RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2822
(78 letters)
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 33.4 bits (77), Expect = 0.005
Identities = 13/33 (39%), Positives = 22/33 (66%)
Query: 46 KDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
K K + +R EK++K+K+K K KK+ ++ KN
Sbjct: 390 KPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNI 422
Score = 31.1 bits (71), Expect = 0.032
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 46 KDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
++K +K K+ +KK+K+K+K K KK
Sbjct: 384 SEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRH 416
Score = 30.3 bits (69), Expect = 0.065
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 54 QRKEKEKKKKKKKKKKKKKKEKKNK 78
++KEKEK+K K KK+ + K +
Sbjct: 401 EKKEKEKEKPKVKKRHRDTKNIGKR 425
Score = 29.9 bits (68), Expect = 0.085
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 56 KEKEKKKKKKKKKKKKKKEKKNK 78
KEKEK K KK+ + K K+ K
Sbjct: 405 KEKEKPKVKKRHRDTKNIGKRRK 427
Score = 26.8 bits (60), Expect = 1.2
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 48 RKINVLQRKEKEKKKKKKKKKKKKKKEKK 76
R + KEK K KK+ + K K +K
Sbjct: 399 RAEKKEKEKEKPKVKKRHRDTKNIGKRRK 427
Score = 25.7 bits (57), Expect = 2.3
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 45 IKDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
+K R I+ L+ K K +KK K KK K+ +
Sbjct: 368 LKARVIDELRPKTKAPSEKKTGKPSKKVLAKRAE 401
Score = 25.7 bits (57), Expect = 2.7
Identities = 8/50 (16%), Positives = 24/50 (48%)
Query: 29 KNKMQAELQEMKDHMDIKDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
K K +E + K + ++ ++++++ K KK+ + K +++
Sbjct: 379 KTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRKP 428
>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase;
Provisional.
Length = 330
Score = 32.5 bits (75), Expect = 0.011
Identities = 13/44 (29%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 35 ELQEMKDHMDIKDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
+ +EMK+ ++K ++ + K K +KKK+K++ K + K+K
Sbjct: 48 QYKEMKE--ELKAALLDKKELKAWHKAQKKKEKQEAKAAKAKSK 89
>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein
complex aNOP56 subunit; Provisional.
Length = 414
Score = 30.3 bits (69), Expect = 0.063
Identities = 15/35 (42%), Positives = 26/35 (74%)
Query: 44 DIKDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
+IK++ ++K +EKK +K+KKKKK+KK+ K +
Sbjct: 374 EIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKR 408
Score = 27.2 bits (61), Expect = 0.69
Identities = 13/25 (52%), Positives = 22/25 (88%)
Query: 54 QRKEKEKKKKKKKKKKKKKKEKKNK 78
++K +++KKKKK+KKK KK++KK +
Sbjct: 389 EKKPQKRKKKKKRKKKGKKRKKKGR 413
Score = 26.9 bits (60), Expect = 0.90
Identities = 14/24 (58%), Positives = 21/24 (87%)
Query: 55 RKEKEKKKKKKKKKKKKKKEKKNK 78
++E++K +K+KKKKK+KKK KK K
Sbjct: 386 KREEKKPQKRKKKKKRKKKGKKRK 409
Score = 26.1 bits (58), Expect = 1.7
Identities = 14/25 (56%), Positives = 20/25 (80%)
Query: 54 QRKEKEKKKKKKKKKKKKKKEKKNK 78
++ +K KKKKK+KKK KK+K+K K
Sbjct: 390 KKPQKRKKKKKRKKKGKKRKKKGRK 414
Score = 24.9 bits (55), Expect = 4.2
Identities = 12/29 (41%), Positives = 22/29 (75%)
Query: 48 RKINVLQRKEKEKKKKKKKKKKKKKKEKK 76
+K + ++++KKKK+KKK KK+KK+ +
Sbjct: 385 KKREEKKPQKRKKKKKRKKKGKKRKKKGR 413
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 30.0 bits (68), Expect = 0.071
Identities = 26/80 (32%), Positives = 44/80 (55%), Gaps = 2/80 (2%)
Query: 1 VEELRSRLEEKNRHIE--KKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEK 58
VE+L + LE+K + +E K T ++ +K + L+E ++ + + K L+ K K
Sbjct: 1104 VEKLNAELEKKEKELEKLKNTTPKDMWLEDLDKFEEALEEQEEVEEKEIAKEQRLKSKTK 1163
Query: 59 EKKKKKKKKKKKKKKEKKNK 78
K K +K K KKK++KK K
Sbjct: 1164 GKASKLRKPKLKKKEKKKKK 1183
>gnl|CDD|237276 PRK13024, PRK13024, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 755
Score = 30.2 bits (69), Expect = 0.076
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 56 KEKEKKKKKKKKKKKKKKEKKN 77
+++ KKKKK+KK KK + +K
Sbjct: 733 EKRRLKKKKKRKKVKKWEVEKI 754
Score = 28.7 bits (65), Expect = 0.24
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 58 KEKKKKKKKKKKKKKKEKKNK 78
++++ KKKKK+KK KK + K
Sbjct: 733 EKRRLKKKKKRKKVKKWEVEK 753
Score = 26.7 bits (60), Expect = 1.1
Identities = 9/22 (40%), Positives = 16/22 (72%)
Query: 52 VLQRKEKEKKKKKKKKKKKKKK 73
L+++ +KKKK+KK KK + +
Sbjct: 731 DLEKRRLKKKKKRKKVKKWEVE 752
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 29.8 bits (68), Expect = 0.087
Identities = 19/79 (24%), Positives = 47/79 (59%), Gaps = 3/79 (3%)
Query: 2 EELRSRLEEKNRHIEKKTQTAL-TATQEKNKMQAELQEM--KDHMDIKDRKINVLQRKEK 58
E+L+ ++ EK+ Q A+ A +E +++ EL+++ + +K ++ +++
Sbjct: 558 EKLQEEEDKLLEEAEKEAQQAIKEAKKEADEIIKELRQLQKGGYASVKAHELIEARKRLN 617
Query: 59 EKKKKKKKKKKKKKKEKKN 77
+ +KK+KKKKK+K++++
Sbjct: 618 KANEKKEKKKKKQKEKQEE 636
Score = 24.4 bits (54), Expect = 7.0
Identities = 22/69 (31%), Positives = 41/69 (59%), Gaps = 2/69 (2%)
Query: 1 VEELRSRLEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEK 60
+ EL + LEE R +E+K + A +E K++ EL+E K+ +++ + +L+ EKE
Sbjct: 518 LNELIASLEELERELEQKAEEAEALLKEAEKLKEELEEKKE--KLQEEEDKLLEEAEKEA 575
Query: 61 KKKKKKKKK 69
++ K+ KK
Sbjct: 576 QQAIKEAKK 584
>gnl|CDD|215239 PLN02436, PLN02436, cellulose synthase A.
Length = 1094
Score = 29.8 bits (67), Expect = 0.10
Identities = 13/18 (72%), Positives = 17/18 (94%)
Query: 61 KKKKKKKKKKKKKEKKNK 78
+KKKKKKK K+KK+KKN+
Sbjct: 684 RKKKKKKKSKEKKKKKNR 701
Score = 28.7 bits (64), Expect = 0.28
Identities = 13/22 (59%), Positives = 18/22 (81%)
Query: 55 RKEKEKKKKKKKKKKKKKKEKK 76
RK+K+KKK K+KKKKK ++ K
Sbjct: 684 RKKKKKKKSKEKKKKKNREASK 705
Score = 28.7 bits (64), Expect = 0.29
Identities = 12/23 (52%), Positives = 18/23 (78%)
Query: 56 KEKEKKKKKKKKKKKKKKEKKNK 78
++K+KKKK K+KKKKK +E +
Sbjct: 684 RKKKKKKKSKEKKKKKNREASKQ 706
Score = 27.1 bits (60), Expect = 0.80
Identities = 13/24 (54%), Positives = 17/24 (70%)
Query: 55 RKEKEKKKKKKKKKKKKKKEKKNK 78
K+KKKKK K+KKKKK + +K
Sbjct: 682 GSRKKKKKKKSKEKKKKKNREASK 705
Score = 26.8 bits (59), Expect = 1.3
Identities = 11/24 (45%), Positives = 19/24 (79%)
Query: 53 LQRKEKEKKKKKKKKKKKKKKEKK 76
++K+K+KK K+KKKKK ++ K+
Sbjct: 683 SRKKKKKKKSKEKKKKKNREASKQ 706
>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 = 29.4 bits (67), Expect = 0.12
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 59 EKKKKKKKKKKKKK 72
++K KK KK KK K
Sbjct: 342 QRKSKKYKKNKKNK 355
Score = 28.7 bits (65), Expect = 0.23
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 66 KKKKKKKKEKKNK 78
+K KK KK KKNK
Sbjct: 343 RKSKKYKKNKKNK 355
Score = 28.3 bits (64), Expect = 0.27
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 61 KKKKKKKKKKKKK 73
+K KK KK KK K
Sbjct: 343 RKSKKYKKNKKNK 355
Score = 27.1 bits (61), Expect = 0.91
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 64 KKKKKKKKKKEKK 76
+K KK KK K+ K
Sbjct: 343 RKSKKYKKNKKNK 355
Score = 26.7 bits (60), Expect = 1.1
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 63 KKKKKKKKKKKEK 75
+K KK KK KK K
Sbjct: 343 RKSKKYKKNKKNK 355
Score = 26.0 bits (58), Expect = 1.9
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 57 EKEKKKKKKKKKKK 70
+++ KK KK KK K
Sbjct: 342 QRKSKKYKKNKKNK 355
>gnl|CDD|182611 PRK10642, PRK10642, proline/glycine betaine transporter;
Provisional.
Length = 490
Score = 29.7 bits (67), Expect = 0.12
Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 1 VEELRSRLEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKIN 51
++E + L E +IE+K + ++ AELQ + + + +I+
Sbjct: 447 IQEAKEILVEHYDNIEQK-------IDDIDQEIAELQAKRTRLVQQHPRID 490
>gnl|CDD|240246 PTZ00053, PTZ00053, methionine aminopeptidase 2; Provisional.
Length = 470
Score = 29.3 bits (66), Expect = 0.14
Identities = 22/68 (32%), Positives = 32/68 (47%)
Query: 9 EEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEKKKKKKKKK 68
+N ++K Q T++KNK + + D + N ++ KKKKKKKK
Sbjct: 5 NGENEVKQQKQQNKQKGTKKKNKKSKKDVDDDDAFLAELISENQEAENKQNNKKKKKKKK 64
Query: 69 KKKKKEKK 76
KKKKK
Sbjct: 65 KKKKKNLG 72
>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97
family. This model family represents the major capsid
protein component of the heads (capsids) of
bacteriophage HK97, phi-105, P27, and related phage.
This model represents one of several analogous families
lacking detectable sequence similarity. The gene
encoding this component is typically located in an
operon encoding the small and large terminase subunits,
the portal protein and the prohead or maturation
protease [Mobile and extrachromosomal element
functions, Prophage functions].
Length = 384
Score = 29.2 bits (66), Expect = 0.16
Identities = 19/78 (24%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Query: 1 VEELRSRLEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEK 60
++ELR L E + + K T+ A E+ +AE +K+ +D D +I+ L+ E
Sbjct: 1 LKELREALAELAKELRKLTEDEKLAEAEEE--KAEYDALKEEIDKLDAEIDRLEELLDEL 58
Query: 61 KKKKKKKKKKKKKEKKNK 78
+ K + E++ +
Sbjct: 59 EAKPAASGEGGGGEEEEE 76
>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 = 29.0 bits (65), Expect = 0.16
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 48 RKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
RK ++K+K K KK K K KK E K K
Sbjct: 82 RKPATTAVEKKKKGKSKKNKLKGKKDEDKKK 112
>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 = 28.6 bits (65), Expect = 0.21
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 54 QRKEKEKKKKKKKKKKKKKKEKKNK 78
+ K EK +KK +K K K ++KK K
Sbjct: 67 ELKAWEKAEKKAEKAKAKAEKKKAK 91
Score = 27.1 bits (61), Expect = 0.65
Identities = 13/36 (36%), Positives = 23/36 (63%), Gaps = 2/36 (5%)
Query: 43 MDIKDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
+D K+ K ++ EK+ +K K K +KKK K+++ K
Sbjct: 63 LDKKELK--AWEKAEKKAEKAKAKAEKKKAKKEEPK 96
>gnl|CDD|215124 PLN02195, PLN02195, cellulose synthase A.
Length = 977
Score = 28.8 bits (64), Expect = 0.24
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 58 KEKKKKKKKKKKKKKKEK 75
K+KK KKKK KKK+ K
Sbjct: 122 KDKKNKKKKSAKKKEAHK 139
Score = 28.8 bits (64), Expect = 0.25
Identities = 13/21 (61%), Positives = 13/21 (61%)
Query: 55 RKEKEKKKKKKKKKKKKKKEK 75
R E K KK KKKK KKKE
Sbjct: 117 RVESWKDKKNKKKKSAKKKEA 137
>gnl|CDD|222878 PHA02562, 46, endonuclease subunit; Provisional.
Length = 562
Score = 28.4 bits (64), Expect = 0.26
Identities = 15/69 (21%), Positives = 31/69 (44%)
Query: 3 ELRSRLEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEKKK 62
E +L E I Q+ +T + K++A ++E++ ++ LQ + + K
Sbjct: 334 EQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAKLQDELDKIVK 393
Query: 63 KKKKKKKKK 71
K + K+K
Sbjct: 394 TKSELVKEK 402
>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 = 27.7 bits (62), Expect = 0.59
Identities = 9/30 (30%), Positives = 22/30 (73%)
Query: 46 KDRKINVLQRKEKEKKKKKKKKKKKKKKEK 75
K ++ +L E++ KK++KK+K K+++++
Sbjct: 649 KKKEFKILDYTEEKTKKEEKKEKNKREEKE 678
>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 = 27.2 bits (60), Expect = 0.59
Identities = 14/22 (63%), Positives = 15/22 (68%)
Query: 57 EKEKKKKKKKKKKKKKKEKKNK 78
EK KKKKKK KK KK K+ K
Sbjct: 98 EKPKKKKKKSKKTKKPKKSSKK 119
Score = 26.8 bits (59), Expect = 0.88
Identities = 14/22 (63%), Positives = 16/22 (72%)
Query: 56 KEKEKKKKKKKKKKKKKKEKKN 77
K K+KKKK KK KK KK KK+
Sbjct: 99 KPKKKKKKSKKTKKPKKSSKKD 120
Score = 24.1 bits (52), Expect = 7.4
Identities = 12/19 (63%), Positives = 12/19 (63%)
Query: 60 KKKKKKKKKKKKKKEKKNK 78
KKKKK KK KK KK K
Sbjct: 102 KKKKKSKKTKKPKKSSKKD 120
>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional.
Length = 813
Score = 27.4 bits (61), Expect = 0.62
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 55 RKEKEKKKKKKKKKKKKKKEKKNK 78
R EK+ K K KK +K K+ K
Sbjct: 770 RGEKKAKPKAAKKDARKAKKPSAK 793
Score = 24.3 bits (53), Expect = 7.8
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 56 KEKEKKKKKKKKKKKKKKEKKNK 78
K+ + K KK +K KK K +
Sbjct: 773 KKAKPKAAKKDARKAKKPSAKTQ 795
>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated.
Length = 859
Score = 27.4 bits (62), Expect = 0.69
Identities = 8/33 (24%), Positives = 10/33 (30%)
Query: 46 KDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
K L+ K KK K +K K
Sbjct: 814 LAEKPEKLRYLADAPAKDPAGKKAAVKFSRKTK 846
Score = 25.5 bits (57), Expect = 2.9
Identities = 9/43 (20%), Positives = 17/43 (39%)
Query: 36 LQEMKDHMDIKDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
++E + + K K+ L + KK K +K K+
Sbjct: 807 VEEALELLAEKPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQY 849
>gnl|CDD|184287 PRK13735, PRK13735, conjugal transfer mating pair stabilization
protein TraG; Provisional.
Length = 942
Score = 27.4 bits (61), Expect = 0.75
Identities = 14/80 (17%), Positives = 29/80 (36%), Gaps = 7/80 (8%)
Query: 1 VEELRSRLEEKNR------HIEKKTQTALTAT-QEKNKMQAELQEMKDHMDIKDRKINVL 53
V+ + + E E+ T + Q +K +A Q K + + ++
Sbjct: 863 VDNMVTEYEGNIGDTQNSIRGEENTVKGQYSELQNHHKTEALSQNNKYNEEKSAQERMPG 922
Query: 54 QRKEKEKKKKKKKKKKKKKK 73
+E K+ K+ + K K
Sbjct: 923 ADSPEELMKRAKEYQDKHKG 942
>gnl|CDD|224340 COG1422, COG1422, Predicted membrane protein [Function unknown].
Length = 201
Score = 26.9 bits (60), Expect = 0.75
Identities = 11/46 (23%), Positives = 24/46 (52%), Gaps = 7/46 (15%)
Query: 33 QAELQEMKDHMDIKDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
Q +++E++ M Q++ +E ++ KK KK +EK+ +
Sbjct: 71 QEKMKELQKMMK-------EFQKEFREAQESGDMKKLKKLQEKQME 109
>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 = 27.3 bits (61), Expect = 0.76
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 59 EKKKKKKKKKKKKKKEKKNK 78
K+K++ KK+KKKK KK K
Sbjct: 355 PKRKREGDKKQKKKKSKKLK 374
Score = 26.9 bits (60), Expect = 0.86
Identities = 10/18 (55%), Positives = 15/18 (83%)
Query: 54 QRKEKEKKKKKKKKKKKK 71
+++E +KK+KKKK KK K
Sbjct: 357 RKREGDKKQKKKKSKKLK 374
Score = 25.8 bits (57), Expect = 2.2
Identities = 12/21 (57%), Positives = 15/21 (71%), Gaps = 1/21 (4%)
Query: 53 LQRKEKEKKKKKKKKKKKKKK 73
+RK +E KK+KKKK KK K
Sbjct: 355 PKRK-REGDKKQKKKKSKKLK 374
>gnl|CDD|129022 smart00786, SHR3_chaperone, ER membrane protein SH3. This family
of proteins are membrane localised chaperones that are
required for correct plasma membrane localisation of
amino acid permeases (AAPs). Shr3 prevents AAPs proteins
from aggregating and assists in their correct folding.
In the absence of Shr3, AAPs are retained in the ER.
Length = 196
Score = 27.0 bits (60), Expect = 0.76
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 54 QRKEKEKKKKKKKKKKKKKKEKKNK 78
+RKE KK +K + KK K
Sbjct: 172 ERKEALAAAAKKSATPQKVETKKKK 196
>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 = 27.0 bits (60), Expect = 0.89
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 54 QRKEKEKKKKKKKKK 68
+ KKKKKKK+K
Sbjct: 736 GGRSASKKKKKKKRK 750
Score = 25.5 bits (56), Expect = 3.1
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 58 KEKKKKKKKKKKK 70
+ KKKKKKK+K
Sbjct: 738 RSASKKKKKKKRK 750
>gnl|CDD|132021 TIGR02976, phageshock_pspB, phage shock protein B. This model
describes the PspB protein of the psp (phage shock
protein) operon, as found in Escherichia coli and many
related species. Expression of a phage protein called
secretin protein IV, and a number of other stresses
including ethanol, heat shock, and defects in protein
secretion trigger sigma-54-dependent expression of the
phage shock regulon. PspB is both a regulator and an
effector protein of the phage shock response [Cellular
processes, Adaptations to atypical conditions].
Length = 75
Score = 26.2 bits (58), Expect = 0.92
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 14 HIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQR 55
H K +TA + + + QA LQE+ D + +I+ L+R
Sbjct: 25 HYRSKRKTAASLSTDD---QALLQELYAKADRLEERIDTLER 63
>gnl|CDD|149343 pfam08229, SHR3_chaperone, ER membrane protein SH3. This family of
proteins are membrane localised chaperones that are
required for correct plasma membrane localisation of
amino acid permeases (AAPs). SH3 prevents AAPs proteins
from aggregating and assists in their correct folding.
In the absence of SH3, AAPs are retained in the ER.
Length = 196
Score = 26.5 bits (59), Expect = 1.1
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 46 KDRKINVLQRKEKEKKKKKKKKKKKKK 72
+ KE+E + +KK+ KKKK
Sbjct: 170 AEEAEAAAAAKEEESAEGEKKESKKKK 196
>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase
component YidC; Validated.
Length = 429
Score = 26.7 bits (59), Expect = 1.1
Identities = 19/71 (26%), Positives = 33/71 (46%), Gaps = 6/71 (8%)
Query: 6 SRLEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEKKKKKK 65
L +N I+K T T EKN+ +A +E+ +R+IN R+E+ +
Sbjct: 323 PELHAENAEIKK------TRTAEKNEAKARKKEIAQKRRAAEREINREARQERAAAMARA 376
Query: 66 KKKKKKKKEKK 76
+ ++ K KK
Sbjct: 377 RARRAAVKAKK 387
>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
Validated.
Length = 559
Score = 26.8 bits (60), Expect = 1.1
Identities = 15/62 (24%), Positives = 31/62 (50%), Gaps = 2/62 (3%)
Query: 17 KKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEKKKKKKKKKKKKKKEKK 76
++ + E + +++++ +K K + ++K+KKK+KKK KKKK K
Sbjct: 359 EQAAASPEYDTELEVLLQRVEQLEQE--LKQLKAQPVGVAPEQKEKKKEKKKNKKKKYKV 416
Query: 77 NK 78
+
Sbjct: 417 PR 418
>gnl|CDD|197876 smart00792, Agouti, Agouti protein. The agouti protein regulates
pigmentation in the mouse hair follicle producing a
black hair with a subapical yellow band. A highly
homologous protein agouti signal protein (ASIP) is
present in humans and is expressed at highest levels in
adipose tissue where it may play a role in energy
homeostasis and possibly human pigmentation.
Length = 124
Score = 26.4 bits (58), Expect = 1.3
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 46 KDRKINVLQRKEKEKKKKKKKKKKKKKK 73
K +KI+ +E EKK +KK+KK
Sbjct: 53 KPKKIS---AEEAEKKLLQKKEKKALTN 77
>gnl|CDD|236846 PRK11100, PRK11100, sensory histidine kinase CreC; Provisional.
Length = 475
Score = 26.3 bits (59), Expect = 1.3
Identities = 10/24 (41%), Positives = 16/24 (66%), Gaps = 2/24 (8%)
Query: 1 VEELRSRLEEKNRHIEKKTQTALT 24
+E +R +LE K ++E+ QT LT
Sbjct: 243 LESMRVKLEGKA-YVEQYVQT-LT 264
>gnl|CDD|215595 PLN03130, PLN03130, ABC transporter C family member; Provisional.
Length = 1622
Score = 26.6 bits (59), Expect = 1.3
Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 27 QEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEKKKKKKKKKKKKKKEKK 76
+ + E + + + N L++ KKK K+ K K+E++
Sbjct: 846 YVEENGEEEDDQTSSK-PVANGNANNLKKDSSSKKKSKEGKSVLIKQEER 894
>gnl|CDD|232828 TIGR00110, ilvD, dihydroxy-acid dehydratase. This protein,
dihydroxy-acid dehydratase, catalyzes the fourth step in
valine and isoleucine biosynthesis. It contains a
catalytically essential [4Fe-4S] cluster This model
generates scores of up to 150 bits vs.
6-phosphogluconate dehydratase, a homologous enzyme
[Amino acid biosynthesis, Pyruvate family].
Length = 535
Score = 26.6 bits (59), Expect = 1.4
Identities = 9/34 (26%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 43 MDIKDRKINVLQRKEKEKKKKKKKKKKKKKKEKK 76
+DI +RK++ LQ ++E +++ K + + K
Sbjct: 483 IDIPNRKLD-LQVSDEELAERRASWKAPEPRYVK 515
>gnl|CDD|220623 pfam10186, Atg14, UV radiation resistance protein and
autophagy-related subunit 14. The Atg14 or Apg14
proteins are hydrophilic proteins with a predicted
molecular mass of 40.5 kDa, and have a coiled-coil motif
at the N terminus region. Yeast cells with mutant Atg14
are defective not only in autophagy but also in sorting
of carboxypeptidase Y (CPY), a vacuolar-soluble
hydrolase, to the vacuole. Subcellular fractionation
indicate that Apg14p and Apg6p are peripherally
associated with a membrane structure(s). Apg14p was
co-immunoprecipitated with Apg6p, suggesting that they
form a stable protein complex. These results imply that
Apg6/Vps30p has two distinct functions: in the
autophagic process and in the vacuolar protein sorting
pathway. Apg14p may be a component specifically required
for the function of Apg6/Vps30p through the autophagic
pathway. There are 17 auto-phagosomal component proteins
which are categorized into six functional units, one of
which is the AS-PI3K complex (Vps30/Atg6 and Atg14). The
AS-PI3K complex and the Atg2-Atg18 complex are essential
for nucleation, and the specific function of the AS-PI3K
apparently is to produce phosphatidylinositol
3-phosphate (PtdIns(3)P) at the pre-autophagosomal
structure (PAS). The localisation of this complex at the
PAS is controlled by Atg14. Autophagy mediates the
cellular response to nutrient deprivation, protein
aggregation, and pathogen invasion in humans, and
malfunction of autophagy has been implicated in multiple
human diseases including cancer. This effect seems to be
mediated through direct interaction of the human Atg14
with Beclin 1 in the human phosphatidylinositol 3-kinase
class III complex.
Length = 307
Score = 25.8 bits (57), Expect = 2.7
Identities = 12/72 (16%), Positives = 34/72 (47%)
Query: 7 RLEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEKKKKKKK 66
RL +N +++K + AL ++ A + K+R + R + K++ ++K
Sbjct: 31 RLLLENEELKQKVEEALEGATNEDGKLAADLLKLEVARKKERLNQIRARISQLKEEIEQK 90
Query: 67 KKKKKKKEKKNK 78
+++ ++ ++
Sbjct: 91 RERIEELKRALA 102
>gnl|CDD|149438 pfam08374, Protocadherin, Protocadherin. The structure of
protocadherins is similar to that of classic cadherins
(pfam00028), but particularly on the cytoplasmic domains
they also have some unique features. They are expressed
in a variety of organisms and are found in high
concentrations in the brain where they seem to be
localised mainly at cell-cell contact sites. Their
expression seems to be developmentally regulated.
Length = 223
Score = 25.6 bits (56), Expect = 2.9
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 58 KEKKKKKKKKKKKKKKEKKN 77
++ K+KKKKK KKKK K+
Sbjct: 86 NQENKQKKKKKDKKKKSPKS 105
>gnl|CDD|216872 pfam02096, 60KD_IMP, 60Kd inner membrane protein.
Length = 193
Score = 25.6 bits (57), Expect = 2.9
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 5/36 (13%)
Query: 48 RKINVLQRKEKEKKKKKKKKKKKKKKE-----KKNK 78
K+ LQ + KE ++K K +K ++E K++
Sbjct: 30 AKMQELQPEIKEIQEKYKDDPQKLQQEMMKLYKEHG 65
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 25.4 bits (56), Expect = 3.2
Identities = 12/35 (34%), Positives = 24/35 (68%)
Query: 44 DIKDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
+ D++ +++EKE K++K+ +K KK+E+K K
Sbjct: 546 KLDDKEELQREKEEKEALKEQKRLRKLKKQEEKKK 580
>gnl|CDD|234767 PRK00448, polC, DNA polymerase III PolC; Validated.
Length = 1437
Score = 25.6 bits (57), Expect = 3.3
Identities = 15/69 (21%), Positives = 30/69 (43%), Gaps = 1/69 (1%)
Query: 11 KNRHIEKKTQTALTATQEKNKMQAEL-QEMKDHMDIKDRKINVLQRKEKEKKKKKKKKKK 69
K +H+ K + K+ E+ ++ + +K ++ KE + KK +
Sbjct: 140 KKKHLPKLIKQYEKFGFGILKIDFEIDDSKEELEKFEAQKEEEDEKLAKEALEAMKKLEA 199
Query: 70 KKKKEKKNK 78
+KKK+ KN
Sbjct: 200 EKKKQSKNF 208
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 25.4 bits (56), Expect = 3.3
Identities = 12/75 (16%), Positives = 35/75 (46%)
Query: 1 VEELRSRLEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEK 60
+E L + +EE IE+ E+ ++ L ++ ++ ++ L+ K E
Sbjct: 854 IESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELESKRSEL 913
Query: 61 KKKKKKKKKKKKKEK 75
+++ ++ ++K + +
Sbjct: 914 RRELEELREKLAQLE 928
Score = 25.4 bits (56), Expect = 3.3
Identities = 13/78 (16%), Positives = 39/78 (50%)
Query: 1 VEELRSRLEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEK 60
+EELR + E IE+ + E ++++ + Q +++ + +R++ L+ + +E
Sbjct: 269 LEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLERQLEELEAQLEEL 328
Query: 61 KKKKKKKKKKKKKEKKNK 78
+ K + ++ + ++
Sbjct: 329 ESKLDELAEELAELEEKL 346
Score = 25.0 bits (55), Expect = 4.8
Identities = 15/78 (19%), Positives = 40/78 (51%)
Query: 1 VEELRSRLEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEK 60
+EELR LEE +++ + T E +++ +L+E++ + + +I LQ++
Sbjct: 234 LEELREELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELYAL 293
Query: 61 KKKKKKKKKKKKKEKKNK 78
+ + +++K+ ++
Sbjct: 294 ANEISRLEQQKQILRERL 311
>gnl|CDD|180007 PRK05309, PRK05309, 30S ribosomal protein S11; Validated.
Length = 128
Score = 25.1 bits (56), Expect = 3.3
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 64 KKKKKKKKKKEKKN 77
KKKK KKK KKN
Sbjct: 1 AKKKKTVKKKVKKN 14
>gnl|CDD|235334 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 24.9 bits (55), Expect = 4.9
Identities = 5/25 (20%), Positives = 15/25 (60%)
Query: 53 LQRKEKEKKKKKKKKKKKKKKEKKN 77
L+R++ ++ + KK + + + K+
Sbjct: 462 LEREKAAREARHKKAAEARAAKDKD 486
>gnl|CDD|220654 pfam10254, Pacs-1, PACS-1 cytosolic sorting protein. PACS-1 is a
cytosolic sorting protein that directs the localisation
of membrane proteins in the trans-Golgi network
(TGN)/endosomal system. PACS-1 connects the clathrin
adaptor AP-1 to acidic cluster sorting motifs contained
in the cytoplasmic domain of cargo proteins such as
furin, the cation-independent mannose-6-phosphate
receptor and in viral proteins such as human
immunodeficiency virus type 1 Nef.
Length = 413
Score = 24.8 bits (54), Expect = 5.1
Identities = 11/24 (45%), Positives = 14/24 (58%), Gaps = 3/24 (12%)
Query: 58 KEKKKKKKK---KKKKKKKEKKNK 78
KEK KK KK K+KE ++K
Sbjct: 332 KEKNKKVPVMFLGKKPKEKEVESK 355
>gnl|CDD|218660 pfam05620, DUF788, Protein of unknown function (DUF788). This
family consists of several eukaryotic proteins of
unknown function.
Length = 166
Score = 24.6 bits (54), Expect = 5.5
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 54 QRKEKEKKKKKKKKKKKKKKEK 75
Q E + K K+++K +K+ EK
Sbjct: 145 QGAETNETKSKRQEKLEKRGEK 166
>gnl|CDD|216652 pfam01698, FLO_LFY, Floricaula / Leafy protein. This family
consists of various plant development proteins which are
homologues of floricaula (FLO) and Leafy (LFY) proteins
which are floral meristem identity proteins. Mutations
in the sequences of these proteins affect flower and
leaf development.
Length = 382
Score = 24.6 bits (54), Expect = 5.5
Identities = 9/21 (42%), Positives = 17/21 (80%)
Query: 56 KEKEKKKKKKKKKKKKKKEKK 76
+ EKKK++KK+++K+ KE +
Sbjct: 179 SDSEKKKQRKKQRRKRSKELR 199
>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 = 24.9 bits (55), Expect = 5.7
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 54 QRKEKEKKKKKKKKKKKKKKEKKNK 78
++ EKE+ +K KKK + KK K
Sbjct: 423 KKAEKEEAEKAAAKKKAEAAAKKAK 447
Score = 24.5 bits (54), Expect = 7.7
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 57 EKEKKKKKKKKKKKKKKEKK 76
E+KK +KK++K +KK +K
Sbjct: 408 PAERKKLRKKQRKAEKKAEK 427
Score = 24.1 bits (53), Expect = 9.0
Identities = 9/25 (36%), Positives = 18/25 (72%)
Query: 54 QRKEKEKKKKKKKKKKKKKKEKKNK 78
+RK+ KK++K +KK +K++ +K
Sbjct: 410 ERKKLRKKQRKAEKKAEKEEAEKAA 434
>gnl|CDD|234988 PRK01889, PRK01889, GTPase RsgA; Reviewed.
Length = 356
Score = 24.5 bits (54), Expect = 5.7
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 7/46 (15%)
Query: 31 KMQAELQEMKDHMDIKDRKINVLQRKEKEKKKKKKKKKKKKKKEKK 76
K+Q E K+ + + KK KK K+ KK K KK
Sbjct: 317 KLQREQAYNA-------AKLAARLARAERKKWKKISKQVKKMKRKK 355
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 24.9 bits (55), Expect = 5.9
Identities = 13/33 (39%), Positives = 22/33 (66%)
Query: 46 KDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
K K ++KEK+KK KKK+++++E+K K
Sbjct: 418 KAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEK 450
Score = 24.1 bits (53), Expect = 8.8
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 45 IKDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
+KI + K ++K++++KK+KKKK K K
Sbjct: 407 KATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKK 440
>gnl|CDD|218675 pfam05648, PEX11, Peroxisomal biogenesis factor 11 (PEX11). This
family consists of several peroxisomal biogenesis factor
11 (PEX11) proteins from several eukaryotic species. The
PEX11 peroxisomal membrane proteins promote peroxisome
division in multiple eukaryotes.
Length = 225
Score = 24.5 bits (54), Expect = 5.9
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 48 RKINVLQRKEKEKKKKKKKKKKKKKKEKK 76
R++ LQ KEK+ KK+K + + + K
Sbjct: 142 RELRQLQEKEKKLKKEKDSEGESTSERKL 170
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 24.7 bits (55), Expect = 6.2
Identities = 16/69 (23%), Positives = 41/69 (59%)
Query: 8 LEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEKKKKKKKK 67
LE K + + + + +N++Q + + + DRK+ +L+++E+E +KK+K+
Sbjct: 60 LEAKEEIHKLRNEFEKELRERRNELQKLEKRLLQKEENLDRKLELLEKREEELEKKEKEL 119
Query: 68 KKKKKKEKK 76
++K+++ +K
Sbjct: 120 EQKQQELEK 128
>gnl|CDD|223778 COG0706, YidC, Preprotein translocase subunit YidC [Intracellular
trafficking and secretion].
Length = 314
Score = 24.7 bits (54), Expect = 6.6
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 49 KINVLQRKEKEKKKKKKKKKKKK 71
+N K++ ++KKKK KK
Sbjct: 292 ILNKPLEKKRTTAREKKKKSKKA 314
>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2
complex component). RNases H are enzymes that
specifically hydrolyse RNA when annealed to a
complementary DNA and are present in all living
organisms. In yeast RNase H2 is composed of a complex of
three proteins (Rnh2Ap, Ydr279p and Ylr154p), this
family represents the homologues of Ydr279p. It is not
known whether non yeast proteins in this family fulfil
the same function.
Length = 287
Score = 24.6 bits (54), Expect = 6.7
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 56 KEKEKKKKKKKKKKKKKKEKKNK 78
KE+ KKKK K+ K K +K
Sbjct: 255 KEEIKKKKPKESKGVKALKKVVA 277
>gnl|CDD|233160 TIGR00869, sec62, protein translocation protein, Sec62 family.
Members of the NSCC2 family have been sequenced from
various yeast, fungal and animals species including
Saccharomyces cerevisiae, Drosophila melanogaster and
Homo sapiens. These proteins are the Sec62 proteins,
believed to be associated with the Sec61 and Sec63
constituents of the general protein secretary systems of
yeast microsomes. They are also the non-selective cation
(NS) channels of the mammalian cytoplasmic membrane. The
yeast Sec62 protein has been shown to be essential for
cell growth. The mammalian NS channel proteins has been
implicated in platelet derived growth factor(PGDF)
dependent single channel current in fibroblasts. These
channels are essentially closed in serum deprived
tissue-culture cells and are specifically opened by
exposure to PDGF. These channels are reported to exhibit
equal selectivity for Na+, K+ and Cs+ with low
permeability to Ca2+, and no permeability to anions
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 232
Score = 24.5 bits (53), Expect = 6.7
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 56 KEKEKKKKKKKKKKKKKKEKK 76
K+K KKK K KK KKK+ K
Sbjct: 208 KDKYSYKKKLKSKKLKKKQAK 228
>gnl|CDD|235501 PRK05559, PRK05559, DNA topoisomerase IV subunit B; Reviewed.
Length = 631
Score = 24.7 bits (55), Expect = 6.8
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 52 VLQRKEKEKKKKKKKKKKKKKK 73
+ + + + KK K+KKK
Sbjct: 377 IKAAQARLRAAKKVKRKKKTSG 398
Score = 24.3 bits (54), Expect = 7.0
Identities = 6/35 (17%), Positives = 16/35 (45%)
Query: 41 DHMDIKDRKINVLQRKEKEKKKKKKKKKKKKKKEK 75
+ ++ ++ + + + + KK K+KKK
Sbjct: 364 QNPELAEKLAEKAIKAAQARLRAAKKVKRKKKTSG 398
>gnl|CDD|233224 TIGR00993, 3a0901s04IAP86, chloroplast protein import component
Toc86/159, G and M domains. The long precursor of the
86K protein originally described is proposed to have
three domains. The N-terminal A-domain is acidic,
repetitive, weakly conserved, readily removed by
proteolysis during chloroplast isolation, and not
required for protein translocation. The other domains
are designated G (GTPase) and M (membrane anchor); this
family includes most of the G domain and all of M
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 763
Score = 24.5 bits (53), Expect = 6.9
Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 11/62 (17%)
Query: 17 KKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKE-KEKKKKKKKKKKKKKKEK 75
K Q A K + +A L+E D ++ +LQ+K+ +E+ K+ K KK K+
Sbjct: 417 TKAQMA---KLSKEQRKAYLEEY-------DYRVKLLQKKQWREELKRMKMMKKFGKEIG 466
Query: 76 KN 77
+
Sbjct: 467 EL 468
>gnl|CDD|205286 pfam13105, DUF3959, Protein of unknown function (DUF3959). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are approximately 260 amino acids in length.
Length = 242
Score = 24.5 bits (53), Expect = 7.6
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 51 NVLQRKEKEKKKKKKKKKKKKKKEKK 76
N++ RKEK+ K+ K+KKK KK
Sbjct: 148 NLIHRKEKDDNKENINLFKQKKKRKK 173
>gnl|CDD|130141 TIGR01069, mutS2, MutS2 family protein. Function of MutS2 is
unknown. It should not be considered a DNA mismatch
repair protein. It is likely a DNA mismatch binding
protein of unknown cellular function [DNA metabolism,
Other].
Length = 771
Score = 24.4 bits (53), Expect = 7.8
Identities = 20/80 (25%), Positives = 38/80 (47%), Gaps = 5/80 (6%)
Query: 2 EELRSRLEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIK-----DRKINVLQRK 56
L LE+KN H+EK + +E + EL+E + + ++ + L+++
Sbjct: 521 SALEKELEQKNEHLEKLLKEQEKLKKELEQEMEELKERERNKKLELEKEAQEALKALKKE 580
Query: 57 EKEKKKKKKKKKKKKKKEKK 76
+ ++ K+KK K KE K
Sbjct: 581 VESIIRELKEKKIHKAKEIK 600
>gnl|CDD|217286 pfam02919, Topoisom_I_N, Eukaryotic DNA topoisomerase I, DNA
binding fragment. Topoisomerase I promotes the
relaxation of DNA superhelical tension by introducing a
transient single-stranded break in duplex DNA and are
vital for the processes of replication, transcription,
and recombination. This family may be more than one
structural domain.
Length = 215
Score = 24.1 bits (53), Expect = 8.1
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 48 RKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
I EKEKKK K++KK KE+K+K
Sbjct: 89 TPIYEYFEAEKEKKKAMSKEEKKAIKEEKDK 119
>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional.
Length = 742
Score = 24.4 bits (53), Expect = 8.4
Identities = 24/91 (26%), Positives = 38/91 (41%), Gaps = 18/91 (19%)
Query: 4 LRSRLEEKNRHIEKKTQ---TALTATQEKNKMQAELQEMKDHMDIKDRKINVLQ------ 54
L +L++KN+ K + T ++K K++ +L D+ + D K N Q
Sbjct: 52 LHEKLDKKNKKFNKTDDLKDSKKTKLKQKKKIKKKLHIDDDYDNFFDSKNNSKQFAGPLA 111
Query: 55 ---------RKEKEKKKKKKKKKKKKKKEKK 76
+ EK KKK K KKK+K
Sbjct: 112 ISLMRKPKPKTEKLKKKITVNKSTNKKKKKV 142
>gnl|CDD|218941 pfam06217, GAGA_bind, GAGA binding protein-like family. This
family includes gbp a protein from Soybean that binds to
GAGA element dinucleotide repeat DNA. It seems likely
that the this domain mediates DNA binding. This putative
domain contains several conserved cysteines and a
histidine suggesting this may be a zinc-binding DNA
interaction domain.
Length = 301
Score = 24.1 bits (52), Expect = 9.4
Identities = 9/33 (27%), Positives = 10/33 (30%)
Query: 46 KDRKINVLQRKEKEKKKKKKKKKKKKKKEKKNK 78
K K + K K KK KKK
Sbjct: 148 KKPKKGQSPKVPKAPKPKKPKKKGSVSNRSVKM 180
>gnl|CDD|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R;
Provisional.
Length = 1123
Score = 24.1 bits (53), Expect = 9.6
Identities = 16/78 (20%), Positives = 36/78 (46%)
Query: 1 VEELRSRLEEKNRHIEKKTQTALTATQEKNKMQAELQEMKDHMDIKDRKINVLQRKEKEK 60
V L+ +LE + R + A QE ++ E+++ + ++ LQ K E
Sbjct: 151 VLTLKQQLELQAREKAQSQALAEAQQQELVALEGLAAELEEKQQELEAQLEQLQEKAAET 210
Query: 61 KKKKKKKKKKKKKEKKNK 78
+++K+K+K+ + +
Sbjct: 211 SQERKQKRKEITDQAAKR 228
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
0.300 0.117 0.282
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,741,295
Number of extensions: 320481
Number of successful extensions: 7626
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4755
Number of HSP's successfully gapped: 1417
Length of query: 78
Length of database: 10,937,602
Length adjustment: 47
Effective length of query: 31
Effective length of database: 8,852,964
Effective search space: 274441884
Effective search space used: 274441884
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 17 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.7 bits)
S2: 53 (24.3 bits)