Sbjct: 212 AAIPWKRRALMPIEQGFP 229
>gnl|CDD|219574 pfam07782, DC_STAMP, DC-STAMP-like protein. This is a family of
sequences which are similar to a region of the dendritic
cell-specific transmembrane protein (DC-STAMP). This is
thought to be a novel receptor protein that shares no
identity with other multimembrane-spanning proteins. It
is thought to have seven putative transmembrane regions,
two of which are found in the region featured in this
family. DC-STAMP is also described as having potential
N-linked glycosylation sites and a potential
phosphorylation site for PKC, but these are not
conserved throughout the family.
Length = 191
Score = 25.7 bits (57), Expect = 6.4
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 6/48 (12%)
Query: 60 IVSNFSRF---YSHAQARSKLP---KKRRRVLPVEQPRPKRGESVNVI 101
I F + + LP K+R++ + V PR R E +++
Sbjct: 6 ITKQFVQIDERRRELGKETVLPLRAKERKKYVDVTSPRLTRKERKSIL 53
>gnl|CDD|235978 PRK07234, PRK07234, putative monovalent cation/H+ antiporter
subunit D; Reviewed.
Length = 470
Score = 25.7 bits (57), Expect = 7.1
Identities = 15/66 (22%), Positives = 21/66 (31%), Gaps = 11/66 (16%)
Query: 11 SIPLGLWWALVTMT--------TVGYG--DMVPKTYVGMFVGALCALAGVLTIALPVPVI 60
+ +G W L + G+ + K + AL LA V T A I
Sbjct: 324 MLGIGKWIPLTMASFSIAGFPLLAGFVSKVLTLKNLLPWQAIAL-NLAAVGTAASFWKFI 382
Query: 61 VSNFSR 66
FS
Sbjct: 383 FLPFSA 388
>gnl|CDD|119245 pfam10725, DUF2517, Protein of unknown function (DUF2517). This
family is conserved in Proteobacteria. Several members
are annotated as being protein YbfA. The function is
not known.
Length = 63
Score = 24.7 bits (54), Expect = 7.1
Identities = 13/24 (54%), Positives = 17/24 (70%), Gaps = 2/24 (8%)
Query: 47 LAGVLTIALPVPVIVSNFSRFYSH 70
LAGVL ALPV + + +RFYS+
Sbjct: 19 LAGVL--ALPVMLFRKDRARFYSY 40
>gnl|CDD|182071 PRK09777, fecD, iron-dicitrate transporter subunit FecD;
Reviewed.
Length = 318
Score = 25.8 bits (57), Expect = 7.7
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 33 PKTYVGMFVGALCALAGVL 51
P+ + +FVGA A++GVL
Sbjct: 53 PRLLLALFVGAALAVSGVL 71
>gnl|CDD|223941 COG1009, NuoL, NADH:ubiquinone oxidoreductase subunit 5 (chain
L)/Multisubunit Na+/H+ antiporter, MnhA subunit [Energy
production and conversion / Inorganic ion transport and
metabolism].
Length = 606
Score = 25.3 bits (56), Expect = 9.4
Identities = 13/36 (36%), Positives = 16/36 (44%), Gaps = 13/36 (36%)
Query: 15 GLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGV 50
GL + P T+V +GAL ALAGV
Sbjct: 359 GLRKKM------------PITFVAFLIGAL-ALAGV 381
>gnl|CDD|224732 COG1819, COG1819, Glycosyl transferases, related to
UDP-glucuronosyltransferase [Carbohydrate transport and
metabolism / Signal transduction mechanisms].
Length = 406
Score = 25.5 bits (56), Expect = 9.6
Identities = 9/38 (23%), Positives = 14/38 (36%)
Query: 41 VGALCALAGVLTIALPVPVIVSNFSRFYSHAQARSKLP 78
V G+ L +PV+ N + + A LP
Sbjct: 101 VDDARLSLGLAARLLGIPVVGINVAPYTPLPAAGLPLP 138
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 0.135 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: 6,396,343
Number of extensions: 558021
Number of successful extensions: 734
Number of sequences better than 10.0: 1
Number of HSP's gapped: 733
Number of HSP's successfully gapped: 48
Length of query: 123
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 38
Effective length of database: 7,167,512
Effective search space: 272365456
Effective search space used: 272365456
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)