Query 015925
Match_columns 398
No_of_seqs 96 out of 98
Neff 2.9
Searched_HMMs 46136
Date Fri Mar 29 02:11:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015925.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015925hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02179 BAG: BAG domain; Int 99.1 3.8E-10 8.2E-15 89.0 6.6 70 276-349 3-74 (76)
2 smart00264 BAG BAG domains, pr 98.8 3.1E-08 6.8E-13 79.5 7.7 76 275-350 2-78 (79)
3 PF00612 IQ: IQ calmodulin-bin 97.3 0.00021 4.6E-09 44.6 2.6 17 249-265 2-18 (21)
4 smart00015 IQ Short calmodulin 96.7 0.0015 3.3E-08 42.5 2.5 18 248-265 3-20 (26)
5 COG5022 Myosin heavy chain [Cy 83.7 3.6 7.7E-05 48.8 8.0 62 248-317 745-807 (1463)
6 KOG4427 E3 ubiquitin protein l 73.5 4.9 0.00011 45.6 4.9 18 248-265 30-47 (1096)
7 KOG0942 E3 ubiquitin protein l 55.7 7.4 0.00016 44.6 2.1 41 220-267 8-48 (1001)
8 KOG0164 Myosin class I heavy c 55.3 23 0.00051 40.3 5.8 69 248-318 696-779 (1001)
9 KOG0162 Myosin class I heavy c 50.9 16 0.00035 41.6 3.7 18 248-265 696-713 (1106)
10 PTZ00014 myosin-A; Provisional 47.4 18 0.00039 40.8 3.5 19 248-266 777-795 (821)
11 PTZ00014 myosin-A; Provisional 45.7 30 0.00065 39.1 4.9 20 247-266 799-818 (821)
12 PF08763 Ca_chan_IQ: Voltage g 43.9 24 0.00053 25.8 2.5 18 249-266 10-27 (35)
13 PF10168 Nup88: Nuclear pore c 37.3 1.7E+02 0.0037 32.8 8.9 74 271-350 577-651 (717)
14 PF12645 HTH_16: Helix-turn-he 36.7 85 0.0018 24.8 4.9 53 248-319 12-64 (65)
15 CHL00002 matK maturase K 28.9 33 0.00072 36.9 1.9 29 23-59 130-158 (504)
16 KOG0160 Myosin class V heavy c 28.4 75 0.0016 36.6 4.5 41 218-265 673-713 (862)
17 KOG0160 Myosin class V heavy c 27.1 1E+02 0.0023 35.5 5.3 39 221-266 698-736 (862)
18 PF01824 MatK_N: MatK/TrnK ami 26.5 35 0.00075 35.0 1.4 29 23-59 130-158 (331)
19 PF11867 DUF3387: Domain of un 26.4 3.2E+02 0.0069 27.2 8.0 74 275-353 17-90 (335)
20 KOG0377 Protein serine/threoni 26.0 46 0.001 36.3 2.3 18 248-265 17-34 (631)
21 TIGR01010 BexC_CtrB_KpsE polys 25.6 6.7E+02 0.014 24.8 10.6 91 245-336 140-251 (362)
22 KOG4072 Signal peptidase compl 25.4 31 0.00068 31.3 0.8 27 132-168 55-81 (127)
23 KOG0163 Myosin class VI heavy 24.0 2.3E+02 0.0049 33.2 7.1 35 231-265 796-830 (1259)
24 KOG4326 Mitochondrial F1F0-ATP 23.5 4.5E+02 0.0098 22.4 7.1 63 248-323 16-78 (81)
25 cd07820 SRPBCC_3 Ligand-bindin 23.4 2.1E+02 0.0046 23.8 5.3 50 117-179 47-97 (137)
26 COG5360 Uncharacterized protei 23.2 2.4E+02 0.0053 30.9 6.8 41 300-344 187-228 (566)
27 PF08485 Polysacc_syn_2C: Poly 22.6 51 0.0011 25.5 1.4 14 310-323 35-48 (48)
28 PF10186 Atg14: UV radiation r 21.2 6.6E+02 0.014 23.4 8.6 20 327-346 140-159 (302)
No 1
>PF02179 BAG: BAG domain; InterPro: IPR003103 BAG domains are present in Bcl-2-associated athanogene 1 and silencer of death domains. The BAG proteins are modulators of chaperone activity, they bind to HSP70/HSC70 proteins and promote substrate release. The proteins have anti-apoptotic activity and increase the anti-cell death function of BCL-2 induced by various stimuli. BAG-1 binds to the serine/threonine kinase Raf-1 or Hsc70/Hsp70 in a mutually exclusive interaction. BAG-1 promotes cell growth by binding to and stimulating Raf-1 activity. The binding of Hsp70 to BAG-1 diminishes Raf-1 signalling and inhibits subsequent events, such as DNA synthesis, as well as arrests the cell cycle. BAG-1 has been suggested to function as a molecular switch that encourages cells to proliferate in normal conditions but become quiescent under a stressful environment []. BAG-family proteins contain a single BAG domain, except for human BAG-5 which has four BAG repeats. The BAG domain is a conserved region located at the C terminus of the BAG-family proteins that binds the ATPase domain of Hsc70/Hsp70. The BAG domain is evolutionarily conserved, and BAG domain containing proteins have been described and/or proven in a variety of organisms including Mus musculus (Mouse), Xenopus spp., Drosophila spp., Bombyx mori (Silk moth), Caenorhabditis elegans, Saccharomyces cerevisiae (Baker's yeast), Schizosaccharomyces pombe (Fission yeast), and Arabidopsis thaliana (Mouse-ear cress). The BAG domain has 110-124 amino acids and is comprised of three anti-parallel alpha-helices, each approximately 30-40 amino acids in length. The first and second helices interact with the serine/threonine kinase Raf-1 and the second and third helices are the sites of the BAG domain interaction with the ATPase domain of Hsc70/Hsp70. Binding of the BAG domain to the ATPase domain is mediated by both electrostatic and hydrophobic interactions in BAG-1 and is energy requiring.; GO: 0051087 chaperone binding; PDB: 1M7K_A 1M62_A 1T7S_A 1UGO_A 1I6Z_A 3A8Y_C 1UK5_A 3FZM_B 3FZL_B 3M3Z_B ....
Probab=99.05 E-value=3.8e-10 Score=89.03 Aligned_cols=70 Identities=23% Similarity=0.414 Sum_probs=56.7
Q ss_pred HHHHHHHHH-HHHHhccccchhccccCHHHHHHHHHHHHHHHhhcccc-ccCChHHHHHHHhHHHHHHHHHhhhcC
Q 015925 276 AVAKTKLKE-IRALFNNFSYRQIVSRDAEERQRFSEKIIVLLLTVDAI-EGADLMVRAAKRSMVDELEAMLDVVDP 349 (398)
Q Consensus 276 a~vKsklke-lr~l~~~~~~r~~i~~D~eER~riSE~iM~LLLrLDSI-QG~Dp~VRe~RKSvsrEL~~~qD~VDs 349 (398)
..+..++.. +...+..+ ..+.+.+++.+++|.+|++|++||+| .+.+|.||+.||+++++++.+++.+|+
T Consensus 3 ~~i~~~v~~~l~~~v~~~----~~~~~~~~~~~l~E~L~~~LlkLD~I~~~g~~~iR~~RK~~v~~iq~~l~~lD~ 74 (76)
T PF02179_consen 3 EKIIDEVEKELQPEVEQF----DGKKDEKEYLRLSEMLMQLLLKLDSIETEGNPEIREKRKQAVKRIQQLLDKLDS 74 (76)
T ss_dssp HHHHHHHHHCHHHHHHHH----HHHHCCHHHHHHHHHHHHHHHHHHTCECSSSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH----hccCcHHHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHHHHHHHHc
Confidence 334444444 55555544 34556789999999999999999999 789999999999999999999999985
No 2
>smart00264 BAG BAG domains, present in regulator of Hsp70 proteins. BAG domains, present in Bcl-2-associated athanogene 1 and silencer of death domains
Probab=98.76 E-value=3.1e-08 Score=79.48 Aligned_cols=76 Identities=21% Similarity=0.320 Sum_probs=58.9
Q ss_pred HHHHHHHHHHHHHHhccccchhccccCHHHHHHHHHHHHHHHhhcccccc-CChHHHHHHHhHHHHHHHHHhhhcCC
Q 015925 275 LAVAKTKLKEIRALFNNFSYRQIVSRDAEERQRFSEKIIVLLLTVDAIEG-ADLMVRAAKRSMVDELEAMLDVVDPQ 350 (398)
Q Consensus 275 Ia~vKsklkelr~l~~~~~~r~~i~~D~eER~riSE~iM~LLLrLDSIQG-~Dp~VRe~RKSvsrEL~~~qD~VDs~ 350 (398)
|+.+...++++...+.+....-......++...++|.+|.+||+||+|.+ .++.+|.+||.++++++.+++.+|..
T Consensus 2 i~~v~~~~~ev~~~l~~~v~~~~~~~~~~~~~~l~E~l~~~LlkLD~i~~~g~~~~R~~RK~~v~~iq~~l~~lD~~ 78 (79)
T smart00264 2 IKKINRVLDEVVKKIEKEVQVADGKKDDKEYLRLSEELMKLLLKLDSVDVEGCPDIREARKRLVRLIQNLLNALDSK 78 (79)
T ss_pred hHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHHHcCcCcCCcHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 34455555555444444333334456778889999999999999999998 56899999999999999999999975
No 3
>PF00612 IQ: IQ calmodulin-binding motif; InterPro: IPR000048 The IQ motif is an extremely basic unit of about 23 amino acids, whose conserved core usually fits the consensus A-x(3)-I-Q-x(2)-F-R-x(4)-K-K. The IQ motif, which can be present in one or more copies, serves as a binding site for different EF-hand proteins including the essential and regulatory myosin light chains, calmodulin (CaM), and CaM-like proteins [, ].Many IQ motifs are protein kinase C (PKC) phosphorylation sites [, ]. Resolution of the 3D structure of scallop myosin has shown that the IQ motif forms a basic amphipathic helix []. Some proteins known to contain an IQ motif are listed below: A number of conventional and unconventional myosins. Neuromodulin (GAP-43). This protein is associated with nerve growth. It is a major component of the motile "growth cones" that form the tips of elongating axons. Neurogranin (NG/p17). Acts as a "third messenger" substrate of protein kinase C-mediated molecular cascades during synaptic development and remodeling. Sperm surface protein Sp17. Ras GTPase-activating-like protein IQGAP1. IQGAP1 contains 4 IQ motifs. This entry covers the entire IQ motif.; GO: 0005515 protein binding; PDB: 2DFS_A 2IX7_C 1OE9_A 1W7J_A 1W7I_A 1KQM_A 1KK7_A 1WDC_A 1DFL_A 1B7T_A ....
Probab=97.30 E-value=0.00021 Score=44.62 Aligned_cols=17 Identities=47% Similarity=0.794 Sum_probs=16.2
Q ss_pred HHHHHHHHHHhhHhhhh
Q 015925 249 DAAMMIQITFRAYLIRR 265 (398)
Q Consensus 249 ~AA~~IQaaFRGyLVRR 265 (398)
.||++||++||||++|+
T Consensus 2 ~aai~iQ~~~R~~~~Rk 18 (21)
T PF00612_consen 2 KAAIIIQSYWRGYLARK 18 (21)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 69999999999999998
No 4
>smart00015 IQ Short calmodulin-binding motif containing conserved Ile and Gln residues. Calmodulin-binding motif.
Probab=96.67 E-value=0.0015 Score=42.46 Aligned_cols=18 Identities=44% Similarity=0.800 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHhhHhhhh
Q 015925 248 QDAAMMIQITFRAYLIRR 265 (398)
Q Consensus 248 e~AA~~IQaaFRGyLVRR 265 (398)
..||++||+.||||++|+
T Consensus 3 ~~aa~~IQa~~Rg~~~r~ 20 (26)
T smart00015 3 TRAAIIIQAAWRGYLARK 20 (26)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 579999999999999998
No 5
>COG5022 Myosin heavy chain [Cytoskeleton]
Probab=83.66 E-value=3.6 Score=48.80 Aligned_cols=62 Identities=26% Similarity=0.405 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHhccccchhccccCHHHHHHHH-HHHHHHHh
Q 015925 248 QDAAMMIQITFRAYLIRRSQALRALRDLAVAKTKLKEIRALFNNFSYRQIVSRDAEERQRFS-EKIIVLLL 317 (398)
Q Consensus 248 e~AA~~IQaaFRGyLVRRSq~LRaLR~Ia~vKsklkelr~l~~~~~~r~~i~~D~eER~riS-E~iM~LLL 317 (398)
...|+.||+++|||++|| +-+++++.|- -++....++.+++.+......++.+. ...|.++.
T Consensus 745 ~~~~~~iq~aiR~~~~rr-r~~~~~k~i~-------~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 807 (1463)
T COG5022 745 DNIATRIQRAIRGRYLRR-RYLQALKRIK-------KIQVIQHGFRLRRLVDYELKWRLFIKLQPLLSLLG 807 (1463)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHHH-------HHHHHhcccchhhhcccchHHHhHHHhhHHhHHHh
Confidence 568999999999999998 3444554444 35557778888888888888887775 44454443
No 6
>KOG4427 consensus E3 ubiquitin protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.47 E-value=4.9 Score=45.56 Aligned_cols=18 Identities=44% Similarity=0.833 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHhhHhhhh
Q 015925 248 QDAAMMIQITFRAYLIRR 265 (398)
Q Consensus 248 e~AA~~IQaaFRGyLVRR 265 (398)
+.||..||.++|||++|+
T Consensus 30 ~~aa~~iq~~lrsyl~Rk 47 (1096)
T KOG4427|consen 30 EAAALFIQRVLRSYLVRK 47 (1096)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 789999999999999998
No 7
>KOG0942 consensus E3 ubiquitin protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.72 E-value=7.4 Score=44.62 Aligned_cols=41 Identities=24% Similarity=0.436 Sum_probs=30.3
Q ss_pred hhHHHHHHHHhhhcccccCCCcccCCCHHHHHHHHHHHHhhHhhhhhH
Q 015925 220 GAVVLRQAFAKRFGSVRNNKGKQKELSPQDAAMMIQITFRAYLIRRSQ 267 (398)
Q Consensus 220 g~v~~r~afa~~~g~v~~~kgkkk~lS~e~AA~~IQaaFRGyLVRRSq 267 (398)
.+-.||+|=.+|. ++-..+|. +-+|++||+-+|||++|+.|
T Consensus 8 r~~~l~r~~~er~----kRee~rk~---e~~av~vQs~~Rg~~~r~~~ 48 (1001)
T KOG0942|consen 8 RDNLLRRAAEERH----KREEERKQ---EKNAVKVQSFWRGFRVRHNQ 48 (1001)
T ss_pred HHHHHHHHHHHHH----hhHHHHHH---hccchHHHHHHHHHHHHHHH
Confidence 4557888887773 22233333 78999999999999999865
No 8
>KOG0164 consensus Myosin class I heavy chain [Cytoskeleton]
Probab=55.28 E-value=23 Score=40.29 Aligned_cols=69 Identities=16% Similarity=0.257 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHhhHhhhhhHHHHHHHHH---------HHHHHHHHHHHHHhccccchhcccc------CHHHHHHHHHHH
Q 015925 248 QDAAMMIQITFRAYLIRRSQALRALRDL---------AVAKTKLKEIRALFNNFSYRQIVSR------DAEERQRFSEKI 312 (398)
Q Consensus 248 e~AA~~IQaaFRGyLVRRSq~LRaLR~I---------a~vKsklkelr~l~~~~~~r~~i~~------D~eER~riSE~i 312 (398)
..-|+.||++|||+++|.. .+.+|.. ..+|+-+.+|+..|.+.-.++.... .|.-=..+++.+
T Consensus 696 ~~lvtllQK~~RG~~~R~r--y~rmka~~~ii~wyR~~K~ks~v~el~~~~rg~k~~r~ygk~~~WP~pP~~Lr~~~~~L 773 (1001)
T KOG0164|consen 696 PSLVTLLQKAWRGWLARQR--YRRMKASATIIRWYRRYKLKSYVQELQRRFRGAKQMRDYGKSIRWPAPPLVLREFEELL 773 (1001)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCCCCCCCCCchHHHHHHHHH
Confidence 3468999999999999962 2333332 3467888888888877544333222 122223455666
Q ss_pred HHHHhh
Q 015925 313 IVLLLT 318 (398)
Q Consensus 313 M~LLLr 318 (398)
-.|..+
T Consensus 774 ~~lf~r 779 (1001)
T KOG0164|consen 774 RELFIR 779 (1001)
T ss_pred HHHHHH
Confidence 555554
No 9
>KOG0162 consensus Myosin class I heavy chain [Cytoskeleton]
Probab=50.86 E-value=16 Score=41.62 Aligned_cols=18 Identities=33% Similarity=0.514 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHhhHhhhh
Q 015925 248 QDAAMMIQITFRAYLIRR 265 (398)
Q Consensus 248 e~AA~~IQaaFRGyLVRR 265 (398)
+.-|++||.+||.|++||
T Consensus 696 d~~A~~IQkAWRrfv~rr 713 (1106)
T KOG0162|consen 696 DGMARRIQKAWRRFVARR 713 (1106)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 346899999999999998
No 10
>PTZ00014 myosin-A; Provisional
Probab=47.39 E-value=18 Score=40.77 Aligned_cols=19 Identities=5% Similarity=0.064 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHhhHhhhhh
Q 015925 248 QDAAMMIQITFRAYLIRRS 266 (398)
Q Consensus 248 e~AA~~IQaaFRGyLVRRS 266 (398)
..+|..||++||||+.||+
T Consensus 777 ~~~~~~iq~~~r~~~~r~~ 795 (821)
T PTZ00014 777 EPLVSVLEALILKIKKKRK 795 (821)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4567888888888888875
No 11
>PTZ00014 myosin-A; Provisional
Probab=45.72 E-value=30 Score=39.09 Aligned_cols=20 Identities=20% Similarity=0.190 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHhhHhhhhh
Q 015925 247 PQDAAMMIQITFRAYLIRRS 266 (398)
Q Consensus 247 ~e~AA~~IQaaFRGyLVRRS 266 (398)
...|+++||+++||||+++.
T Consensus 799 ~~~~~~~iQ~~~R~~l~~~~ 818 (821)
T PTZ00014 799 NIKSLVRIQAHLRRHLVIAE 818 (821)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 36799999999999999973
No 12
>PF08763 Ca_chan_IQ: Voltage gated calcium channel IQ domain; InterPro: IPR014873 Ca2+ ions are unique in that they not only carry charge but they are also the most widely used of diffusible second messengers. Voltage-dependent Ca2+ channels (VDCC) are a family of molecules that allow cells to couple electrical activity to intracellular Ca2+ signalling. The opening and closing of these channels by depolarizing stimuli, such as action potentials, allows Ca2+ ions to enter neurons down a steep electrochemical gradient, producing transient intracellular Ca2+ signals. Many of the processes that occur in neurons, including transmitter release, gene transcription and metabolism are controlled by Ca2+ influx occurring simultaneously at different cellular locales. The pore is formed by the alpha-1 subunit which incorporates the conduction pore, the voltage sensor and gating apparatus, and the known sites of channel regulation by second messengers, drugs, and toxins []. The activity of this pore is modulated by 4 tightly-coupled subunits: an intracellular beta subunit; a transmembrane gamma subunit; and a disulphide-linked complex of alpha-2 and delta subunits, which are proteolytically cleaved from the same gene product. Properties of the protein including gating voltage-dependence, G protein modulation and kinase susceptibility can be influenced by these subunits. Voltage-gated calcium channels are classified as T, L, N, P, Q and R, and are distinguished by their sensitivity to pharmacological blocks, single-channel conductance kinetics, and voltage-dependence. On the basis of their voltage activation properties, the voltage-gated calcium classes can be further divided into two broad groups: the low (T-type) and high (L, N, P, Q and R-type) threshold-activated channels. The voltage-gated calcium channel alpha 1 subunit contains an IQ domain, named for its isoleucine-glutamine (IQ) motif, which interacts with hydrophobic pockets of Ca2+/calmodulin []. The interaction regulates two self-regulatory calcium dependent feedback mechanisms, calcium dependent inactivation (CDI), and calcium-dependent facilitation (CDF). ; PDB: 3OXQ_F 2F3Z_B 3G43_E 2F3Y_B 2BE6_D 3DVM_B 3BXK_D 2VAY_B 3DVK_B 3BXL_B ....
Probab=43.90 E-value=24 Score=25.78 Aligned_cols=18 Identities=33% Similarity=0.497 Sum_probs=16.4
Q ss_pred HHHHHHHHHHhhHhhhhh
Q 015925 249 DAAMMIQITFRAYLIRRS 266 (398)
Q Consensus 249 ~AA~~IQaaFRGyLVRRS 266 (398)
-||.+||-.||-|-.||-
T Consensus 10 YAt~lI~dyfr~~K~rk~ 27 (35)
T PF08763_consen 10 YATLLIQDYFRQFKKRKE 27 (35)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 599999999999999984
No 13
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=37.26 E-value=1.7e+02 Score=32.83 Aligned_cols=74 Identities=19% Similarity=0.270 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHHHHHhccccchhccccCHHHHHHH-HHHHHHHHhhccccccCChHHHHHHHhHHHHHHHHHhhhcC
Q 015925 271 ALRDLAVAKTKLKEIRALFNNFSYRQIVSRDAEERQRF-SEKIIVLLLTVDAIEGADLMVRAAKRSMVDELEAMLDVVDP 349 (398)
Q Consensus 271 aLR~Ia~vKsklkelr~l~~~~~~r~~i~~D~eER~ri-SE~iM~LLLrLDSIQG~Dp~VRe~RKSvsrEL~~~qD~VDs 349 (398)
+|.+|..++.+.+.|+..-.... +++ .+..++|.. ..++=.+|=.+ +-..|..-++=|.|.+||+.|.+.|+.
T Consensus 577 Ql~~L~~l~e~~~~l~~~ae~La--eR~-e~a~d~Qe~L~~R~~~vl~~l---~~~~P~LS~AEr~~~~EL~~~~~~l~~ 650 (717)
T PF10168_consen 577 QLKELQELQEERKSLRESAEKLA--ERY-EEAKDKQEKLMKRVDRVLQLL---NSQLPVLSEAEREFKKELERMKDQLQD 650 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHH-HHHHHHHHHHHHHHHHHHHHH---hccCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555544432221 122 234455544 23333333333 223466677778999998888887765
Q ss_pred C
Q 015925 350 Q 350 (398)
Q Consensus 350 ~ 350 (398)
+
T Consensus 651 l 651 (717)
T PF10168_consen 651 L 651 (717)
T ss_pred H
Confidence 4
No 14
>PF12645 HTH_16: Helix-turn-helix domain; InterPro: IPR024760 This domain appears to be a helix-turn-helix domain, suggesting a transcriptional regulatory protein. Some proteins with this domain are annotated as conjugative transposon proteins.
Probab=36.71 E-value=85 Score=24.81 Aligned_cols=53 Identities=23% Similarity=0.184 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHhccccchhccccCHHHHHHHHHHHHHHHhhc
Q 015925 248 QDAAMMIQITFRAYLIRRSQALRALRDLAVAKTKLKEIRALFNNFSYRQIVSRDAEERQRFSEKIIVLLLTV 319 (398)
Q Consensus 248 e~AA~~IQaaFRGyLVRRSq~LRaLR~Ia~vKsklkelr~l~~~~~~r~~i~~D~eER~riSE~iM~LLLrL 319 (398)
.+|-..|-.+|++|+.+.| +|.+-. ........-|..=||++..++|.-+++.
T Consensus 12 ~~A~~~IL~~y~~yI~kls-----~r~~~d--------------~~g~~~~~vDedl~q~l~~kLi~~I~~F 64 (65)
T PF12645_consen 12 PEAMEEILKHYEPYISKLS-----TRTLYD--------------EYGNVYGYVDEDLKQRLEIKLIEAILKF 64 (65)
T ss_pred HHHHHHHHHHHHHHHHHHH-----Hhhccc--------------ccCCcCceeCHHHHHHHHHHHHHHHHcc
Confidence 7889999999999999973 333221 1112244458888999999999888765
No 15
>CHL00002 matK maturase K
Probab=28.85 E-value=33 Score=36.86 Aligned_cols=29 Identities=45% Similarity=0.785 Sum_probs=22.2
Q ss_pred CCCCCCccchhhhccccccccCCCCCCCCCCCCCccc
Q 015925 23 SIFPSFVEDEVHDLSSALDFFNPALDFFNPSPTPFEI 59 (398)
Q Consensus 23 ~~f~~f~~~~~~~ls~~~~ff~~~~dl~~~~p~p~~~ 59 (398)
|+|| |.|+- +|..|.-+|++-|-|.|+|+
T Consensus 130 SiFp-FlEdk-------f~h~n~v~di~IPypiH~Ei 158 (504)
T CHL00002 130 SIFP-FLEDK-------FSHLNYVSDILIPYPIHLEI 158 (504)
T ss_pred cCcc-ccccc-------cccccchhcccccCcccHHH
Confidence 6799 77776 34566788998888888886
No 16
>KOG0160 consensus Myosin class V heavy chain [Cytoskeleton]
Probab=28.37 E-value=75 Score=36.58 Aligned_cols=41 Identities=24% Similarity=0.354 Sum_probs=18.5
Q ss_pred CchhHHHHHHHHhhhcccccCCCcccCCCHHHHHHHHHHHHhhHhhhh
Q 015925 218 DHGAVVLRQAFAKRFGSVRNNKGKQKELSPQDAAMMIQITFRAYLIRR 265 (398)
Q Consensus 218 ~~g~v~~r~afa~~~g~v~~~kgkkk~lS~e~AA~~IQaaFRGyLVRR 265 (398)
++-++.|++.|....+ .++=+-...|++.||+..||+++|+
T Consensus 673 ~~~~~~iq~~~r~~~~-------r~~f~~~r~~~~~~Q~~~rG~~~r~ 713 (862)
T KOG0160|consen 673 SAAKVLIQRQIRGYLA-------RKKFLQLRSAVIIIQAYSRGVLARR 713 (862)
T ss_pred hhHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHhhhhhHHHHHH
Confidence 4445556666655432 1222223344444444444444444
No 17
>KOG0160 consensus Myosin class V heavy chain [Cytoskeleton]
Probab=27.13 E-value=1e+02 Score=35.45 Aligned_cols=39 Identities=36% Similarity=0.452 Sum_probs=27.4
Q ss_pred hHHHHHHHHhhhcccccCCCcccCCCHHHHHHHHHHHHhhHhhhhh
Q 015925 221 AVVLRQAFAKRFGSVRNNKGKQKELSPQDAAMMIQITFRAYLIRRS 266 (398)
Q Consensus 221 ~v~~r~afa~~~g~v~~~kgkkk~lS~e~AA~~IQaaFRGyLVRRS 266 (398)
+|..=|++.+++-+.+ .. . .+.||+.||.++|+|+.||.
T Consensus 698 ~~~~~Q~~~rG~~~r~-----~~-~-~~~aai~~q~~~r~~~~r~~ 736 (862)
T KOG0160|consen 698 AVIIIQAYSRGVLARR-----ET-E-REAAAIGIQKECRSYLNRRR 736 (862)
T ss_pred HHHHHhhhhhHHHHHH-----hh-H-HHHHHHHhHHHHHHHHHHHH
Confidence 3444466666655443 11 2 78999999999999999994
No 18
>PF01824 MatK_N: MatK/TrnK amino terminal region; InterPro: IPR002866 Group II introns use intron-encoded reverse transcriptase, maturase and DNA endonuclease activities for site-specific insertion into DNA []. Although this type of intron is self splicing in vitro they require a maturase protein for splicing in vivo. These introns are found in plant organelles []. Maturases in higher plants are encoded for in the nuclear genes [] but are otherwise encoded by organellar introns. The Maturase-related, N-terminal domain is found in plant potential maturases, which probably assists in the splicing of chloroplast group II introns []. The function of this region is, however, unknown It has been shown that a specific region of the aI2 intron is needed for the maturase function []. This C-terminal region was found to be conserved in group II introns and called domain X [].; GO: 0006397 mRNA processing, 0009507 chloroplast
Probab=26.55 E-value=35 Score=35.03 Aligned_cols=29 Identities=48% Similarity=0.833 Sum_probs=21.4
Q ss_pred CCCCCCccchhhhccccccccCCCCCCCCCCCCCccc
Q 015925 23 SIFPSFVEDEVHDLSSALDFFNPALDFFNPSPTPFEI 59 (398)
Q Consensus 23 ~~f~~f~~~~~~~ls~~~~ff~~~~dl~~~~p~p~~~ 59 (398)
|+|| |.|+-+ +..|.-+|.+-|-|-++|+
T Consensus 130 SiFp-FlEDkf-------~hln~vldi~IPypiHlEi 158 (331)
T PF01824_consen 130 SIFP-FLEDKF-------SHLNYVLDILIPYPIHLEI 158 (331)
T ss_pred ccCC-cccCCc-------cccceeeeeccccccccce
Confidence 5588 777663 3456788998888888886
No 19
>PF11867 DUF3387: Domain of unknown function (DUF3387); InterPro: IPR021810 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is typically between 255 to 340 amino acids in length. This domain is found associated with PF04851 from PFAM, PF04313 from PFAM.
Probab=26.36 E-value=3.2e+02 Score=27.23 Aligned_cols=74 Identities=23% Similarity=0.380 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHHHHhccccchhccccCHHHHHHHHHHHHHHHhhccccccCChHHHHHHHhHHHHHHHHHhhhcCCCCC
Q 015925 275 LAVAKTKLKEIRALFNNFSYRQIVSRDAEERQRFSEKIIVLLLTVDAIEGADLMVRAAKRSMVDELEAMLDVVDPQPAG 353 (398)
Q Consensus 275 Ia~vKsklkelr~l~~~~~~r~~i~~D~eER~riSE~iM~LLLrLDSIQG~Dp~VRe~RKSvsrEL~~~qD~VDs~~~~ 353 (398)
+..++.+++.++..|.++.+..-+..++.+|+.+-..+++.||..|.- ..|..=...+++|....+.+-|.+..
T Consensus 17 v~~l~e~l~~~~~~~~~~d~~~~~~~~~~~~l~~l~~a~~~il~~~~~-----~~r~~F~~~~~~l~~~~~l~~p~~~a 90 (335)
T PF11867_consen 17 VEVLKEKLEILRDFFHGFDYSKFFEASPFERLELLDDAVDHILSLEDE-----ERRKRFLKLVKELSKAYALCLPDPEA 90 (335)
T ss_pred HHHHHHHHHHHHHHhcCCChHHhcCCChHHHHHHHHHHHHHHhcccch-----hHHHHHHHHHHHHHHHHHHHCCCHHH
Confidence 566778888899999999888888888889998888889888876532 24444444555666666666665543
No 20
>KOG0377 consensus Protein serine/threonine phosphatase RDGC/PPEF, contains STphosphatase and EF-hand domains [Signal transduction mechanisms]
Probab=25.95 E-value=46 Score=36.27 Aligned_cols=18 Identities=39% Similarity=0.477 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHhhHhhhh
Q 015925 248 QDAAMMIQITFRAYLIRR 265 (398)
Q Consensus 248 e~AA~~IQaaFRGyLVRR 265 (398)
=-||+.||.-||+|-+|+
T Consensus 17 ikaAilIQkWYRr~~ARl 34 (631)
T KOG0377|consen 17 IKAAILIQKWYRRYEARL 34 (631)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 579999999999999997
No 21
>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family. This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.
Probab=25.60 E-value=6.7e+02 Score=24.85 Aligned_cols=91 Identities=11% Similarity=0.154 Sum_probs=46.8
Q ss_pred CCHHHHHHHHHHH---HhhHhhhhhH-----HHHHH-HHHHHHHHHHHHHHHHhccccchhccccCHHHHHH-HH-----
Q 015925 245 LSPQDAAMMIQIT---FRAYLIRRSQ-----ALRAL-RDLAVAKTKLKEIRALFNNFSYRQIVSRDAEERQR-FS----- 309 (398)
Q Consensus 245 lS~e~AA~~IQaa---FRGyLVRRSq-----~LRaL-R~Ia~vKsklkelr~l~~~~~~r~~i~~D~eER~r-iS----- 309 (398)
.+|+.||...++. ...|+-+.+. ++.-| .+|..++.+|.+.+..++.+.....+- |+.+... ..
T Consensus 140 ~dP~~A~~ian~l~~~~~~~i~~~~~~~~~~a~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~~~-d~~~~~~~~~~~i~~ 218 (362)
T TIGR01010 140 FDAEEAQKINQRLLKEGERLINRLNERARKDTIAFAENEVKEAEQRLNATKAELLKYQIKNKVF-DPKAQSSAQLSLIST 218 (362)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-ChHHHHHHHHHHHHH
Confidence 6778888877777 4455444211 11112 346666777777776666655443332 4433221 11
Q ss_pred --HHHHHHHhhcccc---ccC-ChHHHHHHHhH
Q 015925 310 --EKIIVLLLTVDAI---EGA-DLMVRAAKRSM 336 (398)
Q Consensus 310 --E~iM~LLLrLDSI---QG~-Dp~VRe~RKSv 336 (398)
..+..+=.+|+.+ -|- ||.|+..|..+
T Consensus 219 L~~~l~~~~~~l~~l~~~~~~~~P~v~~l~~~i 251 (362)
T TIGR01010 219 LEGELIRVQAQLAQLRSITPEQNPQVPSLQARI 251 (362)
T ss_pred HHHHHHHHHHHHHHHHhhCCCCCCchHHHHHHH
Confidence 2222222333333 344 89988877543
No 22
>KOG4072 consensus Signal peptidase complex, subunit SPC25 [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.41 E-value=31 Score=31.31 Aligned_cols=27 Identities=19% Similarity=0.373 Sum_probs=18.2
Q ss_pred CceeeEEEeeccccchhhhhhhccccceeeEeeecCC
Q 015925 132 DRKYKWTAEIKKGKKKKEEEKKVDKSYKWTAKIKGKD 168 (398)
Q Consensus 132 DRKyKWtAEik~~~~~k~k~~~~~rk~KWtaEIKGkg 168 (398)
+|+|+|.++++- ++-+|-|+.+.+.+.
T Consensus 55 ~r~W~~ss~~ka----------~dDky~l~l~f~~gr 81 (127)
T KOG4072|consen 55 DRIWQLSSSLKA----------FDDKYTLKLTFISGR 81 (127)
T ss_pred Ccccccchhhhh----------ccCcceeEEEEEecc
Confidence 677777777743 356777777776444
No 23
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=24.01 E-value=2.3e+02 Score=33.22 Aligned_cols=35 Identities=26% Similarity=0.371 Sum_probs=26.9
Q ss_pred hhcccccCCCcccCCCHHHHHHHHHHHHhhHhhhh
Q 015925 231 RFGSVRNNKGKQKELSPQDAAMMIQITFRAYLIRR 265 (398)
Q Consensus 231 ~~g~v~~~kgkkk~lS~e~AA~~IQaaFRGyLVRR 265 (398)
.+|+.---|=|.|-.=...+..++|+.-||||+|+
T Consensus 796 q~~a~sVIKLkNkI~yRae~v~k~Q~~~Rg~L~rk 830 (1259)
T KOG0163|consen 796 QYGALSVIKLKNKIIYRAECVLKAQRIARGYLARK 830 (1259)
T ss_pred hhhhhheeehhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35555444666666667888999999999999997
No 24
>KOG4326 consensus Mitochondrial F1F0-ATP synthase, subunit e [Energy production and conversion]
Probab=23.51 E-value=4.5e+02 Score=22.40 Aligned_cols=63 Identities=17% Similarity=0.317 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHhccccchhccccCHHHHHHHHHHHHHHHhhccccc
Q 015925 248 QDAAMMIQITFRAYLIRRSQALRALRDLAVAKTKLKEIRALFNNFSYRQIVSRDAEERQRFSEKIIVLLLTVDAIE 323 (398)
Q Consensus 248 e~AA~~IQaaFRGyLVRRSq~LRaLR~Ia~vKsklkelr~l~~~~~~r~~i~~D~eER~riSE~iM~LLLrLDSIQ 323 (398)
..+|..+=-+|=+|-.|+ ||+-..--.+.+.-+..++.. ..+.|+-++.+..|.-|..++.|+
T Consensus 16 RysaL~lGvaYGa~r~~~------l~~~~e~~Rei~a~eKav~da-------~~a~ekKr~a~~eaR~Lae~~~i~ 78 (81)
T KOG4326|consen 16 RYSALSLGVAYGAFRLRQ------LREYHEDIREIDAHEKAVADA-------EEAAEKKRWAKDEARYLAEVVNIP 78 (81)
T ss_pred HHHHHHHHHHHhHHHHHH------HhHHHHHHHHHHHHHHHHHhH-------HHHHHHHhhHHHHHHHHHHhccCC
Confidence 467777777887776665 333222111111111122221 134578899999999999999986
No 25
>cd07820 SRPBCC_3 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=23.42 E-value=2.1e+02 Score=23.75 Aligned_cols=50 Identities=20% Similarity=0.274 Sum_probs=32.0
Q ss_pred CceeEEEEeecCCCCCceeeEEEeeccccchhhhhhhccccceeeEeeecCCCC-CcceeeEee
Q 015925 117 DRKYTWTAEIEGGAVDRKYKWTAEIKKGKKKKEEEKKVDKSYKWTAKIKGKDDE-SRTYTFVAS 179 (398)
Q Consensus 117 ~RkytW~AEi~gp~~DRKyKWtAEik~~~~~k~k~~~~~rk~KWtaEIKGkg~~-sr~yt~e~~ 179 (398)
+-.++|....-| .+++|+++|-.-.. .+.+.|. .++|+-.. .|+++|+..
T Consensus 47 G~~~~~~~~~~~----~~~~w~~~it~~~p--------~~~f~~~-~~~G~~~~w~h~~~f~~~ 97 (137)
T cd07820 47 GARVTYRLRHFG----IPQRWTTEITEVEP--------PRRFVDE-QVSGPFRSWRHTHRFEAI 97 (137)
T ss_pred CcEEEEEEEecC----CceEEEEEEEEEcC--------CCeEEEE-eccCCchhCEEEEEEEEC
Confidence 345888887665 46899998843211 2457777 46665432 677788754
No 26
>COG5360 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.18 E-value=2.4e+02 Score=30.93 Aligned_cols=41 Identities=34% Similarity=0.410 Sum_probs=31.0
Q ss_pred cCHHHHHHHH-HHHHHHHhhccccccCChHHHHHHHhHHHHHHHHH
Q 015925 300 RDAEERQRFS-EKIIVLLLTVDAIEGADLMVRAAKRSMVDELEAML 344 (398)
Q Consensus 300 ~D~eER~riS-E~iM~LLLrLDSIQG~Dp~VRe~RKSvsrEL~~~q 344 (398)
.|-+||+++- --.|.+| +.++--|.||.+.|.+..||.+++
T Consensus 187 ~dge~Rlrariala~a~~----~~P~~~s~ir~a~rnL~~eL~rqi 228 (566)
T COG5360 187 PDGEERLRARIALAMASL----AMPARASAIRAALRNLAPELERQI 228 (566)
T ss_pred CChHHHHHHHHHHHHHHh----cCCCChHHHHHHHHhhhHHHHhhh
Confidence 3778888874 4445544 347888999999999999988754
No 27
>PF08485 Polysacc_syn_2C: Polysaccharide biosynthesis protein C-terminal; InterPro: IPR013692 This domain is found to the C terminus of the IPR003869 from INTERPRO domain in bacterial polysaccharide biosynthesis enzymes including the capsule protein CapD [] and several putative epimerases/dehydratases. ; GO: 0003978 UDP-glucose 4-epimerase activity, 0009103 lipopolysaccharide biosynthetic process
Probab=22.62 E-value=51 Score=25.46 Aligned_cols=14 Identities=43% Similarity=0.605 Sum_probs=12.4
Q ss_pred HHHHHHHhhccccc
Q 015925 310 EKIIVLLLTVDAIE 323 (398)
Q Consensus 310 E~iM~LLLrLDSIQ 323 (398)
|.++.|||+||-||
T Consensus 35 e~~k~lLl~L~~iq 48 (48)
T PF08485_consen 35 EEMKELLLKLDYIQ 48 (48)
T ss_pred HHHHHHHHhChhcC
Confidence 78999999998876
No 28
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins 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 []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. 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. ; GO: 0010508 positive regulation of autophagy
Probab=21.22 E-value=6.6e+02 Score=23.39 Aligned_cols=20 Identities=15% Similarity=0.434 Sum_probs=17.2
Q ss_pred hHHHHHHHhHHHHHHHHHhh
Q 015925 327 LMVRAAKRSMVDELEAMLDV 346 (398)
Q Consensus 327 p~VRe~RKSvsrEL~~~qD~ 346 (398)
..+...|+.++++|..+.-+
T Consensus 140 ~~l~~~r~~l~~~l~~ifpI 159 (302)
T PF10186_consen 140 SQLARRRRQLIQELSEIFPI 159 (302)
T ss_pred HHHHHHHHHHHHHHHHHhCc
Confidence 67888999999999887766
Done!