RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13849
(342 letters)
>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 = 53.8 bits (130), Expect = 1e-09
Identities = 24/57 (42%), Positives = 32/57 (56%)
Query: 73 KAGPQWKFAGAFYFSTVVLAMIGYGHSTPMTIGGKAFCMAYAMVGIPLGLVMFQSIG 129
+ G W F A YFS V L IGYG P+T G+ F + Y ++GIPL L+ +G
Sbjct: 18 EEGWGWDFLDALYFSFVTLTTIGYGDIVPLTDAGRLFTIIYILIGIPLFLLFLAVLG 74
Score = 46.0 bits (110), Expect = 5e-07
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 8/69 (11%)
Query: 230 LLSFIITTTGAAVFSKYEGWSYFDSFYYCFVTLTTIGFGDYVALQNDHALEQKPGYVALS 289
LL I T ++ + GW + D+ Y+ FVTLTTIG+GD V L +
Sbjct: 4 LLVLIFGTVYYSLEEEGWGWDFLDALYFSFVTLTTIGYGDIVPLT--------DAGRLFT 55
Query: 290 LVFILFGLA 298
+++IL G+
Sbjct: 56 IIYILIGIP 64
Score = 45.3 bits (108), Expect = 1e-06
Identities = 21/50 (42%), Positives = 28/50 (56%)
Query: 165 LLSFIITTTGAAVFSKYEGWSYFDSFYYCFVTLTTIGFGDYVALQGLLRC 214
LL I T ++ + GW + D+ Y+ FVTLTTIG+GD V L R
Sbjct: 4 LLVLIFGTVYYSLEEEGWGWDFLDALYFSFVTLTTIGYGDIVPLTDAGRL 53
>gnl|CDD|198101 smart01033, BING4CT, BING4CT (NUC141) domain. This C terminal
domain is found in the BING4 family of nucleolar WD40
repeat proteins.
Length = 80
Score = 28.0 bits (63), Expect = 2.0
Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 11/44 (25%)
Query: 16 FTYLLV---GAAVFDALESN-----TERRRWE---LLQSFRDEM 48
F+ ++V G FD+LE+N +RR E LL+ E+
Sbjct: 32 FSSIIVPGAGEPNFDSLEANPFETRKQRREREVRSLLEKLPPEL 75
>gnl|CDD|215625 PLN03192, PLN03192, Voltage-dependent potassium channel;
Provisional.
Length = 823
Score = 29.8 bits (67), Expect = 2.2
Identities = 33/137 (24%), Positives = 58/137 (42%), Gaps = 32/137 (23%)
Query: 120 LGLVMFQSIGERLNKFASIV---IRRAKGLLRCEHAEATEINLMFATGLLSFII------ 170
LGL+ F + R+ + + + IR + +RC + + L+ G L ++I
Sbjct: 171 LGLLRFWRL-RRVKQLFTRLEKDIRFSYFWIRCARLLSVTLFLVHCAGCLYYLIADRYPH 229
Query: 171 ---TTTGAAV--FSKYEGW-SYFDSFYYCFVTLTTIGFGDYVALQGLLRCEHAEATE--- 221
T GA + F + W Y + Y+ T+TT+G+GD HA T
Sbjct: 230 QGKTWIGAVIPNFRETSLWIRYISAIYWSITTMTTVGYGDL----------HAVNTIEMI 279
Query: 222 ---INLMFATGLLSFII 235
++F GL +++I
Sbjct: 280 FIIFYMLFNLGLTAYLI 296
Score = 28.7 bits (64), Expect = 5.7
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 12/73 (16%)
Query: 212 LRCEHAEATEINLMFATGLLSFII---------TTTGAAV--FSKYEGW-SYFDSFYYCF 259
+RC + + L+ G L ++I T GA + F + W Y + Y+
Sbjct: 200 IRCARLLSVTLFLVHCAGCLYYLIADRYPHQGKTWIGAVIPNFRETSLWIRYISAIYWSI 259
Query: 260 VTLTTIGFGDYVA 272
T+TT+G+GD A
Sbjct: 260 TTMTTVGYGDLHA 272
>gnl|CDD|115729 pfam07094, DUF1357, Protein of unknown function (DUF1357). This
family consists of several hypothetical bacterial
proteins of around 225 residues in length. Members of
this family appear to be specific Borrelia burgdorferi
(Lyme disease spirochete). The function of this family
is unknown.
Length = 222
Score = 29.2 bits (65), Expect = 2.3
Identities = 10/41 (24%), Positives = 19/41 (46%), Gaps = 13/41 (31%)
Query: 39 ELLQSFRDEMLRKY-------------NISQIDYHMLEIVV 66
E++++ E++RKY N+ ID LE ++
Sbjct: 112 EIVKAQARELIRKYVKPEQIKAIAKVENLEHIDGSSLEQLI 152
>gnl|CDD|188825 cd09441, LIM2_SF3, The second Lim domain of pollen specific protein
SF3. The second Lim domain of pollen specific protein
SF3: SF3 is a Lim protein that is found exclusively in
mature plant pollen grains. It contains two LIM domains.
The exact function of SF3 is unknown. It may be a
transcription factor required for the expression of late
pollen genes. It is possible that SF3 protein is
involved in controlling pollen-specific processes such
as male gamete maturation, pollen tube formation, or
even fertilization. As in other LIM domains, this domain
family is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein.
Length = 61
Score = 26.7 bits (59), Expect = 3.9
Identities = 14/35 (40%), Positives = 18/35 (51%)
Query: 182 EGWSYFDSFYYCFVTLTTIGFGDYVALQGLLRCEH 216
EG SY S + C TI +Y A +G L C+H
Sbjct: 17 EGTSYHKSCFKCSHGGCTISPSNYAAHEGRLYCKH 51
>gnl|CDD|198461 cd10470, FAM20B_C, C-terminal putative kinase domain of FAM20B
xylose kinase. Experiments with human FAM20B suggest
that it is a xylose kinase that participates in
proteoglycan production. It may regulate the number of
glycosaminoglycan chains by phosphorylating the xylose
residue in the glycosaminoglycan-protein linkage region
of proteoglycans. The C-terminal domain of FAM20B is a
putative kinase domain, based on mutagenesis of the
C-terminal domain of Drosophila Four-Jointed, a related
Golgi kinase. This subfamily belongs to the FAM20_C
(also known as DUF1193) domain family.
Length = 206
Score = 28.5 bits (64), Expect = 4.6
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 20 LVGAAVFDALESNTERRRWELLQSFRDEML 49
L+ A+FD L N +R +E Q + ML
Sbjct: 88 LIDTAIFDFLIGNGDRHHYETFQDDPESML 117
>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 = 28.0 bits (63), Expect = 5.9
Identities = 23/90 (25%), Positives = 33/90 (36%), Gaps = 22/90 (24%)
Query: 222 INLMFATGLLSFIITTTGAAVFSKYEGW----------------SYFDSFYYCFVTLTTI 265
+NL+ LL FI G +F SY ++ + F TLTT
Sbjct: 95 LNLLLLLLLLLFIFAIIGVQLFGGELDKCCDKNENPINGNSNFDSYGEALLWLFRTLTTE 154
Query: 266 GFGDYVALQNDHALEQKPGYVALSLVFILF 295
G+GD PG V + F++F
Sbjct: 155 GWGDV------MYDTLVPGTVLGKIFFVIF 178
Score = 27.6 bits (62), Expect = 7.0
Identities = 18/64 (28%), Positives = 25/64 (39%), Gaps = 16/64 (25%)
Query: 157 INLMFATGLLSFIITTTGAAVFSKYEGW----------------SYFDSFYYCFVTLTTI 200
+NL+ LL FI G +F SY ++ + F TLTT
Sbjct: 95 LNLLLLLLLLLFIFAIIGVQLFGGELDKCCDKNENPINGNSNFDSYGEALLWLFRTLTTE 154
Query: 201 GFGD 204
G+GD
Sbjct: 155 GWGD 158
>gnl|CDD|215464 PLN02860, PLN02860, o-succinylbenzoate-CoA ligase.
Length = 563
Score = 28.6 bits (64), Expect = 6.2
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 7/34 (20%)
Query: 91 LAMIGYG------HSTPMT-IGGKAFCMAYAMVG 117
+A++GYG H+ P+ IGG + +A MVG
Sbjct: 205 IAIVGYGEDDVYLHTAPLCHIGGLSSALAMLMVG 238
>gnl|CDD|236711 PRK10537, PRK10537, voltage-gated potassium channel; Provisional.
Length = 393
Score = 28.4 bits (64), Expect = 6.5
Identities = 13/36 (36%), Positives = 23/36 (63%)
Query: 83 AFYFSTVVLAMIGYGHSTPMTIGGKAFCMAYAMVGI 118
AFYFS V ++ +GYG P++ + F ++ ++GI
Sbjct: 172 AFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGI 207
>gnl|CDD|148764 pfam07343, DUF1475, Protein of unknown function (DUF1475). This
family consists of several hypothetical plant proteins
of around 250 residues in length. Members of this family
seem to be found exclusively in Arabidopsis thaliana.
The function of this family is unknown.
Length = 254
Score = 28.0 bits (62), Expect = 6.8
Identities = 26/109 (23%), Positives = 47/109 (43%), Gaps = 9/109 (8%)
Query: 226 FATGLLSFIITTTGAAVFSKYEGWSYFDSFY-----YCFVTLTTIGFGDYVALQNDHALE 280
F ++ F I T A + Y+ ++ SF+ CF ++ T Y+ L+
Sbjct: 47 FVATIIDFYINLTAIATWIIYKESNWIGSFFWTILLICFGSIATCA---YLFLKLFEIKN 103
Query: 281 QKPGYVALSLVFILFGLANDHALEQKPGYVALS-LVFILFGLAVVAASI 328
Q+ L L+F+ + + LE K +V ++ +F G + AA I
Sbjct: 104 QEASEDPLDLLFLRDSIKDGDGLEDKNSFVIIARFIFGALGAMMAAALI 152
>gnl|CDD|234355 TIGR03790, TIGR03790, TIGR03790 family protein. Despite a broad
and sporadic distribution (Cyanobacteria,
Verrucomicrobia, Acidobacteria, beta and delta
Proteobacteria, and Planctomycetes), this
uncharacterized protein family occurs only among the
roughly 8 percent of prokarotyic species that carry
homologs of the integral membrane protein exosortase
(see TIGR02602), a proposed protein-sorting system
transpeptidase.
Length = 316
Score = 27.7 bits (62), Expect = 8.2
Identities = 17/76 (22%), Positives = 26/76 (34%), Gaps = 12/76 (15%)
Query: 20 LVGAAVFDALESNTERRRWELLQSFRDEMLRKYNISQIDYHMLEIVVIENKPHKAGPQWK 79
L G A DA + RW +F LR+ + VV+++ P +
Sbjct: 167 LAGRAYVDARGGYKDGDRWLRAAAF---ALRRKGLP---------VVVDDTPGLFPRDFP 214
Query: 80 FAGAFYFSTVVLAMIG 95
A YF + G
Sbjct: 215 QDVALYFGWYSTGLYG 230
>gnl|CDD|216591 pfam01591, 6PF2K, 6-phosphofructo-2-kinase. This enzyme occurs as
a bifunctional enzyme with fructose-2,6-bisphosphatase.
The bifunctional enzyme catalyzes both the synthesis and
degradation of fructose-2,6-bisphosphate, a potent
regulator of glycolysis. This enzyme contains a P-loop
motif.
Length = 219
Score = 27.7 bits (62), Expect = 8.6
Identities = 13/55 (23%), Positives = 19/55 (34%), Gaps = 20/55 (36%)
Query: 24 AVFDALESNTERRRWELLQSFR--------------DEMLRKYNISQI-----DY 59
A+FDA + ERR+ +L D + NI + DY
Sbjct: 97 AIFDATNTTRERRKM-ILDFAEENGLKVFFLESICDDPEIIARNIKLVKFSSPDY 150
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
0.328 0.141 0.427
Gapped
Lambda K H
0.267 0.0773 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,808,997
Number of extensions: 1778399
Number of successful extensions: 2628
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2607
Number of HSP's successfully gapped: 90
Length of query: 342
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 244
Effective length of database: 6,590,910
Effective search space: 1608182040
Effective search space used: 1608182040
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 (21.8 bits)
S2: 59 (26.4 bits)