RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15736
(70 letters)
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 30.7 bits (69), Expect = 0.038
Identities = 14/24 (58%), Positives = 20/24 (83%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEE 25
E E+ EE+E +EEEEEE E+++EE
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEE 887
Score = 30.7 bits (69), Expect = 0.040
Identities = 13/24 (54%), Positives = 20/24 (83%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEE 25
+ E+ EE+E +EEEEEE E+++EE
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEEE 885
Score = 30.3 bits (68), Expect = 0.054
Identities = 16/36 (44%), Positives = 24/36 (66%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNL 37
+G D EE+E +EEEEEE E+++EE N++ L
Sbjct: 859 DGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEEPL 894
Score = 26.5 bits (58), Expect = 1.1
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEIEVE 43
G D + E +EEEEEE E+++EE ++N + +E
Sbjct: 856 GGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSLE 897
>gnl|CDD|219355 pfam07267, Nucleo_P87, Nucleopolyhedrovirus capsid protein P87.
This family consists of several Nucleopolyhedrovirus
capsid protein P87 sequences. P87 is expressed late in
infection and concentrated in infected cell nuclei.
Length = 606
Score = 30.2 bits (68), Expect = 0.055
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 5 DHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKN 36
+E E +E+E D E+ R+RRR KN
Sbjct: 370 SSDEDEDDSDEDE---VDYEKERKRRREEDKN 398
>gnl|CDD|184416 PRK13955, mscL, large-conductance mechanosensitive channel;
Provisional.
Length = 130
Score = 28.2 bits (63), Expect = 0.19
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 9 KEYQEEEEEEPEKDKEEV 26
K+ +E+EEE PE KEE
Sbjct: 96 KKEEEKEEEIPEPTKEEE 113
>gnl|CDD|133061 cd06439, CESA_like_1, CESA_like_1 is a member of the cellulose
synthase (CESA) superfamily. This is a subfamily of
cellulose synthase (CESA) superfamily. CESA superfamily
includes a wide variety of glycosyltransferase family 2
enzymes that share the common characteristic of
catalyzing the elongation of polysaccharide chains. The
members of the superfamily include cellulose synthase
catalytic subunit, chitin synthase, glucan biosynthesis
protein and other families of CESA-like proteins.
Length = 251
Score = 28.3 bits (64), Expect = 0.20
Identities = 11/22 (50%), Positives = 11/22 (50%)
Query: 16 EEEPEKDKEEVRRRRRRNQKNL 37
EE E EE RRR R NL
Sbjct: 228 EEVAEDGSEEFRRRVRIAAGNL 249
>gnl|CDD|216269 pfam01056, Myc_N, Myc amino-terminal region. The myc family
belongs to the basic helix-loop-helix leucine zipper
class of transcription factors, see pfam00010. Myc forms
a heterodimer with Max, and this complex regulates cell
growth through direct activation of genes involved in
cell replication. Mutations in the C-terminal 20
residues of this domain cause unique changes in the
induction of apoptosis, transformation, and G2 arrest.
Length = 329
Score = 28.4 bits (63), Expect = 0.22
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEIEVERSWVHS 49
+ E E++E +EEEEEE E D V +RR N E V S
Sbjct: 225 DSESEEDEEEEEEEEEEEEIDVVTVEKRRS--SSNRKASTSESITVPS 270
>gnl|CDD|163667 cd07424, MPP_PrpA_PrpB, PrpA and PrpB, metallophosphatase domain.
PrpA and PrpB are bacterial type I serine/threonine and
tyrosine phosphatases thought to modulate the expression
of proteins that protect the cell upon accumulation of
misfolded proteins in the periplasm. The PPP
(phosphoprotein phosphatase) family, to which PrpA and
PrpB belong, is one of two known protein phosphatase
families specific for serine and threonine. This family
also includes: PP1, PP2A, PP2B (calcineurin), PP4, PP5,
PP6, PP7, Bsu1, RdgC, PrpE, and ApA4 hydrolase. The PPP
catalytic domain is defined by three conserved motifs
(-GDXHG-, -GDXVDRG- and -GNHE-). The PPP enzyme family
is ancient with members found in all eukaryotes, and in
most bacterial and archeal genomes. Dephosphorylation
of phosphoserines and phosphothreonines on target
proteins plays a central role in the regulation of many
cellular processes. PPPs belong to the
metallophosphatase (MPP) superfamily. MPPs are
functionally diverse, but all share a conserved domain
with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 207
Score = 27.6 bits (62), Expect = 0.35
Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 10/46 (21%)
Query: 24 EEVRRRRRRNQKNLP-EIEVERSWVHSGEGYEAQLVCIVHAEPHAD 68
EE+RR + LP IEVE E V IVHA+ +D
Sbjct: 96 EELRRWLALKLEQLPLAIEVET---------EGGKVGIVHADYPSD 132
>gnl|CDD|222217 pfam13552, DUF4127, Protein of unknown function (DUF4127). This
family of uncharacterized bacterial proteins are about
500 amino acids in length.
Length = 495
Score = 27.6 bits (62), Expect = 0.37
Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 5/51 (9%)
Query: 1 MEGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQK-NLPEIEVERSWVHSG 50
+ E E E + E P + E+ RR RN NL I+ V G
Sbjct: 147 RGLTEEERAELAELKAEIPPEYLEDYLTRRERNLAVNLALID----LVKEG 193
>gnl|CDD|205200 pfam13019, Telomere_Sde2, Telomere stability and silencing. Sde2
has been identified in fission yeast as an important
factor in telomere formation and maintenance. This is a
more N-terminal domain on these nuclear proteins, and is
essential for telomeric silencing and genomic stability.
Length = 163
Score = 27.5 bits (61), Expect = 0.41
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 7 EEKEYQEEEEEEPEKDKEEVRRRRRRNQK 35
E K E +PE +K+E RR+R +
Sbjct: 128 EAKALAEYLAIKPEMEKKEKEARRKRWES 156
>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein. CDC45 is an essential gene
required for initiation of DNA replication in S.
cerevisiae, forming a complex with MCM5/CDC46.
Homologues of CDC45 have been identified in human, mouse
and smut fungus among others.
Length = 583
Score = 27.3 bits (61), Expect = 0.56
Identities = 7/34 (20%), Positives = 21/34 (61%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQK 35
+ ED E + +++E+++ + D +++ R R ++
Sbjct: 134 DEEDEESSKSEDDEDDDDDDDDDDIATRERSLER 167
Score = 24.9 bits (55), Expect = 3.4
Identities = 6/34 (17%), Positives = 17/34 (50%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQK 35
E ++ K +E++++ + D + R R ++
Sbjct: 135 EEDEESSKSEDDEDDDDDDDDDDIATRERSLERR 168
>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein.
Length = 529
Score = 27.0 bits (60), Expect = 0.60
Identities = 13/41 (31%), Positives = 27/41 (65%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEIEV 42
E ++ EEK +EEE + E++KEE +++ ++ ++ E E+
Sbjct: 46 EKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETTTEWEL 86
>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component. This
family is a region of the Myb-Related Cdc5p/Cef1
proteins, in fungi, and is part of the pre-mRNA splicing
factor complex.
Length = 363
Score = 26.9 bits (60), Expect = 0.61
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 7 EEKEYQEEEEEEPEKDKEEVRRRRRRNQK 35
EE+E EE EEE E+D + R+R ++
Sbjct: 152 EEEEEPEEMEEELEEDAADRDARKRAAEE 180
>gnl|CDD|234406 TIGR03939, PGA_TPR_OMP, poly-beta-1,6 N-acetyl-D-glucosamine export
porin PgaA. Members of this protein family are the
poly-beta-1,6 N-acetyl-D-glucosamine (PGA) export porin
PgaA of Gram-negative bacteria. There is no counterpart
in the poly-beta-1,6 N-acetyl-D-glucosamine biosynthesis
systems of Gram-positive bacteria such as Staphylococcus
epidermidis. The PGA polysaccharide adhesin is a
critical determinant of biofilm formation. The conserved
C-terminal domain of this outer membrane protein is
preceded by a variable number of TPR repeats.
Length = 800
Score = 26.9 bits (60), Expect = 0.64
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 16 EEEPEKDKEEVRRRRRRNQKNLPEIEVERSWVHSGEG 52
PE D++ R RRR+ N PE+ V HS
Sbjct: 491 ARYPE-DEQVQRLARRRDVHNRPELRVSGGKGHSSGP 526
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 26.9 bits (59), Expect = 0.80
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 1 MEGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEIE 41
+E +D +EKE +EE ++ D E + N + PE E
Sbjct: 3945 LEDKDRQEKEDEEEMSDDVGIDDEIQPDIQENNSQPPPENE 3985
>gnl|CDD|217393 pfam03154, Atrophin-1, Atrophin-1 family. Atrophin-1 is the
protein product of the dentatorubral-pallidoluysian
atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
neurodegenerative disorder. It is caused by the
expansion of a CAG repeat in the DRPLA gene on
chromosome 12p. This results in an extended
polyglutamine region in atrophin-1, that is thought to
confer toxicity to the protein, possibly through
altering its interactions with other proteins. The
expansion of a CAG repeat is also the underlying defect
in six other neurodegenerative disorders, including
Huntington's disease. One interaction of expanded
polyglutamine repeats that is thought to be pathogenic
is that with the short glutamine repeat in the
transcriptional coactivator CREB binding protein, CBP.
This interaction draws CBP away from its usual nuclear
location to the expanded polyglutamine repeat protein
aggregates that are characteristic of the polyglutamine
neurodegenerative disorders. This interferes with
CBP-mediated transcription and causes cytotoxicity.
Length = 979
Score = 27.0 bits (59), Expect = 0.87
Identities = 17/68 (25%), Positives = 30/68 (44%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEIEVERSWVHSGEGYEAQLVCIV 61
E + ++E +++ EE E++KE+ + R R ++ S H E QL
Sbjct: 583 EAVEKAKREAEQKAREEREREKEKEKEREREREREAERAAKASSSSHESRMSEPQLSGPA 642
Query: 62 HAEPHADP 69
H P +P
Sbjct: 643 HMRPSFEP 650
>gnl|CDD|236168 PRK08156, PRK08156, type III secretion system protein SpaS;
Validated.
Length = 361
Score = 26.5 bits (59), Expect = 0.99
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 5/34 (14%)
Query: 22 DKEEVRRRRRRNQKNLPEIEVERSWVH----SGE 51
DK+EV+R + + N PEI+ +R H S +
Sbjct: 211 DKQEVKREYKEQEGN-PEIKSKRREAHQEILSEQ 243
>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230;
Provisional.
Length = 2849
Score = 26.5 bits (58), Expect = 1.1
Identities = 10/26 (38%), Positives = 20/26 (76%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVR 27
+ ED +E + EE++EE E+++EE++
Sbjct: 156 DDEDEDEDDDDEEDDEEEEEEEEEIK 181
Score = 25.8 bits (56), Expect = 2.1
Identities = 8/25 (32%), Positives = 19/25 (76%)
Query: 1 MEGEDHEEKEYQEEEEEEPEKDKEE 25
++ +D +E E ++EE++ E+++EE
Sbjct: 153 IDDDDEDEDEDDDDEEDDEEEEEEE 177
>gnl|CDD|215094 PLN00188, PLN00188, enhanced disease resistance protein (EDR2);
Provisional.
Length = 719
Score = 26.3 bits (58), Expect = 1.1
Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 1 MEGEDHEEKEYQ-EEEEEEPEKDKEEVRRRRRRNQ 34
M+ + +++E+Q E E+EPE K E + +
Sbjct: 441 MDEDSDDDEEFQIPESEQEPETTKNETKDTAMEEE 475
>gnl|CDD|218734 pfam05758, Ycf1, Ycf1. The chloroplast genomes of most higher
plants contain two giant open reading frames designated
ycf1 and ycf2. Although the function of Ycf1 is unknown,
it is known to be an essential gene.
Length = 832
Score = 25.7 bits (57), Expect = 1.8
Identities = 10/45 (22%), Positives = 20/45 (44%), Gaps = 5/45 (11%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEIEVERSW 46
EG E+ EE+E+P+K ++ + + + + E W
Sbjct: 257 EGSTEEDPSLFSEEKEDPDKTEDL-----DKLEILKEKKDEELFW 296
Score = 24.6 bits (54), Expect = 4.7
Identities = 9/33 (27%), Positives = 14/33 (42%)
Query: 13 EEEEEEPEKDKEEVRRRRRRNQKNLPEIEVERS 45
EE EEE + + E + Q+ E + S
Sbjct: 233 EEREEETDVEIETTSETKGTKQEQEGSTEEDPS 265
Score = 24.6 bits (54), Expect = 5.9
Identities = 8/44 (18%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 3 GEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEIEVERSW 46
+ E K EE+ +++K + + ++ IE+ +W
Sbjct: 648 EKKKEFKILDYTEEKTKKEEK-----KEKNKREEKERIEIAETW 686
>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated.
Length = 330
Score = 25.6 bits (57), Expect = 2.0
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 7 EEKEYQEEEEEEPEKDKEE 25
E+E +EEEEEE E+ EE
Sbjct: 301 AEEEEEEEEEEEEEEPSEE 319
Score = 24.1 bits (53), Expect = 6.6
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 7 EEKEYQEEEEEEPEKDKEE 25
+E +EEEEEE E++ E
Sbjct: 300 AAEEEEEEEEEEEEEEPSE 318
>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed.
Length = 1068
Score = 25.8 bits (57), Expect = 2.0
Identities = 7/30 (23%), Positives = 16/30 (53%)
Query: 7 EEKEYQEEEEEEPEKDKEEVRRRRRRNQKN 36
E+ +E+ + K E ++ RR+ ++N
Sbjct: 583 GEETKPQEQPAPKAEAKPERQQDRRKPRQN 612
>gnl|CDD|220135 pfam09184, PPP4R2, PPP4R2. PPP4R2 (protein phosphatase 4 core
regulatory subunit R2) is the regulatory subunit of the
histone H2A phosphatase complex. It has been shown to
confer resistance to the anticancer drug cisplatin in
yeast, and may confer resistance in higher eukaryotes.
Length = 285
Score = 25.6 bits (56), Expect = 2.2
Identities = 12/26 (46%), Positives = 19/26 (73%)
Query: 1 MEGEDHEEKEYQEEEEEEPEKDKEEV 26
+G+ EEKE +E+EEEE +++EE
Sbjct: 255 QDGDYVEEKELKEDEEEEETEEEEEE 280
>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 25.4 bits (56), Expect = 2.7
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQ-KNLPEIEVER 44
E + EEKE + E E +K+K+ NQ KN+ E E
Sbjct: 1521 ENRNQEEKEPAGQGELESDKEKKGNLESVLSNQEKNIEEDYAES 1564
Score = 24.3 bits (53), Expect = 6.9
Identities = 11/43 (25%), Positives = 22/43 (51%), Gaps = 12/43 (27%)
Query: 4 EDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEIEVERSW 46
E ++K+ +E+++EE K +E+ R IE+ +W
Sbjct: 743 EKTKKKKKKEKKKEEEYKREEKAR------------IEIAEAW 773
>gnl|CDD|219956 pfam08658, Rad54_N, Rad54 N terminal. This is the N terminal of
the DNA repair protein Rad54.
Length = 191
Score = 25.4 bits (56), Expect = 2.8
Identities = 10/40 (25%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 1 MEGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEI 40
++ + E+E + E+++EPE+ + ++ + + K+L EI
Sbjct: 141 VDDKPKIEEE-KAEKDQEPEESETKLSNGPKVH-KSLAEI 178
>gnl|CDD|213527 TIGR00390, hslU, ATP-dependent protease HslVU, ATPase subunit.
This model represents the ATPase subunit of HslVU, while
the proteasome-related peptidase subunit is HslV.
Residues 54-61 of the model contain a P-loop ATP-binding
motif. Cys-287 of E. coli (position 308 in the seed
alignment), studied in MEDLINE:98389714, is Ser in other
members of the seed alignment [Protein fate, Protein
folding and stabilization].
Length = 441
Score = 25.2 bits (55), Expect = 3.4
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 12 QEEEEEEPEKDKEEVRRRRRRNQKNLPEIEVE 43
EE +E E +E R++ R + + EIE+E
Sbjct: 142 NMEEIQEEESVREAFRKKLREGELDDKEIEIE 173
>gnl|CDD|218421 pfam05086, Dicty_REP, Dictyostelium (Slime Mold) REP protein. This
family consists of REP proteins from Dictyostelium
(Slime molds). REP protein is likely involved in
transcription regulation and control of DNA replication,
specifically amplification of plasmid at low copy
numbers. The formation of homomultimers may be required
for their regulatory activity.
Length = 910
Score = 25.2 bits (55), Expect = 3.6
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 2 EGEDHEEKEYQEEEEEE 18
E ED +E E ++E+E+E
Sbjct: 894 EDEDQDEDEDEDEDEDE 910
>gnl|CDD|221304 pfam11904, GPCR_chapero_1, GPCR-chaperone. This domain, and the
associated ANK family repeat pfam00023 domain, together
act as a chaperone for biogenesis and folding of the DP
receptor for prostaglandin D2.
Length = 290
Score = 25.1 bits (55), Expect = 3.8
Identities = 7/21 (33%), Positives = 13/21 (61%)
Query: 5 DHEEKEYQEEEEEEPEKDKEE 25
DH++KE EE + +++E
Sbjct: 37 DHDDKEVYNALEELSDAEEDE 57
>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein. This is a family of
fungal and plant proteins and contains many hypothetical
proteins. VID27 is a cytoplasmic protein that plays a
potential role in vacuolar protein degradation.
Length = 794
Score = 24.7 bits (54), Expect = 4.2
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEIEVER 44
+ + E +E+EEEE E+D++E + + + E +VE
Sbjct: 383 DANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDVES 425
Score = 24.3 bits (53), Expect = 6.0
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 13/54 (24%)
Query: 1 MEGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEIEVERSWVHSGEGYE 54
+E ED + EEEE+E E+++E+ E E E +E
Sbjct: 379 LEIEDANTERDDEEEEDEEEEEEED-------------EDEGPSKEHSDDEEFE 419
>gnl|CDD|237737 PRK14507, PRK14507, putative bifunctional
4-alpha-glucanotransferase/malto-oligosyltrehalose
synthase; Provisional.
Length = 1693
Score = 24.7 bits (54), Expect = 4.3
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 34 QKNLPEIEVERSWVHSGEGYEAQLVCIVHA 63
+K E + SWV+ EGYEA + +V A
Sbjct: 1440 EKAAREAKRHSSWVNPDEGYEAAVAGLVRA 1469
>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein. This
protein is covalently attached to the terminii of
replicating DNA in vivo.
Length = 548
Score = 24.6 bits (54), Expect = 4.4
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRR 28
E E+ +E +EEEEEE +EEVR
Sbjct: 310 EEEEEVPEEEEEEEEEEERTFEEEVRA 336
>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein. The YqfQ-like protein family
includes the B. subtilis YqfQ protein, also known as
VrrA, which is functionally uncharacterized. This family
of proteins is found in bacteria. Proteins in this
family are typically between 146 and 237 amino acids in
length. There are two conserved sequence motifs: QYGP
and PKLY.
Length = 155
Score = 24.7 bits (54), Expect = 4.5
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQKN 36
E E+ EE+ E E+E+P + K E + +++R
Sbjct: 97 EEEETEEESTDETEQEDPPETKTESKEKKKREVPK 131
>gnl|CDD|131155 TIGR02100, glgX_debranch, glycogen debranching enzyme GlgX. This
family consists of the GlgX protein from the E. coli
glycogen operon and probable equivalogs from other
prokaryotic species. GlgX is not required for glycogen
biosynthesis, but instead acts as a debranching enzyme
for glycogen catabolism. This model distinguishes GlgX
from pullanases and other related proteins that also
operate on alpha-1,6-glycosidic linkages. In the wide
band between the trusted and noise cutoffs are
functionally similar enzymes, mostly from plants, that
act similarly but usually are termed isoamylase [Energy
metabolism, Biosynthesis and degradation of
polysaccharides].
Length = 688
Score = 24.6 bits (54), Expect = 4.6
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 18 EPEKDKEEVRRRRRRNQKNL 37
E D + RRR Q+NL
Sbjct: 486 EGPTDDPAINALRRRQQRNL 505
>gnl|CDD|227480 COG5151, SSL1, RNA polymerase II transcription
initiation/nucleotide excision repair factor TFIIH,
subunit SSL1 [Transcription / DNA replication,
recombination, and repair].
Length = 421
Score = 24.6 bits (53), Expect = 5.1
Identities = 14/50 (28%), Positives = 24/50 (48%)
Query: 12 QEEEEEEPEKDKEEVRRRRRRNQKNLPEIEVERSWVHSGEGYEAQLVCIV 61
+ E+E++ + K R+ N+ E E +RSW + E LV +V
Sbjct: 14 ESEDEQKNGRVKVRSRKTDDMNKGYSWEQEYKRSWDDVNDDKEGSLVGVV 63
>gnl|CDD|221893 pfam13010, pRN1_helical, Primase helical domain. This alpha
helical domain is found in a set of bacterial plasmid
replication proteins. The domain is found to the
C-terminus of the primase/polymerase domain. Mutants of
this domain are defective in template binding,
dinucleotide formation and conformation change prior to
DNA extension.
Length = 135
Score = 24.4 bits (53), Expect = 5.5
Identities = 14/37 (37%), Positives = 21/37 (56%)
Query: 7 EEKEYQEEEEEEPEKDKEEVRRRRRRNQKNLPEIEVE 43
E K+ +E+ EE+ EK KEE+ + R K + I E
Sbjct: 1 EGKKEEEDSEEDFEKLKEEMAKYDRFKGKTVEAIREE 37
>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase
component YidC; Validated.
Length = 429
Score = 24.4 bits (53), Expect = 5.6
Identities = 9/32 (28%), Positives = 20/32 (62%)
Query: 4 EDHEEKEYQEEEEEEPEKDKEEVRRRRRRNQK 35
E+ E K+ + E+ E + K+E+ ++RR ++
Sbjct: 328 ENAEIKKTRTAEKNEAKARKKEIAQKRRAAER 359
>gnl|CDD|240285 PTZ00135, PTZ00135, 60S acidic ribosomal protein P0; Provisional.
Length = 310
Score = 24.2 bits (53), Expect = 6.0
Identities = 6/16 (37%), Positives = 7/16 (43%)
Query: 7 EEKEYQEEEEEEPEKD 22
EEEE E+D
Sbjct: 287 AAAAAAPAEEEEEEED 302
>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein. This
family includes the radial spoke head proteins RSP4 and
RSP6 from Chlamydomonas reinhardtii, and several
eukaryotic homologues, including mammalian RSHL1, the
protein product of a familial ciliary dyskinesia
candidate gene.
Length = 481
Score = 24.3 bits (53), Expect = 6.3
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 2 EGEDHEEKEYQEEEEEEPEKDKEEV 26
+ E+ +E E +EEEEEEPE+ + E
Sbjct: 348 DEEEEQEDEEEEEEEEEPEEPEPEE 372
>gnl|CDD|189027 cd09857, PIN_EXO1, PIN domain of Exonuclease-1, a
structure-specific, divalent-metal-ion dependent, 5'
nuclease and homologs. Exonuclease-1 (EXO1) is involved
in multiple, eukaryotic DNA metabolic pathways,
including DNA replication processes (5' flap DNA
endonuclease activity and double stranded DNA
5'-exonuclease activity), DNA repair processes (DNA
mismatch repair (MMR) and post-replication repair
(PRR)), recombination, and telomere integrity. EXO1
functions in the MMS2 error-free branch of the PRR
pathway in the maintenance and repair of stalled
replication forks. Studies also suggest that EXO1 plays
both structural and catalytic roles during MMR-mediated
mutation avoidance. EXO1 belongs to the FEN1-EXO1-like
family of structure-specific, 5' nucleases. These
nucleases contain a PIN (PilT N terminus) domain with a
helical arch/clamp region (I domain) of variable length
(approximately 43 residues in EXO1 PIN domains) and a
H3TH (helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region. Both the H3TH domain
(not included here) and the helical arch/clamp region
are involved in DNA binding. Nucleases within this group
also have a carboxylate-rich active site that is
involved in binding essential divalent metal ion
cofactors (Mg2+/Mn2+). EXO1 nucleases also have
C-terminal Mlh1- and Msh2-binding domains which allow
interaction with MMR and PRR proteins, respectively.
Length = 210
Score = 24.0 bits (53), Expect = 6.7
Identities = 9/19 (47%), Positives = 11/19 (57%), Gaps = 1/19 (5%)
Query: 19 PEKDKEEVRRRRRRNQKNL 37
P K E RR RR ++NL
Sbjct: 83 PSKKGTEEERRERR-EENL 100
>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682). The
members of this family are all hypothetical eukaryotic
proteins of unknown function. One member is described as
being an adipocyte-specific protein, but no evidence of
this was found.
Length = 322
Score = 23.8 bits (52), Expect = 8.3
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 9 KEYQEEEEEEPEKDKEEVRRRRRR 32
K +EE +EE ++ KEE ++ R
Sbjct: 274 KAAEEERQEEAQEKKEEKKKEERE 297
>gnl|CDD|237613 PRK14109, PRK14109, bifunctional glutamine-synthetase
adenylyltransferase/deadenyltransferase; Provisional.
Length = 1007
Score = 24.0 bits (53), Expect = 8.8
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 24 EEVRRRRRRNQKNLPEIEVER 44
E+V+ RRR + +P E +R
Sbjct: 350 EDVQAMRRRVEDLIPAAERDR 370
>gnl|CDD|224616 COG1702, PhoH, Phosphate starvation-inducible protein PhoH,
predicted ATPase [Signal transduction mechanisms].
Length = 348
Score = 23.8 bits (52), Expect = 9.4
Identities = 8/28 (28%), Positives = 11/28 (39%)
Query: 6 HEEKEYQEEEEEEPEKDKEEVRRRRRRN 33
+ Q+ EE E D +R R R
Sbjct: 97 RGAESLQQLEESVEELDTHFLRGRTRDK 124
>gnl|CDD|221673 pfam12626, PolyA_pol_arg_C, Polymerase A arginine-rich C-terminus.
The C-terminus of polymerase A in E coli is
arginine-rich and is necessary for full functioning of
the enzyme.
Length = 123
Score = 23.7 bits (52), Expect = 9.8
Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 6/32 (18%)
Query: 10 EYQEEEEEEPEKDKEEV------RRRRRRNQK 35
E+QE +EE+ E + +RRRRR ++
Sbjct: 89 EFQEADEEQRRAMIEALQGREGGKRRRRRPRR 120
>gnl|CDD|212464 cd01717, Sm_B, Sm protein B. The eukaryotic Sm proteins (B/B',
D1, D2, D3, E, F and G) assemble into a
hetero-heptameric ring around the Sm site of the
2,2,7-trimethyl guanosine (m3G) capped U1, U2, U4 and
U5 snRNAs (Sm snRNAs) forming the core of the snRNP
particle. The snRNP particle, in turn, assembles with
other components onto the pre-mRNA to form the
spliceosome which is responsible for the excision of
introns and the ligation of exons. Members of this
family share a highly conserved Sm fold, containing an
N-terminal helix followed by a strongly bent
five-stranded antiparallel beta-sheet.
Length = 80
Score = 23.3 bits (51), Expect = 9.8
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 22 DKEEVRRRRRRNQKNLPEIEVERS 45
D EE R+ + + +K E E +R
Sbjct: 40 DCEEFRKIKPKKKKKGEEREEKRV 63
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
0.305 0.128 0.368
Gapped
Lambda K H
0.267 0.0685 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,812,815
Number of extensions: 304185
Number of successful extensions: 2076
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1678
Number of HSP's successfully gapped: 343
Length of query: 70
Length of database: 10,937,602
Length adjustment: 40
Effective length of query: 30
Effective length of database: 9,163,442
Effective search space: 274903260
Effective search space used: 274903260
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 53 (24.3 bits)