Query 040121
Match_columns 368
No_of_seqs 252 out of 1146
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 05:20:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040121.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040121hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08381 BRX: Transcription fa 99.9 2.1E-24 4.6E-29 163.5 5.7 45 323-367 2-49 (59)
2 PF13713 BRX_N: Transcription 99.7 6.2E-17 1.3E-21 113.6 3.4 38 226-264 1-38 (39)
3 PF01363 FYVE: FYVE zinc finge 99.5 2.3E-15 5E-20 116.3 1.1 58 1-59 11-68 (69)
4 smart00064 FYVE Protein presen 99.4 5.1E-14 1.1E-18 108.5 2.8 56 1-59 12-67 (68)
5 KOG1818 Membrane trafficking a 99.4 3.2E-14 6.9E-19 149.7 2.1 61 1-64 167-227 (634)
6 cd00065 FYVE FYVE domain; Zinc 99.3 1.3E-12 2.9E-17 97.1 2.1 53 1-56 4-56 (57)
7 KOG1729 FYVE finger containing 99.2 3.7E-12 8E-17 124.3 0.5 56 1-60 170-226 (288)
8 PTZ00303 phosphatidylinositol 99.2 1.3E-11 2.9E-16 131.2 3.4 60 1-60 462-531 (1374)
9 KOG1819 FYVE finger-containing 99.1 1.5E-11 3.2E-16 126.2 0.9 54 1-57 903-961 (990)
10 KOG1842 FYVE finger-containing 98.6 2.2E-09 4.8E-14 109.1 -2.9 60 1-61 182-261 (505)
11 KOG1841 Smad anchor for recept 98.3 1.5E-07 3.2E-12 104.1 0.2 50 1-54 559-608 (1287)
12 KOG1843 Uncharacterized conser 98.1 9E-07 1.9E-11 89.7 0.4 58 1-59 162-219 (473)
13 KOG1409 Uncharacterized conser 98.0 8.8E-07 1.9E-11 88.3 -0.4 60 2-63 285-354 (404)
14 KOG4424 Predicted Rho/Rac guan 97.7 8.7E-06 1.9E-10 85.6 -0.2 62 1-65 417-478 (623)
15 PF02318 FYVE_2: FYVE-type zin 96.8 0.00084 1.8E-08 57.6 2.4 51 1-60 56-106 (118)
16 KOG0230 Phosphatidylinositol-4 96.6 0.001 2.2E-08 76.5 2.4 46 1-60 7-52 (1598)
17 KOG1811 Predicted Zn2+-binding 96.1 0.00073 1.6E-08 72.2 -2.4 54 2-58 329-383 (1141)
18 KOG0230 Phosphatidylinositol-4 95.0 0.013 2.9E-07 67.7 2.4 52 1-64 99-150 (1598)
19 PF03904 DUF334: Domain of unk 89.5 2.3 5.1E-05 40.9 9.0 65 183-249 45-109 (230)
20 KOG1729 FYVE finger containing 86.8 0.21 4.6E-06 49.5 0.2 55 2-57 23-81 (288)
21 PF12718 Tropomyosin_1: Tropom 85.6 5.3 0.00012 35.6 8.5 48 189-237 29-76 (143)
22 PRK00464 nrdR transcriptional 82.5 0.72 1.6E-05 41.8 1.6 25 2-26 3-38 (154)
23 PF07975 C1_4: TFIIH C1-like d 82.0 0.31 6.8E-06 36.5 -0.7 31 1-31 1-36 (51)
24 PF07888 CALCOCO1: Calcium bin 81.3 10 0.00022 41.0 9.8 27 185-211 154-180 (546)
25 PF12718 Tropomyosin_1: Tropom 79.0 16 0.00036 32.5 9.0 57 197-253 75-131 (143)
26 PF09538 FYDLN_acid: Protein o 78.1 1.3 2.8E-05 38.0 1.6 25 1-25 11-35 (108)
27 PF02403 Seryl_tRNA_N: Seryl-t 76.9 20 0.00044 29.6 8.5 20 233-252 77-96 (108)
28 PF11559 ADIP: Afadin- and alp 76.9 26 0.00056 30.8 9.6 55 197-251 61-115 (151)
29 PF06428 Sec2p: GDP/GTP exchan 75.3 15 0.00031 31.2 7.2 57 197-253 10-67 (100)
30 KOG0993 Rab5 GTPase effector R 74.8 0.19 4.2E-06 51.9 -4.9 56 1-61 470-527 (542)
31 KOG2164 Predicted E3 ubiquitin 74.4 1.3 2.7E-05 47.1 0.7 50 1-60 188-237 (513)
32 PF11068 YlqD: YlqD protein; 73.8 53 0.0012 29.1 10.7 57 197-257 29-93 (131)
33 PF10211 Ax_dynein_light: Axon 73.8 22 0.00048 33.0 8.8 29 192-220 131-159 (189)
34 PF09728 Taxilin: Myosin-like 72.9 27 0.00059 34.9 9.7 69 185-253 132-218 (309)
35 TIGR02300 FYDLN_acid conserved 71.5 2.5 5.3E-05 37.4 1.7 25 1-25 11-35 (129)
36 PF03962 Mnd1: Mnd1 family; I 71.1 18 0.00039 33.6 7.5 59 194-253 68-126 (188)
37 PF04156 IncA: IncA protein; 70.4 40 0.00087 30.5 9.5 66 185-250 85-150 (191)
38 COG0497 RecN ATPase involved i 70.0 24 0.00052 38.3 9.0 66 183-250 320-388 (557)
39 COG3074 Uncharacterized protei 69.8 9.2 0.0002 30.7 4.4 32 183-214 27-58 (79)
40 smart00154 ZnF_AN1 AN1-like Zi 69.8 3.1 6.7E-05 29.2 1.6 26 2-30 1-26 (39)
41 TIGR00622 ssl1 transcription f 69.2 3.3 7.2E-05 35.8 2.0 33 1-33 57-98 (112)
42 PF13717 zinc_ribbon_4: zinc-r 68.4 2.8 6E-05 28.9 1.1 25 1-26 4-35 (36)
43 PF13863 DUF4200: Domain of un 68.2 66 0.0014 27.1 9.8 55 199-253 43-97 (126)
44 PRK14154 heat shock protein Gr 67.8 44 0.00095 31.9 9.4 68 174-244 47-114 (208)
45 PF04728 LPP: Lipoprotein leuc 67.3 22 0.00047 27.3 5.8 39 191-233 6-44 (56)
46 PF10883 DUF2681: Protein of u 66.6 25 0.00054 29.2 6.6 54 184-243 26-79 (87)
47 PRK10884 SH3 domain-containing 66.2 15 0.00033 34.7 6.0 14 183-196 95-108 (206)
48 PHA02768 hypothetical protein; 65.1 2.4 5.2E-05 32.3 0.3 27 1-27 7-42 (55)
49 PF13719 zinc_ribbon_5: zinc-r 64.3 3.8 8.2E-05 28.3 1.2 25 1-26 4-35 (37)
50 PF11932 DUF3450: Protein of u 63.9 58 0.0013 31.1 9.6 13 241-253 102-114 (251)
51 PF10458 Val_tRNA-synt_C: Valy 63.6 25 0.00055 27.0 5.8 56 194-249 3-65 (66)
52 PF09189 DUF1952: Domain of un 63.1 6 0.00013 32.0 2.2 37 332-368 33-72 (78)
53 KOG1841 Smad anchor for recept 61.0 3.9 8.4E-05 47.2 1.1 46 2-63 660-705 (1287)
54 PF09738 DUF2051: Double stran 59.8 82 0.0018 31.6 10.1 54 193-253 110-163 (302)
55 PF03908 Sec20: Sec20; InterP 59.7 82 0.0018 25.6 8.5 62 180-245 4-65 (92)
56 PF05278 PEARLI-4: Arabidopsis 59.4 69 0.0015 31.8 9.3 52 202-253 186-237 (269)
57 TIGR03752 conj_TIGR03752 integ 59.2 52 0.0011 35.1 8.9 17 235-251 128-144 (472)
58 PF10186 Atg14: UV radiation r 58.9 80 0.0017 30.0 9.6 33 187-219 76-108 (302)
59 PRK15422 septal ring assembly 58.0 20 0.00042 29.4 4.4 33 183-215 27-59 (79)
60 KOG4552 Vitamin-D-receptor int 57.5 55 0.0012 31.6 8.0 44 197-243 76-119 (272)
61 PRK00420 hypothetical protein; 56.9 7.4 0.00016 33.7 1.9 25 1-33 25-49 (112)
62 PF06008 Laminin_I: Laminin Do 56.2 66 0.0014 30.9 8.6 70 180-249 44-113 (264)
63 TIGR00414 serS seryl-tRNA synt 56.0 81 0.0018 32.8 9.7 53 197-250 39-96 (418)
64 PHA02047 phage lambda Rz1-like 55.7 80 0.0017 26.9 7.8 30 195-224 34-63 (101)
65 PRK10869 recombination and rep 55.3 41 0.00089 36.2 7.6 41 210-250 342-387 (553)
66 PF02183 HALZ: Homeobox associ 55.2 20 0.00042 26.1 3.6 27 183-209 14-40 (45)
67 PF12777 MT: Microtubule-bindi 54.5 98 0.0021 31.1 9.8 43 185-228 6-48 (344)
68 PF02403 Seryl_tRNA_N: Seryl-t 54.1 69 0.0015 26.4 7.3 63 192-254 40-105 (108)
69 PF11559 ADIP: Afadin- and alp 54.0 1.5E+02 0.0033 25.9 10.0 41 197-237 75-115 (151)
70 PHA01750 hypothetical protein 54.0 29 0.00063 27.6 4.6 31 190-220 37-67 (75)
71 TIGR01035 hemA glutamyl-tRNA r 53.8 39 0.00084 34.9 6.9 55 197-252 342-400 (417)
72 PF07246 Phlebovirus_NSM: Phle 53.7 54 0.0012 32.4 7.5 63 189-253 169-232 (264)
73 KOG2264 Exostosin EXT1L [Signa 53.6 77 0.0017 34.9 9.1 83 174-257 73-155 (907)
74 PF07407 Seadorna_VP6: Seadorn 53.1 42 0.00091 34.4 6.7 39 184-224 35-73 (420)
75 PRK09973 putative outer membra 53.0 43 0.00092 27.8 5.7 39 191-233 27-65 (85)
76 KOG4275 Predicted E3 ubiquitin 52.4 2.1 4.7E-05 42.7 -2.3 46 1-58 46-91 (350)
77 TIGR01562 FdhE formate dehydro 52.3 11 0.00024 37.8 2.7 62 1-63 186-267 (305)
78 PRK04778 septation ring format 52.3 70 0.0015 34.4 8.8 61 183-243 319-389 (569)
79 PF07889 DUF1664: Protein of u 51.8 1.4E+02 0.0031 26.3 9.2 64 183-250 56-123 (126)
80 PRK00432 30S ribosomal protein 51.8 10 0.00022 28.1 1.7 9 16-24 37-45 (50)
81 KOG4196 bZIP transcription fac 51.3 51 0.0011 29.4 6.2 37 185-221 78-114 (135)
82 KOG0804 Cytoplasmic Zn-finger 51.2 76 0.0016 33.8 8.4 24 197-220 377-400 (493)
83 PF06005 DUF904: Protein of un 51.2 1.2E+02 0.0027 24.1 8.7 58 185-249 15-72 (72)
84 PF10168 Nup88: Nuclear pore c 51.1 98 0.0021 34.7 9.9 57 197-253 567-623 (717)
85 KOG0612 Rho-associated, coiled 50.9 89 0.0019 37.0 9.6 47 207-253 480-531 (1317)
86 TIGR00570 cdk7 CDK-activating 50.7 5 0.00011 40.4 -0.1 48 1-60 5-55 (309)
87 PF15619 Lebercilin: Ciliary p 50.7 1.1E+02 0.0024 28.7 8.8 60 194-253 124-187 (194)
88 PF01485 IBR: IBR domain; Int 50.5 12 0.00027 27.3 2.0 28 5-33 26-57 (64)
89 COG1382 GimC Prefoldin, chaper 50.3 38 0.00081 29.7 5.2 45 180-224 69-113 (119)
90 PF15358 TSKS: Testis-specific 50.3 37 0.00081 35.7 6.0 44 173-216 117-160 (558)
91 PF04012 PspA_IM30: PspA/IM30 50.0 75 0.0016 29.5 7.7 34 198-231 54-87 (221)
92 COG4345 Uncharacterized protei 49.9 79 0.0017 29.5 7.4 51 198-248 121-171 (181)
93 PF09845 DUF2072: Zn-ribbon co 49.9 7.9 0.00017 34.4 1.0 20 17-36 2-31 (131)
94 KOG3576 Ovo and related transc 49.1 3.1 6.7E-05 39.9 -1.7 28 1-29 119-158 (267)
95 COG1938 Archaeal enzymes of AT 48.9 28 0.0006 34.0 4.6 46 179-224 186-233 (244)
96 PRK15396 murein lipoprotein; P 48.8 56 0.0012 26.6 5.7 37 192-232 29-65 (78)
97 COG1842 PspA Phage shock prote 48.7 84 0.0018 30.2 7.8 45 198-244 55-99 (225)
98 PF05529 Bap31: B-cell recepto 48.6 32 0.00069 31.5 4.9 31 189-219 155-185 (192)
99 PF01025 GrpE: GrpE; InterPro 48.5 72 0.0016 28.2 7.0 57 183-244 13-69 (165)
100 PRK05431 seryl-tRNA synthetase 48.4 1.3E+02 0.0029 31.3 9.8 8 346-353 271-278 (425)
101 KOG3173 Predicted Zn-finger pr 47.5 8.5 0.00018 35.3 0.9 25 2-30 108-132 (167)
102 PF03962 Mnd1: Mnd1 family; I 47.4 83 0.0018 29.2 7.4 76 177-253 58-133 (188)
103 PF03961 DUF342: Protein of un 46.8 93 0.002 32.4 8.5 70 184-253 330-405 (451)
104 PF14643 DUF4455: Domain of un 46.4 77 0.0017 33.4 7.9 55 199-259 76-130 (473)
105 PF01519 DUF16: Protein of unk 46.0 1.4E+02 0.003 25.7 7.8 43 197-253 55-97 (102)
106 KOG0823 Predicted E3 ubiquitin 45.9 9.6 0.00021 36.8 1.0 33 20-59 63-95 (230)
107 PF07106 TBPIP: Tat binding pr 45.8 71 0.0015 28.6 6.6 56 186-253 77-132 (169)
108 PF07282 OrfB_Zn_ribbon: Putat 45.7 14 0.00031 28.1 1.8 25 1-25 30-55 (69)
109 PRK05729 valS valyl-tRNA synth 45.6 59 0.0013 36.9 7.3 57 193-249 809-872 (874)
110 PF10506 MCC-bdg_PDZ: PDZ doma 45.6 1.5E+02 0.0033 23.4 7.7 60 182-242 6-65 (67)
111 COG3364 Zn-ribbon containing p 45.6 8.7 0.00019 33.0 0.6 20 17-36 3-32 (112)
112 PF09304 Cortex-I_coil: Cortex 45.5 1.5E+02 0.0034 25.5 8.1 39 184-222 26-71 (107)
113 PRK03564 formate dehydrogenase 45.4 14 0.0003 37.3 2.0 62 1-63 189-267 (309)
114 PF09074 Mer2: Mer2; InterPro 45.4 2.3E+02 0.005 26.8 9.9 49 199-247 41-94 (190)
115 PHA01754 hypothetical protein 45.0 26 0.00057 27.4 3.1 25 219-243 24-54 (69)
116 PRK14143 heat shock protein Gr 44.9 1.3E+02 0.0029 29.1 8.7 61 183-244 69-129 (238)
117 PLN02320 seryl-tRNA synthetase 44.9 1.3E+02 0.0028 32.4 9.3 56 197-254 102-168 (502)
118 COG3122 Uncharacterized protei 44.5 1.5E+02 0.0033 28.1 8.5 16 158-173 12-27 (215)
119 TIGR02338 gimC_beta prefoldin, 44.4 54 0.0012 27.6 5.2 41 182-222 68-108 (110)
120 PRK00846 hypothetical protein; 44.4 1.7E+02 0.0037 23.7 9.0 55 191-252 9-63 (77)
121 PRK00398 rpoP DNA-directed RNA 44.1 13 0.00029 26.4 1.3 22 2-24 6-29 (46)
122 PLN03208 E3 ubiquitin-protein 44.0 5.8 0.00013 37.4 -0.8 55 1-60 20-80 (193)
123 PF07061 Swi5: Swi5; InterPro 43.9 1.1E+02 0.0023 25.1 6.7 24 233-257 36-61 (83)
124 KOG1829 Uncharacterized conser 43.7 12 0.00026 40.7 1.4 60 2-61 343-406 (580)
125 TIGR00414 serS seryl-tRNA synt 43.7 99 0.0021 32.1 8.1 64 192-255 41-108 (418)
126 TIGR02894 DNA_bind_RsfA transc 43.6 55 0.0012 30.1 5.5 37 183-219 99-135 (161)
127 COG3599 DivIVA Cell division i 43.2 1.9E+02 0.0042 27.6 9.3 68 183-250 32-105 (212)
128 PF04111 APG6: Autophagy prote 42.9 2E+02 0.0042 28.9 9.8 67 184-253 53-129 (314)
129 PF07851 TMPIT: TMPIT-like pro 42.9 1.3E+02 0.0028 30.7 8.5 30 226-255 64-93 (330)
130 PF13923 zf-C3HC4_2: Zinc fing 42.9 8.4 0.00018 26.3 0.1 30 2-35 1-30 (39)
131 KOG3799 Rab3 effector RIM1 and 42.7 8.9 0.00019 34.5 0.2 57 1-65 67-124 (169)
132 PF04216 FdhE: Protein involve 42.7 5.4 0.00012 39.0 -1.2 62 1-62 174-252 (290)
133 TIGR01069 mutS2 MutS2 family p 42.5 1.4E+02 0.0031 33.6 9.6 9 177-185 493-501 (771)
134 PF14634 zf-RING_5: zinc-RING 42.1 7.5 0.00016 27.4 -0.3 33 1-35 1-33 (44)
135 PF08317 Spc7: Spc7 kinetochor 41.8 1.1E+02 0.0023 30.7 7.7 52 199-253 181-232 (325)
136 PF10267 Tmemb_cc2: Predicted 41.8 4.3E+02 0.0094 27.6 12.9 68 186-253 210-292 (395)
137 PRK00045 hemA glutamyl-tRNA re 41.7 93 0.002 32.1 7.5 53 197-250 345-400 (423)
138 smart00647 IBR In Between Ring 41.5 20 0.00043 26.2 2.0 32 2-33 21-57 (64)
139 PF05010 TACC: Transforming ac 41.5 1.7E+02 0.0037 27.8 8.6 69 180-248 103-172 (207)
140 PF14445 Prok-RING_2: Prokaryo 41.0 3.5 7.6E-05 31.1 -2.1 43 1-58 9-51 (57)
141 KOG1003 Actin filament-coating 40.8 1.5E+02 0.0032 28.3 8.0 44 197-243 48-91 (205)
142 PF01286 XPA_N: XPA protein N- 40.6 21 0.00045 24.7 1.7 28 18-56 5-32 (34)
143 PRK09343 prefoldin subunit bet 40.5 77 0.0017 27.3 5.7 41 183-223 73-113 (121)
144 PTZ00419 valyl-tRNA synthetase 40.5 85 0.0018 36.2 7.6 58 193-250 927-991 (995)
145 PRK02119 hypothetical protein; 40.4 1.9E+02 0.004 23.0 8.7 24 197-220 11-34 (73)
146 PF09728 Taxilin: Myosin-like 40.2 2.2E+02 0.0048 28.5 9.7 68 182-249 228-298 (309)
147 KOG0804 Cytoplasmic Zn-finger 40.0 1.8E+02 0.0038 31.1 9.1 25 184-208 350-374 (493)
148 PF05622 HOOK: HOOK protein; 39.9 9.6 0.00021 42.0 0.0 59 197-255 300-381 (713)
149 PF07271 Cytadhesin_P30: Cytad 39.9 37 0.0008 33.7 4.0 48 187-238 96-144 (279)
150 PLN02320 seryl-tRNA synthetase 39.8 87 0.0019 33.7 7.1 59 195-253 93-153 (502)
151 TIGR02449 conserved hypothetic 39.5 1.9E+02 0.0041 22.8 8.7 53 197-249 9-61 (65)
152 TIGR02098 MJ0042_CXXC MJ0042 f 39.5 17 0.00037 24.6 1.2 9 2-10 5-13 (38)
153 PF11932 DUF3450: Protein of u 39.2 3E+02 0.0065 26.3 10.1 11 238-248 106-116 (251)
154 PF00261 Tropomyosin: Tropomyo 39.0 3.2E+02 0.0068 26.0 10.2 55 197-252 136-191 (237)
155 PF13639 zf-RING_2: Ring finge 38.9 7.3 0.00016 27.1 -0.7 34 1-36 2-35 (44)
156 PRK10884 SH3 domain-containing 38.8 1.8E+02 0.0038 27.6 8.3 27 187-213 92-118 (206)
157 PRK06568 F0F1 ATP synthase sub 38.8 2.7E+02 0.0058 25.3 9.1 22 209-230 63-84 (154)
158 PLN02943 aminoacyl-tRNA ligase 38.7 89 0.0019 36.0 7.4 59 193-251 887-952 (958)
159 PF06221 zf-C2HC5: Putative zi 38.7 11 0.00025 28.8 0.2 14 16-29 18-31 (57)
160 PF11454 DUF3016: Protein of u 38.6 34 0.00074 30.7 3.3 30 233-262 26-56 (141)
161 PF04849 HAP1_N: HAP1 N-termin 38.6 1.3E+02 0.0029 30.3 7.7 43 211-253 243-285 (306)
162 PF10571 UPF0547: Uncharacteri 38.4 21 0.00046 23.1 1.4 23 1-26 2-24 (26)
163 PRK00409 recombination and DNA 38.3 1.8E+02 0.004 32.8 9.6 8 177-184 498-505 (782)
164 COG5574 PEX10 RING-finger-cont 38.2 8.2 0.00018 38.1 -0.8 34 17-58 228-261 (271)
165 PF12773 DZR: Double zinc ribb 38.2 20 0.00043 25.6 1.5 9 2-10 1-9 (50)
166 PF06364 DUF1068: Protein of u 38.1 95 0.0021 28.9 6.1 53 187-239 72-136 (176)
167 cd00632 Prefoldin_beta Prefold 37.7 79 0.0017 26.2 5.2 40 182-221 64-103 (105)
168 PRK04023 DNA polymerase II lar 37.4 25 0.00055 40.6 2.8 27 1-32 628-659 (1121)
169 PF10186 Atg14: UV radiation r 37.3 2.9E+02 0.0062 26.2 9.7 39 184-222 66-104 (302)
170 PRK14161 heat shock protein Gr 37.3 2.9E+02 0.0064 25.6 9.3 13 324-336 149-161 (178)
171 PF10498 IFT57: Intra-flagella 37.2 2.1E+02 0.0045 29.4 9.1 56 198-253 255-310 (359)
172 PF13815 Dzip-like_N: Iguana/D 37.0 1.3E+02 0.0028 25.7 6.5 38 183-220 68-105 (118)
173 KOG1760 Molecular chaperone Pr 36.9 3.1E+02 0.0066 24.5 8.9 67 183-249 16-117 (131)
174 PF10226 DUF2216: Uncharacteri 36.6 3.8E+02 0.0083 25.5 12.6 73 183-255 57-143 (195)
175 PF09727 CortBP2: Cortactin-bi 36.5 1.7E+02 0.0037 27.7 7.6 53 192-247 138-190 (192)
176 PRK14162 heat shock protein Gr 36.5 2.3E+02 0.0049 26.8 8.5 61 183-244 41-101 (194)
177 PRK14873 primosome assembly pr 36.2 20 0.00044 39.5 1.8 9 2-10 395-403 (665)
178 PF01920 Prefoldin_2: Prefoldi 36.0 70 0.0015 25.8 4.6 39 182-220 63-101 (106)
179 PRK09039 hypothetical protein; 35.8 1.8E+02 0.0038 29.6 8.3 46 191-236 140-185 (343)
180 PRK13940 glutamyl-tRNA reducta 35.6 1E+02 0.0022 32.0 6.7 54 197-251 338-394 (414)
181 PF10473 CENP-F_leu_zip: Leuci 35.6 2.4E+02 0.0052 25.3 8.2 55 197-251 75-140 (140)
182 PRK14160 heat shock protein Gr 35.4 2.3E+02 0.0049 27.2 8.4 13 324-336 184-196 (211)
183 PRK14140 heat shock protein Gr 35.4 2.6E+02 0.0056 26.3 8.7 60 183-243 39-98 (191)
184 PF15616 TerY-C: TerY-C metal 35.3 21 0.00046 31.7 1.4 23 1-29 79-101 (131)
185 TIGR01461 greB transcription e 35.2 97 0.0021 27.9 5.7 56 197-253 10-68 (156)
186 PRK13729 conjugal transfer pil 35.0 1.5E+02 0.0033 31.7 7.8 50 197-253 78-127 (475)
187 PF08317 Spc7: Spc7 kinetochor 34.9 1.1E+02 0.0024 30.5 6.6 10 240-249 279-288 (325)
188 PF13901 DUF4206: Domain of un 34.8 21 0.00045 33.4 1.4 46 18-63 2-50 (202)
189 PF04899 MbeD_MobD: MbeD/MobD 34.8 2.3E+02 0.0051 22.5 7.9 54 197-253 12-65 (70)
190 PRK14139 heat shock protein Gr 34.6 2.7E+02 0.0059 26.1 8.7 45 183-227 34-78 (185)
191 PRK14155 heat shock protein Gr 34.5 2.5E+02 0.0054 26.7 8.6 44 183-226 15-58 (208)
192 PF12352 V-SNARE_C: Snare regi 34.5 1.2E+02 0.0026 22.7 5.4 45 210-254 9-53 (66)
193 PF13815 Dzip-like_N: Iguana/D 34.2 67 0.0015 27.4 4.3 23 199-221 77-99 (118)
194 PRK14559 putative protein seri 34.1 23 0.0005 39.0 1.8 13 117-129 156-168 (645)
195 PLN02678 seryl-tRNA synthetase 34.0 2E+02 0.0043 30.5 8.5 23 346-368 276-308 (448)
196 PRK05431 seryl-tRNA synthetase 34.0 1.8E+02 0.0039 30.3 8.2 24 197-220 37-60 (425)
197 KOG4739 Uncharacterized protei 33.9 19 0.0004 35.0 0.9 38 2-54 6-43 (233)
198 TIGR00634 recN DNA repair prot 33.8 1.5E+02 0.0033 31.8 7.8 19 232-250 374-392 (563)
199 PF12325 TMF_TATA_bd: TATA ele 33.5 3.3E+02 0.0071 23.8 9.3 29 225-253 56-84 (120)
200 cd00162 RING RING-finger (Real 33.0 14 0.0003 24.3 -0.1 31 1-35 1-31 (45)
201 PF04102 SlyX: SlyX; InterPro 32.9 99 0.0022 24.1 4.7 20 197-216 6-25 (69)
202 PF04438 zf-HIT: HIT zinc fing 32.9 19 0.0004 24.0 0.5 21 2-28 5-25 (30)
203 TIGR03752 conj_TIGR03752 integ 32.6 2.8E+02 0.0061 29.8 9.3 44 210-253 95-139 (472)
204 COG3166 PilN Tfp pilus assembl 32.6 2.2E+02 0.0048 27.1 7.9 62 183-259 50-118 (206)
205 KOG1813 Predicted E3 ubiquitin 32.4 29 0.00062 34.9 1.9 28 1-33 243-270 (313)
206 PF14353 CpXC: CpXC protein 32.3 22 0.00048 30.3 1.1 10 1-10 3-12 (128)
207 PF13445 zf-RING_UBOX: RING-ty 32.3 17 0.00037 26.1 0.3 32 2-35 1-32 (43)
208 PRK14163 heat shock protein Gr 32.2 4.6E+02 0.01 25.2 10.2 43 183-225 42-84 (214)
209 KOG3183 Predicted Zn-finger pr 32.2 22 0.00047 34.7 1.1 54 4-61 15-68 (250)
210 KOG3795 Uncharacterized conser 32.1 23 0.00049 33.3 1.1 21 12-32 11-34 (230)
211 PRK14141 heat shock protein Gr 32.1 2.7E+02 0.0059 26.6 8.4 58 185-243 35-92 (209)
212 smart00504 Ubox Modified RING 31.9 24 0.00052 25.8 1.0 30 1-35 3-32 (63)
213 PF09297 zf-NADH-PPase: NADH p 31.7 24 0.00052 23.3 0.9 25 26-56 5-29 (32)
214 PF05384 DegS: Sensor protein 31.7 3.2E+02 0.0069 25.0 8.4 54 193-253 96-149 (159)
215 PF00261 Tropomyosin: Tropomyo 31.6 61 0.0013 30.9 4.0 28 195-222 36-63 (237)
216 PF15136 UPF0449: Uncharacteri 31.6 97 0.0021 26.3 4.7 34 187-220 63-96 (97)
217 KOG3433 Protein involved in me 31.6 3.1E+02 0.0068 26.0 8.4 70 178-247 71-140 (203)
218 KOG2509 Seryl-tRNA synthetase 31.6 2E+02 0.0044 30.6 8.0 71 183-255 50-121 (455)
219 COG1730 GIM5 Predicted prefold 31.5 1.2E+02 0.0026 27.3 5.6 22 196-217 116-137 (145)
220 PRK00846 hypothetical protein; 31.3 1.3E+02 0.0029 24.4 5.3 50 198-254 9-58 (77)
221 PF04102 SlyX: SlyX; InterPro 31.3 2.5E+02 0.0054 21.8 6.9 26 202-227 4-29 (69)
222 COG0013 AlaS Alanyl-tRNA synth 31.3 16 0.00034 41.7 -0.1 37 182-218 706-755 (879)
223 PF09889 DUF2116: Uncharacteri 31.2 17 0.00037 28.0 0.2 28 16-61 3-31 (59)
224 KOG0239 Kinesin (KAR3 subfamil 31.2 2.9E+02 0.0063 30.8 9.6 46 183-228 236-281 (670)
225 TIGR02977 phageshock_pspA phag 31.2 3E+02 0.0065 25.9 8.5 34 198-231 55-88 (219)
226 PRK14151 heat shock protein Gr 31.2 3.2E+02 0.0069 25.3 8.5 60 183-243 22-81 (176)
227 TIGR00599 rad18 DNA repair pro 31.1 18 0.0004 37.6 0.4 29 1-34 28-56 (397)
228 PF03604 DNA_RNApol_7kD: DNA d 31.0 32 0.00068 23.4 1.4 24 1-24 2-25 (32)
229 PF13248 zf-ribbon_3: zinc-rib 30.9 23 0.0005 22.5 0.7 8 18-25 4-11 (26)
230 TIGR02169 SMC_prok_A chromosom 30.5 2.8E+02 0.0061 31.5 9.7 9 338-346 1059-1067(1164)
231 PRK13922 rod shape-determining 30.5 85 0.0018 30.2 4.9 9 331-339 230-238 (276)
232 PF04977 DivIC: Septum formati 30.5 1.1E+02 0.0023 23.4 4.5 29 192-220 21-49 (80)
233 PF15227 zf-C3HC4_4: zinc fing 30.4 19 0.00041 25.4 0.3 29 2-35 1-29 (42)
234 PF07191 zinc-ribbons_6: zinc- 30.4 17 0.00037 29.1 0.0 24 1-25 3-26 (70)
235 PF10393 Matrilin_ccoil: Trime 30.2 53 0.0012 24.3 2.6 19 235-253 21-39 (47)
236 TIGR00100 hypA hydrogenase nic 30.1 26 0.00056 30.0 1.1 8 17-24 71-78 (115)
237 PRK14158 heat shock protein Gr 30.1 4.8E+02 0.01 24.6 9.7 60 183-243 42-101 (194)
238 KOG0288 WD40 repeat protein Ti 30.0 1.5E+02 0.0032 31.4 6.6 70 181-250 55-142 (459)
239 PF13805 Pil1: Eisosome compon 29.9 2.1E+02 0.0046 28.4 7.5 56 197-253 154-214 (271)
240 PF03961 DUF342: Protein of un 29.9 1.9E+02 0.004 30.2 7.6 66 188-253 326-398 (451)
241 TIGR00019 prfA peptide chain r 29.9 4.7E+02 0.01 27.0 10.2 66 195-261 40-111 (360)
242 PF14362 DUF4407: Domain of un 29.8 3.4E+02 0.0073 26.4 9.0 57 197-253 137-205 (301)
243 PRK00295 hypothetical protein; 29.8 1.7E+02 0.0036 22.9 5.5 22 197-218 7-28 (68)
244 TIGR03185 DNA_S_dndD DNA sulfu 29.6 3.1E+02 0.0067 30.0 9.5 15 204-218 451-465 (650)
245 PRK05759 F0F1 ATP synthase sub 29.6 3.8E+02 0.0082 23.3 9.3 14 183-196 30-43 (156)
246 TIGR00161 conserved hypothetic 29.6 57 0.0012 31.2 3.4 45 178-222 182-228 (238)
247 TIGR00219 mreC rod shape-deter 29.4 99 0.0021 30.5 5.2 13 331-343 246-258 (283)
248 PRK00736 hypothetical protein; 29.4 1.7E+02 0.0036 22.9 5.5 22 197-218 7-28 (68)
249 PRK00409 recombination and DNA 29.3 3.3E+02 0.0071 30.8 9.8 11 186-196 504-514 (782)
250 COG2433 Uncharacterized conser 29.1 2.9E+02 0.0062 30.7 8.8 61 184-244 425-488 (652)
251 PRK04325 hypothetical protein; 29.0 2.9E+02 0.0064 21.9 8.9 53 194-253 8-60 (74)
252 PRK14147 heat shock protein Gr 29.0 3.6E+02 0.0077 24.9 8.4 59 184-243 21-79 (172)
253 PF12072 DUF3552: Domain of un 29.0 2.5E+02 0.0054 26.1 7.5 43 200-247 122-164 (201)
254 smart00338 BRLZ basic region l 28.9 1.2E+02 0.0025 22.9 4.4 21 195-215 40-60 (65)
255 PF07412 Geminin: Geminin; In 28.9 99 0.0022 29.4 4.8 38 187-224 117-154 (200)
256 PRK00591 prfA peptide chain re 28.8 4.5E+02 0.0098 27.1 9.9 77 184-262 29-112 (359)
257 TIGR02449 conserved hypothetic 28.8 2.1E+02 0.0047 22.5 5.9 37 184-220 17-53 (65)
258 PF04977 DivIC: Septum formati 28.6 1.7E+02 0.0037 22.2 5.4 29 186-214 22-50 (80)
259 COG1645 Uncharacterized Zn-fin 28.6 31 0.00067 30.7 1.3 10 23-32 43-52 (131)
260 TIGR02605 CxxC_CxxC_SSSS putat 28.5 26 0.00057 25.2 0.7 9 2-10 8-16 (52)
261 smart00291 ZnF_ZZ Zinc-binding 28.4 29 0.00064 24.6 1.0 19 1-22 6-24 (44)
262 PF12329 TMF_DNA_bd: TATA elem 28.4 1.1E+02 0.0023 24.4 4.2 28 193-220 17-44 (74)
263 PRK14153 heat shock protein Gr 28.4 3.4E+02 0.0075 25.6 8.3 25 197-221 49-73 (194)
264 PRK14160 heat shock protein Gr 28.3 3.6E+02 0.0078 25.8 8.5 11 329-339 180-190 (211)
265 PF05911 DUF869: Plant protein 28.3 3.7E+02 0.0081 30.6 9.9 44 210-253 618-661 (769)
266 cd02342 ZZ_UBA_plant Zinc fing 28.2 29 0.00063 25.3 0.9 28 1-30 2-30 (43)
267 PF14803 Nudix_N_2: Nudix N-te 28.1 26 0.00056 24.1 0.6 11 45-55 19-29 (34)
268 PF15456 Uds1: Up-regulated Du 28.1 70 0.0015 28.0 3.4 27 191-217 17-44 (124)
269 COG1579 Zn-ribbon protein, pos 28.0 4.4E+02 0.0095 25.7 9.2 56 199-257 121-176 (239)
270 smart00659 RPOLCX RNA polymera 27.9 34 0.00074 24.7 1.2 24 2-33 5-28 (44)
271 PF07888 CALCOCO1: Calcium bin 27.8 4.1E+02 0.0088 29.1 9.7 29 190-218 152-180 (546)
272 COG5150 Class 2 transcription 27.8 59 0.0013 29.0 2.9 26 219-244 52-77 (148)
273 TIGR00595 priA primosomal prot 27.8 38 0.00083 36.0 2.1 14 235-248 429-442 (505)
274 PF01529 zf-DHHC: DHHC palmito 27.8 31 0.00068 30.3 1.2 21 2-25 51-71 (174)
275 PF05082 Rop-like: Rop-like; 27.7 1.6E+02 0.0036 23.3 5.1 12 245-256 24-35 (66)
276 COG1340 Uncharacterized archae 27.6 4.9E+02 0.011 26.3 9.6 69 184-252 168-243 (294)
277 COG1198 PriA Primosomal protei 27.5 42 0.00091 37.6 2.4 9 49-57 476-484 (730)
278 TIGR01069 mutS2 MutS2 family p 27.5 3.6E+02 0.0077 30.5 9.6 11 186-196 499-509 (771)
279 PRK09841 cryptic autophosphory 27.5 2.4E+02 0.0052 31.3 8.3 27 191-217 270-296 (726)
280 PRK14144 heat shock protein Gr 27.4 3.8E+02 0.0083 25.4 8.5 60 183-243 47-106 (199)
281 PF01486 K-box: K-box region; 27.4 3.5E+02 0.0075 22.1 9.1 38 209-248 49-86 (100)
282 PRK04325 hypothetical protein; 27.4 1.8E+02 0.004 23.0 5.5 15 239-253 39-53 (74)
283 KOG4360 Uncharacterized coiled 27.4 3.9E+02 0.0084 29.2 9.2 22 232-253 263-284 (596)
284 PF10211 Ax_dynein_light: Axon 27.3 5E+02 0.011 24.0 9.7 34 192-225 124-157 (189)
285 COG2433 Uncharacterized conser 27.1 4.6E+02 0.01 29.2 9.9 35 181-215 429-463 (652)
286 TIGR02169 SMC_prok_A chromosom 27.0 3.5E+02 0.0077 30.8 9.7 10 339-348 1072-1081(1164)
287 PLN00203 glutamyl-tRNA reducta 26.8 2.9E+02 0.0062 29.8 8.4 53 197-250 434-491 (519)
288 KOG2932 E3 ubiquitin ligase in 26.8 26 0.00056 35.6 0.6 49 2-66 93-141 (389)
289 KOG0241 Kinesin-like protein [ 26.8 2.7E+02 0.0058 32.9 8.3 70 184-253 360-434 (1714)
290 KOG1029 Endocytic adaptor prot 26.7 1.8E+02 0.0039 33.3 6.9 24 198-221 440-463 (1118)
291 COG3357 Predicted transcriptio 26.7 29 0.00063 29.2 0.8 15 12-26 54-68 (97)
292 TIGR03185 DNA_S_dndD DNA sulfu 26.7 4.5E+02 0.0098 28.7 10.1 20 232-251 451-470 (650)
293 PLN02678 seryl-tRNA synthetase 26.3 2.6E+02 0.0056 29.6 7.9 19 231-249 79-97 (448)
294 COG5493 Uncharacterized conser 26.2 4.3E+02 0.0094 25.5 8.5 55 197-253 48-111 (231)
295 PF07989 Microtub_assoc: Micro 26.2 1.4E+02 0.0031 23.9 4.6 23 200-222 48-70 (75)
296 PRK14148 heat shock protein Gr 26.0 4.2E+02 0.0091 25.0 8.4 59 184-243 43-101 (195)
297 KOG4657 Uncharacterized conser 26.0 2.2E+02 0.0047 27.9 6.6 33 183-215 71-113 (246)
298 TIGR00595 priA primosomal prot 26.0 42 0.0009 35.7 2.0 8 49-56 254-261 (505)
299 PF12709 Kinetocho_Slk19: Cent 26.0 1.2E+02 0.0027 25.2 4.3 22 197-218 51-72 (87)
300 KOG3088 Secretory carrier memb 25.8 2.9E+02 0.0063 28.0 7.6 12 183-194 59-71 (313)
301 PF07334 IFP_35_N: Interferon- 25.7 1.3E+02 0.0029 24.4 4.3 20 195-214 7-26 (76)
302 PF00097 zf-C3HC4: Zinc finger 25.7 26 0.00055 23.7 0.2 31 2-36 1-31 (41)
303 PRK11595 DNA utilization prote 25.6 18 0.00038 34.2 -0.8 7 50-56 50-56 (227)
304 PF01155 HypA: Hydrogenase exp 25.6 19 0.00041 30.7 -0.5 10 17-26 71-80 (113)
305 PRK10698 phage shock protein P 25.6 4.2E+02 0.0091 25.2 8.5 34 198-231 55-88 (222)
306 PRK00888 ftsB cell division pr 25.6 2.1E+02 0.0045 24.2 5.8 18 197-214 43-60 (105)
307 PF13747 DUF4164: Domain of un 25.5 3.8E+02 0.0083 22.0 7.3 16 227-242 71-86 (89)
308 PF13870 DUF4201: Domain of un 25.4 5E+02 0.011 23.3 9.1 26 197-222 51-76 (177)
309 PRK12380 hydrogenase nickel in 25.3 34 0.00074 29.2 1.0 8 17-24 71-78 (113)
310 TIGR00606 rad50 rad50. This fa 25.3 3.8E+02 0.0083 32.0 9.8 66 189-255 752-817 (1311)
311 PRK13729 conjugal transfer pil 25.2 1.1E+02 0.0024 32.7 4.8 24 230-253 97-120 (475)
312 PF07464 ApoLp-III: Apolipopho 25.1 84 0.0018 28.6 3.5 64 186-251 65-135 (155)
313 COG1773 Rubredoxin [Energy pro 25.0 32 0.0007 26.3 0.7 14 15-28 2-15 (55)
314 PF02183 HALZ: Homeobox associ 25.0 1.7E+02 0.0037 21.2 4.4 36 184-219 8-43 (45)
315 PRK02119 hypothetical protein; 24.9 2.2E+02 0.0047 22.6 5.4 30 197-226 4-33 (73)
316 PF15233 SYCE1: Synaptonemal c 24.9 3.9E+02 0.0085 24.0 7.5 39 182-220 35-87 (134)
317 PF05191 ADK_lid: Adenylate ki 24.8 22 0.00048 24.6 -0.2 16 46-61 19-34 (36)
318 PRK14156 heat shock protein Gr 24.8 4.5E+02 0.0097 24.5 8.3 54 190-244 36-89 (177)
319 PF04100 Vps53_N: Vps53-like, 24.8 2.6E+02 0.0057 28.7 7.5 20 233-252 60-79 (383)
320 TIGR01010 BexC_CtrB_KpsE polys 24.8 1.9E+02 0.0041 28.9 6.3 44 210-253 222-265 (362)
321 PRK14145 heat shock protein Gr 24.7 4.8E+02 0.01 24.7 8.6 60 183-243 47-106 (196)
322 cd02341 ZZ_ZZZ3 Zinc finger, Z 24.6 37 0.00079 25.0 0.9 20 1-23 2-22 (48)
323 COG0172 SerS Seryl-tRNA synthe 24.6 4.7E+02 0.01 27.7 9.3 64 192-255 40-107 (429)
324 PHA02929 N1R/p28-like protein; 24.5 19 0.00041 34.9 -0.8 34 1-35 176-213 (238)
325 PF04521 Viral_P18: ssRNA posi 24.5 1.9E+02 0.0041 25.5 5.4 44 181-224 62-108 (120)
326 PRK11519 tyrosine kinase; Prov 24.4 3.4E+02 0.0074 30.1 8.7 28 189-216 268-295 (719)
327 COG4026 Uncharacterized protei 24.4 3.2E+02 0.0069 26.9 7.4 56 202-257 135-193 (290)
328 PF08271 TF_Zn_Ribbon: TFIIB z 24.3 39 0.00085 23.7 1.0 6 2-7 3-8 (43)
329 PF10018 Med4: Vitamin-D-recep 24.2 1.7E+02 0.0036 26.9 5.4 35 183-218 4-38 (188)
330 KOG1814 Predicted E3 ubiquitin 24.2 37 0.00081 35.6 1.2 33 1-33 370-403 (445)
331 PF11053 DNA_Packaging: Termin 24.0 4.8E+02 0.01 24.0 8.0 56 198-253 45-102 (153)
332 KOG2391 Vacuolar sorting prote 23.9 1.6E+02 0.0036 30.3 5.6 43 184-226 235-284 (365)
333 PF07407 Seadorna_VP6: Seadorn 23.8 1.9E+02 0.0041 29.8 6.0 47 180-227 38-90 (420)
334 PF10779 XhlA: Haemolysin XhlA 23.6 3.5E+02 0.0076 21.0 6.4 14 239-252 36-49 (71)
335 PF03357 Snf7: Snf7; InterPro 23.6 4.3E+02 0.0093 22.9 7.7 34 185-218 5-38 (171)
336 PF06273 eIF-4B: Plant specifi 23.6 2.9E+02 0.0063 29.7 7.5 47 207-253 371-419 (492)
337 PF12777 MT: Microtubule-bindi 23.5 3.9E+02 0.0084 26.9 8.3 16 229-244 276-291 (344)
338 PF07851 TMPIT: TMPIT-like pro 23.4 5.3E+02 0.011 26.4 9.1 30 195-224 4-33 (330)
339 COG3883 Uncharacterized protei 23.4 4.9E+02 0.011 25.9 8.6 61 193-253 43-103 (265)
340 COG3064 TolA Membrane protein 23.4 2.5E+02 0.0055 28.8 6.7 22 216-237 147-168 (387)
341 KOG1818 Membrane trafficking a 23.3 21 0.00045 39.3 -0.9 30 2-32 57-87 (634)
342 PF09862 DUF2089: Protein of u 23.3 47 0.001 28.9 1.4 27 2-31 1-27 (113)
343 PF08614 ATG16: Autophagy prot 23.3 2E+02 0.0042 26.5 5.7 36 184-219 84-119 (194)
344 PRK00564 hypA hydrogenase nick 23.3 43 0.00093 28.8 1.2 9 2-10 74-82 (117)
345 PF04568 IATP: Mitochondrial A 23.1 1.6E+02 0.0035 25.0 4.6 23 197-219 74-100 (100)
346 PF13949 ALIX_LYPXL_bnd: ALIX 23.1 3.5E+02 0.0077 25.8 7.7 73 184-256 43-131 (296)
347 PF06750 DiS_P_DiS: Bacterial 23.1 55 0.0012 27.0 1.8 17 8-25 26-42 (92)
348 PF09787 Golgin_A5: Golgin sub 23.1 2E+02 0.0043 30.6 6.4 37 184-220 277-313 (511)
349 PF06428 Sec2p: GDP/GTP exchan 23.0 40 0.00087 28.5 1.0 21 184-204 11-31 (100)
350 PF10498 IFT57: Intra-flagella 22.8 2.1E+02 0.0046 29.4 6.3 32 190-221 261-292 (359)
351 KOG0153 Predicted RNA-binding 22.8 18 0.00039 37.1 -1.4 12 1-12 43-54 (377)
352 PHA02565 49 recombination endo 22.7 53 0.0011 30.2 1.7 10 1-10 22-31 (157)
353 PF02945 Endonuclease_7: Recom 22.6 29 0.00063 28.2 0.1 8 2-9 25-32 (81)
354 KOG0161 Myosin class II heavy 22.3 4.2E+02 0.0091 33.4 9.4 66 183-249 1444-1510(1930)
355 smart00834 CxxC_CXXC_SSSS Puta 22.3 41 0.00088 22.7 0.7 9 2-10 8-16 (41)
356 PF03107 C1_2: C1 domain; Int 22.3 84 0.0018 20.5 2.2 28 1-30 2-29 (30)
357 PF13094 CENP-Q: CENP-Q, a CEN 22.3 3.3E+02 0.0072 24.1 6.8 48 184-231 37-84 (160)
358 PF06810 Phage_GP20: Phage min 22.2 3.3E+02 0.0071 24.6 6.7 11 231-241 95-105 (155)
359 PF15219 TEX12: Testis-express 22.2 4.3E+02 0.0093 22.4 6.8 62 160-224 7-76 (100)
360 PF01428 zf-AN1: AN1-like Zinc 22.1 60 0.0013 22.9 1.6 23 5-31 6-28 (43)
361 KOG4323 Polycomb-like PHD Zn-f 22.1 37 0.0008 36.1 0.7 54 1-60 170-227 (464)
362 KOG2911 Uncharacterized conser 22.1 6.5E+02 0.014 26.8 9.6 41 181-221 233-273 (439)
363 PLN02381 valyl-tRNA synthetase 22.1 2.3E+02 0.005 33.2 7.1 58 193-250 995-1059(1066)
364 PF09787 Golgin_A5: Golgin sub 22.1 4.9E+02 0.011 27.7 9.1 8 246-253 196-203 (511)
365 PF10752 DUF2533: Protein of u 21.9 4.7E+02 0.01 21.7 7.3 40 213-252 23-63 (84)
366 KOG0971 Microtubule-associated 21.7 1.4E+03 0.03 27.1 13.6 121 126-251 167-324 (1243)
367 TIGR00293 prefoldin, archaeal 21.7 4E+02 0.0087 22.4 6.9 71 183-253 1-102 (126)
368 PF11331 DUF3133: Protein of u 21.5 53 0.0011 24.2 1.2 20 44-63 2-21 (46)
369 PRK06424 transcription factor; 21.4 3.5E+02 0.0076 24.2 6.7 13 45-57 20-32 (144)
370 PRK10328 DNA binding protein, 21.3 5.8E+02 0.013 22.6 8.2 55 197-251 11-66 (134)
371 PRK06746 peptide chain release 21.2 8E+02 0.017 25.1 9.9 76 183-260 7-85 (326)
372 PF08614 ATG16: Autophagy prot 21.2 95 0.0021 28.6 3.1 11 210-220 103-113 (194)
373 PRK05978 hypothetical protein; 21.2 55 0.0012 29.6 1.5 16 46-61 50-65 (148)
374 PF14932 HAUS-augmin3: HAUS au 21.1 6.4E+02 0.014 24.3 9.0 15 212-226 113-127 (256)
375 PRK05580 primosome assembly pr 21.1 59 0.0013 35.8 2.0 15 18-32 383-398 (679)
376 cd00202 ZnF_GATA Zinc finger D 20.8 45 0.00098 25.0 0.7 16 46-61 19-34 (54)
377 PF14835 zf-RING_6: zf-RING of 20.8 68 0.0015 25.4 1.7 27 2-33 10-37 (65)
378 KOG1003 Actin filament-coating 20.8 5.3E+02 0.011 24.7 7.9 57 192-249 8-72 (205)
379 PRK14127 cell division protein 20.7 2E+02 0.0042 24.9 4.7 34 186-219 35-68 (109)
380 cd02340 ZZ_NBR1_like Zinc fing 20.6 53 0.0012 23.4 1.1 29 1-32 2-31 (43)
381 KOG2077 JNK/SAPK-associated pr 20.6 1.6E+02 0.0034 32.6 4.9 23 199-221 354-376 (832)
382 COG1340 Uncharacterized archae 20.3 7.1E+02 0.015 25.1 9.1 71 183-256 202-277 (294)
383 PF04124 Dor1: Dor1-like famil 20.2 4.8E+02 0.01 26.1 8.1 39 192-230 11-49 (338)
384 PF05377 FlaC_arch: Flagella a 20.2 4.1E+02 0.0088 20.4 6.0 28 197-224 16-43 (55)
385 COG0525 ValS Valyl-tRNA synthe 20.2 2.3E+02 0.005 32.7 6.4 60 194-253 813-872 (877)
386 PF11488 Lge1: Transcriptional 20.1 1.8E+02 0.0038 23.3 4.1 26 197-222 53-78 (80)
387 PF02344 Myc-LZ: Myc leucine z 20.1 2E+02 0.0044 19.7 3.7 24 192-215 5-28 (32)
388 PRK01885 greB transcription el 20.1 3.2E+02 0.0069 24.6 6.2 57 197-253 12-70 (157)
389 PF03449 GreA_GreB_N: Transcri 20.1 3.7E+02 0.0081 21.3 5.9 57 197-253 11-69 (74)
390 PRK12705 hypothetical protein; 20.1 5E+02 0.011 28.1 8.6 20 211-230 125-144 (508)
391 PF09551 Spore_II_R: Stage II 20.1 2.5E+02 0.0054 25.0 5.3 25 229-253 40-64 (130)
No 1
>PF08381 BRX: Transcription factor regulating root and shoot growth via Pin3; InterPro: IPR013591 This is a short domain, approximately 35 residues in length that is found near the C terminus in a number of plant proteins, being repeated in some members. It is found in Brevis radix-like proteins. These may act as a regulator of cell proliferation and elongation in the root []. It is also found in proteins annotated as involved in disease resistance and in the regulation of chromosome condensation, which also contain other domains with varied functions, such as TIR (IPR000157 from INTERPRO) and FYVE (IPR000306 from INTERPRO) respectively.
Probab=99.90 E-value=2.1e-24 Score=163.50 Aligned_cols=45 Identities=56% Similarity=0.951 Sum_probs=43.7
Q ss_pred CCCceeeeeCCceEEEEEeCCCCccceeEEEE---ecChhhHHHhhhh
Q 040121 323 NDNEWIEQDDPGGYIALTSLPGGLNYLKRVRF---RFMETRIDKRRKE 367 (368)
Q Consensus 323 ~~~ewveq~epgv~it~~~~~~g~~~lkrvrf---~f~e~~a~~ww~e 367 (368)
.+.|||||+||||||||+++|||+++|||||| +|+|+||+.||+|
T Consensus 2 ~~~Ewveq~EpGVyiTl~~~p~G~~~LkRVRFSR~~F~e~qA~~WW~e 49 (59)
T PF08381_consen 2 EEKEWVEQDEPGVYITLVSLPDGGNDLKRVRFSRERFSEWQAERWWEE 49 (59)
T ss_pred CCccEEEeeCCeeEEEEEECCCCCeeEEEEEEhhhhcCHHHHHHHHHH
Confidence 57899999999999999999999999999999 9999999999997
No 2
>PF13713 BRX_N: Transcription factor BRX N-terminal domain
Probab=99.65 E-value=6.2e-17 Score=113.58 Aligned_cols=38 Identities=79% Similarity=1.018 Sum_probs=34.4
Q ss_pred HHhhhhhhhHHHHHHHHHHHHHHHHHhCCCCcccCCCCC
Q 040121 226 GEETAKCKAAKEVIKSLTAQLKDMAERLPVGTLRNIKSP 264 (368)
Q Consensus 226 ~eEsaK~kAAKEvIKSLTaQLKdMAeKLp~g~~~~~k~~ 264 (368)
+|||+|||||||||||||+||||||+||| |++++++++
T Consensus 1 ~eEaak~kaaKe~IKsLt~QlK~maekl~-~~~~~~k~~ 38 (39)
T PF13713_consen 1 AEEAAKCKAAKEVIKSLTAQLKDMAEKLP-GAYRNCKPC 38 (39)
T ss_pred CccccccHHHHHHHHHHHHHHHHHHHhCc-hhhhccCCC
Confidence 58999999999999999999999999995 777777764
No 3
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 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. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=99.52 E-value=2.3e-15 Score=116.32 Aligned_cols=58 Identities=36% Similarity=0.714 Sum_probs=40.3
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhh
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLR 59 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~ 59 (368)
.|+.|+++|+ |++||||||.||.+||..|+.+...++........++|||+.||..|+
T Consensus 11 ~C~~C~~~F~-~~~rrhhCr~CG~~vC~~Cs~~~~~~~~~~~~~~~~~RvC~~C~~~~~ 68 (69)
T PF01363_consen 11 NCMICGKKFS-LFRRRHHCRNCGRVVCSSCSSQRIPLPTPSSGSGEPVRVCDSCYSKLQ 68 (69)
T ss_dssp B-TTT--B-B-SSS-EEE-TTT--EEECCCS-EEEEET--GGTESEEEEE-HHHHHHHH
T ss_pred cCcCcCCcCC-CceeeEccCCCCCEECCchhCCEEcccccccCCCCcCEECHHHHHHhc
Confidence 4899999999 889999999999999999999988776222345899999999999886
No 4
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.43 E-value=3.2e-14 Score=149.67 Aligned_cols=61 Identities=34% Similarity=0.706 Sum_probs=57.0
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhhccCC
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRKAFHT 64 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~~~e~ 64 (368)
.|..|+..|+ |+.|+||||+||+|||..|+++.+.+|.+|. .+++|||+.||+.|.+...+
T Consensus 167 ~C~rCr~~F~-~~~rkHHCr~CG~vFC~qcss~s~~lP~~Gi--~~~VRVCd~C~E~l~~~s~~ 227 (634)
T KOG1818|consen 167 ECLRCRVKFG-LTNRKHHCRNCGQVFCGQCSSKSLTLPKLGI--EKPVRVCDSCYELLTRASVG 227 (634)
T ss_pred ccceeeeeee-eccccccccccchhhccCccccccCcccccc--cccceehhhhHHHhhhcccc
Confidence 4999999999 8899999999999999999999999999985 79999999999999887665
No 6
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=99.28 E-value=1.3e-12 Score=97.06 Aligned_cols=53 Identities=42% Similarity=0.919 Sum_probs=47.3
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHH
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFS 56 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~ 56 (368)
.|+.|++.|+ ++.|+|||+.||.+||..|+.+...++.+ ...+++|||+.||.
T Consensus 4 ~C~~C~~~F~-~~~rk~~Cr~Cg~~~C~~C~~~~~~~~~~--~~~~~~rvC~~C~~ 56 (57)
T cd00065 4 SCMGCGKPFT-LTRRRHHCRNCGRIFCSKCSSNRIPLPSM--GGGKPVRVCDSCYE 56 (57)
T ss_pred cCcccCcccc-CCccccccCcCcCCcChHHcCCeeecCcc--cCCCccEeChHHhC
Confidence 4899999999 88899999999999999999998877654 35799999999985
No 7
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=99.18 E-value=3.7e-12 Score=124.30 Aligned_cols=56 Identities=34% Similarity=0.739 Sum_probs=50.5
Q ss_pred CCCCCCC-CCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhh
Q 040121 1 MRSGCRL-PFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRK 60 (368)
Q Consensus 1 ~C~~C~~-~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~ 60 (368)
.|+.|.. .|+ ++.||||||+||.|||..|+.+...++.+ ..++.|||+.||..|..
T Consensus 170 ~C~~C~~~~Ft-l~~RRHHCR~CG~ivC~~Cs~n~~~l~~~---~~k~~rvC~~CF~el~~ 226 (288)
T KOG1729|consen 170 ECMVCGCTEFT-LSERRHHCRNCGDIVCAPCSRNRFLLPNL---STKPIRVCDICFEELEK 226 (288)
T ss_pred ecccCCCcccc-HHHHHHHHHhcchHhhhhhhcCccccccc---CCCCceecHHHHHHHhc
Confidence 4999999 999 99999999999999999999998766654 57999999999999976
No 8
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=99.16 E-value=1.3e-11 Score=131.23 Aligned_cols=60 Identities=17% Similarity=0.486 Sum_probs=45.2
Q ss_pred CCCCCCCCCCcc----cccccccccCCceeeCCCCCccccccc--C---C-CCCCCCcccccchHHHhhh
Q 040121 1 MRSGCRLPFNNF----KRKRHNCYNYGMVFCHSSSSKKTLKAS--M---A-PNPNKPYRICDNCFSKLRK 60 (368)
Q Consensus 1 ~C~~C~~~F~~f----~rRRHHCR~CG~VfC~sCSs~~~~~~~--l---~-p~~~kpvRVC~~C~~~L~~ 60 (368)
.|+.|+++|+.+ +.||||||+||.+||..|++++..++. + + +....++|||+.||..+..
T Consensus 462 tC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs~yp~aKLpKPgsseE~ppRRVCD~CYdq~En 531 (1374)
T PTZ00303 462 SCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRAHYSFAKLAKPGSSDEAEERLVCDTCYKEYET 531 (1374)
T ss_pred cccCcCCcccccccccccccccccCCccccCccccCCcccCcccccCCCCCcccccccchhHHHHHHHHh
Confidence 499999999833 258999999999999999998865321 1 1 1224577999999966543
No 9
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=99.11 E-value=1.5e-11 Score=126.24 Aligned_cols=54 Identities=31% Similarity=0.725 Sum_probs=49.1
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCccccc-----chHHH
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICD-----NCFSK 57 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~-----~C~~~ 57 (368)
.|+.|+.+|+ ++|||||||+||.|||+.|+...+++|..+. .+..|||. .||..
T Consensus 903 ~cmacq~pf~-afrrrhhcrncggifcg~cs~asapip~~gl--~ka~rvcrpqsnldc~~r 961 (990)
T KOG1819|consen 903 QCMACQMPFN-AFRRRHHCRNCGGIFCGKCSCASAPIPEHGL--DKAPRVCRPQSNLDCLTR 961 (990)
T ss_pred hhhhccCcHH-HHHHhhhhcccCceeecccccCCCCCccccc--ccCceecCCcccccceee
Confidence 4999999999 8899999999999999999999999988775 78999999 77764
No 10
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=98.63 E-value=2.2e-09 Score=109.05 Aligned_cols=60 Identities=27% Similarity=0.626 Sum_probs=45.9
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCccccc----------cc--CC--------CCCCCCcccccchHHHhhh
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLK----------AS--MA--------PNPNKPYRICDNCFSKLRK 60 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~----------~~--l~--------p~~~kpvRVC~~C~~~L~~ 60 (368)
.|..|..+|+ +++||||||.||.|.|+.|+..-..- +. +. +....++|+|..|...|..
T Consensus 182 ~CP~Ca~~F~-l~rRrHHCRLCG~VmC~~C~k~iSle~a~~ltsss~~dt~~e~~qq~~~lH~~~~~iRlC~hCl~~L~~ 260 (505)
T KOG1842|consen 182 FCPECANSFG-LTRRRHHCRLCGRVMCRDCSKFISLEIAIGLTSSSASDTHFEPNQQKDDLHQHPQPIRLCMHCLDNLFR 260 (505)
T ss_pred ccccccchhh-hHHHhhhhhhcchHHHHHHHHhcChHHHHHHhhccCCCCCcCcccCcccccCChhHhHHHHHHHHHHHH
Confidence 3999999999 99999999999999999998753210 00 00 1124569999999999876
Q ss_pred c
Q 040121 61 A 61 (368)
Q Consensus 61 ~ 61 (368)
.
T Consensus 261 R 261 (505)
T KOG1842|consen 261 R 261 (505)
T ss_pred H
Confidence 4
No 11
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=98.29 E-value=1.5e-07 Score=104.09 Aligned_cols=50 Identities=20% Similarity=0.373 Sum_probs=40.0
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccch
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNC 54 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C 54 (368)
.|+.|.+.|+ +++||||||+||+|+|+.|+..+..+-.+. -..-|||..|
T Consensus 559 ncm~clqkft-~ikrrhhcRacgkVlcgvccnek~~leyl~---e~~~rv~nV~ 608 (1287)
T KOG1841|consen 559 NCMDCLQKFT-PIKRRHHCRACGKVLCGVCCNEKSALEYLS---ESEGRVSNVD 608 (1287)
T ss_pred hHHHHHhhcc-cccccccchhccceeehhhcchhhhhhhcC---cccccccccc
Confidence 3899999999 999999999999999999999987664442 2444555555
No 12
>KOG1843 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.07 E-value=9e-07 Score=89.68 Aligned_cols=58 Identities=17% Similarity=0.246 Sum_probs=49.8
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhh
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLR 59 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~ 59 (368)
.|++|..+|+.++-||||||.|+.+||..|+..+..+|.- +--..++|||+.|+..|.
T Consensus 162 lfagvSvegsaI~erR~anR~~yg~~cra~~ilsg~vp~p-~a~d~l~RVldS~~~nl~ 219 (473)
T KOG1843|consen 162 LFAGVSVEGSAIIERREANRKFYGIFCRAKSILSGLVPVP-FAADPLQRVLDSCAFNLE 219 (473)
T ss_pred ceeeeecccceeeecchhhhhhcCccchhhhhhccCCCCC-cccCCHHHHHhhHhhccC
Confidence 4899999999999999999999999999999887666432 234789999999999993
No 13
>KOG1409 consensus Uncharacterized conserved protein, contains WD40 repeats and FYVE domains [Function unknown]
Probab=98.03 E-value=8.8e-07 Score=88.32 Aligned_cols=60 Identities=23% Similarity=0.582 Sum_probs=50.9
Q ss_pred CCCCCCCCC----------cccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhhccC
Q 040121 2 RSGCRLPFN----------NFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRKAFH 63 (368)
Q Consensus 2 C~~C~~~F~----------~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~~~e 63 (368)
|..|.++|. .+.-|.||||.||..+|..|++++...|.+++ ...+|+|+.||..+.....
T Consensus 285 cQ~c~qpffwn~~~m~~~k~~glr~h~crkcg~avc~~c~s~~~~~p~mg~--e~~vR~~~~c~~~i~~~~~ 354 (404)
T KOG1409|consen 285 CQKCNQPFFWNFRQMWDRKQLGLRQHHCRKCGKAVCGKCSSNRSSYPTMGF--EFSVRVCDSCYPTIKDEER 354 (404)
T ss_pred hhhhCchHHHHHHHHHhhhhhhhhhhhhhhhhhhcCcccccCccccccccc--eeEEEEecccchhhhcCCC
Confidence 778888885 12357899999999999999999999888876 7899999999999977644
No 14
>KOG4424 consensus Predicted Rho/Rac guanine nucleotide exchange factor/faciogenital dysplasia protein 3 [Signal transduction mechanisms]
Probab=97.67 E-value=8.7e-06 Score=85.60 Aligned_cols=62 Identities=21% Similarity=0.403 Sum_probs=53.2
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhhccCCC
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRKAFHTD 65 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~~~e~~ 65 (368)
.|..|+.+|+..+.|||||+.||.|+|+.|+.++.. +.++.+...|||..||.....+..+.
T Consensus 417 ~c~~c~e~~~s~t~~R~~~k~~~~vlc~~cs~~~~~---l~~~~s~ssrv~~~~~~~~~~a~~s~ 478 (623)
T KOG4424|consen 417 SCDSCEETFNSITFRRHRCKAKGAVLCDKCSDFMAK---LSYDNSRSSRVCMDRYLTPSGAPGSP 478 (623)
T ss_pred cchhhcCchhhHHHhhhhhhhccceeeccccchhhh---hcccccchhhhhhhhccCCCCCCCCc
Confidence 489999999999999999999999999999998654 34567899999999999887775543
No 15
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=96.76 E-value=0.00084 Score=57.57 Aligned_cols=51 Identities=16% Similarity=0.395 Sum_probs=41.1
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhh
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRK 60 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~ 60 (368)
.|..|+.+|++++.+.+.|..|+.-+|..|... ..+.+.-+|..|+....-
T Consensus 56 ~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~---------~~~~~~WlC~vC~k~rel 106 (118)
T PF02318_consen 56 HCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY---------SKKEPIWLCKVCQKQREL 106 (118)
T ss_dssp B-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE---------TSSSCCEEEHHHHHHHHH
T ss_pred chhhhCCcccccCCCCCcCCcCCccccCccCCc---------CCCCCCEEChhhHHHHHH
Confidence 489999999977788999999999999999866 135778899999987543
No 16
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=96.61 E-value=0.001 Score=76.46 Aligned_cols=46 Identities=26% Similarity=0.699 Sum_probs=36.4
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhh
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRK 60 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~ 60 (368)
+|..|. + ..+|+|||+.||++||..|... .-..+|||..|+.....
T Consensus 7 ~~~~~~---t-~~~~~~~~~~~g~~~~~~~~~~----------~~~~i~~~~~~~~~~~~ 52 (1598)
T KOG0230|consen 7 VCYDCD---T-SVNRRHHCRVCGRVFCSKCQDS----------PETSIRVCNECRGQWEQ 52 (1598)
T ss_pred chhccc---c-ccccCCCCcccCceeccccCCC----------Cccceeehhhhhhhccc
Confidence 477777 4 5568999999999999999821 12489999999998754
No 17
>KOG1811 consensus Predicted Zn2+-binding protein, contains FYVE domain [General function prediction only]
Probab=96.08 E-value=0.00073 Score=72.20 Aligned_cols=54 Identities=26% Similarity=0.520 Sum_probs=42.5
Q ss_pred CCC-CCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHh
Q 040121 2 RSG-CRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKL 58 (368)
Q Consensus 2 C~~-C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L 58 (368)
|+. |+..|. .+.||||||.||...|..|...+.....-+ ...|.++||.|+.+-
T Consensus 329 ~~a~~R~~~k-d~~Rk~~~~g~Ga~e~aa~ea~kgiqEd~g--se~~Adg~Dq~psvs 383 (1141)
T KOG1811|consen 329 CMACCREHFK-DFNRKHHCRGCGALECAACEAKKGIQEDCG--SENPADGCDQCPSVS 383 (1141)
T ss_pred HHHHHHHHHH-HHHHhhhccccchHHHhHHHHhhhhhhccc--ccCcccccccccchh
Confidence 443 566787 778999999999999999998876643332 468999999999653
No 18
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=94.99 E-value=0.013 Score=67.74 Aligned_cols=52 Identities=23% Similarity=0.442 Sum_probs=36.5
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhhccCC
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRKAFHT 64 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~~~e~ 64 (368)
.|+.|.+.|. -+||+||| ||++||.+| +.....+ ..... +.|.........+
T Consensus 99 ec~~~~~~~~-t~Rr~~~~--~gqi~~ss~----~~~~~~~--~~~e~---d~c~~~~~~~~~s 150 (1598)
T KOG0230|consen 99 ECYDCEQKFE-TFRRKHHC--CGQIFCSSC----IDGMSIR--CDGEL---DYCSRYVEDFAKS 150 (1598)
T ss_pred hhhhhccchh-hhhccccc--CccccCCcc----cCCcccc--ccccc---chhHHHhhhhhcc
Confidence 3999999999 77899999 999999999 1111111 12222 8888877665553
No 19
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function.
Probab=89.47 E-value=2.3 Score=40.89 Aligned_cols=65 Identities=22% Similarity=0.290 Sum_probs=53.7
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDM 249 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdM 249 (368)
.++|++-|+++-.++..+.++-+.++.++++...++++|..--..=+. ++.++|+..|-..||++
T Consensus 45 ~~eLk~qnkli~K~l~ei~~~qd~reK~~~~I~ssL~eTtkdf~~~~~--k~~~dF~~~Lq~~Lk~V 109 (230)
T PF03904_consen 45 IQELKRQNKLIIKYLSEIEEKQDIREKNLKEIKSSLEETTKDFIDKTE--KVHNDFQDILQDELKDV 109 (230)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhh
Confidence 478999999999999999999999999999999999998765555443 56778888887777765
No 20
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=86.76 E-value=0.21 Score=49.47 Aligned_cols=55 Identities=20% Similarity=0.320 Sum_probs=39.3
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCCCCccccc----ccCCCCCCCCcccccchHHH
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLK----ASMAPNPNKPYRICDNCFSK 57 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~----~~l~p~~~kpvRVC~~C~~~ 57 (368)
|..|...|. |.+|+|||+.||++||..|...+... +.+..-.+.....|..|+..
T Consensus 23 ~~~~~~e~~-~~~r~~~~~~~grv~~~q~~~~k~~rk~~q~r~~~l~~D~~~~~~~~~~~ 81 (288)
T KOG1729|consen 23 CRNCKVEFC-FGRRGHPCRECGRVLCRQGTLVKRCRKKLQSRSFFLFNDILVYGNIVSDN 81 (288)
T ss_pred hhhhcccch-hhhccCcccccchhhhhhhhhHHHHhcccccccccccccchhhcccccCH
Confidence 677888999 88999999999999999998722221 22211235666777777766
No 21
>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=85.64 E-value=5.3 Score=35.58 Aligned_cols=48 Identities=38% Similarity=0.423 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHH
Q 040121 189 TNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKE 237 (368)
Q Consensus 189 ~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKE 237 (368)
.|.-+.+||.+|++|.++++.+|.++..+++++-..+ +|+.|....-|
T Consensus 29 ~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~l-ee~~~~~~~~E 76 (143)
T PF12718_consen 29 ENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKL-EESEKRKSNAE 76 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhHHHHHHhHH
Confidence 3334445599999999999999999999999987755 56677666555
No 22
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=82.50 E-value=0.72 Score=41.82 Aligned_cols=25 Identities=32% Similarity=0.522 Sum_probs=14.5
Q ss_pred CCCCCCCCC-----------cccccccccccCCcee
Q 040121 2 RSGCRLPFN-----------NFKRKRHNCYNYGMVF 26 (368)
Q Consensus 2 C~~C~~~F~-----------~f~rRRHHCR~CG~Vf 26 (368)
|+.|+.+++ ...+|+++|.+||.-|
T Consensus 3 cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f 38 (154)
T PRK00464 3 CPFCGHPDTRVIDSRPAEDGNAIRRRRECLACGKRF 38 (154)
T ss_pred CCCCCCCCCEeEeccccCCCCceeeeeeccccCCcc
Confidence 777776662 1234457777776643
No 23
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=82.03 E-value=0.31 Score=36.49 Aligned_cols=31 Identities=26% Similarity=0.494 Sum_probs=18.7
Q ss_pred CCCCCCCCCCccc-----ccccccccCCceeeCCCC
Q 040121 1 MRSGCRLPFNNFK-----RKRHNCYNYGMVFCHSSS 31 (368)
Q Consensus 1 ~C~~C~~~F~~f~-----rRRHHCR~CG~VfC~sCS 31 (368)
.|++|.++|.... ..++.|..|+.+||..|=
T Consensus 1 ~CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD 36 (51)
T PF07975_consen 1 YCFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCD 36 (51)
T ss_dssp EETTTTEE-TTS-------EEE--TTTT--B-HHHH
T ss_pred CCccCCCCCCCcccccccCCeEECCCCCCccccCcC
Confidence 3899999998321 247999999999999884
No 24
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=81.30 E-value=10 Score=41.01 Aligned_cols=27 Identities=26% Similarity=0.406 Sum_probs=14.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHhHHHHHH
Q 040121 185 DAKRTNDRVGQEVENHTRKAQLQEVEL 211 (368)
Q Consensus 185 ~lkk~n~~L~qEV~~L~~k~~~q~~el 211 (368)
+|.+.|..|.+|+..|+.+.+.++.+|
T Consensus 154 eL~~~~~~Le~e~~~l~~~v~~l~~eL 180 (546)
T PF07888_consen 154 ELLKENEQLEEEVEQLREEVERLEAEL 180 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355555566666555555544444444
No 25
>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=79.02 E-value=16 Score=32.47 Aligned_cols=57 Identities=30% Similarity=0.366 Sum_probs=36.5
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
+++|.++.+++|.+|..+.+++.+|..-..+=..|---.---++.|-.+..++-.|+
T Consensus 75 ~E~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~ 131 (143)
T PF12718_consen 75 AEQLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKY 131 (143)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHH
Confidence 578889999999999999999998876544322222222223556665555554443
No 26
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=78.08 E-value=1.3 Score=37.97 Aligned_cols=25 Identities=16% Similarity=0.375 Sum_probs=13.7
Q ss_pred CCCCCCCCCCcccccccccccCCce
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMV 25 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~V 25 (368)
+|..|+..|--|-+.--+|..||.+
T Consensus 11 ~Cp~CG~kFYDLnk~PivCP~CG~~ 35 (108)
T PF09538_consen 11 TCPSCGAKFYDLNKDPIVCPKCGTE 35 (108)
T ss_pred cCCCCcchhccCCCCCccCCCCCCc
Confidence 4777777776343333445555554
No 27
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=76.91 E-value=20 Score=29.61 Aligned_cols=20 Identities=50% Similarity=0.627 Sum_probs=10.2
Q ss_pred hhHHHHHHHHHHHHHHHHHh
Q 040121 233 KAAKEVIKSLTAQLKDMAER 252 (368)
Q Consensus 233 kAAKEvIKSLTaQLKdMAeK 252 (368)
+.-|+-|+.|.++++++-++
T Consensus 77 ~~lk~~i~~le~~~~~~e~~ 96 (108)
T PF02403_consen 77 KELKEEIKELEEQLKELEEE 96 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555554443
No 28
>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=76.86 E-value=26 Score=30.85 Aligned_cols=55 Identities=24% Similarity=0.255 Sum_probs=39.4
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAE 251 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAe 251 (368)
+..|...-+.+...+++++.++.++---++---++.++++.-|+.+...||...+
T Consensus 61 ~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~ke 115 (151)
T PF11559_consen 61 LRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKE 115 (151)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666666777777788888877777666666667777788888888876665544
No 29
>PF06428 Sec2p: GDP/GTP exchange factor Sec2p; InterPro: IPR009449 In Saccharomyces cerevisiae, Sec2p is a GDP/GTP exchange factor for Sec4p, which is required for vesicular transport at the post-Golgi stage of yeast secretion []. It catalyzes the dissociation of GDP from SEC4 and also potently promoting binding of GTP. Activation of SEC4 by SEC2 is needed for the directed transport of vesicles to sites of exocytosis. Binds the Rab GTPase YPT32, but does not have exhange activity on YPT32 [, , ].; PDB: 2EQB_C 2E7S_K 2OCY_A.
Probab=75.34 E-value=15 Score=31.19 Aligned_cols=57 Identities=28% Similarity=0.284 Sum_probs=44.6
Q ss_pred HHHHHHHHhHHHHHHHHHHHHH-HHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQEVELERTTKQL-KEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~-~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
...+.+..+..+.||+.+...| +||-.|+++|---.-++..=...|..||+|....|
T Consensus 10 r~~ae~~~~~ie~ElEeLTasLFeEAN~MVa~ar~e~~~~e~k~~~le~~l~e~~~~l 67 (100)
T PF06428_consen 10 REEAEQEKEQIESELEELTASLFEEANKMVADARRERAALEEKNEQLEKQLKEKEALL 67 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTHHCHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6678888888999999999999 99999998877555555555666777777765555
No 30
>KOG0993 consensus Rab5 GTPase effector Rabaptin-5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.83 E-value=0.19 Score=51.89 Aligned_cols=56 Identities=16% Similarity=0.320 Sum_probs=44.2
Q ss_pred CCCCCCCCCCccccccccccc--CCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhhc
Q 040121 1 MRSGCRLPFNNFKRKRHNCYN--YGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRKA 61 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~--CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~~ 61 (368)
.|..|...|. -++-..||-+ |+++||-.|+.-.++ .+. ...+..||..|+..+...
T Consensus 470 ~c~~~~aS~~-slk~e~erl~qq~eqi~~~~~~Katvp--~l~--~e~~akv~rlq~eL~~se 527 (542)
T KOG0993|consen 470 QCSNCDASFA-SLKVEPERLHQQCEQIFCMNCLKATVP--SLP--NERPAKVCRLQHELLNSE 527 (542)
T ss_pred HHHHHHHHHH-HHhccHHHHHHHHHHHHHHhHHHhhcc--ccc--ccchHHHHHHHHHHhhhc
Confidence 3888999998 5566788887 999999999876553 432 368889999999988654
No 31
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.36 E-value=1.3 Score=47.08 Aligned_cols=50 Identities=20% Similarity=0.206 Sum_probs=37.4
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhh
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRK 60 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~ 60 (368)
.|.+|=.++. +-.+ -+||.|||..|.=..+..+ ..+..+-|--|+..+.-
T Consensus 188 ~CPICL~~~~-~p~~----t~CGHiFC~~CiLqy~~~s-----~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 188 QCPICLEPPS-VPVR----TNCGHIFCGPCILQYWNYS-----AIKGPCSCPICRSTITL 237 (513)
T ss_pred cCCcccCCCC-cccc----cccCceeeHHHHHHHHhhh-----cccCCccCCchhhhccc
Confidence 5999988777 4333 3599999999986655433 36778899999998754
No 32
>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function. ; PDB: 4DCI_C.
Probab=73.79 E-value=53 Score=29.07 Aligned_cols=57 Identities=23% Similarity=0.334 Sum_probs=40.0
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHH----HHHHHH----HHhhhhhhhHHHHHHHHHHHHHHHHHhCCCCc
Q 040121 197 VENHTRKAQLQEVELERTTKQLK----EAIAIA----GEETAKCKAAKEVIKSLTAQLKDMAERLPVGT 257 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~----Ea~~lA----~eEsaK~kAAKEvIKSLTaQLKdMAeKLp~g~ 257 (368)
+..|..+|++++.+.++.-+.++ ....-+ ..|-++. .|.++-|+.||+.+ +.||-|.
T Consensus 29 i~~~d~el~QLefq~kr~~~e~~~~~~~~~~~i~~q~~~e~~~r---~e~k~~l~~ql~qv-~~L~lgs 93 (131)
T PF11068_consen 29 IQQLDQELQQLEFQGKRMIKEIKKQNAQQIQSIQQQFEQEKQER---LEQKNQLLQQLEQV-QKLELGS 93 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH-HHS-TT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcchhhHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH-hcCCCCC
Confidence 78888888888888888777765 333333 3333333 67888999999998 8999884
No 33
>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=73.79 E-value=22 Score=33.01 Aligned_cols=29 Identities=21% Similarity=0.223 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 192 RVGQEVENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 192 ~L~qEV~~L~~k~~~q~~elq~~~kk~~E 220 (368)
.|..|.+.|+.+...+..+++..+++.++
T Consensus 131 ~L~~e~~~L~~~~~~l~~~~e~~ek~~~e 159 (189)
T PF10211_consen 131 ELEEEKEELEKQVQELKNKCEQLEKREEE 159 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444333444444443333
No 34
>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed. It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].
Probab=72.89 E-value=27 Score=34.93 Aligned_cols=69 Identities=22% Similarity=0.382 Sum_probs=52.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHhH-----------HHHHHHHHHHHHHHHHHHHHHhhhhhhhHHH-------HHHHHHHHH
Q 040121 185 DAKRTNDRVGQEVENHTRKAQL-----------QEVELERTTKQLKEAIAIAGEETAKCKAAKE-------VIKSLTAQL 246 (368)
Q Consensus 185 ~lkk~n~~L~qEV~~L~~k~~~-----------q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKE-------vIKSLTaQL 246 (368)
-+...|+.|.+-.+.|-.+++. .++|+|....|++.+..++..|.+|++.=++ =|..|..+-
T Consensus 132 k~~~eN~~L~eKlK~l~eQye~rE~~~~~~~k~keLE~Ql~~AKl~q~~~~~~~e~~k~~~~~~~~l~~~~~~~~~~~~E 211 (309)
T PF09728_consen 132 KLREENEELREKLKSLIEQYELREEHFEKLLKQKELEVQLAEAKLEQQQEEAEQEKEKAKQEKEILLEEAAQVQTLKETE 211 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566677777666666666554 4579999999999999999999999999888 666666666
Q ss_pred HHHHHhC
Q 040121 247 KDMAERL 253 (368)
Q Consensus 247 KdMAeKL 253 (368)
++|-..|
T Consensus 212 ~~Lr~QL 218 (309)
T PF09728_consen 212 KELREQL 218 (309)
T ss_pred HHHHHHH
Confidence 6665555
No 35
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=71.45 E-value=2.5 Score=37.44 Aligned_cols=25 Identities=12% Similarity=0.106 Sum_probs=15.0
Q ss_pred CCCCCCCCCCcccccccccccCCce
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMV 25 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~V 25 (368)
+|..|+++|--|.+.-.+|..||.+
T Consensus 11 ~Cp~cg~kFYDLnk~p~vcP~cg~~ 35 (129)
T TIGR02300 11 ICPNTGSKFYDLNRRPAVSPYTGEQ 35 (129)
T ss_pred cCCCcCccccccCCCCccCCCcCCc
Confidence 4777777776444545556666554
No 36
>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=71.11 E-value=18 Score=33.64 Aligned_cols=59 Identities=20% Similarity=0.333 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 194 GQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 194 ~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
..+++.|+.+.+..+.+|..++.+++++ ...++|+..+.+..+=++.|..+++.+-..|
T Consensus 68 ~~~~~~l~~~~~~~~~~i~~l~~~i~~~-~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el 126 (188)
T PF03962_consen 68 QNKLEKLQKEIEELEKKIEELEEKIEEA-KKGREESEEREELLEELEELKKELKELKKEL 126 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhcccccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3346666677777777777777777777 5566777566555555666665555555544
No 37
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=70.44 E-value=40 Score=30.48 Aligned_cols=66 Identities=18% Similarity=0.323 Sum_probs=48.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 040121 185 DAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMA 250 (368)
Q Consensus 185 ~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMA 250 (368)
+++.....|.+|...+.++....+.++...+....+.-..-.+.-++-++.++.+|.+..++.++-
T Consensus 85 ~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~ 150 (191)
T PF04156_consen 85 ELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQ 150 (191)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555677888888888888888888777777776666777777778888888887777765
No 38
>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=69.99 E-value=24 Score=38.29 Aligned_cols=66 Identities=29% Similarity=0.356 Sum_probs=41.9
Q ss_pred chhhhHHHHHHHHHHHHHH---HHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHT---RKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMA 250 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~---~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMA 250 (368)
++++-.--+-+.+|...|. ..++.++.+++++.+++.++..-- -..++++|+++=|.++++||+++
T Consensus 320 ~~~l~~~~~~~~~el~~L~~~~~~~~~Le~~~~~l~~~~~~~A~~L--s~~R~~~A~~L~~~v~~eL~~L~ 388 (557)
T COG0497 320 IEDLLEYLDKIKEELAQLDNSEESLEALEKEVKKLKAELLEAAEAL--SAIRKKAAKELEKEVTAELKALA 388 (557)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHhcC
Confidence 3444444445555544444 445666666666666666542221 14578899999999999999974
No 39
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=69.79 E-value=9.2 Score=30.71 Aligned_cols=32 Identities=28% Similarity=0.416 Sum_probs=21.1
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERT 214 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~ 214 (368)
++.||..|..|.|||.++++..+.++.|-+.+
T Consensus 27 ieELKEknn~l~~e~q~~q~~reaL~~eneql 58 (79)
T COG3074 27 IEELKEKNNSLSQEVQNAQHQREALERENEQL 58 (79)
T ss_pred HHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHH
Confidence 56777777777777777776666655554433
No 40
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=69.77 E-value=3.1 Score=29.24 Aligned_cols=26 Identities=23% Similarity=0.538 Sum_probs=20.1
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCC
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSS 30 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sC 30 (368)
|..|++.-. ++ ...|+.||.+||...
T Consensus 1 C~~C~~~~~-l~--~f~C~~C~~~FC~~H 26 (39)
T smart00154 1 CHFCRKKVG-LT--GFKCRHCGNLFCGEH 26 (39)
T ss_pred CcccCCccc-cc--CeECCccCCcccccc
Confidence 778887655 43 478999999999864
No 41
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=69.19 E-value=3.3 Score=35.82 Aligned_cols=33 Identities=27% Similarity=0.442 Sum_probs=25.0
Q ss_pred CCCCCCCCCCcc---------cccccccccCCceeeCCCCCc
Q 040121 1 MRSGCRLPFNNF---------KRKRHNCYNYGMVFCHSSSSK 33 (368)
Q Consensus 1 ~C~~C~~~F~~f---------~rRRHHCR~CG~VfC~sCSs~ 33 (368)
.|++|+.+|... ..-+..|..|+.+||..|=-+
T Consensus 57 ~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~f 98 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVF 98 (112)
T ss_pred cccCcCCCCCCcccccccccccccceeCCCCCCccccccchh
Confidence 399999999721 123577999999999999533
No 42
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=68.44 E-value=2.8 Score=28.93 Aligned_cols=25 Identities=24% Similarity=0.636 Sum_probs=16.0
Q ss_pred CCCCCCCCCCcc-------cccccccccCCcee
Q 040121 1 MRSGCRLPFNNF-------KRKRHNCYNYGMVF 26 (368)
Q Consensus 1 ~C~~C~~~F~~f-------~rRRHHCR~CG~Vf 26 (368)
.|..|+..|. + ..++-.|.+||.+|
T Consensus 4 ~Cp~C~~~y~-i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYE-IDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEe-CCHHHCCCCCcEEECCCCCCEe
Confidence 3777887776 3 23456677777665
No 43
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=68.20 E-value=66 Score=27.09 Aligned_cols=55 Identities=20% Similarity=0.196 Sum_probs=40.4
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 199 NHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 199 ~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.|......-+.=|+....+...|.-.|.+|.....--..-|+-|+++|..|-...
T Consensus 43 ~l~~~~~~f~~flken~~k~~rA~k~a~~e~k~~~~k~~ei~~l~~~l~~l~~~~ 97 (126)
T PF13863_consen 43 ELEEDVIKFDKFLKENEAKRERAEKRAEEEKKKKEEKEAEIKKLKAELEELKSEI 97 (126)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444556667777788999999999988888888999999888775543
No 44
>PRK14154 heat shock protein GrpE; Provisional
Probab=67.84 E-value=44 Score=31.88 Aligned_cols=68 Identities=10% Similarity=0.120 Sum_probs=46.8
Q ss_pred CCCCCCcccchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q 040121 174 GGPTSPKILVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTA 244 (368)
Q Consensus 174 ~~~~~~~~~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTa 244 (368)
.|+.+|. ++.|...-+-|.+|++.|+.+.....++++.+.|.++.-..-+.+- +.-+.+++++-.|++
T Consensus 47 ~~~~~~~--~~~l~~el~~le~e~~elkd~~lRl~ADfeNyRKR~~kE~e~~~~~-a~e~~~~~LLpVlDn 114 (208)
T PRK14154 47 EGLEFPS--REKLEGQLTRMERKVDEYKTQYLRAQAEMDNLRKRIEREKADIIKF-GSKQLITDLLPVADS 114 (208)
T ss_pred ccccCcc--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhHHhH
Confidence 5666765 4667777777888899999999888999998888877765544332 233445555554443
No 45
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=67.32 E-value=22 Score=27.31 Aligned_cols=39 Identities=18% Similarity=0.320 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 040121 191 DRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCK 233 (368)
Q Consensus 191 ~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~k 233 (368)
|-|+.+|..|..|-+++..++.-+...++ .|.|||++-+
T Consensus 6 d~Ls~dVq~L~~kvdqLs~dv~~lr~~v~----~ak~EAaRAN 44 (56)
T PF04728_consen 6 DQLSSDVQTLNSKVDQLSSDVNALRADVQ----AAKEEAARAN 44 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHH
Confidence 46788899999999999999988776554 5788888643
No 46
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=66.65 E-value=25 Score=29.17 Aligned_cols=54 Identities=22% Similarity=0.343 Sum_probs=41.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
.-+++.|+-|.+|.+.|+.+-...+.++...+-+-+. ||...+-....||..|-
T Consensus 26 ~ka~~~~~kL~~en~qlk~Ek~~~~~qvkn~~vrqkn------ee~~~~~sr~~V~d~L~ 79 (87)
T PF10883_consen 26 KKAKKQNAKLQKENEQLKTEKAVAETQVKNAKVRQKN------EENTRRLSRDSVIDQLQ 79 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh------HHhhccCCHHHHHHHHH
Confidence 4467788889999999988888888888777666555 67777777777887664
No 47
>PRK10884 SH3 domain-containing protein; Provisional
Probab=66.20 E-value=15 Score=34.72 Aligned_cols=14 Identities=14% Similarity=0.207 Sum_probs=5.8
Q ss_pred chhhhHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQE 196 (368)
Q Consensus 183 ~d~lkk~n~~L~qE 196 (368)
...+++..+-|.++
T Consensus 95 lp~le~el~~l~~~ 108 (206)
T PRK10884 95 VPDLENQVKTLTDK 108 (206)
T ss_pred HHHHHHHHHHHHHH
Confidence 33444444444333
No 48
>PHA02768 hypothetical protein; Provisional
Probab=65.13 E-value=2.4 Score=32.32 Aligned_cols=27 Identities=7% Similarity=-0.085 Sum_probs=17.0
Q ss_pred CCCCCCCCCCcc-----ccc----ccccccCCceee
Q 040121 1 MRSGCRLPFNNF-----KRK----RHNCYNYGMVFC 27 (368)
Q Consensus 1 ~C~~C~~~F~~f-----~rR----RHHCR~CG~VfC 27 (368)
.|..|++.|+.- ..| .+.|.+||++|=
T Consensus 7 ~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~ 42 (55)
T PHA02768 7 ECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRISL 42 (55)
T ss_pred CcchhCCeeccHHHHHHHHHhcCCcccCCcccceec
Confidence 488999999721 123 344777777653
No 49
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=64.29 E-value=3.8 Score=28.31 Aligned_cols=25 Identities=24% Similarity=0.570 Sum_probs=16.8
Q ss_pred CCCCCCCCCCccc-------ccccccccCCcee
Q 040121 1 MRSGCRLPFNNFK-------RKRHNCYNYGMVF 26 (368)
Q Consensus 1 ~C~~C~~~F~~f~-------rRRHHCR~CG~Vf 26 (368)
.|..|+..|. +- .++..|-+||.+|
T Consensus 4 ~CP~C~~~f~-v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 4 TCPNCQTRFR-VPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred ECCCCCceEE-cCHHHcccCCcEEECCCCCcEe
Confidence 4788888876 32 3466777777765
No 50
>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=63.94 E-value=58 Score=31.10 Aligned_cols=13 Identities=23% Similarity=0.473 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHhC
Q 040121 241 SLTAQLKDMAERL 253 (368)
Q Consensus 241 SLTaQLKdMAeKL 253 (368)
-|+-.|.+|.+.|
T Consensus 102 ~l~p~m~~m~~~L 114 (251)
T PF11932_consen 102 ELVPLMEQMIDEL 114 (251)
T ss_pred HHHHHHHHHHHHH
Confidence 3334444555554
No 51
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=63.64 E-value=25 Score=27.01 Aligned_cols=56 Identities=23% Similarity=0.351 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHH-------HHHHHhhhhhhhHHHHHHHHHHHHHHH
Q 040121 194 GQEVENHTRKAQLQEVELERTTKQLKEAI-------AIAGEETAKCKAAKEVIKSLTAQLKDM 249 (368)
Q Consensus 194 ~qEV~~L~~k~~~q~~elq~~~kk~~Ea~-------~lA~eEsaK~kAAKEvIKSLTaQLKdM 249 (368)
-.|+..|..+.+..+.+|+++.+++..-- .+...|-+|....++-|..|..+|+.|
T Consensus 3 ~~E~~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~~~l~~L 65 (66)
T PF10458_consen 3 EAEIERLEKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLEEALEQL 65 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 46788899999999999999999987432 245567777777777777777777776
No 52
>PF09189 DUF1952: Domain of unknown function (DUF1952); InterPro: IPR015272 In Escherichia coli, the MoaD protein plays a central role in the conversion of precursor Z to molybdopterin (MPT) during molybdenum cofactor biosynthesis. MoaD has a fold similar to that of ubiquitin and contains a highly conserved C-terminal Gly-Gly motif, which in its active form contains a transferrable sulphur in the form of a thiocarboxylate group []. This entry represents a domain found in MoaD-related proteins, but with a different structure from the MoaD domain; this domain consists of a TBP-like fold of beta/apha/beta(4)/alpha. These proteins are found in Thermus thermophilus and contain a ubiquitin-like MoaD domain at their N-terminal, and the domain represented by this entry at their C-terminal. One of these proteins is threonine synthase (4.2.3.1 from EC), which catalyses the conversion of O-phospho-L-homoserine to L-threonine and phosphate. ; PDB: 1V8C_B.
Probab=63.11 E-value=6 Score=32.02 Aligned_cols=37 Identities=19% Similarity=0.289 Sum_probs=30.2
Q ss_pred CCceEEEEEe---CCCCccceeEEEEecChhhHHHhhhhC
Q 040121 332 DPGGYIALTS---LPGGLNYLKRVRFRFMETRIDKRRKEI 368 (368)
Q Consensus 332 epgv~it~~~---~~~g~~~lkrvrf~f~e~~a~~ww~e~ 368 (368)
-||--++|.. ++=|+-.+-+.|.-|...+|+.||+.|
T Consensus 33 ~pga~Vrfr~~~p~~vGSL~ip~l~VevegEea~~WfeRi 72 (78)
T PF09189_consen 33 GPGARVRFREAEPRPVGSLRIPQLRVEVEGEEADAWFERI 72 (78)
T ss_dssp ETTEEEEEEEEEEEEETTEEEEEEEEEEESTTHHHHHHHH
T ss_pred cCCeEEEeccCCceeccceeccceEEEEeeHHHHHHHHHH
Confidence 3677777754 566888888888899999999999976
No 53
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=61.04 E-value=3.9 Score=47.23 Aligned_cols=46 Identities=24% Similarity=0.344 Sum_probs=37.3
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhhccC
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRKAFH 63 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~~~e 63 (368)
|..|...|. |+.++|||| |.+| +.+.+.+..|+|..|+..++...+
T Consensus 660 g~la~t~~~-~~~e~~hsr--~~ls-------------~~~~s~~~~~~~n~t~s~~rn~~~ 705 (1287)
T KOG1841|consen 660 GELAETRFT-FTGERHHSR--GKLS-------------LLYSSRKEARPCNITHSVLRNVMF 705 (1287)
T ss_pred ceeccccee-eeccccccc--cccc-------------ccccccccCCCCcccCccchhhhh
Confidence 788999999 999999999 8877 122346788999999999988555
No 54
>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA. They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.
Probab=59.80 E-value=82 Score=31.65 Aligned_cols=54 Identities=24% Similarity=0.303 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 193 VGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 193 L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
|..+|+.|+.+++-++..+-.++++++|-.- | +..-|+.+..|+.++.++-+.|
T Consensus 110 l~yqvd~Lkd~lee~eE~~~~~~re~~eK~~---e----lEr~K~~~d~L~~e~~~Lre~L 163 (302)
T PF09738_consen 110 LMYQVDLLKDKLEELEETLAQLQREYREKIR---E----LERQKRAHDSLREELDELREQL 163 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---H----HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344899999999999888888888865321 1 3446888999998888887777
No 55
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=59.66 E-value=82 Score=25.60 Aligned_cols=62 Identities=19% Similarity=0.265 Sum_probs=37.9
Q ss_pred cccchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHH
Q 040121 180 KILVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQ 245 (368)
Q Consensus 180 ~~~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQ 245 (368)
+.+.+.|..++.+|.+||+.-..= -.+|..+.+.++.+-.--..=...-+.++.+||.|..+
T Consensus 4 ~~vT~~L~rt~~~m~~ev~~s~~t----~~~L~~Ss~~L~~~~~e~~~~~~~l~~s~~ll~~l~r~ 65 (92)
T PF03908_consen 4 SDVTESLRRTRQMMAQEVERSELT----LQTLEESSATLRSTNDEYDGQSSLLKKSRKLLKKLERR 65 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456889999999999997543322 22333333333333333333455667788888888754
No 56
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=59.41 E-value=69 Score=31.81 Aligned_cols=52 Identities=19% Similarity=0.263 Sum_probs=42.9
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 202 RKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 202 ~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.+.+..+.+.+...++++.+-.-..++-.+.+.+..-+|-+..++.+|+.||
T Consensus 186 ~~~~~~e~eke~~~r~l~~~~~ELe~~~EeL~~~Eke~~e~~~~i~e~~~rl 237 (269)
T PF05278_consen 186 DQHETREEEKEEKDRKLELKKEELEELEEELKQKEKEVKEIKERITEMKGRL 237 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677788888888888877777777888888888999999999999998
No 57
>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=59.17 E-value=52 Score=35.08 Aligned_cols=17 Identities=18% Similarity=0.294 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 040121 235 AKEVIKSLTAQLKDMAE 251 (368)
Q Consensus 235 AKEvIKSLTaQLKdMAe 251 (368)
....|-.|+.||++++.
T Consensus 128 ~~~~l~~l~~~l~~~~~ 144 (472)
T TIGR03752 128 LQGLIDQLQRRLAGVLT 144 (472)
T ss_pred HHHHHHHHHHHHhhccc
Confidence 34455556666666554
No 58
>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=58.85 E-value=80 Score=29.97 Aligned_cols=33 Identities=15% Similarity=0.308 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 040121 187 KRTNDRVGQEVENHTRKAQLQEVELERTTKQLK 219 (368)
Q Consensus 187 kk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~ 219 (368)
+...+.+.++|+.++++.+.+..+|+.....+.
T Consensus 76 ~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~ 108 (302)
T PF10186_consen 76 RERIERLRKRIEQKRERLEELRESLEQRRSRLS 108 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333344444444444444444444433
No 59
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=58.00 E-value=20 Score=29.36 Aligned_cols=33 Identities=24% Similarity=0.352 Sum_probs=16.9
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTT 215 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~ 215 (368)
++.||..|..|.+|++.++..-+.++.|.+.++
T Consensus 27 ieELKekn~~L~~e~~~~~~~r~~L~~en~qLk 59 (79)
T PRK15422 27 IEELKEKNNSLSQEVQNAQHQREELERENNHLK 59 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 455666666666665554444444444444443
No 60
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=57.46 E-value=55 Score=31.60 Aligned_cols=44 Identities=20% Similarity=0.309 Sum_probs=34.2
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
++.|+.+-|..|.+||.++|+|++|-.+-+ .-|=-|++-+|++.
T Consensus 76 m~~Lea~VEkrD~~IQqLqk~LK~aE~iLt---ta~fqA~qKLksi~ 119 (272)
T KOG4552|consen 76 MRTLEAHVEKRDEVIQQLQKNLKSAEVILT---TACFQANQKLKSIK 119 (272)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH
Confidence 788899999999999999999999855432 33555677777664
No 61
>PRK00420 hypothetical protein; Validated
Probab=56.86 E-value=7.4 Score=33.65 Aligned_cols=25 Identities=28% Similarity=0.454 Sum_probs=14.5
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCc
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSK 33 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~ 33 (368)
.|..|+.+|.-+. =|.+||..|...
T Consensus 25 ~CP~Cg~pLf~lk--------~g~~~Cp~Cg~~ 49 (112)
T PRK00420 25 HCPVCGLPLFELK--------DGEVVCPVHGKV 49 (112)
T ss_pred CCCCCCCcceecC--------CCceECCCCCCe
Confidence 4788887665221 256666666543
No 62
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=56.24 E-value=66 Score=30.91 Aligned_cols=70 Identities=17% Similarity=0.217 Sum_probs=42.3
Q ss_pred cccchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH
Q 040121 180 KILVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDM 249 (368)
Q Consensus 180 ~~~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdM 249 (368)
+..++.+.+..+.|.+|++.|..|...-....+.....++++..-|.+=....+....-|+.|..|+..+
T Consensus 44 ~~~~~~~e~~l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l 113 (264)
T PF06008_consen 44 KQQLDPLEKELESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVESL 113 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4446777777777778888888877777777777777666666555444443333333444444444333
No 63
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=55.99 E-value=81 Score=32.75 Aligned_cols=53 Identities=19% Similarity=0.221 Sum_probs=23.1
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh-h----hhhhhHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEE-T----AKCKAAKEVIKSLTAQLKDMA 250 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eE-s----aK~kAAKEvIKSLTaQLKdMA 250 (368)
-..|..+.+.+..|.-+..|++.+... ++++ . ++.|..|+-||.|.++++++.
T Consensus 39 ~r~~~~~~~~l~~erN~~sk~i~~~~~-~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~ 96 (418)
T TIGR00414 39 RKKLLSEIEELQAKRNELSKQIGKAKG-QKKDKIEEIKKELKELKEELTELSAALKALE 96 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc-cCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444455555555544221 1111 1 123445555666655544433
No 64
>PHA02047 phage lambda Rz1-like protein
Probab=55.70 E-value=80 Score=26.87 Aligned_cols=30 Identities=17% Similarity=0.234 Sum_probs=25.0
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 040121 195 QEVENHTRKAQLQEVELERTTKQLKEAIAI 224 (368)
Q Consensus 195 qEV~~L~~k~~~q~~elq~~~kk~~Ea~~l 224 (368)
+|.++|+.+.|..+..|..++++++.--.-
T Consensus 34 ~~a~~la~qLE~a~~r~~~~Q~~V~~l~~k 63 (101)
T PHA02047 34 EEAKRQTARLEALEVRYATLQRHVQAVEAR 63 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 448999999999999999999998875433
No 65
>PRK10869 recombination and repair protein; Provisional
Probab=55.28 E-value=41 Score=36.19 Aligned_cols=41 Identities=20% Similarity=0.289 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHhh-----hhhhhHHHHHHHHHHHHHHHH
Q 040121 210 ELERTTKQLKEAIAIAGEET-----AKCKAAKEVIKSLTAQLKDMA 250 (368)
Q Consensus 210 elq~~~kk~~Ea~~lA~eEs-----aK~kAAKEvIKSLTaQLKdMA 250 (368)
.++.++++++++..-..+-| .+.+||+++-+.++.+|++|.
T Consensus 342 ~l~~Le~e~~~l~~~l~~~A~~LS~~R~~aA~~l~~~v~~~L~~L~ 387 (553)
T PRK10869 342 DLETLALAVEKHHQQALETAQKLHQSRQRYAKELAQLITESMHELS 387 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 44445555544443333333 244679999999999999974
No 66
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=55.18 E-value=20 Score=26.13 Aligned_cols=27 Identities=22% Similarity=0.159 Sum_probs=14.9
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEV 209 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~ 209 (368)
-|.|+.-|+.|.+|++.|+.+...+..
T Consensus 14 yd~Lk~~~~~L~~E~~~L~aev~~L~~ 40 (45)
T PF02183_consen 14 YDSLKAEYDSLKKENEKLRAEVQELKE 40 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666666666666665554444333
No 67
>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=54.55 E-value=98 Score=31.12 Aligned_cols=43 Identities=19% Similarity=0.283 Sum_probs=27.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 040121 185 DAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEE 228 (368)
Q Consensus 185 ~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eE 228 (368)
.|.|.++. +++|..|+.+...+..+|+..++.+++.+.....|
T Consensus 6 GL~KL~et-~~~V~~m~~~L~~~~~~L~~k~~e~e~ll~~i~~~ 48 (344)
T PF12777_consen 6 GLDKLKET-EEQVEEMQEELEEKQPELEEKQKEAEELLEEIEKE 48 (344)
T ss_dssp HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444432 45588888877777777777777776666554433
No 68
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=54.06 E-value=69 Score=26.41 Aligned_cols=63 Identities=22% Similarity=0.267 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHH---HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhCC
Q 040121 192 RVGQEVENHTRKAQLQEVELERTTKQ---LKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERLP 254 (368)
Q Consensus 192 ~L~qEV~~L~~k~~~q~~elq~~~kk---~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKLp 254 (368)
-|.++++.|+.+......+|....++ +++...-+.+=..+-++..+-++.+.++|.+++..||
T Consensus 40 ~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~~~~e~~l~~~l~~iP 105 (108)
T PF02403_consen 40 ELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQLKELEEELNELLLSIP 105 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS-
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 44455777777766666677666663 5555555555566666777777777888888877775
No 69
>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=54.03 E-value=1.5e+02 Score=25.92 Aligned_cols=41 Identities=24% Similarity=0.171 Sum_probs=16.6
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKE 237 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKE 237 (368)
++.|+.+.+..+.++.-.+.+...+-.-...+..+.|..||
T Consensus 75 ~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~ke 115 (151)
T PF11559_consen 75 VERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKE 115 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555444444444443333333333333333333333333
No 70
>PHA01750 hypothetical protein
Probab=53.98 E-value=29 Score=27.61 Aligned_cols=31 Identities=16% Similarity=0.344 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 190 NDRVGQEVENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 190 n~~L~qEV~~L~~k~~~q~~elq~~~kk~~E 220 (368)
.|+.++|..+|+.+.+....++...++|++|
T Consensus 37 keIV~~ELdNL~~ei~~~kikqDnl~~qv~e 67 (75)
T PHA01750 37 KEIVNSELDNLKTEIEELKIKQDELSRQVEE 67 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 3567777777766554444444444444433
No 71
>TIGR01035 hemA glutamyl-tRNA reductase. This enzyme, together with glutamate-1-semialdehyde-2,1-aminomutase (TIGR00713), leads to the production of delta-amino-levulinic acid from Glu-tRNA.
Probab=53.81 E-value=39 Score=34.87 Aligned_cols=55 Identities=24% Similarity=0.341 Sum_probs=30.0
Q ss_pred HHHHHHHHhH-HHHHHHHHHHHHHH---HHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHh
Q 040121 197 VENHTRKAQL-QEVELERTTKQLKE---AIAIAGEETAKCKAAKEVIKSLTAQLKDMAER 252 (368)
Q Consensus 197 V~~L~~k~~~-q~~elq~~~kk~~E---a~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeK 252 (368)
|..|+++.+. .+.||++.-+++.+ .-.-.- |..=...++.++.-.|..||+++..
T Consensus 342 I~~lr~~~~~i~~~el~~~~~~l~~~~~~~~~~~-~~~~~~~~~k~lh~p~~~lk~~~~~ 400 (417)
T TIGR01035 342 IKALRSLAEIVREKELEKALKKLPGLSKDVEEVL-EDLARKLINKLLHAPTVRLKQLADK 400 (417)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccCCccHHHHH-HHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4566666544 55677777777532 100111 1222345566666666788888754
No 72
>PF07246 Phlebovirus_NSM: Phlebovirus nonstructural protein NS-M; InterPro: IPR009879 This entry consists of several Phlebovirus nonstructural NS-M proteins, which represent the N-terminal region of the M polyprotein precursor. The function of this family is unknown.
Probab=53.66 E-value=54 Score=32.43 Aligned_cols=63 Identities=21% Similarity=0.249 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhh-HHHHHHHHHHHHHHHHHhC
Q 040121 189 TNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKA-AKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 189 ~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kA-AKEvIKSLTaQLKdMAeKL 253 (368)
.|++|.+|+..|+.+......++-+.+.+ +...+-.+|....++ -++=+|-|+.+|++|-++.
T Consensus 169 rnq~l~~~i~~l~~~l~~~~~~~~~~~~~--~~~~~~~~e~~~r~~~lr~~~~~l~~el~~aK~~~ 232 (264)
T PF07246_consen 169 RNQILSHEISNLTNELSNLRNDIDKFQER--EDEKILHEELEARESGLRNESKWLEHELSDAKEDM 232 (264)
T ss_pred HHHHHHHHHHHhhhhHHHhhchhhhhhhh--hhHHHHHHHHHHhHhhhHHHHHHHHHHHHHHHHHH
Confidence 34455555555555544444444344332 333444455543333 4567788888888877665
No 73
>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]
Probab=53.56 E-value=77 Score=34.88 Aligned_cols=83 Identities=20% Similarity=0.213 Sum_probs=63.9
Q ss_pred CCCCCCcccchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 174 GGPTSPKILVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 174 ~~~~~~~~~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
++++..+. +.++++.-...+.|...|+-|.|.+.-||.++..|++|---+---+---.-|-|-+|..-.-|++|+.++-
T Consensus 73 ~~~s~~r~-~~e~~RI~~sVs~EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqaq~~~~El~~~n 151 (907)
T KOG2264|consen 73 SGYSIGRI-LREQKRILASVSLELTELEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQAQRQLEELRETN 151 (907)
T ss_pred cchhHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHHHhhc
Confidence 34544444 67888889999999999999988888999999999888765555555555677788888888999998876
Q ss_pred CCCc
Q 040121 254 PVGT 257 (368)
Q Consensus 254 p~g~ 257 (368)
-|..
T Consensus 152 ~pkl 155 (907)
T KOG2264|consen 152 NPKL 155 (907)
T ss_pred CCce
Confidence 5543
No 74
>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus. Members of this family are typically of around 420 residues in length. The function of this family is unknown.
Probab=53.06 E-value=42 Score=34.39 Aligned_cols=39 Identities=15% Similarity=0.142 Sum_probs=27.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAI 224 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~l 224 (368)
-.|+..|+.|.+|.+.|+.+.+.+|.|.-+ +.+-|-+.+
T Consensus 35 ~aLr~EN~~LKkEN~~Lk~eVerLE~e~l~--s~V~E~vet 73 (420)
T PF07407_consen 35 FALRMENHSLKKENNDLKIEVERLENEMLR--SHVCEDVET 73 (420)
T ss_pred hhHHHHhHHHHHHHHHHHHHHHHHHHHhhh--hhhhhHHHH
Confidence 358999999999999999988888665544 333444444
No 75
>PRK09973 putative outer membrane lipoprotein; Provisional
Probab=52.97 E-value=43 Score=27.77 Aligned_cols=39 Identities=15% Similarity=0.241 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 040121 191 DRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCK 233 (368)
Q Consensus 191 ~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~k 233 (368)
+-|..+|..|..|-++...+++-.+..++. |.|||++-+
T Consensus 27 dqLss~V~~L~~kvdql~~dv~~a~aaa~a----Ak~EA~RAN 65 (85)
T PRK09973 27 NQLASNVQTLNAKIARLEQDMKALRPQIYA----AKSEANRAN 65 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
Confidence 356778999999888888888776655544 667777544
No 76
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.44 E-value=2.1 Score=42.75 Aligned_cols=46 Identities=20% Similarity=0.424 Sum_probs=38.1
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHh
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKL 58 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L 58 (368)
.|..|+..|. -+++||.|--|-+-||..|+.. ..-.|.|..|...-
T Consensus 46 ~ckacg~~f~-~~~~k~~c~dckk~fc~tcs~v-----------~~~lr~c~~c~r~~ 91 (350)
T KOG4275|consen 46 HCKACGEEFE-DAQSKSDCEDCKKEFCATCSRV-----------SISLRTCTSCRRVN 91 (350)
T ss_pred hhhhhchhHh-hhhhhhhhhhhhHHHHHHHHHh-----------cccchhhhHHHHHH
Confidence 4888999999 7889999999999999999922 34457899998753
No 77
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=52.30 E-value=11 Score=37.76 Aligned_cols=62 Identities=18% Similarity=0.358 Sum_probs=36.9
Q ss_pred CCCCCCCCCC-cc--------cccccccccCCc------eeeCCCCCcccccccCCCC---CCCCcc--cccchHHHhhh
Q 040121 1 MRSGCRLPFN-NF--------KRKRHNCYNYGM------VFCHSSSSKKTLKASMAPN---PNKPYR--ICDNCFSKLRK 60 (368)
Q Consensus 1 ~C~~C~~~F~-~f--------~rRRHHCR~CG~------VfC~sCSs~~~~~~~l~p~---~~kpvR--VC~~C~~~L~~ 60 (368)
.|..|+..=. .+ ..|..||-.|+. +-|..|...+- +..+... ....+| +|+.|...++.
T Consensus 186 ~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~~~-l~y~~~e~~~~~~~~r~e~C~~C~~YlK~ 264 (305)
T TIGR01562 186 LCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEESKH-LAYLSLEHDAEKAVLKAETCDSCQGYLKI 264 (305)
T ss_pred cCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCCCc-eeeEeecCCCCCcceEEeeccccccchhh
Confidence 4888876321 11 235678888874 46888876532 2222111 123456 99999999887
Q ss_pred ccC
Q 040121 61 AFH 63 (368)
Q Consensus 61 ~~e 63 (368)
...
T Consensus 265 ~~~ 267 (305)
T TIGR01562 265 LYQ 267 (305)
T ss_pred hcc
Confidence 644
No 78
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=52.29 E-value=70 Score=34.43 Aligned_cols=61 Identities=20% Similarity=0.289 Sum_probs=33.3
Q ss_pred chhhhHHHHHHHHHHHHHHHH----------HhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRK----------AQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k----------~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
.+.++..|+.|..|++.|.+. .+..+.+|+...+.+++....+.+-+.-...+++-++.|.
T Consensus 319 l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~ 389 (569)
T PRK04778 319 LEHAKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEIL 389 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 466677777777777777766 4445556666666666444333333333333333333333
No 79
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=51.78 E-value=1.4e+02 Score=26.28 Aligned_cols=64 Identities=14% Similarity=0.305 Sum_probs=31.8
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhh----hHHHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCK----AAKEVIKSLTAQLKDMA 250 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~k----AAKEvIKSLTaQLKdMA 250 (368)
.+.|..+.+.|.|-++.|-.|.+.+.+-. +.+++-+.-+.++.+--+ ....+|.-|...|.+|.
T Consensus 56 s~~l~~tKkhLsqRId~vd~klDe~~ei~----~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~ki~~ie 123 (126)
T PF07889_consen 56 SESLSSTKKHLSQRIDRVDDKLDEQKEIS----KQIKDEVTEVREDVSQIGDDVDSVQQMVEGLEGKIDEIE 123 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHH----HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45566666666666666666655444333 333444444555544332 23334444444444443
No 80
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=51.76 E-value=10 Score=28.12 Aligned_cols=9 Identities=33% Similarity=0.715 Sum_probs=4.0
Q ss_pred ccccccCCc
Q 040121 16 RHNCYNYGM 24 (368)
Q Consensus 16 RHHCR~CG~ 24 (368)
+++|..||.
T Consensus 37 r~~C~~Cgy 45 (50)
T PRK00432 37 RWHCGKCGY 45 (50)
T ss_pred cEECCCcCC
Confidence 444444443
No 81
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=51.26 E-value=51 Score=29.44 Aligned_cols=37 Identities=14% Similarity=0.209 Sum_probs=16.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 040121 185 DAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEA 221 (368)
Q Consensus 185 ~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea 221 (368)
.|.+.|-.|.|||+.|++.-...-.|+.-++.|.+-+
T Consensus 78 eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l 114 (135)
T KOG4196|consen 78 ELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEAL 114 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444444444444443333
No 82
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=51.25 E-value=76 Score=33.78 Aligned_cols=24 Identities=33% Similarity=0.374 Sum_probs=15.4
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~E 220 (368)
.+.+.+++++++.++.++++++++
T Consensus 377 kk~~e~k~~q~q~k~~k~~kel~~ 400 (493)
T KOG0804|consen 377 KKIVERKLQQLQTKLKKCQKELKE 400 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344456677777777777776654
No 83
>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=51.24 E-value=1.2e+02 Score=24.06 Aligned_cols=58 Identities=21% Similarity=0.170 Sum_probs=29.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH
Q 040121 185 DAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDM 249 (368)
Q Consensus 185 ~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdM 249 (368)
.+-.|..+|..||+.|+++-..+..+...+....+.- . .-..+.++=|++|-..|+++
T Consensus 15 ~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L----~---~e~~~~~~rl~~LL~kl~~v 72 (72)
T PF06005_consen 15 QAVETIALLQMENEELKEKNNELKEENEELKEENEQL----K---QERNAWQERLRSLLGKLEEV 72 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----H---HHHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH----H---HHHHHHHHHHHHHHHhhhcC
Confidence 3445566666666666665333332222222111111 0 34567788888888777653
No 84
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=51.13 E-value=98 Score=34.68 Aligned_cols=57 Identities=18% Similarity=0.167 Sum_probs=46.8
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
|+.|+.+.++|-.+|+.++..++..-..|..=+.|.+.|+|-=+.|...++.|...+
T Consensus 567 v~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l 623 (717)
T PF10168_consen 567 VKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQLL 623 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 677888888888899888888887777776666799999999999998777776655
No 85
>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]
Probab=50.94 E-value=89 Score=37.00 Aligned_cols=47 Identities=28% Similarity=0.388 Sum_probs=39.4
Q ss_pred HHHHHHH-----HHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 207 QEVELER-----TTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 207 q~~elq~-----~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
++.+||+ ++++++|+...+.+|-+|.+-++.-++.|-.+|+++-.+.
T Consensus 480 ~~~el~~~q~~l~q~~~ke~~ek~~~~~~~~~~l~~~~~~~~eele~~q~~~ 531 (1317)
T KOG0612|consen 480 EESELQREQKALLQHEQKEVEEKLSEEEAKKRKLEALVRQLEEELEDAQKKN 531 (1317)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445554 6688999999999999999999999999999999986665
No 86
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=50.72 E-value=5 Score=40.36 Aligned_cols=48 Identities=23% Similarity=0.308 Sum_probs=0.0
Q ss_pred CCCCCCCCCCccccc---ccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhh
Q 040121 1 MRSGCRLPFNNFKRK---RHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRK 60 (368)
Q Consensus 1 ~C~~C~~~F~~f~rR---RHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~ 60 (368)
.|..|...=. +... -.+ .||+.||.+|.......+.. .|-.|...|..
T Consensus 5 ~CP~Ck~~~y-~np~~kl~i~--~CGH~~C~sCv~~l~~~~~~---------~CP~C~~~lrk 55 (309)
T TIGR00570 5 GCPRCKTTKY-RNPSLKLMVN--VCGHTLCESCVDLLFVRGSG---------SCPECDTPLRK 55 (309)
T ss_pred CCCcCCCCCc-cCcccccccC--CCCCcccHHHHHHHhcCCCC---------CCCCCCCccch
No 87
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=50.69 E-value=1.1e+02 Score=28.72 Aligned_cols=60 Identities=25% Similarity=0.333 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHH----HHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 194 GQEVENHTRKAQLQEVELERTTKQLKEAIA----IAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 194 ~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~----lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.+++..|+.+.+..+.+|+.+.++++-+.. ...-|-.|.++|.+-|+.|..+++.+--+|
T Consensus 124 ~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~rql~~e~kK~~~~~~~~~~l~~ei~~L~~kl 187 (194)
T PF15619_consen 124 QRKLSQLEQKLQEKEKKIQELEKQLELENKSFRRQLASEKKKHKEAQEEVKSLQEEIQRLNQKL 187 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334777777888888888888888876654 345567788888888888888877765554
No 88
>PF01485 IBR: IBR domain; InterPro: IPR002867 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 cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=50.51 E-value=12 Score=27.30 Aligned_cols=28 Identities=18% Similarity=0.413 Sum_probs=17.5
Q ss_pred CCCCCCccccc----ccccccCCceeeCCCCCc
Q 040121 5 CRLPFNNFKRK----RHNCYNYGMVFCHSSSSK 33 (368)
Q Consensus 5 C~~~F~~f~rR----RHHCR~CG~VfC~sCSs~ 33 (368)
|...|. .... ...|..||..||..|...
T Consensus 26 C~~~~~-~~~~~~~~~~~C~~C~~~fC~~C~~~ 57 (64)
T PF01485_consen 26 CEYIIE-KDDGCNSPIVTCPSCGTEFCFKCGEP 57 (64)
T ss_dssp T---EC-S-SSTTS--CCTTSCCSEECSSSTSE
T ss_pred CcccEE-ecCCCCCCeeECCCCCCcCccccCcc
Confidence 776555 2221 267999999999999754
No 89
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=50.34 E-value=38 Score=29.72 Aligned_cols=45 Identities=11% Similarity=0.243 Sum_probs=38.5
Q ss_pred cccchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 040121 180 KILVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAI 224 (368)
Q Consensus 180 ~~~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~l 224 (368)
..++++|++.-+.|.-.|+.|+.+-+..+.+|++++.+|..+..=
T Consensus 69 ~~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~l~~ 113 (119)
T COG1382 69 EEAVDELEERKETLELRIKTLEKQEEKLQERLEELQSEIQKALGD 113 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 356788999999999999999999999999999999999887653
No 90
>PF15358 TSKS: Testis-specific serine kinase substrate
Probab=50.29 E-value=37 Score=35.72 Aligned_cols=44 Identities=23% Similarity=0.274 Sum_probs=34.5
Q ss_pred CCCCCCCcccchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 040121 173 LGGPTSPKILVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTK 216 (368)
Q Consensus 173 ~~~~~~~~~~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~k 216 (368)
.+||.-.|..+.+||..-+-.||-|++|..+|..+.+-|++..+
T Consensus 117 nSGLvrAKDSItSlKekt~~vnQHVq~LQseCsvlsEnLErrrQ 160 (558)
T PF15358_consen 117 NSGLVRAKDSITSLKEKTSRVNQHVQTLQSECSVLSENLERRRQ 160 (558)
T ss_pred cccceecccchhhHHHhhHHHHHHHHHHHHHhHHHHHHHHhhhh
Confidence 46777788888999999999999999999998776654444433
No 91
>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=49.99 E-value=75 Score=29.51 Aligned_cols=34 Identities=32% Similarity=0.300 Sum_probs=28.2
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 040121 198 ENHTRKAQLQEVELERTTKQLKEAIAIAGEETAK 231 (368)
Q Consensus 198 ~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK 231 (368)
..|+++.+..+.++.+..++++.|+.--.|+-|+
T Consensus 54 ~~le~~~~~~~~~~~~~~~~A~~Al~~g~edLAr 87 (221)
T PF04012_consen 54 KRLERKLDEAEEEAEKWEKQAELALAAGREDLAR 87 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence 5677888888999999999999998777676664
No 92
>COG4345 Uncharacterized protein conserved in archaea [Function unknown]
Probab=49.90 E-value=79 Score=29.45 Aligned_cols=51 Identities=25% Similarity=0.293 Sum_probs=42.5
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHH
Q 040121 198 ENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKD 248 (368)
Q Consensus 198 ~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKd 248 (368)
+.|..|...-..|..+..+.+.|...---.+|.|-|-|.++|-||..-+|.
T Consensus 121 ~el~eK~~~~~~Everi~~~ieE~v~eLe~~a~~lke~~~~i~~l~~~ik~ 171 (181)
T COG4345 121 KELEEKLADAMEEVERIEKTIEELVSELESLANKLKEVTDVINSLVERIKQ 171 (181)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 456677777778888888888888888888899999999999999987764
No 93
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=49.86 E-value=7.9 Score=34.43 Aligned_cols=20 Identities=35% Similarity=0.727 Sum_probs=14.4
Q ss_pred cccccCCcee----------eCCCCCcccc
Q 040121 17 HNCYNYGMVF----------CHSSSSKKTL 36 (368)
Q Consensus 17 HHCR~CG~Vf----------C~sCSs~~~~ 36 (368)
|.|-+||.+| |..|..++..
T Consensus 2 H~Ct~Cg~~f~dgs~eil~GCP~CGg~kF~ 31 (131)
T PF09845_consen 2 HQCTKCGRVFEDGSKEILSGCPECGGNKFQ 31 (131)
T ss_pred cccCcCCCCcCCCcHHHHccCcccCCcceE
Confidence 7788888887 6677766544
No 94
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=49.13 E-value=3.1 Score=39.90 Aligned_cols=28 Identities=29% Similarity=0.433 Sum_probs=20.5
Q ss_pred CCCCCCCCCCccc------------ccccccccCCceeeCC
Q 040121 1 MRSGCRLPFNNFK------------RKRHNCYNYGMVFCHS 29 (368)
Q Consensus 1 ~C~~C~~~F~~f~------------rRRHHCR~CG~VfC~s 29 (368)
+|..|++.|+ +- .|||-|.-||+-|=..
T Consensus 119 tCrvCgK~F~-lQRmlnrh~kch~~vkr~lct~cgkgfndt 158 (267)
T KOG3576|consen 119 TCRVCGKKFG-LQRMLNRHLKCHSDVKRHLCTFCGKGFNDT 158 (267)
T ss_pred eeehhhhhhh-HHHHHHHHhhhccHHHHHHHhhccCcccch
Confidence 4889999998 42 2478888888876543
No 95
>COG1938 Archaeal enzymes of ATP-grasp superfamily [General function prediction only]
Probab=48.88 E-value=28 Score=34.04 Aligned_cols=46 Identities=20% Similarity=0.276 Sum_probs=36.4
Q ss_pred CcccchhhhHHHHHHHHH--HHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 040121 179 PKILVDDAKRTNDRVGQE--VENHTRKAQLQEVELERTTKQLKEAIAI 224 (368)
Q Consensus 179 ~~~~~d~lkk~n~~L~qE--V~~L~~k~~~q~~elq~~~kk~~Ea~~l 224 (368)
|+-...-+.--|++|+-. ++.|.++.+.++.+|+++.++++++...
T Consensus 186 P~AAa~vve~lnk~~~l~V~td~L~keAe~i~~~lekl~eq~~~~~~~ 233 (244)
T COG1938 186 PRAAARVVEALNKMLGLNVDTDKLEKEAEEIEEQLEKLAEQLEKEEER 233 (244)
T ss_pred hHHHHHHHHHHHHHhcCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333334445677777766 8999999999999999999999998654
No 96
>PRK15396 murein lipoprotein; Provisional
Probab=48.81 E-value=56 Score=26.59 Aligned_cols=37 Identities=11% Similarity=0.276 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 040121 192 RVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKC 232 (368)
Q Consensus 192 ~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~ 232 (368)
-|..+|+.|..|-++...+++-....++. |.|||++-
T Consensus 29 ~LssqV~~L~~kvdql~~dv~~~~~~~~~----a~~eA~ra 65 (78)
T PRK15396 29 QLSSDVQTLNAKVDQLSNDVNAMRSDVQA----AKDDAARA 65 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHH
Confidence 56667888888887777777777666665 67888753
No 97
>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]
Probab=48.67 E-value=84 Score=30.22 Aligned_cols=45 Identities=22% Similarity=0.250 Sum_probs=33.9
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q 040121 198 ENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTA 244 (368)
Q Consensus 198 ~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTa 244 (368)
..|..+.+......++++.+++.|+...-|+=| +.|-+-|++|..
T Consensus 55 k~~e~~~~~~~~~~~k~e~~A~~Al~~g~E~LA--r~al~~~~~le~ 99 (225)
T COG1842 55 KQLERKLEEAQARAEKLEEKAELALQAGNEDLA--REALEEKQSLED 99 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH--HHHHHHHHHHHH
Confidence 566677888888999999999999987776666 445555666654
No 98
>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=48.62 E-value=32 Score=31.50 Aligned_cols=31 Identities=26% Similarity=0.421 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 040121 189 TNDRVGQEVENHTRKAQLQEVELERTTKQLK 219 (368)
Q Consensus 189 ~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~ 219 (368)
.++-+++|++.|+++.+..+.+++..++|++
T Consensus 155 ~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~ 185 (192)
T PF05529_consen 155 ENKKLSEEIEKLKKELEKKEKEIEALKKQSE 185 (192)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444444444443
No 99
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=48.54 E-value=72 Score=28.17 Aligned_cols=57 Identities=18% Similarity=0.273 Sum_probs=36.8
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTA 244 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTa 244 (368)
.+.+....+.|.++++.|+.+...+..+++.+.+++++-..-+.. .|-+.+++.|..
T Consensus 13 ~~~~~~~l~~l~~~~~~l~~~~~r~~ae~en~~~r~~~e~~~~~~-----~~~~~~~~~ll~ 69 (165)
T PF01025_consen 13 IEELEEELEELEKEIEELKERLLRLQAEFENYRKRLEKEKEEAKK-----YALEKFLKDLLP 69 (165)
T ss_dssp HCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----CCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHH
Confidence 344555666677788888888888888888888887665443333 333444444443
No 100
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=48.37 E-value=1.3e+02 Score=31.31 Aligned_cols=8 Identities=38% Similarity=0.235 Sum_probs=5.3
Q ss_pred ccceeEEE
Q 040121 346 LNYLKRVR 353 (368)
Q Consensus 346 ~~~lkrvr 353 (368)
++.|-|||
T Consensus 271 ~~GL~Rv~ 278 (425)
T PRK05431 271 TRGLIRVH 278 (425)
T ss_pred CCceeeee
Confidence 36677776
No 101
>KOG3173 consensus Predicted Zn-finger protein [General function prediction only]
Probab=47.54 E-value=8.5 Score=35.32 Aligned_cols=25 Identities=24% Similarity=0.557 Sum_probs=19.9
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCC
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSS 30 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sC 30 (368)
|..|++.-+ ++- .||| ||.+||...
T Consensus 108 C~~C~kk~g-ltg--f~Cr-CG~~fC~~H 132 (167)
T KOG3173|consen 108 CFKCRKKVG-LTG--FKCR-CGNTFCGTH 132 (167)
T ss_pred hhhhhhhhc-ccc--cccc-cCCcccccc
Confidence 778888888 665 7885 999999865
No 102
>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=47.38 E-value=83 Score=29.23 Aligned_cols=76 Identities=18% Similarity=0.225 Sum_probs=47.7
Q ss_pred CCCcccchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 177 TSPKILVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 177 ~~~~~~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
+||.-....++..-+-|.+|++.++.+.+..+.+|+..+..-.+.-.- .+--++.+..++-++.|.++|+...+--
T Consensus 58 sFps~~~~~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR-~~~l~~l~~l~~~~~~l~~el~~~~~~D 133 (188)
T PF03962_consen 58 SFPSQAKQKRQNKLEKLQKEIEELEKKIEELEEKIEEAKKGREESEER-EELLEELEELKKELKELKKELEKYSEND 133 (188)
T ss_pred ecChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 455555666777777888888888888888888887776554444111 1123444555666667777776554443
No 103
>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=46.77 E-value=93 Score=32.39 Aligned_cols=70 Identities=24% Similarity=0.281 Sum_probs=35.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH------HHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLK------EAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~------Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
..+++.-+.|.++++.|+.+.+..+..|+++++.-. +.......=-.+.+..++.|+.|.++|++|.+.|
T Consensus 330 ~~l~~~~~~l~~~~~~~~~~l~~l~~~l~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~l~~~l 405 (451)
T PF03961_consen 330 PELKEKLEELEEELEELKEELEKLKKNLKKLKKLKKQGKLPPEKKEQLKKLKEKKKELKEELKELKEELKELKEEL 405 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555666666666666666666666555211 1111111111222344556666666666666666
No 104
>PF14643 DUF4455: Domain of unknown function (DUF4455)
Probab=46.42 E-value=77 Score=33.40 Aligned_cols=55 Identities=20% Similarity=0.303 Sum_probs=42.9
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhCCCCccc
Q 040121 199 NHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERLPVGTLR 259 (368)
Q Consensus 199 ~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKLp~g~~~ 259 (368)
.+.+.+..+...|..+...++++ |-.+.+..+.|++.++..|.++|-.+||++.+
T Consensus 76 ~v~~~~~~r~~~I~~l~~~L~~~------E~~R~~~l~~~l~~~~~~L~~ia~~~~~dv~r 130 (473)
T PF14643_consen 76 EVAEHSQKRKQWIKELDEDLEEL------EKERADKLKKVLRKYVEILEKIAHLLPPDVER 130 (473)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHccCcHHHHH
Confidence 44455666667777776666664 67788889999999999999999999998633
No 105
>PF01519 DUF16: Protein of unknown function DUF16; InterPro: IPR002862 Proteins that contain this domain are of unknown function. It appears to be confined to proteins from Mycoplasma pneumoniae [].; PDB: 2BA2_C.
Probab=46.03 E-value=1.4e+02 Score=25.66 Aligned_cols=43 Identities=19% Similarity=0.296 Sum_probs=35.3
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
|..|.+.-+.|.++|..++.+++ |.-+-|+++-..|.+|-.||
T Consensus 55 I~kL~e~V~~QGEqIkel~~e~k--------------~qgktL~~I~~~L~~inkRL 97 (102)
T PF01519_consen 55 INKLTEKVDKQGEQIKELQVEQK--------------AQGKTLQLILKTLQSINKRL 97 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHH
Confidence 88888888888888888877777 66667788888999998887
No 106
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.94 E-value=9.6 Score=36.85 Aligned_cols=33 Identities=15% Similarity=0.282 Sum_probs=22.0
Q ss_pred ccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhh
Q 040121 20 YNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLR 59 (368)
Q Consensus 20 R~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~ 59 (368)
-.||+.||+-|..++...- .-...|-.|...+.
T Consensus 63 TlCGHLFCWpClyqWl~~~-------~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 63 TLCGHLFCWPCLYQWLQTR-------PNSKECPVCKAEVS 95 (230)
T ss_pred eecccceehHHHHHHHhhc-------CCCeeCCccccccc
Confidence 4799999999998876532 22335566655543
No 107
>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=45.84 E-value=71 Score=28.65 Aligned_cols=56 Identities=20% Similarity=0.350 Sum_probs=34.2
Q ss_pred hhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 186 AKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 186 lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
+.....-|.+|+..|+..+..++.||..+.+.+-. +| ..+-|..|..+++.|.+||
T Consensus 77 ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~------~e------l~~~i~~l~~e~~~l~~kL 132 (169)
T PF07106_consen 77 LDAEIKELREELAELKKEVKSLEAELASLSSEPTN------EE------LREEIEELEEEIEELEEKL 132 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCH------HH------HHHHHHHHHHHHHHHHHHH
Confidence 34444455555666666666666666666554422 12 3456777888888888777
No 108
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=45.73 E-value=14 Score=28.06 Aligned_cols=25 Identities=16% Similarity=0.239 Sum_probs=15.1
Q ss_pred CCCCCCCCCCc-ccccccccccCCce
Q 040121 1 MRSGCRLPFNN-FKRKRHNCYNYGMV 25 (368)
Q Consensus 1 ~C~~C~~~F~~-f~rRRHHCR~CG~V 25 (368)
.|+.|+..-.. ...|.+.|.+||..
T Consensus 30 ~C~~CG~~~~~~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 30 TCPRCGHRNKKRRSGRVFTCPNCGFE 55 (69)
T ss_pred CccCcccccccccccceEEcCCCCCE
Confidence 36677665442 34566777777765
No 109
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=45.62 E-value=59 Score=36.86 Aligned_cols=57 Identities=23% Similarity=0.294 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHH-------HHHHHhhhhhhhHHHHHHHHHHHHHHH
Q 040121 193 VGQEVENHTRKAQLQEVELERTTKQLKEAI-------AIAGEETAKCKAAKEVIKSLTAQLKDM 249 (368)
Q Consensus 193 L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~-------~lA~eEsaK~kAAKEvIKSLTaQLKdM 249 (368)
+.+|++.|..+.+..+.||+++++++...- .+..+|-+|-....+-|+.|.+.|+.|
T Consensus 809 ~~~e~~rL~K~l~kl~~ei~~~~~kL~n~~F~~KAP~~vve~e~~kl~~~~~~~~~l~~~l~~l 872 (874)
T PRK05729 809 VEAELARLEKELAKLEKEIERVEKKLSNEGFVAKAPEEVVEKEREKLAEYEEKLAKLKERLARL 872 (874)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 567889999999999999999999988644 345556666666666666666666554
No 110
>PF10506 MCC-bdg_PDZ: PDZ domain of MCC-2 bdg protein for Usher syndrome; InterPro: IPR019536 The entry represents a protein that has a high homology to the tumour suppressor Usher syndrome type-1C protein-binding protein 1, or known as MCC2 (mutated in colon cancer). MCC2 protein binds the first PDZ domain of AIE-75 with its C-terminal amino acids -DTFL. A possible role of MCC2 as a tumour suppressor has been put forward. The carboxyl terminus of the predicted protein was DTFL which matched the consensus motif X-S/T-X-phi (phi: hydrophobic amino acid residue) for binding to the PDZ domain of AIE-75 [, ].
Probab=45.59 E-value=1.5e+02 Score=23.43 Aligned_cols=60 Identities=18% Similarity=0.341 Sum_probs=43.4
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHH
Q 040121 182 LVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSL 242 (368)
Q Consensus 182 ~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSL 242 (368)
-++.|+-.|+.|.-=.+..+++|+..-..+.++.-.+--. -+|-.=+.+|+-|-++.=+|
T Consensus 6 ~ie~L~~~n~~L~~~le~~k~~se~Ls~~lgk~es~~~al-rlal~ys~r~~e~~~~llal 65 (67)
T PF10506_consen 6 RIEELKSQNEMLSSTLEERKQQSEELSMDLGKYESNATAL-RLALKYSERCKEAYEVLLAL 65 (67)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH-HHHHHHHHHHHHHHHHHHHh
Confidence 3788999999999888889999999999888876554322 55555555665555555444
No 111
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=45.58 E-value=8.7 Score=32.96 Aligned_cols=20 Identities=40% Similarity=0.800 Sum_probs=14.7
Q ss_pred cccccCCcee----------eCCCCCcccc
Q 040121 17 HNCYNYGMVF----------CHSSSSKKTL 36 (368)
Q Consensus 17 HHCR~CG~Vf----------C~sCSs~~~~ 36 (368)
|.|-+||.+| |..|..++..
T Consensus 3 H~CtrCG~vf~~g~~~il~GCp~CG~nkF~ 32 (112)
T COG3364 3 HQCTRCGEVFDDGSEEILSGCPKCGCNKFL 32 (112)
T ss_pred ceecccccccccccHHHHccCccccchheE
Confidence 8888888887 6667666544
No 112
>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold). The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.
Probab=45.49 E-value=1.5e+02 Score=25.55 Aligned_cols=39 Identities=10% Similarity=0.263 Sum_probs=20.1
Q ss_pred hhhhHHHHHHHHH-------HHHHHHHHhHHHHHHHHHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQE-------VENHTRKAQLQEVELERTTKQLKEAI 222 (368)
Q Consensus 184 d~lkk~n~~L~qE-------V~~L~~k~~~q~~elq~~~kk~~Ea~ 222 (368)
++.|-.++.|..| +.+|.++-..+..-+-.++.+|.||.
T Consensus 26 E~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~ 71 (107)
T PF09304_consen 26 EDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEAR 71 (107)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444 55555555555555555555555553
No 113
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=45.42 E-value=14 Score=37.26 Aligned_cols=62 Identities=13% Similarity=0.178 Sum_probs=36.8
Q ss_pred CCCCCCCCC--Cc------ccccccccccCCc------eeeCCCCCcccccccCCCCC---CCCcccccchHHHhhhccC
Q 040121 1 MRSGCRLPF--NN------FKRKRHNCYNYGM------VFCHSSSSKKTLKASMAPNP---NKPYRICDNCFSKLRKAFH 63 (368)
Q Consensus 1 ~C~~C~~~F--~~------f~rRRHHCR~CG~------VfC~sCSs~~~~~~~l~p~~---~kpvRVC~~C~~~L~~~~e 63 (368)
.|..|+..= +. -..|..||-.||. +-|..|....-+ ..+.... ...+-+|+.|...+.....
T Consensus 189 ~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~~~l-~y~~~~~~~~~~r~e~C~~C~~YlK~~~~ 267 (309)
T PRK03564 189 FCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQSGKL-HYWSLDSEQAAVKAESCGDCGTYLKILYQ 267 (309)
T ss_pred CCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCCCCce-eeeeecCCCcceEeeecccccccceeccc
Confidence 488887642 20 1246778888874 468888764322 1221111 2344599999999877644
No 114
>PF09074 Mer2: Mer2; InterPro: IPR015159 Meiotic recombination 2 protein (Mer2) also known as Rec107, forms part of a complex that is required for meiotic double strand DNA break formation. Mer2 increases in abundance and is phosphorylated during the prophase phase of cell division []. MER2 is not required for mitosis and mitotic DNA repair mechanisms and is a component of the MER2-MEI4-REC114 complex which seems to be required for meiotic double-strand break (DSB) formation []. ; GO: 0007131 reciprocal meiotic recombination, 0000794 condensed nuclear chromosome
Probab=45.39 E-value=2.3e+02 Score=26.85 Aligned_cols=49 Identities=24% Similarity=0.241 Sum_probs=32.5
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHH-----hhhhhhhHHHHHHHHHHHHH
Q 040121 199 NHTRKAQLQEVELERTTKQLKEAIAIAGE-----ETAKCKAAKEVIKSLTAQLK 247 (368)
Q Consensus 199 ~L~~k~~~q~~elq~~~kk~~Ea~~lA~e-----EsaK~kAAKEvIKSLTaQLK 247 (368)
+|+++...+..=|++-.++|.+++.--.+ |+|+-+-+|++||.|.+||+
T Consensus 41 dLrEks~~L~~lL~~ns~~L~~~~~~Ln~~l~~~~~s~~~~ik~~i~~l~~~i~ 94 (190)
T PF09074_consen 41 DLREKSSKLINLLNQNSKELCSVQEQLNELLNSIEKSSNEDIKKLIKSLGNQIN 94 (190)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 56677766666666666666555443322 36778889999999998443
No 115
>PHA01754 hypothetical protein
Probab=45.01 E-value=26 Score=27.41 Aligned_cols=25 Identities=28% Similarity=0.408 Sum_probs=18.8
Q ss_pred HHHHHHHHHhhhhh------hhHHHHHHHHH
Q 040121 219 KEAIAIAGEETAKC------KAAKEVIKSLT 243 (368)
Q Consensus 219 ~Ea~~lA~eEsaK~------kAAKEvIKSLT 243 (368)
+=||+||.||..-- +-|.||||.|.
T Consensus 24 DLamaLATee~EeVRkSevfqkA~EViKvvk 54 (69)
T PHA01754 24 DLTMALATEDKEEVRKSEVFQKALEVVKVVK 54 (69)
T ss_pred HHHHHHhhcchHHHHHHHHHHHHHHHHHHHH
Confidence 45899999887643 45899999864
No 116
>PRK14143 heat shock protein GrpE; Provisional
Probab=44.93 E-value=1.3e+02 Score=29.15 Aligned_cols=61 Identities=11% Similarity=0.171 Sum_probs=41.0
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTA 244 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTa 244 (368)
+..|+...+.|.+|++.|+.+.....++++.++|+++.-..-+.. .+..+.++++|-.|.+
T Consensus 69 ~~~l~~el~~l~~e~~elkd~~lR~~AdfeN~RKR~~kE~e~~~~-~a~~~~~~~lLpV~Dn 129 (238)
T PRK14143 69 LAQLEQELESLKQELEELNSQYMRIAADFDNFRKRTSREQEDLRL-QLKCNTLSEILPVVDN 129 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhH
Confidence 455666666677778888877777778888888887665555444 4455666666665554
No 117
>PLN02320 seryl-tRNA synthetase
Probab=44.87 E-value=1.3e+02 Score=32.40 Aligned_cols=56 Identities=18% Similarity=0.238 Sum_probs=25.3
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhh----hhhhhHHHHHHHHHH-------HHHHHHHhCC
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEET----AKCKAAKEVIKSLTA-------QLKDMAERLP 254 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEs----aK~kAAKEvIKSLTa-------QLKdMAeKLp 254 (368)
-..|..+.+.+..|..+..|++... ...++. ++.|..|+-|+.|.+ +|.+++.+||
T Consensus 102 ~r~~~~~~~~lr~ern~~sk~i~~~--~~~~~~~~l~~~~k~lk~~i~~le~~~~~~~~~l~~~~l~iP 168 (502)
T PLN02320 102 MLALQKEVERLRAERNAVANKMKGK--LEPSERQALVEEGKNLKEGLVTLEEDLVKLTDELQLEAQSIP 168 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh--hCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 3444444444444555555554431 111111 123344555555544 5556666665
No 118
>COG3122 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.51 E-value=1.5e+02 Score=28.08 Aligned_cols=16 Identities=31% Similarity=0.447 Sum_probs=8.1
Q ss_pred CCCCCCCCCCCCCCCC
Q 040121 158 SRQPSPPRSTTPTPTL 173 (368)
Q Consensus 158 s~~~spprs~~p~p~~ 173 (368)
-++||||..++.+|..
T Consensus 12 g~k~~~~~~~~s~~g~ 27 (215)
T COG3122 12 GFKPSPKPESKSTPGG 27 (215)
T ss_pred cCCCCCCCCCcCCCCc
Confidence 3566665544444433
No 119
>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=44.41 E-value=54 Score=27.56 Aligned_cols=41 Identities=15% Similarity=0.316 Sum_probs=33.9
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 040121 182 LVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAI 222 (368)
Q Consensus 182 ~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~ 222 (368)
+..+|++.-+.|..+++.|..+-+..+.+|.+.++++++++
T Consensus 68 ~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~~ 108 (110)
T TIGR02338 68 AIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEAL 108 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45667777777777799999999999999999999998875
No 120
>PRK00846 hypothetical protein; Provisional
Probab=44.35 E-value=1.7e+02 Score=23.73 Aligned_cols=55 Identities=16% Similarity=0.228 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHh
Q 040121 191 DRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAER 252 (368)
Q Consensus 191 ~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeK 252 (368)
+.|.+-+..|..+.-.||.=|+.+.+.+-+-+..- .--++-|+.|+.+||+|...
T Consensus 9 ~~le~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I-------~~L~~ql~~L~~rL~~~~~s 63 (77)
T PRK00846 9 QALEARLVELETRLSFQEQALTELSEALADARLTG-------ARNAELIRHLLEDLGKVRST 63 (77)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhccc
Confidence 34555588888888888887777776665543221 11234455566666666533
No 121
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=44.14 E-value=13 Score=26.44 Aligned_cols=22 Identities=14% Similarity=0.270 Sum_probs=12.2
Q ss_pred CCCCCCCCCccccc--ccccccCCc
Q 040121 2 RSGCRLPFNNFKRK--RHNCYNYGM 24 (368)
Q Consensus 2 C~~C~~~F~~f~rR--RHHCR~CG~ 24 (368)
|..|+..|. +... ..+|..||.
T Consensus 6 C~~CG~~~~-~~~~~~~~~Cp~CG~ 29 (46)
T PRK00398 6 CARCGREVE-LDEYGTGVRCPYCGY 29 (46)
T ss_pred CCCCCCEEE-ECCCCCceECCCCCC
Confidence 777777775 3322 345555554
No 122
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=44.00 E-value=5.8 Score=37.38 Aligned_cols=55 Identities=16% Similarity=0.181 Sum_probs=34.6
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccC------CCCCCCCcccccchHHHhhh
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASM------APNPNKPYRICDNCFSKLRK 60 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l------~p~~~kpvRVC~~C~~~L~~ 60 (368)
.|.+|...|. .-.--.||.+||..|...+...... .....+....|-.|...+..
T Consensus 20 ~CpICld~~~-----dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 20 DCNICLDQVR-----DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCccCCCcCC-----CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 4889988665 1233589999999999765421100 01113345689999887743
No 123
>PF07061 Swi5: Swi5; InterPro: IPR010760 This entry represents Swi5 and is involved in meiotic DNA repair synthesis and meiotic joint molecule formation []. It is known to interact with Swi2, Rhp51 and Swi6 [].
Probab=43.90 E-value=1.1e+02 Score=25.08 Aligned_cols=24 Identities=38% Similarity=0.576 Sum_probs=17.6
Q ss_pred hhHHHHHHHHHH--HHHHHHHhCCCCc
Q 040121 233 KAAKEVIKSLTA--QLKDMAERLPVGT 257 (368)
Q Consensus 233 kAAKEvIKSLTa--QLKdMAeKLp~g~ 257 (368)
+..+.-|+-|-. .|||++..| -|.
T Consensus 36 ~~v~~hI~lLheYNeiKD~gQ~L-ig~ 61 (83)
T PF07061_consen 36 KIVKRHIKLLHEYNEIKDIGQGL-IGL 61 (83)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHH-HHH
Confidence 345667777775 999999888 553
No 124
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=43.70 E-value=12 Score=40.73 Aligned_cols=60 Identities=15% Similarity=0.309 Sum_probs=41.4
Q ss_pred CCCCCCCCC-cccccccccccCCceeeCCCCCccccc-ccC-CCC-CCCCcccccchHHHhhhc
Q 040121 2 RSGCRLPFN-NFKRKRHNCYNYGMVFCHSSSSKKTLK-ASM-APN-PNKPYRICDNCFSKLRKA 61 (368)
Q Consensus 2 C~~C~~~F~-~f~rRRHHCR~CG~VfC~sCSs~~~~~-~~l-~p~-~~kpvRVC~~C~~~L~~~ 61 (368)
|.+|+..++ .+..+-.-|+.+|+.||..|-.+-..+ |+- -.+ .-.++.||+.=+..|...
T Consensus 343 CAgC~~~i~~~~~~~~R~C~y~G~y~C~~Ch~~~~svIPARVl~~WDf~~y~Vs~~a~~~L~~i 406 (580)
T KOG1829|consen 343 CAGCGHTIGPDLEQRPRLCRYLGKYFCDCCHQNDKSVIPARVLHNWDFTKYPVSNFAKQFLDEI 406 (580)
T ss_pred ecccCCCcccccccchhHhhhhhhhhCchhcccCcccccccceecccCcccccchhHHHHHHHH
Confidence 899999998 566777889999999999998774332 321 111 235666776655555544
No 125
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=43.69 E-value=99 Score=32.14 Aligned_cols=64 Identities=19% Similarity=0.221 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHH----HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhCCC
Q 040121 192 RVGQEVENHTRKAQLQEVELERTTKQ----LKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERLPV 255 (368)
Q Consensus 192 ~L~qEV~~L~~k~~~q~~elq~~~kk----~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKLp~ 255 (368)
-|..|+++|+.+......+|....++ +++..+-+.+=..+-++.++-++.|.++|.+++.+||-
T Consensus 41 ~~~~~~~~l~~erN~~sk~i~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~lPN 108 (418)
T TIGR00414 41 KLLSEIEELQAKRNELSKQIGKAKGQKKDKIEEIKKELKELKEELTELSAALKALEAELQDKLLSIPN 108 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 56677999998888888888664433 23333344555567788888899999999999999864
No 126
>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=43.65 E-value=55 Score=30.13 Aligned_cols=37 Identities=22% Similarity=0.354 Sum_probs=30.9
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLK 219 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~ 219 (368)
...+.+.|+-|.+|+..|+++-+.++.|++++.+++.
T Consensus 99 ~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~ 135 (161)
T TIGR02894 99 DQALQKENERLKNQNESLQKRNEELEKELEKLRQRLS 135 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456778888889999999999999999998888764
No 127
>COG3599 DivIVA Cell division initiation protein [Cell division and chromosome partitioning]
Probab=43.20 E-value=1.9e+02 Score=27.59 Aligned_cols=68 Identities=21% Similarity=0.217 Sum_probs=41.2
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH-HHHHHHHhh--h---hhhhHHHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKE-AIAIAGEET--A---KCKAAKEVIKSLTAQLKDMA 250 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~E-a~~lA~eEs--a---K~kAAKEvIKSLTaQLKdMA 250 (368)
.|.+.+.-+.|.+|++.|+++.+.++.+|+........ ++..|..++ . -.+.+.++||-+.++=+.|.
T Consensus 32 LD~V~~dye~~l~e~~~l~~~i~~L~~~l~~~~~~~~s~~i~~a~~~a~~~~~~a~~ea~~il~~a~~~a~~v~ 105 (212)
T COG3599 32 LDDVIDDYEQLLDENEDLEDEIDELKEELKEAADAEDSQAIQQAETEAEELKQAAEAEADDILKRASAQAQRVF 105 (212)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35566666677777888888877777777766654332 233333221 1 23447788888887655543
No 128
>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=42.90 E-value=2e+02 Score=28.88 Aligned_cols=67 Identities=22% Similarity=0.308 Sum_probs=38.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhh----------hHHHHHHHHHHHHHHHHHhC
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCK----------AAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~k----------AAKEvIKSLTaQLKdMAeKL 253 (368)
+.|++..+.|.+|++.|.++++.++.||..++.++++ +-.+|..--+ ...+-..+|.+|+.-+.++|
T Consensus 53 ~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~---l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~L 129 (314)
T PF04111_consen 53 EKLEQEEEELLQELEELEKEREELDQELEELEEELEE---LDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYASNQL 129 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555666666888888888888777776665544 2233332111 12344456666766665555
No 129
>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=42.87 E-value=1.3e+02 Score=30.72 Aligned_cols=30 Identities=37% Similarity=0.339 Sum_probs=22.1
Q ss_pred HHhhhhhhhHHHHHHHHHHHHHHHHHhCCC
Q 040121 226 GEETAKCKAAKEVIKSLTAQLKDMAERLPV 255 (368)
Q Consensus 226 ~eEsaK~kAAKEvIKSLTaQLKdMAeKLp~ 255 (368)
.||.+.....++-||..-.++.||-.-||.
T Consensus 64 ~e~~~~i~~L~~~Ik~r~~~l~DmEa~LPk 93 (330)
T PF07851_consen 64 AEERELIEKLEEDIKERRCQLFDMEAFLPK 93 (330)
T ss_pred hhHHHHHHHHHHHHHHHHhhHHHHHhhCCC
Confidence 356666677777788888888888777764
No 130
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=42.86 E-value=8.4 Score=26.28 Aligned_cols=30 Identities=17% Similarity=0.166 Sum_probs=20.8
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCCCCccc
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKT 35 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~ 35 (368)
|.+|...+. .....-.||.+||..|.....
T Consensus 1 C~iC~~~~~----~~~~~~~CGH~fC~~C~~~~~ 30 (39)
T PF13923_consen 1 CPICLDELR----DPVVVTPCGHSFCKECIEKYL 30 (39)
T ss_dssp ETTTTSB-S----SEEEECTTSEEEEHHHHHHHH
T ss_pred CCCCCCccc----CcCEECCCCCchhHHHHHHHH
Confidence 567765333 344678999999999976643
No 131
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.68 E-value=8.9 Score=34.53 Aligned_cols=57 Identities=21% Similarity=0.381 Sum_probs=39.9
Q ss_pred CCCCCCC-CCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhhccCCC
Q 040121 1 MRSGCRL-PFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRKAFHTD 65 (368)
Q Consensus 1 ~C~~C~~-~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~~~e~~ 65 (368)
.|.+|.+ +|- -.- -|+|..|-.-||..|...-.+. +++-.-||..|-....-...++
T Consensus 67 tC~IC~KTKFA-DG~-GH~C~YCq~r~CARCGGrv~lr------sNKv~wvcnlc~k~q~il~ksg 124 (169)
T KOG3799|consen 67 TCGICHKTKFA-DGC-GHNCSYCQTRFCARCGGRVSLR------SNKVMWVCNLCRKQQEILTKSG 124 (169)
T ss_pred chhhhhhcccc-ccc-CcccchhhhhHHHhcCCeeeec------cCceEEeccCCcHHHHHHHhcc
Confidence 4888866 453 212 4999999999999998774331 3677889999987655444433
No 132
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=42.65 E-value=5.4 Score=39.02 Aligned_cols=62 Identities=18% Similarity=0.295 Sum_probs=29.9
Q ss_pred CCCCCCCCCC-cc-------cccccccccCCce------eeCCCCCccccc-ccC--CCCCCCCcccccchHHHhhhcc
Q 040121 1 MRSGCRLPFN-NF-------KRKRHNCYNYGMV------FCHSSSSKKTLK-ASM--APNPNKPYRICDNCFSKLRKAF 62 (368)
Q Consensus 1 ~C~~C~~~F~-~f-------~rRRHHCR~CG~V------fC~sCSs~~~~~-~~l--~p~~~kpvRVC~~C~~~L~~~~ 62 (368)
.|..|+..=. .. .+|..||-.||.- -|..|....... ..+ .......+-||+.|...+..+.
T Consensus 174 ~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C~~YlK~vd 252 (290)
T PF04216_consen 174 YCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESCGSYLKTVD 252 (290)
T ss_dssp S-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---SS-EEE--------SEEEEEETTTTEEEEEEE
T ss_pred cCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCCCcceeeEecCCCCcEEEEECCcccchHHHHh
Confidence 4888876321 01 2467889999864 688888764331 122 1123455569999999988775
No 133
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=42.47 E-value=1.4e+02 Score=33.56 Aligned_cols=9 Identities=11% Similarity=0.586 Sum_probs=4.1
Q ss_pred CCCcccchh
Q 040121 177 TSPKILVDD 185 (368)
Q Consensus 177 ~~~~~~~d~ 185 (368)
.+|..+++.
T Consensus 493 Glp~~ii~~ 501 (771)
T TIGR01069 493 GIPHFIIEQ 501 (771)
T ss_pred CcCHHHHHH
Confidence 345544443
No 134
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=42.09 E-value=7.5 Score=27.35 Aligned_cols=33 Identities=18% Similarity=0.310 Sum_probs=22.6
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCccc
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKT 35 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~ 35 (368)
.|..|...|+ - .++-.=-.||.+||..|.....
T Consensus 1 ~C~~C~~~~~-~-~~~~~l~~CgH~~C~~C~~~~~ 33 (44)
T PF14634_consen 1 HCNICFEKYS-E-ERRPRLTSCGHIFCEKCLKKLK 33 (44)
T ss_pred CCcCcCcccc-C-CCCeEEcccCCHHHHHHHHhhc
Confidence 3888988883 1 1223335899999999986643
No 135
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=41.84 E-value=1.1e+02 Score=30.68 Aligned_cols=52 Identities=15% Similarity=0.222 Sum_probs=23.6
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 199 NHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 199 ~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.|..+-+.+..||..+++...| +......+-+++|+=|+.+..+|.++..+|
T Consensus 181 ~l~~~~~~L~~e~~~Lk~~~~e---~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l 232 (325)
T PF08317_consen 181 KLRERKAELEEELENLKQLVEE---IESCDQEELEALRQELAEQKEEIEAKKKEL 232 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh---hhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444445444444443 333444444555555555555444333333
No 136
>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans. Its function is unknown.
Probab=41.82 E-value=4.3e+02 Score=27.65 Aligned_cols=68 Identities=18% Similarity=0.251 Sum_probs=37.6
Q ss_pred hhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH----HHHHhhhhhhhHHHHHHHHHH-----------HHHHHH
Q 040121 186 AKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIA----IAGEETAKCKAAKEVIKSLTA-----------QLKDMA 250 (368)
Q Consensus 186 lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~----lA~eEsaK~kAAKEvIKSLTa-----------QLKdMA 250 (368)
.......|.+|+..+++....++.++++++-+++--.. ---||.-|+.---|-|--||. +|-+|.
T Consensus 210 ~~~~l~~~~~el~eik~~~~~L~~~~e~Lk~~~~~e~~~~~~~LqEEr~R~erLEeqlNd~~elHq~Ei~~LKqeLa~~E 289 (395)
T PF10267_consen 210 QNLGLQKILEELREIKESQSRLEESIEKLKEQYQREYQFILEALQEERYRYERLEEQLNDLTELHQNEIYNLKQELASME 289 (395)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 34444456666666666666666666666654432111 123555555555555555553 566777
Q ss_pred HhC
Q 040121 251 ERL 253 (368)
Q Consensus 251 eKL 253 (368)
||+
T Consensus 290 EK~ 292 (395)
T PF10267_consen 290 EKM 292 (395)
T ss_pred HHH
Confidence 776
No 137
>PRK00045 hemA glutamyl-tRNA reductase; Reviewed
Probab=41.72 E-value=93 Score=32.09 Aligned_cols=53 Identities=26% Similarity=0.285 Sum_probs=28.1
Q ss_pred HHHHHHHHhH-HHHHHHHHHHHHHHH--HHHHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQL-QEVELERTTKQLKEA--IAIAGEETAKCKAAKEVIKSLTAQLKDMA 250 (368)
Q Consensus 197 V~~L~~k~~~-q~~elq~~~kk~~Ea--~~lA~eEsaK~kAAKEvIKSLTaQLKdMA 250 (368)
|..|+++++. .+.||++.-+++... -.-.-|... ...++-++.-.|..||+++
T Consensus 345 I~~lr~~~~~i~~~el~~~~~~l~~~~~~~~~~~~~~-~~~~~k~lh~p~~~lr~~~ 400 (423)
T PRK00045 345 IRALREQAEEIREEELERALKKLGPGEDEEEVLEKLA-RSLVNKLLHAPTVRLKEAA 400 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHH-HHHHHHHHHHHHHHHHhhc
Confidence 5666666544 556888887776310 000111222 3445556666666788743
No 138
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=41.54 E-value=20 Score=26.22 Aligned_cols=32 Identities=19% Similarity=0.375 Sum_probs=21.6
Q ss_pred CC--CCCCCCCcc---cccccccccCCceeeCCCCCc
Q 040121 2 RS--GCRLPFNNF---KRKRHNCYNYGMVFCHSSSSK 33 (368)
Q Consensus 2 C~--~C~~~F~~f---~rRRHHCR~CG~VfC~sCSs~ 33 (368)
|. .|...+... ....-.|..||..||..|...
T Consensus 21 CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~ 57 (64)
T smart00647 21 CPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVP 57 (64)
T ss_pred CCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCc
Confidence 55 665544311 344678989999999999755
No 139
>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules. The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].
Probab=41.49 E-value=1.7e+02 Score=27.84 Aligned_cols=69 Identities=19% Similarity=0.303 Sum_probs=43.4
Q ss_pred cccchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhh-HHHHHHHHHHHHHH
Q 040121 180 KILVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKA-AKEVIKSLTAQLKD 248 (368)
Q Consensus 180 ~~~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kA-AKEvIKSLTaQLKd 248 (368)
+.++.++++--+.|...|+....+.+..+...|-++..+++=+..|-+|-+..+. ++.=+..|.++||-
T Consensus 103 K~vi~~~k~NEE~Lkk~~~ey~~~l~~~eqry~aLK~hAeekL~~ANeei~~v~~~~~~e~~aLqa~lkk 172 (207)
T PF05010_consen 103 KEVIEGYKKNEETLKKCIEEYEERLKKEEQRYQALKAHAEEKLEKANEEIAQVRSKHQAELLALQASLKK 172 (207)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 3456777777777777776666666666666666666666666677666655433 34444555555553
No 140
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=41.01 E-value=3.5 Score=31.13 Aligned_cols=43 Identities=19% Similarity=0.383 Sum_probs=31.3
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHh
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKL 58 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L 58 (368)
+|..|+..|. + .--..|-.||+--|++|-. ..+-.|+.|-..+
T Consensus 9 ~CDLCn~~~p-~-~~LRQCvlCGRWaC~sCW~-------------deYY~CksC~Gii 51 (57)
T PF14445_consen 9 SCDLCNSSHP-I-SELRQCVLCGRWACNSCWQ-------------DEYYTCKSCNGII 51 (57)
T ss_pred hHHhhcccCc-H-HHHHHHhhhchhhhhhhhh-------------hhHhHHHhhhchh
Confidence 4778988887 3 2346899999999999963 3345677776654
No 141
>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]
Probab=40.81 E-value=1.5e+02 Score=28.32 Aligned_cols=44 Identities=34% Similarity=0.357 Sum_probs=34.7
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
.+.|..+.+..+.++.....+++||-.||-+=-.|+ .||++.|+
T Consensus 48 ~Kv~enr~~kdEE~~e~~e~qLkEAk~iaE~adrK~---eEVarkL~ 91 (205)
T KOG1003|consen 48 MKVIENRAQKLEEKMEAQEAQLKEAKHIAEKADRKY---EEVARKLV 91 (205)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHH
Confidence 456677788888899999999999988875544466 78888887
No 142
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=40.64 E-value=21 Score=24.73 Aligned_cols=28 Identities=29% Similarity=0.510 Sum_probs=11.1
Q ss_pred ccccCCceeeCCCCCcccccccCCCCCCCCcccccchHH
Q 040121 18 NCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFS 56 (368)
Q Consensus 18 HCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~ 56 (368)
.|-.||+.|-.+-.. ..-.++||+.|-.
T Consensus 5 ~C~eC~~~f~dSyL~-----------~~F~~~VCD~CRD 32 (34)
T PF01286_consen 5 KCDECGKPFMDSYLL-----------NNFDLPVCDKCRD 32 (34)
T ss_dssp E-TTT--EES-SSCC-----------CCTS-S--TTT-S
T ss_pred hHhHhCCHHHHHHHH-----------HhCCccccccccC
Confidence 566676666554321 2455678888853
No 143
>PRK09343 prefoldin subunit beta; Provisional
Probab=40.52 E-value=77 Score=27.35 Aligned_cols=41 Identities=7% Similarity=0.165 Sum_probs=29.9
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIA 223 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~ 223 (368)
..++++.-+.+.-+++.|..+-+..+.+|.+.+.++++++.
T Consensus 73 ~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll~ 113 (121)
T PRK09343 73 EKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEMLS 113 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666677777777777777777777777777777654
No 144
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=40.49 E-value=85 Score=36.22 Aligned_cols=58 Identities=17% Similarity=0.215 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHH-------HHHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 040121 193 VGQEVENHTRKAQLQEVELERTTKQLKEAI-------AIAGEETAKCKAAKEVIKSLTAQLKDMA 250 (368)
Q Consensus 193 L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~-------~lA~eEsaK~kAAKEvIKSLTaQLKdMA 250 (368)
+..|++.|+.+.+..+.||++++++|...- .+...|-+|....++-|..|...|+.+.
T Consensus 927 ~~~E~~rL~K~l~kl~~ei~~~~~kL~N~~F~~kAp~~vve~e~~kl~~~~~~l~~l~~~l~~l~ 991 (995)
T PTZ00419 927 LKKELAKLEKKLAKLQKSLESYLKKISIPNYEDKVPEDVRKLNDEKIDELNEEIKQLEQAIEELK 991 (995)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457899999999999999999999996543 4556666676677777777777666664
No 145
>PRK02119 hypothetical protein; Provisional
Probab=40.43 E-value=1.9e+02 Score=23.00 Aligned_cols=24 Identities=29% Similarity=0.277 Sum_probs=15.5
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~E 220 (368)
+..|..|.-.||.-|+.+.+-+-+
T Consensus 11 i~~LE~rla~QE~tie~LN~~v~~ 34 (73)
T PRK02119 11 IAELEMKIAFQENLLEELNQALIE 34 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 677777777777666666554443
No 146
>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed. It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].
Probab=40.21 E-value=2.2e+02 Score=28.51 Aligned_cols=68 Identities=13% Similarity=0.200 Sum_probs=53.4
Q ss_pred cchhhhHHHHHHH---HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH
Q 040121 182 LVDDAKRTNDRVG---QEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDM 249 (368)
Q Consensus 182 ~~d~lkk~n~~L~---qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdM 249 (368)
..|.|.++|++.. +|++.+..++..+|.|-...+.+.+.+-.-..+-++....-++=|..|+.|+.-|
T Consensus 228 fq~tL~kSNe~F~tfk~Emekm~Kk~kklEKE~~~~k~k~e~~n~~l~~m~eer~~~~~~~~~~~~k~~kL 298 (309)
T PF09728_consen 228 FQDTLNKSNEVFETFKKEMEKMSKKIKKLEKENQTWKSKWEKSNKALIEMAEERQKLEKELEKLKKKIEKL 298 (309)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578999999654 8999999999999999999999888877766666666666677777777765443
No 147
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=39.97 E-value=1.8e+02 Score=31.15 Aligned_cols=25 Identities=12% Similarity=0.154 Sum_probs=13.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQE 208 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~ 208 (368)
.+.+..-+.+.+|+.+|++.....+
T Consensus 350 en~k~~~e~~~~e~~~l~~~~~~~e 374 (493)
T KOG0804|consen 350 ENQKQYYELLITEADSLKQESSDLE 374 (493)
T ss_pred HhHHHHHHHHHHHHHhhhhhhhHHH
Confidence 4445555566666666655543333
No 148
>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms. The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.
Probab=39.90 E-value=9.6 Score=42.00 Aligned_cols=59 Identities=24% Similarity=0.381 Sum_probs=0.0
Q ss_pred HHHHHH---HHhHHHHHHHHHHHHHHHHH--------------------HHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTR---KAQLQEVELERTTKQLKEAI--------------------AIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~---k~~~q~~elq~~~kk~~Ea~--------------------~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
|+-|++ |.+.++.+|++|++|+++.- .+--||..|..+.+.-|..+..|+.+|..++
T Consensus 300 lD~lR~~a~r~~klE~~ve~YKkKLed~~~lk~qvk~Lee~N~~l~e~~~~LEeel~~~~~~~~qle~~k~qi~eLe~~l 379 (713)
T PF05622_consen 300 LDELREKADRADKLENEVEKYKKKLEDLEDLKRQVKELEEDNAVLLETKAMLEEELKKARALKSQLEEYKKQIQELEQKL 379 (713)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 455555 45567789999999987653 4556788888888888888888888887777
Q ss_pred CC
Q 040121 254 PV 255 (368)
Q Consensus 254 p~ 255 (368)
-.
T Consensus 380 ~~ 381 (713)
T PF05622_consen 380 SE 381 (713)
T ss_dssp --
T ss_pred HH
Confidence 43
No 149
>PF07271 Cytadhesin_P30: Cytadhesin P30/P32; InterPro: IPR009896 This family consists of several Mycoplasma species specific Cytadhesin P32 and P30 proteins. P30 has been found to be membrane associated and localised on the tip organelle. It is thought that it is important in cytadherence and virulence [].; GO: 0007157 heterophilic cell-cell adhesion, 0009405 pathogenesis, 0016021 integral to membrane
Probab=39.89 E-value=37 Score=33.72 Aligned_cols=48 Identities=27% Similarity=0.328 Sum_probs=27.8
Q ss_pred hHHHHHHHHHHHHHHHHHhHHHHHHHHH-HHHHHHHHHHHHHhhhhhhhHHHH
Q 040121 187 KRTNDRVGQEVENHTRKAQLQEVELERT-TKQLKEAIAIAGEETAKCKAAKEV 238 (368)
Q Consensus 187 kk~n~~L~qEV~~L~~k~~~q~~elq~~-~kk~~Ea~~lA~eEsaK~kAAKEv 238 (368)
|+....+.||++.-.| .-+++++. +|..+||+..+.-|.++++|+++-
T Consensus 96 krkek~~iee~e~~~q----~~e~~~~i~qq~~~ea~e~~~~~e~~~~A~~~p 144 (279)
T PF07271_consen 96 KRKEKRMIEEKEEHEQ----LAEQLGRISQQEETEAIEKTPSAEANAQAPEAP 144 (279)
T ss_pred hhhHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhhcCchhhhhccccccc
Confidence 3446677777665222 23344443 444556766666667788887763
No 150
>PLN02320 seryl-tRNA synthetase
Probab=39.85 E-value=87 Score=33.68 Aligned_cols=59 Identities=20% Similarity=0.119 Sum_probs=26.6
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH--hhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 195 QEVENHTRKAQLQEVELERTTKQLKEAIAIAGE--ETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 195 qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~e--EsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.+|-.|-++......+++.++.+..+...-.+. +.....+.++=+|.|..+|+++.+.+
T Consensus 93 d~l~~ld~~~r~~~~~~~~lr~ern~~sk~i~~~~~~~~~~~l~~~~k~lk~~i~~le~~~ 153 (502)
T PLN02320 93 ELVLELYENMLALQKEVERLRAERNAVANKMKGKLEPSERQALVEEGKNLKEGLVTLEEDL 153 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555555555554333332 00011223333455555555555444
No 151
>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=39.48 E-value=1.9e+02 Score=22.80 Aligned_cols=53 Identities=17% Similarity=0.102 Sum_probs=29.5
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDM 249 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdM 249 (368)
|+.|=+.|+.+..|=..+..++.....-=+-=-.|.-+|..=|++|.++||.|
T Consensus 9 le~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEamI~RLk~l 61 (65)
T TIGR02449 9 VEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEAMITRLKAL 61 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 55566666666555555555444332211111235555666788888888876
No 152
>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=39.48 E-value=17 Score=24.61 Aligned_cols=9 Identities=22% Similarity=0.711 Sum_probs=4.8
Q ss_pred CCCCCCCCC
Q 040121 2 RSGCRLPFN 10 (368)
Q Consensus 2 C~~C~~~F~ 10 (368)
|..|+..|.
T Consensus 5 CP~C~~~~~ 13 (38)
T TIGR02098 5 CPNCKTSFR 13 (38)
T ss_pred CCCCCCEEE
Confidence 555555554
No 153
>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=39.16 E-value=3e+02 Score=26.26 Aligned_cols=11 Identities=9% Similarity=0.468 Sum_probs=5.3
Q ss_pred HHHHHHHHHHH
Q 040121 238 VIKSLTAQLKD 248 (368)
Q Consensus 238 vIKSLTaQLKd 248 (368)
++.-+...|+.
T Consensus 106 ~m~~m~~~L~~ 116 (251)
T PF11932_consen 106 LMEQMIDELEQ 116 (251)
T ss_pred HHHHHHHHHHH
Confidence 34444445555
No 154
>PF00261 Tropomyosin: Tropomyosin; 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 [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=38.97 E-value=3.2e+02 Score=25.97 Aligned_cols=55 Identities=25% Similarity=0.349 Sum_probs=31.8
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhh-hhHHHHHHHHHHHHHHHHHh
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKC-KAAKEVIKSLTAQLKDMAER 252 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~-kAAKEvIKSLTaQLKdMAeK 252 (368)
++.+..++..++.+|......++ .+.++.+.++.. ....+-|+.|+.+||+.--+
T Consensus 136 ~e~~E~ki~eLE~el~~~~~~lk-~lE~~~~~~~~re~~~e~~i~~L~~~lkeaE~R 191 (237)
T PF00261_consen 136 AEAAESKIKELEEELKSVGNNLK-SLEASEEKASEREDEYEEKIRDLEEKLKEAENR 191 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhhchhHHHHHHHHHHHHHHHH-HhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555555555 344444444443 44566788888888886544
No 155
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=38.86 E-value=7.3 Score=27.12 Aligned_cols=34 Identities=21% Similarity=0.052 Sum_probs=23.7
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcccc
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTL 36 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~ 36 (368)
.|.+|...|. -... -.--.||.+||..|...++.
T Consensus 2 ~C~IC~~~~~-~~~~-~~~l~C~H~fh~~Ci~~~~~ 35 (44)
T PF13639_consen 2 ECPICLEEFE-DGEK-VVKLPCGHVFHRSCIKEWLK 35 (44)
T ss_dssp CETTTTCBHH-TTSC-EEEETTSEEEEHHHHHHHHH
T ss_pred CCcCCChhhc-CCCe-EEEccCCCeeCHHHHHHHHH
Confidence 4888988885 2222 22345999999999877653
No 156
>PRK10884 SH3 domain-containing protein; Provisional
Probab=38.78 E-value=1.8e+02 Score=27.61 Aligned_cols=27 Identities=11% Similarity=0.099 Sum_probs=15.4
Q ss_pred hHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 040121 187 KRTNDRVGQEVENHTRKAQLQEVELER 213 (368)
Q Consensus 187 kk~n~~L~qEV~~L~~k~~~q~~elq~ 213 (368)
+....-|.+|++.|+.+....+.+.+.
T Consensus 92 ~~rlp~le~el~~l~~~l~~~~~~~~~ 118 (206)
T PRK10884 92 RTRVPDLENQVKTLTDKLNNIDNTWNQ 118 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 444455666677776665555544443
No 157
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=38.77 E-value=2.7e+02 Score=25.29 Aligned_cols=22 Identities=14% Similarity=0.170 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh
Q 040121 209 VELERTTKQLKEAIAIAGEETA 230 (368)
Q Consensus 209 ~elq~~~kk~~Ea~~lA~eEsa 230 (368)
.+|+...++.++.+.-|.+++.
T Consensus 63 ~~L~~Ar~EA~~Ii~~A~~~a~ 84 (154)
T PRK06568 63 AQIKKLETLRSQMIEESNEVTK 84 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444443
No 158
>PLN02943 aminoacyl-tRNA ligase
Probab=38.74 E-value=89 Score=36.02 Aligned_cols=59 Identities=19% Similarity=0.228 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHH-------HHHHHhhhhhhhHHHHHHHHHHHHHHHHH
Q 040121 193 VGQEVENHTRKAQLQEVELERTTKQLKEAI-------AIAGEETAKCKAAKEVIKSLTAQLKDMAE 251 (368)
Q Consensus 193 L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~-------~lA~eEsaK~kAAKEvIKSLTaQLKdMAe 251 (368)
+..|++.|..+.+..+.||+++++++...- .+..+|-+|-+..++-|..|...|+.+.+
T Consensus 887 ~~~E~~rL~K~l~klekei~~~~~kLsN~~F~~KAP~evv~~e~~kl~~~~~~l~~~~~~l~~l~~ 952 (958)
T PLN02943 887 ISAEVERLSKRLSKMQTEYDALAARLSSPKFVEKAPEDVVRGVREKAAEAEEKIKLTKNRLAFLKS 952 (958)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 467789999999999999999999987544 34566777777777777777777776653
No 159
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. 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, 0005634 nucleus
Probab=38.71 E-value=11 Score=28.83 Aligned_cols=14 Identities=36% Similarity=0.911 Sum_probs=11.8
Q ss_pred ccccccCCceeeCC
Q 040121 16 RHNCYNYGMVFCHS 29 (368)
Q Consensus 16 RHHCR~CG~VfC~s 29 (368)
--+|-+||+|+|..
T Consensus 18 ~~NCl~CGkIiC~~ 31 (57)
T PF06221_consen 18 APNCLNCGKIICEQ 31 (57)
T ss_pred cccccccChhhccc
Confidence 36899999999874
No 160
>PF11454 DUF3016: Protein of unknown function (DUF3016); InterPro: IPR021557 This is a bacterial family of uncharacterised proteins.
Probab=38.61 E-value=34 Score=30.74 Aligned_cols=30 Identities=23% Similarity=0.466 Sum_probs=24.5
Q ss_pred hhHHHHHHHHHHHHHHHHHh-CCCCcccCCC
Q 040121 233 KAAKEVIKSLTAQLKDMAER-LPVGTLRNIK 262 (368)
Q Consensus 233 kAAKEvIKSLTaQLKdMAeK-Lp~g~~~~~k 262 (368)
+.-+.+++.|+.-|.++|+| ||+|..-+..
T Consensus 26 ~~~~~~~~~L~~~~~~la~~~Lp~gq~L~v~ 56 (141)
T PF11454_consen 26 RYRERVFAQLTKHFQKLAAKYLPPGQTLEVT 56 (141)
T ss_pred ccHHHHHHHHHHHHHHHHHhhCCCCCEEEEE
Confidence 45577999999999999999 9999644433
No 161
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=38.56 E-value=1.3e+02 Score=30.35 Aligned_cols=43 Identities=21% Similarity=0.297 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 211 LERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 211 lq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
|-.++++++.=+.=.-|=..--.++||.=-.|+++|+||-+|-
T Consensus 243 ivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY 285 (306)
T PF04849_consen 243 IVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKY 285 (306)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444333222223334678999999999999998875
No 162
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=38.42 E-value=21 Score=23.07 Aligned_cols=23 Identities=17% Similarity=0.255 Sum_probs=13.8
Q ss_pred CCCCCCCCCCcccccccccccCCcee
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVF 26 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~Vf 26 (368)
.|..|+..-. .. -.-|.+||..|
T Consensus 2 ~CP~C~~~V~-~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVP-ES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCch-hh--cCcCCCCCCCC
Confidence 3677777555 22 24577777665
No 163
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=38.25 E-value=1.8e+02 Score=32.79 Aligned_cols=8 Identities=13% Similarity=0.476 Sum_probs=3.5
Q ss_pred CCCcccch
Q 040121 177 TSPKILVD 184 (368)
Q Consensus 177 ~~~~~~~d 184 (368)
.+|..+++
T Consensus 498 Glp~~ii~ 505 (782)
T PRK00409 498 GLPENIIE 505 (782)
T ss_pred CcCHHHHH
Confidence 34444443
No 164
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.24 E-value=8.2 Score=38.07 Aligned_cols=34 Identities=29% Similarity=0.581 Sum_probs=23.3
Q ss_pred cccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHh
Q 040121 17 HNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKL 58 (368)
Q Consensus 17 HHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L 58 (368)
--|..||+|||..|.-... ..+.+-.|-.|-.+.
T Consensus 228 ps~t~CgHlFC~~Cl~~~~--------t~~k~~~CplCRak~ 261 (271)
T COG5574 228 PSCTPCGHLFCLSCLLISW--------TKKKYEFCPLCRAKV 261 (271)
T ss_pred cccccccchhhHHHHHHHH--------HhhccccCchhhhhc
Confidence 4589999999999963321 134455688887664
No 165
>PF12773 DZR: Double zinc ribbon
Probab=38.24 E-value=20 Score=25.58 Aligned_cols=9 Identities=22% Similarity=0.357 Sum_probs=4.4
Q ss_pred CCCCCCCCC
Q 040121 2 RSGCRLPFN 10 (368)
Q Consensus 2 C~~C~~~F~ 10 (368)
|..|+.+..
T Consensus 1 Cp~Cg~~~~ 9 (50)
T PF12773_consen 1 CPHCGTPNP 9 (50)
T ss_pred CCCcCCcCC
Confidence 455555433
No 166
>PF06364 DUF1068: Protein of unknown function (DUF1068); InterPro: IPR010471 This family consists of several hypothetical plant proteins from Arabidopsis thaliana and Oryza sativa. The function of this family is unknown.
Probab=38.11 E-value=95 Score=28.90 Aligned_cols=53 Identities=28% Similarity=0.395 Sum_probs=31.3
Q ss_pred hHHHHHHHHH-----HHHHHHHHhHHHHHH----HHHHHHHHHHHHHHH---HhhhhhhhHHHHH
Q 040121 187 KRTNDRVGQE-----VENHTRKAQLQEVEL----ERTTKQLKEAIAIAG---EETAKCKAAKEVI 239 (368)
Q Consensus 187 kk~n~~L~qE-----V~~L~~k~~~q~~el----q~~~kk~~Ea~~lA~---eEsaK~kAAKEvI 239 (368)
.+-|--+++| ++=|.+...+|+.+- ++..-.+-||=.+|. -||.||.+++|--
T Consensus 72 ~k~dPe~~eEmeK~~~~LL~EELkLqe~~A~e~~~~~~~~lleAkk~asqYQkEAeKCnsgmeTC 136 (176)
T PF06364_consen 72 GKHDPEVSEEMEKNFVDLLSEELKLQEAVANENQRRADMALLEAKKMASQYQKEAEKCNSGMETC 136 (176)
T ss_pred ccCChhhhHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchHHHH
Confidence 4444445555 555566666666544 444444555555555 7899999877643
No 167
>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=37.67 E-value=79 Score=26.22 Aligned_cols=40 Identities=10% Similarity=0.199 Sum_probs=29.0
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 040121 182 LVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEA 221 (368)
Q Consensus 182 ~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea 221 (368)
+.+.|.+.-+.|..+|+.|..+.+..+.++..++.++.|.
T Consensus 64 a~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~ 103 (105)
T cd00632 64 ARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQA 103 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666677778888888888888888888777763
No 168
>PRK04023 DNA polymerase II large subunit; Validated
Probab=37.41 E-value=25 Score=40.63 Aligned_cols=27 Identities=15% Similarity=0.167 Sum_probs=20.3
Q ss_pred CCCCCCCCCCcccccccccccCCce-----eeCCCCC
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMV-----FCHSSSS 32 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~V-----fC~sCSs 32 (368)
.|..|+.... ...|.+||.. ||..|..
T Consensus 628 fCpsCG~~t~-----~frCP~CG~~Te~i~fCP~CG~ 659 (1121)
T PRK04023 628 KCPSCGKETF-----YRRCPFCGTHTEPVYRCPRCGI 659 (1121)
T ss_pred cCCCCCCcCC-----cccCCCCCCCCCcceeCccccC
Confidence 4999998753 2579999964 8999943
No 169
>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=37.34 E-value=2.9e+02 Score=26.17 Aligned_cols=39 Identities=13% Similarity=0.311 Sum_probs=19.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAI 222 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~ 222 (368)
..++..++.|.++++.++++.+....+|.+.+++++.--
T Consensus 66 ~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~ 104 (302)
T PF10186_consen 66 EELRERLERLRERIERLRKRIEQKRERLEELRESLEQRR 104 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444455555555555555555555555443
No 170
>PRK14161 heat shock protein GrpE; Provisional
Probab=37.27 E-value=2.9e+02 Score=25.60 Aligned_cols=13 Identities=23% Similarity=0.069 Sum_probs=7.5
Q ss_pred CCceeeeeCCceE
Q 040121 324 DNEWIEQDDPGGY 336 (368)
Q Consensus 324 ~~ewveq~epgv~ 336 (368)
+...++.+.+|-.
T Consensus 149 ~gtVi~v~q~GY~ 161 (178)
T PRK14161 149 PNSIITLMQSGYK 161 (178)
T ss_pred cCEEEEEeeCCcE
Confidence 4456666666643
No 171
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=37.23 E-value=2.1e+02 Score=29.45 Aligned_cols=56 Identities=23% Similarity=0.270 Sum_probs=39.6
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 198 ENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 198 ~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
+.+..+=.....+|+.+-++..++-.--.+--.|.+.|-+-|..+|.+|.++.|+|
T Consensus 255 ekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~IseeL 310 (359)
T PF10498_consen 255 EKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEISEEL 310 (359)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 33444444444555556666666666666677788899999999999999999888
No 172
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=36.95 E-value=1.3e+02 Score=25.66 Aligned_cols=38 Identities=16% Similarity=0.290 Sum_probs=21.6
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~E 220 (368)
++=|-...+.|...++.|..+.+....+++++++++++
T Consensus 68 ieYLl~~q~~L~~~~~~l~~~~~~~~~~~~~l~~~~~~ 105 (118)
T PF13815_consen 68 IEYLLHCQEYLSSQLEQLEERLQELQQEIEKLKQKLKK 105 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555666666666666666555555544
No 173
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=36.95 E-value=3.1e+02 Score=24.49 Aligned_cols=67 Identities=18% Similarity=0.287 Sum_probs=46.2
Q ss_pred chhhhHHHH---------HHHHHHHHHHHHHhHHH----------H----------------HHHHHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTND---------RVGQEVENHTRKAQLQE----------V----------------ELERTTKQLKEAIAIAGE 227 (368)
Q Consensus 183 ~d~lkk~n~---------~L~qEV~~L~~k~~~q~----------~----------------elq~~~kk~~Ea~~lA~e 227 (368)
.++-.+.|+ .|.+||+.++.+++.++ . .+.+++-+|+|+-.-+-.
T Consensus 16 ~EDQq~iN~Fsrl~~R~~~lk~dik~~k~~~enledA~~EieL~Dedd~~Ip~~vGdvF~~~~~~~~~~~LEe~ke~l~k 95 (131)
T KOG1760|consen 16 FEDQQNINEFSRLNSRKDDLKADIKEAKTEIENLEDASNEIELLDEDDEDIPFKVGDVFIHVKLDKLQDQLEEKKETLEK 95 (131)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhHhhcCccccccceehhhhheeccHHHHHHHHHHHHHHHHH
Confidence 455566665 55666666666665554 1 355677778877777777
Q ss_pred hhhhhhhHHHHHHHHHHHHHHH
Q 040121 228 ETAKCKAAKEVIKSLTAQLKDM 249 (368)
Q Consensus 228 EsaK~kAAKEvIKSLTaQLKdM 249 (368)
|-+.-.+-+|.|++--++||-|
T Consensus 96 ~i~~les~~e~I~~~m~~LK~~ 117 (131)
T KOG1760|consen 96 EIEELESELESISARMDELKKV 117 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 7777777788888888888876
No 174
>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=36.64 E-value=3.8e+02 Score=25.49 Aligned_cols=73 Identities=16% Similarity=0.241 Sum_probs=47.0
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH-------HHHHHHHhhh----hhhhHHHHHHHHHH---HHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKE-------AIAIAGEETA----KCKAAKEVIKSLTA---QLKD 248 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~E-------a~~lA~eEsa----K~kAAKEvIKSLTa---QLKd 248 (368)
+..||..|.-|..|-+.|+.-|-.++-+-||-+|=..| |..+...|.+ |.+-.-+-...|+. .||+
T Consensus 57 IR~LKe~NqkLqedNqELRdLCCFLDddRqKgrklarEWQrFGryta~vmr~eV~~Y~~KL~eLE~kq~~L~rEN~eLKE 136 (195)
T PF10226_consen 57 IRGLKEVNQKLQEDNQELRDLCCFLDDDRQKGRKLAREWQRFGRYTASVMRQEVAQYQQKLKELEDKQEELIRENLELKE 136 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccchhHHHhHHHhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 56789999999988888888888888777776663333 2333444443 22222222555554 7999
Q ss_pred HHHhCCC
Q 040121 249 MAERLPV 255 (368)
Q Consensus 249 MAeKLp~ 255 (368)
+..-|-.
T Consensus 137 lcl~LDe 143 (195)
T PF10226_consen 137 LCLYLDE 143 (195)
T ss_pred HHHHHhc
Confidence 8888843
No 175
>PF09727 CortBP2: Cortactin-binding protein-2; InterPro: IPR019131 This entry represents a N-terminal domain found in cortactin-binding protein 2 and in filamin A interacting protein 1 (Filip1). In addition to being a positional candidate for autism, cortactin-binding protein 2 is expressed at highest levels in the brain in humans. Towards the C-terminal end of this protein are a series of proline-rich regions which are likely to be the points of interaction with the SH3 domain of cortactin. The human protein has six associated ankyrin repeat domains (IPR002110 from INTERPRO) towards the C terminus of the protein which act as protein-protein interaction domains []. Filip1 controls the start of neocortical cell migration from the ventricular zone by acting through a filamin-A/F-actin axis. It may be able to induce the degradation of Filamin A [, ].
Probab=36.52 E-value=1.7e+02 Score=27.72 Aligned_cols=53 Identities=19% Similarity=0.233 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHH
Q 040121 192 RVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLK 247 (368)
Q Consensus 192 ~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLK 247 (368)
+|-+|-+.|+++.++--.+.++..+..+-......||=+|.| .|+--|..+.|
T Consensus 138 lLEkEReRLkq~lE~Ek~~~~~~EkE~~K~~~~l~eE~~k~K---~~~l~Lv~E~k 190 (192)
T PF09727_consen 138 LLEKERERLKQQLEQEKAQQKKLEKEHKKLVSQLEEERTKLK---SFVLMLVKERK 190 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHh
Confidence 344445677777766667777777777778888888888884 46666665544
No 176
>PRK14162 heat shock protein GrpE; Provisional
Probab=36.47 E-value=2.3e+02 Score=26.77 Aligned_cols=61 Identities=13% Similarity=0.142 Sum_probs=39.0
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTA 244 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTa 244 (368)
++.|+...+-|.++++.|+.+.....++++.++|+++.-..-+..-+ .-+.+++++-.|++
T Consensus 41 ~~~l~~~l~~l~~e~~elkd~~lR~~AEfeN~rkR~~kE~e~~~~~a-~~~~~~~LLpV~Dn 101 (194)
T PRK14162 41 VEDLEKEIADLKAKNKDLEDKYLRSQAEIQNMQNRYAKERAQLIKYE-SQSLAKDVLPAMDN 101 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhHHhH
Confidence 34555556667777888888888888888888888777655554433 33444555544443
No 177
>PRK14873 primosome assembly protein PriA; Provisional
Probab=36.18 E-value=20 Score=39.51 Aligned_cols=9 Identities=22% Similarity=0.486 Sum_probs=4.7
Q ss_pred CCCCCCCCC
Q 040121 2 RSGCRLPFN 10 (368)
Q Consensus 2 C~~C~~~F~ 10 (368)
|..|..+.+
T Consensus 395 C~~C~~~L~ 403 (665)
T PRK14873 395 CRHCTGPLG 403 (665)
T ss_pred CCCCCCcee
Confidence 555555554
No 178
>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=36.05 E-value=70 Score=25.75 Aligned_cols=39 Identities=15% Similarity=0.342 Sum_probs=27.7
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 182 LVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 182 ~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~E 220 (368)
+.+.|++.-+.|..|++.|+.+.+..+.+++++++++.+
T Consensus 63 ~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~~ 101 (106)
T PF01920_consen 63 AIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLYE 101 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666777777777777777777777777777654
No 179
>PRK09039 hypothetical protein; Validated
Probab=35.83 E-value=1.8e+02 Score=29.56 Aligned_cols=46 Identities=17% Similarity=0.203 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHH
Q 040121 191 DRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAK 236 (368)
Q Consensus 191 ~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAK 236 (368)
..|++||+.|+.|....+.+|.-.+++.+++-.--.+=-.+-.+|+
T Consensus 140 ~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~ 185 (343)
T PRK09039 140 ELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVAL 185 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3666667777777666666666666655554433333333333333
No 180
>PRK13940 glutamyl-tRNA reductase; Provisional
Probab=35.61 E-value=1e+02 Score=32.02 Aligned_cols=54 Identities=17% Similarity=0.228 Sum_probs=28.6
Q ss_pred HHHHHHHHhH-HHHHHHHHHHHHHHHHHHHHH--hhhhhhhHHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQL-QEVELERTTKQLKEAIAIAGE--ETAKCKAAKEVIKSLTAQLKDMAE 251 (368)
Q Consensus 197 V~~L~~k~~~-q~~elq~~~kk~~Ea~~lA~e--EsaK~kAAKEvIKSLTaQLKdMAe 251 (368)
|..|+++++. .+.||+++-+++.. -.-..| |..=...++.++.-.|.+||++++
T Consensus 338 I~~lr~~~~~i~~~el~r~~~~l~~-~~~~~~~i~~~~~~~~~kllh~P~~~lk~~~~ 394 (414)
T PRK13940 338 IKELFQKADGLVDLSLEKSLAKIRN-GKDAEEIIKRFAYEIKKKVLHYPVVGMKEASK 394 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4666666654 56677777776521 000011 122234455556666667888654
No 181
>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]. There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding
Probab=35.58 E-value=2.4e+02 Score=25.29 Aligned_cols=55 Identities=20% Similarity=0.352 Sum_probs=27.8
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHH--------HHHHHHhhhhhh---hHHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEA--------IAIAGEETAKCK---AAKEVIKSLTAQLKDMAE 251 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea--------~~lA~eEsaK~k---AAKEvIKSLTaQLKdMAe 251 (368)
+.+|+..-+..+.++|+.+.+|.|= -.|-.-|..|.+ .+|-.|.-|..||+++.|
T Consensus 75 L~~l~sEk~~L~k~lq~~q~kv~eLE~~~~~~~~~l~~~E~ek~q~~e~~~~~ve~L~~ql~~L~E 140 (140)
T PF10473_consen 75 LDTLRSEKENLDKELQKKQEKVSELESLNSSLENLLQEKEQEKVQLKEESKSAVEMLQKQLKELNE 140 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Confidence 4444444444555555555555442 122223333433 245566777788888753
No 182
>PRK14160 heat shock protein GrpE; Provisional
Probab=35.40 E-value=2.3e+02 Score=27.18 Aligned_cols=13 Identities=31% Similarity=0.253 Sum_probs=7.2
Q ss_pred CCceeeeeCCceE
Q 040121 324 DNEWIEQDDPGGY 336 (368)
Q Consensus 324 ~~ewveq~epgv~ 336 (368)
+...|+.+.+|-.
T Consensus 184 ~gtVveV~qkGY~ 196 (211)
T PRK14160 184 ENEIVEVFQKGYK 196 (211)
T ss_pred cCeEEEEeeCCcE
Confidence 4455666666643
No 183
>PRK14140 heat shock protein GrpE; Provisional
Probab=35.37 E-value=2.6e+02 Score=26.32 Aligned_cols=60 Identities=8% Similarity=0.190 Sum_probs=39.7
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
.+.++...+-|.+|+..|+.+....-++++.+.|..+.-..-+. +.+.-+.+++++-.|+
T Consensus 39 ~~~l~~~i~~l~~ei~elkd~~lR~~Ae~eN~rkR~~rE~~~~~-~~a~~~~~~~LLpvlD 98 (191)
T PRK14140 39 LDEEQAKIAELEAKLDELEERYLRLQADFENYKRRIQKENEAAE-KYRAQSLASDLLPALD 98 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Confidence 45577766777778888888887788888888888777654433 3333444555555444
No 184
>PF15616 TerY-C: TerY-C metal binding domain
Probab=35.35 E-value=21 Score=31.70 Aligned_cols=23 Identities=26% Similarity=0.652 Sum_probs=17.5
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCC
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHS 29 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~s 29 (368)
.|.-|+..|. |. -| .||++||..
T Consensus 79 gCP~CGn~~~-fa----~C-~CGkl~Ci~ 101 (131)
T PF15616_consen 79 GCPHCGNQYA-FA----VC-GCGKLFCID 101 (131)
T ss_pred CCCCCcChhc-EE----Ee-cCCCEEEeC
Confidence 3888988888 53 46 799998864
No 185
>TIGR01461 greB transcription elongation factor GreB. The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreB differs functionally in that it releases larger oligonucleotides. This model describes proteobacterial GreB.
Probab=35.19 E-value=97 Score=27.93 Aligned_cols=56 Identities=16% Similarity=0.242 Sum_probs=43.5
Q ss_pred HHHHHHHHhHHH-HHHHHHHHHHHHHHHHHHH--hhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQE-VELERTTKQLKEAIAIAGE--ETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q~-~elq~~~kk~~Ea~~lA~e--EsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.+.|+++.+.+. ++.-+..+.+++|.+.. + |-|=-.|||+-...|.+.|.++..+|
T Consensus 10 ~~~L~~El~~L~~~~r~~~~~~i~~Ar~~G-DlsENaeY~aak~~~~~le~rI~~L~~~L 68 (156)
T TIGR01461 10 YEKLKQELNYLWREERPEVTQKVTWAASLG-DRSENADYQYGKKRLREIDRRVRFLTKRL 68 (156)
T ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHHcC-CcchhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 566666666554 57777777887776543 5 77888999999999999999998888
No 186
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=35.03 E-value=1.5e+02 Score=31.73 Aligned_cols=50 Identities=14% Similarity=0.148 Sum_probs=31.1
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.+.|++|.+....|++.+.++.+ +..+|-+.-.+-|+.|.+|++.+..++
T Consensus 78 asELEKqLaaLrqElq~~saq~~-------dle~KIkeLEaE~~~Lk~Ql~a~~~~~ 127 (475)
T PRK13729 78 AAQMQKQYEEIRRELDVLNKQRG-------DDQRRIEKLGQDNAALAEQVKALGANP 127 (475)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhh-------hHHHHHHHHHHHHHHHHHHHHhhhcCC
Confidence 45555555555444444444443 445667777788999999997766653
No 187
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=34.94 E-value=1.1e+02 Score=30.54 Aligned_cols=10 Identities=30% Similarity=0.527 Sum_probs=4.6
Q ss_pred HHHHHHHHHH
Q 040121 240 KSLTAQLKDM 249 (368)
Q Consensus 240 KSLTaQLKdM 249 (368)
+-|-++++.|
T Consensus 279 ~~Lk~~~~~L 288 (325)
T PF08317_consen 279 KRLKAKVDAL 288 (325)
T ss_pred HHHHHHHHHH
Confidence 3444444444
No 188
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=34.83 E-value=21 Score=33.43 Aligned_cols=46 Identities=15% Similarity=0.242 Sum_probs=34.2
Q ss_pred ccccCCceeeCCCCCc-ccccccCC--CCCCCCcccccchHHHhhhccC
Q 040121 18 NCYNYGMVFCHSSSSK-KTLKASMA--PNPNKPYRICDNCFSKLRKAFH 63 (368)
Q Consensus 18 HCR~CG~VfC~sCSs~-~~~~~~l~--p~~~kpvRVC~~C~~~L~~~~e 63 (368)
.|...|+.||..|-.+ ...+|+.- .-.-+++.||+..+..|....+
T Consensus 2 ~C~Y~G~yyC~~CH~~~~~vIParil~~WDf~~~pVs~~a~~~L~~~~~ 50 (202)
T PF13901_consen 2 FCDYTGKYYCSSCHWNDTSVIPARILHNWDFRPYPVSRFAKQFLDQIWS 50 (202)
T ss_pred ccCCCCCcCCCCCCCCCceeccHHHHHhcCCCccHHHHHHHHHHHHhcc
Confidence 5899999999999887 34445421 1135888999999999987644
No 189
>PF04899 MbeD_MobD: MbeD/MobD like ; InterPro: IPR006983 The MbeD and MobD proteins are plasmid encoded, and are involved in the plasmid mobilisation and transfer in the presence of conjugative plasmids [].
Probab=34.76 E-value=2.3e+02 Score=22.50 Aligned_cols=54 Identities=22% Similarity=0.350 Sum_probs=41.2
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.+.|.+....|..+.+..=..++--...+..|.+ |=.+=|+.|+-|+..|.+.+
T Consensus 12 le~Lq~~y~~q~~~Wq~sy~~Lq~~~~~t~~~~a---~L~~qv~~Ls~qv~~Ls~ql 65 (70)
T PF04899_consen 12 LEELQQSYEKQQQEWQSSYADLQHMFEQTSQENA---ALSEQVNNLSQQVQRLSEQL 65 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH---HHHHHHHHHHHHHHHHHHHH
Confidence 6778888888888777777777766666555555 55678999999999998876
No 190
>PRK14139 heat shock protein GrpE; Provisional
Probab=34.57 E-value=2.7e+02 Score=26.07 Aligned_cols=45 Identities=11% Similarity=0.070 Sum_probs=34.7
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGE 227 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~e 227 (368)
++.++...+-|.+|++.|+.+.-....+++.+.|.++.-..-+..
T Consensus 34 ~~~l~~~l~~le~e~~elkd~~lR~~AefeN~rKR~~kE~e~~~~ 78 (185)
T PRK14139 34 APALEAELAEAEAKAAELQDSFLRAKAETENVRRRAQEDVAKAHK 78 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777777788889999999888889999888888776544433
No 191
>PRK14155 heat shock protein GrpE; Provisional
Probab=34.53 E-value=2.5e+02 Score=26.75 Aligned_cols=44 Identities=23% Similarity=0.222 Sum_probs=33.4
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAG 226 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~ 226 (368)
.++|...-+-|.+|++.|+.+......|++.+.|.++.-...+.
T Consensus 15 ~~~l~~~l~~le~e~~elkd~~lR~~AefeN~RKR~~kE~e~~~ 58 (208)
T PRK14155 15 ADDAAQEIEALKAEVAALKDQALRYAAEAENTKRRAEREMNDAR 58 (208)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36677777778888999998888888888888877766554433
No 192
>PF12352 V-SNARE_C: Snare region anchored in the vesicle membrane C-terminus; PDB: 1GL2_C 2NPS_C.
Probab=34.52 E-value=1.2e+02 Score=22.70 Aligned_cols=45 Identities=22% Similarity=0.426 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhCC
Q 040121 210 ELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERLP 254 (368)
Q Consensus 210 elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKLp 254 (368)
-|+.+.+.+.|++.+|.+=....+.-.|.|+..-..|.+|...||
T Consensus 9 ~L~~s~~~~~e~~~~g~~~l~~L~~Qre~L~~~~~kl~~i~~~l~ 53 (66)
T PF12352_consen 9 SLQRSHRMADETEEIGAATLEDLRSQREQLKRVRDKLDDIDSNLP 53 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 566777777777777777777777777777777777777777664
No 193
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=34.22 E-value=67 Score=27.42 Aligned_cols=23 Identities=9% Similarity=0.160 Sum_probs=9.8
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHH
Q 040121 199 NHTRKAQLQEVELERTTKQLKEA 221 (368)
Q Consensus 199 ~L~~k~~~q~~elq~~~kk~~Ea 221 (368)
-|....+..+.+++.+.+++++.
T Consensus 77 ~L~~~~~~l~~~~~~~~~~~~~l 99 (118)
T PF13815_consen 77 YLSSQLEQLEERLQELQQEIEKL 99 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444433
No 194
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=34.05 E-value=23 Score=39.04 Aligned_cols=13 Identities=31% Similarity=0.631 Sum_probs=8.1
Q ss_pred CCCccccccCCCc
Q 040121 117 STKWRALNIPKPF 129 (368)
Q Consensus 117 ~~q~~~~~~~~~~ 129 (368)
.+.|.++.+|...
T Consensus 156 ~~~~~~~~~p~~~ 168 (645)
T PRK14559 156 TLLWQQLGIPALA 168 (645)
T ss_pred ccchhccCCcHHh
Confidence 4566677766554
No 195
>PLN02678 seryl-tRNA synthetase
Probab=33.98 E-value=2e+02 Score=30.50 Aligned_cols=23 Identities=17% Similarity=0.078 Sum_probs=14.5
Q ss_pred ccceeEEE-E------ecCh-hh--HHHhhhhC
Q 040121 346 LNYLKRVR-F------RFME-TR--IDKRRKEI 368 (368)
Q Consensus 346 ~~~lkrvr-f------~f~e-~~--a~~ww~e~ 368 (368)
.+.|-||| | .|.. .+ +..|.+++
T Consensus 276 ~~GL~RvhqF~KvE~f~~~~pe~~~s~~~~e~~ 308 (448)
T PLN02678 276 TLGIFRVHQFEKVEQFCITSPNGNESWEMHEEM 308 (448)
T ss_pred CCcceEEEEEEEEEEEEEECCCchhHHHHHHHH
Confidence 67788888 4 5522 33 77777653
No 196
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=33.96 E-value=1.8e+02 Score=30.31 Aligned_cols=24 Identities=8% Similarity=0.093 Sum_probs=10.7
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~E 220 (368)
-.+|..+.+.+..|..+..|++..
T Consensus 37 ~r~l~~~~~~lr~~rn~~sk~i~~ 60 (425)
T PRK05431 37 RRELQTELEELQAERNALSKEIGQ 60 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444443
No 197
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=33.87 E-value=19 Score=34.99 Aligned_cols=38 Identities=18% Similarity=0.393 Sum_probs=0.0
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccch
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNC 54 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C 54 (368)
|..|.. |.. ....+=-.|+.|||..|......- +|..|
T Consensus 6 Cn~C~~-~~~--~~~f~LTaC~HvfC~~C~k~~~~~------------~C~lC 43 (233)
T KOG4739|consen 6 CNKCFR-FPS--QDPFFLTACRHVFCEPCLKASSPD------------VCPLC 43 (233)
T ss_pred eccccc-cCC--CCceeeeechhhhhhhhcccCCcc------------ccccc
No 198
>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=33.83 E-value=1.5e+02 Score=31.78 Aligned_cols=19 Identities=37% Similarity=0.469 Sum_probs=16.2
Q ss_pred hhhHHHHHHHHHHHHHHHH
Q 040121 232 CKAAKEVIKSLTAQLKDMA 250 (368)
Q Consensus 232 ~kAAKEvIKSLTaQLKdMA 250 (368)
.+||+++-+.++.+|++|.
T Consensus 374 ~~~a~~l~~~v~~~l~~L~ 392 (563)
T TIGR00634 374 RKAAERLAKRVEQELKALA 392 (563)
T ss_pred HHHHHHHHHHHHHHHHhCC
Confidence 5788999999999999953
No 199
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The 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. TMF1_TATA_bd is the most conserved part of the TMFs []. 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. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=33.53 E-value=3.3e+02 Score=23.78 Aligned_cols=29 Identities=24% Similarity=0.414 Sum_probs=17.4
Q ss_pred HHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 225 AGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 225 A~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
..+|....++.+.-+..|..+|++|-.|.
T Consensus 56 l~~~~e~~~~~~~~~~~L~~el~~l~~ry 84 (120)
T PF12325_consen 56 LMEENEELRALKKEVEELEQELEELQQRY 84 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444666666667777777776554
No 200
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=33.00 E-value=14 Score=24.31 Aligned_cols=31 Identities=26% Similarity=0.275 Sum_probs=21.7
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCccc
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKT 35 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~ 35 (368)
.|.+|...|. ....-..||..||..|.....
T Consensus 1 ~C~iC~~~~~----~~~~~~~C~H~~c~~C~~~~~ 31 (45)
T cd00162 1 ECPICLEEFR----EPVVLLPCGHVFCRSCIDKWL 31 (45)
T ss_pred CCCcCchhhh----CceEecCCCChhcHHHHHHHH
Confidence 4788888763 223445699999999987643
No 201
>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=32.91 E-value=99 Score=24.06 Aligned_cols=20 Identities=25% Similarity=0.282 Sum_probs=10.5
Q ss_pred HHHHHHHHhHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTK 216 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~k 216 (368)
|..|..|.-.||.-|+.+.+
T Consensus 6 i~~LE~~la~qe~~ie~Ln~ 25 (69)
T PF04102_consen 6 IEELEIKLAFQEDTIEELND 25 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 55555555555555554443
No 202
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=32.89 E-value=19 Score=24.01 Aligned_cols=21 Identities=24% Similarity=0.467 Sum_probs=13.5
Q ss_pred CCCCCCCCCcccccccccccCCceeeC
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCH 28 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~ 28 (368)
|.+|+. +. ++.|..||..+|+
T Consensus 5 C~vC~~-~~-----kY~Cp~C~~~~CS 25 (30)
T PF04438_consen 5 CSVCGN-PA-----KYRCPRCGARYCS 25 (30)
T ss_dssp ETSSSS-EE-----SEE-TTT--EESS
T ss_pred CccCcC-CC-----EEECCCcCCceeC
Confidence 677776 33 6889999999886
No 203
>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=32.61 E-value=2.8e+02 Score=29.75 Aligned_cols=44 Identities=16% Similarity=0.268 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhh-hhhhHHHHHHHHHHHHHHHHHhC
Q 040121 210 ELERTTKQLKEAIAIAGEETA-KCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 210 elq~~~kk~~Ea~~lA~eEsa-K~kAAKEvIKSLTaQLKdMAeKL 253 (368)
..+...++++.|+.-+..|.. .....++-+-.|..+|.+|..+|
T Consensus 95 r~~~id~~i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~~l~~~l 139 (472)
T TIGR03752 95 REQSIDQQIQQAVQSETQELTKEIEQLKSERQQLQGLIDQLQRRL 139 (472)
T ss_pred hhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455577777766655555 44556777778888999999998
No 204
>COG3166 PilN Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=32.59 E-value=2.2e+02 Score=27.10 Aligned_cols=62 Identities=18% Similarity=0.251 Sum_probs=37.0
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH-------HHHHHHHHhCCC
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT-------AQLKDMAERLPV 255 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT-------aQLKdMAeKLp~ 255 (368)
.++....|.+|-+|...|.++ -.||++.+++.+.. ++.+.+|-.|- ..|++|+..||.
T Consensus 50 ~~~q~~~~~~L~~e~~~l~~~----~aei~~l~~~~~~~-----------~qr~q~~~~~q~~r~~~s~~le~L~~~lP~ 114 (206)
T COG3166 50 IAEQQQRNALLTTEIALLDAE----IAEIQQLKEQTQAL-----------LQRLQVIEQLQQKRAGWSVLLEQLANLLPE 114 (206)
T ss_pred hhhhHhHHHHHHHHHHHHHHH----HHHHHHHHHhHHHH-----------HHHHHHHHHHHcccchHHHHHHHHHHhCCC
Confidence 566677778888886554432 33444444433322 33444444442 269999999998
Q ss_pred Cccc
Q 040121 256 GTLR 259 (368)
Q Consensus 256 g~~~ 259 (368)
|++-
T Consensus 115 ~v~l 118 (206)
T COG3166 115 SVWL 118 (206)
T ss_pred ceEE
Confidence 8743
No 205
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.35 E-value=29 Score=34.95 Aligned_cols=28 Identities=25% Similarity=0.305 Sum_probs=21.6
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCc
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSK 33 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~ 33 (368)
.|.+|+..|-. --=-.||.-||..|+..
T Consensus 243 ~c~icr~~f~~-----pVvt~c~h~fc~~ca~~ 270 (313)
T KOG1813|consen 243 KCFICRKYFYR-----PVVTKCGHYFCEVCALK 270 (313)
T ss_pred ccccccccccc-----chhhcCCceeehhhhcc
Confidence 38899998862 23368999999999855
No 206
>PF14353 CpXC: CpXC protein
Probab=32.33 E-value=22 Score=30.35 Aligned_cols=10 Identities=20% Similarity=0.408 Sum_probs=7.7
Q ss_pred CCCCCCCCCC
Q 040121 1 MRSGCRLPFN 10 (368)
Q Consensus 1 ~C~~C~~~F~ 10 (368)
+|..|+..|.
T Consensus 3 tCP~C~~~~~ 12 (128)
T PF14353_consen 3 TCPHCGHEFE 12 (128)
T ss_pred CCCCCCCeeE
Confidence 4888888876
No 207
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=32.33 E-value=17 Score=26.05 Aligned_cols=32 Identities=22% Similarity=0.362 Sum_probs=14.9
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCCCCccc
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKT 35 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~ 35 (368)
|.+|.. |..-.+ ..-=-.||.+||..|..+..
T Consensus 1 CpIc~e-~~~~~n-~P~~L~CGH~~c~~cl~~l~ 32 (43)
T PF13445_consen 1 CPICKE-FSTEEN-PPMVLPCGHVFCKDCLQKLS 32 (43)
T ss_dssp -TTT-----TTSS--EEE-SSS-EEEHHHHHHHH
T ss_pred CCcccc-ccCCCC-CCEEEeCccHHHHHHHHHHH
Confidence 778888 762111 12224699999999876633
No 208
>PRK14163 heat shock protein GrpE; Provisional
Probab=32.24 E-value=4.6e+02 Score=25.17 Aligned_cols=43 Identities=12% Similarity=0.127 Sum_probs=29.8
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIA 225 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA 225 (368)
.+.|+...+-|.+|++.|+.+......|++.++|.++.-...+
T Consensus 42 ~~~l~~~l~~l~~e~~el~d~~lR~~AEfeN~rkR~~kE~e~~ 84 (214)
T PRK14163 42 TAGLTAQLDQVRTALGERTADLQRLQAEYQNYRRRVERDRVTV 84 (214)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4666766677777788888777777778877777666544333
No 209
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=32.21 E-value=22 Score=34.73 Aligned_cols=54 Identities=17% Similarity=0.361 Sum_probs=35.8
Q ss_pred CCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhhc
Q 040121 4 GCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRKA 61 (368)
Q Consensus 4 ~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~~ 61 (368)
.|++ .. |+ -.+|-.|+++||...-++...--+.+...+..+.||..|-.-+...
T Consensus 15 ~Ckq-lD-FL--Pf~Cd~C~~~FC~eHrsye~H~Cp~~~~~~~~v~icp~cs~pv~~~ 68 (250)
T KOG3183|consen 15 YCKQ-LD-FL--PFKCDGCSGIFCLEHRSYESHHCPKGLRIDVQVPICPLCSKPVPTK 68 (250)
T ss_pred hhhh-cc-cc--ceeeCCccchhhhccchHhhcCCCcccccceeecccCCCCCCCCCC
Confidence 5654 33 33 3789999999998876664443333444678888999997655443
No 210
>KOG3795 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.11 E-value=23 Score=33.34 Aligned_cols=21 Identities=19% Similarity=0.301 Sum_probs=16.7
Q ss_pred ccccccccccCCce---eeCCCCC
Q 040121 12 FKRKRHNCYNYGMV---FCHSSSS 32 (368)
Q Consensus 12 f~rRRHHCR~CG~V---fC~sCSs 32 (368)
-...||+|+.||.. ||..|.-
T Consensus 11 ~ieGRs~C~~C~~SRkFfCY~C~V 34 (230)
T KOG3795|consen 11 PIEGRSTCPGCKSSRKFFCYDCRV 34 (230)
T ss_pred cccccccCCCCCCcceEEEEeecc
Confidence 34568999999965 9999973
No 211
>PRK14141 heat shock protein GrpE; Provisional
Probab=32.09 E-value=2.7e+02 Score=26.56 Aligned_cols=58 Identities=12% Similarity=0.073 Sum_probs=39.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 185 DAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 185 ~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
.+...-+.|.+|++.|+.+....-++++.+.|.++.-...+.+-+ ..+.+++++-.|+
T Consensus 35 ~~~~~i~~le~e~~elkd~~lR~~Ae~eN~RKR~~kE~e~~~~~a-~~~~~~dLLpViD 92 (209)
T PRK14141 35 PEPDPLEALKAENAELKDRMLRLAAEMENLRKRTQRDVADARAYG-IAGFARDMLSVSD 92 (209)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhhHh
Confidence 345555678888999998888888899988888877655554332 3344555555444
No 212
>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=31.94 E-value=24 Score=25.85 Aligned_cols=30 Identities=7% Similarity=-0.100 Sum_probs=19.6
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCccc
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKT 35 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~ 35 (368)
.|..|...|. ---...||.+||..|.....
T Consensus 3 ~Cpi~~~~~~-----~Pv~~~~G~v~~~~~i~~~~ 32 (63)
T smart00504 3 LCPISLEVMK-----DPVILPSGQTYERRAIEKWL 32 (63)
T ss_pred CCcCCCCcCC-----CCEECCCCCEEeHHHHHHHH
Confidence 3777777555 13456788888888776544
No 213
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=31.70 E-value=24 Score=23.33 Aligned_cols=25 Identities=24% Similarity=0.470 Sum_probs=13.3
Q ss_pred eeCCCCCcccccccCCCCCCCCcccccchHH
Q 040121 26 FCHSSSSKKTLKASMAPNPNKPYRICDNCFS 56 (368)
Q Consensus 26 fC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~ 56 (368)
||..|....... .....|+|..|-.
T Consensus 5 fC~~CG~~t~~~------~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 5 FCGRCGAPTKPA------PGGWARRCPSCGH 29 (32)
T ss_dssp B-TTT--BEEE-------SSSS-EEESSSS-
T ss_pred ccCcCCccccCC------CCcCEeECCCCcC
Confidence 777787665442 3567899988843
No 214
>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins. The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction
Probab=31.68 E-value=3.2e+02 Score=25.01 Aligned_cols=54 Identities=13% Similarity=0.264 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 193 VGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 193 L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
+.++...|+.+.+.++..|..+...++-|=.|+ ++-.. |+..|+..|++|.+.|
T Consensus 96 ~re~E~qLr~rRD~LErrl~~l~~tierAE~l~----sqi~v---vl~yL~~dl~~v~~~~ 149 (159)
T PF05384_consen 96 LREREKQLRERRDELERRLRNLEETIERAENLV----SQIGV---VLNYLSGDLQQVSEQI 149 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHH---HHHHHHhhHHHHHHHH
Confidence 334477888887777777766666666654444 34444 6677888888888776
No 215
>PF00261 Tropomyosin: Tropomyosin; 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 [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=31.64 E-value=61 Score=30.85 Aligned_cols=28 Identities=46% Similarity=0.583 Sum_probs=21.0
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 040121 195 QEVENHTRKAQLQEVELERTTKQLKEAI 222 (368)
Q Consensus 195 qEV~~L~~k~~~q~~elq~~~kk~~Ea~ 222 (368)
+||.+|.+++++.+.+|++...++++|.
T Consensus 36 ~e~~~l~rri~~lE~~le~~eerL~~~~ 63 (237)
T PF00261_consen 36 AEVASLQRRIQLLEEELERAEERLEEAT 63 (237)
T ss_dssp HHHHHHHHHHHHHHCCCHHHHCCCCHHH
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 4489999999999888877766555443
No 216
>PF15136 UPF0449: Uncharacterised protein family UPF0449
Probab=31.63 E-value=97 Score=26.30 Aligned_cols=34 Identities=15% Similarity=0.213 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 187 KRTNDRVGQEVENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 187 kk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~E 220 (368)
-.+|+-|.|--..|++|||.+..--+.+++.+.+
T Consensus 63 v~~NerLqqa~~~Lkkk~e~L~~age~Le~~i~~ 96 (97)
T PF15136_consen 63 VAMNERLQQARDQLKKKCEELRQAGEELERDIEQ 96 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3567777777888999998888777777666543
No 217
>KOG3433 consensus Protein involved in meiotic recombination/predicted coiled-coil protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=31.62 E-value=3.1e+02 Score=26.04 Aligned_cols=70 Identities=19% Similarity=0.187 Sum_probs=34.9
Q ss_pred CCcccchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHH
Q 040121 178 SPKILVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLK 247 (368)
Q Consensus 178 ~~~~~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLK 247 (368)
||....-+.+.--..|-.+...+.|+.-.+...++..+.-.+++=..+-|=+-|..++++.+++|-.+|-
T Consensus 71 fps~a~~~~ks~~qeLe~~L~~~~qk~~tl~e~~en~K~~~e~tEer~~el~kklnslkk~~e~lr~el~ 140 (203)
T KOG3433|consen 71 FPSEAICDRKSVLQELESQLATGSQKKATLGESIENRKAGREETEERTDELTKKLNSLKKILESLRWELA 140 (203)
T ss_pred cchHHHHHHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4443334444333444444444444444444445444444444444444444566677777777766543
No 218
>KOG2509 consensus Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=31.58 E-value=2e+02 Score=30.56 Aligned_cols=71 Identities=17% Similarity=0.193 Sum_probs=41.8
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-HHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhCCC
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEA-IAIAGEETAKCKAAKEVIKSLTAQLKDMAERLPV 255 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea-~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKLp~ 255 (368)
.|+|.+.+..||.+|..|+.+-.....+|.+..-+..++ ...+-.|.++.. -+-++-|.++|.+-+..+|-
T Consensus 50 ldeln~~~n~l~k~i~~~k~kkke~~~~l~~~~~~~~~~~~~~~l~e~~~~~--~~~~~~l~~el~~~~~~ipN 121 (455)
T KOG2509|consen 50 LDELNKEKNKLNKEIGDLKLKKKEDIGQLEESKAKNTEGAERKLLKEEAVEL--EEDESKLEDELYEVLLQIPN 121 (455)
T ss_pred HHHHHHHHHHhhhHhhHHHHhhcchhhHHHHhhhHhhhhhhhhhhHHHHHhh--HHHHHHHHHHHHHHHHhCCC
Confidence 688888888889888776665544445554444444443 122222222211 23455677788888888853
No 219
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=31.50 E-value=1.2e+02 Score=27.34 Aligned_cols=22 Identities=9% Similarity=0.194 Sum_probs=9.2
Q ss_pred HHHHHHHHHhHHHHHHHHHHHH
Q 040121 196 EVENHTRKAQLQEVELERTTKQ 217 (368)
Q Consensus 196 EV~~L~~k~~~q~~elq~~~kk 217 (368)
++..|.++.+..+.++|.++++
T Consensus 116 ~l~~l~~~~~~l~~~~q~~~q~ 137 (145)
T COG1730 116 ALAELAQRIEQLEQEAQQLQQK 137 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444433
No 220
>PRK00846 hypothetical protein; Provisional
Probab=31.28 E-value=1.3e+02 Score=24.35 Aligned_cols=50 Identities=14% Similarity=0.088 Sum_probs=28.7
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhCC
Q 040121 198 ENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERLP 254 (368)
Q Consensus 198 ~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKLp 254 (368)
+.|.++...+|..|---...+++=-...++ --..|.-|+.||+-|.+||-
T Consensus 9 ~~le~Ri~~LE~rlAfQe~tIe~LN~~v~~-------qq~~I~~L~~ql~~L~~rL~ 58 (77)
T PRK00846 9 QALEARLVELETRLSFQEQALTELSEALAD-------ARLTGARNAELIRHLLEDLG 58 (77)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHH
Confidence 345566666666555555544443332221 34577777777777777773
No 221
>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=31.28 E-value=2.5e+02 Score=21.79 Aligned_cols=26 Identities=15% Similarity=0.229 Sum_probs=10.4
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHH
Q 040121 202 RKAQLQEVELERTTKQLKEAIAIAGE 227 (368)
Q Consensus 202 ~k~~~q~~elq~~~kk~~Ea~~lA~e 227 (368)
++...+|.+|--....+++=-.++.+
T Consensus 4 ~Ri~~LE~~la~qe~~ie~Ln~~v~~ 29 (69)
T PF04102_consen 4 ERIEELEIKLAFQEDTIEELNDVVTE 29 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444433333333
No 222
>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=31.27 E-value=16 Score=41.67 Aligned_cols=37 Identities=27% Similarity=0.318 Sum_probs=25.6
Q ss_pred cchhhhHHHHHHHH-------------HHHHHHHHHhHHHHHHHHHHHHH
Q 040121 182 LVDDAKRTNDRVGQ-------------EVENHTRKAQLQEVELERTTKQL 218 (368)
Q Consensus 182 ~~d~lkk~n~~L~q-------------EV~~L~~k~~~q~~elq~~~kk~ 218 (368)
..+-+++.+++|.+ .|+.|.++...++.||+++++|+
T Consensus 706 a~~~~~~~~~~l~~~a~~lk~~~~~~~kv~~l~~~~k~lekel~~lk~~~ 755 (879)
T COG0013 706 ALEYLQEQEDLLKEIASLLKVPPELLPKVERLLEELKELEKELERLKKKL 755 (879)
T ss_pred HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666655554 27888888888888888888743
No 223
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=31.25 E-value=17 Score=28.04 Aligned_cols=28 Identities=21% Similarity=0.419 Sum_probs=18.2
Q ss_pred ccccccCCceeeCCCCCcccccccCCCCCCCCcccc-cchHHHhhhc
Q 040121 16 RHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRIC-DNCFSKLRKA 61 (368)
Q Consensus 16 RHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC-~~C~~~L~~~ 61 (368)
..||.+||.. ++ ...+.| +.|-+.+.+.
T Consensus 3 HkHC~~CG~~-----------Ip-------~~~~fCS~~C~~~~~k~ 31 (59)
T PF09889_consen 3 HKHCPVCGKP-----------IP-------PDESFCSPKCREEYRKR 31 (59)
T ss_pred CCcCCcCCCc-----------CC-------cchhhhCHHHHHHHHHH
Confidence 5799999873 11 235678 4787776654
No 224
>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]
Probab=31.22 E-value=2.9e+02 Score=30.81 Aligned_cols=46 Identities=15% Similarity=0.162 Sum_probs=34.6
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEE 228 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eE 228 (368)
.+..++.++.|.+++..|++++...+.++.++.+.++++|....+-
T Consensus 236 ~~~~~~~i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 281 (670)
T KOG0239|consen 236 ESTIKKKIQALQQELEELKAELKELNDQVSLLTREVQEALKESNTL 281 (670)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566778888888888888888888888888888877766654
No 225
>TIGR02977 phageshock_pspA phage shock protein A. Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.
Probab=31.20 E-value=3e+02 Score=25.85 Aligned_cols=34 Identities=15% Similarity=0.209 Sum_probs=26.1
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 040121 198 ENHTRKAQLQEVELERTTKQLKEAIAIAGEETAK 231 (368)
Q Consensus 198 ~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK 231 (368)
..|.++.+..+..+++..++++-|+.-..|+=||
T Consensus 55 k~~e~~~~~~~~~~~~~~~~A~~Al~~G~EdLAr 88 (219)
T TIGR02977 55 KELERRVSRLEAQVADWQEKAELALSKGREDLAR 88 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence 4677888888899999999999998754444443
No 226
>PRK14151 heat shock protein GrpE; Provisional
Probab=31.18 E-value=3.2e+02 Score=25.30 Aligned_cols=60 Identities=10% Similarity=0.144 Sum_probs=39.8
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
.++++...+-|.+|++.|+.+.....++++.+.|.++.-..-+.+-+ .-+.+++++-.++
T Consensus 22 ~~~l~~~i~~le~e~~el~d~~lR~~Ae~eN~rkR~~kE~e~~~~~a-~~~~~~~LLpv~D 81 (176)
T PRK14151 22 GDDLTARVQELEEQLAAAKDQSLRAAADLQNVRRRAEQDVEKAHKFA-LEKFAGDLLPVVD 81 (176)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhHHh
Confidence 46666666778888889988888888888888888777654444332 2234444444443
No 227
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.08 E-value=18 Score=37.55 Aligned_cols=29 Identities=14% Similarity=0.140 Sum_probs=21.7
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCCCCcc
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKK 34 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~ 34 (368)
.|.+|...|. ..---.||+.||..|....
T Consensus 28 ~C~IC~d~~~-----~PvitpCgH~FCs~CI~~~ 56 (397)
T TIGR00599 28 RCHICKDFFD-----VPVLTSCSHTFCSLCIRRC 56 (397)
T ss_pred CCCcCchhhh-----CccCCCCCCchhHHHHHHH
Confidence 4899987665 1234689999999998754
No 228
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=31.03 E-value=32 Score=23.37 Aligned_cols=24 Identities=13% Similarity=0.191 Sum_probs=13.3
Q ss_pred CCCCCCCCCCcccccccccccCCc
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGM 24 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~ 24 (368)
.|..|+..|.+-..-.-.|+.||.
T Consensus 2 ~C~~Cg~~~~~~~~~~irC~~CG~ 25 (32)
T PF03604_consen 2 ICGECGAEVELKPGDPIRCPECGH 25 (32)
T ss_dssp BESSSSSSE-BSTSSTSSBSSSS-
T ss_pred CCCcCCCeeEcCCCCcEECCcCCC
Confidence 377888888722233456777764
No 229
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=30.91 E-value=23 Score=22.51 Aligned_cols=8 Identities=38% Similarity=0.526 Sum_probs=3.7
Q ss_pred ccccCCce
Q 040121 18 NCYNYGMV 25 (368)
Q Consensus 18 HCR~CG~V 25 (368)
.|.+||..
T Consensus 4 ~Cp~Cg~~ 11 (26)
T PF13248_consen 4 FCPNCGAE 11 (26)
T ss_pred CCcccCCc
Confidence 34555443
No 230
>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=30.53 E-value=2.8e+02 Score=31.53 Aligned_cols=9 Identities=33% Similarity=0.575 Sum_probs=4.1
Q ss_pred EEEeCCCCc
Q 040121 338 ALTSLPGGL 346 (368)
Q Consensus 338 t~~~~~~g~ 346 (368)
.|.+.|+|.
T Consensus 1059 ~~~~~~~~~ 1067 (1164)
T TIGR02169 1059 ELSAKPKGK 1067 (1164)
T ss_pred EEEEEcCCC
Confidence 344445544
No 231
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=30.52 E-value=85 Score=30.22 Aligned_cols=9 Identities=11% Similarity=-0.156 Sum_probs=4.4
Q ss_pred eCCceEEEE
Q 040121 331 DDPGGYIAL 339 (368)
Q Consensus 331 ~epgv~it~ 339 (368)
|-||+.|=.
T Consensus 230 fP~Gi~VG~ 238 (276)
T PRK13922 230 FPAGLPVGK 238 (276)
T ss_pred CCCCCEEEE
Confidence 455555533
No 232
>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=30.46 E-value=1.1e+02 Score=23.42 Aligned_cols=29 Identities=14% Similarity=0.263 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 192 RVGQEVENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 192 ~L~qEV~~L~~k~~~q~~elq~~~kk~~E 220 (368)
.+++|+..|+.+.+.+..+.+.++++++.
T Consensus 21 ~~~~ei~~l~~~i~~l~~e~~~L~~ei~~ 49 (80)
T PF04977_consen 21 QLNQEIAELQKEIEELKKENEELKEEIER 49 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555666666666555555555555544
No 233
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=30.42 E-value=19 Score=25.38 Aligned_cols=29 Identities=21% Similarity=0.237 Sum_probs=19.0
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCCCCccc
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKT 35 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~ 35 (368)
|.+|..-|. .-.=-.||.+||..|.....
T Consensus 1 CpiC~~~~~-----~Pv~l~CGH~FC~~Cl~~~~ 29 (42)
T PF15227_consen 1 CPICLDLFK-----DPVSLPCGHSFCRSCLERLW 29 (42)
T ss_dssp ETTTTSB-S-----SEEE-SSSSEEEHHHHHHHH
T ss_pred CCccchhhC-----CccccCCcCHHHHHHHHHHH
Confidence 667777554 12225899999999987644
No 234
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=30.38 E-value=17 Score=29.05 Aligned_cols=24 Identities=8% Similarity=0.218 Sum_probs=13.9
Q ss_pred CCCCCCCCCCcccccccccccCCce
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMV 25 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~V 25 (368)
.|..|+.+.. +...+.||-.|+.-
T Consensus 3 ~CP~C~~~L~-~~~~~~~C~~C~~~ 26 (70)
T PF07191_consen 3 TCPKCQQELE-WQGGHYHCEACQKD 26 (70)
T ss_dssp B-SSS-SBEE-EETTEEEETTT--E
T ss_pred cCCCCCCccE-EeCCEEECcccccc
Confidence 4889999877 65556666666653
No 235
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=30.21 E-value=53 Score=24.27 Aligned_cols=19 Identities=32% Similarity=0.555 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHhC
Q 040121 235 AKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 235 AKEvIKSLTaQLKdMAeKL 253 (368)
+.+.|.+||..|.+|+.||
T Consensus 21 v~~~lq~Lt~kL~~vs~RL 39 (47)
T PF10393_consen 21 VTSALQSLTQKLDAVSKRL 39 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5667888999999999887
No 236
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=30.11 E-value=26 Score=30.01 Aligned_cols=8 Identities=13% Similarity=0.356 Sum_probs=3.7
Q ss_pred cccccCCc
Q 040121 17 HNCYNYGM 24 (368)
Q Consensus 17 HHCR~CG~ 24 (368)
-.|+.||.
T Consensus 71 ~~C~~Cg~ 78 (115)
T TIGR00100 71 CECEDCSE 78 (115)
T ss_pred EEcccCCC
Confidence 34444543
No 237
>PRK14158 heat shock protein GrpE; Provisional
Probab=30.08 E-value=4.8e+02 Score=24.63 Aligned_cols=60 Identities=10% Similarity=0.073 Sum_probs=37.4
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
++.|+..-+-|.+|++.|+.+.....++++.+.|.++.-...+..- +..+.+++++-.|+
T Consensus 42 ~~~le~~l~~le~e~~el~d~~lR~~AefeN~RkR~~kE~e~~~~~-a~~~~~~~lLpV~D 101 (194)
T PRK14158 42 IKELEEALAAKEAEAAANWDKYLRERADLENYRKRVQKEKEELLKY-GNESLILEILPAVD 101 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhHHh
Confidence 4555555556677788888888788888888888877765544433 22334444444433
No 238
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=29.99 E-value=1.5e+02 Score=31.44 Aligned_cols=70 Identities=20% Similarity=0.263 Sum_probs=48.9
Q ss_pred ccchhhhHHHHHHHHH-----------------HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 181 ILVDDAKRTNDRVGQE-----------------VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 181 ~~~d~lkk~n~~L~qE-----------------V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
.....|++.|..||+| .++++-+..+...|+++-+-.+.+|+..-.|+=.|.+-+--+-+.+.
T Consensus 55 ~~l~~Lq~e~~~l~e~~v~~~a~~~~~t~~~~~~en~~~r~~~eir~~~~q~~e~~n~~~~l~~~~~~~r~~e~la~~~~ 134 (459)
T KOG0288|consen 55 LELNRLQEENTQLNEERVREEATEKTLTVDVLIAENLRIRSLNEIRELREQKAEFENAELALREMRRKMRIAERLAEALK 134 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccchhhHHHHHHHHHHHHHHHHHhh
Confidence 4457899999999988 23444445555567777777788889889999999888766655544
Q ss_pred H-HHHHHH
Q 040121 244 A-QLKDMA 250 (368)
Q Consensus 244 a-QLKdMA 250 (368)
+ -||+.+
T Consensus 135 ~l~~~~~r 142 (459)
T KOG0288|consen 135 DLGLKDLR 142 (459)
T ss_pred hcchhhhh
Confidence 4 355543
No 239
>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B.
Probab=29.93 E-value=2.1e+02 Score=28.44 Aligned_cols=56 Identities=23% Similarity=0.173 Sum_probs=29.3
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHH--HHHHHHHH---hhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQEVELERTTKQLK--EAIAIAGE---ETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~--Ea~~lA~e---EsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
+..|+.+ +-+..+|..+++.|. ||-.+++| +--|+...||..-.--+=|-|||||+
T Consensus 154 I~kLk~k-~P~s~kl~~LeqELvraEae~lvaEAqL~n~kR~~lKEa~~~~f~Al~E~aEK~ 214 (271)
T PF13805_consen 154 IAKLKYK-DPQSPKLVVLEQELVRAEAENLVAEAQLSNIKRQKLKEAYSLKFDALIERAEKQ 214 (271)
T ss_dssp HHHHHHH--TTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhc-CCCChHHHHHHHHHHHHHHHhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455443 222234444444443 23333433 33477777777666556677778786
No 240
>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=29.92 E-value=1.9e+02 Score=30.16 Aligned_cols=66 Identities=26% Similarity=0.342 Sum_probs=44.1
Q ss_pred HHH-HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH------HhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 188 RTN-DRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAG------EETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 188 k~n-~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~------eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
..+ ..|.++.+.|+.+.+....+|+++++.++.--.+.. +.-+..+..++-.+.|..+|++|.+++
T Consensus 326 g~~~~~l~~~~~~l~~~~~~~~~~l~~l~~~l~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~ 398 (451)
T PF03961_consen 326 GVDRPELKEKLEELEEELEELKEELEKLKKNLKKLKKLKKQGKLPPEKKEQLKKLKEKKKELKEELKELKEEL 398 (451)
T ss_pred ecCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344 667777888888888888888888887665544322 222344445555666677888887777
No 241
>TIGR00019 prfA peptide chain release factor 1. This model describes peptide chain release factor 1 (PrfA, RF-1), and excludes the related peptide chain release factor 2 (PrfB, RF-2). RF-1 helps recognize and terminate translation at UAA and UAG stop codons. The mitochondrial release factors are prfA-like, although not included above the trusted cutoff for this model. RF-1 does not have a translational frameshift.
Probab=29.92 E-value=4.7e+02 Score=27.04 Aligned_cols=66 Identities=21% Similarity=0.311 Sum_probs=39.6
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH-hhhhhhhHHHHHHHHHHHHHHHHHh-----CCCCcccCC
Q 040121 195 QEVENHTRKAQLQEVELERTTKQLKEAIAIAGE-ETAKCKAAKEVIKSLTAQLKDMAER-----LPVGTLRNI 261 (368)
Q Consensus 195 qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~e-EsaK~kAAKEvIKSLTaQLKdMAeK-----Lp~g~~~~~ 261 (368)
+|...|+...+..+ ++......++++..|+.| ...=..-|.+-++.|..+|++|-.+ ||.|.++..
T Consensus 40 k~~~~l~~~v~~~~-~~~~~~~~~~~~~el~~~~D~e~~~~a~~e~~~l~~~~~~~e~~l~~~ll~~~~~D~~ 111 (360)
T TIGR00019 40 KEYSQLEEIVDCYR-EYQQAQEDIKEAKEILEESDPEMREMAKEELEELEEKIEELEEQLKVLLLPKDPNDEK 111 (360)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcCC
Confidence 44455554444333 366667777788877743 1111234555678888888888654 888866543
No 242
>PF14362 DUF4407: Domain of unknown function (DUF4407)
Probab=29.82 E-value=3.4e+02 Score=26.44 Aligned_cols=57 Identities=14% Similarity=0.211 Sum_probs=41.5
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhh------------hhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAK------------CKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK------------~kAAKEvIKSLTaQLKdMAeKL 253 (368)
+..+..+-..++.|+...+++++.+...+..|..= ++.+++.++.+.++|..+..++
T Consensus 137 ~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~E~~g~~~tg~~G~Gp~~~~~~~~~~~~~~~l~~l~~~~ 205 (301)
T PF14362_consen 137 IARLDAEIAALQAEIDQLEKEIDRAQQEAQCEIFGTGGTGVPGKGPRYKEKRAQLDAAQAELDTLQAQI 205 (301)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHhH
Confidence 45555666667777778888888887777766543 7888888888888777766654
No 243
>PRK00295 hypothetical protein; Provisional
Probab=29.80 E-value=1.7e+02 Score=22.94 Aligned_cols=22 Identities=14% Similarity=0.226 Sum_probs=11.8
Q ss_pred HHHHHHHHhHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQL 218 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~ 218 (368)
+..|..|.-.||.-|+.+.+-+
T Consensus 7 i~~LE~kla~qE~tie~Ln~~v 28 (68)
T PRK00295 7 VTELESRQAFQDDTIQALNDVL 28 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5556666555555555444433
No 244
>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=29.64 E-value=3.1e+02 Score=29.96 Aligned_cols=15 Identities=20% Similarity=0.189 Sum_probs=5.6
Q ss_pred HhHHHHHHHHHHHHH
Q 040121 204 AQLQEVELERTTKQL 218 (368)
Q Consensus 204 ~~~q~~elq~~~kk~ 218 (368)
.+....+|+++++++
T Consensus 451 ~~~~~~~i~~~~~~~ 465 (650)
T TIGR03185 451 LETLKEAIEALRKTL 465 (650)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 245
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=29.63 E-value=3.8e+02 Score=23.31 Aligned_cols=14 Identities=0% Similarity=0.230 Sum_probs=6.9
Q ss_pred chhhhHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQE 196 (368)
Q Consensus 183 ~d~lkk~n~~L~qE 196 (368)
.+-|.+..+.+.++
T Consensus 30 ~~~l~~R~~~I~~~ 43 (156)
T PRK05759 30 MKALEERQKKIADG 43 (156)
T ss_pred HHHHHHHHHHHHHH
Confidence 34455555554444
No 246
>TIGR00161 conserved hypothetical protein TIGR00161. This ortholog set includes MJ0106 from Methanococcus jannaschii and AF1251 from Archaeoglobus fulgidus, but not MJ1210 or AF0525.
Probab=29.58 E-value=57 Score=31.22 Aligned_cols=45 Identities=16% Similarity=0.225 Sum_probs=36.9
Q ss_pred CCcccchhhhHHHHHHHHH--HHHHHHHHhHHHHHHHHHHHHHHHHH
Q 040121 178 SPKILVDDAKRTNDRVGQE--VENHTRKAQLQEVELERTTKQLKEAI 222 (368)
Q Consensus 178 ~~~~~~d~lkk~n~~L~qE--V~~L~~k~~~q~~elq~~~kk~~Ea~ 222 (368)
.|+....-+...|++|+-+ ++.|.++.+.-+.+++++.++.++++
T Consensus 182 DP~AA~~ll~~l~~l~~~~id~~~L~e~Ae~ie~~~~el~e~~~~~~ 228 (238)
T TIGR00161 182 DPRAAASLVEVLNKMLNTNVDPEPLLKEAEAIESRLKKLAEQVQGMM 228 (238)
T ss_pred CHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4455566677788888877 89999999999999999999988863
No 247
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=29.44 E-value=99 Score=30.48 Aligned_cols=13 Identities=15% Similarity=0.335 Sum_probs=6.2
Q ss_pred eCCceEEEEEeCC
Q 040121 331 DDPGGYIALTSLP 343 (368)
Q Consensus 331 ~epgv~it~~~~~ 343 (368)
.+-|.|.++..-|
T Consensus 246 ~~~~~~~~v~v~P 258 (283)
T TIGR00219 246 DSYNSLLVIEVKP 258 (283)
T ss_pred CCCCceEEEEEEE
Confidence 3334555555444
No 248
>PRK00736 hypothetical protein; Provisional
Probab=29.40 E-value=1.7e+02 Score=22.89 Aligned_cols=22 Identities=23% Similarity=0.255 Sum_probs=12.8
Q ss_pred HHHHHHHHhHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQL 218 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~ 218 (368)
|..|..|.-.||.-|+.+.+-+
T Consensus 7 i~~LE~klafqe~tie~Ln~~v 28 (68)
T PRK00736 7 LTELEIRVAEQEKTIEELSDQL 28 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5666666666665555554444
No 249
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=29.34 E-value=3.3e+02 Score=30.83 Aligned_cols=11 Identities=9% Similarity=0.444 Sum_probs=5.2
Q ss_pred hhHHHHHHHHH
Q 040121 186 AKRTNDRVGQE 196 (368)
Q Consensus 186 lkk~n~~L~qE 196 (368)
+.++.++|.++
T Consensus 504 i~~A~~~~~~~ 514 (782)
T PRK00409 504 IEEAKKLIGED 514 (782)
T ss_pred HHHHHHHHhhh
Confidence 44455544433
No 250
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=29.05 E-value=2.9e+02 Score=30.72 Aligned_cols=61 Identities=16% Similarity=0.211 Sum_probs=39.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHH---HHHHHHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAK---EVIKSLTA 244 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAK---EvIKSLTa 244 (368)
..+.++-+-|..|+..|+...+.++.+|.++..++.++-.-+..+.-|.+-.. +-|-.|+-
T Consensus 425 ~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~ 488 (652)
T COG2433 425 KKLEETVERLEEENSELKRELEELKREIEKLESELERFRREVRDKVRKDREIRARDRRIERLEK 488 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence 33445555666677888888888888888888888877766666655554322 34444443
No 251
>PRK04325 hypothetical protein; Provisional
Probab=29.04 E-value=2.9e+02 Score=21.88 Aligned_cols=53 Identities=9% Similarity=0.097 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 194 GQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 194 ~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.+-+..|..|.-.||.-|+.+.+-+-+-...- .+- +.-++.|+.+|++|....
T Consensus 8 e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I----~~L---~~ql~~L~~rl~~~~~~~ 60 (74)
T PRK04325 8 EDRITELEIQLAFQEDLIDGLNATVARQQQTL----DLL---QAQLRLLYQQMRDANPDA 60 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHH---HHHHHHHHHHHHHhcccc
Confidence 34477777777777776666655544432211 111 123556666666664443
No 252
>PRK14147 heat shock protein GrpE; Provisional
Probab=29.02 E-value=3.6e+02 Score=24.86 Aligned_cols=59 Identities=17% Similarity=0.190 Sum_probs=36.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
+.+...-+-|.+|++.|+.+.....++++.+.|.++.-..-+.+-+ ..+.+++++-.|+
T Consensus 21 ~~l~~~l~~l~~e~~elkd~~lR~~Ad~eN~rkR~~kE~e~~~~~a-~~~~~~~lLpv~D 79 (172)
T PRK14147 21 DPLKAEVESLRSEIALVKADALRERADLENQRKRIARDVEQARKFA-NEKLLGELLPVFD 79 (172)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhhhh
Confidence 4466666678888888888887777888888777766544433322 2334444444333
No 253
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=28.97 E-value=2.5e+02 Score=26.10 Aligned_cols=43 Identities=16% Similarity=0.295 Sum_probs=23.0
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHH
Q 040121 200 HTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLK 247 (368)
Q Consensus 200 L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLK 247 (368)
|.++.+..+.-++...++|++...|-.|||- +.+++.|..+++
T Consensus 122 l~~~~~e~~~~~~~~~~~Le~iAglT~eEAk-----~~Ll~~le~e~~ 164 (201)
T PF12072_consen 122 LEEREEELEELIEEQQQELEEIAGLTAEEAK-----EILLEKLEEEAR 164 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCHHHHH-----HHHHHHHHHHHH
Confidence 3333333444444455566666666666665 346666665544
No 254
>smart00338 BRLZ basic region leucin zipper.
Probab=28.92 E-value=1.2e+02 Score=22.95 Aligned_cols=21 Identities=24% Similarity=0.246 Sum_probs=8.4
Q ss_pred HHHHHHHHHHhHHHHHHHHHH
Q 040121 195 QEVENHTRKAQLQEVELERTT 215 (368)
Q Consensus 195 qEV~~L~~k~~~q~~elq~~~ 215 (368)
.|+..|..+...+..|++.+.
T Consensus 40 ~en~~L~~~~~~l~~e~~~lk 60 (65)
T smart00338 40 AENERLKKEIERLRRELEKLK 60 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444333
No 255
>PF07412 Geminin: Geminin; InterPro: IPR022786 This family contains the eukaryotic protein geminin (approximately 200 residues long). Geminin inhibits DNA replication by preventing the incorporation of MCM complex into prereplication complex, and is degraded during the mitotic phase of the cell cycle. It has been proposed that geminin inhibits DNA replication during S, G2, and M phases and that geminin destruction at the metaphase-anaphase transition permits replication in the succeeding cell cycle []. ; GO: 0008156 negative regulation of DNA replication; PDB: 1T6F_B 2LP0_B 1UII_B 2WVR_B 2ZXX_B.
Probab=28.86 E-value=99 Score=29.44 Aligned_cols=38 Identities=11% Similarity=0.219 Sum_probs=23.1
Q ss_pred hHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 040121 187 KRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAI 224 (368)
Q Consensus 187 kk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~l 224 (368)
++.-+--.+|.+.|....+.++.||.++++...+...|
T Consensus 117 R~AL~eaL~ENe~Lh~~ie~~~eEi~~lk~en~~L~el 154 (200)
T PF07412_consen 117 RKALEEALEENEKLHKEIEQKDEEIAKLKEENEELKEL 154 (200)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444556777777777777777777655554443
No 256
>PRK00591 prfA peptide chain release factor 1; Validated
Probab=28.79 E-value=4.5e+02 Score=27.13 Aligned_cols=77 Identities=25% Similarity=0.306 Sum_probs=47.3
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh--hhhhhhHHHHHHHHHHHHHHHHH-----hCCCC
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEE--TAKCKAAKEVIKSLTAQLKDMAE-----RLPVG 256 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eE--saK~kAAKEvIKSLTaQLKdMAe-----KLp~g 256 (368)
++.++..++ .+|...|+...+..+ ++....+.++++..|+.+| ..=..-|.+-|..|..+|++|-. .||.|
T Consensus 29 ~d~~~~~~~-~~e~~~L~~~v~~~~-~~~~~~~~~~~~~~l~~~e~D~~~~~~~~~e~~~l~~~l~~~e~~l~~~ll~~~ 106 (359)
T PRK00591 29 SDQKRFRKL-SKEYAELEPIVEAYR-EYKQAQEDLEEAKEMLEEESDPEMREMAKEELKELEERLEELEEELKILLLPKD 106 (359)
T ss_pred cCHHHHHHH-HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 444555444 356666665544443 3666778888888887532 22334566677888888888763 37887
Q ss_pred cccCCC
Q 040121 257 TLRNIK 262 (368)
Q Consensus 257 ~~~~~k 262 (368)
.++...
T Consensus 107 ~~D~~~ 112 (359)
T PRK00591 107 PNDDKN 112 (359)
T ss_pred CCccCC
Confidence 665443
No 257
>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=28.76 E-value=2.1e+02 Score=22.49 Aligned_cols=37 Identities=8% Similarity=0.084 Sum_probs=23.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~E 220 (368)
..|+..|..|.+++..+......+-.+.+-...+|+-
T Consensus 17 ~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEa 53 (65)
T TIGR02449 17 ERLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEA 53 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777777777766666655555555555543
No 258
>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=28.63 E-value=1.7e+02 Score=22.23 Aligned_cols=29 Identities=17% Similarity=0.273 Sum_probs=16.1
Q ss_pred hhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 040121 186 AKRTNDRVGQEVENHTRKAQLQEVELERT 214 (368)
Q Consensus 186 lkk~n~~L~qEV~~L~~k~~~q~~elq~~ 214 (368)
++..-..|..+++.|+++-+.++.+|+++
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 34444445555666666666666666655
No 259
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=28.61 E-value=31 Score=30.75 Aligned_cols=10 Identities=40% Similarity=0.767 Sum_probs=6.9
Q ss_pred CceeeCCCCC
Q 040121 23 GMVFCHSSSS 32 (368)
Q Consensus 23 G~VfC~sCSs 32 (368)
|.|||..|-.
T Consensus 43 G~v~CPvC~~ 52 (131)
T COG1645 43 GEVFCPVCGY 52 (131)
T ss_pred CeEECCCCCc
Confidence 5677777764
No 260
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=28.51 E-value=26 Score=25.23 Aligned_cols=9 Identities=22% Similarity=0.571 Sum_probs=5.9
Q ss_pred CCCCCCCCC
Q 040121 2 RSGCRLPFN 10 (368)
Q Consensus 2 C~~C~~~F~ 10 (368)
|..|+..|.
T Consensus 8 C~~Cg~~fe 16 (52)
T TIGR02605 8 CTACGHRFE 16 (52)
T ss_pred eCCCCCEeE
Confidence 666666666
No 261
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=28.44 E-value=29 Score=24.56 Aligned_cols=19 Identities=21% Similarity=0.359 Sum_probs=11.1
Q ss_pred CCCCCCCCCCcccccccccccC
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNY 22 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~C 22 (368)
.|..|+.++. ..|.+|..|
T Consensus 6 ~C~~C~~~i~---g~ry~C~~C 24 (44)
T smart00291 6 SCDTCGKPIV---GVRYHCLVC 24 (44)
T ss_pred CCCCCCCCCc---CCEEECCCC
Confidence 3677776333 445666666
No 262
>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=28.38 E-value=1.1e+02 Score=24.40 Aligned_cols=28 Identities=18% Similarity=0.233 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 193 VGQEVENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 193 L~qEV~~L~~k~~~q~~elq~~~kk~~E 220 (368)
|-+|-+.|..+-..+..-|.++.+++++
T Consensus 17 L~eEGekLSk~el~~~~~IKKLr~~~~e 44 (74)
T PF12329_consen 17 LMEEGEKLSKKELKLNNTIKKLRAKIKE 44 (74)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 3344444444444444444444444444
No 263
>PRK14153 heat shock protein GrpE; Provisional
Probab=28.37 E-value=3.4e+02 Score=25.59 Aligned_cols=25 Identities=12% Similarity=0.133 Sum_probs=11.8
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEA 221 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea 221 (368)
++.|+.+....-++++.+.|.++.-
T Consensus 49 ~~elkd~~lR~~AEfeN~rKR~~kE 73 (194)
T PRK14153 49 IESLKEQLFRLAAEFDNFRKRTARE 73 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444445555555555443
No 264
>PRK14160 heat shock protein GrpE; Provisional
Probab=28.32 E-value=3.6e+02 Score=25.81 Aligned_cols=11 Identities=9% Similarity=0.151 Sum_probs=5.6
Q ss_pred eeeCCceEEEE
Q 040121 329 EQDDPGGYIAL 339 (368)
Q Consensus 329 eq~epgv~it~ 339 (368)
.++++|.-|.+
T Consensus 180 ~e~~~gtVveV 190 (211)
T PRK14160 180 ENYGENEIVEV 190 (211)
T ss_pred CCCCcCeEEEE
Confidence 34556654443
No 265
>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants. The function of this family is unknown.
Probab=28.30 E-value=3.7e+02 Score=30.57 Aligned_cols=44 Identities=34% Similarity=0.303 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 210 ELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 210 elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
+|+.++.+++|+-...++=-++...+++-=.-+..||+.|.+..
T Consensus 618 ~lE~~~~qL~E~E~~L~eLq~eL~~~keS~s~~E~ql~~~~e~~ 661 (769)
T PF05911_consen 618 QLESLKNQLKESEQKLEELQSELESAKESNSLAETQLKAMKESY 661 (769)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55566666666666666666666666665555555666665444
No 266
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=28.20 E-value=29 Score=25.27 Aligned_cols=28 Identities=14% Similarity=0.244 Sum_probs=17.0
Q ss_pred CCCCCCCCCCcccccccccccCCce-eeCCC
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMV-FCHSS 30 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~V-fC~sC 30 (368)
+|.+|+. +. +...|++|..|... +|..|
T Consensus 2 ~CDgCg~-~P-I~G~RykC~~C~dyDLC~~C 30 (43)
T cd02342 2 QCDGCGV-LP-ITGPRYKSKVKEDYDLCTIC 30 (43)
T ss_pred CCCCCCC-Cc-ccccceEeCCCCCCccHHHH
Confidence 4888986 22 44567888877443 34444
No 267
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=28.14 E-value=26 Score=24.07 Aligned_cols=11 Identities=18% Similarity=0.615 Sum_probs=5.8
Q ss_pred CCCcccccchH
Q 040121 45 NKPYRICDNCF 55 (368)
Q Consensus 45 ~kpvRVC~~C~ 55 (368)
+.+-.||..|-
T Consensus 19 ~r~R~vC~~Cg 29 (34)
T PF14803_consen 19 DRERLVCPACG 29 (34)
T ss_dssp SS-EEEETTTT
T ss_pred CccceECCCCC
Confidence 44555777663
No 268
>PF15456 Uds1: Up-regulated During Septation
Probab=28.07 E-value=70 Score=28.05 Aligned_cols=27 Identities=19% Similarity=0.257 Sum_probs=13.7
Q ss_pred HHHHHH-HHHHHHHHhHHHHHHHHHHHH
Q 040121 191 DRVGQE-VENHTRKAQLQEVELERTTKQ 217 (368)
Q Consensus 191 ~~L~qE-V~~L~~k~~~q~~elq~~~kk 217 (368)
++|+.| |+.|+++...++.-|+=+.++
T Consensus 17 eiLs~eEVe~LKkEl~~L~~R~~~lr~k 44 (124)
T PF15456_consen 17 EILSFEEVEELKKELRSLDSRLEYLRRK 44 (124)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355544 666665555555444444333
No 269
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=27.97 E-value=4.4e+02 Score=25.75 Aligned_cols=56 Identities=27% Similarity=0.274 Sum_probs=33.1
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhCCCCc
Q 040121 199 NHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERLPVGT 257 (368)
Q Consensus 199 ~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKLp~g~ 257 (368)
.|+.+......+|.+..+.+-++-.-..+|.+ .+.+.+..+-.|.-.+.++||+..
T Consensus 121 ~l~~~i~~l~~~~~~~e~~~~e~~~~~e~e~~---~i~e~~~~~~~~~~~L~~~l~~el 176 (239)
T COG1579 121 KLEKEIEDLKERLERLEKNLAEAEARLEEEVA---EIREEGQELSSKREELKEKLDPEL 176 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhcCHHH
Confidence 33333333344444555555444444433333 356777788889999999999875
No 270
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=27.88 E-value=34 Score=24.68 Aligned_cols=24 Identities=17% Similarity=0.285 Sum_probs=14.3
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCCCCc
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSK 33 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~ 33 (368)
|..|+..|. +.. =+.|-|..|...
T Consensus 5 C~~Cg~~~~-~~~-------~~~irC~~CG~r 28 (44)
T smart00659 5 CGECGRENE-IKS-------KDVVRCRECGYR 28 (44)
T ss_pred CCCCCCEee-cCC-------CCceECCCCCce
Confidence 778888887 431 144556555544
No 271
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=27.82 E-value=4.1e+02 Score=29.08 Aligned_cols=29 Identities=21% Similarity=0.264 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 040121 190 NDRVGQEVENHTRKAQLQEVELERTTKQL 218 (368)
Q Consensus 190 n~~L~qEV~~L~~k~~~q~~elq~~~kk~ 218 (368)
++-|.++...|+.+++.+..++++++..+
T Consensus 152 ~eeL~~~~~~Le~e~~~l~~~v~~l~~eL 180 (546)
T PF07888_consen 152 KEELLKENEQLEEEVEQLREEVERLEAEL 180 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344445555555555555555554444
No 272
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=27.81 E-value=59 Score=29.03 Aligned_cols=26 Identities=38% Similarity=0.351 Sum_probs=23.6
Q ss_pred HHHHHHHHHhhhhhhhHHHHHHHHHH
Q 040121 219 KEAIAIAGEETAKCKAAKEVIKSLTA 244 (368)
Q Consensus 219 ~Ea~~lA~eEsaK~kAAKEvIKSLTa 244 (368)
-||-.++.+||-|-=|+-.|||.|..
T Consensus 52 seAne~ce~EaKKTIa~EHviKALen 77 (148)
T COG5150 52 SEANEACEEEAKKTIAYEHVIKALEN 77 (148)
T ss_pred HHHHHHHHHHHhccccHHHHHHHHHh
Confidence 57788899999999999999999986
No 273
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.78 E-value=38 Score=35.97 Aligned_cols=14 Identities=21% Similarity=0.297 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHH
Q 040121 235 AKEVIKSLTAQLKD 248 (368)
Q Consensus 235 AKEvIKSLTaQLKd 248 (368)
|.++++.+..-|+.
T Consensus 429 ~~~~~~~~~~~l~~ 442 (505)
T TIGR00595 429 AQQTAQAAHELLKQ 442 (505)
T ss_pred HHHHHHHHHHHHHh
Confidence 44555555544443
No 274
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 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 the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=27.77 E-value=31 Score=30.27 Aligned_cols=21 Identities=19% Similarity=0.376 Sum_probs=13.5
Q ss_pred CCCCCCCCCcccccccccccCCce
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMV 25 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~V 25 (368)
|..|...=. .|-|||+.||+.
T Consensus 51 C~~C~~~kp---~Rs~HC~~C~~C 71 (174)
T PF01529_consen 51 CSTCKIIKP---PRSHHCRVCNRC 71 (174)
T ss_pred CcccCCcCC---Ccceeccccccc
Confidence 667765322 467888888764
No 275
>PF05082 Rop-like: Rop-like; InterPro: IPR007774 This family contains several uncharacterised bacterial proteins. These proteins are found in nitrogen fixation operons, so are likely to play a role in this process.; PDB: 3CSX_A 2JS5_B.
Probab=27.75 E-value=1.6e+02 Score=23.28 Aligned_cols=12 Identities=50% Similarity=0.852 Sum_probs=10.0
Q ss_pred HHHHHHHhCCCC
Q 040121 245 QLKDMAERLPVG 256 (368)
Q Consensus 245 QLKdMAeKLp~g 256 (368)
+|.|++|-||.+
T Consensus 24 dLHDLaEdLP~~ 35 (66)
T PF05082_consen 24 DLHDLAEDLPTN 35 (66)
T ss_dssp HHHHHHHCTTTT
T ss_pred HHHHHHHccchh
Confidence 788999988776
No 276
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=27.59 E-value=4.9e+02 Score=26.28 Aligned_cols=69 Identities=17% Similarity=0.260 Sum_probs=38.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHH-------HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHh
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEV-------ELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAER 252 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~-------elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeK 252 (368)
|.+++.-.-+.++|..|.++.+.-.. ++.++.+++++.-..+-+-+.+.+.-.+-|+.+-..|.|+-.+
T Consensus 168 ~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve~~~~~~e~~ee~~~~~~elre~~k~ 243 (294)
T COG1340 168 DELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVELSKKIDELHEEFRNLQNELRELEKK 243 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444445666655544332 4445555566666666666666666667777776666665443
No 277
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=27.55 E-value=42 Score=37.64 Aligned_cols=9 Identities=33% Similarity=0.781 Sum_probs=5.2
Q ss_pred ccccchHHH
Q 040121 49 RICDNCFSK 57 (368)
Q Consensus 49 RVC~~C~~~ 57 (368)
..|..|-..
T Consensus 476 ~~Cp~Cgs~ 484 (730)
T COG1198 476 QSCPECGSE 484 (730)
T ss_pred CCCCCCCCC
Confidence 356666555
No 278
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=27.53 E-value=3.6e+02 Score=30.53 Aligned_cols=11 Identities=9% Similarity=0.105 Sum_probs=5.2
Q ss_pred hhHHHHHHHHH
Q 040121 186 AKRTNDRVGQE 196 (368)
Q Consensus 186 lkk~n~~L~qE 196 (368)
+..+.++|.++
T Consensus 499 i~~A~~~~~~~ 509 (771)
T TIGR01069 499 IEQAKTFYGEF 509 (771)
T ss_pred HHHHHHHHHhh
Confidence 44555554433
No 279
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=27.51 E-value=2.4e+02 Score=31.30 Aligned_cols=27 Identities=11% Similarity=0.129 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 040121 191 DRVGQEVENHTRKAQLQEVELERTTKQ 217 (368)
Q Consensus 191 ~~L~qEV~~L~~k~~~q~~elq~~~kk 217 (368)
+-|.+++..|+++.+..|.+|+.++++
T Consensus 270 ~fL~~qL~~l~~~L~~aE~~l~~fr~~ 296 (726)
T PRK09841 270 EFLQRQLPEVRSELDQAEEKLNVYRQQ 296 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455667777766666666666553
No 280
>PRK14144 heat shock protein GrpE; Provisional
Probab=27.39 E-value=3.8e+02 Score=25.41 Aligned_cols=60 Identities=13% Similarity=0.104 Sum_probs=40.9
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
.+.+....+-|.+|++.|+.+.....++++.+.|.++.-...|.+.+. -+.+++++-.++
T Consensus 47 ~~~l~~~i~~le~e~~elkdk~lR~~AefeN~RKR~~kE~e~~~~~a~-~~~~~~LLpV~D 106 (199)
T PRK14144 47 YTALEEQLTLAEQKAHENWEKSVRALAELENVRRRMEREVANAHKYGV-EKLISALLPVVD 106 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhHHh
Confidence 456666677788888888888888888888888888776665554433 244444444444
No 281
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=27.38 E-value=3.5e+02 Score=22.15 Aligned_cols=38 Identities=24% Similarity=0.277 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHH
Q 040121 209 VELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKD 248 (368)
Q Consensus 209 ~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKd 248 (368)
.||+.+.++++.|+..++. .|-+.-.+-|+.|..+.+.
T Consensus 49 ~eL~~LE~~Le~aL~~VR~--rK~~~l~~~i~~l~~ke~~ 86 (100)
T PF01486_consen 49 KELQQLEQQLESALKRVRS--RKDQLLMEQIEELKKKERE 86 (100)
T ss_pred HHHHHHHHhhhhhHHHHHH--HHHHHHHHHHHHHHHHHHH
Confidence 4899999999999887764 5666666666666654433
No 282
>PRK04325 hypothetical protein; Provisional
Probab=27.38 E-value=1.8e+02 Score=23.05 Aligned_cols=15 Identities=27% Similarity=0.437 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHhC
Q 040121 239 IKSLTAQLKDMAERL 253 (368)
Q Consensus 239 IKSLTaQLKdMAeKL 253 (368)
|--|+.||+-|.+||
T Consensus 39 I~~L~~ql~~L~~rl 53 (74)
T PRK04325 39 LDLLQAQLRLLYQQM 53 (74)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344444444444444
No 283
>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]
Probab=27.37 E-value=3.9e+02 Score=29.20 Aligned_cols=22 Identities=27% Similarity=0.514 Sum_probs=17.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHhC
Q 040121 232 CKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 232 ~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.-|+|+.=.-||++|+||-+|-
T Consensus 263 Lq~~~da~~ql~aE~~EleDky 284 (596)
T KOG4360|consen 263 LQAYKDAQRQLTAELEELEDKY 284 (596)
T ss_pred HHHHHhhHHHHHHHHHHHHHHH
Confidence 4567778888999999997765
No 284
>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=27.33 E-value=5e+02 Score=24.03 Aligned_cols=34 Identities=9% Similarity=0.140 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 040121 192 RVGQEVENHTRKAQLQEVELERTTKQLKEAIAIA 225 (368)
Q Consensus 192 ~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA 225 (368)
-|.+++..|+.+.+.++.+++.++.+.+.+-.-.
T Consensus 124 ~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~ 157 (189)
T PF10211_consen 124 ELEEEIEELEEEKEELEKQVQELKNKCEQLEKRE 157 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444467777777777777777776665554333
No 285
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=27.10 E-value=4.6e+02 Score=29.17 Aligned_cols=35 Identities=29% Similarity=0.347 Sum_probs=17.8
Q ss_pred ccchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 040121 181 ILVDDAKRTNDRVGQEVENHTRKAQLQEVELERTT 215 (368)
Q Consensus 181 ~~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~ 215 (368)
..+..|+..|..|.-+++.|+...++++.+|.+..
T Consensus 429 ~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~ 463 (652)
T COG2433 429 ETVERLEEENSELKRELEELKREIEKLESELERFR 463 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566666666666664444444444443333333
No 286
>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=27.02 E-value=3.5e+02 Score=30.76 Aligned_cols=10 Identities=30% Similarity=0.584 Sum_probs=4.9
Q ss_pred EEeCCCCccc
Q 040121 339 LTSLPGGLNY 348 (368)
Q Consensus 339 ~~~~~~g~~~ 348 (368)
+..|.+|.+.
T Consensus 1072 ~~~lSgge~~ 1081 (1164)
T TIGR02169 1072 LEAMSGGEKS 1081 (1164)
T ss_pred chhcCcchHH
Confidence 4455555543
No 287
>PLN00203 glutamyl-tRNA reductase
Probab=26.79 E-value=2.9e+02 Score=29.80 Aligned_cols=53 Identities=13% Similarity=0.138 Sum_probs=28.5
Q ss_pred HHHHHHHHhH-HHHHHHHHHHHHHH----HHHHHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQL-QEVELERTTKQLKE----AIAIAGEETAKCKAAKEVIKSLTAQLKDMA 250 (368)
Q Consensus 197 V~~L~~k~~~-q~~elq~~~kk~~E----a~~lA~eEsaK~kAAKEvIKSLTaQLKdMA 250 (368)
|..|+++.+. .+.||+++-+|+.+ .-.-+- |..=...++-++.--+..||+++
T Consensus 434 I~~lr~~~~~i~~~Eler~~~kl~~~~~~~~~~~i-e~~~~~ivnkllh~P~~~Lr~~a 491 (519)
T PLN00203 434 IKKLRSYAERIRAAELEKCLSKMGDDLTKKQRKAV-EDLSRGIVNKLLHGPMQHLRCDG 491 (519)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccCChhHHHHH-HHHHHHHHHHHHHHHHHHHHHhh
Confidence 5677777654 56788888887631 000011 11222344445555555788766
No 288
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=26.78 E-value=26 Score=35.62 Aligned_cols=49 Identities=16% Similarity=0.363 Sum_probs=30.3
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCCCCcccccccCCCCCCCCcccccchHHHhhhccCCCC
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRKAFHTDD 66 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~~~e~~~ 66 (368)
|..|..+.- +..|- -.|-.|||-.|... .+.++|-.|-+.++++.....
T Consensus 93 Cd~Cd~PI~-IYGRm---IPCkHvFCl~CAr~------------~~dK~Cp~C~d~VqrIeq~~~ 141 (389)
T KOG2932|consen 93 CDRCDFPIA-IYGRM---IPCKHVFCLECARS------------DSDKICPLCDDRVQRIEQIMM 141 (389)
T ss_pred ecccCCcce-eeecc---cccchhhhhhhhhc------------CccccCcCcccHHHHHHHhcc
Confidence 445555444 32222 24556799999632 336788899888888766544
No 289
>KOG0241 consensus Kinesin-like protein [Cytoskeleton]
Probab=26.76 E-value=2.7e+02 Score=32.92 Aligned_cols=70 Identities=24% Similarity=0.306 Sum_probs=45.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHHHHHHHh----hhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQE-VELERTTKQLKEAIAIAGEE----TAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~-~elq~~~kk~~Ea~~lA~eE----saK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
|.--++|.-|.+||+.|+.+.++.| +++.+.+.+++|.-.+..|= -.|.++..++-+.+.+||..|-.-+
T Consensus 360 dpnarvirElReEve~lr~qL~~ae~~~~~el~e~l~esekli~ei~~twEEkl~ktE~in~erq~~L~~~gis~ 434 (1714)
T KOG0241|consen 360 DPNARVIRELREEVEKLREQLEQAEAMKLPELKEKLEESEKLIKEITVTWEEKLRKTEEINQERQAQLESMGISL 434 (1714)
T ss_pred CchHHHHHHHHHHHHHHHHHHhhhhhccchHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456677788899999998877733 23444444444433333221 1478888888899999999886654
No 290
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=26.69 E-value=1.8e+02 Score=33.26 Aligned_cols=24 Identities=8% Similarity=0.260 Sum_probs=15.4
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHH
Q 040121 198 ENHTRKAQLQEVELERTTKQLKEA 221 (368)
Q Consensus 198 ~~L~~k~~~q~~elq~~~kk~~Ea 221 (368)
.+|.++.+.+..+||.+..+|++.
T Consensus 440 ~ql~~eletLn~k~qqls~kl~Dv 463 (1118)
T KOG1029|consen 440 KQLQQELETLNFKLQQLSGKLQDV 463 (1118)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhh
Confidence 455555666666777777777664
No 291
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=26.69 E-value=29 Score=29.24 Aligned_cols=15 Identities=20% Similarity=0.494 Sum_probs=11.1
Q ss_pred ccccccccccCCcee
Q 040121 12 FKRKRHNCYNYGMVF 26 (368)
Q Consensus 12 f~rRRHHCR~CG~Vf 26 (368)
++.+--.|+.||.+|
T Consensus 54 Llv~Pa~CkkCGfef 68 (97)
T COG3357 54 LLVRPARCKKCGFEF 68 (97)
T ss_pred EEecChhhcccCccc
Confidence 344567899999886
No 292
>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=26.69 E-value=4.5e+02 Score=28.70 Aligned_cols=20 Identities=25% Similarity=0.390 Sum_probs=8.9
Q ss_pred hhhHHHHHHHHHHHHHHHHH
Q 040121 232 CKAAKEVIKSLTAQLKDMAE 251 (368)
Q Consensus 232 ~kAAKEvIKSLTaQLKdMAe 251 (368)
.+.+++-|+.|..|++.+.+
T Consensus 451 ~~~~~~~i~~~~~~~~~~~~ 470 (650)
T TIGR03185 451 LETLKEAIEALRKTLDEKTK 470 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444433
No 293
>PLN02678 seryl-tRNA synthetase
Probab=26.34 E-value=2.6e+02 Score=29.62 Aligned_cols=19 Identities=21% Similarity=0.295 Sum_probs=10.1
Q ss_pred hhhhHHHHHHHHHHHHHHH
Q 040121 231 KCKAAKEVIKSLTAQLKDM 249 (368)
Q Consensus 231 K~kAAKEvIKSLTaQLKdM 249 (368)
+.+.-|+=|+.|.++|+++
T Consensus 79 ~~~~Lk~ei~~le~~~~~~ 97 (448)
T PLN02678 79 ETKELKKEITEKEAEVQEA 97 (448)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3445556666665544443
No 294
>COG5493 Uncharacterized conserved protein containing a coiled-coil domain [Function unknown]
Probab=26.21 E-value=4.3e+02 Score=25.46 Aligned_cols=55 Identities=27% Similarity=0.347 Sum_probs=29.2
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhh---------hhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAGEETAK---------CKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK---------~kAAKEvIKSLTaQLKdMAeKL 253 (368)
|+.|.++-|+...+|.. -+++---.+|.+|-.| -.|.||=||-|..-|..++-|.
T Consensus 48 ve~l~~e~E~~~k~l~d--e~~E~r~~~~tke~lk~l~~~~~~~f~a~~edi~rlE~~i~~lgaRw 111 (231)
T COG5493 48 VEELRKETEQRQKELAD--EKLEVRKQKATKEDLKLLQRFQEEEFRATKEDIKRLETIITGLGARW 111 (231)
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 66666666666555553 1122222233344333 6677777777766666665554
No 295
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=26.17 E-value=1.4e+02 Score=23.88 Aligned_cols=23 Identities=30% Similarity=0.244 Sum_probs=13.0
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHH
Q 040121 200 HTRKAQLQEVELERTTKQLKEAI 222 (368)
Q Consensus 200 L~~k~~~q~~elq~~~kk~~Ea~ 222 (368)
|+-..+.+..||+++++.+.+|.
T Consensus 48 LKve~~~L~~el~~~~~~l~~a~ 70 (75)
T PF07989_consen 48 LKVEVESLKRELQEKKKLLKEAE 70 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444445556666666666653
No 296
>PRK14148 heat shock protein GrpE; Provisional
Probab=26.05 E-value=4.2e+02 Score=25.02 Aligned_cols=59 Identities=20% Similarity=0.228 Sum_probs=31.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
+.+....+-|.+|++.|+.+....-++++.+.|.++.-...+..- +..+.+++++-.|.
T Consensus 43 ~~l~~~l~~l~~e~~elkd~~lR~~Ae~eN~rKR~~rE~e~~~~~-a~~~~~~~LLpV~D 101 (195)
T PRK14148 43 ERAKDTIKELEDSCDQFKDEALRAKAEMENIRKRAERDVSNARKF-GIEKFAKELLPVID 101 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhHHh
Confidence 444444455555566666666666667777776666554444332 23344444444444
No 297
>KOG4657 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.04 E-value=2.2e+02 Score=27.87 Aligned_cols=33 Identities=6% Similarity=0.146 Sum_probs=18.2
Q ss_pred chhhhHHHHHHHHH----------HHHHHHHHhHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQE----------VENHTRKAQLQEVELERTT 215 (368)
Q Consensus 183 ~d~lkk~n~~L~qE----------V~~L~~k~~~q~~elq~~~ 215 (368)
.+.+++-|+++-++ |..++++.|.+..-+|..+
T Consensus 71 ene~~~~neL~~ek~~~q~~ieqeik~~q~elEvl~~n~Q~lk 113 (246)
T KOG4657|consen 71 ENELVKVNELKTEKEARQMGIEQEIKATQSELEVLRRNLQLLK 113 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677777733222 5666666555555555443
No 298
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.03 E-value=42 Score=35.69 Aligned_cols=8 Identities=38% Similarity=0.920 Sum_probs=4.4
Q ss_pred ccccchHH
Q 040121 49 RICDNCFS 56 (368)
Q Consensus 49 RVC~~C~~ 56 (368)
..|..|-.
T Consensus 254 ~~Cp~C~s 261 (505)
T TIGR00595 254 KTCPQCGS 261 (505)
T ss_pred CCCCCCCC
Confidence 45666643
No 299
>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=26.00 E-value=1.2e+02 Score=25.18 Aligned_cols=22 Identities=23% Similarity=0.264 Sum_probs=9.7
Q ss_pred HHHHHHHHhHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQL 218 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~ 218 (368)
|+.|..+-..+..|++.+++++
T Consensus 51 v~~L~~e~~~l~~E~e~L~~~l 72 (87)
T PF12709_consen 51 VDELENENKALKRENEQLKKKL 72 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444444
No 300
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.83 E-value=2.9e+02 Score=27.96 Aligned_cols=12 Identities=8% Similarity=0.205 Sum_probs=5.2
Q ss_pred chhhh-HHHHHHH
Q 040121 183 VDDAK-RTNDRVG 194 (368)
Q Consensus 183 ~d~lk-k~n~~L~ 194 (368)
.++++ |.-|+|.
T Consensus 59 a~~~~~kq~eL~~ 71 (313)
T KOG3088|consen 59 AKDLAKKQAELLK 71 (313)
T ss_pred hhHHHHHHHHHHH
Confidence 34444 4444444
No 301
>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=25.73 E-value=1.3e+02 Score=24.43 Aligned_cols=20 Identities=25% Similarity=0.275 Sum_probs=9.2
Q ss_pred HHHHHHHHHHhHHHHHHHHH
Q 040121 195 QEVENHTRKAQLQEVELERT 214 (368)
Q Consensus 195 qEV~~L~~k~~~q~~elq~~ 214 (368)
+|-..|+++.+..++|||..
T Consensus 7 eEn~~Lk~eiqkle~ELq~~ 26 (76)
T PF07334_consen 7 EENARLKEEIQKLEAELQQN 26 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444555553
No 302
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 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. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=25.72 E-value=26 Score=23.70 Aligned_cols=31 Identities=23% Similarity=0.256 Sum_probs=21.8
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCCCCcccc
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSSSSKKTL 36 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sCSs~~~~ 36 (368)
|.+|...|... ..=..||..||..|......
T Consensus 1 C~iC~~~~~~~----~~~~~C~H~fC~~C~~~~~~ 31 (41)
T PF00097_consen 1 CPICLEPFEDP----VILLPCGHSFCRDCLRKWLE 31 (41)
T ss_dssp ETTTSSBCSSE----EEETTTSEEEEHHHHHHHHH
T ss_pred CCcCCccccCC----CEEecCCCcchHHHHHHHHH
Confidence 67787776621 13468999999999877553
No 303
>PRK11595 DNA utilization protein GntX; Provisional
Probab=25.65 E-value=18 Score=34.19 Aligned_cols=7 Identities=29% Similarity=1.094 Sum_probs=4.5
Q ss_pred cccchHH
Q 040121 50 ICDNCFS 56 (368)
Q Consensus 50 VC~~C~~ 56 (368)
+|..|..
T Consensus 50 ~C~~C~~ 56 (227)
T PRK11595 50 PCGRCLQ 56 (227)
T ss_pred CcHHHHc
Confidence 5777754
No 304
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=25.60 E-value=19 Score=30.65 Aligned_cols=10 Identities=30% Similarity=0.710 Sum_probs=4.3
Q ss_pred cccccCCcee
Q 040121 17 HNCYNYGMVF 26 (368)
Q Consensus 17 HHCR~CG~Vf 26 (368)
-.|+.||..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PF01155_consen 71 ARCRDCGHEF 80 (113)
T ss_dssp EEETTTS-EE
T ss_pred EECCCCCCEE
Confidence 3455555543
No 305
>PRK10698 phage shock protein PspA; Provisional
Probab=25.59 E-value=4.2e+02 Score=25.17 Aligned_cols=34 Identities=18% Similarity=0.190 Sum_probs=25.9
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 040121 198 ENHTRKAQLQEVELERTTKQLKEAIAIAGEETAK 231 (368)
Q Consensus 198 ~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK 231 (368)
..|.++.+..+.++++..++++-|+.--.|+=||
T Consensus 55 k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr 88 (222)
T PRK10698 55 KQLTRRIEQAEAQQVEWQEKAELALRKEKEDLAR 88 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence 4577788888889999999999998754444443
No 306
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=25.56 E-value=2.1e+02 Score=24.16 Aligned_cols=18 Identities=6% Similarity=0.003 Sum_probs=7.0
Q ss_pred HHHHHHHHhHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERT 214 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~ 214 (368)
++.|+++-+.+..||+++
T Consensus 43 ~~~l~~~n~~L~~eI~~L 60 (105)
T PRK00888 43 NAKLKARNDQLFAEIDDL 60 (105)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 334433333333333333
No 307
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=25.52 E-value=3.8e+02 Score=22.01 Aligned_cols=16 Identities=25% Similarity=0.395 Sum_probs=8.5
Q ss_pred HhhhhhhhHHHHHHHH
Q 040121 227 EETAKCKAAKEVIKSL 242 (368)
Q Consensus 227 eEsaK~kAAKEvIKSL 242 (368)
|=+.+.++|-|-|+++
T Consensus 71 Evs~rL~~a~e~Ir~v 86 (89)
T PF13747_consen 71 EVSRRLDSAIETIRAV 86 (89)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344555566655554
No 308
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=25.40 E-value=5e+02 Score=23.32 Aligned_cols=26 Identities=15% Similarity=0.243 Sum_probs=12.4
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAI 222 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~ 222 (368)
+..|..|.+..+.||.++++++..++
T Consensus 51 n~~l~~kIeERn~eL~~Lk~~~~~~v 76 (177)
T PF13870_consen 51 NQQLNEKIEERNKELLKLKKKIGKTV 76 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555554444333
No 309
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=25.34 E-value=34 Score=29.21 Aligned_cols=8 Identities=13% Similarity=0.513 Sum_probs=3.6
Q ss_pred cccccCCc
Q 040121 17 HNCYNYGM 24 (368)
Q Consensus 17 HHCR~CG~ 24 (368)
-.|+.||.
T Consensus 71 ~~C~~Cg~ 78 (113)
T PRK12380 71 AWCWDCSQ 78 (113)
T ss_pred EEcccCCC
Confidence 34444543
No 310
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.25 E-value=3.8e+02 Score=31.96 Aligned_cols=66 Identities=15% Similarity=0.156 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhCCC
Q 040121 189 TNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERLPV 255 (368)
Q Consensus 189 ~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKLp~ 255 (368)
...-|..++..+..+.+..+.+|++....++.+-+|....+.=.+..+| |+.|..||+++..+++.
T Consensus 752 ~l~~le~~l~~~~~~le~~~~~l~~~~~~~~~~esL~~~v~~i~r~~~e-i~~l~~qie~l~~~l~~ 817 (1311)
T TIGR00606 752 KLQKVNRDIQRLKNDIEEQETLLGTIMPEEESAKVCLTDVTIMERFQME-LKDVERKIAQQAAKLQG 817 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhcc
Confidence 3333444456666666666666776666666666666666655565655 67788899999888864
No 311
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=25.22 E-value=1.1e+02 Score=32.75 Aligned_cols=24 Identities=17% Similarity=0.202 Sum_probs=16.0
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 230 AKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 230 aK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
++.+.-.+.||.|.++++.|-+++
T Consensus 97 aq~~dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 97 KQRGDDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHH
Confidence 444455667777777777776666
No 312
>PF07464 ApoLp-III: Apolipophorin-III precursor (apoLp-III); InterPro: IPR010009 This family consists of several insect apolipoprotein-III sequences. Exchangeable apolipoproteins constitute a functionally important family of proteins that play critical roles in lipid transport and lipoprotein metabolism. Apolipophorin III (apoLp-III) is a prototypical exchangeable apolipoprotein found in many insect species that functions in transport of diacylglycerol (DAG) from the fat body lipid storage depot to flight muscles in the adult life stage [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0005576 extracellular region; PDB: 1EQ1_A.
Probab=25.05 E-value=84 Score=28.59 Aligned_cols=64 Identities=20% Similarity=0.264 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHH-------HHHHHHHHHH
Q 040121 186 AKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKS-------LTAQLKDMAE 251 (368)
Q Consensus 186 lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKS-------LTaQLKdMAe 251 (368)
|+..++-|.+=++.|+..---.+.+.+++.-+++.++--...|+. |+||+|=+- |+..+|.+.+
T Consensus 65 l~~~~~kl~et~~~L~k~~Pev~~qa~~l~e~lQ~~vq~l~~E~q--k~~k~v~~~~~~~~e~l~~~~K~~~D 135 (155)
T PF07464_consen 65 LKQLKTKLEETAEKLRKANPEVEKQANELQEKLQSAVQSLVQESQ--KLAKEVSENSEGANEKLQPAIKQAYD 135 (155)
T ss_dssp HHHHHHHHHHHHHGGGG-SHHHHHT-SSSHHHHHHHHHHHHHHHH--HHHHHHHS---SS-GGGHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHhhhHHHHHHHHHHHH
No 313
>COG1773 Rubredoxin [Energy production and conversion]
Probab=25.02 E-value=32 Score=26.27 Aligned_cols=14 Identities=36% Similarity=0.593 Sum_probs=11.4
Q ss_pred cccccccCCceeeC
Q 040121 15 KRHNCYNYGMVFCH 28 (368)
Q Consensus 15 RRHHCR~CG~VfC~ 28 (368)
+++.|+.||-||=.
T Consensus 2 ~~~~C~~CG~vYd~ 15 (55)
T COG1773 2 KRWRCSVCGYVYDP 15 (55)
T ss_pred CceEecCCceEecc
Confidence 47899999999744
No 314
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=24.99 E-value=1.7e+02 Score=21.21 Aligned_cols=36 Identities=17% Similarity=0.296 Sum_probs=22.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLK 219 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~ 219 (368)
|-||..-|.|..|.++|.+.-+.+-.||+.++-+++
T Consensus 8 ~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~kl~ 43 (45)
T PF02183_consen 8 DALKASYDSLKAEYDSLKKENEKLRAEVQELKEKLQ 43 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 445666666666666666666666666666655543
No 315
>PRK02119 hypothetical protein; Provisional
Probab=24.95 E-value=2.2e+02 Score=22.63 Aligned_cols=30 Identities=13% Similarity=0.034 Sum_probs=14.4
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAIAG 226 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~ 226 (368)
...|..+...+|..|--....+++=-.+.+
T Consensus 4 ~~~~e~Ri~~LE~rla~QE~tie~LN~~v~ 33 (73)
T PRK02119 4 QQNLENRIAELEMKIAFQENLLEELNQALI 33 (73)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555444444444333333
No 316
>PF15233 SYCE1: Synaptonemal complex central element protein 1
Probab=24.90 E-value=3.9e+02 Score=23.95 Aligned_cols=39 Identities=26% Similarity=0.273 Sum_probs=23.8
Q ss_pred cchhhhHHHHHHHHH--------------HHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 182 LVDDAKRTNDRVGQE--------------VENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 182 ~~d~lkk~n~~L~qE--------------V~~L~~k~~~q~~elq~~~kk~~E 220 (368)
+.+.|++.-|.||.| ..-|+..|+-.+.+.|+-....++
T Consensus 35 l~eaL~~ELDsL~~EkvhLeeilnkKqe~l~iLqlhcqeke~eaqrq~~~~~e 87 (134)
T PF15233_consen 35 LWEALQRELDSLNGEKVHLEEILNKKQETLRILQLHCQEKESEAQRQQTLLQE 87 (134)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHh
Confidence 346677777777666 245556677777666665544444
No 317
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=24.84 E-value=22 Score=24.59 Aligned_cols=16 Identities=38% Similarity=0.659 Sum_probs=10.6
Q ss_pred CCcccccchHHHhhhc
Q 040121 46 KPYRICDNCFSKLRKA 61 (368)
Q Consensus 46 kpvRVC~~C~~~L~~~ 61 (368)
+.--+|+.|-..|.+.
T Consensus 19 ~~~~~Cd~cg~~L~qR 34 (36)
T PF05191_consen 19 KVEGVCDNCGGELVQR 34 (36)
T ss_dssp SSTTBCTTTTEBEBEE
T ss_pred CCCCccCCCCCeeEeC
Confidence 4556888887766543
No 318
>PRK14156 heat shock protein GrpE; Provisional
Probab=24.81 E-value=4.5e+02 Score=24.46 Aligned_cols=54 Identities=13% Similarity=0.131 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q 040121 190 NDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTA 244 (368)
Q Consensus 190 n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTa 244 (368)
-+-|.+|++.|+.+.....++++.++|+++.-...+..- +.-+.+++++-.|++
T Consensus 36 l~~l~~e~~elkd~~lR~~AEfeN~rKR~~rE~e~~~~~-a~~~~~~~LLpVlDn 89 (177)
T PRK14156 36 LELANERADEFENKYLRAHAEMQNIQRRANEERQQLQRY-RSQDLAKAILPSLDN 89 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhHHhH
Confidence 344556677777777777777777777776655444332 233455555555443
No 319
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=24.78 E-value=2.6e+02 Score=28.73 Aligned_cols=20 Identities=20% Similarity=0.474 Sum_probs=10.4
Q ss_pred hhHHHHHHHHHHHHHHHHHh
Q 040121 233 KAAKEVIKSLTAQLKDMAER 252 (368)
Q Consensus 233 kAAKEvIKSLTaQLKdMAeK 252 (368)
..|++.|+.|-.+++++-+|
T Consensus 60 ~~a~~~i~~L~~~i~~ik~k 79 (383)
T PF04100_consen 60 EEAQEAIQELFEKISEIKSK 79 (383)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44555566665554444433
No 320
>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family. This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.
Probab=24.76 E-value=1.9e+02 Score=28.95 Aligned_cols=44 Identities=30% Similarity=0.383 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 210 ELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 210 elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
++...+.++.+.-...++..-.-+++++=|..|.+||++...++
T Consensus 222 ~l~~~~~~l~~l~~~~~~~~P~v~~l~~~i~~l~~~i~~e~~~i 265 (362)
T TIGR01010 222 ELIRVQAQLAQLRSITPEQNPQVPSLQARIKSLRKQIDEQRNQL 265 (362)
T ss_pred HHHHHHHHHHHHHhhCCCCCCchHHHHHHHHHHHHHHHHHHHHh
Confidence 33333334444434444556666677777777777777777777
No 321
>PRK14145 heat shock protein GrpE; Provisional
Probab=24.71 E-value=4.8e+02 Score=24.70 Aligned_cols=60 Identities=15% Similarity=0.116 Sum_probs=35.8
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLT 243 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLT 243 (368)
++.|+...+-|.+|+..|+.+.....++++.+.|.++.-..-+.+-+. -+.+++++-.|.
T Consensus 47 ~~~l~~~l~~le~e~~el~d~~lR~~AEfeN~rkR~~kE~e~~~~~a~-e~~~~~LLpV~D 106 (196)
T PRK14145 47 IEELKQKLQQKEVEAQEYLDIAQRLKAEFENYRKRTEKEKSEMVEYGK-EQVILELLPVMD 106 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhHHh
Confidence 455666666666667777777777777887777777665444433322 234444444444
No 322
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=24.64 E-value=37 Score=24.98 Aligned_cols=20 Identities=20% Similarity=0.521 Sum_probs=14.8
Q ss_pred CCCCCCC-CCCcccccccccccCC
Q 040121 1 MRSGCRL-PFNNFKRKRHNCYNYG 23 (368)
Q Consensus 1 ~C~~C~~-~F~~f~rRRHHCR~CG 23 (368)
.|.+|+. ++. ..|.||-.|.
T Consensus 2 ~Cd~C~~~pI~---G~R~~C~~C~ 22 (48)
T cd02341 2 KCDSCGIEPIP---GTRYHCSECD 22 (48)
T ss_pred CCCCCCCCccc---cceEECCCCC
Confidence 4888987 433 5679999886
No 323
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=24.58 E-value=4.7e+02 Score=27.72 Aligned_cols=64 Identities=20% Similarity=0.262 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHH-HHHHHHHHHH---hhhhhhhHHHHHHHHHHHHHHHHHhCCC
Q 040121 192 RVGQEVENHTRKAQLQEVELERTTKQ-LKEAIAIAGE---ETAKCKAAKEVIKSLTAQLKDMAERLPV 255 (368)
Q Consensus 192 ~L~qEV~~L~~k~~~q~~elq~~~kk-~~Ea~~lA~e---EsaK~kAAKEvIKSLTaQLKdMAeKLp~ 255 (368)
-|.++++.|+.+......+|.+..++ .+++..+-+| =+.+-+++.+..+-++++|.++...+|-
T Consensus 40 ~~~~~~e~l~~~rn~~sk~ig~~~~~~~~~~~~l~~e~~~l~~~l~~~e~~~~~~~~~l~~~ll~ipN 107 (429)
T COG0172 40 KLLRELEELQAERNELSKEIGRALKRGEDDAEELIAEVKELKEKLKELEAALDELEAELDTLLLTIPN 107 (429)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhCCC
Confidence 45555777777766666677643332 2223322222 2334455555666666677777776653
No 324
>PHA02929 N1R/p28-like protein; Provisional
Probab=24.53 E-value=19 Score=34.94 Aligned_cols=34 Identities=18% Similarity=-0.004 Sum_probs=21.5
Q ss_pred CCCCCCCCCCcccc----cccccccCCceeeCCCCCccc
Q 040121 1 MRSGCRLPFNNFKR----KRHNCYNYGMVFCHSSSSKKT 35 (368)
Q Consensus 1 ~C~~C~~~F~~f~r----RRHHCR~CG~VfC~sCSs~~~ 35 (368)
.|..|...|. -.. +-..=-.||++||..|...+.
T Consensus 176 eC~ICle~~~-~~~~~~~~~~vl~~C~H~FC~~CI~~Wl 213 (238)
T PHA02929 176 ECAICMEKVY-DKEIKNMYFGILSNCNHVFCIECIDIWK 213 (238)
T ss_pred CCccCCcccc-cCccccccceecCCCCCcccHHHHHHHH
Confidence 4889988664 100 001123799999999987754
No 325
>PF04521 Viral_P18: ssRNA positive strand viral 18kD cysteine rich protein; InterPro: IPR007609 This family represents the 18kDa cysteine-rich protein from ssRNA positive strand viruses.
Probab=24.51 E-value=1.9e+02 Score=25.48 Aligned_cols=44 Identities=18% Similarity=0.148 Sum_probs=32.3
Q ss_pred ccchhhhHHH---HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 040121 181 ILVDDAKRTN---DRVGQEVENHTRKAQLQEVELERTTKQLKEAIAI 224 (368)
Q Consensus 181 ~~~d~lkk~n---~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~l 224 (368)
...+++...- ..|+-|.+.|+.|-|.+-.+||...+..+.+++.
T Consensus 62 ~~~~Sla~r~~~l~~~~~~L~~Le~r~e~Lk~~~~~~~~~~~~~~a~ 108 (120)
T PF04521_consen 62 GLYESLAWRHAQLSDLNLELEKLERREEQLKTQIQVLTAAAKLAKAP 108 (120)
T ss_pred HHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 3445554332 4566779999999999999999988888877654
No 326
>PRK11519 tyrosine kinase; Provisional
Probab=24.45 E-value=3.4e+02 Score=30.11 Aligned_cols=28 Identities=11% Similarity=0.139 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 040121 189 TNDRVGQEVENHTRKAQLQEVELERTTK 216 (368)
Q Consensus 189 ~n~~L~qEV~~L~~k~~~q~~elq~~~k 216 (368)
+.+-|.+++..|+++.+.-|.+|+.+++
T Consensus 268 a~~fL~~ql~~l~~~L~~aE~~l~~fr~ 295 (719)
T PRK11519 268 SLAFLAQQLPEVRSRLDVAENKLNAFRQ 295 (719)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555566666666666666665554
No 327
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=24.40 E-value=3.2e+02 Score=26.88 Aligned_cols=56 Identities=23% Similarity=0.294 Sum_probs=35.5
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHH---HHHHHHHhCCCCc
Q 040121 202 RKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTA---QLKDMAERLPVGT 257 (368)
Q Consensus 202 ~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTa---QLKdMAeKLp~g~ 257 (368)
...+-...+||.+++.-+|-..--.|=-++-.+..|=||+|.- ||.+|-.+||-..
T Consensus 135 e~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev 193 (290)
T COG4026 135 EDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEV 193 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHH
Confidence 3333333445555554444443344445677888899999974 9999999996443
No 328
>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=24.33 E-value=39 Score=23.71 Aligned_cols=6 Identities=17% Similarity=0.390 Sum_probs=2.8
Q ss_pred CCCCCC
Q 040121 2 RSGCRL 7 (368)
Q Consensus 2 C~~C~~ 7 (368)
|..|+.
T Consensus 3 Cp~Cg~ 8 (43)
T PF08271_consen 3 CPNCGS 8 (43)
T ss_dssp BTTTSS
T ss_pred CcCCcC
Confidence 444444
No 329
>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=24.17 E-value=1.7e+02 Score=26.95 Aligned_cols=35 Identities=11% Similarity=0.304 Sum_probs=19.4
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQL 218 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~ 218 (368)
.+.|...++.|.+-|+.|.+. +....+|+.+.+.+
T Consensus 4 ~~~L~~~d~~L~~~L~~l~~h-q~~~~~I~~L~~e~ 38 (188)
T PF10018_consen 4 AEDLIEADDELSSALEELQEH-QENQARIQQLRAEI 38 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence 566777777777776666433 22234444444443
No 330
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.17 E-value=37 Score=35.61 Aligned_cols=33 Identities=15% Similarity=0.396 Sum_probs=23.3
Q ss_pred CCCCCCCCCCcc-cccccccccCCceeeCCCCCc
Q 040121 1 MRSGCRLPFNNF-KRKRHNCYNYGMVFCHSSSSK 33 (368)
Q Consensus 1 ~C~~C~~~F~~f-~rRRHHCR~CG~VfC~sCSs~ 33 (368)
.|..|..+.... .--|+||-.||..||.-|+..
T Consensus 370 rCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~ 403 (445)
T KOG1814|consen 370 RCPKCKVVIERSEGCNKMHCTKCGTYFCWICAEL 403 (445)
T ss_pred CCCcccceeecCCCccceeeccccccceeehhhh
Confidence 377777644311 122799999999999999855
No 331
>PF11053 DNA_Packaging: Terminase DNA packaging enzyme; InterPro: IPR020342 This entry represents the DNA-packaging protein Gp16 found in Enterobacteria phage T4 (Bacteriophage T4). Double-stranded DNA packaging in bacteriophages is driven by a molecular motor. The phage T4 motor is composed of the small terminase protein, Gpl6 (18kDa), the large terminase protein, Gp17 (70kDa), and the dodecameric portal protein Gp20 (61kDa). Gp16 is involved in the recognition of the viral DNA substrate, the very first step in the DNA packaging pathway, and stimulates the ATPase and packaging activities associated with Gp17 []. Gp16 modulates the activity of Gp17 [] and is required to translocate phage T4 DNA into the head []. ; PDB: 3TXS_D 3TXQ_I.
Probab=23.96 E-value=4.8e+02 Score=23.97 Aligned_cols=56 Identities=21% Similarity=0.226 Sum_probs=29.4
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhh--HHHHHHHHHHHHHHHHHhC
Q 040121 198 ENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKA--AKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 198 ~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kA--AKEvIKSLTaQLKdMAeKL 253 (368)
..|+.-.+.-...|--..+++++|..+|-|=|.-.-+ |-||...|-.|+-+.+++|
T Consensus 45 ~D~e~DY~~~R~nlh~q~q~~~~a~~~aLe~Ak~SesPRa~EVf~~Lm~~m~~~nk~L 102 (153)
T PF11053_consen 45 DDLEDDYEYVRDNLHFQQQMGQDAAKIALEVAKNSESPRAYEVFAQLMKQMTDTNKKL 102 (153)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444555566677777777665543332 5566665555544444444
No 332
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.90 E-value=1.6e+02 Score=30.29 Aligned_cols=43 Identities=19% Similarity=0.268 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHH-------HHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQE-------VENHTRKAQLQEVELERTTKQLKEAIAIAG 226 (368)
Q Consensus 184 d~lkk~n~~L~qE-------V~~L~~k~~~q~~elq~~~kk~~Ea~~lA~ 226 (368)
.+||.+.|.|+.- ++.|+|+..-..+.+.-+++|++||..-|.
T Consensus 235 ~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~~eal~~~~ 284 (365)
T KOG2391|consen 235 ESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKVREALEKAE 284 (365)
T ss_pred HHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhc
No 333
>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus. Members of this family are typically of around 420 residues in length. The function of this family is unknown.
Probab=23.80 E-value=1.9e+02 Score=29.84 Aligned_cols=47 Identities=15% Similarity=0.155 Sum_probs=31.3
Q ss_pred cccchhhhHHHHHHHHHHHHHHHH------HhHHHHHHHHHHHHHHHHHHHHHH
Q 040121 180 KILVDDAKRTNDRVGQEVENHTRK------AQLQEVELERTTKQLKEAIAIAGE 227 (368)
Q Consensus 180 ~~~~d~lkk~n~~L~qEV~~L~~k------~~~q~~elq~~~kk~~Ea~~lA~e 227 (368)
+--.+.||+.|+-|.-||+.|+.. |+.++. +|.--+++-++|..++|
T Consensus 38 r~EN~~LKkEN~~Lk~eVerLE~e~l~s~V~E~vet-~dv~~d~i~Kimnk~Re 90 (420)
T PF07407_consen 38 RMENHSLKKENNDLKIEVERLENEMLRSHVCEDVET-NDVIYDKIVKIMNKMRE 90 (420)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHH-HHHHHHHHHHHHHHHhh
Confidence 344688999999999999988632 444444 45555555566655533
No 334
>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=23.62 E-value=3.5e+02 Score=20.95 Aligned_cols=14 Identities=36% Similarity=0.553 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHh
Q 040121 239 IKSLTAQLKDMAER 252 (368)
Q Consensus 239 IKSLTaQLKdMAeK 252 (368)
||.|..||++|.+-
T Consensus 36 i~~~~~~l~~I~~n 49 (71)
T PF10779_consen 36 IKNLNKQLEKIKSN 49 (71)
T ss_pred HHHHHHHHHHHHHH
Confidence 78888888877553
No 335
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=23.60 E-value=4.3e+02 Score=22.85 Aligned_cols=34 Identities=18% Similarity=0.248 Sum_probs=20.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 040121 185 DAKRTNDRVGQEVENHTRKAQLQEVELERTTKQL 218 (368)
Q Consensus 185 ~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~ 218 (368)
.|+.+-+.|..+++.|..+.+..+.++.++.++-
T Consensus 5 ~Lk~~~~~L~~~~~~le~~i~~~~~~~k~~~~~~ 38 (171)
T PF03357_consen 5 KLKKTIRRLEKQIKRLEKKIKKLEKKAKKAIKKG 38 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4566666666666666666666666665555443
No 336
>PF06273 eIF-4B: Plant specific eukaryotic initiation factor 4B; InterPro: IPR010433 This family consists of several plant specific eukaryotic initiation factor 4B proteins.
Probab=23.56 E-value=2.9e+02 Score=29.74 Aligned_cols=47 Identities=17% Similarity=0.266 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh--hhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 207 QEVELERTTKQLKEAIAIAGEE--TAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 207 q~~elq~~~kk~~Ea~~lA~eE--saK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
+-.||..++++|++...-+... ...-+.+.|.|+.+-.||..|..-|
T Consensus 371 lKeeI~~lk~~l~~~~~~~~~~~~~~~~~~~~e~i~~kE~eLe~L~~el 419 (492)
T PF06273_consen 371 LKEEINALKERLEEEEASSEKSKGSGEEESLREEISQKEKELEKLTREL 419 (492)
T ss_pred hhhhHHHHHHHHHhhhhhhhhccccccchhHHHHHHHHHHHHHHHHHHh
Confidence 3346666666666554422111 1111778888888888887666655
No 337
>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=23.46 E-value=3.9e+02 Score=26.87 Aligned_cols=16 Identities=25% Similarity=0.391 Sum_probs=12.7
Q ss_pred hhhhhhHHHHHHHHHH
Q 040121 229 TAKCKAAKEVIKSLTA 244 (368)
Q Consensus 229 saK~kAAKEvIKSLTa 244 (368)
..|...|..+|..|..
T Consensus 276 ~~kl~rA~~Li~~L~~ 291 (344)
T PF12777_consen 276 ERKLERAEKLISGLSG 291 (344)
T ss_dssp HHHHHHHHHHHHCCHH
T ss_pred HhhhccHHHHHhhhcc
Confidence 4578888888888886
No 338
>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=23.44 E-value=5.3e+02 Score=26.41 Aligned_cols=30 Identities=17% Similarity=0.142 Sum_probs=13.6
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 040121 195 QEVENHTRKAQLQEVELERTTKQLKEAIAI 224 (368)
Q Consensus 195 qEV~~L~~k~~~q~~elq~~~kk~~Ea~~l 224 (368)
+|+++|.+..+..+..-..+.+|++|.-.+
T Consensus 4 eEW~eL~~efq~Lqethr~Y~qKleel~~l 33 (330)
T PF07851_consen 4 EEWEELQKEFQELQETHRSYKQKLEELSKL 33 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444333
No 339
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.38 E-value=4.9e+02 Score=25.89 Aligned_cols=61 Identities=16% Similarity=0.212 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 193 VGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 193 L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
|.+++.++..+.+.++.+|+.+..|+++.-.-..+.=++.|..+.=|+-|...+++--+.|
T Consensus 43 ~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l 103 (265)
T COG3883 43 LQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELL 103 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455788888888888888888888888766666666666666666666666555554444
No 340
>COG3064 TolA Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]
Probab=23.36 E-value=2.5e+02 Score=28.82 Aligned_cols=22 Identities=50% Similarity=0.421 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHhhhhhhhHHH
Q 040121 216 KQLKEAIAIAGEETAKCKAAKE 237 (368)
Q Consensus 216 kk~~Ea~~lA~eEsaK~kAAKE 237 (368)
++.+++.+-|.+|++|.||+-|
T Consensus 147 k~aE~a~aka~aEA~k~Ka~ae 168 (387)
T COG3064 147 KKAEAAKAKAAAEAAKLKAAAE 168 (387)
T ss_pred HHHHHHHHHHHHHHHHhhhHHH
Confidence 3444555777777777666444
No 341
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.34 E-value=21 Score=39.27 Aligned_cols=30 Identities=23% Similarity=0.297 Sum_probs=25.6
Q ss_pred CCCCCCCCCcccccccccccCC-ceeeCCCCC
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYG-MVFCHSSSS 32 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG-~VfC~sCSs 32 (368)
|..|-..|+ |....|+|++|| .|+|.-|+.
T Consensus 57 ~np~~~~~~-~~~~d~cvkn~G~gv~~ei~tr 87 (634)
T KOG1818|consen 57 ENPNVQLFT-LKLTDHCVKNCGHGVHCEIATR 87 (634)
T ss_pred cCCCcccch-hhhHHHHHhcCCcchhHHHHHH
Confidence 677888899 888899999999 888887765
No 342
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=23.33 E-value=47 Score=28.86 Aligned_cols=27 Identities=15% Similarity=0.140 Sum_probs=21.5
Q ss_pred CCCCCCCCCcccccccccccCCceeeCCCC
Q 040121 2 RSGCRLPFNNFKRKRHNCYNYGMVFCHSSS 31 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHCR~CG~VfC~sCS 31 (368)
|..|+.++. .+ +.+|.+||-.+-+.-.
T Consensus 1 CPvCg~~l~-vt--~l~C~~C~t~i~G~F~ 27 (113)
T PF09862_consen 1 CPVCGGELV-VT--RLKCPSCGTEIEGEFE 27 (113)
T ss_pred CCCCCCceE-EE--EEEcCCCCCEEEeeec
Confidence 899999877 54 6999999998777544
No 343
>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=23.29 E-value=2e+02 Score=26.51 Aligned_cols=36 Identities=19% Similarity=0.267 Sum_probs=2.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLK 219 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~ 219 (368)
..+.+.+.-|.+.|..|..+.+.++.+++...+.|.
T Consensus 84 ael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~ 119 (194)
T PF08614_consen 84 AELYRSKGELAQQLVELNDELQELEKELSEKERRLA 119 (194)
T ss_dssp ------------------------------HHHHHH
T ss_pred cccccccccccccccccccccchhhhhHHHHHHHHH
Confidence 444555555544444444444444444333333333
No 344
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.28 E-value=43 Score=28.77 Aligned_cols=9 Identities=22% Similarity=0.497 Sum_probs=4.6
Q ss_pred CCCCCCCCC
Q 040121 2 RSGCRLPFN 10 (368)
Q Consensus 2 C~~C~~~F~ 10 (368)
|..|+..|.
T Consensus 74 C~~Cg~~~~ 82 (117)
T PRK00564 74 CKDCSHVFK 82 (117)
T ss_pred hhhCCCccc
Confidence 455555444
No 345
>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=23.13 E-value=1.6e+02 Score=24.96 Aligned_cols=23 Identities=13% Similarity=0.284 Sum_probs=14.7
Q ss_pred HHHHHHHHhH----HHHHHHHHHHHHH
Q 040121 197 VENHTRKAQL----QEVELERTTKQLK 219 (368)
Q Consensus 197 V~~L~~k~~~----q~~elq~~~kk~~ 219 (368)
++.|+++.+. +..+|++++++|+
T Consensus 74 L~~Lk~kl~~e~~~~~k~i~~le~~I~ 100 (100)
T PF04568_consen 74 LKKLKEKLKEEIEHHRKEIDELEKHIE 100 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 6666666666 6666666666653
No 346
>PF13949 ALIX_LYPXL_bnd: ALIX V-shaped domain binding to HIV ; PDB: 2XS1_A 2XS8_A 2R03_A 2R02_A 2OEX_B 2OEV_A 2OJQ_A 2R05_A.
Probab=23.11 E-value=3.5e+02 Score=25.84 Aligned_cols=73 Identities=16% Similarity=0.222 Sum_probs=48.7
Q ss_pred hhhhHHHHHHHHH---HHHHHHHH-------------hHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQE---VENHTRKA-------------QLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLK 247 (368)
Q Consensus 184 d~lkk~n~~L~qE---V~~L~~k~-------------~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLK 247 (368)
+.|....++|.+| -+.++.+. ...-.+|+++.+.+++|..-=..=-.|-...++.|+-|+.-..
T Consensus 43 ~~L~e~~~~L~~E~~ed~~~r~~~g~~W~r~~S~~~~~~l~~~l~~~~~~L~~A~~sD~~~~~~~~~~~~~l~~L~~~~~ 122 (296)
T PF13949_consen 43 SILDEIEEMLDEEEREDEQLRAKYGERWTRPPSSELNASLRKELQKYREYLEQASESDSQLRSKLESIEENLELLSGPIE 122 (296)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHSTTTCGSS-HHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCCcHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHcCChh
Confidence 4455566666666 34555542 2344688888888888766555556667777888888888888
Q ss_pred HHHHhCCCC
Q 040121 248 DMAERLPVG 256 (368)
Q Consensus 248 dMAeKLp~g 256 (368)
++...||..
T Consensus 123 ~L~~~lp~~ 131 (296)
T PF13949_consen 123 ELEASLPSS 131 (296)
T ss_dssp HHHHHS--B
T ss_pred hHHhhCCCC
Confidence 888888775
No 347
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=23.07 E-value=55 Score=27.01 Aligned_cols=17 Identities=18% Similarity=0.329 Sum_probs=11.6
Q ss_pred CCCcccccccccccCCce
Q 040121 8 PFNNFKRKRHNCYNYGMV 25 (368)
Q Consensus 8 ~F~~f~rRRHHCR~CG~V 25 (368)
.++ +...|-||.+||+.
T Consensus 26 ~~~-i~~~rS~C~~C~~~ 42 (92)
T PF06750_consen 26 SLS-IIFPRSHCPHCGHP 42 (92)
T ss_pred CCC-ccCCCCcCcCCCCc
Confidence 345 55567888888775
No 348
>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure. They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].
Probab=23.05 E-value=2e+02 Score=30.65 Aligned_cols=37 Identities=22% Similarity=0.353 Sum_probs=19.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKE 220 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~E 220 (368)
+.|+...+++.+|+..|..|.+.+..|+|..+.++..
T Consensus 277 ~~l~~E~~~~~ee~~~l~~Qi~~l~~e~~d~e~~~~~ 313 (511)
T PF09787_consen 277 EELKQERDHLQEEIQLLERQIEQLRAELQDLEAQLEG 313 (511)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4555556666666666665554444444444444333
No 349
>PF06428 Sec2p: GDP/GTP exchange factor Sec2p; InterPro: IPR009449 In Saccharomyces cerevisiae, Sec2p is a GDP/GTP exchange factor for Sec4p, which is required for vesicular transport at the post-Golgi stage of yeast secretion []. It catalyzes the dissociation of GDP from SEC4 and also potently promoting binding of GTP. Activation of SEC4 by SEC2 is needed for the directed transport of vesicles to sites of exocytosis. Binds the Rab GTPase YPT32, but does not have exhange activity on YPT32 [, , ].; PDB: 2EQB_C 2E7S_K 2OCY_A.
Probab=23.05 E-value=40 Score=28.53 Aligned_cols=21 Identities=19% Similarity=0.425 Sum_probs=14.3
Q ss_pred hhhhHHHHHHHHHHHHHHHHH
Q 040121 184 DDAKRTNDRVGQEVENHTRKA 204 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~ 204 (368)
..+.+..+-+.+||+.|+...
T Consensus 11 ~~ae~~~~~ie~ElEeLTasL 31 (100)
T PF06428_consen 11 EEAEQEKEQIESELEELTASL 31 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345666777888888877553
No 350
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=22.81 E-value=2.1e+02 Score=29.41 Aligned_cols=32 Identities=16% Similarity=0.254 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 040121 190 NDRVGQEVENHTRKAQLQEVELERTTKQLKEA 221 (368)
Q Consensus 190 n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea 221 (368)
...||+.++.|-++......+|-..+.+.+++
T Consensus 261 Ek~iN~qle~l~~eYr~~~~~ls~~~~~y~~~ 292 (359)
T PF10498_consen 261 EKYINNQLEPLIQEYRSAQDELSEVQEKYKQA 292 (359)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33566555555555554444444444444443
No 351
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=22.80 E-value=18 Score=37.11 Aligned_cols=12 Identities=33% Similarity=0.551 Sum_probs=10.0
Q ss_pred CCCCCCCCCCcc
Q 040121 1 MRSGCRLPFNNF 12 (368)
Q Consensus 1 ~C~~C~~~F~~f 12 (368)
.|.+|.+||+.|
T Consensus 43 ECKICtrPfT~F 54 (377)
T KOG0153|consen 43 ECKICTRPFTIF 54 (377)
T ss_pred ccceecCcceEE
Confidence 499999999944
No 352
>PHA02565 49 recombination endonuclease VII; Provisional
Probab=22.73 E-value=53 Score=30.16 Aligned_cols=10 Identities=10% Similarity=0.401 Sum_probs=7.6
Q ss_pred CCCCCCCCCC
Q 040121 1 MRSGCRLPFN 10 (368)
Q Consensus 1 ~C~~C~~~F~ 10 (368)
.|.+|+.+|.
T Consensus 22 ~CaiC~~~l~ 31 (157)
T PHA02565 22 ICPLCKRELD 31 (157)
T ss_pred cCCCCCCccC
Confidence 3888888876
No 353
>PF02945 Endonuclease_7: Recombination endonuclease VII; InterPro: IPR004211 This family of proteins which includes Bacteriophage T4 endonuclease VII, Mycobacteriophage D29 gene 59, and other as yet uncharacterised proteins. The T4 endonuclease VII (Endo VII) recognises a broad spectrum of DNA substrates ranging from branched DNAs to single base mismatches. The structure of this enzyme has been resolved and it was found that the monomers form an elongated, intertwined molecular dimer that exibits extreme domain swapping. Two pairs of antiparallel helices which form a novel 'four-helix cross' motif are the major dimerisation elements [].; PDB: 3GOX_A 3FC3_A 1EN7_B 1E7L_B 2QNF_A 2QNC_A 1E7D_A.
Probab=22.64 E-value=29 Score=28.22 Aligned_cols=8 Identities=25% Similarity=0.517 Sum_probs=3.5
Q ss_pred CCCCCCCC
Q 040121 2 RSGCRLPF 9 (368)
Q Consensus 2 C~~C~~~F 9 (368)
|.+|+.++
T Consensus 25 C~iC~~~~ 32 (81)
T PF02945_consen 25 CAICGKPL 32 (81)
T ss_dssp -TTT-SEE
T ss_pred CcCCCCCc
Confidence 66676643
No 354
>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]
Probab=22.35 E-value=4.2e+02 Score=33.38 Aligned_cols=66 Identities=20% Similarity=0.278 Sum_probs=44.8
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhh-hhhHHHHHHHHHHHHHHH
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAK-CKAAKEVIKSLTAQLKDM 249 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK-~kAAKEvIKSLTaQLKdM 249 (368)
.+.+|+.-+-|.+|++...+.....+.+++++...++|+.. ..|+..+ -|-+...|.-|+.|+.|.
T Consensus 1444 l~e~k~~~e~l~~Eld~aq~e~r~~~tel~kl~~~lee~~e-~~e~l~renk~l~~ei~dl~~~~~e~ 1510 (1930)
T KOG0161|consen 1444 LAEWKKKLEKLQAELDAAQRELRQLSTELQKLKNALEELLE-QLEELRRENKNLSQEIEDLEEQKDEG 1510 (1930)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666667777777788888899999999999888 4444443 334555566666555544
No 355
>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=22.33 E-value=41 Score=22.74 Aligned_cols=9 Identities=22% Similarity=0.545 Sum_probs=5.1
Q ss_pred CCCCCCCCC
Q 040121 2 RSGCRLPFN 10 (368)
Q Consensus 2 C~~C~~~F~ 10 (368)
|..|+..|.
T Consensus 8 C~~Cg~~fe 16 (41)
T smart00834 8 CEDCGHTFE 16 (41)
T ss_pred cCCCCCEEE
Confidence 555655555
No 356
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=22.30 E-value=84 Score=20.49 Aligned_cols=28 Identities=14% Similarity=0.239 Sum_probs=20.6
Q ss_pred CCCCCCCCCCcccccccccccCCceeeCCC
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYGMVFCHSS 30 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG~VfC~sC 30 (368)
.|..|++....+. -.+|..|+-.+...|
T Consensus 2 ~C~~C~~~~~~~~--~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY--FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE--eEEeCCCCCeEcCcc
Confidence 4888988877443 688888887766665
No 357
>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit
Probab=22.26 E-value=3.3e+02 Score=24.10 Aligned_cols=48 Identities=17% Similarity=0.084 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 040121 184 DDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAK 231 (368)
Q Consensus 184 d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK 231 (368)
+...+..++|..|++....-.+.-...|+.++++++.....-.++..|
T Consensus 37 ~~~~~~l~lLq~e~~~~e~~le~d~~~L~~Le~~~~~~~~e~~~~~~~ 84 (160)
T PF13094_consen 37 AANLHQLELLQEEIEKEEAALERDYEYLQELEKNAKALEREREEEEKK 84 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
No 358
>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length. The function of this family is unknown.; GO: 0005198 structural molecule activity
Probab=22.18 E-value=3.3e+02 Score=24.58 Aligned_cols=11 Identities=36% Similarity=0.271 Sum_probs=4.6
Q ss_pred hhhhHHHHHHH
Q 040121 231 KCKAAKEVIKS 241 (368)
Q Consensus 231 K~kAAKEvIKS 241 (368)
|.+-++-|.+-
T Consensus 95 kakn~~av~al 105 (155)
T PF06810_consen 95 KAKNPKAVKAL 105 (155)
T ss_pred CCCCHHHHHHh
Confidence 44444444433
No 359
>PF15219 TEX12: Testis-expressed 12
Probab=22.17 E-value=4.3e+02 Score=22.44 Aligned_cols=62 Identities=16% Similarity=0.170 Sum_probs=35.5
Q ss_pred CCCCCCCCCCCCCCCCCCCCcccchhhhHHHHHHHHHHH--------HHHHHHhHHHHHHHHHHHHHHHHHHH
Q 040121 160 QPSPPRSTTPTPTLGGPTSPKILVDDAKRTNDRVGQEVE--------NHTRKAQLQEVELERTTKQLKEAIAI 224 (368)
Q Consensus 160 ~~spprs~~p~p~~~~~~~~~~~~d~lkk~n~~L~qEV~--------~L~~k~~~q~~elq~~~kk~~Ea~~l 224 (368)
-+|+|-|.++..-.+|+.+ + .|.|++.|.-+++||. -|.++...----|.+..-=++||-.|
T Consensus 7 ~~s~~ksds~~se~ag~fy-k--~e~lek~l~d~skEinlmls~yA~ilSEraavd~syi~eiD~lfkEA~~l 76 (100)
T PF15219_consen 7 LSSLGKSDSSFSESAGLFY-K--DESLEKDLNDMSKEINLMLSTYAKILSERAAVDASYITEIDGLFKEANAL 76 (100)
T ss_pred cCCCCCCCcchhhcccchh-h--HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhhhHHHHHHHHHHHHH
Confidence 3566666666655566533 2 5779999999999943 33333332223445555555555443
No 360
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=22.13 E-value=60 Score=22.87 Aligned_cols=23 Identities=22% Similarity=0.527 Sum_probs=12.2
Q ss_pred CCCCCCcccccccccccCCceeeCCCC
Q 040121 5 CRLPFNNFKRKRHNCYNYGMVFCHSSS 31 (368)
Q Consensus 5 C~~~F~~f~rRRHHCR~CG~VfC~sCS 31 (368)
|++.-. + ...|..||..||..+-
T Consensus 6 C~~~~~-~---~~~C~~C~~~FC~~Hr 28 (43)
T PF01428_consen 6 CKKKDF-L---PFKCKHCGKSFCLKHR 28 (43)
T ss_dssp T--BCT-S---HEE-TTTS-EE-TTTH
T ss_pred CcCccC-C---CeECCCCCcccCcccc
Confidence 766443 2 3679999999998653
No 361
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=22.12 E-value=37 Score=36.09 Aligned_cols=54 Identities=20% Similarity=0.233 Sum_probs=36.4
Q ss_pred CCCCCC-CCCCcccccccccccCCcee---eCCCCCcccccccCCCCCCCCcccccchHHHhhh
Q 040121 1 MRSGCR-LPFNNFKRKRHNCYNYGMVF---CHSSSSKKTLKASMAPNPNKPYRICDNCFSKLRK 60 (368)
Q Consensus 1 ~C~~C~-~~F~~f~rRRHHCR~CG~Vf---C~sCSs~~~~~~~l~p~~~kpvRVC~~C~~~L~~ 60 (368)
+|..|+ -.++ .++|-..|+.|+.-| |+.|........ ...-.=.|+.|-.....
T Consensus 170 qc~vC~~g~~~-~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~-----D~~~~w~C~~C~~~~~~ 227 (464)
T KOG4323|consen 170 QCSVCYCGGPG-AGNRMLQCDKCRQWYHQACHQPLIKDELAG-----DPFYEWFCDVCNRGPKK 227 (464)
T ss_pred eeeeeecCCcC-ccceeeeecccccHHHHHhccCCCCHhhcc-----CccceEeehhhccchhh
Confidence 377786 4666 677889999999987 777765544321 13444589988765443
No 362
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.11 E-value=6.5e+02 Score=26.81 Aligned_cols=41 Identities=15% Similarity=0.180 Sum_probs=28.1
Q ss_pred ccchhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 040121 181 ILVDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEA 221 (368)
Q Consensus 181 ~~~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea 221 (368)
..+-+|+++-..|+++++.|.|+|+.-+.++..+=|.-+.-
T Consensus 233 ~~V~~L~~~~~~L~kqie~L~qeie~~~~~~r~~~k~g~K~ 273 (439)
T KOG2911|consen 233 GSVADLIQARAKLAKQIEFLEQEIEKSKEKLRQALKEGKKQ 273 (439)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchH
Confidence 34667888888888888888888777776665554444443
No 363
>PLN02381 valyl-tRNA synthetase
Probab=22.10 E-value=2.3e+02 Score=33.22 Aligned_cols=58 Identities=16% Similarity=0.178 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHH-------HHHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 040121 193 VGQEVENHTRKAQLQEVELERTTKQLKEAI-------AIAGEETAKCKAAKEVIKSLTAQLKDMA 250 (368)
Q Consensus 193 L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~-------~lA~eEsaK~kAAKEvIKSLTaQLKdMA 250 (368)
+..|++.|..+.+..+.||++++++|...- .+..+|-.|.....+-|..|...|..+.
T Consensus 995 ~~~E~~rL~K~l~klekei~~~~~kLsN~~F~~KAP~~vve~e~~kl~~~~~~l~~l~~~l~~l~ 1059 (1066)
T PLN02381 995 AEAELEKLRNKMDEIQKQQEKLEKKMNASGYKEKVPANIQEEDARKLTKLLQELEFFEKESKRLE 1059 (1066)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcCCchhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457788888888888999999999887654 4556666666666666666666666553
No 364
>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure. They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].
Probab=22.09 E-value=4.9e+02 Score=27.72 Aligned_cols=8 Identities=25% Similarity=0.451 Sum_probs=3.9
Q ss_pred HHHHHHhC
Q 040121 246 LKDMAERL 253 (368)
Q Consensus 246 LKdMAeKL 253 (368)
.++|++++
T Consensus 196 ~~~L~~~~ 203 (511)
T PF09787_consen 196 RQELEERP 203 (511)
T ss_pred HHHHHHHH
Confidence 44555544
No 365
>PF10752 DUF2533: Protein of unknown function (DUF2533) ; InterPro: IPR019688 This entry represents proteins with unknown function, and appear to be restricted to Bacillus spp.
Probab=21.87 E-value=4.7e+02 Score=21.71 Aligned_cols=40 Identities=18% Similarity=0.257 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHhhhhhhh-HHHHHHHHHHHHHHHHHh
Q 040121 213 RTTKQLKEAIAIAGEETAKCKA-AKEVIKSLTAQLKDMAER 252 (368)
Q Consensus 213 ~~~kk~~Ea~~lA~eEsaK~kA-AKEvIKSLTaQLKdMAeK 252 (368)
.+.++-+.|+.-|-+.+.+-+. ..|.|.-+|.|++++|.+
T Consensus 23 ~Le~~RE~aIeeav~~c~~g~pFs~d~IN~vT~~mN~LAk~ 63 (84)
T PF10752_consen 23 QLEQQREAAIEEAVSLCKQGEPFSTDKINEVTKEMNELAKQ 63 (84)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHHc
Confidence 3344444455444443333333 578999999999999987
No 366
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=21.74 E-value=1.4e+03 Score=27.13 Aligned_cols=121 Identities=22% Similarity=0.196 Sum_probs=0.0
Q ss_pred CCCcccccCCccccccccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccchhhhHHHHHHHHHHHHHHHHHh
Q 040121 126 PKPFNAMFGSSKKFFSASVPGSRIVSRATSPISRQPSPPRSTTPTPTLGGPTSPKILVDDAKRTNDRVGQEVENHTRKAQ 205 (368)
Q Consensus 126 ~~~~~~~~~~~~~~~~~s~~~~~~~~r~~sp~s~~~spprs~~p~p~~~~~~~~~~~~d~lkk~n~~L~qEV~~L~~k~~ 205 (368)
|..--++-...+.+.-++.-++-.+....++. ...+|- -++|.+|+.+-..|-... -||..-|.-.|..|++|.|
T Consensus 167 ps~aAs~~~~kp~p~~t~~l~~lpPq~tpaqt-Pl~sP~-~~~P~~Tta~a~v~l~sa---skte~eLr~QvrdLtEkLe 241 (1243)
T KOG0971|consen 167 PSGAASVTPQKPVPAATGELSSLPPQETPAQT-PLASPI-IPTPVLTTAGAVVPLPSA---SKTEEELRAQVRDLTEKLE 241 (1243)
T ss_pred CCCcccccCCCCChhhhcccccCCCccCCCCC-CccCCC-CCCCCCCCccccCCCCcc---ccchHHHHHHHHHHHHHHH
Q ss_pred HHH--------------------HHHHHHHHHHHHHHHH-------HHHhhhhhhhHHHHHHHHHHHH----------HH
Q 040121 206 LQE--------------------VELERTTKQLKEAIAI-------AGEETAKCKAAKEVIKSLTAQL----------KD 248 (368)
Q Consensus 206 ~q~--------------------~elq~~~kk~~Ea~~l-------A~eEsaK~kAAKEvIKSLTaQL----------Kd 248 (368)
.+. ..+|+.+-|+.++.+. |+-|+.---+|||=-|-+-+.+ ||
T Consensus 242 tlR~kR~EDk~Kl~ElekmkiqleqlqEfkSkim~qqa~Lqrel~raR~e~keaqe~ke~~k~emad~ad~iEmaTldKE 321 (1243)
T KOG0971|consen 242 TLRLKRAEDKAKLKELEKMKIQLEQLQEFKSKIMEQQADLQRELKRARKEAKEAQEAKERYKEEMADTADAIEMATLDKE 321 (1243)
T ss_pred HHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q ss_pred HHH
Q 040121 249 MAE 251 (368)
Q Consensus 249 MAe 251 (368)
|||
T Consensus 322 mAE 324 (1243)
T KOG0971|consen 322 MAE 324 (1243)
T ss_pred HHH
No 367
>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=21.70 E-value=4e+02 Score=22.39 Aligned_cols=71 Identities=14% Similarity=0.221 Sum_probs=0.0
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhh------------------------------
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKC------------------------------ 232 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~------------------------------ 232 (368)
++.+....+.|.+|++.|.++....+..+.++.+-++.--.+-.++.-.-
T Consensus 1 ~qql~~q~~ql~~~i~~l~~~i~~l~~~i~e~~~~~~~L~~l~~~~~~~~lv~lg~~~~v~~~v~~~~~v~v~iG~g~~v 80 (126)
T TIGR00293 1 LQQLAAELQILQQQVESLQAQIAALRALIAELETAIETLEDLKGAEGKETLVPVGAGSFVKAKVKDTDKVLVSIGSGYYV 80 (126)
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCeEEEEcCCCeEEEEEeCCCCEEEEEcCCCEEE
Q ss_pred -hhHHHHHHHHHHHHHHHHHhC
Q 040121 233 -KAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 233 -kAAKEvIKSLTaQLKdMAeKL 253 (368)
+...|+++.|...++.+-+.+
T Consensus 81 E~~~~eA~~~l~~~~~~l~~~~ 102 (126)
T TIGR00293 81 EKDAEEAIEFLKKRIEELEKAI 102 (126)
T ss_pred EecHHHHHHHHHHHHHHHHHHH
No 368
>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function.
Probab=21.45 E-value=53 Score=24.20 Aligned_cols=20 Identities=25% Similarity=0.728 Sum_probs=16.4
Q ss_pred CCCCcccccchHHHhhhccC
Q 040121 44 PNKPYRICDNCFSKLRKAFH 63 (368)
Q Consensus 44 ~~kpvRVC~~C~~~L~~~~e 63 (368)
++.|.-+|..|++.|+--.+
T Consensus 2 GGAPFv~C~~C~~lLqlP~~ 21 (46)
T PF11331_consen 2 GGAPFVVCSSCFELLQLPAK 21 (46)
T ss_pred CCCCEeECccHHHHHcCCCc
Confidence 36788999999999987544
No 369
>PRK06424 transcription factor; Provisional
Probab=21.36 E-value=3.5e+02 Score=24.24 Aligned_cols=13 Identities=23% Similarity=0.646 Sum_probs=9.2
Q ss_pred CCCcccccchHHH
Q 040121 45 NKPYRICDNCFSK 57 (368)
Q Consensus 45 ~kpvRVC~~C~~~ 57 (368)
+-...||+.|...
T Consensus 20 g~~l~vC~~Ca~~ 32 (144)
T PRK06424 20 GAILNVCDDCAKF 32 (144)
T ss_pred CeeeehhHHHHHc
Confidence 4557888888653
No 370
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=21.34 E-value=5.8e+02 Score=22.65 Aligned_cols=55 Identities=9% Similarity=0.020 Sum_probs=22.7
Q ss_pred HHHHHHHHhHHH-HHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQE-VELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAE 251 (368)
Q Consensus 197 V~~L~~k~~~q~-~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAe 251 (368)
+.+|+..+.-.+ .+|+....|+.-++.==.||.++-.+.+.-.+..-+++++|++
T Consensus 11 ~R~lra~~re~~~e~Lee~~ekl~~vv~er~~~~~~~~~~~~er~~~l~~i~~~~~ 66 (134)
T PRK10328 11 IRTLRAMAREFSIDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKINTWLELMK 66 (134)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455544433333 2444444454444444444443333333333333334444433
No 371
>PRK06746 peptide chain release factor 2; Provisional
Probab=21.22 E-value=8e+02 Score=25.08 Aligned_cols=76 Identities=16% Similarity=0.164 Sum_probs=44.8
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh--hhhhhhHHHHHHHHHHHHHHHH-HhCCCCccc
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEE--TAKCKAAKEVIKSLTAQLKDMA-ERLPVGTLR 259 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eE--saK~kAAKEvIKSLTaQLKdMA-eKLp~g~~~ 259 (368)
-++.++.- .|.+|...|+...+..+ ++....+.++++..|+.|| ..=..-|++-|+.|..+|+.+- +.||.|.++
T Consensus 7 w~d~~~~~-~~~ke~~~l~~~v~~~~-~~~~~~~d~~~~~el~~~~~d~e~~~~a~~e~~~l~~~l~~le~~~l~~~~~D 84 (326)
T PRK06746 7 WDDQQGAQ-AVINEANALKDMVGKFR-QLDETFENLEITHELLKEEYDEDLHEELESEVKGLIQEMNEYELQLLLSDPYD 84 (326)
T ss_pred hcCHHHHH-HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCc
Confidence 34444433 34567666666655444 3666677777777777543 1222336667788888877775 456666544
Q ss_pred C
Q 040121 260 N 260 (368)
Q Consensus 260 ~ 260 (368)
.
T Consensus 85 ~ 85 (326)
T PRK06746 85 K 85 (326)
T ss_pred c
Confidence 3
No 372
>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=21.18 E-value=95 Score=28.61 Aligned_cols=11 Identities=45% Similarity=0.634 Sum_probs=0.0
Q ss_pred HHHHHHHHHHH
Q 040121 210 ELERTTKQLKE 220 (368)
Q Consensus 210 elq~~~kk~~E 220 (368)
+|+++.+++.+
T Consensus 103 ~l~~l~~~~~~ 113 (194)
T PF08614_consen 103 ELQELEKELSE 113 (194)
T ss_dssp -----------
T ss_pred ccchhhhhHHH
Confidence 44444444433
No 373
>PRK05978 hypothetical protein; Provisional
Probab=21.16 E-value=55 Score=29.63 Aligned_cols=16 Identities=25% Similarity=0.557 Sum_probs=8.2
Q ss_pred CCcccccchHHHhhhc
Q 040121 46 KPYRICDNCFSKLRKA 61 (368)
Q Consensus 46 kpvRVC~~C~~~L~~~ 61 (368)
+..--|..|-..+...
T Consensus 50 kv~~~C~~CG~~~~~~ 65 (148)
T PRK05978 50 KPVDHCAACGEDFTHH 65 (148)
T ss_pred ccCCCccccCCccccC
Confidence 3444566665555443
No 374
>PF14932 HAUS-augmin3: HAUS augmin-like complex subunit 3
Probab=21.13 E-value=6.4e+02 Score=24.34 Aligned_cols=15 Identities=33% Similarity=0.319 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHHH
Q 040121 212 ERTTKQLKEAIAIAG 226 (368)
Q Consensus 212 q~~~kk~~Ea~~lA~ 226 (368)
++.+++++++-....
T Consensus 113 ~~~~~~l~~~~~~l~ 127 (256)
T PF14932_consen 113 EEAQKKLKKAQKELS 127 (256)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444443333
No 375
>PRK05580 primosome assembly protein PriA; Validated
Probab=21.06 E-value=59 Score=35.84 Aligned_cols=15 Identities=27% Similarity=0.600 Sum_probs=8.1
Q ss_pred ccccCCcee-eCCCCC
Q 040121 18 NCYNYGMVF-CHSSSS 32 (368)
Q Consensus 18 HCR~CG~Vf-C~sCSs 32 (368)
.|+.||.++ |..|..
T Consensus 383 ~C~~Cg~~~~C~~C~~ 398 (679)
T PRK05580 383 LCRDCGWVAECPHCDA 398 (679)
T ss_pred EhhhCcCccCCCCCCC
Confidence 366666553 555553
No 376
>cd00202 ZnF_GATA Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
Probab=20.76 E-value=45 Score=24.98 Aligned_cols=16 Identities=19% Similarity=0.374 Sum_probs=9.3
Q ss_pred CCcccccchHHHhhhc
Q 040121 46 KPYRICDNCFSKLRKA 61 (368)
Q Consensus 46 kpvRVC~~C~~~L~~~ 61 (368)
....+|..|.......
T Consensus 19 ~~~~LCNaCgl~~~k~ 34 (54)
T cd00202 19 GGSTLCNACGLYWKKH 34 (54)
T ss_pred CcchHHHHHHHHHHhc
Confidence 4455677776665443
No 377
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=20.76 E-value=68 Score=25.38 Aligned_cols=27 Identities=30% Similarity=0.530 Sum_probs=12.5
Q ss_pred CCCCCCCCCccccccccc-ccCCceeeCCCCCc
Q 040121 2 RSGCRLPFNNFKRKRHNC-YNYGMVFCHSSSSK 33 (368)
Q Consensus 2 C~~C~~~F~~f~rRRHHC-R~CG~VfC~sCSs~ 33 (368)
|+.| |+ ++ |.-+| -.|..+||..|.+.
T Consensus 10 Cs~C---~~-~l-~~pv~l~~CeH~fCs~Ci~~ 37 (65)
T PF14835_consen 10 CSIC---FD-IL-KEPVCLGGCEHIFCSSCIRD 37 (65)
T ss_dssp -SSS----S----SS-B---SSS--B-TTTGGG
T ss_pred CcHH---HH-Hh-cCCceeccCccHHHHHHhHH
Confidence 5555 44 43 35666 89999999999865
No 378
>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]
Probab=20.76 E-value=5.3e+02 Score=24.74 Aligned_cols=57 Identities=21% Similarity=0.278 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhh------h--HHHHHHHHHHHHHHH
Q 040121 192 RVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCK------A--AKEVIKSLTAQLKDM 249 (368)
Q Consensus 192 ~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~k------A--AKEvIKSLTaQLKdM 249 (368)
.||..+..|.+..+..+..+.-.++|++||---| +|+..-. + =-|.|+-+.+|||+-
T Consensus 8 ~lnrri~~leeele~aqErl~~a~~KL~Eaeq~~-dE~er~~Kv~enr~~kdEE~~e~~e~qLkEA 72 (205)
T KOG1003|consen 8 ALNRRIQLLEEELDRAQERLATALQKLEEAEQAA-DESERGMKVIENRAQKLEEKMEAQEAQLKEA 72 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 3555566666666666677777777777775544 3333221 1 135777788888874
No 379
>PRK14127 cell division protein GpsB; Provisional
Probab=20.70 E-value=2e+02 Score=24.86 Aligned_cols=34 Identities=15% Similarity=0.263 Sum_probs=19.0
Q ss_pred hhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 040121 186 AKRTNDRVGQEVENHTRKAQLQEVELERTTKQLK 219 (368)
Q Consensus 186 lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~ 219 (368)
+-+.-+.|..|+..|+.+-..++.+|..++.++.
T Consensus 35 V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~ 68 (109)
T PRK14127 35 VIKDYEAFQKEIEELQQENARLKAQVDELTKQVS 68 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3344445555566666666666666666655554
No 380
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=20.65 E-value=53 Score=23.39 Aligned_cols=29 Identities=24% Similarity=0.519 Sum_probs=19.7
Q ss_pred CCCCCCCCCCcccccccccccCC-ceeeCCCCC
Q 040121 1 MRSGCRLPFNNFKRKRHNCYNYG-MVFCHSSSS 32 (368)
Q Consensus 1 ~C~~C~~~F~~f~rRRHHCR~CG-~VfC~sCSs 32 (368)
.|.+|+.+ +...|.+|..|- --+|..|-.
T Consensus 2 ~Cd~C~~~---i~G~ry~C~~C~d~dLC~~C~~ 31 (43)
T cd02340 2 ICDGCQGP---IVGVRYKCLVCPDYDLCESCEA 31 (43)
T ss_pred CCCCCCCc---CcCCeEECCCCCCccchHHhhC
Confidence 48999983 345679999884 335666643
No 381
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=20.58 E-value=1.6e+02 Score=32.58 Aligned_cols=23 Identities=22% Similarity=0.277 Sum_probs=14.0
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHH
Q 040121 199 NHTRKAQLQEVELERTTKQLKEA 221 (368)
Q Consensus 199 ~L~~k~~~q~~elq~~~kk~~Ea 221 (368)
.|..|...+|.||.+.++++.+|
T Consensus 354 Klee~i~elEEElk~~k~ea~~a 376 (832)
T KOG2077|consen 354 KLEEKIRELEEELKKAKAEAEDA 376 (832)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555666666666666665
No 382
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=20.26 E-value=7.1e+02 Score=25.15 Aligned_cols=71 Identities=21% Similarity=0.339 Sum_probs=48.0
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH-----HHHHhhhhhhhHHHHHHHHHHHHHHHHHhCCCC
Q 040121 183 VDDAKRTNDRVGQEVENHTRKAQLQEVELERTTKQLKEAIA-----IAGEETAKCKAAKEVIKSLTAQLKDMAERLPVG 256 (368)
Q Consensus 183 ~d~lkk~n~~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~-----lA~eEsaK~kAAKEvIKSLTaQLKdMAeKLp~g 256 (368)
.|.+++.=|.+.+++..+..+.+.+..++-..+..+.+..- .+.+-+++..+..| .|-.-.+++=|||--|
T Consensus 202 ~De~Rkeade~he~~ve~~~~~~e~~ee~~~~~~elre~~k~ik~l~~~~~~~~~~~~~e---e~kera~ei~EKfk~G 277 (294)
T COG1340 202 ADELRKEADELHEEFVELSKKIDELHEEFRNLQNELRELEKKIKALRAKEKAAKRREKRE---ELKERAEEIYEKFKRG 277 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhCC
Confidence 57888888888888777777777777777766666666544 55566666666666 4444566666777444
No 383
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=20.23 E-value=4.8e+02 Score=26.08 Aligned_cols=39 Identities=8% Similarity=0.015 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhh
Q 040121 192 RVGQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETA 230 (368)
Q Consensus 192 ~L~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsa 230 (368)
-|..|-..|.++.+..+.+||.+.++-..+..-+++-..
T Consensus 11 ~L~~Ep~~L~~~~~~l~~ql~~La~~~y~~fi~~~~~~~ 49 (338)
T PF04124_consen 11 SLFSEPQSLSEEIASLDAQLQSLAFRNYKTFIDNAECSS 49 (338)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 344466677777777777777777777766665554443
No 384
>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=20.22 E-value=4.1e+02 Score=20.37 Aligned_cols=28 Identities=7% Similarity=0.290 Sum_probs=18.5
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAIAI 224 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~~l 224 (368)
|.+++.+-+....+|++..+.+++-+.|
T Consensus 16 i~tvk~en~~i~~~ve~i~envk~ll~l 43 (55)
T PF05377_consen 16 INTVKKENEEISESVEKIEENVKDLLSL 43 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6666666666666777777777666554
No 385
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=20.22 E-value=2.3e+02 Score=32.67 Aligned_cols=60 Identities=22% Similarity=0.302 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 194 GQEVENHTRKAQLQEVELERTTKQLKEAIAIAGEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 194 ~qEV~~L~~k~~~q~~elq~~~kk~~Ea~~lA~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
..|...|..+.+.++.|+++.+++|-..-.++.-++..-.+.|+..+-+..++.++.++|
T Consensus 813 ~~e~~rl~k~~~k~~~e~~~~~~kl~ne~f~~kAp~~vv~~e~~~~~~~~~~~~~l~~~l 872 (877)
T COG0525 813 AAELARLEKELEKLEKEIDRIEKKLSNEGFVAKAPEEVVEKEKEKLAEYQVKLAKLEERL 872 (877)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHhhcchhhhhcCCHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 355788888889999999999999987776766666655555555555555666655544
No 386
>PF11488 Lge1: Transcriptional regulatory protein LGE1
Probab=20.14 E-value=1.8e+02 Score=23.33 Aligned_cols=26 Identities=19% Similarity=0.289 Sum_probs=18.7
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHH
Q 040121 197 VENHTRKAQLQEVELERTTKQLKEAI 222 (368)
Q Consensus 197 V~~L~~k~~~q~~elq~~~kk~~Ea~ 222 (368)
|..|..++...+.-||.++.||+|-.
T Consensus 53 ~~~L~~~~~r~~l~vQlt~EkLdel~ 78 (80)
T PF11488_consen 53 VKMLETQDPRDELNVQLTQEKLDELL 78 (80)
T ss_pred HHHHHHhchhhHHhHHHHHHhHHHHh
Confidence 66777777777777777777777643
No 387
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=20.13 E-value=2e+02 Score=19.71 Aligned_cols=24 Identities=21% Similarity=0.246 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHH
Q 040121 192 RVGQEVENHTRKAQLQEVELERTT 215 (368)
Q Consensus 192 ~L~qEV~~L~~k~~~q~~elq~~~ 215 (368)
-|.-|.+.|+.+.|++...|+.+.
T Consensus 5 kL~sekeqLrrr~eqLK~kLeqlr 28 (32)
T PF02344_consen 5 KLISEKEQLRRRREQLKHKLEQLR 28 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 355667888888888777776553
No 388
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=20.11 E-value=3.2e+02 Score=24.62 Aligned_cols=57 Identities=14% Similarity=0.201 Sum_probs=39.7
Q ss_pred HHHHHHHHhHH-HHHHHHHHHHHHHHHHHH-HHhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQ-EVELERTTKQLKEAIAIA-GEETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q-~~elq~~~kk~~Ea~~lA-~eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.+.|+++.+.+ .++.-+..+.+++|.+.- -.|-+=-+||||-...|.+.|.+|-.+|
T Consensus 12 ~~~L~~EL~~L~~~~r~e~~~~i~~Ar~~GDl~ENaeY~aAk~~~~~~e~rI~~L~~~L 70 (157)
T PRK01885 12 YARLKQELDYLWREERPEVTQKVSWAASLGDRSENADYIYGKKRLREIDRRVRFLTKRL 70 (157)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHcCCcchhhcHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555544 235666666677765443 1455667889999999999999998888
No 389
>PF03449 GreA_GreB_N: Transcription elongation factor, N-terminal; InterPro: IPR022691 Bacterial proteins greA and greB are necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. Arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked DNA/RNA/ polymerase ternary complexes. Cleavage of the nascent transcript by cleavage factors, such as greA or greB, allows the resumption of elongation from the new 3' terminus [, ]. Escherichia coli GreA and GreB are sequence homologues and have homologues in every known bacterial genome []. GreA induces cleavage two or three nucleotides behind the terminus and can only prevent the formation of arrested complexes while greB releases longer sequences up to eighteen nucleotides in length and can rescue preexisting arrested complexes. These functional differences correlate with a distinctive structural feature, the distribution of positively charged residues on one face of the N-terminal coiled coil. Remarkably, despite close functional similarity, the prokaryotic Gre factors have no sequence or structural similarity with eukaryotic TFIIS. ; GO: 0003677 DNA binding, 0032784 regulation of transcription elongation, DNA-dependent; PDB: 1GRJ_A 2EUL_C 3AOH_Y 3AOI_X 2F23_A 2ETN_C 2P4V_B.
Probab=20.11 E-value=3.7e+02 Score=21.29 Aligned_cols=57 Identities=28% Similarity=0.330 Sum_probs=38.0
Q ss_pred HHHHHHHHhHHH-HHHHHHHHHHHHHHHHHH-HhhhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 197 VENHTRKAQLQE-VELERTTKQLKEAIAIAG-EETAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 197 V~~L~~k~~~q~-~elq~~~kk~~Ea~~lA~-eEsaK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
.+.|+++.+.+. ++..+..+.+++|.+..- -|-+=-.||||-...|.+.+.+|-++|
T Consensus 11 ~~~L~~EL~~L~~~~rpe~~~~i~~Ar~~GDlsENaeY~aAke~q~~le~rI~~Le~~l 69 (74)
T PF03449_consen 11 YEKLQAELEHLKNVERPEIAEEIAEAREQGDLSENAEYHAAKERQAFLEARIRELEERL 69 (74)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHCCSSSTSSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCcccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 555665555533 366666666666533321 255778899999999999888887765
No 390
>PRK12705 hypothetical protein; Provisional
Probab=20.10 E-value=5e+02 Score=28.07 Aligned_cols=20 Identities=10% Similarity=0.174 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 040121 211 LERTTKQLKEAIAIAGEETA 230 (368)
Q Consensus 211 lq~~~kk~~Ea~~lA~eEsa 230 (368)
+++...+|++...|-.|||-
T Consensus 125 ~~~~~~~Le~ia~lt~~eak 144 (508)
T PRK12705 125 EKQLDNELYRVAGLTPEQAR 144 (508)
T ss_pred HHHHHHHHHHHhCCCHHHHH
Confidence 44455556666666556554
No 391
>PF09551 Spore_II_R: Stage II sporulation protein R (spore_II_R); InterPro: IPR014202 This entry is designated stage II sporulation protein R. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species. SpoIIR is a signalling protein that links the activation of sigma E to the transcriptional activity of sigma F during sporulation [, ].
Probab=20.09 E-value=2.5e+02 Score=25.01 Aligned_cols=25 Identities=24% Similarity=0.415 Sum_probs=20.3
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHhC
Q 040121 229 TAKCKAAKEVIKSLTAQLKDMAERL 253 (368)
Q Consensus 229 saK~kAAKEvIKSLTaQLKdMAeKL 253 (368)
+.--..|+++|+....+|+.+|+..
T Consensus 40 ~~~~~ea~~~i~~~~~~Ie~~A~~~ 64 (130)
T PF09551_consen 40 AKSKEEAREVIRENLPEIEQIAEEV 64 (130)
T ss_pred CCCHHHHHHHHHHhHHHHHHHHHHH
Confidence 3344668889999999999999887
Done!