Query 043302
Match_columns 71
No_of_seqs 140 out of 683
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 03:35:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043302.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043302hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03931 Skp1_POZ: Skp1 family 99.9 3.2E-28 7E-33 134.7 5.2 61 5-65 1-62 (62)
2 KOG1724 SCF ubiquitin ligase, 99.9 1.3E-24 2.7E-29 139.8 7.8 67 4-70 4-73 (162)
3 smart00512 Skp1 Found in Skp1 99.9 4.8E-24 1E-28 127.5 8.2 64 5-68 2-69 (104)
4 COG5201 SKP1 SCF ubiquitin lig 99.7 5E-17 1.1E-21 102.0 6.8 61 6-66 3-64 (158)
5 KOG3473 RNA polymerase II tran 99.7 1.2E-16 2.6E-21 95.8 5.8 61 4-64 16-81 (112)
6 PF00651 BTB: BTB/POZ domain; 97.6 0.00065 1.4E-08 39.3 7.2 59 5-63 11-74 (111)
7 smart00225 BTB Broad-Complex, 97.1 0.0015 3.2E-08 35.5 4.5 55 11-65 5-63 (90)
8 PHA02713 hypothetical protein; 95.2 0.082 1.8E-06 39.5 6.2 58 6-63 27-89 (557)
9 PHA03098 kelch-like protein; P 93.7 0.36 7.9E-06 35.2 6.7 56 7-63 12-69 (534)
10 cd00068 GGL G protein gamma su 89.8 0.5 1.1E-05 25.4 2.9 21 50-70 23-43 (57)
11 smart00224 GGL G protein gamma 87.0 0.89 1.9E-05 24.9 2.7 21 50-70 23-43 (63)
12 PHA02790 Kelch-like protein; P 85.1 1.9 4.1E-05 31.6 4.4 51 11-61 27-82 (480)
13 KOG4441 Proteins containing BT 83.7 3.2 6.9E-05 31.4 5.1 57 7-64 39-99 (571)
14 PF07928 Vps54: Vps54-like pro 76.6 0.81 1.8E-05 28.6 0.0 46 13-63 1-46 (135)
15 PF11338 DUF3140: Protein of u 66.3 4.5 9.7E-05 24.0 1.6 24 45-68 54-78 (92)
16 COG4565 CitB Response regulato 62.8 13 0.00027 25.5 3.4 22 40-61 146-168 (224)
17 KOG4119 G protein gamma subuni 62.1 11 0.00025 21.3 2.7 21 50-70 31-51 (71)
18 cd05170 PIKKc_SMG1 Suppressor 61.5 45 0.00097 23.3 6.1 59 5-63 18-105 (307)
19 PF11543 UN_NPL4: Nuclear pore 57.9 5.6 0.00012 22.6 0.9 20 1-20 1-21 (80)
20 COG4049 Uncharacterized protei 55.4 10 0.00022 20.8 1.6 18 5-22 5-22 (65)
21 PF05871 ESCRT-II: ESCRT-II co 54.7 8.3 0.00018 24.3 1.4 12 54-65 27-38 (139)
22 PRK15032 trimethylamine N-oxid 53.7 22 0.00048 26.1 3.6 25 44-68 355-379 (390)
23 PF00631 G-gamma: GGL domain; 50.3 8.9 0.00019 20.9 0.9 12 50-61 26-37 (68)
24 PF14716 HHH_8: Helix-hairpin- 49.6 23 0.00049 19.1 2.5 20 42-61 49-68 (68)
25 COG0499 SAM1 S-adenosylhomocys 49.2 29 0.00064 25.7 3.6 58 3-60 337-398 (420)
26 CHL00135 rps10 ribosomal prote 48.3 58 0.0012 19.4 4.3 36 6-47 10-47 (101)
27 PRK11566 hdeB acid-resistance 47.7 7.3 0.00016 23.6 0.3 26 41-66 62-87 (102)
28 PF08727 P3A: Poliovirus 3A pr 47.0 13 0.00028 20.2 1.2 11 54-64 30-40 (57)
29 PRK12271 rps10p 30S ribosomal 46.9 49 0.0011 19.7 3.8 35 6-46 5-41 (102)
30 smart00492 HELICc3 helicase su 45.6 24 0.00052 21.8 2.5 28 42-69 76-103 (141)
31 PF09384 UTP15_C: UTP15 C term 45.4 18 0.00038 22.7 1.8 26 44-69 67-92 (148)
32 smart00491 HELICc2 helicase su 45.1 22 0.00048 22.0 2.3 28 42-69 77-104 (142)
33 TIGR02162 torC trimethylamine- 45.1 31 0.00066 25.3 3.2 26 43-68 357-382 (386)
34 PF08154 NLE: NLE (NUC135) dom 44.2 47 0.001 17.9 3.2 29 6-34 3-39 (65)
35 KOG0511 Ankyrin repeat protein 43.4 45 0.00098 25.1 3.9 59 12-70 298-363 (516)
36 PF02214 BTB_2: BTB/POZ domain 42.7 42 0.00091 18.7 3.0 50 13-63 6-63 (94)
37 KOG4350 Uncharacterized conser 41.3 78 0.0017 24.2 4.8 56 7-63 47-106 (620)
38 COG5478 Predicted small integr 40.0 99 0.0022 19.7 4.8 28 40-67 92-119 (141)
39 COG0051 RpsJ Ribosomal protein 39.7 86 0.0019 18.9 4.2 36 6-47 7-44 (104)
40 PF13711 DUF4160: Domain of un 39.6 21 0.00045 19.2 1.4 19 47-65 41-59 (66)
41 TIGR01046 S10_Arc_S20_Euk ribo 39.4 70 0.0015 18.9 3.7 35 6-46 4-40 (99)
42 TIGR01689 EcbF-BcbF capsule bi 38.4 33 0.00071 21.1 2.2 22 47-70 60-81 (126)
43 cd01803 Ubiquitin Ubiquitin. U 38.4 34 0.00073 18.1 2.1 31 6-36 2-32 (76)
44 PF12257 DUF3608: Protein of u 36.9 1.3E+02 0.0029 21.1 5.3 44 3-48 228-276 (281)
45 PF10584 Proteasome_A_N: Prote 36.8 6 0.00013 17.7 -0.9 17 7-23 5-21 (23)
46 COG1565 Uncharacterized conser 36.4 61 0.0013 23.8 3.6 62 10-71 208-274 (370)
47 PF06540 GMAP: Galanin message 36.1 38 0.00083 18.7 2.0 15 49-63 22-36 (62)
48 PF03474 DMA: DMRTA motif; In 35.9 42 0.0009 16.8 2.0 18 45-62 12-29 (39)
49 PF06411 HdeA: HdeA/HdeB famil 35.6 39 0.00085 19.4 2.2 25 41-66 65-89 (94)
50 PF06613 KorB_C: KorB C-termin 35.0 73 0.0016 17.4 3.0 21 3-23 30-51 (60)
51 PRK13602 putative ribosomal pr 35.0 47 0.001 18.7 2.4 22 43-64 32-53 (82)
52 PRK01474 atpC F0F1 ATP synthas 34.9 41 0.00089 20.1 2.2 20 1-20 1-20 (112)
53 PF08661 Rep_fac-A_3: Replicat 34.9 61 0.0013 19.0 3.0 61 3-64 33-106 (109)
54 PF11165 DUF2949: Protein of u 34.7 39 0.00085 18.3 1.9 15 48-62 44-58 (58)
55 cd01806 Nedd8 Nebb8-like ubiq 34.6 32 0.00068 18.2 1.6 30 6-35 2-31 (76)
56 PF11976 Rad60-SLD: Ubiquitin- 33.7 53 0.0012 17.3 2.4 15 6-20 2-16 (72)
57 PRK13601 putative L7Ae-like ri 33.2 53 0.0011 18.7 2.4 24 42-65 28-51 (82)
58 PRK11675 LexA regulated protei 32.3 44 0.00096 19.7 2.0 22 43-65 53-74 (90)
59 PF02736 Myosin_N: Myosin N-te 31.5 51 0.0011 16.2 1.9 18 4-21 23-40 (42)
60 TIGR00190 thiC thiamine biosyn 31.1 34 0.00073 25.5 1.6 16 54-69 186-201 (423)
61 KOG3321 Mitochondrial ribosoma 30.7 31 0.00067 22.7 1.2 25 41-65 115-139 (175)
62 PF00646 F-box: F-box domain; 30.4 15 0.00033 17.8 -0.2 18 45-62 3-20 (48)
63 KOG4068 Uncharacterized conser 30.1 34 0.00074 22.5 1.4 12 54-65 32-43 (174)
64 PRK13352 thiamine biosynthesis 29.9 36 0.00077 25.5 1.6 16 54-69 189-204 (431)
65 PF07818 HCNGP: HCNGP-like pro 29.8 42 0.0009 19.8 1.6 15 49-63 42-56 (96)
66 PTZ00039 40S ribosomal protein 29.4 1.4E+02 0.0029 18.3 3.9 7 40-46 50-56 (115)
67 PF13417 GST_N_3: Glutathione 29.3 36 0.00078 18.1 1.2 15 54-68 61-75 (75)
68 PF00356 LacI: Bacterial regul 29.0 74 0.0016 16.1 2.3 21 46-66 24-44 (46)
69 PHA02754 hypothetical protein; 29.0 62 0.0013 17.8 2.1 19 3-21 43-61 (67)
70 PF09329 zf-primase: Primase z 28.5 13 0.00028 19.0 -0.6 9 56-64 27-35 (46)
71 PF13605 DUF4141: Domain of un 28.1 75 0.0016 17.1 2.3 17 20-36 38-54 (55)
72 PF01498 HTH_Tnp_Tc3_2: Transp 28.0 57 0.0012 17.3 1.9 38 28-65 33-72 (72)
73 PRK01018 50S ribosomal protein 28.0 71 0.0015 18.6 2.4 19 46-64 40-58 (99)
74 PF14283 DUF4366: Domain of un 27.6 67 0.0014 21.7 2.5 16 4-19 73-88 (218)
75 PF11094 UL11: Membrane-associ 27.5 75 0.0016 15.9 2.1 18 6-23 15-32 (39)
76 PHA01623 hypothetical protein 27.3 81 0.0017 16.6 2.3 19 47-65 19-37 (56)
77 KOG0890 Protein kinase of the 27.3 54 0.0012 29.5 2.4 45 5-49 2060-2124(2382)
78 PRK00596 rpsJ 30S ribosomal pr 27.3 1.4E+02 0.003 17.5 4.3 36 6-47 7-44 (102)
79 PF03579 SHP: Small hydrophobi 27.2 60 0.0013 17.8 1.8 19 47-65 35-53 (64)
80 PRK09284 thiamine biosynthesis 26.6 43 0.00093 26.0 1.6 16 54-69 339-354 (607)
81 PRK07714 hypothetical protein; 26.3 77 0.0017 18.3 2.4 20 45-64 41-60 (100)
82 PLN02444 HMP-P synthase 26.3 44 0.00095 26.1 1.5 16 54-69 344-359 (642)
83 PF05321 HHA: Haemolysin expre 26.2 69 0.0015 17.4 1.9 16 49-64 8-23 (57)
84 COG1582 FlgEa Uncharacterized 26.0 71 0.0015 17.8 2.0 56 6-62 1-57 (67)
85 COG2100 Predicted Fe-S oxidore 26.0 96 0.0021 22.9 3.1 25 41-65 261-285 (414)
86 PF09088 MIF4G_like: MIF4G lik 25.9 82 0.0018 20.9 2.6 20 45-64 122-141 (191)
87 KOG0183 20S proteasome, regula 25.8 77 0.0017 21.9 2.5 19 4-22 5-23 (249)
88 PF07430 PP1: Phloem filament 25.8 54 0.0012 22.1 1.8 20 41-60 9-28 (202)
89 PRK06683 hypothetical protein; 25.6 86 0.0019 17.7 2.4 23 42-64 31-53 (82)
90 PRK13446 atpC F0F1 ATP synthas 25.5 82 0.0018 19.3 2.5 18 1-18 1-18 (136)
91 PF13727 CoA_binding_3: CoA-bi 25.4 74 0.0016 19.0 2.3 23 43-65 147-169 (175)
92 TIGR02603 CxxCH_TIGR02603 puta 25.3 1.6E+02 0.0036 17.7 4.2 50 4-61 79-131 (133)
93 PF00010 HLH: Helix-loop-helix 25.3 73 0.0016 16.0 1.9 14 49-62 40-53 (55)
94 PF12054 DUF3535: Domain of un 25.0 32 0.0007 25.3 0.7 42 27-69 311-352 (441)
95 smart00025 Pumilio Pumilio-lik 24.8 58 0.0013 14.2 1.4 16 47-62 13-28 (36)
96 PF02186 TFIIE_beta: TFIIE bet 24.1 80 0.0017 17.2 2.0 14 50-63 4-17 (65)
97 cd01805 RAD23_N Ubiquitin-like 23.8 66 0.0014 17.1 1.7 30 6-35 2-31 (77)
98 PF03614 Flag1_repress: Repres 23.8 82 0.0018 20.5 2.3 14 6-19 31-44 (165)
99 PTZ00044 ubiquitin; Provisiona 23.7 79 0.0017 16.8 2.0 31 6-36 2-32 (76)
100 cd01807 GDX_N ubiquitin-like d 23.4 75 0.0016 17.0 1.8 31 6-36 2-32 (74)
101 PTZ00238 expression site-assoc 23.4 65 0.0014 23.1 1.9 50 9-59 56-112 (326)
102 PF04700 Baculo_gp41: Structur 23.3 1.3E+02 0.0028 20.1 3.1 28 19-46 55-83 (186)
103 PF11197 DUF2835: Protein of u 23.3 1.2E+02 0.0025 16.9 2.6 21 5-25 21-41 (68)
104 PF08909 DUF1854: Domain of un 22.8 1.3E+02 0.0027 18.9 2.9 33 4-36 18-50 (133)
105 KOG0997 Uncharacterized conser 22.7 61 0.0013 24.8 1.7 14 52-65 500-513 (523)
106 PF13099 DUF3944: Domain of un 22.4 81 0.0018 15.4 1.6 24 45-68 10-33 (35)
107 PF01736 Polyoma_agno: Polyoma 22.2 65 0.0014 17.5 1.4 13 50-62 30-42 (62)
108 KOG4571 Activating transcripti 22.2 84 0.0018 22.4 2.2 22 48-71 163-184 (294)
109 PRK13443 atpC F0F1 ATP synthas 21.8 1E+02 0.0022 19.2 2.4 18 1-18 1-18 (136)
110 TIGR01049 rpsJ_bact ribosomal 21.7 1.8E+02 0.0039 16.9 3.8 36 6-47 4-41 (99)
111 PTZ00106 60S ribosomal protein 21.6 1.1E+02 0.0023 18.3 2.4 23 42-64 45-67 (108)
112 COG0422 ThiC Thiamine biosynth 21.5 66 0.0014 24.0 1.6 15 55-69 188-202 (432)
113 PF13315 DUF4085: Protein of u 21.3 1.1E+02 0.0024 20.6 2.6 24 40-63 69-92 (208)
114 PF13013 F-box-like_2: F-box-l 21.3 64 0.0014 19.5 1.3 19 44-62 21-39 (109)
115 PHA02087 hypothetical protein 21.1 75 0.0016 18.1 1.5 17 6-22 46-62 (83)
116 PF01483 P_proprotein: Proprot 21.1 1.1E+02 0.0024 16.8 2.3 17 6-22 19-35 (87)
117 PRK04966 hypothetical protein; 21.0 74 0.0016 18.0 1.5 16 43-58 3-18 (72)
118 PF13700 DUF4158: Domain of un 21.0 92 0.002 19.4 2.1 20 49-68 134-153 (166)
119 PF14438 SM-ATX: Ataxin 2 SM d 21.0 1.3E+02 0.0028 16.3 2.5 15 4-18 12-26 (77)
120 PRK05585 yajC preprotein trans 20.9 1.8E+02 0.004 17.3 3.3 21 5-25 75-95 (106)
121 PF03682 UPF0158: Uncharacteri 20.9 73 0.0016 20.4 1.6 17 51-67 125-141 (163)
122 PF01745 IPT: Isopentenyl tran 20.9 70 0.0015 22.0 1.6 40 24-65 133-187 (233)
123 KOG1784 Small Nuclear ribonucl 20.6 1.2E+02 0.0026 18.1 2.3 15 5-19 11-25 (96)
124 cd04436 DEP_fRgd2 DEP (Disheve 20.6 1.2E+02 0.0025 17.7 2.3 41 26-66 2-45 (84)
125 PF03989 DNA_gyraseA_C: DNA gy 20.6 1.2E+02 0.0027 14.6 2.3 17 6-22 2-18 (48)
126 PF12272 DUF3610: Protein of u 20.6 76 0.0017 20.6 1.6 18 51-68 78-95 (157)
127 PF08225 Antimicrobial19: Pseu 20.4 82 0.0018 13.8 1.2 10 51-60 3-12 (23)
128 cd01798 parkin_N amino-termina 20.4 67 0.0014 17.0 1.2 30 7-36 1-30 (70)
129 cd05163 TRRAP TRansformation/t 20.3 2.7E+02 0.0059 18.9 4.4 32 5-36 19-62 (253)
130 smart00668 CTLH C-terminal to 20.2 83 0.0018 15.6 1.5 13 53-65 17-29 (58)
No 1
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=99.95 E-value=3.2e-28 Score=134.72 Aligned_cols=61 Identities=39% Similarity=0.534 Sum_probs=55.1
Q ss_pred ceEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCCCCC-cccCCCCCHHHHHHHHHHhhhcCC
Q 043302 5 KKITLKSLDGKAFKVDEVVALESQTIEHMIGDDCVKN-KIPLPNVTSKILSKVINLLTVSST 65 (71)
Q Consensus 5 ~~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~~~~-~Ipl~~V~~~~L~kViewc~~h~~ 65 (71)
+.|+|+|+||++|+|++++|++|++|++|+++.+.++ +||||+|+|++|+||+|||+||++
T Consensus 1 ~~v~L~SsDg~~f~V~~~~a~~S~~i~~ml~~~~~~~~~Ipl~~v~~~~L~kViewc~~H~~ 62 (62)
T PF03931_consen 1 MYVKLVSSDGQEFEVSREAAKQSKTIKNMLEDLGDEDEPIPLPNVSSRILKKVIEWCEHHKN 62 (62)
T ss_dssp -EEEEEETTSEEEEEEHHHHTTSHHHHHHHHCTCCCGTEEEETTS-HHHHHHHHHHHHHHHH
T ss_pred CEEEEEcCCCCEEEeeHHHHHHhHHHHHHHhhhcccccccccCccCHHHHHHHHHHHHhcCC
Confidence 3699999999999999999999999999999987654 599999999999999999999973
No 2
>KOG1724 consensus SCF ubiquitin ligase, Skp1 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.91 E-value=1.3e-24 Score=139.84 Aligned_cols=67 Identities=48% Similarity=0.613 Sum_probs=60.5
Q ss_pred CceEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCC-CCC--cccCCCCCHHHHHHHHHHhhhcCCCCCCC
Q 043302 4 HKKITLKSLDGKAFKVDEVVALESQTIEHMIGDDC-VKN--KIPLPNVTSKILSKVINLLTVSSTSKPFA 70 (71)
Q Consensus 4 ~~~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~-~~~--~Ipl~~V~~~~L~kViewc~~h~~d~p~~ 70 (71)
.+.|+|+|+||++|+|++++|++|.+|++++.+.| .++ +||||+|+|.+|+|||+||+||++|+|..
T Consensus 4 ~~~ikL~SsDG~~f~ve~~~a~~s~~i~~~~~~~~~~~~~~~IPl~nV~~~iL~kVIewC~~Hk~d~~~~ 73 (162)
T KOG1724|consen 4 KKKIKLESSDGEIFEVEEEVARQSQTISAHMIEDGCADENDPIPLPNVTSKILKKVIEWCKKHKDDDPAN 73 (162)
T ss_pred CCeEEEEccCCceeehhHHHHHHhHHHHHHHHHcCCCccCCccccCccCHHHHHHHHHHHHHcccccccc
Confidence 57999999999999999999999999999887664 344 89999999999999999999999998753
No 3
>smart00512 Skp1 Found in Skp1 protein family. Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.
Probab=99.91 E-value=4.8e-24 Score=127.54 Aligned_cols=64 Identities=53% Similarity=0.649 Sum_probs=58.9
Q ss_pred ceEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCCCC----CcccCCCCCHHHHHHHHHHhhhcCCCCC
Q 043302 5 KKITLKSLDGKAFKVDEVVALESQTIEHMIGDDCVK----NKIPLPNVTSKILSKVINLLTVSSTSKP 68 (71)
Q Consensus 5 ~~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~~~----~~Ipl~~V~~~~L~kViewc~~h~~d~p 68 (71)
++|+|+|+||++|+|++++|++|++|++|+++.+.. ++||||+|+|++|+||++||+||+.+++
T Consensus 2 ~~v~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~~~~~~Ipl~~v~~~~L~~Vi~yc~~h~~~~~ 69 (104)
T smart00512 2 KYIKLISSDGEVFEVEREVARQSKTIKAMIEDLGVDDENNNPIPLPNVTSKILSKVIEYCEHHVDDPP 69 (104)
T ss_pred CeEEEEeCCCCEEEecHHHHHHHHHHHHHHHccCcccCCCCCccCCCcCHHHHHHHHHHHHHcccCCC
Confidence 479999999999999999999999999999987642 4899999999999999999999998764
No 4
>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.70 E-value=5e-17 Score=101.96 Aligned_cols=61 Identities=39% Similarity=0.571 Sum_probs=56.6
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCCC-CCcccCCCCCHHHHHHHHHHhhhcCCC
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIGDDCV-KNKIPLPNVTSKILSKVINLLTVSSTS 66 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~~-~~~Ipl~~V~~~~L~kViewc~~h~~d 66 (71)
+|.|+|.||++|.|+..+|..|-+|++|+.+.++ +-+||+|||.|.+|.||++||+||+..
T Consensus 3 ~i~l~s~dge~F~vd~~iAerSiLikN~l~d~~~~n~p~p~pnVrSsvl~kv~ew~ehh~~s 64 (158)
T COG5201 3 MIELESIDGEIFRVDENIAERSILIKNMLCDSTACNYPIPAPNVRSSVLMKVQEWMEHHTSS 64 (158)
T ss_pred ceEEEecCCcEEEehHHHHHHHHHHHHHhccccccCCCCcccchhHHHHHHHHHHHHhcccc
Confidence 6999999999999999999999999999988764 568999999999999999999999873
No 5
>KOG3473 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin C [Transcription]
Probab=99.67 E-value=1.2e-16 Score=95.84 Aligned_cols=61 Identities=28% Similarity=0.342 Sum_probs=56.0
Q ss_pred CceEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCC-----CCCcccCCCCCHHHHHHHHHHhhhcC
Q 043302 4 HKKITLKSLDGKAFKVDEVVALESQTIEHMIGDDC-----VKNKIPLPNVTSKILSKVINLLTVSS 64 (71)
Q Consensus 4 ~~~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~-----~~~~Ipl~~V~~~~L~kViewc~~h~ 64 (71)
+++|+|+|+||++|++++++|+.|+|||.||.+.+ ..+++-++++.+.+|+||++|+.|..
T Consensus 16 ~~yVkLvS~Ddhefiikre~AmtSgTiraml~gpg~~se~~~n~v~f~di~shiLeKvc~Yl~Yk~ 81 (112)
T KOG3473|consen 16 SMYVKLVSSDDHEFIIKREHAMTSGTIRAMLSGPGVFSEAEKNEVYFRDIPSHILEKVCEYLAYKV 81 (112)
T ss_pred hhheEeecCCCcEEEEeehhhhhhhHHHHHHcCCccccccccceEEeccchHHHHHHHHHHhhhee
Confidence 56999999999999999999999999999999876 24789999999999999999998753
No 6
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=97.60 E-value=0.00065 Score=39.31 Aligned_cols=59 Identities=19% Similarity=0.358 Sum_probs=47.9
Q ss_pred ceEEEEeCCCCEEEEeHHHH-HHhHHHHHHhhCCC-C-C--CcccCCCCCHHHHHHHHHHhhhc
Q 043302 5 KKITLKSLDGKAFKVDEVVA-LESQTIEHMIGDDC-V-K--NKIPLPNVTSKILSKVINLLTVS 63 (71)
Q Consensus 5 ~~i~L~SsDg~~f~v~~~~a-~~S~~i~~ml~~~~-~-~--~~Ipl~~V~~~~L~kViewc~~h 63 (71)
..++|+..||..|.+.+.+. .+|..+++|+...+ . . ..|++++++...++.+++||...
T Consensus 11 ~D~~i~v~d~~~~~vhk~iL~~~S~~F~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~ 74 (111)
T PF00651_consen 11 SDVTIRVGDGKTFYVHKNILAARSPYFRNLFEGSKFKESTVPEISLPDVSPEAFEAFLEYMYTG 74 (111)
T ss_dssp --EEEEETTTEEEEE-HHHHHHHBHHHHHHHTTTTSTTSSEEEEEETTSCHHHHHHHHHHHHHS
T ss_pred CCEEEEECCCEEEeechhhhhccchhhhhcccccccccccccccccccccccccccccccccCC
Confidence 35888999999999999985 67999999998873 2 2 36889999999999999999644
No 7
>smart00225 BTB Broad-Complex, Tramtrack and Bric a brac. Domain in Broad-Complex, Tramtrack and Bric a brac. Also known as POZ (poxvirus and zinc finger) domain. Known to be a protein-protein interaction motif found at the N-termini of several C2H2-type transcription factors as well as Shaw-type potassium channels. Known structure reveals a tightly intertwined dimer formed via interactions between N-terminal strand and helix structures. However in a subset of BTB/POZ domains, these two secondary structures appear to be missing. Be aware SMART predicts BTB/POZ domains without the beta1- and alpha1-secondary structures.
Probab=97.11 E-value=0.0015 Score=35.51 Aligned_cols=55 Identities=22% Similarity=0.340 Sum_probs=45.1
Q ss_pred eCCCCEEEEeHHHHHH-hHHHHHHhhCCC---CCCcccCCCCCHHHHHHHHHHhhhcCC
Q 043302 11 SLDGKAFKVDEVVALE-SQTIEHMIGDDC---VKNKIPLPNVTSKILSKVINLLTVSST 65 (71)
Q Consensus 11 SsDg~~f~v~~~~a~~-S~~i~~ml~~~~---~~~~Ipl~~V~~~~L~kViewc~~h~~ 65 (71)
..+|+.|.+.+.++.. |..++.|+.... ....|++++++...++.+++|+..-.-
T Consensus 5 ~v~~~~~~~h~~iL~~~s~~f~~~~~~~~~~~~~~~i~l~~~~~~~f~~~l~~ly~~~~ 63 (90)
T smart00225 5 VVGGKKFKAHKAVLAACSPYFKALFSGDFKESKKSEIYLDDVSPEDFRALLEFLYTGKL 63 (90)
T ss_pred EECCEEEehHHHHHhhcCHHHHHHHcCCCccCCCCEEEecCCCHHHHHHHHHeecCcee
Confidence 4577999999988664 799999998754 357889999999999999999986543
No 8
>PHA02713 hypothetical protein; Provisional
Probab=95.18 E-value=0.082 Score=39.45 Aligned_cols=58 Identities=10% Similarity=0.222 Sum_probs=48.3
Q ss_pred eEEEEeCCCCEEEEeHHHHH-HhHHHHHHhhCCC----CCCcccCCCCCHHHHHHHHHHhhhc
Q 043302 6 KITLKSLDGKAFKVDEVVAL-ESQTIEHMIGDDC----VKNKIPLPNVTSKILSKVINLLTVS 63 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~-~S~~i~~ml~~~~----~~~~Ipl~~V~~~~L~kViewc~~h 63 (71)
-|+|...+|++|.+-+.+.. .|.-.+.|+...- ..+.|.|.+|+..+|+.|++|+...
T Consensus 27 DV~L~v~~~~~f~~Hr~vLaa~S~YF~amF~~~~~e~~~~~~v~l~~v~~~~~~~ll~y~Yt~ 89 (557)
T PHA02713 27 DVIITIGDGEEIKAHKTILAAGSKYFRTLFTTPMIIRDLVTRVNLQMFDKDAVKNIVQYLYNR 89 (557)
T ss_pred CEEEEeCCCCEEeehHHHHhhcCHHHHHHhcCCchhhccCceEEeccCCHHHHHHHHHHhcCC
Confidence 47888777999999999854 7999999997642 1467899999999999999998764
No 9
>PHA03098 kelch-like protein; Provisional
Probab=93.69 E-value=0.36 Score=35.20 Aligned_cols=56 Identities=18% Similarity=0.261 Sum_probs=45.8
Q ss_pred EEEE-eCCCCEEEEeHHHHH-HhHHHHHHhhCCCCCCcccCCCCCHHHHHHHHHHhhhc
Q 043302 7 ITLK-SLDGKAFKVDEVVAL-ESQTIEHMIGDDCVKNKIPLPNVTSKILSKVINLLTVS 63 (71)
Q Consensus 7 i~L~-SsDg~~f~v~~~~a~-~S~~i~~ml~~~~~~~~Ipl~~V~~~~L~kViewc~~h 63 (71)
++|. +-+|++|.+.+.++. .|..++.|+.+.-..+.|.|+. +..+|+.|++|+..-
T Consensus 12 v~l~~~~~~~~~~~Hk~vLaa~S~yF~~mf~~~~~~~~i~l~~-~~~~~~~~l~y~Ytg 69 (534)
T PHA03098 12 ESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFKENEINLNI-DYDSFNEVIKYIYTG 69 (534)
T ss_pred EEEEEEcCCEEEEeHHHHHHhhhHHHHHHHhCCCCCceEEecC-CHHHHHHHHHHhcCC
Confidence 4444 478999999999955 6999999998754467899988 999999999998754
No 10
>cd00068 GGL G protein gamma subunit-like motifs, the alpha-helical G-gamma chain dimerizes with the G-beta propeller subunit as part of the heterotrimeric G-protein complex; involved in signal transduction via G-protein-coupled receptors
Probab=89.85 E-value=0.5 Score=25.37 Aligned_cols=21 Identities=14% Similarity=0.314 Sum_probs=18.1
Q ss_pred HHHHHHHHHHhhhcCCCCCCC
Q 043302 50 SKILSKVINLLTVSSTSKPFA 70 (71)
Q Consensus 50 ~~~L~kViewc~~h~~d~p~~ 70 (71)
|...+-+++||+.|...+|+.
T Consensus 23 S~a~~~l~~y~e~~~~~Dpll 43 (57)
T cd00068 23 SKAAAELLKYCEQNAENDPLL 43 (57)
T ss_pred HHHHHHHHHHHHhcCCCCCCC
Confidence 677888999999999888875
No 11
>smart00224 GGL G protein gamma subunit-like motifs.
Probab=87.00 E-value=0.89 Score=24.86 Aligned_cols=21 Identities=14% Similarity=0.254 Sum_probs=18.4
Q ss_pred HHHHHHHHHHhhhcCCCCCCC
Q 043302 50 SKILSKVINLLTVSSTSKPFA 70 (71)
Q Consensus 50 ~~~L~kViewc~~h~~d~p~~ 70 (71)
|...+-+++||+.|...+|+.
T Consensus 23 S~a~~~li~y~e~~~~~DP~l 43 (63)
T smart00224 23 SKAAEELLAYCEQHAEEDPLL 43 (63)
T ss_pred HHHHHHHHHHHHcCCCCCCCc
Confidence 677888999999999988875
No 12
>PHA02790 Kelch-like protein; Provisional
Probab=85.08 E-value=1.9 Score=31.56 Aligned_cols=51 Identities=10% Similarity=0.100 Sum_probs=39.1
Q ss_pred eCCCCEEEEeHHH-HHHhHHHHHHhhCCCC--CCcccC--CCCCHHHHHHHHHHhh
Q 043302 11 SLDGKAFKVDEVV-ALESQTIEHMIGDDCV--KNKIPL--PNVTSKILSKVINLLT 61 (71)
Q Consensus 11 SsDg~~f~v~~~~-a~~S~~i~~ml~~~~~--~~~Ipl--~~V~~~~L~kViewc~ 61 (71)
---|.+|.+-|.+ |..|.-.+.|+.+.-. ...|.+ .+|+..+|+.||+|+.
T Consensus 27 ~~~~~~~~~HR~VLAa~S~YFraMF~~~~~Es~~~v~~~~~~v~~~~l~~lldy~Y 82 (480)
T PHA02790 27 EAIGGNIIVNSTILKKLSPYFRTHLRQKYTKNKDPVTRVCLDLDIHSLTSIVIYSY 82 (480)
T ss_pred EEcCcEEeeehhhhhhcCHHHHHHhcCCccccccceEEEecCcCHHHHHHHHHhhe
Confidence 3457899999998 7779999999965421 233443 3899999999999974
No 13
>KOG4441 consensus Proteins containing BTB/POZ and Kelch domains, involved in regulatory/signal transduction processes [Signal transduction mechanisms; General function prediction only]
Probab=83.70 E-value=3.2 Score=31.42 Aligned_cols=57 Identities=21% Similarity=0.266 Sum_probs=44.2
Q ss_pred EEEEeCCCCEEEEeHHH-HHHhHHHHHHhhCCC---CCCcccCCCCCHHHHHHHHHHhhhcC
Q 043302 7 ITLKSLDGKAFKVDEVV-ALESQTIEHMIGDDC---VKNKIPLPNVTSKILSKVINLLTVSS 64 (71)
Q Consensus 7 i~L~SsDg~~f~v~~~~-a~~S~~i~~ml~~~~---~~~~Ipl~~V~~~~L~kViewc~~h~ 64 (71)
+.|.- +++.|..-+.+ |..|.-++.|+...- ....|.|..|++.+|+.+++|+...+
T Consensus 39 v~L~v-~~~~~~aHR~VLAa~S~YFraMFt~~l~e~~~~~i~l~~v~~~~l~~ll~y~Yt~~ 99 (571)
T KOG4441|consen 39 VTLLV-GDREFPAHRVVLAACSPYFRAMFTSGLKESKQKEINLEGVDPETLELLLDYAYTGK 99 (571)
T ss_pred EEEEE-CCeeechHHHHHHhccHHHHHHhcCCcccccceEEEEecCCHHHHHHHHHHhhcce
Confidence 34444 44888887777 677999999997532 35789999999999999999987543
No 14
>PF07928 Vps54: Vps54-like protein; InterPro: IPR012501 This family contains various proteins that are homologues of the yeast Vps54 protein, such as the rat homologue (Q9JMK8 from SWISSPROT), the human homologue (Q86YF7 from SWISSPROT), and the mouse homologue (Q8R3X1 from SWISSPROT). In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments []. All Vps54 homologues contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs []. ; GO: 0042147 retrograde transport, endosome to Golgi; PDB: 3N1E_B 3N1B_B.
Probab=76.56 E-value=0.81 Score=28.60 Aligned_cols=46 Identities=22% Similarity=0.335 Sum_probs=0.0
Q ss_pred CCCEEEEeHHHHHHhHHHHHHhhCCCCCCcccCCCCCHHHHHHHHHHhhhc
Q 043302 13 DGKAFKVDEVVALESQTIEHMIGDDCVKNKIPLPNVTSKILSKVINLLTVS 63 (71)
Q Consensus 13 Dg~~f~v~~~~a~~S~~i~~ml~~~~~~~~Ipl~~V~~~~L~kViewc~~h 63 (71)
||+.|.|...+...-+.|.+.+... .-+|....+++.+++|++...
T Consensus 1 d~e~f~vv~s~l~ll~~l~~Y~~~~-----~~~P~~a~di~~~l~elLk~f 46 (135)
T PF07928_consen 1 DNEKFVVVGSALLLLKMLSDYLQLA-----SNFPSLAPDILSRLLELLKLF 46 (135)
T ss_dssp ---------------------------------------------------
T ss_pred CCCceecHHHHHHHHHHHHHHHHHH-----HHCchhHHHHHHHHHHHHHHH
Confidence 7889999998888888887776543 236667888899998887654
No 15
>PF11338 DUF3140: Protein of unknown function (DUF3140); InterPro: IPR021487 Some members in this family of proteins are annotated as DNA binding proteins. No function is currently known.
Probab=66.28 E-value=4.5 Score=24.02 Aligned_cols=24 Identities=17% Similarity=0.285 Sum_probs=19.2
Q ss_pred CCCCCHHHHHHHHHHhhhcCCC-CC
Q 043302 45 LPNVTSKILSKVINLLTVSSTS-KP 68 (71)
Q Consensus 45 l~~V~~~~L~kViewc~~h~~d-~p 68 (71)
|.+=+-..++||+.||..|... .|
T Consensus 54 ltddD~~hMrkVV~yv~rhlaq~~p 78 (92)
T PF11338_consen 54 LTDDDYEHMRKVVGYVKRHLAQGEP 78 (92)
T ss_pred CCHHHHHHHHHHHHHHHHHHhccCC
Confidence 4455667899999999999887 45
No 16
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=62.81 E-value=13 Score=25.48 Aligned_cols=22 Identities=27% Similarity=0.289 Sum_probs=19.3
Q ss_pred CCcccCC-CCCHHHHHHHHHHhh
Q 043302 40 KNKIPLP-NVTSKILSKVINLLT 61 (71)
Q Consensus 40 ~~~Ipl~-~V~~~~L~kViewc~ 61 (71)
..+.+|| .+++.||++|.+|.+
T Consensus 146 ~~~~~LPkGi~~~Tl~~i~~~~~ 168 (224)
T COG4565 146 QPPDDLPKGLDELTLQKVREALK 168 (224)
T ss_pred cCcccCCCCcCHHHHHHHHHHHh
Confidence 4667788 799999999999998
No 17
>KOG4119 consensus G protein gamma subunit [Signal transduction mechanisms]
Probab=62.06 E-value=11 Score=21.26 Aligned_cols=21 Identities=19% Similarity=0.352 Sum_probs=16.0
Q ss_pred HHHHHHHHHHhhhcCCCCCCC
Q 043302 50 SKILSKVINLLTVSSTSKPFA 70 (71)
Q Consensus 50 ~~~L~kViewc~~h~~d~p~~ 70 (71)
+..=+.+.+||+.|...+|+.
T Consensus 31 S~a~~el~~y~E~~~~~DpLl 51 (71)
T KOG4119|consen 31 SKAAAELLEYCETHATEDPLL 51 (71)
T ss_pred HHHHHHHHHHHHhcCccCccc
Confidence 344466889999999888864
No 18
>cd05170 PIKKc_SMG1 Suppressor of morphogenetic effect on genitalia-1 (SMG-1), catalytic domain; The SMG-1 catalytic domain subfamily is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. SMG-1 is a member of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily. PIKKs have intrinsic serine/threonine kinase activity and are distinguished from other PKs by their unique catalytic domain, similar to that of lipid PI3K, and their large molecular weight (240-470 kDa). In addition to its catalytic domain, SMG-1 contains a FATC (FRAP, ATM and TRRAP, C-terminal) domain at the C-terminus. SMG-1 plays a critical role in the mRNA surveillance mechanism known as non-sense mediated mRNA decay (NMD). NMD protects the cells from the accumulation of aberrant mRNAs with premature termination codons (PTCs) generated by geno
Probab=61.48 E-value=45 Score=23.30 Aligned_cols=59 Identities=19% Similarity=0.168 Sum_probs=39.3
Q ss_pred ceEEEEeCCCCEEEE----------eHHHHHHhHHHHHHhhCCC----------CCCcccCCCCC--------HHHHHHH
Q 043302 5 KKITLKSLDGKAFKV----------DEVVALESQTIEHMIGDDC----------VKNKIPLPNVT--------SKILSKV 56 (71)
Q Consensus 5 ~~i~L~SsDg~~f~v----------~~~~a~~S~~i~~ml~~~~----------~~~~Ipl~~V~--------~~~L~kV 56 (71)
+.++++.+||..+.. |.++.+.-.++..++.... ...+|||..-. ..+|..|
T Consensus 18 kri~~~gsDG~~y~fLlK~~dDLR~D~RimQlf~l~N~ll~~~~~~~~r~L~i~tY~ViPLs~~~GLIEwv~~~~tl~~i 97 (307)
T cd05170 18 KKLAFLGSDGKKYTYLFKGREDLHLDERIMQFLSIVNTMFASIKDQESPRFRARHYSVTPLGPRSGLIQWVDGATPLFGL 97 (307)
T ss_pred eEEEEECCCCCEEEEEecCCCcccHHHHHHHHHHHHHHHHHhChhhhccCceeecceEEEcCCCcceEEEcCCChhHHHH
Confidence 578899999976643 7778888889998887632 13677775322 3556555
Q ss_pred H-HHhhhc
Q 043302 57 I-NLLTVS 63 (71)
Q Consensus 57 i-ewc~~h 63 (71)
+ +||+.+
T Consensus 98 ~~~~~~~~ 105 (307)
T cd05170 98 YKRWQQRE 105 (307)
T ss_pred HHHHHHhh
Confidence 4 577654
No 19
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=57.88 E-value=5.6 Score=22.58 Aligned_cols=20 Identities=25% Similarity=0.431 Sum_probs=10.3
Q ss_pred CCCCceEEEEeCCCC-EEEEe
Q 043302 1 MSTHKKITLKSLDGK-AFKVD 20 (71)
Q Consensus 1 ms~~~~i~L~SsDg~-~f~v~ 20 (71)
|+++..++++|.||. +++++
T Consensus 1 ~~~~milRvrS~dG~~Rie~~ 21 (80)
T PF11543_consen 1 MASSMILRVRSKDGMKRIEVS 21 (80)
T ss_dssp -----EEEEE-SSEEEEEEE-
T ss_pred CCccEEEEEECCCCCEEEEcC
Confidence 788889999999985 45554
No 20
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=55.39 E-value=10 Score=20.81 Aligned_cols=18 Identities=28% Similarity=0.361 Sum_probs=14.2
Q ss_pred ceEEEEeCCCCEEEEeHH
Q 043302 5 KKITLKSLDGKAFKVDEV 22 (71)
Q Consensus 5 ~~i~L~SsDg~~f~v~~~ 22 (71)
+.+++.+.||++|--..+
T Consensus 5 KA~Kv~~RDGE~~lrCPR 22 (65)
T COG4049 5 KAIKVRDRDGEEFLRCPR 22 (65)
T ss_pred eeeEeeccCCceeeeCCc
Confidence 568999999999975433
No 21
>PF05871 ESCRT-II: ESCRT-II complex subunit; InterPro: IPR008570 This entry represents the vps25 subunit (vacuolar protein sorting-associated protein 25) of the endosome-associated complex ESCRT-II (Endosomal Sorting Complexes Required for Transport protein II). ESCRT (ESCRT-I, -II, -III) complexes orchestrate efficient sorting of ubiquitinated transmembrane receptors to lysosomes via multivesicular bodies (MVBs) []. ESCRT-II recruits the transport machinery for protein sorting at MVB []. In addition, the human ESCRT-II has been shown to form a complex with RNA polymerase II elongation factor ELL in order to exert transcriptional control activity. ESCRT-II transiently associates with the endosomal membrane and thereby initiates the formation of ESCRT-III, a membrane-associated protein complex that functions immediately downstream of ESCRT-II during sorting of MVB cargo. ESCRT-II in turn functions downstream of ESCRT-I, a protein complex that binds to ubiquitinated endosomal cargo []. ESCRT-II is a trilobal complex composed of two copies of vps25, one copy of vps22 and the C-terminal region of vps36. The crystal structure of vps25 revealed two winged-helix domains, the N-terminal domain of vps25 interacting with vps22 and vps35 [].; PDB: 1W7P_B 1U5T_D 1XB4_D 3HTU_E 3CUQ_C 2ZME_D.
Probab=54.74 E-value=8.3 Score=24.27 Aligned_cols=12 Identities=0% Similarity=0.061 Sum_probs=9.4
Q ss_pred HHHHHHhhhcCC
Q 043302 54 SKVINLLTVSST 65 (71)
Q Consensus 54 ~kViewc~~h~~ 65 (71)
+.|+.||.||+-
T Consensus 27 ~lIl~y~~~~k~ 38 (139)
T PF05871_consen 27 DLILDYCRHHKI 38 (139)
T ss_dssp HHHHHHHHHTT-
T ss_pred HHHHHHHHHhce
Confidence 459999999974
No 22
>PRK15032 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional
Probab=53.66 E-value=22 Score=26.06 Aligned_cols=25 Identities=4% Similarity=0.212 Sum_probs=21.6
Q ss_pred cCCCCCHHHHHHHHHHhhhcCCCCC
Q 043302 44 PLPNVTSKILSKVINLLTVSSTSKP 68 (71)
Q Consensus 44 pl~~V~~~~L~kViewc~~h~~d~p 68 (71)
...+++.+.++.|++|+++|..|-+
T Consensus 355 ~~t~ld~~e~~ll~kYLQ~hAkD~~ 379 (390)
T PRK15032 355 GFTSLDKREERTLLKYLQMNASDTA 379 (390)
T ss_pred hccCCCHHHHHHHHHHHHHhccccc
Confidence 4568899999999999999998853
No 23
>PF00631 G-gamma: GGL domain; InterPro: IPR015898 This entry represents the G protein gamma subunit and the GGL (G protein gamma-like) domain, which are related in sequence and are comprised of an extended alpha-helical polypeptide. The G protein gamma subunit forms a stable dimer with the beta subunit, but it does not make any contact with the alpha subunit, which contacts the opposite face of the beta subunit. The GGL domain is found in several RGS (regulators of G protein signaling) proteins. GGL domains can interact with beta subunits to form novel dimers that prevent gamma subunit binding, and may prevent heterotrimer formation by inhibiting alpha subunit binding. The interaction between G protein beta-5 neuro-specific isoforms and RGS GGL domains may represent a general mode of binding between beta-propeller proteins and their partners [].; GO: 0004871 signal transducer activity, 0007186 G-protein coupled receptor protein signaling pathway, 0005834 heterotrimeric G-protein complex; PDB: 3PSC_G 3SN6_G 1OMW_G 2BCJ_G 1GG2_G 3PVW_G 3PVU_G 3AH8_G 3CIK_G 1GP2_G ....
Probab=50.30 E-value=8.9 Score=20.88 Aligned_cols=12 Identities=25% Similarity=0.265 Sum_probs=11.0
Q ss_pred HHHHHHHHHHhh
Q 043302 50 SKILSKVINLLT 61 (71)
Q Consensus 50 ~~~L~kViewc~ 61 (71)
|.+.+.+++||+
T Consensus 26 S~a~~~li~y~~ 37 (68)
T PF00631_consen 26 SKACKELIEYCE 37 (68)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHhc
Confidence 778999999999
No 24
>PF14716 HHH_8: Helix-hairpin-helix domain; PDB: 2W9M_A 1HUZ_A 1HUO_A 2BPG_B 2BPF_A 1DK3_A 1BPE_A 1BNO_A 1BNP_A 1DK2_A ....
Probab=49.59 E-value=23 Score=19.12 Aligned_cols=20 Identities=25% Similarity=0.375 Sum_probs=17.5
Q ss_pred cccCCCCCHHHHHHHHHHhh
Q 043302 42 KIPLPNVTSKILSKVINLLT 61 (71)
Q Consensus 42 ~Ipl~~V~~~~L~kViewc~ 61 (71)
.--||+|-..+-+||-||++
T Consensus 49 ~~~l~gIG~~ia~kI~E~le 68 (68)
T PF14716_consen 49 LKKLPGIGKSIAKKIDEILE 68 (68)
T ss_dssp HCTSTTTTHHHHHHHHHHHH
T ss_pred HhhCCCCCHHHHHHHHHHHC
Confidence 55699999999999999975
No 25
>COG0499 SAM1 S-adenosylhomocysteine hydrolase [Coenzyme metabolism]
Probab=49.15 E-value=29 Score=25.71 Aligned_cols=58 Identities=12% Similarity=0.178 Sum_probs=44.8
Q ss_pred CCceEEEEeCCCCEEEE-eHHHHHHhHHHHHHhhCCC--CCCcccCC-CCCHHHHHHHHHHh
Q 043302 3 THKKITLKSLDGKAFKV-DEVVALESQTIEHMIGDDC--VKNKIPLP-NVTSKILSKVINLL 60 (71)
Q Consensus 3 ~~~~i~L~SsDg~~f~v-~~~~a~~S~~i~~ml~~~~--~~~~Ipl~-~V~~~~L~kViewc 60 (71)
.++.+.|-..+|+-.+| |...+.|.-....+..+.+ ..++.+|| .++..+.+.-++.+
T Consensus 337 eGRLvNLa~a~GHPs~VMd~SFanQaLa~~~L~~n~~~~~~~Vy~lP~~lD~~VArl~L~~~ 398 (420)
T COG0499 337 EGRLVNLAAATGHPSEVMDMSFANQALAQIYLVKNHGKLEPGVYRLPKELDEEVARLKLEAM 398 (420)
T ss_pred cceeeeeccCCCCcHHHhhhhHHHHHHHHHHHHhcccccCCceeeCcHHHHHHHHHHHHHHh
Confidence 35677788888887654 8889999888888887764 35888999 68888887776654
No 26
>CHL00135 rps10 ribosomal protein S10; Validated
Probab=48.26 E-value=58 Score=19.36 Aligned_cols=36 Identities=25% Similarity=0.404 Sum_probs=18.8
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCC--CCCcccCCC
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIGDDC--VKNKIPLPN 47 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~--~~~~Ipl~~ 47 (71)
.++|.|-|-. .++.. +..|.......+ ..+|||||.
T Consensus 10 rI~LkS~d~~--~L~~~----~~~I~~~~k~~~~~~~GpipLPt 47 (101)
T CHL00135 10 RIKLKSFNHE--LLNSS----CKKIIDTASRTNATAVGPIPLPT 47 (101)
T ss_pred EEEEEECCHH--HHHHH----HHHHHHHHHHcCCeEeCCcCCCc
Confidence 5788888732 12222 233333333333 358899884
No 27
>PRK11566 hdeB acid-resistance protein; Provisional
Probab=47.73 E-value=7.3 Score=23.56 Aligned_cols=26 Identities=15% Similarity=0.235 Sum_probs=20.5
Q ss_pred CcccCCCCCHHHHHHHHHHhhhcCCC
Q 043302 41 NKIPLPNVTSKILSKVINLLTVSSTS 66 (71)
Q Consensus 41 ~~Ipl~~V~~~~L~kViewc~~h~~d 66 (71)
+-+.+.++.-.-..||+|||..|-..
T Consensus 62 D~vd~~e~et~~tPkvie~Ckk~P~~ 87 (102)
T PRK11566 62 DYVDLNETDTTQVPKVIEYCKKNPQK 87 (102)
T ss_pred ccccccceeeeechHHHHHHHhCCcc
Confidence 44777777776688999999998653
No 28
>PF08727 P3A: Poliovirus 3A protein like; InterPro: IPR014838 The 3A protein is found in positive-strand RNA viruses. It is a critical component of the poliovirus replication complex, and is also an inhibitor of host cell ER to Golgi transport. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1NG7_A.
Probab=47.02 E-value=13 Score=20.20 Aligned_cols=11 Identities=9% Similarity=0.021 Sum_probs=8.8
Q ss_pred HHHHHHhhhcC
Q 043302 54 SKVINLLTVSS 64 (71)
Q Consensus 54 ~kViewc~~h~ 64 (71)
.+|++||+...
T Consensus 30 ~eV~~YC~~~G 40 (57)
T PF08727_consen 30 PEVREYCEEQG 40 (57)
T ss_dssp HHHHHHHHHHT
T ss_pred HHHHHHHHHCC
Confidence 57999998754
No 29
>PRK12271 rps10p 30S ribosomal protein S10P; Reviewed
Probab=46.85 E-value=49 Score=19.69 Aligned_cols=35 Identities=26% Similarity=0.379 Sum_probs=18.5
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCCC--CCcccCC
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIGDDCV--KNKIPLP 46 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~~--~~~Ipl~ 46 (71)
.++|.|-|-. .+-..+.-|.+..+..|. .+|||||
T Consensus 5 rI~L~S~d~~------~Ld~~~~~I~~~~k~~g~~~~GPipLP 41 (102)
T PRK12271 5 RIRLSSTNPE------DLDEVCDQIKEIAEKTGVDMSGPIPLP 41 (102)
T ss_pred EEEEEeCCHH------HHHHHHHHHHHHHHHcCCeEECCCcCC
Confidence 4677777721 122223344444444443 4899998
No 30
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=45.58 E-value=24 Score=21.81 Aligned_cols=28 Identities=32% Similarity=0.567 Sum_probs=23.0
Q ss_pred cccCCCCCHHHHHHHHHHhhhcCCCCCC
Q 043302 42 KIPLPNVTSKILSKVINLLTVSSTSKPF 69 (71)
Q Consensus 42 ~Ipl~~V~~~~L~kViewc~~h~~d~p~ 69 (71)
.+|+|+.+...++.-.+|..++....||
T Consensus 76 glPfp~~~d~~~~~~~~~~~~~~~~~~~ 103 (141)
T smart00492 76 GLPFPYPDSPILKARLELLRDKGQIRPF 103 (141)
T ss_pred ecCCCCCCCHHHHHHHHHHHHhCCCCch
Confidence 5799999999999999999887645555
No 31
>PF09384 UTP15_C: UTP15 C terminal; InterPro: IPR018983 This entry represents the C-terminal domain of the U3 small nucleolar RNA-associated protein 15 (UTP15). This protein is involved in nucleolar processing of pre-18S ribosomal RNA, and is required for optimal pre-ribosomal RNA transcription by RNA polymerase I together with a subset of U3 proteins required for transcription (t-UTPs). UTP15 is a component of the ribosomal small subunit (SSU) processome, which is a large ribonucleoprotein (RNP) required for processing of precursors to the small subunit RNA, the 18S, of the ribosome [, ]. This domain is found C-terminal to the WD40 repeat (IPR001680 from INTERPRO). UTP15 associates with U3 snoRNA, which is ubiquitous in eukaryotes and is required for nucleolar processing of pre-18S ribosomal RNA []. ; GO: 0006364 rRNA processing, 0005730 nucleolus
Probab=45.43 E-value=18 Score=22.70 Aligned_cols=26 Identities=15% Similarity=0.287 Sum_probs=22.7
Q ss_pred cCCCCCHHHHHHHHHHhhhcCCCCCC
Q 043302 44 PLPNVTSKILSKVINLLTVSSTSKPF 69 (71)
Q Consensus 44 pl~~V~~~~L~kViewc~~h~~d~p~ 69 (71)
-|.+-+...|..++.|+.+|-.++-|
T Consensus 67 AL~~Rde~~L~piL~Fl~k~i~~pr~ 92 (148)
T PF09384_consen 67 ALAGRDEESLEPILKFLIKNITDPRY 92 (148)
T ss_pred HHHhCCHHHHHHHHHHHHHhCCCccc
Confidence 36688999999999999999988765
No 32
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=45.08 E-value=22 Score=21.97 Aligned_cols=28 Identities=36% Similarity=0.593 Sum_probs=22.3
Q ss_pred cccCCCCCHHHHHHHHHHhhhcCCCCCC
Q 043302 42 KIPLPNVTSKILSKVINLLTVSSTSKPF 69 (71)
Q Consensus 42 ~Ipl~~V~~~~L~kViewc~~h~~d~p~ 69 (71)
.+|+|+.+...++...+|++......+|
T Consensus 77 glPfp~~~d~~~~~~~~~~~~~~~~~~~ 104 (142)
T smart00491 77 GIPFPNPDSPILRARLEYLDEKGGIRPF 104 (142)
T ss_pred ecCCCCCCCHHHHHHHHHHHHhcCCCcH
Confidence 5799999999999999999877533443
No 33
>TIGR02162 torC trimethylamine-N-oxide reductase c-type cytochrome TorC. This family includes consists of TorC, a pentahemic c-type cytochrome subunit of periplasmic reductases for trimethylamine-N-oxide (TMAO). The N-terminal half is closely related to tetrahemic NapC (or NirT) subunits of periplasmic nitrate (or nitrite) reductases; some species have both TMAO and nitrate reductase complexes.
Probab=45.07 E-value=31 Score=25.28 Aligned_cols=26 Identities=12% Similarity=0.124 Sum_probs=22.4
Q ss_pred ccCCCCCHHHHHHHHHHhhhcCCCCC
Q 043302 43 IPLPNVTSKILSKVINLLTVSSTSKP 68 (71)
Q Consensus 43 Ipl~~V~~~~L~kViewc~~h~~d~p 68 (71)
++..+++.+..+.|++|+++|..|-.
T Consensus 357 ~~~t~l~~~e~~lv~~YLQ~hAkD~~ 382 (386)
T TIGR02162 357 KGFTNLDKEQERLVLRYLQMHASDFE 382 (386)
T ss_pred hhhcCCCHHHHHHHHHHHHHhhcccc
Confidence 35668899999999999999998853
No 34
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=44.21 E-value=47 Score=17.85 Aligned_cols=29 Identities=14% Similarity=0.298 Sum_probs=19.3
Q ss_pred eEEEEeCCCC------EEEEeH--HHHHHhHHHHHHh
Q 043302 6 KITLKSLDGK------AFKVDE--VVALESQTIEHMI 34 (71)
Q Consensus 6 ~i~L~SsDg~------~f~v~~--~~a~~S~~i~~ml 34 (71)
.++++|++|. .|.|+. .....|.+++.++
T Consensus 3 ~v~F~t~~~~~~~~~~~~~VP~~~t~~~Ls~LvN~LL 39 (65)
T PF08154_consen 3 QVQFVTEDGEYEVPGTPISVPSNITRKELSELVNQLL 39 (65)
T ss_pred EEEEEcCCCCccCCCCCEEEeCCCCHHHHHHHHHHHh
Confidence 3677777773 444543 3367788889988
No 35
>KOG0511 consensus Ankyrin repeat protein [General function prediction only]
Probab=43.36 E-value=45 Score=25.06 Aligned_cols=59 Identities=17% Similarity=0.248 Sum_probs=43.5
Q ss_pred CCCCEEEEeHHHHHHhHHHHHHhhCCC----CCCccc---CCCCCHHHHHHHHHHhhhcCCCCCCC
Q 043302 12 LDGKAFKVDEVVALESQTIEHMIGDDC----VKNKIP---LPNVTSKILSKVINLLTVSSTSKPFA 70 (71)
Q Consensus 12 sDg~~f~v~~~~a~~S~~i~~ml~~~~----~~~~Ip---l~~V~~~~L~kViewc~~h~~d~p~~ 70 (71)
-...++.+....+......+.|+-+.. .++.+| ||+....+.+-++.|+.-|+.|.||.
T Consensus 298 ~~~~RyP~hla~i~R~eyfk~mf~g~f~e~s~n~~~p~lslp~~~~~vveI~lr~lY~d~tdi~~~ 363 (516)
T KOG0511|consen 298 PEEDRYPAHLARILRVEYFKSMFVGDFIESSVNDTRPGLSLPSLADVVVEIDLRNLYCDQTDIIFD 363 (516)
T ss_pred cccccccHHHHHHHHHHHHHHHhccchhhhcCCccccccccchHHHHHHHHHHHHhhcccccchHH
Confidence 344456667777777777888876542 134444 88889999999999999999998874
No 36
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=42.71 E-value=42 Score=18.70 Aligned_cols=50 Identities=8% Similarity=0.217 Sum_probs=33.8
Q ss_pred CCCEEEEeHHHHHHh--HHHHHHhhCC------CCCCcccCCCCCHHHHHHHHHHhhhc
Q 043302 13 DGKAFKVDEVVALES--QTIEHMIGDD------CVKNKIPLPNVTSKILSKVINLLTVS 63 (71)
Q Consensus 13 Dg~~f~v~~~~a~~S--~~i~~ml~~~------~~~~~Ipl~~V~~~~L~kViewc~~h 63 (71)
-|+.|.+.++.+..- ..+..|+... ..++.+=+ +-++..++.|++|+...
T Consensus 6 GG~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fi-DRdp~~F~~IL~ylr~~ 63 (94)
T PF02214_consen 6 GGTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFI-DRDPELFEYILNYLRTG 63 (94)
T ss_dssp TTEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEE-SS-HHHHHHHHHHHHHT
T ss_pred CCEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEe-ccChhhhhHHHHHHhhc
Confidence 488999999987732 3445555532 12355534 77999999999999883
No 37
>KOG4350 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=41.34 E-value=78 Score=24.17 Aligned_cols=56 Identities=18% Similarity=0.292 Sum_probs=40.7
Q ss_pred EEEEeCCCCEEEEeHHH-HHHhHHHHHHhhCCC---CCCcccCCCCCHHHHHHHHHHhhhc
Q 043302 7 ITLKSLDGKAFKVDEVV-ALESQTIEHMIGDDC---VKNKIPLPNVTSKILSKVINLLTVS 63 (71)
Q Consensus 7 i~L~SsDg~~f~v~~~~-a~~S~~i~~ml~~~~---~~~~Ipl~~V~~~~L~kViewc~~h 63 (71)
++++-.| .+|-.-+-+ |..|...|.||-++- ....|||..-++..++.++.|..--
T Consensus 47 Vtfvve~-~rfpAHRvILAaRs~yFRAlLYgGm~Es~q~~ipLq~t~~eAF~~lLrYiYtg 106 (620)
T KOG4350|consen 47 VTFVVED-TRFPAHRVILAARSSYFRALLYGGMQESHQQLIPLQETNSEAFRALLRYIYTG 106 (620)
T ss_pred eEEEEec-cccchhhhhHHHHHHHHHHHHhhhhhhhhhcccccccccHHHHHHHHHHHhhc
Confidence 4555444 566655544 667899999986542 2578999999999999999997643
No 38
>COG5478 Predicted small integral membrane protein [Function unknown]
Probab=39.97 E-value=99 Score=19.72 Aligned_cols=28 Identities=4% Similarity=0.164 Sum_probs=24.2
Q ss_pred CCcccCCCCCHHHHHHHHHHhhhcCCCC
Q 043302 40 KNKIPLPNVTSKILSKVINLLTVSSTSK 67 (71)
Q Consensus 40 ~~~Ipl~~V~~~~L~kViewc~~h~~d~ 67 (71)
++.|-|..-..+.++++++||+++....
T Consensus 92 n~~VgIEh~~~~~i~~~~~~~e~~a~~~ 119 (141)
T COG5478 92 NDVVGIEHLKPEEIEEIRDRLEDEAGTG 119 (141)
T ss_pred CceeeeccCCHHHHHHHHHHHHHHhcCC
Confidence 5778898999999999999999876654
No 39
>COG0051 RpsJ Ribosomal protein S10 [Translation, ribosomal structure and biogenesis]
Probab=39.67 E-value=86 Score=18.93 Aligned_cols=36 Identities=31% Similarity=0.433 Sum_probs=17.7
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCCC--CCcccCCC
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIGDDCV--KNKIPLPN 47 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~~--~~~Ipl~~ 47 (71)
.|+|.|-|-.. +-.-+.-|.......|. .+|||||.
T Consensus 7 rI~L~s~d~~~------LD~~~~~Ive~akrtg~~v~GPiPLPT 44 (104)
T COG0051 7 RIRLKSFDHRL------LDQVCREIVETAKRTGADVKGPIPLPT 44 (104)
T ss_pred EEEEecCCHHH------HHHHHHHHHHHHHHhCCeeeCCccCCC
Confidence 56777766221 11222333333333343 58999983
No 40
>PF13711 DUF4160: Domain of unknown function (DUF4160)
Probab=39.64 E-value=21 Score=19.21 Aligned_cols=19 Identities=16% Similarity=0.247 Sum_probs=16.2
Q ss_pred CCCHHHHHHHHHHhhhcCC
Q 043302 47 NVTSKILSKVINLLTVSST 65 (71)
Q Consensus 47 ~V~~~~L~kViewc~~h~~ 65 (71)
.++.+.|++|.+|.+-|++
T Consensus 41 ~l~~k~l~~i~~~i~~~~~ 59 (66)
T PF13711_consen 41 FLPRKELRKILEWIEENQE 59 (66)
T ss_pred CCCHHHHHHHHHHHHHHHH
Confidence 4689999999999988764
No 41
>TIGR01046 S10_Arc_S20_Euk ribosomal protein S10(archaeal)/S20(eukaryotic). its equivalents in eukaryotes.
Probab=39.37 E-value=70 Score=18.86 Aligned_cols=35 Identities=23% Similarity=0.411 Sum_probs=17.4
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCCC--CCcccCC
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIGDDCV--KNKIPLP 46 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~~--~~~Ipl~ 46 (71)
.++|.|-|-.. +-..+.-|.......|. .+|||||
T Consensus 4 rI~L~S~d~~~------Ld~~~~~I~~~ak~~g~~~~GPipLP 40 (99)
T TIGR01046 4 RIKLTSTNVRS------LEKVCAQIKRIAEKTGVRMSGPVPLP 40 (99)
T ss_pred EEEEEECCHHH------HHHHHHHHHHHHHHcCCEEECCccCC
Confidence 46777776221 11122333333333332 4899998
No 42
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=38.42 E-value=33 Score=21.09 Aligned_cols=22 Identities=18% Similarity=0.345 Sum_probs=17.5
Q ss_pred CCCHHHHHHHHHHhhhcCCCCCCC
Q 043302 47 NVTSKILSKVINLLTVSSTSKPFA 70 (71)
Q Consensus 47 ~V~~~~L~kViewc~~h~~d~p~~ 70 (71)
.|+..+|..+.+||..| +-||+
T Consensus 60 ~i~~~~~~~t~~wL~k~--~ipYd 81 (126)
T TIGR01689 60 KINIHTLPIIILWLNQH--NVPYD 81 (126)
T ss_pred ccchhhHHHHHHHHHHc--CCCCc
Confidence 48899999999999886 44553
No 43
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=38.39 E-value=34 Score=18.08 Aligned_cols=31 Identities=23% Similarity=0.339 Sum_probs=21.3
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhhC
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIGD 36 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~ 36 (71)
.|.+++.+|+.|.++......-..|+..+..
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~ 32 (76)
T cd01803 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQD 32 (76)
T ss_pred EEEEEcCCCCEEEEEECCcCcHHHHHHHHHH
Confidence 4789999999998765554444555666543
No 44
>PF12257 DUF3608: Protein of unknown function (DUF3608); InterPro: IPR022046 This domain family is found in eukaryotes, and is approximately 280 amino acids in length. The family is found in association with PF00610 from PFAM.
Probab=36.95 E-value=1.3e+02 Score=21.13 Aligned_cols=44 Identities=23% Similarity=0.286 Sum_probs=31.0
Q ss_pred CCceEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCC-CCC----CcccCCCC
Q 043302 3 THKKITLKSLDGKAFKVDEVVALESQTIEHMIGDD-CVK----NKIPLPNV 48 (71)
Q Consensus 3 ~~~~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~-~~~----~~Ipl~~V 48 (71)
++..+.++|.-.-.|+|+.+..+ .|=+.|++.+ +.+ .+.||+.+
T Consensus 228 TG~~iivITpG~Gvf~Vd~~ll~--~T~~rl~~~gi~~DlIcL~~~PLH~v 276 (281)
T PF12257_consen 228 TGQSIIVITPGTGVFEVDYDLLR--LTTQRLLDNGIGIDLICLSKPPLHVV 276 (281)
T ss_pred cCceEEEEcCCCceEEECHHHHH--HHHHHHHhcCccEEEEEcCCCCcccC
Confidence 46689999999999999999875 3445666654 222 56677544
No 45
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=36.83 E-value=6 Score=17.67 Aligned_cols=17 Identities=41% Similarity=0.554 Sum_probs=12.3
Q ss_pred EEEEeCCCCEEEEeHHH
Q 043302 7 ITLKSLDGKAFKVDEVV 23 (71)
Q Consensus 7 i~L~SsDg~~f~v~~~~ 23 (71)
+++=|.||..|+|+-+.
T Consensus 5 ~t~FSp~Grl~QVEYA~ 21 (23)
T PF10584_consen 5 ITTFSPDGRLFQVEYAM 21 (23)
T ss_dssp TTSBBTTSSBHHHHHHH
T ss_pred ceeECCCCeEEeeEeee
Confidence 34558999999887653
No 46
>COG1565 Uncharacterized conserved protein [Function unknown]
Probab=36.36 E-value=61 Score=23.78 Aligned_cols=62 Identities=13% Similarity=0.200 Sum_probs=38.0
Q ss_pred EeCCCCEEEEeHHHHHHhHHHHHHhhCCC---CCCcccCCCC--CHHHHHHHHHHhhhcCCCCCCCC
Q 043302 10 KSLDGKAFKVDEVVALESQTIEHMIGDDC---VKNKIPLPNV--TSKILSKVINLLTVSSTSKPFAN 71 (71)
Q Consensus 10 ~SsDg~~f~v~~~~a~~S~~i~~ml~~~~---~~~~Ipl~~V--~~~~L~kViewc~~h~~d~p~~~ 71 (71)
...||.++|++.+.....+.|..-++-+. .+=.-|.... +-..-.-.+.+..||..++|++|
T Consensus 208 ~~~~g~~~E~~~a~~~~l~~ia~~L~~G~~l~iDYG~~~~~~~~~~r~~g~~~~~~~~h~~~~~~~~ 274 (370)
T COG1565 208 EAEDGYILEVSPAREALLKAIAERLERGVFLFIDYGYPAEEYYHPRRAYGTTLQAYRHHVHDDPLAN 274 (370)
T ss_pred cccCCceeeeCHHHHHHHHHHHHHHhhCeEEEEecCCcccccccccccCccHHHHHHhhccCChhhc
Confidence 56899999999998877777766665421 1111112211 11112223467899999999875
No 47
>PF06540 GMAP: Galanin message associated peptide (GMAP); InterPro: IPR013068 Galanin is a peptide hormone that controls various biological activities []. Galanin-like immuno-reactivity has been found in the central and peripheral nervous systems of mammals, with high concentrations demonstrated in discrete regions of the central nervous system, including the median eminence, hypothalamus, arcuate nucleus, septum, neuro-intermediate lobe of the pituitary, and the spinal cord. Its localisation within neurosecretory granules suggests that galanin may function as a neurotransmitter, and it has been shown to coexist with a variety of other peptide and amine neurotransmitters within individual neurons []. Although the precise physiological role of galanin is uncertain, it has a number of pharmacological properties: it stimulates food intake, when injected into the third ventricle of rats; it increases levels of plasma growth hormone and prolactin, and decreases dopamine levels in the median eminence []; and infusion into humans results in hyperglycemia and glucose intolerance, and inhibits pancreatic release of insulin, somatostatin and pancreatic peptide. Galanin also modulates smooth muscle contractility within the gastro-intestinal and genito-urinary tracts, all such activities suggesting that the hormone may play an important role in the nervous modulation of endocrine and smooth muscle function []. This domain represents the galanin message-associated peptide (GMAP) domain which is found C-terminal to the galanin domain in the preprogalanin precursor protein. GMAP sequences in different species show a high degree of homology, but the biological function of the GMAP peptide is not known [].
Probab=36.05 E-value=38 Score=18.65 Aligned_cols=15 Identities=27% Similarity=0.479 Sum_probs=13.2
Q ss_pred CHHHHHHHHHHhhhc
Q 043302 49 TSKILSKVINLLTVS 63 (71)
Q Consensus 49 ~~~~L~kViewc~~h 63 (71)
+..+++.||||+.|-
T Consensus 22 d~nivrTiiEFLtfL 36 (62)
T PF06540_consen 22 DDNIVRTIIEFLTFL 36 (62)
T ss_pred hhHHHHHHHHHHHHH
Confidence 789999999999873
No 48
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=35.93 E-value=42 Score=16.82 Aligned_cols=18 Identities=11% Similarity=0.272 Sum_probs=15.3
Q ss_pred CCCCCHHHHHHHHHHhhh
Q 043302 45 LPNVTSKILSKVINLLTV 62 (71)
Q Consensus 45 l~~V~~~~L~kViewc~~ 62 (71)
+|+-...+|+.|++.|.-
T Consensus 12 FP~~kr~~Le~iL~~C~G 29 (39)
T PF03474_consen 12 FPHQKRSVLELILQRCNG 29 (39)
T ss_pred CCCCChHHHHHHHHHcCC
Confidence 678889999999999863
No 49
>PF06411 HdeA: HdeA/HdeB family; InterPro: IPR010486 HNS (histone-like nucleoid structuring)-dependent expression A (HdeA) protein is a stress response protein found in highly acid resistant bacteria such as Shigella flexneri and Escherichia coli, but which is lacking in mildly acid tolerant bacteria such as Salmonella []. HdeA is one of the most abundant proteins found in the periplasmic space of E. coli, where it is one of a network of proteins that confer an acid resistance phenotype essential for the pathogenesis of enteric bacteria []. HdeA is thought to act as a chaperone, functioning to prevent the aggregation of periplasmic proteins denatured under acidic conditions. The HNS protein, a chromatin-associated protein that influences the gene expression of several environmentally-induced target genes, represses the expression of HdeA. HdeB, which is encoded within the same operon, may form heterodimers with HdeA. HdeA is a single domain protein with an overall fold that is similar to the fold of the N-terminal subdomain of the GluRS anticodon-binding domain. ; PDB: 1BG8_C 1DJ8_C 2XUV_C.
Probab=35.59 E-value=39 Score=19.38 Aligned_cols=25 Identities=12% Similarity=0.231 Sum_probs=16.2
Q ss_pred CcccCCCCCHHHHHHHHHHhhhcCCC
Q 043302 41 NKIPLPNVTSKILSKVINLLTVSSTS 66 (71)
Q Consensus 41 ~~Ipl~~V~~~~L~kViewc~~h~~d 66 (71)
+.+-+..+... -.+|++||..|.+.
T Consensus 65 d~vD~~~~~~~-tp~v~~~Ckk~P~~ 89 (94)
T PF06411_consen 65 DYVDFDGIETV-TPKVVEYCKKNPKS 89 (94)
T ss_dssp CBB-HHHHHHH-HHHHHHHHHCTTTS
T ss_pred CeeeHHHHHHh-hHHHHHHHHHCccc
Confidence 34444444444 78999999998754
No 50
>PF06613 KorB_C: KorB C-terminal beta-barrel domain; InterPro: IPR010575 This domain is found in several KorB transcriptional repressor proteins. The korB gene is a major regulatory element in the replication and maintenance of broad host-range plasmid RK2. It negatively controls the replication gene trfA, the host-lethal determinants kilA and kilB, and the korA-korB operon []. This family is found in conjunction with IPR003115 from INTERPRO.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1IGQ_B 1IGU_A.
Probab=35.04 E-value=73 Score=17.45 Aligned_cols=21 Identities=29% Similarity=0.278 Sum_probs=13.4
Q ss_pred CCceEEEEeCC-CCEEEEeHHH
Q 043302 3 THKKITLKSLD-GKAFKVDEVV 23 (71)
Q Consensus 3 ~~~~i~L~SsD-g~~f~v~~~~ 23 (71)
+.-...|+-.| |++|+++..-
T Consensus 30 ~~G~~WiKyED~G~e~E~dl~~ 51 (60)
T PF06613_consen 30 SEGLAWIKYEDDGEEFEVDLGS 51 (60)
T ss_dssp STTEEEEEETTT--EEEEEGGG
T ss_pred cCCeEEEEEccCCcEEEEEccc
Confidence 34577788766 9999998643
No 51
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=34.99 E-value=47 Score=18.73 Aligned_cols=22 Identities=14% Similarity=0.187 Sum_probs=18.0
Q ss_pred ccCCCCCHHHHHHHHHHhhhcC
Q 043302 43 IPLPNVTSKILSKVINLLTVSS 64 (71)
Q Consensus 43 Ipl~~V~~~~L~kViewc~~h~ 64 (71)
|-=.+.+..+.+++..+|+++.
T Consensus 32 iiA~D~~~~~~~~i~~~c~~~~ 53 (82)
T PRK13602 32 VVAEDADPRLTEKVEALANEKG 53 (82)
T ss_pred EEECCCCHHHHHHHHHHHHHcC
Confidence 3344889999999999999875
No 52
>PRK01474 atpC F0F1 ATP synthase subunit epsilon; Validated
Probab=34.92 E-value=41 Score=20.07 Aligned_cols=20 Identities=15% Similarity=0.132 Sum_probs=15.2
Q ss_pred CCCCceEEEEeCCCCEEEEe
Q 043302 1 MSTHKKITLKSLDGKAFKVD 20 (71)
Q Consensus 1 ms~~~~i~L~SsDg~~f~v~ 20 (71)
||..-.++++|.+|..|.-+
T Consensus 1 m~~~~~l~IvTP~~~~~~~~ 20 (112)
T PRK01474 1 MNETILVKIITPLSIAFEKQ 20 (112)
T ss_pred CCceEEEEEEcCCceEEeee
Confidence 77666788888888888644
No 53
>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair. ; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.
Probab=34.90 E-value=61 Score=18.97 Aligned_cols=61 Identities=10% Similarity=0.083 Sum_probs=31.1
Q ss_pred CCceEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCC---CCC---c------ccCC-CCCHHHHHHHHHHhhhcC
Q 043302 3 THKKITLKSLDGKAFKVDEVVALESQTIEHMIGDDC---VKN---K------IPLP-NVTSKILSKVINLLTVSS 64 (71)
Q Consensus 3 ~~~~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~---~~~---~------Ipl~-~V~~~~L~kViewc~~h~ 64 (71)
.+..+++.|+||..+.|...--. ...+..+++--| .+. . +++- +++-+...++++.+.+++
T Consensus 33 ~g~~~~l~~~d~~~V~v~l~~~~-~~~~~~~vEviG~V~~~~~~~~i~~~~~~~~g~~~D~~~y~~lv~l~~~~p 106 (109)
T PF08661_consen 33 DGGSATLSTSDGGQVTVSLNPPS-DEELSKYVEVIGKVNDDGTVLSIRYFSFTDFGDDFDMDLYNELVQLTHKFP 106 (109)
T ss_dssp TSSEEEEE-TTS-EEEEEESS---SS---SEEEEEEEE-TTS-EEEEEEEE---SSS---HHHHHHHHHHHHHSG
T ss_pred CCCEEEEEcCCCCEEEEEeCCCC-CCCCCCEEEEEEEEcCCCCceEEEEEEeccCCCCcCHHHHHHHHHHHhhCC
Confidence 36789999999998887543211 111233333222 111 1 1333 789999999999987764
No 54
>PF11165 DUF2949: Protein of unknown function (DUF2949); InterPro: IPR021336 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=34.74 E-value=39 Score=18.29 Aligned_cols=15 Identities=20% Similarity=0.359 Sum_probs=13.2
Q ss_pred CCHHHHHHHHHHhhh
Q 043302 48 VTSKILSKVINLLTV 62 (71)
Q Consensus 48 V~~~~L~kViewc~~ 62 (71)
|+=..|++|++|+++
T Consensus 44 ItL~QL~~i~DWl~~ 58 (58)
T PF11165_consen 44 ITLEQLDQIFDWLEN 58 (58)
T ss_pred ccHHHHHHHHHHHhC
Confidence 788999999999874
No 55
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=34.64 E-value=32 Score=18.19 Aligned_cols=30 Identities=23% Similarity=0.339 Sum_probs=19.1
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhh
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIG 35 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~ 35 (71)
.+++++.+|+.+.+.-.....-.-|+..+.
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~ 31 (76)
T cd01806 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVE 31 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCCHHHHHHHHh
Confidence 478999999998875443333344455554
No 56
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=33.72 E-value=53 Score=17.29 Aligned_cols=15 Identities=40% Similarity=0.636 Sum_probs=12.4
Q ss_pred eEEEEeCCCCEEEEe
Q 043302 6 KITLKSLDGKAFKVD 20 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~ 20 (71)
.++|++.+|+.+.+.
T Consensus 2 ~i~v~~~~~~~~~~~ 16 (72)
T PF11976_consen 2 TIKVRSQDGKEIKFK 16 (72)
T ss_dssp EEEEEETTSEEEEEE
T ss_pred EEEEEeCCCCEEEEE
Confidence 488999999988774
No 57
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=33.24 E-value=53 Score=18.73 Aligned_cols=24 Identities=13% Similarity=0.077 Sum_probs=18.9
Q ss_pred cccCCCCCHHHHHHHHHHhhhcCC
Q 043302 42 KIPLPNVTSKILSKVINLLTVSST 65 (71)
Q Consensus 42 ~Ipl~~V~~~~L~kViewc~~h~~ 65 (71)
.|-=.+.+..+.+++..+|+++.-
T Consensus 28 ViiA~Da~~~~~k~i~~~c~~~~V 51 (82)
T PRK13601 28 VYIAKDAEEHVTKKIKELCEEKSI 51 (82)
T ss_pred EEEeCCCCHHHHHHHHHHHHhCCC
Confidence 343448899999999999998763
No 58
>PRK11675 LexA regulated protein; Provisional
Probab=32.31 E-value=44 Score=19.68 Aligned_cols=22 Identities=9% Similarity=0.286 Sum_probs=18.2
Q ss_pred ccCCCCCHHHHHHHHHHhhhcCC
Q 043302 43 IPLPNVTSKILSKVINLLTVSST 65 (71)
Q Consensus 43 Ipl~~V~~~~L~kViewc~~h~~ 65 (71)
|.| .|+...++++-+||+.|.-
T Consensus 53 veV-Kldedl~ekL~eyAe~~ni 74 (90)
T PRK11675 53 VEL-KLNADLVDALNELAEARNI 74 (90)
T ss_pred EEE-EECHHHHHHHHHHHHHcCC
Confidence 444 7899999999999998864
No 59
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=31.54 E-value=51 Score=16.20 Aligned_cols=18 Identities=39% Similarity=0.582 Sum_probs=14.4
Q ss_pred CceEEEEeCCCCEEEEeH
Q 043302 4 HKKITLKSLDGKAFKVDE 21 (71)
Q Consensus 4 ~~~i~L~SsDg~~f~v~~ 21 (71)
+..+++++.||+...|++
T Consensus 23 g~~vtV~~~~G~~~tv~~ 40 (42)
T PF02736_consen 23 GDKVTVKTEDGKEVTVKK 40 (42)
T ss_dssp SSEEEEEETTTEEEEEEG
T ss_pred CCEEEEEECCCCEEEeCC
Confidence 457888999999888865
No 60
>TIGR00190 thiC thiamine biosynthesis protein ThiC. The thiC ortholog is designated thiA in Bacillus subtilis.
Probab=31.12 E-value=34 Score=25.51 Aligned_cols=16 Identities=6% Similarity=0.185 Sum_probs=13.7
Q ss_pred HHHHHHhhhcCCCCCC
Q 043302 54 SKVINLLTVSSTSKPF 69 (71)
Q Consensus 54 ~kViewc~~h~~d~p~ 69 (71)
..+..||.||..+.||
T Consensus 186 s~~~~WM~~~~~ENPl 201 (423)
T TIGR00190 186 AILAAWMLHHHKENPL 201 (423)
T ss_pred HHHHHHHHHcCCcCch
Confidence 4467899999999997
No 61
>KOG3321 consensus Mitochondrial ribosomal protein S10 [Translation, ribosomal structure and biogenesis]
Probab=30.65 E-value=31 Score=22.68 Aligned_cols=25 Identities=20% Similarity=0.234 Sum_probs=21.4
Q ss_pred CcccCCCCCHHHHHHHHHHhhhcCC
Q 043302 41 NKIPLPNVTSKILSKVINLLTVSST 65 (71)
Q Consensus 41 ~~Ipl~~V~~~~L~kViewc~~h~~ 65 (71)
.-|.+-++++.+|+..+||.+.|.-
T Consensus 115 R~i~l~~~tgsTl~tfleYI~rn~p 139 (175)
T KOG3321|consen 115 RLIELYSVTGSTLDTFLEYIQRNLP 139 (175)
T ss_pred HHHHHhhcCchHHHHHHHHHHhhCh
Confidence 4577889999999999999988753
No 62
>PF00646 F-box: F-box domain; InterPro: IPR001810 The F-box domain was first described as a sequence motif found in cyclin-F that interacts with the protein SKP1 [, ]. This relatively conserved structural motif is present in numerous proteins and serves as a link between a target protein and a ubiquitin-conjugating enzyme. The SCF complex (e.g., Skp1-Cullin-F-box) plays a similar role as an E3 ligase in the ubiquitin protein degradation pathway [, ]. Different F-box proteins as a part of SCF complex recruit particular substrates for ubiquitination through specific protein-protein interaction domains. Many mammalian F-box domains contain leucine-rich or WD-40 repeats (IPR001680 from INTERPRO). However, several F-box proteins either have other previously described domains such as Sec7 domain found in FBS protein or do not contain defined protein-protein interaction domains or motifs.; GO: 0005515 protein binding; PDB: 2E32_A 2E31_A 3V7D_B 1NEX_B 3MKS_D 3L2O_B.
Probab=30.40 E-value=15 Score=17.83 Aligned_cols=18 Identities=22% Similarity=0.530 Sum_probs=11.9
Q ss_pred CCCCCHHHHHHHHHHhhh
Q 043302 45 LPNVTSKILSKVINLLTV 62 (71)
Q Consensus 45 l~~V~~~~L~kViewc~~ 62 (71)
+.+.+.+++..|++|+..
T Consensus 3 ~~~LP~~il~~Il~~l~~ 20 (48)
T PF00646_consen 3 LSDLPDEILQEILSYLDP 20 (48)
T ss_dssp HHHS-HHHHHHHHHTS-H
T ss_pred HHHCCHHHHHHHHHHCcH
Confidence 445677888899888753
No 63
>KOG4068 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.06 E-value=34 Score=22.46 Aligned_cols=12 Identities=0% Similarity=0.049 Sum_probs=9.9
Q ss_pred HHHHHHhhhcCC
Q 043302 54 SKVINLLTVSST 65 (71)
Q Consensus 54 ~kViewc~~h~~ 65 (71)
..|+.||.||+-
T Consensus 32 ~lil~ycr~~k~ 43 (174)
T KOG4068|consen 32 DLILQYCRHNKI 43 (174)
T ss_pred HHHHHHHHhcCe
Confidence 569999999873
No 64
>PRK13352 thiamine biosynthesis protein ThiC; Provisional
Probab=29.88 E-value=36 Score=25.46 Aligned_cols=16 Identities=13% Similarity=0.229 Sum_probs=13.7
Q ss_pred HHHHHHhhhcCCCCCC
Q 043302 54 SKVINLLTVSSTSKPF 69 (71)
Q Consensus 54 ~kViewc~~h~~d~p~ 69 (71)
..+..||.||..+.||
T Consensus 189 s~~~~WM~~n~~ENPl 204 (431)
T PRK13352 189 SFLAAWMLHNNKENPL 204 (431)
T ss_pred HHHHHHHHHcCCcCch
Confidence 4467999999999997
No 65
>PF07818 HCNGP: HCNGP-like protein; InterPro: IPR012479 This family comprises sequences bearing significant similarity to the mouse transcriptional regulator protein HCNGP (Q02614 from SWISSPROT). This protein is localised to the nucleus and is thought to be involved in the regulation of beta-2-microglobulin genes.
Probab=29.82 E-value=42 Score=19.76 Aligned_cols=15 Identities=27% Similarity=0.569 Sum_probs=12.8
Q ss_pred CHHHHHHHHHHhhhc
Q 043302 49 TSKILSKVINLLTVS 63 (71)
Q Consensus 49 ~~~~L~kViewc~~h 63 (71)
+..+|+|+++||.=.
T Consensus 42 NP~i~ekLi~~~~Id 56 (96)
T PF07818_consen 42 NPSILEKLIEFFGID 56 (96)
T ss_pred ChHHHHHHHHHcCCC
Confidence 788999999999753
No 66
>PTZ00039 40S ribosomal protein S20; Provisional
Probab=29.41 E-value=1.4e+02 Score=18.27 Aligned_cols=7 Identities=14% Similarity=0.596 Sum_probs=5.9
Q ss_pred CCcccCC
Q 043302 40 KNKIPLP 46 (71)
Q Consensus 40 ~~~Ipl~ 46 (71)
.+|||||
T Consensus 50 ~GPipLP 56 (115)
T PTZ00039 50 TGPVRMP 56 (115)
T ss_pred ECCccCC
Confidence 5899998
No 67
>PF13417 GST_N_3: Glutathione S-transferase, N-terminal domain; PDB: 3ERG_B 3IBH_A 3ERF_A 3UBL_A 3UBK_A 3IR4_A 3M8N_B 2R4V_A 2PER_A 2R5G_A ....
Probab=29.27 E-value=36 Score=18.10 Aligned_cols=15 Identities=20% Similarity=0.359 Sum_probs=11.3
Q ss_pred HHHHHHhhhcCCCCC
Q 043302 54 SKVINLLTVSSTSKP 68 (71)
Q Consensus 54 ~kViewc~~h~~d~p 68 (71)
.-|++|++.+..++|
T Consensus 61 ~~I~~yL~~~~~~~p 75 (75)
T PF13417_consen 61 AAIIEYLEERYPGPP 75 (75)
T ss_dssp HHHHHHHHHHSTSS-
T ss_pred HHHHHHHHHHcCCCC
Confidence 468889988888776
No 68
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=29.03 E-value=74 Score=16.06 Aligned_cols=21 Identities=10% Similarity=0.207 Sum_probs=17.5
Q ss_pred CCCCHHHHHHHHHHhhhcCCC
Q 043302 46 PNVTSKILSKVINLLTVSSTS 66 (71)
Q Consensus 46 ~~V~~~~L~kViewc~~h~~d 66 (71)
+.|+.++-++|.+..+.+.+-
T Consensus 24 ~~vs~~tr~rI~~~a~~lgY~ 44 (46)
T PF00356_consen 24 PRVSEETRERILEAAEELGYR 44 (46)
T ss_dssp SSSTHHHHHHHHHHHHHHTB-
T ss_pred CCCCHHHHHHHHHHHHHHCCC
Confidence 579999999999999887654
No 69
>PHA02754 hypothetical protein; Provisional
Probab=28.97 E-value=62 Score=17.82 Aligned_cols=19 Identities=21% Similarity=0.328 Sum_probs=15.0
Q ss_pred CCceEEEEeCCCCEEEEeH
Q 043302 3 THKKITLKSLDGKAFKVDE 21 (71)
Q Consensus 3 ~~~~i~L~SsDg~~f~v~~ 21 (71)
|++.+.++++||...+++.
T Consensus 43 SGdkIVVi~aD~I~i~ls~ 61 (67)
T PHA02754 43 SGDKIVVITADAIKIELSE 61 (67)
T ss_pred cCCEEEEEEcceEEEEEEe
Confidence 4667888999998888753
No 70
>PF09329 zf-primase: Primase zinc finger; InterPro: IPR015408 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This zinc finger domain is found in Mcm10 proteins and DnaG-type primases []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0006260 DNA replication, 0005634 nucleus; PDB: 3H15_A 3EBE_C.
Probab=28.46 E-value=13 Score=19.00 Aligned_cols=9 Identities=0% Similarity=-0.333 Sum_probs=5.2
Q ss_pred HHHHhhhcC
Q 043302 56 VINLLTVSS 64 (71)
Q Consensus 56 Viewc~~h~ 64 (71)
.-+||+||.
T Consensus 27 ~~~~C~yH~ 35 (46)
T PF09329_consen 27 KGEYCDYHV 35 (46)
T ss_dssp T-SS-TTTH
T ss_pred CCcccHHHH
Confidence 357888885
No 71
>PF13605 DUF4141: Domain of unknown function (DUF4141)
Probab=28.12 E-value=75 Score=17.06 Aligned_cols=17 Identities=18% Similarity=0.306 Sum_probs=14.4
Q ss_pred eHHHHHHhHHHHHHhhC
Q 043302 20 DEVVALESQTIEHMIGD 36 (71)
Q Consensus 20 ~~~~a~~S~~i~~ml~~ 36 (71)
.+++++-|.|.++|+++
T Consensus 38 a~eivqtS~Ta~N~~~n 54 (55)
T PF13605_consen 38 AKEIVQTSKTASNMLKN 54 (55)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 47788999999999875
No 72
>PF01498 HTH_Tnp_Tc3_2: Transposase; InterPro: IPR002492 Transposase proteins are necessary for efficient DNA transposition. This family includes the amino-terminal region of Tc1, Tc1A, Tc1B and Tc2B transposases of Caenorhabditis elegans. The region encompasses the specific DNA binding and second DNA recognition domains as well as an amino-terminal region of the catalytic domain of Tc3 as described in []. Tc3 is a member of the Tc1/mariner family of transposable elements. This entry also includes histone-lysine N-methyltransferase SETMAR, which is a SET domain and mariner transposase fusion gene-containing protein. This histone methyltransferase has sequence-specific DNA-binding activity and recognises the 19-mer core of the 5'-terminal inverted repeats (TIRs) of the Hsmar1 element. This protein has DNA nicking activity, and has in vivo end joining activity and may mediate genomic integration of foreign DNA [, , , ]. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated, 0015074 DNA integration; PDB: 3K9K_B 3F2K_B 3K9J_B 1U78_A.
Probab=27.99 E-value=57 Score=17.31 Aligned_cols=38 Identities=16% Similarity=0.154 Sum_probs=19.3
Q ss_pred HHHHHHhhCCCCC--CcccCCCCCHHHHHHHHHHhhhcCC
Q 043302 28 QTIEHMIGDDCVK--NKIPLPNVTSKILSKVINLLTVSST 65 (71)
Q Consensus 28 ~~i~~ml~~~~~~--~~Ipl~~V~~~~L~kViewc~~h~~ 65 (71)
.||+..|...|.. .+.--|-++..-.++=++||..|.+
T Consensus 33 ~TI~r~L~~~g~~~~~~~~kP~Ls~~~~~~Rl~fA~~h~~ 72 (72)
T PF01498_consen 33 STIRRRLREAGLKKRKARKKPFLSPKHKKKRLEFAKEHLD 72 (72)
T ss_dssp HHHHHHHHHT-EEEETTEEEES--HHHHHHHHHHH-----
T ss_pred HHHHHHHHHcCccccccccCCCCCHHHHHHHHHHhhhccC
Confidence 5677766665521 1222334799999999999998864
No 73
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=27.98 E-value=71 Score=18.60 Aligned_cols=19 Identities=16% Similarity=0.174 Sum_probs=16.7
Q ss_pred CCCCHHHHHHHHHHhhhcC
Q 043302 46 PNVTSKILSKVINLLTVSS 64 (71)
Q Consensus 46 ~~V~~~~L~kViewc~~h~ 64 (71)
.+.+..+-+++..||++++
T Consensus 40 ~D~~~~~~~~i~~~c~~~~ 58 (99)
T PRK01018 40 SNCPKDIKEDIEYYAKLSG 58 (99)
T ss_pred CCCCHHHHHHHHHHHHHcC
Confidence 4788999999999999885
No 74
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=27.55 E-value=67 Score=21.68 Aligned_cols=16 Identities=25% Similarity=0.455 Sum_probs=13.8
Q ss_pred CceEEEEeCCCCEEEE
Q 043302 4 HKKITLKSLDGKAFKV 19 (71)
Q Consensus 4 ~~~i~L~SsDg~~f~v 19 (71)
.++|+++|.+|..|.+
T Consensus 73 kQFiTv~Tk~gn~Fyl 88 (218)
T PF14283_consen 73 KQFITVTTKSGNTFYL 88 (218)
T ss_pred cEEEEEEecCCCEEEE
Confidence 3689999999999964
No 75
>PF11094 UL11: Membrane-associated tegument protein; InterPro: IPR024351 The UL11 gene product of herpes simplex virus is a membrane-associated tegument protein that is incorporated into the HSV virion and functions in viral envelopment []. UL11 is acylated, which is crucial for lipid raft association [].
Probab=27.52 E-value=75 Score=15.93 Aligned_cols=18 Identities=17% Similarity=0.254 Sum_probs=14.4
Q ss_pred eEEEEeCCCCEEEEeHHH
Q 043302 6 KITLKSLDGKAFKVDEVV 23 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~ 23 (71)
.=.|++++|+++.++.+.
T Consensus 15 ~N~LvT~~Ge~vsL~a~~ 32 (39)
T PF11094_consen 15 RNVLVTHSGETVSLDAEE 32 (39)
T ss_pred cCEEEccCCeEEEeChhh
Confidence 457899999999887654
No 76
>PHA01623 hypothetical protein
Probab=27.34 E-value=81 Score=16.64 Aligned_cols=19 Identities=0% Similarity=0.022 Sum_probs=15.2
Q ss_pred CCCHHHHHHHHHHhhhcCC
Q 043302 47 NVTSKILSKVINLLTVSST 65 (71)
Q Consensus 47 ~V~~~~L~kViewc~~h~~ 65 (71)
.++...++++-.||..|..
T Consensus 19 rldeel~~~Ld~y~~~~g~ 37 (56)
T PHA01623 19 YMDKDLKTRLKVYCAKNNL 37 (56)
T ss_pred EeCHHHHHHHHHHHHHcCC
Confidence 5678888888888888764
No 77
>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]
Probab=27.30 E-value=54 Score=29.53 Aligned_cols=45 Identities=29% Similarity=0.403 Sum_probs=31.5
Q ss_pred ceEEEEeCCCCEEEE----------eHHHHHHhHHHHHHhhCCC----------CCCcccCCCCC
Q 043302 5 KKITLKSLDGKAFKV----------DEVVALESQTIEHMIGDDC----------VKNKIPLPNVT 49 (71)
Q Consensus 5 ~~i~L~SsDg~~f~v----------~~~~a~~S~~i~~ml~~~~----------~~~~Ipl~~V~ 49 (71)
+.|+|+.+||..+.+ |.+..+.-.+|..+|.... .-.+|||.+=.
T Consensus 2060 KkI~l~GsDGk~Y~~lCKpKDDLRKD~RlMeFn~lin~lL~KD~eSRrR~L~IRTYaViPLneeC 2124 (2382)
T KOG0890|consen 2060 KKIKLRGSDGKIYPFLCKPKDDLRKDARLMEFNELINKLLRKDQESRRRKLYIRTYAVIPLNEEC 2124 (2382)
T ss_pred eEEEEEcCCCCEeEEEeCchhhhhhhhHHHHHHHHHHHHHhhCHHHhhhcceeeEEEEeecCCcc
Confidence 589999999999987 4555666777888775421 12677875443
No 78
>PRK00596 rpsJ 30S ribosomal protein S10; Reviewed
Probab=27.27 E-value=1.4e+02 Score=17.54 Aligned_cols=36 Identities=25% Similarity=0.456 Sum_probs=19.3
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCCC--CCcccCCC
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIGDDCV--KNKIPLPN 47 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~~--~~~Ipl~~ 47 (71)
.|+|.|-|- ..+-..+..|.......+. .+|||||.
T Consensus 7 rI~l~S~d~------~~L~~~~~~i~~~a~~~~i~v~GpipLPt 44 (102)
T PRK00596 7 RIRLKAFDH------RLLDQSAKKIVETAKRTGAQVRGPIPLPT 44 (102)
T ss_pred EEEEEECCH------HHHHHHHHHHHHHHHHcCCeEECCcCCCc
Confidence 577777772 2222333444444444442 47888874
No 79
>PF03579 SHP: Small hydrophobic protein; InterPro: IPR005327 The small hydrophobic integral membrane protein, SH (previously designated 1A) is found to have a variety of glycosylated forms [, ]. This protein is a component of the mature respiratory syncytial virion [] where it may form complexes and appears to play a structural role.; GO: 0016020 membrane, 0016021 integral to membrane, 0048222 glycoprotein network
Probab=27.20 E-value=60 Score=17.81 Aligned_cols=19 Identities=21% Similarity=0.387 Sum_probs=15.6
Q ss_pred CCCHHHHHHHHHHhhhcCC
Q 043302 47 NVTSKILSKVINLLTVSST 65 (71)
Q Consensus 47 ~V~~~~L~kViewc~~h~~ 65 (71)
.+-.++|.|.+||-.+|.+
T Consensus 35 si~~AILNKLcd~n~~h~~ 53 (64)
T PF03579_consen 35 SIMAAILNKLCDLNDFHTN 53 (64)
T ss_pred HHHHHHHHHHHHhhhhccc
Confidence 3457899999999988875
No 80
>PRK09284 thiamine biosynthesis protein ThiC; Provisional
Probab=26.61 E-value=43 Score=26.05 Aligned_cols=16 Identities=6% Similarity=-0.056 Sum_probs=13.6
Q ss_pred HHHHHHhhhcCCCCCC
Q 043302 54 SKVINLLTVSSTSKPF 69 (71)
Q Consensus 54 ~kViewc~~h~~d~p~ 69 (71)
..+..||.+|..+.|+
T Consensus 339 Sima~Wml~h~kENpl 354 (607)
T PRK09284 339 SIMAKWCLAHHKENFL 354 (607)
T ss_pred HHHHHHHHHcCCcCcH
Confidence 4567999999999986
No 81
>PRK07714 hypothetical protein; Provisional
Probab=26.33 E-value=77 Score=18.35 Aligned_cols=20 Identities=10% Similarity=0.067 Sum_probs=17.2
Q ss_pred CCCCCHHHHHHHHHHhhhcC
Q 043302 45 LPNVTSKILSKVINLLTVSS 64 (71)
Q Consensus 45 l~~V~~~~L~kViewc~~h~ 64 (71)
=.+++..+-+++..||+++.
T Consensus 41 A~D~s~~~~~ki~~~~~~~~ 60 (100)
T PRK07714 41 SEDASVNTTKKITDKCTYYN 60 (100)
T ss_pred eCCCCHHHHHHHHHHHHhcC
Confidence 34899999999999999865
No 82
>PLN02444 HMP-P synthase
Probab=26.28 E-value=44 Score=26.13 Aligned_cols=16 Identities=6% Similarity=-0.255 Sum_probs=13.7
Q ss_pred HHHHHHhhhcCCCCCC
Q 043302 54 SKVINLLTVSSTSKPF 69 (71)
Q Consensus 54 ~kViewc~~h~~d~p~ 69 (71)
..+..||.+|..+.|+
T Consensus 344 Si~a~Wml~~~kENPl 359 (642)
T PLN02444 344 SIHAKWCLAYHKENFA 359 (642)
T ss_pred HHHHHHHHHcCCcCch
Confidence 4567999999999996
No 83
>PF05321 HHA: Haemolysin expression modulating protein; InterPro: IPR007985 This family consists of haemolysin expression modulating protein (Hha) from Escherichia coli and its enterobacterial homologues, such as YmoA from Yersinia enterocolitica, and RmoA encoded on the R100 plasmid. These proteins act as modulators of bacterial gene expression. Members of the Hha/YmoA/RmoA family act in conjunction with members of the H-NS family, participating in the thermoregulation of different virulence factors and in plasmid transfer []. Hha, along with the chromatin-associated protein H-NS, is involved in the regulation of expression of the toxin alpha-haemolysin in response to osmolarity and temperature []. YmoA modulates the expression of various virulence factors, such as Yop proteins and YadA adhesin, in response to temperature. RmoA is a plasmid R100 modulator involved in plasmid transfer []. The HHA family of proteins display striking similarity to the oligomerization domain of the H-NS proteins.; PDB: 1JW2_A 2K5S_A 2JQT_A.
Probab=26.23 E-value=69 Score=17.37 Aligned_cols=16 Identities=25% Similarity=0.144 Sum_probs=12.1
Q ss_pred CHHHHHHHHHHhhhcC
Q 043302 49 TSKILSKVINLLTVSS 64 (71)
Q Consensus 49 ~~~~L~kViewc~~h~ 64 (71)
+.++|+||++...+.-
T Consensus 8 s~dtLEkv~e~~~~~L 23 (57)
T PF05321_consen 8 SLDTLEKVIEHNRYKL 23 (57)
T ss_dssp -HHHHHHHHHHHHHHS
T ss_pred CHhhHHHHHHHhhCcC
Confidence 4579999999887653
No 84
>COG1582 FlgEa Uncharacterized protein, possibly involved in motility [Cell motility and secretion]
Probab=25.99 E-value=71 Score=17.83 Aligned_cols=56 Identities=14% Similarity=0.182 Sum_probs=30.5
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHH-hhCCCCCCcccCCCCCHHHHHHHHHHhhh
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHM-IGDDCVKNKIPLPNVTSKILSKVINLLTV 62 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~m-l~~~~~~~~Ipl~~V~~~~L~kViewc~~ 62 (71)
+|+|.--+|..|.+....+.+....-+. +.-. ....+-+.+--..++.||++|-..
T Consensus 1 MI~vtrlNG~~~~lN~~~IE~ie~~PDttItLi-nGkkyvVkEsveEVi~kI~~y~rk 57 (67)
T COG1582 1 MIKVTRLNGREFWLNAHHIETIEAFPDTTITLI-NGKKYVVKESVEEVINKIIEYRRK 57 (67)
T ss_pred CeEEEEecCcceeeCHHHhhhhhccCCcEEEEE-cCcEEEEcccHHHHHHHHHHHHHH
Confidence 3677778899999987765543211100 0000 012222334446788999998543
No 85
>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=25.97 E-value=96 Score=22.93 Aligned_cols=25 Identities=20% Similarity=0.282 Sum_probs=21.0
Q ss_pred CcccCCCCCHHHHHHHHHHhhhcCC
Q 043302 41 NKIPLPNVTSKILSKVINLLTVSST 65 (71)
Q Consensus 41 ~~Ipl~~V~~~~L~kViewc~~h~~ 65 (71)
.|+=||+++.+-+.++|+|...-..
T Consensus 261 aPv~lPG~ND~E~~~iIe~A~~iGa 285 (414)
T COG2100 261 APVWLPGVNDDEMPKIIEWAREIGA 285 (414)
T ss_pred eeeecCCcChHHHHHHHHHHHHhCC
Confidence 5667999999999999999876543
No 86
>PF09088 MIF4G_like: MIF4G like; InterPro: IPR015172 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 1", and is found in nuclear cap-binding proteins and eIF4G. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA.; GO: 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A.
Probab=25.93 E-value=82 Score=20.93 Aligned_cols=20 Identities=5% Similarity=0.200 Sum_probs=15.6
Q ss_pred CCCCCHHHHHHHHHHhhhcC
Q 043302 45 LPNVTSKILSKVINLLTVSS 64 (71)
Q Consensus 45 l~~V~~~~L~kViewc~~h~ 64 (71)
++..+.....+.++|+.||-
T Consensus 122 l~~md~e~~~Rf~dWfS~hL 141 (191)
T PF09088_consen 122 LDSMDFELRDRFVDWFSHHL 141 (191)
T ss_dssp GGGB-HHHHHHHHHHHHHHH
T ss_pred hhhcCHHHHHHHHHHHHHHH
Confidence 55678888899999999984
No 87
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=25.81 E-value=77 Score=21.89 Aligned_cols=19 Identities=32% Similarity=0.511 Sum_probs=16.0
Q ss_pred CceEEEEeCCCCEEEEeHH
Q 043302 4 HKKITLKSLDGKAFKVDEV 22 (71)
Q Consensus 4 ~~~i~L~SsDg~~f~v~~~ 22 (71)
.+.+++-|.||+.|+|+.+
T Consensus 5 draltvFSPDGhL~QVEYA 23 (249)
T KOG0183|consen 5 DRALTVFSPDGHLFQVEYA 23 (249)
T ss_pred ccceEEECCCCCEEeeHhH
Confidence 4678999999999999654
No 88
>PF07430 PP1: Phloem filament protein PP1; InterPro: IPR009994 This domain represents a conserved region approximately 200 residues long, four copies of which are found within the plant phloem filament protein PP1. This is one of the constituents of the proteinaceous filaments found in the sieve elements of Cucurbita phloem [].
Probab=25.78 E-value=54 Score=22.10 Aligned_cols=20 Identities=25% Similarity=0.416 Sum_probs=17.8
Q ss_pred CcccCCCCCHHHHHHHHHHh
Q 043302 41 NKIPLPNVTSKILSKVINLL 60 (71)
Q Consensus 41 ~~Ipl~~V~~~~L~kViewc 60 (71)
.=||+|+|....|+-|++|.
T Consensus 9 ~w~~ip~v~~~~~q~v~~~~ 28 (202)
T PF07430_consen 9 KWIKIPDVKEPCLQEVAKFA 28 (202)
T ss_pred ccccCCcccchHHHHHHHHH
Confidence 55899999999999999885
No 89
>PRK06683 hypothetical protein; Provisional
Probab=25.57 E-value=86 Score=17.72 Aligned_cols=23 Identities=4% Similarity=0.047 Sum_probs=18.4
Q ss_pred cccCCCCCHHHHHHHHHHhhhcC
Q 043302 42 KIPLPNVTSKILSKVINLLTVSS 64 (71)
Q Consensus 42 ~Ipl~~V~~~~L~kViewc~~h~ 64 (71)
.|-=.+.+..+.+++.++|+++.
T Consensus 31 ViiA~Da~~~~~~~i~~~~~~~~ 53 (82)
T PRK06683 31 VVIAEDADMRLTHVIIRTALQHN 53 (82)
T ss_pred EEEECCCCHHHHHHHHHHHHhcC
Confidence 34344889999999999999875
No 90
>PRK13446 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=25.49 E-value=82 Score=19.34 Aligned_cols=18 Identities=17% Similarity=0.320 Sum_probs=12.3
Q ss_pred CCCCceEEEEeCCCCEEE
Q 043302 1 MSTHKKITLKSLDGKAFK 18 (71)
Q Consensus 1 ms~~~~i~L~SsDg~~f~ 18 (71)
|+..-.++++|.+|..|.
T Consensus 1 m~~~l~l~IvTP~~~~~~ 18 (136)
T PRK13446 1 MAKKLKLEIVTPEKKVLS 18 (136)
T ss_pred CCCccEEEEEcCCceEEe
Confidence 665556777777777665
No 91
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=25.45 E-value=74 Score=19.00 Aligned_cols=23 Identities=22% Similarity=0.341 Sum_probs=16.8
Q ss_pred ccCCCCCHHHHHHHHHHhhhcCC
Q 043302 43 IPLPNVTSKILSKVINLLTVSST 65 (71)
Q Consensus 43 Ipl~~V~~~~L~kViewc~~h~~ 65 (71)
|-+|..+...++++++.|+.|.-
T Consensus 147 ial~~~~~~~i~~ii~~~~~~~v 169 (175)
T PF13727_consen 147 IALPWSEEEQIKRIIEELENHGV 169 (175)
T ss_dssp E--TTS-HHHHHHHHHHHHTTT-
T ss_pred EEcCccCHHHHHHHHHHHHhCCC
Confidence 46788889999999999998753
No 92
>TIGR02603 CxxCH_TIGR02603 putative heme-binding domain, Pirellula/Verrucomicrobium type. This model represents a domain limited to very few species but expanded into large paralogous families in some species that conain it. We find it in over 20 copies each in Pirellula sp. strain 1 (phylum Planctomycetes) and Verrucomicrobium spinosum DSM 4136 (phylum Verrucomicrobia), and no matches above trusted cutoff an any other species so far. This domain, about 140 amino acids long, contains an absolutely conserved motif CxxCH, the cytochrome c family heme-binding site signature (PS00190).
Probab=25.29 E-value=1.6e+02 Score=17.71 Aligned_cols=50 Identities=14% Similarity=0.097 Sum_probs=32.3
Q ss_pred CceEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCCCCCccc---CCCCCHHHHHHHHHHhh
Q 043302 4 HKKITLKSLDGKAFKVDEVVALESQTIEHMIGDDCVKNKIP---LPNVTSKILSKVINLLT 61 (71)
Q Consensus 4 ~~~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~~~~~Ip---l~~V~~~~L~kViewc~ 61 (71)
...++|+..+|+.+.|.++-+.. +.... ....| +...+..-|.-+++|+.
T Consensus 79 ~~~~~l~~~~g~~~~i~~~~I~~------~~~~~--~S~MP~gl~~~Lt~~e~~dL~aYL~ 131 (133)
T TIGR02603 79 ADGVTVKMPGGVEQSVPREEIKS------REALP--VSLMPEGLEMGLSDQDLADLVAYLK 131 (133)
T ss_pred CCeEEEEcCCCcEEEEEHHHHHH------hhcCC--CCcCCchhhccCCHHHHHHHHHHHh
Confidence 35688888999999998765332 21111 12222 33578888999999985
No 93
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=25.26 E-value=73 Score=16.03 Aligned_cols=14 Identities=29% Similarity=0.487 Sum_probs=11.8
Q ss_pred CHHHHHHHHHHhhh
Q 043302 49 TSKILSKVINLLTV 62 (71)
Q Consensus 49 ~~~~L~kViewc~~ 62 (71)
...+|...++|..+
T Consensus 40 K~~iL~~ai~yI~~ 53 (55)
T PF00010_consen 40 KASILQKAIDYIKQ 53 (55)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 47899999999865
No 94
>PF12054 DUF3535: Domain of unknown function (DUF3535); InterPro: IPR022707 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 439 to 459 amino acids in length. This domain is found associated with PF00271 from PFAM, PF02985 from PFAM, and PF00176 from PFAM. This domain has two completely conserved residues (P and K) that may be functionally important.
Probab=25.01 E-value=32 Score=25.33 Aligned_cols=42 Identities=14% Similarity=0.180 Sum_probs=27.3
Q ss_pred hHHHHHHhhCCCCCCcccCCCCCHHHHHHHHHHhhhcCCCCCC
Q 043302 27 SQTIEHMIGDDCVKNKIPLPNVTSKILSKVINLLTVSSTSKPF 69 (71)
Q Consensus 27 S~~i~~ml~~~~~~~~Ipl~~V~~~~L~kViewc~~h~~d~p~ 69 (71)
+.+||.+++....++-..|..-++..|...|++|. ++.-.|.
T Consensus 311 nPiIrpLMdSIK~Een~~LQ~rsA~slA~Li~~~~-~rkp~Pn 352 (441)
T PF12054_consen 311 NPIIRPLMDSIKREENELLQQRSAESLARLIQLCV-DRKPCPN 352 (441)
T ss_pred cHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHHh-CCCCCCc
Confidence 45666666654333334577788888888888888 5544443
No 95
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=24.78 E-value=58 Score=14.16 Aligned_cols=16 Identities=6% Similarity=0.260 Sum_probs=12.4
Q ss_pred CCCHHHHHHHHHHhhh
Q 043302 47 NVTSKILSKVINLLTV 62 (71)
Q Consensus 47 ~V~~~~L~kViewc~~ 62 (71)
...+.++++++++|..
T Consensus 13 ~~g~~viqk~l~~~~~ 28 (36)
T smart00025 13 QYGNRVVQKLLEHASE 28 (36)
T ss_pred chhhHHHHHHHHHCCH
Confidence 4577888999988764
No 96
>PF02186 TFIIE_beta: TFIIE beta subunit core domain; InterPro: IPR003166 Initiation of eukaryotic mRNA transcription requires melting of promoter DNA with the help of the general transcription factors TFIIE and TFIIH. In higher eukaryotes, the general transcription factor TFIIE consists of two subunits: the large alpha subunit (IPR002853 from INTERPRO) and the small beta (IPR003166 from INTERPRO). TFIIE beta has been found to bind to the region where the promoter starts to open to be single-stranded upon transcription initiation by RNA polymerase II. The approximately 120-residue central core domain of TFIIE beta plays a role in double-stranded DNA binding of TFIIE []. The TFIIE beta central core DNA-binding domain consists of three helices with a beta hairpin at the C terminus, resembling the winged helix proteins. It shows a novel double-stranded DNA-binding activity where the DNA-binding surface locates on the opposite side to the previously reported winged helix motif by forming a positively charged furrow []. This entry represents the beta subunit of the transcription factor TFIIE.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005673 transcription factor TFIIE complex; PDB: 1D8K_A 1D8J_A.
Probab=24.10 E-value=80 Score=17.20 Aligned_cols=14 Identities=14% Similarity=0.211 Sum_probs=9.6
Q ss_pred HHHHHHHHHHhhhc
Q 043302 50 SKILSKVINLLTVS 63 (71)
Q Consensus 50 ~~~L~kViewc~~h 63 (71)
...|.+++||+..+
T Consensus 4 ~tql~~~VeymK~r 17 (65)
T PF02186_consen 4 FTQLAKAVEYMKKR 17 (65)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHhc
Confidence 45677777777665
No 97
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=23.84 E-value=66 Score=17.10 Aligned_cols=30 Identities=23% Similarity=0.314 Sum_probs=19.0
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhh
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIG 35 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~ 35 (71)
.+.+++.+|..|.++...-..-.-++..+.
T Consensus 2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~ 31 (77)
T cd01805 2 KITFKTLKQQTFPIEVDPDDTVAELKEKIE 31 (77)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHH
Confidence 478899999999886444333344444443
No 98
>PF03614 Flag1_repress: Repressor of phase-1 flagellin; InterPro: IPR003223 Flagellin is the subunit which polymerises to form the filaments of bacterial flagella. The proteins in this family are transcriptional repressors of phase-1 flagellin genes.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent
Probab=23.78 E-value=82 Score=20.51 Aligned_cols=14 Identities=21% Similarity=0.430 Sum_probs=12.2
Q ss_pred eEEEEeCCCCEEEE
Q 043302 6 KITLKSLDGKAFKV 19 (71)
Q Consensus 6 ~i~L~SsDg~~f~v 19 (71)
-|+++|.||+.|..
T Consensus 31 pVrvv~~ng~~f~m 44 (165)
T PF03614_consen 31 PVRVVSENGQVFCM 44 (165)
T ss_pred ceEEEecCCcEEEE
Confidence 48999999999975
No 99
>PTZ00044 ubiquitin; Provisional
Probab=23.65 E-value=79 Score=16.77 Aligned_cols=31 Identities=19% Similarity=0.243 Sum_probs=20.1
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhhC
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIGD 36 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~ 36 (71)
.|.+++.+|..+.+...--.--..|+..++.
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~ 32 (76)
T PTZ00044 2 QILIKTLTGKKQSFNFEPDNTVQQVKMALQE 32 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHH
Confidence 4788999999988755543334555555543
No 100
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=23.43 E-value=75 Score=16.99 Aligned_cols=31 Identities=16% Similarity=0.309 Sum_probs=19.9
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhhC
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIGD 36 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~ 36 (71)
.+.+++.+|..+.++-.....-.-++..+..
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~ 32 (74)
T cd01807 2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSE 32 (74)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHH
Confidence 4788999999988764443334445555543
No 101
>PTZ00238 expression site-associated gene (ESAG); Provisional
Probab=23.38 E-value=65 Score=23.08 Aligned_cols=50 Identities=24% Similarity=0.240 Sum_probs=28.2
Q ss_pred EEeCCCCEEEEeHHH-HHHhHHHHHHhhCCCCCCcccCCCCCH------HHHHHHHHH
Q 043302 9 LKSLDGKAFKVDEVV-ALESQTIEHMIGDDCVKNKIPLPNVTS------KILSKVINL 59 (71)
Q Consensus 9 L~SsDg~~f~v~~~~-a~~S~~i~~ml~~~~~~~~Ipl~~V~~------~~L~kView 59 (71)
|-|.-.+..-|.+++ |..|+.+.+| ++...+.+--|.=|++ +-|+|.|-|
T Consensus 56 LYtdGE~kl~VnEEVYANASRILDDM-EGktGES~kYLSVIsgvm~g~hDKLEKLISy 112 (326)
T PTZ00238 56 LYTDGERKLFVNEEVYANASRILDDM-EGKTGESVKYLSVISSVMEGEHDKLEKLISY 112 (326)
T ss_pred hhccchheeeccHHhhccHHHhhhhh-cccccCceeeeeeeehhhcccchhHHHHHHh
Confidence 444444556677776 8889988888 3322222233332333 237887776
No 102
>PF04700 Baculo_gp41: Structural glycoprotein p40/gp41 conserved region; InterPro: IPR006790 This is a family of viral structural glycoproteins [] from the baculoviridae.; GO: 0005198 structural molecule activity, 0019012 virion
Probab=23.34 E-value=1.3e+02 Score=20.11 Aligned_cols=28 Identities=25% Similarity=0.427 Sum_probs=19.8
Q ss_pred EeHHHHHHhHHHHHHhhCC-CCCCcccCC
Q 043302 19 VDEVVALESQTIEHMIGDD-CVKNKIPLP 46 (71)
Q Consensus 19 v~~~~a~~S~~i~~ml~~~-~~~~~Ipl~ 46 (71)
+.+++...|..++-++.+. ..+.|||||
T Consensus 55 l~eAA~hLs~~vkYQiA~AVT~n~PiPlp 83 (186)
T PF04700_consen 55 LNEAARHLSDVVKYQIAEAVTQNKPIPLP 83 (186)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCcCcc
Confidence 4566677788888877654 346788886
No 103
>PF11197 DUF2835: Protein of unknown function (DUF2835); InterPro: IPR021363 This is a bacterial family of uncharacterised proteins. One member of this family (A4VM42 from SWISSPROT) is annotated as the A subunit of Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV).
Probab=23.28 E-value=1.2e+02 Score=16.86 Aligned_cols=21 Identities=19% Similarity=0.257 Sum_probs=17.8
Q ss_pred ceEEEEeCCCCEEEEeHHHHH
Q 043302 5 KKITLKSLDGKAFKVDEVVAL 25 (71)
Q Consensus 5 ~~i~L~SsDg~~f~v~~~~a~ 25 (71)
+.|..+|.||....++....+
T Consensus 21 ~~V~v~s~~Gr~v~~Pa~~lR 41 (68)
T PF11197_consen 21 SKVVVRSDDGRRVQFPARHLR 41 (68)
T ss_pred cEEEEEecCCcEEEEeHHHCc
Confidence 578999999999999987644
No 104
>PF08909 DUF1854: Domain of unknown function (DUF1854); InterPro: IPR015005 These protein is functionally uncharacterised. It is found at the C terminus of a number of ATP transporter proteins suggesting it may be involved in ligand binding.
Probab=22.85 E-value=1.3e+02 Score=18.95 Aligned_cols=33 Identities=12% Similarity=0.153 Sum_probs=23.5
Q ss_pred CceEEEEeCCCCEEEEeHHHHHHhHHHHHHhhC
Q 043302 4 HKKITLKSLDGKAFKVDEVVALESQTIEHMIGD 36 (71)
Q Consensus 4 ~~~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~ 36 (71)
...+.|++.||++.-.=........-.+.+++.
T Consensus 18 ~~~isl~~~~G~El~~I~~l~~L~~~~r~lle~ 50 (133)
T PF08909_consen 18 DEGISLVDEDGHELAWIDDLDDLPEESRALLEE 50 (133)
T ss_pred CccEEEEcCCCcEEEEEcChhHCCHHHHHHHHH
Confidence 468999999999976655555666656666554
No 105
>KOG0997 consensus Uncharacterized conserved protein Sand [Function unknown]
Probab=22.71 E-value=61 Score=24.81 Aligned_cols=14 Identities=7% Similarity=0.354 Sum_probs=11.3
Q ss_pred HHHHHHHHhhhcCC
Q 043302 52 ILSKVINLLTVSST 65 (71)
Q Consensus 52 ~L~kViewc~~h~~ 65 (71)
...|++.||++|.+
T Consensus 500 ~v~KllrWikkeEd 513 (523)
T KOG0997|consen 500 VVNKLLRWIKKEED 513 (523)
T ss_pred HHHHHHHHHHhhhc
Confidence 44889999999865
No 106
>PF13099 DUF3944: Domain of unknown function (DUF3944)
Probab=22.43 E-value=81 Score=15.39 Aligned_cols=24 Identities=21% Similarity=0.385 Sum_probs=18.5
Q ss_pred CCCCCHHHHHHHHHHhhhcCCCCC
Q 043302 45 LPNVTSKILSKVINLLTVSSTSKP 68 (71)
Q Consensus 45 l~~V~~~~L~kViewc~~h~~d~p 68 (71)
|...++.-|+..++.+.|-+++++
T Consensus 10 L~~cs~edL~~L~~~Lt~dkdG~~ 33 (35)
T PF13099_consen 10 LAECSNEDLKDLVDILTHDKDGKK 33 (35)
T ss_pred HHHCCHHHHHHHHHHHhcCCCCCc
Confidence 345678889999999988877653
No 107
>PF01736 Polyoma_agno: Polyomavirus agnoprotein; InterPro: IPR002643 This family consists of the DNA-binding protein or agnoprotein from various polyomaviruses. This protein is highly basic and can bind single stranded and double stranded DNA []. Mutations in the agnoprotein produce smaller viral plaques, hence its function is not essential for growth in tissue culture cells but something has slowed in the normal replication cycle []. There is also evidence suggesting that the agnogene and agnoprotein act as regulators of structural protein synthesis [].; GO: 0003677 DNA binding
Probab=22.25 E-value=65 Score=17.48 Aligned_cols=13 Identities=15% Similarity=0.092 Sum_probs=10.5
Q ss_pred HHHHHHHHHHhhh
Q 043302 50 SKILSKVINLLTV 62 (71)
Q Consensus 50 ~~~L~kViewc~~ 62 (71)
--+|+..++||+-
T Consensus 30 iFiLElLL~FC~G 42 (62)
T PF01736_consen 30 IFILELLLEFCRG 42 (62)
T ss_pred HHHHHHHHHHhcC
Confidence 3578999999975
No 108
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=22.24 E-value=84 Score=22.39 Aligned_cols=22 Identities=23% Similarity=0.288 Sum_probs=17.5
Q ss_pred CCHHHHHHHHHHhhhcCCCCCCCC
Q 043302 48 VTSKILSKVINLLTVSSTSKPFAN 71 (71)
Q Consensus 48 V~~~~L~kViewc~~h~~d~p~~~ 71 (71)
=.+.+|+.++++|+| .|-|++|
T Consensus 163 ~~s~~l~~i~~~C~~--q~s~~d~ 184 (294)
T KOG4571|consen 163 EKSTILEEIVRECEH--QDSPSDN 184 (294)
T ss_pred hhhHHHHHHHHHHHh--ccCcccc
Confidence 368999999999998 6666654
No 109
>PRK13443 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=21.78 E-value=1e+02 Score=19.22 Aligned_cols=18 Identities=17% Similarity=0.143 Sum_probs=12.4
Q ss_pred CCCCceEEEEeCCCCEEE
Q 043302 1 MSTHKKITLKSLDGKAFK 18 (71)
Q Consensus 1 ms~~~~i~L~SsDg~~f~ 18 (71)
|+..-.++++|.||..|.
T Consensus 1 M~~~l~l~IVTP~~~~~~ 18 (136)
T PRK13443 1 MAGTLQFDLVSPERRLAS 18 (136)
T ss_pred CCCeeEEEEEcCCceEEe
Confidence 555556777777777775
No 110
>TIGR01049 rpsJ_bact ribosomal protein S10, bacterial/organelle. This model describes bacterial 30S ribosomal protein S10. In species that have a transcription antitermination complex, or N utilization substance, with NusA, NusB, NusG, and NusE, this ribosomal protein is responsible for NusE activity. Included in the family are one member each from Saccharomyces cerevisiae and Schizosaccharomyces pombe. These proteins lack an N-terminal mitochondrial transit peptide but contain additional sequence C-terminal to the ribosomal S10 protein region.
Probab=21.67 E-value=1.8e+02 Score=16.89 Aligned_cols=36 Identities=33% Similarity=0.489 Sum_probs=18.2
Q ss_pred eEEEEeCCCCEEEEeHHHHHHhHHHHHHhhCCC--CCCcccCCC
Q 043302 6 KITLKSLDGKAFKVDEVVALESQTIEHMIGDDC--VKNKIPLPN 47 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~~~--~~~~Ipl~~ 47 (71)
.++|.|-|- ..+-..+..|.......| ..+|+|||.
T Consensus 4 rI~l~s~d~------~~L~~~~~~i~~~a~~~gi~~~gpi~LPt 41 (99)
T TIGR01049 4 RIKLKSYDH------RLLDQSTKKIVETAKRTGAQVKGPIPLPT 41 (99)
T ss_pred EEEEEECCH------HHHHHHHHHHHHHHHHcCCceecccCCCC
Confidence 356666662 223333444544444444 247777773
No 111
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=21.64 E-value=1.1e+02 Score=18.31 Aligned_cols=23 Identities=17% Similarity=-0.012 Sum_probs=18.5
Q ss_pred cccCCCCCHHHHHHHHHHhhhcC
Q 043302 42 KIPLPNVTSKILSKVINLLTVSS 64 (71)
Q Consensus 42 ~Ipl~~V~~~~L~kViewc~~h~ 64 (71)
.|-=.+.+..+-+++..||+++.
T Consensus 45 ViiA~D~~~~~kkki~~~~~~~~ 67 (108)
T PTZ00106 45 VIISNNCPPIRRSEIEYYAMLSK 67 (108)
T ss_pred EEEeCCCCHHHHHHHHHHHhhcC
Confidence 33344899999999999999874
No 112
>COG0422 ThiC Thiamine biosynthesis protein ThiC [Coenzyme metabolism]
Probab=21.46 E-value=66 Score=24.02 Aligned_cols=15 Identities=7% Similarity=0.193 Sum_probs=12.9
Q ss_pred HHHHHhhhcCCCCCC
Q 043302 55 KVINLLTVSSTSKPF 69 (71)
Q Consensus 55 kViewc~~h~~d~p~ 69 (71)
.+..||.||..+.||
T Consensus 188 i~a~Wml~~~~ENpl 202 (432)
T COG0422 188 IMAAWMLHNHKENPL 202 (432)
T ss_pred HHHHHHHHcCCcCch
Confidence 456899999999997
No 113
>PF13315 DUF4085: Protein of unknown function (DUF4085)
Probab=21.31 E-value=1.1e+02 Score=20.63 Aligned_cols=24 Identities=8% Similarity=0.033 Sum_probs=19.9
Q ss_pred CCcccCCCCCHHHHHHHHHHhhhc
Q 043302 40 KNKIPLPNVTSKILSKVINLLTVS 63 (71)
Q Consensus 40 ~~~Ipl~~V~~~~L~kViewc~~h 63 (71)
+..+.+.-.+.++.+.+.+||+-.
T Consensus 69 d~~~~~~~~s~~l~~~~~ew~~~~ 92 (208)
T PF13315_consen 69 DIRFNLDYPSEKLKKAITEWCEDY 92 (208)
T ss_pred cCcccCCCCcHHHHHHHHHHHHHH
Confidence 455888888899999999999854
No 114
>PF13013 F-box-like_2: F-box-like domain
Probab=21.25 E-value=64 Score=19.48 Aligned_cols=19 Identities=11% Similarity=0.196 Sum_probs=15.8
Q ss_pred cCCCCCHHHHHHHHHHhhh
Q 043302 44 PLPNVTSKILSKVINLLTV 62 (71)
Q Consensus 44 pl~~V~~~~L~kViewc~~ 62 (71)
-+.+...++|+.|.+||..
T Consensus 21 tl~DLP~ELl~~I~~~C~~ 39 (109)
T PF13013_consen 21 TLLDLPWELLQLIFDYCND 39 (109)
T ss_pred chhhChHHHHHHHHhhcCc
Confidence 3567889999999999964
No 115
>PHA02087 hypothetical protein
Probab=21.15 E-value=75 Score=18.08 Aligned_cols=17 Identities=24% Similarity=0.315 Sum_probs=14.0
Q ss_pred eEEEEeCCCCEEEEeHH
Q 043302 6 KITLKSLDGKAFKVDEV 22 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~ 22 (71)
.+.|+.+||...+++++
T Consensus 46 ~y~lvdsdg~~ielpe~ 62 (83)
T PHA02087 46 QYMLVDSDGVKIELPES 62 (83)
T ss_pred eEEEEcCCCcEEECCcc
Confidence 47899999999988764
No 116
>PF01483 P_proprotein: Proprotein convertase P-domain; InterPro: IPR002884 This domain, termed the P domain is approximately 150 amino acids in length and C-terminal to a serine endopeptidase domain which belong to MEROPS peptidase family S8 (clan SB), subfamily S8B (kexin). The domain is primarily associated with the calcium-dependent serine endopeptidases, kex2/subtilisin proprotein convertases (PCs), which have been identified in all eukaryotes [] and in the gammaproteobacteria, Nostoc (cyanobacteria) and in Streptomyces avermitilis. The P domain appears necessary for folding and maintaining the endopeptidase catalytic domain and to regulate its calcium and acidic pH dependence. In addition, contained within the middle of the P domain in most PC family members is the cognate integrin binding RGD sequence [], which may be required for intracellular compartmentalization and maintenance of enzyme stability within the ER. The integrity of the RGD sequence of proprotein convertase PC1 is critical for its zymogen and C-terminal processing and for its cellular trafficking [, ]. The carboxy-terminal tail provides uniqueness to each PC family member being the least conserved region of all convertases [].; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1P8J_E 1OT5_B 2ID4_A 1R64_A 3HJR_A.
Probab=21.08 E-value=1.1e+02 Score=16.82 Aligned_cols=17 Identities=29% Similarity=0.352 Sum_probs=10.6
Q ss_pred eEEEEeCCCCEEEEeHH
Q 043302 6 KITLKSLDGKAFKVDEV 22 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~ 22 (71)
.+.|+|.+|.+..+-..
T Consensus 19 ~i~L~SP~Gt~~~L~~~ 35 (87)
T PF01483_consen 19 RITLISPSGTRSTLKDR 35 (87)
T ss_dssp EEEEE-TT--EEEEE-S
T ss_pred EEEEECCCCCEEEEECC
Confidence 68999999999987543
No 117
>PRK04966 hypothetical protein; Provisional
Probab=21.02 E-value=74 Score=17.96 Aligned_cols=16 Identities=25% Similarity=0.584 Sum_probs=13.5
Q ss_pred ccCCCCCHHHHHHHHH
Q 043302 43 IPLPNVTSKILSKVIN 58 (71)
Q Consensus 43 Ipl~~V~~~~L~kVie 58 (71)
||...+++.+|.-+||
T Consensus 3 IP~~~L~~eTL~nLIe 18 (72)
T PRK04966 3 IPWQDLAPETLENLIE 18 (72)
T ss_pred CChHhCCHHHHHHHHH
Confidence 7888899999987775
No 118
>PF13700 DUF4158: Domain of unknown function (DUF4158)
Probab=21.02 E-value=92 Score=19.41 Aligned_cols=20 Identities=15% Similarity=0.325 Sum_probs=16.5
Q ss_pred CHHHHHHHHHHhhhcCCCCC
Q 043302 49 TSKILSKVINLLTVSSTSKP 68 (71)
Q Consensus 49 ~~~~L~kViewc~~h~~d~p 68 (71)
...++..+++||..|+-.-|
T Consensus 134 ~~~l~~~~~~~L~~~rI~lP 153 (166)
T PF13700_consen 134 PDDLFNALIEWLRQRRIELP 153 (166)
T ss_pred HHHHHHHHHHHHHHCCeeCC
Confidence 45588999999999987766
No 119
>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1.
Probab=20.96 E-value=1.3e+02 Score=16.32 Aligned_cols=15 Identities=7% Similarity=0.441 Sum_probs=11.5
Q ss_pred CceEEEEeCCCCEEE
Q 043302 4 HKKITLKSLDGKAFK 18 (71)
Q Consensus 4 ~~~i~L~SsDg~~f~ 18 (71)
+..+.+...||.+|+
T Consensus 12 G~~V~V~~~~G~~ye 26 (77)
T PF14438_consen 12 GQTVEVTTKNGSVYE 26 (77)
T ss_dssp TSEEEEEETTS-EEE
T ss_pred CCEEEEEECCCCEEE
Confidence 467888999999886
No 120
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=20.93 E-value=1.8e+02 Score=17.27 Aligned_cols=21 Identities=10% Similarity=0.161 Sum_probs=18.0
Q ss_pred ceEEEEeCCCCEEEEeHHHHH
Q 043302 5 KKITLKSLDGKAFKVDEVVAL 25 (71)
Q Consensus 5 ~~i~L~SsDg~~f~v~~~~a~ 25 (71)
..+.|+.++|...++++.+..
T Consensus 75 ~~v~lei~~g~~i~~~r~aI~ 95 (106)
T PRK05585 75 DFVIIELNDDTEIKIQKSAIA 95 (106)
T ss_pred CEEEEEECCCeEEEEEhHHhh
Confidence 578899999999999998754
No 121
>PF03682 UPF0158: Uncharacterised protein family (UPF0158); InterPro: IPR005361 This is a small family of hypothetical bacterial proteins of unknown function.
Probab=20.93 E-value=73 Score=20.38 Aligned_cols=17 Identities=12% Similarity=0.253 Sum_probs=11.7
Q ss_pred HHHHHHHHHhhhcCCCC
Q 043302 51 KILSKVINLLTVSSTSK 67 (71)
Q Consensus 51 ~~L~kViewc~~h~~d~ 67 (71)
..-+.+++||+.|.=.+
T Consensus 125 ~~r~~a~eWleen~I~~ 141 (163)
T PF03682_consen 125 RLRERAIEWLEENGIEP 141 (163)
T ss_pred HHHHHHHHHHHHcCCCc
Confidence 44566888998876543
No 122
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=20.85 E-value=70 Score=22.05 Aligned_cols=40 Identities=13% Similarity=0.213 Sum_probs=24.6
Q ss_pred HHHhHHHHHHhhCCCC--------------CC-cccCCCCCHHHHHHHHHHhhhcCC
Q 043302 24 ALESQTIEHMIGDDCV--------------KN-KIPLPNVTSKILSKVINLLTVSST 65 (71)
Q Consensus 24 a~~S~~i~~ml~~~~~--------------~~-~Ipl~~V~~~~L~kViewc~~h~~ 65 (71)
++.-.-+++||..... .. .-.|.+|+| ++.+|+||.+|.-
T Consensus 133 ~ra~~Rv~~ML~p~~~~~Sll~EL~~lW~~p~~r~~ledIdG--yr~~i~~a~~~~v 187 (233)
T PF01745_consen 133 ARAKRRVRQMLRPDSSGPSLLEELVALWNDPALRPILEDIDG--YRYIIRFARKHQV 187 (233)
T ss_dssp HHHHHHHHHHHS--SSS--HHHHHHHHHTSTTHHHHHTTSTT--HHHHHHHHHHTT-
T ss_pred HHHHHHHHHhcCCCCCCCcHHHHHHHHHhCccccchHhhhcc--HHHHHHHHHHhCC
Confidence 4445667788865321 11 223667877 4999999999874
No 123
>KOG1784 consensus Small Nuclear ribonucleoprotein splicing factor [RNA processing and modification]
Probab=20.64 E-value=1.2e+02 Score=18.07 Aligned_cols=15 Identities=13% Similarity=0.381 Sum_probs=12.8
Q ss_pred ceEEEEeCCCCEEEE
Q 043302 5 KKITLKSLDGKAFKV 19 (71)
Q Consensus 5 ~~i~L~SsDg~~f~v 19 (71)
+.+.+++.||..+.-
T Consensus 11 ~~V~vIt~DGr~ivg 25 (96)
T KOG1784|consen 11 QRVSVITNDGRVIVG 25 (96)
T ss_pred ceEEEEecCCeEEEE
Confidence 689999999998854
No 124
>cd04436 DEP_fRgd2 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in fungal RhoGAP (GTPase-activator protein) Rgd2-like proteins. Rgd2-like proteins share a common domain architecture, containing, beside the RhoGAP domain, a DEP and a FCH (Fes/CIP4 homology) domain. Yeast Rgd2 is a GAP protein for Cdc42 and Rho5.
Probab=20.63 E-value=1.2e+02 Score=17.66 Aligned_cols=41 Identities=12% Similarity=0.170 Sum_probs=25.9
Q ss_pred HhHHHHHHhhCCC-CCCcccCCCCC--HHHHHHHHHHhhhcCCC
Q 043302 26 ESQTIEHMIGDDC-VKNKIPLPNVT--SKILSKVINLLTVSSTS 66 (71)
Q Consensus 26 ~S~~i~~ml~~~~-~~~~Ipl~~V~--~~~L~kViewc~~h~~d 66 (71)
...++..||+... .+-.+||++-- -.+=.-|++|+..|...
T Consensus 2 lk~lL~~ml~~ip~~~~kvPilGty~nt~sG~~Iv~~L~~n~~~ 45 (84)
T cd04436 2 LKELLAAMLKEIPLADYKVPILGTYQNTSSGSEIVSWLQENMPE 45 (84)
T ss_pred HHHHHHHHHHhCCCccceecccccccCcccHHHHHHHHHHcCCC
Confidence 3567888888754 34567776421 12225788999888754
No 125
>PF03989 DNA_gyraseA_C: DNA gyrase C-terminal domain, beta-propeller; InterPro: IPR006691 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. This entry represents the beta-pinwheel repeat found at the C-terminal end of subunit A of topoisomerase IV (ParC) and subunit A of DNA gyrase (GyrA). DNA gyrase is the topoisomerase II found primarily in bacteria and archaea that consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. This is distinct from the topoisomerase II found in most eukaryotes, which consists of a single polypeptide, with the N- and C-terminal regions corresponding to gyrB and gyrA, respectively, and which is not represented in this entry. The ability of DNA gyrase to introduce negative supercoils into DNA is mediated in part by the C-terminal domain of subunit A, which forms a beta-pinwheel fold that is similar to a beta-propeller but with a different blade topology, and which forms a superhelical spiral domain [, ]. This beta-pinwheel is capable of bending DNA by over 180 degrees over a 40 bp region, possibly by wrapping the DNA around the GyrA C-terminal beta-pinwheel domain. In topoisomerase IV, although the C-terminal domain forms a similar superhelical spiral to that of DNA gyrase A, it assembles as a broken form of a beta-pinwheel as distinct from that of gyrA, due to the absence of a DNA gyrase-specific GyrA box motif []. This difference may account for parC being less efficient than gyrA in mediating DNA-bending, leading to their divergence in terms of activity, where topoisomerase IV acts to relax positive supercoils, and DNA gyrase acts to introduce negative supercoils []. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3L6V_A 3UC1_A 1ZI0_B 1SUU_A 1ZVU_A 1ZVT_B 3NO0_B.
Probab=20.61 E-value=1.2e+02 Score=14.58 Aligned_cols=17 Identities=18% Similarity=0.198 Sum_probs=14.2
Q ss_pred eEEEEeCCCCEEEEeHH
Q 043302 6 KITLKSLDGKAFKVDEV 22 (71)
Q Consensus 6 ~i~L~SsDg~~f~v~~~ 22 (71)
.+-+.|+.|..+.++..
T Consensus 2 ~il~~T~~G~~~r~~~~ 18 (48)
T PF03989_consen 2 EILLITSNGYVKRIPLS 18 (48)
T ss_dssp EEEEEETTSEEEEEEGG
T ss_pred EEEEEeCCCeEEEeeec
Confidence 57789999999998763
No 126
>PF12272 DUF3610: Protein of unknown function (DUF3610); InterPro: IPR022058 This domain family is found in eukaryotes, and is typically between 146 and 160 amino acids in length. There are two conserved sequence motifs: FNN and IDS.
Probab=20.56 E-value=76 Score=20.59 Aligned_cols=18 Identities=11% Similarity=0.266 Sum_probs=13.6
Q ss_pred HHHHHHHHHhhhcCCCCC
Q 043302 51 KILSKVINLLTVSSTSKP 68 (71)
Q Consensus 51 ~~L~kViewc~~h~~d~p 68 (71)
+.-+-+.+||..|+.-+|
T Consensus 78 ~~yk~l~d~C~~~~~~CP 95 (157)
T PF12272_consen 78 KVYKSLVDICHKYKNLCP 95 (157)
T ss_pred HHHHHHHHHHhhhhhhCC
Confidence 445668888999987777
No 127
>PF08225 Antimicrobial19: Pseudin antimicrobial peptide; InterPro: IPR013156 Pseudins are a subfamily of the FSAP family (Frog Secreted Active Peptides) extracted from the skin of the paradoxical frog Pseudis paradoxa (Paradoxical frog). The pseudins belong to the class of cationic, amphipathic-helical antimicrobial peptides [].; GO: 0006952 defense response
Probab=20.44 E-value=82 Score=13.78 Aligned_cols=10 Identities=40% Similarity=0.408 Sum_probs=6.5
Q ss_pred HHHHHHHHHh
Q 043302 51 KILSKVINLL 60 (71)
Q Consensus 51 ~~L~kViewc 60 (71)
.+|+||++=+
T Consensus 3 ntlkkv~qgl 12 (23)
T PF08225_consen 3 NTLKKVFQGL 12 (23)
T ss_pred hHHHHHHHHH
Confidence 3678877643
No 128
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=20.38 E-value=67 Score=16.96 Aligned_cols=30 Identities=10% Similarity=0.321 Sum_probs=19.2
Q ss_pred EEEEeCCCCEEEEeHHHHHHhHHHHHHhhC
Q 043302 7 ITLKSLDGKAFKVDEVVALESQTIEHMIGD 36 (71)
Q Consensus 7 i~L~SsDg~~f~v~~~~a~~S~~i~~ml~~ 36 (71)
|.+++.+|..|.++-+--..-.-++.++..
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~ 30 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAK 30 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHH
Confidence 356788888888765544444566666654
No 129
>cd05163 TRRAP TRansformation/tRanscription domain-Associated Protein (TRRAP), pseudokinase domain; The TRRAP catalytic domain is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. TRRAP shows some similarity to members of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily in that it contains a FATC (FRAP, ATM and TRRAP, C-terminal) domain and has a large molecular weight. Unlike PIKK proteins, however, it contains an inactive PI3K-like pseudokinase domain, which lacks the conserved residues necessary for ATP binding and catalytic activity. TRRAP also contains many motifs that may be critical for protein-protein interactions. TRRAP is a common component of many histone acetyltransferase (HAT) complexes, and is responsible for the recruitment of these complexes to chromatin during transcription, replicat
Probab=20.30 E-value=2.7e+02 Score=18.85 Aligned_cols=32 Identities=22% Similarity=0.457 Sum_probs=23.8
Q ss_pred ceEEEEeCCCCEE--EE----------eHHHHHHhHHHHHHhhC
Q 043302 5 KKITLKSLDGKAF--KV----------DEVVALESQTIEHMIGD 36 (71)
Q Consensus 5 ~~i~L~SsDg~~f--~v----------~~~~a~~S~~i~~ml~~ 36 (71)
+.+++..+||..+ -+ +.++.+...++..++..
T Consensus 19 kri~i~gsdG~~y~fLvk~~~~~d~R~d~Ri~Ql~~liN~~l~~ 62 (253)
T cd05163 19 RRLTIRGHDGSIYPFLVQYPAARQARREERVLQLFRTLNSVLSK 62 (253)
T ss_pred cEEEEECCCCCEEEEEEecCCchhHHHHHHHHHHHHHHHHHHhc
Confidence 5789999999764 34 45677778888888763
No 130
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=20.22 E-value=83 Score=15.58 Aligned_cols=13 Identities=8% Similarity=0.174 Sum_probs=9.7
Q ss_pred HHHHHHHhhhcCC
Q 043302 53 LSKVINLLTVSST 65 (71)
Q Consensus 53 L~kViewc~~h~~ 65 (71)
+..+++||..+..
T Consensus 17 ~~~a~~~~~~~~~ 29 (58)
T smart00668 17 WDEALEWLSSLKP 29 (58)
T ss_pred HHHHHHHHHHcCH
Confidence 4678899987764
Done!