Query 010686
Match_columns 504
No_of_seqs 264 out of 1309
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 03:24:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010686.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010686hhsearch_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 4.3E-53 9.3E-58 454.2 20.1 323 143-482 121-445 (487)
2 PF02536 mTERF: mTERF; InterP 100.0 3.2E-47 7E-52 393.2 8.3 308 152-474 3-345 (345)
3 PLN03196 MOC1-like protein; Pr 100.0 1.7E-42 3.7E-47 372.3 21.4 288 148-454 94-387 (487)
4 PF02536 mTERF: mTERF; InterP 100.0 1.4E-33 3E-38 291.6 9.3 250 197-452 2-288 (345)
5 KOG1267 Mitochondrial transcri 99.9 4E-25 8.7E-30 234.6 12.1 288 147-453 92-409 (413)
6 KOG1267 Mitochondrial transcri 99.8 1.9E-20 4.1E-25 198.9 12.0 250 189-453 88-340 (413)
7 smart00733 Mterf Mitochondrial 96.3 0.0024 5.2E-08 41.5 2.0 28 393-422 3-30 (31)
8 smart00733 Mterf Mitochondrial 96.3 0.003 6.4E-08 41.0 2.2 28 247-275 3-30 (31)
9 PF09026 CENP-B_dimeris: Centr 95.5 0.0039 8.4E-08 52.3 0.0 11 146-156 53-63 (101)
10 PF10446 DUF2457: Protein of u 95.2 0.009 2E-07 63.0 1.9 11 43-53 32-42 (458)
11 PF09026 CENP-B_dimeris: Centr 94.2 0.013 2.8E-07 49.3 0.0 9 56-64 11-19 (101)
12 KOG1832 HIV-1 Vpr-binding prot 93.2 0.046 1E-06 62.0 2.0 13 23-35 1353-1365(1516)
13 KOG0943 Predicted ubiquitin-pr 93.0 0.058 1.3E-06 62.6 2.5 9 53-61 1732-1740(3015)
14 PF11955 PORR: Plant organelle 92.4 1.3 2.9E-05 46.1 11.4 202 235-439 45-293 (335)
15 KOG0943 Predicted ubiquitin-pr 92.3 0.077 1.7E-06 61.7 2.3 14 52-65 1727-1740(3015)
16 PF08595 RXT2_N: RXT2-like, N- 91.0 0.22 4.8E-06 45.9 3.4 49 17-67 15-63 (149)
17 PF12253 CAF1A: Chromatin asse 87.7 1.1 2.4E-05 36.7 4.8 8 24-31 9-16 (77)
18 PF03115 Astro_capsid: Astrovi 87.2 0.18 3.9E-06 57.7 0.0 13 144-156 759-771 (787)
19 PF03066 Nucleoplasmin: Nucleo 86.5 0.21 4.5E-06 46.1 0.0 7 53-59 103-109 (149)
20 PTZ00415 transmission-blocking 85.4 0.5 1.1E-05 57.2 2.3 16 424-439 684-699 (2849)
21 KOG1824 TATA-binding protein-i 82.0 0.73 1.6E-05 53.2 1.8 15 72-86 327-341 (1233)
22 KOG3064 RNA-binding nuclear pr 78.3 0.99 2.2E-05 44.7 1.2 16 97-112 263-278 (303)
23 PF11702 DUF3295: Protein of u 78.3 1.1 2.4E-05 48.7 1.6 10 75-84 308-317 (507)
24 PF03153 TFIIA: Transcription 77.6 0.76 1.7E-05 48.5 0.2 9 33-41 248-256 (375)
25 PF11955 PORR: Plant organelle 77.4 5.6 0.00012 41.6 6.5 118 242-368 21-151 (335)
26 KOG2023 Nuclear transport rece 73.8 1.7 3.7E-05 48.6 1.6 25 429-453 776-800 (885)
27 PF02724 CDC45: CDC45-like pro 71.7 2.8 6E-05 47.5 2.7 12 198-209 239-250 (622)
28 PF04889 Cwf_Cwc_15: Cwf15/Cwc 71.5 1.8 3.9E-05 43.2 1.0 12 12-23 25-36 (244)
29 cd04790 HTH_Cfa-like_unk Helix 71.3 15 0.00033 34.6 7.2 24 229-252 49-72 (172)
30 PF06679 DUF1180: Protein of u 68.1 2.9 6.4E-05 39.1 1.6 15 44-59 120-135 (163)
31 cd04790 HTH_Cfa-like_unk Helix 67.0 24 0.00051 33.2 7.5 25 192-216 47-71 (172)
32 KOG4364 Chromatin assembly fac 65.9 4.4 9.4E-05 45.3 2.6 7 34-40 483-489 (811)
33 PF14490 HHH_4: Helix-hairpin- 65.2 23 0.0005 29.7 6.4 44 192-259 8-51 (94)
34 PHA02811 putative host range p 64.9 3.9 8.4E-05 38.8 1.7 12 52-63 154-165 (197)
35 TIGR01448 recD_rel helicase, p 63.3 26 0.00056 40.5 8.4 120 189-318 74-209 (720)
36 KOG1999 RNA polymerase II tran 62.5 5.2 0.00011 46.5 2.5 32 273-306 269-300 (1024)
37 PRK12766 50S ribosomal protein 62.0 2.8 6E-05 41.3 0.2 23 71-93 72-94 (232)
38 PF11702 DUF3295: Protein of u 61.2 7.7 0.00017 42.4 3.4 13 79-91 307-319 (507)
39 PF13324 GCIP: Grap2 and cycli 60.6 3 6.4E-05 42.2 0.2 18 194-211 229-246 (275)
40 PF04147 Nop14: Nop14-like fam 59.6 11 0.00024 44.3 4.6 9 262-270 562-570 (840)
41 PTZ00415 transmission-blocking 59.4 4.5 9.8E-05 49.6 1.4 13 392-404 685-697 (2849)
42 PF02724 CDC45: CDC45-like pro 59.4 6.9 0.00015 44.4 2.8 9 235-243 344-352 (622)
43 PF04147 Nop14: Nop14-like fam 59.1 5.4 0.00012 46.8 2.0 6 470-475 760-765 (840)
44 PF14283 DUF4366: Domain of un 59.0 7.2 0.00016 38.3 2.5 10 42-51 181-190 (218)
45 KOG2406 MADS box transcription 56.7 18 0.00039 39.5 5.1 12 194-205 615-626 (635)
46 KOG2023 Nuclear transport rece 56.4 5.4 0.00012 44.9 1.2 11 261-271 577-587 (885)
47 PF04050 Upf2: Up-frameshift s 54.4 4.1 9E-05 38.3 0.0 14 138-151 61-74 (170)
48 PLN03237 DNA topoisomerase 2; 54.4 5.9 0.00013 48.6 1.3 23 44-66 1433-1455(1465)
49 PF05285 SDA1: SDA1; InterPro 53.9 9 0.00019 39.8 2.4 13 35-47 30-42 (324)
50 PF00627 UBA: UBA/TS-N domain; 53.6 36 0.00077 23.3 4.7 23 375-397 4-26 (37)
51 KOG0772 Uncharacterized conser 53.6 11 0.00025 41.0 3.1 14 152-165 257-270 (641)
52 TIGR00844 c_cpa1 na(+)/h(+) an 53.3 9.6 0.00021 44.2 2.6 32 24-55 742-773 (810)
53 PF04695 Pex14_N: Peroxisomal 52.5 16 0.00034 33.1 3.5 38 360-401 14-51 (136)
54 COG1125 OpuBA ABC-type proline 51.3 20 0.00043 36.3 4.2 63 372-435 72-137 (309)
55 KOG4032 Uncharacterized conser 51.0 12 0.00026 35.5 2.5 9 45-53 123-131 (184)
56 KOG2548 SWAP mRNA splicing reg 50.7 7 0.00015 42.6 1.0 14 194-207 320-333 (653)
57 PF14851 FAM176: FAM176 family 50.5 12 0.00027 34.6 2.4 15 145-159 127-141 (153)
58 KOG1824 TATA-binding protein-i 49.9 8.8 0.00019 44.8 1.6 10 75-84 336-345 (1233)
59 KOG4364 Chromatin assembly fac 48.9 14 0.00031 41.5 3.0 9 58-66 518-526 (811)
60 KOG2076 RNA polymerase III tra 47.1 11 0.00024 43.6 1.9 67 181-252 197-272 (895)
61 PF04695 Pex14_N: Peroxisomal 45.4 23 0.0005 32.0 3.4 27 192-218 23-49 (136)
62 PF11212 DUF2999: Protein of u 45.2 37 0.0008 27.4 4.0 71 264-355 2-75 (82)
63 PHA03346 US22 family homolog; 44.8 18 0.00038 40.1 3.0 8 157-164 483-490 (520)
64 TIGR00601 rad23 UV excision re 43.2 1.5E+02 0.0032 31.7 9.5 127 262-418 155-374 (378)
65 KOG3871 Cell adhesion complex 43.0 10 0.00022 39.6 0.8 11 58-68 91-101 (449)
66 PHA01351 putative minor struct 42.2 3.5E+02 0.0076 31.2 12.2 62 191-252 642-716 (1070)
67 PRK14134 recX recombination re 41.3 4E+02 0.0087 27.1 12.6 122 192-323 64-205 (283)
68 PF08671 SinI: Anti-repressor 40.5 21 0.00046 23.9 1.7 27 189-215 2-28 (30)
69 KOG3540 Beta amyloid precursor 40.3 22 0.00047 38.6 2.6 42 219-260 338-380 (615)
70 PF04546 Sigma70_ner: Sigma-70 40.1 10 0.00022 36.8 0.2 22 194-215 114-135 (211)
71 smart00165 UBA Ubiquitin assoc 39.8 40 0.00086 22.8 3.1 23 375-397 3-25 (37)
72 PF03517 Voldacs: Regulator of 39.7 7.3 0.00016 35.2 -0.8 22 4-25 29-51 (135)
73 PF05285 SDA1: SDA1; InterPro 39.6 15 0.00032 38.2 1.4 9 204-212 190-198 (324)
74 PF15387 DUF4611: Domain of un 39.4 22 0.00047 30.1 2.0 9 96-104 85-93 (96)
75 KOG0526 Nucleosome-binding fac 37.6 32 0.0007 37.9 3.5 10 203-212 558-567 (615)
76 KOG1999 RNA polymerase II tran 37.4 22 0.00048 41.6 2.4 6 263-268 293-298 (1024)
77 PTZ00108 DNA topoisomerase 2-l 37.2 31 0.00068 42.6 3.7 28 41-68 1341-1368(1388)
78 cd00194 UBA Ubiquitin Associat 37.0 47 0.001 22.6 3.1 23 375-397 3-25 (38)
79 PF08553 VID27: VID27 cytoplas 35.2 24 0.00053 41.0 2.3 7 109-115 443-449 (794)
80 PF14490 HHH_4: Helix-hairpin- 35.2 1E+02 0.0022 25.8 5.5 19 264-282 9-27 (94)
81 cd08316 Death_FAS_TNFRSF6 Deat 34.9 1E+02 0.0022 26.3 5.5 44 192-238 20-64 (97)
82 PF07499 RuvA_C: RuvA, C-termi 33.8 61 0.0013 23.6 3.5 23 193-215 4-26 (47)
83 KOG2141 Protein involved in hi 33.6 21 0.00046 40.6 1.4 16 374-389 635-650 (822)
84 KOG0468 U5 snRNP-specific prot 32.8 28 0.00061 39.5 2.2 21 150-170 128-148 (971)
85 PF06957 COPI_C: Coatomer (COP 32.0 15 0.00033 39.5 0.0 21 74-95 70-90 (422)
86 PF12253 CAF1A: Chromatin asse 30.6 34 0.00074 28.0 1.8 6 59-64 43-48 (77)
87 KOG0970 DNA polymerase alpha, 29.8 37 0.00081 40.6 2.6 11 56-66 43-53 (1429)
88 KOG1819 FYVE finger-containing 29.6 40 0.00086 36.8 2.5 24 55-78 418-441 (990)
89 cd08315 Death_TRAILR_DR4_DR5 D 29.4 1.8E+02 0.0038 24.7 6.1 42 193-238 20-62 (96)
90 PTZ00482 membrane-attack compl 29.2 77 0.0017 37.2 5.0 13 55-67 83-95 (844)
91 PHA02854 putative host range p 28.5 37 0.00079 32.0 1.8 9 56-64 152-160 (178)
92 TIGR01448 recD_rel helicase, p 28.4 1.8E+02 0.0039 33.7 7.8 120 225-356 75-210 (720)
93 KOG1144 Translation initiation 28.1 97 0.0021 35.9 5.3 76 196-281 492-567 (1064)
94 PRK00117 recX recombination re 27.8 3.4E+02 0.0073 24.6 8.2 24 299-323 129-152 (157)
95 PF10731 Anophelin: Thrombin i 27.7 56 0.0012 25.4 2.4 13 53-66 28-40 (65)
96 KOG0400 40S ribosomal protein 27.7 40 0.00087 30.4 1.9 33 217-249 23-55 (151)
97 KOG1834 Calsyntenin [Extracell 27.4 34 0.00074 38.5 1.7 11 76-86 908-918 (952)
98 PHA03242 envelope glycoprotein 27.3 40 0.00086 36.4 2.1 21 44-64 373-393 (428)
99 PF08597 eIF3_subunit: Transla 27.3 1.2E+02 0.0026 30.1 5.4 24 124-147 91-114 (245)
100 KOG2229 Protein required for a 27.2 23 0.0005 38.8 0.3 11 36-46 146-156 (616)
101 KOG0011 Nucleotide excision re 26.5 1.6E+02 0.0036 30.6 6.2 189 189-418 132-335 (340)
102 TIGR00993 3a0901s04IAP86 chlor 25.9 37 0.00081 38.9 1.7 9 245-253 543-551 (763)
103 PRK14135 recX recombination re 25.8 6.6E+02 0.014 24.8 11.5 87 194-287 62-149 (263)
104 PRK14606 ruvA Holliday junctio 25.2 1.6E+02 0.0035 28.1 5.7 126 151-306 56-185 (188)
105 PRK08561 rps15p 30S ribosomal 25.2 1.2E+02 0.0026 28.1 4.5 35 216-250 22-56 (151)
106 PF06679 DUF1180: Protein of u 24.2 51 0.0011 30.9 2.0 23 41-63 114-136 (163)
107 PRK07562 ribonucleotide-diphos 24.1 74 0.0016 38.8 3.7 134 143-282 650-821 (1220)
108 PF11212 DUF2999: Protein of u 23.8 2.1E+02 0.0047 23.1 5.1 45 194-245 3-47 (82)
109 KOG0772 Uncharacterized conser 23.7 53 0.0012 36.1 2.3 13 39-51 69-81 (641)
110 PRK00117 recX recombination re 23.7 5.5E+02 0.012 23.2 10.2 87 194-288 16-103 (157)
111 KOG2047 mRNA splicing factor [ 23.5 1.1E+02 0.0024 34.8 4.7 56 179-238 125-183 (835)
112 COG1125 OpuBA ABC-type proline 23.4 78 0.0017 32.2 3.2 15 466-480 225-239 (309)
113 PF14117 DUF4287: Domain of un 23.3 1.8E+02 0.004 22.7 4.6 45 272-322 12-56 (61)
114 PRK14135 recX recombination re 23.3 6.6E+02 0.014 24.8 10.0 140 130-287 44-202 (263)
115 PRK12766 50S ribosomal protein 23.3 25 0.00054 34.8 -0.2 20 150-169 165-184 (232)
116 PF11332 DUF3134: Protein of u 23.2 38 0.00083 27.5 0.8 20 26-45 7-26 (73)
117 cd08319 Death_RAIDD Death doma 23.1 2.5E+02 0.0053 23.2 5.6 36 198-236 19-54 (83)
118 KOG2897 DNA-binding protein YL 23.0 64 0.0014 34.1 2.6 9 88-96 87-95 (390)
119 KOG1085 Predicted methyltransf 22.9 84 0.0018 32.2 3.3 14 127-140 225-238 (392)
120 PF02787 CPSase_L_D3: Carbamoy 22.8 75 0.0016 28.3 2.7 30 190-220 11-40 (123)
121 PRK14136 recX recombination re 22.7 8.6E+02 0.019 25.3 10.6 136 194-362 167-303 (309)
122 PF13543 KSR1-SAM: SAM like do 22.6 2E+02 0.0043 26.0 5.3 51 196-249 70-123 (129)
123 KOG3540 Beta amyloid precursor 22.4 56 0.0012 35.6 2.1 13 132-144 250-262 (615)
124 PF07499 RuvA_C: RuvA, C-termi 22.3 1.3E+02 0.0027 21.9 3.4 24 228-251 4-27 (47)
125 PF02022 Integrase_Zn: Integra 21.9 1.2E+02 0.0025 21.7 3.0 30 372-401 7-37 (40)
126 KOG2140 Uncharacterized conser 21.8 67 0.0015 35.6 2.5 31 371-401 621-653 (739)
127 PLN00151 potassium transporter 21.5 60 0.0013 37.9 2.3 8 469-476 685-692 (852)
128 PF03960 ArsC: ArsC family; I 21.5 83 0.0018 26.9 2.7 56 346-405 30-91 (110)
129 PRK00116 ruvA Holliday junctio 21.4 3.2E+02 0.007 26.0 7.0 97 203-306 80-191 (192)
130 PF12527 DUF3727: Protein of u 21.2 47 0.001 28.6 1.0 11 53-64 16-26 (100)
131 PF08069 Ribosomal_S13_N: Ribo 21.0 56 0.0012 25.5 1.3 33 217-249 23-55 (60)
132 KOG0699 Serine/threonine prote 20.7 65 0.0014 34.0 2.1 14 39-52 239-252 (542)
133 KOG2141 Protein involved in hi 20.6 1.1E+02 0.0025 35.0 4.1 9 85-93 263-271 (822)
134 PF05097 DUF688: Protein of un 20.5 61 0.0013 35.2 2.0 7 54-60 214-220 (446)
135 PHA03237 envelope glycoprotein 20.5 77 0.0017 34.2 2.7 9 45-53 377-385 (424)
136 PF02631 RecX: RecX family; I 20.2 3.8E+02 0.0083 23.1 6.7 57 191-249 10-67 (121)
137 cd08784 Death_DRs Death Domain 20.1 3.4E+02 0.0074 21.9 5.9 39 194-236 13-51 (79)
138 PF03960 ArsC: ArsC family; I 20.0 2E+02 0.0043 24.5 4.7 21 239-259 71-91 (110)
No 1
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=4.3e-53 Score=454.22 Aligned_cols=323 Identities=24% Similarity=0.469 Sum_probs=263.7
Q ss_pred hhhhhhhhhhhhcccCCCCCccccccccccchhhhhhhhhhcccCcCCChHHHHHHHHhCCCCHHHHHHHHHhcCCcccc
Q 010686 143 RNRRNTIKNSFDDTYYNSKDVDQRGKVMTRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQI 222 (504)
Q Consensus 143 ~~~~~~v~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~p~ll~~~~~e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~ 222 (504)
+....+|+++|..+|+++.++..+ +.+||+++ ..+++.++.|+++||+++|++.++|.+++.++|.+|.+
T Consensus 121 ~~~l~Pvl~fL~~lG~s~~~i~~l---------I~~~P~lL-~~sve~~L~P~v~fL~~lGvs~~~i~~~l~r~P~LL~~ 190 (487)
T PLN03196 121 KKNMIPVLDYLEKLGVTRSSLPEL---------LRRYPQVL-HASVVVDLAPVVKYLQGLDVKRQDIPRVLERYPELLGF 190 (487)
T ss_pred hhhhHHHHHHHHHcCCCHHHHHHH---------HHhCCcee-cccHHHHHHHHHHHHHHcCCCHHHHHHHHHhCchhhcC
Confidence 445566777777777777777663 56677777 67777777777777777777777777777777777777
Q ss_pred Ccc-CHHHHHHHHHHCCCChhhHHHHHhhCCcccccCcccchHHHHHHHHHcCCCchhhhhHhhhcCcccccccccchhH
Q 010686 223 NVC-SARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKP 301 (504)
Q Consensus 223 ~~~-~l~~~l~fL~slGls~~~l~kil~~~P~lL~~s~e~~L~p~v~fL~~lGls~~~I~klL~~~P~lL~~s~e~~l~p 301 (504)
+++ .+.++++||.++|++.+++++++.++|+||+++++++++|+++||+++|++.++|+++|.++|++|+++++++++|
T Consensus 191 ~~e~~l~p~v~fL~~lGvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL~~lGv~~~~I~~il~~~P~iL~~sle~~lkp 270 (487)
T PLN03196 191 KLEGTMSTSVAYLVSIGVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYLESLGLPRLAVARILEKRPYILGFDLEETVKP 270 (487)
T ss_pred CHHHHHHHHHHHHHHcCCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEcCHHHhHHH
Confidence 766 6777777777777777777777777777777777777778888887778877778888888888887777767788
Q ss_pred HHHHHHHHhCCChhHHHHHHhhCccceeccccccchhhhhhhhhhcCCCchhHHHhhhccccccccccccchHHHHHHHH
Q 010686 302 TVRYLVEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVVKMVTKHPQLLHYSIDDGLLPRINFLR 381 (504)
Q Consensus 302 ~v~fL~~~lGv~~~~l~~vI~~~P~lL~~~~e~~l~~kv~fL~~~lG~s~~~v~~ml~~~P~iL~~s~e~~L~~kv~fL~ 381 (504)
++.+|. ++|++++.+.++++++|.+++.+++.++.+++.|+.+.+|++++++..+++++|++++++ +++|.+|++||+
T Consensus 271 ~v~~L~-elGv~~~~i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~P~il~lS-e~kl~~kvefL~ 348 (487)
T PLN03196 271 NVECLL-EFGVRKEALPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKLPQIVSLN-RNVALKHVEFLR 348 (487)
T ss_pred HHHHHH-HcCCCHHHHHHHHHhCCceeEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhcchhhccc-HHHHHHHHHHHH
Confidence 888876 778888778888888888887777767777788887788888888888888888888888 678999999999
Q ss_pred HhcCChHHHHHHHHhccchhccCcccchHHHHHHHHHHhCCcHHHHhhcCceeccCcccchHHHHHHHHHhhcCCCCCCC
Q 010686 382 SIGMRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEVQSLTKYPMYLSLSLDQRIRPRHRFLVSLKKAPKGPFP 461 (504)
Q Consensus 382 ~lG~s~~ev~~~v~r~P~iL~~SlE~~L~pk~~fL~~~mg~~~~~I~k~P~lL~~SLekrI~PR~~fL~~L~~~~k~~~~ 461 (504)
++||+.++|..||.++|++|++|. ++|++|++||+++||+++++|++||++|+||||+||+|||++|+.-| + .++
T Consensus 349 ~~Gls~edI~~mv~k~P~lL~~S~-~~l~~k~dFlvneMg~~~~~Iv~fP~~LsySLEkRI~PR~~~L~~kG-l---~~s 423 (487)
T PLN03196 349 GRGFSAQDVAKMVVRCPQILALNL-EIMKPSLEFFKKEMKRPLKELVEFPAYFTYGLESRIKPRYERVAKKG-I---KCS 423 (487)
T ss_pred HcCCCHHHHHHHHHhCCceeeccH-HHHHHHHHHHHHHhCCCHHHHHhChHHhccChhhhhHHHHHHHHHcC-C---CCC
Confidence 999999999999999999999995 99999999999999999999999999999999999999999987532 1 457
Q ss_pred cccc-cCCHHHHHHHhcCCChH
Q 010686 462 LSLF-IPTDECFCQKWAGTTVD 482 (504)
Q Consensus 462 Ls~L-~~sd~~F~~~~~~~s~e 482 (504)
|+++ .+||+.|+++|+..++|
T Consensus 424 L~~~L~~sd~~F~~r~v~~y~e 445 (487)
T PLN03196 424 LAWFLNCSDDKFEQRMSGDFIE 445 (487)
T ss_pred HHHHhccCHHHHHHHHhhhccc
Confidence 8775 69999999999776655
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=3.2e-47 Score=393.23 Aligned_cols=308 Identities=31% Similarity=0.588 Sum_probs=256.9
Q ss_pred hhhcccCCCCCccccccccccchhhhhhhhhhcccCcCCChHHHHHHHHhCCCCHHHHHHHHHhcCCccccCcc-CHHHH
Q 010686 152 SFDDTYYNSKDVDQRGKVMTRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVC-SARER 230 (504)
Q Consensus 152 ~~~~~g~~~~~~~~~~~l~~~~~~~~~~p~ll~~~~~e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~-~l~~~ 230 (504)
.++++||++.||..+ ++++|.++ .++.++++.|+++||.+.|++.+++++++.++|.++..+.+ ++.+.
T Consensus 3 ~~~~~gf~~~~i~~~---------i~~~P~~l-~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~ 72 (345)
T PF02536_consen 3 LLKNHGFSDSQISKL---------IRRYPRLL-LCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPV 72 (345)
T ss_dssp HHHHHHHHTS-HHHH---------HH-H-HHH-HT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHH
T ss_pred HHHHcCCCHHHHHHH---------HHhCCceE-EecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHH
Confidence 578899999999994 78899999 89999999999999999999999999999999999999954 89999
Q ss_pred HHHHHHCCCChhhHHHHHhhCCcccccCcccchHHHHHHHHHcCCCchhhhhHhhhcCcccccccccchhHHHHHHHHHh
Q 010686 231 LEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEV 310 (504)
Q Consensus 231 l~fL~slGls~~~l~kil~~~P~lL~~s~e~~L~p~v~fL~~lGls~~~I~klL~~~P~lL~~s~e~~l~p~v~fL~~~l 310 (504)
++||+++|++++++.+++.++|++|..+.+.++.++++||.++|++.+.+.+++..+|.++... ..+.+.++++. ++
T Consensus 73 ~~~L~~~~~s~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~~lGv~~~~~~~~l~~~~~~~~~~--~~~~~~v~~l~-~l 149 (345)
T PF02536_consen 73 FDFLKSIGLSDEDIVKVLKRYPRILSFSVEENLSPNVAFLRSLGVPPSQIISLLISRPPLFLSS--EKIKERVEFLK-EL 149 (345)
T ss_dssp HHHHTTTSS-HHHHHHHHHH-SHHHHS---HHHHHHHHHHHHTT--HHHHHHHHHH-CHHHHS---HHHHCHHHHHC-CC
T ss_pred HHHHHHHcCCHHHHHHHHHhcchhhccchHhhhhhhhhHHhhcCCcHHHHHHHHHhcCccccch--hHHHHHHHHHH-Hh
Confidence 9999999999999999999999999998877999999999999999998999999999877665 46999999996 89
Q ss_pred CCChhHHHHHHhhCccceeccccccchhhhhhhhhhcCCCchhHHHhhhcccccccccccc-------------------
Q 010686 311 GINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVVKMVTKHPQLLHYSIDD------------------- 371 (504)
Q Consensus 311 Gv~~~~l~~vI~~~P~lL~~~~e~~l~~kv~fL~~~lG~s~~~v~~ml~~~P~iL~~s~e~------------------- 371 (504)
|++++++.+++..+|.++....+..|+++++|| +++|++.+++.+++.++|.++..+.+.
T Consensus 150 G~~~~~~~~vi~~~P~~l~~~~~~~~~~~v~~L-~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~~~ 228 (345)
T PF02536_consen 150 GFDPEKIGRVIAKNPRLLLSDSESELKPKVEFL-RSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEERV 228 (345)
T ss_dssp TSSHHHHCCCHHHHHHHHCGSCCCCCHHHHHHH-HHCTT-GHHHHHHHHHTTTGGGCGCHC-------------------
T ss_pred CCCchhhcccccccchhhccccHHHHHHHHHHH-HhhcccchhhhHHhhcccceeccccccccccccccccccccccccc
Confidence 999999999999999888888888899999999 699999999999999999999988765
Q ss_pred -------------chHHHHHHHHHhcCChHHHHHHHHhccchhccCcccchHHHHHHHHHHhCCcHHHHhhcCceeccCc
Q 010686 372 -------------GLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEVQSLTKYPMYLSLSL 438 (504)
Q Consensus 372 -------------~L~~kv~fL~~lG~s~~ev~~~v~r~P~iL~~SlE~~L~pk~~fL~~~mg~~~~~I~k~P~lL~~SL 438 (504)
++.++++||+++||+.+++++|+.++|+||++|. ++|++|++||+++||+++++|+++|++|+||+
T Consensus 229 i~~~p~il~~~~~~l~~~i~~L~~lG~s~~ei~~mv~~~P~iL~~s~-e~l~~k~~fl~~~m~~~~~~i~~~P~~l~~sL 307 (345)
T PF02536_consen 229 IKKFPQILSLSEEKLKPKIEFLQSLGFSEEEIAKMVRRFPQILSYSI-EKLKPKFEFLVKEMGLPLEEIVEFPQYLSYSL 307 (345)
T ss_dssp --------THHHHHHHHHHHHHHTTT--HHHHHHHHHHSGGGGGS-H-HHHHHHHHHHHHCCT--HHHHHHSCHHHCS-H
T ss_pred ccccccccccchHhHHHHHHHHHHhcCcHHHHHHHHHhCcchhhcch-hhhhHHHHHHHHHhCcCHHHHhhCCceeEech
Confidence 6899999999999999999999999999999996 56999999999999999999999999999999
Q ss_pred ccchHHHHHHHHHhhcCC-CCCCCcccc-cCCHHHHHH
Q 010686 439 DQRIRPRHRFLVSLKKAP-KGPFPLSLF-IPTDECFCQ 474 (504)
Q Consensus 439 ekrI~PR~~fL~~L~~~~-k~~~~Ls~L-~~sd~~F~~ 474 (504)
|+||+|||+++++|+... +...++.++ .+||++|++
T Consensus 308 e~ri~PR~~~~~~l~~~g~~~~~sl~~~l~~s~~~F~~ 345 (345)
T PF02536_consen 308 EKRIKPRYEVLKVLKSKGLIINPSLSSMLSCSDEEFLK 345 (345)
T ss_dssp HHHHHHHHHHHHTT--TTTGGGGGS-HHHHHHHHHHT-
T ss_pred hhhhhhHHHHHHHHHHCcCCCCCCHHHHhhccHHHhcC
Confidence 999999999999997532 234577764 699999974
No 3
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=1.7e-42 Score=372.32 Aligned_cols=288 Identities=22% Similarity=0.439 Sum_probs=273.5
Q ss_pred hhhhhhhcccCCCCCccccccccccchhhhhhhhhhcccCcCCChHHHHHHHHhCCCCHHHHHHHHHhcCCccccCcc-C
Q 010686 148 TIKNSFDDTYYNSKDVDQRGKVMTRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVC-S 226 (504)
Q Consensus 148 ~v~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~p~ll~~~~~e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~-~ 226 (504)
.++++|+.+||+..||.. ||+++ .+++++++.|+++||.++|++.++|++++.++|.+|.++++ +
T Consensus 94 ~~l~~L~s~G~~~~~i~~-------------~P~iL-~~~v~~~l~Pvl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~ 159 (487)
T PLN03196 94 ERVEFLHKLGLTIEDINE-------------YPLVL-GCSVKKNMIPVLDYLEKLGVTRSSLPELLRRYPQVLHASVVVD 159 (487)
T ss_pred HHHHHHHHcCCChHHhcc-------------CcHHh-hcCHhhhhHHHHHHHHHcCCCHHHHHHHHHhCCceecccHHHH
Confidence 466899999999998863 79999 99999999999999999999999999999999999999987 8
Q ss_pred HHHHHHHHHHCCCChhhHHHHHhhCCcccccCcccchHHHHHHHHHcCCCchhhhhHhhhcCcccccccccchhHHHHHH
Q 010686 227 ARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYL 306 (504)
Q Consensus 227 l~~~l~fL~slGls~~~l~kil~~~P~lL~~s~e~~L~p~v~fL~~lGls~~~I~klL~~~P~lL~~s~e~~l~p~v~fL 306 (504)
+.|+++||+++|++.+++.+++.++|++|++++++++.++++||.++|++.++|+++|.++|++|+++++++++|+++||
T Consensus 160 L~P~v~fL~~lGvs~~~i~~~l~r~P~LL~~~~e~~l~p~v~fL~~lGvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL 239 (487)
T PLN03196 160 LAPVVKYLQGLDVKRQDIPRVLERYPELLGFKLEGTMSTSVAYLVSIGVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYL 239 (487)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHhCchhhcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhCCChhHHHHHHhhCccceeccccccchhhhhhhhhhcCCCchhHHHhhhccccccccccccchHHHHHHHH-HhcC
Q 010686 307 VEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVVKMVTKHPQLLHYSIDDGLLPRINFLR-SIGM 385 (504)
Q Consensus 307 ~~~lGv~~~~l~~vI~~~P~lL~~~~e~~l~~kv~fL~~~lG~s~~~v~~ml~~~P~iL~~s~e~~L~~kv~fL~-~lG~ 385 (504)
+ ++|++.+++.+++.++|++|+++++.++++++.+| .++|++++.+..+++++|.++++++++++.++++||. ++||
T Consensus 240 ~-~lGv~~~~I~~il~~~P~iL~~sle~~lkp~v~~L-~elGv~~~~i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~ 317 (487)
T PLN03196 240 E-SLGLPRLAVARILEKRPYILGFDLEETVKPNVECL-LEFGVRKEALPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKI 317 (487)
T ss_pred H-HcCCCHHHHHHHHHhCCceeEcCHHHhHHHHHHHH-HHcCCCHHHHHHHHHhCCceeEecHHHhhhHHHHHHHHhhCC
Confidence 7 79999999999999999999999988899999999 5999999999999999999999999999999999995 8999
Q ss_pred ChHHHHHHHHhccchhccCcccchHHHHHHHHHHhCCcHHHH----hhcCceeccCcccchHHHHHHHHHhhc
Q 010686 386 RNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEVQSL----TKYPMYLSLSLDQRIRPRHRFLVSLKK 454 (504)
Q Consensus 386 s~~ev~~~v~r~P~iL~~SlE~~L~pk~~fL~~~mg~~~~~I----~k~P~lL~~SLekrI~PR~~fL~~L~~ 454 (504)
+.+++..++.++|+++++| ++++.+|++||.+ +|++.++| .++|++|+||++ .|+++++||..-.+
T Consensus 318 s~e~i~~~v~k~P~il~lS-e~kl~~kvefL~~-~Gls~edI~~mv~k~P~lL~~S~~-~l~~k~dFlvneMg 387 (487)
T PLN03196 318 DPEDFGRVIEKLPQIVSLN-RNVALKHVEFLRG-RGFSAQDVAKMVVRCPQILALNLE-IMKPSLEFFKKEMK 387 (487)
T ss_pred CHHHHHHHHHhcchhhccc-HHHHHHHHHHHHH-cCCCHHHHHHHHHhCCceeeccHH-HHHHHHHHHHHHhC
Confidence 9999999999999999999 7899999999986 99997655 899999999995 89999999997543
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=1.4e-33 Score=291.64 Aligned_cols=250 Identities=31% Similarity=0.560 Sum_probs=210.8
Q ss_pred HHHHhCCCCHHHHHHHHHhcCCccccCcc-CHHHHHHHHHHCCCChhhHHHHHhhCCcccccCcccchHHHHHHHHHcCC
Q 010686 197 DYLSTFGLKESHFIQMYERHMPSLQINVC-SARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGI 275 (504)
Q Consensus 197 ~fL~slG~s~~~I~~il~r~P~lL~~~~~-~l~~~l~fL~slGls~~~l~kil~~~P~lL~~s~e~~L~p~v~fL~~lGl 275 (504)
++|+++||++++|.++++++|.++.++++ ++.|+++||.++|++..++.+++.++|.+|..++++++.|+++||+++|+
T Consensus 2 ~~~~~~gf~~~~i~~~i~~~P~~l~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~~ 81 (345)
T PF02536_consen 2 DLLKNHGFSDSQISKLIRRYPRLLLCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIGL 81 (345)
T ss_dssp HHHHHHHHHTS-HHHHHH-H-HHHHT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTSS
T ss_pred hHHHHcCCCHHHHHHHHHhCCceEEecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHcC
Confidence 68999999999999999999999999987 89999999999999999999999999999999988999999999999999
Q ss_pred CchhhhhHhhhcCcccccccccchhHHHHHHHHHhCCChhHHHHHHhhCccceeccccccchhhhhhhhhhcCCCchhHH
Q 010686 276 PNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVV 355 (504)
Q Consensus 276 s~~~I~klL~~~P~lL~~s~e~~l~p~v~fL~~~lGv~~~~l~~vI~~~P~lL~~~~e~~l~~kv~fL~~~lG~s~~~v~ 355 (504)
+++++++++.++|++|..+.+.++.+++.||+ ++|++++.+..++...|..+... ..+++.++++ .++|++++++.
T Consensus 82 s~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~-~lGv~~~~~~~~l~~~~~~~~~~--~~~~~~v~~l-~~lG~~~~~~~ 157 (345)
T PF02536_consen 82 SDEDIVKVLKRYPRILSFSVEENLSPNVAFLR-SLGVPPSQIISLLISRPPLFLSS--EKIKERVEFL-KELGFDPEKIG 157 (345)
T ss_dssp -HHHHHHHHHH-SHHHHS---HHHHHHHHHHH-HTT--HHHHHHHHHH-CHHHHS---HHHHCHHHHH-CCCTSSHHHHC
T ss_pred CHHHHHHHHHhcchhhccchHhhhhhhhhHHh-hcCCcHHHHHHHHHhcCccccch--hHHHHHHHHH-HHhCCCchhhc
Confidence 99999999999999999887768999999997 89999998888888888776655 4689999999 69999999999
Q ss_pred HhhhccccccccccccchHHHHHHHHHhcCChHHHHHHHHhccchhccCccc----------------------------
Q 010686 356 KMVTKHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLED---------------------------- 407 (504)
Q Consensus 356 ~ml~~~P~iL~~s~e~~L~~kv~fL~~lG~s~~ev~~~v~r~P~iL~~SlE~---------------------------- 407 (504)
+++.++|.++....++.|+++++||+++||+.+++.+++.++|.+|.+|+++
T Consensus 158 ~vi~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~~~i~~~p~il~ 237 (345)
T PF02536_consen 158 RVIAKNPRLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEERVIKKFPQILS 237 (345)
T ss_dssp CCHHHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC---------------------------T
T ss_pred ccccccchhhccccHHHHHHHHHHHHhhcccchhhhHHhhcccceecccccccccccccccccccccccccccccccccc
Confidence 9999999888888889999999999999999999999999999999999765
Q ss_pred ----chHHHHHHHHHHhCCcH----HHHhhcCceeccCcccchHHHHHHHHHh
Q 010686 408 ----NLKPKYTYLINELHNEV----QSLTKYPMYLSLSLDQRIRPRHRFLVSL 452 (504)
Q Consensus 408 ----~L~pk~~fL~~~mg~~~----~~I~k~P~lL~~SLekrI~PR~~fL~~L 452 (504)
++.++++||.+ +|++. ..+.++|++|+||.++ ++|++.|+..-
T Consensus 238 ~~~~~l~~~i~~L~~-lG~s~~ei~~mv~~~P~iL~~s~e~-l~~k~~fl~~~ 288 (345)
T PF02536_consen 238 LSEEKLKPKIEFLQS-LGFSEEEIAKMVRRFPQILSYSIEK-LKPKFEFLVKE 288 (345)
T ss_dssp HHHHHHHHHHHHHHT-TT--HHHHHHHHHHSGGGGGS-HHH-HHHHHHHHHHC
T ss_pred cchHhHHHHHHHHHH-hcCcHHHHHHHHHhCcchhhcchhh-hhHHHHHHHHH
Confidence 58889999887 89885 4578899999999985 99999999853
No 5
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.92 E-value=4e-25 Score=234.59 Aligned_cols=288 Identities=27% Similarity=0.436 Sum_probs=237.8
Q ss_pred hhhhhhhhcccCCCCCccccccccccchhhhhhhhhhcccCcCCChHHHHHHHHhCCCCHHHHHHHHHhcCCccccCc-c
Q 010686 147 NTIKNSFDDTYYNSKDVDQRGKVMTRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINV-C 225 (504)
Q Consensus 147 ~~v~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~p~ll~~~~~e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~-~ 225 (504)
..++..++..||+..++.++ +..+|+++ .++.+.-+.+.+.+|.+.|++...+.++++.-|.+|.... .
T Consensus 92 ~s~~~~l~s~g~~~~~i~s~---------i~~~p~ll-~~~~~~~l~~~~~~l~~~g~~~s~l~~i~s~~~~il~~~~~~ 161 (413)
T KOG1267|consen 92 SSVLSSLRSLGFTDSQISSI---------ILSSPKLL-YLSSENILKPKLRLLDSLGLPSSELSSIVSVVPKILLKSKGE 161 (413)
T ss_pred HHHHHHHHhcCCchhhcccc---------cccCchhh-hccchhhhhhhhhhhhccCccccccchhhhccHHHHHhhcCC
Confidence 45777899999999999984 44568888 7887888888888999999999999999988677776443 5
Q ss_pred CHHHHHHHHHHCC--CChhhHHHHHhhCCcccccCcccchHHHHHHHHHcCCCchhhhhHhhhcCcccccccccchhHHH
Q 010686 226 SARERLEYLLSVG--VKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTV 303 (504)
Q Consensus 226 ~l~~~l~fL~slG--ls~~~l~kil~~~P~lL~~s~e~~L~p~v~fL~~lGls~~~I~klL~~~P~lL~~s~e~~l~p~v 303 (504)
++...++||++++ .....+.+++...|...... ..+. +++++.++|.....+..++..+|..+.... .+...+
T Consensus 162 ~~~~~~~~l~~~~~~~~~s~~~~~~~~~~~~~~~~--~~v~-~~~~~~~lg~~~~~L~~~l~~~~~~~~~~~--~l~~~~ 236 (413)
T KOG1267|consen 162 SLSTFIEFLKSIPPELLSSVVERLLTPVPSFLLNE--NSVE-RLDIRRELGVKPRLLKSLLESQPRPVLLYL--KLKARL 236 (413)
T ss_pred chhhHHHHhhccchhhhhhHHHHhccccccccccc--cccc-cchhhHHhCCCHHHHHHHHhcCccceeeeh--hhhhhh
Confidence 8899999999974 67777777776666433222 2344 888999999999999888888888876543 366677
Q ss_pred HHHHHHhCCChhHHHHHHhhCccceeccccccchhhhhhhhhhcCCCchhHHHhhhcccccccccccc------------
Q 010686 304 RYLVEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVVKMVTKHPQLLHYSIDD------------ 371 (504)
Q Consensus 304 ~fL~~~lGv~~~~l~~vI~~~P~lL~~~~e~~l~~kv~fL~~~lG~s~~~v~~ml~~~P~iL~~s~e~------------ 371 (504)
.++. .+|+.+.. +++...|.++.+..+.++++++++| +.+||+.++++.|++++|++|+++.+.
T Consensus 237 ~~i~-~~g~~p~~--~~~v~~~~~~~~~~~~~i~~kv~~l-~~~Gf~~~di~~~~~k~P~~l~~s~~~~~~~~~~~~~~~ 312 (413)
T KOG1267|consen 237 PFLL-TLGFDPKT--REFVKAPILLSYSSEKTLEPKVEVL-KSLGFSREEIWKMVKKCPQILGYSVKKNLKTTEYLLKNP 312 (413)
T ss_pred hhHH-HhccCCch--hHHHhhhhhhcccccccHHHHHHHH-HHcCCCHHHHHHHHHhCchheEeehhhhhHHHHHHHhcc
Confidence 7774 77777766 6666677888877888888888888 577888888888888888888888543
Q ss_pred ---------------chHHHHHHHHHhcCChHHHHHHHHhccchhccCcccchHHHHHHHHHHhCCcHHHHhhcCceecc
Q 010686 372 ---------------GLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEVQSLTKYPMYLSL 436 (504)
Q Consensus 372 ---------------~L~~kv~fL~~lG~s~~ev~~~v~r~P~iL~~SlE~~L~pk~~fL~~~mg~~~~~I~k~P~lL~~ 436 (504)
.+.++++|+..+|++..++..|++++|+++.+|+++.++++.+|+...|+++.+.++.+|+++.|
T Consensus 313 ~~~~k~p~~l~~s~~~l~~~ie~l~~~g~~~~q~~~~~~~~Pq~l~~s~~~~~~~~~~~~~~~~~~p~~~~~~~p~~~~y 392 (413)
T KOG1267|consen 313 KHILKFPQLLRSSEDKLKPRIEFLLSLGFSDVQILEMVKRFPQYLSFSLEKILKRKYEYLLKGLLRPLSALVSFPAFFGY 392 (413)
T ss_pred hhhhhhhhhhhccchhhhhhHHHHHHcCCcHHHHHHHHhhccHHhhhhHHhhhhhhHHHHHHHcCchHHHHhccchhhcc
Confidence 48999999999999999999999999999999987799999999999999999999999999999
Q ss_pred CcccchHHHHHHHHHhh
Q 010686 437 SLDQRIRPRHRFLVSLK 453 (504)
Q Consensus 437 SLekrI~PR~~fL~~L~ 453 (504)
++++|+.||+.+...++
T Consensus 393 ~le~ri~pr~~~~~~~~ 409 (413)
T KOG1267|consen 393 SLEKRIRPRFNVIKKLG 409 (413)
T ss_pred chhhcchhHHHHHHHHh
Confidence 99999999999999876
No 6
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.83 E-value=1.9e-20 Score=198.88 Aligned_cols=250 Identities=24% Similarity=0.407 Sum_probs=215.1
Q ss_pred CCChHHHHHHHHhCCCCHHHHHHHHHhcCCccccCcc-CHHHHHHHHHHCCCChhhHHHHHhhCCcccccCcccchHHHH
Q 010686 189 DEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVC-SARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHV 267 (504)
Q Consensus 189 e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~-~l~~~l~fL~slGls~~~l~kil~~~P~lL~~s~e~~L~p~v 267 (504)
..++..++++|+++|++..+|..++..+|.++..+.+ .+.+++.+|.+.|++...+.+++...|.+|+.+...++.+.+
T Consensus 88 ~~~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~l~~~g~~~s~l~~i~s~~~~il~~~~~~~~~~~~ 167 (413)
T KOG1267|consen 88 SVNPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRLLDSLGLPSSELSSIVSVVPKILLKSKGESLSTFI 167 (413)
T ss_pred ccCcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhhhhccCccccccchhhhccHHHHHhhcCCchhhHH
Confidence 3578899999999999999999999999999998877 677888899999999999999999999999988888999999
Q ss_pred HHHHHcC--CCchhhhhHhhhcCcccccccccchhHHHHHHHHHhCCChhHHHHHHhhCccceeccccccchhhhhhhhh
Q 010686 268 AFLISLG--IPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSK 345 (504)
Q Consensus 268 ~fL~~lG--ls~~~I~klL~~~P~lL~~s~e~~l~p~v~fL~~~lGv~~~~l~~vI~~~P~lL~~~~e~~l~~kv~fL~~ 345 (504)
+||++++ .....+.+++...|...... ..+. ++++++ .+|+.+..+...+..+|....... .+...+.++ .
T Consensus 168 ~~l~~~~~~~~~s~~~~~~~~~~~~~~~~--~~v~-~~~~~~-~lg~~~~~L~~~l~~~~~~~~~~~--~l~~~~~~i-~ 240 (413)
T KOG1267|consen 168 EFLKSIPPELLSSVVERLLTPVPSFLLNE--NSVE-RLDIRR-ELGVKPRLLKSLLESQPRPVLLYL--KLKARLPFL-L 240 (413)
T ss_pred HHhhccchhhhhhHHHHhccccccccccc--cccc-cchhhH-HhCCCHHHHHHHHhcCccceeeeh--hhhhhhhhH-H
Confidence 9999985 77878888877776444332 2355 899997 899999999999999999988654 466677788 4
Q ss_pred hcCCCchhHHHhhhccccccccccccchHHHHHHHHHhcCChHHHHHHHHhccchhccCcccchHHHHHHHHHHhCCcHH
Q 010686 346 ELGAPRDDVVKMVTKHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEVQ 425 (504)
Q Consensus 346 ~lG~s~~~v~~ml~~~P~iL~~s~e~~L~~kv~fL~~lG~s~~ev~~~v~r~P~iL~~SlE~~L~pk~~fL~~~mg~~~~ 425 (504)
.+||.+.. .++.+.|.++.++.++++++|+++|+++||+.+||.+|+.++|++|++| ++++..++.|+++. ..
T Consensus 241 ~~g~~p~~--~~~v~~~~~~~~~~~~~i~~kv~~l~~~Gf~~~di~~~~~k~P~~l~~s-~~~~~~~~~~~~~~----~~ 313 (413)
T KOG1267|consen 241 TLGFDPKT--REFVKAPILLSYSSEKTLEPKVEVLKSLGFSREEIWKMVKKCPQILGYS-VKKNLKTTEYLLKN----PK 313 (413)
T ss_pred HhccCCch--hHHHhhhhhhcccccccHHHHHHHHHHcCCCHHHHHHHHHhCchheEee-hhhhhHHHHHHHhc----ch
Confidence 89988877 7888899999999999999999999999999999999999999999999 57888888888776 23
Q ss_pred HHhhcCceeccCcccchHHHHHHHHHhh
Q 010686 426 SLTKYPMYLSLSLDQRIRPRHRFLVSLK 453 (504)
Q Consensus 426 ~I~k~P~lL~~SLekrI~PR~~fL~~L~ 453 (504)
.+.++|+++.+|.. .+.+|++++..+|
T Consensus 314 ~~~k~p~~l~~s~~-~l~~~ie~l~~~g 340 (413)
T KOG1267|consen 314 HILKFPQLLRSSED-KLKPRIEFLLSLG 340 (413)
T ss_pred hhhhhhhhhhccch-hhhhhHHHHHHcC
Confidence 38888888877754 7888888888876
No 7
>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=96.33 E-value=0.0024 Score=41.48 Aligned_cols=28 Identities=43% Similarity=0.669 Sum_probs=17.8
Q ss_pred HHHhccchhccCcccchHHHHHHHHHHhCC
Q 010686 393 VLRSLTQVLSLSLEDNLKPKYTYLINELHN 422 (504)
Q Consensus 393 ~v~r~P~iL~~SlE~~L~pk~~fL~~~mg~ 422 (504)
++.++|.+|++| +++|+++++||. .+|+
T Consensus 3 ~~~~~P~il~~~-~~~l~~~~~~l~-~~g~ 30 (31)
T smart00733 3 ILKKFPQILGYS-EKKLKPKVEFLK-ELGF 30 (31)
T ss_pred hhhhCcCccccc-HHHhhHHHHHHH-HcCC
Confidence 456666666666 566666666666 4554
No 8
>smart00733 Mterf Mitochondrial termination factor repeats. Human mitochondrial termination factor is a DNA-binding protein that acts as a transcription termination factor. Six repeats occur in human mTERF, that also are present in numerous plant proteins.
Probab=96.29 E-value=0.003 Score=41.03 Aligned_cols=28 Identities=50% Similarity=0.813 Sum_probs=16.3
Q ss_pred HHhhCCcccccCcccchHHHHHHHHHcCC
Q 010686 247 ILLRQPQILEYTVENNLESHVAFLISLGI 275 (504)
Q Consensus 247 il~~~P~lL~~s~e~~L~p~v~fL~~lGl 275 (504)
++.++|.+|+.+ ++++.++++||+++|+
T Consensus 3 ~~~~~P~il~~~-~~~l~~~~~~l~~~g~ 30 (31)
T smart00733 3 ILKKFPQILGYS-EKKLKPKVEFLKELGF 30 (31)
T ss_pred hhhhCcCccccc-HHHhhHHHHHHHHcCC
Confidence 455566666666 3556666666665554
No 9
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=95.45 E-value=0.0039 Score=52.34 Aligned_cols=11 Identities=9% Similarity=0.054 Sum_probs=5.0
Q ss_pred hhhhhhhhhcc
Q 010686 146 RNTIKNSFDDT 156 (504)
Q Consensus 146 ~~~v~~~~~~~ 156 (504)
.-.|-|+++.|
T Consensus 53 ~~~v~rYltSf 63 (101)
T PF09026_consen 53 FTMVKRYLTSF 63 (101)
T ss_dssp HHHHHHHHCTS
T ss_pred cchHhhhhhcc
Confidence 34444444444
No 10
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=95.25 E-value=0.009 Score=63.04 Aligned_cols=11 Identities=27% Similarity=0.425 Sum_probs=4.4
Q ss_pred ccccccccccc
Q 010686 43 ILKTNRKSRYG 53 (504)
Q Consensus 43 ~~~~~~~~~~~ 53 (504)
+-|-|.=++-|
T Consensus 32 lkKE~~IRkLg 42 (458)
T PF10446_consen 32 LKKENAIRKLG 42 (458)
T ss_pred HHHHHHHhhhh
Confidence 33444444433
No 11
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=94.23 E-value=0.013 Score=49.30 Aligned_cols=9 Identities=33% Similarity=0.235 Sum_probs=0.0
Q ss_pred CCCCCCCCc
Q 010686 56 LSLYDDDSE 64 (504)
Q Consensus 56 ~~~~~~~~~ 64 (504)
.+--|.|+|
T Consensus 11 dse~dsdEd 19 (101)
T PF09026_consen 11 DSESDSDED 19 (101)
T ss_dssp ---------
T ss_pred ccccccccc
Confidence 333333333
No 12
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=93.20 E-value=0.046 Score=62.00 Aligned_cols=13 Identities=23% Similarity=0.263 Sum_probs=5.9
Q ss_pred ccccCCCCceEEE
Q 010686 23 VQTRPNTPRFVVL 35 (504)
Q Consensus 23 ~~~~~~~~~~~~~ 35 (504)
+-|-|-.|+..-|
T Consensus 1353 iaTi~v~R~~~Dl 1365 (1516)
T KOG1832|consen 1353 IATIPVDRCLLDL 1365 (1516)
T ss_pred ceeeecccchhhh
Confidence 3444555544433
No 13
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=93.05 E-value=0.058 Score=62.64 Aligned_cols=9 Identities=33% Similarity=0.324 Sum_probs=4.5
Q ss_pred cccCCCCCC
Q 010686 53 GQTLSLYDD 61 (504)
Q Consensus 53 ~~~~~~~~~ 61 (504)
|+..++.|+
T Consensus 1732 GEed~~Ddd 1740 (3015)
T KOG0943|consen 1732 GEEDHHDDD 1740 (3015)
T ss_pred Ccccccccc
Confidence 555555444
No 14
>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=92.42 E-value=1.3 Score=46.11 Aligned_cols=202 Identities=16% Similarity=0.179 Sum_probs=107.9
Q ss_pred HHCCCChhhHHHHHhhCCcccccCcc-------cchHHHHHHHH--HcCCCchhhhhHhhhcCcccccccccch-hHHHH
Q 010686 235 LSVGVKQRDVRRILLRQPQILEYTVE-------NNLESHVAFLI--SLGIPNSKIGQIIAATPSLFSYSVENSL-KPTVR 304 (504)
Q Consensus 235 ~slGls~~~l~kil~~~P~lL~~s~e-------~~L~p~v~fL~--~lGls~~~I~klL~~~P~lL~~s~e~~l-~p~v~ 304 (504)
..+|+....+...+.+||.||..... -.+.+...-|. +..+-.+.-..++.+=-.+|+++.++.| -.++.
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 35788768888888888888866430 11222222221 1111111112222222345666655433 24667
Q ss_pred HHHHHhCCChhHHHHHHhhCccceeccc-c--ccchhhhhhhhhhcCCCchhHHHhh-----------------hccccc
Q 010686 305 YLVEEVGINEKSLGKVVQLSPQVLVQRI-D--ISWNTRCIFLSKELGAPRDDVVKMV-----------------TKHPQL 364 (504)
Q Consensus 305 fL~~~lGv~~~~l~~vI~~~P~lL~~~~-e--~~l~~kv~fL~~~lG~s~~~v~~ml-----------------~~~P~i 364 (504)
.++.++|++.+-...++.+||..+.... . ...-+-+.|= .++.++.-+...+. .++|.=
T Consensus 125 ~l~~dLGLP~Df~~~lv~~yP~~Frvv~~~~~~~~LeLv~Wd-~~LAvs~~E~~~~~~~~~~~~~~~~~~~~Fp~~fp~G 203 (335)
T PF11955_consen 125 HLRRDLGLPDDFRDSLVPKYPDYFRVVDLEDGGRYLELVSWD-PELAVSALEKRAEKEYREKREDGFDRPLAFPVSFPKG 203 (335)
T ss_pred HHHHHcCCChhhccchhhhCCCCcEEeecCCCCCEEEEeecC-CccCcCccchhhhhccccccccccCCceeeeecCCCC
Confidence 7777899999888888999998876422 0 0000001111 12233222221111 112221
Q ss_pred cccccccchHHHHHHHHHhcCC-------------hHHHHHHHHhccchhccCcccc-hHHHHHHHHHHhCCcH---HHH
Q 010686 365 LHYSIDDGLLPRINFLRSIGMR-------------NSDILKVLRSLTQVLSLSLEDN-LKPKYTYLINELHNEV---QSL 427 (504)
Q Consensus 365 L~~s~e~~L~~kv~fL~~lG~s-------------~~ev~~~v~r~P~iL~~SlE~~-L~pk~~fL~~~mg~~~---~~I 427 (504)
+. +....+.+++-++++-+. .+.=.++|.-.-.+|++-+|++ ...++..|.+.+|+|. ..+
T Consensus 204 ~~--l~k~~~~~l~~fQ~lPy~SPYed~~~l~~~s~~~EKRaVaVlHElLSLTveKr~~~~~L~~fr~ef~lp~k~~~~l 281 (335)
T PF11955_consen 204 FR--LKKKFREWLEEFQKLPYISPYEDASHLDPGSDEAEKRAVAVLHELLSLTVEKRTEVDHLTHFRKEFGLPQKFRRLL 281 (335)
T ss_pred cc--ccHHHHHHHHHHhcCCCCCCCCCccCCCCCChHHHhHHHHHHHHHHHhhhhhhccHHHHHHHHHHhCCcHHHHHHH
Confidence 11 224556666666553221 1111234444556788887766 4567888999999985 689
Q ss_pred hhcCceeccCcc
Q 010686 428 TKYPMYLSLSLD 439 (504)
Q Consensus 428 ~k~P~lL~~SLe 439 (504)
.++|.||..|..
T Consensus 282 ~rHPgIFYvS~k 293 (335)
T PF11955_consen 282 LRHPGIFYVSLK 293 (335)
T ss_pred HhCCCeEEEecc
Confidence 999999999964
No 15
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=92.31 E-value=0.077 Score=61.67 Aligned_cols=14 Identities=14% Similarity=0.204 Sum_probs=6.9
Q ss_pred ccccCCCCCCCCcc
Q 010686 52 YGQTLSLYDDDSEE 65 (504)
Q Consensus 52 ~~~~~~~~~~~~~~ 65 (504)
.|+...--|+-||+
T Consensus 1727 ~~ef~GEed~~Ddd 1740 (3015)
T KOG0943|consen 1727 EGEFAGEEDHHDDD 1740 (3015)
T ss_pred cccccCcccccccc
Confidence 35455555554444
No 16
>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=90.96 E-value=0.22 Score=45.88 Aligned_cols=49 Identities=20% Similarity=0.224 Sum_probs=27.0
Q ss_pred hcccccccccCCCCceEEEeeccccccccccccccccccCCCCCCCCcccC
Q 010686 17 LHSHSLVQTRPNTPRFVVLSTHSNAKILKTNRKSRYGQTLSLYDDDSEEEG 67 (504)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 (504)
.|-..|--+.|....-+|.+.-+.-.||-.+|+.+ +.-+.||.+.+|.+
T Consensus 15 V~~g~L~~~~~~~~~~~vey~G~~r~vL~r~~~~~--~n~~~~d~~~~~~d 63 (149)
T PF08595_consen 15 VHRGQLPPNGPSLYEKVVEYNGSERSVLQRKRIRF--RNPPRIDEEGDEID 63 (149)
T ss_pred eecccccCCCccccceeeEECCeeeeEeecchhhc--ccccccCccccccc
Confidence 33334422345555667777777777887444444 33556665555443
No 17
>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=87.67 E-value=1.1 Score=36.67 Aligned_cols=8 Identities=25% Similarity=0.256 Sum_probs=3.8
Q ss_pred cccCCCCc
Q 010686 24 QTRPNTPR 31 (504)
Q Consensus 24 ~~~~~~~~ 31 (504)
+.||+--|
T Consensus 9 ~~RPpY~G 16 (77)
T PF12253_consen 9 NVRPPYYG 16 (77)
T ss_pred CCCCCEee
Confidence 44555433
No 18
>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=87.21 E-value=0.18 Score=57.75 Aligned_cols=13 Identities=0% Similarity=-0.168 Sum_probs=0.0
Q ss_pred hhhhhhhhhhhcc
Q 010686 144 NRRNTIKNSFDDT 156 (504)
Q Consensus 144 ~~~~~v~~~~~~~ 156 (504)
.||.-+|..-+.+
T Consensus 759 qA~A~Ace~Ar~~ 771 (787)
T PF03115_consen 759 QAWAHACEEARKV 771 (787)
T ss_dssp -------------
T ss_pred HHHHHHHHHHHHh
Confidence 3444444444444
No 19
>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=86.49 E-value=0.21 Score=46.06 Aligned_cols=7 Identities=43% Similarity=0.506 Sum_probs=2.6
Q ss_pred cccCCCC
Q 010686 53 GQTLSLY 59 (504)
Q Consensus 53 ~~~~~~~ 59 (504)
|+....+
T Consensus 103 G~~~~~~ 109 (149)
T PF03066_consen 103 GQHLVAM 109 (149)
T ss_dssp EEEEEE-
T ss_pred Ccccccc
Confidence 5443333
No 20
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=85.42 E-value=0.5 Score=57.24 Aligned_cols=16 Identities=19% Similarity=0.604 Sum_probs=12.6
Q ss_pred HHHHhhcCceeccCcc
Q 010686 424 VQSLTKYPMYLSLSLD 439 (504)
Q Consensus 424 ~~~I~k~P~lL~~SLe 439 (504)
...+-.||.+|.+.+.
T Consensus 684 ~ky~~~yp~~~ifp~n 699 (2849)
T PTZ00415 684 AKYLNGYPSFFIFPFN 699 (2849)
T ss_pred hhhccCCCceEEeehh
Confidence 3577888999988885
No 21
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=81.97 E-value=0.73 Score=53.19 Aligned_cols=15 Identities=33% Similarity=0.758 Sum_probs=6.7
Q ss_pred CCCCCCCCCCccCCC
Q 010686 72 DDDDEGKEDDWLADD 86 (504)
Q Consensus 72 ~~~~~~~~~~~~~~~ 86 (504)
||+||||.+|.-+||
T Consensus 327 ed~eDde~~deYsDD 341 (1233)
T KOG1824|consen 327 EDEEDDEQDDEYSDD 341 (1233)
T ss_pred hccccchhccccccc
Confidence 333444434444555
No 22
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=78.33 E-value=0.99 Score=44.75 Aligned_cols=16 Identities=31% Similarity=0.254 Sum_probs=6.3
Q ss_pred ccCCcccccccccCCc
Q 010686 97 VNGSKYRSQKGVNKSK 112 (504)
Q Consensus 97 ~~~~~~~~~~~~~~~~ 112 (504)
++.++.+..+...+++
T Consensus 263 K~~~k~kk~~~~~k~k 278 (303)
T KOG3064|consen 263 KKESKKKKGKKAAKGK 278 (303)
T ss_pred hhhhhhcccCCCcccc
Confidence 3444444333333433
No 23
>PF11702 DUF3295: Protein of unknown function (DUF3295); InterPro: IPR021711 This family is conserved in fungi but the function is not known.
Probab=78.31 E-value=1.1 Score=48.72 Aligned_cols=10 Identities=30% Similarity=0.817 Sum_probs=4.9
Q ss_pred CCCCCCCccC
Q 010686 75 DEGKEDDWLA 84 (504)
Q Consensus 75 ~~~~~~~~~~ 84 (504)
|||||+||++
T Consensus 308 DDDDssDWED 317 (507)
T PF11702_consen 308 DDDDSSDWED 317 (507)
T ss_pred CCccchhhhh
Confidence 4444555533
No 24
>PF03153 TFIIA: Transcription factor IIA, alpha/beta subunit; InterPro: IPR004855 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the precursor that yields both the alpha and beta subunits of TFIIA. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II []. ; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_B 1YTF_B 1RM1_C 1NH2_B.
Probab=77.64 E-value=0.76 Score=48.49 Aligned_cols=9 Identities=44% Similarity=0.298 Sum_probs=0.0
Q ss_pred EEEeecccc
Q 010686 33 VVLSTHSNA 41 (504)
Q Consensus 33 ~~~~~~~~~ 41 (504)
..++-+++.
T Consensus 248 ~~l~~~~~~ 256 (375)
T PF03153_consen 248 SPLSQASKA 256 (375)
T ss_dssp ---------
T ss_pred chhhccccc
Confidence 344444443
No 25
>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=77.39 E-value=5.6 Score=41.56 Aligned_cols=118 Identities=24% Similarity=0.367 Sum_probs=68.0
Q ss_pred hhHHHHHhhCCcccccCcccchHHHHHHH-HHcCCCchhhhhHhhhcCccccccc---cc----chhHHHHHH-HHHhCC
Q 010686 242 RDVRRILLRQPQILEYTVENNLESHVAFL-ISLGIPNSKIGQIIAATPSLFSYSV---EN----SLKPTVRYL-VEEVGI 312 (504)
Q Consensus 242 ~~l~kil~~~P~lL~~s~e~~L~p~v~fL-~~lGls~~~I~klL~~~P~lL~~s~---e~----~l~p~v~fL-~~~lGv 312 (504)
-.+..+|.+.|. =..+ +. .+.-+ ..+|++...+..+|.++|.+|.... .. .+.+...-| .++..+
T Consensus 21 ~~l~~~i~~~p~-~~~p----l~-~l~k~~~~L~l~~~~~~~flrkyP~iF~~~~~~~~~~~~~~LT~~a~~L~~eE~~~ 94 (335)
T PF11955_consen 21 LRLKDLILSQPS-HSLP----LR-DLSKLRRQLGLKPRKVSRFLRKYPSIFEVFQHPSRSVPWFRLTPEAEDLLREERRV 94 (335)
T ss_pred HHHHHHHHcCCC-Cccc----HH-HHHHHHHhcCCCcccHHHHHHhCCceEEEeccCCCCCceEEeCHHHHHHHHHHHHH
Confidence 356677777775 1111 11 22333 3689977899999999999986432 10 122333222 222222
Q ss_pred ---ChhHHHHHHhhCccceeccccccc-hhhhhhhhhhcCCCchhHHHhhhccccccccc
Q 010686 313 ---NEKSLGKVVQLSPQVLVQRIDISW-NTRCIFLSKELGAPRDDVVKMVTKHPQLLHYS 368 (504)
Q Consensus 313 ---~~~~l~~vI~~~P~lL~~~~e~~l-~~kv~fL~~~lG~s~~~v~~ml~~~P~iL~~s 368 (504)
.+.+++.-++ .+|+++.+.++ -.++..+...+|++.+-...++.++|..+...
T Consensus 95 ~~~~e~~~v~rL~---KLLMMS~~~rlpL~ki~~l~~dLGLP~Df~~~lv~~yP~~Frvv 151 (335)
T PF11955_consen 95 REEMEPDLVERLR---KLLMMSKDRRLPLSKIAHLRRDLGLPDDFRDSLVPKYPDYFRVV 151 (335)
T ss_pred HHhChHHHHHHHH---HHhccCCCCcccHHHHHHHHHHcCCChhhccchhhhCCCCcEEe
Confidence 2222333332 45666655444 34566776788888877777888888877654
No 26
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=73.82 E-value=1.7 Score=48.64 Aligned_cols=25 Identities=24% Similarity=0.288 Sum_probs=19.1
Q ss_pred hcCceeccCcccchHHHHHHHHHhh
Q 010686 429 KYPMYLSLSLDQRIRPRHRFLVSLK 453 (504)
Q Consensus 429 k~P~lL~~SLekrI~PR~~fL~~L~ 453 (504)
-+|..++-.++.-++|=|.-++.++
T Consensus 776 ~~Pe~vAp~l~~f~~pWc~sl~~i~ 800 (885)
T KOG2023|consen 776 ICPEEVAPHLDSFMRPWCTSLRNID 800 (885)
T ss_pred cCHHhcchhHHHHHHHHHHHhcccc
Confidence 3577777778888888888888775
No 27
>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=71.69 E-value=2.8 Score=47.51 Aligned_cols=12 Identities=25% Similarity=0.587 Sum_probs=5.8
Q ss_pred HHHhCCCCHHHH
Q 010686 198 YLSTFGLKESHF 209 (504)
Q Consensus 198 fL~slG~s~~~I 209 (504)
++.-+|++...+
T Consensus 239 W~AIvGlT~q~i 250 (622)
T PF02724_consen 239 WLAIVGLTDQYI 250 (622)
T ss_pred HHHHHhhhHHhh
Confidence 334455555544
No 28
>PF04889 Cwf_Cwc_15: Cwf15/Cwc15 cell cycle control protein; InterPro: IPR006973 This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing [].; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=71.45 E-value=1.8 Score=43.19 Aligned_cols=12 Identities=25% Similarity=0.313 Sum_probs=6.8
Q ss_pred Ccchhhcccccc
Q 010686 12 SPATILHSHSLV 23 (504)
Q Consensus 12 ~~~~~~~~~~~~ 23 (504)
.|..+.|+..|.
T Consensus 25 ~~S~~~ssRdLP 36 (244)
T PF04889_consen 25 VPSKQYSSRDLP 36 (244)
T ss_pred ccccccccccCC
Confidence 455566665554
No 29
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=71.26 E-value=15 Score=34.56 Aligned_cols=24 Identities=29% Similarity=0.403 Sum_probs=17.0
Q ss_pred HHHHHHHHCCCChhhHHHHHhhCC
Q 010686 229 ERLEYLLSVGVKQRDVRRILLRQP 252 (504)
Q Consensus 229 ~~l~fL~slGls~~~l~kil~~~P 252 (504)
..+.+|+++|++-++|..++....
T Consensus 49 ~~I~~lr~~G~sL~eI~~ll~~~~ 72 (172)
T cd04790 49 EQICAYRSAGVSLEDIRSLLQQPG 72 (172)
T ss_pred HHHHHHHHcCCCHHHHHHHHhcCC
Confidence 456667788888888887776543
No 30
>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=68.13 E-value=2.9 Score=39.08 Aligned_cols=15 Identities=40% Similarity=0.696 Sum_probs=8.9
Q ss_pred cccccc-ccccccCCCC
Q 010686 44 LKTNRK-SRYGQTLSLY 59 (504)
Q Consensus 44 ~~~~~~-~~~~~~~~~~ 59 (504)
=|++|| +||| -+.-+
T Consensus 120 r~~~rktRkYg-vl~~~ 135 (163)
T PF06679_consen 120 RRRNRKTRKYG-VLTTR 135 (163)
T ss_pred ccccccceeec-ccCCC
Confidence 344555 5688 66555
No 31
>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=67.04 E-value=24 Score=33.23 Aligned_cols=25 Identities=8% Similarity=0.092 Sum_probs=20.6
Q ss_pred hHHHHHHHHhCCCCHHHHHHHHHhc
Q 010686 192 WLPLLDYLSTFGLKESHFIQMYERH 216 (504)
Q Consensus 192 ~~~vl~fL~slG~s~~~I~~il~r~ 216 (504)
.+..+.+|+++||+-++|..++...
T Consensus 47 rL~~I~~lr~~G~sL~eI~~ll~~~ 71 (172)
T cd04790 47 RLEQICAYRSAGVSLEDIRSLLQQP 71 (172)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHhcC
Confidence 3356888999999999999988754
No 32
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=65.92 E-value=4.4 Score=45.30 Aligned_cols=7 Identities=29% Similarity=0.387 Sum_probs=3.1
Q ss_pred EEeeccc
Q 010686 34 VLSTHSN 40 (504)
Q Consensus 34 ~~~~~~~ 40 (504)
.|-+|-|
T Consensus 483 lLqF~~N 489 (811)
T KOG4364|consen 483 LLQFDKN 489 (811)
T ss_pred Hhhhccc
Confidence 3444444
No 33
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=65.21 E-value=23 Score=29.69 Aligned_cols=44 Identities=25% Similarity=0.464 Sum_probs=25.0
Q ss_pred hHHHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCCChhhHHHHHhhCCcccccCc
Q 010686 192 WLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQPQILEYTV 259 (504)
Q Consensus 192 ~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGls~~~l~kil~~~P~lL~~s~ 259 (504)
...++.+|..+|++...+.+++..+ | .+...+|..+|..|..++
T Consensus 8 ~~~~~~~L~~~gl~~~~a~kl~~~y---------------------g---~~ai~~l~~nPY~L~~~i 51 (94)
T PF14490_consen 8 LRELMAFLQEYGLSPKLAMKLYKKY---------------------G---DDAIEILKENPYRLIEDI 51 (94)
T ss_dssp -HHHHHHHHHTT--HHHHHHHHHHH-------------------------TTHHHHHHH-STCCCB-S
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH---------------------h---HHHHHHHHHChHHHHHHc
Confidence 4456777777787777777766543 2 244566777777776654
No 34
>PHA02811 putative host range protein; Provisional
Probab=64.90 E-value=3.9 Score=38.76 Aligned_cols=12 Identities=25% Similarity=0.340 Sum_probs=6.3
Q ss_pred ccccCCCCCCCC
Q 010686 52 YGQTLSLYDDDS 63 (504)
Q Consensus 52 ~~~~~~~~~~~~ 63 (504)
-|..+-.|+.+|
T Consensus 154 i~~~y~~~~~~d 165 (197)
T PHA02811 154 ISDDYYLYDACD 165 (197)
T ss_pred cccccccccccc
Confidence 455565555544
No 35
>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=63.34 E-value=26 Score=40.50 Aligned_cols=120 Identities=18% Similarity=0.216 Sum_probs=78.1
Q ss_pred CCChHHHHHHHHh---CCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHC-CCChhhHHHHHhhCCcccccCcccchH
Q 010686 189 DEKWLPLLDYLST---FGLKESHFIQMYERHMPSLQINVCSARERLEYLLSV-GVKQRDVRRILLRQPQILEYTVENNLE 264 (504)
Q Consensus 189 e~~~~~vl~fL~s---lG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~sl-Gls~~~l~kil~~~P~lL~~s~e~~L~ 264 (504)
......++.||.+ -|+-+....+|+.....-. .+.+....+-|..+ |++.+.+..+...+.. .....
T Consensus 74 p~~~~~i~~yL~s~~~~GIG~~~A~~iv~~fg~~~---~~~i~~~~~~L~~v~gi~~~~~~~i~~~~~~------~~~~~ 144 (720)
T TIGR01448 74 PTSKEGIVAYLSSRSIKGVGKKLAQRIVKTFGEAA---FDVLDDDPEKLLEVPGISKANLEKFVSQWSQ------QGDER 144 (720)
T ss_pred CCCHHHHHHHHhcCCCCCcCHHHHHHHHHHhCHhH---HHHHHhCHHHHhcCCCCCHHHHHHHHHHHHH------hHHHH
Confidence 3456678899986 5888998999887643211 23444455667776 9999999888887621 13467
Q ss_pred HHHHHHHHcCCCchhhhh-----------HhhhcCccccccccc-chhHHHHHHHHHhCCChhHHH
Q 010686 265 SHVAFLISLGIPNSKIGQ-----------IIAATPSLFSYSVEN-SLKPTVRYLVEEVGINEKSLG 318 (504)
Q Consensus 265 p~v~fL~~lGls~~~I~k-----------lL~~~P~lL~~s~e~-~l~p~v~fL~~~lGv~~~~l~ 318 (504)
..+.||.++|++...+.+ +|..+|+.|..++.. .++ .++.+...+|+.+.+-.
T Consensus 145 ~~~~~L~~~gi~~~~a~ki~~~yg~~~~~~i~~nPY~L~~~i~gigF~-~aD~iA~~~g~~~~d~~ 209 (720)
T TIGR01448 145 RLLAGLQGLGIGIKLAQRIYKFYQADTLDRVEKDPYLLAEDVKGIGFL-TADQLAQALGIALNDPR 209 (720)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHhHHHHHHHHhCchhhhhhcCCCCHH-HHHHHHHHcCCCCCCHH
Confidence 778899999998765544 566778877654332 122 33334346777766533
No 36
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=62.53 E-value=5.2 Score=46.54 Aligned_cols=32 Identities=16% Similarity=0.208 Sum_probs=18.3
Q ss_pred cCCCchhhhhHhhhcCcccccccccchhHHHHHH
Q 010686 273 LGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYL 306 (504)
Q Consensus 273 lGls~~~I~klL~~~P~lL~~s~e~~l~p~v~fL 306 (504)
.|+-..+|+++..-.+.=....+ .|.|+|+|=
T Consensus 269 rG~YKgDLAqVd~Vd~~~n~v~l--KlIPRIDyq 300 (1024)
T KOG1999|consen 269 RGKYKGDLAQVDDVDENRNRVRL--KLIPRIDYQ 300 (1024)
T ss_pred ccccccceeeeeeecccCCEEEE--EEeccccHH
Confidence 46666777776654433333333 367777764
No 37
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=61.99 E-value=2.8 Score=41.33 Aligned_cols=23 Identities=13% Similarity=0.188 Sum_probs=12.5
Q ss_pred CCCCCCCCCCCccCCCcccccce
Q 010686 71 DDDDDEGKEDDWLADDDDFAEIE 93 (504)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~ 93 (504)
+.|||+||+||+..++|+..+..
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~ 94 (232)
T PRK12766 72 EGGEEEEEEDADVETELRPRGLT 94 (232)
T ss_pred cccchhhhhhhhhhhhccccccc
Confidence 33334444445566777776654
No 38
>PF11702 DUF3295: Protein of unknown function (DUF3295); InterPro: IPR021711 This family is conserved in fungi but the function is not known.
Probab=61.17 E-value=7.7 Score=42.38 Aligned_cols=13 Identities=23% Similarity=0.039 Sum_probs=7.9
Q ss_pred CCCccCCCccccc
Q 010686 79 EDDWLADDDDFAE 91 (504)
Q Consensus 79 ~~~~~~~~~~~~~ 91 (504)
||||+++|||++-
T Consensus 307 dDDDDssDWEDSv 319 (507)
T PF11702_consen 307 DDDDDSSDWEDSV 319 (507)
T ss_pred cCCccchhhhhcc
Confidence 5555667776553
No 39
>PF13324 GCIP: Grap2 and cyclin-D-interacting; PDB: 3AY5_A.
Probab=60.65 E-value=3 Score=42.21 Aligned_cols=18 Identities=17% Similarity=0.193 Sum_probs=8.1
Q ss_pred HHHHHHHhCCCCHHHHHH
Q 010686 194 PLLDYLSTFGLKESHFIQ 211 (504)
Q Consensus 194 ~vl~fL~slG~s~~~I~~ 211 (504)
.+++..+.++-.-++++.
T Consensus 229 ~L~~~~~~i~~~VDel~~ 246 (275)
T PF13324_consen 229 KLLDLCQEISPSVDELAS 246 (275)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhhHHHHHHH
Confidence 334444444444444444
No 40
>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=59.60 E-value=11 Score=44.29 Aligned_cols=9 Identities=0% Similarity=0.169 Sum_probs=4.0
Q ss_pred chHHHHHHH
Q 010686 262 NLESHVAFL 270 (504)
Q Consensus 262 ~L~p~v~fL 270 (504)
.+.|.+-++
T Consensus 562 VVTPalllm 570 (840)
T PF04147_consen 562 VVTPALLLM 570 (840)
T ss_pred chhHHHHHH
Confidence 344554433
No 41
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=59.43 E-value=4.5 Score=49.63 Aligned_cols=13 Identities=15% Similarity=0.253 Sum_probs=5.7
Q ss_pred HHHHhccchhccC
Q 010686 392 KVLRSLTQVLSLS 404 (504)
Q Consensus 392 ~~v~r~P~iL~~S 404 (504)
+.+-.+|.+|.+.
T Consensus 685 ky~~~yp~~~ifp 697 (2849)
T PTZ00415 685 KYLNGYPSFFIFP 697 (2849)
T ss_pred hhccCCCceEEee
Confidence 3344444444444
No 42
>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=59.42 E-value=6.9 Score=44.36 Aligned_cols=9 Identities=11% Similarity=0.457 Sum_probs=3.9
Q ss_pred HHCCCChhh
Q 010686 235 LSVGVKQRD 243 (504)
Q Consensus 235 ~slGls~~~ 243 (504)
..+|++-.+
T Consensus 344 AkMGisL~~ 352 (622)
T PF02724_consen 344 AKMGISLKQ 352 (622)
T ss_pred HHhCCcHHH
Confidence 344444444
No 43
>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=59.14 E-value=5.4 Score=46.81 Aligned_cols=6 Identities=17% Similarity=0.180 Sum_probs=2.3
Q ss_pred HHHHHH
Q 010686 470 ECFCQK 475 (504)
Q Consensus 470 ~~F~~~ 475 (504)
..|-+.
T Consensus 760 Pkfee~ 765 (840)
T PF04147_consen 760 PKFEEN 765 (840)
T ss_pred Cccccc
Confidence 334333
No 44
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=59.01 E-value=7.2 Score=38.26 Aligned_cols=10 Identities=20% Similarity=0.464 Sum_probs=5.5
Q ss_pred cccccccccc
Q 010686 42 KILKTNRKSR 51 (504)
Q Consensus 42 ~~~~~~~~~~ 51 (504)
|+.||+....
T Consensus 181 K~~K~K~~~~ 190 (218)
T PF14283_consen 181 KFYKPKQEEK 190 (218)
T ss_pred EEeccccccc
Confidence 5666655433
No 45
>KOG2406 consensus MADS box transcription factor [Transcription]
Probab=56.66 E-value=18 Score=39.47 Aligned_cols=12 Identities=25% Similarity=0.678 Sum_probs=7.8
Q ss_pred HHHHHHHhCCCC
Q 010686 194 PLLDYLSTFGLK 205 (504)
Q Consensus 194 ~vl~fL~slG~s 205 (504)
|+-..|.++|+.
T Consensus 615 PaSnLl~sMgvq 626 (635)
T KOG2406|consen 615 PASNLLNSMGVQ 626 (635)
T ss_pred cHHHHHHHhcCC
Confidence 556667777664
No 46
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=56.43 E-value=5.4 Score=44.86 Aligned_cols=11 Identities=18% Similarity=0.147 Sum_probs=5.9
Q ss_pred cchHHHHHHHH
Q 010686 261 NNLESHVAFLI 271 (504)
Q Consensus 261 ~~L~p~v~fL~ 271 (504)
+++-|-++.|.
T Consensus 577 KdLfPLLEClS 587 (885)
T KOG2023|consen 577 KDLFPLLECLS 587 (885)
T ss_pred chHHHHHHHHH
Confidence 45555555554
No 47
>PF04050 Upf2: Up-frameshift suppressor 2 ; InterPro: IPR007193 This entry represents Up-frameshift suppressor 2 (also known as Nonsense-mediated mRNA decay protein 2). Transcripts harbouring premature signals for translation termination are recognised and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay [].; PDB: 2WJV_D.
Probab=54.45 E-value=4.1 Score=38.27 Aligned_cols=14 Identities=14% Similarity=0.185 Sum_probs=7.6
Q ss_pred hhhhhhhhhhhhhh
Q 010686 138 EQLDIRNRRNTIKN 151 (504)
Q Consensus 138 ~~~~~~~~~~~v~~ 151 (504)
++-||.-.+.++..
T Consensus 61 ~e~dFeref~kmm~ 74 (170)
T PF04050_consen 61 EEEDFEREFQKMMA 74 (170)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHH
Confidence 44566666655544
No 48
>PLN03237 DNA topoisomerase 2; Provisional
Probab=54.42 E-value=5.9 Score=48.58 Aligned_cols=23 Identities=30% Similarity=0.371 Sum_probs=16.8
Q ss_pred ccccccccccccCCCCCCCCccc
Q 010686 44 LKTNRKSRYGQTLSLYDDDSEEE 66 (504)
Q Consensus 44 ~~~~~~~~~~~~~~~~~~~~~~~ 66 (504)
-.|.|..|.|-++..||+|+|++
T Consensus 1433 ~r~~~~~r~~~~~~~~~~e~~~~ 1455 (1465)
T PLN03237 1433 PRPQRANRKQTTYVLSDSESESA 1455 (1465)
T ss_pred CcchhhhcCCceEEecCcccccc
Confidence 35667777788888888877744
No 49
>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=53.90 E-value=9 Score=39.84 Aligned_cols=13 Identities=23% Similarity=0.360 Sum_probs=7.1
Q ss_pred Eeecccccccccc
Q 010686 35 LSTHSNAKILKTN 47 (504)
Q Consensus 35 ~~~~~~~~~~~~~ 47 (504)
|.=+.||.+|..+
T Consensus 30 l~Rev~P~lL~kk 42 (324)
T PF05285_consen 30 LFREVNPELLHKK 42 (324)
T ss_pred HHHHHCHHhcCch
Confidence 3334566666554
No 50
>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=53.64 E-value=36 Score=23.33 Aligned_cols=23 Identities=17% Similarity=0.355 Sum_probs=15.3
Q ss_pred HHHHHHHHhcCChHHHHHHHHhc
Q 010686 375 PRINFLRSIGMRNSDILKVLRSL 397 (504)
Q Consensus 375 ~kv~fL~~lG~s~~ev~~~v~r~ 397 (504)
.+++-|..|||+.+++...+..+
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 45667777788887777666654
No 51
>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]
Probab=53.55 E-value=11 Score=41.03 Aligned_cols=14 Identities=14% Similarity=0.328 Sum_probs=8.2
Q ss_pred hhhcccCCCCCccc
Q 010686 152 SFDDTYYNSKDVDQ 165 (504)
Q Consensus 152 ~~~~~g~~~~~~~~ 165 (504)
++++|+-...|+..
T Consensus 257 YI~Dm~nTKGHia~ 270 (641)
T KOG0772|consen 257 YIRDMYNTKGHIAE 270 (641)
T ss_pred hhhhhhccCCceee
Confidence 56666666655554
No 52
>TIGR00844 c_cpa1 na(+)/h(+) antiporter. This model is specific for the fungal members of this family.
Probab=53.31 E-value=9.6 Score=44.19 Aligned_cols=32 Identities=16% Similarity=0.152 Sum_probs=22.7
Q ss_pred cccCCCCceEEEeecccccccccccccccccc
Q 010686 24 QTRPNTPRFVVLSTHSNAKILKTNRKSRYGQT 55 (504)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 (504)
-++|.++..-|.|--+..-|-||.|-+-+|..
T Consensus 742 k~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~ 773 (810)
T TIGR00844 742 KRKIKKRNDSVVSVDEEKAIEGPSRVPERGNH 773 (810)
T ss_pred CCCccccCCcccccchhhcccCCCCCCccccc
Confidence 44555555556777788889999888888733
No 53
>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=52.46 E-value=16 Score=33.06 Aligned_cols=38 Identities=24% Similarity=0.332 Sum_probs=26.4
Q ss_pred ccccccccccccchHHHHHHHHHhcCChHHHHHHHHhccchh
Q 010686 360 KHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVL 401 (504)
Q Consensus 360 ~~P~iL~~s~e~~L~~kv~fL~~lG~s~~ev~~~v~r~P~iL 401 (504)
.+|.|-.. .+..|++||++-|++.+||..++.+.+.--
T Consensus 14 ~~p~V~~s----p~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 14 QDPKVRNS----PLEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp CTTTCCCS-----HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred CCcccccC----CHHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 36666543 478899999999999999999988876544
No 54
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=51.31 E-value=20 Score=36.35 Aligned_cols=63 Identities=17% Similarity=0.377 Sum_probs=38.2
Q ss_pred chHHHHHHH-HHhc-CChHHHHHHHHhccchhccCcccchHHHHHHHHHHhCCcH-HHHhhcCceec
Q 010686 372 GLLPRINFL-RSIG-MRNSDILKVLRSLTQVLSLSLEDNLKPKYTYLINELHNEV-QSLTKYPMYLS 435 (504)
Q Consensus 372 ~L~~kv~fL-~~lG-~s~~ev~~~v~r~P~iL~~SlE~~L~pk~~fL~~~mg~~~-~~I~k~P~lL~ 435 (504)
.|+.++-|. +..| |++-.|..=+.-.|.+++.+ +++++.|.+-|...+|+++ +..-+||.=||
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 456666665 3555 34445555566667777777 5677777777777677665 35555554443
No 55
>KOG4032 consensus Uncharacterized conserved protein [Function unknown]
Probab=50.98 E-value=12 Score=35.46 Aligned_cols=9 Identities=33% Similarity=0.261 Sum_probs=4.1
Q ss_pred ccccccccc
Q 010686 45 KTNRKSRYG 53 (504)
Q Consensus 45 ~~~~~~~~~ 53 (504)
|+.|.+..|
T Consensus 123 kt~~~v~~~ 131 (184)
T KOG4032|consen 123 KTKTPVDGG 131 (184)
T ss_pred hheecccCC
Confidence 444444444
No 56
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=50.68 E-value=7 Score=42.55 Aligned_cols=14 Identities=21% Similarity=0.655 Sum_probs=7.2
Q ss_pred HHHHHHHhCCCCHH
Q 010686 194 PLLDYLSTFGLKES 207 (504)
Q Consensus 194 ~vl~fL~slG~s~~ 207 (504)
++++|..+||=...
T Consensus 320 eKieyITsFGGgde 333 (653)
T KOG2548|consen 320 EKIEYITSFGGGDE 333 (653)
T ss_pred ccceEEeecCCCcc
Confidence 44555555554433
No 57
>PF14851 FAM176: FAM176 family
Probab=50.54 E-value=12 Score=34.62 Aligned_cols=15 Identities=13% Similarity=-0.110 Sum_probs=9.5
Q ss_pred hhhhhhhhhhcccCC
Q 010686 145 RRNTIKNSFDDTYYN 159 (504)
Q Consensus 145 ~~~~v~~~~~~~g~~ 159 (504)
.++-+++-+|+.|--
T Consensus 127 eRe~iirEIW~n~~~ 141 (153)
T PF14851_consen 127 ERERIIREIWMNGQP 141 (153)
T ss_pred HHHHHHHHHHHhcCC
Confidence 466677777776543
No 58
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=49.85 E-value=8.8 Score=44.82 Aligned_cols=10 Identities=30% Similarity=0.441 Sum_probs=6.7
Q ss_pred CCCCCCCccC
Q 010686 75 DEGKEDDWLA 84 (504)
Q Consensus 75 ~~~~~~~~~~ 84 (504)
|+|+||||-|
T Consensus 336 deYsDDeD~S 345 (1233)
T KOG1824|consen 336 DEYSDDEDMS 345 (1233)
T ss_pred cccccccchh
Confidence 6677776665
No 59
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=48.94 E-value=14 Score=41.46 Aligned_cols=9 Identities=56% Similarity=0.756 Sum_probs=3.6
Q ss_pred CCCCCCccc
Q 010686 58 LYDDDSEEE 66 (504)
Q Consensus 58 ~~~~~~~~~ 66 (504)
-|.-|.|||
T Consensus 518 DYEVdSDeE 526 (811)
T KOG4364|consen 518 DYEVDSDEE 526 (811)
T ss_pred cccccCccc
Confidence 344444333
No 60
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=47.12 E-value=11 Score=43.64 Aligned_cols=67 Identities=21% Similarity=0.366 Sum_probs=34.1
Q ss_pred hhhcccCcCC--ChHHHHHHHHhCC-CCHHHHHHHHHhcCCccccCcc---CHHHHHHHHHHCCCChhhH---HHHHhhC
Q 010686 181 RLSEEIELDE--KWLPLLDYLSTFG-LKESHFIQMYERHMPSLQINVC---SARERLEYLLSVGVKQRDV---RRILLRQ 251 (504)
Q Consensus 181 ~ll~~~~~e~--~~~~vl~fL~slG-~s~~~I~~il~r~P~lL~~~~~---~l~~~l~fL~slGls~~~l---~kil~~~ 251 (504)
.++..+++.. -|.-+-++..++| ++.+.+.. .+ .+++.+. -+.++...++..|--...+ .+++...
T Consensus 197 llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy--~r---AI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~ 271 (895)
T KOG2076|consen 197 LLAAHLNPKDYELWKRLADLSEQLGNINQARYCY--SR---AIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLD 271 (895)
T ss_pred HHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHH--HH---HHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhC
Confidence 3444454433 2556667778888 44444321 11 2333333 3556667777777544333 3455555
Q ss_pred C
Q 010686 252 P 252 (504)
Q Consensus 252 P 252 (504)
|
T Consensus 272 p 272 (895)
T KOG2076|consen 272 P 272 (895)
T ss_pred C
Confidence 5
No 61
>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=45.45 E-value=23 Score=32.02 Aligned_cols=27 Identities=19% Similarity=0.211 Sum_probs=20.6
Q ss_pred hHHHHHHHHhCCCCHHHHHHHHHhcCC
Q 010686 192 WLPLLDYLSTFGLKESHFIQMYERHMP 218 (504)
Q Consensus 192 ~~~vl~fL~slG~s~~~I~~il~r~P~ 218 (504)
+..+++||++.|++.++|..++.+.+.
T Consensus 23 ~~~k~~FL~sKGLt~~EI~~al~~a~~ 49 (136)
T PF04695_consen 23 LEKKIAFLESKGLTEEEIDEALGRAGS 49 (136)
T ss_dssp HHHHHHHHHHCT--HHHHHHHHHHHT-
T ss_pred HHHHHHHHHcCCCCHHHHHHHHHhcCC
Confidence 557899999999999999999988644
No 62
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=45.24 E-value=37 Score=27.40 Aligned_cols=71 Identities=18% Similarity=0.373 Sum_probs=42.9
Q ss_pred HHHHHHHHHcCCCchhhhhHhhhcCcccccccccchhHHHHHHHHHhCCChhHHHHHH---hhCccceeccccccchhhh
Q 010686 264 ESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVV---QLSPQVLVQRIDISWNTRC 340 (504)
Q Consensus 264 ~p~v~fL~~lGls~~~I~klL~~~P~lL~~s~e~~l~p~v~fL~~~lGv~~~~l~~vI---~~~P~lL~~~~e~~l~~kv 340 (504)
.|.++.|++..+++++|..++.. |+.++ + .....+. .+|++++.+..++ ..+|.++ ++.+
T Consensus 2 NPIia~LKehnvsd~qi~elFq~----lT~NP---l-~AMa~i~-qLGip~eKLQ~lm~~VMqnP~Li--------keAv 64 (82)
T PF11212_consen 2 NPIIAILKEHNVSDEQINELFQA----LTQNP---L-AAMATIQ-QLGIPQEKLQQLMAQVMQNPALI--------KEAV 64 (82)
T ss_pred chHHHHHHHcCCCHHHHHHHHHH----HhhCH---H-HHHHHHH-HcCCCHHHHHHHHHHHhcChHHH--------HHHH
Confidence 46778888888888888877643 33332 2 2445553 7899888765554 3344433 2222
Q ss_pred hhhhhhcCCCchhHH
Q 010686 341 IFLSKELGAPRDDVV 355 (504)
Q Consensus 341 ~fL~~~lG~s~~~v~ 355 (504)
.++|++-+.+.
T Consensus 65 ----~ELgLDFsKve 75 (82)
T PF11212_consen 65 ----EELGLDFSKVE 75 (82)
T ss_pred ----HHhCCcHHHHH
Confidence 36677666553
No 63
>PHA03346 US22 family homolog; Provisional
Probab=44.82 E-value=18 Score=40.09 Aligned_cols=8 Identities=25% Similarity=0.584 Sum_probs=3.8
Q ss_pred cCCCCCcc
Q 010686 157 YYNSKDVD 164 (504)
Q Consensus 157 g~~~~~~~ 164 (504)
|++++.+.
T Consensus 483 y~~~~~~~ 490 (520)
T PHA03346 483 YMTEAEVT 490 (520)
T ss_pred HhhcCccc
Confidence 44444444
No 64
>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=43.18 E-value=1.5e+02 Score=31.65 Aligned_cols=127 Identities=20% Similarity=0.388 Sum_probs=0.0
Q ss_pred chHHHHHHHHHcCCCchhhhhHhhhcCcccccccccchhHHHHHHHHHhCCC----------------------------
Q 010686 262 NLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGIN---------------------------- 313 (504)
Q Consensus 262 ~L~p~v~fL~~lGls~~~I~klL~~~P~lL~~s~e~~l~p~v~fL~~~lGv~---------------------------- 313 (504)
.+...|.-+.++|+.+++|.+.+.. .++ +-...|+|| ..|++
T Consensus 155 ~~e~~I~~i~eMGf~R~qV~~ALRA-----afN---NPdRAVEYL--~tGIP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 224 (378)
T TIGR00601 155 ERETTIEEIMEMGYEREEVERALRA-----AFN---NPDRAVEYL--LTGIPEDPEQPEPVQQTAASTAAATTETPQHGS 224 (378)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHH-----HhC---CHHHHHHHH--HhCCCccccccccCCCcccccccccCCCCCCcc
Q ss_pred --------------------------------hhHHHHHHhhCccceeccccccchhhhhhhhhhcCCCchhHHHhhhcc
Q 010686 314 --------------------------------EKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRDDVVKMVTKH 361 (504)
Q Consensus 314 --------------------------------~~~l~~vI~~~P~lL~~~~e~~l~~kv~fL~~~lG~s~~~v~~ml~~~ 361 (504)
-..++.+|..+|.+| .-+...+|-+.-++..+|..+
T Consensus 225 lf~~a~~~~~~~~~~~~~~g~~~l~~Lr~~pqf~~lR~~vq~NP~~L------------~~lLqql~~~nP~l~q~I~~n 292 (378)
T TIGR00601 225 VFEQAAQGGTEQPATEAAQGGNPLEFLRNQPQFQQLRQVVQQNPQLL------------PPLLQQIGQENPQLLQQISQH 292 (378)
T ss_pred hhhhhhcccccccccccccCCchHHHhhcCHHHHHHHHHHHHCHHHH------------HHHHHHHHhhCHHHHHHHHHC
Q ss_pred ccccccccccch---------------------------------HHHHHHHHHhcCChHHHHHHHHhccchhccCcccc
Q 010686 362 PQLLHYSIDDGL---------------------------------LPRINFLRSIGMRNSDILKVLRSLTQVLSLSLEDN 408 (504)
Q Consensus 362 P~iL~~s~e~~L---------------------------------~~kv~fL~~lG~s~~ev~~~v~r~P~iL~~SlE~~ 408 (504)
|.-+...+.+.. +..|+-|+.|||++..+..+...| +++
T Consensus 293 ~e~Fl~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lT~eE~~AIeRL~~LGF~r~~viqaY~AC--------dKN 364 (378)
T TIGR00601 293 PEQFLQMLNEPVGELAGESDMEGGVGAIAEAGLPQMNQIQVTPEEKEAIERLCALGFDRGLVIQAYFAC--------DKN 364 (378)
T ss_pred HHHHHHHhcCcccccccccccccccccccccCcccccccccCHHHHHHHHHHHHcCCCHHHHHHHHHhc--------CCc
Q ss_pred hHHHHHHHHH
Q 010686 409 LKPKYTYLIN 418 (504)
Q Consensus 409 L~pk~~fL~~ 418 (504)
-.--..||.+
T Consensus 365 EelAAn~Lf~ 374 (378)
T TIGR00601 365 EELAANYLLS 374 (378)
T ss_pred HHHHHHHHHh
No 65
>KOG3871 consensus Cell adhesion complex protein bystin [Extracellular structures]
Probab=43.02 E-value=10 Score=39.55 Aligned_cols=11 Identities=36% Similarity=0.576 Sum_probs=5.0
Q ss_pred CCCCCCcccCC
Q 010686 58 LYDDDSEEEGE 68 (504)
Q Consensus 58 ~~~~~~~~~~~ 68 (504)
.|++|++.|++
T Consensus 91 ~~~ee~~i~~~ 101 (449)
T KOG3871|consen 91 SYGEEDEIEEE 101 (449)
T ss_pred ccccccccccc
Confidence 44444444433
No 66
>PHA01351 putative minor structural protein
Probab=42.18 E-value=3.5e+02 Score=31.22 Aligned_cols=62 Identities=8% Similarity=-0.001 Sum_probs=38.4
Q ss_pred ChHHHHHHHHhCCCCHHHHHHHHHhc--CCcccc--Cc-c--------CHHHHHHHHHHCCCChhhHHHHHhhCC
Q 010686 191 KWLPLLDYLSTFGLKESHFIQMYERH--MPSLQI--NV-C--------SARERLEYLLSVGVKQRDVRRILLRQP 252 (504)
Q Consensus 191 ~~~~vl~fL~slG~s~~~I~~il~r~--P~lL~~--~~-~--------~l~~~l~fL~slGls~~~l~kil~~~P 252 (504)
.+......|+.+|++++=+..++..+ -+.+.. ++ + +....-.-|+++|++++.+.-++..+-
T Consensus 642 spkeAitELKKL~ISdaLAn~IV~eYf~iP~l~~q~TViEnIikgvpint~~~~~ELKKL~IpdSqInil~t~yy 716 (1070)
T PHA01351 642 DPKEAETELKKLNINEYLANQIIQEEYNINIAKLQLSVLETIAKTLYYDQQQLSGELKKIHKDKTALELYITKFY 716 (1070)
T ss_pred CHHHHHHHHHHcCchHHHHHHHHHHHhcchHHHHHHHHHHHHHhcCCcchHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 35667788888888888777777665 222211 10 1 223344667788888887777776653
No 67
>PRK14134 recX recombination regulator RecX; Provisional
Probab=41.33 E-value=4e+02 Score=27.10 Aligned_cols=122 Identities=13% Similarity=0.097 Sum_probs=74.0
Q ss_pred hHHHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCC-ChhhHHHHHhhCCcccccCcccchHHHHHHH
Q 010686 192 WLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGV-KQRDVRRILLRQPQILEYTVENNLESHVAFL 270 (504)
Q Consensus 192 ~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGl-s~~~l~kil~~~P~lL~~s~e~~L~p~v~fL 270 (504)
....+.+|..---|..++..-+.+. .++.+.+..+++.|...|+ ++...+....+.- +-..+. ...-.-|
T Consensus 64 ~~~AL~~Ls~r~rSe~Elr~KL~~k----~~~~~~Ie~vI~~L~e~~yldD~ryA~~yv~~~-~~~~G~----~~I~~eL 134 (283)
T PRK14134 64 KGYALKYIEKSYKTEKQIKEKLYLK----EYDEDAVNRVIRFLKEYNFIDDDKYCDMYIREK-INSYGR----NKIKYTL 134 (283)
T ss_pred HHHHHHHhccCcchHHHHHHHHHhC----CCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH-HHhhhH----HHHHHHH
Confidence 4455777777777888887776653 3556678888999999885 6777776665531 111111 1123567
Q ss_pred HHcCCCchhhhhHhhhcCcc-------------cc----c--ccccchhHHHHHHHHHhCCChhHHHHHHhh
Q 010686 271 ISLGIPNSKIGQIIAATPSL-------------FS----Y--SVENSLKPTVRYLVEEVGINEKSLGKVVQL 323 (504)
Q Consensus 271 ~~lGls~~~I~klL~~~P~l-------------L~----~--s~e~~l~p~v~fL~~~lGv~~~~l~~vI~~ 323 (504)
..-|++.+.|..++...+.- +. . +....-...+.||. .-||+.+.|..++..
T Consensus 135 ~qKGI~~~iIe~al~~~~~e~e~e~a~~l~~Kk~~~~~~~~~~~~k~k~Kl~~~L~-rrGFs~~~I~~vl~~ 205 (283)
T PRK14134 135 LNKGIKENIIIEKINNIDEEKEKKVAYKLAEKKYKILILSEKNKFKIYKKLGPYLI-SRGYSSNIAEWILNE 205 (283)
T ss_pred HHCCCCHHHHHHHHHhCChhhHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHH-HCCCCHHHHHHHHHH
Confidence 78899998888887654311 00 0 00011233566775 677777777766653
No 68
>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=40.52 E-value=21 Score=23.87 Aligned_cols=27 Identities=26% Similarity=0.500 Sum_probs=19.3
Q ss_pred CCChHHHHHHHHhCCCCHHHHHHHHHh
Q 010686 189 DEKWLPLLDYLSTFGLKESHFIQMYER 215 (504)
Q Consensus 189 e~~~~~vl~fL~slG~s~~~I~~il~r 215 (504)
++.|...+.--+..|++..+|..++..
T Consensus 2 D~EW~~Li~eA~~~Gls~eeir~FL~~ 28 (30)
T PF08671_consen 2 DEEWVELIKEAKESGLSKEEIREFLEF 28 (30)
T ss_dssp -HHHHHHHHHHHHTT--HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 445777788888899999999988764
No 69
>KOG3540 consensus Beta amyloid precursor protein [General function prediction only]
Probab=40.29 E-value=22 Score=38.62 Aligned_cols=42 Identities=21% Similarity=0.207 Sum_probs=24.8
Q ss_pred ccccCccCHHHHHHHHHH-CCCChhhHHHHHhhCCcccccCcc
Q 010686 219 SLQINVCSARERLEYLLS-VGVKQRDVRRILLRQPQILEYTVE 260 (504)
Q Consensus 219 lL~~~~~~l~~~l~fL~s-lGls~~~l~kil~~~P~lL~~s~e 260 (504)
.|+.++-....+++.|+. +-...++=...|..|-.++..+.+
T Consensus 338 ALqa~pprp~~Vl~aLkrYvRAEqKdr~HTlrhyqHv~~vDpk 380 (615)
T KOG3540|consen 338 ALQADPPRPHRVLQALKRYVRAEQKDRMHTLRHYQHVLAVDPK 380 (615)
T ss_pred HHhcCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChH
Confidence 344455555666666665 344455556667777777777664
No 70
>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=40.05 E-value=10 Score=36.76 Aligned_cols=22 Identities=14% Similarity=0.200 Sum_probs=14.1
Q ss_pred HHHHHHHhCCCCHHHHHHHHHh
Q 010686 194 PLLDYLSTFGLKESHFIQMYER 215 (504)
Q Consensus 194 ~vl~fL~slG~s~~~I~~il~r 215 (504)
.+.+.|..+=|++..|..++..
T Consensus 114 ~l~~~~~~ikl~~k~id~L~~~ 135 (211)
T PF04546_consen 114 ELAEEFMEIKLSPKQIDRLVEQ 135 (211)
T ss_dssp HHHHHHTTCEE-HHHHHHHCHH
T ss_pred HHHHHHHhhccCHHHHHHHHHH
Confidence 3456677777777777776653
No 71
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=39.85 E-value=40 Score=22.81 Aligned_cols=23 Identities=30% Similarity=0.531 Sum_probs=18.2
Q ss_pred HHHHHHHHhcCChHHHHHHHHhc
Q 010686 375 PRINFLRSIGMRNSDILKVLRSL 397 (504)
Q Consensus 375 ~kv~fL~~lG~s~~ev~~~v~r~ 397 (504)
.+++-|.+|||+.+++...+..+
T Consensus 3 ~~v~~L~~mGf~~~~a~~aL~~~ 25 (37)
T smart00165 3 EKIDQLLEMGFSREEALKALRAA 25 (37)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 56778888999999888777665
No 72
>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=39.69 E-value=7.3 Score=35.15 Aligned_cols=22 Identities=18% Similarity=0.366 Sum_probs=7.2
Q ss_pred ccchhccCCcc-hhhcccccccc
Q 010686 4 LCLHSVFSSPA-TILHSHSLVQT 25 (504)
Q Consensus 4 ~~~~~~~~~~~-~~~~~~~~~~~ 25 (504)
++||.+-..|. .-.|.+-.+|.
T Consensus 29 I~lHAisr~~~~~~~~~~lY~ql 51 (135)
T PF03517_consen 29 ISLHAISRDPSGSFPEPCLYLQL 51 (135)
T ss_dssp -SEEE--SS-S-S--S--EEEEE
T ss_pred EEEEEeecCCCCCCCCceEEEEE
Confidence 45566655554 44444444553
No 73
>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=39.60 E-value=15 Score=38.20 Aligned_cols=9 Identities=22% Similarity=0.534 Sum_probs=5.0
Q ss_pred CCHHHHHHH
Q 010686 204 LKESHFIQM 212 (504)
Q Consensus 204 ~s~~~I~~i 212 (504)
|+++++.+|
T Consensus 190 LT~eDF~kI 198 (324)
T PF05285_consen 190 LTPEDFAKI 198 (324)
T ss_pred CCHHHHHHH
Confidence 455665554
No 74
>PF15387 DUF4611: Domain of unknown function (DUF4611)
Probab=39.40 E-value=22 Score=30.08 Aligned_cols=9 Identities=11% Similarity=0.375 Sum_probs=4.6
Q ss_pred cccCCcccc
Q 010686 96 DVNGSKYRS 104 (504)
Q Consensus 96 ~~~~~~~~~ 104 (504)
++.+|+++.
T Consensus 85 ~s~gP~AKR 93 (96)
T PF15387_consen 85 NSDGPPAKR 93 (96)
T ss_pred cCCCCcccC
Confidence 455555543
No 75
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=37.61 E-value=32 Score=37.86 Aligned_cols=10 Identities=10% Similarity=0.262 Sum_probs=4.9
Q ss_pred CCCHHHHHHH
Q 010686 203 GLKESHFIQM 212 (504)
Q Consensus 203 G~s~~~I~~i 212 (504)
|++-.++++.
T Consensus 558 gi~~~dv~kk 567 (615)
T KOG0526|consen 558 GISVGDVAKK 567 (615)
T ss_pred CchHHHHHHH
Confidence 5555555443
No 76
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=37.40 E-value=22 Score=41.61 Aligned_cols=6 Identities=17% Similarity=0.285 Sum_probs=2.7
Q ss_pred hHHHHH
Q 010686 263 LESHVA 268 (504)
Q Consensus 263 L~p~v~ 268 (504)
|.|+|.
T Consensus 293 lIPRID 298 (1024)
T KOG1999|consen 293 LIPRID 298 (1024)
T ss_pred Eecccc
Confidence 444443
No 77
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=37.22 E-value=31 Score=42.58 Aligned_cols=28 Identities=21% Similarity=0.183 Sum_probs=12.2
Q ss_pred cccccccccccccccCCCCCCCCcccCC
Q 010686 41 AKILKTNRKSRYGQTLSLYDDDSEEEGE 68 (504)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 (504)
+.-...+..+|..-+.+.+-.++++|+|
T Consensus 1341 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1368 (1388)
T PTZ00108 1341 VKQASASQSSRLLRRPRKKKSDSSSEDD 1368 (1388)
T ss_pred hhhcccccccccccCCCccccccccccc
Confidence 3334444444444444444444443333
No 78
>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=36.98 E-value=47 Score=22.56 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=18.1
Q ss_pred HHHHHHHHhcCChHHHHHHHHhc
Q 010686 375 PRINFLRSIGMRNSDILKVLRSL 397 (504)
Q Consensus 375 ~kv~fL~~lG~s~~ev~~~v~r~ 397 (504)
.+++-|.+|||+.+.+...+..+
T Consensus 3 ~~v~~L~~mGf~~~~~~~AL~~~ 25 (38)
T cd00194 3 EKLEQLLEMGFSREEARKALRAT 25 (38)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 56778889999988887777655
No 79
>PF08553 VID27: VID27 cytoplasmic protein; InterPro: IPR013863 This entry represents fungal and plant proteins and contains many hypothetical proteins. Vid27p is a cytoplasmic protein of unknown function, possibly regulates import of fructose-1,6-bisphosphatase into Vacuolar Import and Degradation (Vid) vesicles and is not essential for proteasome-dependent degradation of fructose-1,6-bisphosphatase (FBPase) [, ].
Probab=35.21 E-value=24 Score=41.03 Aligned_cols=7 Identities=29% Similarity=0.311 Sum_probs=3.3
Q ss_pred cCCcCCC
Q 010686 109 NKSKSSR 115 (504)
Q Consensus 109 ~~~~~~~ 115 (504)
.++.+.|
T Consensus 443 DrSfVvR 449 (794)
T PF08553_consen 443 DRSFVVR 449 (794)
T ss_pred CceEEEC
Confidence 3455544
No 80
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=35.16 E-value=1e+02 Score=25.81 Aligned_cols=19 Identities=21% Similarity=0.284 Sum_probs=7.4
Q ss_pred HHHHHHHHHcCCCchhhhh
Q 010686 264 ESHVAFLISLGIPNSKIGQ 282 (504)
Q Consensus 264 ~p~v~fL~~lGls~~~I~k 282 (504)
...+.||...|++...+.+
T Consensus 9 ~~~~~~L~~~gl~~~~a~k 27 (94)
T PF14490_consen 9 RELMAFLQEYGLSPKLAMK 27 (94)
T ss_dssp HHHHHHHHHTT--HHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHH
Confidence 3344444444444444333
No 81
>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=34.87 E-value=1e+02 Score=26.30 Aligned_cols=44 Identities=11% Similarity=0.083 Sum_probs=30.1
Q ss_pred hHHHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHH-CC
Q 010686 192 WLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS-VG 238 (504)
Q Consensus 192 ~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~s-lG 238 (504)
+..+-+|-+.+|++..+|..|-..+|.-+ -+.....+..|.. .|
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 44567788999999999999998887533 2344455555543 45
No 82
>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=33.76 E-value=61 Score=23.58 Aligned_cols=23 Identities=13% Similarity=0.195 Sum_probs=17.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHh
Q 010686 193 LPLLDYLSTFGLKESHFIQMYER 215 (504)
Q Consensus 193 ~~vl~fL~slG~s~~~I~~il~r 215 (504)
..+++-|.++|+++.++.+++.+
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 35678888889999888888876
No 83
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=33.64 E-value=21 Score=40.59 Aligned_cols=16 Identities=6% Similarity=0.254 Sum_probs=8.4
Q ss_pred HHHHHHHHHhcCChHH
Q 010686 374 LPRINFLRSIGMRNSD 389 (504)
Q Consensus 374 ~~kv~fL~~lG~s~~e 389 (504)
-.-++-|..+++...+
T Consensus 635 iDAFEklLkL~LK~~Q 650 (822)
T KOG2141|consen 635 IDAFEKLLKLSLKGKQ 650 (822)
T ss_pred HHHHHHHHhccCCCcc
Confidence 3344455566665553
No 84
>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]
Probab=32.80 E-value=28 Score=39.54 Aligned_cols=21 Identities=0% Similarity=-0.249 Sum_probs=10.4
Q ss_pred hhhhhcccCCCCCcccccccc
Q 010686 150 KNSFDDTYYNSKDVDQRGKVM 170 (504)
Q Consensus 150 ~~~~~~~g~~~~~~~~~~~l~ 170 (504)
++..-.+|+...+....++++
T Consensus 128 irnV~l~GhLhhGKT~l~D~L 148 (971)
T KOG0468|consen 128 IRNVGLVGHLHHGKTALMDLL 148 (971)
T ss_pred EEEEEEeeccccChhHHHHhh
Confidence 344444555555555544443
No 85
>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=31.96 E-value=15 Score=39.52 Aligned_cols=21 Identities=43% Similarity=0.678 Sum_probs=0.0
Q ss_pred CCCCCCCCccCCCcccccceee
Q 010686 74 DDEGKEDDWLADDDDFAEIEEY 95 (504)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~ 95 (504)
++++|+++|+-|| |..-|+++
T Consensus 70 ~~~~e~~gWD~dd-Dl~lp~e~ 90 (422)
T PF06957_consen 70 EDEDEEGGWDLDD-DLDLPEEL 90 (422)
T ss_dssp ----------------------
T ss_pred ccccccccccccc-ccCCCccc
Confidence 3455566666544 44444433
No 86
>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=30.60 E-value=34 Score=28.03 Aligned_cols=6 Identities=67% Similarity=1.210 Sum_probs=3.0
Q ss_pred CCCCCc
Q 010686 59 YDDDSE 64 (504)
Q Consensus 59 ~~~~~~ 64 (504)
||+|+|
T Consensus 43 yDSd~E 48 (77)
T PF12253_consen 43 YDSDDE 48 (77)
T ss_pred cCCccc
Confidence 555544
No 87
>KOG0970 consensus DNA polymerase alpha, catalytic subunit [Replication, recombination and repair]
Probab=29.79 E-value=37 Score=40.61 Aligned_cols=11 Identities=45% Similarity=0.619 Sum_probs=8.3
Q ss_pred CCCCCCCCccc
Q 010686 56 LSLYDDDSEEE 66 (504)
Q Consensus 56 ~~~~~~~~~~~ 66 (504)
-..||.=||||
T Consensus 43 ~~vYD~VDeeE 53 (1429)
T KOG0970|consen 43 EDVYDTVDEEE 53 (1429)
T ss_pred cccccccCHHH
Confidence 46788878777
No 88
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=29.56 E-value=40 Score=36.76 Aligned_cols=24 Identities=29% Similarity=0.433 Sum_probs=11.9
Q ss_pred cCCCCCCCCcccCCCCCCCCCCCC
Q 010686 55 TLSLYDDDSEEEGEDDDDDDDEGK 78 (504)
Q Consensus 55 ~~~~~~~~~~~~~~~~~~~~~~~~ 78 (504)
+-|+.|-+|.|||++||||=|-||
T Consensus 418 tnppad~~dgdde~eddddidvde 441 (990)
T KOG1819|consen 418 TNPPADNEDGDDEAEDDDDIDVDE 441 (990)
T ss_pred CCCccccccCcccccCcccccccc
Confidence 566766655555444333333333
No 89
>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=29.39 E-value=1.8e+02 Score=24.68 Aligned_cols=42 Identities=12% Similarity=0.037 Sum_probs=28.6
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHH-CC
Q 010686 193 LPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS-VG 238 (504)
Q Consensus 193 ~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~s-lG 238 (504)
...-.+.+.+|++..+|..|-..+|.- .+.....+..|+. .|
T Consensus 20 ~~Wk~laR~LGLse~~I~~i~~~~~~~----~eq~~qmL~~W~~~~G 62 (96)
T cd08315 20 DSWNRLMRQLGLSENEIDVAKANERVT----REQLYQMLLTWVNKTG 62 (96)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHCCCC----HHHHHHHHHHHHHhhC
Confidence 345667788999999999988887752 3455566655553 44
No 90
>PTZ00482 membrane-attack complex/perforin (MACPF) Superfamily; Provisional
Probab=29.20 E-value=77 Score=37.22 Aligned_cols=13 Identities=46% Similarity=0.468 Sum_probs=5.9
Q ss_pred cCCCCCCCCcccC
Q 010686 55 TLSLYDDDSEEEG 67 (504)
Q Consensus 55 ~~~~~~~~~~~~~ 67 (504)
+-+..|+||||.+
T Consensus 83 ~~~~~~~~~~~~~ 95 (844)
T PTZ00482 83 RKSLDDDDDDEFD 95 (844)
T ss_pred hcccccCcchhhh
Confidence 4444444444443
No 91
>PHA02854 putative host range protein; Provisional
Probab=28.54 E-value=37 Score=32.04 Aligned_cols=9 Identities=33% Similarity=0.870 Sum_probs=4.6
Q ss_pred CCCCCCCCc
Q 010686 56 LSLYDDDSE 64 (504)
Q Consensus 56 ~~~~~~~~~ 64 (504)
+.|||.|+|
T Consensus 152 ~~Y~~~~~~ 160 (178)
T PHA02854 152 FEYYDSDND 160 (178)
T ss_pred ccccccccc
Confidence 456654443
No 92
>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=28.40 E-value=1.8e+02 Score=33.71 Aligned_cols=120 Identities=19% Similarity=0.244 Sum_probs=74.9
Q ss_pred cCHHHHHHHHHH---CCCChhhHHHHHhhCCcccccCcccchHHHHHHHHHc-CCCchhhhhHhhhcCcccccccccchh
Q 010686 225 CSARERLEYLLS---VGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISL-GIPNSKIGQIIAATPSLFSYSVENSLK 300 (504)
Q Consensus 225 ~~l~~~l~fL~s---lGls~~~l~kil~~~P~lL~~s~e~~L~p~v~fL~~l-Gls~~~I~klL~~~P~lL~~s~e~~l~ 300 (504)
.+....+.||.+ -|+.+....+++..++. +.-..|....+.|.++ |++.+.+..+...... . ....
T Consensus 75 ~~~~~i~~yL~s~~~~GIG~~~A~~iv~~fg~----~~~~~i~~~~~~L~~v~gi~~~~~~~i~~~~~~-----~-~~~~ 144 (720)
T TIGR01448 75 TSKEGIVAYLSSRSIKGVGKKLAQRIVKTFGE----AAFDVLDDDPEKLLEVPGISKANLEKFVSQWSQ-----Q-GDER 144 (720)
T ss_pred CCHHHHHHHHhcCCCCCcCHHHHHHHHHHhCH----hHHHHHHhCHHHHhcCCCCCHHHHHHHHHHHHH-----h-HHHH
Confidence 355667788875 27888888888877653 2223344445567776 9999888877765421 1 1256
Q ss_pred HHHHHHHHHhCCChhHH-----------HHHHhhCccceeccccc-cchhhhhhhhhhcCCCchhHHH
Q 010686 301 PTVRYLVEEVGINEKSL-----------GKVVQLSPQVLVQRIDI-SWNTRCIFLSKELGAPRDDVVK 356 (504)
Q Consensus 301 p~v~fL~~~lGv~~~~l-----------~~vI~~~P~lL~~~~e~-~l~~kv~fL~~~lG~s~~~v~~ 356 (504)
..+.||. .+|++.... ..+|..+|+.|...+.. .+ .+++.+...+|+..++-.+
T Consensus 145 ~~~~~L~-~~gi~~~~a~ki~~~yg~~~~~~i~~nPY~L~~~i~gigF-~~aD~iA~~~g~~~~d~~R 210 (720)
T TIGR01448 145 RLLAGLQ-GLGIGIKLAQRIYKFYQADTLDRVEKDPYLLAEDVKGIGF-LTADQLAQALGIALNDPRR 210 (720)
T ss_pred HHHHHHH-HcCCCHHHHHHHHHHHhHHHHHHHHhCchhhhhhcCCCCH-HHHHHHHHHcCCCCCCHHH
Confidence 6788885 899988654 44667788877764331 12 2344454567877655433
No 93
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=28.11 E-value=97 Score=35.93 Aligned_cols=76 Identities=17% Similarity=0.156 Sum_probs=40.3
Q ss_pred HHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCCChhhHHHHHhhCCcccccCcccchHHHHHHHHHcCC
Q 010686 196 LDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGI 275 (504)
Q Consensus 196 l~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGls~~~l~kil~~~P~lL~~s~e~~L~p~v~fL~~lGl 275 (504)
++.++.-.+...+.+.|-.. -..-.++.+++.++...++..+-. =.+-|.+|..+-.+ ...+.-|++.|-
T Consensus 492 ld~ir~tNVqegeaggitqq-IgAt~fp~~ni~e~tk~~~~~~K~-------~~kvPg~lvIdtpg--hEsFtnlRsrgs 561 (1064)
T KOG1144|consen 492 LDKIRGTNVQEGEAGGITQQ-IGATYFPAENIREKTKELKKDAKK-------RLKVPGLLVIDTPG--HESFTNLRSRGS 561 (1064)
T ss_pred HHHhhccccccccccceeee-ccccccchHHHHHHHHHHHhhhhh-------hcCCCeeEEecCCC--chhhhhhhhccc
Confidence 45555544544444443210 001123456788888777766521 23567777666533 334556677777
Q ss_pred Cchhhh
Q 010686 276 PNSKIG 281 (504)
Q Consensus 276 s~~~I~ 281 (504)
+-.+++
T Consensus 562 slC~~a 567 (1064)
T KOG1144|consen 562 SLCDLA 567 (1064)
T ss_pred cccceE
Confidence 666654
No 94
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=27.76 E-value=3.4e+02 Score=24.59 Aligned_cols=24 Identities=21% Similarity=0.355 Sum_probs=19.0
Q ss_pred hhHHHHHHHHHhCCChhHHHHHHhh
Q 010686 299 LKPTVRYLVEEVGINEKSLGKVVQL 323 (504)
Q Consensus 299 l~p~v~fL~~~lGv~~~~l~~vI~~ 323 (504)
-...+.+|. .-||+.+.|..++..
T Consensus 129 k~Ki~~~L~-rkGF~~~~I~~~l~~ 152 (157)
T PRK00117 129 KAKLVRFLA-RRGFSMDVIQRVLRN 152 (157)
T ss_pred HHHHHHHHH-HCCCCHHHHHHHHHh
Confidence 345778887 789999999888875
No 95
>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=27.71 E-value=56 Score=25.40 Aligned_cols=13 Identities=31% Similarity=0.782 Sum_probs=8.6
Q ss_pred cccCCCCCCCCccc
Q 010686 53 GQTLSLYDDDSEEE 66 (504)
Q Consensus 53 ~~~~~~~~~~~~~~ 66 (504)
| .-|-||+|+++|
T Consensus 28 G-eeP~YDEdd~dd 40 (65)
T PF10731_consen 28 G-EEPSYDEDDDDD 40 (65)
T ss_pred C-CCCCcCcccCcc
Confidence 5 567787777544
No 96
>KOG0400 consensus 40S ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=27.67 E-value=40 Score=30.35 Aligned_cols=33 Identities=18% Similarity=0.230 Sum_probs=15.4
Q ss_pred CCccccCccCHHHHHHHHHHCCCChhhHHHHHh
Q 010686 217 MPSLQINVCSARERLEYLLSVGVKQRDVRRILL 249 (504)
Q Consensus 217 P~lL~~~~~~l~~~l~fL~slGls~~~l~kil~ 249 (504)
|..+..+++.+.+.+--|..-|+++.+|+-++.
T Consensus 23 PtWlK~~~ddvkeqI~K~akKGltpsqIGviLR 55 (151)
T KOG0400|consen 23 PTWLKLTADDVKEQIYKLAKKGLTPSQIGVILR 55 (151)
T ss_pred cHHHhcCHHHHHHHHHHHHHcCCChhHceeeee
Confidence 444444444444444444444555555544433
No 97
>KOG1834 consensus Calsyntenin [Extracellular structures]
Probab=27.39 E-value=34 Score=38.55 Aligned_cols=11 Identities=27% Similarity=0.232 Sum_probs=4.8
Q ss_pred CCCCCCccCCC
Q 010686 76 EGKEDDWLADD 86 (504)
Q Consensus 76 ~~~~~~~~~~~ 86 (504)
++|++|-+++|
T Consensus 908 ~ee~s~~~~~d 918 (952)
T KOG1834|consen 908 EEESSDSDSAD 918 (952)
T ss_pred ccccccccccc
Confidence 33444444444
No 98
>PHA03242 envelope glycoprotein M; Provisional
Probab=27.33 E-value=40 Score=36.40 Aligned_cols=21 Identities=19% Similarity=0.290 Sum_probs=10.9
Q ss_pred ccccccccccccCCCCCCCCc
Q 010686 44 LKTNRKSRYGQTLSLYDDDSE 64 (504)
Q Consensus 44 ~~~~~~~~~~~~~~~~~~~~~ 64 (504)
++..|++|++.+.-.||+|..
T Consensus 373 ~~r~r~~~~~~~~~~~~~~~~ 393 (428)
T PHA03242 373 IRRVRSSMRNSREAPYAGESD 393 (428)
T ss_pred HHHhhCcCCCCcccccccccc
Confidence 444555555544455555543
No 99
>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=27.26 E-value=1.2e+02 Score=30.14 Aligned_cols=24 Identities=21% Similarity=0.184 Sum_probs=0.0
Q ss_pred CCCcccCCccccchhhhhhhhhhh
Q 010686 124 VGSFRSGRSLQGAQEQLDIRNRRN 147 (504)
Q Consensus 124 ~~~~~~~~~~~~~~~~~~~~~~~~ 147 (504)
+...-.....+.++++.|+.++..
T Consensus 91 ~d~~~ek~r~q~~~eeaDl~~A~d 114 (245)
T PF08597_consen 91 EDPAAEKLRQQRLQEEADLANAKD 114 (245)
T ss_dssp ------------------------
T ss_pred cCHHHHHHHHHHHHHhhhHHHHHH
Confidence 444555667778899988888766
No 100
>KOG2229 consensus Protein required for actin cytoskeleton organization and cell cycle progression [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=27.18 E-value=23 Score=38.82 Aligned_cols=11 Identities=27% Similarity=0.211 Sum_probs=8.9
Q ss_pred eeccccccccc
Q 010686 36 STHSNAKILKT 46 (504)
Q Consensus 36 ~~~~~~~~~~~ 46 (504)
.+|++|||+=+
T Consensus 146 cf~~~~ki~vs 156 (616)
T KOG2229|consen 146 CFSKVPKILVS 156 (616)
T ss_pred HhccCcHHHHh
Confidence 57999999865
No 101
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=26.51 E-value=1.6e+02 Score=30.63 Aligned_cols=189 Identities=14% Similarity=0.239 Sum_probs=98.1
Q ss_pred CCChHHHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCCChhhHHHHHhhCCccccc-----------
Q 010686 189 DEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQPQILEY----------- 257 (504)
Q Consensus 189 e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGls~~~l~kil~~~P~lL~~----------- 257 (504)
.......+.-+-++|..++++.++++. ...+-...++||.. |++...-.......|.....
T Consensus 132 G~~~e~~V~~Im~MGy~re~V~~AlRA-------afNNPeRAVEYLl~-GIP~~~~~~~~~~~~~~~~~~p~~~~p~~~~ 203 (340)
T KOG0011|consen 132 GSEYEQTVQQIMEMGYDREEVERALRA-------AFNNPERAVEYLLN-GIPEDAEVPEPEKSTAAAAELPANAQPLDLF 203 (340)
T ss_pred cchhHHHHHHHHHhCccHHHHHHHHHH-------hhCChhhhHHHHhc-CCcccccCCcccCCcccCCCCCCCCChhhcC
Confidence 344556778888899999999998764 23466778899886 76653222222222222222
Q ss_pred -C--cccchHHHHHHHHHcCCCchhhhhHhhhcCcccccccccchhHHHHHHHHHhCCChhHHHHHHhhCccceeccccc
Q 010686 258 -T--VENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRIDI 334 (504)
Q Consensus 258 -s--~e~~L~p~v~fL~~lGls~~~I~klL~~~P~lL~~s~e~~l~p~v~fL~~~lGv~~~~l~~vI~~~P~lL~~~~e~ 334 (504)
. +...-..-++||+.. -.-.++..+|..+|.+|. +.+ ..+|-....+.++|..++.-+..=+..
T Consensus 204 ~~~~~~~~~~~~l~fLr~~-~qf~~lR~~iqqNP~ll~--------~~L----qqlg~~nP~L~q~Iq~nqe~Fl~mlne 270 (340)
T KOG0011|consen 204 PQGAVEASGGDPLEFLRNQ-PQFQQLRQMIQQNPELLH--------PLL----QQLGKQNPQLLQLIQENQEAFLQLLNE 270 (340)
T ss_pred CccchhhhcCCchhhhhcc-HHHHHHHHHHhhCHHHHH--------HHH----HHHhhhCHHHHHHHHHHHHHHHHHhhc
Confidence 1 111111335666643 123456777777776552 222 256666667777777766444321110
Q ss_pred cchhhhhhhhhhcCCCchhHHHhhhccc-cccccccccchHHHHHHHHHhcCChHHHHHHHHhccchhccCcccchHHHH
Q 010686 335 SWNTRCIFLSKELGAPRDDVVKMVTKHP-QLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSLEDNLKPKY 413 (504)
Q Consensus 335 ~l~~kv~fL~~~lG~s~~~v~~ml~~~P-~iL~~s~e~~L~~kv~fL~~lG~s~~ev~~~v~r~P~iL~~SlE~~L~pk~ 413 (504)
-... ..-|. ...+=...| .-+.+..+ =+.-|+-|+.|||.+.-|..+. |.++ ++=.--.
T Consensus 271 p~~~------~~~~~----~~~~~~~~~~~~I~vtpe--e~eAIeRL~alGF~ralViqay------fACd--KNEelAA 330 (340)
T KOG0011|consen 271 PVEG------GDGGG----TGAPAAEGPGHQIQVTPE--EKEAIERLEALGFPRALVIQAY------FACD--KNEELAA 330 (340)
T ss_pred cccc------ccccc----cccccccCCcceEecCHH--HHHHHHHHHHhCCcHHHHHHHH------HhcC--ccHHHHH
Confidence 0000 00000 111111223 23333322 3678889999999887665554 3444 4444445
Q ss_pred HHHHH
Q 010686 414 TYLIN 418 (504)
Q Consensus 414 ~fL~~ 418 (504)
.||..
T Consensus 331 N~Ll~ 335 (340)
T KOG0011|consen 331 NYLLS 335 (340)
T ss_pred HHHHh
Confidence 55544
No 102
>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=25.87 E-value=37 Score=38.86 Aligned_cols=9 Identities=11% Similarity=0.073 Sum_probs=3.8
Q ss_pred HHHHhhCCc
Q 010686 245 RRILLRQPQ 253 (504)
Q Consensus 245 ~kil~~~P~ 253 (504)
..+-.+.|.
T Consensus 543 ~~~~~~~p~ 551 (763)
T TIGR00993 543 FAVKEKFPA 551 (763)
T ss_pred HHHHhcCcc
Confidence 333444453
No 103
>PRK14135 recX recombination regulator RecX; Provisional
Probab=25.77 E-value=6.6e+02 Score=24.82 Aligned_cols=87 Identities=16% Similarity=0.137 Sum_probs=51.9
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCC-ChhhHHHHHhhCCcccccCcccchHHHHHHHHH
Q 010686 194 PLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGV-KQRDVRRILLRQPQILEYTVENNLESHVAFLIS 272 (504)
Q Consensus 194 ~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGl-s~~~l~kil~~~P~lL~~s~e~~L~p~v~fL~~ 272 (504)
..+.+|..-.-+..++..-+.+. .++.+.+..+++.|...|. ++...+......- +.... ..-.....-|..
T Consensus 62 ~Al~~L~~r~~s~~el~~kL~~k----g~~~~~Ie~vl~~l~~~~~ldD~~~a~~~~~~~--~~~~~-~g~~~I~~kL~~ 134 (263)
T PRK14135 62 LALYYLSYQMRTEKEVRDYLKKH----EISEEIISEVIDKLKEEKYIDDKEYAESYVRTN--INTGD-KGPRVIKQKLLQ 134 (263)
T ss_pred HHHHHhhhccccHHHHHHHHHHC----CCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH--Hhccc-cchHHHHHHHHH
Confidence 44677777777777777766553 3445577788888888774 5555555444321 11110 112223456777
Q ss_pred cCCCchhhhhHhhhc
Q 010686 273 LGIPNSKIGQIIAAT 287 (504)
Q Consensus 273 lGls~~~I~klL~~~ 287 (504)
-|++.+.|..+|...
T Consensus 135 kGi~~~~Ie~~l~~l 149 (263)
T PRK14135 135 KGIEDEIIEEALSEY 149 (263)
T ss_pred cCCCHHHHHHHHHhC
Confidence 888888888777653
No 104
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=25.24 E-value=1.6e+02 Score=28.13 Aligned_cols=126 Identities=13% Similarity=0.244 Sum_probs=0.0
Q ss_pred hhhhcccCCCCCccccccccccchhhhhhhhhhcccCcCCChHHHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHH
Q 010686 151 NSFDDTYYNSKDVDQRGKVMTRNATENRYQRLSEEIELDEKWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARER 230 (504)
Q Consensus 151 ~~~~~~g~~~~~~~~~~~l~~~~~~~~~~p~ll~~~~~e~~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~ 230 (504)
+.+..|||....--++.+++=.-.++. |+.+ +..|..+ +++++..++.+ .-
T Consensus 56 d~~~LyGF~~~~Er~lF~~Li~V~GIG--pK~A------------L~iLs~~--~~~el~~aI~~-------------~D 106 (188)
T PRK14606 56 DGITLYGFSNERKKELFLSLTKVSRLG--PKTA------------LKIISNE--DAETLVTMIAS-------------QD 106 (188)
T ss_pred CCceeeCCCCHHHHHHHHHHhccCCcc--HHHH------------HHHHcCC--CHHHHHHHHHh-------------CC
Q ss_pred HHHHHHC-CCChhhHHHHHhh-CCcccccCccc--chHHHHHHHHHcCCCchhhhhHhhhcCcccccccccchhHHHHHH
Q 010686 231 LEYLLSV-GVKQRDVRRILLR-QPQILEYTVEN--NLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYL 306 (504)
Q Consensus 231 l~fL~sl-Gls~~~l~kil~~-~P~lL~~s~e~--~L~p~v~fL~~lGls~~~I~klL~~~P~lL~~s~e~~l~p~v~fL 306 (504)
+..|.++ |+..+...+++.. .-.+-...... .....+..|..+|.++.++.+++...-.- ..+++.-++..+..|
T Consensus 107 ~~~L~~vpGIGkKtAerIilELkdK~~~~~~~~~~~~~e~~~AL~~LGy~~~ea~~av~~~~~~-~~~~e~lik~ALk~l 185 (188)
T PRK14606 107 VEGLSKLPGISKKTAERIVMELKDEFESAGIKDMRIYHESLEALVSLGYPEKQAREAVKHVYRE-GMKTSELIKEALKFL 185 (188)
T ss_pred HHHHhhCCCCCHHHHHHHHHHHHHhhccccCCCcccHHHHHHHHHHcCCCHHHHHHHHHHHhhC-CCCHHHHHHHHHHHH
No 105
>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed
Probab=25.20 E-value=1.2e+02 Score=28.05 Aligned_cols=35 Identities=14% Similarity=-0.017 Sum_probs=21.4
Q ss_pred cCCccccCccCHHHHHHHHHHCCCChhhHHHHHhh
Q 010686 216 HMPSLQINVCSARERLEYLLSVGVKQRDVRRILLR 250 (504)
Q Consensus 216 ~P~lL~~~~~~l~~~l~fL~slGls~~~l~kil~~ 250 (504)
.|.++.++++.+++.+--|..-|.++++|+-++.-
T Consensus 22 ~P~W~~~~~eeve~~I~~lakkG~~pSqIG~~LRD 56 (151)
T PRK08561 22 PPEWVDYSPEEIEELVVELAKQGYSPSMIGIILRD 56 (151)
T ss_pred CCccccCCHHHHHHHHHHHHHCCCCHHHhhhhHhh
Confidence 34455566666666666666666666666666554
No 106
>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=24.16 E-value=51 Score=30.91 Aligned_cols=23 Identities=9% Similarity=0.283 Sum_probs=16.5
Q ss_pred cccccccccccccccCCCCCCCC
Q 010686 41 AKILKTNRKSRYGQTLSLYDDDS 63 (504)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~ 63 (504)
.|+++.+|+.|.-..|..-++-+
T Consensus 114 ir~~R~r~~~rktRkYgvl~~~~ 136 (163)
T PF06679_consen 114 IRTFRLRRRNRKTRKYGVLTTRA 136 (163)
T ss_pred HHHHhhccccccceeecccCCCc
Confidence 36677777777777777776663
No 107
>PRK07562 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=24.09 E-value=74 Score=38.78 Aligned_cols=134 Identities=13% Similarity=0.147 Sum_probs=80.7
Q ss_pred hhhhhhhhhhhhcccCCCCCccc------ccccccc-chhhhhhhhhhcccCcCC---------ChHHHHHHHHhCCCCH
Q 010686 143 RNRRNTIKNSFDDTYYNSKDVDQ------RGKVMTR-NATENRYQRLSEEIELDE---------KWLPLLDYLSTFGLKE 206 (504)
Q Consensus 143 ~~~~~~v~~~~~~~g~~~~~~~~------~~~l~~~-~~~~~~~p~ll~~~~~e~---------~~~~vl~fL~slG~s~ 206 (504)
..+|.++......+|+.++++.- |+-+++. +.++- |.++ ..-+.+ .-..+..-|+.+|++.
T Consensus 650 ~~~W~~l~~~i~k~G~RNA~ltaIAPTGTISlI~d~dTtGIE--P~fA-lv~~kkl~gGg~f~ivN~~l~~~L~~lG~~~ 726 (1220)
T PRK07562 650 KAAWDKALELGEKHGYRNAQVTVIAPTGTIGLVMDCDTTGIE--PDFA-LVKFKKLAGGGYFKIINRAVPEALRTLGYSE 726 (1220)
T ss_pred hhhHHHHHHHHHHhCcccccccccCCcHHHHHhcCCCCCCcc--cCcc-ceEEEEeccceeEEEEcHHHHHHHHHcCCCH
Confidence 34699999999999999999883 3346666 55553 5554 111111 1123457889999999
Q ss_pred HHHHHHHHhcCCcc-ccCccCHHH-HHHHHHHCCCChhhHHHHHhhCCccc-----------cc---------CcccchH
Q 010686 207 SHFIQMYERHMPSL-QINVCSARE-RLEYLLSVGVKQRDVRRILLRQPQIL-----------EY---------TVENNLE 264 (504)
Q Consensus 207 ~~I~~il~r~P~lL-~~~~~~l~~-~l~fL~slGls~~~l~kil~~~P~lL-----------~~---------s~e~~L~ 264 (504)
+++..++... + .-++..+.. ..+.|+..|+++.+|.++=..-|..+ +. +.+.--.
T Consensus 727 ~~i~~i~~~~---~~~Gsl~~~~~i~~~~l~~~Gf~~~~~~~~~~~l~~~fdi~~~fn~~~lg~~f~~~~lg~~~~~~~~ 803 (1220)
T PRK07562 727 SQIAEIEAYA---VGHGTLNQAPGINHSTLKAKGFTDEKIEKVEAALKSAFDIKFAFNKWTLGEDFCKDTLGIPAEQLND 803 (1220)
T ss_pred HHHHHHHHHh---hcCCCccCCCCCCHHHHhhcCCcHHHHHHHHHHhhhhhhhhhhhcccccchhhhhhcccCcHhhhcc
Confidence 9999988631 1 011111111 13568888999988876444444333 22 2222223
Q ss_pred HHHHHHHHcCCCchhhhh
Q 010686 265 SHVAFLISLGIPNSKIGQ 282 (504)
Q Consensus 265 p~v~fL~~lGls~~~I~k 282 (504)
|.++.|..+|++.++|..
T Consensus 804 ~~f~ll~~~g~t~~~i~a 821 (1220)
T PRK07562 804 PSFDLLEHLGFSKKDIEA 821 (1220)
T ss_pred ccchhhhhcccchhhHHH
Confidence 556778888888766643
No 108
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=23.80 E-value=2.1e+02 Score=23.13 Aligned_cols=45 Identities=11% Similarity=0.383 Sum_probs=23.1
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCCChhhHH
Q 010686 194 PLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVR 245 (504)
Q Consensus 194 ~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGls~~~l~ 245 (504)
|++..|+.+.+|+++|..++.. | .++-.........+|++.+.+.
T Consensus 3 PIia~LKehnvsd~qi~elFq~----l---T~NPl~AMa~i~qLGip~eKLQ 47 (82)
T PF11212_consen 3 PIIAILKEHNVSDEQINELFQA----L---TQNPLAAMATIQQLGIPQEKLQ 47 (82)
T ss_pred hHHHHHHHcCCCHHHHHHHHHH----H---hhCHHHHHHHHHHcCCCHHHHH
Confidence 4555666666666666555432 1 1233344455555666655544
No 109
>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]
Probab=23.72 E-value=53 Score=36.12 Aligned_cols=13 Identities=23% Similarity=0.345 Sum_probs=6.7
Q ss_pred ccccccccccccc
Q 010686 39 SNAKILKTNRKSR 51 (504)
Q Consensus 39 ~~~~~~~~~~~~~ 51 (504)
.+--|--|||+++
T Consensus 69 ~~~di~~~~~~~n 81 (641)
T KOG0772|consen 69 KESDIRGPNRNPN 81 (641)
T ss_pred hhhhccccccccc
Confidence 3444555565554
No 110
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=23.68 E-value=5.5e+02 Score=23.19 Aligned_cols=87 Identities=11% Similarity=0.052 Sum_probs=54.2
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCC-ChhhHHHHHhhCCcccccCcccchHHHHHHHHH
Q 010686 194 PLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGV-KQRDVRRILLRQPQILEYTVENNLESHVAFLIS 272 (504)
Q Consensus 194 ~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGl-s~~~l~kil~~~P~lL~~s~e~~L~p~v~fL~~ 272 (504)
..+.+|..-.-|..+|..-+.+. .++.+.+..+++.|...|. ++......+.+.-.- .. .--.....-|..
T Consensus 16 ~al~~L~~r~~s~~el~~kL~~k----g~~~~~i~~vl~~l~~~~~ldD~~~a~~~~~~~~~---~~-~g~~~I~~~L~~ 87 (157)
T PRK00117 16 RALRLLARREHSRAELRRKLAAK----GFSEEVIEAVLDRLKEEGLLDDERFAESFVRSRAR---KG-YGPRRIRQELRQ 87 (157)
T ss_pred HHHHHHccchhHHHHHHHHHHhc----CCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHh---CC-chHHHHHHHHHH
Confidence 34566666666777776666553 3445567777888888774 565665554443211 11 112233467889
Q ss_pred cCCCchhhhhHhhhcC
Q 010686 273 LGIPNSKIGQIIAATP 288 (504)
Q Consensus 273 lGls~~~I~klL~~~P 288 (504)
-|++.+.|..++...+
T Consensus 88 kGi~~~~I~~~l~~~~ 103 (157)
T PRK00117 88 KGVDREIIEEALAELD 103 (157)
T ss_pred cCCCHHHHHHHHHHcC
Confidence 9999999998887654
No 111
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=23.50 E-value=1.1e+02 Score=34.77 Aligned_cols=56 Identities=23% Similarity=0.504 Sum_probs=40.7
Q ss_pred hhhhhcccCcCC---ChHHHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCC
Q 010686 179 YQRLSEEIELDE---KWLPLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVG 238 (504)
Q Consensus 179 ~p~ll~~~~~e~---~~~~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slG 238 (504)
+.+.+..+.+.+ -|.+.+.|+.++|++..-+ ++++|+ |..+++..++-+++|.+.+
T Consensus 125 fdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~-rvyrRY---Lk~~P~~~eeyie~L~~~d 183 (835)
T KOG2047|consen 125 FDRALRALPVTQHDRIWDLYLKFVESHGLPETSI-RVYRRY---LKVAPEAREEYIEYLAKSD 183 (835)
T ss_pred HHHHHHhCchHhhccchHHHHHHHHhCCChHHHH-HHHHHH---HhcCHHHHHHHHHHHHhcc
Confidence 344444444443 4889999999999996655 456664 7778888899999998876
No 112
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=23.38 E-value=78 Score=32.25 Aligned_cols=15 Identities=13% Similarity=0.319 Sum_probs=7.7
Q ss_pred cCCHHHHHHHhcCCC
Q 010686 466 IPTDECFCQKWAGTT 480 (504)
Q Consensus 466 ~~sd~~F~~~~~~~s 480 (504)
.....+|++.|.|.+
T Consensus 225 ~~Pan~FV~~f~g~~ 239 (309)
T COG1125 225 ANPANDFVEDFFGES 239 (309)
T ss_pred hCccHHHHHHHhccc
Confidence 344555555555544
No 113
>PF14117 DUF4287: Domain of unknown function (DUF4287)
Probab=23.29 E-value=1.8e+02 Score=22.70 Aligned_cols=45 Identities=13% Similarity=0.150 Sum_probs=31.7
Q ss_pred HcCCCchhhhhHhhhcCcccccccccchhHHHHHHHHHhCCChhHHHHHHh
Q 010686 272 SLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQ 322 (504)
Q Consensus 272 ~lGls~~~I~klL~~~P~lL~~s~e~~l~p~v~fL~~~lGv~~~~l~~vI~ 322 (504)
.-|-+.++...++...| +.. +-..+|.+|+++.|++...-..|+.
T Consensus 12 kTGk~~~~W~~~~~~~~-----~~~-k~~e~v~WLK~ehgLghGhA~Aiv~ 56 (61)
T PF14117_consen 12 KTGKTLDEWLALAREGG-----PLT-KHGEIVAWLKDEHGLGHGHANAIVA 56 (61)
T ss_pred HHCcCHHHHHHHHHHhC-----CCC-cHHHHHHHHHHHHCCChHHHHHHHH
Confidence 35778888888888877 222 3567888888888888776655554
No 114
>PRK14135 recX recombination regulator RecX; Provisional
Probab=23.29 E-value=6.6e+02 Score=24.80 Aligned_cols=140 Identities=16% Similarity=0.174 Sum_probs=73.9
Q ss_pred CCccccchhhhhhhhhhhhhhhhhhcccCCCCCccccccccccchhhhhhhhhhcccCc-CCChHHHHHHHHhCCC-CHH
Q 010686 130 GRSLQGAQEQLDIRNRRNTIKNSFDDTYYNSKDVDQRGKVMTRNATENRYQRLSEEIEL-DEKWLPLLDYLSTFGL-KES 207 (504)
Q Consensus 130 ~~~~~~~~~~~~~~~~~~~v~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~p~ll~~~~~-e~~~~~vl~fL~slG~-s~~ 207 (504)
...........+...|++.+++.+....-+..++. .+|. .-++ ++.+..+|+.|...|+ +..
T Consensus 44 ~~~~~~i~~~~~~~~a~~~Al~~L~~r~~s~~el~---------------~kL~-~kg~~~~~Ie~vl~~l~~~~~ldD~ 107 (263)
T PRK14135 44 EEDLEEIQYADQVSKGKNLALYYLSYQMRTEKEVR---------------DYLK-KHEISEEIISEVIDKLKEEKYIDDK 107 (263)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhccccHHHHH---------------HHHH-HCCCCHHHHHHHHHHHHHcCCCCHH
Confidence 33344444455667777777776665533332222 2233 2222 2346677888888774 444
Q ss_pred HHHHHHHhcCCccccCccCHHHHHHHHHHCCCChhhHHHHHhhCCcc--------cccC--------cccchH-HHHHHH
Q 010686 208 HFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRRILLRQPQI--------LEYT--------VENNLE-SHVAFL 270 (504)
Q Consensus 208 ~I~~il~r~P~lL~~~~~~l~~~l~fL~slGls~~~l~kil~~~P~l--------L~~s--------~e~~L~-p~v~fL 270 (504)
..+....+. .+......-.....-|..-|++...+..++.....- +... .....+ ....+|
T Consensus 108 ~~a~~~~~~--~~~~~~~g~~~I~~kL~~kGi~~~~Ie~~l~~l~~~~~~d~a~~~~~k~~~~~~~~~~~~~k~Ki~~~L 185 (263)
T PRK14135 108 EYAESYVRT--NINTGDKGPRVIKQKLLQKGIEDEIIEEALSEYTEEDQIEVAQKLAEKLLKKYQKLPFKALKQKIIQSL 185 (263)
T ss_pred HHHHHHHHH--HHhccccchHHHHHHHHHcCCCHHHHHHHHHhCChhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 444444332 111111133445566788899888888888754210 0000 000111 234677
Q ss_pred HHcCCCchhhhhHhhhc
Q 010686 271 ISLGIPNSKIGQIIAAT 287 (504)
Q Consensus 271 ~~lGls~~~I~klL~~~ 287 (504)
..-|++.+.|..++...
T Consensus 186 ~rkGf~~~~I~~~l~~~ 202 (263)
T PRK14135 186 LTKGFSYEVIKAALEEL 202 (263)
T ss_pred HhCCCCHHHHHHHHHHc
Confidence 78888888888877653
No 115
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=23.27 E-value=25 Score=34.77 Aligned_cols=20 Identities=5% Similarity=0.066 Sum_probs=10.3
Q ss_pred hhhhhcccCCCCCccccccc
Q 010686 150 KNSFDDTYYNSKDVDQRGKV 169 (504)
Q Consensus 150 ~~~~~~~g~~~~~~~~~~~l 169 (504)
.|.+.-.||...-+.+.-+|
T Consensus 165 ~R~l~PsG~~~vlV~N~~eL 184 (232)
T PRK12766 165 VRGKHPSGFEEVRVHNTDDL 184 (232)
T ss_pred hcccCCCCCeeEEecCHHHH
Confidence 44455555555555554444
No 116
>PF11332 DUF3134: Protein of unknown function (DUF3134); InterPro: IPR021481 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=23.23 E-value=38 Score=27.46 Aligned_cols=20 Identities=15% Similarity=0.320 Sum_probs=12.4
Q ss_pred cCCCCceEEEeecccccccc
Q 010686 26 RPNTPRFVVLSTHSNAKILK 45 (504)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~~ 45 (504)
-|+.-.+.|+.+...+-||.
T Consensus 7 epR~q~a~VIpl~~e~SlLd 26 (73)
T PF11332_consen 7 EPRNQPAPVIPLKQESSLLD 26 (73)
T ss_pred ccccCCCCeecCCCccHHHH
Confidence 35555666777766666653
No 117
>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=23.05 E-value=2.5e+02 Score=23.24 Aligned_cols=36 Identities=22% Similarity=0.238 Sum_probs=25.3
Q ss_pred HHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHH
Q 010686 198 YLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS 236 (504)
Q Consensus 198 fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~s 236 (504)
+.+.+||+.++|..|-..||.-+. +++...+.-|+.
T Consensus 19 Lar~Lgls~~~I~~i~~~~p~~l~---eQv~~mL~~W~~ 54 (83)
T cd08319 19 VLLDLGLSQTDIYRCKENHPHNVQ---SQIVEALVKWRQ 54 (83)
T ss_pred HHHHcCCCHHHHHHHHHhCCCCHH---HHHHHHHHHHHH
Confidence 457899999999999998886431 345555555543
No 118
>KOG2897 consensus DNA-binding protein YL1 and related proteins [General function prediction only]
Probab=22.95 E-value=64 Score=34.05 Aligned_cols=9 Identities=11% Similarity=-0.057 Sum_probs=4.4
Q ss_pred ccccceeec
Q 010686 88 DFAEIEEYD 96 (504)
Q Consensus 88 ~~~~~~~~~ 96 (504)
+.++..++.
T Consensus 87 ~~~k~~vl~ 95 (390)
T KOG2897|consen 87 EDAKRKVLR 95 (390)
T ss_pred cccccchhh
Confidence 445555553
No 119
>KOG1085 consensus Predicted methyltransferase (contains a SET domain) [General function prediction only]
Probab=22.94 E-value=84 Score=32.16 Aligned_cols=14 Identities=29% Similarity=0.411 Sum_probs=8.2
Q ss_pred cccCCccccchhhh
Q 010686 127 FRSGRSLQGAQEQL 140 (504)
Q Consensus 127 ~~~~~~~~~~~~~~ 140 (504)
++-+++-.+|..++
T Consensus 225 fpVRRS~RKtk~~i 238 (392)
T KOG1085|consen 225 FPVRRSNRKTKKQI 238 (392)
T ss_pred cceeccchhhHHHh
Confidence 45556666666654
No 120
>PF02787 CPSase_L_D3: Carbamoyl-phosphate synthetase large chain, oligomerisation domain; InterPro: IPR005480 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the oligomerisation domain found in the large subunit of carbamoyl phosphate synthases as well as in certain other carboxy phsophate domain-containing enzymes.; GO: 0006807 nitrogen compound metabolic process; PDB: 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A 1KEE_G 1CE8_A 1JDB_H ....
Probab=22.79 E-value=75 Score=28.25 Aligned_cols=30 Identities=13% Similarity=0.151 Sum_probs=19.0
Q ss_pred CChHHHHHHHHhCCCCHHHHHHHHHhcCCcc
Q 010686 190 EKWLPLLDYLSTFGLKESHFIQMYERHMPSL 220 (504)
Q Consensus 190 ~~~~~vl~fL~slG~s~~~I~~il~r~P~lL 220 (504)
.++..+.+.|+. |++.++|..+-.-.|..|
T Consensus 11 ~Rlf~i~eAlrr-G~sveeI~e~T~ID~wFL 40 (123)
T PF02787_consen 11 ERLFAIAEALRR-GYSVEEIHELTKIDPWFL 40 (123)
T ss_dssp THHHHHHHHHHT-TB-HHHHHHHH---HHHH
T ss_pred cHHHHHHHHHHc-CCCHHHHHHHHCccHHHH
Confidence 445566666654 999999999887777665
No 121
>PRK14136 recX recombination regulator RecX; Provisional
Probab=22.68 E-value=8.6e+02 Score=25.25 Aligned_cols=136 Identities=15% Similarity=0.130 Sum_probs=81.8
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHHCCC-ChhhHHHHHhhCCcccccCcccchHHHHHHHHH
Q 010686 194 PLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLSVGV-KQRDVRRILLRQPQILEYTVENNLESHVAFLIS 272 (504)
Q Consensus 194 ~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGl-s~~~l~kil~~~P~lL~~s~e~~L~p~v~fL~~ 272 (504)
..+.||..---+..+|.+-|.++ .++.+.+..+|+.|+..|+ ++......+... .+-.. .. .....-|+.
T Consensus 167 kAL~lLSrReRSe~ELr~KL~kk----G~~ee~IE~VIerLke~gYLDDeRFAesyVr~-R~~kk---Gp-~rIrqELrQ 237 (309)
T PRK14136 167 RALGYLSRREYSRAELARKLAPY----ADESDSVEPLLDALEREGWLSDARFAESLVHR-RASRV---GS-ARIVSELKR 237 (309)
T ss_pred HHHHHhhcccccHHHHHHHHHHc----CCCHHHHHHHHHHHHHcCCcCHHHHHHHHHHH-Hhhch---hH-HHHHHHHHH
Confidence 44677777777888888877653 3455678889999999885 777887776643 11111 11 222357888
Q ss_pred cCCCchhhhhHhhhcCcccccccccchhHHHHHHHHHhCCChhHHHHHHhhCccceeccccccchhhhhhhhhhcCCCch
Q 010686 273 LGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGAPRD 352 (504)
Q Consensus 273 lGls~~~I~klL~~~P~lL~~s~e~~l~p~v~fL~~~lGv~~~~l~~vI~~~P~lL~~~~e~~l~~kv~fL~~~lG~s~~ 352 (504)
-||+.+.|..+|... .. ..+......+.+.++- .|. .. ......+.||. .-||+.+
T Consensus 238 KGId~eLIEqALeei------eE-DE~E~A~~L~eKK~~~-----------~~~----d~-kek~K~iRfL~-rRGFS~D 293 (309)
T PRK14136 238 HAVGDALVESVGAQL------RE-TEFERAQAVWRKKFGA-----------LPQ----TP-AERAKQARFLA-ARGFSSA 293 (309)
T ss_pred cCCCHHHHHHHHHhc------cH-hHHHHHHHHHHHHhcc-----------cCc----CH-HHHHHHHHHHH-HCCCCHH
Confidence 999999998887632 11 1123233333222221 111 11 12234467884 7899999
Q ss_pred hHHHhhhccc
Q 010686 353 DVVKMVTKHP 362 (504)
Q Consensus 353 ~v~~ml~~~P 362 (504)
.|..+|..+-
T Consensus 294 ~I~~vLk~~~ 303 (309)
T PRK14136 294 TIVKLLKVGD 303 (309)
T ss_pred HHHHHHHhch
Confidence 9988887643
No 122
>PF13543 KSR1-SAM: SAM like domain present in kinase suppressor RAS 1
Probab=22.58 E-value=2e+02 Score=25.99 Aligned_cols=51 Identities=22% Similarity=0.376 Sum_probs=32.1
Q ss_pred HHHHHhCCCCHHHHHHHHHhcCCccccC--cc-CHHHHHHHHHHCCCChhhHHHHHh
Q 010686 196 LDYLSTFGLKESHFIQMYERHMPSLQIN--VC-SARERLEYLLSVGVKQRDVRRILL 249 (504)
Q Consensus 196 l~fL~slG~s~~~I~~il~r~P~lL~~~--~~-~l~~~l~fL~slGls~~~l~kil~ 249 (504)
-+||+-.|++++.|..++.+ .+.++ .+ +=.+.-+.|...|.+.++..++..
T Consensus 70 ~~WL~vVgl~~~~i~~i~~~---~~tLe~Llemsd~el~~~l~~~g~~~EE~rRL~~ 123 (129)
T PF13543_consen 70 RQWLRVVGLRPESIQAILSK---VLTLEALLEMSDEELKEILNRCGAREEECRRLCR 123 (129)
T ss_pred HHHhhhcCCCHHHHHHHHHh---hcCHHHHHhCCHHHHHHHHHHhCCCHHHHHHHHH
Confidence 36788888888888887654 22111 11 333455666667777777777654
No 123
>KOG3540 consensus Beta amyloid precursor protein [General function prediction only]
Probab=22.39 E-value=56 Score=35.57 Aligned_cols=13 Identities=23% Similarity=0.396 Sum_probs=6.7
Q ss_pred ccccchhhhhhhh
Q 010686 132 SLQGAQEQLDIRN 144 (504)
Q Consensus 132 ~~~~~~~~~~~~~ 144 (504)
.|++....++.++
T Consensus 250 ~F~kAkmrleekh 262 (615)
T KOG3540|consen 250 DFQKAKMRLEEKH 262 (615)
T ss_pred HHHHHHHHHHHHH
Confidence 3555555555444
No 124
>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=22.28 E-value=1.3e+02 Score=21.91 Aligned_cols=24 Identities=21% Similarity=0.448 Sum_probs=15.9
Q ss_pred HHHHHHHHHCCCChhhHHHHHhhC
Q 010686 228 RERLEYLLSVGVKQRDVRRILLRQ 251 (504)
Q Consensus 228 ~~~l~fL~slGls~~~l~kil~~~ 251 (504)
.+.++-|.++|++..++.+++.+-
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~ 27 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKL 27 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHh
Confidence 456677777777777777776653
No 125
>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=21.91 E-value=1.2e+02 Score=21.66 Aligned_cols=30 Identities=10% Similarity=0.126 Sum_probs=20.8
Q ss_pred chHHHHHHHH-HhcCChHHHHHHHHhccchh
Q 010686 372 GLLPRINFLR-SIGMRNSDILKVLRSLTQVL 401 (504)
Q Consensus 372 ~L~~kv~fL~-~lG~s~~ev~~~v~r~P~iL 401 (504)
++-.....|. ++|++......||..||.+-
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 3455677786 78999999999999988763
No 126
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=21.77 E-value=67 Score=35.60 Aligned_cols=31 Identities=26% Similarity=0.424 Sum_probs=17.9
Q ss_pred cchHHHHHHHHHhcC--ChHHHHHHHHhccchh
Q 010686 371 DGLLPRINFLRSIGM--RNSDILKVLRSLTQVL 401 (504)
Q Consensus 371 ~~L~~kv~fL~~lG~--s~~ev~~~v~r~P~iL 401 (504)
.+.+--++|+.++|+ =.++++.-+...|.+-
T Consensus 621 ~n~RfsINfFTsIGLGgLTeelRe~L~~~pk~~ 653 (739)
T KOG2140|consen 621 RNTRFSINFFTSIGLGGLTEELREYLKNMPKVE 653 (739)
T ss_pred ccceeeeehhhhhccccchHHHHHHHHhcchhh
Confidence 445555677765443 3466666666665543
No 127
>PLN00151 potassium transporter; Provisional
Probab=21.53 E-value=60 Score=37.91 Aligned_cols=8 Identities=25% Similarity=0.273 Sum_probs=3.6
Q ss_pred HHHHHHHh
Q 010686 469 DECFCQKW 476 (504)
Q Consensus 469 d~~F~~~~ 476 (504)
+.+|.+..
T Consensus 685 ~~dFe~~L 692 (852)
T PLN00151 685 HQAFEQLL 692 (852)
T ss_pred chHHHHHH
Confidence 34454443
No 128
>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=21.47 E-value=83 Score=26.89 Aligned_cols=56 Identities=11% Similarity=0.237 Sum_probs=30.4
Q ss_pred hcCCCchhHHHhhhccccccccccccchHHHHHHHHH------hcCChHHHHHHHHhccchhccCc
Q 010686 346 ELGAPRDDVVKMVTKHPQLLHYSIDDGLLPRINFLRS------IGMRNSDILKVLRSLTQVLSLSL 405 (504)
Q Consensus 346 ~lG~s~~~v~~ml~~~P~iL~~s~e~~L~~kv~fL~~------lG~s~~ev~~~v~r~P~iL~~Sl 405 (504)
.-+++.+++..++..... ++++-+..+=..++. ..++.+++..++..+|.+|-..+
T Consensus 30 k~p~s~~el~~~l~~~~~----~~~~lin~~~~~~k~l~~~~~~~~s~~e~i~~l~~~p~LikRPI 91 (110)
T PF03960_consen 30 KEPLSREELRELLSKLGN----GPDDLINTRSKTYKELGKLKKDDLSDEELIELLLENPKLIKRPI 91 (110)
T ss_dssp TS---HHHHHHHHHHHTS----SGGGGB-TTSHHHHHTTHHHCTTSBHHHHHHHHHHSGGGB-SSE
T ss_pred hCCCCHHHHHHHHHHhcc----cHHHHhcCccchHhhhhhhhhhhhhhHHHHHHHHhChhheeCCE
Confidence 345666666666655431 112222222233333 34899999999999999987765
No 129
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=21.45 E-value=3.2e+02 Score=25.98 Aligned_cols=97 Identities=20% Similarity=0.304 Sum_probs=0.0
Q ss_pred CCCHHHHHHHHHhcCCccccCccCHHHHH-----HHHHHC-CCChhhHHHHHhhCCcccc---------cCcccchHHHH
Q 010686 203 GLKESHFIQMYERHMPSLQINVCSARERL-----EYLLSV-GVKQRDVRRILLRQPQILE---------YTVENNLESHV 267 (504)
Q Consensus 203 G~s~~~I~~il~r~P~lL~~~~~~l~~~l-----~fL~sl-Gls~~~l~kil~~~P~lL~---------~s~e~~L~p~v 267 (504)
|+-+....+++.. +..+.+...+ +.|..+ |++.+...+++...-.-+. ......+...+
T Consensus 80 GIGpk~A~~il~~------fg~~~l~~~i~~~d~~~L~~v~Gig~k~A~~I~~~l~~~~~~~~~~~~~~~~~~~~~~ev~ 153 (192)
T PRK00116 80 GVGPKLALAILSG------LSPEELVQAIANGDVKALTKVPGIGKKTAERIVLELKDKLAAAASAAAAAAAASSALEEAV 153 (192)
T ss_pred CCCHHHHHHHHHh------CCHHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHhhcccccccccccccchHHHHH
Q ss_pred HHHHHcCCCchhhhhHhhhcCcccccccccchhHHHHHH
Q 010686 268 AFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYL 306 (504)
Q Consensus 268 ~fL~~lGls~~~I~klL~~~P~lL~~s~e~~l~p~v~fL 306 (504)
.+|.++|++..++.+++...-.- ..+++.-++..+..|
T Consensus 154 ~aL~~LG~~~~~a~~~~~~~~~~-~~~~~~~i~~aL~~l 191 (192)
T PRK00116 154 SALVALGYKPKEASKAVAKILKE-AASVEELIREALKLL 191 (192)
T ss_pred HHHHHcCCCHHHHHHHHHHHhcc-CCCHHHHHHHHHHhc
No 130
>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=21.19 E-value=47 Score=28.59 Aligned_cols=11 Identities=18% Similarity=0.332 Sum_probs=7.0
Q ss_pred cccCCCCCCCCc
Q 010686 53 GQTLSLYDDDSE 64 (504)
Q Consensus 53 ~~~~~~~~~~~~ 64 (504)
| -++.|++||-
T Consensus 16 G-el~~~~eedi 26 (100)
T PF12527_consen 16 G-ELPEPEEEDI 26 (100)
T ss_pred c-cCCCCChHHh
Confidence 5 5777765554
No 131
>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=20.99 E-value=56 Score=25.50 Aligned_cols=33 Identities=18% Similarity=0.129 Sum_probs=13.8
Q ss_pred CCccccCccCHHHHHHHHHHCCCChhhHHHHHh
Q 010686 217 MPSLQINVCSARERLEYLLSVGVKQRDVRRILL 249 (504)
Q Consensus 217 P~lL~~~~~~l~~~l~fL~slGls~~~l~kil~ 249 (504)
|.++..+.+.+++.+--|..-|+++++|+-+|.
T Consensus 23 P~W~~~~~~eVe~~I~klakkG~tpSqIG~iLR 55 (60)
T PF08069_consen 23 PSWLKYSPEEVEELIVKLAKKGLTPSQIGVILR 55 (60)
T ss_dssp -TT--S-HHHHHHHHHHHCCTTHCHHHHHHHHH
T ss_pred CCCcCCCHHHHHHHHHHHHHcCCCHHHhhhhhh
Confidence 444444444444444444444555555554443
No 132
>KOG0699 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=20.74 E-value=65 Score=34.02 Aligned_cols=14 Identities=36% Similarity=0.517 Sum_probs=6.0
Q ss_pred cccccccccccccc
Q 010686 39 SNAKILKTNRKSRY 52 (504)
Q Consensus 39 ~~~~~~~~~~~~~~ 52 (504)
|-.+-|+.-.||..
T Consensus 239 S~s~Kl~q~sKsef 252 (542)
T KOG0699|consen 239 SESKKLNQSSKSEF 252 (542)
T ss_pred hhhhhccccccccc
Confidence 33333444445544
No 133
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=20.61 E-value=1.1e+02 Score=35.01 Aligned_cols=9 Identities=56% Similarity=0.892 Sum_probs=4.8
Q ss_pred CCcccccce
Q 010686 85 DDDDFAEIE 93 (504)
Q Consensus 85 ~~~~~~~~~ 93 (504)
|||.++|+.
T Consensus 263 d~d~i~E~~ 271 (822)
T KOG2141|consen 263 DDDGISEIS 271 (822)
T ss_pred CCccccccc
Confidence 444555555
No 134
>PF05097 DUF688: Protein of unknown function (DUF688); InterPro: IPR007789 This entry consists of uncharacterised proteins.
Probab=20.50 E-value=61 Score=35.21 Aligned_cols=7 Identities=14% Similarity=0.434 Sum_probs=3.6
Q ss_pred ccCCCCC
Q 010686 54 QTLSLYD 60 (504)
Q Consensus 54 ~~~~~~~ 60 (504)
+..|.|.
T Consensus 214 ~~~p~y~ 220 (446)
T PF05097_consen 214 HIIPNYS 220 (446)
T ss_pred ccCcccc
Confidence 3456563
No 135
>PHA03237 envelope glycoprotein M; Provisional
Probab=20.48 E-value=77 Score=34.23 Aligned_cols=9 Identities=22% Similarity=0.161 Sum_probs=3.6
Q ss_pred ccccccccc
Q 010686 45 KTNRKSRYG 53 (504)
Q Consensus 45 ~~~~~~~~~ 53 (504)
+..|++|++
T Consensus 377 ~r~r~~~~~ 385 (424)
T PHA03237 377 NRVRGGRRR 385 (424)
T ss_pred HHhhcCCCC
Confidence 333444443
No 136
>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=20.19 E-value=3.8e+02 Score=23.09 Aligned_cols=57 Identities=18% Similarity=0.250 Sum_probs=32.2
Q ss_pred ChHHHHHHHHhCCCC-HHHHHHHHHhcCCccccCccCHHHHHHHHHHCCCChhhHHHHHh
Q 010686 191 KWLPLLDYLSTFGLK-ESHFIQMYERHMPSLQINVCSARERLEYLLSVGVKQRDVRRILL 249 (504)
Q Consensus 191 ~~~~vl~fL~slG~s-~~~I~~il~r~P~lL~~~~~~l~~~l~fL~slGls~~~l~kil~ 249 (504)
.+..+|+.|...|+= +...+....+. .+............-|+.-|++...+..++.
T Consensus 10 ~I~~vi~~l~~~gyidD~~ya~~~v~~--~~~~~~~G~~~I~~~L~~kGi~~~~i~~~l~ 67 (121)
T PF02631_consen 10 AIEEVIDRLKELGYIDDERYAESYVRS--RLRRKGKGPRRIRQKLKQKGIDREIIEEALE 67 (121)
T ss_dssp HHHHHHHHHHHTTSS-HHHHHHHHHHH--HHHHTT--HHHHHHHHHHTT--HHHHHHHHT
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHH--hcccccccHHHHHHHHHHHCCChHHHHHHHH
Confidence 356788888888875 34444433331 1111222344456778888999888888776
No 137
>cd08784 Death_DRs Death Domain of Death Receptors. Death domain (DD) found in death receptor proteins. Death receptors are members of the tumor necrosis factor (TNF) receptor superfamily, characterized by having a cytoplasmic DD. Known members of the family are Fas (CD95/APO-1), TNF-receptor 1 (TNFR1/TNFRSF1A/p55/CD120a), TNF-related apoptosis-inducing ligand receptor 1 (TRAIL-R1 /DR4), and receptor 2 (TRAIL-R2/DR5/APO-2/KILLER), as well as Death Receptor 3 (DR3/APO-3/TRAMP/WSL-1/LARD). They are involved in apoptosis signaling pathways. 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=20.11 E-value=3.4e+02 Score=21.91 Aligned_cols=39 Identities=10% Similarity=0.026 Sum_probs=25.8
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCCccccCccCHHHHHHHHHH
Q 010686 194 PLLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLEYLLS 236 (504)
Q Consensus 194 ~vl~fL~slG~s~~~I~~il~r~P~lL~~~~~~l~~~l~fL~s 236 (504)
..-.+.+.+||+..+|..|-..+|. . -+...+.+.-|+.
T Consensus 13 ~Wk~laR~LGls~~~I~~ie~~~~~-~---~eq~~~mL~~W~~ 51 (79)
T cd08784 13 QHKRFFRKLGLSDNEIKVAELDNPQ-H---RDRVYELLRIWRN 51 (79)
T ss_pred HHHHHHHHcCCCHHHHHHHHHcCCc-h---HHHHHHHHHHHHh
Confidence 3456677888999988888887776 3 1345555555543
No 138
>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=20.01 E-value=2e+02 Score=24.52 Aligned_cols=21 Identities=14% Similarity=0.555 Sum_probs=10.5
Q ss_pred CChhhHHHHHhhCCcccccCc
Q 010686 239 VKQRDVRRILLRQPQILEYTV 259 (504)
Q Consensus 239 ls~~~l~kil~~~P~lL~~s~ 259 (504)
++.+++..++..+|.++.+.+
T Consensus 71 ~s~~e~i~~l~~~p~LikRPI 91 (110)
T PF03960_consen 71 LSDEELIELLLENPKLIKRPI 91 (110)
T ss_dssp SBHHHHHHHHHHSGGGB-SSE
T ss_pred hhhHHHHHHHHhChhheeCCE
Confidence 455555555555555554443
Done!