Query psy12906
Match_columns 303
No_of_seqs 176 out of 253
Neff 4.9
Searched_HMMs 46136
Date Fri Aug 16 22:46:03 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12906.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12906hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08941 USP8_interact: USP8 i 100.0 2.9E-86 6.4E-91 579.9 7.3 179 125-303 1-179 (179)
2 KOG0297|consensus 99.9 1.1E-26 2.4E-31 227.5 1.6 226 1-302 85-324 (391)
3 PLN03086 PRLI-interacting fact 98.7 3.9E-09 8.4E-14 108.4 2.2 96 2-113 407-514 (567)
4 PF02176 zf-TRAF: TRAF-type zi 98.4 1.9E-07 4.2E-12 67.9 2.5 35 24-61 1-37 (60)
5 PF02176 zf-TRAF: TRAF-type zi 98.1 2E-06 4.4E-11 62.5 3.0 48 2-54 9-60 (60)
6 PF03145 Sina: Seven in absent 97.7 1.8E-05 4E-10 70.7 2.9 53 1-56 13-68 (198)
7 KOG0297|consensus 97.7 2.3E-05 5E-10 77.6 2.6 41 187-229 286-326 (391)
8 PLN03086 PRLI-interacting fact 97.5 0.00011 2.4E-09 76.0 4.5 58 2-64 433-506 (567)
9 cd03777 MATH_TRAF3 Tumor Necro 96.7 0.00026 5.7E-09 63.7 -0.9 82 133-230 4-86 (186)
10 cd03778 MATH_TRAF2 Tumor Necro 96.3 0.00018 3.9E-09 63.8 -5.0 45 174-229 21-65 (164)
11 cd03782 MATH_Meprin_Beta Mepri 94.8 0.0022 4.9E-08 57.2 -3.6 39 187-230 8-46 (167)
12 cd03779 MATH_TRAF1 Tumor Necro 94.6 0.0014 3.1E-08 56.9 -5.1 42 187-230 7-48 (147)
13 KOG3002|consensus 92.9 0.09 1.9E-06 50.9 3.3 53 1-56 105-160 (299)
14 cd03783 MATH_Meprin_Alpha Mepr 92.3 0.0084 1.8E-07 53.5 -4.3 39 187-230 8-46 (167)
15 PF03145 Sina: Seven in absent 90.7 0.14 3.1E-06 45.8 1.8 27 35-61 14-43 (198)
16 cd03780 MATH_TRAF5 Tumor Necro 88.1 0.015 3.2E-07 50.5 -6.2 44 185-230 5-48 (148)
17 PF15290 Syntaphilin: Golgi-lo 84.6 5.9 0.00013 38.5 8.7 82 118-199 65-173 (305)
18 PF13913 zf-C2HC_2: zinc-finge 83.2 0.88 1.9E-05 28.2 1.7 24 35-59 2-25 (25)
19 KOG0287|consensus 82.8 3.1 6.6E-05 41.5 6.1 79 35-135 161-242 (442)
20 PF11932 DUF3450: Protein of u 76.3 6.1 0.00013 36.7 5.7 36 134-169 62-97 (251)
21 KOG0250|consensus 75.6 39 0.00084 38.3 12.3 49 187-241 484-532 (1074)
22 PF05253 zf-U11-48K: U11-48K-l 75.0 1.6 3.5E-05 27.5 1.1 24 36-59 3-26 (27)
23 PRK00736 hypothetical protein; 73.8 26 0.00056 26.7 7.7 45 125-169 9-53 (68)
24 PRK00846 hypothetical protein; 72.7 27 0.00059 27.6 7.7 36 137-172 29-64 (77)
25 PRK06266 transcription initiat 72.4 3.3 7.2E-05 37.1 2.8 30 82-115 119-148 (178)
26 PF04102 SlyX: SlyX; InterPro 72.1 20 0.00044 27.2 6.7 44 126-169 9-52 (69)
27 PRK04325 hypothetical protein; 71.7 28 0.00061 27.0 7.5 32 137-168 25-56 (74)
28 PRK02793 phi X174 lysis protei 71.7 30 0.00064 26.7 7.6 33 137-169 24-56 (72)
29 PRK00295 hypothetical protein; 71.5 31 0.00067 26.3 7.6 45 125-169 9-53 (68)
30 PRK04406 hypothetical protein; 71.0 30 0.00066 27.0 7.6 32 137-168 27-58 (75)
31 PF08209 Sgf11: Sgf11 (transcr 69.8 2.7 5.7E-05 28.2 1.2 23 35-58 4-26 (33)
32 KOG4571|consensus 67.8 17 0.00037 35.4 6.7 41 128-168 248-288 (294)
33 PF08537 NBP1: Fungal Nap bind 67.4 24 0.00053 34.8 7.8 84 120-209 174-265 (323)
34 PF12777 MT: Microtubule-bindi 67.4 17 0.00036 35.5 6.7 38 190-228 285-322 (344)
35 PRK02119 hypothetical protein; 67.3 41 0.00089 26.0 7.6 32 137-168 25-56 (73)
36 PF10224 DUF2205: Predicted co 67.0 37 0.00081 27.0 7.4 47 124-170 19-65 (80)
37 PF12329 TMF_DNA_bd: TATA elem 64.9 31 0.00067 26.7 6.5 38 127-164 32-69 (74)
38 PF10046 BLOC1_2: Biogenesis o 64.2 52 0.0011 26.6 8.0 68 125-194 25-92 (99)
39 smart00338 BRLZ basic region l 62.3 39 0.00085 24.8 6.4 32 137-168 28-59 (65)
40 PF10426 zf-RAG1: Recombinatio 62.0 6.5 0.00014 25.9 1.9 24 1-26 1-24 (30)
41 smart00734 ZnF_Rad18 Rad18-lik 61.9 5.7 0.00012 24.9 1.5 22 36-58 2-23 (26)
42 PRK10884 SH3 domain-containing 60.9 45 0.00097 30.7 7.9 11 181-191 164-174 (206)
43 PF08826 DMPK_coil: DMPK coile 60.3 72 0.0016 24.1 7.5 34 136-169 26-59 (61)
44 KOG4376|consensus 58.7 7.5 0.00016 34.5 2.3 55 3-61 15-74 (161)
45 PF04102 SlyX: SlyX; InterPro 58.3 77 0.0017 24.0 7.6 41 128-168 4-44 (69)
46 PHA02562 46 endonuclease subun 57.9 48 0.001 33.7 8.3 29 104-135 285-313 (562)
47 PF10018 Med4: Vitamin-D-recep 57.2 66 0.0014 28.8 8.2 70 127-198 28-97 (188)
48 PF03962 Mnd1: Mnd1 family; I 57.1 89 0.0019 28.2 9.0 26 149-174 110-135 (188)
49 PF10779 XhlA: Haemolysin XhlA 56.9 80 0.0017 23.9 7.5 44 125-168 3-46 (71)
50 PRK04325 hypothetical protein; 56.5 86 0.0019 24.2 7.7 43 126-168 7-49 (74)
51 KOG3002|consensus 56.4 5.4 0.00012 38.8 1.2 27 35-61 106-135 (299)
52 PRK13729 conjugal transfer pil 56.0 37 0.00081 35.2 7.1 22 146-167 101-122 (475)
53 PF05377 FlaC_arch: Flagella a 56.0 60 0.0013 24.2 6.3 38 132-169 4-41 (55)
54 PF00170 bZIP_1: bZIP transcri 55.9 72 0.0016 23.4 6.9 33 137-169 28-60 (64)
55 COG2433 Uncharacterized conser 55.7 51 0.0011 35.3 8.1 43 123-165 424-466 (652)
56 TIGR01206 lysW lysine biosynth 54.2 8.3 0.00018 28.5 1.5 30 82-114 4-33 (54)
57 PF13815 Dzip-like_N: Iguana/D 53.9 52 0.0011 27.3 6.5 36 127-162 79-114 (118)
58 KOG2264|consensus 52.0 47 0.001 35.7 7.0 47 126-172 105-151 (907)
59 PRK02119 hypothetical protein; 51.7 1.1E+02 0.0024 23.6 7.7 43 126-168 7-49 (73)
60 PF05377 FlaC_arch: Flagella a 51.7 38 0.00083 25.2 4.7 32 137-168 2-33 (55)
61 PRK00295 hypothetical protein; 51.2 1.1E+02 0.0023 23.4 7.3 41 128-168 5-45 (68)
62 PRK15422 septal ring assembly 50.9 1.2E+02 0.0026 24.3 7.6 13 183-195 58-70 (79)
63 PF00170 bZIP_1: bZIP transcri 50.7 97 0.0021 22.7 7.2 38 127-164 25-62 (64)
64 PF07106 TBPIP: Tat binding pr 49.7 1.3E+02 0.0029 26.1 8.7 12 187-198 125-136 (169)
65 TIGR00373 conserved hypothetic 49.0 8.2 0.00018 33.8 1.0 30 82-115 111-140 (158)
66 PRK00888 ftsB cell division pr 48.9 45 0.00096 27.5 5.3 31 133-163 32-62 (105)
67 KOG3433|consensus 48.4 1E+02 0.0022 28.5 7.9 31 146-176 120-150 (203)
68 PRK00888 ftsB cell division pr 48.2 78 0.0017 26.0 6.6 44 123-166 29-72 (105)
69 PF05325 DUF730: Protein of un 47.8 56 0.0012 27.3 5.6 39 127-165 70-108 (122)
70 PRK00736 hypothetical protein; 47.7 1.2E+02 0.0027 23.0 7.3 40 129-168 6-45 (68)
71 COG2900 SlyX Uncharacterized p 47.2 1.4E+02 0.003 23.5 7.4 44 125-168 5-48 (72)
72 PF08912 Rho_Binding: Rho Bind 47.0 87 0.0019 24.4 6.2 17 169-185 51-68 (69)
73 PF04977 DivIC: Septum formati 46.8 82 0.0018 23.3 6.1 24 144-167 26-49 (80)
74 PF11598 COMP: Cartilage oligo 46.8 1E+02 0.0022 22.1 6.0 30 136-165 9-38 (45)
75 PRK00420 hypothetical protein; 46.1 90 0.0019 26.3 6.7 23 89-114 29-51 (112)
76 PRK04406 hypothetical protein; 45.7 1.4E+02 0.0031 23.2 7.8 42 127-168 10-51 (75)
77 PF07798 DUF1640: Protein of u 45.6 1.5E+02 0.0032 26.2 8.4 9 183-191 150-158 (177)
78 PRK02793 phi X174 lysis protei 45.5 1.4E+02 0.003 23.0 7.5 43 126-168 6-48 (72)
79 PF08317 Spc7: Spc7 kinetochor 45.1 97 0.0021 30.0 7.8 41 123-163 211-251 (325)
80 PF10805 DUF2730: Protein of u 45.1 99 0.0021 25.3 6.8 40 125-164 39-80 (106)
81 TIGR02098 MJ0042_CXXC MJ0042 f 44.9 12 0.00026 24.7 1.1 31 81-114 3-36 (38)
82 PF04977 DivIC: Septum formati 44.7 1.1E+02 0.0024 22.5 6.6 29 133-161 22-50 (80)
83 PF04111 APG6: Autophagy prote 44.7 73 0.0016 31.0 6.9 50 121-170 43-92 (314)
84 PF11262 Tho2: Transcription f 44.6 2.3E+02 0.0049 27.3 10.2 32 204-235 114-149 (298)
85 PF07334 IFP_35_N: Interferon- 44.5 41 0.00088 26.7 4.1 33 130-162 2-34 (76)
86 KOG2186|consensus 44.1 8.9 0.00019 36.8 0.5 41 11-55 8-48 (276)
87 PF14282 FlxA: FlxA-like prote 44.0 1E+02 0.0022 25.2 6.7 48 121-168 19-70 (106)
88 PF07544 Med9: RNA polymerase 43.6 83 0.0018 24.7 5.9 46 123-168 30-78 (83)
89 PF05605 zf-Di19: Drought indu 43.1 19 0.00042 25.7 2.0 43 12-56 8-50 (54)
90 COG3883 Uncharacterized protei 42.8 90 0.0019 30.1 7.0 40 127-166 51-90 (265)
91 PF08232 Striatin: Striatin fa 42.7 1.5E+02 0.0033 25.3 7.8 37 136-172 33-69 (134)
92 PF06156 DUF972: Protein of un 42.3 1.6E+02 0.0034 24.5 7.6 44 125-168 12-55 (107)
93 PF06005 DUF904: Protein of un 42.3 1.6E+02 0.0035 22.8 7.9 24 127-150 10-33 (72)
94 PF08614 ATG16: Autophagy prot 42.2 1.2E+02 0.0026 27.1 7.4 41 129-169 117-157 (194)
95 PRK10884 SH3 domain-containing 41.4 1.4E+02 0.003 27.5 7.8 23 127-149 92-114 (206)
96 COG0777 AccD Acetyl-CoA carbox 41.0 17 0.00037 35.3 1.9 33 32-65 25-57 (294)
97 PRK13729 conjugal transfer pil 40.5 63 0.0014 33.6 5.9 46 127-172 68-113 (475)
98 PF08700 Vps51: Vps51/Vps67; 39.7 1.7E+02 0.0036 22.2 7.5 31 137-167 53-83 (87)
99 smart00338 BRLZ basic region l 39.6 1.5E+02 0.0033 21.7 7.3 39 127-165 25-63 (65)
100 cd00632 Prefoldin_beta Prefold 39.2 1.4E+02 0.0031 23.9 6.8 41 128-168 63-103 (105)
101 TIGR02894 DNA_bind_RsfA transc 38.9 1.7E+02 0.0036 26.3 7.6 50 119-168 82-137 (161)
102 PF07851 TMPIT: TMPIT-like pro 38.8 1.7E+02 0.0036 29.1 8.3 44 126-169 16-59 (330)
103 COG3727 Vsr DNA G:T-mismatch r 38.7 22 0.00049 31.2 2.1 22 266-301 44-65 (150)
104 PF08172 CASP_C: CASP C termin 38.6 68 0.0015 30.4 5.5 38 126-163 80-121 (248)
105 PRK09039 hypothetical protein; 37.5 1.4E+02 0.003 29.4 7.6 30 253-284 292-321 (343)
106 PF10241 KxDL: Uncharacterized 37.2 2E+02 0.0043 22.8 7.2 35 134-168 42-76 (88)
107 TIGR00515 accD acetyl-CoA carb 36.9 20 0.00043 34.6 1.6 31 35-66 26-56 (285)
108 PF05531 NPV_P10: Nucleopolyhe 36.9 1.4E+02 0.003 23.6 6.0 47 123-169 13-62 (75)
109 PRK00846 hypothetical protein; 36.3 2.2E+02 0.0047 22.5 7.5 37 130-166 15-51 (77)
110 PRK11637 AmiB activator; Provi 36.1 1.5E+02 0.0033 29.6 7.8 11 283-293 329-339 (428)
111 PF09457 RBD-FIP: FIP domain ; 36.1 1.3E+02 0.0028 21.7 5.3 31 138-168 3-33 (48)
112 PF10205 KLRAQ: Predicted coil 35.9 2E+02 0.0044 24.0 7.1 33 134-166 39-71 (102)
113 KOG3119|consensus 35.8 1.1E+02 0.0024 29.1 6.4 37 136-172 216-252 (269)
114 PF10241 KxDL: Uncharacterized 35.4 2.2E+02 0.0049 22.5 7.6 37 127-163 42-78 (88)
115 PF11598 COMP: Cartilage oligo 35.0 1.7E+02 0.0037 20.9 6.5 36 122-157 2-37 (45)
116 TIGR02338 gimC_beta prefoldin, 34.8 1.8E+02 0.0039 23.6 6.8 41 128-168 67-107 (110)
117 PF08614 ATG16: Autophagy prot 34.3 2.1E+02 0.0045 25.5 7.7 45 123-167 118-162 (194)
118 PF10146 zf-C4H2: Zinc finger- 34.2 2.8E+02 0.006 26.0 8.7 77 122-198 2-109 (230)
119 PF02996 Prefoldin: Prefoldin 34.2 1.8E+02 0.0038 23.4 6.6 42 127-168 76-117 (120)
120 CHL00174 accD acetyl-CoA carbo 34.2 23 0.00049 34.6 1.5 31 35-66 38-68 (296)
121 cd00890 Prefoldin Prefoldin is 34.1 1.8E+02 0.0039 23.4 6.7 38 130-167 89-126 (129)
122 COG4942 Membrane-bound metallo 34.1 1.5E+02 0.0031 30.5 7.2 42 126-167 43-84 (420)
123 PF07106 TBPIP: Tat binding pr 34.0 1.4E+02 0.003 26.0 6.3 20 151-170 118-137 (169)
124 PF01920 Prefoldin_2: Prefoldi 33.9 2.2E+02 0.0048 22.1 7.0 43 132-174 2-44 (106)
125 COG3883 Uncharacterized protei 33.8 1.9E+02 0.0041 28.0 7.6 9 160-168 102-110 (265)
126 TIGR02209 ftsL_broad cell divi 33.8 1.6E+02 0.0035 22.3 6.1 35 127-161 23-57 (85)
127 PF10805 DUF2730: Protein of u 33.7 1.5E+02 0.0033 24.2 6.2 42 127-168 34-77 (106)
128 PF08271 TF_Zn_Ribbon: TFIIB z 33.6 40 0.00088 23.0 2.3 16 102-117 18-33 (43)
129 PRK10920 putative uroporphyrin 33.2 2.1E+02 0.0047 28.9 8.3 36 143-178 100-135 (390)
130 cd00890 Prefoldin Prefoldin is 32.8 1.4E+02 0.003 24.2 5.8 40 123-162 89-128 (129)
131 PF04799 Fzo_mitofusin: fzo-li 32.6 1.2E+02 0.0027 27.4 5.8 52 117-168 94-146 (171)
132 PRK05654 acetyl-CoA carboxylas 32.5 23 0.00049 34.3 1.3 31 35-66 27-57 (292)
133 PRK00398 rpoP DNA-directed RNA 31.9 33 0.00072 23.7 1.7 27 82-113 5-31 (46)
134 cd00584 Prefoldin_alpha Prefol 31.7 2.4E+02 0.0051 23.2 7.1 42 126-167 85-126 (129)
135 TIGR00634 recN DNA repair prot 31.7 2.3E+02 0.0049 29.5 8.5 52 123-174 156-207 (563)
136 PTZ00454 26S protease regulato 31.5 1.9E+02 0.0041 29.0 7.6 47 123-169 17-63 (398)
137 PF11559 ADIP: Afadin- and alp 31.5 2.2E+02 0.0048 24.2 7.1 9 118-126 35-43 (151)
138 COG2433 Uncharacterized conser 31.2 1.8E+02 0.004 31.3 7.6 44 126-169 420-463 (652)
139 PF08581 Tup_N: Tup N-terminal 31.0 2.7E+02 0.0058 22.0 7.6 44 125-168 8-51 (79)
140 PRK11637 AmiB activator; Provi 31.0 2.1E+02 0.0046 28.6 7.9 9 293-301 360-368 (428)
141 KOG3100|consensus 30.8 67 0.0014 29.7 3.9 65 152-238 125-192 (206)
142 PF14193 DUF4315: Domain of un 30.7 2.8E+02 0.0061 22.2 7.9 33 124-156 4-36 (83)
143 PF08317 Spc7: Spc7 kinetochor 30.7 1.8E+02 0.004 28.1 7.2 32 137-168 218-249 (325)
144 cd00632 Prefoldin_beta Prefold 30.7 2.2E+02 0.0047 22.9 6.6 40 123-162 65-104 (105)
145 PF13240 zinc_ribbon_2: zinc-r 30.6 26 0.00057 21.3 0.9 9 104-112 14-22 (23)
146 COG1206 Gid NAD(FAD)-utilizing 30.5 45 0.00098 33.8 2.9 72 215-297 42-134 (439)
147 PF01166 TSC22: TSC-22/dip/bun 30.5 81 0.0018 23.9 3.6 28 137-164 16-43 (59)
148 PRK13169 DNA replication intia 30.5 3.2E+02 0.0069 22.9 7.6 37 136-172 9-45 (110)
149 PF04859 DUF641: Plant protein 30.1 2.8E+02 0.0061 24.0 7.4 43 122-164 81-123 (131)
150 PRK03947 prefoldin subunit alp 30.0 2.6E+02 0.0056 23.4 7.2 42 127-168 93-134 (140)
151 TIGR01242 26Sp45 26S proteasom 29.9 1.3E+02 0.0027 29.3 5.9 36 134-169 5-40 (364)
152 PF07716 bZIP_2: Basic region 29.7 2.1E+02 0.0045 20.3 5.9 26 137-162 27-52 (54)
153 PF13248 zf-ribbon_3: zinc-rib 29.6 29 0.00063 21.4 1.0 9 104-112 17-25 (26)
154 TIGR02169 SMC_prok_A chromosom 29.5 3.4E+02 0.0073 29.9 9.7 16 200-215 525-540 (1164)
155 PF13600 DUF4140: N-terminal d 29.3 1.4E+02 0.0029 23.7 5.1 31 130-160 72-102 (104)
156 COG4942 Membrane-bound metallo 28.9 2.3E+02 0.005 29.1 7.7 46 123-168 47-92 (420)
157 PF06785 UPF0242: Uncharacteri 28.8 5.9E+02 0.013 25.8 10.2 48 121-168 134-181 (401)
158 COG4026 Uncharacterized protei 28.8 2.9E+02 0.0064 26.5 7.8 51 124-174 131-181 (290)
159 PF08657 DASH_Spc34: DASH comp 28.8 1.5E+02 0.0033 28.3 6.1 37 125-161 177-213 (259)
160 PRK10803 tol-pal system protei 28.7 2.1E+02 0.0047 26.9 7.1 38 131-168 50-87 (263)
161 COG1422 Predicted membrane pro 28.7 2.3E+02 0.005 26.4 7.0 22 127-148 71-92 (201)
162 PRK03992 proteasome-activating 28.3 2.4E+02 0.0051 28.0 7.6 46 124-169 4-49 (389)
163 PRK06975 bifunctional uroporph 28.2 2.6E+02 0.0056 30.0 8.3 32 137-168 380-411 (656)
164 COG1675 TFA1 Transcription ini 27.8 50 0.0011 29.9 2.5 16 99-114 128-143 (176)
165 PF12709 Kinetocho_Slk19: Cent 27.8 2.6E+02 0.0056 22.7 6.3 30 140-169 47-76 (87)
166 PF04568 IATP: Mitochondrial A 27.7 1.4E+02 0.0031 24.6 5.0 12 154-165 88-99 (100)
167 PF01920 Prefoldin_2: Prefoldi 27.7 2E+02 0.0043 22.3 5.8 32 134-165 68-99 (106)
168 COG3074 Uncharacterized protei 27.7 3.1E+02 0.0067 21.7 7.1 8 187-194 62-69 (79)
169 PF04065 Not3: Not1 N-terminal 27.4 2.8E+02 0.0061 26.2 7.5 68 121-193 129-212 (233)
170 PF13870 DUF4201: Domain of un 27.2 3.6E+02 0.0079 23.5 7.9 10 202-211 134-143 (177)
171 COG1340 Uncharacterized archae 27.2 4.4E+02 0.0095 25.9 9.0 11 181-191 115-125 (294)
172 TIGR03752 conj_TIGR03752 integ 27.1 2.5E+02 0.0054 29.3 7.6 19 272-292 268-286 (472)
173 PF06320 GCN5L1: GCN5-like pro 26.8 3.9E+02 0.0084 22.5 7.7 12 183-194 86-97 (121)
174 PF11559 ADIP: Afadin- and alp 26.7 3.9E+02 0.0084 22.6 7.8 33 136-168 67-99 (151)
175 PF06156 DUF972: Protein of un 26.6 2.2E+02 0.0048 23.6 6.0 42 135-176 8-49 (107)
176 PRK03947 prefoldin subunit alp 26.5 3E+02 0.0065 23.0 7.0 42 123-164 96-137 (140)
177 PF07028 DUF1319: Protein of u 26.4 3E+02 0.0065 23.8 6.9 40 131-170 42-81 (126)
178 PF07926 TPR_MLP1_2: TPR/MLP1/ 26.2 3.4E+02 0.0073 22.8 7.2 17 148-164 111-127 (132)
179 PF14282 FlxA: FlxA-like prote 26.0 2.3E+02 0.0051 23.1 6.0 43 127-169 18-64 (106)
180 COG1198 PriA Primosomal protei 25.8 41 0.00088 36.7 1.9 20 187-206 577-597 (730)
181 TIGR02894 DNA_bind_RsfA transc 25.7 3.7E+02 0.008 24.2 7.6 40 123-162 99-138 (161)
182 KOG4797|consensus 25.5 1.9E+02 0.0042 24.6 5.4 31 134-164 66-96 (123)
183 cd03781 MATH_TRAF4 Tumor Necro 25.5 1.8 3.9E-05 37.2 -6.9 43 185-229 5-47 (154)
184 PF07798 DUF1640: Protein of u 25.4 3.1E+02 0.0068 24.1 7.2 22 144-165 75-96 (177)
185 TIGR00293 prefoldin, archaeal 25.1 2.6E+02 0.0057 22.8 6.3 42 125-166 83-124 (126)
186 smart00834 CxxC_CXXC_SSSS Puta 25.1 69 0.0015 20.9 2.3 29 81-112 6-35 (41)
187 PF13815 Dzip-like_N: Iguana/D 24.9 2.2E+02 0.0047 23.6 5.7 34 136-169 81-114 (118)
188 KOG3815|consensus 24.8 26 0.00056 34.1 0.1 37 14-54 44-80 (322)
189 KOG4571|consensus 24.8 1.9E+02 0.0042 28.3 6.0 37 134-170 247-283 (294)
190 KOG4797|consensus 24.6 2.5E+02 0.0054 24.0 5.9 32 125-156 64-95 (123)
191 PF07200 Mod_r: Modifier of ru 24.6 3.2E+02 0.0069 23.0 6.8 46 121-166 27-72 (150)
192 PRK11615 hypothetical protein; 24.6 25 0.00054 32.1 0.0 35 243-282 54-92 (185)
193 PF03961 DUF342: Protein of un 24.4 3.3E+02 0.0071 27.5 7.9 29 124-152 330-358 (451)
194 PF05529 Bap31: B-cell recepto 24.3 1.9E+02 0.004 25.6 5.6 27 141-167 160-186 (192)
195 KOG2186|consensus 24.2 41 0.00088 32.4 1.3 26 35-61 3-28 (276)
196 PF06005 DUF904: Protein of un 24.2 3.4E+02 0.0074 21.0 8.0 31 132-162 8-38 (72)
197 PRK13169 DNA replication intia 23.9 2.3E+02 0.005 23.8 5.6 45 124-168 11-55 (110)
198 PF12718 Tropomyosin_1: Tropom 23.9 3.8E+02 0.0083 23.1 7.2 9 157-165 81-89 (143)
199 PF02388 FemAB: FemAB family; 23.7 3.3E+02 0.0072 27.2 7.8 81 125-206 246-359 (406)
200 PF10211 Ax_dynein_light: Axon 23.6 3E+02 0.0064 24.8 6.7 44 124-168 110-153 (189)
201 PF04012 PspA_IM30: PspA/IM30 23.3 3.8E+02 0.0083 24.0 7.5 12 187-198 144-155 (221)
202 TIGR00763 lon ATP-dependent pr 23.2 4.1E+02 0.0089 28.9 8.8 52 117-169 182-236 (775)
203 PF14644 DUF4456: Domain of un 23.2 4.5E+02 0.0098 23.8 7.9 113 119-235 49-183 (208)
204 PF14257 DUF4349: Domain of un 23.1 3.2E+02 0.0068 25.3 7.1 25 144-168 164-188 (262)
205 KOG1691|consensus 23.0 1.5E+02 0.0033 27.7 4.8 37 136-172 135-171 (210)
206 PF12777 MT: Microtubule-bindi 22.9 2.6E+02 0.0056 27.3 6.7 46 123-168 230-275 (344)
207 PF10234 Cluap1: Clusterin-ass 22.8 4.7E+02 0.01 25.3 8.2 50 124-173 165-221 (267)
208 COG4717 Uncharacterized conser 22.5 3.5E+02 0.0076 30.6 8.0 16 260-275 300-315 (984)
209 PF09726 Macoilin: Transmembra 22.5 3.8E+02 0.0082 29.3 8.3 41 121-161 538-578 (697)
210 PRK10361 DNA recombination pro 22.5 2.4E+02 0.0052 29.4 6.6 20 186-205 187-208 (475)
211 TIGR02449 conserved hypothetic 22.4 3.6E+02 0.0079 20.7 7.3 41 125-165 18-58 (65)
212 COG1730 GIM5 Predicted prefold 22.2 4.8E+02 0.01 22.9 7.5 41 123-163 96-136 (145)
213 TIGR01242 26Sp45 26S proteasom 22.2 2.1E+02 0.0046 27.7 5.9 40 124-163 2-41 (364)
214 PF04423 Rad50_zn_hook: Rad50 21.9 1.4E+02 0.003 21.2 3.5 10 105-114 22-31 (54)
215 PF10186 Atg14: UV radiation r 21.9 3.9E+02 0.0084 24.5 7.4 13 208-220 192-204 (302)
216 smart00035 CLa CLUSTERIN alpha 21.9 1.7E+02 0.0037 27.5 4.8 19 188-206 139-157 (216)
217 smart00504 Ubox Modified RING 21.8 44 0.00095 23.7 0.8 16 104-119 2-17 (63)
218 PF02996 Prefoldin: Prefoldin 21.8 3.1E+02 0.0067 21.9 6.0 41 123-163 79-119 (120)
219 PRK02224 chromosome segregatio 21.7 2.2E+02 0.0047 30.9 6.4 11 104-114 452-462 (880)
220 PF10234 Cluap1: Clusterin-ass 21.7 5.6E+02 0.012 24.8 8.5 27 136-162 191-217 (267)
221 COG3879 Uncharacterized protei 21.6 3.9E+02 0.0084 25.6 7.3 31 125-155 54-84 (247)
222 PRK09343 prefoldin subunit bet 21.5 4.2E+02 0.0092 22.1 6.9 38 131-168 74-111 (121)
223 TIGR03689 pup_AAA proteasome A 21.5 2E+02 0.0044 30.1 5.9 40 123-162 3-42 (512)
224 PF08549 SWI-SNF_Ssr4: Fungal 21.5 2.3E+02 0.005 30.8 6.4 56 123-179 362-425 (669)
225 PF09744 Jnk-SapK_ap_N: JNK_SA 21.4 1.7E+02 0.0037 25.9 4.7 11 124-134 53-63 (158)
226 smart00787 Spc7 Spc7 kinetocho 21.4 4.3E+02 0.0092 25.9 7.8 6 127-132 210-215 (312)
227 PF15290 Syntaphilin: Golgi-lo 21.3 2.3E+02 0.0049 27.9 5.7 33 137-169 70-102 (305)
228 KOG0994|consensus 21.2 2.8E+02 0.006 32.6 7.0 18 143-160 1226-1243(1758)
229 PF03028 Dynein_heavy: Dynein 21.2 4.7E+02 0.01 27.9 8.7 41 187-228 552-592 (707)
230 PRK09039 hypothetical protein; 21.1 3.3E+02 0.0072 26.8 7.1 8 275-282 267-274 (343)
231 PF15619 Lebercilin: Ciliary p 21.1 5E+02 0.011 23.6 7.7 13 131-143 64-76 (194)
232 PF10226 DUF2216: Uncharacteri 20.8 6.7E+02 0.015 23.3 8.4 54 138-191 37-96 (195)
233 PF12329 TMF_DNA_bd: TATA elem 20.8 4E+02 0.0086 20.5 7.3 39 124-162 15-53 (74)
234 PF04568 IATP: Mitochondrial A 20.7 3.3E+02 0.0072 22.5 5.9 24 135-158 72-99 (100)
235 PF09723 Zn-ribbon_8: Zinc rib 20.6 87 0.0019 21.4 2.1 26 82-111 7-34 (42)
236 TIGR03185 DNA_S_dndD DNA sulfu 20.6 3.7E+02 0.008 28.5 7.7 43 123-165 423-465 (650)
237 PRK04654 sec-independent trans 20.3 4.8E+02 0.01 24.6 7.4 7 125-131 38-44 (214)
238 PF04420 CHD5: CHD5-like prote 20.2 3.9E+02 0.0084 23.4 6.6 14 123-136 42-55 (161)
239 PF06657 Cep57_MT_bd: Centroso 20.2 3E+02 0.0066 21.5 5.3 33 140-172 15-47 (79)
240 TIGR00618 sbcc exonuclease Sbc 20.0 5.1E+02 0.011 29.1 9.0 26 136-161 550-575 (1042)
No 1
>PF08941 USP8_interact: USP8 interacting; InterPro: IPR015036 This protein interacts with the UBP deubiquitinating enzyme USP8. ; GO: 0016881 acid-amino acid ligase activity, 0031386 protein tag, 0016567 protein ubiquitination; PDB: 2FZP_A 2GWF_B 2OGB_A.
Probab=100.00 E-value=2.9e-86 Score=579.92 Aligned_cols=179 Identities=63% Similarity=1.064 Sum_probs=109.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchhhhhhhhchHHHHHHHhhcccccccccCc
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSNPGVRVLAENMERDDVARWSNSLSRARVTRWGG 204 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~~~~~~~~~~~~~~~I~~ws~kL~~ar~~~~g~ 204 (303)
+||+.|++++.++.+|++++.+++.+++++||+|++||++|++++++||.++++++++|++++++|+++|+.||||||||
T Consensus 1 ELR~lVq~Qq~~i~ELk~~~aeq~~ql~eqkREl~lLk~yirAlR~sNP~~rni~dq~e~~evm~W~~sL~~ArVtrWGg 80 (179)
T PF08941_consen 1 ELRELVQQQQTKIAELKKEQAEQQQQLSEQKRELELLKEYIRALRSSNPVMRNIGDQLERDEVMQWVNSLPPARVTRWGG 80 (179)
T ss_dssp --------------------------------------------------------HHHHHHHHHHHHHSEBEEES-GGG
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcCChHHHHhHHHHHHHHHhCChhhcccccC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCchHHHHHHHHHHHHhcCCchHHHHHHHhhccccCCCcccccHHHHHhhHHHHhhhhhhcCCCCceEEEEecCCCCC
Q psy12906 205 MISTPDVMLQAMIKRSLAESGCPGHILDQLMHNSHERNWPQGLSSLETRQNNRRQYENYVCKRIPSKQAVVVLLCDNVHL 284 (303)
Q Consensus 205 ~iStP~~~~~~~~~~~l~~s~cp~~~~~~~~~~~~e~~wp~~l~~l~~r~~n~~~~~~~v~~~~~~k~~~~~~~~~n~h~ 284 (303)
||||||++||++||++|++||||+||+|+|||||||||||+|||||||||+|||+|+||||||||||||||||||||+||
T Consensus 81 mISTPD~~Lq~~ir~~L~~sgCP~hi~~~l~e~~hE~rWP~gL~tLetRq~N~~~y~~yV~r~ipGKqaVvvl~cdN~HM 160 (179)
T PF08941_consen 81 MISTPDSVLQAMIRRSLSESGCPMHILNELMENCHERRWPPGLSTLETRQMNRRRYEQYVTRRIPGKQAVVVLACDNTHM 160 (179)
T ss_dssp EESS--HHHHHHHHHHHHHTT--CCCHHHHHHTTSGGGS-TTTSSHHHHHHCCCHHCCS-EEE-TTSSEEEEEGGG-TTS
T ss_pred cccCccHHHHHHHHHHHHhcCCCHHHHHHHHHHhhhccCcchhhHHHHHHHHHHHHHHHHHhhCCCCceEEEEecccCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccCCcEEEEeecCCC
Q psy12906 285 PEDMISAPGLVMIFAHGIE 303 (303)
Q Consensus 285 ~~~~~~~~g~~~if~~g~~ 303 (303)
||||+++||||||||||||
T Consensus 161 ~e~m~~~pGlvmIFahGve 179 (179)
T PF08941_consen 161 PEDMRPEPGLVMIFAHGVE 179 (179)
T ss_dssp -CCC--SSEEEEEESS-EE
T ss_pred CcccccCCCEEEEeecCCC
Confidence 9999999999999999997
No 2
>KOG0297|consensus
Probab=99.92 E-value=1.1e-26 Score=227.46 Aligned_cols=226 Identities=27% Similarity=0.374 Sum_probs=184.1
Q ss_pred CeEEccCCCCCCceeEecccHHhHhhcCCCCCCCccccCCCCCCccccchHHHHH-hhCcccccCCCCCcc---------
Q psy12906 1 LVISCDNASYGCTVAVKLDSYSSHLTECEHNPKRPVQCEQGCGSVIPMDELKYLS-NQCEYHQHDSHGTDL--------- 70 (303)
Q Consensus 1 L~V~C~N~~~GC~~~~~L~~l~~Hl~~C~y~Pk~~v~Cp~gCg~~v~R~eL~~Hl-~~C~~r~~~~~~~~~--------- 70 (303)
|.|+|.++..||+|++.|..++.|+..| . +++||++|+..++|+++.+|+ ..|+++...++.+..
T Consensus 85 l~i~c~~~~~GC~~~~~l~~~~~Hl~~c--~---~~~C~~~C~~~~~~~d~~~hl~~~C~~~~~~c~~~~~~~~~~~~~~ 159 (391)
T KOG0297|consen 85 LPIRCIFASRGCRADLELEALQGHLSTC--D---PLKCPHRCGVQVPRDDLEDHLEAECPRRSLKCSLCQSDSILILLEA 159 (391)
T ss_pred cccccccCCCCccccccHHHHHhHhccC--C---cccCccccccccchHHHHHHHhcccccccccchhhcCccchhhhhh
Confidence 5799999999999999999999999999 5 999999999999999999999 589998654433321
Q ss_pred ccccCCCcccccCCCccccCceeeeeecccccccccccccccccCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 71 ELSFCTPYQSLHTANTAIMGYEIVRFIGEVDEELICSICSGVFEEPLQDHNCVKELRSIVHKQQQKMVNMETEMSEQRFQ 150 (303)
Q Consensus 71 ~~~~C~~~~~~~Cpng~~CG~~I~R~~g~vDe~i~C~~c~~~Le~~~q~~nC~~~LR~~i~~~~~k~~~l~~~l~~~~~~ 150 (303)
|... |.+ .+.|+.+ |-
T Consensus 160 h~~~-~~~-~~~c~~k-----------------------------------~~--------------------------- 175 (391)
T KOG0297|consen 160 HEEN-PQA-EVSCELK-----------------------------------CG--------------------------- 175 (391)
T ss_pred cCCC-CCc-ccccccc-----------------------------------ch---------------------------
Confidence 0111 111 1122211 11
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCchhhhhhhhchHHHHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCchHH
Q psy12906 151 MTELKRQLTVLQELMRAMKVSNPGVRVLAENMERDDVARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGHI 230 (303)
Q Consensus 151 l~e~kr~l~~L~~~i~~~~~~~~~~~~~~~~~~~~~I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~~~ 230 (303)
++.|...+....+.++..|...+++...+...|..-+..++++.|+.++++++..+...++..|.+|+|+.+.
T Consensus 176 -------~~~l~~~~~~~qs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 248 (391)
T KOG0297|consen 176 -------KQKLKRRMLANQSEEPAKRIQELIMQLKEEFERIAALLNPRVSTSGNIQCTPDAPLEEYIKDSLKESGCTLSQ 248 (391)
T ss_pred -------hhhhhhHHHHHHhhhhhhhhhHHHHHHHHhhhhhhhhcccccccccceeecCchhHHHHHhhHHHHhhccccc
Confidence 1111112233333344455555566666678888899999999999999999999999999999999999999
Q ss_pred HHHHHhhccccCCCcccccHHHHHhhHHHHhhhhhhcCC----CCceEEEEecCCCCCCCCCccCCcEEEEeecCC
Q psy12906 231 LDQLMHNSHERNWPQGLSSLETRQNNRRQYENYVCKRIP----SKQAVVVLLCDNVHLPEDMISAPGLVMIFAHGI 302 (303)
Q Consensus 231 ~~~~~~~~~e~~wp~~l~~l~~r~~n~~~~~~~v~~~~~----~k~~~~~~~~~n~h~~~~~~~~~g~~~if~~g~ 302 (303)
.+.++|++||.+||.|++.+++|.+|.++|..|+..+|| +|+.++++++.+.|||+.++...|.+|+|.+++
T Consensus 249 ~~~~lE~~~~~~~~~~~~~~~~~~~~~~~~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~l 324 (391)
T KOG0297|consen 249 RVQLLESRHEGRQPLGDMALSVREMEVRSYDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYL 324 (391)
T ss_pred cHHHhhhhhhhhhhhHHHHHHHHHhhhhccCCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhh
Confidence 999999999999999999999999999999999999999 999999999999999999999999999998775
No 3
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.73 E-value=3.9e-09 Score=108.38 Aligned_cols=96 Identities=21% Similarity=0.514 Sum_probs=76.3
Q ss_pred eEEccCCCCCCceeEecccHHhHhhcCCCCCCCccccC-CCCCCccccchHHHHHhhCcccccCCCCCcc--ccccCCCc
Q psy12906 2 VISCDNASYGCTVAVKLDSYSSHLTECEHNPKRPVQCE-QGCGSVIPMDELKYLSNQCEYHQHDSHGTDL--ELSFCTPY 78 (303)
Q Consensus 2 ~V~C~N~~~GC~~~~~L~~l~~Hl~~C~y~Pk~~v~Cp-~gCg~~v~R~eL~~Hl~~C~~r~~~~~~~~~--~~~~C~~~ 78 (303)
.|+|+| |.|.+++.+|..|+..|.|. .|.|| .|||..+.|+++++|. .|+++...+...++ |...|.
T Consensus 407 ~V~C~N----C~~~i~l~~l~lHe~~C~r~---~V~Cp~~~Cg~v~~r~el~~H~-~C~~Cgk~f~~s~LekH~~~~H-- 476 (567)
T PLN03086 407 TVECRN----CKHYIPSRSIALHEAYCSRH---NVVCPHDGCGIVLRVEEAKNHV-HCEKCGQAFQQGEMEKHMKVFH-- 476 (567)
T ss_pred eEECCC----CCCccchhHHHHHHhhCCCc---ceeCCcccccceeeccccccCc-cCCCCCCccchHHHHHHHHhcC--
Confidence 478998 99999999999999999999 99999 5899999999999998 68888776655444 556663
Q ss_pred ccccCCCccccCceeeeeecccccc---------cccccccccc
Q psy12906 79 QSLHTANTAIMGYEIVRFIGEVDEE---------LICSICSGVF 113 (303)
Q Consensus 79 ~~~~Cpng~~CG~~I~R~~g~vDe~---------i~C~~c~~~L 113 (303)
.+..|| ||..+.+ ..++.| +.|+.|+...
T Consensus 477 kpv~Cp----Cg~~~~R--~~L~~H~~thCp~Kpi~C~fC~~~v 514 (567)
T PLN03086 477 EPLQCP----CGVVLEK--EQMVQHQASTCPLRLITCRFCGDMV 514 (567)
T ss_pred CCccCC----CCCCcch--hHHHhhhhccCCCCceeCCCCCCcc
Confidence 478897 8876654 445444 4488876544
No 4
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=98.38 E-value=1.9e-07 Score=67.89 Aligned_cols=35 Identities=37% Similarity=0.782 Sum_probs=27.4
Q ss_pred HhhcCCCCCCCccccCCCCC-CccccchHHHHHh-hCccc
Q psy12906 24 HLTECEHNPKRPVQCEQGCG-SVIPMDELKYLSN-QCEYH 61 (303)
Q Consensus 24 Hl~~C~y~Pk~~v~Cp~gCg-~~v~R~eL~~Hl~-~C~~r 61 (303)
|+.+|+|. +|+||++|+ ..|+|++|++|+. .|+++
T Consensus 1 H~~~C~~~---~v~C~~~cc~~~i~r~~l~~H~~~~C~~~ 37 (60)
T PF02176_consen 1 HEEECPFR---PVPCPNGCCNEMIPRKELDDHLENECPKR 37 (60)
T ss_dssp HHTTSTTS---EEE-TT--S-BEEECCCHHHHHHTTSTTS
T ss_pred CcccCCCC---EeeCCCCCcccceeHHHHHHHHHccCCCC
Confidence 77779998 999997666 6699999999997 89998
No 5
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=98.11 E-value=2e-06 Score=62.49 Aligned_cols=48 Identities=29% Similarity=0.708 Sum_probs=36.9
Q ss_pred eEEccCCCCCCceeEecccHHhHhh-cCCCCCCCccccCC---CCCCccccchHHHH
Q psy12906 2 VISCDNASYGCTVAVKLDSYSSHLT-ECEHNPKRPVQCEQ---GCGSVIPMDELKYL 54 (303)
Q Consensus 2 ~V~C~N~~~GC~~~~~L~~l~~Hl~-~C~y~Pk~~v~Cp~---gCg~~v~R~eL~~H 54 (303)
.|.|+|. ||...+...+|+.|+. +|++. +++|+. ||+.+++|.+|++|
T Consensus 9 ~v~C~~~--cc~~~i~r~~l~~H~~~~C~~~---~v~C~~~~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 9 PVPCPNG--CCNEMIPRKELDDHLENECPKR---PVPCPYSPYGCKERVPREDLEEH 60 (60)
T ss_dssp EEE-TT----S-BEEECCCHHHHHHTTSTTS---EEE-SS----S--EEEHHHHHHC
T ss_pred EeeCCCC--CcccceeHHHHHHHHHccCCCC---cEECCCCCCCCCCccchhHHhCC
Confidence 5889874 7889999999999996 99999 999995 99999999999987
No 6
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=97.74 E-value=1.8e-05 Score=70.71 Aligned_cols=53 Identities=30% Similarity=0.558 Sum_probs=38.4
Q ss_pred CeEEccCCCCCCceeEecccHHhHhhcCCCCCCCccccCC---CCCCccccchHHHHHh
Q psy12906 1 LVISCDNASYGCTVAVKLDSYSSHLTECEHNPKRPVQCEQ---GCGSVIPMDELKYLSN 56 (303)
Q Consensus 1 L~V~C~N~~~GC~~~~~L~~l~~Hl~~C~y~Pk~~v~Cp~---gCg~~v~R~eL~~Hl~ 56 (303)
+.+-|+|+..||++.++..+...|.++|+|. |..||- +|+..-+..+|..|+.
T Consensus 13 ~~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~---p~~CP~~~~~C~~~G~~~~l~~Hl~ 68 (198)
T PF03145_consen 13 IKFPCKNAKYGCTETFPYSEKREHEEECPFR---PCSCPFPGSGCDWQGSYKELLDHLR 68 (198)
T ss_dssp --EE-CCGGGT---EE-GGGHHHHHHT-TTS---EEE-SSSSTT---EEECCCHHHHHH
T ss_pred ceecCCCCCCCCcccccccChhhHhccCCCc---CCcCCCCCCCccccCCHHHHHHHHH
Confidence 4688999999999999999999999999999 999994 7998889999999996
No 7
>KOG0297|consensus
Probab=97.66 E-value=2.3e-05 Score=77.64 Aligned_cols=41 Identities=7% Similarity=-0.014 Sum_probs=37.7
Q ss_pred HHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCchH
Q psy12906 187 VARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGH 229 (303)
Q Consensus 187 I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~~ 229 (303)
|.+|+.+.+++.++....++|++ ||++.+||+|++..+.|.
T Consensus 286 i~~~~~~~~e~~~~~~~~~~S~~--f~t~~~Gyk~~~~~~lng 326 (391)
T KOG0297|consen 286 IPDYGRKKQEAVAGATLSLFSPA--FYTSKYGYKLCARIYLNG 326 (391)
T ss_pred ecchhhhhHHHHhccCccccccc--cccccccHHHHhHhhhcC
Confidence 99999999999999999999999 999999999999766553
No 8
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.47 E-value=0.00011 Score=76.05 Aligned_cols=58 Identities=22% Similarity=0.654 Sum_probs=45.1
Q ss_pred eEEccCCCCCCceeEecccHHhHhhcCCCCCC---------------CccccCCCCCCccccchHHHHHh-hCcccccC
Q psy12906 2 VISCDNASYGCTVAVKLDSYSSHLTECEHNPK---------------RPVQCEQGCGSVIPMDELKYLSN-QCEYHQHD 64 (303)
Q Consensus 2 ~V~C~N~~~GC~~~~~L~~l~~Hl~~C~y~Pk---------------~~v~Cp~gCg~~v~R~eL~~Hl~-~C~~r~~~ 64 (303)
.|.|+| .||+.++...+++.|. .|++|.+ .++.|| ||..++|.+|..|+. .|+.+.+.
T Consensus 433 ~V~Cp~--~~Cg~v~~r~el~~H~-~C~~Cgk~f~~s~LekH~~~~Hkpv~Cp--Cg~~~~R~~L~~H~~thCp~Kpi~ 506 (567)
T PLN03086 433 NVVCPH--DGCGIVLRVEEAKNHV-HCEKCGQAFQQGEMEKHMKVFHEPLQCP--CGVVLEKEQMVQHQASTCPLRLIT 506 (567)
T ss_pred ceeCCc--ccccceeeccccccCc-cCCCCCCccchHHHHHHHHhcCCCccCC--CCCCcchhHHHhhhhccCCCCcee
Confidence 367886 4899999999999998 4666533 356897 998899999999984 68887433
No 9
>cd03777 MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF3 was first described as a molecule that binds the cytoplasmic tail of CD40. However, it is not required for CD40 signaling. More recently, TRAF3 has been identified as a key regulator of type I interferon (IFN) production and the mammalian innate antiviral immunity. It mediates IFN responses in Toll-like receptor (TLR)-dependent as well as TLR-independent viral recognition pathways. It is also a key element in immunological homeostasis through its regulation of the anti-inflammatory cytokine interleukin-10. TRAF3 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more divergent N-terminal al
Probab=96.73 E-value=0.00026 Score=63.66 Aligned_cols=82 Identities=9% Similarity=0.116 Sum_probs=58.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC-CchhhhhhhhchHHHHHHHhhcccccccccCccccCchH
Q psy12906 133 QQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSN-PGVRVLAENMERDDVARWSNSLSRARVTRWGGMISTPDV 211 (303)
Q Consensus 133 ~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~-~~~~~~~~~~~~~~I~~ws~kL~~ar~~~~g~~iStP~~ 211 (303)
++.++..+++.+..+...+.+++.+|+.|+.. ..+ .-+|+ |.+|++++..++.++...+.|+|
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~G~hvwk---------I~~yS~~~~~~~~g~~~~i~S~~-- 67 (186)
T cd03777 4 LESQLSRHDQMLSVHDIRLADMDLRFQVLETA-----SYNGVLIWK---------IRDYKRRKQEAVMGKTLSLYSQP-- 67 (186)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-----ccceEEEEE---------ECChhHHHHhhccCCCcEEECCC--
Confidence 34455555555555555555555555544421 112 34888 99999999999988666788999
Q ss_pred HHHHHHHHHHHhcCCchHH
Q psy12906 212 MLQAMIKRSLAESGCPGHI 230 (303)
Q Consensus 212 ~~~~~~~~~l~~s~cp~~~ 230 (303)
|++.+.||+++...+||..
T Consensus 68 Fyvg~~GY~w~i~~ypnG~ 86 (186)
T cd03777 68 FYTGYFGYKMCARVYLNGD 86 (186)
T ss_pred eEeCCCCeeEEEEEEcCCC
Confidence 9999999999999999873
No 10
>cd03778 MATH_TRAF2 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF2 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF2 associates with the receptors TNFR-1, TNFR-2, RANK (which mediates differentiation and maturation of osteoclasts) and CD40 (which is important for the proliferation and activation of B cells), among others. It regulates distinct pathways that lead to the activation of nuclear factor-kappaB and Jun NH2-terminal kinases. TRAF2 also indirectly associates with death receptors through its interaction with TRADD (TNFR-associated death domain protein). It is involved in regulating oxidative stress or ROS-induced cell death and in the preconditioning of cells by sublethal stress for protection from subsequent injury. TRAF2 contains a RING finger domain, five z
Probab=96.26 E-value=0.00018 Score=63.79 Aligned_cols=45 Identities=7% Similarity=-0.006 Sum_probs=41.9
Q ss_pred chhhhhhhhchHHHHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCchH
Q psy12906 174 GVRVLAENMERDDVARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGH 229 (303)
Q Consensus 174 ~~~~~~~~~~~~~I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~~ 229 (303)
.+|+ |.+|++++++|+.++...++|+| |++++.||+|+....||.
T Consensus 21 fiWk---------I~~fs~~~~~a~~~~~~~i~Sp~--Fyt~~~GYk~~l~~ylnG 65 (164)
T cd03778 21 FIWK---------ISDFARKRQEAVAGRIPAIFSPA--FYTSRYGYKMCLRIYLNG 65 (164)
T ss_pred EEEE---------ECcHHHHHHHHhcCCCceEECCC--cccCCCCeEEEEEEEeCC
Confidence 3898 99999999999988888899999 999999999999999986
No 11
>cd03782 MATH_Meprin_Beta Meprin family, Beta subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The beta subunit is a type I membrane protein, which forms homodimers or heterotetramers (alpha2beta2 or alpha3beta). Meprin beta shows preference for acidic residues at the P1 and P1' sites of its substrate. Among its best substrates are growth factors and chemokines such as gastrin and osteopontin. Both alpha and beta subunits contain a catalytic astacin (M12 family) protease domain followed by the adhesion or interaction domains MAM, MATH and AM. The MATH and MAM domains provide symmetrical intersubunit disulfide bonds necessary for the dimerization of meprin subunits. The MATH domain may also be required for f
Probab=94.76 E-value=0.0022 Score=57.16 Aligned_cols=39 Identities=15% Similarity=0.184 Sum_probs=34.9
Q ss_pred HHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCchHH
Q psy12906 187 VARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGHI 230 (303)
Q Consensus 187 I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~~~ 230 (303)
|.+|++++++ +++...++|+| ||++ .||+|++.++||..
T Consensus 8 I~~fs~~~~~--~~~~~~i~Sp~--FYt~-~GYkl~l~~ylnG~ 46 (167)
T cd03782 8 IRNFTQLLAT--TPPNGKIYSPP--FLSS-TGYSFQVGLYLNGT 46 (167)
T ss_pred eCcHHHHHHh--cCCCceEECCC--CcCc-cCceeEEEEEecCC
Confidence 9999999999 45668899999 9998 99999999999874
No 12
>cd03779 MATH_TRAF1 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF1 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF1 expression is the most restricted among the TRAFs. It is found exclusively in activated lymphocytes, dendritic cells and certain epithelia. TRAF1 associates, directly or indirectly through heterodimerization with TRAF2, with the TNFR family receptors TNFR-2, CD30, RANK, CD40 and LMP1, among others. It also binds the intracellular proteins TRADD, TANK, TRIP, RIP1, RIP2 and FLIP. TRAF1 is unique among the TRAFs in that it lacks a RING domain, which is critical for the activation of nuclear factor-kappaB and Jun NH2-terminal kinase. Studies on TRAF1-deficient mice suggest that TRAF1 has a negative regulatory role in TNFR-mediat
Probab=94.60 E-value=0.0014 Score=56.95 Aligned_cols=42 Identities=10% Similarity=-0.096 Sum_probs=38.7
Q ss_pred HHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCchHH
Q psy12906 187 VARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGHI 230 (303)
Q Consensus 187 I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~~~ 230 (303)
|.+|++++++|+.++...++|+| ||+++.||+++...+||..
T Consensus 7 i~~f~~~~~~a~~~~~~~~~S~~--Fyt~~~Gy~w~i~~ypnG~ 48 (147)
T cd03779 7 ITDVSQKQRESSHGRDVSLCSPA--FYTAKYGYKVCLRLYLNGD 48 (147)
T ss_pred ECcHHHHHHHHhcCCCceEECCC--cccCCCCceEEEEEEcCCC
Confidence 99999999999988777888999 9999999999999999873
No 13
>KOG3002|consensus
Probab=92.88 E-value=0.09 Score=50.91 Aligned_cols=53 Identities=28% Similarity=0.547 Sum_probs=48.0
Q ss_pred CeEEccCCCCCCceeEecccHHhHhhcCCCCCCCccccC-C--CCCCccccchHHHHHh
Q psy12906 1 LVISCDNASYGCTVAVKLDSYSSHLTECEHNPKRPVQCE-Q--GCGSVIPMDELKYLSN 56 (303)
Q Consensus 1 L~V~C~N~~~GC~~~~~L~~l~~Hl~~C~y~Pk~~v~Cp-~--gCg~~v~R~eL~~Hl~ 56 (303)
+.|.|+|+..||++++...+--+|.+.|.|. +-.|| . .|...-.-+++-+|+.
T Consensus 105 ~~vpC~~~~~GC~~~~~Y~~~~~HE~~C~f~---~~~CP~p~~~C~~~G~~~~l~~H~~ 160 (299)
T KOG3002|consen 105 VLVPCKNAKLGCTKSFPYGEKSKHEKVCEFR---PCSCPVPGAECKYTGSYKDLYAHLN 160 (299)
T ss_pred ceecccccccCCceeeccccccccccccccC---CcCCCCCcccCCccCcHHHHHHHHH
Confidence 3589999999999999999999999999998 77788 4 7999999999999984
No 14
>cd03783 MATH_Meprin_Alpha Meprin family, Alpha subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The alpha subunit is synthesized as a membrane spanning protein, however, it is cleaved during biosynthesis and loses its transmembrane domain. It oligomerizes into large complexes, containing 10-100 subunits (dimers that associate noncovalently), which are secreted as latent proteases and can move through extracellular spaces in a nondestructive manner. This allows delivery of the concentrated protease to sites containing activating enzymes, such as sites of inflammation, infection or cancerous growth. Meprin alpha shows preference for small or hydrophobic residues at the P1 and P1' sites of its substrate. Both
Probab=92.27 E-value=0.0084 Score=53.54 Aligned_cols=39 Identities=15% Similarity=0.032 Sum_probs=33.7
Q ss_pred HHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCchHH
Q psy12906 187 VARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGHI 230 (303)
Q Consensus 187 I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~~~ 230 (303)
|.+|++++++|+ +...++|+| |+++ .||+++.+..|+.-
T Consensus 8 I~nfs~~~~~a~--~~~~i~Sp~--Fyt~-~GYk~~l~~~lng~ 46 (167)
T cd03783 8 VRNFSQILENTT--KGDVLQSPR--FYSP-EGYGYGVSLYPLSN 46 (167)
T ss_pred ECcHHHHHHhCc--CCCeEECCC--CccC-CCceEEEEEEecCC
Confidence 999999999997 457788999 8986 89999999988653
No 15
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=90.67 E-value=0.14 Score=45.76 Aligned_cols=27 Identities=22% Similarity=0.685 Sum_probs=18.5
Q ss_pred ccccC---CCCCCccccchHHHHHhhCccc
Q psy12906 35 PVQCE---QGCGSVIPMDELKYLSNQCEYH 61 (303)
Q Consensus 35 ~v~Cp---~gCg~~v~R~eL~~Hl~~C~~r 61 (303)
.+||+ .||...++-.++.+|...|+|+
T Consensus 14 ~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~ 43 (198)
T PF03145_consen 14 KFPCKNAKYGCTETFPYSEKREHEEECPFR 43 (198)
T ss_dssp -EE-CCGGGT---EE-GGGHHHHHHT-TTS
T ss_pred eecCCCCCCCCcccccccChhhHhccCCCc
Confidence 66777 5999999999999999999999
No 16
>cd03780 MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF5 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF5 was identified as an activator of nuclear factor-kappaB and a regulator of lymphotoxin-beta receptor and CD40 signaling. Its interaction with CD40 is indirect, involving hetero-oligomerization with TRAF3. In addition, TRAF5 has been shown to associate with other TNFRs including CD27, CD30, OX40 and GITR (glucocorticoid-induced TNFR). It plays a role in modulating Th2 immune responses (driven by OX40 costimulation) and T-cell activation (triggered by GITR). It is also involved in osteoclastogenesis. TRAF5 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more dive
Probab=88.07 E-value=0.015 Score=50.47 Aligned_cols=44 Identities=11% Similarity=-0.017 Sum_probs=38.3
Q ss_pred HHHHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCchHH
Q psy12906 185 DDVARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGHI 230 (303)
Q Consensus 185 ~~I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~~~ 230 (303)
|.|.+|+++...|++++...+.|+| ||+++.||+++...+||..
T Consensus 5 wkI~~ys~~~~~~~~g~~~~i~S~~--Fyt~~~Gy~w~i~~ypnG~ 48 (148)
T cd03780 5 WKVTDYKMKKKEAVDGHTVSIFSQP--FYTSRCGYRLCARAYLNGD 48 (148)
T ss_pred EEECCHHHHHHhhcCCCccEEECCC--cccCCCCeeEEEEEEcCCC
Confidence 4499999999999977655678989 9999999999999999974
No 17
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=84.57 E-value=5.9 Score=38.46 Aligned_cols=82 Identities=15% Similarity=0.421 Sum_probs=51.8
Q ss_pred CCCChHHHHHHHHHHHHHH-------HHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHhhcC----
Q psy12906 118 QDHNCVKELRSIVHKQQQK-------MVNMETEMSEQRF--------------QMTELKRQLTVLQELMRAMKVSN---- 172 (303)
Q Consensus 118 q~~nC~~~LR~~i~~~~~k-------~~~l~~~l~~~~~--------------~l~e~kr~l~~L~~~i~~~~~~~---- 172 (303)
|.--|+++||+++..-+.+ +.+|+.++.+|+. .|.+.|++|++|++.|.-|+...
T Consensus 65 QKEV~iRHLkakLkes~~~l~dRetEI~eLksQL~RMrEDWIEEECHRVEAQLALKEARkEIkQLkQvieTmrssL~ekD 144 (305)
T PF15290_consen 65 QKEVCIRHLKAKLKESENRLHDRETEIDELKSQLARMREDWIEEECHRVEAQLALKEARKEIKQLKQVIETMRSSLAEKD 144 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhh
Confidence 4556899997776555443 4555555544433 35788999999999999987554
Q ss_pred Cchhhh-hh-hhchHHHHHHHhhcccccc
Q psy12906 173 PGVRVL-AE-NMERDDVARWSNSLSRARV 199 (303)
Q Consensus 173 ~~~~~~-~~-~~~~~~I~~ws~kL~~ar~ 199 (303)
..+.+- .+ ++-+.-+..+.++|--|..
T Consensus 145 kGiQKYFvDINiQN~KLEsLLqsMElAq~ 173 (305)
T PF15290_consen 145 KGIQKYFVDINIQNKKLESLLQSMELAQS 173 (305)
T ss_pred hhHHHHHhhhhhhHhHHHHHHHHHHHHHh
Confidence 224441 11 3344456777777766663
No 18
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=83.16 E-value=0.88 Score=28.23 Aligned_cols=24 Identities=29% Similarity=0.548 Sum_probs=20.4
Q ss_pred ccccCCCCCCccccchHHHHHhhCc
Q psy12906 35 PVQCEQGCGSVIPMDELKYLSNQCE 59 (303)
Q Consensus 35 ~v~Cp~gCg~~v~R~eL~~Hl~~C~ 59 (303)
.++|| -||-++.-+.|+.|+..|.
T Consensus 2 l~~C~-~CgR~F~~~~l~~H~~~C~ 25 (25)
T PF13913_consen 2 LVPCP-ICGRKFNPDRLEKHEKICK 25 (25)
T ss_pred CCcCC-CCCCEECHHHHHHHHHhcC
Confidence 46896 4999999999999998874
No 19
>KOG0287|consensus
Probab=82.78 E-value=3.1 Score=41.54 Aligned_cols=79 Identities=16% Similarity=0.249 Sum_probs=54.3
Q ss_pred ccccCCCCCCccccchHH-HHHhhCcccccCCCCCccccccCCCc-ccccCCCccccCceeeeeecccccccc-cccccc
Q psy12906 35 PVQCEQGCGSVIPMDELK-YLSNQCEYHQHDSHGTDLELSFCTPY-QSLHTANTAIMGYEIVRFIGEVDEELI-CSICSG 111 (303)
Q Consensus 35 ~v~Cp~gCg~~v~R~eL~-~Hl~~C~~r~~~~~~~~~~~~~C~~~-~~~~Cpng~~CG~~I~R~~g~vDe~i~-C~~c~~ 111 (303)
.+.|| .|....||+.++ +|+..|--++.--+- ...+| ....||+. .+.+|..+++++.+ |-.
T Consensus 161 ~~~cP-ac~~~~p~~~~e~~hldscl~~ps~ps~------ss~~~~tk~n~~~~-----s~~~fk~~~~~~~ks~l~--- 225 (442)
T KOG0287|consen 161 KEACP-ACKTKEPRSVEEIAHLDSCLKRPSPPST------SSLKQVTKVNCPVC-----SVNIFKSHINKHLKSCLS--- 225 (442)
T ss_pred hhhCc-ccccccchhhhhcccChHHhcCCCCCCc------ccccccccCCCCcc-----ccccccccCcHHHHhhhc---
Confidence 35787 599999999999 999999877642111 11111 13567774 46788889999987 544
Q ss_pred cccCCCCCCChHHHHHHHHHHHHH
Q psy12906 112 VFEEPLQDHNCVKELRSIVHKQQQ 135 (303)
Q Consensus 112 ~Le~~~q~~nC~~~LR~~i~~~~~ 135 (303)
..+..-.|+..+..++.
T Consensus 226 -------~~~~~d~l~~s~~~r~r 242 (442)
T KOG0287|consen 226 -------REEKKDSLRSSVHKRKR 242 (442)
T ss_pred -------chhhhhHhhhhHhhccc
Confidence 66677888888776665
No 20
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=76.29 E-value=6.1 Score=36.70 Aligned_cols=36 Identities=14% Similarity=0.293 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 134 QQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 134 ~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
..++..++...+.++..++.++.++..|+..+..+.
T Consensus 62 ~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~ 97 (251)
T PF11932_consen 62 EREIENLEVYNEQLERQVASQEQELASLEQQIEQIE 97 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444445555555555555555555555553
No 21
>KOG0250|consensus
Probab=75.57 E-value=39 Score=38.26 Aligned_cols=49 Identities=20% Similarity=0.381 Sum_probs=38.4
Q ss_pred HHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCchHHHHHHHhhcccc
Q psy12906 187 VARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGHILDQLMHNSHER 241 (303)
Q Consensus 187 I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~~~~~~~~~~~~e~ 241 (303)
|.+=.+..+.-++|--|..++-++- +++++..-|+++++|..+=..|.+
T Consensus 484 I~r~~~~f~~~P~GPlG~~Vtl~~~------KWa~aIE~~L~n~lnaFiv~sh~D 532 (1074)
T KOG0250|consen 484 IERRKRRFQTPPKGPLGKYVTLKEP------KWALAIERCLGNLLNAFIVTSHKD 532 (1074)
T ss_pred HHHHHhcCCCCCCCCccceeEecCc------HHHHHHHHHHHHhhhhheeCCHhh
Confidence 5554555567788888888887753 889999999999999988887776
No 22
>PF05253 zf-U11-48K: U11-48K-like CHHC zinc finger; InterPro: IPR022776 This zinc binding domain [] has four conserved zinc chelating residues in a CHHC pattern. This domain is predicted to have an RNA-binding function []. ; PDB: 2VY5_A 2VY4_A.
Probab=74.97 E-value=1.6 Score=27.54 Aligned_cols=24 Identities=25% Similarity=0.512 Sum_probs=17.3
Q ss_pred cccCCCCCCccccchHHHHHhhCc
Q psy12906 36 VQCEQGCGSVIPMDELKYLSNQCE 59 (303)
Q Consensus 36 v~Cp~gCg~~v~R~eL~~Hl~~C~ 59 (303)
+.||-.-..+|++.+|+.|+..|+
T Consensus 3 v~CPyn~~H~v~~~~l~~Hi~~C~ 26 (27)
T PF05253_consen 3 VRCPYNPSHRVPASELQKHIKKCP 26 (27)
T ss_dssp EE-TTTSS-EEEGGGHHHHHHHHH
T ss_pred eeCCCCCCcCcCHHHHHHHHHHcC
Confidence 456644568899999999998885
No 23
>PRK00736 hypothetical protein; Provisional
Probab=73.85 E-value=26 Score=26.73 Aligned_cols=45 Identities=20% Similarity=0.386 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
+|-.++.-+..-+.+|.+.+.++..+++.+++++..|.+.++++.
T Consensus 9 ~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00736 9 ELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALTERFLSLE 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344444444444566777777777777777777777777666653
No 24
>PRK00846 hypothetical protein; Provisional
Probab=72.72 E-value=27 Score=27.60 Aligned_cols=36 Identities=8% Similarity=0.172 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSN 172 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~ 172 (303)
+.+|.+.+.++..+++.++++|..|.+.++++..++
T Consensus 29 Ie~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~~s~ 64 (77)
T PRK00846 29 LTELSEALADARLTGARNAELIRHLLEDLGKVRSTL 64 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 556666677777777777777777777777765433
No 25
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=72.44 E-value=3.3 Score=37.13 Aligned_cols=30 Identities=20% Similarity=0.408 Sum_probs=20.3
Q ss_pred cCCCccccCceeeeeecccccccccccccccccC
Q psy12906 82 HTANTAIMGYEIVRFIGEVDEELICSICSGVFEE 115 (303)
Q Consensus 82 ~Cpng~~CG~~I~R~~g~vDe~i~C~~c~~~Le~ 115 (303)
.||+ ||..++ |.--++..+.||.|+..|+.
T Consensus 119 ~Cp~---C~~ryt-f~eA~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 119 FCPN---CHIRFT-FDEAMEYGFRCPQCGEMLEE 148 (178)
T ss_pred ECCC---CCcEEe-HHHHhhcCCcCCCCCCCCee
Confidence 4776 663332 22356677999999999984
No 26
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=72.08 E-value=20 Score=27.18 Aligned_cols=44 Identities=27% Similarity=0.434 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 126 LRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 126 LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
|-.++.-+..-+.+|.+.+-++..+++.+++++..|.+.++++.
T Consensus 9 LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 9 LEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 33344433334556666666666666777776666666666654
No 27
>PRK04325 hypothetical protein; Provisional
Probab=71.73 E-value=28 Score=26.97 Aligned_cols=32 Identities=22% Similarity=0.340 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.+|.+.+-++..+++.+++++..|.+.++.+
T Consensus 25 Ie~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~ 56 (74)
T PRK04325 25 IDGLNATVARQQQTLDLLQAQLRLLYQQMRDA 56 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44555555555555555555555555555444
No 28
>PRK02793 phi X174 lysis protein; Provisional
Probab=71.72 E-value=30 Score=26.70 Aligned_cols=33 Identities=18% Similarity=0.465 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
+.+|.+.+-++..+++.+++++..|.+.++.+.
T Consensus 24 Ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~ 56 (72)
T PRK02793 24 IEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQ 56 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 455666666666666666666666666655553
No 29
>PRK00295 hypothetical protein; Provisional
Probab=71.47 E-value=31 Score=26.30 Aligned_cols=45 Identities=22% Similarity=0.221 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
+|-.++.-+..-+.+|.+.+-++..+++.+++++..|.+.++.+.
T Consensus 9 ~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 9 ELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 334444434444566667777777777777777777766666654
No 30
>PRK04406 hypothetical protein; Provisional
Probab=71.03 E-value=30 Score=26.95 Aligned_cols=32 Identities=16% Similarity=0.386 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.+|.+.+-++..+++.+++++..|.+.++++
T Consensus 27 Ie~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~ 58 (75)
T PRK04406 27 IEELNDALSQQQLLITKMQDQMKYVVGKVKNM 58 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34444555555555555555555555544443
No 31
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=69.79 E-value=2.7 Score=28.16 Aligned_cols=23 Identities=22% Similarity=0.606 Sum_probs=18.7
Q ss_pred ccccCCCCCCccccchHHHHHhhC
Q psy12906 35 PVQCEQGCGSVIPMDELKYLSNQC 58 (303)
Q Consensus 35 ~v~Cp~gCg~~v~R~eL~~Hl~~C 58 (303)
.+.||+ |+-.|.-.-+..||+.|
T Consensus 4 ~~~C~n-C~R~v~a~RfA~HLekC 26 (33)
T PF08209_consen 4 YVECPN-CGRPVAASRFAPHLEKC 26 (33)
T ss_dssp EEE-TT-TSSEEEGGGHHHHHHHH
T ss_pred eEECCC-CcCCcchhhhHHHHHHH
Confidence 568875 99999999999999877
No 32
>KOG4571|consensus
Probab=67.76 E-value=17 Score=35.39 Aligned_cols=41 Identities=20% Similarity=0.273 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 128 SIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 128 ~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
.+++.+..+...|++.-.+++.+.+++.++|+.|++.|.++
T Consensus 248 ae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~e~ 288 (294)
T KOG4571|consen 248 AEKEALLGELEGLEKRNEELKDQASELEREIRYLKQLILEV 288 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444455666667777777777777777777777654
No 33
>PF08537 NBP1: Fungal Nap binding protein NBP1; InterPro: IPR013743 NBP1 is a nuclear protein which has been shown in Saccharomyces cerevisiae (Bakers yeast) to be essential for the G2/M transition of the cell cycle.
Probab=67.44 E-value=24 Score=34.80 Aligned_cols=84 Identities=14% Similarity=0.247 Sum_probs=51.8
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchhhhhhhhchHHHHHHHhh------
Q psy12906 120 HNCVKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSNPGVRVLAENMERDDVARWSNS------ 193 (303)
Q Consensus 120 ~nC~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~~~~~~~~~~~~~~~I~~ws~k------ 193 (303)
.+++.=|+.+++++.+++.++++++.-....|.=......+|+..+.+..... ..++ .+.+|.|..+.
T Consensus 174 ~D~v~LLqkk~~~l~~~l~~~~~eL~~~~k~L~faqekn~LlqslLddaniD~-~y~k-----sRR~i~Nl~~~n~~P~~ 247 (323)
T PF08537_consen 174 SDRVILLQKKIDELEERLNDLEKELEITKKDLKFAQEKNALLQSLLDDANIDS-EYVK-----SRRDIKNLQKENLKPER 247 (323)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccH-HHHH-----hhhhcccccccCCCCcc
Confidence 36677777777777777777777777777777666666677777776543222 1111 44456666543
Q ss_pred -cccccccccCccc-cCc
Q psy12906 194 -LSRARVTRWGGMI-STP 209 (303)
Q Consensus 194 -L~~ar~~~~g~~i-StP 209 (303)
|.+.++..-..+| |||
T Consensus 248 ~L~pSP~R~~npL~TSSP 265 (323)
T PF08537_consen 248 DLPPSPRRPVNPLFTSSP 265 (323)
T ss_pred cCCCCCCcCCCCCcccCc
Confidence 3334555556777 777
No 34
>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.
Probab=67.37 E-value=17 Score=35.51 Aligned_cols=38 Identities=21% Similarity=0.344 Sum_probs=24.6
Q ss_pred HHhhcccccccccCccccCchHHHHHHHHHHHHhcCCch
Q psy12906 190 WSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPG 228 (303)
Q Consensus 190 ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~ 228 (303)
....|..-+ .||...+..=..-++..+|..|.++++..
T Consensus 285 Li~~L~~E~-~RW~~~~~~l~~~~~~l~GD~llaaa~is 322 (344)
T PF12777_consen 285 LISGLSGEK-ERWSEQIEELEEQLKNLVGDSLLAAAFIS 322 (344)
T ss_dssp HHHCCHHHH-HCCHCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhhcchh-hhHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence 344444433 34766666666778888888888877543
No 35
>PRK02119 hypothetical protein; Provisional
Probab=67.34 E-value=41 Score=26.01 Aligned_cols=32 Identities=19% Similarity=0.440 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.+|.+.+-++..+++.+++++..|.+.++.+
T Consensus 25 ie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~ 56 (73)
T PRK02119 25 LEELNQALIEQQFVIDKMQVQLRYMANKLKDM 56 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34444455555555555555555555544443
No 36
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=67.05 E-value=37 Score=26.99 Aligned_cols=47 Identities=15% Similarity=0.202 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy12906 124 KELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKV 170 (303)
Q Consensus 124 ~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~ 170 (303)
.+|...+..+|..+..|-..+...+..-..++.+-+.|+++|..+..
T Consensus 19 ~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~ 65 (80)
T PF10224_consen 19 EELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNLMS 65 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35566666677777777777777888888888888889999887753
No 37
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=64.92 E-value=31 Score=26.71 Aligned_cols=38 Identities=24% Similarity=0.455 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQEL 164 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~ 164 (303)
++.|.++++++.+++..+..+..+++....++..|+..
T Consensus 32 ~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~ 69 (74)
T PF12329_consen 32 NNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEER 69 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444444444444444433
No 38
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=64.16 E-value=52 Score=26.60 Aligned_cols=68 Identities=15% Similarity=0.202 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchhhhhhhhchHHHHHHHhhc
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSNPGVRVLAENMERDDVARWSNSL 194 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~~~~~~~~~~~~~~~I~~ws~kL 194 (303)
-|.+.......+..++......+...+..++.+...|+.+++.+.....++..|++ --..++.|++.|
T Consensus 25 LLe~mN~~~~~kY~~~~~~~~~l~~~~~~l~~k~~~l~~~l~~Id~Ie~~V~~LE~--~v~~LD~ysk~L 92 (99)
T PF10046_consen 25 LLENMNKATSLKYKKMKDIAAGLEKNLEDLNQKYEELQPYLQQIDQIEEQVTELEQ--TVYELDEYSKEL 92 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHH
Confidence 33444444444566666666666667777777667777777776554444333322 123478888665
No 39
>smart00338 BRLZ basic region leucin zipper.
Probab=62.32 E-value=39 Score=24.85 Aligned_cols=32 Identities=13% Similarity=0.311 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+..|+.++..+..+.++++.++..|...+..+
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~l 59 (65)
T smart00338 28 IEELERKVEQLEAENERLKKEIERLRRELEKL 59 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555555555544444443
No 40
>PF10426 zf-RAG1: Recombination-activating protein 1 zinc-finger domain; InterPro: IPR019485 During lymphocyte development, the genes encoding immunoglobulins and T-cell receptors are assembled from variable (V), diversity (D), and joining (J) gene segments. This combinatorial process, known as V(D)J recombination, allows the generation of an enormous range of binding specificities from a limited amount of genetic information. The V(D)J recombination-activating proteins 1 and 2 (RAG1 and RAG2) form a complex that initiates this process by binding to the conserved recombination signal sequences (RSS) and introducing a double-strand break between the RSS and the adjacent coding segment. These breaks are generated in two steps, nicking of one strand (hydrolysis), followed by hairpin formation (transesterification). RAG1/2 has also been shown to function as a transposase in vitro, and to possess RSS-independent endonuclease activity (end processing) and hairpin opening. RAG1 alone can bind to RSS but stable, efficient binding requires RAG2. All known catalytic activities require the presence of both proteins. For more information see []. 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc-finger domain found in the RAG1 protein. The structure contains the characteristic two-stranded beta-sheet and alpha-helix of a classical zinc-finger. The domain binds one zinc and, in complex with an adjacent RING-type zinc finger domain, helps to stabilise the whole of the dimerisation region of recombination activating protein 1 (RAG1) []. The function of the whole is to bind double-stranded DNA. ; GO: 0016788 hydrolase activity, acting on ester bonds, 0016881 acid-amino acid ligase activity; PDB: 1RMD_A.
Probab=61.97 E-value=6.5 Score=25.92 Aligned_cols=24 Identities=42% Similarity=0.794 Sum_probs=14.4
Q ss_pred CeEEccCCCCCCceeEecccHHhHhh
Q psy12906 1 LVISCDNASYGCTVAVKLDSYSSHLT 26 (303)
Q Consensus 1 L~V~C~N~~~GC~~~~~L~~l~~Hl~ 26 (303)
|.|+|+=. +|.+.+.|+.+-.|++
T Consensus 1 L~vrCPvk--dC~EEv~lgKY~~H~s 24 (30)
T PF10426_consen 1 LVVRCPVK--DCDEEVSLGKYSHHLS 24 (30)
T ss_dssp -EEE--ST--T---EEEHHHHHHHHH
T ss_pred Cccccccc--cCcchhhhhhhccccc
Confidence 67888754 8999999988888874
No 41
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=61.85 E-value=5.7 Score=24.91 Aligned_cols=22 Identities=27% Similarity=0.572 Sum_probs=17.9
Q ss_pred cccCCCCCCccccchHHHHHhhC
Q psy12906 36 VQCEQGCGSVIPMDELKYLSNQC 58 (303)
Q Consensus 36 v~Cp~gCg~~v~R~eL~~Hl~~C 58 (303)
|.|| -|+..++...+..|+..|
T Consensus 2 v~CP-iC~~~v~~~~in~HLD~C 23 (26)
T smart00734 2 VQCP-VCFREVPENLINSHLDSC 23 (26)
T ss_pred CcCC-CCcCcccHHHHHHHHHHh
Confidence 5787 588888888888998766
No 42
>PRK10884 SH3 domain-containing protein; Provisional
Probab=60.92 E-value=45 Score=30.72 Aligned_cols=11 Identities=18% Similarity=0.567 Sum_probs=6.2
Q ss_pred hhchHHHHHHH
Q psy12906 181 NMERDDVARWS 191 (303)
Q Consensus 181 ~~~~~~I~~ws 191 (303)
.+.+..+++|-
T Consensus 164 ~~~~~~~~~wf 174 (206)
T PRK10884 164 DKQRTIIMQWF 174 (206)
T ss_pred HHHHHHHHHHH
Confidence 34455566665
No 43
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=60.30 E-value=72 Score=24.11 Aligned_cols=34 Identities=18% Similarity=0.356 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 136 KMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 136 k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
.....+..+++.+.+..++..+|..|+..|..++
T Consensus 26 ~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r 59 (61)
T PF08826_consen 26 ANLAFESKLQEAEKRNRELEQEIERLKKEMEELR 59 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3456667777778888888888888888777664
No 44
>KOG4376|consensus
Probab=58.74 E-value=7.5 Score=34.47 Aligned_cols=55 Identities=22% Similarity=0.553 Sum_probs=40.6
Q ss_pred EEccCCCCCCceeEecccHHhHhhcCCCC----CCCccccC-CCCCCccccchHHHHHhhCccc
Q psy12906 3 ISCDNASYGCTVAVKLDSYSSHLTECEHN----PKRPVQCE-QGCGSVIPMDELKYLSNQCEYH 61 (303)
Q Consensus 3 V~C~N~~~GC~~~~~L~~l~~Hl~~C~y~----Pk~~v~Cp-~gCg~~v~R~eL~~Hl~~C~~r 61 (303)
+-|++-. ...+.+..+..||-.|.=+ -.....|+ |.| ..||+.+|..|+..|.++
T Consensus 15 ~iCPYdk---~HrI~l~rfpyHLikCrkn~p~~a~kLatCkyNar-H~vp~~ele~He~~Cd~~ 74 (161)
T KOG4376|consen 15 IICPYDK---DHRISLERFPYHLIKCRKNKPPHALKLATCKYNAR-HFVPEEELEFHEIFCDRQ 74 (161)
T ss_pred eeCCCCC---cceecHhhhhHHHHHHhhcCCCcCccccccCCccc-cccCHHHHHHHHHHhhhH
Confidence 4566543 5678899999999888753 01134677 555 679999999999999985
No 45
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=58.29 E-value=77 Score=23.99 Aligned_cols=41 Identities=24% Similarity=0.291 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 128 SIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 128 ~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.+..+..++.=++..+.++...+.++.++|..|+..++.+
T Consensus 4 ~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L 44 (69)
T PF04102_consen 4 ERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLL 44 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666677777777777777777766666555
No 46
>PHA02562 46 endonuclease subunit; Provisional
Probab=57.88 E-value=48 Score=33.68 Aligned_cols=29 Identities=14% Similarity=0.424 Sum_probs=15.1
Q ss_pred cccccccccccCCCCCCChHHHHHHHHHHHHH
Q psy12906 104 LICSICSGVFEEPLQDHNCVKELRSIVHKQQQ 135 (303)
Q Consensus 104 i~C~~c~~~Le~~~q~~nC~~~LR~~i~~~~~ 135 (303)
-.||.|+..++.. ++=+..|...+..++.
T Consensus 285 ~~Cp~C~~~~~~~---~~~~~~l~d~i~~l~~ 313 (562)
T PHA02562 285 GVCPTCTQQISEG---PDRITKIKDKLKELQH 313 (562)
T ss_pred CCCCCCCCcCCCc---HHHHHHHHHHHHHHHH
Confidence 4588887777654 3334444333333333
No 47
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=57.19 E-value=66 Score=28.77 Aligned_cols=70 Identities=10% Similarity=0.253 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchhhhhhhhchHHHHHHHhhccccc
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSNPGVRVLAENMERDDVARWSNSLSRAR 198 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~~~~~~~~~~~~~~~I~~ws~kL~~ar 198 (303)
...|.++++++..++..++....+|.+.+++|..+-+.-.......+. .-...+...+|.+|..+|..+.
T Consensus 28 ~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~~~~~~~~~~~~~--~~~~~v~~~eLL~YA~rISk~t 97 (188)
T PF10018_consen 28 QARIQQLRAEIEELDEQIRDILKQLKEARKELRTLPDQADEKLKSIPK--AEKRPVDYEELLSYAHRISKFT 97 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccc--cccCCCCHHHHHHHHHHHHHhc
Confidence 444444444555555555555555555555444322111110001111 1124567889999999887765
No 48
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=57.11 E-value=89 Score=28.21 Aligned_cols=26 Identities=23% Similarity=0.418 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCc
Q psy12906 149 FQMTELKRQLTVLQELMRAMKVSNPG 174 (303)
Q Consensus 149 ~~l~e~kr~l~~L~~~i~~~~~~~~~ 174 (303)
.++.+++.++..|+..+.......|.
T Consensus 110 ~~l~~l~~~~~~l~~el~~~~~~Dp~ 135 (188)
T PF03962_consen 110 EELEELKKELKELKKELEKYSENDPE 135 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCHH
Confidence 44556666666666666655555555
No 49
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=56.88 E-value=80 Score=23.92 Aligned_cols=44 Identities=9% Similarity=0.246 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
.+++.+..+..++.++++.+..++...+.+..++..+...+..+
T Consensus 3 ~i~e~l~~ie~~l~~~~~~i~~lE~~~~~~e~~i~~~~~~l~~I 46 (71)
T PF10779_consen 3 DIKEKLNRIETKLDNHEERIDKLEKRDAANEKDIKNLNKQLEKI 46 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666666766666677777777777777666666666665
No 50
>PRK04325 hypothetical protein; Provisional
Probab=56.51 E-value=86 Score=24.25 Aligned_cols=43 Identities=12% Similarity=0.213 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 126 LRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 126 LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+-..+..+..++.=++..+.++...+.++.++|..|+..++.+
T Consensus 7 ~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L 49 (74)
T PRK04325 7 MEDRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLL 49 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555666666666666666666666666666555544
No 51
>KOG3002|consensus
Probab=56.43 E-value=5.4 Score=38.77 Aligned_cols=27 Identities=30% Similarity=0.673 Sum_probs=23.1
Q ss_pred ccccC---CCCCCccccchHHHHHhhCccc
Q psy12906 35 PVQCE---QGCGSVIPMDELKYLSNQCEYH 61 (303)
Q Consensus 35 ~v~Cp---~gCg~~v~R~eL~~Hl~~C~~r 61 (303)
.++|| .||...++=.+-.+|.+.|.|+
T Consensus 106 ~vpC~~~~~GC~~~~~Y~~~~~HE~~C~f~ 135 (299)
T KOG3002|consen 106 LVPCKNAKLGCTKSFPYGEKSKHEKVCEFR 135 (299)
T ss_pred eecccccccCCceeeccccccccccccccC
Confidence 78888 7899888888888888888887
No 52
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=55.95 E-value=37 Score=35.22 Aligned_cols=22 Identities=18% Similarity=0.342 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy12906 146 EQRFQMTELKRQLTVLQELMRA 167 (303)
Q Consensus 146 ~~~~~l~e~kr~l~~L~~~i~~ 167 (303)
+.+.++++++.+++.|++++++
T Consensus 101 dle~KIkeLEaE~~~Lk~Ql~a 122 (475)
T PRK13729 101 DDQRRIEKLGQDNAALAEQVKA 122 (475)
T ss_pred hHHHHHHHHHHHHHHHHHHHHh
Confidence 3344444444444455555443
No 53
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=55.95 E-value=60 Score=24.22 Aligned_cols=38 Identities=8% Similarity=0.263 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 132 KQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 132 ~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
.+..++.+++-.+..++.++++++..++-+++.++.+.
T Consensus 4 elEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk~ll 41 (55)
T PF05377_consen 4 ELENELPRIESSINTVKKENEEISESVEKIEENVKDLL 41 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555666665665555555553
No 54
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=55.89 E-value=72 Score=23.40 Aligned_cols=33 Identities=24% Similarity=0.429 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
+..|+..+..+......++.++..|+..+..+.
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~ 60 (64)
T PF00170_consen 28 IEELEEKVEELESENEELKKELEQLKKEIQSLK 60 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556666677777777777777777666666553
No 55
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=55.72 E-value=51 Score=35.34 Aligned_cols=43 Identities=16% Similarity=0.367 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELM 165 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i 165 (303)
+..+++.++.++.++..|+..+.+++..++.++.++..+...+
T Consensus 424 i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~ 466 (652)
T COG2433 424 IKKLEETVERLEEENSELKRELEELKREIEKLESELERFRREV 466 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555555555555555555555444444
No 56
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=54.17 E-value=8.3 Score=28.47 Aligned_cols=30 Identities=30% Similarity=0.430 Sum_probs=23.2
Q ss_pred cCCCccccCceeeeeeccccccccccccccccc
Q psy12906 82 HTANTAIMGYEIVRFIGEVDEELICSICSGVFE 114 (303)
Q Consensus 82 ~Cpng~~CG~~I~R~~g~vDe~i~C~~c~~~Le 114 (303)
.||. ||.+|.-+.....+.+.|+.|+..|+
T Consensus 4 ~CP~---CG~~iev~~~~~GeiV~Cp~CGaele 33 (54)
T TIGR01206 4 ECPD---CGAEIELENPELGELVICDECGAELE 33 (54)
T ss_pred CCCC---CCCEEecCCCccCCEEeCCCCCCEEE
Confidence 5665 89998887776666677999987765
No 57
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=53.87 E-value=52 Score=27.28 Aligned_cols=36 Identities=11% Similarity=0.344 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQ 162 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~ 162 (303)
-..+..+++++..+.++.++.+..+..++.++..|+
T Consensus 79 ~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk 114 (118)
T PF13815_consen 79 SSQLEQLEERLQELQQEIEKLKQKLKKQKEEIKKLK 114 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444444444444444444443
No 58
>KOG2264|consensus
Probab=51.98 E-value=47 Score=35.67 Aligned_cols=47 Identities=15% Similarity=0.357 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q psy12906 126 LRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSN 172 (303)
Q Consensus 126 LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~ 172 (303)
|...|++...+++++++.+..-+.+++.+|.++++-+.+.++++..|
T Consensus 105 l~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqaq~~~~El~~~n 151 (907)
T KOG2264|consen 105 LNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQAQRQLEELRETN 151 (907)
T ss_pred HHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHHHhhc
Confidence 34445555556666666666666667777777776666666665544
No 59
>PRK02119 hypothetical protein; Provisional
Probab=51.71 E-value=1.1e+02 Score=23.62 Aligned_cols=43 Identities=19% Similarity=0.193 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 126 LRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 126 LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+-+.+..+..++.=++..+.++...+.++.++|..|+..++.+
T Consensus 7 ~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L 49 (73)
T PRK02119 7 LENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYM 49 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555555555555665555555555444
No 60
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=51.69 E-value=38 Score=25.23 Aligned_cols=32 Identities=13% Similarity=0.277 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.+++.++.++...++.++++++.|++.+..+
T Consensus 2 i~elEn~~~~~~~~i~tvk~en~~i~~~ve~i 33 (55)
T PF05377_consen 2 IDELENELPRIESSINTVKKENEEISESVEKI 33 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55677777777777777777777777777666
No 61
>PRK00295 hypothetical protein; Provisional
Probab=51.19 E-value=1.1e+02 Score=23.38 Aligned_cols=41 Identities=17% Similarity=0.161 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 128 SIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 128 ~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.+..+..++.=++..+.++...+.++.++|..|+..++.+
T Consensus 5 ~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L 45 (68)
T PRK00295 5 ERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAAL 45 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666666666666666666666666666666665554
No 62
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=50.86 E-value=1.2e+02 Score=24.28 Aligned_cols=13 Identities=15% Similarity=0.514 Sum_probs=7.5
Q ss_pred chHHHHHHHhhcc
Q psy12906 183 ERDDVARWSNSLS 195 (303)
Q Consensus 183 ~~~~I~~ws~kL~ 195 (303)
=+-+-..|..+|+
T Consensus 58 Lk~E~~~WqerLr 70 (79)
T PRK15422 58 LKEQQNGWQERLQ 70 (79)
T ss_pred HHHHHHHHHHHHH
Confidence 3445666776654
No 63
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=50.73 E-value=97 Score=22.69 Aligned_cols=38 Identities=18% Similarity=0.403 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQEL 164 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~ 164 (303)
+..++.++.++..|+.+...+..++..++.++..|...
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e 62 (64)
T PF00170_consen 25 KQYIEELEEKVEELESENEELKKELEQLKKEIQSLKSE 62 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44455556666666666666666666666666665544
No 64
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=49.72 E-value=1.3e+02 Score=26.07 Aligned_cols=12 Identities=17% Similarity=0.401 Sum_probs=6.4
Q ss_pred HHHHHhhccccc
Q psy12906 187 VARWSNSLSRAR 198 (303)
Q Consensus 187 I~~ws~kL~~ar 198 (303)
|.....+|...+
T Consensus 125 ~~~l~~kL~~l~ 136 (169)
T PF07106_consen 125 IEELEEKLEKLR 136 (169)
T ss_pred HHHHHHHHHHHH
Confidence 555555555555
No 65
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=49.02 E-value=8.2 Score=33.84 Aligned_cols=30 Identities=17% Similarity=0.409 Sum_probs=20.0
Q ss_pred cCCCccccCceeeeeecccccccccccccccccC
Q psy12906 82 HTANTAIMGYEIVRFIGEVDEELICSICSGVFEE 115 (303)
Q Consensus 82 ~Cpng~~CG~~I~R~~g~vDe~i~C~~c~~~Le~ 115 (303)
.||+ ||..++ |...++..+.||.|+..|+.
T Consensus 111 ~Cp~---c~~r~t-f~eA~~~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 111 ICPN---MCVRFT-FNEAMELNFTCPRCGAMLDY 140 (158)
T ss_pred ECCC---CCcEee-HHHHHHcCCcCCCCCCEeee
Confidence 4666 553332 33356677899999999874
No 66
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=48.92 E-value=45 Score=27.46 Aligned_cols=31 Identities=6% Similarity=0.109 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 133 QQQKMVNMETEMSEQRFQMTELKRQLTVLQE 163 (303)
Q Consensus 133 ~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~ 163 (303)
+++++..+++++.+++.+...+++++..|++
T Consensus 32 l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 32 VNDQVAAQQQTNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 3444444444444455555555555554443
No 67
>KOG3433|consensus
Probab=48.39 E-value=1e+02 Score=28.45 Aligned_cols=31 Identities=23% Similarity=0.294 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcCCchh
Q psy12906 146 EQRFQMTELKRQLTVLQELMRAMKVSNPGVR 176 (303)
Q Consensus 146 ~~~~~l~e~kr~l~~L~~~i~~~~~~~~~~~ 176 (303)
++.+.++.++.++++|+..+..++..+|++.
T Consensus 120 el~kklnslkk~~e~lr~el~k~~e~dpqv~ 150 (203)
T KOG3433|consen 120 ELTKKLNSLKKILESLRWELAKIQETDPQVF 150 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcCHHHH
Confidence 4445555555555555555555556667744
No 68
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=48.25 E-value=78 Score=26.03 Aligned_cols=44 Identities=18% Similarity=0.183 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMR 166 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~ 166 (303)
+.++++.++.+++++.+++.+..+++.++..++.....+++..+
T Consensus 29 ~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyiEe~AR 72 (105)
T PRK00888 29 YWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQEAIEERAR 72 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHH
Confidence 45556666666666666666666666666666654444444443
No 69
>PF05325 DUF730: Protein of unknown function (DUF730); InterPro: IPR007989 This family consists of several uncharacterised Arabidopsis thaliana proteins of unknown function.
Probab=47.82 E-value=56 Score=27.29 Aligned_cols=39 Identities=3% Similarity=0.168 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELM 165 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i 165 (303)
-...++..++..++++.+.....+.+.|-.++.+++.-.
T Consensus 70 cdefdmikee~~emkkdleaankrve~q~ekiflmekkf 108 (122)
T PF05325_consen 70 CDEFDMIKEETIEMKKDLEAANKRVESQAEKIFLMEKKF 108 (122)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH
Confidence 344555556666666665555555555555555444433
No 70
>PRK00736 hypothetical protein; Provisional
Probab=47.66 E-value=1.2e+02 Score=23.00 Aligned_cols=40 Identities=13% Similarity=0.210 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 129 IVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 129 ~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
.+..+..++.-++..+.++...+.++-++|..|+..++.+
T Consensus 6 Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L 45 (68)
T PRK00736 6 RLTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDAL 45 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666666667777777777777666666665554
No 71
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.23 E-value=1.4e+02 Score=23.49 Aligned_cols=44 Identities=18% Similarity=0.235 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
.+-+.|..+..++.-.++.+.++...+.++...+..++.+++.+
T Consensus 5 ~lE~Ri~eLE~r~AfQE~tieeLn~~laEq~~~i~k~q~qlr~L 48 (72)
T COG2900 5 ELEARIIELEIRLAFQEQTIEELNDALAEQQLVIDKLQAQLRLL 48 (72)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555555555555555555556666655555555555444
No 72
>PF08912 Rho_Binding: Rho Binding; InterPro: IPR015008 Rho is responsible for the recognition and binding of Rho binding domain-containing proteins (such as ROCK) to Rho, resulting in activation of the GTPase which in turn modulates the phosphorylation of various signalling proteins. This domain is within an amphipathic alpha-helical coiled-coil and interacts with Rho through predominantly hydrophobic interactions []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0000910 cytokinesis, 0006468 protein phosphorylation; PDB: 1UIX_A 1S1C_X.
Probab=46.95 E-value=87 Score=24.41 Aligned_cols=17 Identities=35% Similarity=0.390 Sum_probs=9.9
Q ss_pred hhcCCc-hhhhhhhhchH
Q psy12906 169 KVSNPG-VRVLAENMERD 185 (303)
Q Consensus 169 ~~~~~~-~~~~~~~~~~~ 185 (303)
+.+..| +-+||+-|+|.
T Consensus 51 ~~LK~QAVNKLAEIMNRK 68 (69)
T PF08912_consen 51 RTLKQQAVNKLAEIMNRK 68 (69)
T ss_dssp HHHHHHHHHHHHHHHCTT
T ss_pred HHHHHHHHHHHHHHHccC
Confidence 344445 66677777654
No 73
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=46.78 E-value=82 Score=23.29 Aligned_cols=24 Identities=25% Similarity=0.372 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 144 MSEQRFQMTELKRQLTVLQELMRA 167 (303)
Q Consensus 144 l~~~~~~l~e~kr~l~~L~~~i~~ 167 (303)
+.+++.++++++.+...|+..++.
T Consensus 26 i~~l~~~i~~l~~e~~~L~~ei~~ 49 (80)
T PF04977_consen 26 IAELQKEIEELKKENEELKEEIER 49 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333333333333
No 74
>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.
Probab=46.76 E-value=1e+02 Score=22.08 Aligned_cols=30 Identities=7% Similarity=0.216 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 136 KMVNMETEMSEQRFQMTELKRQLTVLQELM 165 (303)
Q Consensus 136 k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i 165 (303)
.+.++...+++++..+.++.+++..|.+.|
T Consensus 9 ql~~l~~~l~elk~~l~~Q~kE~~~LRntI 38 (45)
T PF11598_consen 9 QLSELNQMLQELKELLRQQIKETRFLRNTI 38 (45)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555666666665554
No 75
>PRK00420 hypothetical protein; Validated
Probab=46.10 E-value=90 Score=26.33 Aligned_cols=23 Identities=22% Similarity=0.580 Sum_probs=15.3
Q ss_pred cCceeeeeeccccccccccccccccc
Q psy12906 89 MGYEIVRFIGEVDEELICSICSGVFE 114 (303)
Q Consensus 89 CG~~I~R~~g~vDe~i~C~~c~~~Le 114 (303)
||+.+.++ -+.+..||.|+.++.
T Consensus 29 Cg~pLf~l---k~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 29 CGLPLFEL---KDGEVVCPVHGKVYI 51 (112)
T ss_pred CCCcceec---CCCceECCCCCCeee
Confidence 77666553 234678999987665
No 76
>PRK04406 hypothetical protein; Provisional
Probab=45.71 E-value=1.4e+02 Score=23.19 Aligned_cols=42 Identities=12% Similarity=0.188 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
-+.+..+..++.=++..+.++...+.++.++|..|+..++.+
T Consensus 10 e~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L 51 (75)
T PRK04406 10 EERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYV 51 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444445555555555555555555444443
No 77
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=45.58 E-value=1.5e+02 Score=26.25 Aligned_cols=9 Identities=33% Similarity=0.557 Sum_probs=7.2
Q ss_pred chHHHHHHH
Q psy12906 183 ERDDVARWS 191 (303)
Q Consensus 183 ~~~~I~~ws 191 (303)
-||++.+|.
T Consensus 150 ~K~~~lr~~ 158 (177)
T PF07798_consen 150 LKWDTLRWL 158 (177)
T ss_pred HHHHHHHHH
Confidence 578888887
No 78
>PRK02793 phi X174 lysis protein; Provisional
Probab=45.53 E-value=1.4e+02 Score=22.98 Aligned_cols=43 Identities=14% Similarity=0.278 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 126 LRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 126 LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+-+.+..+..++.=++..+.++...+.++.++|..|+..++.+
T Consensus 6 ~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L 48 (72)
T PRK02793 6 LEARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLL 48 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555666666666666666666666666666666665554
No 79
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=45.08 E-value=97 Score=30.01 Aligned_cols=41 Identities=22% Similarity=0.416 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQE 163 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~ 163 (303)
+..+|+.+..+..++...++++.+++.++.+++.+++.+..
T Consensus 211 L~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~ 251 (325)
T PF08317_consen 211 LEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEE 251 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555444444444444444444444443333
No 80
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=45.07 E-value=99 Score=25.34 Aligned_cols=40 Identities=18% Similarity=0.341 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHH
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQ--RFQMTELKRQLTVLQEL 164 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~--~~~l~e~kr~l~~L~~~ 164 (303)
.+.+.+..+..++..++.+++.+ +.++..++-+|..+...
T Consensus 39 ~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~ 80 (106)
T PF10805_consen 39 KLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGE 80 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhH
Confidence 33344444444455554444433 33333333333333333
No 81
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=44.92 E-value=12 Score=24.66 Aligned_cols=31 Identities=13% Similarity=0.282 Sum_probs=19.7
Q ss_pred ccCCCccccCceeeeeecccccc---ccccccccccc
Q psy12906 81 LHTANTAIMGYEIVRFIGEVDEE---LICSICSGVFE 114 (303)
Q Consensus 81 ~~Cpng~~CG~~I~R~~g~vDe~---i~C~~c~~~Le 114 (303)
..||+ ||..+......+... +.|+.|+..+.
T Consensus 3 ~~CP~---C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPN---CKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCC---CCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 35666 776666555555433 77999986653
No 82
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=44.72 E-value=1.1e+02 Score=22.55 Aligned_cols=29 Identities=24% Similarity=0.413 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 133 QQQKMVNMETEMSEQRFQMTELKRQLTVL 161 (303)
Q Consensus 133 ~~~k~~~l~~~l~~~~~~l~e~kr~l~~L 161 (303)
.+.++.++++++.+++.+.++++.++..|
T Consensus 22 ~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 22 LNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33344444445555555555555555544
No 83
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=44.69 E-value=73 Score=30.99 Aligned_cols=50 Identities=22% Similarity=0.294 Sum_probs=37.3
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy12906 121 NCVKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKV 170 (303)
Q Consensus 121 nC~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~ 170 (303)
.-..++.+.++.+..+-.++.+++.+++.+.+++.+++..|+.....+..
T Consensus 43 ~~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~ 92 (314)
T PF04111_consen 43 EDIEELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELDE 92 (314)
T ss_dssp H--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567777788777777788888888888888888888888877777643
No 84
>PF11262 Tho2: Transcription factor/nuclear export subunit protein 2; InterPro: IPR021418 THO and TREX form a eukaryotic complex which functions in messenger ribonucleoprotein metabolism and plays a role in preventing the transcription-associated genetic instability [],[]. Tho2, along with four other subunits forms THO []. This entry represents a conserved domain found towards the C terminus of these proteins.
Probab=44.61 E-value=2.3e+02 Score=27.30 Aligned_cols=32 Identities=28% Similarity=0.435 Sum_probs=25.2
Q ss_pred ccccCchHHHHHHHHHHHHhcCCch----HHHHHHH
Q psy12906 204 GMISTPDVMLQAMIKRSLAESGCPG----HILDQLM 235 (303)
Q Consensus 204 ~~iStP~~~~~~~~~~~l~~s~cp~----~~~~~~~ 235 (303)
.+||+.||++.++|=..|-+.+-|+ .++|.|+
T Consensus 114 ~~~S~~DA~ycakFi~~lh~~~tp~F~~l~~~d~lf 149 (298)
T PF11262_consen 114 ALFSPFDALYCAKFIKLLHELGTPNFSTLSLYDRLF 149 (298)
T ss_pred hhCCHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHH
Confidence 3599999999999999999999665 4444443
No 85
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=44.47 E-value=41 Score=26.65 Aligned_cols=33 Identities=15% Similarity=0.381 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 130 VHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQ 162 (303)
Q Consensus 130 i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~ 162 (303)
++.++++..+|++++++++..+.+.++++++.+
T Consensus 2 i~ei~eEn~~Lk~eiqkle~ELq~~~~~~qIk~ 34 (76)
T PF07334_consen 2 IHEIQEENARLKEEIQKLEAELQQNKREFQIKE 34 (76)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence 345566777778888877777777777666543
No 86
>KOG2186|consensus
Probab=44.13 E-value=8.9 Score=36.81 Aligned_cols=41 Identities=22% Similarity=0.447 Sum_probs=30.7
Q ss_pred CCceeEecccHHhHhhcCCCCCCCccccCCCCCCccccchHHHHH
Q psy12906 11 GCTVAVKLDSYSSHLTECEHNPKRPVQCEQGCGSVIPMDELKYLS 55 (303)
Q Consensus 11 GC~~~~~L~~l~~Hl~~C~y~Pk~~v~Cp~gCg~~v~R~eL~~Hl 55 (303)
-|...++-..++.|+..|.-. -+.|- .|+..+.|-+..+|.
T Consensus 8 vCgEsvKKp~vekH~srCrn~---~fSCI-DC~k~F~~~sYknH~ 48 (276)
T KOG2186|consen 8 VCGESVKKPQVEKHMSRCRNA---YFSCI-DCGKTFERVSYKNHT 48 (276)
T ss_pred hhhhhccccchHHHHHhccCC---eeEEe-ecccccccchhhhhh
Confidence 577777777777788777776 77773 577777777777775
No 87
>PF14282 FlxA: FlxA-like protein
Probab=44.01 E-value=1e+02 Score=25.23 Aligned_cols=48 Identities=15% Similarity=0.336 Sum_probs=29.1
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 121 NCVKELRSIVHKQQQKMVNMETE----MSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 121 nC~~~LR~~i~~~~~k~~~l~~~----l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
.=+..|...+..++.++.++... -+.-..+...+..+|..|+.+|..+
T Consensus 19 ~~I~~L~~Qi~~Lq~ql~~l~~~~~~~~e~k~~q~q~Lq~QI~~LqaQI~ql 70 (106)
T PF14282_consen 19 SQIEQLQKQIKQLQEQLQELSQDSDLDAEQKQQQIQLLQAQIQQLQAQIAQL 70 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677777777777777766651 2233444555666666666666554
No 88
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=43.59 E-value=83 Score=24.68 Aligned_cols=46 Identities=17% Similarity=0.355 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVN---METEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~---l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+-.||.+++..++-+.. +.+.+.++..++.+++.+++..++.+..+
T Consensus 30 ~~~lk~Klq~ar~~i~~lpgi~~s~eeq~~~i~~Le~~i~~k~~~L~~~ 78 (83)
T PF07544_consen 30 TGSLKHKLQKARAAIRELPGIDRSVEEQEEEIEELEEQIRKKREVLQKF 78 (83)
T ss_pred HHHHHHHHHHHHHHHHhCCCccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456666665555443 44555666666666666666555555444
No 89
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=43.07 E-value=19 Score=25.65 Aligned_cols=43 Identities=23% Similarity=0.371 Sum_probs=24.7
Q ss_pred CceeEecccHHhHhhcCCCCCCCccccCCCCCCccccchHHHHHh
Q psy12906 12 CTVAVKLDSYSSHLTECEHNPKRPVQCEQGCGSVIPMDELKYLSN 56 (303)
Q Consensus 12 C~~~~~L~~l~~Hl~~C~y~Pk~~v~Cp~gCg~~v~R~eL~~Hl~ 56 (303)
|........|..|..+-=......+.||- |...+. ++|..|+.
T Consensus 8 C~~~~~~~~L~~H~~~~H~~~~~~v~CPi-C~~~~~-~~l~~Hl~ 50 (54)
T PF05605_consen 8 CGKGFSESSLVEHCEDEHRSESKNVVCPI-CSSRVT-DNLIRHLN 50 (54)
T ss_pred CCCccCHHHHHHHHHhHCcCCCCCccCCC-chhhhh-hHHHHHHH
Confidence 55555666777776433222233577873 765544 37777763
No 90
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.82 E-value=90 Score=30.12 Aligned_cols=40 Identities=10% Similarity=0.274 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMR 166 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~ 166 (303)
.+.++.+..++.++..++.+.+.++++.+.+|..|+..|.
T Consensus 51 q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~ 90 (265)
T COG3883 51 QNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIA 90 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444444444444444444443
No 91
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=42.71 E-value=1.5e+02 Score=25.34 Aligned_cols=37 Identities=19% Similarity=0.296 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q psy12906 136 KMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSN 172 (303)
Q Consensus 136 k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~ 172 (303)
++..|+-+.+.+++....+.+.+..|+.-++.-+...
T Consensus 33 rIa~LEGE~r~~e~l~~dL~rrIkMLE~aLkqER~k~ 69 (134)
T PF08232_consen 33 RIAFLEGERRGQENLKKDLKRRIKMLEYALKQERAKY 69 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5667888888888888888888888888887776443
No 92
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=42.33 E-value=1.6e+02 Score=24.48 Aligned_cols=44 Identities=11% Similarity=0.205 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
.+-+.+..+.+++.+|+..+.++-.....++.+...|...+...
T Consensus 12 ~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~ 55 (107)
T PF06156_consen 12 QLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEEL 55 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444555555555555555555555555555555555444
No 93
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=42.32 E-value=1.6e+02 Score=22.79 Aligned_cols=24 Identities=8% Similarity=0.166 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQ 150 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~ 150 (303)
-.+|++....+.-|+.++.+++.+
T Consensus 10 E~ki~~aveti~~Lq~e~eeLke~ 33 (72)
T PF06005_consen 10 EEKIQQAVETIALLQMENEELKEK 33 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333443333344444444443333
No 94
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=42.24 E-value=1.2e+02 Score=27.13 Aligned_cols=41 Identities=12% Similarity=0.320 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 129 IVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 129 ~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
.+..++.+...++..++.+...+.+..+-++.|++.+-++.
T Consensus 117 ~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~ 157 (194)
T PF08614_consen 117 RLAELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQ 157 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444445555555555555555555555555555543
No 95
>PRK10884 SH3 domain-containing protein; Provisional
Probab=41.39 E-value=1.4e+02 Score=27.54 Aligned_cols=23 Identities=9% Similarity=0.183 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRF 149 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~ 149 (303)
|..+.++++++.+++.++.+...
T Consensus 92 ~~rlp~le~el~~l~~~l~~~~~ 114 (206)
T PRK10884 92 RTRVPDLENQVKTLTDKLNNIDN 114 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 44444444444444444444433
No 96
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=41.03 E-value=17 Score=35.32 Aligned_cols=33 Identities=21% Similarity=0.357 Sum_probs=27.6
Q ss_pred CCCccccCCCCCCccccchHHHHHhhCcccccCC
Q psy12906 32 PKRPVQCEQGCGSVIPMDELKYLSNQCEYHQHDS 65 (303)
Q Consensus 32 Pk~~v~Cp~gCg~~v~R~eL~~Hl~~C~~r~~~~ 65 (303)
+...+.|| .|+..+-++||..++..||.+.+.+
T Consensus 25 e~lw~KCp-~c~~~~y~~eL~~n~~vcp~c~~h~ 57 (294)
T COG0777 25 EGLWTKCP-SCGEMLYRKELESNLKVCPKCGHHM 57 (294)
T ss_pred CCceeECC-CccceeeHHHHHhhhhcccccCccc
Confidence 34477997 5999999999999999999987643
No 97
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=40.49 E-value=63 Score=33.60 Aligned_cols=46 Identities=17% Similarity=0.171 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSN 172 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~ 172 (303)
+..+.+.|.+..+|++++..++.+++++.++.+.++..|+.+...+
T Consensus 68 qSALteqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~ 113 (475)
T PRK13729 68 QHATTEMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDN 113 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence 5556666667777777777776666655555555555555544333
No 98
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=39.67 E-value=1.7e+02 Score=22.21 Aligned_cols=31 Identities=23% Similarity=0.422 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRA 167 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~ 167 (303)
|....+++..++..+.+++..+..|+..+..
T Consensus 53 fI~as~~I~~m~~~~~~l~~~l~~l~~~~~~ 83 (87)
T PF08700_consen 53 FIEASDEISSMENDLSELRNLLSELQQSIQS 83 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555555555555544444444443
No 99
>smart00338 BRLZ basic region leucin zipper.
Probab=39.57 E-value=1.5e+02 Score=21.68 Aligned_cols=39 Identities=18% Similarity=0.371 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELM 165 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i 165 (303)
+..++.+..++..|+.+..++..+++.++.++..|.+.+
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 25 KAEIEELERKVEQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455666677777777777777777777777777776654
No 100
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=39.18 E-value=1.4e+02 Score=23.94 Aligned_cols=41 Identities=17% Similarity=0.262 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 128 SIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 128 ~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.+..+..+...++..+++...++..+..+|..++..++.+
T Consensus 63 ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~ 103 (105)
T cd00632 63 EARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQA 103 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444445555666666666666666666666666655543
No 101
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=38.90 E-value=1.7e+02 Score=26.35 Aligned_cols=50 Identities=12% Similarity=0.214 Sum_probs=25.0
Q ss_pred CCChHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 119 DHNCVKELRSIVH------KQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 119 ~~nC~~~LR~~i~------~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
-.+++..|++.-+ ..+.+...+++++.+++.++..+..++..|+.....+
T Consensus 82 l~~vI~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~ 137 (161)
T TIGR02894 82 LQDVISFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTI 137 (161)
T ss_pred HHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666644321 2222344555555555555555555555555544443
No 102
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=38.76 E-value=1.7e+02 Score=29.14 Aligned_cols=44 Identities=16% Similarity=0.239 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 126 LRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 126 LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
|++.-....++++++.+..+.-.+.++.+++++..|...++...
T Consensus 16 Lqethr~Y~qKleel~~lQ~~C~ssI~~QkkrLk~L~~sLk~~~ 59 (330)
T PF07851_consen 16 LQETHRSYKQKLEELSKLQDKCSSSISHQKKRLKELKKSLKRCK 59 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 33333333445556666666666677777777777777777663
No 103
>COG3727 Vsr DNA G:T-mismatch repair endonuclease [DNA replication, recombination, and repair]
Probab=38.73 E-value=22 Score=31.21 Aligned_cols=22 Identities=36% Similarity=0.650 Sum_probs=16.3
Q ss_pred hcCCCCceEEEEecCCCCCCCCCccCCcEEEEeecC
Q psy12906 266 KRIPSKQAVVVLLCDNVHLPEDMISAPGLVMIFAHG 301 (303)
Q Consensus 266 ~~~~~k~~~~~~~~~n~h~~~~~~~~~g~~~if~~g 301 (303)
+.+|||+=+|+-+- -.+||+||
T Consensus 44 ~~lpGkPDiVl~~y--------------~~viFvHG 65 (150)
T COG3727 44 KDLPGKPDIVLPKY--------------RCVIFVHG 65 (150)
T ss_pred CCCCCCCCEeecCc--------------eEEEEEee
Confidence 67899987776332 36899998
No 104
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=38.58 E-value=68 Score=30.37 Aligned_cols=38 Identities=24% Similarity=0.471 Sum_probs=25.2
Q ss_pred HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 126 LRSIVHKQQQK----MVNMETEMSEQRFQMTELKRQLTVLQE 163 (303)
Q Consensus 126 LR~~i~~~~~k----~~~l~~~l~~~~~~l~e~kr~l~~L~~ 163 (303)
|=..|.+++.+ +.+|+++++++..++..+++++..|+.
T Consensus 80 iLpIVtsQRDRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~ 121 (248)
T PF08172_consen 80 ILPIVTSQRDRFRQRNAELEEELRKQQQTISSLRREVESLRA 121 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456666654 567888887777777777776665543
No 105
>PRK09039 hypothetical protein; Validated
Probab=37.48 E-value=1.4e+02 Score=29.42 Aligned_cols=30 Identities=10% Similarity=0.140 Sum_probs=16.8
Q ss_pred HHhhHHHHhhhhhhcCCCCceEEEEecCCCCC
Q psy12906 253 RQNNRRQYENYVCKRIPSKQAVVVLLCDNVHL 284 (303)
Q Consensus 253 r~~n~~~~~~~v~~~~~~k~~~~~~~~~n~h~ 284 (303)
|..+=+.|- +..-||.++..++=.+|....
T Consensus 292 RA~aV~~~L--i~~Gi~~~ri~~~G~G~~~Pi 321 (343)
T PRK09039 292 RAISVVKFL--IALGVPADRLAAAGFGEFQPL 321 (343)
T ss_pred HHHHHHHHH--HHCCCCHHHeEEEEeCCcCcC
Confidence 444444443 256788777666655565544
No 106
>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins. There is a characteristic KxDL motif towards the C terminus. The function is unknown.
Probab=37.19 E-value=2e+02 Score=22.76 Aligned_cols=35 Identities=17% Similarity=0.386 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 134 QQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 134 ~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.++.++...+.+....+.++|+.|..+..-|+.+
T Consensus 42 ~~rl~~~~~~f~~~~~~l~~mK~DLd~i~krir~l 76 (88)
T PF10241_consen 42 QQRLAEARERFARHTKLLKEMKKDLDYIFKRIRSL 76 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555555554444444443
No 107
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=36.92 E-value=20 Score=34.64 Aligned_cols=31 Identities=26% Similarity=0.464 Sum_probs=26.4
Q ss_pred ccccCCCCCCccccchHHHHHhhCcccccCCC
Q psy12906 35 PVQCEQGCGSVIPMDELKYLSNQCEYHQHDSH 66 (303)
Q Consensus 35 ~v~Cp~gCg~~v~R~eL~~Hl~~C~~r~~~~~ 66 (303)
.+.|| .|+..+.+++|.+.+..||.|.+.+.
T Consensus 26 ~~~c~-~c~~~~~~~~l~~~~~vc~~c~~h~r 56 (285)
T TIGR00515 26 WTKCP-KCGQVLYTKELERNLEVCPKCDHHMR 56 (285)
T ss_pred eeECC-CCcchhhHHHHHhhCCCCCCCCCcCc
Confidence 67897 59999999999999999998877433
No 108
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=36.92 E-value=1.4e+02 Score=23.62 Aligned_cols=47 Identities=17% Similarity=0.306 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSE---QRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~---~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
++++-.++..+|+.+..++..+.. +..+++.+..++..|...+.++.
T Consensus 13 Ik~vd~KVdaLq~~V~~l~~~~~~v~~l~~klDa~~~~l~~l~~~V~~I~ 62 (75)
T PF05531_consen 13 IKAVDDKVDALQTQVDDLESNLPDVTELNKKLDAQSAQLTTLNTKVNEIQ 62 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555566666666655554333 66677777777777777777764
No 109
>PRK00846 hypothetical protein; Provisional
Probab=36.29 E-value=2.2e+02 Score=22.55 Aligned_cols=37 Identities=14% Similarity=0.167 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 130 VHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMR 166 (303)
Q Consensus 130 i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~ 166 (303)
+..+..++.=.+..+.++...+..+.+++..|+..++
T Consensus 15 i~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~ 51 (77)
T PRK00846 15 LVELETRLSFQEQALTELSEALADARLTGARNAELIR 51 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333334444444444444444444444444433
No 110
>PRK11637 AmiB activator; Provisional
Probab=36.07 E-value=1.5e+02 Score=29.55 Aligned_cols=11 Identities=9% Similarity=-0.091 Sum_probs=4.9
Q ss_pred CCCCCCccCCc
Q psy12906 283 HLPEDMISAPG 293 (303)
Q Consensus 283 h~~~~~~~~~g 293 (303)
|.|=|+...+|
T Consensus 329 ~~Gi~i~~~~g 339 (428)
T PRK11637 329 WKGMVIGASEG 339 (428)
T ss_pred CCCEEeecCCC
Confidence 44444444443
No 111
>PF09457 RBD-FIP: FIP domain ; InterPro: IPR019018 The Rab11 GTPase regulates recycling of internalized plasma membrane receptors and is essential for completion of cytokinesis. A family of Rab11 interacting proteins (FIPs) that conserve a C-terminal Rab-binding domain (RBD) selectively recognise the active form of Rab11. FIPs are diverse in sequence length and composition toward their N-termini, presumably a feature that underpins their specific roles in Rab11-mediated vesicle trafficking. They have been divided into three subfamilies (classe I, II, and III)on the basis of domain architecture. Class I FIPs comprises a subfamily of three proteins (Rip11/pp75/FIP5, Rab-coupling protein (RCP), and FIP2) that possess an N- terminal C2 domain, localize to recycling endosomes, and regulate plasma membrane recycling. The class II subfamily consists of two proteins (FIP3/eferin/arfophilin and FIP4) with tandem EF hands and a proline-rich region. Class II FIPs localize to recycling endosomes, the trans-Golgi network, and have been implicated in the regulation of membrane trafficking during cytokinesis. The class III subfamily consists of a single protein, FIP1, which does not contain obvious homology domains or motifs other than the FIP-RBD [, , , ]. The FIP-RBD domain is also found in Rab6-interacting protein Erc1/Elks. Erc1 is the regulatory subunit of the IKK complex and probably recruits IkappaBalpha/NFKBIA to the complex []. It may be involved in the organisation of the cytomatrix at the nerve terminals active zone (CAZ) which regulates neurotransmitter release. It may also be involved in vesicle trafficking at the CAZ, as well as in Rab-6 regulated endosomes to Golgi transport []. The FIB-RBD domain consists of an N-terminal long alpha-helix, followed by a 90 degrees bend at a conserved proline residue, a 3(10) helix and a C-terminal short beta-strand, adopting an "L" shape. The long alpha-helix forms a parallel coiled-coil homodimer that symmetrically interacts with two Rab11 molecules on both sides, forming a quaternary Rab11-(FIP)2-Rab11 complex. The Rab11-interacting region of FIP-RBD is confined to the C-terminal 24 amino acids, which cover the C-terminal half of the long alpha-helix and the short beta-strand [, , , ]. This entry represents the FIP-RBD domain.; PDB: 2HV8_E 2D7C_D 2K6S_B 2GZD_D 2GZH_B.
Probab=36.07 E-value=1.3e+02 Score=21.72 Aligned_cols=31 Identities=6% Similarity=0.154 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 138 VNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 138 ~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
.+|...+.+++..+.+.+.++.-|++||-.+
T Consensus 3 eeL~~~l~~~e~~~~~k~~~v~eLe~YiD~L 33 (48)
T PF09457_consen 3 EELISLLKKQEEENARKDSRVRELEDYIDNL 33 (48)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556667777777777777788888888666
No 112
>PF10205 KLRAQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019343 This entry represents a N-terminal 100 residues long domain, which contains a conserved KLRAQ motif. This domain is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain a C-terminal TTKRSYEDQ motif domain (IPR019348 from INTERPRO). The function of these proteins is not known.
Probab=35.86 E-value=2e+02 Score=23.98 Aligned_cols=33 Identities=27% Similarity=0.450 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 134 QQKMVNMETEMSEQRFQMTELKRQLTVLQELMR 166 (303)
Q Consensus 134 ~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~ 166 (303)
-+.+.+++.++.-+.++..++.++++.|++.+.
T Consensus 39 e~~LRk~eqE~dSL~FrN~QL~kRV~~LQ~El~ 71 (102)
T PF10205_consen 39 EQALRKLEQENDSLTFRNQQLTKRVEVLQEELE 71 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555555555555555555555555554
No 113
>KOG3119|consensus
Probab=35.77 E-value=1.1e+02 Score=29.13 Aligned_cols=37 Identities=16% Similarity=0.175 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q psy12906 136 KMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSN 172 (303)
Q Consensus 136 k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~ 172 (303)
+..++...+..++.+.+.+++++..|++.+..++...
T Consensus 216 ~~~e~~~r~~~leken~~lr~~v~~l~~el~~~~~~~ 252 (269)
T KOG3119|consen 216 KEDEMAHRVAELEKENEALRTQVEQLKKELATLRRLF 252 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666677777777777777777777776665444
No 114
>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins. There is a characteristic KxDL motif towards the C terminus. The function is unknown.
Probab=35.45 E-value=2.2e+02 Score=22.48 Aligned_cols=37 Identities=5% Similarity=0.198 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQE 163 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~ 163 (303)
...+...+.+|.+-.+.+++++..|+-..+.+..|+.
T Consensus 42 ~~rl~~~~~~f~~~~~~l~~mK~DLd~i~krir~lk~ 78 (88)
T PF10241_consen 42 QQRLAEARERFARHTKLLKEMKKDLDYIFKRIRSLKA 78 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333334444444444444433333
No 115
>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.
Probab=34.99 E-value=1.7e+02 Score=20.93 Aligned_cols=36 Identities=11% Similarity=0.099 Sum_probs=25.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 122 CVKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQ 157 (303)
Q Consensus 122 C~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~ 157 (303)
|...|=..+..+.+-+.++++.++.+..+...+|.-
T Consensus 2 ~~~~l~~ql~~l~~~l~elk~~l~~Q~kE~~~LRnt 37 (45)
T PF11598_consen 2 VDSQLIKQLSELNQMLQELKELLRQQIKETRFLRNT 37 (45)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455565666667777778888888888888777773
No 116
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=34.82 E-value=1.8e+02 Score=23.65 Aligned_cols=41 Identities=22% Similarity=0.288 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 128 SIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 128 ~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.+..+..++..++..++....+...++.++.-++..++.+
T Consensus 67 e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~ 107 (110)
T TIGR02338 67 EAIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEA 107 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445555666667777777777777777777777766654
No 117
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=34.32 E-value=2.1e+02 Score=25.54 Aligned_cols=45 Identities=22% Similarity=0.325 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRA 167 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~ 167 (303)
+..|+..+.+++.++..++.++++....+..++.++..|+-+...
T Consensus 118 l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~ 162 (194)
T PF08614_consen 118 LAELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNM 162 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666666666666666666666666555555444433
No 118
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 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 entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=34.20 E-value=2.8e+02 Score=26.04 Aligned_cols=77 Identities=13% Similarity=0.270 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHH------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC----C
Q psy12906 122 CVKELRSIVHKQQQ------------------------KMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSN----P 173 (303)
Q Consensus 122 C~~~LR~~i~~~~~------------------------k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~----~ 173 (303)
+++++|.+...+.. ++..|..+...+...|.++..++..|++.++..+... .
T Consensus 2 ~i~~ir~K~~~lek~k~~i~~e~~~~e~ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~ 81 (230)
T PF10146_consen 2 KIKEIRNKTLELEKLKNEILQEVESLENEEKCLEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQE 81 (230)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred chhhh-hhhh-chHHHHHHHhh-ccccc
Q psy12906 174 GVRVL-AENM-ERDDVARWSNS-LSRAR 198 (303)
Q Consensus 174 ~~~~~-~~~~-~~~~I~~ws~k-L~~ar 198 (303)
.+.++ ++|. =+++|++-.+. +.-++
T Consensus 82 ~i~r~~eey~~Lk~~in~~R~e~lgl~~ 109 (230)
T PF10146_consen 82 KIQRLYEEYKPLKDEINELRKEYLGLEP 109 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCC
No 119
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=34.17 E-value=1.8e+02 Score=23.38 Aligned_cols=42 Identities=12% Similarity=0.351 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
-+.++-...++..+++.+.++..++..++.++..+...+..+
T Consensus 76 ~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~ 117 (120)
T PF02996_consen 76 EEAIEFLKKRIKELEEQLEKLEKELAELQAQIEQLEQTLQQL 117 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555666666777777777777777777777666666543
No 120
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=34.16 E-value=23 Score=34.58 Aligned_cols=31 Identities=32% Similarity=0.293 Sum_probs=26.2
Q ss_pred ccccCCCCCCccccchHHHHHhhCcccccCCC
Q psy12906 35 PVQCEQGCGSVIPMDELKYLSNQCEYHQHDSH 66 (303)
Q Consensus 35 ~v~Cp~gCg~~v~R~eL~~Hl~~C~~r~~~~~ 66 (303)
.+.|| .|+..+.+++|++.+..||.|.+.+.
T Consensus 38 w~kc~-~C~~~~~~~~l~~~~~vcp~c~~h~r 68 (296)
T CHL00174 38 WVQCE-NCYGLNYKKFLKSKMNICEQCGYHLK 68 (296)
T ss_pred eeECC-CccchhhHHHHHHcCCCCCCCCCCcC
Confidence 67897 59999999999999999998876433
No 121
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=34.14 E-value=1.8e+02 Score=23.45 Aligned_cols=38 Identities=21% Similarity=0.377 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 130 VHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRA 167 (303)
Q Consensus 130 i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~ 167 (303)
+.-...++..++..+.+++..+..++.++..++..+..
T Consensus 89 ~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~ 126 (129)
T cd00890 89 IEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQ 126 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445555555555555555555555555555443
No 122
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=34.06 E-value=1.5e+02 Score=30.55 Aligned_cols=42 Identities=10% Similarity=0.222 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 126 LRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRA 167 (303)
Q Consensus 126 LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~ 167 (303)
.+..+++...++....++..+++.++.++++++..+...+..
T Consensus 43 ~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~ 84 (420)
T COG4942 43 IQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIE 84 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355555555555555555555555555555555555444433
No 123
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=33.97 E-value=1.4e+02 Score=25.99 Aligned_cols=20 Identities=20% Similarity=0.478 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q psy12906 151 MTELKRQLTVLQELMRAMKV 170 (303)
Q Consensus 151 l~e~kr~l~~L~~~i~~~~~ 170 (303)
+.+++.++..|++.+..++.
T Consensus 118 i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 118 IEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 34444444455555555544
No 124
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=33.85 E-value=2.2e+02 Score=22.06 Aligned_cols=43 Identities=19% Similarity=0.323 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCc
Q psy12906 132 KQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSNPG 174 (303)
Q Consensus 132 ~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~~~ 174 (303)
..+.++.++..++.....++..+++++..++..+..+..+.+.
T Consensus 2 e~~~~~~~l~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~l~~~ 44 (106)
T PF01920_consen 2 ELQNKFQELNQQLQQLEQQIQQLERQLRELELTLEELEKLDDD 44 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 4566777888888888888888888887777777777655533
No 125
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.82 E-value=1.9e+02 Score=27.97 Aligned_cols=9 Identities=44% Similarity=0.630 Sum_probs=4.3
Q ss_pred HHHHHHHHH
Q psy12906 160 VLQELMRAM 168 (303)
Q Consensus 160 ~L~~~i~~~ 168 (303)
+|+..+++|
T Consensus 102 ~l~~raRAm 110 (265)
T COG3883 102 LLKKRARAM 110 (265)
T ss_pred HHHHHHHHH
Confidence 444444444
No 126
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=33.76 E-value=1.6e+02 Score=22.26 Aligned_cols=35 Identities=9% Similarity=0.239 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVL 161 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L 161 (303)
+..+.+...++.++++++.+++.+.++++.++..|
T Consensus 23 ~~~~~~~~~~~~~~~~~~~~l~~en~~L~~ei~~l 57 (85)
T TIGR02209 23 QHQTRQLNNELQKLQLEIDKLQKEWRDLQLEVAEL 57 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444455555555555555555555555443
No 127
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=33.74 E-value=1.5e+02 Score=24.20 Aligned_cols=42 Identities=12% Similarity=0.247 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTEL--KRQLTVLQELMRAM 168 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~--kr~l~~L~~~i~~~ 168 (303)
|+.++++.+++.+.++.+..++.++..+ +.++..|+-.|..+
T Consensus 34 ~~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el 77 (106)
T PF10805_consen 34 REDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAEL 77 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 4444444444444444444444444444 44444444444444
No 128
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=33.61 E-value=40 Score=22.98 Aligned_cols=16 Identities=44% Similarity=0.854 Sum_probs=11.2
Q ss_pred cccccccccccccCCC
Q psy12906 102 EELICSICSGVFEEPL 117 (303)
Q Consensus 102 e~i~C~~c~~~Le~~~ 117 (303)
.++.|+.||.||++..
T Consensus 18 g~~vC~~CG~Vl~e~~ 33 (43)
T PF08271_consen 18 GELVCPNCGLVLEENI 33 (43)
T ss_dssp TEEEETTT-BBEE-TT
T ss_pred CeEECCCCCCEeeccc
Confidence 3478999999998765
No 129
>PRK10920 putative uroporphyrinogen III C-methyltransferase; Provisional
Probab=33.18 E-value=2.1e+02 Score=28.92 Aligned_cols=36 Identities=22% Similarity=0.282 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchhhh
Q psy12906 143 EMSEQRFQMTELKRQLTVLQELMRAMKVSNPGVRVL 178 (303)
Q Consensus 143 ~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~~~~~~~ 178 (303)
.+...+.++.++..+++.|+..+.++....+.-|.+
T Consensus 100 ~l~~~e~~~~~l~~q~~~Lq~~~~~ls~~~~~dWlL 135 (390)
T PRK10920 100 ALDQANRQQAALAKQLDELQQKVATISGSDAKTWLL 135 (390)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCChhhHHH
Confidence 344445555666666666666666665455566665
No 130
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=32.77 E-value=1.4e+02 Score=24.16 Aligned_cols=40 Identities=23% Similarity=0.397 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQ 162 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~ 162 (303)
...+...++.+...+.++++.+.+...++++++..|+.+.
T Consensus 89 ~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~~~ 128 (129)
T cd00890 89 IEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQLQ 128 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5667888888888899999999999999999998887653
No 131
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=32.64 E-value=1.2e+02 Score=27.39 Aligned_cols=52 Identities=12% Similarity=0.330 Sum_probs=19.2
Q ss_pred CCCCChHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 117 LQDHNCVKELRSIVHKQQQKMV-NMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 117 ~q~~nC~~~LR~~i~~~~~k~~-~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+-+.||....+.++..-..++. ......++++.+++++.++++.|++..+..
T Consensus 94 ~tsancs~QVqqeL~~tf~rL~~~Vd~~~~eL~~eI~~L~~~i~~le~~~~~~ 146 (171)
T PF04799_consen 94 FTSANCSHQVQQELSSTFARLCQQVDQTKNELEDEIKQLEKEIQRLEEIQSKS 146 (171)
T ss_dssp ----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4477888777666665555532 334445555555666666666555555444
No 132
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=32.53 E-value=23 Score=34.31 Aligned_cols=31 Identities=29% Similarity=0.475 Sum_probs=26.4
Q ss_pred ccccCCCCCCccccchHHHHHhhCcccccCCC
Q psy12906 35 PVQCEQGCGSVIPMDELKYLSNQCEYHQHDSH 66 (303)
Q Consensus 35 ~v~Cp~gCg~~v~R~eL~~Hl~~C~~r~~~~~ 66 (303)
.+.|| .|+..+.+++|.+.+..||.|.+.+.
T Consensus 27 ~~~c~-~c~~~~~~~~l~~~~~vc~~c~~h~r 57 (292)
T PRK05654 27 WTKCP-SCGQVLYRKELEANLNVCPKCGHHMR 57 (292)
T ss_pred eeECC-CccchhhHHHHHhcCCCCCCCCCCee
Confidence 67897 59999999999999999998877443
No 133
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=31.91 E-value=33 Score=23.71 Aligned_cols=27 Identities=19% Similarity=0.175 Sum_probs=16.3
Q ss_pred cCCCccccCceeeeeecccccccccccccccc
Q psy12906 82 HTANTAIMGYEIVRFIGEVDEELICSICSGVF 113 (303)
Q Consensus 82 ~Cpng~~CG~~I~R~~g~vDe~i~C~~c~~~L 113 (303)
.|++ ||..+....... .+.||+|+.-+
T Consensus 5 ~C~~---CG~~~~~~~~~~--~~~Cp~CG~~~ 31 (46)
T PRK00398 5 KCAR---CGREVELDEYGT--GVRCPYCGYRI 31 (46)
T ss_pred ECCC---CCCEEEECCCCC--ceECCCCCCeE
Confidence 5666 776655433221 57799998644
No 134
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=31.73 E-value=2.4e+02 Score=23.20 Aligned_cols=42 Identities=14% Similarity=0.326 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 126 LRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRA 167 (303)
Q Consensus 126 LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~ 167 (303)
+.+.++-...++..+++.+.++...+..+++++..+...+..
T Consensus 85 ~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~~ 126 (129)
T cd00584 85 LEEAIEFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQE 126 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556666667777777777777777777777776666554
No 135
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=31.72 E-value=2.3e+02 Score=29.54 Aligned_cols=52 Identities=13% Similarity=0.186 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCc
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSNPG 174 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~~~ 174 (303)
+..++..+.+...+..++++++++...+..+..+++..|+.++..+...+++
T Consensus 156 ~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~eld~L~~ql~ELe~~~l~ 207 (563)
T TIGR00634 156 ANEKVKAYRELYQAWLKARQQLKDRQQKEQELAQRLDFLQFQLEELEEADLQ 207 (563)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhCCcC
Confidence 3456777777778888899999999999999999999999999999877754
No 136
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=31.54 E-value=1.9e+02 Score=29.05 Aligned_cols=47 Identities=13% Similarity=0.232 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
.+.+.......+.++..++.+.+....++..+++++..+++.++.++
T Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 (398)
T PTZ00454 17 ERDLYEKLKELEKELEFLDIQEEYIKEEQKNLKRELIRAKEEVKRIQ 63 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455555666667778888888888888888888888888888875
No 137
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=31.49 E-value=2.2e+02 Score=24.16 Aligned_cols=9 Identities=33% Similarity=0.719 Sum_probs=7.1
Q ss_pred CCCChHHHH
Q psy12906 118 QDHNCVKEL 126 (303)
Q Consensus 118 q~~nC~~~L 126 (303)
...||++.|
T Consensus 35 ~vin~i~~L 43 (151)
T PF11559_consen 35 RVINCIYDL 43 (151)
T ss_pred HHHHHHHHH
Confidence 577888888
No 138
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=31.19 E-value=1.8e+02 Score=31.34 Aligned_cols=44 Identities=23% Similarity=0.387 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 126 LRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 126 LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
..+.+.++..++.+|+++.+.++..+.++++++.-|++.+..++
T Consensus 420 ~~~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~ 463 (652)
T COG2433 420 YEKRIKKLEETVERLEEENSELKRELEELKREIEKLESELERFR 463 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35566666667778888888888888888888888888877774
No 139
>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []. ; PDB: 3VP9_B 3VP8_B.
Probab=30.97 E-value=2.7e+02 Score=22.00 Aligned_cols=44 Identities=7% Similarity=0.172 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
.+|..++.+..+....+..-.+.+.+++.+-.+|+.+++.+-.+
T Consensus 8 ~ir~Ef~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~~ir~~v~eL 51 (79)
T PF08581_consen 8 AIRQEFENLSQEANSYKHQKDEYEHKINSQIQEMQQIRQKVYEL 51 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45777777776666666666777777777777777777766555
No 140
>PRK11637 AmiB activator; Provisional
Probab=30.96 E-value=2.1e+02 Score=28.57 Aligned_cols=9 Identities=56% Similarity=1.162 Sum_probs=3.6
Q ss_pred cEEEEeecC
Q psy12906 293 GLVMIFAHG 301 (303)
Q Consensus 293 g~~~if~~g 301 (303)
|.++|.-||
T Consensus 360 G~~vii~hg 368 (428)
T PRK11637 360 GLVVVVEHG 368 (428)
T ss_pred ccEEEEEeC
Confidence 333444443
No 141
>KOG3100|consensus
Probab=30.85 E-value=67 Score=29.74 Aligned_cols=65 Identities=26% Similarity=0.533 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHHHhhcC-Cchhhhhhhh--chHHHHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCch
Q psy12906 152 TELKRQLTVLQELMRAMKVSN-PGVRVLAENM--ERDDVARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPG 228 (303)
Q Consensus 152 ~e~kr~l~~L~~~i~~~~~~~-~~~~~~~~~~--~~~~I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~ 228 (303)
.+++|.|++|+- |++. |. + -|. .+|++-.|-+ .|+++-.|.+||++|+-++=.-+
T Consensus 125 ~e~KrDLqlLKm-----RaalDPk-r---hYkk~dr~~~PKYFQ---------IGtIVe~p~dFYsSRm~kKeRK~---- 182 (206)
T KOG3100|consen 125 MELKRDLQLLKM-----RAALDPK-R---HYKKNDRKEVPKYFQ---------IGTIVEDPEDFYSSRMPKKERKS---- 182 (206)
T ss_pred HHHHHHHHHHHH-----HhccCHH-H---HHhhhhhhhcchhhe---------eeeeccCHHHHhhhccchhhHHH----
Confidence 568888887653 3333 44 1 111 2455555443 69999999999999997776653
Q ss_pred HHHHHHHhhc
Q psy12906 229 HILDQLMHNS 238 (303)
Q Consensus 229 ~~~~~~~~~~ 238 (303)
-|+++|+.+-
T Consensus 183 Tivdell~d~ 192 (206)
T KOG3100|consen 183 TIVDELLHDE 192 (206)
T ss_pred HHHHHHHcCH
Confidence 5888887653
No 142
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=30.72 E-value=2.8e+02 Score=22.15 Aligned_cols=33 Identities=21% Similarity=0.416 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 124 KELRSIVHKQQQKMVNMETEMSEQRFQMTELKR 156 (303)
Q Consensus 124 ~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr 156 (303)
..++..|++-..++.++...++.++.+..++..
T Consensus 4 eKi~~eieK~k~Kiae~Q~rlK~Le~qk~E~EN 36 (83)
T PF14193_consen 4 EKIRAEIEKTKEKIAELQARLKELEAQKTEAEN 36 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666666666666666666666665555554
No 143
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=30.70 E-value=1.8e+02 Score=28.11 Aligned_cols=32 Identities=19% Similarity=0.442 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.+++.++...+..+.+++.+++.+...+.++
T Consensus 218 L~~~~~~i~~~k~~l~el~~el~~l~~~i~~~ 249 (325)
T PF08317_consen 218 LAEQKEEIEAKKKELAELQEELEELEEKIEEL 249 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333334444444444444444444444443
No 144
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=30.67 E-value=2.2e+02 Score=22.87 Aligned_cols=40 Identities=15% Similarity=0.281 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQ 162 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~ 162 (303)
...|.+.++....++.+++..+.....++++++.+|..++
T Consensus 65 ~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~~ 104 (105)
T cd00632 65 RTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQAQ 104 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4555666666666777777777777777777777766543
No 145
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=30.57 E-value=26 Score=21.34 Aligned_cols=9 Identities=22% Similarity=0.630 Sum_probs=5.3
Q ss_pred ccccccccc
Q psy12906 104 LICSICSGV 112 (303)
Q Consensus 104 i~C~~c~~~ 112 (303)
..|+.|+..
T Consensus 14 ~fC~~CG~~ 22 (23)
T PF13240_consen 14 KFCPNCGTP 22 (23)
T ss_pred cchhhhCCc
Confidence 447777643
No 146
>COG1206 Gid NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]
Probab=30.49 E-value=45 Score=33.77 Aligned_cols=72 Identities=22% Similarity=0.385 Sum_probs=52.9
Q ss_pred HHHHHHHHhcCCchHHHHHHHhhccccCCCcccccHHHHHh---------------------hHHHHhhhhhhcCCCCce
Q psy12906 215 AMIKRSLAESGCPGHILDQLMHNSHERNWPQGLSSLETRQN---------------------NRRQYENYVCKRIPSKQA 273 (303)
Q Consensus 215 ~~~~~~l~~s~cp~~~~~~~~~~~~e~~wp~~l~~l~~r~~---------------------n~~~~~~~v~~~~~~k~~ 273 (303)
+-+...|+|.+|.|++-.+-..|| -||-.=|+|++ .|.-|.+|||++|-.-+-
T Consensus 42 aH~td~fAELVCSNSlr~~~~~na------vGlLk~EMR~lgSlii~~Ad~~~VPAGgALAVDR~~Fs~~vT~~l~~hpl 115 (439)
T COG1206 42 AHKTDNFAELVCSNSLRSDALTNA------VGLLKAEMRLLGSLIIEAADKHRVPAGGALAVDRDGFSQAVTEKLENHPL 115 (439)
T ss_pred cccccchhhheeccccccchhhhh------hHHHHHHHHHhhhHHhhhhhhccCCCCceeeecHhHHHHHHHHHHhcCCC
Confidence 345677899999998765544444 35555555554 478899999999999999
Q ss_pred EEEEecCCCCCCCCCccCCcEEEE
Q psy12906 274 VVVLLCDNVHLPEDMISAPGLVMI 297 (303)
Q Consensus 274 ~~~~~~~n~h~~~~~~~~~g~~~i 297 (303)
|-|.--+=+-.|+| |+++|
T Consensus 116 i~vireEvt~iP~d-----g~~vI 134 (439)
T COG1206 116 IEVIREEVTEIPPD-----GITVI 134 (439)
T ss_pred EEEEccccccCCCC-----CcEEE
Confidence 99988888888764 76665
No 147
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=30.49 E-value=81 Score=23.89 Aligned_cols=28 Identities=11% Similarity=0.222 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQEL 164 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~ 164 (303)
+.-|++.|+++..+.++++.+-+.|++.
T Consensus 16 VevLK~~I~eL~~~n~~Le~EN~~Lk~~ 43 (59)
T PF01166_consen 16 VEVLKEQIAELEERNSQLEEENNLLKQN 43 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4445555555556666666666655554
No 148
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=30.48 E-value=3.2e+02 Score=22.94 Aligned_cols=37 Identities=24% Similarity=0.329 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q psy12906 136 KMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSN 172 (303)
Q Consensus 136 k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~ 172 (303)
++.++++.+..+..++.++|.+++.|-..-..++..|
T Consensus 9 ~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN 45 (110)
T PRK13169 9 ALDDLEQNLGVLLKELGALKKQLAELLEENTALRLEN 45 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555555555555554444444333333333
No 149
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=30.06 E-value=2.8e+02 Score=23.99 Aligned_cols=43 Identities=16% Similarity=0.325 Sum_probs=32.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 122 CVKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQEL 164 (303)
Q Consensus 122 C~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~ 164 (303)
++.+.|..|.....-+.+|+.+++.-..++..++.+|..+...
T Consensus 81 ~~~e~qsli~~yE~~~~kLe~e~~~Kdsei~~Lr~~L~~~~~~ 123 (131)
T PF04859_consen 81 EIQEQQSLIKTYEIVVKKLEAELRAKDSEIDRLREKLDELNRA 123 (131)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677788887777778888888888888888888766655443
No 150
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=30.05 E-value=2.6e+02 Score=23.40 Aligned_cols=42 Identities=7% Similarity=0.219 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
.+.++-+..+...+++.++++...+..++++++.+...+..+
T Consensus 93 ~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l 134 (140)
T PRK03947 93 DEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQELQQL 134 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555566666666666666666666666655555443
No 151
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=29.89 E-value=1.3e+02 Score=29.27 Aligned_cols=36 Identities=17% Similarity=0.296 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 134 QQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 134 ~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
+.++.+++++++.+..++..+++++..+++.++.++
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 (364)
T TIGR01242 5 DVRIRKLEDEKRSLEKEKIRLERELERLRSEIERLR 40 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345556666666666666666777777777776664
No 152
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=29.69 E-value=2.1e+02 Score=20.34 Aligned_cols=26 Identities=19% Similarity=0.334 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQ 162 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~ 162 (303)
+..++..+..+......++.++..|+
T Consensus 27 ~~~le~~~~~L~~en~~L~~~i~~L~ 52 (54)
T PF07716_consen 27 EEELEQEVQELEEENEQLRQEIAQLE 52 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44555555555555555555555544
No 153
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=29.64 E-value=29 Score=21.45 Aligned_cols=9 Identities=22% Similarity=0.693 Sum_probs=5.7
Q ss_pred ccccccccc
Q psy12906 104 LICSICSGV 112 (303)
Q Consensus 104 i~C~~c~~~ 112 (303)
-.|+.||.-
T Consensus 17 ~fC~~CG~~ 25 (26)
T PF13248_consen 17 KFCPNCGAK 25 (26)
T ss_pred ccChhhCCC
Confidence 448887754
No 154
>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.
Probab=29.46 E-value=3.4e+02 Score=29.91 Aligned_cols=16 Identities=13% Similarity=-0.076 Sum_probs=8.9
Q ss_pred cccCccccCchHHHHH
Q psy12906 200 TRWGGMISTPDVMLQA 215 (303)
Q Consensus 200 ~~~g~~iStP~~~~~~ 215 (303)
|.-+.+|+.|..+..+
T Consensus 525 g~l~dli~v~~~y~~A 540 (1164)
T TIGR02169 525 GTVAQLGSVGERYATA 540 (1164)
T ss_pred ecHHHhcCcCHHHHHH
Confidence 3445667777544433
No 155
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=29.27 E-value=1.4e+02 Score=23.74 Aligned_cols=31 Identities=13% Similarity=0.340 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 130 VHKQQQKMVNMETEMSEQRFQMTELKRQLTV 160 (303)
Q Consensus 130 i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~ 160 (303)
+..+++++..++.++.....+++.++.++..
T Consensus 72 ~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~ 102 (104)
T PF13600_consen 72 LKELEEELEALEDELAALQDEIQALEAQIAF 102 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4444444444454555555555555554443
No 156
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=28.86 E-value=2.3e+02 Score=29.13 Aligned_cols=46 Identities=15% Similarity=0.319 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.++...+...+.+..+|+.++++++.+++.++.++...++.++.+
T Consensus 47 i~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~ 92 (420)
T COG4942 47 IAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKL 92 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 4555666666666666666666666666666666665555554443
No 157
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=28.85 E-value=5.9e+02 Score=25.80 Aligned_cols=48 Identities=17% Similarity=0.223 Sum_probs=30.7
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 121 NCVKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 121 nC~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
++++.+++..+.++.++..+.++.++.+.+-.++.|++..--.+...+
T Consensus 134 ~li~~~~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE~layqq~L 181 (401)
T PF06785_consen 134 GLIRHLREENQCLQLQLDALQQECGEKEEESQTLNRELAEALAYQQEL 181 (401)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHH
Confidence 345555666666666777777777777777777777665443343443
No 158
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=28.84 E-value=2.9e+02 Score=26.47 Aligned_cols=51 Identities=20% Similarity=0.321 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCc
Q psy12906 124 KELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSNPG 174 (303)
Q Consensus 124 ~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~~~ 174 (303)
..+|......+.|+.++.++-.++...+.++..+++.+++.++.++..+++
T Consensus 131 ~d~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~ 181 (290)
T COG4026 131 MDLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSR 181 (290)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555565555555566666666666666666666666554443
No 159
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=28.81 E-value=1.5e+02 Score=28.26 Aligned_cols=37 Identities=14% Similarity=0.194 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVL 161 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L 161 (303)
..++++.+++.+...+...+..++.++++|+.+|+.+
T Consensus 177 ga~eki~~Lr~~y~~l~~~i~~lE~~VaeQ~~qL~~~ 213 (259)
T PF08657_consen 177 GAREKIAALRQRYNQLSNSIAYLEAEVAEQEAQLERM 213 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5577777777777777777777777777777766643
No 160
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=28.67 E-value=2.1e+02 Score=26.94 Aligned_cols=38 Identities=13% Similarity=0.286 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 131 HKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 131 ~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.+..-..+|..++..++.++.++|.+++.+...+..+
T Consensus 50 ~~~~~~~~~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~ 87 (263)
T PRK10803 50 NAHSQLLTQLQQQLSDNQSDIDSLRGQIQENQYQLNQV 87 (263)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 33333345556666666666666666666655555554
No 161
>COG1422 Predicted membrane protein [Function unknown]
Probab=28.66 E-value=2.3e+02 Score=26.35 Aligned_cols=22 Identities=18% Similarity=0.320 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQR 148 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~ 148 (303)
+++|+..|..+.+.++++++.+
T Consensus 71 ~ekm~~~qk~m~efq~e~~eA~ 92 (201)
T COG1422 71 QEKMKELQKMMKEFQKEFREAQ 92 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444433
No 162
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=28.31 E-value=2.4e+02 Score=27.95 Aligned_cols=46 Identities=15% Similarity=0.296 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 124 KELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 124 ~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
..++..+...+.++..++..++++..+++..++++..++..+++++
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 49 (389)
T PRK03992 4 EALEERNSELEEQIRQLELKLRDLEAENEKLERELERLKSELEKLK 49 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3455666666667777777777777777888888887888777664
No 163
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=28.17 E-value=2.6e+02 Score=30.00 Aligned_cols=32 Identities=3% Similarity=0.230 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.++...+..++.++++...+.+.|++.+..+
T Consensus 380 ~~~~~~~l~~le~~l~~~~~~~~~L~~~~~~l 411 (656)
T PRK06975 380 VHQLDSQFAQLDGKLADAQSAQQALEQQYQDL 411 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555556666666666554
No 164
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=27.83 E-value=50 Score=29.94 Aligned_cols=16 Identities=19% Similarity=0.536 Sum_probs=12.2
Q ss_pred cccccccccccccccc
Q psy12906 99 EVDEELICSICSGVFE 114 (303)
Q Consensus 99 ~vDe~i~C~~c~~~Le 114 (303)
..+..+.||.|+..|+
T Consensus 128 A~~~~F~Cp~Cg~~L~ 143 (176)
T COG1675 128 AMELGFTCPKCGEDLE 143 (176)
T ss_pred HHHhCCCCCCCCchhh
Confidence 4444588999998887
No 165
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=27.81 E-value=2.6e+02 Score=22.75 Aligned_cols=30 Identities=20% Similarity=0.250 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 140 METEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 140 l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
.+..++++..++..+.+++..|+..+...+
T Consensus 47 wek~v~~L~~e~~~l~~E~e~L~~~l~~e~ 76 (87)
T PF12709_consen 47 WEKKVDELENENKALKRENEQLKKKLDTER 76 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 335567777777777777777777765543
No 166
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=27.72 E-value=1.4e+02 Score=24.64 Aligned_cols=12 Identities=8% Similarity=0.379 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHH
Q psy12906 154 LKRQLTVLQELM 165 (303)
Q Consensus 154 ~kr~l~~L~~~i 165 (303)
++.+|..|+..|
T Consensus 88 ~~k~i~~le~~I 99 (100)
T PF04568_consen 88 HRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHhc
Confidence 666666666654
No 167
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=27.66 E-value=2e+02 Score=22.35 Aligned_cols=32 Identities=19% Similarity=0.405 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 134 QQKMVNMETEMSEQRFQMTELKRQLTVLQELM 165 (303)
Q Consensus 134 ~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i 165 (303)
..+...++.+++++...+..+..++.-++..+
T Consensus 68 ~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l 99 (106)
T PF01920_consen 68 EERIEKLEKEIKKLEKQLKYLEKKLKELKKKL 99 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444444444433
No 168
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.66 E-value=3.1e+02 Score=21.68 Aligned_cols=8 Identities=25% Similarity=0.680 Sum_probs=4.0
Q ss_pred HHHHHhhc
Q psy12906 187 VARWSNSL 194 (303)
Q Consensus 187 I~~ws~kL 194 (303)
-..|...|
T Consensus 62 ~~~WQerl 69 (79)
T COG3074 62 QNGWQERL 69 (79)
T ss_pred HHHHHHHH
Confidence 44555544
No 169
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=27.42 E-value=2.8e+02 Score=26.17 Aligned_cols=68 Identities=18% Similarity=0.364 Sum_probs=35.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHhhc--CCc-hhhhhhhhch
Q psy12906 121 NCVKELRSIVHKQQQKMVNMET-------------EMSEQRFQMTELKRQLTVLQELMRAMKVS--NPG-VRVLAENMER 184 (303)
Q Consensus 121 nC~~~LR~~i~~~~~k~~~l~~-------------~l~~~~~~l~e~kr~l~~L~~~i~~~~~~--~~~-~~~~~~~~~~ 184 (303)
+++.+|+..++...+++..|.. .+.+++..++.++-++.-|+..|+.+... .|. ++.|.+
T Consensus 129 ~~Id~L~~QiE~~E~E~E~L~~~~kKkk~~~~~~~r~~~l~~~ierhk~Hi~kLE~lLR~L~N~~l~~e~V~~ike---- 204 (233)
T PF04065_consen 129 DSIDELNRQIEQLEAEIESLSSQKKKKKKDSTKQERIEELESRIERHKFHIEKLELLLRLLDNDELDPEQVEDIKE---- 204 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccCccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH----
Confidence 3455555555555555443322 23355666666677777777777776432 244 554433
Q ss_pred HHHHHHHhh
Q psy12906 185 DDVARWSNS 193 (303)
Q Consensus 185 ~~I~~ws~k 193 (303)
+|.-|..+
T Consensus 205 -dieyYve~ 212 (233)
T PF04065_consen 205 -DIEYYVES 212 (233)
T ss_pred -HHHHHHHc
Confidence 34445543
No 170
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=27.21 E-value=3.6e+02 Score=23.48 Aligned_cols=10 Identities=30% Similarity=0.853 Sum_probs=6.2
Q ss_pred cCccccCchH
Q psy12906 202 WGGMISTPDV 211 (303)
Q Consensus 202 ~g~~iStP~~ 211 (303)
.||++..|+.
T Consensus 134 ~~~~~~~P~l 143 (177)
T PF13870_consen 134 QGGLLGVPAL 143 (177)
T ss_pred hcCCCCCcHH
Confidence 3666777753
No 171
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=27.15 E-value=4.4e+02 Score=25.89 Aligned_cols=11 Identities=18% Similarity=0.262 Sum_probs=3.9
Q ss_pred hhchHHHHHHH
Q psy12906 181 NMERDDVARWS 191 (303)
Q Consensus 181 ~~~~~~I~~ws 191 (303)
.+++=+-..|.
T Consensus 115 ~i~~Le~~~~T 125 (294)
T COG1340 115 EIERLEKKQQT 125 (294)
T ss_pred HHHHHHHHHHh
Confidence 33333333333
No 172
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=27.06 E-value=2.5e+02 Score=29.34 Aligned_cols=19 Identities=26% Similarity=0.282 Sum_probs=10.7
Q ss_pred ceEEEEecCCCCCCCCCccCC
Q psy12906 272 QAVVVLLCDNVHLPEDMISAP 292 (303)
Q Consensus 272 ~~~~~~~~~n~h~~~~~~~~~ 292 (303)
++=|+++=||. .-|=+.-|
T Consensus 268 PFKvLIG~dNL--tANGIeLP 286 (472)
T TIGR03752 268 PFKVLIGPDNL--TANGIELP 286 (472)
T ss_pred ceeEEeccccc--cccCccCC
Confidence 45577777776 34444444
No 173
>PF06320 GCN5L1: GCN5-like protein 1 (GCN5L1); InterPro: IPR009395 This family consists of several eukaryotic GCN5-like protein 1 (GCN5L1) sequences. The function of this family is unknown [,].
Probab=26.83 E-value=3.9e+02 Score=22.53 Aligned_cols=12 Identities=33% Similarity=0.759 Sum_probs=7.5
Q ss_pred chHHHHHHHhhc
Q psy12906 183 ERDDVARWSNSL 194 (303)
Q Consensus 183 ~~~~I~~ws~kL 194 (303)
|--++.||++.+
T Consensus 86 EiGDveNWa~~i 97 (121)
T PF06320_consen 86 EIGDVENWAEMI 97 (121)
T ss_pred hhccHHHHHHHH
Confidence 445577777654
No 174
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=26.71 E-value=3.9e+02 Score=22.64 Aligned_cols=33 Identities=21% Similarity=0.405 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 136 KMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 136 k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
.+..+...+.+++.++++.++++..++.....+
T Consensus 67 d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l 99 (151)
T PF11559_consen 67 DIERLQNDVERLKEQLEELERELASAEEKERQL 99 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444445555555555555555444444333
No 175
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=26.64 E-value=2.2e+02 Score=23.63 Aligned_cols=42 Identities=24% Similarity=0.392 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchh
Q psy12906 135 QKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSNPGVR 176 (303)
Q Consensus 135 ~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~~~~~ 176 (303)
..+.++++.+..+..++.++|.++..|-..-..++..|-.+|
T Consensus 8 ~~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr 49 (107)
T PF06156_consen 8 DRLDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLR 49 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666667777777777777766655555555555454433
No 176
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=26.53 E-value=3e+02 Score=23.01 Aligned_cols=42 Identities=14% Similarity=0.260 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQEL 164 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~ 164 (303)
...|...++.+...+.+++..+.+...+++++...++.+...
T Consensus 96 ~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~~~ 137 (140)
T PRK03947 96 IEILDKRKEELEKALEKLEEALQKLASRIAQLAQELQQLQQE 137 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566688888888888899999999999999999988877654
No 177
>PF07028 DUF1319: Protein of unknown function (DUF1319); InterPro: IPR010746 This entry is represented by Commelina yellow mottle virus, Orf1. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family contains a number of viral proteins of unknown function approximately 200 residues long. Family members seem to be restricted to badnaviruses.
Probab=26.41 E-value=3e+02 Score=23.83 Aligned_cols=40 Identities=28% Similarity=0.434 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy12906 131 HKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKV 170 (303)
Q Consensus 131 ~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~ 170 (303)
..+...+..+..-.+.++..+.+++.++..|+..+.+++.
T Consensus 42 ~~~~~~lk~~~ki~~~Qr~~l~~l~~~l~~l~~eL~~Lr~ 81 (126)
T PF07028_consen 42 KKLLEELKNLSKIQESQRSELKELKQELDVLSKELQALRK 81 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455566666667777777777777777777777753
No 178
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=26.23 E-value=3.4e+02 Score=22.79 Aligned_cols=17 Identities=18% Similarity=0.345 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy12906 148 RFQMTELKRQLTVLQEL 164 (303)
Q Consensus 148 ~~~l~e~kr~l~~L~~~ 164 (303)
..++.++..|-.+|.++
T Consensus 111 ~~r~~dL~~QN~lLh~Q 127 (132)
T PF07926_consen 111 EQRIEDLNEQNKLLHDQ 127 (132)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 179
>PF14282 FlxA: FlxA-like protein
Probab=25.98 E-value=2.3e+02 Score=23.11 Aligned_cols=43 Identities=14% Similarity=0.328 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHh
Q psy12906 127 RSIVHKQQQKMVNMETEMSEQRF----QMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 127 R~~i~~~~~k~~~l~~~l~~~~~----~l~e~kr~l~~L~~~i~~~~ 169 (303)
-..|..++.++..|.++++++.. .-.+-..+++.|+.+|..+.
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~~~~~~~e~k~~q~q~Lq~QI~~Lq 64 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQDSDLDAEQKQQQIQLLQAQIQQLQ 64 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHH
Confidence 45677777777777777777777 22455666677888877763
No 180
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=25.77 E-value=41 Score=36.71 Aligned_cols=20 Identities=15% Similarity=0.126 Sum_probs=9.8
Q ss_pred HHHHHhhccccccc-ccCccc
Q psy12906 187 VARWSNSLSRARVT-RWGGMI 206 (303)
Q Consensus 187 I~~ws~kL~~ar~~-~~g~~i 206 (303)
.--|.|-...|..+ +.|..+
T Consensus 577 fqll~QvaGRAgR~~~~G~Vv 597 (730)
T COG1198 577 FQLLMQVAGRAGRAGKPGEVV 597 (730)
T ss_pred HHHHHHHHhhhccCCCCCeEE
Confidence 44455555555443 444444
No 181
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=25.73 E-value=3.7e+02 Score=24.20 Aligned_cols=40 Identities=10% Similarity=0.241 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQ 162 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~ 162 (303)
...++...+.++.++.+|+.++..++.++..+..++..++
T Consensus 99 ~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~ 138 (161)
T TIGR02894 99 DQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIE 138 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444444444444444333
No 182
>KOG4797|consensus
Probab=25.54 E-value=1.9e+02 Score=24.62 Aligned_cols=31 Identities=16% Similarity=0.328 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 134 QQKMVNMETEMSEQRFQMTELKRQLTVLQEL 164 (303)
Q Consensus 134 ~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~ 164 (303)
++++.-|+++++++..+.+.++++-.+|+..
T Consensus 66 REEVe~Lk~qI~eL~er~~~Le~EN~lLk~~ 96 (123)
T KOG4797|consen 66 REEVEVLKEQIRELEERNSALERENSLLKTL 96 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3356667777777777777777777666654
No 183
>cd03781 MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF4 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF4, including the Drosophila protein DTRAF1. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF4 is highly expressed during embryogenesis, especially in the central and peripheral nervous system. Studies using TRAF4-deficient mice show that TRAF4 is required for neurogenesis, as well as the development of the trachea and the axial skeleton. In addition, TRAF4 augments nuclear factor-kappaB activation triggered by GITR (glucocorticoid-induced TNFR), a receptor expressed in T-cells, B-cells and macrophages. It also participates in counteracting the signaling mediated by Toll-like receptors through its association with TRAF6 and TR
Probab=25.49 E-value=1.8 Score=37.22 Aligned_cols=43 Identities=16% Similarity=0.098 Sum_probs=33.0
Q ss_pred HHHHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCchH
Q psy12906 185 DDVARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGH 229 (303)
Q Consensus 185 ~~I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~~ 229 (303)
|.|..|++++..++.+.-..+.|++ |+....||+++.+-+|+.
T Consensus 5 ~~I~gys~~~~~~~~~~~~~i~S~~--F~vg~~Gy~w~i~~yPnG 47 (154)
T cd03781 5 WKITDYSRKLQEAKGRDNLELFSPP--FYTHRYGYKLQVSAFLNG 47 (154)
T ss_pred EEECCHHHHHHHhhcCCCceEECCC--eecCCCCEEEEEEEECCC
Confidence 5599999988877643223445666 999999999999999976
No 184
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=25.40 E-value=3.1e+02 Score=24.14 Aligned_cols=22 Identities=23% Similarity=0.415 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy12906 144 MSEQRFQMTELKRQLTVLQELM 165 (303)
Q Consensus 144 l~~~~~~l~e~kr~l~~L~~~i 165 (303)
+..++.+.+.+++++..|++.+
T Consensus 75 ~~~lr~~~e~L~~eie~l~~~L 96 (177)
T PF07798_consen 75 FAELRSENEKLQREIEKLRQEL 96 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444443
No 185
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=25.13 E-value=2.6e+02 Score=22.81 Aligned_cols=42 Identities=10% Similarity=0.223 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMR 166 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~ 166 (303)
.+-+..+-+..+...+++.++++...+.+++++++.+...+.
T Consensus 83 ~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i~~~l~ 124 (126)
T TIGR00293 83 DAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQLEQEAQ 124 (126)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345556666667777777777777777777777776666543
No 186
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=25.10 E-value=69 Score=20.94 Aligned_cols=29 Identities=17% Similarity=0.238 Sum_probs=18.9
Q ss_pred ccCCCccccCceeeeeecc-ccccccccccccc
Q psy12906 81 LHTANTAIMGYEIVRFIGE-VDEELICSICSGV 112 (303)
Q Consensus 81 ~~Cpng~~CG~~I~R~~g~-vDe~i~C~~c~~~ 112 (303)
-.|+. ||..++...+. .++.+.||.|++.
T Consensus 6 y~C~~---Cg~~fe~~~~~~~~~~~~CP~Cg~~ 35 (41)
T smart00834 6 YRCED---CGHTFEVLQKISDDPLATCPECGGD 35 (41)
T ss_pred EEcCC---CCCEEEEEEecCCCCCCCCCCCCCc
Confidence 45655 78766666552 2555779999863
No 187
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=24.90 E-value=2.2e+02 Score=23.57 Aligned_cols=34 Identities=21% Similarity=0.424 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 136 KMVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 136 k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
.+..+++.++....+..+++..+..+++.++.++
T Consensus 81 ~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk 114 (118)
T PF13815_consen 81 QLEQLEERLQELQQEIEKLKQKLKKQKEEIKKLK 114 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667777777777777777777777777776653
No 188
>KOG3815|consensus
Probab=24.82 E-value=26 Score=34.12 Aligned_cols=37 Identities=19% Similarity=0.295 Sum_probs=29.1
Q ss_pred eeEecccHHhHhhcCCCCCCCccccCCCCCCccccchHHHH
Q psy12906 14 VAVKLDSYSSHLTECEHNPKRPVQCEQGCGSVIPMDELKYL 54 (303)
Q Consensus 14 ~~~~L~~l~~Hl~~C~y~Pk~~v~Cp~gCg~~v~R~eL~~H 54 (303)
--+.+..|+.|-..|+|. .-.| ..|.....|+.+.+=
T Consensus 44 nHG~~~~LKGHk~~C~~~---~C~C-~kC~li~eRqrvmaa 80 (322)
T KOG3815|consen 44 NHGVLSRLKGHKRSCPYR---DCPC-EKCGLVEERRRVMAA 80 (322)
T ss_pred ccCcceeccCCCCCCCCC---CCCc-hHhcchHHHHHHHHH
Confidence 336788899999999999 7777 579987777766543
No 189
>KOG4571|consensus
Probab=24.79 E-value=1.9e+02 Score=28.34 Aligned_cols=37 Identities=22% Similarity=0.206 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy12906 134 QQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKV 170 (303)
Q Consensus 134 ~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~ 170 (303)
+++.+.+.-++..++.+..++|.+...|+..|+-++.
T Consensus 247 Rae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKq 283 (294)
T KOG4571|consen 247 RAEKEALLGELEGLEKRNEELKDQASELEREIRYLKQ 283 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3356677778888899999999988888888877643
No 190
>KOG4797|consensus
Probab=24.63 E-value=2.5e+02 Score=23.96 Aligned_cols=32 Identities=19% Similarity=0.191 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKR 156 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr 156 (303)
+.|++++-++.++.+|++....++.+...+|+
T Consensus 64 AVREEVe~Lk~qI~eL~er~~~Le~EN~lLk~ 95 (123)
T KOG4797|consen 64 AVREEVEVLKEQIRELEERNSALERENSLLKT 95 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34666666666666666555555555555554
No 191
>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins. The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.
Probab=24.59 E-value=3.2e+02 Score=23.03 Aligned_cols=46 Identities=20% Similarity=0.187 Sum_probs=23.1
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 121 NCVKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMR 166 (303)
Q Consensus 121 nC~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~ 166 (303)
+-+..++..++.....+..+.+..-.++.++.++|.++..+-..++
T Consensus 27 ~~~~~~~~~~~~l~~~n~~lAe~nL~~~~~l~~~r~~l~~~~~~~~ 72 (150)
T PF07200_consen 27 PQVQELQQEREELLAENEELAEQNLSLEPELEELRSQLQELYEELK 72 (150)
T ss_dssp S--HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHH
Confidence 3366677777777666666655555555555555555544433333
No 192
>PRK11615 hypothetical protein; Provisional
Probab=24.57 E-value=25 Score=32.13 Aligned_cols=35 Identities=34% Similarity=0.578 Sum_probs=27.0
Q ss_pred CCcccc----cHHHHHhhHHHHhhhhhhcCCCCceEEEEecCCC
Q psy12906 243 WPQGLS----SLETRQNNRRQYENYVCKRIPSKQAVVVLLCDNV 282 (303)
Q Consensus 243 wp~~l~----~l~~r~~n~~~~~~~v~~~~~~k~~~~~~~~~n~ 282 (303)
-|.|+| -+=|-.+|-+.|.| =-|++||+|.-.||.
T Consensus 54 LPag~sdqsgk~Gtq~nn~~vYad-----~tg~kavIVi~gD~~ 92 (185)
T PRK11615 54 LPADMSDQSGKLGTQANNMHVYAD-----ATGQKAVIVILGDDT 92 (185)
T ss_pred cCCccccccccccccccceEEEEc-----CCCCEEEEEEeCCCC
Confidence 467777 56677788888887 239999999998875
No 193
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=24.37 E-value=3.3e+02 Score=27.50 Aligned_cols=29 Identities=10% Similarity=0.336 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 124 KELRSIVHKQQQKMVNMETEMSEQRFQMT 152 (303)
Q Consensus 124 ~~LR~~i~~~~~k~~~l~~~l~~~~~~l~ 152 (303)
.++++.++.+..++.+++.++.+.+..+.
T Consensus 330 ~~l~~~~~~l~~~~~~~~~~l~~l~~~l~ 358 (451)
T PF03961_consen 330 PELKEKLEELEEELEELKEELEKLKKNLK 358 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555544444444444443
No 194
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=24.33 E-value=1.9e+02 Score=25.63 Aligned_cols=27 Identities=7% Similarity=0.272 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 141 ETEMSEQRFQMTELKRQLTVLQELMRA 167 (303)
Q Consensus 141 ~~~l~~~~~~l~e~kr~l~~L~~~i~~ 167 (303)
++++++.+.+++..+.++..|+.+.+.
T Consensus 160 ~~ei~~lk~el~~~~~~~~~LkkQ~~~ 186 (192)
T PF05529_consen 160 SEEIEKLKKELEKKEKEIEALKKQSEG 186 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444433
No 195
>KOG2186|consensus
Probab=24.23 E-value=41 Score=32.44 Aligned_cols=26 Identities=15% Similarity=0.441 Sum_probs=22.1
Q ss_pred ccccCCCCCCccccchHHHHHhhCccc
Q psy12906 35 PVQCEQGCGSVIPMDELKYLSNQCEYH 61 (303)
Q Consensus 35 ~v~Cp~gCg~~v~R~eL~~Hl~~C~~r 61 (303)
...| +-||+.+.+..++.|+..|.--
T Consensus 3 ~FtC-nvCgEsvKKp~vekH~srCrn~ 28 (276)
T KOG2186|consen 3 FFTC-NVCGESVKKPQVEKHMSRCRNA 28 (276)
T ss_pred EEeh-hhhhhhccccchHHHHHhccCC
Confidence 4568 7899999999999999988653
No 196
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=24.23 E-value=3.4e+02 Score=20.98 Aligned_cols=31 Identities=16% Similarity=0.227 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 132 KQQQKMVNMETEMSEQRFQMTELKRQLTVLQ 162 (303)
Q Consensus 132 ~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~ 162 (303)
++.+++...-..+..++.++++++.+-..|+
T Consensus 8 ~LE~ki~~aveti~~Lq~e~eeLke~n~~L~ 38 (72)
T PF06005_consen 8 QLEEKIQQAVETIALLQMENEELKEKNNELK 38 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 3333444444444444444444444333333
No 197
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=23.92 E-value=2.3e+02 Score=23.78 Aligned_cols=45 Identities=13% Similarity=0.183 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 124 KELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 124 ~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
..+-+.+....+++.+|+..+.++-.+...++.+...|...+..+
T Consensus 11 ~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~ 55 (110)
T PRK13169 11 DDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344556666666777777777777777777777777777777665
No 198
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=23.87 E-value=3.8e+02 Score=23.10 Aligned_cols=9 Identities=22% Similarity=0.571 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q psy12906 157 QLTVLQELM 165 (303)
Q Consensus 157 ~l~~L~~~i 165 (303)
.|++|+..+
T Consensus 81 riq~LEeel 89 (143)
T PF12718_consen 81 RIQLLEEEL 89 (143)
T ss_pred hHHHHHHHH
Confidence 333333333
No 199
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=23.72 E-value=3.3e+02 Score=27.17 Aligned_cols=81 Identities=16% Similarity=0.295 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHhh----------------------cC
Q psy12906 125 ELRSIVHKQQQKMVNMETE----------MSEQRFQMTELKRQLTVLQELMRAMKV----------------------SN 172 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~----------l~~~~~~l~e~kr~l~~L~~~i~~~~~----------------------~~ 172 (303)
.+.+.+++++.++.++++. +++.+++++.+.+++..++..+..-.. +.
T Consensus 246 ~l~~~~~~~~~~i~~l~~~l~~~~k~~~k~~~~~~q~~~~~k~~~~~~~~~~~~~~~~~la~~l~~~~g~~~~yly~gs~ 325 (406)
T PF02388_consen 246 SLQEKLEKLEKEIEKLEEKLEKNPKKKNKLKELEEQLASLEKRIEEAEELIAEYGDEIPLAGALFIYYGDEAYYLYGGSD 325 (406)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH-THHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-SEEEEEEEEEEEETTEEEEEEEEE-
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEEEEEECCEEEEEECccc
Confidence 3466666666666666554 444444444444444444444332210 11
Q ss_pred Cchhhh-hhhhchHHHHHHHhhcccccccccCccc
Q psy12906 173 PGVRVL-AENMERDDVARWSNSLSRARVTRWGGMI 206 (303)
Q Consensus 173 ~~~~~~-~~~~~~~~I~~ws~kL~~ar~~~~g~~i 206 (303)
+.-+++ +.|+=.|+.++|.... .++.-.-||+.
T Consensus 326 ~~~~~~~~~~~l~~~~i~~a~~~-G~~~ydf~Gi~ 359 (406)
T PF02388_consen 326 EEYRKFYAPYLLQWEAIKYAKEK-GIKRYDFGGIS 359 (406)
T ss_dssp CGCGGCTHHHHHHHHHHHHHHHT-T-SEEEEEE-S
T ss_pred hhhHhcCcchHHHHHHHHHHHHC-CCCEEEeeCCC
Confidence 223333 5677788888887543 34444455544
No 200
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=23.56 E-value=3e+02 Score=24.83 Aligned_cols=44 Identities=20% Similarity=0.292 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 124 KELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 124 ~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+.+|..++..+ ...+++..+..++.+..+++.++..|+.....+
T Consensus 110 f~~rk~l~~e~-~~~~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ 153 (189)
T PF10211_consen 110 FGMRKALQAEQ-GKQELEEEIEELEEEKEELEKQVQELKNKCEQL 153 (189)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455554433 234455555555555555555555555444444
No 201
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=23.34 E-value=3.8e+02 Score=23.98 Aligned_cols=12 Identities=17% Similarity=0.169 Sum_probs=5.9
Q ss_pred HHHHHhhccccc
Q psy12906 187 VARWSNSLSRAR 198 (303)
Q Consensus 187 I~~ws~kL~~ar 198 (303)
..++..+++.+-
T Consensus 144 ~a~a~~~~~~~~ 155 (221)
T PF04012_consen 144 AAKAQKKVNEAL 155 (221)
T ss_pred HHHHHHHHHHHh
Confidence 445555555543
No 202
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=23.22 E-value=4.1e+02 Score=28.93 Aligned_cols=52 Identities=19% Similarity=0.403 Sum_probs=30.3
Q ss_pred CCCCChHHHHHHHHHHHHHH--HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHh
Q psy12906 117 LQDHNCVKELRSIVHKQQQK--MVNMETEMSEQR-FQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 117 ~q~~nC~~~LR~~i~~~~~k--~~~l~~~l~~~~-~~l~e~kr~l~~L~~~i~~~~ 169 (303)
++..+...+|+..++.+..+ +.++++++++.- .++++..++. .|.++|++++
T Consensus 182 LE~~d~~~RL~~l~~lL~~ele~l~l~~~I~~~v~~~~~~~qr~~-~Lreqlk~i~ 236 (775)
T TIGR00763 182 LETVNIEKRLKKALELLKKELELLKLQNKITKKVEEKMEKTQREY-YLREQLKAIK 236 (775)
T ss_pred HhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 35778888888777777664 445665554433 3333333333 4666666664
No 203
>PF14644 DUF4456: Domain of unknown function (DUF4456)
Probab=23.21 E-value=4.5e+02 Score=23.84 Aligned_cols=113 Identities=14% Similarity=0.225 Sum_probs=63.0
Q ss_pred CCChHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC----------Cc-hhhh
Q psy12906 119 DHNCVKELRSIVHKQQQKMV---------NMETEMSEQRFQMTELKRQLTVLQELMRAMKVSN----------PG-VRVL 178 (303)
Q Consensus 119 ~~nC~~~LR~~i~~~~~k~~---------~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~----------~~-~~~~ 178 (303)
...|+.++|+.+.....-+. =+++...++...+..+..++..........+..+ |+ .+.|
T Consensus 49 ~~~~~~elR~qv~~l~~~l~~v~~lv~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~k~~h~~~LrP~LghP~~~~eL 128 (208)
T PF14644_consen 49 HNSCLQELRNQVERLEELLPKVPELVFESLLKRHWQKLCEAMKAIQEEFEQQQKQWEQQKDQHEQQLRPNLGHPDNRQEL 128 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCCCHHHH
Confidence 34577888877776655211 1122233344444444444443333333332111 44 3333
Q ss_pred hh--hhchHHHHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCchHHHHHHH
Q psy12906 179 AE--NMERDDVARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPGHILDQLM 235 (303)
Q Consensus 179 ~~--~~~~~~I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~~~~~~~~ 235 (303)
.+ .-|..-+.++...+... |+.+...=+...+.-+.+-...+-+...++++++
T Consensus 129 ~~L~~~E~~R~~~~~~~I~~~----~~~l~~~~~~~a~~f~~~l~~~~~~ll~~lD~~v 183 (208)
T PF14644_consen 129 ESLCEREEKRQKEHQEAIQNF----WEKLLEEVRKEAQMFVARLAQFTEKLLLLLDEVV 183 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 22 33556667777655554 4777777777888888888888888888777655
No 204
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=23.08 E-value=3.2e+02 Score=25.33 Aligned_cols=25 Identities=8% Similarity=0.303 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 144 MSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 144 l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+-+.++++++.+.+|+.++.+++.+
T Consensus 164 ~l~ie~~L~~v~~eIe~~~~~~~~l 188 (262)
T PF14257_consen 164 LLEIERELSRVRSEIEQLEGQLKYL 188 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666666666666666555
No 205
>KOG1691|consensus
Probab=22.96 E-value=1.5e+02 Score=27.69 Aligned_cols=37 Identities=19% Similarity=0.284 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q psy12906 136 KMVNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSN 172 (303)
Q Consensus 136 k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~ 172 (303)
++.-++-+++++++..+++..+|..|++....||.+|
T Consensus 135 klep~E~elrrLed~~~sI~~e~~YLr~REeemr~~n 171 (210)
T KOG1691|consen 135 KLEPLEVELRRLEDLVESIHEEMYYLREREEEMRNTN 171 (210)
T ss_pred cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4667788899999999999999999999999998877
No 206
>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.
Probab=22.90 E-value=2.6e+02 Score=27.30 Aligned_cols=46 Identities=13% Similarity=0.276 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
+...+..++..+.++.+++..+..++.++++..++...|++.+...
T Consensus 230 l~~~~~~L~~~~~~l~~l~~~l~~l~~~~~~~~~e~~~l~~~~~~~ 275 (344)
T PF12777_consen 230 LEEAEEQLAEKQAELAELEEKLAALQKEYEEAQKEKQELEEEIEET 275 (344)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555666666666666666666666555666655443
No 207
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=22.83 E-value=4.7e+02 Score=25.28 Aligned_cols=50 Identities=18% Similarity=0.349 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q psy12906 124 KELRSIVHKQQQKMV-------NMETEMSEQRFQMTELKRQLTVLQELMRAMKVSNP 173 (303)
Q Consensus 124 ~~LR~~i~~~~~k~~-------~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~~ 173 (303)
+.+++.+...+.++. .+...-..+..+++.-+.++.-.+..++.+....|
T Consensus 165 ~~l~~ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRP 221 (267)
T PF10234_consen 165 KALKEAIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRP 221 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCh
Confidence 344555554444433 33333334444444444444444555555443333
No 208
>COG4717 Uncharacterized conserved protein [Function unknown]
Probab=22.52 E-value=3.5e+02 Score=30.59 Aligned_cols=16 Identities=31% Similarity=0.586 Sum_probs=12.0
Q ss_pred HhhhhhhcCCCCceEE
Q psy12906 260 YENYVCKRIPSKQAVV 275 (303)
Q Consensus 260 ~~~~v~~~~~~k~~~~ 275 (303)
....-.+.||-|++|+
T Consensus 300 ~~d~~~~LiP~ke~vl 315 (984)
T COG4717 300 LKDLASQLIPAKEAVL 315 (984)
T ss_pred hhHHHHhccchHHHHH
Confidence 3466778999999873
No 209
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=22.51 E-value=3.8e+02 Score=29.25 Aligned_cols=41 Identities=20% Similarity=0.400 Sum_probs=20.9
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 121 NCVKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVL 161 (303)
Q Consensus 121 nC~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L 161 (303)
.|...+|....++..++.+|..+++.-+.++..++.+++.|
T Consensus 538 e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~l 578 (697)
T PF09726_consen 538 ECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQEL 578 (697)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555555555555555555555555444333
No 210
>PRK10361 DNA recombination protein RmuC; Provisional
Probab=22.51 E-value=2.4e+02 Score=29.43 Aligned_cols=20 Identities=15% Similarity=0.441 Sum_probs=12.5
Q ss_pred HHHHHHhhcccc--cccccCcc
Q psy12906 186 DVARWSNSLSRA--RVTRWGGM 205 (303)
Q Consensus 186 ~I~~ws~kL~~a--r~~~~g~~ 205 (303)
+-.+..+-|+.. ..|+||.+
T Consensus 187 ea~nLt~ALkgd~K~rG~WGE~ 208 (475)
T PRK10361 187 EAINLTRALKGDNKTQGNWGEV 208 (475)
T ss_pred HHHHHHHHHcCCCCcCcchHHH
Confidence 455667767542 35888875
No 211
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=22.36 E-value=3.6e+02 Score=20.65 Aligned_cols=41 Identities=7% Similarity=0.050 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELM 165 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i 165 (303)
+||.....++++...+..+-..+..+++..+.+++.+-..+
T Consensus 18 ~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEamI~RL 58 (65)
T TIGR02449 18 RLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEAMITRL 58 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33444444444444444444444444444444444333333
No 212
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=22.19 E-value=4.8e+02 Score=22.89 Aligned_cols=41 Identities=12% Similarity=0.319 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQE 163 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~ 163 (303)
+..|+..++.+.....++...+.++..+..++.++++.++.
T Consensus 96 ie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~~q 136 (145)
T COG1730 96 IEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQLQQ 136 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555555555555555555555555554443
No 213
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=22.16 E-value=2.1e+02 Score=27.72 Aligned_cols=40 Identities=18% Similarity=0.276 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 124 KELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQE 163 (303)
Q Consensus 124 ~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~ 163 (303)
..++..++++++++.++..+.+..++++...+.++..++.
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 41 (364)
T TIGR01242 2 SELDVRIRKLEDEKRSLEKEKIRLERELERLRSEIERLRS 41 (364)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3466778888888888888888888888888888775554
No 214
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=21.93 E-value=1.4e+02 Score=21.21 Aligned_cols=10 Identities=20% Similarity=0.913 Sum_probs=4.2
Q ss_pred cccccccccc
Q psy12906 105 ICSICSGVFE 114 (303)
Q Consensus 105 ~C~~c~~~Le 114 (303)
.||+|+.-|.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 5888876555
No 215
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=21.92 E-value=3.9e+02 Score=24.45 Aligned_cols=13 Identities=23% Similarity=0.276 Sum_probs=5.7
Q ss_pred CchHHHHHHHHHH
Q psy12906 208 TPDVMLQAMIKRS 220 (303)
Q Consensus 208 tP~~~~~~~~~~~ 220 (303)
.|+..+.+-+||.
T Consensus 192 ~~~~~isaALgyv 204 (302)
T PF10186_consen 192 LPDEEISAALGYV 204 (302)
T ss_pred CCHHHHHHHHHHH
Confidence 3444444444443
No 216
>smart00035 CLa CLUSTERIN alpha chain.
Probab=21.89 E-value=1.7e+02 Score=27.50 Aligned_cols=19 Identities=11% Similarity=0.094 Sum_probs=10.6
Q ss_pred HHHHhhcccccccccCccc
Q psy12906 188 ARWSNSLSRARVTRWGGMI 206 (303)
Q Consensus 188 ~~ws~kL~~ar~~~~g~~i 206 (303)
-.|+..|.+...+...++|
T Consensus 139 FgWVS~LAN~t~~~~~~~f 157 (216)
T smart00035 139 FGWVSQLANLTQGEDQYYL 157 (216)
T ss_pred hhHHHHHHhcCCCCCCceE
Confidence 3566666666555444444
No 217
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=21.78 E-value=44 Score=23.68 Aligned_cols=16 Identities=25% Similarity=0.632 Sum_probs=9.6
Q ss_pred cccccccccccCCCCC
Q psy12906 104 LICSICSGVFEEPLQD 119 (303)
Q Consensus 104 i~C~~c~~~Le~~~q~ 119 (303)
+.||+|+..+.+|+..
T Consensus 2 ~~Cpi~~~~~~~Pv~~ 17 (63)
T smart00504 2 FLCPISLEVMKDPVIL 17 (63)
T ss_pred cCCcCCCCcCCCCEEC
Confidence 4566666666666543
No 218
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=21.77 E-value=3.1e+02 Score=21.94 Aligned_cols=41 Identities=20% Similarity=0.407 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQE 163 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~ 163 (303)
...+...+..++..+.++...+++...++..+...++.+.+
T Consensus 79 ~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~ 119 (120)
T PF02996_consen 79 IEFLKKRIKELEEQLEKLEKELAELQAQIEQLEQTLQQLYQ 119 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45667778888888888888888888888888887776653
No 219
>PRK02224 chromosome segregation protein; Provisional
Probab=21.75 E-value=2.2e+02 Score=30.92 Aligned_cols=11 Identities=27% Similarity=0.471 Sum_probs=7.0
Q ss_pred ccccccccccc
Q psy12906 104 LICSICSGVFE 114 (303)
Q Consensus 104 i~C~~c~~~Le 114 (303)
-.||.|+.-+.
T Consensus 452 ~~Cp~C~r~~~ 462 (880)
T PRK02224 452 GKCPECGQPVE 462 (880)
T ss_pred ccCCCCCCcCC
Confidence 35888876554
No 220
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=21.71 E-value=5.6e+02 Score=24.75 Aligned_cols=27 Identities=19% Similarity=0.412 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 136 KMVNMETEMSEQRFQMTELKRQLTVLQ 162 (303)
Q Consensus 136 k~~~l~~~l~~~~~~l~e~kr~l~~L~ 162 (303)
.-..|+.++++.+..++..+++|+.|+
T Consensus 191 de~~Le~KIekkk~ELER~qKRL~sLq 217 (267)
T PF10234_consen 191 DEANLEAKIEKKKQELERNQKRLQSLQ 217 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444433
No 221
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.64 E-value=3.9e+02 Score=25.63 Aligned_cols=31 Identities=13% Similarity=0.287 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 125 ELRSIVHKQQQKMVNMETEMSEQRFQMTELK 155 (303)
Q Consensus 125 ~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~k 155 (303)
.|++.+...|++..+|..++++.++.++.-+
T Consensus 54 ~L~~e~~s~Q~~~~~L~~ev~~~~~~~~s~~ 84 (247)
T COG3879 54 DLVKELRSLQKKVNTLAAEVEDLENKLDSVR 84 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666666666666666666666655
No 222
>PRK09343 prefoldin subunit beta; Provisional
Probab=21.54 E-value=4.2e+02 Score=22.08 Aligned_cols=38 Identities=18% Similarity=0.209 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 131 HKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELMRAM 168 (303)
Q Consensus 131 ~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~ 168 (303)
..+..++.-++..++.++++...++.++..+++.++.+
T Consensus 74 ~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~l 111 (121)
T PRK09343 74 KELKERKELLELRSRTLEKQEKKLREKLKELQAKINEM 111 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555666666666666777666666666655
No 223
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=21.50 E-value=2e+02 Score=30.10 Aligned_cols=40 Identities=20% Similarity=0.302 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQ 162 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~ 162 (303)
..+++..++++.+++.+|.+.+++.+.++..++.++..|.
T Consensus 3 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~ 42 (512)
T TIGR03689 3 LRELQATNSSLGARNAKLAELLKAARDKLSKLKSQLEQLA 42 (512)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3567778888888888888888888888887777777554
No 224
>PF08549 SWI-SNF_Ssr4: Fungal domain of unknown function (DUF1750); InterPro: IPR013859 This is a fungal protein of unknown function.
Probab=21.46 E-value=2.3e+02 Score=30.80 Aligned_cols=56 Identities=21% Similarity=0.340 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC-------Cchhhhh
Q psy12906 123 VKELRSIVHKQQQKMV-NMETEMSEQRFQMTELKRQLTVLQELMRAMKVSN-------PGVRVLA 179 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~-~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~-------~~~~~~~ 179 (303)
-.+.|+.+.++.+.+. ++++..+++.++++..|+ +..|++--+++|..- +.+|+|+
T Consensus 362 aeeF~kRV~~~ia~~~AEIekmK~~Hak~m~k~k~-~s~lk~AE~~LR~a~~~p~~~G~E~WRlE 425 (669)
T PF08549_consen 362 AEEFRKRVAKKIADMNAEIEKMKARHAKRMAKFKR-NSLLKDAEKELRDAVEDPSETGPEIWRLE 425 (669)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-ccHHHHHHHHHHhccCCccccCccceeec
Confidence 4667888888887754 677667777788877776 667777777777432 4588874
No 225
>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans. Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.
Probab=21.44 E-value=1.7e+02 Score=25.91 Aligned_cols=11 Identities=18% Similarity=0.102 Sum_probs=4.7
Q ss_pred HHHHHHHHHHH
Q psy12906 124 KELRSIVHKQQ 134 (303)
Q Consensus 124 ~~LR~~i~~~~ 134 (303)
..|+...+++.
T Consensus 53 ~~L~~d~e~L~ 63 (158)
T PF09744_consen 53 ELLREDNEQLE 63 (158)
T ss_pred HHHHHHHHHHH
Confidence 34444444443
No 226
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=21.38 E-value=4.3e+02 Score=25.86 Aligned_cols=6 Identities=17% Similarity=0.357 Sum_probs=2.2
Q ss_pred HHHHHH
Q psy12906 127 RSIVHK 132 (303)
Q Consensus 127 R~~i~~ 132 (303)
|+.+..
T Consensus 210 k~~l~~ 215 (312)
T smart00787 210 KEKLKK 215 (312)
T ss_pred HHHHHH
Confidence 333333
No 227
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=21.29 E-value=2.3e+02 Score=27.89 Aligned_cols=33 Identities=9% Similarity=0.328 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy12906 137 MVNMETEMSEQRFQMTELKRQLTVLQELMRAMK 169 (303)
Q Consensus 137 ~~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~ 169 (303)
+.-|+..+++.++++.+-..+|..|+.++..|+
T Consensus 70 iRHLkakLkes~~~l~dRetEI~eLksQL~RMr 102 (305)
T PF15290_consen 70 IRHLKAKLKESENRLHDRETEIDELKSQLARMR 102 (305)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 456666666666666666666667777776664
No 228
>KOG0994|consensus
Probab=21.23 E-value=2.8e+02 Score=32.58 Aligned_cols=18 Identities=22% Similarity=0.381 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy12906 143 EMSEQRFQMTELKRQLTV 160 (303)
Q Consensus 143 ~l~~~~~~l~e~kr~l~~ 160 (303)
.++++.+.+.++|++|+-
T Consensus 1226 ~i~~l~~~~~~lr~~l~~ 1243 (1758)
T KOG0994|consen 1226 DIAQLASATESLRRQLQA 1243 (1758)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345555555555555553
No 229
>PF03028 Dynein_heavy: Dynein heavy chain and region D6 of dynein motor; InterPro: IPR004273 Dynein is a multisubunit microtubule-dependent motor enzyme that acts as the force generating protein of eukaryotic cilia and flagella. The cytoplasmic isoform of dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein is composed of a number of ATP-binding large subunits, intermediate size subunits and small subunits (see IPR001372 from INTERPRO). This family represents the C-terminal region of dynein heavy chain. The dynein heavy chain also exhibits ATPase activity and microtubule binding ability and acts as a motor for the movement of organelles and vesicles along microtubules. ; GO: 0003777 microtubule motor activity, 0007018 microtubule-based movement, 0030286 dynein complex; PDB: 3VKG_A 3VKH_C 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=21.21 E-value=4.7e+02 Score=27.90 Aligned_cols=41 Identities=20% Similarity=0.357 Sum_probs=20.7
Q ss_pred HHHHHhhcccccccccCccccCchHHHHHHHHHHHHhcCCch
Q psy12906 187 VARWSNSLSRARVTRWGGMISTPDVMLQAMIKRSLAESGCPG 228 (303)
Q Consensus 187 I~~ws~kL~~ar~~~~g~~iStP~~~~~~~~~~~l~~s~cp~ 228 (303)
+.+|... ...+..=|=|.|.-|.+|+++.-...=...++|.
T Consensus 552 l~~w~~~-~~~p~~~wLs~ff~P~aFLtAlrQ~~AR~~~~~l 592 (707)
T PF03028_consen 552 LQRWASN-SGQPKSFWLSGFFNPQAFLTALRQEYARKNKIPL 592 (707)
T ss_dssp HHHHHH--------B-GGGSS-HHHHHHHHHHHHHHHTT---
T ss_pred HHHHHhc-cCCceEEecccccChHHHHHHHHHHHHHhcCcCc
Confidence 4455554 1122234677788899999998777666665553
No 230
>PRK09039 hypothetical protein; Validated
Probab=21.12 E-value=3.3e+02 Score=26.77 Aligned_cols=8 Identities=50% Similarity=0.235 Sum_probs=4.3
Q ss_pred EEEecCCC
Q psy12906 275 VVLLCDNV 282 (303)
Q Consensus 275 ~~~~~~n~ 282 (303)
|+=+.|+.
T Consensus 267 I~GHTD~~ 274 (343)
T PRK09039 267 VDGHTDNV 274 (343)
T ss_pred EEEecCCC
Confidence 44556664
No 231
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=21.10 E-value=5e+02 Score=23.63 Aligned_cols=13 Identities=0% Similarity=0.248 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHHH
Q psy12906 131 HKQQQKMVNMETE 143 (303)
Q Consensus 131 ~~~~~k~~~l~~~ 143 (303)
..|..++..++..
T Consensus 64 ~~h~eEvr~Lr~~ 76 (194)
T PF15619_consen 64 QRHNEEVRVLRER 76 (194)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 232
>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain. Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.
Probab=20.81 E-value=6.7e+02 Score=23.26 Aligned_cols=54 Identities=19% Similarity=0.269 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchhhh------hhhhchHHHHHHH
Q psy12906 138 VNMETEMSEQRFQMTELKRQLTVLQELMRAMKVSNPGVRVL------AENMERDDVARWS 191 (303)
Q Consensus 138 ~~l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~~~~~~~------~~~~~~~~I~~ws 191 (303)
.+--..++++..++..+-.+|..|++....+...|..+|-| ..++++..=.+|.
T Consensus 37 ~~~g~lm~evNrrlQ~hl~EIR~LKe~NqkLqedNqELRdLCCFLDddRqKgrklarEWQ 96 (195)
T PF10226_consen 37 VEHGRLMKEVNRRLQQHLNEIRGLKEVNQKLQEDNQELRDLCCFLDDDRQKGRKLAREWQ 96 (195)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccchhHHHhHHHhHHHH
Confidence 33444556666666666666666666655555444444433 2344444445555
No 233
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=20.79 E-value=4e+02 Score=20.50 Aligned_cols=39 Identities=21% Similarity=0.333 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 124 KELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQ 162 (303)
Q Consensus 124 ~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~ 162 (303)
..|++..+++..+-..+...+++++.+..+...++..|+
T Consensus 15 a~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~ 53 (74)
T PF12329_consen 15 AQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELK 53 (74)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444433333333444444444444444444333
No 234
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=20.67 E-value=3.3e+02 Score=22.50 Aligned_cols=24 Identities=17% Similarity=0.542 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHH----HHHHHHHHHHHH
Q psy12906 135 QKMVNMETEMSE----QRFQMTELKRQL 158 (303)
Q Consensus 135 ~k~~~l~~~l~~----~~~~l~e~kr~l 158 (303)
+++.+|++.+.+ ++.+++++..+|
T Consensus 72 EqL~~Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 72 EQLKKLKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345555555555 666666666654
No 235
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=20.62 E-value=87 Score=21.43 Aligned_cols=26 Identities=23% Similarity=0.474 Sum_probs=17.8
Q ss_pred cCCCccccCceeeeeec--ccccccccccccc
Q psy12906 82 HTANTAIMGYEIVRFIG--EVDEELICSICSG 111 (303)
Q Consensus 82 ~Cpng~~CG~~I~R~~g--~vDe~i~C~~c~~ 111 (303)
.|++ ||..++.... + +..+.||.|++
T Consensus 7 ~C~~---Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 7 RCEE---CGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred EeCC---CCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 4554 7855555544 6 67788999986
No 236
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=20.56 E-value=3.7e+02 Score=28.48 Aligned_cols=43 Identities=21% Similarity=0.329 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQKMVNMETEMSEQRFQMTELKRQLTVLQELM 165 (303)
Q Consensus 123 ~~~LR~~i~~~~~k~~~l~~~l~~~~~~l~e~kr~l~~L~~~i 165 (303)
+..+.+.++..+.++.+++.++.....++.+.++++..++..+
T Consensus 423 i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~ 465 (650)
T TIGR03185 423 IAQLLEELGEAQNELFRSEAEIEELLRQLETLKEAIEALRKTL 465 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555555555555555555555555555555555555544
No 237
>PRK04654 sec-independent translocase; Provisional
Probab=20.27 E-value=4.8e+02 Score=24.55 Aligned_cols=7 Identities=14% Similarity=-0.073 Sum_probs=2.7
Q ss_pred HHHHHHH
Q psy12906 125 ELRSIVH 131 (303)
Q Consensus 125 ~LR~~i~ 131 (303)
++|..+.
T Consensus 38 k~R~~~~ 44 (214)
T PRK04654 38 RARMQWD 44 (214)
T ss_pred HHHHHHH
Confidence 3343333
No 238
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=20.21 E-value=3.9e+02 Score=23.37 Aligned_cols=14 Identities=14% Similarity=0.342 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHH
Q psy12906 123 VKELRSIVHKQQQK 136 (303)
Q Consensus 123 ~~~LR~~i~~~~~k 136 (303)
.++||.++.+++++
T Consensus 42 ~~~l~~Ei~~l~~E 55 (161)
T PF04420_consen 42 QRQLRKEILQLKRE 55 (161)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 44556666655553
No 239
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=20.18 E-value=3e+02 Score=21.51 Aligned_cols=33 Identities=15% Similarity=0.156 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q psy12906 140 METEMSEQRFQMTELKRQLTVLQELMRAMKVSN 172 (303)
Q Consensus 140 l~~~l~~~~~~l~e~kr~l~~L~~~i~~~~~~~ 172 (303)
|..-++.+++.+..++-+.+.|++..+.+..+.
T Consensus 15 Ls~vl~~LqDE~~hm~~e~~~L~~~~~~~d~s~ 47 (79)
T PF06657_consen 15 LSEVLKALQDEFGHMKMEHQELQDEYKQMDPSL 47 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 334444555555555555555555555554333
No 240
>TIGR00618 sbcc exonuclease SbcC. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.04 E-value=5.1e+02 Score=29.13 Aligned_cols=26 Identities=15% Similarity=0.378 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12906 136 KMVNMETEMSEQRFQMTELKRQLTVL 161 (303)
Q Consensus 136 k~~~l~~~l~~~~~~l~e~kr~l~~L 161 (303)
+...+...+.....++..+.++++.|
T Consensus 550 ql~~l~~q~~~lq~ql~ql~~ql~~l 575 (1042)
T TIGR00618 550 QLTSERKQRASLKEQMQEIQQSFSIL 575 (1042)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444444444444444444433
Done!