Query psy6305
Match_columns 52
No_of_seqs 129 out of 1012
Neff 5.4
Searched_HMMs 46136
Date Fri Aug 16 23:00:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6305.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6305hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00875 DNA_photolyase: DNA p 99.7 1E-16 2.2E-21 98.3 4.4 36 13-48 1-37 (165)
2 TIGR02765 crypto_DASH cryptoch 99.6 2.4E-15 5.3E-20 103.6 5.1 39 12-50 2-41 (429)
3 TIGR02766 crypt_chrom_pln cryp 99.5 2.9E-15 6.3E-20 104.7 3.5 37 14-50 1-37 (475)
4 TIGR00591 phr2 photolyase PhrI 99.5 1.3E-14 2.8E-19 100.9 6.1 44 7-50 19-67 (454)
5 PRK10674 deoxyribodipyrimidine 99.5 2.5E-14 5.5E-19 100.6 4.8 38 12-49 3-42 (472)
6 TIGR03556 photolyase_8HDF deox 99.5 4E-14 8.6E-19 99.6 4.6 39 12-50 2-41 (471)
7 COG0415 PhrB Deoxyribodipyrimi 99.4 8.1E-13 1.8E-17 94.6 4.9 40 11-50 2-43 (461)
8 KOG0133|consensus 99.3 5.9E-13 1.3E-17 96.6 3.4 41 10-50 4-45 (531)
9 cd05855 Ig_TrkB_d5 Fifth domai 49.4 8 0.00017 21.4 0.6 17 11-27 12-28 (79)
10 cd05883 Ig2_Necl-2 Second immu 43.0 30 0.00065 19.5 2.4 37 11-47 14-51 (82)
11 cd05857 Ig2_FGFR Second immuno 35.0 34 0.00073 17.8 1.7 16 11-26 23-38 (85)
12 cd02991 UAS_ETEA UAS family, E 33.9 76 0.0017 18.6 3.2 21 27-47 8-28 (116)
13 cd02990 UAS_FAF1 UAS family, F 31.8 68 0.0015 19.8 2.9 22 27-48 8-33 (136)
14 cd05895 Ig_Pro_neuregulin-1 Im 29.4 50 0.0011 16.9 1.8 14 11-24 13-26 (76)
15 PF10856 DUF2678: Protein of u 28.8 25 0.00055 21.7 0.6 8 13-20 78-86 (118)
16 smart00594 UAS UAS domain. 27.5 98 0.0021 17.8 2.9 22 26-47 17-38 (122)
17 cd05755 Ig2_ICAM-1_like Second 26.9 65 0.0014 18.7 2.1 19 9-27 31-49 (100)
18 PRK10595 SOS cell division inh 26.7 98 0.0021 19.8 3.0 28 11-38 108-135 (164)
19 cd05893 Ig_Palladin_C C-termin 26.1 37 0.0008 18.0 0.9 13 11-23 12-24 (75)
20 TIGR00623 sula cell division i 25.8 1E+02 0.0022 19.9 3.0 27 11-37 112-138 (168)
21 cd05892 Ig_Myotilin_C C-termin 25.8 44 0.00095 17.8 1.1 14 11-24 12-25 (75)
22 cd02958 UAS UAS family; UAS is 25.0 1.3E+02 0.0029 16.7 3.1 22 26-47 7-28 (114)
23 cd05885 Ig2_Necl-4 Second immu 24.7 52 0.0011 18.3 1.4 16 11-26 14-29 (80)
24 cd05756 Ig1_IL1R_like First im 23.8 62 0.0013 17.9 1.6 12 11-22 33-44 (94)
25 cd01886 EF-G Elongation factor 23.1 1.1E+02 0.0023 20.4 2.8 19 27-45 231-249 (270)
26 cd05874 Ig6_NrCAM Sixth immuno 22.9 71 0.0015 16.8 1.6 13 11-23 12-24 (77)
27 cd07700 IgV_CD8_beta Immunoglo 22.5 54 0.0012 18.2 1.2 12 11-22 21-32 (107)
28 cd05720 Ig_CD8_alpha Immunoglo 21.9 61 0.0013 18.1 1.3 12 11-22 20-31 (104)
29 cd05859 Ig4_PDGFR-alpha Fourth 21.8 51 0.0011 18.6 1.0 16 12-27 33-48 (101)
30 cd04973 Ig1_FGFR First immunog 21.3 98 0.0021 16.1 2.0 14 12-25 23-36 (79)
31 cd05750 Ig_Pro_neuregulin Immu 21.2 99 0.0021 15.4 1.9 14 11-24 13-26 (75)
32 KOG1486|consensus 21.2 1.4E+02 0.003 21.5 3.1 30 14-46 216-247 (364)
33 cd04168 TetM_like Tet(M)-like 20.9 1.2E+02 0.0026 19.6 2.6 19 27-45 198-216 (237)
34 cd05738 Ig2_RPTP_IIa_LAR_like 20.8 47 0.001 17.1 0.6 14 11-24 12-25 (74)
35 cd05763 Ig_1 Subgroup of the i 20.7 90 0.002 15.8 1.7 11 11-21 12-22 (75)
36 cd05744 Ig_Myotilin_C_like Imm 20.5 71 0.0015 16.6 1.3 14 11-24 12-25 (75)
37 cd05760 Ig2_PTK7 Second immuno 20.0 51 0.0011 17.2 0.7 15 11-25 12-26 (77)
No 1
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=99.66 E-value=1e-16 Score=98.31 Aligned_cols=36 Identities=56% Similarity=0.993 Sum_probs=29.7
Q ss_pred EEEEecCCCCccChHHHHHHHhCCC-eEEEEEeCCCc
Q psy6305 13 AVHWFRHGLRLHDNPALFEASLNSV-LYPVFIFDGET 48 (52)
Q Consensus 13 ~l~WfR~DLRl~DN~aL~~A~~~~~-vi~vyi~dp~~ 48 (52)
+|+|||+|||++|||||++|++.+. |+||||+||..
T Consensus 1 ~l~Wfr~DLRl~DN~aL~~A~~~~~~v~~vfv~d~~~ 37 (165)
T PF00875_consen 1 VLVWFRRDLRLHDNPALHAAAQNGDPVLPVFVFDPEE 37 (165)
T ss_dssp EEEEESS--SSTT-HHHHHHHHTTSEEEEEEEE-HHG
T ss_pred CEEEEcCCCchhhhHHHHHHHHcCCCeEEEEEecccc
Confidence 5899999999999999999999987 99999999983
No 2
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=99.58 E-value=2.4e-15 Score=103.58 Aligned_cols=39 Identities=49% Similarity=0.872 Sum_probs=35.6
Q ss_pred eEEEEecCCCCccChHHHHHHHhCCC-eEEEEEeCCCccc
Q psy6305 12 VAVHWFRHGLRLHDNPALFEASLNSV-LYPVFIFDGETAG 50 (52)
Q Consensus 12 ~~l~WfR~DLRl~DN~aL~~A~~~~~-vi~vyi~dp~~~~ 50 (52)
.+|+|||+|||++||+||.+|++.+. |+||||+||++++
T Consensus 2 ~~l~WfRrDLRl~DN~aL~~A~~~~~~vl~vfi~dp~~~~ 41 (429)
T TIGR02765 2 VVLYWFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFK 41 (429)
T ss_pred eEEEEeCCCCccccHHHHHHHHhcCCeEEEEEEECchHhc
Confidence 57999999999999999999998776 9999999998754
No 3
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=99.55 E-value=2.9e-15 Score=104.71 Aligned_cols=37 Identities=43% Similarity=0.832 Sum_probs=33.2
Q ss_pred EEEecCCCCccChHHHHHHHhCCCeEEEEEeCCCccc
Q psy6305 14 VHWFRHGLRLHDNPALFEASLNSVLYPVFIFDGETAG 50 (52)
Q Consensus 14 l~WfR~DLRl~DN~aL~~A~~~~~vi~vyi~dp~~~~ 50 (52)
|+|||+|||++|||||.+|++.+.|+||||+||.+++
T Consensus 1 l~WFRrDLRl~DN~aL~~A~~~~~vlpvyi~dp~~~~ 37 (475)
T TIGR02766 1 IVWFRRDLRVEDNPALAAAARAGPVIPVFVWAPEEEG 37 (475)
T ss_pred CEecCCCCCcchHHHHHHHHhCCCEEEEEEechHHhc
Confidence 6999999999999999999876569999999998654
No 4
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.54 E-value=1.3e-14 Score=100.88 Aligned_cols=44 Identities=25% Similarity=0.264 Sum_probs=36.6
Q ss_pred CCCCceEEEEecCCCCccChHHHHHHHh--C--CC-eEEEEEeCCCccc
Q psy6305 7 PNNKEVAVHWFRHGLRLHDNPALFEASL--N--SV-LYPVFIFDGETAG 50 (52)
Q Consensus 7 ~~~~~~~l~WfR~DLRl~DN~aL~~A~~--~--~~-vi~vyi~dp~~~~ 50 (52)
+.++..+|+|||+|||++|||||.+|++ . +. |+||||+||.+..
T Consensus 19 ~~~~~~vL~WFRrDLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~ 67 (454)
T TIGR00591 19 LRSSGVVVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLA 67 (454)
T ss_pred CCCCCeEEEEecCchhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCccc
Confidence 3455668999999999999999999975 2 44 9999999998753
No 5
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=99.50 E-value=2.5e-14 Score=100.60 Aligned_cols=38 Identities=37% Similarity=0.576 Sum_probs=34.0
Q ss_pred eEEEEecCCCCccChHHHHHHHhCC-C-eEEEEEeCCCcc
Q psy6305 12 VAVHWFRHGLRLHDNPALFEASLNS-V-LYPVFIFDGETA 49 (52)
Q Consensus 12 ~~l~WfR~DLRl~DN~aL~~A~~~~-~-vi~vyi~dp~~~ 49 (52)
++|+|||||||++||+||.+|++.+ . |+||||+||.++
T Consensus 3 ~~l~WfRrDLRl~DN~aL~~A~~~~~~~vlpvyv~dp~~~ 42 (472)
T PRK10674 3 THLVWFRNDLRLHDNLALAAACRDPSARVLALFIATPAQW 42 (472)
T ss_pred ceEEEECCCCCcchHHHHHHHHhCCCCCEEEEEEECchhh
Confidence 3599999999999999999999876 3 999999999754
No 6
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=99.48 E-value=4e-14 Score=99.61 Aligned_cols=39 Identities=31% Similarity=0.483 Sum_probs=34.8
Q ss_pred eEEEEecCCCCccChHHHHHHHhCCC-eEEEEEeCCCccc
Q psy6305 12 VAVHWFRHGLRLHDNPALFEASLNSV-LYPVFIFDGETAG 50 (52)
Q Consensus 12 ~~l~WfR~DLRl~DN~aL~~A~~~~~-vi~vyi~dp~~~~ 50 (52)
.+|+|||+|||++||+||.+|++.+. |++|||+||++..
T Consensus 2 ~vl~WfRrDLRl~DN~AL~~A~~~~~~vl~vfi~dp~~~~ 41 (471)
T TIGR03556 2 LILFWHRRDLRLSDNIGLAAARQQSAKVVGLFCLDPNILQ 41 (471)
T ss_pred CEEEEeCCCCCcchHHHHHHHHhcCCCEEEEEEEchhhhc
Confidence 36999999999999999999998766 9999999997643
No 7
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=99.36 E-value=8.1e-13 Score=94.56 Aligned_cols=40 Identities=43% Similarity=0.697 Sum_probs=36.6
Q ss_pred ceEEEEecCCCCccChHHHHHHHhCCC--eEEEEEeCCCccc
Q psy6305 11 EVAVHWFRHGLRLHDNPALFEASLNSV--LYPVFIFDGETAG 50 (52)
Q Consensus 11 ~~~l~WfR~DLRl~DN~aL~~A~~~~~--vi~vyi~dp~~~~ 50 (52)
+.+|+|||||||++||+||.+|++.+. +++|||++|.++.
T Consensus 2 ~~~l~WfrrDLR~~DN~aL~~A~~~~~~~~~~vfi~~~~~~~ 43 (461)
T COG0415 2 STVLVWFRRDLRLTDNAALAAACQSGQPVIIAVFILDPEQLG 43 (461)
T ss_pred CeEEEEeccccccCChHHHHHHHhcCCCceEEEEEechhhcc
Confidence 578999999999999999999999887 7899999999864
No 8
>KOG0133|consensus
Probab=99.34 E-value=5.9e-13 Score=96.59 Aligned_cols=41 Identities=59% Similarity=1.013 Sum_probs=36.5
Q ss_pred CceEEEEecCCCCccChHHHHHHHhCCC-eEEEEEeCCCccc
Q psy6305 10 KEVAVHWFRHGLRLHDNPALFEASLNSV-LYPVFIFDGETAG 50 (52)
Q Consensus 10 ~~~~l~WfR~DLRl~DN~aL~~A~~~~~-vi~vyi~dp~~~~ 50 (52)
++++++|||+|||+||||||.+|+.+.+ +.||||+||+..+
T Consensus 4 ~~~~v~wfr~~lR~~dnpal~~a~~~~~~~~~v~i~d~~~~~ 45 (531)
T KOG0133|consen 4 GSKSVHWFRKGLRLHDNPALLAAAAGKEPVRPVFILDPEEAG 45 (531)
T ss_pred ccceEEecccCcccccChhhHHHhccCCCceeEEEeCHhHhh
Confidence 4678999999999999999988877777 9999999998754
No 9
>cd05855 Ig_TrkB_d5 Fifth domain (immunoglobulin-like) of Trk receptor TrkB. TrkB_d5: the fifth domain of Trk receptor TrkB, this is an immunoglobulin (Ig)-like domain which binds to neurotrophin. The Trk family of receptors are tyrosine kinase receptors, which mediate the trophic effects of the neurotrophin Nerve growth factor (NGF) family. The Trks are activated by dimerization, leading to autophosphorylation of intracellular tyrosine residues, and triggering the signal transduction pathway. TrkB shares significant sequence homology and domain organization with TrkA, and TrkC. The first three domains are leucine-rich domains. The fourth and fifth domains are Ig-like domains playing a part in ligand binding. TrKB is recognized by brain-derived neurotrophic factor (BDNF) and neurotrophin (NT)-4. In some cell systems NT-3 can activate TrkA and TrkB receptors. TrKB transcripts are found throughout multiple structures of the central and peripheral nervous systems.
Probab=49.45 E-value=8 Score=21.39 Aligned_cols=17 Identities=24% Similarity=0.716 Sum_probs=14.0
Q ss_pred ceEEEEecCCCCccChH
Q psy6305 11 EVAVHWFRHGLRLHDNP 27 (52)
Q Consensus 11 ~~~l~WfR~DLRl~DN~ 27 (52)
...|.|||++-.|.+.+
T Consensus 12 ~Pti~W~kng~~l~~~~ 28 (79)
T cd05855 12 KPTLQWFHEGAILNESE 28 (79)
T ss_pred CCceEEEECCEECCCCc
Confidence 56799999998887765
No 10
>cd05883 Ig2_Necl-2 Second immunoglobulin (Ig)-like domain of nectin-like molecule 2 (also known as cell adhesion molecule 1 (CADM1)). Ig2_Necl-2: second immunoglobulin (Ig)-like domain of nectin-like molecule 2 (also known as cell adhesion molecule 1 (CADM1)). Nectin-like molecules (Necls) have similar domain structures to those of nectins. At least five nectin-like molecules have been identified (Necl-1 - Necl-5). These have an extracellular region containing three Ig-like domains, one transmembrane region, and one cytoplasmic region. Necl-2 has Ca(2+)-independent homophilic and heterophilic cell-cell adhesion activity. Necl-1 is expressed in a wide variety of tissues, and is a putative tumour suppressor gene, which is downregulated in aggressive neuroblastoma. Ig domains are likely to participate in ligand binding and recognition.
Probab=42.98 E-value=30 Score=19.46 Aligned_cols=37 Identities=11% Similarity=0.266 Sum_probs=20.8
Q ss_pred ceEEEEecCCCCccChHHHHHHHhCCC-eEEEEEeCCC
Q psy6305 11 EVAVHWFRHGLRLHDNPALFEASLNSV-LYPVFIFDGE 47 (52)
Q Consensus 11 ~~~l~WfR~DLRl~DN~aL~~A~~~~~-vi~vyi~dp~ 47 (52)
...|.|||.+-.+............+. +.....|.|.
T Consensus 14 ~A~I~W~k~~~~l~~~~~~~~~~~~~~t~~S~L~~~p~ 51 (82)
T cd05883 14 AATIRWFKGNKELTGKSTVEETWSRMFTVTSQLMLKVT 51 (82)
T ss_pred CCEEEEEECCEECcCcccceeccCCCcEEEEEEEEECc
Confidence 456999999988877632111222222 5555555554
No 11
>cd05857 Ig2_FGFR Second immunoglobulin (Ig)-like domain of fibroblast growth factor (FGF) receptor. Ig2_FGFR: second immunoglobulin (Ig)-like domain of fibroblast growth factor (FGF) receptor. FGF receptors bind FGF signaling polypeptides. FGFs participate in multiple processes such as morphogenesis, development, and angiogenesis. FGFs bind to four FGF receptor tyrosine kinases (FGFR1, -2, -3, -4). Receptor diversity is controlled by alternative splicing producing splice variants with different ligand binding characteristics and different expression patterns. FGFRs have an extracellular region comprised of three IG-like domains, a single transmembrane helix, and an intracellular tyrosine kinase domain. Ligand binding and specificity reside in the Ig-like domains 2 and 3, and the linker region that connects these two. FGFR activation and signaling depend on FGF-induced dimerization, a process involving cell surface heparin or heparin sulfate proteoglycans.
Probab=34.98 E-value=34 Score=17.77 Aligned_cols=16 Identities=13% Similarity=0.632 Sum_probs=12.1
Q ss_pred ceEEEEecCCCCccCh
Q psy6305 11 EVAVHWFRHGLRLHDN 26 (52)
Q Consensus 11 ~~~l~WfR~DLRl~DN 26 (52)
...+.|||++-.+.++
T Consensus 23 ~p~i~W~k~g~~l~~~ 38 (85)
T cd05857 23 TPTMRWLKNGKEFKQE 38 (85)
T ss_pred CCEEEEEECCEECCCC
Confidence 3579999998777654
No 12
>cd02991 UAS_ETEA UAS family, ETEA subfamily; composed of proteins similar to human ETEA protein, the translation product of a highly expressed gene in the T-cells and eosinophils of atopic dermatitis patients compared with those of normal individuals. ETEA shows homology to Fas-associated factor 1 (FAF1); both containing UAS and UBX (ubiquitin-associated) domains. Compared to FAF1, however, ETEA lacks the ubiquitin-associated UBA domain and a nuclear targeting domain. The function of ETEA is still unknown. A yeast two-hybrid assay showed that it can interact with Fas. Because of its homology to FAF1, it is postulated that ETEA could be involved in modulating Fas-mediated apoptosis of T-cells and eosinophils of atopic dermatitis patients, making them more resistant to apoptosis.
Probab=33.90 E-value=76 Score=18.57 Aligned_cols=21 Identities=19% Similarity=0.276 Sum_probs=16.1
Q ss_pred HHHHHHHhCCCeEEEEEeCCC
Q psy6305 27 PALFEASLNSVLYPVFIFDGE 47 (52)
Q Consensus 27 ~aL~~A~~~~~vi~vyi~dp~ 47 (52)
.||..|-++...+.||++.|.
T Consensus 8 eAl~~ak~e~K~llVylhs~~ 28 (116)
T cd02991 8 QALNDAKQELRFLLVYLHGDD 28 (116)
T ss_pred HHHHHHHhhCCEEEEEEeCCC
Confidence 567777666669999999884
No 13
>cd02990 UAS_FAF1 UAS family, FAS-associated factor 1 (FAF1) subfamily; FAF1 contains a UAS domain of unknown function N-terminal to a ubiquitin-associated UBX domain. FAF1 also contains ubiquitin-associated UBA and nuclear targeting domains, N-terminal to the UAS domain. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. It is widely expressed in adult and embryonic tissues, and in tumor cell lines, and is localized not only in the cytoplasm where it interacts with Fas, but also in the nucleus. FAF1 contains phosphorylation sites for protein kinase CK2 within the nuclear targeting domain. Phosphorylation influences nuclear localization of FAF1 but does not affect its potentiation of Fas-induced apoptosis. Other functions have also been attributed to FAF1. It inhibits nuclear factor-kB (NF-kB) by interfering with the nuclear
Probab=31.81 E-value=68 Score=19.78 Aligned_cols=22 Identities=23% Similarity=0.412 Sum_probs=15.6
Q ss_pred HHHHHHH----hCCCeEEEEEeCCCc
Q psy6305 27 PALFEAS----LNSVLYPVFIFDGET 48 (52)
Q Consensus 27 ~aL~~A~----~~~~vi~vyi~dp~~ 48 (52)
.||..|+ ++...+.||+..|+-
T Consensus 8 ~Al~~A~~~~~~e~K~L~VYLH~~~~ 33 (136)
T cd02990 8 AAFQEACYRKARDRKLLAIYLHHDES 33 (136)
T ss_pred HHHHHHhhhhhhhcceEEEEEcCCCC
Confidence 4677773 333499999998874
No 14
>cd05895 Ig_Pro_neuregulin-1 Immunoglobulin (Ig)-like domain found in neuregulin (NRG)-1. Ig_Pro_neuregulin-1: immunoglobulin (Ig)-like domain found in neuregulin (NRG)-1. There are many NRG-1 isoforms which arise from the alternative splicing of mRNA. NRG-1 belongs to the neuregulin gene family, which is comprised of four genes. This group represents NRG-1. NRGs are signaling molecules, which participate in cell-cell interactions in the nervous system, breast, and heart, and other organ systems, and are implicated in the pathology of diseases including schizophrenia, multiple sclerosis, and breast cancer. The NRG-1 protein binds to and activates the tyrosine kinases receptors ErbB3 and ErbB4, initiating signaling cascades. NRG-1 has multiple functions; for example, in the brain it regulates various processes such as radial glia formation and neuronal migration, dendritic development, and expression of neurotransmitters receptors; in the peripheral nervous system NRG-1 regulates process
Probab=29.38 E-value=50 Score=16.91 Aligned_cols=14 Identities=21% Similarity=0.797 Sum_probs=10.9
Q ss_pred ceEEEEecCCCCcc
Q psy6305 11 EVAVHWFRHGLRLH 24 (52)
Q Consensus 11 ~~~l~WfR~DLRl~ 24 (52)
...+.||+++-++.
T Consensus 13 ~~~~~W~~~g~~i~ 26 (76)
T cd05895 13 SLRFKWFKNGKEIG 26 (76)
T ss_pred CCceEEEECCcccc
Confidence 45789999887774
No 15
>PF10856 DUF2678: Protein of unknown function (DUF2678); InterPro: IPR022564 This family of proteins has no known function.
Probab=28.79 E-value=25 Score=21.71 Aligned_cols=8 Identities=25% Similarity=1.128 Sum_probs=6.4
Q ss_pred EEEEecC-C
Q psy6305 13 AVHWFRH-G 20 (52)
Q Consensus 13 ~l~WfR~-D 20 (52)
-++|+|+ |
T Consensus 78 LI~WYR~gd 86 (118)
T PF10856_consen 78 LIFWYRQGD 86 (118)
T ss_pred heeehhcCC
Confidence 4789996 6
No 16
>smart00594 UAS UAS domain.
Probab=27.46 E-value=98 Score=17.79 Aligned_cols=22 Identities=23% Similarity=0.217 Sum_probs=15.8
Q ss_pred hHHHHHHHhCCCeEEEEEeCCC
Q psy6305 26 NPALFEASLNSVLYPVFIFDGE 47 (52)
Q Consensus 26 N~aL~~A~~~~~vi~vyi~dp~ 47 (52)
..|+..|.+++..+.||+..++
T Consensus 17 ~~a~~~Ak~~~K~~lv~~~~~~ 38 (122)
T smart00594 17 EAAKQEASRQRRLLWLYLHSQD 38 (122)
T ss_pred HHHHHHHHhhcCCEEEEEeCCC
Confidence 4566777666668888888765
No 17
>cd05755 Ig2_ICAM-1_like Second immunoglobulin (Ig)-like domain of intercellular cell adhesion molecule-1 (ICAM-1, CD54) and similar proteins. Ig2_ ICAM-1_like: domain similar to the second immunoglobulin (Ig)-like domain of intercellular cell adhesion molecule-1 (ICAM-1, CD54). During the inflammation process, these molecules recruit leukocytes onto the vascular endothelium before extravasation to the injured tissues. ICAM-1 may be involved in organ targeted tumor metastasis. The interaction of ICAM-1 with leukocyte function-associated antigen-1 (LFA-1) plays a part in leukocyte-endothelial cell recognition. This group also contains ICAM-2, which also interacts with LFA-1. Transmigration of immature dendritic cells across resting endothelium is dependent on the interaction of ICAM-2 with, yet unidentified, ligand(s) on the dendritic cells. ICAM-1 has five Ig-like domains and ICAM-2 has two. ICAM-1 may also act as host receptor for viruses and parasites.
Probab=26.86 E-value=65 Score=18.70 Aligned_cols=19 Identities=21% Similarity=0.357 Sum_probs=13.4
Q ss_pred CCceEEEEecCCCCccChH
Q psy6305 9 NKEVAVHWFRHGLRLHDNP 27 (52)
Q Consensus 9 ~~~~~l~WfR~DLRl~DN~ 27 (52)
.....|.|||.+=-+..+.
T Consensus 31 ~a~L~i~W~rG~~~l~~~~ 49 (100)
T cd05755 31 RQNLTVVLLRGNETLSRQP 49 (100)
T ss_pred CCcEEEEEeeCCEEcccce
Confidence 3344689999987776643
No 18
>PRK10595 SOS cell division inhibitor; Provisional
Probab=26.68 E-value=98 Score=19.81 Aligned_cols=28 Identities=18% Similarity=0.366 Sum_probs=24.0
Q ss_pred ceEEEEecCCCCccChHHHHHHHhCCCe
Q psy6305 11 EVAVHWFRHGLRLHDNPALFEASLNSVL 38 (52)
Q Consensus 11 ~~~l~WfR~DLRl~DN~aL~~A~~~~~v 38 (52)
...|.|.-..++..+-.-|..|++.++.
T Consensus 108 ~aVL~Wlp~~l~~~~~RRLQlAAe~g~~ 135 (164)
T PRK10595 108 SVVLGWLPDELTEEEHARLVDAAQEGNA 135 (164)
T ss_pred cEEEECCcccCCHHHHHHHHHHHHhCCC
Confidence 4568899889999999999999988873
No 19
>cd05893 Ig_Palladin_C C-terminal immunoglobulin (Ig)-like domain of palladin. Ig_Palladin_C: C-terminal immunoglobulin (Ig)-like domain of palladin. Palladin belongs to the palladin-myotilin-myopalladin family. Proteins belonging to this family contain multiple Ig-like domains and function as scaffolds, modulating actin cytoskeleton. Palladin binds to alpha-actinin ezrin, vasodilator-stimulated phosphoprotein VASP, SPIN90 (DIP, mDia interacting protein), and Src. Palladin also binds F-actin directly, via its Ig3 domain. Palladin is expressed as several alternatively spliced isoforms, having various combinations of Ig-like domains, in a cell-type-specific manner. It has been suggested that palladin's different Ig-like domains may be specialized for distinct functions.
Probab=26.12 E-value=37 Score=18.02 Aligned_cols=13 Identities=15% Similarity=0.432 Sum_probs=9.4
Q ss_pred ceEEEEecCCCCc
Q psy6305 11 EVAVHWFRHGLRL 23 (52)
Q Consensus 11 ~~~l~WfR~DLRl 23 (52)
...+.|+|.+--+
T Consensus 12 ~P~v~W~k~~~~l 24 (75)
T cd05893 12 HPQIFWKKENESL 24 (75)
T ss_pred CCEEEEEECCEEC
Confidence 4579999986444
No 20
>TIGR00623 sula cell division inhibitor SulA. All proteins in this family for which the functions are known are cell division inhibitors. In E. coli, SulA is one of the SOS regulated genes.
Probab=25.78 E-value=1e+02 Score=19.91 Aligned_cols=27 Identities=19% Similarity=0.378 Sum_probs=23.5
Q ss_pred ceEEEEecCCCCccChHHHHHHHhCCC
Q psy6305 11 EVAVHWFRHGLRLHDNPALFEASLNSV 37 (52)
Q Consensus 11 ~~~l~WfR~DLRl~DN~aL~~A~~~~~ 37 (52)
+..|.|.-..++.++-.-|..|++.++
T Consensus 112 ~aVL~WLp~~l~~~~lRRLqlAA~~G~ 138 (168)
T TIGR00623 112 SVVIGWLTDELTEEEHAKLVRAAEEGN 138 (168)
T ss_pred cEEEecCCccCCHHHHHHHHHHHHhCC
Confidence 456889888999999999999998887
No 21
>cd05892 Ig_Myotilin_C C-terminal immunoglobulin (Ig)-like domain of myotilin. Ig_Myotilin_C: C-terminal immunoglobulin (Ig)-like domain of myotilin. Mytolin belongs to the palladin-myotilin-myopalladin family. Proteins belonging to the latter family contain multiple Ig-like domains and function as scaffolds, modulating actin cytoskeleton. Myotilin is most abundant in skeletal and cardiac muscle, and is involved in maintaining sarcomere integrity. It binds to alpha-actinin, filamin and actin. Mutations in myotilin lead to muscle disorders.
Probab=25.77 E-value=44 Score=17.81 Aligned_cols=14 Identities=14% Similarity=0.382 Sum_probs=10.4
Q ss_pred ceEEEEecCCCCcc
Q psy6305 11 EVAVHWFRHGLRLH 24 (52)
Q Consensus 11 ~~~l~WfR~DLRl~ 24 (52)
...+.|+|++-.+.
T Consensus 12 ~P~i~W~k~~~~i~ 25 (75)
T cd05892 12 PPKIFWKRNNEMVQ 25 (75)
T ss_pred CCeEEEEECCEECc
Confidence 45799999875554
No 22
>cd02958 UAS UAS family; UAS is a domain of unknown function. Most members of this family are uncharacterized proteins with similarity to FAS-associated factor 1 (FAF1) and ETEA because of the presence of a UAS domain N-terminal to a ubiquitin-associated UBX domain. FAF1 is a longer protein, compared to the other members of this family, having additional N-terminal domains, a ubiquitin-associated UBA domain and a nuclear targeting domain. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. ETEA is the protein product of a highly expressed gene in T-cells and eosinophils of atopic dermatitis patients. The presence of the ubiquitin-associated UBX domain in the proteins of this family suggests the possibility of their involvement in ubiquitination. Recently, FAF1 has been shown to interact with valosin-containing protein (VCP),
Probab=25.04 E-value=1.3e+02 Score=16.72 Aligned_cols=22 Identities=18% Similarity=0.143 Sum_probs=15.3
Q ss_pred hHHHHHHHhCCCeEEEEEeCCC
Q psy6305 26 NPALFEASLNSVLYPVFIFDGE 47 (52)
Q Consensus 26 N~aL~~A~~~~~vi~vyi~dp~ 47 (52)
+.|+..|-+++..+.||+..++
T Consensus 7 ~~a~~~Ak~~~K~llv~~~~~~ 28 (114)
T cd02958 7 EDAKQEAKSEKKWLLVYLQSED 28 (114)
T ss_pred HHHHHHHHhhCceEEEEEecCC
Confidence 3566666666558888888765
No 23
>cd05885 Ig2_Necl-4 Second immunoglobulin (Ig)-like domain of nectin-like molecule-4 (Necl-4, also known as cell adhesion molecule 4 (CADM4)). Ig2_Necl-4: second immunoglobulin (Ig)-like domain of nectin-like molecule-4 (Necl-4, also known as cell adhesion molecule 4 (CADM4)). Nectin-like molecules have similar domain structures to those of nectins. At least five nectin-like molecules have been identified (Necl-1-Necl-5). These have an extracellular region containing three Ig-like domains, one transmembrane region, and one cytoplasmic region. Ig domains are likely to participate in ligand binding and recognition. Necl-4 is expressed on Schwann cells, and plays a key part in initiating peripheral nervous system (PNS) myelination. In injured peripheral nerve cells, the mRNA signal for both Necl-4 and Necl-5 was observed to be elevated. Necl-4 participates in cell-cell adhesion and is proposed to play a role in tumor suppression.
Probab=24.68 E-value=52 Score=18.31 Aligned_cols=16 Identities=19% Similarity=0.569 Sum_probs=12.8
Q ss_pred ceEEEEecCCCCccCh
Q psy6305 11 EVAVHWFRHGLRLHDN 26 (52)
Q Consensus 11 ~~~l~WfR~DLRl~DN 26 (52)
...|-|||++-.|...
T Consensus 14 ~a~i~W~k~~~~l~~~ 29 (80)
T cd05885 14 AATLRWYRDRKELKGV 29 (80)
T ss_pred CCeEEEEECCEECCCC
Confidence 4569999999988664
No 24
>cd05756 Ig1_IL1R_like First immunoglobulin (Ig)-like domain of interleukin-1 receptor (IL1R) and similar proteins. Ig1_IL1R_like: domain similar to the first immunoglobulin (Ig)-like domain of interleukin-1 receptor (IL1R). IL-1 alpha and IL-1 beta are cytokines which participate in the regulation of inflammation, immune responses, and hematopoiesis. These cytokines bind to the IL-1 receptor type 1 (IL1R1), which is activated on additional association with an accessory protein, IL1RAP. IL-1 also binds a second receptor designated type II (IL1R2). Mature IL1R1 consists of three Ig-like domains, a transmembrane domain, and a large cytoplasmic domain. Mature IL1R2 is organized similarly except that it has a short cytoplasmic domain. The latter does not initiate signal transduction. A naturally occurring cytokine IL-1RA (IL-1 receptor antagonist) is widely expressed and binds to IL-1 receptors, inhibiting the binding of IL-1 alpha and IL-1 beta.
Probab=23.84 E-value=62 Score=17.92 Aligned_cols=12 Identities=8% Similarity=0.623 Sum_probs=9.0
Q ss_pred ceEEEEecCCCC
Q psy6305 11 EVAVHWFRHGLR 22 (52)
Q Consensus 11 ~~~l~WfR~DLR 22 (52)
...|.||+++-.
T Consensus 33 ~~~v~Wyk~~~~ 44 (94)
T cd05756 33 GLNLTWYKSDGK 44 (94)
T ss_pred CceEEEEEcCCC
Confidence 446999998844
No 25
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=23.06 E-value=1.1e+02 Score=20.39 Aligned_cols=19 Identities=16% Similarity=0.284 Sum_probs=13.0
Q ss_pred HHHHHHHhCCCeEEEEEeC
Q psy6305 27 PALFEASLNSVLYPVFIFD 45 (52)
Q Consensus 27 ~aL~~A~~~~~vi~vyi~d 45 (52)
.+|.+|+..+.++|||+=.
T Consensus 231 ~~l~~~~~~~~~~PV~~gS 249 (270)
T cd01886 231 AAIRKGTIANKIVPVLCGS 249 (270)
T ss_pred HHHHHHHHcCcEEEEEeCc
Confidence 3456666666699999854
No 26
>cd05874 Ig6_NrCAM Sixth immunoglobulin (Ig)-like domain of NrCAM (Ng (neuronglia) CAM-related cell adhesion molecule). Ig6_NrCAM: sixth immunoglobulin (Ig)-like domain of NrCAM (Ng (neuronglia) CAM-related cell adhesion molecule). NrCAM belongs to the L1 subfamily of cell adhesion molecules (CAMs) and is comprised of an extracellular region having six Ig-like domains and five fibronectin type III domains, a transmembrane region, and an intracellular domain. NrCAM is primarily expressed in the nervous system.
Probab=22.87 E-value=71 Score=16.81 Aligned_cols=13 Identities=23% Similarity=0.629 Sum_probs=9.8
Q ss_pred ceEEEEecCCCCc
Q psy6305 11 EVAVHWFRHGLRL 23 (52)
Q Consensus 11 ~~~l~WfR~DLRl 23 (52)
...+.|+|++-.+
T Consensus 12 ~P~i~W~k~g~~l 24 (77)
T cd05874 12 PPSFSWTRNGTHF 24 (77)
T ss_pred CCeEEEEECCeEC
Confidence 4569999987655
No 27
>cd07700 IgV_CD8_beta Immunoglobulin (Ig) like domain of CD8 beta chain. IgV_CD8_beta: immunoglobulin (Ig)-like domain in CD8 beta. The CD8 glycoprotein plays an essential role in the control of T-cell selection, maturation and the T-cell receptor (TCR)-mediated response to peptide antigen. CD8 is comprised of alpha and beta subunits and is expressed as either an alpha/alpha or alpha/beta dimer. Both dimeric isoforms can serve as a coreceptor for T cell activation and differentiation, however they have distinct physiological roles, different cellular distributions, unique binding partners etc. Each CD8 subunit is comprised of an extracellular domain containing a V-type Ig-like domain, a single pass transmembrane portion and a short intracellular domain.
Probab=22.46 E-value=54 Score=18.25 Aligned_cols=12 Identities=17% Similarity=0.504 Sum_probs=9.0
Q ss_pred ceEEEEecCCCC
Q psy6305 11 EVAVHWFRHGLR 22 (52)
Q Consensus 11 ~~~l~WfR~DLR 22 (52)
...++|||++..
T Consensus 21 ~~~~~Wyrq~~g 32 (107)
T cd07700 21 NTRIYWLRWRQA 32 (107)
T ss_pred CCeEEEEEECCC
Confidence 347999998654
No 28
>cd05720 Ig_CD8_alpha Immunoglobulin (Ig) like domain of CD8 alpha chain. Ig_CD8_alpha: immunoglobulin (Ig)-like domain in CD8 alpha. The CD8 glycoprotein plays an essential role in the control of T-cell selection, maturation and the T-cell receptor (TCR)-mediated response to peptide antigen. CD8 is comprised of alpha and beta subunits and is expressed as either an alphaalpha or alphabeta dimer. Both dimeric isoforms can serve as a coreceptor for T cell activation and differentiation, however they have distinct physiological roles, different cellular distributions, unique binding partners etc. Each CD8 subunit is comprised of an extracellular domain containing a v-type Ig-like domain, a single pass transmembrane portion and a short intracellular domain. The Ig domain of CD8 alpha binds to antibodies.
Probab=21.86 E-value=61 Score=18.09 Aligned_cols=12 Identities=8% Similarity=0.254 Sum_probs=9.2
Q ss_pred ceEEEEecCCCC
Q psy6305 11 EVAVHWFRHGLR 22 (52)
Q Consensus 11 ~~~l~WfR~DLR 22 (52)
...++|||++..
T Consensus 20 ~~~v~Wyrq~~g 31 (104)
T cd05720 20 PTGCSWLFQPPG 31 (104)
T ss_pred CCcEEEEEeCCC
Confidence 456999998854
No 29
>cd05859 Ig4_PDGFR-alpha Fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR) alpha. IG4_PDGFR-alpha: The fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR) alpha. PDGF is a potent mitogen for connective tissue cells. PDGF-stimulated processes are mediated by three different PDGFs (PDGF-A,-B, and C). PDGFR alpha binds to all three PDGFs, whereas the PDGFR beta (not included in this group) binds only to PDGF-B. PDGF alpha is organized as an extracellular component having five Ig-like domains, a transmembrane segment, and a cytoplasmic portion having protein tyrosine kinase activity. In mice, PDGFR alpha and PDGFR beta are essential for normal development.
Probab=21.80 E-value=51 Score=18.56 Aligned_cols=16 Identities=19% Similarity=0.522 Sum_probs=12.9
Q ss_pred eEEEEecCCCCccChH
Q psy6305 12 VAVHWFRHGLRLHDNP 27 (52)
Q Consensus 12 ~~l~WfR~DLRl~DN~ 27 (52)
..+.|||.+-.|.++.
T Consensus 33 P~v~W~kdg~~l~~~~ 48 (101)
T cd05859 33 PQIRWLKDNRTLIENL 48 (101)
T ss_pred CceEEEECCEECcCCc
Confidence 4699999998887664
No 30
>cd04973 Ig1_FGFR First immunoglobulin (Ig)-like domain of fibroblast growth factor receptor (FGFR). Ig1_FGFR: The first immunoglobulin (Ig)-like domain of fibroblast growth factor receptor (FGFR). Fibroblast growth factors (FGFs) participate in morphogenesis, development, angiogenesis, and wound healing. These FGF-stimulated processes are mediated by four FGFR tyrosine kinases (FGRF1-4). FGFRs are comprised of an extracellular portion consisting of three Ig-like domains, a transmembrane helix, and a cytoplasmic portion having protein tyrosine kinase activity. The highly conserved Ig-like domains 2 and 3, and the linker region between D2 and D3 define a general binding site for all FGFs.
Probab=21.30 E-value=98 Score=16.14 Aligned_cols=14 Identities=21% Similarity=0.814 Sum_probs=10.9
Q ss_pred eEEEEecCCCCccC
Q psy6305 12 VAVHWFRHGLRLHD 25 (52)
Q Consensus 12 ~~l~WfR~DLRl~D 25 (52)
..+.|++++..|..
T Consensus 23 ~~v~W~k~g~~l~~ 36 (79)
T cd04973 23 QSINWTKDGVQLGE 36 (79)
T ss_pred ceEEEeeCCcCCCC
Confidence 36999999877754
No 31
>cd05750 Ig_Pro_neuregulin Immunoglobulin (Ig)-like domain in neuregulins (NRGs). Ig_Pro_neuregulin: immunoglobulin (Ig)-like domain in neuregulins (NRGs). NRGs are signaling molecules, which participate in cell-cell interactions in the nervous system, breast, heart, and other organ systems, and are implicated in the pathology of diseases including schizophrenia, multiple sclerosis, and breast cancer. There are four members of the neuregulin gene family (NRG1, -2, -3, and -4). The NRG-1 protein, binds to and activates the tyrosine kinases receptors ErbB3 and ErbB4, initiating signaling cascades. The other NRGs proteins bind one or the other or both of these ErbBs. NRG-1 has multiple functions; for example, in the brain it regulates various processes such as radial glia formation and neuronal migration, dendritic development, and expression of neurotransmitters receptors; in the peripheral nervous system NRG-1 regulates processes such as target cell differentiation, and Schwann cell surv
Probab=21.22 E-value=99 Score=15.38 Aligned_cols=14 Identities=29% Similarity=0.869 Sum_probs=10.4
Q ss_pred ceEEEEecCCCCcc
Q psy6305 11 EVAVHWFRHGLRLH 24 (52)
Q Consensus 11 ~~~l~WfR~DLRl~ 24 (52)
...+.|+|++-.+.
T Consensus 13 ~p~~~W~k~g~~l~ 26 (75)
T cd05750 13 SLRFKWFKDGKELN 26 (75)
T ss_pred CceEEEEcCCeecc
Confidence 45799999876554
No 32
>KOG1486|consensus
Probab=21.16 E-value=1.4e+02 Score=21.51 Aligned_cols=30 Identities=10% Similarity=0.303 Sum_probs=21.9
Q ss_pred EEEecCCCCccChHHHHHHHhCCC--eEEEEEeCC
Q psy6305 14 VHWFRHGLRLHDNPALFEASLNSV--LYPVFIFDG 46 (52)
Q Consensus 14 l~WfR~DLRl~DN~aL~~A~~~~~--vi~vyi~dp 46 (52)
=+.||.|.-++| +...+++.. +-|+||++.
T Consensus 216 evl~ReD~t~Dd---fIDvi~gnr~Y~~ClYvYnK 247 (364)
T KOG1486|consen 216 EVLFREDCTVDD---FIDVIEGNRVYIKCLYVYNK 247 (364)
T ss_pred eEEEecCCChHH---HHHHHhccceEEEEEEEeec
Confidence 468999988877 455555554 779999864
No 33
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=20.93 E-value=1.2e+02 Score=19.63 Aligned_cols=19 Identities=16% Similarity=0.207 Sum_probs=12.7
Q ss_pred HHHHHHHhCCCeEEEEEeC
Q psy6305 27 PALFEASLNSVLYPVFIFD 45 (52)
Q Consensus 27 ~aL~~A~~~~~vi~vyi~d 45 (52)
.+|.+++..+.++|||+=.
T Consensus 198 ~~l~~~~~~~~~~Pv~~gs 216 (237)
T cd04168 198 NELSARIAKRKVFPVYHGS 216 (237)
T ss_pred HHHHHHHHhCCeEEEEEcc
Confidence 4556666666699998743
No 34
>cd05738 Ig2_RPTP_IIa_LAR_like Second immunoglobulin (Ig)-like domain of the receptor protein tyrosine phosphatase (RPTP)-F, also known as LAR. Ig2_RPTP_IIa_LAR_like: domain similar to the second immunoglobulin (Ig)-like domain found in the receptor protein tyrosine phosphatase (RPTP)-F, also known as LAR. LAR belongs to the RPTP type IIa subfamily. Members of this subfamily are cell adhesion molecule-like proteins involved in central nervous system (CNS) development. They have large extracellular portions, comprised of multiple Ig-like domains and two to nine fibronectin type III (FNIII) domains, and a cytoplasmic portion having two tandem phosphatase domains.
Probab=20.79 E-value=47 Score=17.14 Aligned_cols=14 Identities=21% Similarity=0.669 Sum_probs=10.2
Q ss_pred ceEEEEecCCCCcc
Q psy6305 11 EVAVHWFRHGLRLH 24 (52)
Q Consensus 11 ~~~l~WfR~DLRl~ 24 (52)
...+.|+|++..+.
T Consensus 12 ~p~v~W~k~~~~~~ 25 (74)
T cd05738 12 DPEITWFKDFLPVD 25 (74)
T ss_pred CCEEEEEECCEECc
Confidence 44799999876554
No 35
>cd05763 Ig_1 Subgroup of the immunoglobulin (Ig) superfamily. Ig_1: subgroup of the immunoglobulin (Ig) domain found in the Ig superfamily. The Ig superfamily is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. Members of the Ig superfamily are components of immunoglobulin, neuroglia, cell surface glycoproteins, such as T-cell receptors, CD2, CD4, CD8, and membrane glycoproteins, such as butyrophilin and chondroitin sulfate proteoglycan core protein. A predominant feature of most Ig domains is a disulfide bridge connecting the two beta-sheets with a tryptophan residue packed against the disulfide bond.
Probab=20.70 E-value=90 Score=15.85 Aligned_cols=11 Identities=18% Similarity=0.519 Sum_probs=8.3
Q ss_pred ceEEEEecCCC
Q psy6305 11 EVAVHWFRHGL 21 (52)
Q Consensus 11 ~~~l~WfR~DL 21 (52)
...+.|+|++-
T Consensus 12 ~P~v~W~k~~~ 22 (75)
T cd05763 12 TPQIAWQKDGG 22 (75)
T ss_pred CCEEEEEeCCC
Confidence 34699999764
No 36
>cd05744 Ig_Myotilin_C_like Immunoglobulin (Ig)-like domain of myotilin, palladin, and myopalladin. Ig_Myotilin_like_C: immunoglobulin (Ig)-like domain in myotilin, palladin, and myopalladin. Myotilin, palladin, and myopalladin function as scaffolds that regulate actin organization. Myotilin and myopalladin are most abundant in skeletal and cardiac muscle; palladin is ubiquitously expressed in the organs of developing vertebrates and plays a key role in cellular morphogenesis. The three family members each interact with specific molecular partners: all three bind to alpha-actinin; in addition, palladin also binds to vasodilator-stimulated phosphoprotein (VASP) and ezrin, myotilin binds to filamin and actin, and myopalladin also binds to nebulin and cardiac ankyrin repeat protein (CARP).
Probab=20.46 E-value=71 Score=16.63 Aligned_cols=14 Identities=14% Similarity=0.356 Sum_probs=10.0
Q ss_pred ceEEEEecCCCCcc
Q psy6305 11 EVAVHWFRHGLRLH 24 (52)
Q Consensus 11 ~~~l~WfR~DLRl~ 24 (52)
...+.|++++--+.
T Consensus 12 ~P~v~W~k~~~~i~ 25 (75)
T cd05744 12 PPQIFWKKNNEMLT 25 (75)
T ss_pred CCeEEEEECCEECC
Confidence 35699999875554
No 37
>cd05760 Ig2_PTK7 Second immunoglobulin (Ig)-like domain of protein tyrosine kinase (PTK) 7, also known as CCK4. Ig2_PTK7: domain similar to the second immunoglobulin (Ig)-like domain in protein tyrosine kinase (PTK) 7, also known as CCK4. PTK7 is a subfamily of the receptor protein tyrosine kinase family, and is referred to as an RPTK-like molecule. RPTKs transduce extracellular signals across the cell membrane, and play important roles in regulating cell proliferation, migration, and differentiation. PTK7 is organized as an extracellular portion having seven Ig-like domains, a single transmembrane region, and a cytoplasmic tyrosine kinase-like domain. PTK7 is considered a pseudokinase as it has several unusual residues in some of the highly conserved tyrosine kinase (TK) motifs; it is predicted to lack TK activity. PTK7 may function as a cell-adhesion molecule. PTK7 mRNA is expressed at high levels in placenta, melanocytes, liver, lung, pancreas, and kidney. PTK7 is overexpressed in s
Probab=20.04 E-value=51 Score=17.20 Aligned_cols=15 Identities=40% Similarity=0.855 Sum_probs=11.1
Q ss_pred ceEEEEecCCCCccC
Q psy6305 11 EVAVHWFRHGLRLHD 25 (52)
Q Consensus 11 ~~~l~WfR~DLRl~D 25 (52)
...+.|+|++-.+..
T Consensus 12 ~p~v~W~k~g~~l~~ 26 (77)
T cd05760 12 RPTYQWFRDGTPLSD 26 (77)
T ss_pred CCcEEEEECCEECCC
Confidence 346999998776654
Done!