Query 010604
Match_columns 506
No_of_seqs 259 out of 1293
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 02:28:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010604.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010604hhsearch_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 2.6E-51 5.7E-56 441.4 18.4 307 166-483 100-444 (487)
2 PF02536 mTERF: mTERF; InterP 100.0 8.2E-44 1.8E-48 367.8 8.7 303 167-476 6-345 (345)
3 PLN03196 MOC1-like protein; Pr 100.0 1.5E-40 3.3E-45 358.0 19.8 228 193-426 91-319 (487)
4 PF02536 mTERF: mTERF; InterP 100.0 3.5E-35 7.6E-40 303.5 7.1 252 198-455 1-289 (345)
5 KOG1267 Mitochondrial transcri 100.0 2.9E-31 6.3E-36 281.8 14.9 289 158-455 59-409 (413)
6 KOG1267 Mitochondrial transcri 99.7 1.3E-16 2.8E-21 169.8 12.1 240 202-455 67-340 (413)
7 PF10446 DUF2457: Protein of u 96.6 0.0011 2.3E-08 70.2 2.5 8 98-105 99-106 (458)
8 PF06524 NOA36: NOA36 protein; 96.6 0.0023 4.9E-08 63.3 4.1 7 44-50 232-238 (314)
9 smart00733 Mterf Mitochondrial 96.4 0.0019 4.1E-08 42.2 2.0 29 394-424 2-30 (31)
10 smart00733 Mterf Mitochondrial 96.3 0.0031 6.7E-08 41.1 2.3 29 248-277 2-30 (31)
11 KOG1832 HIV-1 Vpr-binding prot 94.5 0.018 3.9E-07 65.4 2.0 9 25-33 1355-1363(1516)
12 KOG1832 HIV-1 Vpr-binding prot 92.9 0.056 1.2E-06 61.6 2.1 6 41-46 1392-1397(1516)
13 PF03115 Astro_capsid: Astrovi 92.5 0.036 7.9E-07 63.5 0.0 6 164-169 751-756 (787)
14 KOG1991 Nuclear transport rece 92.2 0.071 1.5E-06 61.5 1.8 13 79-91 935-947 (1010)
15 PF08595 RXT2_N: RXT2-like, N- 92.0 0.15 3.3E-06 47.2 3.4 40 26-67 24-63 (149)
16 PF03066 Nucleoplasmin: Nucleo 91.8 0.03 6.6E-07 51.8 -1.3 7 53-59 103-109 (149)
17 KOG3130 Uncharacterized conser 91.4 0.13 2.8E-06 54.0 2.5 18 47-64 262-279 (514)
18 PF11702 DUF3295: Protein of u 91.2 0.096 2.1E-06 56.9 1.4 17 74-91 307-323 (507)
19 PF12253 CAF1A: Chromatin asse 88.2 1 2.2E-05 37.2 4.9 11 41-51 23-33 (77)
20 KOG1824 TATA-binding protein-i 85.4 0.42 9.1E-06 55.3 1.7 14 55-68 309-322 (1233)
21 KOG1991 Nuclear transport rece 85.0 0.45 9.8E-06 55.2 1.7 7 165-171 958-964 (1010)
22 PF11955 PORR: Plant organelle 83.7 10 0.00022 39.9 10.8 94 202-295 45-150 (335)
23 PTZ00415 transmission-blocking 83.0 0.8 1.7E-05 55.8 2.6 16 426-441 684-699 (2849)
24 PTZ00415 transmission-blocking 81.3 0.79 1.7E-05 55.8 1.8 8 44-51 131-138 (2849)
25 KOG2023 Nuclear transport rece 81.2 0.78 1.7E-05 51.4 1.6 25 431-455 776-800 (885)
26 PF02724 CDC45: CDC45-like pro 79.5 1 2.3E-05 51.0 2.0 13 234-246 341-353 (622)
27 PTZ00007 (NAP-L) nucleosome as 79.5 1.9 4.1E-05 45.2 3.7 17 88-104 310-326 (337)
28 PF11705 RNA_pol_3_Rpc31: DNA- 78.1 1.3 2.8E-05 43.9 1.9 10 96-105 207-216 (233)
29 KOG2023 Nuclear transport rece 78.0 1 2.2E-05 50.5 1.3 13 262-274 576-588 (885)
30 PF04147 Nop14: Nop14-like fam 78.0 2.5 5.4E-05 49.7 4.5 6 265-270 563-568 (840)
31 PF14283 DUF4366: Domain of un 77.8 1.8 3.8E-05 42.7 2.7 9 42-50 181-189 (218)
32 KOG3241 Uncharacterized conser 76.9 1.7 3.8E-05 41.1 2.3 15 72-86 200-214 (227)
33 KOG0127 Nucleolar protein fibr 76.7 2 4.3E-05 47.2 2.9 16 146-161 279-295 (678)
34 PHA03346 US22 family homolog; 75.4 2.5 5.5E-05 46.7 3.4 9 97-105 452-460 (520)
35 PF13324 GCIP: Grap2 and cycli 72.7 1.2 2.7E-05 45.1 0.2 16 196-211 229-244 (275)
36 cd04790 HTH_Cfa-like_unk Helix 72.1 4.6 0.0001 38.2 3.9 21 196-216 49-69 (172)
37 KOG2076 RNA polymerase III tra 71.5 2.4 5.3E-05 49.0 2.2 45 193-242 209-257 (895)
38 PF05285 SDA1: SDA1; InterPro 71.4 2.6 5.7E-05 43.9 2.3 9 206-214 190-198 (324)
39 KOG0772 Uncharacterized conser 70.7 4.2 9.2E-05 44.4 3.6 12 40-51 70-81 (641)
40 PF06957 COPI_C: Coatomer (COP 69.7 1.5 3.2E-05 47.3 0.0 24 74-98 70-93 (422)
41 PF00627 UBA: UBA/TS-N domain; 68.1 14 0.00031 25.5 4.8 23 377-399 4-26 (37)
42 COG4530 Uncharacterized protei 67.9 4.6 0.0001 35.3 2.6 8 52-59 82-89 (129)
43 PF11955 PORR: Plant organelle 67.6 9 0.0002 40.2 5.3 96 237-332 45-150 (335)
44 KOG0526 Nucleosome-binding fac 67.1 4.3 9.3E-05 44.5 2.8 11 205-215 558-568 (615)
45 PHA02811 putative host range p 66.8 3.8 8.2E-05 39.1 2.0 11 53-63 155-165 (197)
46 KOG1819 FYVE finger-containing 66.2 5.2 0.00011 43.5 3.2 36 55-91 418-453 (990)
47 KOG2270 Serine/threonine prote 66.2 4 8.7E-05 43.7 2.3 34 132-165 71-105 (520)
48 KOG1999 RNA polymerase II tran 65.9 3.4 7.3E-05 48.2 1.8 31 275-307 269-299 (1024)
49 PF11359 gpUL132: Glycoprotein 65.9 3.7 8E-05 39.9 1.8 37 2-45 62-98 (235)
50 PF05285 SDA1: SDA1; InterPro 64.2 3.5 7.5E-05 43.0 1.4 9 38-46 33-41 (324)
51 cd04790 HTH_Cfa-like_unk Helix 62.8 14 0.0003 34.9 5.1 24 231-254 49-72 (172)
52 PF02724 CDC45: CDC45-like pro 62.1 6 0.00013 45.0 2.9 12 200-211 239-250 (622)
53 KOG4364 Chromatin assembly fac 62.0 4 8.6E-05 45.8 1.4 9 58-66 518-526 (811)
54 PF06679 DUF1180: Protein of u 59.6 5.2 0.00011 37.7 1.6 17 42-59 118-135 (163)
55 KOG2141 Protein involved in hi 59.0 7.4 0.00016 44.2 2.9 21 374-394 633-653 (822)
56 PF04695 Pex14_N: Peroxisomal 56.5 15 0.00033 33.3 4.1 38 362-403 14-51 (136)
57 smart00165 UBA Ubiquitin assoc 55.0 31 0.00067 23.5 4.6 23 377-399 3-25 (37)
58 PF14490 HHH_4: Helix-hairpin- 53.5 28 0.0006 29.4 4.9 43 195-261 9-51 (94)
59 PF11212 DUF2999: Protein of u 53.4 56 0.0012 26.6 6.2 55 196-257 3-60 (82)
60 KOG3871 Cell adhesion complex 52.8 6.2 0.00013 41.4 0.9 12 57-68 90-101 (449)
61 KOG1999 RNA polymerase II tran 52.3 9.2 0.0002 44.8 2.3 9 264-272 292-300 (1024)
62 cd00194 UBA Ubiquitin Associat 52.3 39 0.00084 23.1 4.7 23 377-399 3-25 (38)
63 PTZ00108 DNA topoisomerase 2-l 51.7 13 0.00029 45.8 3.6 32 40-71 1340-1371(1388)
64 KOG3540 Beta amyloid precursor 51.2 12 0.00025 40.8 2.7 18 15-32 148-165 (615)
65 KOG2548 SWAP mRNA splicing reg 50.8 7.9 0.00017 42.4 1.4 43 55-99 177-219 (653)
66 TIGR00844 c_cpa1 na(+)/h(+) an 50.7 11 0.00024 43.9 2.6 58 24-86 742-799 (810)
67 PF04695 Pex14_N: Peroxisomal 50.5 14 0.00031 33.5 2.9 30 228-257 22-51 (136)
68 PRK14134 recX recombination re 50.1 1.3E+02 0.0029 30.7 10.1 162 154-325 23-205 (283)
69 KOG4364 Chromatin assembly fac 50.0 15 0.00032 41.5 3.3 8 34-41 483-490 (811)
70 KOG0526 Nucleosome-binding fac 47.4 7.8 0.00017 42.6 0.7 6 41-46 428-433 (615)
71 PF04546 Sigma70_ner: Sigma-70 46.6 8 0.00017 37.6 0.6 21 196-216 114-134 (211)
72 PF06084 Cytomega_TRL10: Cytom 46.1 16 0.00035 32.3 2.3 20 45-64 121-140 (150)
73 PF04546 Sigma70_ner: Sigma-70 43.4 12 0.00026 36.4 1.3 18 234-251 117-134 (211)
74 PLN03237 DNA topoisomerase 2; 42.6 11 0.00025 46.4 1.2 20 45-64 1434-1453(1465)
75 KOG0468 U5 snRNP-specific prot 42.5 16 0.00036 41.5 2.3 11 57-67 15-25 (971)
76 PF11273 DUF3073: Protein of u 42.3 15 0.00034 29.2 1.5 8 79-86 55-62 (65)
77 KOG1824 TATA-binding protein-i 41.8 14 0.0003 43.5 1.6 12 357-368 692-703 (1233)
78 COG1125 OpuBA ABC-type proline 41.4 35 0.00076 34.9 4.2 63 374-437 72-137 (309)
79 PF15402 Spc7_N: N-terminus of 40.5 22 0.00048 42.0 3.0 8 57-64 275-282 (927)
80 TIGR01448 recD_rel helicase, p 40.1 75 0.0016 36.9 7.2 25 193-217 76-103 (720)
81 KOG0400 40S ribosomal protein 39.9 22 0.00047 32.2 2.2 34 218-251 22-55 (151)
82 KOG0772 Uncharacterized conser 39.8 20 0.00043 39.5 2.3 11 37-47 76-86 (641)
83 PF03896 TRAP_alpha: Transloco 39.6 18 0.00039 37.1 1.9 7 159-165 115-121 (285)
84 PF12253 CAF1A: Chromatin asse 39.0 20 0.00044 29.5 1.8 6 59-64 43-48 (77)
85 PF08243 SPT2: SPT2 chromatin 38.7 20 0.00044 31.8 1.9 6 46-51 5-10 (116)
86 KOG1834 Calsyntenin [Extracell 38.4 22 0.00048 40.2 2.4 10 96-105 929-938 (952)
87 KOG2140 Uncharacterized conser 37.8 21 0.00045 39.6 2.1 30 374-403 622-653 (739)
88 KOG2047 mRNA splicing factor [ 37.6 28 0.00061 39.5 3.1 45 192-240 139-183 (835)
89 PF07499 RuvA_C: RuvA, C-termi 37.5 23 0.00049 26.1 1.7 25 376-400 4-28 (47)
90 TIGR00601 rad23 UV excision re 37.4 94 0.002 33.3 7.0 129 263-421 154-375 (378)
91 KOG0699 Serine/threonine prote 36.3 21 0.00045 37.8 1.7 23 285-310 439-461 (542)
92 PF14490 HHH_4: Helix-hairpin- 35.9 66 0.0014 27.1 4.5 37 321-358 38-75 (94)
93 PRK08561 rps15p 30S ribosomal 35.8 65 0.0014 30.0 4.7 37 217-253 21-57 (151)
94 PF05320 Pox_RNA_Pol_19: Poxvi 35.6 19 0.00041 33.5 1.2 8 287-294 134-141 (167)
95 PHA02854 putative host range p 35.0 23 0.0005 33.5 1.7 7 57-63 153-159 (178)
96 PF13720 Acetyltransf_11: Udp 34.5 67 0.0015 26.6 4.3 40 198-238 20-59 (83)
97 KOG2140 Uncharacterized conser 34.3 24 0.00052 39.1 1.9 32 183-215 474-506 (739)
98 PF08069 Ribosomal_S13_N: Ribo 33.4 25 0.00053 27.7 1.3 36 217-252 21-56 (60)
99 cd08319 Death_RAIDD Death doma 33.1 1.2E+02 0.0027 25.2 5.6 41 192-238 14-54 (83)
100 KOG1070 rRNA processing protei 33.0 1.4E+02 0.003 37.2 7.8 71 160-234 1461-1537(1710)
101 PF07499 RuvA_C: RuvA, C-termi 33.0 58 0.0012 23.9 3.2 23 195-217 4-26 (47)
102 PRK14135 recX recombination re 32.7 3.5E+02 0.0075 26.9 9.9 128 154-288 19-148 (263)
103 PRK05901 RNA polymerase sigma 32.5 23 0.0005 39.3 1.4 18 344-361 379-396 (509)
104 KOG2076 RNA polymerase III tra 32.3 37 0.0008 39.7 3.1 18 198-215 248-265 (895)
105 COG1125 OpuBA ABC-type proline 31.8 55 0.0012 33.5 3.8 87 301-406 73-160 (309)
106 COG5137 Histone chaperone invo 31.2 26 0.00056 34.4 1.4 13 93-105 224-236 (279)
107 KOG2229 Protein required for a 31.2 17 0.00038 39.9 0.3 11 36-46 146-156 (616)
108 TIGR00993 3a0901s04IAP86 chlor 31.1 29 0.00063 39.9 2.0 11 95-105 436-446 (763)
109 PF05320 Pox_RNA_Pol_19: Poxvi 29.7 19 0.00041 33.5 0.2 8 198-205 80-87 (167)
110 TIGR01448 recD_rel helicase, p 29.6 90 0.0019 36.3 5.7 121 226-358 74-210 (720)
111 cd08316 Death_FAS_TNFRSF6 Deat 29.1 1.2E+02 0.0027 25.9 5.1 44 194-240 20-64 (97)
112 PF00922 Phosphoprotein: Vesic 28.9 19 0.0004 36.6 0.0 14 55-68 44-57 (283)
113 PF02022 Integrase_Zn: Integra 28.8 70 0.0015 23.0 3.0 30 374-403 7-37 (40)
114 PF08597 eIF3_subunit: Transla 28.8 77 0.0017 31.6 4.4 20 133-152 98-117 (245)
115 PF03960 ArsC: ArsC family; I 28.5 51 0.0011 28.3 2.7 23 385-407 69-91 (110)
116 PF08671 SinI: Anti-repressor 28.4 39 0.00084 22.8 1.5 26 192-217 3-28 (30)
117 PRK00117 recX recombination re 28.1 1.9E+02 0.0042 26.3 6.7 75 229-325 78-152 (157)
118 cd08315 Death_TRAILR_DR4_DR5 D 27.1 1.5E+02 0.0032 25.3 5.2 55 178-240 7-62 (96)
119 KOG1307 K+-dependent Ca2+/Na+ 26.6 58 0.0013 35.7 3.2 10 92-101 384-393 (588)
120 smart00784 SPT2 SPT2 chromatin 26.5 45 0.00098 29.5 2.0 50 38-91 3-66 (111)
121 KOG3555 Ca2+-binding proteogly 26.2 38 0.00082 35.6 1.6 23 64-86 409-431 (434)
122 PF09073 BUD22: BUD22; InterP 25.4 76 0.0017 34.4 3.9 7 204-210 332-338 (432)
123 PF12527 DUF3727: Protein of u 25.3 35 0.00076 29.6 1.1 18 93-110 47-64 (100)
124 KOG1980 Uncharacterized conser 25.3 33 0.00073 38.7 1.1 15 378-392 678-692 (754)
125 PF03517 Voldacs: Regulator of 24.7 18 0.0004 32.7 -0.8 11 4-14 29-39 (135)
126 PF10731 Anophelin: Thrombin i 24.3 76 0.0016 24.9 2.6 12 55-66 29-40 (65)
127 COG5137 Histone chaperone invo 24.1 44 0.00096 32.9 1.6 7 111-117 234-240 (279)
128 cd08306 Death_FADD Fas-associa 24.0 1.2E+02 0.0027 25.1 4.1 37 199-238 18-54 (86)
129 PTZ00482 membrane-attack compl 23.8 79 0.0017 37.3 3.8 6 435-440 615-620 (844)
130 PHA03211 serine/threonine kina 23.6 62 0.0013 35.3 2.8 16 264-279 268-283 (461)
131 KOG1819 FYVE finger-containing 23.3 44 0.00095 36.6 1.5 20 60-79 426-445 (990)
132 KOG0262 RNA polymerase I, larg 23.0 66 0.0014 39.2 2.9 9 413-421 1593-1601(1640)
133 PTZ00072 40S ribosomal protein 22.7 1.4E+02 0.0031 27.6 4.5 36 218-253 19-54 (148)
134 PF11332 DUF3134: Protein of u 22.6 62 0.0013 26.5 1.9 18 27-44 8-25 (73)
135 PF03960 ArsC: ArsC family; I 22.5 1.9E+02 0.004 24.8 5.1 23 239-261 69-91 (110)
136 PLN03078 Putative tRNA pseudou 22.0 92 0.002 34.6 3.7 22 338-359 468-489 (513)
137 TIGR00927 2A1904 K+-dependent 21.9 56 0.0012 38.9 2.1 11 276-286 994-1004(1096)
138 PLN00151 potassium transporter 21.8 61 0.0013 38.0 2.4 12 246-257 316-327 (852)
139 PF02631 RecX: RecX family; I 20.9 1.4E+02 0.003 26.1 4.0 108 193-325 10-118 (121)
140 PF09073 BUD22: BUD22; InterP 20.9 49 0.0011 35.9 1.4 12 237-248 330-341 (432)
141 KOG2629 Peroxisomal membrane a 20.6 1.1E+02 0.0024 31.5 3.6 32 363-398 14-45 (300)
No 1
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=2.6e-51 Score=441.36 Aligned_cols=307 Identities=25% Similarity=0.513 Sum_probs=223.5
Q ss_pred cCcCccchhhhhHhhhhhhhhccCcCCChHHHHHHHHhCCCChHHHHHHHhhcCcccccccc-CHHHHHHHHHHCCCChH
Q 010604 166 DQRGKVMTRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVC-SARERLEYLLSVGVKQR 244 (506)
Q Consensus 166 ~~~g~~~~~~~~~s~~pkl~~~~~~~~~~~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e-~l~~kL~fL~slGvs~~ 244 (506)
.++|+. ...++ +||+++ ..++++++.|+++||+++||+.++|++++.++|.+|.++++ ++.|+++||+++|++.+
T Consensus 100 ~s~G~~-~~~i~--~~P~iL-~~~v~~~l~Pvl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGvs~~ 175 (487)
T PLN03196 100 HKLGLT-IEDIN--EYPLVL-GCSVKKNMIPVLDYLEKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGLDVKRQ 175 (487)
T ss_pred HHcCCC-hHHhc--cCcHHh-hcCHhhhhHHHHHHHHHcCCCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCCCHH
Confidence 557773 34443 577776 56666777777777777777777777777777777776665 56777777776776666
Q ss_pred hHHHHHhhCCcccccCcccchHHHHHHHHHcCCCCccccccccccccccccccccchhhhHHHHHHhhCCChhhHHHHHh
Q 010604 245 DVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQ 324 (506)
Q Consensus 245 ~l~~iv~~~P~IL~~s~e~~L~p~v~fL~~lGls~~~I~kll~~~P~iL~~s~e~~L~p~v~~L~~~lGv~~~~l~~lI~ 324 (506)
+|.+++.++|++|++++++++.++++||+++|++.++|++++.++|+||+++++++++|++.||+ ++|++.+.|.+++.
T Consensus 176 ~i~~~l~r~P~LL~~~~e~~l~p~v~fL~~lGvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL~-~lGv~~~~I~~il~ 254 (487)
T PLN03196 176 DIPRVLERYPELLGFKLEGTMSTSVAYLVSIGVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYLE-SLGLPRLAVARILE 254 (487)
T ss_pred HHHHHHHhCchhhcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHHH-HcCCCHHHHHHHHH
Confidence 66666666666666666666666666666666666666666666666666666655666666664 56666666666666
Q ss_pred hCcceeeecccc------------------------------------ccchhhhhhhhhcCCChhhHHHhhhcccccee
Q 010604 325 LSPQVLVQRIDI------------------------------------SWNTRCIFLSKELGAPRDDVVKMVTKHPQLLH 368 (506)
Q Consensus 325 ~~P~iL~~s~e~------------------------------------~l~~kv~fL~k~LG~s~~ev~~ml~k~P~lL~ 368 (506)
++|++|+++++. .+.+++.||.+.+|++++++..+++++|++++
T Consensus 255 ~~P~iL~~sle~~lkp~v~~L~elGv~~~~i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~P~il~ 334 (487)
T PLN03196 255 KRPYILGFDLEETVKPNVECLLEFGVRKEALPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKLPQIVS 334 (487)
T ss_pred hCCceeEcCHHHhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhcchhhc
Confidence 666666555543 34444455545566666666666666666666
Q ss_pred cccccchHHHHHHHHHhcCChHHHHHHHHhccchhccCccccHHHHHHHHHHHhCCchHHHhhcCceeecCccCchHHHH
Q 010604 369 YSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEVQSLTKYPMYLSLSLDQRIRPRH 448 (506)
Q Consensus 369 ~sie~~L~~kvefL~~lGfs~eev~~mv~r~P~iL~~Sle~~Lk~K~efLv~~mg~~~~~I~k~P~lL~ySLEkRI~PR~ 448 (506)
.+ +++|.++++||+++||+.++|..||+++|+||++|. ++|++|++||+++||+++++|++||++|+||||+||+|||
T Consensus 335 lS-e~kl~~kvefL~~~Gls~edI~~mv~k~P~lL~~S~-~~l~~k~dFlvneMg~~~~~Iv~fP~~LsySLEkRI~PR~ 412 (487)
T PLN03196 335 LN-RNVALKHVEFLRGRGFSAQDVAKMVVRCPQILALNL-EIMKPSLEFFKKEMKRPLKELVEFPAYFTYGLESRIKPRY 412 (487)
T ss_pred cc-HHHHHHHHHHHHHcCCCHHHHHHHHHhCCceeeccH-HHHHHHHHHHHHHhCCCHHHHHhChHHhccChhhhhHHHH
Confidence 66 467899999999999999999999999999999995 9999999999999999999999999999999999999999
Q ss_pred HHHHHhhcCCCCCCCcccc-ccCHHHHHHHhcCCCh
Q 010604 449 RFLVSLKKAPKGPFPLSLF-IPTDECFCQKWAGTTV 483 (506)
Q Consensus 449 ~fL~~L~~l~k~~~~Ls~L-~~sdk~F~~r~~~~sv 483 (506)
++|+. +++ .++|.++ .++|+.|+++|+.-+.
T Consensus 413 ~~L~~-kGl---~~sL~~~L~~sd~~F~~r~v~~y~ 444 (487)
T PLN03196 413 ERVAK-KGI---KCSLAWFLNCSDDKFEQRMSGDFI 444 (487)
T ss_pred HHHHH-cCC---CCCHHHHhccCHHHHHHHHhhhcc
Confidence 99874 232 4578775 5999999999955443
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=8.2e-44 Score=367.83 Aligned_cols=303 Identities=32% Similarity=0.598 Sum_probs=244.2
Q ss_pred CcCccchhhhhH--hhhhhhhhccCcCCChHHHHHHHHhCCCChHHHHHHHhhcCccccccc-cCHHHHHHHHHHCCCCh
Q 010604 167 QRGKVMTRNATE--NRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINV-CSARERLEYLLSVGVKQ 243 (506)
Q Consensus 167 ~~g~~~~~~~~~--s~~pkl~~~~~~~~~~~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~-e~l~~kL~fL~slGvs~ 243 (506)
++|++ ..+.+. .++|.+. -.+.+++..|+++||.+.|++.++|++++.++|.+|..+. +++.|.++||+++|++.
T Consensus 6 ~~gf~-~~~i~~~i~~~P~~l-~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~~s~ 83 (345)
T PF02536_consen 6 NHGFS-DSQISKLIRRYPRLL-LCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIGLSD 83 (345)
T ss_dssp HHHHH-TS-HHHHHH-H-HHH-HT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTSS-H
T ss_pred HcCCC-HHHHHHHHHhCCceE-EecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHcCCH
Confidence 45553 333333 4578887 6788889999999999999999999999999999999884 58999999999999999
Q ss_pred HhHHHHHhhCCcccccCcccchHHHHHHHHHcCCCCccccccccccccccccccccchhhhHHHHHHhhCCChhhHHHHH
Q 010604 244 RDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVV 323 (506)
Q Consensus 244 ~~l~~iv~~~P~IL~~s~e~~L~p~v~fL~~lGls~~~I~kll~~~P~iL~~s~e~~L~p~v~~L~~~lGv~~~~l~~lI 323 (506)
+++.+++.++|++|..+.+.++.+++.||+++|++.+.+.+++..+|.++... ..+++.++++. ++|++++.+.+++
T Consensus 84 ~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~~lGv~~~~~~~~l~~~~~~~~~~--~~~~~~v~~l~-~lG~~~~~~~~vi 160 (345)
T PF02536_consen 84 EDIVKVLKRYPRILSFSVEENLSPNVAFLRSLGVPPSQIISLLISRPPLFLSS--EKIKERVEFLK-ELGFDPEKIGRVI 160 (345)
T ss_dssp HHHHHHHHH-SHHHHS---HHHHHHHHHHHHTT--HHHHHHHHHH-CHHHHS---HHHHCHHHHHC-CCTSSHHHHCCCH
T ss_pred HHHHHHHHhcchhhccchHhhhhhhhhHHhhcCCcHHHHHHHHHhcCccccch--hHHHHHHHHHH-HhCCCchhhcccc
Confidence 99999999999999998877999999999999999987888888888876655 45999999995 8999999999999
Q ss_pred hhCcceeeeccccccchhhhhhhhhcCCChhhHHHhhhccccceeccccc------------------------------
Q 010604 324 QLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVVKMVTKHPQLLHYSIDD------------------------------ 373 (506)
Q Consensus 324 ~~~P~iL~~s~e~~l~~kv~fL~k~LG~s~~ev~~ml~k~P~lL~~sie~------------------------------ 373 (506)
..+|.+|....+..|++++.|| +++|++.+++.+++.++|.++..+.+.
T Consensus 161 ~~~P~~l~~~~~~~~~~~v~~L-~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~~~i~~~p~il~~~ 239 (345)
T PF02536_consen 161 AKNPRLLLSDSESELKPKVEFL-RSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEERVIKKFPQILSLS 239 (345)
T ss_dssp HHHHHHHCGSCCCCCHHHHHHH-HHCTT-GHHHHHHHHHTTTGGGCGCHC---------------------------THH
T ss_pred cccchhhccccHHHHHHHHHHH-HhhcccchhhhHHhhcccceecccccccccccccccccccccccccccccccccccc
Confidence 9999888888777899999999 689999999999999999999988754
Q ss_pred --chHHHHHHHHHhcCChHHHHHHHHhccchhccCccccHHHHHHHHHHHhCCchHHHhhcCceeecCccCchHHHHHHH
Q 010604 374 --GLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEVQSLTKYPMYLSLSLDQRIRPRHRFL 451 (506)
Q Consensus 374 --~L~~kvefL~~lGfs~eev~~mv~r~P~iL~~Sle~~Lk~K~efLv~~mg~~~~~I~k~P~lL~ySLEkRI~PR~~fL 451 (506)
++.++++||.++||+.+++++|+.++|+||++|. ++|++|++||+++||+++++|+++|++|+||||+||+|||+++
T Consensus 240 ~~~l~~~i~~L~~lG~s~~ei~~mv~~~P~iL~~s~-e~l~~k~~fl~~~m~~~~~~i~~~P~~l~~sLe~ri~PR~~~~ 318 (345)
T PF02536_consen 240 EEKLKPKIEFLQSLGFSEEEIAKMVRRFPQILSYSI-EKLKPKFEFLVKEMGLPLEEIVEFPQYLSYSLEKRIKPRYEVL 318 (345)
T ss_dssp HHHHHHHHHHHHTTT--HHHHHHHHHHSGGGGGS-H-HHHHHHHHHHHHCCT--HHHHHHSCHHHCS-HHHHHHHHHHHH
T ss_pred hHhHHHHHHHHHHhcCcHHHHHHHHHhCcchhhcch-hhhhHHHHHHHHHhCcCHHHHhhCCceeEechhhhhhhHHHHH
Confidence 6899999999999999999999999999999995 6799999999999999999999999999999999999999999
Q ss_pred HHhhcCC-CCCCCcccc-ccCHHHHHH
Q 010604 452 VSLKKAP-KGPFPLSLF-IPTDECFCQ 476 (506)
Q Consensus 452 ~~L~~l~-k~~~~Ls~L-~~sdk~F~~ 476 (506)
++|+... +..+++.++ .+||++|++
T Consensus 319 ~~l~~~g~~~~~sl~~~l~~s~~~F~~ 345 (345)
T PF02536_consen 319 KVLKSKGLIINPSLSSMLSCSDEEFLK 345 (345)
T ss_dssp HTT--TTTGGGGGS-HHHHHHHHHHT-
T ss_pred HHHHHCcCCCCCCHHHHhhccHHHhcC
Confidence 9997532 244677765 599999974
No 3
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=1.5e-40 Score=357.97 Aligned_cols=228 Identities=23% Similarity=0.455 Sum_probs=203.7
Q ss_pred ChHHHHHHHHhCCCChHHHHHHHhhcCcccccccc-CHHHHHHHHHHCCCChHhHHHHHhhCCcccccCcccchHHHHHH
Q 010604 193 KWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVC-SARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAF 271 (506)
Q Consensus 193 ~~~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e-~l~~kL~fL~slGvs~~~l~~iv~~~P~IL~~s~e~~L~p~v~f 271 (506)
...++++||+++||+.++|. ++|.+|.++++ ++.|+++||.++|++..+|.+++.++|.||..+++++|.|+++|
T Consensus 91 ~~~~~l~~L~s~G~~~~~i~----~~P~iL~~~v~~~l~Pvl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~f 166 (487)
T PLN03196 91 VMRERVEFLHKLGLTIEDIN----EYPLVLGCSVKKNMIPVLDYLEKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVKY 166 (487)
T ss_pred HHHHHHHHHHHcCCChHHhc----cCcHHhhcCHhhhhHHHHHHHHHcCCCHHHHHHHHHhCCceecccHHHHHHHHHHH
Confidence 66789999999999999997 69999999986 79999999999999999999999999999999999999999999
Q ss_pred HHHcCCCCccccccccccccccccccccchhhhHHHHHHhhCCChhhHHHHHhhCcceeeeccccccchhhhhhhhhcCC
Q 010604 272 LISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGA 351 (506)
Q Consensus 272 L~~lGls~~~I~kll~~~P~iL~~s~e~~L~p~v~~L~~~lGv~~~~l~~lI~~~P~iL~~s~e~~l~~kv~fL~k~LG~ 351 (506)
|+++|++.++|++++.++|++|++++++++.|++.||. .+|++++++.+++.++|++|+++++++++++++|| +++|+
T Consensus 167 L~~lGvs~~~i~~~l~r~P~LL~~~~e~~l~p~v~fL~-~lGvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL-~~lGv 244 (487)
T PLN03196 167 LQGLDVKRQDIPRVLERYPELLGFKLEGTMSTSVAYLV-SIGVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYL-ESLGL 244 (487)
T ss_pred HHHcCCCHHHHHHHHHhCchhhcCCHHHHHHHHHHHHH-HcCCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHH-HHcCC
Confidence 99999999999999999999999999999999999996 79999999999999999999999999999999999 68999
Q ss_pred ChhhHHHhhhccccceecccccchHHHHHHHHHhcCChHHHHHHHHhccchhccCccccHHHHHHHHHHHhCCch
Q 010604 352 PRDDVVKMVTKHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEV 426 (506)
Q Consensus 352 s~~ev~~ml~k~P~lL~~sie~~L~~kvefL~~lGfs~eev~~mv~r~P~iL~~Sle~~Lk~K~efLv~~mg~~~ 426 (506)
+.+++.+++.++|++|++++++++++++++|+++|++.+++..++.++|.+|++++++++.++++||.+.||++.
T Consensus 245 ~~~~I~~il~~~P~iL~~sle~~lkp~v~~L~elGv~~~~i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~ 319 (487)
T PLN03196 245 PRLAVARILEKRPYILGFDLEETVKPNVECLLEFGVRKEALPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKIDP 319 (487)
T ss_pred CHHHHHHHHHhCCceeEcCHHHhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEecHHHhhhHHHHHHHHhhCCCH
Confidence 999999999999999999988888888888888888877777777777766666655555555555544444443
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=3.5e-35 Score=303.50 Aligned_cols=252 Identities=31% Similarity=0.550 Sum_probs=210.6
Q ss_pred HHHHHhCCCChHHHHHHHhhcCcccccccc-CHHHHHHHHHHCCCChHhHHHHHhhCCcccccCcccchHHHHHHHHHcC
Q 010604 198 LDYLSTFGLKESHFIQMYERHMPSLQINVC-SARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLG 276 (506)
Q Consensus 198 l~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e-~l~~kL~fL~slGvs~~~l~~iv~~~P~IL~~s~e~~L~p~v~fL~~lG 276 (506)
.++|+++||+++||.++++++|.++.++++ ++.|+++||.++|++.+++.++++++|.||..+++++|.|+++||+++|
T Consensus 1 ~~~~~~~gf~~~~i~~~i~~~P~~l~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~ 80 (345)
T PF02536_consen 1 EDLLKNHGFSDSQISKLIRRYPRLLLCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIG 80 (345)
T ss_dssp -HHHHHHHHHTS-HHHHHH-H-HHHHT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTS
T ss_pred ChHHHHcCCCHHHHHHHHHhCCceEEecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHc
Confidence 368999999999999999999999999987 7999999999999999999999999999999999999999999999999
Q ss_pred CCCccccccccccccccccccccchhhhHHHHHHhhCCChhhHHHHHhhCcceeeeccccccchhhhhhhhhcCCChhhH
Q 010604 277 IPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDV 356 (506)
Q Consensus 277 ls~~~I~kll~~~P~iL~~s~e~~L~p~v~~L~~~lGv~~~~l~~lI~~~P~iL~~s~e~~l~~kv~fL~k~LG~s~~ev 356 (506)
++++++++++.++|++|..+.+.++.+++.||+ ++|++.+.+..++..+|..+... ..+.+.++++ .++|++++++
T Consensus 81 ~s~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~-~lGv~~~~~~~~l~~~~~~~~~~--~~~~~~v~~l-~~lG~~~~~~ 156 (345)
T PF02536_consen 81 LSDEDIVKVLKRYPRILSFSVEENLSPNVAFLR-SLGVPPSQIISLLISRPPLFLSS--EKIKERVEFL-KELGFDPEKI 156 (345)
T ss_dssp S-HHHHHHHHHH-SHHHHS---HHHHHHHHHHH-HTT--HHHHHHHHHH-CHHHHS---HHHHCHHHHH-CCCTSSHHHH
T ss_pred CCHHHHHHHHHhcchhhccchHhhhhhhhhHHh-hcCCcHHHHHHHHHhcCccccch--hHHHHHHHHH-HHhCCCchhh
Confidence 999999999999999999887778999999996 89999998888888888877655 4688999999 6999999999
Q ss_pred HHhhhccccceecccccchHHHHHHHHHhcCChHHHHHHHHhccchhccCccc---------------------------
Q 010604 357 VKMVTKHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLED--------------------------- 409 (506)
Q Consensus 357 ~~ml~k~P~lL~~sie~~L~~kvefL~~lGfs~eev~~mv~r~P~iL~~Sle~--------------------------- 409 (506)
.+++.++|.++....++.|+++++||+++||+.+++.+++.++|.+|.+|+++
T Consensus 157 ~~vi~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~~~i~~~p~il 236 (345)
T PF02536_consen 157 GRVIAKNPRLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEERVIKKFPQIL 236 (345)
T ss_dssp CCCHHHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC---------------------------
T ss_pred cccccccchhhccccHHHHHHHHHHHHhhcccchhhhHHhhcccceeccccccccccccccccccccccccccccccccc
Confidence 99999999888888789999999999999999999999999999999999754
Q ss_pred -----cHHHHHHHHHHHhCCchH----HHhhcCceeecCccCchHHHHHHHHHhh
Q 010604 410 -----NLKPKYTYLINELHNEVQ----SLTKYPMYLSLSLDQRIRPRHRFLVSLK 455 (506)
Q Consensus 410 -----~Lk~K~efLv~~mg~~~~----~I~k~P~lL~ySLEkRI~PR~~fL~~L~ 455 (506)
++.++++||.+ +|++.+ .+.++|.+|+||.++ ++|++.|+..-+
T Consensus 237 ~~~~~~l~~~i~~L~~-lG~s~~ei~~mv~~~P~iL~~s~e~-l~~k~~fl~~~m 289 (345)
T PF02536_consen 237 SLSEEKLKPKIEFLQS-LGFSEEEIAKMVRRFPQILSYSIEK-LKPKFEFLVKEM 289 (345)
T ss_dssp THHHHHHHHHHHHHHT-TT--HHHHHHHHHHSGGGGGS-HHH-HHHHHHHHHHCC
T ss_pred ccchHhHHHHHHHHHH-hcCcHHHHHHHHHhCcchhhcchhh-hhHHHHHHHHHh
Confidence 58889999987 899854 468899999999985 999999998643
No 5
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.97 E-value=2.9e-31 Score=281.82 Aligned_cols=289 Identities=28% Similarity=0.452 Sum_probs=253.8
Q ss_pred ccceeeeecCcCccchhhhhHhhhhhhhhccCcCCChHHHHHHHHhCCCChHHHHHHHhhcCcccccccc-CHHHHHHHH
Q 010604 158 TYYNSKDVDQRGKVMTRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVC-SARERLEYL 236 (506)
Q Consensus 158 ~f~vsyl~~~~g~~~~~~~~~s~~pkl~~~~~~~~~~~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e-~l~~kL~fL 236 (506)
.|++||+++++|+ ..+.+++....+. .....+|++++++|+++|+++.+|..++..+|.++..+.+ .+.+++.+|
T Consensus 59 ~f~~s~~~~s~~~--~~~~~~~~~~~~~--~~~~~~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~l 134 (413)
T KOG1267|consen 59 NFESSYLVDSLGL--SIKLARKLSREVS--SEDSVNPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRLL 134 (413)
T ss_pred Ccceeeecccccc--chhhHHHHHHHHH--hhhccCcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhhh
Confidence 7999999999997 4777787777776 4556899999999999999999999999999999998877 688999999
Q ss_pred HHCCCChHhHHHHHhhCCcccccCcccchHHHHHHHHHcC--CCCccccccccccccccccccccchhhhHHHHHHhhCC
Q 010604 237 LSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLG--IPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGI 314 (506)
Q Consensus 237 ~slGvs~~~l~~iv~~~P~IL~~s~e~~L~p~v~fL~~lG--ls~~~I~kll~~~P~iL~~s~e~~L~p~v~~L~~~lGv 314 (506)
.+.|++.+.+.++++..|.+|....+.++.++++||++++ .....+.+++...|..... +..+. ++.+++ ++|+
T Consensus 135 ~~~g~~~s~l~~i~s~~~~il~~~~~~~~~~~~~~l~~~~~~~~~s~~~~~~~~~~~~~~~--~~~v~-~~~~~~-~lg~ 210 (413)
T KOG1267|consen 135 DSLGLPSSELSSIVSVVPKILLKSKGESLSTFIEFLKSIPPELLSSVVERLLTPVPSFLLN--ENSVE-RLDIRR-ELGV 210 (413)
T ss_pred hccCccccccchhhhccHHHHHhhcCCchhhHHHHhhccchhhhhhHHHHhcccccccccc--ccccc-cchhhH-HhCC
Confidence 9999999999999999999999988899999999999985 7777788887777643322 22355 788886 8899
Q ss_pred ChhhHHHHHhhCcceeee--------------------------------ccccccchhhhhhhhhcCCChhhHHHhhhc
Q 010604 315 NEKSLGKVVQLSPQVLVQ--------------------------------RIDISWNTRCIFLSKELGAPRDDVVKMVTK 362 (506)
Q Consensus 315 ~~~~l~~lI~~~P~iL~~--------------------------------s~e~~l~~kv~fL~k~LG~s~~ev~~ml~k 362 (506)
.+..+..++..+|..+.. ..++++++++.+| +.+||+.++++.|+++
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 988888766666666532 3556789999999 6899999999999999
Q ss_pred cccceeccccc---------------------------chHHHHHHHHHhcCChHHHHHHHHhccchhccCccccHHHHH
Q 010604 363 HPQLLHYSIDD---------------------------GLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKY 415 (506)
Q Consensus 363 ~P~lL~~sie~---------------------------~L~~kvefL~~lGfs~eev~~mv~r~P~iL~~Sle~~Lk~K~ 415 (506)
+|++|+++.+. .+.++++|+...|++..++..|++++|+|+.+++++.++++.
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 388999999999999999999999999999999755999999
Q ss_pred HHHHHHhCCchHHHhhcCceeecCccCchHHHHHHHHHhh
Q 010604 416 TYLINELHNEVQSLTKYPMYLSLSLDQRIRPRHRFLVSLK 455 (506)
Q Consensus 416 efLv~~mg~~~~~I~k~P~lL~ySLEkRI~PR~~fL~~L~ 455 (506)
+|+++.|+++.+.++.+|.+++|++|+|+.||++++.+++
T Consensus 370 ~~~~~~~~~p~~~~~~~p~~~~y~le~ri~pr~~~~~~~~ 409 (413)
T KOG1267|consen 370 EYLLKGLLRPLSALVSFPAFFGYSLEKRIRPRFNVIKKLG 409 (413)
T ss_pred HHHHHHcCchHHHHhccchhhccchhhcchhHHHHHHHHh
Confidence 9999999999999999999999999999999999999886
No 6
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.68 E-value=1.3e-16 Score=169.81 Aligned_cols=240 Identities=25% Similarity=0.427 Sum_probs=186.2
Q ss_pred HhCCCChHHHHHHHhhcCccccccccCHHHHHHHHHHCCCChHhHHHHHhhCCcccccCcccchHHHHHHHHHcCCCCcc
Q 010604 202 STFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSK 281 (506)
Q Consensus 202 ~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~kL~fL~slGvs~~~l~~iv~~~P~IL~~s~e~~L~p~v~fL~~lGls~~~ 281 (506)
.++|.+...+..+... +...+..+....+++|.++|++..++.+++..+|.++..+.++.+.++..+|...|++...
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 4466555555555432 2223455788999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccccccccccccchhhhHHHHHHhhC--CChhhHHHHHhhCcceeeeccccccchhhhhhhhhcCCChhhHH--
Q 010604 282 IGQIIAATPSLFSYSVENSLKPTVRYLVEEVG--INEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVV-- 357 (506)
Q Consensus 282 I~kll~~~P~iL~~s~e~~L~p~v~~L~~~lG--v~~~~l~~lI~~~P~iL~~s~e~~l~~kv~fL~k~LG~s~~ev~-- 357 (506)
+..++...|.+|+.+...++.+.++||+ .++ .....+.++....|....... .+. ++.++ ..+|..+..+.
T Consensus 144 l~~i~s~~~~il~~~~~~~~~~~~~~l~-~~~~~~~~s~~~~~~~~~~~~~~~~~--~v~-~~~~~-~~lg~~~~~L~~~ 218 (413)
T KOG1267|consen 144 LSSIVSVVPKILLKSKGESLSTFIEFLK-SIPPELLSSVVERLLTPVPSFLLNEN--SVE-RLDIR-RELGVKPRLLKSL 218 (413)
T ss_pred cchhhhccHHHHHhhcCCchhhHHHHhh-ccchhhhhhHHHHhcccccccccccc--ccc-cchhh-HHhCCCHHHHHHH
Confidence 9999999999999887778999999996 553 666667777766663322111 111 33333 24444444433
Q ss_pred ------------------------------HhhhccccceecccccchHHHHHHHHHhcCChHHHHHHHHhccchhccCc
Q 010604 358 ------------------------------KMVTKHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSL 407 (506)
Q Consensus 358 ------------------------------~ml~k~P~lL~~sie~~L~~kvefL~~lGfs~eev~~mv~r~P~iL~~Sl 407 (506)
.++.+.|.++..+.++++++++++|.+.||+.+||.+|++++|++|++|
T Consensus 219 l~~~~~~~~~~~~l~~~~~~i~~~g~~p~~~~~v~~~~~~~~~~~~~i~~kv~~l~~~Gf~~~di~~~~~k~P~~l~~s- 297 (413)
T KOG1267|consen 219 LESQPRPVLLYLKLKARLPFLLTLGFDPKTREFVKAPILLSYSSEKTLEPKVEVLKSLGFSREEIWKMVKKCPQILGYS- 297 (413)
T ss_pred HhcCccceeeehhhhhhhhhHHHhccCCchhHHHhhhhhhcccccccHHHHHHHHHHcCCCHHHHHHHHHhCchheEee-
Confidence 3445556666666789999999999999999999999999999999999
Q ss_pred cccHHHHHHHHHHHhCCchHHHhhcCceeecCccCchHHHHHHHHHhh
Q 010604 408 EDNLKPKYTYLINELHNEVQSLTKYPMYLSLSLDQRIRPRHRFLVSLK 455 (506)
Q Consensus 408 e~~Lk~K~efLv~~mg~~~~~I~k~P~lL~ySLEkRI~PR~~fL~~L~ 455 (506)
++++..+++|+++. .+.+.++|+++.+|.. .+.||++++..++
T Consensus 298 ~~~~~~~~~~~~~~----~~~~~k~p~~l~~s~~-~l~~~ie~l~~~g 340 (413)
T KOG1267|consen 298 VKKNLKTTEYLLKN----PKHILKFPQLLRSSED-KLKPRIEFLLSLG 340 (413)
T ss_pred hhhhhHHHHHHHhc----chhhhhhhhhhhccch-hhhhhHHHHHHcC
Confidence 58888999999887 3338999999977754 7999999998886
No 7
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=96.63 E-value=0.0011 Score=70.19 Aligned_cols=8 Identities=13% Similarity=0.472 Sum_probs=3.7
Q ss_pred CCcccccc
Q 010604 98 NGSKYRSQ 105 (506)
Q Consensus 98 ~~~~~~~~ 105 (506)
+|+.--|-
T Consensus 99 dG~~TDnE 106 (458)
T PF10446_consen 99 DGNETDNE 106 (458)
T ss_pred cCccCccc
Confidence 45554443
No 8
>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=96.56 E-value=0.0023 Score=63.27 Aligned_cols=7 Identities=29% Similarity=0.306 Sum_probs=2.8
Q ss_pred ccCCccc
Q 010604 44 LKTNRKS 50 (506)
Q Consensus 44 ~~~~~~~ 50 (506)
.|=.|+.
T Consensus 232 hkyGRQ~ 238 (314)
T PF06524_consen 232 HKYGRQG 238 (314)
T ss_pred chhcccc
Confidence 3334443
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=96.45 E-value=0.0019 Score=42.16 Aligned_cols=29 Identities=45% Similarity=0.683 Sum_probs=20.8
Q ss_pred HHHHhccchhccCccccHHHHHHHHHHHhCC
Q 010604 394 KVLRSLTQVLSLSLEDNLKPKYTYLINELHN 424 (506)
Q Consensus 394 ~mv~r~P~iL~~Sle~~Lk~K~efLv~~mg~ 424 (506)
.++.++|++|.++ +++|+++++||. .+|+
T Consensus 2 ~~~~~~P~il~~~-~~~l~~~~~~l~-~~g~ 30 (31)
T smart00733 2 KILKKFPQILGYS-EKKLKPKVEFLK-ELGF 30 (31)
T ss_pred chhhhCcCccccc-HHHhhHHHHHHH-HcCC
Confidence 3567777777777 677777777777 6665
No 10
>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=96.27 E-value=0.0031 Score=41.12 Aligned_cols=29 Identities=48% Similarity=0.816 Sum_probs=18.4
Q ss_pred HHHhhCCcccccCcccchHHHHHHHHHcCC
Q 010604 248 RILLRQPQILEYTVENNLESHVAFLISLGI 277 (506)
Q Consensus 248 ~iv~~~P~IL~~s~e~~L~p~v~fL~~lGl 277 (506)
+++.++|.+|..+ +++|.++++||+++|+
T Consensus 2 ~~~~~~P~il~~~-~~~l~~~~~~l~~~g~ 30 (31)
T smart00733 2 KILKKFPQILGYS-EKKLKPKVEFLKELGF 30 (31)
T ss_pred chhhhCcCccccc-HHHhhHHHHHHHHcCC
Confidence 3556666666666 4666666666666665
No 11
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=94.53 E-value=0.018 Score=65.37 Aligned_cols=9 Identities=22% Similarity=0.231 Sum_probs=4.2
Q ss_pred ccCCCCceE
Q 010604 25 TRPNTPRFV 33 (506)
Q Consensus 25 ~~~~~~~~~ 33 (506)
|.|-.|+..
T Consensus 1355 Ti~v~R~~~ 1363 (1516)
T KOG1832|consen 1355 TIPVDRCLL 1363 (1516)
T ss_pred eeecccchh
Confidence 445555443
No 12
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=92.86 E-value=0.056 Score=61.62 Aligned_cols=6 Identities=17% Similarity=0.456 Sum_probs=2.4
Q ss_pred cccccC
Q 010604 41 AKILKT 46 (506)
Q Consensus 41 ~~~~~~ 46 (506)
.||..-
T Consensus 1392 ~r~yEI 1397 (1516)
T KOG1832|consen 1392 ARMYEI 1397 (1516)
T ss_pred hhhhhh
Confidence 444433
No 13
>PF03115 Astro_capsid: Astrovirus capsid protein precursor; InterPro: IPR004337 The astrovirus genome is apparently organised with nonstructural proteins encoded at the 5' end and structural proteins at the 3' end []. Proteins in this family are encoded by astrovirus ORF2, one of the three astrovirus ORFs (1a, 1b, 2). The proteins contain a viral RNA-dependent RNA polymerase motif []. The 87kDa precursor polyprotein undergoes an intracellular cleavage to form a 79kDa protein. Subsequently, extracellular trypsin cleavage yields the three proteins forming the infectious virion [].; PDB: 3QSQ_A 3TS3_D.
Probab=92.47 E-value=0.036 Score=63.48 Aligned_cols=6 Identities=17% Similarity=-0.108 Sum_probs=0.0
Q ss_pred eecCcC
Q 010604 164 DVDQRG 169 (506)
Q Consensus 164 l~~~~g 169 (506)
|+|+|+
T Consensus 751 LaDGlS 756 (787)
T PF03115_consen 751 LADGLS 756 (787)
T ss_dssp ------
T ss_pred hccCCC
Confidence 344333
No 14
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=92.17 E-value=0.071 Score=61.51 Aligned_cols=13 Identities=38% Similarity=0.652 Sum_probs=5.6
Q ss_pred CCCcccCCcCccc
Q 010604 79 EDDWLADDDDFAE 91 (506)
Q Consensus 79 ~~~~~~~~~~~~~ 91 (506)
||||++|++|++|
T Consensus 935 ddd~d~~~~~~~e 947 (1010)
T KOG1991|consen 935 DDDFDEDELDLEE 947 (1010)
T ss_pred cccccchhccccc
Confidence 4444444434444
No 15
>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=91.96 E-value=0.15 Score=47.15 Aligned_cols=40 Identities=23% Similarity=0.188 Sum_probs=21.9
Q ss_pred cCCCCceEEEeeccccccccCCccccccCCCCCCCCCCcccC
Q 010604 26 RPNTPRFVVLSTHSNAKILKTNRKSRYGQTLSLYDDDSEEEG 67 (506)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 (506)
.|.-..-||++.-+.-.||- |++-+....|.||.+++|.|
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 44555557777766667777 22222234566655554443
No 16
>PF03066 Nucleoplasmin: Nucleoplasmin; InterPro: IPR004301 The nucleophosmin/nucleoplasmin family of chaperones includes nucleophosmin, nucleoplasmin and nucleoplasmin-like proteins. They function as nuclear chaperones which are needed for the proper assembly of nucleosomes and the attainment of proper higher order chromatin structures [].; GO: 0003676 nucleic acid binding; PDB: 2P1B_E 1XB9_I 1XE0_C 1NLQ_A 2VTX_E 1K5J_D 1EJY_N 1EE5_B 3T30_J.
Probab=91.84 E-value=0.03 Score=51.83 Aligned_cols=7 Identities=43% Similarity=0.506 Sum_probs=2.2
Q ss_pred cCCCCCC
Q 010604 53 GQTLSLY 59 (506)
Q Consensus 53 ~~~~~~~ 59 (506)
|+....+
T Consensus 103 G~~~~~~ 109 (149)
T PF03066_consen 103 GQHLVAM 109 (149)
T ss_dssp EEEEEE-
T ss_pred Ccccccc
Confidence 4333333
No 17
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.43 E-value=0.13 Score=54.02 Aligned_cols=18 Identities=22% Similarity=0.198 Sum_probs=7.5
Q ss_pred CccccccCCCCCCCCCCc
Q 010604 47 NRKSRYGQTLSLYDDDSE 64 (506)
Q Consensus 47 ~~~~~~~~~~~~~~~~~~ 64 (506)
|+..-....+.-||+|||
T Consensus 262 n~sv~~~ss~~edD~Ddd 279 (514)
T KOG3130|consen 262 NCSVNGSSSYHEDDDDDD 279 (514)
T ss_pred cccccCCCCccccccccc
Confidence 333333334445544443
No 18
>PF11702 DUF3295: Protein of unknown function (DUF3295); InterPro: IPR021711 This family is conserved in fungi but the function is not known.
Probab=91.16 E-value=0.096 Score=56.89 Aligned_cols=17 Identities=24% Similarity=0.509 Sum_probs=11.5
Q ss_pred CCCCCCCCcccCCcCccc
Q 010604 74 DDEGKEDDWLADDDDFAE 91 (506)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~ 91 (506)
||||||+|||+.. +++|
T Consensus 307 dDDDDssDWEDSv-eESG 323 (507)
T PF11702_consen 307 DDDDDSSDWEDSV-EESG 323 (507)
T ss_pred cCCccchhhhhcc-cccc
Confidence 5677788995555 5565
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=88.21 E-value=1 Score=37.15 Aligned_cols=11 Identities=18% Similarity=0.211 Sum_probs=4.7
Q ss_pred cccccCCcccc
Q 010604 41 AKILKTNRKSR 51 (506)
Q Consensus 41 ~~~~~~~~~~~ 51 (506)
.+++.|.+--.
T Consensus 23 s~~v~~r~P~~ 33 (77)
T PF12253_consen 23 SKIVTPRNPFA 33 (77)
T ss_pred ccccccCCccc
Confidence 44444444333
No 20
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=85.39 E-value=0.42 Score=55.28 Aligned_cols=14 Identities=29% Similarity=0.399 Sum_probs=6.8
Q ss_pred CCCCCCCCCcccCC
Q 010604 55 TLSLYDDDSEEEGE 68 (506)
Q Consensus 55 ~~~~~~~~~~~~~~ 68 (506)
-+|-|-.|+|||||
T Consensus 309 YDPNy~yd~~eDed 322 (1233)
T KOG1824|consen 309 YDPNYNYDTEEDED 322 (1233)
T ss_pred cCCCCCCCCccchh
Confidence 34556555543333
No 21
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=85.02 E-value=0.45 Score=55.20 Aligned_cols=7 Identities=29% Similarity=0.083 Sum_probs=3.1
Q ss_pred ecCcCcc
Q 010604 165 VDQRGKV 171 (506)
Q Consensus 165 ~~~~g~~ 171 (506)
||-++++
T Consensus 958 VD~f~~f 964 (1010)
T KOG1991|consen 958 VDPFQLF 964 (1010)
T ss_pred cchHHHH
Confidence 4444443
No 22
>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=83.65 E-value=10 Score=39.87 Aligned_cols=94 Identities=19% Similarity=0.287 Sum_probs=51.4
Q ss_pred HhCCCChHHHHHHHhhcCcccccc-------c-cCHHHHHHHHHH--CCCChHhHHHHHhhCCcccccCcccch-HHHHH
Q 010604 202 STFGLKESHFIQMYERHMPSLQIN-------V-CSARERLEYLLS--VGVKQRDVRRILLRQPQILEYTVENNL-ESHVA 270 (506)
Q Consensus 202 ~s~Gfs~~qI~~Ii~r~P~lL~~~-------~-e~l~~kL~fL~s--lGvs~~~l~~iv~~~P~IL~~s~e~~L-~p~v~ 270 (506)
+.+|+..-.+..++++||.+|... + ..+.+...-|.. ..+-.+.-..++.+--.+|.++.+..| -.++.
T Consensus 45 ~~L~l~~~~~~~flrkyP~iF~~~~~~~~~~~~~~LT~~a~~L~~eE~~~~~~~e~~~v~rL~KLLMMS~~~rlpL~ki~ 124 (335)
T PF11955_consen 45 RQLGLKPRKVSRFLRKYPSIFEVFQHPSRSVPWFRLTPEAEDLLREERRVREEMEPDLVERLRKLLMMSKDRRLPLSKIA 124 (335)
T ss_pred HhcCCCcccHHHHHHhCCceEEEeccCCCCCceEEeCHHHHHHHHHHHHHHHhChHHHHHHHHHHhccCCCCcccHHHHH
Confidence 457786677778888888877531 1 134444444432 222111112333333346666664443 33455
Q ss_pred HHH-HcCCCCcccccccccccccccc
Q 010604 271 FLI-SLGIPNSKIGQIIAATPSLFSY 295 (506)
Q Consensus 271 fL~-~lGls~~~I~kll~~~P~iL~~ 295 (506)
.++ ++|++.+-...++.+||..|..
T Consensus 125 ~l~~dLGLP~Df~~~lv~~yP~~Frv 150 (335)
T PF11955_consen 125 HLRRDLGLPDDFRDSLVPKYPDYFRV 150 (335)
T ss_pred HHHHHcCCChhhccchhhhCCCCcEE
Confidence 555 6777777777777777777654
No 23
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=82.96 E-value=0.8 Score=55.80 Aligned_cols=16 Identities=19% Similarity=0.604 Sum_probs=13.2
Q ss_pred hHHHhhcCceeecCcc
Q 010604 426 VQSLTKYPMYLSLSLD 441 (506)
Q Consensus 426 ~~~I~k~P~lL~ySLE 441 (506)
..++-.+|.+|.+.+.
T Consensus 684 ~ky~~~yp~~~ifp~n 699 (2849)
T PTZ00415 684 AKYLNGYPSFFIFPFN 699 (2849)
T ss_pred hhhccCCCceEEeehh
Confidence 4678889999999885
No 24
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=81.33 E-value=0.79 Score=55.85 Aligned_cols=8 Identities=25% Similarity=0.596 Sum_probs=4.3
Q ss_pred ccCCcccc
Q 010604 44 LKTNRKSR 51 (506)
Q Consensus 44 ~~~~~~~~ 51 (506)
+-|.|+.|
T Consensus 131 i~~~~~~r 138 (2849)
T PTZ00415 131 IIKRRRAR 138 (2849)
T ss_pred EeehHHhh
Confidence 34556665
No 25
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=81.19 E-value=0.78 Score=51.44 Aligned_cols=25 Identities=24% Similarity=0.288 Sum_probs=20.4
Q ss_pred hcCceeecCccCchHHHHHHHHHhh
Q 010604 431 KYPMYLSLSLDQRIRPRHRFLVSLK 455 (506)
Q Consensus 431 k~P~lL~ySLEkRI~PR~~fL~~L~ 455 (506)
-+|..++-.++.-++|=|.-++.++
T Consensus 776 ~~Pe~vAp~l~~f~~pWc~sl~~i~ 800 (885)
T KOG2023|consen 776 ICPEEVAPHLDSFMRPWCTSLRNID 800 (885)
T ss_pred cCHHhcchhHHHHHHHHHHHhcccc
Confidence 4577777788888999999888885
No 26
>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=79.53 E-value=1 Score=50.98 Aligned_cols=13 Identities=15% Similarity=0.452 Sum_probs=6.3
Q ss_pred HHHHHCCCChHhH
Q 010604 234 EYLLSVGVKQRDV 246 (506)
Q Consensus 234 ~fL~slGvs~~~l 246 (506)
++|..+|++..+.
T Consensus 341 ~lLAkMGisL~~~ 353 (622)
T PF02724_consen 341 KLLAKMGISLKQA 353 (622)
T ss_pred HHHHHhCCcHHHH
Confidence 3344555555553
No 27
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=79.52 E-value=1.9 Score=45.17 Aligned_cols=17 Identities=24% Similarity=0.200 Sum_probs=6.9
Q ss_pred CcccccccccCCccccc
Q 010604 88 DFAEIEEYDVNGSKYRS 104 (506)
Q Consensus 88 ~~~~~~~~~~~~~~~~~ 104 (506)
++..+.+.+-+|.+-++
T Consensus 310 ~~~~~~~~~~~~~~~~~ 326 (337)
T PTZ00007 310 SDVDTNEEDDRGEKESN 326 (337)
T ss_pred ccccccccccccccccc
Confidence 33333344444444333
No 28
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 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. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=78.13 E-value=1.3 Score=43.93 Aligned_cols=10 Identities=30% Similarity=0.491 Sum_probs=5.8
Q ss_pred ccCCcccccc
Q 010604 96 DVNGSKYRSQ 105 (506)
Q Consensus 96 ~~~~~~~~~~ 105 (506)
+||...|+-+
T Consensus 207 DYna~~YFDn 216 (233)
T PF11705_consen 207 DYNAENYFDN 216 (233)
T ss_pred CcchhccCCC
Confidence 3666666655
No 29
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=78.04 E-value=1 Score=50.54 Aligned_cols=13 Identities=23% Similarity=0.250 Sum_probs=6.7
Q ss_pred ccchHHHHHHHHH
Q 010604 262 ENNLESHVAFLIS 274 (506)
Q Consensus 262 e~~L~p~v~fL~~ 274 (506)
++++-|-++.|.+
T Consensus 576 DKdLfPLLEClSs 588 (885)
T KOG2023|consen 576 DKDLFPLLECLSS 588 (885)
T ss_pred cchHHHHHHHHHH
Confidence 3455555555543
No 30
>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=78.01 E-value=2.5 Score=49.69 Aligned_cols=6 Identities=0% Similarity=0.108 Sum_probs=2.2
Q ss_pred hHHHHH
Q 010604 265 LESHVA 270 (506)
Q Consensus 265 L~p~v~ 270 (506)
+.|.+-
T Consensus 563 VTPall 568 (840)
T PF04147_consen 563 VTPALL 568 (840)
T ss_pred hhHHHH
Confidence 333333
No 31
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=77.77 E-value=1.8 Score=42.70 Aligned_cols=9 Identities=22% Similarity=0.416 Sum_probs=5.1
Q ss_pred ccccCCccc
Q 010604 42 KILKTNRKS 50 (506)
Q Consensus 42 ~~~~~~~~~ 50 (506)
|+.||+...
T Consensus 181 K~~K~K~~~ 189 (218)
T PF14283_consen 181 KFYKPKQEE 189 (218)
T ss_pred EEecccccc
Confidence 566665543
No 32
>KOG3241 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.90 E-value=1.7 Score=41.06 Aligned_cols=15 Identities=33% Similarity=0.266 Sum_probs=6.4
Q ss_pred CCCCCCCCCCcccCC
Q 010604 72 DDDDEGKEDDWLADD 86 (506)
Q Consensus 72 ~~~~~~~~~~~~~~~ 86 (506)
|.|+||...|++-|+
T Consensus 200 d~D~eD~~gD~e~~~ 214 (227)
T KOG3241|consen 200 DSDEEDNVGDDEHDL 214 (227)
T ss_pred ccccccccCcccccc
Confidence 333444444444444
No 33
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=76.67 E-value=2 Score=47.18 Aligned_cols=16 Identities=6% Similarity=0.059 Sum_probs=7.1
Q ss_pred hccccccc-cCCCccce
Q 010604 146 NRRNTIKN-SFDDTYYN 161 (506)
Q Consensus 146 ~~~~~~~~-~~~~~f~v 161 (506)
.+.|+..+ ++...+||
T Consensus 279 ~~q~k~~~en~~~~~tV 295 (678)
T KOG0127|consen 279 KAQNKTTRENITEGKTV 295 (678)
T ss_pred hhccccccccccccceE
Confidence 34455444 34444444
No 34
>PHA03346 US22 family homolog; Provisional
Probab=75.38 E-value=2.5 Score=46.70 Aligned_cols=9 Identities=22% Similarity=0.025 Sum_probs=3.6
Q ss_pred cCCcccccc
Q 010604 97 VNGSKYRSQ 105 (506)
Q Consensus 97 ~~~~~~~~~ 105 (506)
+++.+-.+.
T Consensus 452 ~~~~~~~~~ 460 (520)
T PHA03346 452 VYDLKDVDE 460 (520)
T ss_pred cccchhhhh
Confidence 344444333
No 35
>PF13324 GCIP: Grap2 and cyclin-D-interacting; PDB: 3AY5_A.
Probab=72.67 E-value=1.2 Score=45.08 Aligned_cols=16 Identities=19% Similarity=0.229 Sum_probs=6.3
Q ss_pred HHHHHHHhCCCChHHH
Q 010604 196 PLLDYLSTFGLKESHF 211 (506)
Q Consensus 196 ~vl~fL~s~Gfs~~qI 211 (506)
.++...+.++-.-.++
T Consensus 229 ~L~~~~~~i~~~VDel 244 (275)
T PF13324_consen 229 KLLDLCQEISPSVDEL 244 (275)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhhHHHHH
Confidence 3344444443333333
No 36
>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=72.14 E-value=4.6 Score=38.16 Aligned_cols=21 Identities=5% Similarity=0.064 Sum_probs=12.3
Q ss_pred HHHHHHHhCCCChHHHHHHHh
Q 010604 196 PLLDYLSTFGLKESHFIQMYE 216 (506)
Q Consensus 196 ~vl~fL~s~Gfs~~qI~~Ii~ 216 (506)
..+..|+++||+-++|..++.
T Consensus 49 ~~I~~lr~~G~sL~eI~~ll~ 69 (172)
T cd04790 49 EQICAYRSAGVSLEDIRSLLQ 69 (172)
T ss_pred HHHHHHHHcCCCHHHHHHHHh
Confidence 345555666666666666554
No 37
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=71.49 E-value=2.4 Score=48.96 Aligned_cols=45 Identities=22% Similarity=0.325 Sum_probs=21.4
Q ss_pred ChHHHHHHHHhCCC-ChHHHHHHHhhcCcccccccc---CHHHHHHHHHHCCCC
Q 010604 193 KWLPLLDYLSTFGL-KESHFIQMYERHMPSLQINVC---SARERLEYLLSVGVK 242 (506)
Q Consensus 193 ~~~~vl~fL~s~Gf-s~~qI~~Ii~r~P~lL~~~~e---~l~~kL~fL~slGvs 242 (506)
-|.-+-++..++|. ..+.+. . -..+.++|. -+.++...++..|--
T Consensus 209 ~W~~ladls~~~~~i~qA~~c--y---~rAI~~~p~n~~~~~ers~L~~~~G~~ 257 (895)
T KOG2076|consen 209 LWKRLADLSEQLGNINQARYC--Y---SRAIQANPSNWELIYERSSLYQKTGDL 257 (895)
T ss_pred HHHHHHHHHHhcccHHHHHHH--H---HHHHhcCCcchHHHHHHHHHHHHhChH
Confidence 34455666677763 222221 1 122333333 345666666666643
No 38
>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=71.37 E-value=2.6 Score=43.94 Aligned_cols=9 Identities=22% Similarity=0.534 Sum_probs=5.1
Q ss_pred CChHHHHHH
Q 010604 206 LKESHFIQM 214 (506)
Q Consensus 206 fs~~qI~~I 214 (506)
||+.++.+|
T Consensus 190 LT~eDF~kI 198 (324)
T PF05285_consen 190 LTPEDFAKI 198 (324)
T ss_pred CCHHHHHHH
Confidence 556665555
No 39
>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]
Probab=70.73 E-value=4.2 Score=44.45 Aligned_cols=12 Identities=25% Similarity=0.371 Sum_probs=6.5
Q ss_pred ccccccCCcccc
Q 010604 40 NAKILKTNRKSR 51 (506)
Q Consensus 40 ~~~~~~~~~~~~ 51 (506)
+--|--|||+++
T Consensus 70 ~~di~~~~~~~n 81 (641)
T KOG0772|consen 70 ESDIRGPNRNPN 81 (641)
T ss_pred hhhccccccccc
Confidence 334555666655
No 40
>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=69.71 E-value=1.5 Score=47.28 Aligned_cols=24 Identities=46% Similarity=0.693 Sum_probs=0.0
Q ss_pred CCCCCCCCcccCCcCcccccccccC
Q 010604 74 DDEGKEDDWLADDDDFAEIEEYDVN 98 (506)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~~ 98 (506)
+++||+++|+-|| |.+-|.|++++
T Consensus 70 ~~~~e~~gWD~dd-Dl~lp~e~d~~ 93 (422)
T PF06957_consen 70 EDEDEEGGWDLDD-DLDLPEELDVP 93 (422)
T ss_dssp -------------------------
T ss_pred ccccccccccccc-ccCCCcccccc
Confidence 4466778888755 66666666654
No 41
>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=68.14 E-value=14 Score=25.53 Aligned_cols=23 Identities=17% Similarity=0.355 Sum_probs=17.3
Q ss_pred HHHHHHHHhcCChHHHHHHHHhc
Q 010604 377 PRINFLRSIGMRNSDILKVLRSL 399 (506)
Q Consensus 377 ~kvefL~~lGfs~eev~~mv~r~ 399 (506)
..++-|..|||+++++...+..+
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 46777888899988888877765
No 42
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=67.91 E-value=4.6 Score=35.34 Aligned_cols=8 Identities=25% Similarity=0.165 Sum_probs=4.2
Q ss_pred ccCCCCCC
Q 010604 52 YGQTLSLY 59 (506)
Q Consensus 52 ~~~~~~~~ 59 (506)
.|.-+|-.
T Consensus 82 GgDDlpDl 89 (129)
T COG4530 82 GGDDLPDL 89 (129)
T ss_pred CCCccccc
Confidence 45566633
No 43
>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=67.63 E-value=9 Score=40.21 Aligned_cols=96 Identities=19% Similarity=0.277 Sum_probs=51.5
Q ss_pred HHCCCChHhHHHHHhhCCcccccCcc-cc------hHHHHHHHH--HcCCCCccccccccccccccccccccch-hhhHH
Q 010604 237 LSVGVKQRDVRRILLRQPQILEYTVE-NN------LESHVAFLI--SLGIPNSKIGQIIAATPSLFSYSVENSL-KPTVR 306 (506)
Q Consensus 237 ~slGvs~~~l~~iv~~~P~IL~~s~e-~~------L~p~v~fL~--~lGls~~~I~kll~~~P~iL~~s~e~~L-~p~v~ 306 (506)
..+|+....+...+.++|.|+..... .. +.+...-|- +..+-.+.-..++.+--.+|+++.++.| -..|.
T Consensus 45 ~~L~l~~~~~~~flrkyP~iF~~~~~~~~~~~~~~LT~~a~~L~~eE~~~~~~~e~~~v~rL~KLLMMS~~~rlpL~ki~ 124 (335)
T PF11955_consen 45 RQLGLKPRKVSRFLRKYPSIFEVFQHPSRSVPWFRLTPEAEDLLREERRVREEMEPDLVERLRKLLMMSKDRRLPLSKIA 124 (335)
T ss_pred HhcCCCcccHHHHHHhCCceEEEeccCCCCCceEEeCHHHHHHHHHHHHHHHhChHHHHHHHHHHhccCCCCcccHHHHH
Confidence 34777667777888888887765431 11 222222221 1222111123333444455666665543 22455
Q ss_pred HHHHhhCCChhhHHHHHhhCcceeee
Q 010604 307 YLVEEVGINEKSLGKVVQLSPQVLVQ 332 (506)
Q Consensus 307 ~L~~~lGv~~~~l~~lI~~~P~iL~~ 332 (506)
.++.++|+|.+-...++.++|..|..
T Consensus 125 ~l~~dLGLP~Df~~~lv~~yP~~Frv 150 (335)
T PF11955_consen 125 HLRRDLGLPDDFRDSLVPKYPDYFRV 150 (335)
T ss_pred HHHHHcCCChhhccchhhhCCCCcEE
Confidence 66667777777777777777777643
No 44
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=67.10 E-value=4.3 Score=44.54 Aligned_cols=11 Identities=9% Similarity=0.172 Sum_probs=5.6
Q ss_pred CCChHHHHHHH
Q 010604 205 GLKESHFIQMY 215 (506)
Q Consensus 205 Gfs~~qI~~Ii 215 (506)
|++-+++++..
T Consensus 558 gi~~~dv~kk~ 568 (615)
T KOG0526|consen 558 GISVGDVAKKA 568 (615)
T ss_pred CchHHHHHHHH
Confidence 55555555443
No 45
>PHA02811 putative host range protein; Provisional
Probab=66.78 E-value=3.8 Score=39.10 Aligned_cols=11 Identities=27% Similarity=0.392 Sum_probs=4.9
Q ss_pred cCCCCCCCCCC
Q 010604 53 GQTLSLYDDDS 63 (506)
Q Consensus 53 ~~~~~~~~~~~ 63 (506)
|..+-.|+.+|
T Consensus 155 ~~~y~~~~~~d 165 (197)
T PHA02811 155 SDDYYLYDACD 165 (197)
T ss_pred ccccccccccc
Confidence 44454444443
No 46
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=66.21 E-value=5.2 Score=43.46 Aligned_cols=36 Identities=33% Similarity=0.380 Sum_probs=20.8
Q ss_pred CCCCCCCCCcccCCCCCCCCCCCCCCCcccCCcCccc
Q 010604 55 TLSLYDDDSEEEGEDDDDDDDEGKEDDWLADDDDFAE 91 (506)
Q Consensus 55 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (506)
+.|+.|..|.|||++||||=|-||+|-.-+|| ..+|
T Consensus 418 tnppad~~dgdde~eddddidvdeediessdd-gtde 453 (990)
T KOG1819|consen 418 TNPPADNEDGDDEAEDDDDIDVDEEDIESSDD-GTDE 453 (990)
T ss_pred CCCccccccCcccccCcccccccccccccccc-cchH
Confidence 67788777766666655555545444444444 4443
No 47
>KOG2270 consensus Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms; Cell cycle control, cell division, chromosome partitioning]
Probab=66.21 E-value=4 Score=43.66 Aligned_cols=34 Identities=18% Similarity=0.088 Sum_probs=20.2
Q ss_pred CCCcCCchhhh-hhhhccccccccCCCccceeeee
Q 010604 132 GRSLQGAQEQL-DIRNRRNTIKNSFDDTYYNSKDV 165 (506)
Q Consensus 132 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~f~vsyl~ 165 (506)
+.+.+.+-.++ ..--+|+|.+..+-.+++++|..
T Consensus 71 ~~s~~~n~~kll~~~~~~ik~~~t~~~t~~~~~~~ 105 (520)
T KOG2270|consen 71 GASKYTNNQKLLEKYEARIKRGTTTSVTVRSSYSL 105 (520)
T ss_pred hhhhcccHHHHHHHHhhhccccccccchhhhhchh
Confidence 34444444444 55567777777666666666543
No 48
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=65.86 E-value=3.4 Score=48.21 Aligned_cols=31 Identities=16% Similarity=0.232 Sum_probs=16.0
Q ss_pred cCCCCccccccccccccccccccccchhhhHHH
Q 010604 275 LGIPNSKIGQIIAATPSLFSYSVENSLKPTVRY 307 (506)
Q Consensus 275 lGls~~~I~kll~~~P~iL~~s~e~~L~p~v~~ 307 (506)
.|+=..+|+++..-.+.=....+ +|.|+|.|
T Consensus 269 rG~YKgDLAqVd~Vd~~~n~v~l--KlIPRIDy 299 (1024)
T KOG1999|consen 269 RGKYKGDLAQVDDVDENRNRVRL--KLIPRIDY 299 (1024)
T ss_pred ccccccceeeeeeecccCCEEEE--EEeccccH
Confidence 45656666666544333222222 36677766
No 49
>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=65.85 E-value=3.7 Score=39.93 Aligned_cols=37 Identities=27% Similarity=0.276 Sum_probs=25.0
Q ss_pred ccccchhccCCcchhhcccccccccCCCCceEEEeecccccccc
Q 010604 2 SLLCLHSVFSSPATILHSHSLVQTRPNTPRFVVLSTHSNAKILK 45 (506)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 45 (506)
|+||||.| |++-.-+.|-++|.+. .-|+=..-+.+|+
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 2344455556666
No 50
>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=64.22 E-value=3.5 Score=43.03 Aligned_cols=9 Identities=22% Similarity=0.453 Sum_probs=4.0
Q ss_pred ccccccccC
Q 010604 38 HSNAKILKT 46 (506)
Q Consensus 38 ~~~~~~~~~ 46 (506)
+.||.+|..
T Consensus 33 ev~P~lL~k 41 (324)
T PF05285_consen 33 EVNPELLHK 41 (324)
T ss_pred HHCHHhcCc
Confidence 344444443
No 51
>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=62.76 E-value=14 Score=34.89 Aligned_cols=24 Identities=29% Similarity=0.403 Sum_probs=19.7
Q ss_pred HHHHHHHHCCCChHhHHHHHhhCC
Q 010604 231 ERLEYLLSVGVKQRDVRRILLRQP 254 (506)
Q Consensus 231 ~kL~fL~slGvs~~~l~~iv~~~P 254 (506)
..+.+|+++|++-++|..++....
T Consensus 49 ~~I~~lr~~G~sL~eI~~ll~~~~ 72 (172)
T cd04790 49 EQICAYRSAGVSLEDIRSLLQQPG 72 (172)
T ss_pred HHHHHHHHcCCCHHHHHHHHhcCC
Confidence 667888999999999998887543
No 52
>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=62.13 E-value=6 Score=44.97 Aligned_cols=12 Identities=25% Similarity=0.587 Sum_probs=6.4
Q ss_pred HHHhCCCChHHH
Q 010604 200 YLSTFGLKESHF 211 (506)
Q Consensus 200 fL~s~Gfs~~qI 211 (506)
++.=+|++.-.+
T Consensus 239 W~AIvGlT~q~i 250 (622)
T PF02724_consen 239 WLAIVGLTDQYI 250 (622)
T ss_pred HHHHHhhhHHhh
Confidence 344466665544
No 53
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=62.02 E-value=4 Score=45.83 Aligned_cols=9 Identities=56% Similarity=0.756 Sum_probs=3.8
Q ss_pred CCCCCCccc
Q 010604 58 LYDDDSEEE 66 (506)
Q Consensus 58 ~~~~~~~~~ 66 (506)
-|.-|.|+|
T Consensus 518 DYEVdSDeE 526 (811)
T KOG4364|consen 518 DYEVDSDEE 526 (811)
T ss_pred cccccCccc
Confidence 354444433
No 54
>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=59.63 E-value=5.2 Score=37.65 Aligned_cols=17 Identities=35% Similarity=0.722 Sum_probs=9.3
Q ss_pred ccccCCcc-ccccCCCCCC
Q 010604 42 KILKTNRK-SRYGQTLSLY 59 (506)
Q Consensus 42 ~~~~~~~~-~~~~~~~~~~ 59 (506)
|+=|++|| .||| -+..+
T Consensus 118 R~r~~~rktRkYg-vl~~~ 135 (163)
T PF06679_consen 118 RLRRRNRKTRKYG-VLTTR 135 (163)
T ss_pred hhccccccceeec-ccCCC
Confidence 34455666 4577 55555
No 55
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=59.01 E-value=7.4 Score=44.25 Aligned_cols=21 Identities=5% Similarity=0.137 Sum_probs=13.1
Q ss_pred chHHHHHHHHHhcCChHHHHH
Q 010604 374 GLLPRINFLRSIGMRNSDILK 394 (506)
Q Consensus 374 ~L~~kvefL~~lGfs~eev~~ 394 (506)
....-++-|.++++...+...
T Consensus 633 DyiDAFEklLkL~LK~~Q~rE 653 (822)
T KOG2141|consen 633 DYIDAFEKLLKLSLKGKQERE 653 (822)
T ss_pred HHHHHHHHHHhccCCCcchHH
Confidence 445566666788887764443
No 56
>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=56.53 E-value=15 Score=33.30 Aligned_cols=38 Identities=24% Similarity=0.353 Sum_probs=27.2
Q ss_pred ccccceecccccchHHHHHHHHHhcCChHHHHHHHHhccchh
Q 010604 362 KHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVL 403 (506)
Q Consensus 362 k~P~lL~~sie~~L~~kvefL~~lGfs~eev~~mv~r~P~iL 403 (506)
.+|.+-. ..+..|++||++-|++.+||..++.+.+.--
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 3566553 4578999999999999999999999886654
No 57
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=55.04 E-value=31 Score=23.52 Aligned_cols=23 Identities=30% Similarity=0.531 Sum_probs=17.7
Q ss_pred HHHHHHHHhcCChHHHHHHHHhc
Q 010604 377 PRINFLRSIGMRNSDILKVLRSL 399 (506)
Q Consensus 377 ~kvefL~~lGfs~eev~~mv~r~ 399 (506)
.+++-|..|||+++++...+..+
T Consensus 3 ~~v~~L~~mGf~~~~a~~aL~~~ 25 (37)
T smart00165 3 EKIDQLLEMGFSREEALKALRAA 25 (37)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 46777888888888888777665
No 58
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=53.47 E-value=28 Score=29.38 Aligned_cols=43 Identities=23% Similarity=0.402 Sum_probs=24.7
Q ss_pred HHHHHHHHhCCCChHHHHHHHhhcCccccccccCHHHHHHHHHHCCCChHhHHHHHhhCCcccccCc
Q 010604 195 LPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQPQILEYTV 261 (506)
Q Consensus 195 ~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~kL~fL~slGvs~~~l~~iv~~~P~IL~~s~ 261 (506)
..++.+|..+|++...+.+|++.+- .+...+|..+|..|..++
T Consensus 9 ~~~~~~L~~~gl~~~~a~kl~~~yg------------------------~~ai~~l~~nPY~L~~~i 51 (94)
T PF14490_consen 9 RELMAFLQEYGLSPKLAMKLYKKYG------------------------DDAIEILKENPYRLIEDI 51 (94)
T ss_dssp HHHHHHHHHTT--HHHHHHHHHHH-------------------------TTHHHHHHH-STCCCB-S
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHh------------------------HHHHHHHHHChHHHHHHc
Confidence 4567777777777777777765431 244466677777776644
No 59
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=53.39 E-value=56 Score=26.62 Aligned_cols=55 Identities=9% Similarity=0.423 Sum_probs=39.0
Q ss_pred HHHHHHHhCCCChHHHHHHHhhcCccccccccCHHHHHHHHHHCCCChHhHHHH---HhhCCccc
Q 010604 196 PLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRRI---LLRQPQIL 257 (506)
Q Consensus 196 ~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~kL~fL~slGvs~~~l~~i---v~~~P~IL 257 (506)
|+++.|+.+.+|+.+|..++... .++.......+..+|++...+..+ |-.+|.++
T Consensus 3 PIia~LKehnvsd~qi~elFq~l-------T~NPl~AMa~i~qLGip~eKLQ~lm~~VMqnP~Li 60 (82)
T PF11212_consen 3 PIIAILKEHNVSDEQINELFQAL-------TQNPLAAMATIQQLGIPQEKLQQLMAQVMQNPALI 60 (82)
T ss_pred hHHHHHHHcCCCHHHHHHHHHHH-------hhCHHHHHHHHHHcCCCHHHHHHHHHHHhcChHHH
Confidence 67888999999999998887531 245556677778888888777544 44455544
No 60
>KOG3871 consensus Cell adhesion complex protein bystin [Extracellular structures]
Probab=52.85 E-value=6.2 Score=41.38 Aligned_cols=12 Identities=33% Similarity=0.559 Sum_probs=5.5
Q ss_pred CCCCCCCcccCC
Q 010604 57 SLYDDDSEEEGE 68 (506)
Q Consensus 57 ~~~~~~~~~~~~ 68 (506)
-.|++|++++++
T Consensus 90 ~~~~ee~~i~~~ 101 (449)
T KOG3871|consen 90 ASYGEEDEIEEE 101 (449)
T ss_pred cccccccccccc
Confidence 344455444444
No 61
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=52.34 E-value=9.2 Score=44.81 Aligned_cols=9 Identities=11% Similarity=0.349 Sum_probs=4.8
Q ss_pred chHHHHHHH
Q 010604 264 NLESHVAFL 272 (506)
Q Consensus 264 ~L~p~v~fL 272 (506)
.|.|+|++=
T Consensus 292 KlIPRIDyq 300 (1024)
T KOG1999|consen 292 KLIPRIDYQ 300 (1024)
T ss_pred EEeccccHH
Confidence 355666553
No 62
>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=52.25 E-value=39 Score=23.12 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=17.5
Q ss_pred HHHHHHHHhcCChHHHHHHHHhc
Q 010604 377 PRINFLRSIGMRNSDILKVLRSL 399 (506)
Q Consensus 377 ~kvefL~~lGfs~eev~~mv~r~ 399 (506)
.+++-|..|||+++++...+..+
T Consensus 3 ~~v~~L~~mGf~~~~~~~AL~~~ 25 (38)
T cd00194 3 EKLEQLLEMGFSREEARKALRAT 25 (38)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 46777888888888887777655
No 63
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=51.75 E-value=13 Score=45.80 Aligned_cols=32 Identities=25% Similarity=0.266 Sum_probs=14.8
Q ss_pred ccccccCCccccccCCCCCCCCCCcccCCCCC
Q 010604 40 NAKILKTNRKSRYGQTLSLYDDDSEEEGEDDD 71 (506)
Q Consensus 40 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 71 (506)
++.-..+++.+|...+.+..-.|+..|+||++
T Consensus 1340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1371 (1388)
T PTZ00108 1340 RVKQASASQSSRLLRRPRKKKSDSSSEDDDDS 1371 (1388)
T ss_pred hhhhcccccccccccCCCcccccccccccccc
Confidence 34444445555554455555444444444333
No 64
>KOG3540 consensus Beta amyloid precursor protein [General function prediction only]
Probab=51.18 E-value=12 Score=40.76 Aligned_cols=18 Identities=17% Similarity=0.025 Sum_probs=8.8
Q ss_pred hhhcccccccccCCCCce
Q 010604 15 TILHSHSLVQTRPNTPRF 32 (506)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~ 32 (506)
+..|+|--||.-=.+++.
T Consensus 148 n~~hwh~ea~etC~tk~m 165 (615)
T KOG3540|consen 148 NNQHWHKEAMETCSTKGM 165 (615)
T ss_pred chHHHHHHHHHHhccCCe
Confidence 344555555554455543
No 65
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=50.78 E-value=7.9 Score=42.42 Aligned_cols=43 Identities=26% Similarity=0.466 Sum_probs=19.6
Q ss_pred CCCCCCCCCcccCCCCCCCCCCCCCCCcccCCcCcccccccccCC
Q 010604 55 TLSLYDDDSEEEGEDDDDDDDEGKEDDWLADDDDFAEIEEYDVNG 99 (506)
Q Consensus 55 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (506)
+...|+.|++++.|||| ||.|.|-+-|.++-|..+..+++.-|
T Consensus 177 kd~s~~~dgda~sdEde--dd~D~Dve~D~~~ld~eq~~tlnkqg 219 (653)
T KOG2548|consen 177 KDNSLDADGDAESDEDE--DDEDEDVEFDSNDLDDEQMETLNKQG 219 (653)
T ss_pred ccCcccccccccccccc--cccccccccccccCCHHHHHHHHhhh
Confidence 55666666665333222 23333333333343445555555543
No 66
>TIGR00844 c_cpa1 na(+)/h(+) antiporter. This model is specific for the fungal members of this family.
Probab=50.68 E-value=11 Score=43.87 Aligned_cols=58 Identities=24% Similarity=0.294 Sum_probs=34.3
Q ss_pred cccCCCCceEEEeeccccccccCCccccccCCCCCCCCCCcccCCCCCCCCCCCCCCCcccCC
Q 010604 24 QTRPNTPRFVVLSTHSNAKILKTNRKSRYGQTLSLYDDDSEEEGEDDDDDDDEGKEDDWLADD 86 (506)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (506)
-+.|.+|..-|.|--+..-|-||.|-+-+|. ... .+.||| ..||+.|.+.+||+++-|
T Consensus 742 k~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~-~~~--~~~~~~--~~~~~~~~~~~~~~~~~~ 799 (810)
T TIGR00844 742 KRKIKKRNDSVVSVDEEKAIEGPSRVPERGN-HDL--LHSEDE--MADDEAESENMDDYEDSD 799 (810)
T ss_pred CCCccccCCcccccchhhcccCCCCCCcccc-chh--cccchh--hccchhcccccccccccc
Confidence 4455556555777788888999988887773 222 333322 444445555555555544
No 67
>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=50.50 E-value=14 Score=33.48 Aligned_cols=30 Identities=17% Similarity=0.297 Sum_probs=22.4
Q ss_pred CHHHHHHHHHHCCCChHhHHHHHhhCCccc
Q 010604 228 SARERLEYLLSVGVKQRDVRRILLRQPQIL 257 (506)
Q Consensus 228 ~l~~kL~fL~slGvs~~~l~~iv~~~P~IL 257 (506)
.+..|++||++.|++.++|...+.+.+.--
T Consensus 22 p~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 22 PLEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp -HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred CHHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 588999999999999999999988865433
No 68
>PRK14134 recX recombination regulator RecX; Provisional
Probab=50.07 E-value=1.3e+02 Score=30.72 Aligned_cols=162 Identities=12% Similarity=0.039 Sum_probs=92.9
Q ss_pred cCCCccceeee-ecCcCccchhhhhHhhhhhhhhccCcCCChHHHHHHHHhCCCChHHHHHHHhhcCccccccccCHHHH
Q 010604 154 SFDDTYYNSKD-VDQRGKVMTRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARER 232 (506)
Q Consensus 154 ~~~~~f~vsyl-~~~~g~~~~~~~~~s~~pkl~~~~~~~~~~~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~k 232 (506)
.....|.||.. +-.+||..+..+.+..+..+...-.+..-....+.+|..---|..++..-+... .++.+.+...
T Consensus 23 d~~~af~v~~~~l~~~~L~kG~eld~e~~~ei~~~~~~~~a~~~AL~~Ls~r~rSe~Elr~KL~~k----~~~~~~Ie~v 98 (283)
T PRK14134 23 DEEFAFACSAELVYYHNLKKGKVIDVNSLNDIIKEDNYIKCKGYALKYIEKSYKTEKQIKEKLYLK----EYDEDAVNRV 98 (283)
T ss_pred cCCeEEEecHHHHHHhCCcCCCCcCHHHHHHHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHhC----CCCHHHHHHH
Confidence 44456777743 345677666666666665554222333344566777776667777777766543 3556678888
Q ss_pred HHHHHHCCC-ChHhHHHHHhhCCcccccCcccchHHHHHHHHHcCCCCcccccccccccccc-----------------c
Q 010604 233 LEYLLSVGV-KQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLF-----------------S 294 (506)
Q Consensus 233 L~fL~slGv-s~~~l~~iv~~~P~IL~~s~e~~L~p~v~fL~~lGls~~~I~kll~~~P~iL-----------------~ 294 (506)
+++|.+.|+ +....+....+.- +-... -.....-|+..|++.+.|..++...+.-- .
T Consensus 99 I~~L~e~~yldD~ryA~~yv~~~-~~~~G----~~~I~~eL~qKGI~~~iIe~al~~~~~e~e~e~a~~l~~Kk~~~~~~ 173 (283)
T PRK14134 99 IRFLKEYNFIDDDKYCDMYIREK-INSYG----RNKIKYTLLNKGIKENIIIEKINNIDEEKEKKVAYKLAEKKYKILIL 173 (283)
T ss_pred HHHHHHCCCCCHHHHHHHHHHHH-HHhhh----HHHHHHHHHHCCCCHHHHHHHHHhCChhhHHHHHHHHHHHhhccccc
Confidence 888888875 6666666655431 11111 12223457788888877776665432100 0
Q ss_pred c--ccccchhhhHHHHHHhhCCChhhHHHHHhh
Q 010604 295 Y--SVENSLKPTVRYLVEEVGINEKSLGKVVQL 325 (506)
Q Consensus 295 ~--s~e~~L~p~v~~L~~~lGv~~~~l~~lI~~ 325 (506)
. +....-.-.+.||. .-||+.+.|..++..
T Consensus 174 ~~~~~~k~k~Kl~~~L~-rrGFs~~~I~~vl~~ 205 (283)
T PRK14134 174 SEKNKFKIYKKLGPYLI-SRGYSSNIAEWILNE 205 (283)
T ss_pred ccccHHHHHHHHHHHHH-HCCCCHHHHHHHHHH
Confidence 0 00001123567775 678888888777754
No 69
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=50.03 E-value=15 Score=41.54 Aligned_cols=8 Identities=25% Similarity=0.314 Sum_probs=3.9
Q ss_pred EEeecccc
Q 010604 34 VLSTHSNA 41 (506)
Q Consensus 34 ~~~~~~~~ 41 (506)
.|-+|-|-
T Consensus 483 lLqF~~Nr 490 (811)
T KOG4364|consen 483 LLQFDKNR 490 (811)
T ss_pred Hhhhcccc
Confidence 34455553
No 70
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=47.40 E-value=7.8 Score=42.61 Aligned_cols=6 Identities=33% Similarity=0.252 Sum_probs=2.4
Q ss_pred cccccC
Q 010604 41 AKILKT 46 (506)
Q Consensus 41 ~~~~~~ 46 (506)
.+|-+-
T Consensus 428 lki~N~ 433 (615)
T KOG0526|consen 428 LKIRNE 433 (615)
T ss_pred ceeecC
Confidence 344333
No 71
>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=46.57 E-value=8 Score=37.64 Aligned_cols=21 Identities=14% Similarity=0.186 Sum_probs=12.7
Q ss_pred HHHHHHHhCCCChHHHHHHHh
Q 010604 196 PLLDYLSTFGLKESHFIQMYE 216 (506)
Q Consensus 196 ~vl~fL~s~Gfs~~qI~~Ii~ 216 (506)
.+...|..+=|++.+|..++.
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 345566666777777776664
No 72
>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=46.11 E-value=16 Score=32.28 Aligned_cols=20 Identities=10% Similarity=0.092 Sum_probs=11.4
Q ss_pred cCCccccccCCCCCCCCCCc
Q 010604 45 KTNRKSRYGQTLSLYDDDSE 64 (506)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~ 64 (506)
-|-|-+|+.+..|+...-.+
T Consensus 121 ipyrp~rq~d~~p~~~~~~~ 140 (150)
T PF06084_consen 121 IPYRPCRQNDNSPPIEPNGT 140 (150)
T ss_pred cCCCcccccCCCCcccCCCC
Confidence 36677776655555544443
No 73
>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=43.44 E-value=12 Score=36.43 Aligned_cols=18 Identities=11% Similarity=0.418 Sum_probs=7.7
Q ss_pred HHHHHCCCChHhHHHHHh
Q 010604 234 EYLLSVGVKQRDVRRILL 251 (506)
Q Consensus 234 ~fL~slGvs~~~l~~iv~ 251 (506)
+.|..+-+++..+.+++.
T Consensus 117 ~~~~~ikl~~k~id~L~~ 134 (211)
T PF04546_consen 117 EEFMEIKLSPKQIDRLVE 134 (211)
T ss_dssp HHHTTCEE-HHHHHHHCH
T ss_pred HHHHhhccCHHHHHHHHH
Confidence 334444445555544443
No 74
>PLN03237 DNA topoisomerase 2; Provisional
Probab=42.64 E-value=11 Score=46.38 Aligned_cols=20 Identities=35% Similarity=0.461 Sum_probs=12.9
Q ss_pred cCCccccccCCCCCCCCCCc
Q 010604 45 KTNRKSRYGQTLSLYDDDSE 64 (506)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~ 64 (506)
.|.|..|.|.++.-||.++|
T Consensus 1434 r~~~~~r~~~~~~~~~~e~~ 1453 (1465)
T PLN03237 1434 RPQRANRKQTTYVLSDSESE 1453 (1465)
T ss_pred cchhhhcCCceEEecCcccc
Confidence 45555566767777766665
No 75
>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]
Probab=42.47 E-value=16 Score=41.51 Aligned_cols=11 Identities=36% Similarity=0.537 Sum_probs=5.7
Q ss_pred CCCCCCCcccC
Q 010604 57 SLYDDDSEEEG 67 (506)
Q Consensus 57 ~~~~~~~~~~~ 67 (506)
|-.|+|+|+++
T Consensus 15 pe~dsDee~~~ 25 (971)
T KOG0468|consen 15 PELDSDEEEDD 25 (971)
T ss_pred CccCCcccccc
Confidence 33555555554
No 76
>PF11273 DUF3073: Protein of unknown function (DUF3073); InterPro: IPR021426 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=42.35 E-value=15 Score=29.22 Aligned_cols=8 Identities=38% Similarity=0.580 Sum_probs=3.5
Q ss_pred CCCcccCC
Q 010604 79 EDDWLADD 86 (506)
Q Consensus 79 ~~~~~~~~ 86 (506)
+|+|..++
T Consensus 55 ~d~y~d~~ 62 (65)
T PF11273_consen 55 ADDYADYD 62 (65)
T ss_pred hhhhhccc
Confidence 34444444
No 77
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=41.78 E-value=14 Score=43.50 Aligned_cols=12 Identities=17% Similarity=0.401 Sum_probs=5.2
Q ss_pred HHhhhcccccee
Q 010604 357 VKMVTKHPQLLH 368 (506)
Q Consensus 357 ~~ml~k~P~lL~ 368 (506)
..++..-|.++.
T Consensus 692 e~vL~el~~Lis 703 (1233)
T KOG1824|consen 692 EAVLVELPPLIS 703 (1233)
T ss_pred HHHHHHhhhhhh
Confidence 334444444443
No 78
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=41.35 E-value=35 Score=34.85 Aligned_cols=63 Identities=17% Similarity=0.356 Sum_probs=35.3
Q ss_pred chHHHHHHHH-Hhc-CChHHHHHHHHhccchhccCccccHHHHHHHHHHHhCCch-HHHhhcCceee
Q 010604 374 GLLPRINFLR-SIG-MRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEV-QSLTKYPMYLS 437 (506)
Q Consensus 374 ~L~~kvefL~-~lG-fs~eev~~mv~r~P~iL~~Sle~~Lk~K~efLv~~mg~~~-~~I~k~P~lL~ 437 (506)
.+++++.|.. ..| |++-.+..=+.-.|.+++.+ .++++.|.+-|...+|+++ ++.-+||.=|+
T Consensus 72 ~LRr~IGYviQqigLFPh~Tv~eNIa~VP~L~~w~-k~~i~~r~~ELl~lvgL~p~~~~~RyP~eLS 137 (309)
T COG1125 72 ELRRKIGYVIQQIGLFPHLTVAENIATVPKLLGWD-KERIKKRADELLDLVGLDPSEYADRYPHELS 137 (309)
T ss_pred HHHHhhhhhhhhcccCCCccHHHHHHhhhhhcCCC-HHHHHHHHHHHHHHhCCCHHHHhhcCchhcC
Confidence 3455555543 444 34444555555666666666 5666666666666666654 35555555443
No 79
>PF15402 Spc7_N: N-terminus of kinetochore NMS complex subunit Spc7
Probab=40.53 E-value=22 Score=41.98 Aligned_cols=8 Identities=50% Similarity=0.688 Sum_probs=3.8
Q ss_pred CCCCCCCc
Q 010604 57 SLYDDDSE 64 (506)
Q Consensus 57 ~~~~~~~~ 64 (506)
++|+.|.+
T Consensus 275 s~~s~~s~ 282 (927)
T PF15402_consen 275 SPFSSDSE 282 (927)
T ss_pred CCCCCCCC
Confidence 44555543
No 80
>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=40.08 E-value=75 Score=36.90 Aligned_cols=25 Identities=16% Similarity=0.203 Sum_probs=12.0
Q ss_pred ChHHHHHHHHh---CCCChHHHHHHHhh
Q 010604 193 KWLPLLDYLST---FGLKESHFIQMYER 217 (506)
Q Consensus 193 ~~~~vl~fL~s---~Gfs~~qI~~Ii~r 217 (506)
..+.++.||.+ -|+-+....+|+..
T Consensus 76 ~~~~i~~yL~s~~~~GIG~~~A~~iv~~ 103 (720)
T TIGR01448 76 SKEGIVAYLSSRSIKGVGKKLAQRIVKT 103 (720)
T ss_pred CHHHHHHHHhcCCCCCcCHHHHHHHHHH
Confidence 33444555543 34445555555544
No 81
>KOG0400 consensus 40S ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=39.89 E-value=22 Score=32.23 Aligned_cols=34 Identities=18% Similarity=0.204 Sum_probs=17.3
Q ss_pred cCccccccccCHHHHHHHHHHCCCChHhHHHHHh
Q 010604 218 HMPSLQINVCSARERLEYLLSVGVKQRDVRRILL 251 (506)
Q Consensus 218 ~P~lL~~~~e~l~~kL~fL~slGvs~~~l~~iv~ 251 (506)
.|.+|..+++++.+-+--|...|+++++|+-++.
T Consensus 22 ~PtWlK~~~ddvkeqI~K~akKGltpsqIGviLR 55 (151)
T KOG0400|consen 22 VPTWLKLTADDVKEQIYKLAKKGLTPSQIGVILR 55 (151)
T ss_pred CcHHHhcCHHHHHHHHHHHHHcCCChhHceeeee
Confidence 4444444555555555555555555555554333
No 82
>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]
Probab=39.76 E-value=20 Score=39.48 Aligned_cols=11 Identities=9% Similarity=0.229 Sum_probs=6.0
Q ss_pred eccccccccCC
Q 010604 37 THSNAKILKTN 47 (506)
Q Consensus 37 ~~~~~~~~~~~ 47 (506)
..+|++.-.+-
T Consensus 76 ~~~~~nv~rd~ 86 (641)
T KOG0772|consen 76 PNRNPNVSRDV 86 (641)
T ss_pred ccccccccccc
Confidence 34566655555
No 83
>PF03896 TRAP_alpha: Translocon-associated protein (TRAP), alpha subunit; InterPro: IPR005595 The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane [].; GO: 0005783 endoplasmic reticulum
Probab=39.61 E-value=18 Score=37.12 Aligned_cols=7 Identities=0% Similarity=-0.206 Sum_probs=3.0
Q ss_pred cceeeee
Q 010604 159 YYNSKDV 165 (506)
Q Consensus 159 f~vsyl~ 165 (506)
|+|.+.-
T Consensus 115 ~~V~~i~ 121 (285)
T PF03896_consen 115 FTVESIE 121 (285)
T ss_pred EEEEEEe
Confidence 4444443
No 84
>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=38.99 E-value=20 Score=29.52 Aligned_cols=6 Identities=67% Similarity=1.210 Sum_probs=3.1
Q ss_pred CCCCCc
Q 010604 59 YDDDSE 64 (506)
Q Consensus 59 ~~~~~~ 64 (506)
||+|+|
T Consensus 43 yDSd~E 48 (77)
T PF12253_consen 43 YDSDDE 48 (77)
T ss_pred cCCccc
Confidence 555544
No 85
>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=38.74 E-value=20 Score=31.83 Aligned_cols=6 Identities=33% Similarity=0.661 Sum_probs=2.3
Q ss_pred CCcccc
Q 010604 46 TNRKSR 51 (506)
Q Consensus 46 ~~~~~~ 51 (506)
|+.+.+
T Consensus 5 ~~~~~~ 10 (116)
T PF08243_consen 5 PKKKPR 10 (116)
T ss_pred CCCCcc
Confidence 333333
No 86
>KOG1834 consensus Calsyntenin [Extracellular structures]
Probab=38.39 E-value=22 Score=40.19 Aligned_cols=10 Identities=20% Similarity=0.162 Sum_probs=5.3
Q ss_pred ccCCcccccc
Q 010604 96 DVNGSKYRSQ 105 (506)
Q Consensus 96 ~~~~~~~~~~ 105 (506)
++.--.++++
T Consensus 929 e~~ph~~n~~ 938 (952)
T KOG1834|consen 929 EVGPHLQNNQ 938 (952)
T ss_pred ccCCCccccc
Confidence 3444555555
No 87
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=37.83 E-value=21 Score=39.55 Aligned_cols=30 Identities=27% Similarity=0.441 Sum_probs=17.1
Q ss_pred chHHHHHHHHHhcC--ChHHHHHHHHhccchh
Q 010604 374 GLLPRINFLRSIGM--RNSDILKVLRSLTQVL 403 (506)
Q Consensus 374 ~L~~kvefL~~lGf--s~eev~~mv~r~P~iL 403 (506)
+.+=.|+||.++|+ =-+++..-++..|.+.
T Consensus 622 n~RfsINfFTsIGLGgLTeelRe~L~~~pk~~ 653 (739)
T KOG2140|consen 622 NTRFSINFFTSIGLGGLTEELREYLKNMPKVE 653 (739)
T ss_pred cceeeeehhhhhccccchHHHHHHHHhcchhh
Confidence 44445677875443 3466666666655543
No 88
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=37.56 E-value=28 Score=39.49 Aligned_cols=45 Identities=27% Similarity=0.529 Sum_probs=37.0
Q ss_pred CChHHHHHHHHhCCCChHHHHHHHhhcCccccccccCHHHHHHHHHHCC
Q 010604 192 EKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVG 240 (506)
Q Consensus 192 ~~~~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~kL~fL~slG 240 (506)
.-|++.+.|++++|++..-| ++++|| |..+|+..++-+++|.+.+
T Consensus 139 rIW~lyl~Fv~~~~lPets~-rvyrRY---Lk~~P~~~eeyie~L~~~d 183 (835)
T KOG2047|consen 139 RIWDLYLKFVESHGLPETSI-RVYRRY---LKVAPEAREEYIEYLAKSD 183 (835)
T ss_pred cchHHHHHHHHhCCChHHHH-HHHHHH---HhcCHHHHHHHHHHHHhcc
Confidence 46899999999999996554 566665 5678888999999999877
No 89
>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=37.49 E-value=23 Score=26.07 Aligned_cols=25 Identities=20% Similarity=0.268 Sum_probs=15.5
Q ss_pred HHHHHHHHHhcCChHHHHHHHHhcc
Q 010604 376 LPRINFLRSIGMRNSDILKVLRSLT 400 (506)
Q Consensus 376 ~~kvefL~~lGfs~eev~~mv~r~P 400 (506)
..-++.|..+||++.++..++.+..
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~~ 28 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKLL 28 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 3455666777777777777666553
No 90
>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=37.42 E-value=94 Score=33.26 Aligned_cols=129 Identities=19% Similarity=0.388 Sum_probs=0.0
Q ss_pred cchHHHHHHHHHcCCCCccccccccccccccccccccchhhhHHHHHHhhCCC---------------------------
Q 010604 263 NNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGIN--------------------------- 315 (506)
Q Consensus 263 ~~L~p~v~fL~~lGls~~~I~kll~~~P~iL~~s~e~~L~p~v~~L~~~lGv~--------------------------- 315 (506)
..+...|+-+.+.|+.+++|.+.+.. .++ +-...|+|| -.|++
T Consensus 154 ~~~e~~I~~i~eMGf~R~qV~~ALRA-----afN---NPdRAVEYL--~tGIP~~~~~~~~~~~~~~~~~~~~~~~~~~~ 223 (378)
T TIGR00601 154 SERETTIEEIMEMGYEREEVERALRA-----AFN---NPDRAVEYL--LTGIPEDPEQPEPVQQTAASTAAATTETPQHG 223 (378)
T ss_pred hHHHHHHHHHHHhCCCHHHHHHHHHH-----HhC---CHHHHHHHH--HhCCCccccccccCCCcccccccccCCCCCCc
Q ss_pred ---------------------------------hhhHHHHHhhCcceeeeccccccchhhhhhhhhcCCChhhHHHhhhc
Q 010604 316 ---------------------------------EKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVVKMVTK 362 (506)
Q Consensus 316 ---------------------------------~~~l~~lI~~~P~iL~~s~e~~l~~kv~fL~k~LG~s~~ev~~ml~k 362 (506)
-..++.+|+.+|.+| .-+...+|-+.-++..+|..
T Consensus 224 ~lf~~a~~~~~~~~~~~~~~g~~~l~~Lr~~pqf~~lR~~vq~NP~~L------------~~lLqql~~~nP~l~q~I~~ 291 (378)
T TIGR00601 224 SVFEQAAQGGTEQPATEAAQGGNPLEFLRNQPQFQQLRQVVQQNPQLL------------PPLLQQIGQENPQLLQQISQ 291 (378)
T ss_pred chhhhhhcccccccccccccCCchHHHhhcCHHHHHHHHHHHHCHHHH------------HHHHHHHHhhCHHHHHHHHH
Q ss_pred cccceecccccch---------------------------------HHHHHHHHHhcCChHHHHHHHHhccchhccCccc
Q 010604 363 HPQLLHYSIDDGL---------------------------------LPRINFLRSIGMRNSDILKVLRSLTQVLSLSLED 409 (506)
Q Consensus 363 ~P~lL~~sie~~L---------------------------------~~kvefL~~lGfs~eev~~mv~r~P~iL~~Sle~ 409 (506)
+|.-|...+.... +..|+-|..|||.+..+..+..-| ++
T Consensus 292 n~e~Fl~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lT~eE~~AIeRL~~LGF~r~~viqaY~AC--------dK 363 (378)
T TIGR00601 292 HPEQFLQMLNEPVGELAGESDMEGGVGAIAEAGLPQMNQIQVTPEEKEAIERLCALGFDRGLVIQAYFAC--------DK 363 (378)
T ss_pred CHHHHHHHhcCcccccccccccccccccccccCcccccccccCHHHHHHHHHHHHcCCCHHHHHHHHHhc--------CC
Q ss_pred cHHHHHHHHHHH
Q 010604 410 NLKPKYTYLINE 421 (506)
Q Consensus 410 ~Lk~K~efLv~~ 421 (506)
+-.---.||...
T Consensus 364 NEelAAn~Lf~~ 375 (378)
T TIGR00601 364 NEELAANYLLSQ 375 (378)
T ss_pred cHHHHHHHHHhh
No 91
>KOG0699 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=36.31 E-value=21 Score=37.78 Aligned_cols=23 Identities=9% Similarity=0.290 Sum_probs=10.8
Q ss_pred cccccccccccccccchhhhHHHHHH
Q 010604 285 IIAATPSLFSYSVENSLKPTVRYLVE 310 (506)
Q Consensus 285 ll~~~P~iL~~s~e~~L~p~v~~L~~ 310 (506)
|+..|-.|..+-- -..+|.|.+.
T Consensus 439 mVvACDGIWN~Ms---SqeVVdFvr~ 461 (542)
T KOG0699|consen 439 MVVACDGIWNSMS---SQEVVDFVRD 461 (542)
T ss_pred EEEEccchhhhcc---HHHHHHHHHH
Confidence 3445555553211 1346676653
No 92
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=35.89 E-value=66 Score=27.07 Aligned_cols=37 Identities=22% Similarity=0.355 Sum_probs=14.4
Q ss_pred HHHhhCcceeeecccc-ccchhhhhhhhhcCCChhhHHH
Q 010604 321 KVVQLSPQVLVQRIDI-SWNTRCIFLSKELGAPRDDVVK 358 (506)
Q Consensus 321 ~lI~~~P~iL~~s~e~-~l~~kv~fL~k~LG~s~~ev~~ 358 (506)
.+|..+|+.|+..+.. .+ .+++.+...+|++.++-.+
T Consensus 38 ~~l~~nPY~L~~~i~gi~F-~~aD~iA~~~g~~~~d~~R 75 (94)
T PF14490_consen 38 EILKENPYRLIEDIDGIGF-KTADKIALKLGIEPDDPRR 75 (94)
T ss_dssp HHHHH-STCCCB-SSSSBH-HHHHHHHHTTT--TT-HHH
T ss_pred HHHHHChHHHHHHccCCCH-HHHHHHHHHcCCCCCCHHH
Confidence 3455566666653321 11 1233344456666555433
No 93
>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed
Probab=35.80 E-value=65 Score=29.99 Aligned_cols=37 Identities=16% Similarity=0.012 Sum_probs=28.7
Q ss_pred hcCccccccccCHHHHHHHHHHCCCChHhHHHHHhhC
Q 010604 217 RHMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQ 253 (506)
Q Consensus 217 r~P~lL~~~~e~l~~kL~fL~slGvs~~~l~~iv~~~ 253 (506)
..|.++.++++.++..+.-|...|+++++|+-++...
T Consensus 21 ~~P~W~~~~~eeve~~I~~lakkG~~pSqIG~~LRD~ 57 (151)
T PRK08561 21 EPPEWVDYSPEEIEELVVELAKQGYSPSMIGIILRDQ 57 (151)
T ss_pred CCCccccCCHHHHHHHHHHHHHCCCCHHHhhhhHhhc
Confidence 3566677778888888888888888888888777654
No 94
>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=35.57 E-value=19 Score=33.46 Aligned_cols=8 Identities=25% Similarity=0.289 Sum_probs=3.4
Q ss_pred cccccccc
Q 010604 287 AATPSLFS 294 (506)
Q Consensus 287 ~~~P~iL~ 294 (506)
.++..+|+
T Consensus 134 eKNGElLS 141 (167)
T PF05320_consen 134 EKNGELLS 141 (167)
T ss_pred eeCCeEcc
Confidence 34444443
No 95
>PHA02854 putative host range protein; Provisional
Probab=35.00 E-value=23 Score=33.55 Aligned_cols=7 Identities=43% Similarity=0.895 Sum_probs=3.0
Q ss_pred CCCCCCC
Q 010604 57 SLYDDDS 63 (506)
Q Consensus 57 ~~~~~~~ 63 (506)
.|||.|+
T Consensus 153 ~Y~~~~~ 159 (178)
T PHA02854 153 EYYDSDN 159 (178)
T ss_pred ccccccc
Confidence 4554333
No 96
>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=34.47 E-value=67 Score=26.61 Aligned_cols=40 Identities=20% Similarity=0.062 Sum_probs=24.6
Q ss_pred HHHHHhCCCChHHHHHHHhhcCccccccccCHHHHHHHHHH
Q 010604 198 LDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS 238 (506)
Q Consensus 198 l~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~kL~fL~s 238 (506)
+-=|+..||+.++|..+-..|- .|......+.+.++-+..
T Consensus 20 ~vGLrR~Gfs~~~i~~l~~ayr-~l~~~~~~~~~a~~~l~~ 59 (83)
T PF13720_consen 20 LVGLRRRGFSKEEISALRRAYR-ILFRSGLTLEEALEELEE 59 (83)
T ss_dssp HHHHHHTTS-HHHHHHHHHHHH-HHHTSSS-HHHHHHHHHH
T ss_pred HHHHHHcCCCHHHHHHHHHHHH-HHHhCCCCHHHHHHHHHH
Confidence 3457899999999988876652 222233466666666655
No 97
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=34.26 E-value=24 Score=39.10 Aligned_cols=32 Identities=16% Similarity=0.308 Sum_probs=16.9
Q ss_pred hhhhccCcCCCh-HHHHHHHHhCCCChHHHHHHH
Q 010604 183 RLSEEIELDEKW-LPLLDYLSTFGLKESHFIQMY 215 (506)
Q Consensus 183 kl~~~~~~~~~~-~~vl~fL~s~Gfs~~qI~~Ii 215 (506)
||+ ++.++++. ..+.+.+-.+.....-..+++
T Consensus 474 KLL-Kmkip~~q~~elc~mii~cc~QerTy~kFY 506 (739)
T KOG2140|consen 474 KLL-KMKIPESQEKELCNMIIDCCAQERTYEKFY 506 (739)
T ss_pred HHH-hccCCchhhHHHHHHHHHHhhhHHHHHHHH
Confidence 344 56666554 355666655555544444443
No 98
>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=33.37 E-value=25 Score=27.68 Aligned_cols=36 Identities=17% Similarity=0.104 Sum_probs=23.3
Q ss_pred hcCccccccccCHHHHHHHHHHCCCChHhHHHHHhh
Q 010604 217 RHMPSLQINVCSARERLEYLLSVGVKQRDVRRILLR 252 (506)
Q Consensus 217 r~P~lL~~~~e~l~~kL~fL~slGvs~~~l~~iv~~ 252 (506)
..|.++..+++.++..+--|...|+++++|+-+|..
T Consensus 21 ~~P~W~~~~~~eVe~~I~klakkG~tpSqIG~iLRD 56 (60)
T PF08069_consen 21 SPPSWLKYSPEEVEELIVKLAKKGLTPSQIGVILRD 56 (60)
T ss_dssp S--TT--S-HHHHHHHHHHHCCTTHCHHHHHHHHHH
T ss_pred CCCCCcCCCHHHHHHHHHHHHHcCCCHHHhhhhhhh
Confidence 356677777777777777788888888888777654
No 99
>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=33.07 E-value=1.2e+02 Score=25.18 Aligned_cols=41 Identities=20% Similarity=0.295 Sum_probs=28.6
Q ss_pred CChHHHHHHHHhCCCChHHHHHHHhhcCccccccccCHHHHHHHHHH
Q 010604 192 EKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS 238 (506)
Q Consensus 192 ~~~~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~kL~fL~s 238 (506)
.+|..+ .+.+||+.++|..|-..||.-+ .+.+...|.-++.
T Consensus 14 ~~W~~L---ar~Lgls~~~I~~i~~~~p~~l---~eQv~~mL~~W~~ 54 (83)
T cd08319 14 PEWEQV---LLDLGLSQTDIYRCKENHPHNV---QSQIVEALVKWRQ 54 (83)
T ss_pred hhHHHH---HHHcCCCHHHHHHHHHhCCCCH---HHHHHHHHHHHHH
Confidence 577664 4789999999999999888543 1344455555544
No 100
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=33.04 E-value=1.4e+02 Score=37.19 Aligned_cols=71 Identities=14% Similarity=0.228 Sum_probs=44.4
Q ss_pred ceeeeecCcCccchhhhhHhhhhhhhhccCcCC------ChHHHHHHHHhCCCChHHHHHHHhhcCccccccccCHHHHH
Q 010604 160 YNSKDVDQRGKVMTRNATENRYQRLSEEIELDE------KWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERL 233 (506)
Q Consensus 160 ~vsyl~~~~g~~~~~~~~~s~~pkl~~~~~~~~------~~~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~kL 233 (506)
|+.|--.-+-++ ....+.+...+.+..+++.+ -|-+.+++..-+| +.+.+.++++|. .=.+++-.+-.+|
T Consensus 1461 WI~YMaf~Lels-EiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG-~eesl~kVFeRA--cqycd~~~V~~~L 1536 (1710)
T KOG1070|consen 1461 WIRYMAFHLELS-EIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYG-TEESLKKVFERA--CQYCDAYTVHLKL 1536 (1710)
T ss_pred HHHHHHHHhhhh-hhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhC-cHHHHHHHHHHH--HHhcchHHHHHHH
Confidence 455555555552 45556666666666776653 4667788888899 889999999873 1124444554444
Q ss_pred H
Q 010604 234 E 234 (506)
Q Consensus 234 ~ 234 (506)
.
T Consensus 1537 ~ 1537 (1710)
T KOG1070|consen 1537 L 1537 (1710)
T ss_pred H
Confidence 3
No 101
>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=33.02 E-value=58 Score=23.88 Aligned_cols=23 Identities=13% Similarity=0.195 Sum_probs=17.3
Q ss_pred HHHHHHHHhCCCChHHHHHHHhh
Q 010604 195 LPLLDYLSTFGLKESHFIQMYER 217 (506)
Q Consensus 195 ~~vl~fL~s~Gfs~~qI~~Ii~r 217 (506)
..+++-|.++||++.++.+++..
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 35677888888888888888875
No 102
>PRK14135 recX recombination regulator RecX; Provisional
Probab=32.66 E-value=3.5e+02 Score=26.89 Aligned_cols=128 Identities=12% Similarity=0.063 Sum_probs=63.8
Q ss_pred cCCCccceee-eecCcCccchhhhhHhhhhhhhhccCcCCChHHHHHHHHhCCCChHHHHHHHhhcCccccccccCHHHH
Q 010604 154 SFDDTYYNSK-DVDQRGKVMTRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARER 232 (506)
Q Consensus 154 ~~~~~f~vsy-l~~~~g~~~~~~~~~s~~pkl~~~~~~~~~~~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~k 232 (506)
.....|.|+. .+-.+||.....+.+..+..+...-....-....+.+|..-.-+..+|..-+.+. .++.+.+...
T Consensus 19 d~~~~~~~~~~~~~~~~L~~g~~l~~~~~~~i~~~~~~~~a~~~Al~~L~~r~~s~~el~~kL~~k----g~~~~~Ie~v 94 (263)
T PRK14135 19 DEKYAFSVDEDTLVKFMLKKGKELDEEDLEEIQYADQVSKGKNLALYYLSYQMRTEKEVRDYLKKH----EISEEIISEV 94 (263)
T ss_pred cCCeEEEeeHHHHHHhcCcCCCcCCHHHHHHHHHHHHHHHHHHHHHHHhhhccccHHHHHHHHHHC----CCCHHHHHHH
Confidence 3445566553 2334555444444444444443111111222345667766666777776655543 2445567777
Q ss_pred HHHHHHCCC-ChHhHHHHHhhCCcccccCcccchHHHHHHHHHcCCCCccccccccc
Q 010604 233 LEYLLSVGV-KQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAA 288 (506)
Q Consensus 233 L~fL~slGv-s~~~l~~iv~~~P~IL~~s~e~~L~p~v~fL~~lGls~~~I~kll~~ 288 (506)
|+.|...|. +....++..... .+.... ..-.....-|+..|++.+.|..++..
T Consensus 95 l~~l~~~~~ldD~~~a~~~~~~--~~~~~~-~g~~~I~~kL~~kGi~~~~Ie~~l~~ 148 (263)
T PRK14135 95 IDKLKEEKYIDDKEYAESYVRT--NINTGD-KGPRVIKQKLLQKGIEDEIIEEALSE 148 (263)
T ss_pred HHHHHHcCCCCHHHHHHHHHHH--HHhccc-cchHHHHHHHHHcCCCHHHHHHHHHh
Confidence 777777774 444444443332 111111 11223344566777777766666654
No 103
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=32.49 E-value=23 Score=39.35 Aligned_cols=18 Identities=28% Similarity=0.394 Sum_probs=9.6
Q ss_pred hhhhhcCCChhhHHHhhh
Q 010604 344 FLSKELGAPRDDVVKMVT 361 (506)
Q Consensus 344 fL~k~LG~s~~ev~~ml~ 361 (506)
.+.+.+|++.++|..+..
T Consensus 379 ELAe~Lgis~e~V~~~~~ 396 (509)
T PRK05901 379 ELAKEMGFTPEKVREIQK 396 (509)
T ss_pred HHHHHhCCCHHHHHHHHH
Confidence 344556666666555543
No 104
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=32.25 E-value=37 Score=39.72 Aligned_cols=18 Identities=6% Similarity=-0.040 Sum_probs=9.5
Q ss_pred HHHHHhCCCChHHHHHHH
Q 010604 198 LDYLSTFGLKESHFIQMY 215 (506)
Q Consensus 198 l~fL~s~Gfs~~qI~~Ii 215 (506)
..++..+|-....+...+
T Consensus 248 s~L~~~~G~~~~Am~~f~ 265 (895)
T KOG2076|consen 248 SSLYQKTGDLKRAMETFL 265 (895)
T ss_pred HHHHHHhChHHHHHHHHH
Confidence 445566666555544433
No 105
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=31.78 E-value=55 Score=33.47 Aligned_cols=87 Identities=15% Similarity=0.283 Sum_probs=58.4
Q ss_pred hhhhHHHHHHhhC-CChhhHHHHHhhCcceeeeccccccchhhhhhhhhcCCChhhHHHhhhccccceecccccchHHHH
Q 010604 301 LKPTVRYLVEEVG-INEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVVKMVTKHPQLLHYSIDDGLLPRI 379 (506)
Q Consensus 301 L~p~v~~L~~~lG-v~~~~l~~lI~~~P~iL~~s~e~~l~~kv~fL~k~LG~s~~ev~~ml~k~P~lL~~sie~~L~~kv 379 (506)
++.++.|..+..| ||.-.+..=|...|.++.-+-+ .++.++..|...+|+++.+. ..++|+=|.-+ =+.++
T Consensus 73 LRr~IGYviQqigLFPh~Tv~eNIa~VP~L~~w~k~-~i~~r~~ELl~lvgL~p~~~---~~RyP~eLSGG----QQQRV 144 (309)
T COG1125 73 LRRKIGYVIQQIGLFPHLTVAENIATVPKLLGWDKE-RIKKRADELLDLVGLDPSEY---ADRYPHELSGG----QQQRV 144 (309)
T ss_pred HHHhhhhhhhhcccCCCccHHHHHHhhhhhcCCCHH-HHHHHHHHHHHHhCCCHHHH---hhcCchhcCcc----hhhHH
Confidence 6667777666666 4556677777777877765544 36667777778888888764 67788877544 23344
Q ss_pred HHHHHhcCChHHHHHHHHhccchhccC
Q 010604 380 NFLRSIGMRNSDILKVLRSLTQVLSLS 406 (506)
Q Consensus 380 efL~~lGfs~eev~~mv~r~P~iL~~S 406 (506)
. |.+++...|.+|..+
T Consensus 145 G-----------v~RALAadP~ilLMD 160 (309)
T COG1125 145 G-----------VARALAADPPILLMD 160 (309)
T ss_pred H-----------HHHHHhcCCCeEeec
Confidence 3 355667788888765
No 106
>COG5137 Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]
Probab=31.22 E-value=26 Score=34.43 Aligned_cols=13 Identities=15% Similarity=0.368 Sum_probs=5.8
Q ss_pred cccccCCcccccc
Q 010604 93 EEYDVNGSKYRSQ 105 (506)
Q Consensus 93 ~~~~~~~~~~~~~ 105 (506)
+.+++-|-.-.++
T Consensus 224 ~~~d~ege~i~~~ 236 (279)
T COG5137 224 DVVDYEGERIDKK 236 (279)
T ss_pred ccccccccccccc
Confidence 3444444444443
No 107
>KOG2229 consensus Protein required for actin cytoskeleton organization and cell cycle progression [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=31.15 E-value=17 Score=39.92 Aligned_cols=11 Identities=27% Similarity=0.211 Sum_probs=8.8
Q ss_pred eeccccccccC
Q 010604 36 STHSNAKILKT 46 (506)
Q Consensus 36 ~~~~~~~~~~~ 46 (506)
.+|++|||+=+
T Consensus 146 cf~~~~ki~vs 156 (616)
T KOG2229|consen 146 CFSKVPKILVS 156 (616)
T ss_pred HhccCcHHHHh
Confidence 57999999864
No 108
>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=31.09 E-value=29 Score=39.86 Aligned_cols=11 Identities=18% Similarity=0.289 Sum_probs=5.5
Q ss_pred cccCCcccccc
Q 010604 95 YDVNGSKYRSQ 105 (506)
Q Consensus 95 ~~~~~~~~~~~ 105 (506)
|+|--+.+-++
T Consensus 436 ~dyr~kl~~kk 446 (763)
T TIGR00993 436 YDYRVKLLQKK 446 (763)
T ss_pred HHHHHHHHHHH
Confidence 55555554443
No 109
>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=29.70 E-value=19 Score=33.51 Aligned_cols=8 Identities=13% Similarity=0.389 Sum_probs=3.2
Q ss_pred HHHHHhCC
Q 010604 198 LDYLSTFG 205 (506)
Q Consensus 198 l~fL~s~G 205 (506)
+++|.=-|
T Consensus 80 iSLfEiTG 87 (167)
T PF05320_consen 80 ISLFEITG 87 (167)
T ss_pred hhHHHHHH
Confidence 44443333
No 110
>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=29.63 E-value=90 Score=36.26 Aligned_cols=121 Identities=19% Similarity=0.229 Sum_probs=71.5
Q ss_pred ccCHHHHHHHHHH---CCCChHhHHHHHhhCCcccccCcccchHHHHHHHHHc-CCCCccccccccccccccccccccch
Q 010604 226 VCSARERLEYLLS---VGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISL-GIPNSKIGQIIAATPSLFSYSVENSL 301 (506)
Q Consensus 226 ~e~l~~kL~fL~s---lGvs~~~l~~iv~~~P~IL~~s~e~~L~p~v~fL~~l-Gls~~~I~kll~~~P~iL~~s~e~~L 301 (506)
+.+....+.||.+ .|+.+....+|+..+..=. -+.|....+-|.++ |++.+.+..+...+... ...
T Consensus 74 p~~~~~i~~yL~s~~~~GIG~~~A~~iv~~fg~~~----~~~i~~~~~~L~~v~gi~~~~~~~i~~~~~~~------~~~ 143 (720)
T TIGR01448 74 PTSKEGIVAYLSSRSIKGVGKKLAQRIVKTFGEAA----FDVLDDDPEKLLEVPGISKANLEKFVSQWSQQ------GDE 143 (720)
T ss_pred CCCHHHHHHHHhcCCCCCcCHHHHHHHHHHhCHhH----HHHHHhCHHHHhcCCCCCHHHHHHHHHHHHHh------HHH
Confidence 3456677788876 3777788888887755322 22333334556665 88877777776655221 124
Q ss_pred hhhHHHHHHhhCCChhhH-----------HHHHhhCcceeeecccc-ccchhhhhhhhhcCCChhhHHH
Q 010604 302 KPTVRYLVEEVGINEKSL-----------GKVVQLSPQVLVQRIDI-SWNTRCIFLSKELGAPRDDVVK 358 (506)
Q Consensus 302 ~p~v~~L~~~lGv~~~~l-----------~~lI~~~P~iL~~s~e~-~l~~kv~fL~k~LG~s~~ev~~ 358 (506)
...+.||. .+|++...+ ..+|..+|+.|...+.. .+ .+++.+...+|+..++-.+
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 55677774 788887654 44667788877654321 11 1233444567777665443
No 111
>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=29.09 E-value=1.2e+02 Score=25.94 Aligned_cols=44 Identities=11% Similarity=0.083 Sum_probs=31.2
Q ss_pred hHHHHHHHHhCCCChHHHHHHHhhcCccccccccCHHHHHHHHHH-CC
Q 010604 194 WLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS-VG 240 (506)
Q Consensus 194 ~~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~kL~fL~s-lG 240 (506)
|.-.-.|-+.+|+++.+|-.|...+|.-+ .+.....|+.|.. .|
T Consensus 20 ~~~wK~faR~lglse~~Id~I~~~~~~d~---~Eq~~qmL~~W~~~~G 64 (97)
T cd08316 20 LKDVKKFVRKSGLSEPKIDEIKLDNPQDT---AEQKVQLLRAWYQSHG 64 (97)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHcCCCCh---HHHHHHHHHHHHHHhC
Confidence 34567788999999999999998887532 2455556666654 45
No 112
>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=28.92 E-value=19 Score=36.61 Aligned_cols=14 Identities=21% Similarity=0.591 Sum_probs=0.0
Q ss_pred CCCCCCCCCcccCC
Q 010604 55 TLSLYDDDSEEEGE 68 (506)
Q Consensus 55 ~~~~~~~~~~~~~~ 68 (506)
..+||..++++|.|
T Consensus 44 ~PsYY~~~e~~e~~ 57 (283)
T PF00922_consen 44 SPSYYQAEEDDESD 57 (283)
T ss_dssp --------------
T ss_pred Cchhhhhhhccccc
Confidence 57788777665544
No 113
>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=28.81 E-value=70 Score=22.98 Aligned_cols=30 Identities=10% Similarity=0.126 Sum_probs=21.5
Q ss_pred chHHHHHHHH-HhcCChHHHHHHHHhccchh
Q 010604 374 GLLPRINFLR-SIGMRNSDILKVLRSLTQVL 403 (506)
Q Consensus 374 ~L~~kvefL~-~lGfs~eev~~mv~r~P~iL 403 (506)
++-.....|+ ++|++......+|..||.|-
T Consensus 7 k~H~n~~~L~~~f~ip~~vAk~IV~~C~~Cq 37 (40)
T PF02022_consen 7 KYHSNAKALRHKFGIPRLVAKQIVNQCPKCQ 37 (40)
T ss_dssp HHHH-HHHHHHHHT--HHHHHHHHHHSCCHH
T ss_pred HHccCHHHHHHHHccCHHHHHHHHHHCHHHh
Confidence 3445667786 78999999999999999874
No 114
>PF08597 eIF3_subunit: Translation initiation factor eIF3 subunit; InterPro: IPR013906 This shows protein subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae (Baker's yeast) protein Q05775 from SWISSPROT has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p []. ; PDB: 3BPJ_D 2KRB_B.
Probab=28.79 E-value=77 Score=31.57 Aligned_cols=20 Identities=25% Similarity=0.283 Sum_probs=0.0
Q ss_pred CCcCCchhhhhhhhcccccc
Q 010604 133 RSLQGAQEQLDIRNRRNTIK 152 (506)
Q Consensus 133 ~~~~~~~~~~~~~~~~~~~~ 152 (506)
.-.+-..++.|..+++.+++
T Consensus 98 ~r~q~~~eeaDl~~A~dLFG 117 (245)
T PF08597_consen 98 LRQQRLQEEADLANAKDLFG 117 (245)
T ss_dssp --------------------
T ss_pred HHHHHHHHhhhHHHHHHHhc
Confidence 33445567788888888888
No 115
>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=28.55 E-value=51 Score=28.34 Aligned_cols=23 Identities=4% Similarity=0.276 Sum_probs=19.5
Q ss_pred hcCChHHHHHHHHhccchhccCc
Q 010604 385 IGMRNSDILKVLRSLTQVLSLSL 407 (506)
Q Consensus 385 lGfs~eev~~mv~r~P~iL~~Sl 407 (506)
..++.+++..++..+|.+|-..+
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 45899999999999999998885
No 116
>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=28.42 E-value=39 Score=22.84 Aligned_cols=26 Identities=23% Similarity=0.459 Sum_probs=18.5
Q ss_pred CChHHHHHHHHhCCCChHHHHHHHhh
Q 010604 192 EKWLPLLDYLSTFGLKESHFIQMYER 217 (506)
Q Consensus 192 ~~~~~vl~fL~s~Gfs~~qI~~Ii~r 217 (506)
+.|..++.--+..|++..+|..++..
T Consensus 3 ~EW~~Li~eA~~~Gls~eeir~FL~~ 28 (30)
T PF08671_consen 3 EEWVELIKEAKESGLSKEEIREFLEF 28 (30)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 45667777778899999999888764
No 117
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=28.06 E-value=1.9e+02 Score=26.32 Aligned_cols=75 Identities=15% Similarity=0.099 Sum_probs=43.3
Q ss_pred HHHHHHHHHHCCCChHhHHHHHhhCCcccccCcccchHHHHHHHHHcCCCCccccccccccccccccccccchhhhHHHH
Q 010604 229 ARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYL 308 (506)
Q Consensus 229 l~~kL~fL~slGvs~~~l~~iv~~~P~IL~~s~e~~L~p~v~fL~~lGls~~~I~kll~~~P~iL~~s~e~~L~p~v~~L 308 (506)
.....+.|...|++...|..++...+ .+ ........+... +...-..+. ..-.-.+.+|
T Consensus 78 ~~~I~~~L~~kGi~~~~I~~~l~~~~----~d---~~e~a~~~~~k~-------------~~~~~~~~~-~~k~Ki~~~L 136 (157)
T PRK00117 78 PRRIRQELRQKGVDREIIEEALAELD----ID---WEELARELARKK-------------FRRPLPDDA-KEKAKLVRFL 136 (157)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHcC----cc---HHHHHHHHHHHH-------------cCCCCCCCH-HHHHHHHHHH
Confidence 33445888899999999998888754 11 222222222211 111111111 1123467888
Q ss_pred HHhhCCChhhHHHHHhh
Q 010604 309 VEEVGINEKSLGKVVQL 325 (506)
Q Consensus 309 ~~~lGv~~~~l~~lI~~ 325 (506)
. .-||+.+.|..++..
T Consensus 137 ~-rkGF~~~~I~~~l~~ 152 (157)
T PRK00117 137 A-RRGFSMDVIQRVLRN 152 (157)
T ss_pred H-HCCCCHHHHHHHHHh
Confidence 6 789999999888865
No 118
>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=27.09 E-value=1.5e+02 Score=25.32 Aligned_cols=55 Identities=11% Similarity=0.133 Sum_probs=36.7
Q ss_pred HhhhhhhhhccCcCCChHHHHHHHHhCCCChHHHHHHHhhcCccccccccCHHHHHHHHHH-CC
Q 010604 178 ENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS-VG 240 (506)
Q Consensus 178 ~s~~pkl~~~~~~~~~~~~vl~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~kL~fL~s-lG 240 (506)
...++.+++.+. +...-.+.+.+||++.+|..|-..+|. +.+.....|..++. .|
T Consensus 7 ~~~f~~i~~~V~----~~~Wk~laR~LGLse~~I~~i~~~~~~----~~eq~~qmL~~W~~~~G 62 (96)
T cd08315 7 RRSFDHFIKEVP----FDSWNRLMRQLGLSENEIDVAKANERV----TREQLYQMLLTWVNKTG 62 (96)
T ss_pred HHHHHHHHHHCC----HHHHHHHHHHcCCCHHHHHHHHHHCCC----CHHHHHHHHHHHHHhhC
Confidence 334555553332 234456779999999999999998874 24566777777764 45
No 119
>KOG1307 consensus K+-dependent Ca2+/Na+ exchanger NCKX1 and related proteins [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=26.65 E-value=58 Score=35.68 Aligned_cols=10 Identities=20% Similarity=0.169 Sum_probs=5.3
Q ss_pred ccccccCCcc
Q 010604 92 IEEYDVNGSK 101 (506)
Q Consensus 92 ~~~~~~~~~~ 101 (506)
|..++.|.-+
T Consensus 384 pl~~~wP~~~ 393 (588)
T KOG1307|consen 384 PLSFDWPETK 393 (588)
T ss_pred CcCCCCccch
Confidence 5556655443
No 120
>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=26.52 E-value=45 Score=29.46 Aligned_cols=50 Identities=22% Similarity=0.336 Sum_probs=0.0
Q ss_pred ccccccccCCccccccCCCCCCCCCCcccCCCCCCCCCCCCC--------------CCcccCCcCccc
Q 010604 38 HSNAKILKTNRKSRYGQTLSLYDDDSEEEGEDDDDDDDEGKE--------------DDWLADDDDFAE 91 (506)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~ 91 (506)
+.++. |+..+.++ ....|+.+.++|-||.-+||+++++ --+-.+||+++.
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 121
>KOG3555 consensus Ca2+-binding proteoglycan Testican [General function prediction only]
Probab=26.17 E-value=38 Score=35.62 Aligned_cols=23 Identities=30% Similarity=0.390 Sum_probs=0.0
Q ss_pred cccCCCCCCCCCCCCCCCcccCC
Q 010604 64 EEEGEDDDDDDDEGKEDDWLADD 86 (506)
Q Consensus 64 ~~~~~~~~~~~~~~~~~~~~~~~ 86 (506)
+|.+..+||+||||+||+..+++
T Consensus 409 ~e~el~~ddedded~~dg~aD~~ 431 (434)
T KOG3555|consen 409 SESELTSDDEDDEDSDDGSADQM 431 (434)
T ss_pred cccccccccccccccccCccccc
No 122
>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=25.36 E-value=76 Score=34.45 Aligned_cols=7 Identities=29% Similarity=0.786 Sum_probs=2.6
Q ss_pred CCCChHH
Q 010604 204 FGLKESH 210 (506)
Q Consensus 204 ~Gfs~~q 210 (506)
||=...+
T Consensus 332 yG~~AkH 338 (432)
T PF09073_consen 332 YGKNAKH 338 (432)
T ss_pred hcccchh
Confidence 3333333
No 123
>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=25.34 E-value=35 Score=29.57 Aligned_cols=18 Identities=6% Similarity=0.152 Sum_probs=9.9
Q ss_pred cccccCCcccccccCCCc
Q 010604 93 EEYDVNGSKYRSQKGVNK 110 (506)
Q Consensus 93 ~~~~~~~~~~~~~~~~~~ 110 (506)
+.|.+.+.+|.==.|-.|
T Consensus 47 ~sF~~e~~eY~iYtPLdP 64 (100)
T PF12527_consen 47 ASFYHEDQEYGIYTPLDP 64 (100)
T ss_pred eeEeeCCeEEEEEecCCc
Confidence 346667777655444433
No 124
>KOG1980 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.26 E-value=33 Score=38.73 Aligned_cols=15 Identities=13% Similarity=0.268 Sum_probs=6.2
Q ss_pred HHHHHHHhcCChHHH
Q 010604 378 RINFLRSIGMRNSDI 392 (506)
Q Consensus 378 kvefL~~lGfs~eev 392 (506)
|+...+-|-|++++|
T Consensus 678 k~v~VRYMFFn~EDV 692 (754)
T KOG1980|consen 678 KYVVVRYMFFNREDV 692 (754)
T ss_pred eeEEEeeecCCHhHe
Confidence 333333344444443
No 125
>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=24.72 E-value=18 Score=32.70 Aligned_cols=11 Identities=27% Similarity=0.706 Sum_probs=3.1
Q ss_pred ccchhccCCcc
Q 010604 4 LCLHSVFSSPA 14 (506)
Q Consensus 4 ~~~~~~~~~~~ 14 (506)
++||.+-+.|.
T Consensus 29 I~lHAisr~~~ 39 (135)
T PF03517_consen 29 ISLHAISRDPS 39 (135)
T ss_dssp -SEEE--SS-S
T ss_pred EEEEEeecCCC
Confidence 34455444443
No 126
>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=24.30 E-value=76 Score=24.93 Aligned_cols=12 Identities=25% Similarity=0.664 Sum_probs=7.2
Q ss_pred CCCCCCCCCccc
Q 010604 55 TLSLYDDDSEEE 66 (506)
Q Consensus 55 ~~~~~~~~~~~~ 66 (506)
--|.||.|++||
T Consensus 29 eeP~YDEdd~dd 40 (65)
T PF10731_consen 29 EEPSYDEDDDDD 40 (65)
T ss_pred CCCCcCcccCcc
Confidence 467786665433
No 127
>COG5137 Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]
Probab=24.05 E-value=44 Score=32.88 Aligned_cols=7 Identities=29% Similarity=0.596 Sum_probs=2.8
Q ss_pred ccCCCCC
Q 010604 111 SKSKGSR 117 (506)
Q Consensus 111 ~~~~~~~ 117 (506)
.|+.|..
T Consensus 234 ~~~~g~e 240 (279)
T COG5137 234 DKKQGEE 240 (279)
T ss_pred cccccch
Confidence 3344443
No 128
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. 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),
Probab=24.00 E-value=1.2e+02 Score=25.11 Aligned_cols=37 Identities=22% Similarity=0.245 Sum_probs=26.2
Q ss_pred HHHHhCCCChHHHHHHHhhcCccccccccCHHHHHHHHHH
Q 010604 199 DYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS 238 (506)
Q Consensus 199 ~fL~s~Gfs~~qI~~Ii~r~P~lL~~~~e~l~~kL~fL~s 238 (506)
.+-+.+||++.+|..|-..||.-+ .+.....|..++.
T Consensus 18 ~laR~LGlse~~Id~i~~~~~~~~---~eq~~~mL~~W~~ 54 (86)
T cd08306 18 KLARKLGLSETKIESIEEAHPRNL---REQVRQSLREWKK 54 (86)
T ss_pred HHHHHcCCCHHHHHHHHHHCCCCH---HHHHHHHHHHHHH
Confidence 355778999999999999887422 2455666666654
No 129
>PTZ00482 membrane-attack complex/perforin (MACPF) Superfamily; Provisional
Probab=23.82 E-value=79 Score=37.26 Aligned_cols=6 Identities=0% Similarity=0.462 Sum_probs=2.8
Q ss_pred eeecCc
Q 010604 435 YLSLSL 440 (506)
Q Consensus 435 lL~ySL 440 (506)
+++++|
T Consensus 615 lfGFiL 620 (844)
T PTZ00482 615 LFGFAM 620 (844)
T ss_pred EEEEEE
Confidence 344444
No 130
>PHA03211 serine/threonine kinase US3; Provisional
Probab=23.59 E-value=62 Score=35.32 Aligned_cols=16 Identities=25% Similarity=0.389 Sum_probs=8.7
Q ss_pred chHHHHHHHHHcCCCC
Q 010604 264 NLESHVAFLISLGIPN 279 (506)
Q Consensus 264 ~L~p~v~fL~~lGls~ 279 (506)
.|..-+.+|.+.|+--
T Consensus 268 qi~~aL~yLH~~gIvH 283 (461)
T PHA03211 268 QLLSAIDYIHGEGIIH 283 (461)
T ss_pred HHHHHHHHHHHCCEEE
Confidence 3445556666665433
No 131
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=23.25 E-value=44 Score=36.65 Aligned_cols=20 Identities=50% Similarity=0.667 Sum_probs=9.6
Q ss_pred CCCCcccCCCCCCCCCCCCC
Q 010604 60 DDDSEEEGEDDDDDDDEGKE 79 (506)
Q Consensus 60 ~~~~~~~~~~~~~~~~~~~~ 79 (506)
|-|||++||||=|.|++|-+
T Consensus 426 dgdde~eddddidvdeedie 445 (990)
T KOG1819|consen 426 DGDDEAEDDDDIDVDEEDIE 445 (990)
T ss_pred cCcccccCcccccccccccc
Confidence 44555555555544444433
No 132
>KOG0262 consensus RNA polymerase I, large subunit [Transcription]
Probab=23.00 E-value=66 Score=39.22 Aligned_cols=9 Identities=11% Similarity=0.276 Sum_probs=4.2
Q ss_pred HHHHHHHHH
Q 010604 413 PKYTYLINE 421 (506)
Q Consensus 413 ~K~efLv~~ 421 (506)
..+.||...
T Consensus 1593 Tt~~Fl~~A 1601 (1640)
T KOG0262|consen 1593 TTCQFLKQA 1601 (1640)
T ss_pred HHHHHHHHH
Confidence 344555543
No 133
>PTZ00072 40S ribosomal protein S13; Provisional
Probab=22.72 E-value=1.4e+02 Score=27.58 Aligned_cols=36 Identities=14% Similarity=0.192 Sum_probs=27.1
Q ss_pred cCccccccccCHHHHHHHHHHCCCChHhHHHHHhhC
Q 010604 218 HMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQ 253 (506)
Q Consensus 218 ~P~lL~~~~e~l~~kL~fL~slGvs~~~l~~iv~~~ 253 (506)
.|.++..+++.+++.+.-|...|+++++|+-++...
T Consensus 19 ~P~w~~~~~eeVe~~I~klaKkG~~pSqIG~iLRD~ 54 (148)
T PTZ00072 19 PPSWLKLSSSEVEDQICKLAKKGLTPSQIGVILRDS 54 (148)
T ss_pred CCchhcCCHHHHHHHHHHHHHCCCCHhHhhhhhhhc
Confidence 455577777788888888888888888888776643
No 134
>PF11332 DUF3134: Protein of unknown function (DUF3134); InterPro: IPR021481 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=22.64 E-value=62 Score=26.46 Aligned_cols=18 Identities=17% Similarity=0.338 Sum_probs=10.3
Q ss_pred CCCCceEEEeeccccccc
Q 010604 27 PNTPRFVVLSTHSNAKIL 44 (506)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~ 44 (506)
|+.-.+.|+.+...+-||
T Consensus 8 pR~q~a~VIpl~~e~SlL 25 (73)
T PF11332_consen 8 PRNQPAPVIPLKQESSLL 25 (73)
T ss_pred cccCCCCeecCCCccHHH
Confidence 444445566666666665
No 135
>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=22.54 E-value=1.9e+02 Score=24.79 Aligned_cols=23 Identities=13% Similarity=0.466 Sum_probs=13.7
Q ss_pred CCCChHhHHHHHhhCCcccccCc
Q 010604 239 VGVKQRDVRRILLRQPQILEYTV 261 (506)
Q Consensus 239 lGvs~~~l~~iv~~~P~IL~~s~ 261 (506)
..++..++..++..+|.++.+.+
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 34566666666666666666554
No 136
>PLN03078 Putative tRNA pseudouridine synthase; Provisional
Probab=21.97 E-value=92 Score=34.63 Aligned_cols=22 Identities=14% Similarity=0.285 Sum_probs=10.3
Q ss_pred cchhhhhhhhhcCCChhhHHHh
Q 010604 338 WNTRCIFLSKELGAPRDDVVKM 359 (506)
Q Consensus 338 l~~kv~fL~k~LG~s~~ev~~m 359 (506)
|+..++.|.+-.+++..++..+
T Consensus 468 w~~w~~nl~~~~~~~~~~~~~v 489 (513)
T PLN03078 468 WKEWVENLDRFTSIPDAQLDEV 489 (513)
T ss_pred HHHHHHHHHhhcCCCHHHHHHH
Confidence 4444444434455655554433
No 137
>TIGR00927 2A1904 K+-dependent Na+/Ca+ exchanger.
Probab=21.87 E-value=56 Score=38.92 Aligned_cols=11 Identities=9% Similarity=0.401 Sum_probs=4.8
Q ss_pred CCCCccccccc
Q 010604 276 GIPNSKIGQII 286 (506)
Q Consensus 276 Gls~~~I~kll 286 (506)
|..+-.|+.++
T Consensus 994 G~gdMAVan~i 1004 (1096)
T TIGR00927 994 GLGDMAVSSSV 1004 (1096)
T ss_pred cCCcceeeecc
Confidence 44444444443
No 138
>PLN00151 potassium transporter; Provisional
Probab=21.80 E-value=61 Score=38.03 Aligned_cols=12 Identities=0% Similarity=0.249 Sum_probs=6.0
Q ss_pred HHHHHhhCCccc
Q 010604 246 VRRILLRQPQIL 257 (506)
Q Consensus 246 l~~iv~~~P~IL 257 (506)
+-.|+..+|.||
T Consensus 316 iynI~~~~p~Vl 327 (852)
T PLN00151 316 IYNLVKYDSSVF 327 (852)
T ss_pred HHHHHhcCHHHH
Confidence 334444456655
No 139
>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=20.93 E-value=1.4e+02 Score=26.07 Aligned_cols=108 Identities=16% Similarity=0.220 Sum_probs=52.7
Q ss_pred ChHHHHHHHHhCCCChH-HHHHHHhhcCccccccccCHHHHHHHHHHCCCChHhHHHHHhhCCcccccCcccchHHHHHH
Q 010604 193 KWLPLLDYLSTFGLKES-HFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAF 271 (506)
Q Consensus 193 ~~~~vl~fL~s~Gfs~~-qI~~Ii~r~P~lL~~~~e~l~~kL~fL~slGvs~~~l~~iv~~~P~IL~~s~e~~L~p~v~f 271 (506)
-+..||+.|..+|+=+. ..+..+.+. .+...........+-|...|++...|...+.. .+.... ...+
T Consensus 10 ~I~~vi~~l~~~gyidD~~ya~~~v~~--~~~~~~~G~~~I~~~L~~kGi~~~~i~~~l~~------~~~~e~---a~~~ 78 (121)
T PF02631_consen 10 AIEEVIDRLKELGYIDDERYAESYVRS--RLRRKGKGPRRIRQKLKQKGIDREIIEEALEE------YDEEEE---ALEL 78 (121)
T ss_dssp HHHHHHHHHHHTTSS-HHHHHHHHHHH--HHHHTT--HHHHHHHHHHTT--HHHHHHHHTC------S-HHHH---HHHH
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHH--hcccccccHHHHHHHHHHHCCChHHHHHHHHH------hhHHHH---HHHH
Confidence 45678999988887644 333322221 01112234555668889999999999888872 222111 1122
Q ss_pred HHHcCCCCccccccccccccccccccccchhhhHHHHHHhhCCChhhHHHHHhh
Q 010604 272 LISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQL 325 (506)
Q Consensus 272 L~~lGls~~~I~kll~~~P~iL~~s~e~~L~p~v~~L~~~lGv~~~~l~~lI~~ 325 (506)
++.. +......+......-.+.+|. .-||+...|..+|..
T Consensus 79 ~~kk-------------~~~~~~~~~~~~~~K~~~~L~-rrGF~~~~i~~vi~~ 118 (121)
T PF02631_consen 79 AEKK-------------YRRYRKPSDRKRKQKLIRFLM-RRGFSYDVIRRVISE 118 (121)
T ss_dssp HHHH-------------HHHTTTS-CHHHHHHHHHHHH-HTT--HHHHHHHCHH
T ss_pred HHHH-------------HhcccCCCCHHHHHHHHHHHH-HCCCCHHHHHHHHhh
Confidence 2110 011100001122344677775 789999988888764
No 140
>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=20.92 E-value=49 Score=35.91 Aligned_cols=12 Identities=17% Similarity=0.398 Sum_probs=6.3
Q ss_pred HHCCCChHhHHH
Q 010604 237 LSVGVKQRDVRR 248 (506)
Q Consensus 237 ~slGvs~~~l~~ 248 (506)
+..|-....|.+
T Consensus 330 kKyG~~AkHv~k 341 (432)
T PF09073_consen 330 KKYGKNAKHVKK 341 (432)
T ss_pred Hhhcccchhhhh
Confidence 345655555544
No 141
>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.60 E-value=1.1e+02 Score=31.48 Aligned_cols=32 Identities=25% Similarity=0.574 Sum_probs=26.7
Q ss_pred cccceecccccchHHHHHHHHHhcCChHHHHHHHHh
Q 010604 363 HPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRS 398 (506)
Q Consensus 363 ~P~lL~~sie~~L~~kvefL~~lGfs~eev~~mv~r 398 (506)
+|.+. +..+..|.+||++-|++.+||..++++
T Consensus 14 ~~kVr----~aPli~kr~FLksKGLT~eEI~eAfk~ 45 (300)
T KOG2629|consen 14 NPKVR----DAPLIKKREFLKSKGLTEEEIQEAFKR 45 (300)
T ss_pred Ccccc----cchHHHHHHHHHhcCCCHHHHHHHHHh
Confidence 45554 356889999999999999999999987
Done!