RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4014
(85 letters)
>gnl|CDD|215741 pfam00135, COesterase, Carboxylesterase family.
Length = 510
Score = 65.0 bits (159), Expect = 5e-14
Identities = 23/46 (50%), Positives = 31/46 (67%), Gaps = 2/46 (4%)
Query: 17 KYPVLIYIHGESFEWNSG--NPYDGRILASYADFVVITLNYRLGVL 60
K PV+++IHG F+ S + YDG LA+ D VV+T+NYRLG L
Sbjct: 99 KLPVMVWIHGGGFQSGSASLDDYDGPDLAASEDVVVVTINYRLGAL 144
>gnl|CDD|225181 COG2272, PnbA, Carboxylesterase type B [Lipid metabolism].
Length = 491
Score = 58.2 bits (141), Expect = 1e-11
Identities = 24/49 (48%), Positives = 33/49 (67%), Gaps = 2/49 (4%)
Query: 14 PLQKYPVLIYIHGESFEWNSGN--PYDGRILASYADFVVITLNYRLGVL 60
P +K PV++YIHG + SG+ YDG LA+ D VV+++NYRLG L
Sbjct: 90 PAEKLPVMVYIHGGGYIMGSGSEPLYDGSALAARGDVVVVSVNYRLGAL 138
>gnl|CDD|238191 cd00312, Esterase_lipase, Esterases and lipases (includes fungal
lipases, cholinesterases, etc.) These enzymes act on
carboxylic esters (EC: 3.1.1.-). The catalytic apparatus
involves three residues (catalytic triad): a serine, a
glutamate or aspartate and a histidine.These catalytic
residues are responsible for the nucleophilic attack on
the carbonyl carbon atom of the ester bond. In contrast
with other alpha/beta hydrolase fold family members,
p-nitrobenzyl esterase and acetylcholine esterase have a
Glu instead of Asp at the active site carboxylate.
Length = 493
Score = 51.9 bits (125), Expect = 2e-09
Identities = 18/46 (39%), Positives = 29/46 (63%), Gaps = 1/46 (2%)
Query: 16 QKYPVLIYIHGESFEWNSGNPYDG-RILASYADFVVITLNYRLGVL 60
PV+++IHG F + SG+ Y G + + +V+++NYRLGVL
Sbjct: 93 NSLPVMVWIHGGGFMFGSGSLYPGDGLAREGDNVIVVSINYRLGVL 138
>gnl|CDD|223730 COG0657, Aes, Esterase/lipase [Lipid metabolism].
Length = 312
Score = 43.0 bits (101), Expect = 2e-06
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 6 RDFGKVGQPLQKYPVLIYIHGESFEWNSGNPYDG--RILASYADFVVITLNYRL 57
R + + PV++Y+HG + S +D LA+ A VV++++YRL
Sbjct: 67 RVYRPDRKAAATAPVVLYLHGGGWVLGSLRTHDALVARLAAAAGAVVVSVDYRL 120
>gnl|CDD|219611 pfam07859, Abhydrolase_3, alpha/beta hydrolase fold. This
catalytic domain is found in a very wide range of
enzymes.
Length = 207
Score = 33.3 bits (77), Expect = 0.005
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 12/44 (27%)
Query: 21 LIYIHG-----ESFEWNSGNPYDG--RILASYADFVVITLNYRL 57
L+Y HG S + +D R LA+ A VV++++YRL
Sbjct: 1 LVYFHGGGFVLGSADT-----HDRLCRRLAAAAGAVVVSVDYRL 39
>gnl|CDD|224423 COG1506, DAP2, Dipeptidyl aminopeptidases/acylaminoacyl-peptidases
[Amino acid transport and metabolism].
Length = 620
Score = 33.7 bits (77), Expect = 0.006
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 18/60 (30%)
Query: 4 YPRDFGKVGQPLQKYPVLIYIHG-------ESFEWNSGNPYDGRILASYADFVVITLNYR 56
P F P +KYP+++YIHG SF ++LAS A + V+ NYR
Sbjct: 384 KPPGF----DPRKKYPLIVYIHGGPSAQVGYSFNPEI------QVLAS-AGYAVLAPNYR 432
>gnl|CDD|236660 PRK10162, PRK10162, acetyl esterase; Provisional.
Length = 318
Score = 32.8 bits (75), Expect = 0.011
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 20 VLIYIHGESFEWNSGNPYD--GRILASYADFVVITLNYRL 57
L Y+HG F + + +D R+LASY+ VI ++Y L
Sbjct: 83 TLFYLHGGGFILGNLDTHDRIMRLLASYSGCTVIGIDYTL 122
>gnl|CDD|225256 COG2382, Fes, Enterochelin esterase and related enzymes [Inorganic
ion transport and metabolism].
Length = 299
Score = 30.8 bits (70), Expect = 0.045
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 14 PLQKYPVLIYIHGESFEWNSGNPYDGRILAS 44
PL+KYPVL G+ + + SG RIL S
Sbjct: 94 PLEKYPVLYLQDGQDW-FRSGRI--PRILDS 121
>gnl|CDD|217502 pfam03343, SART-1, SART-1 family. SART-1 is a protein involved in
cell cycle arrest and pre-mRNA splicing. It has been
shown to be a component of U4/U6 x U5 tri-snRNP complex
in human, Schizosaccharomyces pombe and Saccharomyces
cerevisiae. SART-1 is a known tumour antigen in a range
of cancers recognised by T cells.
Length = 603
Score = 29.0 bits (65), Expect = 0.22
Identities = 12/17 (70%), Positives = 14/17 (82%)
Query: 64 TLKRKKTKKKKKKKKKK 80
+K KK KKKKKKKKK+
Sbjct: 272 MVKFKKPKKKKKKKKKR 288
Score = 28.6 bits (64), Expect = 0.30
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 63 ITLKRKKTKKKKKKKKKKILSQD 85
+ K+ K KKKKKKK++K L +D
Sbjct: 273 VKFKKPKKKKKKKKKRRKDLDED 295
>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457). This
is a family of uncharacterized proteins.
Length = 449
Score = 28.8 bits (64), Expect = 0.29
Identities = 11/51 (21%), Positives = 26/51 (50%), Gaps = 7/51 (13%)
Query: 30 EWNSGNPYDGRILASYADFVVITLNYRLGVLVDITLKRKKTKKKKKKKKKK 80
E+ S D D+V +L+Y+ + ++ T+K++ +K K+ ++
Sbjct: 4 EFASSELED-------DDWVRGSLDYKEKLTLNDTMKKENAIRKLGKEAEE 47
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 28.1 bits (63), Expect = 0.40
Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 37 YDGRI-LASYADFVVITLNYRLGVLVDITLKRKKTKKKKKKKKK 79
++ L D VI Y+ G+L +TL + + ++KK K+ +
Sbjct: 102 FERTFRLPEKVDPEVIKAKYKNGLL-TVTLPKAEPEEKKPKRIE 144
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 27.6 bits (62), Expect = 0.70
Identities = 7/18 (38%), Positives = 13/18 (72%)
Query: 64 TLKRKKTKKKKKKKKKKI 81
L ++ KK+K+K+K K+
Sbjct: 395 VLAKRAEKKEKEKEKPKV 412
Score = 27.2 bits (61), Expect = 0.83
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 59 VLVDITLKRKKTKKKKKKKKKK 80
VL K++K K+K K KK+
Sbjct: 395 VLAKRAEKKEKEKEKPKVKKRH 416
Score = 25.3 bits (56), Expect = 3.9
Identities = 5/15 (33%), Positives = 10/15 (66%)
Query: 66 KRKKTKKKKKKKKKK 80
+++K K KK+ + K
Sbjct: 406 EKEKPKVKKRHRDTK 420
Score = 25.3 bits (56), Expect = 5.1
Identities = 7/20 (35%), Positives = 13/20 (65%)
Query: 66 KRKKTKKKKKKKKKKILSQD 85
+ +K +K+K+K K K +D
Sbjct: 399 RAEKKEKEKEKPKVKKRHRD 418
Score = 24.9 bits (55), Expect = 5.9
Identities = 6/16 (37%), Positives = 8/16 (50%)
Query: 66 KRKKTKKKKKKKKKKI 81
K K KK+ + K I
Sbjct: 407 KEKPKVKKRHRDTKNI 422
>gnl|CDD|171438 PRK12363, PRK12363, phosphoglycerol transferase I; Provisional.
Length = 703
Score = 27.6 bits (61), Expect = 0.79
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 7/33 (21%)
Query: 5 PRDFGKVG-------QPLQKYPVLIYIHGESFE 30
P DF V QPLQK +++I+GES E
Sbjct: 136 PVDFATVAPEYQVPQQPLQKRKNIVWIYGESLE 168
>gnl|CDD|216102 pfam00756, Esterase, Putative esterase. This family contains
Esterase D. However it is not clear if all members of
the family have the same function. This family is
related to the pfam00135 family.
Length = 245
Score = 27.4 bits (61), Expect = 0.85
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 2/40 (5%)
Query: 14 PLQKYPVLIYIHGESFE--WNSGNPYDGRILASYADFVVI 51
P +KYPVL + G + + D + V+I
Sbjct: 19 PGRKYPVLYLLDGTGWFQNGPAKEGLDRLAASGEIPPVII 58
>gnl|CDD|241486 cd13332, FERM_C_JAK1, Janus kinase 1 FERM domain C-lobe. JAK1 is a
tyrosine kinase protein essential in signaling type I
and type II cytokines. It interacts with the gamma chain
of type I cytokine receptors to elicit signals from the
IL-2 receptor family, the IL-4 receptor family, the
gp130 receptor family, ciliary neurotrophic factor
receptor (CNTF-R), neurotrophin-1 receptor (NNT-1R) and
Leptin-R). It also is involved in transducing a signal
by type I (IFN-alpha/beta) and type II (IFN-gamma)
interferons, and members of the IL-10 family via type II
cytokine receptors. JAK (also called Just Another
Kinase) is a family of intracellular, non-receptor
tyrosine kinases that transduce cytokine-mediated
signals via the JAK-STAT pathway. The JAK family in
mammals consists of 4 members: JAK1, JAK2, JAK3 and
TYK2. JAKs are composed of seven JAK homology (JH)
domains (JH1-JH7) . The C-terminal JH1 domain is the
main catalytic domain, followed by JH2, which is often
referred to as a pseudokinase domain, followed by
JH3-JH4 which is homologous to the SH2 domain, and
lastly JH5-JH7 which is a FERM domain. Named after
Janus, the two-faced Roman god of doorways, JAKs possess
two near-identical phosphate-transferring domains; one
which displays the kinase activity (JH1), while the
other negatively regulates the kinase activity of the
first (JH2). The FERM domain has a cloverleaf tripart
structure (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe,A-lobe, B-lobe, C-lobe/F1, F2, F3). The
C-lobe/F3 within the FERM domain is part of the PH
domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 198
Score = 27.1 bits (60), Expect = 1.0
Identities = 20/64 (31%), Positives = 26/64 (40%), Gaps = 3/64 (4%)
Query: 19 PVLIYIHGESFEWNSGNPYDGRILASYADFVVIT--LNYRLGVLVDITLKRKKTKKKKKK 76
+ I ES E N+ N DG Y V +++R K+KK K KK K
Sbjct: 43 TSSLLISSES-ELNNFNYGDGDNSHDYEVLVTGNTGISWRRKPATTAVEKKKKGKSKKNK 101
Query: 77 KKKK 80
K K
Sbjct: 102 LKGK 105
>gnl|CDD|129242 TIGR00136, gidA, glucose-inhibited division protein A. GidA, the
longer of two forms of GidA-related proteins, appears to
be present in all complete eubacterial genomes so far,
as well as Saccharomyces cerevisiae. A subset of these
organisms have a closely related protein. GidA is absent
in the Archaea. It appears to act with MnmE, in an
alpha2/beta2 heterotetramer, in the
5-carboxymethylaminomethyl modification of uridine 34 in
certain tRNAs. The shorter, related protein, previously
called gid or gidA(S), is now called TrmFO (see model
TIGR00137) [Protein synthesis, tRNA and rRNA base
modification].
Length = 617
Score = 26.6 bits (59), Expect = 1.5
Identities = 10/39 (25%), Positives = 19/39 (48%)
Query: 46 ADFVVITLNYRLGVLVDITLKRKKTKKKKKKKKKKILSQ 84
ADF + + LG++ D R KK+ +++ + L
Sbjct: 439 ADFRLTEIGRELGLIDDERYARFLKKKENIEEEIQRLKS 477
>gnl|CDD|222658 pfam14296, O-ag_pol_Wzy, O-antigen polysaccharide polymerase Wzy.
This family includes O-antigen polysaccharide
polymerases. These enzymes link O-units via a glycosidic
linkage to form a long O-antigen. These enzymes vary in
specificity and sequence.
Length = 440
Score = 26.5 bits (59), Expect = 1.6
Identities = 17/66 (25%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 18 YPVLIYIHGESFEWNSGNPYDGRILASYADFVVITLN-YRLGVLVDITLKRKKTKKKKKK 76
P L Y+ G + + + Y+ I+ ++++L LG ++ KRKK KKK +
Sbjct: 57 RPFLDYLFGYNDSIFANDFYNEDIIFEALILLILSLLFLFLGYILGRKKKRKKEKKKNQL 116
Query: 77 KKKKIL 82
+ +++L
Sbjct: 117 EYERLL 122
>gnl|CDD|224814 COG1902, NemA, NADH:flavin oxidoreductases, Old Yellow Enzyme
family [Energy production and conversion].
Length = 363
Score = 26.4 bits (59), Expect = 1.6
Identities = 6/44 (13%), Positives = 16/44 (36%)
Query: 5 PRDFGKVGQPLQKYPVLIYIHGESFEWNSGNPYDGRILASYADF 48
+ ++ + L++ ++ YIH + G +F
Sbjct: 236 IEEAVELAKALEEAGLVDYIHVSEGGYERGGTITVSGPGYQVEF 279
>gnl|CDD|223373 COG0296, GlgB, 1,4-alpha-glucan branching enzyme [Carbohydrate
transport and metabolism].
Length = 628
Score = 26.5 bits (59), Expect = 1.8
Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 15/54 (27%)
Query: 26 GESFEWNSGNPYDGRILASYAD-------FVVITLN--------YRLGVLVDIT 64
E FEW + + +LA Y +V+ N YR+GV V
Sbjct: 523 PEGFEWIDADDAENSVLAFYRRLLALRHEHLVVVNNFTPVPRVDYRVGVPVAGR 576
>gnl|CDD|225826 COG3288, PntA, NAD/NADP transhydrogenase alpha subunit [Energy
production and conversion].
Length = 356
Score = 26.2 bits (58), Expect = 2.1
Identities = 12/45 (26%), Positives = 18/45 (40%)
Query: 41 ILASYADFVVITLNYRLGVLVDITLKRKKTKKKKKKKKKKILSQD 85
I A A I RLG +V R K++ + K L+ +
Sbjct: 170 IGAGVAGLAAIATAVRLGAIVTARDLRMFKKEQVESLGAKFLAVE 214
>gnl|CDD|215525 PLN02972, PLN02972, Histidyl-tRNA synthetase.
Length = 763
Score = 26.4 bits (58), Expect = 2.2
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 68 KKTKKKKKKKKKKILSQ 84
K KK KK KKKK+L +
Sbjct: 246 KSDKKDKKSKKKKVLGK 262
>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function
(DUF1754). This is a eukaryotic protein family of
unknown function.
Length = 90
Score = 25.5 bits (56), Expect = 2.4
Identities = 12/16 (75%), Positives = 12/16 (75%)
Query: 65 LKRKKTKKKKKKKKKK 80
LK KK KKKKKKKK
Sbjct: 12 LKGKKIDVKKKKKKKK 27
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 25.9 bits (57), Expect = 2.8
Identities = 10/34 (29%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 1 MPQYPRDFGKVGQPLQKYPVLIYIHGESFEWNSG 34
+P +P FG++G+P ++ ++ E EW +G
Sbjct: 215 LPMFP--FGRIGEPKDAARLIKFLASEEAEWITG 246
>gnl|CDD|220628 pfam10198, Ada3, Histone acetyltransferases subunit 3. Ada3 is a
family of proteins conserved from yeasts to humans. It
is an essential component of the Ada transcriptional
coactivator (alteration/deficiency in activation)
complex. Ada3 plays a key role in linking histone
acetyltransferase-containing complexes to p53 (tumour
suppressor protein) thereby regulating p53 acetylation,
stability and transcriptional activation following DNA
damage.
Length = 127
Score = 25.7 bits (57), Expect = 2.8
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 65 LKRKKTKKKKKKKKKK 80
LKR + + KKKKK+K+
Sbjct: 91 LKRIRARGKKKKKEKR 106
>gnl|CDD|218332 pfam04929, Herpes_DNAp_acc, Herpes DNA replication accessory
factor. Replicative DNA polymerases are capable of
polymerising tens of thousands of nucleotides without
dissociating from their DNA templates. The high
processivity of these polymerases is dependent upon
accessory proteins that bind to the catalytic subunit of
the polymerase or to the substrate. The Epstein-Barr
virus (EBV) BMRF1 protein is an essential component of
the viral DNA polymerase and is absolutely required for
lytic virus replication. BMRF1 is also a transactivator.
This family is predicted to have a UL42 like structure.
Length = 381
Score = 25.8 bits (57), Expect = 2.9
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 64 TLKRKKTKKKKKKKKK 79
+ KRK+ KK+KKKK
Sbjct: 354 SPKRKREGDKKQKKKK 369
>gnl|CDD|234368 TIGR03835, termin_org_DnaJ, terminal organelle assembly protein
TopJ. This model describes TopJ (MG_200, CbpA), a DnaJ
homolog and probable assembly protein of the Mycoplasma
terminal organelle. The terminal organelle is involved
in both cytadherence and gliding motility [Cellular
processes, Chemotaxis and motility].
Length = 871
Score = 25.9 bits (56), Expect = 3.1
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 58 GVLVDITLKRKKTKKKKKKKKK 79
G +IT +KKKKKKKKK
Sbjct: 95 GEFDNITDDDTPSKKKKKKKKK 116
>gnl|CDD|180007 PRK05309, PRK05309, 30S ribosomal protein S11; Validated.
Length = 128
Score = 25.1 bits (56), Expect = 3.4
Identities = 9/15 (60%), Positives = 9/15 (60%)
Query: 67 RKKTKKKKKKKKKKI 81
KK K KKK KK I
Sbjct: 1 AKKKKTVKKKVKKNI 15
>gnl|CDD|163517 TIGR03805, beta_helix_1, parallel beta-helix repeat-containing
protein. Members of this protein family contain a
tandem pair of beta-helix repeats (see TIGR03804). Each
repeat is expected to consist of three beta strands that
form a single turn as they form a right-handed helix of
stacked beta-structure. Member proteinsa occur regularly
in two-gene pairs along with another uncharacterized
protein family; both protein families exhibit either
lipoprotein or regular signal peptides, suggesting
transit through the plasma membrane, and the two may be
fused. The function of the pair is unknown [Unknown
function, General].
Length = 314
Score = 25.4 bits (56), Expect = 3.4
Identities = 11/26 (42%), Positives = 12/26 (46%), Gaps = 1/26 (3%)
Query: 18 YPVLIYIHGESFEWNSGNPYDGRILA 43
YP I IH +F NP DG L
Sbjct: 269 YPRNISIHDNTFSDGGTNP-DGLDLQ 293
>gnl|CDD|234660 PRK00139, murE,
UDP-N-acetylmuramoylalanyl-D-glutamate--2,
6-diaminopimelate ligase; Provisional.
Length = 460
Score = 25.5 bits (57), Expect = 3.5
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 39 GRILASYADFVVIT 52
G I AD V++T
Sbjct: 370 GAIAERLADVVIVT 383
>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional.
Length = 742
Score = 25.6 bits (56), Expect = 3.6
Identities = 12/18 (66%), Positives = 13/18 (72%)
Query: 68 KKTKKKKKKKKKKILSQD 85
KKTK K+KKK KK L D
Sbjct: 73 KKTKLKQKKKIKKKLHID 90
>gnl|CDD|220633 pfam10214, Rrn6, RNA polymerase I-specific transcription-initiation
factor. RNA polymerase I-specific
transcription-initiation factor Rrn6 and Rrn7 represent
components of a multisubunit transcription factor
essential for the initiation of rDNA transcription by
Pol I. These proteins are found in fungi.
Length = 753
Score = 25.5 bits (56), Expect = 3.6
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 66 KRKKTKKKKKKKKK 79
R +KKKKKKK+K
Sbjct: 737 GRSASKKKKKKKRK 750
>gnl|CDD|219564 pfam07771, TSGP1, Tick salivary peptide group 1. This contains a
group of peptides derived from a salivary gland cDNA
library of the tick Ixodes scapularis. Also present are
peptides from a related tick species, Ixodes ricinus.
They are characterized by a putative signal peptide
indicative of secretion and conserved cysteine residues.
Length = 120
Score = 25.2 bits (55), Expect = 4.3
Identities = 10/15 (66%), Positives = 10/15 (66%)
Query: 66 KRKKTKKKKKKKKKK 80
K KKTKK KK KK
Sbjct: 106 KSKKTKKPKKSSKKD 120
Score = 24.8 bits (54), Expect = 5.8
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 66 KRKKTKKKKKKKKKKILSQD 85
K+KK K KK KK KK +D
Sbjct: 101 KKKKKKSKKTKKPKKSSKKD 120
>gnl|CDD|224084 COG1162, COG1162, Predicted GTPases [General function prediction
only].
Length = 301
Score = 25.3 bits (56), Expect = 4.4
Identities = 10/39 (25%), Positives = 15/39 (38%)
Query: 38 DGRILASYADFVVITLNYRLGVLVDITLKRKKTKKKKKK 76
GR++ A F + L + V R +KK K
Sbjct: 6 RGRVVKVDAGFYGVRLEEEVDGEVYRCRARGNLRKKDLK 44
>gnl|CDD|114541 pfam05819, NolX, NolX protein. This family consists of Rhizobium
NolX and Xanthomonas HrpF proteins. The interaction
between the plant pathogen Xanthomonas campestris pv.
vesicatoria and its host plants is controlled by hrp
genes (hypersensitive reaction and pathogenicity), which
encode a type III protein secretion system. Among type
III-secreted proteins are avirulence proteins, effectors
involved in the induction of plant defence reactions.
HrpF is dispensable for protein secretion but required
for AvrBs3 recognition in planta, is thought to function
as a translocator of effector proteins into the host
cell. NolX, a soybean cultivar specificity protein, is
secreted by a type III secretion system (TTSS) and shows
homology to HrpF of the plant pathogen Xanthomonas
campestris pv. vesicatoria. It is not known whether NolX
functions at the bacterium-plant interface or acts
inside the host cell. NolX is expressed in planta only
during the early stages of nodule development.
Length = 545
Score = 25.4 bits (55), Expect = 4.6
Identities = 20/76 (26%), Positives = 29/76 (38%)
Query: 2 PQYPRDFGKVGQPLQKYPVLIYIHGESFEWNSGNPYDGRILASYADFVVITLNYRLGVLV 61
P P D Q LQK P+L + G + G + L +AD + + G L
Sbjct: 118 PSTPPDLKSALQGLQKDPLLFFAIGSQGDGKCGGKIKAKDLWDFADSHSQVVTWDGGTLT 177
Query: 62 DITLKRKKTKKKKKKK 77
L+ T + K K
Sbjct: 178 QSQLEIVSTLNRHKDK 193
>gnl|CDD|234533 TIGR04285, nucleoid_noc, nucleoid occlusion protein. This model
describes nucleoid occlusion protein, a close homolog to
ParB chromosome partitioning proteins including Spo0J in
Bacillus subtilis. Its gene often is located near the
gene for the Spo0J ortholog. This protein bind a
specific DNA sequence and blocks cytokinesis from
happening until chromosome segregation is complete.
Length = 255
Score = 25.2 bits (56), Expect = 5.2
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 65 LKRKKTKKKKKKKKKKILSQD 85
L K K KKKKK++K S+D
Sbjct: 194 LLEKPEKPKKKKKRRKGFSKD 214
Score = 24.8 bits (55), Expect = 5.6
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 60 LVDITLKRKKTKKKKKKKKKKI 81
L+ L++ + KKKKK++K
Sbjct: 190 LIKKLLEKPEKPKKKKKRRKGF 211
>gnl|CDD|220129 pfam09159, Ydc2-catalyt, Mitochondrial resolvase Ydc2 / RNA
splicing MRS1. Members of this family adopt a secondary
structure consisting of two beta sheets and one alpha
helix, arranged as a beta-alpha-beta motif. Each beta
sheet has five strands, arranged in a 32145 order, with
the second strand being antiparallel to the rest.
Mitochondrial resolvase Ydc2 is capable of resolving
Holliday junctions and cleaves DNA after 5'-CT-3' and
5'-TT-3' sequences. This family also contains the
mitochondrial RNA-splicing protein MRS1 which is
involved in the excision of group I introns.
Length = 254
Score = 25.0 bits (55), Expect = 5.5
Identities = 9/26 (34%), Positives = 12/26 (46%)
Query: 56 RLGVLVDITLKRKKTKKKKKKKKKKI 81
R +L + R K K K KK +I
Sbjct: 148 RTEILAEKKKPRSKKKSSKNSKKLRI 173
>gnl|CDD|130460 TIGR01393, lepA, GTP-binding protein LepA. LepA (GUF1 in
Saccaromyces) is a GTP-binding membrane protein related
to EF-G and EF-Tu. Two types of phylogenetic tree,
rooted by other GTP-binding proteins, suggest that
eukaryotic homologs (including GUF1 of yeast) originated
within the bacterial LepA family. The function is
unknown [Unknown function, General].
Length = 595
Score = 25.0 bits (55), Expect = 5.6
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 62 DITLKRKKTKKKKKKKKK 79
DIT KRK +K+K+ KK+
Sbjct: 557 DITRKRKLLEKQKEGKKR 574
>gnl|CDD|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases. Arl4
(Arf-like 4) is highly expressed in testicular germ
cells, and is found in the nucleus and nucleolus. In
mice, Arl4 is developmentally expressed during
embryogenesis, and a role in somite formation and
central nervous system differentiation has been
proposed. Arl7 has been identified as the only Arf/Arl
protein to be induced by agonists of liver X-receptor
and retinoid X-receptor and by cholesterol loading in
human macrophages. Arl7 is proposed to play a role in
transport between a perinuclear compartment and the
plasma membrane, apparently linked to the ABCA1-mediated
cholesterol secretion pathway. Older literature suggests
that Arl6 is a part of the Arl4/Arl7 subfamily, but
analyses based on more recent sequence data place Arl6
in its own subfamily.
Length = 183
Score = 24.8 bits (54), Expect = 6.1
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 60 LVDITLKRKKTKKKKKKKK 78
L ++ LKR+K +++KKK+
Sbjct: 165 LYEMILKRRKMLRQQKKKR 183
>gnl|CDD|219472 pfam07575, Nucleopor_Nup85, Nup85 Nucleoporin. A family of
nucleoporins conserved from yeast to human. THe nuclear
pore complex is a large assembly composed of two
essential complexes: the heptameric Nup84 complex and
the heteromeric Nic96-containing complex. The Nup84
complex is composed of one copy each of Nup84, Nup85,
Nup120, Nup133, Nup145C, Sec13, and Seh1. The structure
of a complex of Nup85 and Seh1 was solved. The
N-terminus of Nup85 is inserted and forms a
three-stranded blade that completes the Seh1 6-bladed
beta-propeller in trans. Following its N-terminal
insertion blade, Nup85 forms a compact cuboid structure
composed of 20 helices, with two distinct modules,
referred to as crown and trunk.
Length = 564
Score = 25.0 bits (55), Expect = 6.2
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 32 NSGNPYDGRILASYADFVVITLNYR 56
+S P G I ++ A+ V I+ YR
Sbjct: 37 SSDAPTIGPIKSTSAEHVKISRAYR 61
>gnl|CDD|119353 cd02874, GH18_CFLE_spore_hydrolase, Cortical fragment-lytic enzyme
(CFLE) is a peptidoglycan hydrolase involved in
bacterial endospore germination. CFLE is expressed as
an inactive preprotein (called SleB) in the forespore
compartment of sporulating cells. SleB translocates
across the forespore inner membrane and is deposited as
a mature enzyme in the cortex layer of the spore. As
part of a sensory mechanism capable of initiating
germination, CFLE degrades a spore-specific
peptidoglycan constituent called muramic-acid
delta-lactam that comprises the outer cortex. CFLE has
a C-terminal glycosyl hydrolase family 18 (GH18)
catalytic domain as well as two N-terminal LysM
peptidoglycan-binding domains. In addition to SleB,
this family includes YaaH, YdhD, and YvbX from Bacillus
subtilis.
Length = 313
Score = 24.5 bits (54), Expect = 6.9
Identities = 6/16 (37%), Positives = 8/16 (50%)
Query: 36 PYDGRILASYADFVVI 51
YD + DFVV+
Sbjct: 159 AYDYAAIGKIVDFVVL 174
>gnl|CDD|239466 cd03368, Ribosomal_S12, S12-like family, 30S ribosomal protein
S12 subfamily; S12 is located at the interface of the
large and small ribosomal subunits of prokaryotes,
chloroplasts and mitochondria, where it plays an
important role in both tRNA and ribosomal subunit
interactions. S12 is essential for maintenance of a
pretranslocation state and, together with S13,
functions as a control element for the rRNA- and
tRNA-driven movements of translocation. Antibiotics
such as streptomycin bind S12 and cause the ribosome to
misread the genetic code.
Length = 108
Score = 24.4 bits (54), Expect = 7.0
Identities = 11/20 (55%), Positives = 11/20 (55%)
Query: 65 LKRKKTKKKKKKKKKKILSQ 84
L RK KKKKKK K L
Sbjct: 5 LIRKGRKKKKKKSKSPALEG 24
>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19.
Med19 represents a family of conserved proteins which
are members of the multi-protein co-activator Mediator
complex. Mediator is required for activation of RNA
polymerase II transcription by DNA binding
transactivators.
Length = 178
Score = 24.8 bits (54), Expect = 7.1
Identities = 11/15 (73%), Positives = 14/15 (93%)
Query: 66 KRKKTKKKKKKKKKK 80
+RKK KK+KKKKKK+
Sbjct: 154 ERKKKKKEKKKKKKR 168
>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal.
This domain is found to the N-terminus of bacterial
signal peptidases of the S49 family (pfam01343).
Length = 154
Score = 24.4 bits (54), Expect = 7.2
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 66 KRKKTKKKKKKKKKKILSQD 85
KK +K K K +KK ++
Sbjct: 74 AEKKAEKAKAKAEKKKAKKE 93
>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2. It is vital for
effective cell-replication that replication is not
stalled at any point by, for instance, damaged bases.
Rtf2 stabilizes the replication fork stalled at the
site-specific replication barrier RTS1 by preventing
replication restart until completion of DNA synthesis by
a converging replication fork initiated at a flanking
origin. The RTS1 element terminates replication forks
that are moving in the cen2-distal direction while
allowing forks moving in the cen2-proximal direction to
pass through the region. Rtf2 contains a C2HC2 motif
related to the C3HC4 RING-finger motif, and would appear
to fold up, creating a RING finger-like structure but
forming only one functional Zn2+ ion-binding site.
Length = 254
Score = 24.6 bits (54), Expect = 7.2
Identities = 11/16 (68%), Positives = 12/16 (75%)
Query: 65 LKRKKTKKKKKKKKKK 80
+ KK KKKKKKK KK
Sbjct: 179 ERAKKKKKKKKKKTKK 194
Score = 24.6 bits (54), Expect = 7.9
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 62 DITLKRKKTKKKKKKKK 78
+ K+KK KKKKK KK
Sbjct: 178 EERAKKKKKKKKKKTKK 194
>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168). This
family consists of several hypothetical eukaryotic
proteins of unknown function.
Length = 142
Score = 24.2 bits (53), Expect = 7.6
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 65 LKRKKTKKKKKKKKKK 80
KR+K K+KKKKKKK
Sbjct: 88 AKRQKKKQKKKKKKKA 103
Score = 24.2 bits (53), Expect = 8.5
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 66 KRKKTKKKKKKKKKK 80
KR K +KKK+KKKKK
Sbjct: 86 KRAKRQKKKQKKKKK 100
Score = 24.2 bits (53), Expect = 9.7
Identities = 12/24 (50%), Positives = 16/24 (66%), Gaps = 2/24 (8%)
Query: 62 DITLKR--KKTKKKKKKKKKKILS 83
+ T K+ K+ KKK+KKKKKK
Sbjct: 81 EKTAKKRAKRQKKKQKKKKKKKAK 104
>gnl|CDD|236506 PRK09420, cpdB, bifunctional 2',3'-cyclic nucleotide
2'-phosphodiesterase/3'-nucleotidase periplasmic
precursor protein; Reviewed.
Length = 649
Score = 24.5 bits (54), Expect = 7.8
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 37 YDGRILASYADFVVITLNYR 56
++G+ + A F+V T NYR
Sbjct: 528 FNGKPIDPKATFLVATNNYR 547
>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein
complex aNOP56 subunit; Provisional.
Length = 414
Score = 24.5 bits (54), Expect = 7.8
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 66 KRKKTKKKKKKKKKK 80
KRKK KK+KKK +K
Sbjct: 400 KRKKKGKKRKKKGRK 414
Score = 24.5 bits (54), Expect = 8.2
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 66 KRKKTKKKKKKKKKK 80
KRKK KK+KKK KK+
Sbjct: 394 KRKKKKKRKKKGKKR 408
>gnl|CDD|235462 PRK05433, PRK05433, GTP-binding protein LepA; Provisional.
Length = 600
Score = 24.6 bits (55), Expect = 8.0
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 62 DITLKRKKTKKKKKKKKK 79
DI+ KRK +K+K+ KK+
Sbjct: 560 DISRKRKLLEKQKEGKKR 577
>gnl|CDD|217476 pfam03286, Pox_Ag35, Pox virus Ag35 surface protein.
Length = 198
Score = 24.3 bits (53), Expect = 8.0
Identities = 9/18 (50%), Positives = 9/18 (50%)
Query: 63 ITLKRKKTKKKKKKKKKK 80
T RK KK KKK K
Sbjct: 56 PTTPRKPATTKKSKKKDK 73
>gnl|CDD|227470 COG5141, COG5141, PHD zinc finger-containing protein [General
function prediction only].
Length = 669
Score = 24.6 bits (53), Expect = 8.3
Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 11/75 (14%)
Query: 10 KVGQPLQKYPVLIYIHGESFEWNSGNPYDGRILASYADFVVITLN--YRLGVLVDITLKR 67
++G PL P ++Y +W S R+ V L Y+L LV+ T KR
Sbjct: 453 EIGGPLVILPDIVYSLKTLEDWMSKR----RM-----REVAKALQDQYQLLTLVESTAKR 503
Query: 68 KKTKKKKKKKKKKIL 82
+ K + +KK L
Sbjct: 504 QLLKCQLSNLRKKFL 518
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation factor
3 (eIF3). In yeast it is called Hcr1. The Saccharomyces
cerevisiae protein eIF3j (HCR1) has been shown to be
required for processing of 20S pre-rRNA and binds to 18S
rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 24.6 bits (54), Expect = 8.5
Identities = 8/15 (53%), Positives = 8/15 (53%)
Query: 66 KRKKTKKKKKKKKKK 80
K K KKKK K K
Sbjct: 199 KAAKGGKKKKGKAKA 213
>gnl|CDD|214368 CHL00117, rpoC2, RNA polymerase beta'' subunit; Reviewed.
Length = 1364
Score = 24.5 bits (54), Expect = 8.5
Identities = 16/35 (45%), Positives = 20/35 (57%), Gaps = 9/35 (25%)
Query: 51 ITLNYR--LGVLVDITLKRKKTKKKKKKKKKKILS 83
ITLN R +G LV I +KKKK+ + KI S
Sbjct: 692 ITLNIRSKVGGLVRI-------EKKKKRIELKIFS 719
>gnl|CDD|213681 TIGR02075, pyrH_bact, uridylate kinase. This protein, also
called UMP kinase, converts UMP to UDP by adding a
phosphate from ATP. It is the first step in pyrimidine
biosynthesis. GTP is an allosteric activator. In a
large fraction of all bacterial genomes, the gene tends
to be located immediately downstream of elongation
factor Ts and upstream of ribosome recycling factor. A
related protein family, believed to be equivalent in
function and found in the archaea and in spirochetes,
is described by a separate model, TIGR02076 [Purines,
pyrimidines, nucleosides, and nucleotides, Nucleotide
and nucleoside interconversions].
Length = 232
Score = 24.5 bits (54), Expect = 9.1
Identities = 8/28 (28%), Positives = 12/28 (42%)
Query: 20 VLIYIHGESFEWNSGNPYDGRILASYAD 47
VL+ + GE+ S D L A+
Sbjct: 4 VLLKLSGEALAGESQFGIDPDRLNRIAN 31
>gnl|CDD|233352 TIGR01310, L7, 60S ribosomal protein L7, eukaryotic. This model
describes the eukaryotic 60S (cytosolic) ribosomal
protein L7 and paralogs that may or may not also be L7.
Human, Drosophila, and Arabidopsis all have both a
typical L7 and an L7-related paralog. This family is
designated subfamily rather than equivalog to reflect
these uncharacterized paralogs. Members of this family
average ~ 250 residues in length, somewhat longer than
the archaeal L30P/L7E homolog (~ 155 residues) and much
longer than the related bacterial/organellar form (~ 60
residues).
Length = 235
Score = 24.2 bits (53), Expect = 9.9
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 60 LVDITLKRKKTKKKKKKKKKKIL 82
L K+ K KKK KKK+KI
Sbjct: 13 LAVQVAKQAKAKKKANKKKRKIY 35
>gnl|CDD|240576 cd12932, RRP7_like, RRP7 domain ribosomal RNA-processing protein
7 (Rrp7p), ribosomal RNA-processing protein 7 homolog A
(Rrp7A), and similar proteins. This CD corresponds to
the RRP7 domain of Rrp7p and Rrp7A. Rrp7p is encoded by
YCL031C gene from Saccharomyces cerevisiae. It is an
essential yeast protein involved in pre-rRNA processing
and ribosome assembly, and is speculated to be required
for correct assembly of rpS27 into the pre-ribosomal
particle. Rrp7A, also termed gastric cancer antigen
Zg14, is the Rrp7p homolog mainly found in Metazoans.
The cellular function of Rrp7A remains unclear
currently. Both Rrp7p and Rrp7A harbor an N-terminal
RNA recognition motif (RRM), also termed RBD (RNA
binding domain) or RNP (ribonucleoprotein domain), and
a C-terminal RRP7 domain.
Length = 118
Score = 24.1 bits (53), Expect = 9.9
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 66 KRKKTKKKKKKKKKKIL 82
+ K +K+KKKKKKK L
Sbjct: 72 EAKAKEKEKKKKKKKEL 88
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
0.319 0.140 0.412
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,521,039
Number of extensions: 381312
Number of successful extensions: 2086
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1894
Number of HSP's successfully gapped: 188
Length of query: 85
Length of database: 10,937,602
Length adjustment: 53
Effective length of query: 32
Effective length of database: 8,586,840
Effective search space: 274778880
Effective search space used: 274778880
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 (21.7 bits)
S2: 53 (24.2 bits)