Query psy18061
Match_columns 60
No_of_seqs 103 out of 184
Neff 5.2
Searched_HMMs 46136
Date Fri Aug 16 21:35:25 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy18061.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/18061hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02197 RIIa: Regulatory subu 99.5 1.8E-14 3.8E-19 75.5 3.9 37 21-57 1-37 (38)
2 smart00394 RIIa RIIalpha, Regu 99.4 4E-13 8.7E-18 69.7 4.7 37 21-57 1-37 (38)
3 PF05186 Dpy-30: Dpy-30 motif; 98.7 9E-08 2E-12 51.0 5.1 38 14-52 2-39 (42)
4 PTZ00378 hypothetical protein; 97.3 0.00058 1.3E-08 52.1 5.1 40 14-53 6-45 (518)
5 KOG4109|consensus 96.8 0.0024 5.2E-08 40.7 4.0 38 14-52 66-103 (116)
6 KOG1113|consensus 96.7 0.0022 4.7E-08 47.4 3.9 53 2-54 2-54 (368)
7 PF04712 Radial_spoke: Radial 94.9 0.12 2.5E-06 39.1 6.4 49 9-57 3-57 (491)
8 KOG1113|consensus 94.8 0.036 7.8E-07 41.1 3.5 36 19-54 3-38 (368)
9 PF13877 RPAP3_C: Potential Mo 81.0 2.8 6.1E-05 24.3 3.3 36 24-60 46-82 (94)
10 PLN00191 enolase 62.7 4.9 0.00011 30.3 1.6 20 34-53 4-23 (457)
11 cd08816 CARD_RIG-I_1 Caspase a 55.2 15 0.00033 22.5 2.6 17 37-53 19-35 (89)
12 cd04129 Rho2 Rho2 subfamily. 47.1 18 0.00039 22.6 2.1 23 21-43 159-181 (187)
13 PRK01905 DNA-binding protein F 44.4 59 0.0013 18.4 4.2 28 21-48 8-35 (77)
14 PF06570 DUF1129: Protein of u 42.3 99 0.0021 20.4 6.1 50 6-55 5-68 (206)
15 PF14969 DUF4508: Domain of un 41.9 84 0.0018 19.4 4.8 47 5-51 18-64 (98)
16 PF07340 Herpes_IE1: Cytomegal 41.1 24 0.00053 26.6 2.3 20 36-55 23-42 (392)
17 PHA01623 hypothetical protein 37.9 43 0.00092 18.3 2.4 28 8-35 22-51 (56)
18 PF08974 DUF1877: Domain of un 36.8 1.1E+02 0.0025 19.5 5.5 46 10-55 94-151 (167)
19 PRK07668 hypothetical protein; 36.3 1.5E+02 0.0034 20.9 5.9 51 5-55 4-69 (254)
20 PF14513 DAG_kinase_N: Diacylg 35.4 13 0.00029 24.0 0.1 34 12-45 14-51 (138)
21 PF05148 Methyltransf_8: Hypot 34.6 1.2E+02 0.0026 21.2 4.8 40 14-53 31-70 (219)
22 PF10585 UBA_e1_thiolCys: Ubiq 34.3 61 0.0013 16.9 2.6 20 34-53 21-43 (45)
23 COG5558 Transposase [DNA repli 34.0 26 0.00057 24.8 1.4 18 40-57 203-220 (261)
24 PF13817 DDE_Tnp_IS66_C: IS66 33.8 47 0.001 17.0 2.1 22 34-55 5-26 (39)
25 PF08837 DUF1810: Protein of u 33.5 98 0.0021 20.2 4.0 34 10-43 57-90 (139)
26 KOG0762|consensus 30.6 67 0.0014 23.5 3.0 30 14-43 150-179 (311)
27 PF07466 DUF1517: Protein of u 29.7 98 0.0021 22.1 3.8 32 8-39 118-155 (289)
28 TIGR01568 A_thal_3678 uncharac 28.8 1.2E+02 0.0026 17.4 5.3 52 2-53 6-60 (66)
29 PF10281 Ish1: Putative stress 28.8 28 0.00061 17.2 0.7 13 12-24 7-19 (38)
30 PLN03079 Uncharacterized prote 28.6 81 0.0018 19.3 2.8 33 8-40 52-84 (91)
31 PF02520 DUF148: Domain of unk 27.5 1.3E+02 0.0028 17.8 3.6 32 4-35 15-46 (113)
32 cd02433 Nodulin-21_like_2 Nodu 27.3 1.5E+02 0.0032 20.4 4.2 37 12-48 101-137 (234)
33 PHA01748 hypothetical protein 26.3 1.2E+02 0.0026 16.6 3.2 28 10-37 13-42 (60)
34 COG2250 Uncharacterized conser 24.2 81 0.0018 19.7 2.3 29 17-47 55-83 (132)
35 PF02661 Fic: Fic/DOC family; 23.3 1.4E+02 0.003 16.2 4.9 42 18-59 40-81 (97)
36 PF06523 DUF1106: Protein of u 23.2 5.2 0.00011 24.2 -3.1 24 19-49 66-89 (91)
37 PF09457 RBD-FIP: FIP domain ; 22.7 1.4E+02 0.003 16.1 2.7 17 24-40 27-43 (48)
38 PRK00117 recX recombination re 22.6 2E+02 0.0044 17.8 5.0 46 8-53 25-71 (157)
39 PRK05260 condesin subunit F; P 22.5 1.5E+02 0.0032 22.9 3.7 45 15-59 346-395 (440)
40 PF10193 Telomere_reg-2: Telom 22.3 1.1E+02 0.0024 18.6 2.6 31 20-50 63-93 (114)
41 TIGR00668 apaH bis(5'-nucleosy 21.6 3.1E+02 0.0067 19.6 5.1 44 7-54 132-184 (279)
42 PRK14135 recX recombination re 21.6 2.6E+02 0.0057 18.8 5.1 45 10-54 73-118 (263)
43 TIGR02757 conserved hypothetic 21.6 56 0.0012 22.8 1.3 19 27-45 200-218 (229)
44 COG3655 Predicted transcriptio 21.5 20 0.00043 21.1 -0.8 18 29-46 49-66 (73)
45 PF12451 VPS11_C: Vacuolar pro 21.5 1.4E+02 0.0031 15.7 3.8 16 37-52 29-44 (49)
46 PF10607 CLTH: CTLH/CRA C-term 21.5 2E+02 0.0043 17.2 5.0 39 10-48 55-103 (145)
47 KOG0548|consensus 20.8 2.3E+02 0.005 22.5 4.5 39 7-46 358-396 (539)
48 cd05538 POLBc_Pol_II_B DNA pol 20.6 1.7E+02 0.0038 21.1 3.7 35 23-57 214-248 (347)
49 PF13428 TPR_14: Tetratricopep 20.3 1.3E+02 0.0027 14.6 2.9 19 28-46 21-39 (44)
50 PF14838 INTS5_C: Integrator c 20.1 2.9E+02 0.0062 22.5 5.0 37 10-46 624-660 (696)
No 1
>PF02197 RIIa: Regulatory subunit of type II PKA R-subunit; InterPro: IPR003117 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. In the absence of cAMP, Protein Kinase A (PKA) exists as an equimolar tetramer of regulatory (R) and catalytic (C) subunits []. In addition to its role as an inhibitor of the C subunit, the R subunit anchors the holoenzyme to specific intracellular locations and prevents the C subunit from entering the nucleus. All R subunits have a conserved domain structure consisting of the N-terminal dimerization domain, inhibitory region, cAMP-binding domain A and cAMP-binding domain B. R subunits interact with C subunits primarily through the inhibitory site. The cAMP-binding domains show extensive sequence similarity and bind cAMP cooperatively. Two types of regulatory (R) subunits exist - types I and I - which differ in molecular weight, sequence, autophosphorylation cabaility, cellular location and tissue distribution. Types I and II were further sub-divided into alpha and beta subtypes, based mainly on sequence similarity. This entry represents types I-alpha, I-beta, II-alpha and II-beta regulatory subunits of PKA proteins. These subunits contain the dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).; GO: 0008603 cAMP-dependent protein kinase regulator activity, 0007165 signal transduction; PDB: 2IZY_E 1R2A_A 1L6E_A 2IZX_B 2KYG_A 2EZW_B 3IM4_B 3IM3_A 4F9K_C 2HWN_B ....
Probab=99.51 E-value=1.8e-14 Score=75.51 Aligned_cols=37 Identities=32% Similarity=0.654 Sum_probs=32.1
Q ss_pred hhHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHhccC
Q psy18061 21 HNVQQMLKDCIVQLCVTKPDNPISFLREYFQKLERFP 57 (60)
Q Consensus 21 h~i~~LL~~~~~~ll~~rPedpi~Fl~~yf~~l~~~~ 57 (60)
||+++||+++++.+|++||+||++|+++||++|.+.|
T Consensus 1 ~~l~~lL~~~~~~vl~~qP~Di~~F~a~yF~~L~~~R 37 (38)
T PF02197_consen 1 HGLQELLKEFTREVLREQPDDILQFAADYFEKLEKQR 37 (38)
T ss_dssp TTHHHHHHHHHHHHHHH--S-HHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhh
Confidence 7999999999999999999999999999999998755
No 2
>smart00394 RIIa RIIalpha, Regulatory subunit portion of type II PKA R-subunit. RIIalpha, Regulatory subunit portion of type II PKA R-subunit. Contains dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).
Probab=99.42 E-value=4e-13 Score=69.72 Aligned_cols=37 Identities=32% Similarity=0.633 Sum_probs=34.9
Q ss_pred hhHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHhccC
Q psy18061 21 HNVQQMLKDCIVQLCVTKPDNPISFLREYFQKLERFP 57 (60)
Q Consensus 21 h~i~~LL~~~~~~ll~~rPedpi~Fl~~yf~~l~~~~ 57 (60)
||++.+|+++++.+++.||+||++|+++||++|++.|
T Consensus 1 ~~~~~~L~~~~~~vl~~qP~d~~~f~~~yF~kL~~~r 37 (38)
T smart00394 1 HGLQALLEDLTVEVLRAQPSDLVQFAADYFEKLEEQR 37 (38)
T ss_pred CcHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcc
Confidence 5899999999999999999999999999999998765
No 3
>PF05186 Dpy-30: Dpy-30 motif; InterPro: IPR007858 This motif is about 40 residues long and is probably formed of two alpha-helices. It is found in the Dpy-30 proteins, hence the motifs name. Dpy-30 from Caenorhabditis elegans is an essential component of dosage compensation machinery and loss of dpy-30 activity results in XX-specific lethality; in XO animals, Dpy-30 is required for developmental processes other than dosage compensation []. In yeast, the homologue of DPY-30, Saf19p, functions as part of the Set1 complex that is necessary for the methylation of histone H3 at lysine residue 4; Set1 is a key part of epigenetic developmental control []. There is also a human homologue of Dpy-30 []. This Dpy-30 region may be a dimerisation motif analogous that found in the cAMP-dependent protein kinase regulator, type II PKA, R subunit IPR003117 from INTERPRO.; PDB: 3G36_D.
Probab=98.66 E-value=9e-08 Score=51.03 Aligned_cols=38 Identities=32% Similarity=0.732 Sum_probs=30.0
Q ss_pred HHHHhhhhhHHHHHHHHHHHHHhhCCCCHHHHHHHHHHH
Q psy18061 14 CEEYVQQHNVQQMLKDCIVQLCVTKPDNPISFLREYFQK 52 (60)
Q Consensus 14 ~~~Y~~~h~i~~LL~~~~~~ll~~rPedpi~Fl~~yf~~ 52 (60)
.++|+.++ |...|-+.+.+++..||+||+.|+++|+-+
T Consensus 2 ~r~YL~~~-v~p~L~~gL~~l~~~rP~DPi~~La~~Ll~ 39 (42)
T PF05186_consen 2 ARQYLKET-VGPVLTEGLAELAKERPEDPIEFLAEYLLK 39 (42)
T ss_dssp HHHHHHHH-THHHHHHHHHHHHHH--SSHHHHHHHHHHH
T ss_pred HHHHHHHH-hHHHHHHHHHHHHHHCCCChHHHHHHHHHH
Confidence 46899875 666777777799999999999999999865
No 4
>PTZ00378 hypothetical protein; Provisional
Probab=97.26 E-value=0.00058 Score=52.13 Aligned_cols=40 Identities=18% Similarity=0.426 Sum_probs=37.7
Q ss_pred HHHHhhhhhHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHH
Q psy18061 14 CEEYVQQHNVQQMLKDCIVQLCVTKPDNPISFLREYFQKL 53 (60)
Q Consensus 14 ~~~Y~~~h~i~~LL~~~~~~ll~~rPedpi~Fl~~yf~~l 53 (60)
-..|..+|++.++|.+++.+|+..+|+||+.|+..||..-
T Consensus 6 ~~~y~~~~~~~~~l~ea~~~~v~~~~~d~~~~l~~~f~~~ 45 (518)
T PTZ00378 6 WKRYDDEFKLSGILTEAARSCVDAHPARPKEYLAAYFREK 45 (518)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhh
Confidence 4689999999999999999999999999999999999864
No 5
>KOG4109|consensus
Probab=96.79 E-value=0.0024 Score=40.71 Aligned_cols=38 Identities=34% Similarity=0.619 Sum_probs=31.1
Q ss_pred HHHHhhhhhHHHHHHHHHHHHHhhCCCCHHHHHHHHHHH
Q psy18061 14 CEEYVQQHNVQQMLKDCIVQLCVTKPDNPISFLREYFQK 52 (60)
Q Consensus 14 ~~~Y~~~h~i~~LL~~~~~~ll~~rPedpi~Fl~~yf~~ 52 (60)
.++|+.+--..-||+++ ..+-.+||+|||.|++.|+-+
T Consensus 66 tRqYLdqtVaPiLL~Gm-~~lA~~rP~nPi~~LatyLlk 103 (116)
T KOG4109|consen 66 TRQYLDQTVAPILLQGM-AALAKERPSNPISFLATYLLK 103 (116)
T ss_pred hhhhcccchhHHHHHHH-HHHHhhCCCCHHHHHHHHHhc
Confidence 56788877777778776 467799999999999999843
No 6
>KOG1113|consensus
Probab=96.73 E-value=0.0022 Score=47.38 Aligned_cols=53 Identities=25% Similarity=0.336 Sum_probs=46.7
Q ss_pred CCchHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHh
Q psy18061 2 ASNLEEEQSLRECEEYVQQHNVQQMLKDCIVQLCVTKPDNPISFLREYFQKLE 54 (60)
Q Consensus 2 ~~~~~~~~~~~e~~~Y~~~h~i~~LL~~~~~~ll~~rPedpi~Fl~~yf~~l~ 54 (60)
......++..+++..|+..|+.+++++..+..+.+.||++|+.|+-++|.+..
T Consensus 2 ~~~~~~~e~l~~~~~ev~~~npsd~lq~~i~~f~~l~~~~~~~~~~E~f~r~~ 54 (368)
T KOG1113|consen 2 MDPIGLEEHLQEKQIEVMRHNPSDLLQFAIQAFSRLQAERPVLFLFEGFSRGD 54 (368)
T ss_pred CcchhhHHhhhHHHHHHHhhCcHHHHHHHHHHHHhhccccccchhhhhccchh
Confidence 44567788889999999999999999999999999999999999999988764
No 7
>PF04712 Radial_spoke: Radial spokehead-like protein
Probab=94.88 E-value=0.12 Score=39.14 Aligned_cols=49 Identities=16% Similarity=0.436 Sum_probs=40.3
Q ss_pred HHHHHHHHHhhhh------hHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHhccC
Q psy18061 9 QSLRECEEYVQQH------NVQQMLKDCIVQLCVTKPDNPISFLREYFQKLERFP 57 (60)
Q Consensus 9 ~~~~e~~~Y~~~h------~i~~LL~~~~~~ll~~rPedpi~Fl~~yf~~l~~~~ 57 (60)
...+.+..|+.++ +|-+-|-+++.++|.+||+|++.++-++-..+++++
T Consensus 3 ~~l~~AKayL~k~s~~~G~sLYdHL~~vL~kIL~ErP~na~d~fE~iS~~vK~~~ 57 (491)
T PF04712_consen 3 EDLQNAKAYLQKKSNKSGDSLYDHLSDVLTKILDERPENAVDIFEEISRQVKESK 57 (491)
T ss_pred HHHHHHHHHHHhccCCCCCcHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhc
Confidence 4567789999655 789999999999999999999999777766666553
No 8
>KOG1113|consensus
Probab=94.82 E-value=0.036 Score=41.07 Aligned_cols=36 Identities=14% Similarity=0.372 Sum_probs=33.6
Q ss_pred hhhhHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHh
Q psy18061 19 QQHNVQQMLKDCIVQLCVTKPDNPISFLREYFQKLE 54 (60)
Q Consensus 19 ~~h~i~~LL~~~~~~ll~~rPedpi~Fl~~yf~~l~ 54 (60)
.+.++.+.|+++...+.+++|.|.++|+++||.+|+
T Consensus 3 ~~~~~~e~l~~~~~ev~~~npsd~lq~~i~~f~~l~ 38 (368)
T KOG1113|consen 3 DPIGLEEHLQEKQIEVMRHNPSDLLQFAIQAFSRLQ 38 (368)
T ss_pred cchhhHHhhhHHHHHHHhhCcHHHHHHHHHHHHhhc
Confidence 467899999999999999999999999999998876
No 9
>PF13877 RPAP3_C: Potential Monad-binding region of RPAP3
Probab=81.05 E-value=2.8 Score=24.32 Aligned_cols=36 Identities=22% Similarity=0.482 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHhccCCCC
Q psy18061 24 QQMLKDCIVQLCVT-KPDNPISFLREYFQKLERFPIFS 60 (60)
Q Consensus 24 ~~LL~~~~~~ll~~-rPedpi~Fl~~yf~~l~~~~~~~ 60 (60)
.++|.+++..+..+ .|.|+ ..+.++++.|.+.+||+
T Consensus 46 ~~~L~~il~~l~~~~~~~~~-~~i~~~L~~L~~~~RF~ 82 (94)
T PF13877_consen 46 PEFLSEILEALNEHFIPEDP-EFIFEILEALSKVKRFD 82 (94)
T ss_pred HHHHHHHHHHHHHHHccCCH-HHHHHHHHHhcCCCCHH
Confidence 34555566555553 44555 59999999999999985
No 10
>PLN00191 enolase
Probab=62.75 E-value=4.9 Score=30.31 Aligned_cols=20 Identities=20% Similarity=0.404 Sum_probs=17.3
Q ss_pred HHhhCCCCHHHHHHHHHHHH
Q psy18061 34 LCVTKPDNPISFLREYFQKL 53 (60)
Q Consensus 34 ll~~rPedpi~Fl~~yf~~l 53 (60)
+.+.+|.||+.|++.||.+-
T Consensus 4 ~~~~~~~d~~~~la~~~~~~ 23 (457)
T PLN00191 4 AVRAKTPDPVLFIANHLKKA 23 (457)
T ss_pred cccCCCcChHHHHHHHHhhc
Confidence 45789999999999999764
No 11
>cd08816 CARD_RIG-I_1 Caspase activation and recruitment domain found in RIG-I, first repeat. Caspase activation and recruitment domain (CARD) found in RIG-I (Retinoic acid Inducible Gene I, also known as Ddx58), first repeat. RIG-I is a cytoplasmic RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. RIG-I contains two N-terminal CARD domains and a C-terminal RNA helicase. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, RIG-I recognizes different sets of viruses compared to MDA5, a related RNA helicase. RIG-I associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction doma
Probab=55.18 E-value=15 Score=22.45 Aligned_cols=17 Identities=12% Similarity=0.466 Sum_probs=12.7
Q ss_pred hCCCCHHHHHHHHHHHH
Q psy18061 37 TKPDNPISFLREYFQKL 53 (60)
Q Consensus 37 ~rPedpi~Fl~~yf~~l 53 (60)
-+|..++.|+..||.+-
T Consensus 19 l~P~yIl~~m~~~~~~e 35 (89)
T cd08816 19 LRPSYILGFMTTWLEDE 35 (89)
T ss_pred hchHHHHHHHHHhcCHH
Confidence 46888888888888654
No 12
>cd04129 Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. 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 proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).
Probab=47.07 E-value=18 Score=22.64 Aligned_cols=23 Identities=9% Similarity=0.203 Sum_probs=21.0
Q ss_pred hhHHHHHHHHHHHHHhhCCCCHH
Q psy18061 21 HNVQQMLKDCIVQLCVTKPDNPI 43 (60)
Q Consensus 21 h~i~~LL~~~~~~ll~~rPedpi 43 (60)
.|+.++++.+...++..+|..|-
T Consensus 159 ~~v~~~f~~l~~~~~~~~~~~~~ 181 (187)
T cd04129 159 EGVDDVFEAATRAALLVRKSEPG 181 (187)
T ss_pred CCHHHHHHHHHHHHhcccCcccc
Confidence 49999999999999999999883
No 13
>PRK01905 DNA-binding protein Fis; Provisional
Probab=44.39 E-value=59 Score=18.37 Aligned_cols=28 Identities=11% Similarity=0.213 Sum_probs=19.7
Q ss_pred hhHHHHHHHHHHHHHhhCCCCHHHHHHH
Q psy18061 21 HNVQQMLKDCIVQLCVTKPDNPISFLRE 48 (60)
Q Consensus 21 h~i~~LL~~~~~~ll~~rPedpi~Fl~~ 48 (60)
..|++.|..++..++-..|++|..-+.+
T Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 35 (77)
T PRK01905 8 QCIRDSLDQYFRDLDGSNPHDVYDMVLS 35 (77)
T ss_pred HHHHHHHHHHHHHHcCCCCccHHHHHHH
Confidence 3466777777777777789999854433
No 14
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=42.29 E-value=99 Score=20.37 Aligned_cols=50 Identities=12% Similarity=0.420 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHh-----hhhhHHHHHHHHHHHHHhhCCC---------CHHHHHHHHHHHHhc
Q psy18061 6 EEEQSLRECEEYV-----QQHNVQQMLKDCIVQLCVTKPD---------NPISFLREYFQKLER 55 (60)
Q Consensus 6 ~~~~~~~e~~~Y~-----~~h~i~~LL~~~~~~ll~~rPe---------dpi~Fl~~yf~~l~~ 55 (60)
+-+++-.++..|+ .++.+.++|.++..+|+..|-+ +|-+|+.+....+.+
T Consensus 5 kN~~y~~~l~~~L~~~~~~e~~~e~~L~eil~~LleaQk~G~tA~~lfG~P~~~a~eli~~~~k 68 (206)
T PF06570_consen 5 KNQEYIFDLRKYLRSSGVSEEEIEELLEEILPHLLEAQKKGKTARQLFGDPKEYADELIKPLPK 68 (206)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhCCCcHHHHcCCHHHHHHHHhccccC
Confidence 3456667788887 3557889999999999998864 899999988877643
No 15
>PF14969 DUF4508: Domain of unknown function (DUF4508)
Probab=41.94 E-value=84 Score=19.44 Aligned_cols=47 Identities=19% Similarity=0.186 Sum_probs=37.9
Q ss_pred hHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhCCCCHHHHHHHHHH
Q psy18061 5 LEEEQSLRECEEYVQQHNVQQMLKDCIVQLCVTKPDNPISFLREYFQ 51 (60)
Q Consensus 5 ~~~~~~~~e~~~Y~~~h~i~~LL~~~~~~ll~~rPedpi~Fl~~yf~ 51 (60)
.-+++....+-.|+.|..+..|+.++-..-+-++|-++.+-=+..|.
T Consensus 18 ~QRe~Fl~~Lv~ka~p~~v~~Ll~~l~~l~v~dkppsiFqCqlkLf~ 64 (98)
T PF14969_consen 18 LQREDFLQDLVEKAVPGKVNGLLDSLENLSVQDKPPSIFQCQLKLFR 64 (98)
T ss_pred HHHHHHHHHHHHHhccchHHHHHHHHHhCcCCCCCCcHHHHhHHHHH
Confidence 44677778888999999999999999888889999888776554443
No 16
>PF07340 Herpes_IE1: Cytomegalovirus IE1 protein; InterPro: IPR010855 Expression from a human cytomegalovirus early promoter (E1.7) has been shown to be activated in trans by the IE2 gene product. Although the IE1 gene product alone had no effect on this early viral promoter, maximal early promoter activity was detected when both IE1 and IE2 gene products were present []. The IE1 protein from cytomegalovirus is also known as UL123.; GO: 0050792 regulation of viral reproduction, 0042025 host cell nucleus
Probab=41.13 E-value=24 Score=26.64 Aligned_cols=20 Identities=15% Similarity=0.597 Sum_probs=17.3
Q ss_pred hhCCCCHHHHHHHHHHHHhc
Q psy18061 36 VTKPDNPISFLREYFQKLER 55 (60)
Q Consensus 36 ~~rPedpi~Fl~~yf~~l~~ 55 (60)
.-||+||++-|++|++++.+
T Consensus 23 ~pr~e~pv~~A~~fLek~l~ 42 (392)
T PF07340_consen 23 MPRPEDPVTRAVQFLEKMLA 42 (392)
T ss_pred CCCCCChHHHHHHHHHHHHH
Confidence 45899999999999999843
No 17
>PHA01623 hypothetical protein
Probab=37.92 E-value=43 Score=18.28 Aligned_cols=28 Identities=18% Similarity=0.313 Sum_probs=18.3
Q ss_pred HHHHHHHHHHhhhhhHH--HHHHHHHHHHH
Q psy18061 8 EQSLRECEEYVQQHNVQ--QMLKDCIVQLC 35 (60)
Q Consensus 8 ~~~~~e~~~Y~~~h~i~--~LL~~~~~~ll 35 (60)
++..+.+..|...+|+. +++.+++..+|
T Consensus 22 eel~~~Ld~y~~~~g~~rSe~IreAI~~yL 51 (56)
T PHA01623 22 KDLKTRLKVYCAKNNLQLTQAIEEAIKEYL 51 (56)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 44567799999999764 44444444444
No 18
>PF08974 DUF1877: Domain of unknown function (DUF1877); InterPro: IPR015068 This entry represents a family of hypothetical proteins.; PDB: 1RYL_B.
Probab=36.82 E-value=1.1e+02 Score=19.49 Aligned_cols=46 Identities=15% Similarity=0.345 Sum_probs=34.0
Q ss_pred HHHHHHHHhhhhhHHHHHHHHHHHHHhh---CCC---------CHHHHHHHHHHHHhc
Q psy18061 10 SLRECEEYVQQHNVQQMLKDCIVQLCVT---KPD---------NPISFLREYFQKLER 55 (60)
Q Consensus 10 ~~~e~~~Y~~~h~i~~LL~~~~~~ll~~---rPe---------dpi~Fl~~yf~~l~~ 55 (60)
..+++-+.+..-.+.+|++.+-..-+.. -|. +.+.|+.+||+.|+.
T Consensus 94 ~V~~ia~aL~~~~~~~l~~~f~~~~~~~~~iYP~iw~~~~~~~e~~~~l~~~f~~L~~ 151 (167)
T PF08974_consen 94 QVKEIAEALAAIDFEELRERFDPEEMKEAEIYPNIWDEEEEDEEDFEYLWDYFEELKE 151 (167)
T ss_dssp HHHHHHHHHHHS-HHHHHHH--HHHHHHCT-TT-----GGGHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHhcCHHHHHHhCcCCCCccccccchHHHHHHHHHHHHHHH
Confidence 3567888899999999999998777764 354 788999999999853
No 19
>PRK07668 hypothetical protein; Validated
Probab=36.31 E-value=1.5e+02 Score=20.88 Aligned_cols=51 Identities=20% Similarity=0.417 Sum_probs=39.7
Q ss_pred hHHHHHHHHHHHHh-----hhhhHHHHHHHHHHHHHhhCCC----------CHHHHHHHHHHHHhc
Q psy18061 5 LEEEQSLRECEEYV-----QQHNVQQMLKDCIVQLCVTKPD----------NPISFLREYFQKLER 55 (60)
Q Consensus 5 ~~~~~~~~e~~~Y~-----~~h~i~~LL~~~~~~ll~~rPe----------dpi~Fl~~yf~~l~~ 55 (60)
.+.+++..++..|+ .+..+.+++.++...++..|=+ +|..|+.+....+..
T Consensus 4 keNeefl~~L~~yL~~~glseeeieeiL~Ei~~hLlEgQk~GkTA~~IfG~sPk~yA~EL~~~~~~ 69 (254)
T PRK07668 4 KEGRKFLDDTRVYLIAKGIKEEDIESFLEDAELHLIEGEKDGKTVEDIFGDSPKEYANELVKEMEV 69 (254)
T ss_pred HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHcCCcHHHHhCCCHHHHHHHHhcccCC
Confidence 45677888899999 4457888999999999887753 888888888776543
No 20
>PF14513 DAG_kinase_N: Diacylglycerol kinase N-terminus; PDB: 1TUZ_A.
Probab=35.42 E-value=13 Score=23.97 Aligned_cols=34 Identities=21% Similarity=0.495 Sum_probs=22.0
Q ss_pred HHHHHHhhh--hhHHHHHHHHH--HHHHhhCCCCHHHH
Q psy18061 12 RECEEYVQQ--HNVQQMLKDCI--VQLCVTKPDNPISF 45 (60)
Q Consensus 12 ~e~~~Y~~~--h~i~~LL~~~~--~~ll~~rPedpi~F 45 (60)
.++++|++= ..|.++|++|- -.+-...|++||.|
T Consensus 14 ~qLq~y~eys~kklkdvl~eF~~~g~~~~~~~~~~Id~ 51 (138)
T PF14513_consen 14 AQLQKYSEYSTKKLKDVLKEFHGDGSLAKYNPEEPIDY 51 (138)
T ss_dssp HHHHHHHHH----HHHHHHHH-HTSGGGGGEETTEE-H
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCcCH
Confidence 346666653 48999999993 34667889998864
No 21
>PF05148 Methyltransf_8: Hypothetical methyltransferase; InterPro: IPR007823 This family consists of uncharacterised eukaryotic proteins which are related to S-adenosyl-L-methionine-dependent methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 2ZFU_B.
Probab=34.65 E-value=1.2e+02 Score=21.21 Aligned_cols=40 Identities=15% Similarity=0.287 Sum_probs=29.8
Q ss_pred HHHHhhhhhHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHH
Q psy18061 14 CEEYVQQHNVQQMLKDCIVQLCVTKPDNPISFLREYFQKL 53 (60)
Q Consensus 14 ~~~Y~~~h~i~~LL~~~~~~ll~~rPedpi~Fl~~yf~~l 53 (60)
.+-+-+.+.+.+....=-.+-...=|.||++-+|+|+.+.
T Consensus 31 ~~lf~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~~~ 70 (219)
T PF05148_consen 31 LKLFQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLKKR 70 (219)
T ss_dssp HHHHHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHCTS
T ss_pred HHHHHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHhc
Confidence 4455666677777777777777899999999999999864
No 22
>PF10585 UBA_e1_thiolCys: Ubiquitin-activating enzyme active site ; InterPro: IPR019572 Ubiquitin-activating enzyme (E1 enzyme) activates ubiquitin by first adenylating with ATP its C-terminal glycine residue and thereafter linking this residue to the side chain of a cysteine residue in E1, yielding an ubiquitin-E1 thiolester and free AMP. Later the ubiquitin moiety is transferred to a cysteine residue on one of the many forms of ubiquitin-conjugating enzymes (E2) []. This domain carries the last of five conserved cysteines that is part of the active site of the enzyme, responsible for ubiquitin thiolester complex formation, the active site being represented by the sequence motif PICTLKNFP []. Not all proteins in this entry contain a functional active site.; PDB: 3CMM_A 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B 2PX9_A 1Z7L_A 3GZN_D 3DBL_F 1R4N_H ....
Probab=34.27 E-value=61 Score=16.91 Aligned_cols=20 Identities=25% Similarity=0.569 Sum_probs=14.3
Q ss_pred HHhhCCCCH---HHHHHHHHHHH
Q psy18061 34 LCVTKPDNP---ISFLREYFQKL 53 (60)
Q Consensus 34 ll~~rPedp---i~Fl~~yf~~l 53 (60)
-|+..|..| |+|+.+.|+++
T Consensus 21 Tir~~P~~~~HcI~wAk~~f~~~ 43 (45)
T PF10585_consen 21 TIRNFPRTPEHCIEWAKDLFEEL 43 (45)
T ss_dssp HHHTS-SSHHHHHHHHHHHHHHH
T ss_pred hhhcCCCCchHHHHHHHHHHHHH
Confidence 466777777 68888888765
No 23
>COG5558 Transposase [DNA replication, recombination, and repair]
Probab=33.95 E-value=26 Score=24.81 Aligned_cols=18 Identities=28% Similarity=0.604 Sum_probs=14.3
Q ss_pred CCHHHHHHHHHHHHhccC
Q psy18061 40 DNPISFLREYFQKLERFP 57 (60)
Q Consensus 40 edpi~Fl~~yf~~l~~~~ 57 (60)
+||+.|+-+||.+-+...
T Consensus 203 ~~P~efLkeYFKRn~sEa 220 (261)
T COG5558 203 EAPYRFLKRYFKRNLSEA 220 (261)
T ss_pred HHHHHHHHHHHhhhcccc
Confidence 689999999998754443
No 24
>PF13817 DDE_Tnp_IS66_C: IS66 C-terminal element
Probab=33.78 E-value=47 Score=16.97 Aligned_cols=22 Identities=18% Similarity=0.528 Sum_probs=17.0
Q ss_pred HHhhCCCCHHHHHHHHHHHHhc
Q psy18061 34 LCVTKPDNPISFLREYFQKLER 55 (60)
Q Consensus 34 ll~~rPedpi~Fl~~yf~~l~~ 55 (60)
-+...==||..|+.+-|+++..
T Consensus 5 TcK~ngv~P~~yL~~vL~~i~~ 26 (39)
T PF13817_consen 5 TCKLNGVNPYAYLTDVLERIPN 26 (39)
T ss_pred HHHHcCCCHHHHHHHHHHHHcc
Confidence 3445556999999999999854
No 25
>PF08837 DUF1810: Protein of unknown function (DUF1810); InterPro: IPR014937 This is a family of uncharacterised proteins. The structure of one of the members in this family has been solved and it adopts a mainly alpha helical structure. ; PDB: 2JEK_A.
Probab=33.53 E-value=98 Score=20.24 Aligned_cols=34 Identities=21% Similarity=0.334 Sum_probs=25.9
Q ss_pred HHHHHHHHhhhhhHHHHHHHHHHHHHhhCCCCHH
Q psy18061 10 SLRECEEYVQQHNVQQMLKDCIVQLCVTKPDNPI 43 (60)
Q Consensus 10 ~~~e~~~Y~~~h~i~~LL~~~~~~ll~~rPedpi 43 (60)
++.|+..|+.-+=+-.=|.+++..|+.....++.
T Consensus 57 sl~EA~AYL~HpvLG~RL~e~~~~ll~~~~~s~~ 90 (139)
T PF08837_consen 57 SLDEARAYLAHPVLGPRLRECTEALLALEGRSAE 90 (139)
T ss_dssp SHHHHHHHHHSTTHHHHHHHHHHHHHH--S--HH
T ss_pred CHHHHHHHHcCHHHHHHHHHHHHHHHhcCCCCHH
Confidence 4667999999999999999999999988665554
No 26
>KOG0762|consensus
Probab=30.61 E-value=67 Score=23.49 Aligned_cols=30 Identities=3% Similarity=0.161 Sum_probs=25.0
Q ss_pred HHHHhhhhhHHHHHHHHHHHHHhhCCCCHH
Q psy18061 14 CEEYVQQHNVQQMLKDCIVQLCVTKPDNPI 43 (60)
Q Consensus 14 ~~~Y~~~h~i~~LL~~~~~~ll~~rPedpi 43 (60)
+...+..|||+-+.+++++.++++-|.=-+
T Consensus 150 ~kqilr~eGlrgl~rGltaTvlRdaPafgv 179 (311)
T KOG0762|consen 150 LKQILRTEGLRGLYRGLTATVLRDAPAFGV 179 (311)
T ss_pred HHHHHhhhhhhHHhhhHHHHHHhcCCccee
Confidence 445667789999999999999999997544
No 27
>PF07466 DUF1517: Protein of unknown function (DUF1517); InterPro: IPR010903 This family consists of several hypothetical glycine rich plant and bacterial proteins of around 300 residues in length. The function of this family is unknown.
Probab=29.74 E-value=98 Score=22.06 Aligned_cols=32 Identities=9% Similarity=0.192 Sum_probs=24.7
Q ss_pred HHHHHHHHHHhh------hhhHHHHHHHHHHHHHhhCC
Q psy18061 8 EQSLRECEEYVQ------QHNVQQMLKDCIVQLCVTKP 39 (60)
Q Consensus 8 ~~~~~e~~~Y~~------~h~i~~LL~~~~~~ll~~rP 39 (60)
+.-+++++...+ +.|+..+|++.+..||++..
T Consensus 118 ~~lQ~~L~~iA~~adt~s~~Gl~~~L~E~~l~LLR~~~ 155 (289)
T PF07466_consen 118 RSLQRDLNRIAETADTSSPEGLARVLQETTLALLRHPE 155 (289)
T ss_pred hHHHHHHHHHHHhcCCCChhHHHHHHHHHHHHHHhCcC
Confidence 455667777765 44999999999999988754
No 28
>TIGR01568 A_thal_3678 uncharacterized plant-specific domain TIGR01568. This model describes an uncharacterized domain of about 70 residues found exclusively in plants, generally toward the C-terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana. Other regions of these proteins tend to consist largely of low-complexity sequence.
Probab=28.80 E-value=1.2e+02 Score=17.38 Aligned_cols=52 Identities=17% Similarity=0.273 Sum_probs=44.0
Q ss_pred CCchHHHHHHHHHHHHhhhhhHH---HHHHHHHHHHHhhCCCCHHHHHHHHHHHH
Q psy18061 2 ASNLEEEQSLRECEEYVQQHNVQ---QMLKDCIVQLCVTKPDNPISFLREYFQKL 53 (60)
Q Consensus 2 ~~~~~~~~~~~e~~~Y~~~h~i~---~LL~~~~~~ll~~rPedpi~Fl~~yf~~l 53 (60)
.|..+.++.++.+.+-+..+|+. +=|+++....|.-.|.+=-.++..=|..+
T Consensus 6 ~S~DPy~DFr~SM~EMI~~~~i~~~w~~LeeLL~cYL~LN~~~~H~~Iv~AF~dl 60 (66)
T TIGR01568 6 ESDDPYEDFRRSMEEMIEERELEADWKELEELLACYLDLNPKKSHRFIVRAFVDI 60 (66)
T ss_pred CCCChHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCchhhhHHHHHHHHH
Confidence 46778889999999999999984 67999999999999988888888777654
No 29
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=28.78 E-value=28 Score=17.22 Aligned_cols=13 Identities=8% Similarity=0.496 Sum_probs=9.9
Q ss_pred HHHHHHhhhhhHH
Q psy18061 12 RECEEYVQQHNVQ 24 (60)
Q Consensus 12 ~e~~~Y~~~h~i~ 24 (60)
.+++.|++.|||.
T Consensus 7 ~~L~~wL~~~gi~ 19 (38)
T PF10281_consen 7 SDLKSWLKSHGIP 19 (38)
T ss_pred HHHHHHHHHcCCC
Confidence 3488899988874
No 30
>PLN03079 Uncharacterized protein At4g33100; Provisional
Probab=28.59 E-value=81 Score=19.31 Aligned_cols=33 Identities=12% Similarity=0.040 Sum_probs=23.9
Q ss_pred HHHHHHHHHHhhhhhHHHHHHHHHHHHHhhCCC
Q psy18061 8 EQSLRECEEYVQQHNVQQMLKDCIVQLCVTKPD 40 (60)
Q Consensus 8 ~~~~~e~~~Y~~~h~i~~LL~~~~~~ll~~rPe 40 (60)
+.++.=+.+.+..+||..||++.-..--..+|+
T Consensus 52 ~~Yq~Cv~~aL~ek~I~~lLe~ar~~~p~~~~~ 84 (91)
T PLN03079 52 HKYRACLSEHLEDKHLSQILEVDGTSAPYKQAD 84 (91)
T ss_pred HHHHHHHHHHHHHcChHHHHHHHhhcCCcCCcc
Confidence 456666778899999999999887664444443
No 31
>PF02520 DUF148: Domain of unknown function DUF148; InterPro: IPR003677 This entry represents the domain DUF148, which has no known function.
Probab=27.51 E-value=1.3e+02 Score=17.81 Aligned_cols=32 Identities=19% Similarity=0.286 Sum_probs=25.1
Q ss_pred chHHHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Q psy18061 4 NLEEEQSLRECEEYVQQHNVQQMLKDCIVQLC 35 (60)
Q Consensus 4 ~~~~~~~~~e~~~Y~~~h~i~~LL~~~~~~ll 35 (60)
+.+..+....+..++.++|+.+.+..+...+-
T Consensus 15 ~lt~~e~~~~l~~Wa~~~~v~~~~~~f~~~~~ 46 (113)
T PF02520_consen 15 NLTKAEIEEQLDEWAEKYGVQDQYNEFKAQVQ 46 (113)
T ss_pred CCCHHHHHHHHHHHHHHCCcHHHHHHHHHHHH
Confidence 34455566779999999999999999887764
No 32
>cd02433 Nodulin-21_like_2 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_2: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=27.34 E-value=1.5e+02 Score=20.39 Aligned_cols=37 Identities=8% Similarity=0.144 Sum_probs=23.0
Q ss_pred HHHHHHhhhhhHHHHHHHHHHHHHhhCCCCHHHHHHH
Q psy18061 12 RECEEYVQQHNVQQMLKDCIVQLCVTKPDNPISFLRE 48 (60)
Q Consensus 12 ~e~~~Y~~~h~i~~LL~~~~~~ll~~rPedpi~Fl~~ 48 (60)
+|+.+..++.|+..=.-+.+...+...|+.+++++..
T Consensus 101 ~el~~iy~~~G~~~~~a~~~~~~l~~~~~~~~~~~~~ 137 (234)
T cd02433 101 AELALIYRAKGLDEEEAKRVASQLMNDPEQALDTLAR 137 (234)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHhCcchhHHHHHH
Confidence 4455555555665555556666777778777776554
No 33
>PHA01748 hypothetical protein
Probab=26.32 E-value=1.2e+02 Score=16.55 Aligned_cols=28 Identities=14% Similarity=0.355 Sum_probs=19.2
Q ss_pred HHHHHHHHhhhhhHH--HHHHHHHHHHHhh
Q psy18061 10 SLRECEEYVQQHNVQ--QMLKDCIVQLCVT 37 (60)
Q Consensus 10 ~~~e~~~Y~~~h~i~--~LL~~~~~~ll~~ 37 (60)
-..++..|...+|+. +++.+++..++..
T Consensus 13 l~~eld~~a~~~g~~RSE~Ir~Ai~~~~~~ 42 (60)
T PHA01748 13 LLELLDRYAIKHGLNRSEAIRKAIEKMVKD 42 (60)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence 456788898888764 6777776665543
No 34
>COG2250 Uncharacterized conserved protein related to C-terminal domain of eukaryotic chaperone, SACSIN [Function unknown]
Probab=24.16 E-value=81 Score=19.70 Aligned_cols=29 Identities=14% Similarity=0.362 Sum_probs=22.9
Q ss_pred HhhhhhHHHHHHHHHHHHHhhCCCCHHHHHH
Q psy18061 17 YVQQHNVQQMLKDCIVQLCVTKPDNPISFLR 47 (60)
Q Consensus 17 Y~~~h~i~~LL~~~~~~ll~~rPedpi~Fl~ 47 (60)
|..-|+|.+||..+... ...|++....+.
T Consensus 55 ~p~tH~l~~Ll~~l~~~--~~~~e~~~~~~~ 83 (132)
T COG2250 55 PPKTHSLRELLRELSRE--LEVPEEILECAR 83 (132)
T ss_pred CCCcCCHHHHHHHHHHh--ccCcHHHHHHHH
Confidence 55778999999998877 677777777665
No 35
>PF02661 Fic: Fic/DOC family; InterPro: IPR003812 This entry contains the Fic (filamentation induced by cAMP) protein and doc (death on curing) protein. The Fic protein is involved in cell division and is suggested to be involved in the synthesis of PAB or folate, indicating that the Fic protein and cAMP are involved in a regulatory mechanism of cell division via folate metabolism []. This family contains a central conserved motif HPFXXGNG in most members. The exact molecular function of these proteins is uncertain. P1 lysogens of Escherichia coli carry the prophage as a stable low copy number plasmid. The frequency with which viable cells cured of prophage are produced is about 10(-5) per cell per generation []. A significant part of this remarkable stability can be attributed to a plasmid-encoded mechanism that causes death of cells that have lost P1 []. In other words, the lysogenic cells appear to be addicted to the presence of the prophage. The plasmid withdrawal response depends on a gene named doc (death on curing) that is represented by this family.; PDB: 3SHG_A 3N3V_A 3N3U_A 2F6S_B 2JK8_B 2VZA_D 2VY3_A 3LET_B 3EQX_A 3SE5_D ....
Probab=23.33 E-value=1.4e+02 Score=16.23 Aligned_cols=42 Identities=12% Similarity=0.122 Sum_probs=27.5
Q ss_pred hhhhhHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHhccCCC
Q psy18061 18 VQQHNVQQMLKDCIVQLCVTKPDNPISFLREYFQKLERFPIF 59 (60)
Q Consensus 18 ~~~h~i~~LL~~~~~~ll~~rPedpi~Fl~~yf~~l~~~~~~ 59 (60)
..+..+...++++...+=.....+|+..++.++-.+....-|
T Consensus 40 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~aa~~~~~~~~iHPF 81 (97)
T PF02661_consen 40 PPPEEIPAYLEELFDWLNANSEEDPIEKAAWLHYEFVYIHPF 81 (97)
T ss_dssp SHHHHHHHHHHHHHHHHHHHTHCCHHHHHHHHHHHHHHHCSS
T ss_pred CCccchHHHHHHHHHHhhhcccccHHHHHHHHHHHHHhcCcc
Confidence 344456666655555444677788999999888777554444
No 36
>PF06523 DUF1106: Protein of unknown function (DUF1106); InterPro: IPR009490 This family consists of several hypothetical bacterial proteins found in Escherichia coli and Citrobacter rodentium. The function of this family is unknown.
Probab=23.18 E-value=5.2 Score=24.18 Aligned_cols=24 Identities=33% Similarity=0.555 Sum_probs=15.9
Q ss_pred hhhhHHHHHHHHHHHHHhhCCCCHHHHHHHH
Q psy18061 19 QQHNVQQMLKDCIVQLCVTKPDNPISFLREY 49 (60)
Q Consensus 19 ~~h~i~~LL~~~~~~ll~~rPedpi~Fl~~y 49 (60)
.+..|.+-|+++ -||.|+.|.++|
T Consensus 66 kk~yi~dklkei-------fpde~iefsiey 89 (91)
T PF06523_consen 66 KKNYIFDKLKEI-------FPDEAIEFSIEY 89 (91)
T ss_pred cchhHHHHHHHh-------CCCCceEEEEEe
Confidence 444555555544 499999988776
No 37
>PF09457 RBD-FIP: FIP domain ; InterPro: IPR019018 The Rab11 GTPase regulates recycling of internalized plasma membrane receptors and is essential for completion of cytokinesis. A family of Rab11 interacting proteins (FIPs) that conserve a C-terminal Rab-binding domain (RBD) selectively recognise the active form of Rab11. FIPs are diverse in sequence length and composition toward their N-termini, presumably a feature that underpins their specific roles in Rab11-mediated vesicle trafficking. They have been divided into three subfamilies (classe I, II, and III)on the basis of domain architecture. Class I FIPs comprises a subfamily of three proteins (Rip11/pp75/FIP5, Rab-coupling protein (RCP), and FIP2) that possess an N- terminal C2 domain, localize to recycling endosomes, and regulate plasma membrane recycling. The class II subfamily consists of two proteins (FIP3/eferin/arfophilin and FIP4) with tandem EF hands and a proline-rich region. Class II FIPs localize to recycling endosomes, the trans-Golgi network, and have been implicated in the regulation of membrane trafficking during cytokinesis. The class III subfamily consists of a single protein, FIP1, which does not contain obvious homology domains or motifs other than the FIP-RBD [, , , ]. The FIP-RBD domain is also found in Rab6-interacting protein Erc1/Elks. Erc1 is the regulatory subunit of the IKK complex and probably recruits IkappaBalpha/NFKBIA to the complex []. It may be involved in the organisation of the cytomatrix at the nerve terminals active zone (CAZ) which regulates neurotransmitter release. It may also be involved in vesicle trafficking at the CAZ, as well as in Rab-6 regulated endosomes to Golgi transport []. The FIB-RBD domain consists of an N-terminal long alpha-helix, followed by a 90 degrees bend at a conserved proline residue, a 3(10) helix and a C-terminal short beta-strand, adopting an "L" shape. The long alpha-helix forms a parallel coiled-coil homodimer that symmetrically interacts with two Rab11 molecules on both sides, forming a quaternary Rab11-(FIP)2-Rab11 complex. The Rab11-interacting region of FIP-RBD is confined to the C-terminal 24 amino acids, which cover the C-terminal half of the long alpha-helix and the short beta-strand [, , , ]. This entry represents the FIP-RBD domain.; PDB: 2HV8_E 2D7C_D 2K6S_B 2GZD_D 2GZH_B.
Probab=22.71 E-value=1.4e+02 Score=16.06 Aligned_cols=17 Identities=12% Similarity=0.419 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHhhCCC
Q psy18061 24 QQMLKDCIVQLCVTKPD 40 (60)
Q Consensus 24 ~~LL~~~~~~ll~~rPe 40 (60)
.+-+.+++..+..+.|+
T Consensus 27 e~YiD~LL~rVmE~~P~ 43 (48)
T PF09457_consen 27 EDYIDNLLVRVMEQTPS 43 (48)
T ss_dssp HHHHHHHHHHHHCC-GG
T ss_pred HHHHHHHHHHHHHhCcc
Confidence 33344777777777774
No 38
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=22.62 E-value=2e+02 Score=17.78 Aligned_cols=46 Identities=11% Similarity=0.129 Sum_probs=34.9
Q ss_pred HHHHHHHHHHhhhhhHHH-HHHHHHHHHHhhCCCCHHHHHHHHHHHH
Q psy18061 8 EQSLRECEEYVQQHNVQQ-MLKDCIVQLCVTKPDNPISFLREYFQKL 53 (60)
Q Consensus 8 ~~~~~e~~~Y~~~h~i~~-LL~~~~~~ll~~rPedpi~Fl~~yf~~l 53 (60)
+.+..++.+++.+.|+.+ .....+..|....--|=..|+..|....
T Consensus 25 ~~s~~el~~kL~~kg~~~~~i~~vl~~l~~~~~ldD~~~a~~~~~~~ 71 (157)
T PRK00117 25 EHSRAELRRKLAAKGFSEEVIEAVLDRLKEEGLLDDERFAESFVRSR 71 (157)
T ss_pred hhHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 345567888998887764 7777777777777777779999988776
No 39
>PRK05260 condesin subunit F; Provisional
Probab=22.48 E-value=1.5e+02 Score=22.92 Aligned_cols=45 Identities=24% Similarity=0.296 Sum_probs=38.2
Q ss_pred HHHhhhhhHHHHHHHHHHHHH-----hhCCCCHHHHHHHHHHHHhccCCC
Q psy18061 15 EEYVQQHNVQQMLKDCIVQLC-----VTKPDNPISFLREYFQKLERFPIF 59 (60)
Q Consensus 15 ~~Y~~~h~i~~LL~~~~~~ll-----~~rPedpi~Fl~~yf~~l~~~~~~ 59 (60)
-+|.+...+.+.+.+++...| ..+|-|.-.-+.+|+.+.-..+.|
T Consensus 346 le~ee~~~l~~~i~~~ve~~L~~~~~~~~pi~L~~vlr~~L~~~P~~~hf 395 (440)
T PRK05260 346 LEYEEFNEIREQLAALIEEALAVYKEQQGPLDLGLVLREYLAQYPRARHF 395 (440)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHhhhhcCCCccHHHHHHHHHHcCChHhHH
Confidence 468888899999999999999 889999999999999876555544
No 40
>PF10193 Telomere_reg-2: Telomere length regulation protein; InterPro: IPR019337 This entry represents a conserved domain found in a group of proteins called telomere-length regulation, or clock abnormal protein-2, which are conserved from plants to humans. These proteins regulate telomere length and contribute to silencing of sub-telomeric regions []. In vitro the protein binds to telomeric DNA repeats. ; PDB: 3O4Z_B.
Probab=22.27 E-value=1.1e+02 Score=18.59 Aligned_cols=31 Identities=26% Similarity=0.537 Sum_probs=24.7
Q ss_pred hhhHHHHHHHHHHHHHhhCCCCHHHHHHHHH
Q psy18061 20 QHNVQQMLKDCIVQLCVTKPDNPISFLREYF 50 (60)
Q Consensus 20 ~h~i~~LL~~~~~~ll~~rPedpi~Fl~~yf 50 (60)
-.++.++=.++.++++...|+....|+++-|
T Consensus 63 ~~~Fe~~R~~alval~v~~P~~~~~~L~~~f 93 (114)
T PF10193_consen 63 IENFEELRQNALVALVVAAPEKVAPYLTEEF 93 (114)
T ss_dssp -TTTTHHHHHHHHHHHHHSGGGHHH-HHHHH
T ss_pred ccCHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 3466777788999999999999999888776
No 41
>TIGR00668 apaH bis(5'-nucleosyl)-tetraphosphatase (symmetrical). Alternate names include diadenosine-tetraphosphatase and Ap4A hydrolase.
Probab=21.64 E-value=3.1e+02 Score=19.56 Aligned_cols=44 Identities=14% Similarity=0.318 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhCCCC---------HHHHHHHHHHHHh
Q psy18061 7 EEQSLRECEEYVQQHNVQQMLKDCIVQLCVTKPDN---------PISFLREYFQKLE 54 (60)
Q Consensus 7 ~~~~~~e~~~Y~~~h~i~~LL~~~~~~ll~~rPed---------pi~Fl~~yf~~l~ 54 (60)
.....+|++..+.-++..++|+.+ --+.|+. -+.|++++|++++
T Consensus 132 a~~~a~eve~~L~~~~~~~fl~~m----ygn~p~~W~~~l~g~~r~r~i~n~~TRmR 184 (279)
T TIGR00668 132 AKECARDVEAVLSSDSYPFFLDAM----YGDMPNRWSPELQGLARLRFIINAFTRMR 184 (279)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh----hCCCCccCCCCCchHHHHHHHHHHHhhhe
Confidence 445567888888877776655544 4678873 7899999999985
No 42
>PRK14135 recX recombination regulator RecX; Provisional
Probab=21.62 E-value=2.6e+02 Score=18.75 Aligned_cols=45 Identities=16% Similarity=0.358 Sum_probs=32.1
Q ss_pred HHHHHHHHhhhhhH-HHHHHHHHHHHHhhCCCCHHHHHHHHHHHHh
Q psy18061 10 SLRECEEYVQQHNV-QQMLKDCIVQLCVTKPDNPISFLREYFQKLE 54 (60)
Q Consensus 10 ~~~e~~~Y~~~h~i-~~LL~~~~~~ll~~rPedpi~Fl~~yf~~l~ 54 (60)
+..++.+++.+.|+ .++.+..+..|-...==|-..|+..|.....
T Consensus 73 s~~el~~kL~~kg~~~~~Ie~vl~~l~~~~~ldD~~~a~~~~~~~~ 118 (263)
T PRK14135 73 TEKEVRDYLKKHEISEEIISEVIDKLKEEKYIDDKEYAESYVRTNI 118 (263)
T ss_pred cHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence 34668888888877 5666667776666665556889988887764
No 43
>TIGR02757 conserved hypothetical protein TIGR02757. Members of this uncharacterized protein family are found sporadically, so far only among spirochetes, epsilon and delta proteobacteria, and Bacteroides. The function is unknown and its gene neighborhoods show little conservation.
Probab=21.57 E-value=56 Score=22.78 Aligned_cols=19 Identities=21% Similarity=0.427 Sum_probs=16.4
Q ss_pred HHHHHHHHHhhCCCCHHHH
Q psy18061 27 LKDCIVQLCVTKPDNPISF 45 (60)
Q Consensus 27 L~~~~~~ll~~rPedpi~F 45 (60)
..++|..|-.--|+||+.|
T Consensus 200 a~ElT~~Lr~~dp~DPvKY 218 (229)
T TIGR02757 200 AIEITEALRELNPEDPIKY 218 (229)
T ss_pred HHHHHHHHHhcCCCCCcch
Confidence 4578999999999999876
No 44
>COG3655 Predicted transcriptional regulator [Transcription]
Probab=21.52 E-value=20 Score=21.06 Aligned_cols=18 Identities=11% Similarity=0.353 Sum_probs=14.2
Q ss_pred HHHHHHHhhCCCCHHHHH
Q psy18061 29 DCIVQLCVTKPDNPISFL 46 (60)
Q Consensus 29 ~~~~~ll~~rPedpi~Fl 46 (60)
+-++..|.++|.|.+.|-
T Consensus 49 ~~iC~~LeCqpgDiley~ 66 (73)
T COG3655 49 EKICKALECQPGDILEYV 66 (73)
T ss_pred HHHHHHcCCChhheeEEe
Confidence 446778899999998774
No 45
>PF12451 VPS11_C: Vacuolar protein sorting protein 11 C terminal; InterPro: IPR024763 Vps 11 is one of the evolutionarily conserved class C vacuolar protein sorting genes (c-vps: vps11, vps16, vps18, and vps33), whose products physically associate to form the c-vps protein complex required for vesicle docking and fusion. This entry represents the C-terminal domain of vps11.
Probab=21.51 E-value=1.4e+02 Score=15.69 Aligned_cols=16 Identities=25% Similarity=0.648 Sum_probs=14.5
Q ss_pred hCCCCHHHHHHHHHHH
Q psy18061 37 TKPDNPISFLREYFQK 52 (60)
Q Consensus 37 ~rPedpi~Fl~~yf~~ 52 (60)
.+-.|....+++||.+
T Consensus 29 ~~s~D~F~vIaeyfGr 44 (49)
T PF12451_consen 29 EESEDRFSVIAEYFGR 44 (49)
T ss_pred HhCCCCchhHHHHHcc
Confidence 8899999999999975
No 46
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=21.48 E-value=2e+02 Score=17.24 Aligned_cols=39 Identities=26% Similarity=0.420 Sum_probs=28.0
Q ss_pred HHHHHHHHhhhh------hHHHHHHHHHHHHHhhCCCC----HHHHHHH
Q psy18061 10 SLRECEEYVQQH------NVQQMLKDCIVQLCVTKPDN----PISFLRE 48 (60)
Q Consensus 10 ~~~e~~~Y~~~h------~i~~LL~~~~~~ll~~rPed----pi~Fl~~ 48 (60)
...++-.|...| ...+-++++...|+...|++ |+..+.+
T Consensus 55 ~~~~Ai~y~r~~l~~~~~~~~~~l~~~~~lL~~~~~~~~~~s~~~~l~~ 103 (145)
T PF10607_consen 55 DIMEAIEYARKHLSPFNDEFLEELKKLMSLLAYPDPEEPLPSPYKELLS 103 (145)
T ss_pred hHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHcCCcccccchHHHHHhC
Confidence 344566666665 37788899999999999986 6655444
No 47
>KOG0548|consensus
Probab=20.81 E-value=2.3e+02 Score=22.45 Aligned_cols=39 Identities=10% Similarity=0.176 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhCCCCHHHHH
Q psy18061 7 EEQSLRECEEYVQQHNVQQMLKDCIVQLCVTKPDNPISFL 46 (60)
Q Consensus 7 ~~~~~~e~~~Y~~~h~i~~LL~~~~~~ll~~rPedpi~Fl 46 (60)
+++....-.++...++.+.-+..+|..+-+. |+|++.|.
T Consensus 358 A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYs 396 (539)
T KOG0548|consen 358 AEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYS 396 (539)
T ss_pred HHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHH
Confidence 4455556788899999999999999965555 99999885
No 48
>cd05538 POLBc_Pol_II_B DNA polymerase type-II B subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as repair of DNA damaged by UV irradiation or oxidation has been proved by genetic studies. DNA polymerase III is the main enzyme responsible for replication of the bacterial chromosome; however, In vivo studies have also shown that Pol II is able to participate in chromosomal DNA replication with larger role in lagging-strand replication.
Probab=20.60 E-value=1.7e+02 Score=21.10 Aligned_cols=35 Identities=11% Similarity=0.326 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHhccC
Q psy18061 23 VQQMLKDCIVQLCVTKPDNPISFLREYFQKLERFP 57 (60)
Q Consensus 23 i~~LL~~~~~~ll~~rPedpi~Fl~~yf~~l~~~~ 57 (60)
+.++.++++..++...++....+..++.++++.+.
T Consensus 214 ~k~~~~~vl~~ll~~~~~~~~~~~~~~~~~l~~~~ 248 (347)
T cd05538 214 LREFLREAVRLLLQGDGAGVHDLYEDYLRRLRSHE 248 (347)
T ss_pred HHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHcCC
Confidence 35566677777776677778888888888887654
No 49
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=20.35 E-value=1.3e+02 Score=14.59 Aligned_cols=19 Identities=16% Similarity=0.356 Sum_probs=14.1
Q ss_pred HHHHHHHHhhCCCCHHHHH
Q psy18061 28 KDCIVQLCVTKPDNPISFL 46 (60)
Q Consensus 28 ~~~~~~ll~~rPedpi~Fl 46 (60)
..+...++...|+||-.+.
T Consensus 21 ~~~~~~~l~~~P~~~~a~~ 39 (44)
T PF13428_consen 21 ERLLRRALALDPDDPEAWR 39 (44)
T ss_pred HHHHHHHHHHCcCCHHHHH
Confidence 4556677789999997653
No 50
>PF14838 INTS5_C: Integrator complex subunit 5 C-terminus
Probab=20.07 E-value=2.9e+02 Score=22.54 Aligned_cols=37 Identities=22% Similarity=0.397 Sum_probs=33.5
Q ss_pred HHHHHHHHhhhhhHHHHHHHHHHHHHhhCCCCHHHHH
Q psy18061 10 SLRECEEYVQQHNVQQMLKDCIVQLCVTKPDNPISFL 46 (60)
Q Consensus 10 ~~~e~~~Y~~~h~i~~LL~~~~~~ll~~rPedpi~Fl 46 (60)
+..++..|+.++.+.-||.+++=..+++.|-.|..|.
T Consensus 624 ~~~el~~~ltp~Ei~~lL~~cIW~y~kdh~Psp~~f~ 660 (696)
T PF14838_consen 624 YIHELFPYLTPHEIYLLLLSCIWNYMKDHVPSPALFV 660 (696)
T ss_pred HHHHHHHhcCHHHHHHHHHHHHHHHHhhCCCCHHHHh
Confidence 4457889999999999999999999998888999998
Done!