RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy158
(116 letters)
>gnl|CDD|200440 cd11284, ADF_Twf-C_like, C-terminal ADF domain of twinfilin and
related proteins. Actin depolymerization
factor/cofilin-like domains (ADF domains) are present in
a family of essential eukaryotic actin regulatory
proteins. Twinfilin contains two ADF domains, and
inhibits the assembly of actin filaments by strongly
interacting with monomeric ADP-actin (ADP-G-actin) in a
1:1 stochiometry (with it's C-terminal ADF domain,
Twf-C) and inhibiting the actin monomer's nucleotide
exchange. Mammalian twinfilin may also cap the barbed
ends of F-actin filaments and prevent further assembly
(or disassembly), in a process which requires both ADF
domains. The N-terminal ADF domain (Twf-N) binds G-actin
with a lower affinity than Twf-C; Twf-C can also bind
F-actin. During capping, Twf-N may interact with the
terminal actin subunit, and Twf-C may bind between two
adjacent subunits at the side of the filament.
Length = 132
Score = 77.7 bits (192), Expect = 1e-19
Identities = 28/76 (36%), Positives = 36/76 (47%), Gaps = 18/76 (23%)
Query: 1 MFVFIYSMPGYSLPIKERMLYSSCKAPLLENL-HHLGLTIDKKLKKKKKKKKKKKKKKKF 59
VFIYS P S +KERMLY+S K+ LL + + IDKK++
Sbjct: 74 SVVFIYSCPSGS-KVKERMLYASSKSGLLNHAEDEGKIEIDKKIE--------------- 117
Query: 60 PYNSGSELTEEFLLEE 75
ELTE FL +E
Sbjct: 118 -IGDPDELTESFLSDE 132
>gnl|CDD|200435 cd00013, ADF_gelsolin, Actin depolymerization factor/cofilin- and
gelsolin-like domains. Actin depolymerization
factor/cofilin-like domains are present in a family of
essential eukaryotic actin regulatory proteins; these
proteins enhance the turnover rate of actin and
interact with actin monomers as well as actin
filaments.
Length = 97
Score = 40.5 bits (95), Expect = 1e-05
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 2 FVFIYSMPGYSLPIKERMLYSSCKAPLLENLHHL 35
FVFI +P IK++M+Y++ K L E L L
Sbjct: 55 FVFISWIPDGV-SIKQKMVYATNKQTLKEALFGL 87
>gnl|CDD|214516 smart00102, ADF, Actin depolymerisation factor/cofilin -like
domains. Severs actin filaments and binds to actin
monomers.
Length = 127
Score = 39.2 bits (92), Expect = 6e-05
Identities = 19/76 (25%), Positives = 28/76 (36%), Gaps = 21/76 (27%)
Query: 2 FVFIYSMPGYSLPIKERMLYSSCKAPLLENLHHLGLTIDKKLKKKKKKKKKKKKKKKFPY 61
VFI+ P P+K +MLY+S K L + L + +
Sbjct: 73 IVFIFWSPD-GAPVKSKMLYASSKDTLKKEL--------------------GGIQVEVQA 111
Query: 62 NSGSELTEEFLLEELH 77
+L EE L E+L
Sbjct: 112 TDEDDLDEEALKEKLK 127
>gnl|CDD|220431 pfam09831, DUF2058, Uncharacterized protein conserved in bacteria
(DUF2058). This domain, found in various prokaryotic
proteins, has no known function.
Length = 177
Score = 31.8 bits (73), Expect = 0.040
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 27 PLLENLHHLGLTIDKKLKKKKKKKKKKKKKKK 58
L + L GL KK KK KK+K+K++K+ +
Sbjct: 1 SLQDQLLKAGLVDKKKAKKAKKEKRKQRKQAR 32
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 30.7 bits (70), Expect = 0.12
Identities = 9/21 (42%), Positives = 16/21 (76%)
Query: 38 TIDKKLKKKKKKKKKKKKKKK 58
+ K+ +KK+K+K+K K KK+
Sbjct: 395 VLAKRAEKKEKEKEKPKVKKR 415
Score = 30.3 bits (69), Expect = 0.17
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
KK K+K+K K KK+ +
Sbjct: 402 KKEKEKEKPKVKKRHRDT 419
Score = 29.9 bits (68), Expect = 0.21
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
+ KK+K+K+K K KK+
Sbjct: 399 RAEKKEKEKEKPKVKKRH 416
Score = 29.9 bits (68), Expect = 0.22
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 6/48 (12%)
Query: 14 PIKERM---LYSSCKAPLLENLHHLGLTIDKKLKKKKKKKKKKKKKKK 58
P+K R+ L KAP + G K L K+ +KK+K+K+K K
Sbjct: 367 PLKARVIDELRPKTKAPSEKKT---GKPSKKVLAKRAEKKEKEKEKPK 411
Score = 29.1 bits (66), Expect = 0.49
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
K+ +K+K K KK+ + K
Sbjct: 403 KEKEKEKPKVKKRHRDTK 420
Score = 28.8 bits (65), Expect = 0.62
Identities = 7/18 (38%), Positives = 13/18 (72%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
+ K+K+K+K K KK+ +
Sbjct: 400 AEKKEKEKEKPKVKKRHR 417
Score = 28.4 bits (64), Expect = 0.86
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
+K K+K K KK+ + K
Sbjct: 404 EKEKEKPKVKKRHRDTKN 421
Score = 28.0 bits (63), Expect = 1.1
Identities = 7/18 (38%), Positives = 13/18 (72%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
+K +K+K+K K KK+ +
Sbjct: 401 EKKEKEKEKPKVKKRHRD 418
Score = 27.6 bits (62), Expect = 1.7
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 40 DKKLKKKKKKKKKKKKKKKFPYNSGSE 66
+K KK+ + K K++ P + E
Sbjct: 408 EKPKVKKRHRDTKNIGKRRKPSGTSEE 434
Score = 26.4 bits (59), Expect = 3.3
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
K+ K KK+ + K K
Sbjct: 407 KEKPKVKKRHRDTKNIGK 424
Score = 26.4 bits (59), Expect = 3.6
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
K+ +K K KK+ + K
Sbjct: 405 KEKEKPKVKKRHRDTKNI 422
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 30.3 bits (69), Expect = 0.19
Identities = 12/58 (20%), Positives = 24/58 (41%)
Query: 37 LTIDKKLKKKKKKKKKKKKKKKFPYNSGSELTEEFLLEELHPKKTAERPKFDKPKGPP 94
LT KK KK KK +K +KK+ + ++ ++ + K ++ +
Sbjct: 402 LTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEE 459
>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 = 30.2 bits (69), Expect = 0.19
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 39 IDKKLKKKKKKKKKKKKKKKFP 60
I K L+K +K KKKKK++K F
Sbjct: 191 IKKLLEKPEKPKKKKKRRKGFS 212
>gnl|CDD|218747 pfam05786, Cnd2, Condensin complex subunit 2. This family consists
of several Barren protein homologues from several
eukaryotic organisms. In Drosophila Barren (barr) is
required for sister-chromatid segregation in mitosis.
barr encodes a novel protein that is present in
proliferating cells and has homologues in yeast and
human. Mitotic defects in barr embryos become apparent
during cycle 16, resulting in a loss of PNS and CNS
neurons. Centromeres move apart at the
metaphase-anaphase transition and Cyclin B is degraded,
but sister chromatids remain connected, resulting in
chromatin bridging. Barren protein localises to
chromatin throughout mitosis. Colocalisation and
biochemical experiments indicate that Barren associates
with Topoisomerase II throughout mitosis and alters the
activity of Topoisomerase II. It has been suggested that
this association is required for proper chromosomal
segregation by facilitating the decatenation of
chromatids at anaphase. This family forms one of the
three non-structural maintenance of chromosomes (SMC)
subunits of the mitotic condensation complex along with
Cnd1 and Cnd3.
Length = 719
Score = 29.3 bits (66), Expect = 0.46
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 44 KKKKKKKKKKKKKKKFPYNSGSELTEEFLLEELHPKKTAERPKFDKPK 91
K +K+KK+ K+ F + G+ L E E+ + K K
Sbjct: 439 TKSAAEKQKKRAKEPFEIDFGAPLEEID--FEVIFQPPKANSTLSKSK 484
>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase;
Provisional.
Length = 330
Score = 28.6 bits (65), Expect = 0.56
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 41 KKLKKKKKKKKKKKKKKKFP 60
K KKK+K++ K K K P
Sbjct: 71 KAQKKKEKQEAKAAKAKSKP 90
Score = 27.5 bits (62), Expect = 1.4
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
K K +KKK+K++ K
Sbjct: 67 KAWHKAQKKKEKQEAKAA 84
Score = 27.5 bits (62), Expect = 1.7
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
K +KKK+K++ K K
Sbjct: 68 AWHKAQKKKEKQEAKAAK 85
Score = 27.1 bits (61), Expect = 2.0
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 38 TIDKKLKKKKKKKKKKKKKKK 58
+DKK K K +KKK+K++
Sbjct: 60 LLDKKELKAWHKAQKKKEKQE 80
Score = 26.7 bits (60), Expect = 3.1
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
KK +K++ K K K K +
Sbjct: 74 KKKEKQEAKAAKAKSKPR 91
Score = 26.3 bits (59), Expect = 4.3
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 40 DKKLKKKKKKKKKKKKKKK 58
K+LK K +KKK+K++
Sbjct: 63 KKELKAWHKAQKKKEKQEA 81
Score = 25.9 bits (58), Expect = 5.9
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 41 KKLKKKKKKKKKKKKKKKF 59
KK K++ K K K K + F
Sbjct: 75 KKEKQEAKAAKAKSKPRLF 93
Score = 25.2 bits (56), Expect = 9.4
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
K K +KKK+K++ K
Sbjct: 66 LKAWHKAQKKKEKQEAKA 83
>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 = 28.3 bits (64), Expect = 0.60
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 40 DKKLKKKKKKKKKKKKKKK 58
+K KK +K K K +KKK
Sbjct: 72 EKAEKKAEKAKAKAEKKKA 90
Score = 26.7 bits (60), Expect = 2.0
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
K +K +KK +K K K +
Sbjct: 69 KAWEKAEKKAEKAKAKAE 86
Score = 26.7 bits (60), Expect = 2.6
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 38 TIDKKLKKKKKKKKKKKKKKK 58
+DKK K +K +KK +K K
Sbjct: 62 LLDKKELKAWEKAEKKAEKAK 82
Score = 25.6 bits (57), Expect = 5.3
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
K +KK +K K K +K
Sbjct: 70 AWEKAEKKAEKAKAKAEK 87
Score = 25.6 bits (57), Expect = 6.0
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 41 KKLKKKKKKKKKKKKK 56
KK +K K K +KKK K
Sbjct: 76 KKAEKAKAKAEKKKAK 91
>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 = 28.6 bits (64), Expect = 0.76
Identities = 13/18 (72%), Positives = 15/18 (83%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
K KK KKKKKKKKK++K
Sbjct: 273 VKFKKPKKKKKKKKKRRK 290
Score = 27.0 bits (60), Expect = 2.5
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 37 LTIDKKLKKKKKKKKKKKKKKK 58
+ + +K KK KKKKKKKKK+
Sbjct: 267 YDVSEMVKFKKPKKKKKKKKKR 288
Score = 26.3 bits (58), Expect = 4.9
Identities = 12/17 (70%), Positives = 14/17 (82%)
Query: 41 KKLKKKKKKKKKKKKKK 57
KK KKKKKKKKK++K
Sbjct: 276 KKPKKKKKKKKKRRKDL 292
>gnl|CDD|237276 PRK13024, PRK13024, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 755
Score = 28.3 bits (64), Expect = 0.86
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 42 KLKKKKKKKKKKKKKKKFP 60
L+K++ KKKKK+KK K
Sbjct: 731 DLEKRRLKKKKKRKKVKKW 749
Score = 27.5 bits (62), Expect = 1.9
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 41 KKLKKKKKKKKKKKKKKKFPY 61
++LKKKKK+KK KK + +
Sbjct: 735 RRLKKKKKRKKVKKWEVEKIE 755
>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457). This
is a family of uncharacterized proteins.
Length = 449
Score = 28.0 bits (62), Expect = 0.98
Identities = 6/22 (27%), Positives = 14/22 (63%)
Query: 37 LTIDKKLKKKKKKKKKKKKKKK 58
LT++ +KK+ +K K+ ++
Sbjct: 26 LTLNDTMKKENAIRKLGKEAEE 47
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 27.9 bits (63), Expect = 1.2
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 7/49 (14%)
Query: 13 LPIKERMLYSSCKAPLLENLHHLGLTIDKKLKKKKKKKKKKKKKKKFPY 61
L ++ Y+S KA L K+L K +KK+KKKKK+K
Sbjct: 593 LRQLQKGGYASVKAHELIEAR-------KRLNKANEKKEKKKKKQKEKQ 634
Score = 25.2 bits (56), Expect = 9.4
Identities = 14/28 (50%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 41 KKLKKKKKKKKKKKKKKKF-PYNSGSEL 67
+K++K KKKKKKK K K P EL
Sbjct: 680 EKIQKPKKKKKKKPKTVKPKPRTVSLEL 707
>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 = 27.3 bits (61), Expect = 1.8
Identities = 16/91 (17%), Positives = 27/91 (29%), Gaps = 8/91 (8%)
Query: 32 LHHLGLTIDKKLKKKKKKKKKKKKKKKFP------YNSGSELTEEFLLEELHPKKTAERP 85
+ +KK + KKK K KK + + S + + K A P
Sbjct: 146 CERTEILAEKKKPRSKKKSSKNSKKLRIDLVGEWLSTAISPPDSSPVSLDAREKLRAYLP 205
Query: 86 KFDKPKGPPNRGAKRITKPQATPQFVKKLVD 116
K++ + + KL D
Sbjct: 206 KWEGKTKNKKSLKEYKDLIKLLD--SGKLDD 234
>gnl|CDD|188606 TIGR04091, LTA_dltB, D-alanyl-lipoteichoic acid biosynthesis
protein DltB. Members of this protein family are DltB,
part of a four-gene operon for D-alanyl-lipoteichoic
acid biosynthesis that is present in the vast majority
of low-GC Gram-positive organisms. This protein may be
involved in transport of D-alanine across the plasma
membrane [Cell envelope, Biosynthesis and degradation of
murein sacculus and peptidoglycan].
Length = 380
Score = 27.5 bits (62), Expect = 1.9
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 33 HHLGLTIDKKLKKKKKKKKKKKKKK 57
H L L + ++K KK KK KK K
Sbjct: 331 HGLLLALTDAWQRKSKKYKKNKKNK 355
Score = 26.3 bits (59), Expect = 3.9
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 46 KKKKKKKKKKKKKF 59
+K KK KK KK K+
Sbjct: 343 RKSKKYKKNKKNKW 356
>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein
complex aNOP56 subunit; Provisional.
Length = 414
Score = 27.2 bits (61), Expect = 2.2
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 40 DKKLKKKKKKKKKKKKKKK 58
+K KKK+KKK KK+KKK
Sbjct: 394 KRKKKKKRKKKGKKRKKKG 412
Score = 26.9 bits (60), Expect = 2.5
Identities = 13/19 (68%), Positives = 16/19 (84%)
Query: 40 DKKLKKKKKKKKKKKKKKK 58
K+ KKKK+KKK KK+KKK
Sbjct: 393 QKRKKKKKRKKKGKKRKKK 411
Score = 26.9 bits (60), Expect = 2.6
Identities = 13/19 (68%), Positives = 16/19 (84%)
Query: 40 DKKLKKKKKKKKKKKKKKK 58
+K KKKKK+KKK KK+KK
Sbjct: 392 PQKRKKKKKRKKKGKKRKK 410
Score = 26.5 bits (59), Expect = 3.4
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
KK K+KKK KK+KKK +K
Sbjct: 397 KKKKRKKKGKKRKKKGRK 414
Score = 26.5 bits (59), Expect = 3.5
Identities = 13/18 (72%), Positives = 16/18 (88%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
KK +K+KKKKK+KKK KK
Sbjct: 390 KKPQKRKKKKKRKKKGKK 407
Score = 26.5 bits (59), Expect = 4.2
Identities = 11/19 (57%), Positives = 16/19 (84%)
Query: 41 KKLKKKKKKKKKKKKKKKF 59
K+ +KK +K+KKKKK+KK
Sbjct: 386 KREEKKPQKRKKKKKRKKK 404
Score = 26.1 bits (58), Expect = 4.4
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
KK KK+KKK KK+KKK +
Sbjct: 396 KKKKKRKKKGKKRKKKGR 413
Score = 26.1 bits (58), Expect = 4.8
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
K K+KKKKK+KKK KK+
Sbjct: 391 KPQKRKKKKKRKKKGKKR 408
Score = 25.7 bits (57), Expect = 6.2
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 41 KKLKKKKKKKKKKKKKKKF 59
+ +KKKKK+KKK KK+K
Sbjct: 392 PQKRKKKKKRKKKGKKRKK 410
Score = 25.7 bits (57), Expect = 6.8
Identities = 10/18 (55%), Positives = 15/18 (83%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
++ K +K+KKKKK+KKK
Sbjct: 388 EEKKPQKRKKKKKRKKKG 405
Score = 25.7 bits (57), Expect = 7.6
Identities = 11/18 (61%), Positives = 16/18 (88%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
KK ++KK +K+KKKKK+K
Sbjct: 385 KKREEKKPQKRKKKKKRK 402
Score = 25.3 bits (56), Expect = 9.9
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
+K +K+KKKKK+KKK K
Sbjct: 389 EKKPQKRKKKKKRKKKGK 406
>gnl|CDD|223966 COG1035, FrhB, Coenzyme F420-reducing hydrogenase, beta subunit
[Energy production and conversion].
Length = 332
Score = 26.9 bits (60), Expect = 2.4
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 35 LGLTIDKKLKKKKKKKKKKKKKKK 58
LGL + +KL KKK K+ K+ +++
Sbjct: 298 LGLRLVEKLAKKKLKRAAKEPEER 321
>gnl|CDD|203444 pfam06424, PRP1_N, PRP1 splicing factor, N-terminal. This domain
is specific to the N-terminal part of the prp1 splicing
factor, which is involved in mRNA splicing (and
possibly also poly(A)+ RNA nuclear export and cell
cycle progression). This domain is specific to the N
terminus of the RNA splicing factor encoded by prp1. It
is involved in mRNA splicing and possibly also
poly(A)and RNA nuclear export and cell cycle
progression.
Length = 131
Score = 26.5 bits (59), Expect = 2.6
Identities = 6/20 (30%), Positives = 19/20 (95%)
Query: 39 IDKKLKKKKKKKKKKKKKKK 58
ID+++ +++KK++++K+K++
Sbjct: 70 IDERMDERRKKRREQKEKEE 89
>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 = 26.4 bits (58), Expect = 2.8
Identities = 13/17 (76%), Positives = 13/17 (76%)
Query: 42 KLKKKKKKKKKKKKKKK 58
K KKKKKK KK KK KK
Sbjct: 99 KPKKKKKKSKKTKKPKK 115
Score = 26.4 bits (58), Expect = 2.9
Identities = 12/21 (57%), Positives = 12/21 (57%)
Query: 38 TIDKKLKKKKKKKKKKKKKKK 58
T K KKKK KK KK KK
Sbjct: 97 TEKPKKKKKKSKKTKKPKKSS 117
Score = 26.4 bits (58), Expect = 2.9
Identities = 12/18 (66%), Positives = 12/18 (66%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
KK KKK KK KK KK K
Sbjct: 101 KKKKKKSKKTKKPKKSSK 118
Score = 26.0 bits (57), Expect = 3.3
Identities = 12/18 (66%), Positives = 12/18 (66%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
KK KK KK KK KK KK
Sbjct: 102 KKKKKSKKTKKPKKSSKK 119
Score = 25.6 bits (56), Expect = 4.6
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 41 KKLKKKKKKKKKKKKKKK 58
KK K KK KK KK KK
Sbjct: 103 KKKKSKKTKKPKKSSKKD 120
>gnl|CDD|206687 cd01900, YchF, YchF GTPase. YchF is a member of the Obg family,
which includes four other subfamilies of GTPases: Obg,
DRG, Ygr210, and NOG1. Obg is an essential gene that is
involved in DNA replication in C. crescentus and
Streptomyces griseus and is associated with the
ribosome. Several members of the family, including YchF,
possess the TGS domain related to the RNA-binding
proteins. Experimental data and genomic analysis suggest
that YchF may be part of a nucleoprotein complex and may
function as a GTP-dependent translational factor.
Length = 274
Score = 26.7 bits (60), Expect = 2.8
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 38 TIDKKLKKKKKKKKKKKKKKKFPY 61
TI+K+L++ +KK K K+ K
Sbjct: 135 TIEKRLERLEKKAKSGDKEAKEEL 158
>gnl|CDD|236583 PRK09601, PRK09601, GTP-binding protein YchF; Reviewed.
Length = 364
Score = 26.6 bits (60), Expect = 2.9
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 9/41 (21%)
Query: 38 TIDKKLKKKKKKKKKKKKKKKFPYNSGSELTEEFLLEELHP 78
T++K+L++ +KK K K+ K E LLE+L
Sbjct: 139 TVEKRLERLEKKAKGGDKEAKA---------ELELLEKLLE 170
>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional.
Length = 213
Score = 26.4 bits (59), Expect = 3.0
Identities = 14/73 (19%), Positives = 27/73 (36%), Gaps = 15/73 (20%)
Query: 42 KLKKKKKKKKKKKKKKKFPYNSGSELTEEFLLEELHPKKTAERPKFDKPKGPPNRGAKRI 101
K K + ++ +++ KK++ +K R + KPK P + R
Sbjct: 107 KAKVQAQRAEQQAKKRE---------------AAGEKEKAPRRERKPKPKAPRKKRKPRA 151
Query: 102 TKPQATPQFVKKL 114
KP+ V +
Sbjct: 152 QKPEPQHTPVSDI 164
>gnl|CDD|224323 COG1405, SUA7, Transcription initiation factor TFIIIB, Brf1
subunit/Transcription initiation factor TFIIB
[Transcription].
Length = 285
Score = 26.5 bits (59), Expect = 3.1
Identities = 15/51 (29%), Positives = 23/51 (45%)
Query: 26 APLLENLHHLGLTIDKKLKKKKKKKKKKKKKKKFPYNSGSELTEEFLLEEL 76
APL ++H GL+ K K + +K + + +S E LEEL
Sbjct: 54 APLTPSIHDKGLSTIIGWGDKDKMYRLRKWQIRIRVSSAKERNLITALEEL 104
>gnl|CDD|200441 cd11285, ADF_Twf-N_like, N-terminal ADF domain of twinfilin and
related proteins. Actin depolymerization
factor/cofilin-like domains (ADF domains) are present in
a family of essential eukaryotic actin regulatory
proteins. Twinfilin contains two ADF domains, and
inhibits the assembly of actin filaments by strongly
interacting with monomeric ADP-actin (ADP-G-actin) in a
1:1 stochiometry (with it's C-terminal ADF domain,
Twf-C) and inhibiting the actin monomer's nucleotide
exchange. Mammalian twinfilin may also cap the barbed
ends of F-actin filaments and prevent further assembly
(or disassembly), in a process which requires both ADF
domains. The N-terminal ADF domain (Twf-N) binds G-actin
with a lower affinity than Twf-C; Twf-C can also bind
F-actin. During capping, Twf-N may interact with the
terminal actin subunit, and Twf-C may bind between two
adjacent subunits at the side of the filament.
Length = 139
Score = 26.1 bits (58), Expect = 3.2
Identities = 12/31 (38%), Positives = 21/31 (67%), Gaps = 1/31 (3%)
Query: 2 FVFIYSMPGYSLPIKERMLYSSCKAPLLENL 32
+VFI +P + P++++MLY+S +A L L
Sbjct: 80 WVFISFVPDSA-PVRQKMLYASTRATLKREL 109
>gnl|CDD|217431 pfam03219, TLC, TLC ATP/ADP transporter.
Length = 491
Score = 26.4 bits (59), Expect = 4.1
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 32 LHHLGLTIDKKLKKKKKKKKKKKK 55
++ LT + KKKKKKK K
Sbjct: 243 INKNVLTDPRLYASAKKKKKKKPK 266
>gnl|CDD|234246 TIGR03529, GldK_short, gliding motility-associated lipoprotein
GldK. Members of this protein family are exclusive to
the Bacteroidetes phylum (previously
Cytophaga-Flavobacteria-Bacteroides). GldK is a
lipoprotein linked to a type of rapid surface gliding
motility found in certain Bacteroidetes, such as
Flavobacterium johnsoniae. Knockouts of GldK abolish the
gliding phenotype. GldK is homologous to GldJ. This
model represents a GldK homolog in Cytophaga
hutchinsonii and several other species that has a
different, shorter architecture than that found in
Flavobacterium johnsoniae and related species
(represented by (TIGR03525). Gliding motility appears
closely linked to chitin utilization in the model
species Flavobacterium johnsoniae. Bacteroidetes with
members of this protein family appear to have all of the
genes associated with gliding motility.
Length = 344
Score = 26.0 bits (57), Expect = 4.6
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 63 SGSELTEEFLLEELHPKKTAERPKFDKPKGPP 94
+G+ L E+ +EEL+P T F G P
Sbjct: 113 TGTPLPPEYDMEELYPDTTVWSTSFSHHMGDP 144
>gnl|CDD|132295 TIGR03251, LAT_fam, L-lysine 6-transaminase. Characterized members
of this protein family are L-lysine 6-transaminase, also
called lysine epsilon-aminotransferase (LAT). The
immediate product of the reaction of this enzyme on
lysine, 2-aminoadipate 6-semialdehyde, becomes
1-piperideine 6-carboxylate, or P6C. This product may be
converted subsequently to pipecolate or
alpha-aminoadipate, lysine catabolites that may be
precursors of certain seconary metabolites.
Length = 431
Score = 26.3 bits (58), Expect = 4.6
Identities = 13/31 (41%), Positives = 15/31 (48%), Gaps = 9/31 (29%)
Query: 78 PKKTAERPKFDKPKGPPNRGAKRITKPQATP 108
P+KTA PKFD P RI P+ T
Sbjct: 166 PRKTARFPKFDWP---------RIDNPKLTF 187
>gnl|CDD|217529 pfam03389, MobA_MobL, MobA/MobL family. This family includes of
the MobA protein from the E. coli plasmid RSF1010, and
the MobL protein from the Thiobacillus ferrooxidans
plasmid PTF1. These sequences are mobilisation proteins,
which are essential for specific plasmid transfer.
Length = 219
Score = 25.9 bits (57), Expect = 4.7
Identities = 12/56 (21%), Positives = 24/56 (42%), Gaps = 1/56 (1%)
Query: 49 KKKKKKKKKKFPYNSGSELTEEFLLEELHPKKTAERPKF-DKPKGPPNRGAKRITK 103
K +++ + Y L EEF+L P+ A+R +K + R ++ +
Sbjct: 14 KIYDEREARTIDYTRKQVLHEEFILPGNAPEWFADREALWNKVEAVEKRPNAQLAR 69
>gnl|CDD|236861 PRK11147, PRK11147, ABC transporter ATPase component; Reviewed.
Length = 635
Score = 26.1 bits (58), Expect = 4.8
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 41 KKLKKKKKKKKKKKKKKKFPYNSGSELTEEF--LLEEL 76
K+ K + K+ KK Y EL E+ LLE+L
Sbjct: 544 KEEAAAPKAETVKRSSKKLSYKLQREL-EQLPQLLEDL 580
>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 = 25.8 bits (57), Expect = 5.1
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 40 DKKLKKKKKKKKKKKKK 56
+++ KKKKKKKKKK KK
Sbjct: 178 EERAKKKKKKKKKKTKK 194
>gnl|CDD|215239 PLN02436, PLN02436, cellulose synthase A.
Length = 1094
Score = 26.0 bits (57), Expect = 5.2
Identities = 13/15 (86%), Positives = 14/15 (93%)
Query: 44 KKKKKKKKKKKKKKK 58
KKKKKKK K+KKKKK
Sbjct: 685 KKKKKKKSKEKKKKK 699
Score = 25.6 bits (56), Expect = 8.6
Identities = 12/16 (75%), Positives = 14/16 (87%)
Query: 43 LKKKKKKKKKKKKKKK 58
+KKKKKKK K+KKKK
Sbjct: 683 SRKKKKKKKSKEKKKK 698
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 26.0 bits (58), Expect = 5.3
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 41 KKLKKKKKKKKKKKKK 56
KKL+KK++K +KK +K
Sbjct: 412 KKLRKKQRKAEKKAEK 427
>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 = 26.2 bits (58), Expect = 5.4
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 35 LGLTIDKKLKKKKKKKKKKKKKKKFPYNS 63
L L+ +K + KK+KKKK KK K +N
Sbjct: 351 LALSPKRKREGDKKQKKKKSKKLKLTFNP 379
>gnl|CDD|180007 PRK05309, PRK05309, 30S ribosomal protein S11; Validated.
Length = 128
Score = 25.5 bits (57), Expect = 5.9
Identities = 10/16 (62%), Positives = 10/16 (62%)
Query: 45 KKKKKKKKKKKKKKFP 60
KKKK KKK KK P
Sbjct: 1 AKKKKTVKKKVKKNIP 16
Score = 25.1 bits (56), Expect = 8.2
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 44 KKKKKKKKKKKKK 56
KKKK KKK KK
Sbjct: 1 AKKKKTVKKKVKK 13
>gnl|CDD|217611 pfam03552, Cellulose_synt, Cellulose synthase. Cellulose, an
aggregate of unbranched polymers of beta-1,4-linked
glucose residues, is the major component of wood and
thus paper, and is synthesised by plants, most algae,
some bacteria and fungi, and even some animals. The
genes that synthesise cellulose in higher plants differ
greatly from the well-characterized genes found in
Acetobacter and Agrobacterium sp. More correctly
designated as 'cellulose synthase catalytic subunits',
plant cellulose synthase (CesA) proteins are integral
membrane proteins, approximately 1,000 amino acids in
length. There are a number of highly conserved residues,
including several motifs shown to be necessary for
processive glycosyltransferase activity.
Length = 716
Score = 25.9 bits (57), Expect = 6.4
Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 1/52 (1%)
Query: 34 HLGLTIDKKLKKKKKKKKKKKKKKKFPYNSGSELTEE-FLLEELHPKKTAER 84
H G+T ++KK K K K + E F LE++ E+
Sbjct: 299 HPGMTSICCCCFGRRKKPKSASKAKKKDSKRKESEAPIFNLEDIDEGDEDEK 350
>gnl|CDD|218780 pfam05854, MC1, Non-histone chromosomal protein MC1. This family
consists of archaeal chromosomal protein MC1 sequences
which protect DNA against thermal denaturation.
Length = 93
Score = 24.9 bits (54), Expect = 6.8
Identities = 10/33 (30%), Positives = 13/33 (39%)
Query: 82 AERPKFDKPKGPPNRGAKRITKPQATPQFVKKL 114
+ D P P ITKP Q ++KL
Sbjct: 60 GWAWEVDAPDDKPAWMPGDITKPNVKKQGIEKL 92
>gnl|CDD|147335 pfam05105, Phage_holin_4, Holin family. Phage holins and lytic
enzymes are both necessary for bacterial lysis and virus
dissemination.This family also includes TcdE/UtxA
involved in toxin secretion in Clostridium difficile.
Length = 118
Score = 24.8 bits (55), Expect = 8.4
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 28 LLENLHHLGLTIDKKLKKKKKKKKKKK 54
+LENL +G+ I +KLK ++ K+K
Sbjct: 92 ILENLGRMGVPIPEKLKDALEQLKEKT 118
>gnl|CDD|206704 cd04132, Rho4_like, Ras homology family 4 (Rho4) of small guanosine
triphosphatases (GTPases)-like. Rho4 is a GTPase that
controls septum degradation by regulating secretion of
Eng1 or Agn1 during cytokinesis. Rho4 also plays a role
in cell morphogenesis. Rho4 regulates septation and cell
morphology by controlling the actin cytoskeleton and
cytoplasmic microtubules. The localization of Rho4 is
modulated by Rdi1, which may function as a GDI, and by
Rga9, which is believed to function as a GAP. In S.
pombe, both Rho4 deletion and Rho4 overexpression result
in a defective cell wall, suggesting a role for Rho4 in
maintaining cell wall integrity. Most Rho proteins
contain a lipid modification site at the C-terminus,
with a typical sequence motif CaaX, where a = an
aliphatic amino acid and X = any amino acid. Lipid
binding is essential for membrane attachment, a key
feature of most Rho proteins.
Length = 197
Score = 25.4 bits (56), Expect = 8.4
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 21 YSSCKAPLLENLHHL-GLTIDKKLKKKKKKKKKKKKKKK 58
Y C A L+EN+ + I+ L K + +KKKKKKK
Sbjct: 155 YIECSAKLMENVDEVFDAAINVALSKSGRAARKKKKKKK 193
>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 = 25.4 bits (56), Expect = 8.6
Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 3/65 (4%)
Query: 28 LLENLHHLGLTIDKKLKKKKKKKKKKKKKKKFPYNSGSELTEEFLLEELHPKKTAERPKF 87
L E LGL D++ + KKK+ +++ + ++ ++E + EEL K + P
Sbjct: 443 LTEIGRELGLIDDERYARFLKKKENIEEEIQRLKSTWLTPSKE-VKEEL--KNHLQSPLK 499
Query: 88 DKPKG 92
+ G
Sbjct: 500 REASG 504
>gnl|CDD|217930 pfam04152, Mre11_DNA_bind, Mre11 DNA-binding presumed domain. The
Mre11 complex is a multi-subunit nuclease that is
composed of Mre11, Rad50 and Nbs1/Xrs2, and is involved
in checkpoint signalling and DNA replication. Mre11 has
an intrinsic DNA-binding activity that is stimulated by
Rad50 on its own or in combination with Nbs1.
Length = 166
Score = 25.2 bits (56), Expect = 9.1
Identities = 12/33 (36%), Positives = 15/33 (45%)
Query: 45 KKKKKKKKKKKKKKFPYNSGSELTEEFLLEELH 77
KKKK+K K KK + EL L+ L
Sbjct: 105 YKKKKRKTKTKKTEEDDPDEEELLPPEELDTLK 137
>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62.
Length = 217
Score = 25.1 bits (55), Expect = 9.8
Identities = 13/18 (72%), Positives = 13/18 (72%)
Query: 40 DKKLKKKKKKKKKKKKKK 57
DK KK KK KKKKKKK
Sbjct: 198 DKSSAKKDKKSKKKKKKK 215
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
0.314 0.134 0.387
Gapped
Lambda K H
0.267 0.0698 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,131,195
Number of extensions: 550727
Number of successful extensions: 4389
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3181
Number of HSP's successfully gapped: 545
Length of query: 116
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 37
Effective length of database: 7,433,636
Effective search space: 275044532
Effective search space used: 275044532
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.3 bits)