Query 011206
Match_columns 491
No_of_seqs 226 out of 1305
Neff 6.6
Searched_HMMs 46136
Date Thu Mar 28 22:46:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011206.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011206hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03196 MOC1-like protein; Pr 100.0 3.5E-50 7.6E-55 430.4 22.0 297 165-469 111-445 (487)
2 PF02536 mTERF: mTERF; InterP 100.0 4.4E-44 9.4E-49 368.4 11.1 296 160-461 15-345 (345)
3 PLN03196 MOC1-like protein; Pr 100.0 3.8E-40 8.3E-45 353.1 21.7 256 177-439 90-350 (487)
4 PF02536 mTERF: mTERF; InterP 100.0 5.1E-34 1.1E-38 293.6 9.7 250 184-439 2-288 (345)
5 KOG1267 Mitochondrial transcri 99.9 1.4E-25 3.1E-30 237.2 14.3 290 143-441 59-410 (413)
6 KOG1267 Mitochondrial transcri 99.7 1.5E-16 3.3E-21 168.5 12.1 241 187-440 67-340 (413)
7 PF06524 NOA36: NOA36 protein; 96.5 0.0029 6.3E-08 62.1 4.3 7 44-50 232-238 (314)
8 smart00733 Mterf Mitochondrial 96.3 0.0025 5.4E-08 41.3 1.9 28 380-409 3-30 (31)
9 smart00733 Mterf Mitochondrial 96.3 0.0031 6.7E-08 40.9 2.3 28 234-262 3-30 (31)
10 PF10446 DUF2457: Protein of u 96.0 0.003 6.6E-08 66.4 1.9 8 397-404 401-408 (458)
11 KOG3130 Uncharacterized conser 94.5 0.028 6E-07 58.4 3.2 13 100-112 318-330 (514)
12 KOG1832 HIV-1 Vpr-binding prot 94.4 0.021 4.5E-07 64.5 2.0 10 24-33 1354-1363(1516)
13 KOG3130 Uncharacterized conser 92.3 0.092 2E-06 54.7 2.7 13 90-102 295-307 (514)
14 PF08595 RXT2_N: RXT2-like, N- 92.2 0.14 2.9E-06 47.2 3.4 40 26-67 24-63 (149)
15 PF04931 DNA_pol_phi: DNA poly 91.8 0.093 2E-06 60.6 2.3 7 157-163 729-735 (784)
16 PF11702 DUF3295: Protein of u 90.3 0.14 3E-06 55.3 1.7 17 74-91 307-323 (507)
17 PTZ00415 transmission-blocking 88.8 0.24 5.3E-06 59.6 2.3 16 411-426 684-699 (2849)
18 KOG1991 Nuclear transport rece 88.7 0.21 4.6E-06 57.4 1.7 6 80-85 936-941 (1010)
19 PF12253 CAF1A: Chromatin asse 88.3 0.95 2.1E-05 37.0 4.8 9 41-49 23-31 (77)
20 KOG1824 TATA-binding protein-i 87.8 0.26 5.7E-06 56.5 1.7 14 55-68 309-322 (1233)
21 PF11955 PORR: Plant organelle 86.7 3.4 7.4E-05 43.1 9.0 198 223-426 46-293 (335)
22 KOG3064 RNA-binding nuclear pr 85.3 0.43 9.4E-06 47.2 1.5 10 99-108 262-271 (303)
23 KOG3241 Uncharacterized conser 83.8 0.73 1.6E-05 43.2 2.2 19 72-91 200-218 (227)
24 PF02724 CDC45: CDC45-like pro 83.0 0.83 1.8E-05 51.5 2.7 11 186-196 240-250 (622)
25 PF04147 Nop14: Nop14-like fam 81.0 0.97 2.1E-05 52.7 2.4 11 177-187 426-436 (840)
26 KOG2023 Nuclear transport rece 80.1 0.9 2E-05 50.6 1.6 25 416-440 776-800 (885)
27 KOG1991 Nuclear transport rece 77.5 1.3 2.8E-05 51.3 2.0 7 86-92 935-941 (1010)
28 PF02724 CDC45: CDC45-like pro 77.3 1.7 3.7E-05 49.0 2.8 21 248-268 366-387 (622)
29 PF05285 SDA1: SDA1; InterPro 76.9 1.6 3.5E-05 45.2 2.3 10 191-200 190-199 (324)
30 PF14283 DUF4366: Domain of un 76.3 2.1 4.5E-05 42.0 2.7 9 42-50 181-189 (218)
31 PTZ00415 transmission-blocking 75.7 1.5 3.3E-05 53.3 1.9 10 43-52 130-139 (2849)
32 PHA02811 putative host range p 75.1 1.8 3.9E-05 40.9 1.9 10 53-62 155-164 (197)
33 PF11955 PORR: Plant organelle 74.4 8.4 0.00018 40.2 6.8 120 230-355 22-151 (335)
34 PF13324 GCIP: Grap2 and cycli 73.5 1.1 2.3E-05 45.3 -0.0 13 184-196 232-244 (275)
35 KOG2023 Nuclear transport rece 71.4 1.9 4.1E-05 48.2 1.2 12 248-259 577-588 (885)
36 KOG0772 Uncharacterized conser 71.3 3.5 7.6E-05 44.8 3.2 16 184-199 256-271 (641)
37 cd04790 HTH_Cfa-like_unk Helix 71.3 17 0.00036 34.2 7.4 23 216-238 49-71 (172)
38 PHA03346 US22 family homolog; 68.2 4.1 8.9E-05 44.8 3.0 6 77-82 435-440 (520)
39 KOG4364 Chromatin assembly fac 67.4 2.7 5.9E-05 46.8 1.4 6 35-40 484-489 (811)
40 KOG1999 RNA polymerase II tran 67.1 4.6 0.0001 46.9 3.2 33 259-293 268-300 (1024)
41 cd04790 HTH_Cfa-like_unk Helix 66.4 24 0.00052 33.1 7.4 24 180-203 48-71 (172)
42 COG4530 Uncharacterized protei 65.7 5.1 0.00011 34.8 2.5 13 51-63 81-93 (129)
43 PF05285 SDA1: SDA1; InterPro 64.8 3.3 7.1E-05 43.0 1.4 11 76-86 112-122 (324)
44 PF06957 COPI_C: Coatomer (COP 64.8 2.1 4.6E-05 45.8 0.0 23 74-97 70-92 (422)
45 KOG3540 Beta amyloid precursor 64.2 5.3 0.00012 43.0 2.8 43 206-248 338-381 (615)
46 PF00627 UBA: UBA/TS-N domain; 63.2 21 0.00045 24.5 4.8 23 362-384 4-26 (37)
47 KOG3064 RNA-binding nuclear pr 62.7 3.6 7.8E-05 40.9 1.1 17 96-112 262-278 (303)
48 PTZ00007 (NAP-L) nucleosome as 62.3 7.9 0.00017 40.4 3.6 7 46-52 269-275 (337)
49 PF14851 FAM176: FAM176 family 60.2 7.9 0.00017 35.8 2.8 12 143-154 139-150 (153)
50 PF06679 DUF1180: Protein of u 60.1 6.1 0.00013 37.0 2.1 11 92-102 153-163 (163)
51 PRK14134 recX recombination re 56.4 2.3E+02 0.005 28.7 13.1 147 154-310 39-205 (283)
52 PF04695 Pex14_N: Peroxisomal 56.0 17 0.00037 32.8 4.3 38 347-388 14-51 (136)
53 PF14490 HHH_4: Helix-hairpin- 55.3 35 0.00076 28.5 5.8 22 180-201 9-30 (94)
54 KOG1999 RNA polymerase II tran 53.8 8.8 0.00019 44.7 2.4 17 123-139 124-140 (1024)
55 KOG1819 FYVE finger-containing 51.8 11 0.00023 40.9 2.5 32 55-86 418-449 (990)
56 TIGR00601 rad23 UV excision re 51.8 94 0.002 33.1 9.6 44 211-263 153-196 (378)
57 TIGR01448 recD_rel helicase, p 51.6 65 0.0014 37.1 9.1 118 176-303 74-207 (720)
58 TIGR00844 c_cpa1 na(+)/h(+) an 49.3 12 0.00026 43.3 2.6 58 24-86 742-799 (810)
59 PF04695 Pex14_N: Peroxisomal 49.3 16 0.00034 33.0 2.9 24 252-275 25-48 (136)
60 KOG0468 U5 snRNP-specific prot 49.0 11 0.00023 42.7 2.0 30 57-86 15-47 (971)
61 PF15387 DUF4611: Domain of un 49.0 15 0.00032 31.0 2.4 15 93-107 82-96 (96)
62 KOG1473 Nucleosome remodeling 48.7 18 0.00039 43.0 3.8 12 180-191 196-207 (1414)
63 PTZ00108 DNA topoisomerase 2-l 48.5 16 0.00035 44.8 3.6 33 39-71 1339-1371(1388)
64 KOG4364 Chromatin assembly fac 48.3 17 0.00037 40.8 3.4 7 59-65 519-525 (811)
65 KOG2141 Protein involved in hi 48.3 12 0.00025 42.5 2.2 19 360-378 634-652 (822)
66 KOG0526 Nucleosome-binding fac 48.0 8.4 0.00018 42.1 1.1 13 189-201 557-569 (615)
67 PF04546 Sigma70_ner: Sigma-70 47.6 7.5 0.00016 37.6 0.6 21 181-201 114-134 (211)
68 KOG1824 TATA-binding protein-i 47.6 9.9 0.00021 44.4 1.6 9 59-67 309-317 (1233)
69 smart00165 UBA Ubiquitin assoc 47.5 27 0.00058 23.7 3.2 24 361-384 2-25 (37)
70 PHA03346 US22 family homolog; 47.3 19 0.00042 39.7 3.7 6 57-62 423-428 (520)
71 cd00194 UBA Ubiquitin Associat 45.6 60 0.0013 22.0 4.8 23 362-384 3-25 (38)
72 KOG2047 mRNA splicing factor [ 44.5 34 0.00073 38.7 5.0 57 166-226 125-184 (835)
73 PF06084 Cytomega_TRL10: Cytom 43.4 19 0.00041 31.6 2.3 20 45-64 121-140 (150)
74 PLN03237 DNA topoisomerase 2; 42.9 11 0.00024 46.2 1.2 21 45-65 1434-1454(1465)
75 KOG0772 Uncharacterized conser 42.6 17 0.00037 39.7 2.3 13 39-51 69-81 (641)
76 PF12253 CAF1A: Chromatin asse 42.5 17 0.00036 29.8 1.8 6 59-64 43-48 (77)
77 PF14490 HHH_4: Helix-hairpin- 42.2 75 0.0016 26.5 5.8 22 214-235 8-29 (94)
78 KOG2548 SWAP mRNA splicing reg 42.1 17 0.00037 39.6 2.3 15 180-194 319-333 (653)
79 KOG3871 Cell adhesion complex 41.7 12 0.00025 39.1 0.9 13 56-68 89-101 (449)
80 PF11273 DUF3073: Protein of u 40.4 17 0.00037 28.7 1.5 8 79-86 55-62 (65)
81 PF08671 SinI: Anti-repressor 39.5 23 0.0005 23.7 1.8 27 176-202 2-28 (30)
82 KOG0262 RNA polymerase I, larg 39.3 29 0.00063 41.7 3.7 6 158-163 1442-1447(1640)
83 PHA02854 putative host range p 38.0 20 0.00044 33.6 1.8 9 56-64 152-160 (178)
84 PF03960 ArsC: ArsC family; I 37.3 35 0.00076 29.2 3.1 23 370-392 69-91 (110)
85 PF09073 BUD22: BUD22; InterP 37.3 33 0.00071 37.0 3.6 8 189-196 332-339 (432)
86 PF11212 DUF2999: Protein of u 37.1 56 0.0012 26.4 3.9 47 252-307 3-49 (82)
87 COG1125 OpuBA ABC-type proline 36.8 47 0.001 33.7 4.2 65 323-391 73-139 (309)
88 PF08243 SPT2: SPT2 chromatin 36.7 23 0.0005 31.2 1.9 6 46-51 5-10 (116)
89 KOG0699 Serine/threonine prote 36.3 28 0.0006 36.6 2.6 7 288-294 454-460 (542)
90 PF11212 DUF2999: Protein of u 35.9 1.4E+02 0.0031 24.2 5.9 46 181-233 3-48 (82)
91 PF08069 Ribosomal_S13_N: Ribo 35.9 22 0.00047 27.7 1.4 35 203-237 22-56 (60)
92 PRK08561 rps15p 30S ribosomal 35.9 65 0.0014 29.8 4.7 37 203-239 22-58 (151)
93 KOG0400 40S ribosomal protein 35.2 28 0.0006 31.3 2.1 60 203-263 22-81 (151)
94 KOG2076 RNA polymerase III tra 35.0 16 0.00035 42.3 0.8 56 179-239 210-272 (895)
95 KOG2140 Uncharacterized conser 35.0 25 0.00055 38.7 2.2 33 357-389 620-654 (739)
96 PF05320 Pox_RNA_Pol_19: Poxvi 34.9 17 0.00038 33.4 0.9 6 273-278 135-140 (167)
97 KOG4813 Translation initiation 34.7 48 0.001 32.8 3.9 13 78-90 33-45 (248)
98 TIGR01448 recD_rel helicase, p 34.6 1.4E+02 0.003 34.5 8.3 121 211-343 74-210 (720)
99 KOG2140 Uncharacterized conser 34.0 25 0.00053 38.8 1.9 12 339-350 640-651 (739)
100 PF11081 DUF2890: Protein of u 34.0 32 0.00069 32.9 2.4 8 213-220 168-175 (187)
101 KOG1980 Uncharacterized conser 33.5 18 0.0004 40.4 0.9 14 452-465 728-741 (754)
102 PF03517 Voldacs: Regulator of 32.7 15 0.00032 33.1 0.0 10 13-22 25-34 (135)
103 KOG2897 DNA-binding protein YL 32.1 25 0.00054 37.0 1.5 9 88-96 87-95 (390)
104 KOG2229 Protein required for a 31.2 18 0.0004 39.5 0.4 11 36-46 146-156 (616)
105 PF07499 RuvA_C: RuvA, C-termi 31.1 63 0.0014 23.5 3.2 23 180-202 4-26 (47)
106 cd08315 Death_TRAILR_DR4_DR5 D 31.0 1.9E+02 0.0041 24.5 6.5 54 164-225 8-62 (96)
107 PF07499 RuvA_C: RuvA, C-termi 30.9 71 0.0015 23.2 3.4 25 214-238 3-27 (47)
108 smart00784 SPT2 SPT2 chromatin 30.7 35 0.00076 29.9 2.0 50 38-91 3-66 (111)
109 PHA01351 putative minor struct 30.6 6.9E+02 0.015 28.9 12.2 65 175-239 639-716 (1070)
110 PF11359 gpUL132: Glycoprotein 30.3 21 0.00045 34.7 0.6 37 2-45 62-98 (235)
111 PRK00117 recX recombination re 30.2 4E+02 0.0088 24.0 9.2 86 182-275 17-103 (157)
112 PF07767 Nop53: Nop53 (60S rib 30.1 35 0.00076 36.1 2.3 24 18-41 149-172 (387)
113 PRK14135 recX recombination re 29.1 5.7E+02 0.012 25.2 13.3 110 158-274 39-149 (263)
114 TIGR00993 3a0901s04IAP86 chlor 29.1 33 0.00073 39.2 2.0 7 19-25 299-305 (763)
115 PF15402 Spc7_N: N-terminus of 28.6 46 0.00099 39.3 3.0 8 57-64 275-282 (927)
116 PRK05901 RNA polymerase sigma 28.1 30 0.00066 38.1 1.5 18 330-347 380-397 (509)
117 PRK14135 recX recombination re 28.0 3.5E+02 0.0075 26.7 9.0 60 214-273 125-201 (263)
118 PRK00117 recX recombination re 27.6 3.1E+02 0.0067 24.8 7.9 109 180-310 29-152 (157)
119 PLN03078 Putative tRNA pseudou 27.5 66 0.0014 35.5 3.9 21 323-343 468-488 (513)
120 PF03960 ArsC: ArsC family; I 27.3 1.1E+02 0.0024 26.1 4.5 22 225-246 70-91 (110)
121 PF02022 Integrase_Zn: Integra 27.1 83 0.0018 22.4 3.0 29 360-388 8-37 (40)
122 PF12527 DUF3727: Protein of u 27.1 31 0.00068 29.6 1.1 11 55-65 17-27 (100)
123 cd08319 Death_RAIDD Death doma 27.0 1.7E+02 0.0038 24.1 5.5 35 186-223 20-54 (83)
124 KOG3555 Ca2+-binding proteogly 26.8 36 0.00078 35.5 1.6 23 64-86 409-431 (434)
125 PRK14136 recX recombination re 25.9 7.3E+02 0.016 25.7 10.8 51 182-236 168-219 (309)
126 COG1125 OpuBA ABC-type proline 25.8 1.1E+02 0.0023 31.2 4.6 87 286-391 73-160 (309)
127 PF00922 Phosphoprotein: Vesic 25.8 23 0.00049 35.7 0.0 14 55-68 44-57 (283)
128 KOG1819 FYVE finger-containing 25.4 38 0.00083 36.8 1.6 28 59-86 425-452 (990)
129 PRK14136 recX recombination re 25.3 7.8E+02 0.017 25.5 11.0 24 361-384 279-302 (309)
130 KOG1834 Calsyntenin [Extracell 24.6 43 0.00092 37.8 1.8 32 62-94 894-925 (952)
131 PF10731 Anophelin: Thrombin i 23.9 80 0.0017 24.6 2.6 33 52-85 27-59 (65)
132 PF02787 CPSase_L_D3: Carbamoy 23.9 1.1E+02 0.0024 27.1 4.0 31 176-207 10-40 (123)
133 PF08553 VID27: VID27 cytoplas 23.8 54 0.0012 38.2 2.5 9 418-426 716-724 (794)
134 KOG2572 Ribosome biogenesis pr 23.5 4.9E+02 0.011 28.0 9.1 127 259-408 148-278 (498)
135 KOG2141 Protein involved in hi 23.0 51 0.0011 37.6 2.0 12 180-191 428-439 (822)
136 COG5406 Nucleosome binding fac 22.8 70 0.0015 36.1 2.9 6 43-48 903-908 (1001)
137 COG4669 EscJ Type III secretor 22.8 2.5E+02 0.0054 28.0 6.4 99 210-320 29-130 (246)
138 PHA03128 dUTPase; Provisional 22.4 1E+02 0.0022 32.4 3.9 20 33-52 293-312 (376)
139 PHA03211 serine/threonine kina 22.4 1.2E+02 0.0026 32.9 4.7 19 249-267 268-286 (461)
140 cd08316 Death_FAS_TNFRSF6 Deat 22.3 2E+02 0.0043 24.5 5.1 42 181-225 22-64 (97)
141 PF02631 RecX: RecX family; I 22.0 2.1E+02 0.0045 24.8 5.4 59 176-236 8-67 (121)
142 KOG4264 Nucleo-cytoplasmic pro 21.8 85 0.0018 34.6 3.3 16 177-192 221-236 (694)
143 PF04546 Sigma70_ner: Sigma-70 21.3 45 0.00097 32.2 1.0 20 218-237 116-135 (211)
144 PF13720 Acetyltransf_11: Udp 21.0 1.4E+02 0.0031 24.4 3.9 39 184-223 21-59 (83)
145 PHA03242 envelope glycoprotein 21.0 69 0.0015 34.5 2.5 43 48-91 377-422 (428)
146 PTZ00072 40S ribosomal protein 20.9 1.7E+02 0.0036 27.0 4.5 36 203-238 19-54 (148)
147 PF03874 RNA_pol_Rpb4: RNA pol 20.6 1.4E+02 0.0031 25.6 4.0 28 177-204 57-84 (117)
148 PF05793 TFIIF_alpha: Transcri 20.0 35 0.00075 37.9 0.0 17 296-312 461-477 (527)
No 1
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=3.5e-50 Score=430.44 Aligned_cols=297 Identities=25% Similarity=0.522 Sum_probs=205.0
Q ss_pred hhhhhhhhccccCChHhHHHHHhcCCCCHHHHHHHHHhcCCccccCcc-CHHHHHHHHHHCCCChhhHHHHHhhCCcccc
Q 011206 165 RYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVC-SARERLEYLLSVGVKQRDVRRILLRQPQILE 243 (491)
Q Consensus 165 ~~p~l~~~~d~e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~-~l~~~l~fL~slGls~~~l~kli~~~P~iL~ 243 (491)
+||+++ .+++++++.|+++||.++|++.++|++++.++|.+|.++++ ++.++++||+++|++.++|.+++.++|++|+
T Consensus 111 ~~P~iL-~~~v~~~l~Pvl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGvs~~~i~~~l~r~P~LL~ 189 (487)
T PLN03196 111 EYPLVL-GCSVKKNMIPVLDYLEKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGLDVKRQDIPRVLERYPELLG 189 (487)
T ss_pred cCcHHh-hcCHhhhhHHHHHHHHHcCCCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCCCHHHHHHHHHhCchhhc
Confidence 356666 55555566666666666666666666666666666655554 4555556655555555555555555555555
Q ss_pred cccccchHHHHHHHHHcCCCchhhhhhhhhcccccccccccchhHHHHHHHHHhCCChhhHHHHHhhCccceecccc---
Q 011206 244 YTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRID--- 320 (491)
Q Consensus 244 ~s~e~~L~p~v~fL~~lGls~~~I~kll~~~P~lL~~s~e~~l~p~v~~L~~~lGvs~~~l~kll~~~P~lL~~~~e--- 320 (491)
+++++++.++++||.++|++.++|+++|.++|++|+++++++++|+++||+ ++|++.++|.+++.++|++|+++++
T Consensus 190 ~~~e~~l~p~v~fL~~lGvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL~-~lGv~~~~I~~il~~~P~iL~~sle~~l 268 (487)
T PLN03196 190 FKLEGTMSTSVAYLVSIGVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYLE-SLGLPRLAVARILEKRPYILGFDLEETV 268 (487)
T ss_pred CCHHHHHHHHHHHHHHcCCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHHH-HcCCCHHHHHHHHHhCCceeEcCHHHhH
Confidence 555555555555555555555555555555555555555555555555553 4555555555555555555555544
Q ss_pred ---------------------------------hhhhhhHHHHHhhcCCChhhHHHhhhccccccccccccchHHHHHHH
Q 011206 321 ---------------------------------ISWNTRCIFLSKELGAPRDDVVKMVTKHPQLLHYSIDDGLLPRINFL 367 (491)
Q Consensus 321 ---------------------------------~~l~~kl~~L~~~LG~s~~ev~~ml~~~P~lL~~sie~~L~~kvefL 367 (491)
..+.+++.||.+.+|++++++..+++++|++++.+ +++|.++++||
T Consensus 269 kp~v~~L~elGv~~~~i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~P~il~lS-e~kl~~kvefL 347 (487)
T PLN03196 269 KPNVECLLEFGVRKEALPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKLPQIVSLN-RNVALKHVEFL 347 (487)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhCCceeEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhcchhhccc-HHHHHHHHHHH
Confidence 44444555555556666666666666666666666 56789999999
Q ss_pred HHhcCChHHHHHHHHhccchhccCccccHHHHHHHHHHHhCCchHHHhhcCcccccCcccchHHHHHHHHHhhcCCCCCC
Q 011206 368 RSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEVQSLTKYPMYLSLSLDQRIRPRHRFLVSLKKAPKGPF 447 (491)
Q Consensus 368 ~~lG~s~eei~~ml~r~P~iL~~Sle~~L~pk~~fL~~~mg~~~~~I~k~P~lLs~SLekrI~PR~~fL~~L~~~~k~~~ 447 (491)
+++||+.++|+.||.++|+||++|+ ++|++|++||+++||++.++|++||++|+||||+||+|||++|+.-| + ..
T Consensus 348 ~~~Gls~edI~~mv~k~P~lL~~S~-~~l~~k~dFlvneMg~~~~~Iv~fP~~LsySLEkRI~PR~~~L~~kG-l---~~ 422 (487)
T PLN03196 348 RGRGFSAQDVAKMVVRCPQILALNL-EIMKPSLEFFKKEMKRPLKELVEFPAYFTYGLESRIKPRYERVAKKG-I---KC 422 (487)
T ss_pred HHcCCCHHHHHHHHHhCCceeeccH-HHHHHHHHHHHHHhCCCHHHHHhChHHhccChhhhhHHHHHHHHHcC-C---CC
Confidence 9999999999999999999999995 99999999999999999999999999999999999999999987422 2 35
Q ss_pred Ccccc-ccCHHHHHHHhcCCChH
Q 011206 448 PLSLF-IPTDECFCQKWAGTTVD 469 (491)
Q Consensus 448 ~L~~l-~~sdk~F~~~~~~~s~e 469 (491)
+|.++ .+||+.|+++|+.-++|
T Consensus 423 sL~~~L~~sd~~F~~r~v~~y~e 445 (487)
T PLN03196 423 SLAWFLNCSDDKFEQRMSGDFIE 445 (487)
T ss_pred CHHHHhccCHHHHHHHHhhhccc
Confidence 77775 69999999999665544
No 2
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=100.00 E-value=4.4e-44 Score=368.36 Aligned_cols=296 Identities=33% Similarity=0.605 Sum_probs=244.8
Q ss_pred hhhhhhhhhhhhhccccCChHhHHHHHhcCCCCHHHHHHHHHhcCCccccCc-cCHHHHHHHHHHCCCChhhHHHHHhhC
Q 011206 160 NATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINV-CSARERLEYLLSVGVKQRDVRRILLRQ 238 (491)
Q Consensus 160 ~~~~~~~p~l~~~~d~e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~-~~l~~~l~fL~slGls~~~l~kli~~~ 238 (491)
+..+.++|.++ -++.++++.|+++||.+.|++.++|++++.++|.++..+. .++.+.++||+++|++++++.+++.++
T Consensus 15 ~~~i~~~P~~l-~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~~s~~d~~~~l~r~ 93 (345)
T PF02536_consen 15 SKLIRRYPRLL-LCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIGLSDEDIVKVLKRY 93 (345)
T ss_dssp HHHHH-H-HHH-HT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTSS-HHHHHHHHHH-
T ss_pred HHHHHhCCceE-EecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHcCCHHHHHHHHHhc
Confidence 44567899999 8899999999999999999999999999999999999985 579999999999999999999999999
Q ss_pred CcccccccccchHHHHHHHHHcCCCchhhhhhhhhcccccccccccchhHHHHHHHHHhCCChhhHHHHHhhCccceecc
Q 011206 239 PQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQR 318 (491)
Q Consensus 239 P~iL~~s~e~~L~p~v~fL~~lGls~~~I~kll~~~P~lL~~s~e~~l~p~v~~L~~~lGvs~~~l~kll~~~P~lL~~~ 318 (491)
|++|..+.+.++.++++||+++|++.+.+.+++..+|.++... + .+.+.+++|. ++|++++.+.+++..+|.++...
T Consensus 94 p~~l~~~~~~~l~~~v~~L~~lGv~~~~~~~~l~~~~~~~~~~-~-~~~~~v~~l~-~lG~~~~~~~~vi~~~P~~l~~~ 170 (345)
T PF02536_consen 94 PRILSFSVEENLSPNVAFLRSLGVPPSQIISLLISRPPLFLSS-E-KIKERVEFLK-ELGFDPEKIGRVIAKNPRLLLSD 170 (345)
T ss_dssp SHHHHS---HHHHHHHHHHHHTT--HHHHHHHHHH-CHHHHS--H-HHHCHHHHHC-CCTSSHHHHCCCHHHHHHHHCGS
T ss_pred chhhccchHhhhhhhhhHHhhcCCcHHHHHHHHHhcCccccch-h-HHHHHHHHHH-HhCCCchhhcccccccchhhccc
Confidence 9999998877999999999999999998889998888776655 3 6999999995 89999999999999999888888
Q ss_pred cchhhhhhHHHHHhhcCCChhhHHHhhhcccccccccccc--------------------------------chHHHHHH
Q 011206 319 IDISWNTRCIFLSKELGAPRDDVVKMVTKHPQLLHYSIDD--------------------------------GLLPRINF 366 (491)
Q Consensus 319 ~e~~l~~kl~~L~~~LG~s~~ev~~ml~~~P~lL~~sie~--------------------------------~L~~kvef 366 (491)
.+..|+++++|| +++|++.+++.+++.++|.++..+.+. ++.++++|
T Consensus 171 ~~~~~~~~v~~L-~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~~~i~~~p~il~~~~~~l~~~i~~ 249 (345)
T PF02536_consen 171 SESELKPKVEFL-RSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEERVIKKFPQILSLSEEKLKPKIEF 249 (345)
T ss_dssp CCCCCHHHHHHH-HHCTT-GHHHHHHHHHTTTGGGCGCHC---------------------------THHHHHHHHHHHH
T ss_pred cHHHHHHHHHHH-HhhcccchhhhHHhhcccceecccccccccccccccccccccccccccccccccccchHhHHHHHHH
Confidence 877899999999 589999999999999999999988755 68999999
Q ss_pred HHHhcCChHHHHHHHHhccchhccCccccHHHHHHHHHHHhCCchHHHhhcCcccccCcccchHHHHHHHHHhhcCC-CC
Q 011206 367 LRSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEVQSLTKYPMYLSLSLDQRIRPRHRFLVSLKKAP-KG 445 (491)
Q Consensus 367 L~~lG~s~eei~~ml~r~P~iL~~Sle~~L~pk~~fL~~~mg~~~~~I~k~P~lLs~SLekrI~PR~~fL~~L~~~~-k~ 445 (491)
|.++||+.++|++|+.++|+||++|. ++|++|++||+++||++.++|+++|++|+||+|+||+|||+++++|+... +.
T Consensus 250 L~~lG~s~~ei~~mv~~~P~iL~~s~-e~l~~k~~fl~~~m~~~~~~i~~~P~~l~~sLe~ri~PR~~~~~~l~~~g~~~ 328 (345)
T PF02536_consen 250 LQSLGFSEEEIAKMVRRFPQILSYSI-EKLKPKFEFLVKEMGLPLEEIVEFPQYLSYSLEKRIKPRYEVLKVLKSKGLII 328 (345)
T ss_dssp HHTTT--HHHHHHHHHHSGGGGGS-H-HHHHHHHHHHHHCCT--HHHHHHSCHHHCS-HHHHHHHHHHHHHTT--TTTGG
T ss_pred HHHhcCcHHHHHHHHHhCcchhhcch-hhhhHHHHHHHHHhCcCHHHHhhCCceeEechhhhhhhHHHHHHHHHHCcCCC
Confidence 99999999999999999999999995 56999999999999999999999999999999999999999999997533 23
Q ss_pred CCCcccc-ccCHHHHHH
Q 011206 446 PFPLSLF-IPTDECFCQ 461 (491)
Q Consensus 446 ~~~L~~l-~~sdk~F~~ 461 (491)
..++.++ .+||++|++
T Consensus 329 ~~sl~~~l~~s~~~F~~ 345 (345)
T PF02536_consen 329 NPSLSSMLSCSDEEFLK 345 (345)
T ss_dssp GGGS-HHHHHHHHHHT-
T ss_pred CCCHHHHhhccHHHhcC
Confidence 4567664 699999974
No 3
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=3.8e-40 Score=353.09 Aligned_cols=256 Identities=23% Similarity=0.440 Sum_probs=224.3
Q ss_pred CChHhHHHHHhcCCCCHHHHHHHHHhcCCccccCcc-CHHHHHHHHHHCCCChhhHHHHHhhCCcccccccccchHHHHH
Q 011206 177 EKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVC-SARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVA 255 (491)
Q Consensus 177 ~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~-~l~~~l~fL~slGls~~~l~kli~~~P~iL~~s~e~~L~p~v~ 255 (491)
+.+.++++||+++||+.++|. ++|.+|.++++ ++.|+++||.++|++..+|.++|.++|+||..+++++|.|+++
T Consensus 90 ~~~~~~l~~L~s~G~~~~~i~----~~P~iL~~~v~~~l~Pvl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~ 165 (487)
T PLN03196 90 DVMRERVEFLHKLGLTIEDIN----EYPLVLGCSVKKNMIPVLDYLEKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVK 165 (487)
T ss_pred HHHHHHHHHHHHcCCChHHhc----cCcHHhhcCHhhhhHHHHHHHHHcCCCHHHHHHHHHhCCceecccHHHHHHHHHH
Confidence 367789999999999999997 68999999986 7999999999999999999999999999999999999999999
Q ss_pred HHHHcCCCchhhhhhhhhcccccccccccchhHHHHHHHHHhCCChhhHHHHHhhCccceecccchhhhhhHHHHHhhcC
Q 011206 256 FLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELG 335 (491)
Q Consensus 256 fL~~lGls~~~I~kll~~~P~lL~~s~e~~l~p~v~~L~~~lGvs~~~l~kll~~~P~lL~~~~e~~l~~kl~~L~~~LG 335 (491)
||+++|++.++|++++.++|++|++++++++.++++||. .+|++.+++++++.++|++|+++++.+++++++|| .++|
T Consensus 166 fL~~lGvs~~~i~~~l~r~P~LL~~~~e~~l~p~v~fL~-~lGvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL-~~lG 243 (487)
T PLN03196 166 YLQGLDVKRQDIPRVLERYPELLGFKLEGTMSTSVAYLV-SIGVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYL-ESLG 243 (487)
T ss_pred HHHHcCCCHHHHHHHHHhCchhhcCCHHHHHHHHHHHHH-HcCCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHH-HHcC
Confidence 999999999999999999999999999999999999996 79999999999999999999999999999999999 5899
Q ss_pred CChhhHHHhhhccccccccccccchHHHHHHHHHhcCChHHHHHHHHhccchhccCccccHHHHHHHHHHHhCCchHH--
Q 011206 336 APRDDVVKMVTKHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEVQS-- 413 (491)
Q Consensus 336 ~s~~ev~~ml~~~P~lL~~sie~~L~~kvefL~~lG~s~eei~~ml~r~P~iL~~Sle~~L~pk~~fL~~~mg~~~~~-- 413 (491)
++.+++.+++.++|++|+++++++++++++||.++|++.+.+..++.++|.+|++++++++.+++.||.+.||++.+.
T Consensus 244 v~~~~I~~il~~~P~iL~~sle~~lkp~v~~L~elGv~~~~i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~e~i~ 323 (487)
T PLN03196 244 LPRLAVARILEKRPYILGFDLEETVKPNVECLLEFGVRKEALPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKIDPEDFG 323 (487)
T ss_pred CCHHHHHHHHHhCCceeEcCHHHhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEecHHHhhhHHHHHHHHhhCCCHHHHH
Confidence 999999999999999999998889999999999999998888888888888888777666766666666666665432
Q ss_pred --HhhcCcccccCcccchHHHHHHHHHh
Q 011206 414 --LTKYPMYLSLSLDQRIRPRHRFLVSL 439 (491)
Q Consensus 414 --I~k~P~lLs~SLekrI~PR~~fL~~L 439 (491)
+.++|.++++|.+ ++.+|.+|++.+
T Consensus 324 ~~v~k~P~il~lSe~-kl~~kvefL~~~ 350 (487)
T PLN03196 324 RVIEKLPQIVSLNRN-VALKHVEFLRGR 350 (487)
T ss_pred HHHHhcchhhcccHH-HHHHHHHHHHHc
Confidence 3445555555543 455555555544
No 4
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=100.00 E-value=5.1e-34 Score=293.61 Aligned_cols=250 Identities=31% Similarity=0.560 Sum_probs=209.9
Q ss_pred HHHhcCCCCHHHHHHHHHhcCCccccCcc-CHHHHHHHHHHCCCChhhHHHHHhhCCcccccccccchHHHHHHHHHcCC
Q 011206 184 DYLSTFGLKESHFIQMYERHMPSLQINVC-SARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGI 262 (491)
Q Consensus 184 ~fL~slG~s~~~I~~il~r~P~lL~~~~~-~l~~~l~fL~slGls~~~l~kli~~~P~iL~~s~e~~L~p~v~fL~~lGl 262 (491)
++|+++||++++|.++++++|.++.++++ ++.++++||.++|++..++.+++.++|.+|..++++++.|+++||+++|+
T Consensus 2 ~~~~~~gf~~~~i~~~i~~~P~~l~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~~ 81 (345)
T PF02536_consen 2 DLLKNHGFSDSQISKLIRRYPRLLLCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIGL 81 (345)
T ss_dssp HHHHHHHHHTS-HHHHHH-H-HHHHT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTSS
T ss_pred hHHHHcCCCHHHHHHHHHhCCceEEecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHcC
Confidence 68999999999999999999999999987 69999999999999999999999999999999998999999999999999
Q ss_pred CchhhhhhhhhcccccccccccchhHHHHHHHHHhCCChhhHHHHHhhCccceecccchhhhhhHHHHHhhcCCChhhHH
Q 011206 263 PNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVV 342 (491)
Q Consensus 263 s~~~I~kll~~~P~lL~~s~e~~l~p~v~~L~~~lGvs~~~l~kll~~~P~lL~~~~e~~l~~kl~~L~~~LG~s~~ev~ 342 (491)
+++++++++.++|++|..+.+.++.+++.||+ ++|++++.+..++..+|.++... ..+.+.++++ .++|++++++.
T Consensus 82 s~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~-~lGv~~~~~~~~l~~~~~~~~~~--~~~~~~v~~l-~~lG~~~~~~~ 157 (345)
T PF02536_consen 82 SDEDIVKVLKRYPRILSFSVEENLSPNVAFLR-SLGVPPSQIISLLISRPPLFLSS--EKIKERVEFL-KELGFDPEKIG 157 (345)
T ss_dssp -HHHHHHHHHH-SHHHHS---HHHHHHHHHHH-HTT--HHHHHHHHHH-CHHHHS---HHHHCHHHHH-CCCTSSHHHHC
T ss_pred CHHHHHHHHHhcchhhccchHhhhhhhhhHHh-hcCCcHHHHHHHHHhcCccccch--hHHHHHHHHH-HHhCCCchhhc
Confidence 99999999999999999887778999999996 89999998888888888876666 4689999999 59999999999
Q ss_pred HhhhccccccccccccchHHHHHHHHHhcCChHHHHHHHHhccchhccCccc----------------------------
Q 011206 343 KMVTKHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLED---------------------------- 394 (491)
Q Consensus 343 ~ml~~~P~lL~~sie~~L~~kvefL~~lG~s~eei~~ml~r~P~iL~~Sle~---------------------------- 394 (491)
+++.++|.++....++.|+++++||+++||+.+++.+++.++|.+|..|+++
T Consensus 158 ~vi~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~~~i~~~p~il~ 237 (345)
T PF02536_consen 158 RVIAKNPRLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEERVIKKFPQILS 237 (345)
T ss_dssp CCHHHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC---------------------------T
T ss_pred ccccccchhhccccHHHHHHHHHHHHhhcccchhhhHHhhcccceecccccccccccccccccccccccccccccccccc
Confidence 9999999888888789999999999999999999999999999999999765
Q ss_pred ----cHHHHHHHHHHHhCCch----HHHhhcCcccccCcccchHHHHHHHHHh
Q 011206 395 ----NLKPKYTYLINELHNEV----QSLTKYPMYLSLSLDQRIRPRHRFLVSL 439 (491)
Q Consensus 395 ----~L~pk~~fL~~~mg~~~----~~I~k~P~lLs~SLekrI~PR~~fL~~L 439 (491)
++.++++||.+ +|++. ..+.++|.+|+||.++ ++|+++|+..-
T Consensus 238 ~~~~~l~~~i~~L~~-lG~s~~ei~~mv~~~P~iL~~s~e~-l~~k~~fl~~~ 288 (345)
T PF02536_consen 238 LSEEKLKPKIEFLQS-LGFSEEEIAKMVRRFPQILSYSIEK-LKPKFEFLVKE 288 (345)
T ss_dssp HHHHHHHHHHHHHHT-TT--HHHHHHHHHHSGGGGGS-HHH-HHHHHHHHHHC
T ss_pred cchHhHHHHHHHHHH-hcCcHHHHHHHHHhCcchhhcchhh-hhHHHHHHHHH
Confidence 58888998887 89885 4568899999999985 99999999853
No 5
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.93 E-value=1.4e-25 Score=237.21 Aligned_cols=290 Identities=27% Similarity=0.436 Sum_probs=240.9
Q ss_pred CCCcccccCcccccccchhhhhhhhhhhhhccccCChHhHHHHHhcCCCCHHHHHHHHHhcCCccccCcc-CHHHHHHHH
Q 011206 143 TYYNSKDVDQRGKVMTRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVC-SARERLEYL 221 (491)
Q Consensus 143 ~~~~~~~~~~~g~l~~~~~~~~~~p~l~~~~d~e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~-~l~~~l~fL 221 (491)
++-.||+++++|...+.+....+... ..-..++.+++++|+++|++..+|..++..+|.++..+.+ .+.+++.+|
T Consensus 59 ~f~~s~~~~s~~~~~~~~~~~~~~~~----~~~~~~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~l 134 (413)
T KOG1267|consen 59 NFESSYLVDSLGLSIKLARKLSREVS----SEDSVNPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRLL 134 (413)
T ss_pred CcceeeeccccccchhhHHHHHHHHH----hhhccCcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhhh
Confidence 45578999999842223333333222 2236799999999999999999999999999999988876 588888899
Q ss_pred HHCCCChhhHHHHHhhCCcccccccccchHHHHHHHHHcC--CCchhhhhhhhhcccccccccccchhHHHHHHHHHhCC
Q 011206 222 LSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLG--IPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGI 299 (491)
Q Consensus 222 ~slGls~~~l~kli~~~P~iL~~s~e~~L~p~v~fL~~lG--ls~~~I~kll~~~P~lL~~s~e~~l~p~v~~L~~~lGv 299 (491)
.+.|++...+.+++...|.+|......++.+.++||++++ .....+.+++...|...... ..+. ++++++ .+|+
T Consensus 135 ~~~g~~~s~l~~i~s~~~~il~~~~~~~~~~~~~~l~~~~~~~~~s~~~~~~~~~~~~~~~~--~~v~-~~~~~~-~lg~ 210 (413)
T KOG1267|consen 135 DSLGLPSSELSSIVSVVPKILLKSKGESLSTFIEFLKSIPPELLSSVVERLLTPVPSFLLNE--NSVE-RLDIRR-ELGV 210 (413)
T ss_pred hccCccccccchhhhccHHHHHhhcCCchhhHHHHhhccchhhhhhHHHHhccccccccccc--cccc-cchhhH-HhCC
Confidence 9999999999999999999999888889999999999985 77777887777766333221 1244 777775 7888
Q ss_pred ChhhHHHHHhhCccce--------------------------------ecccchhhhhhHHHHHhhcCCChhhHHHhhhc
Q 011206 300 NEKSLGKVVQLSPQVL--------------------------------VQRIDISWNTRCIFLSKELGAPRDDVVKMVTK 347 (491)
Q Consensus 300 s~~~l~kll~~~P~lL--------------------------------~~~~e~~l~~kl~~L~~~LG~s~~ev~~ml~~ 347 (491)
.+..+..++..+|..+ .+..+.++++++.+| +.+||+.++++.|+.+
T Consensus 211 ~~~~L~~~l~~~~~~~~~~~~l~~~~~~i~~~g~~p~~~~~v~~~~~~~~~~~~~i~~kv~~l-~~~Gf~~~di~~~~~k 289 (413)
T KOG1267|consen 211 KPRLLKSLLESQPRPVLLYLKLKARLPFLLTLGFDPKTREFVKAPILLSYSSEKTLEPKVEVL-KSLGFSREEIWKMVKK 289 (413)
T ss_pred CHHHHHHHHhcCccceeeehhhhhhhhhHHHhccCCchhHHHhhhhhhcccccccHHHHHHHH-HHcCCCHHHHHHHHHh
Confidence 8887776555554444 334566899999999 5889999999999999
Q ss_pred ccccccccccc---------------------------chHHHHHHHHHhcCChHHHHHHHHhccchhccCccccHHHHH
Q 011206 348 HPQLLHYSIDD---------------------------GLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKY 400 (491)
Q Consensus 348 ~P~lL~~sie~---------------------------~L~~kvefL~~lG~s~eei~~ml~r~P~iL~~Sle~~L~pk~ 400 (491)
+|++|+++.+. .+.++++|+...|++..++..|++++|+++.+|+++.++++.
T Consensus 290 ~P~~l~~s~~~~~~~~~~~~~~~~~~~k~p~~l~~s~~~l~~~ie~l~~~g~~~~q~~~~~~~~Pq~l~~s~~~~~~~~~ 369 (413)
T KOG1267|consen 290 CPQILGYSVKKNLKTTEYLLKNPKHILKFPQLLRSSEDKLKPRIEFLLSLGFSDVQILEMVKRFPQYLSFSLEKILKRKY 369 (413)
T ss_pred CchheEeehhhhhHHHHHHHhcchhhhhhhhhhhccchhhhhhHHHHHHcCCcHHHHHHHHhhccHHhhhhHHhhhhhhH
Confidence 99999999653 388999999999999999999999999999999866999999
Q ss_pred HHHHHHhCCchHHHhhcCcccccCcccchHHHHHHHHHhhc
Q 011206 401 TYLINELHNEVQSLTKYPMYLSLSLDQRIRPRHRFLVSLKK 441 (491)
Q Consensus 401 ~fL~~~mg~~~~~I~k~P~lLs~SLekrI~PR~~fL~~L~~ 441 (491)
+|+...|+++.+.++.+|.++.|++++|+.||+.+..+++.
T Consensus 370 ~~~~~~~~~p~~~~~~~p~~~~y~le~ri~pr~~~~~~~~~ 410 (413)
T KOG1267|consen 370 EYLLKGLLRPLSALVSFPAFFGYSLEKRIRPRFNVIKKLGV 410 (413)
T ss_pred HHHHHHcCchHHHHhccchhhccchhhcchhHHHHHHHHhc
Confidence 99999999999999999999999999999999999998763
No 6
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.68 E-value=1.5e-16 Score=168.45 Aligned_cols=241 Identities=25% Similarity=0.438 Sum_probs=184.3
Q ss_pred hcCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCCChhhHHHHHhhCCcccccccccchHHHHHHHHHcCCCchh
Q 011206 187 STFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSK 266 (491)
Q Consensus 187 ~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGls~~~l~kli~~~P~iL~~s~e~~L~p~v~fL~~lGls~~~ 266 (491)
.++|.+...+..+... +...+..+..+.+++|.++|++..++.+++..+|.++..+.++.+.+++.+|...|++...
T Consensus 67 ~s~~~~~~~~~~~~~~---~~~~~~~~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~l~~~g~~~s~ 143 (413)
T KOG1267|consen 67 DSLGLSIKLARKLSRE---VSSEDSVNPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRLLDSLGLPSSE 143 (413)
T ss_pred cccccchhhHHHHHHH---HHhhhccCcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhhhhccCccccc
Confidence 4455555555554432 2234456788999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhcccccccccccchhHHHHHHHHHhC--CChhhHHHHHhhCccceec--ccch---------------------
Q 011206 267 IGQIIAATPSLFSYSVENSLKPTVRYLVEEVG--INEKSLGKVVQLSPQVLVQ--RIDI--------------------- 321 (491)
Q Consensus 267 I~kll~~~P~lL~~s~e~~l~p~v~~L~~~lG--vs~~~l~kll~~~P~lL~~--~~e~--------------------- 321 (491)
+..++...|.+|+.+...++.+.++||. .++ .....+.++....|..... .+..
T Consensus 144 l~~i~s~~~~il~~~~~~~~~~~~~~l~-~~~~~~~~s~~~~~~~~~~~~~~~~~~v~~~~~~~~lg~~~~~L~~~l~~~ 222 (413)
T KOG1267|consen 144 LSSIVSVVPKILLKSKGESLSTFIEFLK-SIPPELLSSVVERLLTPVPSFLLNENSVERLDIRRELGVKPRLLKSLLESQ 222 (413)
T ss_pred cchhhhccHHHHHhhcCCchhhHHHHhh-ccchhhhhhHHHHhccccccccccccccccchhhHHhCCCHHHHHHHHhcC
Confidence 9999999999999877778999999996 553 6666677777666633222 1110
Q ss_pred --------hhhhhHHHHHhhcCCChhhHHHhhhccccccccccccchHHHHHHHHHhcCChHHHHHHHHhccchhccCcc
Q 011206 322 --------SWNTRCIFLSKELGAPRDDVVKMVTKHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLE 393 (491)
Q Consensus 322 --------~l~~kl~~L~~~LG~s~~ev~~ml~~~P~lL~~sie~~L~~kvefL~~lG~s~eei~~ml~r~P~iL~~Sle 393 (491)
.+...+.++ ..+||.+.. +++.+.|.++.++.++++++++++|.+.||+.+||.+|++++|++|++| +
T Consensus 223 ~~~~~~~~~l~~~~~~i-~~~g~~p~~--~~~v~~~~~~~~~~~~~i~~kv~~l~~~Gf~~~di~~~~~k~P~~l~~s-~ 298 (413)
T KOG1267|consen 223 PRPVLLYLKLKARLPFL-LTLGFDPKT--REFVKAPILLSYSSEKTLEPKVEVLKSLGFSREEIWKMVKKCPQILGYS-V 298 (413)
T ss_pred ccceeeehhhhhhhhhH-HHhccCCch--hHHHhhhhhhcccccccHHHHHHHHHHcCCCHHHHHHHHHhCchheEee-h
Confidence 111222333 244444443 4455566666667899999999999999999999999999999999999 5
Q ss_pred ccHHHHHHHHHHHhCCchHHHhhcCcccccCcccchHHHHHHHHHhh
Q 011206 394 DNLKPKYTYLINELHNEVQSLTKYPMYLSLSLDQRIRPRHRFLVSLK 440 (491)
Q Consensus 394 ~~L~pk~~fL~~~mg~~~~~I~k~P~lLs~SLekrI~PR~~fL~~L~ 440 (491)
+++..+++|+.+. ...+.++|+++++|. ..+.+|++++..+|
T Consensus 299 ~~~~~~~~~~~~~----~~~~~k~p~~l~~s~-~~l~~~ie~l~~~g 340 (413)
T KOG1267|consen 299 KKNLKTTEYLLKN----PKHILKFPQLLRSSE-DKLKPRIEFLLSLG 340 (413)
T ss_pred hhhhHHHHHHHhc----chhhhhhhhhhhccc-hhhhhhHHHHHHcC
Confidence 7888888888876 233888898887775 47888988888776
No 7
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=96.49 E-value=0.0029 Score=62.11 Aligned_cols=7 Identities=29% Similarity=0.306 Sum_probs=2.8
Q ss_pred ccCCccc
Q 011206 44 LKTNRKS 50 (491)
Q Consensus 44 ~~~~~~~ 50 (491)
.|=.|+.
T Consensus 232 hkyGRQ~ 238 (314)
T PF06524_consen 232 HKYGRQG 238 (314)
T ss_pred chhcccc
Confidence 3334443
No 8
>smart00733 Mterf Mitochondrial termination factor repeats. Human mitochondrial termination factor is a DNA-binding protein that acts as a transcription termination factor. Six repeats occur in human mTERF, that also are present in numerous plant proteins.
Probab=96.31 E-value=0.0025 Score=41.33 Aligned_cols=28 Identities=43% Similarity=0.669 Sum_probs=18.0
Q ss_pred HHHhccchhccCccccHHHHHHHHHHHhCC
Q 011206 380 VLRSLTQVLSLSLEDNLKPKYTYLINELHN 409 (491)
Q Consensus 380 ml~r~P~iL~~Sle~~L~pk~~fL~~~mg~ 409 (491)
++.++|.+|+++ +++|+++++||. .+|+
T Consensus 3 ~~~~~P~il~~~-~~~l~~~~~~l~-~~g~ 30 (31)
T smart00733 3 ILKKFPQILGYS-EKKLKPKVEFLK-ELGF 30 (31)
T ss_pred hhhhCcCccccc-HHHhhHHHHHHH-HcCC
Confidence 456666666666 566666666666 5554
No 9
>smart00733 Mterf Mitochondrial termination factor repeats. Human mitochondrial termination factor is a DNA-binding protein that acts as a transcription termination factor. Six repeats occur in human mTERF, that also are present in numerous plant proteins.
Probab=96.29 E-value=0.0031 Score=40.87 Aligned_cols=28 Identities=50% Similarity=0.813 Sum_probs=17.5
Q ss_pred HHhhCCcccccccccchHHHHHHHHHcCC
Q 011206 234 ILLRQPQILEYTVENNLESHVAFLISLGI 262 (491)
Q Consensus 234 li~~~P~iL~~s~e~~L~p~v~fL~~lGl 262 (491)
++.++|.+|..+ ++++.++++||+++|+
T Consensus 3 ~~~~~P~il~~~-~~~l~~~~~~l~~~g~ 30 (31)
T smart00733 3 ILKKFPQILGYS-EKKLKPKVEFLKELGF 30 (31)
T ss_pred hhhhCcCccccc-HHHhhHHHHHHHHcCC
Confidence 455666666666 4566666666666665
No 10
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=96.02 E-value=0.003 Score=66.39 Aligned_cols=8 Identities=13% Similarity=0.185 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 011206 397 KPKYTYLI 404 (491)
Q Consensus 397 ~pk~~fL~ 404 (491)
+.|=.|+.
T Consensus 401 rRKEKf~r 408 (458)
T PF10446_consen 401 RRKEKFWR 408 (458)
T ss_pred hhhHHHHH
Confidence 33333333
No 11
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.55 E-value=0.028 Score=58.42 Aligned_cols=13 Identities=15% Similarity=0.038 Sum_probs=7.2
Q ss_pred CCCCCCCCCCCCC
Q 011206 100 SSRRSPVKGCGVG 112 (491)
Q Consensus 100 ~~~~~~~~~~~~~ 112 (491)
|++.+=++|++|.
T Consensus 318 p~~~~I~T~~~tt 330 (514)
T KOG3130|consen 318 PKRVRINTGKNTT 330 (514)
T ss_pred cccceeeccchhH
Confidence 5555555665554
No 12
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=94.35 E-value=0.021 Score=64.52 Aligned_cols=10 Identities=20% Similarity=0.202 Sum_probs=4.8
Q ss_pred cccCCCCceE
Q 011206 24 QTRPNTPRFV 33 (491)
Q Consensus 24 ~~~~~~~~~~ 33 (491)
-|.|-.|+..
T Consensus 1354 aTi~v~R~~~ 1363 (1516)
T KOG1832|consen 1354 ATIPVDRCLL 1363 (1516)
T ss_pred eeeecccchh
Confidence 3455555443
No 13
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.30 E-value=0.092 Score=54.67 Aligned_cols=13 Identities=23% Similarity=0.220 Sum_probs=5.5
Q ss_pred cccccccccCCCC
Q 011206 90 AEIEEYDVNGSSR 102 (491)
Q Consensus 90 ~~~~~~~~~~~~~ 102 (491)
.+-+++-+.++.-
T Consensus 295 ~d~e~~~v~dN~~ 307 (514)
T KOG3130|consen 295 NDHEALGVGDNSI 307 (514)
T ss_pred cchhhhccCCCcC
Confidence 3344444444433
No 14
>PF08595 RXT2_N: RXT2-like, N-terminal; InterPro: IPR013904 The entry represents the N-terminal region of RXT2-like proteins. In Saccharomyces cerevisiae (Baker's yeast), RXT2 has been demonstrated to be involved in conjugation with cellular fusion (mating) and invasive growth []. A high throughput localisation study has localised RXT2 to the nucleus [].
Probab=92.25 E-value=0.14 Score=47.16 Aligned_cols=40 Identities=23% Similarity=0.188 Sum_probs=23.6
Q ss_pred cCCCCceEEEeeccccccccCCccccCCCCCCCCCCCCcccC
Q 011206 26 RPNTPRFVVLSTHSNAKILKTNRKSRYGQTLSLYDDDSEEEG 67 (491)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 (491)
.|.-..-||.+.-+.-.||. |++-.....|.||.++++.|
T Consensus 24 ~~~~~~~~vey~G~~r~vL~--r~~~~~~n~~~~d~~~~~~d 63 (149)
T PF08595_consen 24 GPSLYEKVVEYNGSERSVLQ--RKRIRFRNPPRIDEEGDEID 63 (149)
T ss_pred CccccceeeEECCeeeeEee--cchhhcccccccCccccccc
Confidence 45555567887777777887 33333345666766655443
No 15
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=91.84 E-value=0.093 Score=60.62 Aligned_cols=7 Identities=14% Similarity=0.102 Sum_probs=3.0
Q ss_pred ccchhhh
Q 011206 157 MTRNATE 163 (491)
Q Consensus 157 ~~~~~~~ 163 (491)
|...+..
T Consensus 729 mdDe~m~ 735 (784)
T PF04931_consen 729 MDDEQMM 735 (784)
T ss_pred cCHHHHH
Confidence 4444444
No 16
>PF11702 DUF3295: Protein of unknown function (DUF3295); InterPro: IPR021711 This family is conserved in fungi but the function is not known.
Probab=90.35 E-value=0.14 Score=55.32 Aligned_cols=17 Identities=24% Similarity=0.509 Sum_probs=12.2
Q ss_pred CCCCCCCCcccCCccccc
Q 011206 74 DDEGKEDDWLADDDDFAE 91 (491)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~ 91 (491)
||||||+|||+.. +++|
T Consensus 307 dDDDDssDWEDSv-eESG 323 (507)
T PF11702_consen 307 DDDDDSSDWEDSV-EESG 323 (507)
T ss_pred cCCccchhhhhcc-cccc
Confidence 5677789996666 6665
No 17
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=88.81 E-value=0.24 Score=59.61 Aligned_cols=16 Identities=19% Similarity=0.604 Sum_probs=13.0
Q ss_pred hHHHhhcCcccccCcc
Q 011206 411 VQSLTKYPMYLSLSLD 426 (491)
Q Consensus 411 ~~~I~k~P~lLs~SLe 426 (491)
...+-.||.+|.+.+.
T Consensus 684 ~ky~~~yp~~~ifp~n 699 (2849)
T PTZ00415 684 AKYLNGYPSFFIFPFN 699 (2849)
T ss_pred hhhccCCCceEEeehh
Confidence 4678888999998885
No 18
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=88.72 E-value=0.21 Score=57.45 Aligned_cols=6 Identities=50% Similarity=0.761 Sum_probs=2.2
Q ss_pred CCcccC
Q 011206 80 DDWLAD 85 (491)
Q Consensus 80 ~~~~~~ 85 (491)
|||++|
T Consensus 936 dd~d~~ 941 (1010)
T KOG1991|consen 936 DDFDED 941 (1010)
T ss_pred ccccch
Confidence 333333
No 19
>PF12253 CAF1A: Chromatin assembly factor 1 subunit A; InterPro: IPR022043 The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A []. The A domain is uniquely required for the progression of S phase in mouse cells [], independent of its ability to promote histone deposition [] but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints [].
Probab=88.27 E-value=0.95 Score=37.00 Aligned_cols=9 Identities=22% Similarity=0.383 Sum_probs=3.9
Q ss_pred cccccCCcc
Q 011206 41 AKILKTNRK 49 (491)
Q Consensus 41 ~~~~~~~~~ 49 (491)
.+++.|.+-
T Consensus 23 s~~v~~r~P 31 (77)
T PF12253_consen 23 SKIVTPRNP 31 (77)
T ss_pred ccccccCCc
Confidence 444444443
No 20
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=87.82 E-value=0.26 Score=56.52 Aligned_cols=14 Identities=29% Similarity=0.399 Sum_probs=7.7
Q ss_pred CCCCCCCCCcccCC
Q 011206 55 TLSLYDDDSEEEGE 68 (491)
Q Consensus 55 ~~~~~~~~~~~~~~ 68 (491)
-+|-|-.|+|||||
T Consensus 309 YDPNy~yd~~eDed 322 (1233)
T KOG1824|consen 309 YDPNYNYDTEEDED 322 (1233)
T ss_pred cCCCCCCCCccchh
Confidence 45666666654444
No 21
>PF11955 PORR: Plant organelle RNA recognition domain; InterPro: IPR021099 The plant organelle RNA recognition (PORR) domain, previously known as DUF860, is a component of group II intron ribonucleoprotein particles in maize chloroplasts. It is required for the splicing of the introns with which it associates, and promotes splicing in the context of a heterodimer with the RNase III-domain protein RNC1. Proteins containing this domain are predicted to localise to mitochondria or chloroplasts []. It seems likely that most PORR proteins function in organellar RNA metabolism [].
Probab=86.68 E-value=3.4 Score=43.07 Aligned_cols=198 Identities=17% Similarity=0.190 Sum_probs=96.2
Q ss_pred HCCCChhhHHHHHhhCCcccccccc-------cchHHHHHHHH--HcCC---Cchhhhhhhhhcccccccccccch-hHH
Q 011206 223 SVGVKQRDVRRILLRQPQILEYTVE-------NNLESHVAFLI--SLGI---PNSKIGQIIAATPSLFSYSVENSL-KPT 289 (491)
Q Consensus 223 slGls~~~l~kli~~~P~iL~~s~e-------~~L~p~v~fL~--~lGl---s~~~I~kll~~~P~lL~~s~e~~l-~p~ 289 (491)
.+|+....+...+.+||.|+..... -.+.+...-|- +..+ ...+++.-|. .+|.++.++.| -.+
T Consensus 46 ~L~l~~~~~~~flrkyP~iF~~~~~~~~~~~~~~LT~~a~~L~~eE~~~~~~~e~~~v~rL~---KLLMMS~~~rlpL~k 122 (335)
T PF11955_consen 46 QLGLKPRKVSRFLRKYPSIFEVFQHPSRSVPWFRLTPEAEDLLREERRVREEMEPDLVERLR---KLLMMSKDRRLPLSK 122 (335)
T ss_pred hcCCCcccHHHHHHhCCceEEEeccCCCCCceEEeCHHHHHHHHHHHHHHHhChHHHHHHHH---HHhccCCCCcccHHH
Confidence 4777667777777788877754320 01222222221 1111 1122222222 24454544322 235
Q ss_pred HHHHHHHhCCChhhHHHHHhhCccceeccc-c--hhhhhhHHHHHhhcCCChhhHHHhh-----------------hccc
Q 011206 290 VRYLVEEVGINEKSLGKVVQLSPQVLVQRI-D--ISWNTRCIFLSKELGAPRDDVVKMV-----------------TKHP 349 (491)
Q Consensus 290 v~~L~~~lGvs~~~l~kll~~~P~lL~~~~-e--~~l~~kl~~L~~~LG~s~~ev~~ml-----------------~~~P 349 (491)
|..++.++|++.+....++.++|..|.... . ...-+-+.|= .++.++.-+...+. ..+|
T Consensus 123 i~~l~~dLGLP~Df~~~lv~~yP~~Frvv~~~~~~~~LeLv~Wd-~~LAvs~~E~~~~~~~~~~~~~~~~~~~~Fp~~fp 201 (335)
T PF11955_consen 123 IAHLRRDLGLPDDFRDSLVPKYPDYFRVVDLEDGGRYLELVSWD-PELAVSALEKRAEKEYREKREDGFDRPLAFPVSFP 201 (335)
T ss_pred HHHHHHHcCCChhhccchhhhCCCCcEEeecCCCCCEEEEeecC-CccCcCccchhhhhccccccccccCCceeeeecCC
Confidence 666666788888888888888888775422 0 0000000110 12222221111110 1112
Q ss_pred cccccccccchHHHHHHHHHhcCC--hHH-----------HHHHHHhccchhccCcccc-HHHHHHHHHHHhCCch---H
Q 011206 350 QLLHYSIDDGLLPRINFLRSIGMR--NSD-----------ILKVLRSLTQVLSLSLEDN-LKPKYTYLINELHNEV---Q 412 (491)
Q Consensus 350 ~lL~~sie~~L~~kvefL~~lG~s--~ee-----------i~~ml~r~P~iL~~Sle~~-L~pk~~fL~~~mg~~~---~ 412 (491)
.=+ .+....+.+++-++++-+. .++ =.++|.-.=.+|++.+|++ ...++..+.+.+|++. .
T Consensus 202 ~G~--~l~k~~~~~l~~fQ~lPy~SPYed~~~l~~~s~~~EKRaVaVlHElLSLTveKr~~~~~L~~fr~ef~lp~k~~~ 279 (335)
T PF11955_consen 202 KGF--RLKKKFREWLEEFQKLPYISPYEDASHLDPGSDEAEKRAVAVLHELLSLTVEKRTEVDHLTHFRKEFGLPQKFRR 279 (335)
T ss_pred CCc--cccHHHHHHHHHHhcCCCCCCCCCccCCCCCChHHHhHHHHHHHHHHHhhhhhhccHHHHHHHHHHhCCcHHHHH
Confidence 111 1123455555555544321 111 1122333334677776654 5677888888899885 6
Q ss_pred HHhhcCcccccCcc
Q 011206 413 SLTKYPMYLSLSLD 426 (491)
Q Consensus 413 ~I~k~P~lLs~SLe 426 (491)
.+.++|.+|..|.-
T Consensus 280 ~l~rHPgIFYvS~k 293 (335)
T PF11955_consen 280 LLLRHPGIFYVSLK 293 (335)
T ss_pred HHHhCCCeEEEecc
Confidence 78999999999873
No 22
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=85.34 E-value=0.43 Score=47.16 Aligned_cols=10 Identities=20% Similarity=0.282 Sum_probs=4.1
Q ss_pred CCCCCCCCCC
Q 011206 99 GSSRRSPVKG 108 (491)
Q Consensus 99 ~~~~~~~~~~ 108 (491)
+++..++|+|
T Consensus 262 ~K~~~k~kk~ 271 (303)
T KOG3064|consen 262 NKKESKKKKG 271 (303)
T ss_pred hhhhhhhccc
Confidence 3444444444
No 23
>KOG3241 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.84 E-value=0.73 Score=43.18 Aligned_cols=19 Identities=26% Similarity=0.246 Sum_probs=9.5
Q ss_pred CCCCCCCCCCcccCCccccc
Q 011206 72 DDDDEGKEDDWLADDDDFAE 91 (491)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~ 91 (491)
|.||||...|.+-|+ |+|+
T Consensus 200 d~D~eD~~gD~e~~~-edsd 218 (227)
T KOG3241|consen 200 DSDEEDNVGDDEHDL-EDSD 218 (227)
T ss_pred ccccccccCcccccc-cccc
Confidence 444455555555555 4454
No 24
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=83.03 E-value=0.83 Score=51.50 Aligned_cols=11 Identities=27% Similarity=0.516 Sum_probs=5.3
Q ss_pred HhcCCCCHHHH
Q 011206 186 LSTFGLKESHF 196 (491)
Q Consensus 186 L~slG~s~~~I 196 (491)
+.-+|++...+
T Consensus 240 ~AIvGlT~q~i 250 (622)
T PF02724_consen 240 LAIVGLTDQYI 250 (622)
T ss_pred HHHHhhhHHhh
Confidence 34455554444
No 25
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=80.98 E-value=0.97 Score=52.73 Aligned_cols=11 Identities=27% Similarity=0.347 Sum_probs=4.5
Q ss_pred CChHhHHHHHh
Q 011206 177 EKWLPLLDYLS 187 (491)
Q Consensus 177 ~~~~~vl~fL~ 187 (491)
+......+.|.
T Consensus 426 ~s~eel~~lL~ 436 (840)
T PF04147_consen 426 SSHEELLELLD 436 (840)
T ss_pred CCHHHHHHHHh
Confidence 33334444444
No 26
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=80.09 E-value=0.9 Score=50.64 Aligned_cols=25 Identities=24% Similarity=0.288 Sum_probs=20.7
Q ss_pred hcCcccccCcccchHHHHHHHHHhh
Q 011206 416 KYPMYLSLSLDQRIRPRHRFLVSLK 440 (491)
Q Consensus 416 k~P~lLs~SLekrI~PR~~fL~~L~ 440 (491)
-+|..++-.++.-++|-|.-|+.++
T Consensus 776 ~~Pe~vAp~l~~f~~pWc~sl~~i~ 800 (885)
T KOG2023|consen 776 ICPEEVAPHLDSFMRPWCTSLRNID 800 (885)
T ss_pred cCHHhcchhHHHHHHHHHHHhcccc
Confidence 4677777788888999999988885
No 27
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=77.50 E-value=1.3 Score=51.25 Aligned_cols=7 Identities=71% Similarity=0.980 Sum_probs=2.9
Q ss_pred Ccccccc
Q 011206 86 DDDFAEI 92 (491)
Q Consensus 86 ~~~~~~~ 92 (491)
|||++|.
T Consensus 935 ddd~d~~ 941 (1010)
T KOG1991|consen 935 DDDFDED 941 (1010)
T ss_pred cccccch
Confidence 3344443
No 28
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=77.29 E-value=1.7 Score=48.99 Aligned_cols=21 Identities=10% Similarity=0.257 Sum_probs=9.7
Q ss_pred cchHHHHH-HHHHcCCCchhhh
Q 011206 248 NNLESHVA-FLISLGIPNSKIG 268 (491)
Q Consensus 248 ~~L~p~v~-fL~~lGls~~~I~ 268 (491)
++|...++ ++..+|+.+-...
T Consensus 366 ~~L~~~l~~~a~~ygL~dl~~~ 387 (622)
T PF02724_consen 366 RELREKLEKYAPKYGLDDLVFP 387 (622)
T ss_pred HHHHHHHHHHHHhcCCCCceee
Confidence 34444444 4445566543333
No 29
>PF05285 SDA1: SDA1; InterPro: IPR007949 This domain consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus [].
Probab=76.91 E-value=1.6 Score=45.20 Aligned_cols=10 Identities=20% Similarity=0.421 Sum_probs=6.0
Q ss_pred CCHHHHHHHH
Q 011206 191 LKESHFIQMY 200 (491)
Q Consensus 191 ~s~~~I~~il 200 (491)
|+++++.+|=
T Consensus 190 LT~eDF~kI~ 199 (324)
T PF05285_consen 190 LTPEDFAKIR 199 (324)
T ss_pred CCHHHHHHHH
Confidence 5666666653
No 30
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=76.31 E-value=2.1 Score=41.96 Aligned_cols=9 Identities=22% Similarity=0.416 Sum_probs=5.1
Q ss_pred ccccCCccc
Q 011206 42 KILKTNRKS 50 (491)
Q Consensus 42 ~~~~~~~~~ 50 (491)
|+.||+...
T Consensus 181 K~~K~K~~~ 189 (218)
T PF14283_consen 181 KFYKPKQEE 189 (218)
T ss_pred EEecccccc
Confidence 566665543
No 31
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=75.72 E-value=1.5 Score=53.31 Aligned_cols=10 Identities=30% Similarity=0.537 Sum_probs=5.2
Q ss_pred cccCCccccC
Q 011206 43 ILKTNRKSRY 52 (491)
Q Consensus 43 ~~~~~~~~~~ 52 (491)
|+-|.||.|-
T Consensus 130 ~i~~~~~~r~ 139 (2849)
T PTZ00415 130 IIIKRRRARH 139 (2849)
T ss_pred EEeehHHhhc
Confidence 3445566653
No 32
>PHA02811 putative host range protein; Provisional
Probab=75.08 E-value=1.8 Score=40.91 Aligned_cols=10 Identities=30% Similarity=0.414 Sum_probs=4.1
Q ss_pred CCCCCCCCCC
Q 011206 53 GQTLSLYDDD 62 (491)
Q Consensus 53 ~~~~~~~~~~ 62 (491)
|..+-.|+.+
T Consensus 155 ~~~y~~~~~~ 164 (197)
T PHA02811 155 SDDYYLYDAC 164 (197)
T ss_pred cccccccccc
Confidence 3444334443
No 33
>PF11955 PORR: Plant organelle RNA recognition domain; InterPro: IPR021099 The plant organelle RNA recognition (PORR) domain, previously known as DUF860, is a component of group II intron ribonucleoprotein particles in maize chloroplasts. It is required for the splicing of the introns with which it associates, and promotes splicing in the context of a heterodimer with the RNase III-domain protein RNC1. Proteins containing this domain are predicted to localise to mitochondria or chloroplasts []. It seems likely that most PORR proteins function in organellar RNA metabolism [].
Probab=74.36 E-value=8.4 Score=40.19 Aligned_cols=120 Identities=23% Similarity=0.363 Sum_probs=62.5
Q ss_pred hHHHHHhhCCcccccccccchHHHHH-HHHHcCCCchhhhhhhhhcccccccccc---c----chhHHHH-HHHHHhCCC
Q 011206 230 DVRRILLRQPQILEYTVENNLESHVA-FLISLGIPNSKIGQIIAATPSLFSYSVE---N----SLKPTVR-YLVEEVGIN 300 (491)
Q Consensus 230 ~l~kli~~~P~iL~~s~e~~L~p~v~-fL~~lGls~~~I~kll~~~P~lL~~s~e---~----~l~p~v~-~L~~~lGvs 300 (491)
.+..+|.+.|.= ..+ +. .+. .-..+|+....+..+|.++|.+|..... . .+.+... .+.++..+-
T Consensus 22 ~l~~~i~~~p~~-~~p----l~-~l~k~~~~L~l~~~~~~~flrkyP~iF~~~~~~~~~~~~~~LT~~a~~L~~eE~~~~ 95 (335)
T PF11955_consen 22 RLKDLILSQPSH-SLP----LR-DLSKLRRQLGLKPRKVSRFLRKYPSIFEVFQHPSRSVPWFRLTPEAEDLLREERRVR 95 (335)
T ss_pred HHHHHHHcCCCC-ccc----HH-HHHHHHHhcCCCcccHHHHHHhCCceEEEeccCCCCCceEEeCHHHHHHHHHHHHHH
Confidence 456667777751 111 11 222 2346899778999999999999864331 0 1222222 122222221
Q ss_pred hhhHHHHHhhCccceecccchhh-hhhHHHHHhhcCCChhhHHHhhhccccccccc
Q 011206 301 EKSLGKVVQLSPQVLVQRIDISW-NTRCIFLSKELGAPRDDVVKMVTKHPQLLHYS 355 (491)
Q Consensus 301 ~~~l~kll~~~P~lL~~~~e~~l-~~kl~~L~~~LG~s~~ev~~ml~~~P~lL~~s 355 (491)
.+.-..++.+--.+|+++.+..+ -.++..+...+|++.+=...++.++|..+...
T Consensus 96 ~~~e~~~v~rL~KLLMMS~~~rlpL~ki~~l~~dLGLP~Df~~~lv~~yP~~Frvv 151 (335)
T PF11955_consen 96 EEMEPDLVERLRKLLMMSKDRRLPLSKIAHLRRDLGLPDDFRDSLVPKYPDYFRVV 151 (335)
T ss_pred HhChHHHHHHHHHHhccCCCCcccHHHHHHHHHHcCCChhhccchhhhCCCCcEEe
Confidence 11111222222234555544433 23456666677887777677777777776653
No 34
>PF13324 GCIP: Grap2 and cyclin-D-interacting; PDB: 3AY5_A.
Probab=73.50 E-value=1.1 Score=45.27 Aligned_cols=13 Identities=8% Similarity=0.092 Sum_probs=4.8
Q ss_pred HHHhcCCCCHHHH
Q 011206 184 DYLSTFGLKESHF 196 (491)
Q Consensus 184 ~fL~slG~s~~~I 196 (491)
...+.++-.-.++
T Consensus 232 ~~~~~i~~~VDel 244 (275)
T PF13324_consen 232 DLCQEISPSVDEL 244 (275)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHhhhHHHHH
Confidence 3333333333333
No 35
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=71.38 E-value=1.9 Score=48.21 Aligned_cols=12 Identities=25% Similarity=0.196 Sum_probs=6.1
Q ss_pred cchHHHHHHHHH
Q 011206 248 NNLESHVAFLIS 259 (491)
Q Consensus 248 ~~L~p~v~fL~~ 259 (491)
+++-|-++.|.+
T Consensus 577 KdLfPLLEClSs 588 (885)
T KOG2023|consen 577 KDLFPLLECLSS 588 (885)
T ss_pred chHHHHHHHHHH
Confidence 455555555543
No 36
>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]
Probab=71.32 E-value=3.5 Score=44.76 Aligned_cols=16 Identities=13% Similarity=0.382 Sum_probs=8.0
Q ss_pred HHHhcCCCCHHHHHHH
Q 011206 184 DYLSTFGLKESHFIQM 199 (491)
Q Consensus 184 ~fL~slG~s~~~I~~i 199 (491)
+|.+++--+..+|+.+
T Consensus 256 QYI~Dm~nTKGHia~l 271 (641)
T KOG0772|consen 256 QYIRDMYNTKGHIAEL 271 (641)
T ss_pred hhhhhhhccCCceeee
Confidence 3445555555555543
No 37
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=71.30 E-value=17 Score=34.18 Aligned_cols=23 Identities=30% Similarity=0.443 Sum_probs=16.0
Q ss_pred HHHHHHHHCCCChhhHHHHHhhC
Q 011206 216 ERLEYLLSVGVKQRDVRRILLRQ 238 (491)
Q Consensus 216 ~~l~fL~slGls~~~l~kli~~~ 238 (491)
..+.+|+++|++-++|..++...
T Consensus 49 ~~I~~lr~~G~sL~eI~~ll~~~ 71 (172)
T cd04790 49 EQICAYRSAGVSLEDIRSLLQQP 71 (172)
T ss_pred HHHHHHHHcCCCHHHHHHHHhcC
Confidence 45566777788877777777543
No 38
>PHA03346 US22 family homolog; Provisional
Probab=68.21 E-value=4.1 Score=44.80 Aligned_cols=6 Identities=50% Similarity=1.442 Sum_probs=2.2
Q ss_pred CCCCCc
Q 011206 77 GKEDDW 82 (491)
Q Consensus 77 ~~~~~~ 82 (491)
||||+|
T Consensus 435 ~~d~~~ 440 (520)
T PHA03346 435 EDDDDW 440 (520)
T ss_pred cccccc
Confidence 333333
No 39
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=67.38 E-value=2.7 Score=46.77 Aligned_cols=6 Identities=33% Similarity=0.351 Sum_probs=2.6
Q ss_pred Eeeccc
Q 011206 35 LSTHSN 40 (491)
Q Consensus 35 ~~~~~~ 40 (491)
|-+|-|
T Consensus 484 LqF~~N 489 (811)
T KOG4364|consen 484 LQFDKN 489 (811)
T ss_pred hhhccc
Confidence 444444
No 40
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=67.09 E-value=4.6 Score=46.86 Aligned_cols=33 Identities=15% Similarity=0.203 Sum_probs=20.7
Q ss_pred HcCCCchhhhhhhhhcccccccccccchhHHHHHH
Q 011206 259 SLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYL 293 (491)
Q Consensus 259 ~lGls~~~I~kll~~~P~lL~~s~e~~l~p~v~~L 293 (491)
..|+-..+|+++..-.+.=....+ +|.|+|+|=
T Consensus 268 KrG~YKgDLAqVd~Vd~~~n~v~l--KlIPRIDyq 300 (1024)
T KOG1999|consen 268 KRGKYKGDLAQVDDVDENRNRVRL--KLIPRIDYQ 300 (1024)
T ss_pred eccccccceeeeeeecccCCEEEE--EEeccccHH
Confidence 357777888887755443333344 477888873
No 41
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=66.42 E-value=24 Score=33.08 Aligned_cols=24 Identities=8% Similarity=0.117 Sum_probs=20.2
Q ss_pred HhHHHHHhcCCCCHHHHHHHHHhc
Q 011206 180 LPLLDYLSTFGLKESHFIQMYERH 203 (491)
Q Consensus 180 ~~vl~fL~slG~s~~~I~~il~r~ 203 (491)
...+.+|+++||+-++|..++...
T Consensus 48 L~~I~~lr~~G~sL~eI~~ll~~~ 71 (172)
T cd04790 48 LEQICAYRSAGVSLEDIRSLLQQP 71 (172)
T ss_pred HHHHHHHHHcCCCHHHHHHHHhcC
Confidence 467888999999999999988643
No 42
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=65.73 E-value=5.1 Score=34.80 Aligned_cols=13 Identities=31% Similarity=0.419 Sum_probs=7.2
Q ss_pred cCCCCCCCCCCCC
Q 011206 51 RYGQTLSLYDDDS 63 (491)
Q Consensus 51 ~~~~~~~~~~~~~ 63 (491)
.+|..+|-..+|+
T Consensus 81 ~GgDDlpDl~dDe 93 (129)
T COG4530 81 KGGDDLPDLGDDE 93 (129)
T ss_pred cCCCccccccccc
Confidence 4566777444443
No 43
>PF05285 SDA1: SDA1; InterPro: IPR007949 This domain consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus [].
Probab=64.82 E-value=3.3 Score=42.97 Aligned_cols=11 Identities=18% Similarity=0.719 Sum_probs=4.9
Q ss_pred CCCCCCcccCC
Q 011206 76 EGKEDDWLADD 86 (491)
Q Consensus 76 ~~~~~~~~~~~ 86 (491)
+|++++|.+.+
T Consensus 112 ~Dd~~e~idv~ 122 (324)
T PF05285_consen 112 SDDEGEWIDVE 122 (324)
T ss_pred ccccCCccccc
Confidence 33345554444
No 44
>PF06957 COPI_C: Coatomer (COPI) alpha subunit C-terminus; InterPro: IPR010714 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the C terminus (approximately 500 residues) of the eukaryotic coatomer alpha subunit [, ]. This domain is found along with the IPR006692 from INTERPRO domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030126 COPI vesicle coat; PDB: 3MKR_B 3MV2_E 3MKQ_B 3MV3_A.
Probab=64.79 E-value=2.1 Score=45.81 Aligned_cols=23 Identities=48% Similarity=0.736 Sum_probs=0.0
Q ss_pred CCCCCCCCcccCCccccccccccc
Q 011206 74 DDEGKEDDWLADDDDFAEIEEYDV 97 (491)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~ 97 (491)
+++||+++|+.|| |..-|++++.
T Consensus 70 ~~~~e~~gWD~dd-Dl~lp~e~d~ 92 (422)
T PF06957_consen 70 EDEDEEGGWDLDD-DLDLPEELDV 92 (422)
T ss_dssp ------------------------
T ss_pred ccccccccccccc-ccCCCccccc
Confidence 4467778887755 6666666654
No 45
>KOG3540 consensus Beta amyloid precursor protein [General function prediction only]
Probab=64.15 E-value=5.3 Score=42.99 Aligned_cols=43 Identities=21% Similarity=0.208 Sum_probs=28.5
Q ss_pred ccccCccCHHHHHHHHHH-CCCChhhHHHHHhhCCccccccccc
Q 011206 206 SLQINVCSARERLEYLLS-VGVKQRDVRRILLRQPQILEYTVEN 248 (491)
Q Consensus 206 lL~~~~~~l~~~l~fL~s-lGls~~~l~kli~~~P~iL~~s~e~ 248 (491)
.|+.++-....+++.|+. +-...++=.-.+..|-.++..++++
T Consensus 338 ALqa~pprp~~Vl~aLkrYvRAEqKdr~HTlrhyqHv~~vDpkk 381 (615)
T KOG3540|consen 338 ALQADPPRPHRVLQALKRYVRAEQKDRMHTLRHYQHVLAVDPKK 381 (615)
T ss_pred HHhcCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHH
Confidence 345566666777777765 4555566666777777788777754
No 46
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=63.18 E-value=21 Score=24.48 Aligned_cols=23 Identities=17% Similarity=0.355 Sum_probs=15.6
Q ss_pred HHHHHHHHhcCChHHHHHHHHhc
Q 011206 362 PRINFLRSIGMRNSDILKVLRSL 384 (491)
Q Consensus 362 ~kvefL~~lG~s~eei~~ml~r~ 384 (491)
.+++-|..|||+.+++.+.+..+
T Consensus 4 ~~v~~L~~mGf~~~~~~~AL~~~ 26 (37)
T PF00627_consen 4 EKVQQLMEMGFSREQAREALRAC 26 (37)
T ss_dssp HHHHHHHHHTS-HHHHHHHHHHT
T ss_pred HHHHHHHHcCCCHHHHHHHHHHc
Confidence 46677777888888777776654
No 47
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=62.67 E-value=3.6 Score=40.90 Aligned_cols=17 Identities=12% Similarity=0.075 Sum_probs=9.6
Q ss_pred cccCCCCCCCCCCCCCC
Q 011206 96 DVNGSSRRSPVKGCGVG 112 (491)
Q Consensus 96 ~~~~~~~~~~~~~~~~~ 112 (491)
..+.+++++.++.....
T Consensus 262 ~K~~~k~kk~~~~~k~k 278 (303)
T KOG3064|consen 262 NKKESKKKKGKKAAKGK 278 (303)
T ss_pred hhhhhhhcccCCCcccc
Confidence 56666666655554443
No 48
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=62.27 E-value=7.9 Score=40.37 Aligned_cols=7 Identities=0% Similarity=-0.092 Sum_probs=3.4
Q ss_pred CCccccC
Q 011206 46 TNRKSRY 52 (491)
Q Consensus 46 ~~~~~~~ 52 (491)
|+-=.+|
T Consensus 269 P~AV~yf 275 (337)
T PTZ00007 269 PYAVYWF 275 (337)
T ss_pred cccHHhh
Confidence 4444455
No 49
>PF14851 FAM176: FAM176 family
Probab=60.19 E-value=7.9 Score=35.80 Aligned_cols=12 Identities=8% Similarity=-0.092 Sum_probs=5.1
Q ss_pred CCCcccccCccc
Q 011206 143 TYYNSKDVDQRG 154 (491)
Q Consensus 143 ~~~~~~~~~~~g 154 (491)
+|-+....++.|
T Consensus 139 ~~~d~~~~~~~~ 150 (153)
T PF14851_consen 139 GQPDILGTRTLG 150 (153)
T ss_pred cCCCCCCCCCCC
Confidence 333434444444
No 50
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=60.10 E-value=6.1 Score=36.95 Aligned_cols=11 Identities=27% Similarity=0.407 Sum_probs=8.7
Q ss_pred cccccccCCCC
Q 011206 92 IEEYDVNGSSR 102 (491)
Q Consensus 92 ~~~~~~~~~~~ 102 (491)
-+.||+|.|||
T Consensus 153 ~TvFd~~~~rr 163 (163)
T PF06679_consen 153 STVFDANHPRR 163 (163)
T ss_pred cceeeeccccC
Confidence 57888888875
No 51
>PRK14134 recX recombination regulator RecX; Provisional
Probab=56.40 E-value=2.3e+02 Score=28.74 Aligned_cols=147 Identities=12% Similarity=0.069 Sum_probs=85.1
Q ss_pred cccccchhhhhhhhhhhhhccccCChHhHHHHHhcCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCC-ChhhHH
Q 011206 154 GKVMTRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGV-KQRDVR 232 (491)
Q Consensus 154 g~l~~~~~~~~~~p~l~~~~d~e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGl-s~~~l~ 232 (491)
|.-.|.......+..+.....+..-....+.+|..---|..++..-+.+. .++.+.+..+++.|...|+ ++...+
T Consensus 39 ~L~kG~eld~e~~~ei~~~~~~~~a~~~AL~~Ls~r~rSe~Elr~KL~~k----~~~~~~Ie~vI~~L~e~~yldD~ryA 114 (283)
T PRK14134 39 NLKKGKVIDVNSLNDIIKEDNYIKCKGYALKYIEKSYKTEKQIKEKLYLK----EYDEDAVNRVIRFLKEYNFIDDDKYC 114 (283)
T ss_pred CCcCCCCcCHHHHHHHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHhC----CCCHHHHHHHHHHHHHCCCCCHHHHH
Confidence 33344444444444444222333334466777777667788887776643 3456678888899999875 677777
Q ss_pred HHHhhCCcccccccccchHHHHHHHHHcCCCchhhhhhhhhcccc-------------ccc------ccccchhHHHHHH
Q 011206 233 RILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSL-------------FSY------SVENSLKPTVRYL 293 (491)
Q Consensus 233 kli~~~P~iL~~s~e~~L~p~v~fL~~lGls~~~I~kll~~~P~l-------------L~~------s~e~~l~p~v~~L 293 (491)
....+.- +-..+. .....-|+..|++.+.|..++...+.- +.. +....-...+.||
T Consensus 115 ~~yv~~~-~~~~G~----~~I~~eL~qKGI~~~iIe~al~~~~~e~e~e~a~~l~~Kk~~~~~~~~~~~~k~k~Kl~~~L 189 (283)
T PRK14134 115 DMYIREK-INSYGR----NKIKYTLLNKGIKENIIIEKINNIDEEKEKKVAYKLAEKKYKILILSEKNKFKIYKKLGPYL 189 (283)
T ss_pred HHHHHHH-HHhhhH----HHHHHHHHHCCCCHHHHHHHHHhCChhhHHHHHHHHHHHhhcccccccccHHHHHHHHHHHH
Confidence 6665531 111222 112356778899998888887654311 000 0001123456777
Q ss_pred HHHhCCChhhHHHHHhh
Q 011206 294 VEEVGINEKSLGKVVQL 310 (491)
Q Consensus 294 ~~~lGvs~~~l~kll~~ 310 (491)
. .-||+.+.|..++..
T Consensus 190 ~-rrGFs~~~I~~vl~~ 205 (283)
T PRK14134 190 I-SRGYSSNIAEWILNE 205 (283)
T ss_pred H-HCCCCHHHHHHHHHH
Confidence 5 678888877777653
No 52
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=55.98 E-value=17 Score=32.78 Aligned_cols=38 Identities=24% Similarity=0.353 Sum_probs=27.1
Q ss_pred ccccccccccccchHHHHHHHHHhcCChHHHHHHHHhccchh
Q 011206 347 KHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVL 388 (491)
Q Consensus 347 ~~P~lL~~sie~~L~~kvefL~~lG~s~eei~~ml~r~P~iL 388 (491)
.+|.|-. ..+..|++||++-|++.+||..++.+.+.--
T Consensus 14 ~~p~V~~----sp~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 14 QDPKVRN----SPLEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp CTTTCCC----S-HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred CCccccc----CCHHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 3666654 3478999999999999999999998876544
No 53
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=55.33 E-value=35 Score=28.54 Aligned_cols=22 Identities=23% Similarity=0.606 Sum_probs=12.2
Q ss_pred HhHHHHHhcCCCCHHHHHHHHH
Q 011206 180 LPLLDYLSTFGLKESHFIQMYE 201 (491)
Q Consensus 180 ~~vl~fL~slG~s~~~I~~il~ 201 (491)
..++.+|..+|++...+.+|+.
T Consensus 9 ~~~~~~L~~~gl~~~~a~kl~~ 30 (94)
T PF14490_consen 9 RELMAFLQEYGLSPKLAMKLYK 30 (94)
T ss_dssp HHHHHHHHHTT--HHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHH
Confidence 3456666666666666666554
No 54
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=53.76 E-value=8.8 Score=44.68 Aligned_cols=17 Identities=24% Similarity=0.268 Sum_probs=8.8
Q ss_pred chhhhhhhhhccccccc
Q 011206 123 AQEQLDIRNRRNTIKNS 139 (491)
Q Consensus 123 ~~~~~~~~~~~~~~~~~ 139 (491)
..+....+-+.+...+.
T Consensus 124 ~~e~~~~r~aee~~~~~ 140 (1024)
T KOG1999|consen 124 LEEELAKRYAEEYIEKY 140 (1024)
T ss_pred HHHHHHHHHHHhhcccc
Confidence 45555555555554443
No 55
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=51.83 E-value=11 Score=40.90 Aligned_cols=32 Identities=34% Similarity=0.415 Sum_probs=19.9
Q ss_pred CCCCCCCCCcccCCCCCCCCCCCCCCCcccCC
Q 011206 55 TLSLYDDDSEEEGEDDDDDDDEGKEDDWLADD 86 (491)
Q Consensus 55 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (491)
+.|+.|..|.||+++||||=|-||+|-.-+||
T Consensus 418 tnppad~~dgdde~eddddidvdeediessdd 449 (990)
T KOG1819|consen 418 TNPPADNEDGDDEAEDDDDIDVDEEDIESSDD 449 (990)
T ss_pred CCCccccccCcccccCcccccccccccccccc
Confidence 57777777766666666555555555544454
No 56
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=51.76 E-value=94 Score=33.07 Aligned_cols=44 Identities=27% Similarity=0.523 Sum_probs=35.9
Q ss_pred ccCHHHHHHHHHHCCCChhhHHHHHhhCCcccccccccchHHHHHHHHHcCCC
Q 011206 211 VCSARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIP 263 (491)
Q Consensus 211 ~~~l~~~l~fL~slGls~~~l~kli~~~P~iL~~s~e~~L~p~v~fL~~lGls 263 (491)
....+..++-+.++|+.++++.+.++ ..+ +|-...|+||.. |++
T Consensus 153 g~~~e~~I~~i~eMGf~R~qV~~ALR-------Aaf-NNPdRAVEYL~t-GIP 196 (378)
T TIGR00601 153 GSERETTIEEIMEMGYEREEVERALR-------AAF-NNPDRAVEYLLT-GIP 196 (378)
T ss_pred chHHHHHHHHHHHhCCCHHHHHHHHH-------HHh-CCHHHHHHHHHh-CCC
Confidence 34788999999999999999987765 455 788999999974 455
No 57
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=51.62 E-value=65 Score=37.14 Aligned_cols=118 Identities=19% Similarity=0.218 Sum_probs=63.0
Q ss_pred cCChHhHHHHHhc---CCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHC-CCChhhHHHHHhhCCcccccccccchH
Q 011206 176 DEKWLPLLDYLST---FGLKESHFIQMYERHMPSLQINVCSARERLEYLLSV-GVKQRDVRRILLRQPQILEYTVENNLE 251 (491)
Q Consensus 176 e~~~~~vl~fL~s---lG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~sl-Gls~~~l~kli~~~P~iL~~s~e~~L~ 251 (491)
+......+.||.+ -|+-+....+|+.....-. .+.+....+-|..+ |++.+.+..+...+.. .....
T Consensus 74 p~~~~~i~~yL~s~~~~GIG~~~A~~iv~~fg~~~---~~~i~~~~~~L~~v~gi~~~~~~~i~~~~~~------~~~~~ 144 (720)
T TIGR01448 74 PTSKEGIVAYLSSRSIKGVGKKLAQRIVKTFGEAA---FDVLDDDPEKLLEVPGISKANLEKFVSQWSQ------QGDER 144 (720)
T ss_pred CCCHHHHHHHHhcCCCCCcCHHHHHHHHHHhCHhH---HHHHHhCHHHHhcCCCCCHHHHHHHHHHHHH------hHHHH
Confidence 4455566777765 3666777777765532111 12344444556665 7777777777665411 12355
Q ss_pred HHHHHHHHcCCCchh-----------hhhhhhhccccccccccc-chhHHHHHHHHHhCCChhh
Q 011206 252 SHVAFLISLGIPNSK-----------IGQIIAATPSLFSYSVEN-SLKPTVRYLVEEVGINEKS 303 (491)
Q Consensus 252 p~v~fL~~lGls~~~-----------I~kll~~~P~lL~~s~e~-~l~p~v~~L~~~lGvs~~~ 303 (491)
..+.||.++|++... ...+|..+|+.|...+.. .++ .++-+...+|+...+
T Consensus 145 ~~~~~L~~~gi~~~~a~ki~~~yg~~~~~~i~~nPY~L~~~i~gigF~-~aD~iA~~~g~~~~d 207 (720)
T TIGR01448 145 RLLAGLQGLGIGIKLAQRIYKFYQADTLDRVEKDPYLLAEDVKGIGFL-TADQLAQALGIALND 207 (720)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHhHHHHHHHHhCchhhhhhcCCCCHH-HHHHHHHHcCCCCCC
Confidence 666777777777543 344556677766543321 111 222233356666544
No 58
>TIGR00844 c_cpa1 na(+)/h(+) antiporter. This model is specific for the fungal members of this family.
Probab=49.32 E-value=12 Score=43.32 Aligned_cols=58 Identities=24% Similarity=0.288 Sum_probs=36.2
Q ss_pred cccCCCCceEEEeeccccccccCCccccCCCCCCCCCCCCcccCCCCCCCCCCCCCCCcccCC
Q 011206 24 QTRPNTPRFVVLSTHSNAKILKTNRKSRYGQTLSLYDDDSEEEGEDDDDDDDEGKEDDWLADD 86 (491)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (491)
-+.|.+|..-|.|--+..-|-||.+-+-+|..+.. +.||| .+||+.|.+.+|||++-|
T Consensus 742 k~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~--~~~~~~~~~~~~~~~~~~ 799 (810)
T TIGR00844 742 KRKIKKRNDSVVSVDEEKAIEGPSRVPERGNHDLL---HSEDE--MADDEAESENMDDYEDSD 799 (810)
T ss_pred CCCccccCCcccccchhhcccCCCCCCccccchhc---ccchh--hccchhcccccccccccc
Confidence 44555565557777888889999988887743332 22222 555555666666666666
No 59
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=49.28 E-value=16 Score=33.00 Aligned_cols=24 Identities=25% Similarity=0.461 Sum_probs=12.2
Q ss_pred HHHHHHHHcCCCchhhhhhhhhcc
Q 011206 252 SHVAFLISLGIPNSKIGQIIAATP 275 (491)
Q Consensus 252 p~v~fL~~lGls~~~I~kll~~~P 275 (491)
.+++||++.|++.++|..++.+.+
T Consensus 25 ~k~~FL~sKGLt~~EI~~al~~a~ 48 (136)
T PF04695_consen 25 KKIAFLESKGLTEEEIDEALGRAG 48 (136)
T ss_dssp HHHHHHHHCT--HHHHHHHHHHHT
T ss_pred HHHHHHHcCCCCHHHHHHHHHhcC
Confidence 355566655666655555555443
No 60
>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]
Probab=49.02 E-value=11 Score=42.67 Aligned_cols=30 Identities=30% Similarity=0.404 Sum_probs=13.4
Q ss_pred CCCCCCCcccCCC---CCCCCCCCCCCCcccCC
Q 011206 57 SLYDDDSEEEGED---DDDDDDEGKEDDWLADD 86 (491)
Q Consensus 57 ~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~ 86 (491)
|-.|+|+|+++.. |+++-|.+|+|+|+.++
T Consensus 15 pe~dsDee~~~~~~~~d~~e~~~~d~~e~~~~~ 47 (971)
T KOG0468|consen 15 PELDSDEEEDDSVEDEDLQEVDQDDEDEMEGDH 47 (971)
T ss_pred CccCCcccccccccchhhhhccCCccccccccc
Confidence 3356666555422 11222344445555555
No 61
>PF15387 DUF4611: Domain of unknown function (DUF4611)
Probab=49.01 E-value=15 Score=31.04 Aligned_cols=15 Identities=13% Similarity=0.388 Sum_probs=10.7
Q ss_pred ccccccCCCCCCCCC
Q 011206 93 EEYDVNGSSRRSPVK 107 (491)
Q Consensus 93 ~~~~~~~~~~~~~~~ 107 (491)
..-++.+|.++..|+
T Consensus 82 n~t~s~gP~AKR~Kp 96 (96)
T PF15387_consen 82 NRTNSDGPPAKRPKP 96 (96)
T ss_pred ccccCCCCcccCCCC
Confidence 344788888888764
No 62
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=48.71 E-value=18 Score=43.00 Aligned_cols=12 Identities=25% Similarity=0.537 Sum_probs=7.0
Q ss_pred HhHHHHHhcCCC
Q 011206 180 LPLLDYLSTFGL 191 (491)
Q Consensus 180 ~~vl~fL~slG~ 191 (491)
.++..+|++|+.
T Consensus 196 lsIYevLRsF~~ 207 (1414)
T KOG1473|consen 196 LSIYEVLRSFSR 207 (1414)
T ss_pred HHHHHHHHhhcc
Confidence 355666666553
No 63
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=48.51 E-value=16 Score=44.83 Aligned_cols=33 Identities=24% Similarity=0.273 Sum_probs=16.6
Q ss_pred cccccccCCccccCCCCCCCCCCCCcccCCCCC
Q 011206 39 SNAKILKTNRKSRYGQTLSLYDDDSEEEGEDDD 71 (491)
Q Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 71 (491)
+++.-..+++.++...+.+.+-.|+..||||++
T Consensus 1339 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1371 (1388)
T PTZ00108 1339 TRVKQASASQSSRLLRRPRKKKSDSSSEDDDDS 1371 (1388)
T ss_pred chhhhcccccccccccCCCcccccccccccccc
Confidence 344445555555555455555455444444333
No 64
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=48.31 E-value=17 Score=40.81 Aligned_cols=7 Identities=57% Similarity=0.990 Sum_probs=2.9
Q ss_pred CCCCCcc
Q 011206 59 YDDDSEE 65 (491)
Q Consensus 59 ~~~~~~~ 65 (491)
|.-|.|+
T Consensus 519 YEVdSDe 525 (811)
T KOG4364|consen 519 YEVDSDE 525 (811)
T ss_pred ccccCcc
Confidence 4444433
No 65
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=48.25 E-value=12 Score=42.51 Aligned_cols=19 Identities=5% Similarity=0.128 Sum_probs=10.3
Q ss_pred hHHHHHHHHHhcCChHHHH
Q 011206 360 LLPRINFLRSIGMRNSDIL 378 (491)
Q Consensus 360 L~~kvefL~~lG~s~eei~ 378 (491)
...-++-|.++++..++.+
T Consensus 634 yiDAFEklLkL~LK~~Q~r 652 (822)
T KOG2141|consen 634 YIDAFEKLLKLSLKGKQER 652 (822)
T ss_pred HHHHHHHHHhccCCCcchH
Confidence 3344555556777665433
No 66
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=48.02 E-value=8.4 Score=42.11 Aligned_cols=13 Identities=8% Similarity=0.010 Sum_probs=8.2
Q ss_pred CCCCHHHHHHHHH
Q 011206 189 FGLKESHFIQMYE 201 (491)
Q Consensus 189 lG~s~~~I~~il~ 201 (491)
=|.+-+++++..-
T Consensus 557 dgi~~~dv~kk~g 569 (615)
T KOG0526|consen 557 DGISVGDVAKKAG 569 (615)
T ss_pred cCchHHHHHHHHh
Confidence 3777777766543
No 67
>PF04546 Sigma70_ner: Sigma-70, non-essential region; InterPro: IPR007631 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This domain is found in the primary vegetative sigma factor. Its function is unclear, and it can be removed without apparent loss of function [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SIG_A 3IYD_F.
Probab=47.63 E-value=7.5 Score=37.61 Aligned_cols=21 Identities=14% Similarity=0.186 Sum_probs=13.9
Q ss_pred hHHHHHhcCCCCHHHHHHHHH
Q 011206 181 PLLDYLSTFGLKESHFIQMYE 201 (491)
Q Consensus 181 ~vl~fL~slG~s~~~I~~il~ 201 (491)
.+...|..+-|++..|..++.
T Consensus 114 ~l~~~~~~ikl~~k~id~L~~ 134 (211)
T PF04546_consen 114 ELAEEFMEIKLSPKQIDRLVE 134 (211)
T ss_dssp HHHHHHTTCEE-HHHHHHHCH
T ss_pred HHHHHHHhhccCHHHHHHHHH
Confidence 456677777777777777664
No 68
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=47.62 E-value=9.9 Score=44.36 Aligned_cols=9 Identities=22% Similarity=0.442 Sum_probs=3.6
Q ss_pred CCCCCcccC
Q 011206 59 YDDDSEEEG 67 (491)
Q Consensus 59 ~~~~~~~~~ 67 (491)
||--=..|+
T Consensus 309 YDPNy~yd~ 317 (1233)
T KOG1824|consen 309 YDPNYNYDT 317 (1233)
T ss_pred cCCCCCCCC
Confidence 443333333
No 69
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=47.54 E-value=27 Score=23.65 Aligned_cols=24 Identities=29% Similarity=0.470 Sum_probs=18.9
Q ss_pred HHHHHHHHHhcCChHHHHHHHHhc
Q 011206 361 LPRINFLRSIGMRNSDILKVLRSL 384 (491)
Q Consensus 361 ~~kvefL~~lG~s~eei~~ml~r~ 384 (491)
..+++-|..|||+.+++...+..+
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~ 25 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAA 25 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHh
Confidence 356788888999999888877665
No 70
>PHA03346 US22 family homolog; Provisional
Probab=47.30 E-value=19 Score=39.70 Aligned_cols=6 Identities=33% Similarity=0.661 Sum_probs=2.2
Q ss_pred CCCCCC
Q 011206 57 SLYDDD 62 (491)
Q Consensus 57 ~~~~~~ 62 (491)
|+.++|
T Consensus 423 ~~~~~~ 428 (520)
T PHA03346 423 PPFPDD 428 (520)
T ss_pred CCCCCc
Confidence 334333
No 71
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=45.61 E-value=60 Score=21.97 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=15.7
Q ss_pred HHHHHHHHhcCChHHHHHHHHhc
Q 011206 362 PRINFLRSIGMRNSDILKVLRSL 384 (491)
Q Consensus 362 ~kvefL~~lG~s~eei~~ml~r~ 384 (491)
.+++-|.+|||+.+.+...+..+
T Consensus 3 ~~v~~L~~mGf~~~~~~~AL~~~ 25 (38)
T cd00194 3 EKLEQLLEMGFSREEARKALRAT 25 (38)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 45667777787777776666554
No 72
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=44.54 E-value=34 Score=38.66 Aligned_cols=57 Identities=25% Similarity=0.503 Sum_probs=41.8
Q ss_pred hhhhhhhccc---cCChHhHHHHHhcCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCC
Q 011206 166 YQRLSEEIEL---DEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGV 226 (491)
Q Consensus 166 ~p~l~~~~d~---e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGl 226 (491)
|-+.+..+.+ ..-|.+.+.|++++|++..-+ ++++|+ |..+|...++-++||...+-
T Consensus 125 fdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~-rvyrRY---Lk~~P~~~eeyie~L~~~d~ 184 (835)
T KOG2047|consen 125 FDRALRALPVTQHDRIWDLYLKFVESHGLPETSI-RVYRRY---LKVAPEAREEYIEYLAKSDR 184 (835)
T ss_pred HHHHHHhCchHhhccchHHHHHHHHhCCChHHHH-HHHHHH---HhcCHHHHHHHHHHHHhccc
Confidence 3334444444 346789999999999996655 567764 67788889999999998773
No 73
>PF06084 Cytomega_TRL10: Cytomegalovirus TRL10 protein; InterPro: IPR009284 This family consists of several Cytomegalovirus TRL10 proteins. TRL10 represents a structural component of the virus particle and like the other HCMV envelope glycoproteins, is present in a disulphide-linked complex [].
Probab=43.40 E-value=19 Score=31.56 Aligned_cols=20 Identities=10% Similarity=0.092 Sum_probs=11.8
Q ss_pred cCCccccCCCCCCCCCCCCc
Q 011206 45 KTNRKSRYGQTLSLYDDDSE 64 (491)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~ 64 (491)
-|-|-+|..+..|+...-.+
T Consensus 121 ipyrp~rq~d~~p~~~~~~~ 140 (150)
T PF06084_consen 121 IPYRPCRQNDNSPPIEPNGT 140 (150)
T ss_pred cCCCcccccCCCCcccCCCC
Confidence 36677777656666554443
No 74
>PLN03237 DNA topoisomerase 2; Provisional
Probab=42.88 E-value=11 Score=46.18 Aligned_cols=21 Identities=33% Similarity=0.442 Sum_probs=13.7
Q ss_pred cCCccccCCCCCCCCCCCCcc
Q 011206 45 KTNRKSRYGQTLSLYDDDSEE 65 (491)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~~ 65 (491)
.|.|..|+|.++.-||.++|.
T Consensus 1434 r~~~~~r~~~~~~~~~~e~~~ 1454 (1465)
T PLN03237 1434 RPQRANRKQTTYVLSDSESES 1454 (1465)
T ss_pred cchhhhcCCceEEecCccccc
Confidence 455666667677777776663
No 75
>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]
Probab=42.58 E-value=17 Score=39.71 Aligned_cols=13 Identities=23% Similarity=0.345 Sum_probs=7.0
Q ss_pred cccccccCCcccc
Q 011206 39 SNAKILKTNRKSR 51 (491)
Q Consensus 39 ~~~~~~~~~~~~~ 51 (491)
.+--|=-|||+++
T Consensus 69 ~~~di~~~~~~~n 81 (641)
T KOG0772|consen 69 KESDIRGPNRNPN 81 (641)
T ss_pred hhhhccccccccc
Confidence 3344555666655
No 76
>PF12253 CAF1A: Chromatin assembly factor 1 subunit A; InterPro: IPR022043 The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A []. The A domain is uniquely required for the progression of S phase in mouse cells [], independent of its ability to promote histone deposition [] but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints [].
Probab=42.53 E-value=17 Score=29.80 Aligned_cols=6 Identities=67% Similarity=1.210 Sum_probs=3.2
Q ss_pred CCCCCc
Q 011206 59 YDDDSE 64 (491)
Q Consensus 59 ~~~~~~ 64 (491)
||+|+|
T Consensus 43 yDSd~E 48 (77)
T PF12253_consen 43 YDSDDE 48 (77)
T ss_pred cCCccc
Confidence 555544
No 77
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=42.25 E-value=75 Score=26.51 Aligned_cols=22 Identities=18% Similarity=0.383 Sum_probs=9.2
Q ss_pred HHHHHHHHHHCCCChhhHHHHH
Q 011206 214 ARERLEYLLSVGVKQRDVRRIL 235 (491)
Q Consensus 214 l~~~l~fL~slGls~~~l~kli 235 (491)
+...+.||..+|++.....+++
T Consensus 8 ~~~~~~~L~~~gl~~~~a~kl~ 29 (94)
T PF14490_consen 8 LRELMAFLQEYGLSPKLAMKLY 29 (94)
T ss_dssp -HHHHHHHHHTT--HHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHH
Confidence 3344455555555554444443
No 78
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=42.13 E-value=17 Score=39.63 Aligned_cols=15 Identities=20% Similarity=0.565 Sum_probs=10.2
Q ss_pred HhHHHHHhcCCCCHH
Q 011206 180 LPLLDYLSTFGLKES 194 (491)
Q Consensus 180 ~~vl~fL~slG~s~~ 194 (491)
.+.+.|..+||-...
T Consensus 319 ~eKieyITsFGGgde 333 (653)
T KOG2548|consen 319 KEKIEYITSFGGGDE 333 (653)
T ss_pred cccceEEeecCCCcc
Confidence 366777778776654
No 79
>KOG3871 consensus Cell adhesion complex protein bystin [Extracellular structures]
Probab=41.71 E-value=12 Score=39.14 Aligned_cols=13 Identities=31% Similarity=0.483 Sum_probs=6.1
Q ss_pred CCCCCCCCcccCC
Q 011206 56 LSLYDDDSEEEGE 68 (491)
Q Consensus 56 ~~~~~~~~~~~~~ 68 (491)
.-.|++|++++++
T Consensus 89 ~~~~~ee~~i~~~ 101 (449)
T KOG3871|consen 89 TASYGEEDEIEEE 101 (449)
T ss_pred ccccccccccccc
Confidence 3445455544444
No 80
>PF11273 DUF3073: Protein of unknown function (DUF3073); InterPro: IPR021426 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=40.42 E-value=17 Score=28.73 Aligned_cols=8 Identities=38% Similarity=0.580 Sum_probs=3.7
Q ss_pred CCCcccCC
Q 011206 79 EDDWLADD 86 (491)
Q Consensus 79 ~~~~~~~~ 86 (491)
+|+|..++
T Consensus 55 ~d~y~d~~ 62 (65)
T PF11273_consen 55 ADDYADYD 62 (65)
T ss_pred hhhhhccc
Confidence 44454444
No 81
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=39.49 E-value=23 Score=23.69 Aligned_cols=27 Identities=26% Similarity=0.500 Sum_probs=19.3
Q ss_pred cCChHhHHHHHhcCCCCHHHHHHHHHh
Q 011206 176 DEKWLPLLDYLSTFGLKESHFIQMYER 202 (491)
Q Consensus 176 e~~~~~vl~fL~slG~s~~~I~~il~r 202 (491)
++.|...+.--+..|++..+|..++..
T Consensus 2 D~EW~~Li~eA~~~Gls~eeir~FL~~ 28 (30)
T PF08671_consen 2 DEEWVELIKEAKESGLSKEEIREFLEF 28 (30)
T ss_dssp -HHHHHHHHHHHHTT--HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 456777888888899999999888764
No 82
>KOG0262 consensus RNA polymerase I, large subunit [Transcription]
Probab=39.29 E-value=29 Score=41.73 Aligned_cols=6 Identities=0% Similarity=-0.418 Sum_probs=2.6
Q ss_pred cchhhh
Q 011206 158 TRNATE 163 (491)
Q Consensus 158 ~~~~~~ 163 (491)
|+....
T Consensus 1442 wcev~~ 1447 (1640)
T KOG0262|consen 1442 WCEVEL 1447 (1640)
T ss_pred EEEEEE
Confidence 544433
No 83
>PHA02854 putative host range protein; Provisional
Probab=37.98 E-value=20 Score=33.64 Aligned_cols=9 Identities=33% Similarity=0.870 Sum_probs=4.3
Q ss_pred CCCCCCCCc
Q 011206 56 LSLYDDDSE 64 (491)
Q Consensus 56 ~~~~~~~~~ 64 (491)
+.|||.|++
T Consensus 152 ~~Y~~~~~~ 160 (178)
T PHA02854 152 FEYYDSDND 160 (178)
T ss_pred ccccccccc
Confidence 355554443
No 84
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=37.32 E-value=35 Score=29.19 Aligned_cols=23 Identities=4% Similarity=0.276 Sum_probs=19.4
Q ss_pred hcCChHHHHHHHHhccchhccCc
Q 011206 370 IGMRNSDILKVLRSLTQVLSLSL 392 (491)
Q Consensus 370 lG~s~eei~~ml~r~P~iL~~Sl 392 (491)
..++.+++..++..+|.+|-..+
T Consensus 69 ~~~s~~e~i~~l~~~p~LikRPI 91 (110)
T PF03960_consen 69 DDLSDEELIELLLENPKLIKRPI 91 (110)
T ss_dssp TTSBHHHHHHHHHHSGGGB-SSE
T ss_pred hhhhhHHHHHHHHhChhheeCCE
Confidence 45899999999999999988875
No 85
>PF09073 BUD22: BUD22; InterPro: IPR015158 BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal [].
Probab=37.28 E-value=33 Score=37.02 Aligned_cols=8 Identities=25% Similarity=0.692 Sum_probs=3.0
Q ss_pred CCCCHHHH
Q 011206 189 FGLKESHF 196 (491)
Q Consensus 189 lG~s~~~I 196 (491)
+|-...+|
T Consensus 332 yG~~AkHv 339 (432)
T PF09073_consen 332 YGKNAKHV 339 (432)
T ss_pred hcccchhh
Confidence 34333333
No 86
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=37.14 E-value=56 Score=26.40 Aligned_cols=47 Identities=17% Similarity=0.403 Sum_probs=28.2
Q ss_pred HHHHHHHHcCCCchhhhhhhhhcccccccccccchhHHHHHHHHHhCCChhhHHHH
Q 011206 252 SHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKV 307 (491)
Q Consensus 252 p~v~fL~~lGls~~~I~kll~~~P~lL~~s~e~~l~p~v~~L~~~lGvs~~~l~kl 307 (491)
|.++.|++..+|++.|..++.. |+.++ + .....+ ..+|++++.+..+
T Consensus 3 PIia~LKehnvsd~qi~elFq~----lT~NP---l-~AMa~i-~qLGip~eKLQ~l 49 (82)
T PF11212_consen 3 PIIAILKEHNVSDEQINELFQA----LTQNP---L-AAMATI-QQLGIPQEKLQQL 49 (82)
T ss_pred hHHHHHHHcCCCHHHHHHHHHH----HhhCH---H-HHHHHH-HHcCCCHHHHHHH
Confidence 5677778888888777666533 22222 1 234444 3688888776544
No 87
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=36.78 E-value=47 Score=33.74 Aligned_cols=65 Identities=18% Similarity=0.311 Sum_probs=33.7
Q ss_pred hhhhHHHHHhhcC-CChhhHHHhhhccccccccccccchHHHHHHHH-HhcCChHHHHHHHHhccchhccC
Q 011206 323 WNTRCIFLSKELG-APRDDVVKMVTKHPQLLHYSIDDGLLPRINFLR-SIGMRNSDILKVLRSLTQVLSLS 391 (491)
Q Consensus 323 l~~kl~~L~~~LG-~s~~ev~~ml~~~P~lL~~sie~~L~~kvefL~-~lG~s~eei~~ml~r~P~iL~~S 391 (491)
++.++.|..+..| |+.-.+..-++..|.++..+ ++.++.+++-|. -+|+...+. ..|+|.=|+-.
T Consensus 73 LRr~IGYviQqigLFPh~Tv~eNIa~VP~L~~w~-k~~i~~r~~ELl~lvgL~p~~~---~~RyP~eLSGG 139 (309)
T COG1125 73 LRRKIGYVIQQIGLFPHLTVAENIATVPKLLGWD-KERIKKRADELLDLVGLDPSEY---ADRYPHELSGG 139 (309)
T ss_pred HHHhhhhhhhhcccCCCccHHHHHHhhhhhcCCC-HHHHHHHHHHHHHHhCCCHHHH---hhcCchhcCcc
Confidence 4444444444444 33344555555566666655 445555555554 356655443 35566555544
No 88
>PF08243 SPT2: SPT2 chromatin protein; InterPro: IPR013256 This entry includes the Saccharomyces cerevisiae (Baker's yeast) protein SPT2 which is a chromatin protein involved in transcriptional regulation []. These proteins shows conservation of several domains across numerous species, including having a cluster of positively charged amino acids. This cluster probably functions in the binding properties of the proteins []. Sin1p/Spt2p probably modulates the local chromatin structure by binding two strands of double-stranded DNA at their crossover point. Sin1p/Spt2p has sequence similarity to HMG1 and serves as a negative transcriptional regulator of a small family of genes that are activated by the SWI/SNF chromatin-remodelling complex. It is also involved in maintaining the integrity of chromatin during transcription elongation. Sin1p/Spt2 is required for, and is directly involved in, the efficient recruitment of the mRNA cleavage/polyadenylation complex []. Spt2 is also involved in regulating levels of histone H3 over transcribed regions [].
Probab=36.68 E-value=23 Score=31.22 Aligned_cols=6 Identities=33% Similarity=0.661 Sum_probs=2.2
Q ss_pred CCcccc
Q 011206 46 TNRKSR 51 (491)
Q Consensus 46 ~~~~~~ 51 (491)
|+.+.+
T Consensus 5 ~~~~~~ 10 (116)
T PF08243_consen 5 PKKKPR 10 (116)
T ss_pred CCCCcc
Confidence 333333
No 89
>KOG0699 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=36.25 E-value=28 Score=36.61 Aligned_cols=7 Identities=14% Similarity=0.358 Sum_probs=3.6
Q ss_pred HHHHHHH
Q 011206 288 PTVRYLV 294 (491)
Q Consensus 288 p~v~~L~ 294 (491)
..|.|.+
T Consensus 454 eVVdFvr 460 (542)
T KOG0699|consen 454 EVVDFVR 460 (542)
T ss_pred HHHHHHH
Confidence 3555554
No 90
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=35.94 E-value=1.4e+02 Score=24.15 Aligned_cols=46 Identities=9% Similarity=0.335 Sum_probs=27.1
Q ss_pred hHHHHHhcCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCCChhhHHH
Q 011206 181 PLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRR 233 (491)
Q Consensus 181 ~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGls~~~l~k 233 (491)
|.+..|+.+.+|+.+|..++.. -.++....+..+..+|++.+.+..
T Consensus 3 PIia~LKehnvsd~qi~elFq~-------lT~NPl~AMa~i~qLGip~eKLQ~ 48 (82)
T PF11212_consen 3 PIIAILKEHNVSDEQINELFQA-------LTQNPLAAMATIQQLGIPQEKLQQ 48 (82)
T ss_pred hHHHHHHHcCCCHHHHHHHHHH-------HhhCHHHHHHHHHHcCCCHHHHHH
Confidence 5566677777777776665532 123444555666666666665543
No 91
>PF08069 Ribosomal_S13_N: Ribosomal S13/S15 N-terminal domain; InterPro: IPR012606 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found at the N terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 2XZN_O 2XZM_O 3IZ6_O.
Probab=35.92 E-value=22 Score=27.72 Aligned_cols=35 Identities=17% Similarity=0.109 Sum_probs=20.0
Q ss_pred cCCccccCccCHHHHHHHHHHCCCChhhHHHHHhh
Q 011206 203 HMPSLQINVCSARERLEYLLSVGVKQRDVRRILLR 237 (491)
Q Consensus 203 ~P~lL~~~~~~l~~~l~fL~slGls~~~l~kli~~ 237 (491)
.|.++..+++.+++.+--|..-|+++++|+-++..
T Consensus 22 ~P~W~~~~~~eVe~~I~klakkG~tpSqIG~iLRD 56 (60)
T PF08069_consen 22 PPSWLKYSPEEVEELIVKLAKKGLTPSQIGVILRD 56 (60)
T ss_dssp --TT--S-HHHHHHHHHHHCCTTHCHHHHHHHHHH
T ss_pred CCCCcCCCHHHHHHHHHHHHHcCCCHHHhhhhhhh
Confidence 45666666666666666666677777777666654
No 92
>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed
Probab=35.87 E-value=65 Score=29.75 Aligned_cols=37 Identities=16% Similarity=-0.019 Sum_probs=27.3
Q ss_pred cCCccccCccCHHHHHHHHHHCCCChhhHHHHHhhCC
Q 011206 203 HMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQP 239 (491)
Q Consensus 203 ~P~lL~~~~~~l~~~l~fL~slGls~~~l~kli~~~P 239 (491)
.|.++.++++.+++.+--|..-|+++++|+-++...-
T Consensus 22 ~P~W~~~~~eeve~~I~~lakkG~~pSqIG~~LRD~~ 58 (151)
T PRK08561 22 PPEWVDYSPEEIEELVVELAKQGYSPSMIGIILRDQY 58 (151)
T ss_pred CCccccCCHHHHHHHHHHHHHCCCCHHHhhhhHhhcc
Confidence 4567777777777777778888888888877776543
No 93
>KOG0400 consensus 40S ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=35.18 E-value=28 Score=31.33 Aligned_cols=60 Identities=17% Similarity=0.136 Sum_probs=31.1
Q ss_pred cCCccccCccCHHHHHHHHHHCCCChhhHHHHHhhCCcccccccccchHHHHHHHHHcCCC
Q 011206 203 HMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIP 263 (491)
Q Consensus 203 ~P~lL~~~~~~l~~~l~fL~slGls~~~l~kli~~~P~iL~~s~e~~L~p~v~fL~~lGls 263 (491)
.|.++..+++++.+.+--|...|+++++|+-++...-.|=.... -.=...+.+|++.|+-
T Consensus 22 ~PtWlK~~~ddvkeqI~K~akKGltpsqIGviLRDshGi~q~r~-v~G~kI~Rilk~~Gl~ 81 (151)
T KOG0400|consen 22 VPTWLKLTADDVKEQIYKLAKKGLTPSQIGVILRDSHGIGQVRF-VTGNKILRILKSNGLA 81 (151)
T ss_pred CcHHHhcCHHHHHHHHHHHHHcCCChhHceeeeecccCcchhhe-echhHHHHHHHHcCCC
Confidence 35555556666666666666666666666655544433333322 1112233455555543
No 94
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=35.02 E-value=16 Score=42.26 Aligned_cols=56 Identities=25% Similarity=0.461 Sum_probs=27.4
Q ss_pred hHhHHHHHhcCC-CCHHHHHHHHHhcCCccccCcc---CHHHHHHHHHHCCCChhhH---HHHHhhCC
Q 011206 179 WLPLLDYLSTFG-LKESHFIQMYERHMPSLQINVC---SARERLEYLLSVGVKQRDV---RRILLRQP 239 (491)
Q Consensus 179 ~~~vl~fL~slG-~s~~~I~~il~r~P~lL~~~~~---~l~~~l~fL~slGls~~~l---~kli~~~P 239 (491)
|.-+.++..++| +..+.+ .+.+ .+..+|. -+.++...++..|--...+ .+++...|
T Consensus 210 W~~ladls~~~~~i~qA~~--cy~r---AI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p 272 (895)
T KOG2076|consen 210 WKRLADLSEQLGNINQARY--CYSR---AIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDP 272 (895)
T ss_pred HHHHHHHHHhcccHHHHHH--HHHH---HHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCC
Confidence 445555666677 333322 1121 2334443 3556667777777544333 34444455
No 95
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=34.95 E-value=25 Score=38.67 Aligned_cols=33 Identities=24% Similarity=0.396 Sum_probs=20.1
Q ss_pred ccchHHHHHHHHHhcC--ChHHHHHHHHhccchhc
Q 011206 357 DDGLLPRINFLRSIGM--RNSDILKVLRSLTQVLS 389 (491)
Q Consensus 357 e~~L~~kvefL~~lG~--s~eei~~ml~r~P~iL~ 389 (491)
+.+.+=.|+||.++|+ =.++++.-++..|.+-.
T Consensus 620 p~n~RfsINfFTsIGLGgLTeelRe~L~~~pk~~~ 654 (739)
T KOG2140|consen 620 PRNTRFSINFFTSIGLGGLTEELREYLKNMPKVED 654 (739)
T ss_pred cccceeeeehhhhhccccchHHHHHHHHhcchhhh
Confidence 3455556788886554 34677766666665433
No 96
>PF05320 Pox_RNA_Pol_19: Poxvirus DNA-directed RNA polymerase 19 kDa subunit; InterPro: IPR007984 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. The poxvirus DNA-directed RNA polymerase (2.7.7.6 from EC) catalyses the transcription of DNA into RNA. It consists of at least eight subunits, this is the 19 kDa subunit.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=34.91 E-value=17 Score=33.44 Aligned_cols=6 Identities=17% Similarity=0.263 Sum_probs=2.3
Q ss_pred hccccc
Q 011206 273 ATPSLF 278 (491)
Q Consensus 273 ~~P~lL 278 (491)
++..+|
T Consensus 135 KNGElL 140 (167)
T PF05320_consen 135 KNGELL 140 (167)
T ss_pred eCCeEc
Confidence 333333
No 97
>KOG4813 consensus Translation initiation factor eIF3, p35 subunit [Translation, ribosomal structure and biogenesis]
Probab=34.70 E-value=48 Score=32.79 Aligned_cols=13 Identities=31% Similarity=0.690 Sum_probs=7.9
Q ss_pred CCCCcccCCcccc
Q 011206 78 KEDDWLADDDDFA 90 (491)
Q Consensus 78 ~~~~~~~~~~~~~ 90 (491)
==|+|++||++-.
T Consensus 33 v~dsWeDdDeEk~ 45 (248)
T KOG4813|consen 33 VKDSWEDDDEEKK 45 (248)
T ss_pred hhccccccccccc
Confidence 4577877773333
No 98
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=34.61 E-value=1.4e+02 Score=34.51 Aligned_cols=121 Identities=19% Similarity=0.243 Sum_probs=75.4
Q ss_pred ccCHHHHHHHHHH---CCCChhhHHHHHhhCCcccccccccchHHHHHHHHHc-CCCchhhhhhhhhcccccccccccch
Q 011206 211 VCSARERLEYLLS---VGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISL-GIPNSKIGQIIAATPSLFSYSVENSL 286 (491)
Q Consensus 211 ~~~l~~~l~fL~s---lGls~~~l~kli~~~P~iL~~s~e~~L~p~v~fL~~l-Gls~~~I~kll~~~P~lL~~s~e~~l 286 (491)
+.+....+.||.+ -|+.+....+++..+..=. -+.|....+.|.++ |++.+.+..+...+.. . ...
T Consensus 74 p~~~~~i~~yL~s~~~~GIG~~~A~~iv~~fg~~~----~~~i~~~~~~L~~v~gi~~~~~~~i~~~~~~----~--~~~ 143 (720)
T TIGR01448 74 PTSKEGIVAYLSSRSIKGVGKKLAQRIVKTFGEAA----FDVLDDDPEKLLEVPGISKANLEKFVSQWSQ----Q--GDE 143 (720)
T ss_pred CCCHHHHHHHHhcCCCCCcCHHHHHHHHHHhCHhH----HHHHHhCHHHHhcCCCCCHHHHHHHHHHHHH----h--HHH
Confidence 4466777888886 3888888888887765422 23344445567776 9998888777766421 1 125
Q ss_pred hHHHHHHHHHhCCChhhHH-----------HHHhhCccceecccch-hhhhhHHHHHhhcCCChhhHHH
Q 011206 287 KPTVRYLVEEVGINEKSLG-----------KVVQLSPQVLVQRIDI-SWNTRCIFLSKELGAPRDDVVK 343 (491)
Q Consensus 287 ~p~v~~L~~~lGvs~~~l~-----------kll~~~P~lL~~~~e~-~l~~kl~~L~~~LG~s~~ev~~ 343 (491)
...+.||. .+|++...+. .+|..+|+.|...+.. .+ .+++.+...+|+..++-.+
T Consensus 144 ~~~~~~L~-~~gi~~~~a~ki~~~yg~~~~~~i~~nPY~L~~~i~gigF-~~aD~iA~~~g~~~~d~~R 210 (720)
T TIGR01448 144 RRLLAGLQ-GLGIGIKLAQRIYKFYQADTLDRVEKDPYLLAEDVKGIGF-LTADQLAQALGIALNDPRR 210 (720)
T ss_pred HHHHHHHH-HcCCCHHHHHHHHHHHhHHHHHHHHhCchhhhhhcCCCCH-HHHHHHHHHcCCCCCCHHH
Confidence 66788885 8999986644 4566778877654321 12 1233344567776655433
No 99
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=33.98 E-value=25 Score=38.75 Aligned_cols=12 Identities=8% Similarity=0.465 Sum_probs=5.5
Q ss_pred hhHHHhhhcccc
Q 011206 339 DDVVKMVTKHPQ 350 (491)
Q Consensus 339 ~ev~~ml~~~P~ 350 (491)
++++.-++..|.
T Consensus 640 eelRe~L~~~pk 651 (739)
T KOG2140|consen 640 EELREYLKNMPK 651 (739)
T ss_pred HHHHHHHHhcch
Confidence 444444444443
No 100
>PF11081 DUF2890: Protein of unknown function (DUF2890); InterPro: IPR021304 This entry contains the 33kDa and 22kDa phosphoproteins from vertebrate adenoviruses.
Probab=33.97 E-value=32 Score=32.91 Aligned_cols=8 Identities=25% Similarity=0.231 Sum_probs=3.6
Q ss_pred CHHHHHHH
Q 011206 213 SARERLEY 220 (491)
Q Consensus 213 ~l~~~l~f 220 (491)
.+..++.+
T Consensus 168 ~l~r~l~d 175 (187)
T PF11081_consen 168 QLQRTLED 175 (187)
T ss_pred HHHHHHHH
Confidence 34444444
No 101
>KOG1980 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.49 E-value=18 Score=40.43 Aligned_cols=14 Identities=7% Similarity=0.154 Sum_probs=7.6
Q ss_pred cccCHHHHHHHhcC
Q 011206 452 FIPTDECFCQKWAG 465 (491)
Q Consensus 452 l~~sdk~F~~~~~~ 465 (491)
|..-|..++.-|-.
T Consensus 728 LksqDtV~MsLYKR 741 (754)
T KOG1980|consen 728 LKSQDTVMMSLYKR 741 (754)
T ss_pred ccccchHHHHHHHh
Confidence 44556666655533
No 102
>PF03517 Voldacs: Regulator of volume decrease after cellular swelling; InterPro: IPR003521 The nucleotide-sensitive chloride conductance regulatory protein (ICln) is found ubiquitously in mammalian (and other) cell types and is postulated to play a critical role in cell volume regulation. Initial studies proposed that ICln was itself a swelling-activated anion channel; however, further studies demonstrated that it is localised primarily to the cell cytoplasm. It has therefore been postulated that activation of cell volume regulation may involve reversible translocation of ICln from the cytoplasm, and its insertion into the plasma membrane. It is not resolved whether the anionic channel involved in cell volume regulation after cell-swelling comprises one or more subunits, and if it does, whether ICln is in fact one of them [].; GO: 0006821 chloride transport, 0006884 cell volume homeostasis; PDB: 1ZYI_A.
Probab=32.67 E-value=15 Score=33.12 Aligned_cols=10 Identities=20% Similarity=0.471 Sum_probs=2.6
Q ss_pred cchhhccccc
Q 011206 13 PATILHSHSL 22 (491)
Q Consensus 13 ~~~~~~~~~~ 22 (491)
|-++..-||+
T Consensus 25 pY~sI~lHAi 34 (135)
T PF03517_consen 25 PYPSISLHAI 34 (135)
T ss_dssp SS---SEEE-
T ss_pred cCCeEEEEEe
Confidence 3334444444
No 103
>KOG2897 consensus DNA-binding protein YL1 and related proteins [General function prediction only]
Probab=32.10 E-value=25 Score=36.96 Aligned_cols=9 Identities=11% Similarity=-0.057 Sum_probs=4.2
Q ss_pred ccccccccc
Q 011206 88 DFAEIEEYD 96 (491)
Q Consensus 88 ~~~~~~~~~ 96 (491)
+++++.++.
T Consensus 87 ~~~k~~vl~ 95 (390)
T KOG2897|consen 87 EDAKRKVLR 95 (390)
T ss_pred cccccchhh
Confidence 444455553
No 104
>KOG2229 consensus Protein required for actin cytoskeleton organization and cell cycle progression [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=31.22 E-value=18 Score=39.49 Aligned_cols=11 Identities=27% Similarity=0.211 Sum_probs=8.9
Q ss_pred eeccccccccC
Q 011206 36 STHSNAKILKT 46 (491)
Q Consensus 36 ~~~~~~~~~~~ 46 (491)
.+|++|||+=.
T Consensus 146 cf~~~~ki~vs 156 (616)
T KOG2229|consen 146 CFSKVPKILVS 156 (616)
T ss_pred HhccCcHHHHh
Confidence 57999999865
No 105
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=31.07 E-value=63 Score=23.48 Aligned_cols=23 Identities=13% Similarity=0.195 Sum_probs=16.2
Q ss_pred HhHHHHHhcCCCCHHHHHHHHHh
Q 011206 180 LPLLDYLSTFGLKESHFIQMYER 202 (491)
Q Consensus 180 ~~vl~fL~slG~s~~~I~~il~r 202 (491)
..+++-|.++||++.++.+++.+
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~ 26 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSK 26 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHH
Confidence 35677778888888888887765
No 106
>cd08315 Death_TRAILR_DR4_DR5 Death domain of Tumor necrosis factor-Related Apoptosis-Inducing Ligand Receptors. Death Domain (DD) found in Tumor necrosis factor-Related Apoptosis-Inducing Ligand (TRAIL) Receptors. In mammals, this family includes TRAILR1 (also called DR4 or TNFRSF10A) and TRAILR2 (also called DR5, TNFRSF10B, or KILLER). They function as receptors for the cytokine TRAIL and are involved in apoptosis signaling pathways. TRAIL preferentially induces apoptosis in cancer cells while exhibiting little toxicity in normal cells. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=30.99 E-value=1.9e+02 Score=24.45 Aligned_cols=54 Identities=11% Similarity=0.123 Sum_probs=34.7
Q ss_pred hhhhhhhhhccccCChHhHHHHHhcCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHH-CC
Q 011206 164 NRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS-VG 225 (491)
Q Consensus 164 ~~~p~l~~~~d~e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~s-lG 225 (491)
..|+.+++.+++ ...-.+.+.+|++..+|..|-..+|. +.+...+.|..|+. .|
T Consensus 8 ~~f~~i~~~V~~----~~Wk~laR~LGLse~~I~~i~~~~~~----~~eq~~qmL~~W~~~~G 62 (96)
T cd08315 8 RSFDHFIKEVPF----DSWNRLMRQLGLSENEIDVAKANERV----TREQLYQMLLTWVNKTG 62 (96)
T ss_pred HHHHHHHHHCCH----HHHHHHHHHcCCCHHHHHHHHHHCCC----CHHHHHHHHHHHHHhhC
Confidence 346666644442 23455668899999999998888764 23456666666654 45
No 107
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=30.94 E-value=71 Score=23.20 Aligned_cols=25 Identities=20% Similarity=0.414 Sum_probs=17.5
Q ss_pred HHHHHHHHHHCCCChhhHHHHHhhC
Q 011206 214 ARERLEYLLSVGVKQRDVRRILLRQ 238 (491)
Q Consensus 214 l~~~l~fL~slGls~~~l~kli~~~ 238 (491)
..+.++.|.++|++..++.+++..-
T Consensus 3 ~~d~~~AL~~LGy~~~e~~~av~~~ 27 (47)
T PF07499_consen 3 LEDALEALISLGYSKAEAQKAVSKL 27 (47)
T ss_dssp HHHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 3466778888888888888777653
No 108
>smart00784 SPT2 SPT2 chromatin protein. This entry includes the Saccharomyces cerevisiae protein SPT2 which is a chromatin protein involved in transcriptional regulation PUBMED:15563464.
Probab=30.68 E-value=35 Score=29.91 Aligned_cols=50 Identities=22% Similarity=0.336 Sum_probs=0.0
Q ss_pred ccccccccCCccccCCCCCCCCCCCCcccCCCCCCCCCCCCC--------------CCcccCCccccc
Q 011206 38 HSNAKILKTNRKSRYGQTLSLYDDDSEEEGEDDDDDDDEGKE--------------DDWLADDDDFAE 91 (491)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~ 91 (491)
+.++. |+.++.++ ....|+.+.++|.|+.-++|+++++ --|-.+||+++.
T Consensus 3 ~~~~~---~~~~~~~~-~~~d~~~e~d~d~ddFi~ddeee~~~~~~~I~~~f~~~~~r~~~~ddd~dD 66 (111)
T smart00784 3 SGPTS---PRLERSRR-SRDDYDEEEDEDMDDFIEDDDEEDDYDRDEIWAMFNKGRKRYAYRDDDDDD 66 (111)
T ss_pred CCCCC---CCcccccc-ccccccchhhhhhhccccCccchhhhHHHHHHHHHcCCcccccccccccch
No 109
>PHA01351 putative minor structural protein
Probab=30.57 E-value=6.9e+02 Score=28.94 Aligned_cols=65 Identities=6% Similarity=-0.011 Sum_probs=45.3
Q ss_pred ccCChHhHHHHHhcCCCCHHHHHHHHHhc--CCcccc---------C--ccCHHHHHHHHHHCCCChhhHHHHHhhCC
Q 011206 175 LDEKWLPLLDYLSTFGLKESHFIQMYERH--MPSLQI---------N--VCSARERLEYLLSVGVKQRDVRRILLRQP 239 (491)
Q Consensus 175 ~e~~~~~vl~fL~slG~s~~~I~~il~r~--P~lL~~---------~--~~~l~~~l~fL~slGls~~~l~kli~~~P 239 (491)
+.=.+....+-|+.+|++++-+..|+.-+ -+.+.. + +-+....-.-|+.+|++++.+.-++..+-
T Consensus 639 f~IspkeAitELKKL~ISdaLAn~IV~eYf~iP~l~~q~TViEnIikgvpint~~~~~ELKKL~IpdSqInil~t~yy 716 (1070)
T PHA01351 639 FQIDPKEAETELKKLNINEYLANQIIQEEYNINIAKLQLSVLETIAKTLYYDQQQLSGELKKIHKDKTALELYITKFY 716 (1070)
T ss_pred cccCHHHHHHHHHHcCchHHHHHHHHHHHhcchHHHHHHHHHHHHHhcCCcchHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 34466788999999999999888888765 222211 1 11344456778899999999888877654
No 110
>PF11359 gpUL132: Glycoprotein UL132; InterPro: IPR021023 Glycoprotein UL132 is a low-abundance structural component of Human herpesvirus 5 []. The function of this protein is not fully understood.
Probab=30.25 E-value=21 Score=34.65 Aligned_cols=37 Identities=27% Similarity=0.276 Sum_probs=25.2
Q ss_pred ccccchhccCCcchhhcccccccccCCCCceEEEeecccccccc
Q 011206 2 SLLCLHSVFSSPATILHSHSLVQTRPNTPRFVVLSTHSNAKILK 45 (491)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 45 (491)
|+||||.| |++-.-+.|-++|.+. .-|+=..-+.+|+
T Consensus 62 sllsli~V-----tvaalYsSC~~~pg~~--~~f~~de~~~lld 98 (235)
T PF11359_consen 62 SLLSLIVV-----TVAALYSSCCRRPGRL--TRFDDDEAVNLLD 98 (235)
T ss_pred HHHHHHHH-----HHHHHHHHHHhCCCcc--cccChhhhhcccc
Confidence 68899987 5677777887777763 2344455566677
No 111
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=30.24 E-value=4e+02 Score=24.01 Aligned_cols=86 Identities=13% Similarity=0.087 Sum_probs=49.1
Q ss_pred HHHHHhcCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCC-CChhhHHHHHhhCCcccccccccchHHHHHHHHHc
Q 011206 182 LLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVG-VKQRDVRRILLRQPQILEYTVENNLESHVAFLISL 260 (491)
Q Consensus 182 vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slG-ls~~~l~kli~~~P~iL~~s~e~~L~p~v~fL~~l 260 (491)
.+.+|..-.-|..+|..-+.+. .++.+.+..+|+.|...| +++...+....+.-.--..+ -.....-|..-
T Consensus 17 al~~L~~r~~s~~el~~kL~~k----g~~~~~i~~vl~~l~~~~~ldD~~~a~~~~~~~~~~~~g----~~~I~~~L~~k 88 (157)
T PRK00117 17 ALRLLARREHSRAELRRKLAAK----GFSEEVIEAVLDRLKEEGLLDDERFAESFVRSRARKGYG----PRRIRQELRQK 88 (157)
T ss_pred HHHHHccchhHHHHHHHHHHhc----CCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCCch----HHHHHHHHHHc
Confidence 3555555555566665555442 234455666777788777 45556555444332111111 22334677889
Q ss_pred CCCchhhhhhhhhcc
Q 011206 261 GIPNSKIGQIIAATP 275 (491)
Q Consensus 261 Gls~~~I~kll~~~P 275 (491)
|++.+.|..++...+
T Consensus 89 Gi~~~~I~~~l~~~~ 103 (157)
T PRK00117 89 GVDREIIEEALAELD 103 (157)
T ss_pred CCCHHHHHHHHHHcC
Confidence 999998888887643
No 112
>PF07767 Nop53: Nop53 (60S ribosomal biogenesis); InterPro: IPR011687 This entry contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60) []. This protein has been found to interact with herpes simplex type 1 regulatory proteins, but its exact role in the life cycle of the virus is not known [].
Probab=30.11 E-value=35 Score=36.13 Aligned_cols=24 Identities=17% Similarity=0.141 Sum_probs=13.0
Q ss_pred cccccccccCCCCceEEEeecccc
Q 011206 18 HSHSLVQTRPNTPRFVVLSTHSNA 41 (491)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~ 41 (491)
..+.+-++.|.+....-.+++.++
T Consensus 149 ~~~~~~~~~p~~~k~~P~~~~~~~ 172 (387)
T PF07767_consen 149 DEHPKPVVAPKTLKHRPKSLKAKP 172 (387)
T ss_pred hhhcccccCCCCCCCCCccccccc
Confidence 345555666666654445555554
No 113
>PRK14135 recX recombination regulator RecX; Provisional
Probab=29.12 E-value=5.7e+02 Score=25.20 Aligned_cols=110 Identities=14% Similarity=0.109 Sum_probs=59.5
Q ss_pred cchhhhhhhhhhhhhccccCChHhHHHHHhcCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCC-ChhhHHHHHh
Q 011206 158 TRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGV-KQRDVRRILL 236 (491)
Q Consensus 158 ~~~~~~~~~p~l~~~~d~e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGl-s~~~l~kli~ 236 (491)
|.......+..+........-....+.+|..-.-+..+|.+-+.+. .++.+.+..+++.|...|. ++...+....
T Consensus 39 g~~l~~~~~~~i~~~~~~~~a~~~Al~~L~~r~~s~~el~~kL~~k----g~~~~~Ie~vl~~l~~~~~ldD~~~a~~~~ 114 (263)
T PRK14135 39 GKELDEEDLEEIQYADQVSKGKNLALYYLSYQMRTEKEVRDYLKKH----EISEEIISEVIDKLKEEKYIDDKEYAESYV 114 (263)
T ss_pred CCcCCHHHHHHHHHHHHHHHHHHHHHHHhhhccccHHHHHHHHHHC----CCCHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence 3444444444444222222223345777777677777777766543 3455667888888888774 5555554443
Q ss_pred hCCcccccccccchHHHHHHHHHcCCCchhhhhhhhhc
Q 011206 237 RQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAAT 274 (491)
Q Consensus 237 ~~P~iL~~s~e~~L~p~v~fL~~lGls~~~I~kll~~~ 274 (491)
.. .+.... ..-.....-|...|++.+.|..+|...
T Consensus 115 ~~--~~~~~~-~g~~~I~~kL~~kGi~~~~Ie~~l~~l 149 (263)
T PRK14135 115 RT--NINTGD-KGPRVIKQKLLQKGIEDEIIEEALSEY 149 (263)
T ss_pred HH--HHhccc-cchHHHHHHHHHcCCCHHHHHHHHHhC
Confidence 32 111110 111223356677788888887777643
No 114
>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains. The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.
Probab=29.10 E-value=33 Score=39.15 Aligned_cols=7 Identities=14% Similarity=0.368 Sum_probs=3.3
Q ss_pred ccccccc
Q 011206 19 SHSLVQT 25 (491)
Q Consensus 19 ~~~~~~~ 25 (491)
-|+.|++
T Consensus 299 N~~~C~~ 305 (763)
T TIGR00993 299 NHPACRK 305 (763)
T ss_pred cCCcccC
Confidence 3445544
No 115
>PF15402 Spc7_N: N-terminus of kinetochore NMS complex subunit Spc7
Probab=28.56 E-value=46 Score=39.26 Aligned_cols=8 Identities=50% Similarity=0.688 Sum_probs=3.9
Q ss_pred CCCCCCCc
Q 011206 57 SLYDDDSE 64 (491)
Q Consensus 57 ~~~~~~~~ 64 (491)
++|+.|.+
T Consensus 275 s~~s~~s~ 282 (927)
T PF15402_consen 275 SPFSSDSE 282 (927)
T ss_pred CCCCCCCC
Confidence 44555543
No 116
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=28.11 E-value=30 Score=38.15 Aligned_cols=18 Identities=28% Similarity=0.427 Sum_probs=9.9
Q ss_pred HHhhcCCChhhHHHhhhc
Q 011206 330 LSKELGAPRDDVVKMVTK 347 (491)
Q Consensus 330 L~~~LG~s~~ev~~ml~~ 347 (491)
+.+.+|++.+++..++..
T Consensus 380 LAe~Lgis~e~V~~~~~~ 397 (509)
T PRK05901 380 LAKEMGFTPEKVREIQKY 397 (509)
T ss_pred HHHHhCCCHHHHHHHHHh
Confidence 345566666666555433
No 117
>PRK14135 recX recombination regulator RecX; Provisional
Probab=27.98 E-value=3.5e+02 Score=26.74 Aligned_cols=60 Identities=17% Similarity=0.179 Sum_probs=35.0
Q ss_pred HHHHHHHHHHCCCChhhHHHHHhhCCcc--------cccc--------cccch-HHHHHHHHHcCCCchhhhhhhhh
Q 011206 214 ARERLEYLLSVGVKQRDVRRILLRQPQI--------LEYT--------VENNL-ESHVAFLISLGIPNSKIGQIIAA 273 (491)
Q Consensus 214 l~~~l~fL~slGls~~~l~kli~~~P~i--------L~~s--------~e~~L-~p~v~fL~~lGls~~~I~kll~~ 273 (491)
......-|...|++...|..++.....- +... ..... .....+|..-|++.+.|..++..
T Consensus 125 ~~~I~~kL~~kGi~~~~Ie~~l~~l~~~~~~d~a~~~~~k~~~~~~~~~~~~~k~Ki~~~L~rkGf~~~~I~~~l~~ 201 (263)
T PRK14135 125 PRVIKQKLLQKGIEDEIIEEALSEYTEEDQIEVAQKLAEKLLKKYQKLPFKALKQKIIQSLLTKGFSYEVIKAALEE 201 (263)
T ss_pred hHHHHHHHHHcCCCHHHHHHHHHhCChhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence 3445567788899999888888754210 0000 00011 12346777778888777777754
No 118
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=27.62 E-value=3.1e+02 Score=24.78 Aligned_cols=109 Identities=15% Similarity=0.104 Sum_probs=56.2
Q ss_pred HhHHHHHhcCCCCHHHHHHHHHhcCCccccC---------------ccCHHHHHHHHHHCCCChhhHHHHHhhCCccccc
Q 011206 180 LPLLDYLSTFGLKESHFIQMYERHMPSLQIN---------------VCSARERLEYLLSVGVKQRDVRRILLRQPQILEY 244 (491)
Q Consensus 180 ~~vl~fL~slG~s~~~I~~il~r~P~lL~~~---------------~~~l~~~l~fL~slGls~~~l~kli~~~P~iL~~ 244 (491)
..+.+.|...|+++..|..++.+....=..+ ........+-|...|++...|..++...+ .
T Consensus 29 ~el~~kL~~kg~~~~~i~~vl~~l~~~~~ldD~~~a~~~~~~~~~~~~g~~~I~~~L~~kGi~~~~I~~~l~~~~----~ 104 (157)
T PRK00117 29 AELRRKLAAKGFSEEVIEAVLDRLKEEGLLDDERFAESFVRSRARKGYGPRRIRQELRQKGVDREIIEEALAELD----I 104 (157)
T ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCCchHHHHHHHHHHcCCCHHHHHHHHHHcC----c
Confidence 3455566666666666666665432211011 11233344677778888888887777643 1
Q ss_pred ccccchHHHHHHHHHcCCCchhhhhhhhhcccccccccccchhHHHHHHHHHhCCChhhHHHHHhh
Q 011206 245 TVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQL 310 (491)
Q Consensus 245 s~e~~L~p~v~fL~~lGls~~~I~kll~~~P~lL~~s~e~~l~p~v~~L~~~lGvs~~~l~kll~~ 310 (491)
+ ........+.. ++...-..+. ..-...+.+|. .-||+.+.|..++..
T Consensus 105 d---~~e~a~~~~~k-------------~~~~~~~~~~-~~k~Ki~~~L~-rkGF~~~~I~~~l~~ 152 (157)
T PRK00117 105 D---WEELARELARK-------------KFRRPLPDDA-KEKAKLVRFLA-RRGFSMDVIQRVLRN 152 (157)
T ss_pred c---HHHHHHHHHHH-------------HcCCCCCCCH-HHHHHHHHHHH-HCCCCHHHHHHHHHh
Confidence 1 11111111111 1111111121 12345678886 789999999888864
No 119
>PLN03078 Putative tRNA pseudouridine synthase; Provisional
Probab=27.55 E-value=66 Score=35.49 Aligned_cols=21 Identities=14% Similarity=0.273 Sum_probs=10.8
Q ss_pred hhhhHHHHHhhcCCChhhHHH
Q 011206 323 WNTRCIFLSKELGAPRDDVVK 343 (491)
Q Consensus 323 l~~kl~~L~~~LG~s~~ev~~ 343 (491)
|+..++.|.+-.+++.+++..
T Consensus 468 w~~w~~nl~~~~~~~~~~~~~ 488 (513)
T PLN03078 468 WKEWVENLDRFTSIPDAQLDE 488 (513)
T ss_pred HHHHHHHHHhhcCCCHHHHHH
Confidence 444455444455666655543
No 120
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=27.26 E-value=1.1e+02 Score=26.07 Aligned_cols=22 Identities=14% Similarity=0.531 Sum_probs=13.1
Q ss_pred CCChhhHHHHHhhCCccccccc
Q 011206 225 GVKQRDVRRILLRQPQILEYTV 246 (491)
Q Consensus 225 Gls~~~l~kli~~~P~iL~~s~ 246 (491)
.++.+++..++..+|.++.+.+
T Consensus 70 ~~s~~e~i~~l~~~p~LikRPI 91 (110)
T PF03960_consen 70 DLSDEELIELLLENPKLIKRPI 91 (110)
T ss_dssp TSBHHHHHHHHHHSGGGB-SSE
T ss_pred hhhhHHHHHHHHhChhheeCCE
Confidence 4566666666666666665554
No 121
>PF02022 Integrase_Zn: Integrase Zinc binding domain The structure of the N-terminal zinc binding domain.; InterPro: IPR003308 Retroviral integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains: an N-terminal zinc binding domain, a central catalytic core and a C-terminal DNA-binding domain [, ]. Often found as part of the POL polyprotein.; GO: 0008270 zinc ion binding; PDB: 1E0E_A 3F9K_F 1E27_C 1K6Y_B 1WJD_A 1WJB_A 1WJF_A 1WJE_B 3HPG_B 3HPH_C ....
Probab=27.10 E-value=83 Score=22.41 Aligned_cols=29 Identities=10% Similarity=0.143 Sum_probs=20.1
Q ss_pred hHHHHHHHH-HhcCChHHHHHHHHhccchh
Q 011206 360 LLPRINFLR-SIGMRNSDILKVLRSLTQVL 388 (491)
Q Consensus 360 L~~kvefL~-~lG~s~eei~~ml~r~P~iL 388 (491)
+-.....|. ++|++......||..||.|-
T Consensus 8 ~H~n~~~L~~~f~ip~~vAk~IV~~C~~Cq 37 (40)
T PF02022_consen 8 YHSNAKALRHKFGIPRLVAKQIVNQCPKCQ 37 (40)
T ss_dssp HHH-HHHHHHHHT--HHHHHHHHHHSCCHH
T ss_pred HccCHHHHHHHHccCHHHHHHHHHHCHHHh
Confidence 445667787 78888888888888888763
No 122
>PF12527 DUF3727: Protein of unknown function (DUF3727) ; InterPro: IPR022203 This domain family is found in bacteria and eukaryotes, and is approximately 100 amino acids in length.
Probab=27.08 E-value=31 Score=29.63 Aligned_cols=11 Identities=9% Similarity=0.048 Sum_probs=6.6
Q ss_pred CCCCCCCCCcc
Q 011206 55 TLSLYDDDSEE 65 (491)
Q Consensus 55 ~~~~~~~~~~~ 65 (491)
.+|.|+.||-.
T Consensus 17 el~~~~eedi~ 27 (100)
T PF12527_consen 17 ELPEPEEEDIL 27 (100)
T ss_pred cCCCCChHHhh
Confidence 47777655543
No 123
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=26.98 E-value=1.7e+02 Score=24.09 Aligned_cols=35 Identities=23% Similarity=0.255 Sum_probs=24.8
Q ss_pred HhcCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHH
Q 011206 186 LSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS 223 (491)
Q Consensus 186 L~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~s 223 (491)
.+.+||+.++|..|-..||.-+. +.+...+.-|+.
T Consensus 20 ar~Lgls~~~I~~i~~~~p~~l~---eQv~~mL~~W~~ 54 (83)
T cd08319 20 LLDLGLSQTDIYRCKENHPHNVQ---SQIVEALVKWRQ 54 (83)
T ss_pred HHHcCCCHHHHHHHHHhCCCCHH---HHHHHHHHHHHH
Confidence 48899999999999998886431 344455555543
No 124
>KOG3555 consensus Ca2+-binding proteoglycan Testican [General function prediction only]
Probab=26.81 E-value=36 Score=35.52 Aligned_cols=23 Identities=30% Similarity=0.390 Sum_probs=0.0
Q ss_pred cccCCCCCCCCCCCCCCCcccCC
Q 011206 64 EEEGEDDDDDDDEGKEDDWLADD 86 (491)
Q Consensus 64 ~~~~~~~~~~~~~~~~~~~~~~~ 86 (491)
+|.+..+||+||||+||+..+++
T Consensus 409 ~e~el~~ddedded~~dg~aD~~ 431 (434)
T KOG3555|consen 409 SESELTSDDEDDEDSDDGSADQM 431 (434)
T ss_pred cccccccccccccccccCccccc
No 125
>PRK14136 recX recombination regulator RecX; Provisional
Probab=25.92 E-value=7.3e+02 Score=25.70 Aligned_cols=51 Identities=18% Similarity=0.115 Sum_probs=26.8
Q ss_pred HHHHHhcCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCC-ChhhHHHHHh
Q 011206 182 LLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGV-KQRDVRRILL 236 (491)
Q Consensus 182 vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGl-s~~~l~kli~ 236 (491)
.+.||..---+..+|.+-|.++ .++.+.+..+|+.|+..|+ ++...+..+.
T Consensus 168 AL~lLSrReRSe~ELr~KL~kk----G~~ee~IE~VIerLke~gYLDDeRFAesyV 219 (309)
T PRK14136 168 ALGYLSRREYSRAELARKLAPY----ADESDSVEPLLDALEREGWLSDARFAESLV 219 (309)
T ss_pred HHHHhhcccccHHHHHHHHHHc----CCCHHHHHHHHHHHHHcCCcCHHHHHHHHH
Confidence 4555555555666665555432 2334456666666666553 4555554444
No 126
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=25.82 E-value=1.1e+02 Score=31.25 Aligned_cols=87 Identities=15% Similarity=0.292 Sum_probs=58.8
Q ss_pred hhHHHHHHHHHhC-CChhhHHHHHhhCccceecccchhhhhhHHHHHhhcCCChhhHHHhhhccccccccccccchHHHH
Q 011206 286 LKPTVRYLVEEVG-INEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVVKMVTKHPQLLHYSIDDGLLPRI 364 (491)
Q Consensus 286 l~p~v~~L~~~lG-vs~~~l~kll~~~P~lL~~~~e~~l~~kl~~L~~~LG~s~~ev~~ml~~~P~lL~~sie~~L~~kv 364 (491)
++.++.|..+..| |+.-.+..=|...|.++.-+-+ .++.++..|.+.+|+++.+. ..++|.=|.-+ + +.++
T Consensus 73 LRr~IGYviQqigLFPh~Tv~eNIa~VP~L~~w~k~-~i~~r~~ELl~lvgL~p~~~---~~RyP~eLSGG-Q---QQRV 144 (309)
T COG1125 73 LRRKIGYVIQQIGLFPHLTVAENIATVPKLLGWDKE-RIKKRADELLDLVGLDPSEY---ADRYPHELSGG-Q---QQRV 144 (309)
T ss_pred HHHhhhhhhhhcccCCCccHHHHHHhhhhhcCCCHH-HHHHHHHHHHHHhCCCHHHH---hhcCchhcCcc-h---hhHH
Confidence 6777777766777 4555677777777888876554 46777777778888888765 56788877544 1 2222
Q ss_pred HHHHHhcCChHHHHHHHHhccchhccC
Q 011206 365 NFLRSIGMRNSDILKVLRSLTQVLSLS 391 (491)
Q Consensus 365 efL~~lG~s~eei~~ml~r~P~iL~~S 391 (491)
-|.+++...|.+|..+
T Consensus 145 -----------Gv~RALAadP~ilLMD 160 (309)
T COG1125 145 -----------GVARALAADPPILLMD 160 (309)
T ss_pred -----------HHHHHHhcCCCeEeec
Confidence 2456677888877765
No 127
>PF00922 Phosphoprotein: Vesiculovirus phosphoprotein; InterPro: IPR000224 This entry contains phosphoprotein from vesiculoviruses, which are ssRNA negative-strand rhabdoviruses. It is known as the phosphoprotein or P protein [, ]. This protein may be part of the RNA dependent RNA polymerase complex []. The phosphorylation states of this protein may regulate the transcription and replication complexes [].; GO: 0003968 RNA-directed RNA polymerase activity; PDB: 2K47_A 3PMK_R 2FQM_F 3HHZ_C 3HHW_D.
Probab=25.80 E-value=23 Score=35.73 Aligned_cols=14 Identities=21% Similarity=0.591 Sum_probs=0.0
Q ss_pred CCCCCCCCCcccCC
Q 011206 55 TLSLYDDDSEEEGE 68 (491)
Q Consensus 55 ~~~~~~~~~~~~~~ 68 (491)
..+||..++++|.|
T Consensus 44 ~PsYY~~~e~~e~~ 57 (283)
T PF00922_consen 44 SPSYYQAEEDDESD 57 (283)
T ss_dssp --------------
T ss_pred Cchhhhhhhccccc
Confidence 57788877766544
No 128
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=25.37 E-value=38 Score=36.83 Aligned_cols=28 Identities=39% Similarity=0.410 Sum_probs=14.3
Q ss_pred CCCCCcccCCCCCCCCCCCCCCCcccCC
Q 011206 59 YDDDSEEEGEDDDDDDDEGKEDDWLADD 86 (491)
Q Consensus 59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (491)
.|-|||++||||=|.|++|-+..++.-|
T Consensus 425 ~dgdde~eddddidvdeediessddgtd 452 (990)
T KOG1819|consen 425 EDGDDEAEDDDDIDVDEEDIESSDDGTD 452 (990)
T ss_pred ccCcccccCcccccccccccccccccch
Confidence 4555555565555555554444433334
No 129
>PRK14136 recX recombination regulator RecX; Provisional
Probab=25.34 E-value=7.8e+02 Score=25.53 Aligned_cols=24 Identities=25% Similarity=0.423 Sum_probs=17.8
Q ss_pred HHHHHHHHHhcCChHHHHHHHHhc
Q 011206 361 LPRINFLRSIGMRNSDILKVLRSL 384 (491)
Q Consensus 361 ~~kvefL~~lG~s~eei~~ml~r~ 384 (491)
...+.||..-||+.+.|..+|..+
T Consensus 279 ~K~iRfL~rRGFS~D~I~~vLk~~ 302 (309)
T PRK14136 279 AKQARFLAARGFSSATIVKLLKVG 302 (309)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHhc
Confidence 344778888888888888877654
No 130
>KOG1834 consensus Calsyntenin [Extracellular structures]
Probab=24.57 E-value=43 Score=37.80 Aligned_cols=32 Identities=31% Similarity=0.455 Sum_probs=0.0
Q ss_pred CCcccCCCCCCCCCCCCCCCcccCCcccccccc
Q 011206 62 DSEEEGEDDDDDDDEGKEDDWLADDDDFAEIEE 94 (491)
Q Consensus 62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (491)
+++.|+|+.++++|+++.+|-+++| +.||.++
T Consensus 894 ee~~e~EeeeE~e~~ee~s~~~~~d-s~sedEe 925 (952)
T KOG1834|consen 894 EEESEEEEEEETEDEEESSDSDSAD-SESEDEE 925 (952)
T ss_pred ccccccccccccccccccccccccc-Cccchhh
No 131
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=23.93 E-value=80 Score=24.59 Aligned_cols=33 Identities=18% Similarity=0.208 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCcccCCCCCCCCCCCCCCCcccC
Q 011206 52 YGQTLSLYDDDSEEEGEDDDDDDDEGKEDDWLAD 85 (491)
Q Consensus 52 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (491)
.| .-|.||.|++|||---.-+.-.-+|+..+.|
T Consensus 27 ~G-eeP~YDEdd~dde~l~phsss~~d~~~~efd 59 (65)
T PF10731_consen 27 PG-EEPSYDEDDDDDEPLKPHSSSITDDDYEEFD 59 (65)
T ss_pred CC-CCCCcCcccCcccccccCCCCCCccchhhcC
No 132
>PF02787 CPSase_L_D3: Carbamoyl-phosphate synthetase large chain, oligomerisation domain; InterPro: IPR005480 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the oligomerisation domain found in the large subunit of carbamoyl phosphate synthases as well as in certain other carboxy phsophate domain-containing enzymes.; GO: 0006807 nitrogen compound metabolic process; PDB: 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A 1KEE_G 1CE8_A 1JDB_H ....
Probab=23.88 E-value=1.1e+02 Score=27.09 Aligned_cols=31 Identities=16% Similarity=0.196 Sum_probs=20.6
Q ss_pred cCChHhHHHHHhcCCCCHHHHHHHHHhcCCcc
Q 011206 176 DEKWLPLLDYLSTFGLKESHFIQMYERHMPSL 207 (491)
Q Consensus 176 e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL 207 (491)
+.++..+.+.|+. |++..+|..+-.-.|.+|
T Consensus 10 d~Rlf~i~eAlrr-G~sveeI~e~T~ID~wFL 40 (123)
T PF02787_consen 10 DERLFAIAEALRR-GYSVEEIHELTKIDPWFL 40 (123)
T ss_dssp TTHHHHHHHHHHT-TB-HHHHHHHH---HHHH
T ss_pred CcHHHHHHHHHHc-CCCHHHHHHHHCccHHHH
Confidence 5566677777755 999999999877777655
No 133
>PF08553 VID27: VID27 cytoplasmic protein; InterPro: IPR013863 This entry represents fungal and plant proteins and contains many hypothetical proteins. Vid27p is a cytoplasmic protein of unknown function, possibly regulates import of fructose-1,6-bisphosphatase into Vacuolar Import and Degradation (Vid) vesicles and is not essential for proteasome-dependent degradation of fructose-1,6-bisphosphatase (FBPase) [, ].
Probab=23.77 E-value=54 Score=38.16 Aligned_cols=9 Identities=11% Similarity=0.523 Sum_probs=3.8
Q ss_pred CcccccCcc
Q 011206 418 PMYLSLSLD 426 (491)
Q Consensus 418 P~lLs~SLe 426 (491)
|.++..++.
T Consensus 716 ~f~v~Wnf~ 724 (794)
T PF08553_consen 716 PFVVTWNFK 724 (794)
T ss_pred CEEEEEEHH
Confidence 334444443
No 134
>KOG2572 consensus Ribosome biogenesis protein - Nop58p/Nop5p [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=23.50 E-value=4.9e+02 Score=28.03 Aligned_cols=127 Identities=21% Similarity=0.292 Sum_probs=66.9
Q ss_pred HcCCCchhhhhhhhhcccccccccccchhHHHHHHHHHhCCChhhHHHHHhhCccceecccchhhhhhHHHHHhhcCCCh
Q 011206 259 SLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPR 338 (491)
Q Consensus 259 ~lGls~~~I~kll~~~P~lL~~s~e~~l~p~v~~L~~~lGvs~~~l~kll~~~P~lL~~~~e~~l~~kl~~L~~~LG~s~ 338 (491)
.+-++.+.|..||...-.+|. ++++.+..-.--+++..|..--+++++++.+- .. ..+.+.+|...
T Consensus 148 Klkfs~dKvDtmIiQaisLLD-DLDkeLNtY~mRvrEwYGwHFPEL~kii~dn~---------~Y----ak~vk~mG~r~ 213 (498)
T KOG2572|consen 148 KLKFSPDKVDTMIIQAISLLD-DLDKELNTYAMRVKEWYGWHFPELAKIIQDNY---------AY----AKLVKAMGVRC 213 (498)
T ss_pred hcccCcchhhHHHHHHHHHHH-hHHHHHHHHHHHHHHHHhhhhHHHHHHHHhhH---------HH----HHHHHHHhHhh
Confidence 356777788777777655553 22333333334445566776667777776421 00 11112233211
Q ss_pred hhHHHhhhccccccccccccchHHHHHHH--HHhc--CChHHHHHHHHhccchhccCccccHHHHHHHHHHHhC
Q 011206 339 DDVVKMVTKHPQLLHYSIDDGLLPRINFL--RSIG--MRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELH 408 (491)
Q Consensus 339 ~ev~~ml~~~P~lL~~sie~~L~~kvefL--~~lG--~s~eei~~ml~r~P~iL~~Sle~~L~pk~~fL~~~mg 408 (491)
.- .... |..-+++.++..+.-. .+|| ++..++..+..-|-+++..+ + -...=++||.+.|.
T Consensus 214 ~~----a~~d---~sEil~eeiE~~~k~aAeiSMgteis~~Dl~nI~~l~dqVle~a-e-yR~qL~dylknrM~ 278 (498)
T KOG2572|consen 214 NA----ASLD---FSEILPEEIEAELKEAAEISMGTEISDSDLLNIKELCDQVLELA-E-YRDQLIDYLKNRMR 278 (498)
T ss_pred hh----hccc---HHhhchHHHHHHHHhhhhhhhcccccHhhHHhHHHHHHHHHHHH-H-HHHHHHHHHHHHHH
Confidence 00 0000 1111134455555533 3677 57778888888888888777 3 34555677776663
No 135
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=23.01 E-value=51 Score=37.62 Aligned_cols=12 Identities=42% Similarity=0.910 Sum_probs=5.5
Q ss_pred HhHHHHHhcCCC
Q 011206 180 LPLLDYLSTFGL 191 (491)
Q Consensus 180 ~~vl~fL~slG~ 191 (491)
.-++.||+.||+
T Consensus 428 ~~~l~ylynF~i 439 (822)
T KOG2141|consen 428 VLFLSYLYNFGI 439 (822)
T ss_pred HHHHHHHHHhhc
Confidence 334444444444
No 136
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=22.83 E-value=70 Score=36.07 Aligned_cols=6 Identities=33% Similarity=0.390 Sum_probs=2.5
Q ss_pred cccCCc
Q 011206 43 ILKTNR 48 (491)
Q Consensus 43 ~~~~~~ 48 (491)
|.|+-.
T Consensus 903 imksi~ 908 (1001)
T COG5406 903 IMKSIM 908 (1001)
T ss_pred HHHHHh
Confidence 444433
No 137
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=22.79 E-value=2.5e+02 Score=28.04 Aligned_cols=99 Identities=23% Similarity=0.309 Sum_probs=69.2
Q ss_pred CccCHHHHHHHHHHCCCChhhHHHHHhhCCcc-cccccccchHHHHHHHHHcCCCchhhhhhhhhcc--cccccccccch
Q 011206 210 NVCSARERLEYLLSVGVKQRDVRRILLRQPQI-LEYTVENNLESHVAFLISLGIPNSKIGQIIAATP--SLFSYSVENSL 286 (491)
Q Consensus 210 ~~~~l~~~l~fL~slGls~~~l~kli~~~P~i-L~~s~e~~L~p~v~fL~~lGls~~~I~kll~~~P--~lL~~s~e~~l 286 (491)
+.....+.+..|.+.|++..... .+.-.. +.-. +..+...+++|+..|++++....+-.-+| .+.+...++
T Consensus 29 ~e~eANemlAlL~~~gI~A~K~~---~~~g~~~l~Ve-~~~fa~Av~iL~~~GlPr~~f~~l~d~Fp~dgLVsSP~eE-- 102 (246)
T COG4669 29 SEKEANEMLALLMSHGINAEKKA---DKDGGTSLLVE-ESDFAEAVEILNQNGLPRKKFTTLGDIFPKDGLVSSPTEE-- 102 (246)
T ss_pred CHhHHHHHHHHHHHcCCcceeec---cCCCceEEEEc-HHHHHHHHHHHHhcCCCCCCCCcHHHhCCcccccCCcHHH--
Confidence 44568888999999998876652 121111 2222 35788999999999999988777777676 355555444
Q ss_pred hHHHHHHHHHhCCChhhHHHHHhhCccceecccc
Q 011206 287 KPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRID 320 (491)
Q Consensus 287 ~p~v~~L~~~lGvs~~~l~kll~~~P~lL~~~~e 320 (491)
+.++.|+. ++++.+.+..-..++..++.
T Consensus 103 kaR~~~~~------eQ~le~tLs~mDGVi~ArV~ 130 (246)
T COG4669 103 KARLNYAK------EQQLEQTLSKMDGVISARVH 130 (246)
T ss_pred HHHHHHHH------HHHHHHHHHhcCceEEEEEE
Confidence 45677765 36788888888888887764
No 138
>PHA03128 dUTPase; Provisional
Probab=22.40 E-value=1e+02 Score=32.41 Aligned_cols=20 Identities=20% Similarity=0.144 Sum_probs=15.2
Q ss_pred EEEeeccccccccCCccccC
Q 011206 33 VVLSTHSNAKILKTNRKSRY 52 (491)
Q Consensus 33 ~~~~~~~~~~~~~~~~~~~~ 52 (491)
|||-.+-+.-+|-|+|-=.+
T Consensus 293 VVFth~~f~~~~~~~~~~~q 312 (376)
T PHA03128 293 VVFTTRRFVYLLVGSHPIGQ 312 (376)
T ss_pred EEEeeCcceEeecCCccccc
Confidence 78888888888888876544
No 139
>PHA03211 serine/threonine kinase US3; Provisional
Probab=22.37 E-value=1.2e+02 Score=32.90 Aligned_cols=19 Identities=26% Similarity=0.403 Sum_probs=10.1
Q ss_pred chHHHHHHHHHcCCCchhh
Q 011206 249 NLESHVAFLISLGIPNSKI 267 (491)
Q Consensus 249 ~L~p~v~fL~~lGls~~~I 267 (491)
.+...+.+|.+.|+-..+|
T Consensus 268 qi~~aL~yLH~~gIvHrDL 286 (461)
T PHA03211 268 QLLSAIDYIHGEGIIHRDI 286 (461)
T ss_pred HHHHHHHHHHHCCEEECcC
Confidence 3445556666666544443
No 140
>cd08316 Death_FAS_TNFRSF6 Death domain of FAS or TNF receptor superfamily member 6. Death Domain (DD) found in the FS7-associated cell surface antigen (FAS). FAS, also known as TNFRSF6 (TNF receptor superfamily member 6), APT1, CD95, FAS1, or APO-1, together with FADD (Fas-associating via Death Domain) and caspase 8, is an integral part of the death inducing signalling complex (DISC), which plays an important role in the induction of apoptosis and is activated by binding of the ligand FasL to FAS. FAS also plays a critical role in self-tolerance by eliminating cell types (autoreactive T and B cells) that contribute to autoimmunity. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in sign
Probab=22.31 E-value=2e+02 Score=24.53 Aligned_cols=42 Identities=12% Similarity=0.109 Sum_probs=28.2
Q ss_pred hHHHHHhcCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHH-CC
Q 011206 181 PLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS-VG 225 (491)
Q Consensus 181 ~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~s-lG 225 (491)
.+-+|-+.+|+++.+|-.|-..+|.-. -+.....|..|.. .|
T Consensus 22 ~wK~faR~lglse~~Id~I~~~~~~d~---~Eq~~qmL~~W~~~~G 64 (97)
T cd08316 22 DVKKFVRKSGLSEPKIDEIKLDNPQDT---AEQKVQLLRAWYQSHG 64 (97)
T ss_pred HHHHHHHHcCCCHHHHHHHHHcCCCCh---HHHHHHHHHHHHHHhC
Confidence 455677899999999999988877532 2345555555544 45
No 141
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=21.98 E-value=2.1e+02 Score=24.76 Aligned_cols=59 Identities=19% Similarity=0.277 Sum_probs=34.4
Q ss_pred cCChHhHHHHHhcCCCC-HHHHHHHHHhcCCccccCccCHHHHHHHHHHCCCChhhHHHHHh
Q 011206 176 DEKWLPLLDYLSTFGLK-ESHFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRRILL 236 (491)
Q Consensus 176 e~~~~~vl~fL~slG~s-~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGls~~~l~kli~ 236 (491)
++.+..+|+.|..+|+= +...+..+.+. .+...........+-|+.-|++...|...+.
T Consensus 8 ~e~I~~vi~~l~~~gyidD~~ya~~~v~~--~~~~~~~G~~~I~~~L~~kGi~~~~i~~~l~ 67 (121)
T PF02631_consen 8 EEAIEEVIDRLKELGYIDDERYAESYVRS--RLRRKGKGPRRIRQKLKQKGIDREIIEEALE 67 (121)
T ss_dssp HHHHHHHHHHHHHTTSS-HHHHHHHHHHH--HHHHTT--HHHHHHHHHHTT--HHHHHHHHT
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHH--hcccccccHHHHHHHHHHHCCChHHHHHHHH
Confidence 44567888999888875 33444333321 1111233455666788889999998888776
No 142
>KOG4264 consensus Nucleo-cytoplasmic protein MLN51 [General function prediction only]
Probab=21.85 E-value=85 Score=34.56 Aligned_cols=16 Identities=6% Similarity=0.181 Sum_probs=8.8
Q ss_pred CChHhHHHHHhcCCCC
Q 011206 177 EKWLPLLDYLSTFGLK 192 (491)
Q Consensus 177 ~~~~~vl~fL~slG~s 192 (491)
+.+.+.-+++..+|+.
T Consensus 221 QaPKSr~eLv~~YGyD 236 (694)
T KOG4264|consen 221 QAPKSRKELVTKYGYD 236 (694)
T ss_pred cCchHHHHHHHHhCcc
Confidence 3445555566666654
No 143
>PF04546 Sigma70_ner: Sigma-70, non-essential region; InterPro: IPR007631 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This domain is found in the primary vegetative sigma factor. Its function is unclear, and it can be removed without apparent loss of function [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SIG_A 3IYD_F.
Probab=21.27 E-value=45 Score=32.21 Aligned_cols=20 Identities=10% Similarity=0.381 Sum_probs=10.1
Q ss_pred HHHHHHCCCChhhHHHHHhh
Q 011206 218 LEYLLSVGVKQRDVRRILLR 237 (491)
Q Consensus 218 l~fL~slGls~~~l~kli~~ 237 (491)
.+.|..+-++++.+..++..
T Consensus 116 ~~~~~~ikl~~k~id~L~~~ 135 (211)
T PF04546_consen 116 AEEFMEIKLSPKQIDRLVEQ 135 (211)
T ss_dssp HHHHTTCEE-HHHHHHHCHH
T ss_pred HHHHHhhccCHHHHHHHHHH
Confidence 34455555666666555543
No 144
>PF13720 Acetyltransf_11: Udp N-acetylglucosamine O-acyltransferase; Domain 2; PDB: 3I3A_A 3I3X_A 3HSQ_B 2JF2_A 1LXA_A 2AQ9_A 2QIV_X 2QIA_A 2JF3_A 4EQY_F ....
Probab=21.05 E-value=1.4e+02 Score=24.44 Aligned_cols=39 Identities=18% Similarity=0.030 Sum_probs=21.3
Q ss_pred HHHhcCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHH
Q 011206 184 DYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS 223 (491)
Q Consensus 184 ~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~s 223 (491)
-=|+..||+.++|..+-..+- ++.....++.+.++-+..
T Consensus 21 vGLrR~Gfs~~~i~~l~~ayr-~l~~~~~~~~~a~~~l~~ 59 (83)
T PF13720_consen 21 VGLRRRGFSKEEISALRRAYR-ILFRSGLTLEEALEELEE 59 (83)
T ss_dssp HHHHHTTS-HHHHHHHHHHHH-HHHTSSS-HHHHHHHHHH
T ss_pred HHHHHcCCCHHHHHHHHHHHH-HHHhCCCCHHHHHHHHHH
Confidence 346788888888877655432 222233456666666655
No 145
>PHA03242 envelope glycoprotein M; Provisional
Probab=21.01 E-value=69 Score=34.53 Aligned_cols=43 Identities=16% Similarity=0.114 Sum_probs=0.0
Q ss_pred ccccCCCCCCCCCCCCc---ccCCCCCCCCCCCCCCCcccCCccccc
Q 011206 48 RKSRYGQTLSLYDDDSE---EEGEDDDDDDDEGKEDDWLADDDDFAE 91 (491)
Q Consensus 48 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (491)
|++|++.+.-.||.|.. ||+.++||||.-=|....+.|+ +..+
T Consensus 377 r~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~iYd~v~~~~~~-~~~~ 422 (428)
T PHA03242 377 RSSMRNSREAPYAGESDVGRDDDYASTDGEPIYDEVAPDEDE-VLYA 422 (428)
T ss_pred hCcCCCCccccccccccccccccccccCCCccccccCCCcch-hHHH
No 146
>PTZ00072 40S ribosomal protein S13; Provisional
Probab=20.86 E-value=1.7e+02 Score=26.96 Aligned_cols=36 Identities=14% Similarity=0.192 Sum_probs=26.4
Q ss_pred cCCccccCccCHHHHHHHHHHCCCChhhHHHHHhhC
Q 011206 203 HMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQ 238 (491)
Q Consensus 203 ~P~lL~~~~~~l~~~l~fL~slGls~~~l~kli~~~ 238 (491)
.|.++..+++.+++.+--|..-|+++++|+-++...
T Consensus 19 ~P~w~~~~~eeVe~~I~klaKkG~~pSqIG~iLRD~ 54 (148)
T PTZ00072 19 PPSWLKLSSSEVEDQICKLAKKGLTPSQIGVILRDS 54 (148)
T ss_pred CCchhcCCHHHHHHHHHHHHHCCCCHhHhhhhhhhc
Confidence 455677777777777777788888888887776654
No 147
>PF03874 RNA_pol_Rpb4: RNA polymerase Rpb4; InterPro: IPR005574 The eukaryotic RNA polymerase subunits RPB4 and RPB7 form a heterodimer that reversibly associates with the RNA polymerase II core. Archaeal cells contain a single RNAP made up of about 12 subunits, displaying considerable homology to the eukaryotic RNAPII subunits. The RPB4 and RPB7 homologs are called subunits F and E, respectively, and have been shown to form a stable heterodimer. While the RPB7 homologue is reasonably well conserved, the similarity between the eukaryotic RPB4 and the archaeal F subunit is barely detectable [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3AYH_A 3H3V_E 4A3C_D 3PO3_D 3HOX_D 2R92_D 3HOU_D 1Y77_D 2R7Z_D 3QT1_D ....
Probab=20.62 E-value=1.4e+02 Score=25.63 Aligned_cols=28 Identities=29% Similarity=0.351 Sum_probs=16.9
Q ss_pred CChHhHHHHHhcCCCCHHHHHHHHHhcC
Q 011206 177 EKWLPLLDYLSTFGLKESHFIQMYERHM 204 (491)
Q Consensus 177 ~~~~~vl~fL~slG~s~~~I~~il~r~P 204 (491)
+.+...++.|..+|+++.++.+|+.-.|
T Consensus 57 e~~~~l~~~L~~~~L~~~E~~qi~Nl~P 84 (117)
T PF03874_consen 57 ESIKELREELKKFGLTEFEILQIINLRP 84 (117)
T ss_dssp HHHHHHHHHHTTSTS-HHHHHHHHHH--
T ss_pred HHHHHHHHHHhcccCCHHHHHHHhcCCC
Confidence 3455667777777777777777765444
No 148
>PF05793 TFIIF_alpha: Transcription initiation factor IIF, alpha subunit (TFIIF-alpha); InterPro: IPR008851 Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) or RNA polymerase II-associating protein 74 (RAP74) is the large subunit of transcription factor IIF (TFIIF), which is essential for accurate initiation and stimulates elongation by RNA polymerase II [].; GO: 0003677 DNA binding, 0045893 positive regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1F3U_F 1NHA_A 1I27_A 1J2X_A 2K7L_A 1ONV_A.
Probab=20.03 E-value=35 Score=37.88 Aligned_cols=17 Identities=18% Similarity=0.552 Sum_probs=7.2
Q ss_pred HhCCChhhHHHHHhhCc
Q 011206 296 EVGINEKSLGKVVQLSP 312 (491)
Q Consensus 296 ~lGvs~~~l~kll~~~P 312 (491)
..|+++..|.++|.+.|
T Consensus 461 ~~~vTEe~VrryL~rkP 477 (527)
T PF05793_consen 461 DSGVTEEEVRRYLRRKP 477 (527)
T ss_dssp -SS--HHHHHHHHHHS-
T ss_pred ccCcCHHHHHHHHhcCC
Confidence 34555555555555444
Done!