Query 015276
Match_columns 410
No_of_seqs 180 out of 316
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 04:46:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015276.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015276hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0796 Spliceosome subunit [R 100.0 1E-84 2.2E-89 636.7 21.1 231 1-240 1-234 (319)
2 PF03194 LUC7: LUC7 N_terminus 100.0 1.2E-83 2.6E-88 622.8 22.9 232 1-239 1-237 (254)
3 COG5200 LUC7 U1 snRNP componen 100.0 1.8E-61 3.9E-66 447.9 14.6 226 2-237 3-230 (258)
4 PF06495 Transformer: Fruit fl 98.7 1.7E-08 3.6E-13 92.6 4.6 29 336-364 107-135 (182)
5 TIGR01642 U2AF_lg U2 snRNP aux 97.7 2.8E-05 6.2E-10 81.4 4.1 24 343-366 109-132 (509)
6 KOG0120 Splicing factor U2AF, 97.5 4.8E-05 1E-09 80.7 2.6 28 337-364 108-138 (500)
7 KOG0796 Spliceosome subunit [R 96.9 0.0068 1.5E-07 61.1 10.5 89 85-176 74-162 (319)
8 KOG2888 Putative RNA binding p 96.2 0.0025 5.4E-08 64.5 2.0 23 152-174 123-145 (453)
9 KOG4676 Splicing factor, argin 95.6 0.0069 1.5E-07 62.5 2.4 38 11-55 39-76 (479)
10 KOG2888 Putative RNA binding p 95.4 0.0069 1.5E-07 61.3 1.7 15 272-286 326-340 (453)
11 KOG4368 Predicted RNA binding 92.7 0.35 7.5E-06 52.5 7.5 23 152-174 249-273 (757)
12 KOG0151 Predicted splicing reg 91.8 0.15 3.2E-06 56.4 3.6 9 3-11 431-439 (877)
13 KOG4676 Splicing factor, argin 90.7 0.12 2.6E-06 53.7 1.5 9 218-226 215-223 (479)
14 KOG3263 Nucleic acid binding p 89.5 0.19 4.1E-06 46.9 1.6 7 393-399 183-189 (196)
15 PF08648 DUF1777: Protein of u 89.4 0.56 1.2E-05 43.3 4.7 6 382-387 134-139 (180)
16 TIGR02302 aProt_lowcomp conser 87.7 1.1 2.4E-05 51.2 6.5 34 138-171 570-603 (851)
17 KOG1847 mRNA splicing factor [ 87.6 0.7 1.5E-05 50.8 4.6 6 216-221 692-697 (878)
18 COG5200 LUC7 U1 snRNP componen 87.6 4.7 0.0001 39.1 9.6 115 92-213 80-200 (258)
19 PHA02562 46 endonuclease subun 87.2 7.6 0.00016 41.5 12.2 15 191-205 283-297 (562)
20 COG1579 Zn-ribbon protein, pos 86.6 4.4 9.5E-05 39.9 9.1 19 93-111 64-82 (239)
21 KOG0835 Cyclin L [General func 86.2 0.9 1.9E-05 46.5 4.2 20 219-238 232-251 (367)
22 PF04012 PspA_IM30: PspA/IM30 86.0 7 0.00015 37.0 10.1 82 91-178 26-107 (221)
23 PF13779 DUF4175: Domain of un 85.0 3.8 8.3E-05 46.8 9.0 35 135-169 537-571 (820)
24 KOG0835 Cyclin L [General func 84.6 0.68 1.5E-05 47.3 2.5 17 135-151 215-231 (367)
25 PRK02224 chromosome segregatio 83.5 15 0.00032 41.8 12.9 12 192-203 451-462 (880)
26 PRK06835 DNA replication prote 82.7 7.3 0.00016 39.8 9.2 67 130-200 37-106 (329)
27 smart00451 ZnF_U1 U1-like zinc 82.3 0.49 1.1E-05 31.7 0.4 28 193-223 4-31 (35)
28 KOG4368 Predicted RNA binding 82.2 1.8 4E-05 47.1 4.8 8 49-56 129-136 (757)
29 PF12171 zf-C2H2_jaz: Zinc-fin 81.5 0.56 1.2E-05 30.2 0.4 25 193-220 2-26 (27)
30 COG0419 SbcC ATPase involved i 81.4 25 0.00055 40.5 13.9 24 192-216 457-480 (908)
31 PF12874 zf-met: Zinc-finger o 78.4 0.67 1.5E-05 28.8 0.0 24 194-220 2-25 (25)
32 KOG0147 Transcriptional coacti 77.5 2 4.3E-05 46.4 3.2 11 368-378 153-163 (549)
33 PRK15058 cytochrome b562; Prov 76.9 8.5 0.00018 34.5 6.5 43 128-170 77-122 (128)
34 PRK09720 cybC cytochrome b562; 76.5 9.8 0.00021 32.7 6.5 42 128-169 49-93 (100)
35 PF07361 Cytochrom_B562: Cytoc 73.5 26 0.00057 29.9 8.5 42 129-170 53-97 (103)
36 PRK01156 chromosome segregatio 73.4 41 0.00088 38.5 12.5 15 192-206 449-463 (895)
37 PF14282 FlxA: FlxA-like prote 73.1 13 0.00028 31.9 6.5 52 126-178 16-67 (106)
38 PRK14143 heat shock protein Gr 71.1 27 0.00058 34.4 9.0 89 126-230 64-158 (238)
39 TIGR02977 phageshock_pspA phag 71.0 40 0.00086 32.2 10.1 78 91-174 27-104 (219)
40 PF12325 TMF_TATA_bd: TATA ele 67.7 84 0.0018 27.8 10.6 70 87-178 15-84 (120)
41 PF03194 LUC7: LUC7 N_terminus 67.4 9.4 0.0002 37.7 5.1 85 91-178 79-165 (254)
42 PF02403 Seryl_tRNA_N: Seryl-t 67.2 15 0.00032 31.0 5.6 50 127-178 41-90 (108)
43 PRK14158 heat shock protein Gr 65.1 49 0.0011 31.6 9.2 92 124-231 35-130 (194)
44 PRK03918 chromosome segregatio 64.7 59 0.0013 36.8 11.4 12 193-204 436-447 (880)
45 PF13863 DUF4200: Domain of un 64.5 23 0.0005 30.4 6.4 53 92-150 50-102 (126)
46 KOG3454 U1 snRNP-specific prot 64.4 8.2 0.00018 35.9 3.7 39 193-234 4-42 (165)
47 PRK14144 heat shock protein Gr 63.1 41 0.0009 32.3 8.3 91 128-234 44-138 (199)
48 COG1675 TFA1 Transcription ini 62.8 24 0.00053 33.2 6.6 36 190-237 130-165 (176)
49 PF06220 zf-U1: U1 zinc finger 61.0 4 8.7E-05 28.9 0.8 32 193-225 4-35 (38)
50 PF01895 PhoU: PhoU domain; I 60.8 57 0.0012 25.1 7.6 82 131-216 1-82 (88)
51 PRK11115 transcriptional regul 60.8 1.2E+02 0.0027 28.5 11.2 81 128-216 125-207 (236)
52 PF03962 Mnd1: Mnd1 family; I 59.5 1.3E+02 0.0027 28.5 10.8 54 125-178 72-126 (188)
53 COG1842 PspA Phage shock prote 58.6 95 0.0021 30.3 10.1 82 91-178 27-108 (225)
54 PRK14148 heat shock protein Gr 58.5 60 0.0013 31.0 8.5 90 128-233 39-133 (195)
55 PRK10698 phage shock protein P 58.4 96 0.0021 30.0 10.1 77 92-174 28-111 (222)
56 TIGR00527 gcvH glycine cleavag 57.2 8.3 0.00018 34.1 2.4 43 346-395 39-81 (127)
57 KOG0113 U1 small nuclear ribon 56.6 13 0.00028 37.9 3.8 9 227-235 154-162 (335)
58 PF04032 Rpr2: RNAse P Rpr2/Rp 56.1 31 0.00066 27.5 5.4 60 137-207 2-61 (85)
59 PRK10246 exonuclease subunit S 54.8 52 0.0011 38.7 9.0 9 193-201 504-512 (1047)
60 PF02151 UVR: UvrB/uvrC motif; 54.4 43 0.00093 23.1 5.1 35 136-170 2-36 (36)
61 PRK10884 SH3 domain-containing 53.9 86 0.0019 30.1 8.8 55 92-148 90-144 (206)
62 PRK14162 heat shock protein Gr 53.6 65 0.0014 30.8 7.9 92 126-233 36-132 (194)
63 PF06495 Transformer: Fruit fl 52.8 15 0.00032 34.6 3.3 11 352-362 133-143 (182)
64 PF04645 DUF603: Protein of un 52.0 27 0.00058 32.9 4.8 71 131-210 107-178 (181)
65 COG3783 CybC Soluble cytochrom 52.0 97 0.0021 26.7 7.7 40 130-169 51-93 (100)
66 PF03962 Mnd1: Mnd1 family; I 51.9 80 0.0017 29.8 8.2 78 89-167 70-147 (188)
67 KOG4552 Vitamin-D-receptor int 51.2 1.1E+02 0.0024 29.9 8.9 46 126-177 47-92 (272)
68 PF12998 ING: Inhibitor of gro 50.8 97 0.0021 25.4 7.8 74 93-167 20-94 (105)
69 PF04423 Rad50_zn_hook: Rad50 49.7 17 0.00036 27.2 2.6 12 194-205 22-33 (54)
70 PF10367 Vps39_2: Vacuolar sor 48.9 34 0.00073 28.0 4.7 12 193-204 79-90 (109)
71 PF10475 DUF2450: Protein of u 48.4 2.6E+02 0.0056 27.8 11.7 82 88-170 67-159 (291)
72 PF13913 zf-C2HC_2: zinc-finge 48.1 11 0.00023 24.2 1.2 20 192-215 2-21 (25)
73 PRK14151 heat shock protein Gr 48.0 71 0.0015 30.0 7.1 90 127-232 18-113 (176)
74 COG4477 EzrA Negative regulato 47.0 1.9E+02 0.0042 31.8 10.9 150 66-238 232-392 (570)
75 PF07544 Med9: RNA polymerase 45.6 1.5E+02 0.0033 24.1 8.0 55 93-150 26-80 (83)
76 PRK14163 heat shock protein Gr 45.5 1E+02 0.0023 29.9 8.0 87 129-233 40-126 (214)
77 PRK14154 heat shock protein Gr 45.5 92 0.002 30.1 7.6 87 130-232 53-145 (208)
78 PF07295 DUF1451: Protein of u 45.0 1.3E+02 0.0029 27.4 8.2 112 89-207 5-127 (146)
79 PF09969 DUF2203: Uncharacteri 44.9 71 0.0015 28.1 6.3 27 125-151 46-72 (120)
80 TIGR01554 major_cap_HK97 phage 44.6 48 0.001 34.0 5.9 43 133-175 3-47 (378)
81 PF10458 Val_tRNA-synt_C: Valy 44.5 82 0.0018 24.5 5.9 59 91-149 7-66 (66)
82 PF04420 CHD5: CHD5-like prote 44.4 80 0.0017 28.9 6.8 54 125-178 36-89 (161)
83 TIGR00570 cdk7 CDK-activating 44.0 66 0.0014 33.0 6.6 26 36-64 25-50 (309)
84 PF02388 FemAB: FemAB family; 43.6 99 0.0021 32.3 8.2 24 126-149 246-269 (406)
85 PF10979 DUF2786: Protein of u 43.4 57 0.0012 23.7 4.5 35 134-170 3-37 (43)
86 KOG2548 SWAP mRNA splicing reg 43.1 10 0.00023 41.1 0.9 8 347-354 492-499 (653)
87 PF06156 DUF972: Protein of un 42.8 1.2E+02 0.0026 26.3 7.2 50 125-174 4-55 (107)
88 PF06005 DUF904: Protein of un 42.5 1.3E+02 0.0029 24.2 6.9 22 129-150 4-25 (72)
89 PRK14147 heat shock protein Gr 42.0 68 0.0015 30.0 6.0 85 132-232 21-108 (172)
90 smart00356 ZnF_C3H1 zinc finge 41.8 11 0.00024 23.4 0.6 23 34-65 4-26 (27)
91 TIGR03185 DNA_S_dndD DNA sulfu 41.7 3.2E+02 0.0069 30.4 12.1 26 125-150 205-230 (650)
92 COG4911 Uncharacterized conser 41.6 1.1E+02 0.0024 26.9 6.7 55 88-150 11-65 (123)
93 PF11931 DUF3449: Domain of un 41.4 8.8 0.00019 36.7 0.0 28 191-221 100-128 (196)
94 PLN02678 seryl-tRNA synthetase 41.3 72 0.0016 34.2 6.8 47 129-177 47-93 (448)
95 PF04111 APG6: Autophagy prote 40.7 68 0.0015 32.6 6.2 23 58-80 4-26 (314)
96 PRK10564 maltose regulon perip 40.5 31 0.00067 35.2 3.7 31 140-170 259-289 (303)
97 KOG1666 V-SNARE [Intracellular 40.5 3.3E+02 0.0071 26.7 10.4 84 82-178 5-88 (220)
98 PF12854 PPR_1: PPR repeat 40.5 32 0.0007 23.1 2.7 21 143-163 12-32 (34)
99 COG2093 DNA-directed RNA polym 40.5 10 0.00022 30.1 0.2 26 191-216 17-52 (64)
100 PF00435 Spectrin: Spectrin re 40.0 1.8E+02 0.0038 22.6 8.0 83 94-178 7-96 (105)
101 PF07743 HSCB_C: HSCB C-termin 39.1 1.9E+02 0.0041 22.7 8.1 50 125-174 27-76 (78)
102 PF06160 EzrA: Septation ring 39.0 4.1E+02 0.0089 29.2 12.3 159 66-239 229-390 (560)
103 PF07106 TBPIP: Tat binding pr 39.0 3E+02 0.0065 25.0 10.9 66 84-154 76-141 (169)
104 PRK05431 seryl-tRNA synthetase 38.7 83 0.0018 33.3 6.7 48 128-177 41-88 (425)
105 COG4467 Regulator of replicati 38.6 1.3E+02 0.0029 26.3 6.7 49 125-178 4-52 (114)
106 PRK11020 hypothetical protein; 38.5 1.9E+02 0.0042 25.6 7.7 22 129-150 31-52 (118)
107 TIGR03077 not_gcvH glycine cle 38.4 24 0.00053 30.6 2.3 43 346-395 33-75 (110)
108 KOG2751 Beclin-like protein [S 38.4 2.4E+02 0.0052 30.3 9.8 116 32-151 74-205 (447)
109 PRK00624 glycine cleavage syst 38.2 24 0.00053 30.8 2.2 43 346-395 35-77 (114)
110 PRK00239 rpsT 30S ribosomal pr 38.0 72 0.0016 26.7 4.9 38 133-170 23-60 (88)
111 TIGR02135 phoU_full phosphate 37.8 3E+02 0.0066 24.7 11.8 83 125-215 112-196 (212)
112 PF06632 XRCC4: DNA double-str 37.5 3E+02 0.0064 28.6 10.3 46 132-177 154-199 (342)
113 smart00787 Spc7 Spc7 kinetocho 37.4 1.4E+02 0.0031 30.4 7.9 34 67-104 120-153 (312)
114 PF08317 Spc7: Spc7 kinetochor 37.2 1.1E+02 0.0023 31.1 7.1 9 66-74 159-167 (325)
115 PF03357 Snf7: Snf7; InterPro 37.0 1.5E+02 0.0033 26.2 7.3 52 126-177 12-63 (171)
116 PF01597 GCV_H: Glycine cleava 36.7 18 0.00039 31.7 1.2 43 346-395 34-76 (122)
117 TIGR02420 dksA RNA polymerase- 36.5 1.9E+02 0.0042 24.6 7.5 13 191-203 79-91 (110)
118 PF08317 Spc7: Spc7 kinetochor 36.1 2.8E+02 0.006 28.1 9.8 23 85-108 140-162 (325)
119 TIGR00414 serS seryl-tRNA synt 36.0 1E+02 0.0022 32.5 6.9 49 129-178 44-92 (418)
120 PF00642 zf-CCCH: Zinc finger 36.0 13 0.00029 24.0 0.2 24 34-66 3-27 (27)
121 PRK11637 AmiB activator; Provi 35.5 1.9E+02 0.0042 30.2 8.9 22 345-366 329-351 (428)
122 PRK13169 DNA replication intia 35.3 1.8E+02 0.004 25.3 7.2 47 125-176 4-50 (110)
123 PF01025 GrpE: GrpE; InterPro 35.2 38 0.00083 30.4 3.1 38 198-235 64-106 (165)
124 TIGR02449 conserved hypothetic 34.4 1E+02 0.0022 24.6 5.0 43 131-178 2-44 (65)
125 smart00787 Spc7 Spc7 kinetocho 34.4 4.3E+02 0.0092 27.0 10.8 44 129-177 211-254 (312)
126 KOG0113 U1 small nuclear ribon 34.3 38 0.00082 34.6 3.1 19 202-220 182-200 (335)
127 PRK14146 heat shock protein Gr 33.9 1.6E+02 0.0036 28.5 7.4 43 190-232 99-146 (215)
128 TIGR00029 S20 ribosomal protei 33.8 92 0.002 26.0 4.9 37 133-169 23-59 (87)
129 PF12329 TMF_DNA_bd: TATA elem 33.6 1.9E+02 0.0041 23.3 6.5 45 128-177 4-48 (74)
130 PRK14160 heat shock protein Gr 33.6 2.7E+02 0.0058 27.0 8.7 41 190-230 106-148 (211)
131 COG5136 U1 snRNP-specific prot 33.6 46 0.00099 31.2 3.3 30 193-223 4-33 (188)
132 PF05529 Bap31: B-cell recepto 33.2 2.5E+02 0.0054 26.0 8.3 37 130-178 155-191 (192)
133 PRK14155 heat shock protein Gr 32.9 1.3E+02 0.0029 28.9 6.6 87 131-233 15-109 (208)
134 PF01649 Ribosomal_S20p: Ribos 32.8 1E+02 0.0022 25.5 5.0 37 133-169 22-58 (84)
135 PRK14141 heat shock protein Gr 32.7 1.8E+02 0.0039 28.2 7.4 43 191-233 77-130 (209)
136 PRK06266 transcription initiat 32.7 20 0.00044 33.5 0.9 35 191-237 135-169 (178)
137 COG1592 Rubrerythrin [Energy p 32.5 2.5E+02 0.0055 26.3 8.1 18 191-209 133-150 (166)
138 PF05700 BCAS2: Breast carcino 32.5 1.8E+02 0.0038 28.0 7.4 80 90-176 138-217 (221)
139 PRK10708 hypothetical protein; 32.0 27 0.00058 27.2 1.3 14 386-399 40-53 (62)
140 PF14282 FlxA: FlxA-like prote 32.0 2E+02 0.0044 24.5 6.9 53 94-148 18-70 (106)
141 PRK12495 hypothetical protein; 31.9 50 0.0011 32.3 3.4 12 192-203 42-53 (226)
142 PLN00204 CP12 gene family prot 30.7 1.4E+02 0.003 26.8 5.7 43 133-175 56-99 (126)
143 PRK11637 AmiB activator; Provi 30.7 3.1E+02 0.0067 28.7 9.4 20 383-402 343-362 (428)
144 PLN03229 acetyl-coenzyme A car 30.0 3E+02 0.0064 31.7 9.4 41 66-108 439-479 (762)
145 TIGR02135 phoU_full phosphate 29.7 2.7E+02 0.0058 25.1 7.8 36 127-162 10-45 (212)
146 KOG0415 Predicted peptidyl pro 29.5 47 0.001 34.8 3.0 16 221-236 360-375 (479)
147 PF04156 IncA: IncA protein; 29.3 4.3E+02 0.0093 24.1 9.2 63 87-149 87-150 (191)
148 KOG3032 Uncharacterized conser 29.2 1.8E+02 0.0038 28.9 6.7 38 143-181 192-229 (264)
149 TIGR00373 conserved hypothetic 29.1 24 0.00051 32.3 0.7 21 191-211 127-147 (158)
150 PRK14150 heat shock protein Gr 29.0 2.3E+02 0.005 26.9 7.4 44 190-233 83-132 (193)
151 COG4499 Predicted membrane pro 29.0 1.9E+02 0.0041 30.7 7.2 74 93-168 335-408 (434)
152 PF09237 GAGA: GAGA factor; I 28.7 18 0.00038 27.7 -0.2 20 191-210 23-42 (54)
153 KOG4302 Microtubule-associated 28.1 2.9E+02 0.0063 31.3 9.0 70 125-200 64-143 (660)
154 PF06008 Laminin_I: Laminin Do 27.7 3.8E+02 0.0083 26.1 9.0 86 84-170 49-138 (264)
155 PRK06424 transcription factor; 27.4 22 0.00049 32.3 0.3 9 195-203 3-11 (144)
156 PF05852 DUF848: Gammaherpesvi 27.4 2E+02 0.0043 26.5 6.3 49 126-174 58-108 (146)
157 KOG1510 RNA polymerase II holo 27.2 4.9E+02 0.011 23.8 10.0 44 125-173 87-130 (139)
158 KOG0132 RNA polymerase II C-te 27.1 50 0.0011 37.7 2.8 13 62-74 432-444 (894)
159 cd00729 rubredoxin_SM Rubredox 27.1 24 0.00052 24.2 0.3 11 191-201 17-27 (34)
160 PF04949 Transcrip_act: Transc 26.8 4.8E+02 0.01 24.2 8.6 89 84-178 42-135 (159)
161 KOG4727 U1-like Zn-finger prot 26.5 23 0.0005 33.4 0.2 32 187-221 70-101 (193)
162 PRK14140 heat shock protein Gr 26.4 3.2E+02 0.007 26.0 7.8 89 128-232 36-129 (191)
163 PF06721 DUF1204: Protein of u 26.4 2E+02 0.0043 27.7 6.3 70 129-201 50-120 (228)
164 PF11587 Prion_bPrPp: Major pr 26.3 17 0.00037 24.5 -0.5 23 40-62 4-26 (29)
165 KOG4360 Uncharacterized coiled 26.3 2.8E+02 0.006 30.6 8.1 137 35-178 141-284 (596)
166 smart00150 SPEC Spectrin repea 26.2 2.8E+02 0.0061 21.3 6.5 50 128-178 44-93 (101)
167 PRK14139 heat shock protein Gr 26.1 3.2E+02 0.007 25.9 7.7 89 128-232 31-122 (185)
168 PF04880 NUDE_C: NUDE protein, 26.1 1E+02 0.0022 28.9 4.3 25 154-178 23-47 (166)
169 PF05597 Phasin: Poly(hydroxya 25.7 3.2E+02 0.007 24.5 7.3 23 128-150 108-130 (132)
170 PF14276 DUF4363: Domain of un 25.6 1.7E+02 0.0036 25.1 5.4 41 130-170 20-60 (121)
171 PF07535 zf-DBF: DBF zinc fing 25.5 35 0.00075 25.6 0.9 41 189-235 2-42 (49)
172 cd07973 Spt4 Transcription elo 25.4 26 0.00056 30.0 0.2 23 192-214 20-42 (98)
173 cd00890 Prefoldin Prefoldin is 25.3 2.2E+02 0.0047 24.1 6.1 40 127-175 4-43 (129)
174 PF15619 Lebercilin: Ciliary p 25.2 5.6E+02 0.012 24.3 9.3 50 129-178 89-141 (194)
175 KOG4797 Transcriptional regula 25.2 1.5E+02 0.0032 26.1 4.8 53 99-159 45-97 (123)
176 PF07106 TBPIP: Tat binding pr 25.2 2.1E+02 0.0046 25.9 6.3 50 129-178 72-132 (169)
177 KOG0978 E3 ubiquitin ligase in 25.2 2.2E+02 0.0049 32.3 7.5 20 188-207 674-693 (698)
178 PF12729 4HB_MCP_1: Four helix 25.0 4.3E+02 0.0092 22.4 9.5 35 127-161 110-144 (181)
179 COG1579 Zn-ribbon protein, pos 25.0 4.4E+02 0.0094 26.1 8.7 26 90-115 54-79 (239)
180 COG0172 SerS Seryl-tRNA synthe 24.9 1.9E+02 0.0042 31.0 6.6 50 128-178 42-91 (429)
181 PF10781 DSRB: Dextransucrase 24.7 43 0.00093 26.1 1.3 14 386-399 40-53 (62)
182 COG0509 GcvH Glycine cleavage 24.6 46 0.001 30.0 1.7 43 346-395 42-84 (131)
183 PF04100 Vps53_N: Vps53-like, 24.6 7.1E+02 0.015 26.0 10.7 25 209-235 144-168 (383)
184 KOG3231 Predicted assembly/vac 24.4 5E+02 0.011 24.6 8.4 41 133-173 33-73 (208)
185 PF13894 zf-C2H2_4: C2H2-type 24.3 37 0.0008 19.8 0.8 19 194-215 2-20 (24)
186 COG2178 Predicted RNA-binding 24.2 5.2E+02 0.011 25.1 8.7 51 126-176 17-67 (204)
187 PRK13729 conjugal transfer pil 24.2 2.5E+02 0.0054 30.5 7.3 45 129-178 76-120 (475)
188 PF12718 Tropomyosin_1: Tropom 24.1 5.2E+02 0.011 23.3 8.4 19 160-178 71-89 (143)
189 PF06632 XRCC4: DNA double-str 23.8 3.1E+02 0.0067 28.5 7.7 43 131-178 139-181 (342)
190 PF05191 ADK_lid: Adenylate ki 23.6 29 0.00063 24.2 0.2 16 189-204 18-33 (36)
191 COG3074 Uncharacterized protei 23.5 4.1E+02 0.0089 21.7 7.3 25 129-153 11-35 (79)
192 KOG0977 Nuclear envelope prote 23.4 6.2E+02 0.013 28.1 10.2 31 209-239 237-267 (546)
193 PF04102 SlyX: SlyX; InterPro 23.4 1.4E+02 0.0029 23.6 4.0 22 128-149 31-52 (69)
194 KOG4005 Transcription factor X 23.3 3.8E+02 0.0082 26.8 7.7 50 127-176 88-146 (292)
195 PLN02943 aminoacyl-tRNA ligase 23.1 1.9E+02 0.0042 33.9 6.8 66 84-150 886-952 (958)
196 PF03119 DNA_ligase_ZBD: NAD-d 23.1 25 0.00054 23.2 -0.2 13 195-207 2-14 (28)
197 PRK14161 heat shock protein Gr 22.9 6.4E+02 0.014 23.7 9.1 40 193-232 67-113 (178)
198 PF01535 PPR: PPR repeat; Int 22.6 1.1E+02 0.0023 18.7 2.8 22 145-166 7-28 (31)
199 PF06825 HSBP1: Heat shock fac 22.6 2.6E+02 0.0057 21.4 5.2 20 88-107 3-22 (54)
200 PF10146 zf-C4H2: Zinc finger- 22.6 6.1E+02 0.013 24.8 9.1 79 86-177 23-103 (230)
201 PF01396 zf-C4_Topoisom: Topoi 22.5 29 0.00063 24.5 0.0 13 193-205 2-14 (39)
202 PRK14153 heat shock protein Gr 22.5 2.6E+02 0.0057 26.7 6.5 87 131-233 35-126 (194)
203 PRK01156 chromosome segregatio 22.4 7.5E+02 0.016 28.4 11.3 10 192-201 452-461 (895)
204 KOG0250 DNA repair protein RAD 22.3 6.1E+02 0.013 30.4 10.3 63 89-151 697-763 (1074)
205 PRK15422 septal ring assembly 22.1 2.6E+02 0.0057 23.2 5.4 38 129-178 4-41 (79)
206 KOG4809 Rab6 GTPase-interactin 22.0 4.6E+02 0.0099 29.2 8.7 127 97-237 396-527 (654)
207 COG1340 Uncharacterized archae 22.0 8.6E+02 0.019 24.9 10.3 72 67-149 111-185 (294)
208 PRK11020 hypothetical protein; 21.9 5.7E+02 0.012 22.7 9.5 54 90-151 7-61 (118)
209 CHL00102 rps20 ribosomal prote 21.8 1.9E+02 0.0042 24.5 4.8 36 134-169 24-66 (93)
210 PHA03161 hypothetical protein; 21.6 2.9E+02 0.0064 25.5 6.3 48 125-172 57-106 (150)
211 smart00746 TRASH metallochaper 21.6 22 0.00048 22.1 -0.7 24 195-220 1-24 (39)
212 PF04645 DUF603: Protein of un 21.4 3.5E+02 0.0076 25.6 6.8 54 125-178 108-161 (181)
213 PF03980 Nnf1: Nnf1 ; InterPr 21.0 5E+02 0.011 21.8 7.9 24 92-115 31-54 (109)
214 KOG0804 Cytoplasmic Zn-finger 20.9 5.5E+02 0.012 27.9 8.9 23 127-149 380-402 (493)
215 KOG4246 Predicted DNA-binding 20.8 54 0.0012 37.8 1.6 7 388-394 422-428 (1194)
216 PF14257 DUF4349: Domain of un 20.7 6.5E+02 0.014 24.4 9.0 54 125-178 128-185 (262)
217 KOG1882 Transcriptional regula 20.6 58 0.0013 32.5 1.6 15 348-362 121-135 (293)
218 PF15500 Toxin_39: Putative RN 20.5 1.1E+02 0.0023 26.0 2.9 11 56-66 29-39 (96)
219 PF10168 Nup88: Nuclear pore c 20.5 5E+02 0.011 29.7 9.1 22 129-150 579-600 (717)
220 KOG0687 26S proteasome regulat 20.5 2.5E+02 0.0054 29.5 6.1 100 46-170 17-117 (393)
221 TIGR02473 flagell_FliJ flagell 20.5 5.4E+02 0.012 21.9 9.7 24 129-152 34-57 (141)
222 TIGR00606 rad50 rad50. This fa 20.5 1.3E+03 0.028 28.1 13.1 122 88-221 577-706 (1311)
223 KOG2801 Probable Rab-GAPs [Int 20.4 36 0.00079 34.8 0.2 21 196-219 402-422 (559)
224 KOG4182 Uncharacterized conser 20.2 3.7E+02 0.008 29.7 7.5 51 126-178 78-128 (828)
225 TIGR00270 conserved hypothetic 20.2 38 0.00083 31.0 0.3 8 195-202 3-10 (154)
226 PF04065 Not3: Not1 N-terminal 20.2 6.7E+02 0.014 24.7 8.9 81 87-172 121-207 (233)
227 PRK04406 hypothetical protein; 20.1 86 0.0019 25.4 2.3 10 130-139 12-21 (75)
228 PF04799 Fzo_mitofusin: fzo-li 20.1 2.3E+02 0.0049 26.7 5.4 46 130-177 121-166 (171)
229 COG3809 Uncharacterized protei 20.1 35 0.00077 28.3 0.1 15 192-206 1-15 (88)
No 1
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=100.00 E-value=1e-84 Score=636.71 Aligned_cols=231 Identities=43% Similarity=0.789 Sum_probs=206.6
Q ss_pred CHH-HHHHHHHhcCCCCCCChhhhhhccccCCCCCCCcchhhcCCChhHhhhhcccCCCCCCCCCcHHHHHHhhcCCCCC
Q 015276 1 MDA-QRALLDELMGAARNLTEEEKKEYKEIKWDDKEVCPFYMVRFCPHDLFVNTRSDLGPCPRIHDQKLKESFEKSPRHD 79 (410)
Q Consensus 1 md~-~RalLDeLMG~~Rn~~~~~r~~~~~~~f~D~~VCk~yLvG~CPhdLF~NTK~DLG~C~kiHd~~lK~~Ye~~~~~~ 79 (410)
|++ ||+|||||||++||..... ..+.|+||+||+||||||||||||+|||+|||+||||||++||++|+.+++..
T Consensus 1 Msa~mR~mLdqLMGs~r~~~~~~----~~v~~~D~~VC~~fLvg~CPHDlF~nTk~dlg~C~kvHd~~lk~~Ye~~~k~~ 76 (319)
T KOG0796|consen 1 MSAQMRAMLDQLMGSNRDGDETR----QRVKFDDPDVCKSFLVGFCPHDLFQNTKMDLGPCPKVHDEALKADYERASKER 76 (319)
T ss_pred CchHHHHHHHHHhCCCcCCCccc----CCCCCCchhHHHHHHhCCCcHHHhhhhhcccCcccchhhHHHHHHHhhchHhh
Confidence 766 9999999999999865432 23799999999999999999999999999999999999999999999999999
Q ss_pred CChhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHH
Q 015276 80 AYVPKFEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEA 159 (410)
Q Consensus 80 ~~~~~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~ 159 (410)
++ +||++|+.+|+.||.+|+++|+++++||+++.|+.+ .....++++|.+|+++|+.|+++||+||++|+|++||+
T Consensus 77 ~~--~~E~d~~~~l~~~v~d~~rri~~~kerL~e~~ee~~--~e~~~k~~~v~~l~e~I~~~l~~~E~LG~eG~Veeaq~ 152 (319)
T KOG0796|consen 77 DY--GYEWDALEILERFVADVDRRIEKAKERLAETVEERS--EEAARKAEKVHELEEKIGKLLEKAEELGEEGNVEEAQK 152 (319)
T ss_pred hh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh--hHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHH
Confidence 99 999999999999999999999999999999865433 23344578999999999999999999999999999999
Q ss_pred HHHHHHHHHH-HHHHHHhhhhhhhh-hhhhhhhccccccccchhhhccchhhHhhhhhcccccccHHHHHHHHHHHHHHH
Q 015276 160 LMRKVEILNV-EKTTLTQQSQNDKV-LMMAQEKKMALCEICGSFLVANDAAERTQSHISGKQHIGYGMVRDFITEYKEAK 237 (410)
Q Consensus 160 lm~kvE~Lk~-Eke~le~~~~~~~~-~~~~~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlGy~kIRe~l~eLke~~ 237 (410)
+|.+||.|++ +++..+.++ .+.+ .+.+++|||+||+||||||+++||++||||||+|||||||++||++|++|++..
T Consensus 153 ~~~e~E~lk~~e~e~~~~~~-~~~~~~~~~~~qkl~VCeVCGa~L~~~D~d~RlaDHf~GKlHlGy~~iR~~l~eLk~~~ 231 (319)
T KOG0796|consen 153 AMKEVEELKAKEKEEAEESY-NTTMPGASAQQQKLRVCEVCGAFLSVNDADRRLADHFGGKLHLGYVLIREKLAELKKEK 231 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHH-ccCcchhhhhhhhhhHHHhhhHHHhccchHHHHHHhhcchHHHHHHHHHHHHHHHHHHH
Confidence 9999999997 555555554 3332 345689999999999999999999999999999999999999999999999987
Q ss_pred HHh
Q 015276 238 EKA 240 (410)
Q Consensus 238 ek~ 240 (410)
.+.
T Consensus 232 ~~~ 234 (319)
T KOG0796|consen 232 AKR 234 (319)
T ss_pred hHH
Confidence 653
No 2
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=100.00 E-value=1.2e-83 Score=622.79 Aligned_cols=232 Identities=44% Similarity=0.827 Sum_probs=211.5
Q ss_pred CHHHHHHHHHhcCCCCCCChhhhhhccccCCCCCCCcchhhcCCChhHhhhhcccCCCCCCCCCcHHHHHHhhcCCCCCC
Q 015276 1 MDAQRALLDELMGAARNLTEEEKKEYKEIKWDDKEVCPFYMVRFCPHDLFVNTRSDLGPCPRIHDQKLKESFEKSPRHDA 80 (410)
Q Consensus 1 md~~RalLDeLMG~~Rn~~~~~r~~~~~~~f~D~~VCk~yLvG~CPhdLF~NTK~DLG~C~kiHd~~lK~~Ye~~~~~~~ 80 (410)
||+||||||||||++||+++..+. ++|+||+|||||||||||||||+|||+||||||||||++||++|++++++.+
T Consensus 1 md~~Ra~LdeLMG~~Rn~~~~~~~----~~f~D~~VCk~~L~g~CPhdLF~nTK~DLG~C~kiHd~~lk~~Ye~~~~~~~ 76 (254)
T PF03194_consen 1 MDEMRAMLDELMGSNRNGDPSKRK----VHFTDPDVCKYFLVGFCPHDLFVNTKSDLGPCPKIHDEALKAEYEKASKKEK 76 (254)
T ss_pred CHHHHHHHHHHcCCccCCCccccC----CCCCCcccCHHHHhCCCcHHHHhhcccccchhhhhcCHHHHHHHHhCccccc
Confidence 899999999999999998765532 7999999999999999999999999999999999999999999999999998
Q ss_pred ChhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHH
Q 015276 81 YVPKFEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEAL 160 (410)
Q Consensus 81 ~~~~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~l 160 (410)
++ +||++|+++|+.||.+||++|++|++||++++++... ......+++|.+|+++|+.+|++||+||++|+|++||++
T Consensus 77 ~~-~YE~e~~~~L~~~i~d~drrI~~~k~RL~~~~~~~~~-~~~~~~~~~i~~l~~~I~~ll~~aE~LGeeG~VdeA~~~ 154 (254)
T PF03194_consen 77 YG-GYEREFLRYLQRLIRDCDRRIERAKERLEQTQEEQAK-EADEEKAEKIDELDEKIGELLKEAEELGEEGDVDEAQKL 154 (254)
T ss_pred cc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccc-chhhhHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence 85 6999999999999999999999999999999865542 223335889999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHh---hhhhh--hhhhhhhhhccccccccchhhhccchhhHhhhhhcccccccHHHHHHHHHHHHH
Q 015276 161 MRKVEILNVEKTTLTQ---QSQND--KVLMMAQEKKMALCEICGSFLVANDAAERTQSHISGKQHIGYGMVRDFITEYKE 235 (410)
Q Consensus 161 m~kvE~Lk~Eke~le~---~~~~~--~~~~~~~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlGy~kIRe~l~eLke 235 (410)
|.+|+.|++++++|++ ++ .+ .+++++++|+|+||+|||||||++||++||+|||+|||||||++||++|++|++
T Consensus 155 ~~~~e~Lk~ek~~le~~~~~~-~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~RladH~~GK~HlGy~~IR~~l~el~e 233 (254)
T PF03194_consen 155 MEEVEKLKEEKEELEKELEEY-RNSIENSAQSQQQKLEVCEVCGAFLSVGDNDRRLADHFGGKQHLGYAKIREKLKELKE 233 (254)
T ss_pred HHHHHHHHHHHHHHHhhhhhh-hhhhhhhhcccccCccchhhhhhHHhccchHHHHHHHhccchhhhHHHHHHHHHHHHH
Confidence 9999999999999998 33 22 223346899999999999999999999999999999999999999999999999
Q ss_pred HHHH
Q 015276 236 AKEK 239 (410)
Q Consensus 236 ~~ek 239 (410)
...+
T Consensus 234 ~~~~ 237 (254)
T PF03194_consen 234 KREE 237 (254)
T ss_pred HHHH
Confidence 8766
No 3
>COG5200 LUC7 U1 snRNP component, mediates U1 snRNP association with cap-binding complex [RNA processing and modification]
Probab=100.00 E-value=1.8e-61 Score=447.89 Aligned_cols=226 Identities=28% Similarity=0.476 Sum_probs=198.3
Q ss_pred HHHHHHHHHhcCCCCCCChhhhhhccccCCCCCCCcchhhcCCChhHhhhhcccCCCCCCCCCcHHHHHHhhcCCCCCCC
Q 015276 2 DAQRALLDELMGAARNLTEEEKKEYKEIKWDDKEVCPFYMVRFCPHDLFVNTRSDLGPCPRIHDQKLKESFEKSPRHDAY 81 (410)
Q Consensus 2 d~~RalLDeLMG~~Rn~~~~~r~~~~~~~f~D~~VCk~yLvG~CPhdLF~NTK~DLG~C~kiHd~~lK~~Ye~~~~~~~~ 81 (410)
++||++|+||||+++..-.. ...++|+|++||+||||||||||||+|||++||+||++|.+++|++|+.+.+..++
T Consensus 3 aeqRkv~eqLmG~~~s~f~~----~r~~hftd~kvC~s~Lvg~CP~dlF~nTk~slGkCp~~H~~k~K~~YeR~~~~~~~ 78 (258)
T COG5200 3 AEQRKVLEQLMGPERSTFDP----CRPTHFTDKKVCISMLVGFCPFDLFRNTKRSLGKCPTSHEEKYKAEYERNGRERAE 78 (258)
T ss_pred hHHHHHHHHHhCCCcccCCC----CCCccccchHHHHHHHHccCcHHHHhccccccCCCcchhHHHHHHHHhhhhhccch
Confidence 78999999999999863222 23468999999999999999999999999999999999999999999999988899
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHH
Q 015276 82 VPKFEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALM 161 (410)
Q Consensus 82 ~~~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm 161 (410)
+||+||+..|..+|.+|+..|..|-.++..|+++- ...+++++.+..+++.|+.|..+++.|...-.|+.|+...
T Consensus 79 --~yEweyl~~L~r~V~~cn~~I~~a~~~~~~t~ee~---~kI~e~~e~~~~~d~sIg~lg~e~dalakrk~V~~a~~~f 153 (258)
T COG5200 79 --EYEWEYLRLLVRIVLSCNDGIRAAGLEDRTTPEEF---GKIKEKEELFNRVDESIGELGMEGDALAKRKLVERACSAF 153 (258)
T ss_pred --hhhHHHHHHHHHHHHHhcchhhhhhhhccCCHHHH---HhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 89999999999999999999999988887765432 2345566666666666666666666666666699999999
Q ss_pred HHHHHHHHHHHHHHhhhhh--hhhhhhhhhhccccccccchhhhccchhhHhhhhhcccccccHHHHHHHHHHHHHHH
Q 015276 162 RKVEILNVEKTTLTQQSQN--DKVLMMAQEKKMALCEICGSFLVANDAAERTQSHISGKQHIGYGMVRDFITEYKEAK 237 (410)
Q Consensus 162 ~kvE~Lk~Eke~le~~~~~--~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlGy~kIRe~l~eLke~~ 237 (410)
.+++.|+.+++++...+ . ++|++++.+|||+||+|||||||.+|||+||||||.||+|+||+++|..|..|.+..
T Consensus 154 ~el~rl~~~rkei~~~v-~sm~en~gq~thqklqvC~iCgayLsrlDtdrrladHf~GklHlGy~~~R~dl~~llk~~ 230 (258)
T COG5200 154 NELERLREERKEIKEAV-YSMVENNGQGTHQKLQVCGICGAYLSRLDTDRRLADHFNGKLHLGYLLVRSDLADLLKKF 230 (258)
T ss_pred HHHHHHHHHHHHHHHHH-HHHhhCcchhhhhhhhhhhhhhhHHHhcchhhHHHHHhccchhhhHHHHHHHHHHHHHHh
Confidence 99999999999998886 4 577889999999999999999999999999999999999999999999999988764
No 4
>PF06495 Transformer: Fruit fly transformer protein; InterPro: IPR010519 This family consists of transformer proteins from several Drosophila species and also from Ceratitis capitata (Mediterranean fruit fly). The transformer locus (tra) produces an RNA processing protein that alternatively splices the doublesex pre-mRNA in the sex determination hierarchy of Drosophila melanogaster [].; GO: 0006397 mRNA processing, 0046660 female sex differentiation, 0005634 nucleus
Probab=98.68 E-value=1.7e-08 Score=92.63 Aligned_cols=29 Identities=21% Similarity=0.204 Sum_probs=24.9
Q ss_pred CCCCCCCcccceeccCCCcccccccccee
Q 015276 336 RSPRSPVRQYYFVETLPSPFHQILLKEKR 364 (410)
Q Consensus 336 r~~r~~~~~y~~~d~~p~g~~~~~~~~~~ 364 (410)
+.++.|...|+||||||+||+||+++.+.
T Consensus 107 R~s~~PkiI~~yv~VPp~gf~~~y~~~~~ 135 (182)
T PF06495_consen 107 RRSRKPKIITKYVDVPPPGFEYAYGWPPP 135 (182)
T ss_pred ccCCCCCeeeeeccCCCcccccccCCCCc
Confidence 35677888899999999999999997655
No 5
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=97.70 E-value=2.8e-05 Score=81.43 Aligned_cols=24 Identities=4% Similarity=0.218 Sum_probs=19.8
Q ss_pred cccceeccCCCccccccccceeee
Q 015276 343 RQYYFVETLPSPFHQILLKEKRVE 366 (410)
Q Consensus 343 ~~y~~~d~~p~g~~~~~~~~~~~~ 366 (410)
+.-..||.+|++|+.+++.+++..
T Consensus 109 ~~~~~~d~~p~~~~~~~~~~~~~~ 132 (509)
T TIGR01642 109 KKRSLWDIKPPGYELVTADQAKAS 132 (509)
T ss_pred ccccccccCCCcccccchHHHhhc
Confidence 345789999999999998887754
No 6
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.51 E-value=4.8e-05 Score=80.66 Aligned_cols=28 Identities=21% Similarity=0.215 Sum_probs=22.2
Q ss_pred CCCCCCcccceeccCCCccccccc---ccee
Q 015276 337 SPRSPVRQYYFVETLPSPFHQILL---KEKR 364 (410)
Q Consensus 337 ~~r~~~~~y~~~d~~p~g~~~~~~---~~~~ 364 (410)
++++-.+++.+||++|+||+++|| |.|.
T Consensus 108 ~~~~~~r~~~~~~~~~~~fe~~~p~~~~~~~ 138 (500)
T KOG0120|consen 108 RSRRYSRKRSLWDVPPEGFETITPDGAKLYK 138 (500)
T ss_pred cccccccchhhhcCCCCCCcccCchhhhhhh
Confidence 333444788999999999999999 6664
No 7
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=96.92 E-value=0.0068 Score=61.07 Aligned_cols=89 Identities=20% Similarity=0.154 Sum_probs=64.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 015276 85 FEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKV 164 (410)
Q Consensus 85 YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kv 164 (410)
++..++--.+ ++..|.+-|.-...+++...+.... ...+..+......++|..|.++|+.|+++-+--++++.+.++
T Consensus 74 k~~~~~~E~d-~~~~l~~~v~d~~rri~~~kerL~e--~~ee~~~e~~~k~~~v~~l~e~I~~~l~~~E~LG~eG~Veea 150 (319)
T KOG0796|consen 74 KERDYGYEWD-ALEILERFVADVDRRIEKAKERLAE--TVEERSEEAARKAEKVHELEEKIGKLLEKAEELGEEGNVEEA 150 (319)
T ss_pred HhhhhhhhHH-HHHHHHHHHHHHHHHHHHHHHHHHh--hhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHH
Confidence 4455544444 8888888888888887654322211 112333444444778999999999999998888889999999
Q ss_pred HHHHHHHHHHHh
Q 015276 165 EILNVEKTTLTQ 176 (410)
Q Consensus 165 E~Lk~Eke~le~ 176 (410)
+.+..+.++|.+
T Consensus 151 q~~~~e~E~lk~ 162 (319)
T KOG0796|consen 151 QKAMKEVEELKA 162 (319)
T ss_pred HHHHHHHHHHHH
Confidence 999999999886
No 8
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=96.18 E-value=0.0025 Score=64.47 Aligned_cols=23 Identities=30% Similarity=0.397 Sum_probs=10.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHH
Q 015276 152 GKVDEAEALMRKVEILNVEKTTL 174 (410)
Q Consensus 152 GeVdeAq~lm~kvE~Lk~Eke~l 174 (410)
|=|.-|.=|+=++=.|+-.+++|
T Consensus 123 givSTAyCLLYklftlklTrKQ~ 145 (453)
T KOG2888|consen 123 GIVSTAYCLLYKLFTLKLTRKQL 145 (453)
T ss_pred cchhhHHHHHHHHHHHHhHHHHH
Confidence 33444444444444444444333
No 9
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=95.60 E-value=0.0069 Score=62.46 Aligned_cols=38 Identities=13% Similarity=-0.010 Sum_probs=17.6
Q ss_pred hcCCCCCCChhhhhhccccCCCCCCCcchhhcCCChhHhhhhccc
Q 015276 11 LMGAARNLTEEEKKEYKEIKWDDKEVCPFYMVRFCPHDLFVNTRS 55 (410)
Q Consensus 11 LMG~~Rn~~~~~r~~~~~~~f~D~~VCk~yLvG~CPhdLF~NTK~ 55 (410)
||+...|++...-....-|.|+|+..- ---.+++||..
T Consensus 39 lyp~~~d~~~pv~sRtcyVkf~d~~sv-------~vaQhLtntvf 76 (479)
T KOG4676|consen 39 LYPNVDDSKIPVISRTCYVKFLDSQSV-------TVAQHLTNTVF 76 (479)
T ss_pred ccCCCCCccCcceeeeEEEeccCCcce-------eHHhhhcccee
Confidence 566665544322111233567776521 11345667764
No 10
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=95.45 E-value=0.0069 Score=61.33 Aligned_cols=15 Identities=40% Similarity=0.747 Sum_probs=6.1
Q ss_pred CCCCcCcCCCchhhh
Q 015276 272 SDRDRYRDRDRDRER 286 (410)
Q Consensus 272 ~~R~~~rdrd~~R~r 286 (410)
+.|++++|+++.|++
T Consensus 326 r~r~r~~Dy~~erg~ 340 (453)
T KOG2888|consen 326 RGREREKDYERERGR 340 (453)
T ss_pred hcccccccCCcccCc
Confidence 334444444444433
No 11
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=92.68 E-value=0.35 Score=52.49 Aligned_cols=23 Identities=13% Similarity=0.287 Sum_probs=13.1
Q ss_pred CCHHHH--HHHHHHHHHHHHHHHHH
Q 015276 152 GKVDEA--EALMRKVEILNVEKTTL 174 (410)
Q Consensus 152 GeVdeA--q~lm~kvE~Lk~Eke~l 174 (410)
|-|-+. .++|..++.|+.+.++.
T Consensus 249 ~~~~~~~~~~~~~~~~~~~~qh~~~ 273 (757)
T KOG4368|consen 249 SSVVQPVQLAFQQQIQTLKTQHEEF 273 (757)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444 34567777776665553
No 12
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=91.79 E-value=0.15 Score=56.36 Aligned_cols=9 Identities=44% Similarity=0.638 Sum_probs=3.9
Q ss_pred HHHHHHHHh
Q 015276 3 AQRALLDEL 11 (410)
Q Consensus 3 ~~RalLDeL 11 (410)
.||+-|+.|
T Consensus 431 ~qRdklE~l 439 (877)
T KOG0151|consen 431 LQRDKLEDL 439 (877)
T ss_pred HHHHHHHHH
Confidence 344444444
No 13
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=90.74 E-value=0.12 Score=53.69 Aligned_cols=9 Identities=22% Similarity=0.479 Sum_probs=5.2
Q ss_pred cccccHHHH
Q 015276 218 KQHIGYGMV 226 (410)
Q Consensus 218 K~HlGy~kI 226 (410)
-||.-|+-|
T Consensus 215 ~qhsr~ai~ 223 (479)
T KOG4676|consen 215 RQHSRRAII 223 (479)
T ss_pred hhhhhhhhc
Confidence 566666555
No 14
>KOG3263 consensus Nucleic acid binding protein [General function prediction only]
Probab=89.49 E-value=0.19 Score=46.90 Aligned_cols=7 Identities=43% Similarity=0.648 Sum_probs=3.2
Q ss_pred eeccCCc
Q 015276 393 FNELGGK 399 (410)
Q Consensus 393 ~~~~~~~ 399 (410)
.|--||-
T Consensus 183 MNR~GGF 189 (196)
T KOG3263|consen 183 MNRKGGF 189 (196)
T ss_pred hccCCCC
Confidence 3444444
No 15
>PF08648 DUF1777: Protein of unknown function (DUF1777); InterPro: IPR013957 This entry shows eukaryotic proteins of unknown function. Some of the proteins are putative nucleic acid binding proteins.
Probab=89.35 E-value=0.56 Score=43.33 Aligned_cols=6 Identities=33% Similarity=0.916 Sum_probs=2.5
Q ss_pred Ccccce
Q 015276 382 GYRPFS 387 (410)
Q Consensus 382 ~~~~~~ 387 (410)
||--|.
T Consensus 134 Gf~gF~ 139 (180)
T PF08648_consen 134 GFGGFG 139 (180)
T ss_pred cccccc
Confidence 444443
No 16
>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302. Members of this family are long (~850 residue) bacterial proteins from the alpha Proteobacteria. Each has 2-3 predicted transmembrane helices near the N-terminus and a long C-terminal region that includes stretches of Gln/Gly-rich low complexity sequence, predicted by TMHMM to be outside the membrane. In Bradyrhizobium japonicum, two tandem reading frames are together homologous the single members found in other species; the cutoffs scores are set low enough that the longer scores above the trusted cutoff and the shorter above the noise cutoff for this model.
Probab=87.69 E-value=1.1 Score=51.18 Aligned_cols=34 Identities=24% Similarity=0.531 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHH
Q 015276 138 IKNLLEQVETLGEAGKVDEAEALMRKVEILNVEK 171 (410)
Q Consensus 138 I~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Ek 171 (410)
+..||.+||+|.++|..++|+.++.+++.+.+-.
T Consensus 570 Lq~Mmd~ieela~~G~~~~A~qlL~qlq~mmenl 603 (851)
T TIGR02302 570 LQNMMDQIENLARSGDRDQAKQLLSQLQQMMNNL 603 (851)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence 7799999999999999999999999998886544
No 17
>KOG1847 consensus mRNA splicing factor [RNA processing and modification]
Probab=87.57 E-value=0.7 Score=50.76 Aligned_cols=6 Identities=67% Similarity=1.237 Sum_probs=3.4
Q ss_pred cccccc
Q 015276 216 SGKQHI 221 (410)
Q Consensus 216 ~GK~Hl 221 (410)
+|+-|+
T Consensus 692 sg~R~l 697 (878)
T KOG1847|consen 692 SGKRHL 697 (878)
T ss_pred CCCCcC
Confidence 555555
No 18
>COG5200 LUC7 U1 snRNP component, mediates U1 snRNP association with cap-binding complex [RNA processing and modification]
Probab=87.55 E-value=4.7 Score=39.08 Aligned_cols=115 Identities=14% Similarity=0.098 Sum_probs=74.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHH----HHHHHHHHHH
Q 015276 92 FCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEA----EALMRKVEIL 167 (410)
Q Consensus 92 ~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeA----q~lm~kvE~L 167 (410)
|--.++..+.+-+.....++.....+ ...+++...+|+++++.|+-+-..|+.||.+|+--.- ...+....+|
T Consensus 80 yEweyl~~L~r~V~~cn~~I~~a~~~---~~~t~ee~~kI~e~~e~~~~~d~sIg~lg~e~dalakrk~V~~a~~~f~el 156 (258)
T COG5200 80 YEWEYLRLLVRIVLSCNDGIRAAGLE---DRTTPEEFGKIKEKEELFNRVDESIGELGMEGDALAKRKLVERACSAFNEL 156 (258)
T ss_pred hhHHHHHHHHHHHHHhcchhhhhhhh---ccCCHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 66678888888888887777543211 1356788899999999999999999999999873222 2233344445
Q ss_pred HHHHHHHHhhhhhhhhhh--hhhhhccccccccchhhhccchhhHhhh
Q 015276 168 NVEKTTLTQQSQNDKVLM--MAQEKKMALCEICGSFLVANDAAERTQS 213 (410)
Q Consensus 168 k~Eke~le~~~~~~~~~~--~~~~qkl~VCeVCGA~Ls~~D~d~Rl~d 213 (410)
+.-+.+.+.-+ .+-.++ ..+|..-+.=+|||.. +-+-.||+.
T Consensus 157 ~rl~~~rkei~-~~v~sm~en~gq~thqklqvC~iC---gayLsrlDt 200 (258)
T COG5200 157 ERLREERKEIK-EAVYSMVENNGQGTHQKLQVCGIC---GAYLSRLDT 200 (258)
T ss_pred HHHHHHHHHHH-HHHHHHhhCcchhhhhhhhhhhhh---hhHHHhcch
Confidence 54444444433 222222 3445667888999965 445567654
No 19
>PHA02562 46 endonuclease subunit; Provisional
Probab=87.16 E-value=7.6 Score=41.47 Aligned_cols=15 Identities=20% Similarity=0.503 Sum_probs=11.3
Q ss_pred ccccccccchhhhcc
Q 015276 191 KMALCEICGSFLVAN 205 (410)
Q Consensus 191 kl~VCeVCGA~Ls~~ 205 (410)
.-.+|++||.-+...
T Consensus 283 ~~~~Cp~C~~~~~~~ 297 (562)
T PHA02562 283 KGGVCPTCTQQISEG 297 (562)
T ss_pred CCCCCCCCCCcCCCc
Confidence 346999999887544
No 20
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=86.56 E-value=4.4 Score=39.86 Aligned_cols=19 Identities=26% Similarity=0.588 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 015276 93 CEKLVMDLDRRVRRGRERL 111 (410)
Q Consensus 93 L~~lI~d~DrkI~~~k~RL 111 (410)
++.=|.++..||.++...|
T Consensus 64 ~e~ei~~~r~r~~~~e~kl 82 (239)
T COG1579 64 LESEIQEIRERIKRAEEKL 82 (239)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5555666666666666666
No 21
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=86.18 E-value=0.9 Score=46.47 Aligned_cols=20 Identities=10% Similarity=0.180 Sum_probs=13.7
Q ss_pred ccccHHHHHHHHHHHHHHHH
Q 015276 219 QHIGYGMVRDFITEYKEAKE 238 (410)
Q Consensus 219 ~HlGy~kIRe~l~eLke~~e 238 (410)
--.-|..|+..++.++.+..
T Consensus 232 ~~p~~~li~~~vd~~k~~~~ 251 (367)
T KOG0835|consen 232 AKPDETLIEAFVDRLKRKFS 251 (367)
T ss_pred cccCHHHHHHHHHHhhHHHH
Confidence 34557778888888877443
No 22
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=85.98 E-value=7 Score=37.01 Aligned_cols=82 Identities=22% Similarity=0.297 Sum_probs=67.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Q 015276 91 QFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVE 170 (410)
Q Consensus 91 ~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~E 170 (410)
..|..+|.+++.-|..++.-|.... ........++..+...|..+..+|+.....|+=+-|...+.+...+..+
T Consensus 26 ~~l~q~ird~e~~l~~a~~~~a~~~------a~~~~le~~~~~~~~~~~~~~~~A~~Al~~g~edLAr~al~~k~~~e~~ 99 (221)
T PF04012_consen 26 KMLEQAIRDMEEQLRKARQALARVM------ANQKRLERKLDEAEEEAEKWEKQAELALAAGREDLAREALQRKADLEEQ 99 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence 7789999999999999998887542 2345567889999999999999999999999999998888777777777
Q ss_pred HHHHHhhh
Q 015276 171 KTTLTQQS 178 (410)
Q Consensus 171 ke~le~~~ 178 (410)
...++..+
T Consensus 100 ~~~l~~~~ 107 (221)
T PF04012_consen 100 AERLEQQL 107 (221)
T ss_pred HHHHHHHH
Confidence 77666654
No 23
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=85.02 E-value=3.8 Score=46.81 Aligned_cols=35 Identities=20% Similarity=0.588 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHH
Q 015276 135 EEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNV 169 (410)
Q Consensus 135 eekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~ 169 (410)
...+..||.+||+|.++|..++|+.++.+++.+.+
T Consensus 537 ~~dL~~mmd~ie~la~~G~~~~A~q~L~qlq~mme 571 (820)
T PF13779_consen 537 QQDLQRMMDRIEELARSGRMDEARQLLEQLQQMME 571 (820)
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 44567999999999999999999999998888765
No 24
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=84.56 E-value=0.68 Score=47.31 Aligned_cols=17 Identities=12% Similarity=0.161 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHhhc
Q 015276 135 EEKIKNLLEQVETLGEA 151 (410)
Q Consensus 135 eekI~~Ll~eaEeLGee 151 (410)
.++|..+.-....|-..
T Consensus 215 k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 215 KREIDEICYRLIPLYKR 231 (367)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 33444444444444444
No 25
>PRK02224 chromosome segregation protein; Provisional
Probab=83.51 E-value=15 Score=41.82 Aligned_cols=12 Identities=25% Similarity=0.567 Sum_probs=9.6
Q ss_pred cccccccchhhh
Q 015276 192 MALCEICGSFLV 203 (410)
Q Consensus 192 l~VCeVCGA~Ls 203 (410)
..+|++||..+.
T Consensus 451 ~~~Cp~C~r~~~ 462 (880)
T PRK02224 451 AGKCPECGQPVE 462 (880)
T ss_pred cccCCCCCCcCC
Confidence 479999998654
No 26
>PRK06835 DNA replication protein DnaC; Validated
Probab=82.68 E-value=7.3 Score=39.77 Aligned_cols=67 Identities=15% Similarity=0.172 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccch
Q 015276 130 QLSVLEEKIKNLLEQVETLGEAGK---VDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGS 200 (410)
Q Consensus 130 eI~~LeekI~~Ll~eaEeLGeeGe---VdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA 200 (410)
+|.+|+.+|..+-.++-...-.|+ -+....+-+++..|++++.+|-... .-+ ...-..-..|+.|+=
T Consensus 37 ~~~~id~~i~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~~lL~~~-g~~---~dyl~~~y~Cp~C~d 106 (329)
T PRK06835 37 EIAEIDDEIAKLGIKLSRAILKNPDKKEETLKELKEKITDLRVKKAELLVSN-GYP---PDYLEMKYTCPKCKD 106 (329)
T ss_pred cHHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHHHHHHHc-CCC---hhhcCCCCCCCCCCC
Confidence 466777777766555544444555 4455567788888888888776653 110 001122257999974
No 27
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=82.31 E-value=0.49 Score=31.68 Aligned_cols=28 Identities=21% Similarity=0.538 Sum_probs=21.0
Q ss_pred ccccccchhhhccchhhHhhhhhcccccccH
Q 015276 193 ALCEICGSFLVANDAAERTQSHISGKQHIGY 223 (410)
Q Consensus 193 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlGy 223 (410)
.-|++|+..+. +..=+..|+.||.|.--
T Consensus 4 ~~C~~C~~~~~---~~~~~~~H~~gk~H~~~ 31 (35)
T smart00451 4 FYCKLCNVTFT---DEISVEAHLKGKKHKKN 31 (35)
T ss_pred eEccccCCccC---CHHHHHHHHChHHHHHH
Confidence 45999999755 33445999999999543
No 28
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=82.22 E-value=1.8 Score=47.14 Aligned_cols=8 Identities=38% Similarity=0.725 Sum_probs=4.0
Q ss_pred hhhhcccC
Q 015276 49 LFVNTRSD 56 (410)
Q Consensus 49 LF~NTK~D 56 (410)
+|.|.+++
T Consensus 129 ~f~~~~s~ 136 (757)
T KOG4368|consen 129 MFSNAKSP 136 (757)
T ss_pred hhhcCCCc
Confidence 35555554
No 29
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=81.46 E-value=0.56 Score=30.16 Aligned_cols=25 Identities=20% Similarity=0.700 Sum_probs=20.7
Q ss_pred ccccccchhhhccchhhHhhhhhccccc
Q 015276 193 ALCEICGSFLVANDAAERTQSHISGKQH 220 (410)
Q Consensus 193 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H 220 (410)
..|++|+..++ ++.=+..|+.||.|
T Consensus 2 ~~C~~C~k~f~---~~~~~~~H~~sk~H 26 (27)
T PF12171_consen 2 FYCDACDKYFS---SENQLKQHMKSKKH 26 (27)
T ss_dssp CBBTTTTBBBS---SHHHHHCCTTSHHH
T ss_pred CCcccCCCCcC---CHHHHHHHHccCCC
Confidence 57999997644 66779999999988
No 30
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=81.42 E-value=25 Score=40.45 Aligned_cols=24 Identities=17% Similarity=0.303 Sum_probs=17.4
Q ss_pred cccccccchhhhccchhhHhhhhhc
Q 015276 192 MALCEICGSFLVANDAAERTQSHIS 216 (410)
Q Consensus 192 l~VCeVCGA~Ls~~D~d~Rl~dH~~ 216 (410)
...|+|||.-|--. .+..+.+|+.
T Consensus 457 ~~~CPvCg~~l~~~-~~~~~~~~~~ 480 (908)
T COG0419 457 GEKCPVCGQELPEE-HEKELLELYE 480 (908)
T ss_pred CCCCCCCCCCCCcH-HHHHHHHHHH
Confidence 47899999665433 3677888888
No 31
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=78.37 E-value=0.67 Score=28.84 Aligned_cols=24 Identities=25% Similarity=0.699 Sum_probs=19.4
Q ss_pred cccccchhhhccchhhHhhhhhccccc
Q 015276 194 LCEICGSFLVANDAAERTQSHISGKQH 220 (410)
Q Consensus 194 VCeVCGA~Ls~~D~d~Rl~dH~~GK~H 220 (410)
.|+||+.-.. +..=+..|+.||.|
T Consensus 2 ~C~~C~~~f~---s~~~~~~H~~s~~H 25 (25)
T PF12874_consen 2 YCDICNKSFS---SENSLRQHLRSKKH 25 (25)
T ss_dssp EETTTTEEES---SHHHHHHHHTTHHH
T ss_pred CCCCCCCCcC---CHHHHHHHHCcCCC
Confidence 6999987644 55679999999987
No 32
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=77.50 E-value=2 Score=46.43 Aligned_cols=11 Identities=18% Similarity=0.138 Sum_probs=5.7
Q ss_pred eeeeecchhhh
Q 015276 368 RVFLELKFQKW 378 (410)
Q Consensus 368 ~~~~~~~~~~~ 378 (410)
+-|---.|++|
T Consensus 153 r~~r~~~~kr~ 163 (549)
T KOG0147|consen 153 RDFRDHPRKRS 163 (549)
T ss_pred ccccCCccccC
Confidence 34444556666
No 33
>PRK15058 cytochrome b562; Provisional
Probab=76.92 E-value=8.5 Score=34.49 Aligned_cols=43 Identities=23% Similarity=0.291 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHH---HHHHhhcCCHHHHHHHHHHHHHHHHH
Q 015276 128 SEQLSVLEEKIKNLLEQ---VETLGEAGKVDEAEALMRKVEILNVE 170 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~e---aEeLGeeGeVdeAq~lm~kvE~Lk~E 170 (410)
..++..+.+-++.|+.+ ++.|.++|++++|.....++..|+.+
T Consensus 77 s~e~K~Y~~G~d~Li~qID~a~~la~~GkL~eAK~~a~~l~~lR~e 122 (128)
T PRK15058 77 SPEMKDFRHGFDILVGQIDGALKLANEGKVKEAQAAAEQLKTTRNA 122 (128)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 34566666666666554 56799999999999998888888754
No 34
>PRK09720 cybC cytochrome b562; Provisional
Probab=76.48 E-value=9.8 Score=32.73 Aligned_cols=42 Identities=24% Similarity=0.321 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHH---HHHhhcCCHHHHHHHHHHHHHHHH
Q 015276 128 SEQLSVLEEKIKNLLEQV---ETLGEAGKVDEAEALMRKVEILNV 169 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~ea---EeLGeeGeVdeAq~lm~kvE~Lk~ 169 (410)
..++.....-+..|+.+| ..|.++|+++||.....++-.++.
T Consensus 49 s~e~K~y~~Gld~lI~qID~A~~La~~GkL~eAK~~a~~l~~~Rn 93 (100)
T PRK09720 49 SPEMKDFRHGFDILVGQIDDALKLANEGKVKEAQAAAEQLKTTRN 93 (100)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 456667776666666655 569999999999987766666554
No 35
>PF07361 Cytochrom_B562: Cytochrome b562; InterPro: IPR009155 Cytochrome b562 is a haem-containing protein that is expressed in the periplasm of Escherichia coli. In b-type cytochromes, the haem atom is not covalently attached to the polypeptide. Cytochrome b562 has a four-helical bundle structure that is structurally similar to that found in members of the cytochrome c family (IPR002321 from INTERPRO). Cytochrome b562 has a reduction potential of 167 mV, which sets the energy yield possible in metabolism and is also a key determinant of the rate at which redox reactions proceed [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0042597 periplasmic space; PDB: 4ER9_A 3IQ6_G 2QLA_B 3FOO_A 3M79_C 256B_A 3NMI_F 3HNK_A 3NMK_D 2BC5_A ....
Probab=73.53 E-value=26 Score=29.85 Aligned_cols=42 Identities=36% Similarity=0.597 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHH---HHHHHHhhcCCHHHHHHHHHHHHHHHHH
Q 015276 129 EQLSVLEEKIKNLL---EQVETLGEAGKVDEAEALMRKVEILNVE 170 (410)
Q Consensus 129 eeI~~LeekI~~Ll---~eaEeLGeeGeVdeAq~lm~kvE~Lk~E 170 (410)
.++..+.+-++.|+ ..|+.|.++|++++|...+.++..|+.+
T Consensus 53 ~~~~~Y~~Gl~~li~~id~a~~~~~~G~l~~AK~~l~~l~~lR~e 97 (103)
T PF07361_consen 53 AEVKDYQEGLDKLIDQIDKAEALAEAGKLDEAKAALKKLDDLRKE 97 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 44555666555554 4566799999999999999999999875
No 36
>PRK01156 chromosome segregation protein; Provisional
Probab=73.44 E-value=41 Score=38.49 Aligned_cols=15 Identities=7% Similarity=0.011 Sum_probs=9.8
Q ss_pred cccccccchhhhccc
Q 015276 192 MALCEICGSFLVAND 206 (410)
Q Consensus 192 l~VCeVCGA~Ls~~D 206 (410)
|.+|+||+..+.-.+
T Consensus 449 l~~~~~Cp~c~~~~~ 463 (895)
T PRK01156 449 LNGQSVCPVCGTTLG 463 (895)
T ss_pred hccCCCCCCCCCcCC
Confidence 336777777766555
No 37
>PF14282 FlxA: FlxA-like protein
Probab=73.07 E-value=13 Score=31.89 Aligned_cols=52 Identities=27% Similarity=0.445 Sum_probs=35.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 126 EKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 126 ~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
.....|..|..+|..|.+++..|......+ +.....+++.|+.+...|+.++
T Consensus 16 ~~~~~I~~L~~Qi~~Lq~ql~~l~~~~~~~-~e~k~~q~q~Lq~QI~~LqaQI 67 (106)
T PF14282_consen 16 SSDSQIEQLQKQIKQLQEQLQELSQDSDLD-AEQKQQQIQLLQAQIQQLQAQI 67 (106)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHcccCCC-HHHHHHHHHHHHHHHHHHHHHH
Confidence 347889999999999999999999954421 2223455555555555555554
No 38
>PRK14143 heat shock protein GrpE; Provisional
Probab=71.06 E-value=27 Score=34.37 Aligned_cols=89 Identities=15% Similarity=0.270 Sum_probs=58.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhcc
Q 015276 126 EKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVAN 205 (410)
Q Consensus 126 ~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~ 205 (410)
....++..|+.+|..+-+++++|- +.-+.+.+..+-+++- .+++. ....+..++.+.-.+|-+.
T Consensus 64 ~~~~~~~~l~~el~~l~~e~~elk-----d~~lR~~AdfeN~RKR---~~kE~--------e~~~~~a~~~~~~~lLpV~ 127 (238)
T PRK14143 64 DNAARLAQLEQELESLKQELEELN-----SQYMRIAADFDNFRKR---TSREQ--------EDLRLQLKCNTLSEILPVV 127 (238)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHH---HHHHH--------HHHHHHHHHHHHHHHHHHH
Confidence 345678888888888888888774 3345555555555432 22211 0123456788999999999
Q ss_pred chhhHhhhhhcc------cccccHHHHHHHH
Q 015276 206 DAAERTQSHISG------KQHIGYGMVRDFI 230 (410)
Q Consensus 206 D~d~Rl~dH~~G------K~HlGy~kIRe~l 230 (410)
|+-.|.-.|+.. .++-||..|.+.|
T Consensus 128 DnLerAl~~~~~~~~~~~~l~~Gve~i~k~l 158 (238)
T PRK14143 128 DNFERARQQLKPEGEEAQALHRSYQGLYKQL 158 (238)
T ss_pred hHHHHHHhcccccchhHHHHHHHHHHHHHHH
Confidence 999998777743 3677887774443
No 39
>TIGR02977 phageshock_pspA phage shock protein A. Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.
Probab=71.04 E-value=40 Score=32.25 Aligned_cols=78 Identities=15% Similarity=0.193 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Q 015276 91 QFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVE 170 (410)
Q Consensus 91 ~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~E 170 (410)
..|..+|.+++.-|..++.-|+... ........++..+...|...-.+++.....|+=+-|...+.+.......
T Consensus 27 ~~l~q~irem~~~l~~ar~~lA~~~------a~~k~~e~~~~~~~~~~~~~~~~A~~Al~~G~EdLAr~Al~~k~~~~~~ 100 (219)
T TIGR02977 27 KMIRLIIQEMEDTLVEVRTTSARTI------ADKKELERRVSRLEAQVADWQEKAELALSKGREDLARAALIEKQKAQEL 100 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 4578888888888888887776532 1234556789999999999999999999999988887664444333333
Q ss_pred HHHH
Q 015276 171 KTTL 174 (410)
Q Consensus 171 ke~l 174 (410)
...|
T Consensus 101 ~~~l 104 (219)
T TIGR02977 101 AEAL 104 (219)
T ss_pred HHHH
Confidence 3333
No 40
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=67.66 E-value=84 Score=27.75 Aligned_cols=70 Identities=27% Similarity=0.326 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 015276 87 AELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEI 166 (410)
Q Consensus 87 ~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~ 166 (410)
--++..|+.-|+.++--|...+..|+. ...+-+.+.++|-.++.+.+++ .....++..
T Consensus 15 ~~~ve~L~s~lr~~E~E~~~l~~el~~-------------l~~~r~~l~~Eiv~l~~~~e~~---------~~~~~~~~~ 72 (120)
T PF12325_consen 15 VQLVERLQSQLRRLEGELASLQEELAR-------------LEAERDELREEIVKLMEENEEL---------RALKKEVEE 72 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHH
Confidence 346677888888888888888777742 2234456677777777777666 335555666
Q ss_pred HHHHHHHHHhhh
Q 015276 167 LNVEKTTLTQQS 178 (410)
Q Consensus 167 Lk~Eke~le~~~ 178 (410)
|+.+.++|+..+
T Consensus 73 L~~el~~l~~ry 84 (120)
T PF12325_consen 73 LEQELEELQQRY 84 (120)
T ss_pred HHHHHHHHHHHH
Confidence 666666666554
No 41
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=67.44 E-value=9.4 Score=37.71 Aligned_cols=85 Identities=18% Similarity=0.168 Sum_probs=65.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHH--HHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHH
Q 015276 91 QFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSV--LEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILN 168 (410)
Q Consensus 91 ~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~--LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk 168 (410)
.|-..++..|++-|...-.|++...+.....+... ..... ..++|..|..+|..|..+-+.-++++.+.+++.+.
T Consensus 79 ~YE~e~~~~L~~~i~d~drrI~~~k~RL~~~~~~~---~~~~~~~~~~~i~~l~~~I~~ll~~aE~LGeeG~VdeA~~~~ 155 (254)
T PF03194_consen 79 GYEREFLRYLQRLIRDCDRRIERAKERLEQTQEEQ---AKEADEEKAEKIDELDEKIGELLKEAEELGEEGDVDEAQKLM 155 (254)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccc---ccchhhhHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence 58889999999999999999987653222111111 11112 28899999999999999988888899999999999
Q ss_pred HHHHHHHhhh
Q 015276 169 VEKTTLTQQS 178 (410)
Q Consensus 169 ~Eke~le~~~ 178 (410)
.+.+.|..+.
T Consensus 156 ~~~e~Lk~ek 165 (254)
T PF03194_consen 156 EEVEKLKEEK 165 (254)
T ss_pred HHHHHHHHHH
Confidence 9999998775
No 42
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=67.17 E-value=15 Score=30.96 Aligned_cols=50 Identities=28% Similarity=0.375 Sum_probs=39.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 127 KSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 127 ~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
...++..+..+-+.+.++|-.+...| +++..+++++..++.+...++.+.
T Consensus 41 l~~~~e~lr~~rN~~sk~I~~~~~~~--~~~~~l~~e~~~lk~~i~~le~~~ 90 (108)
T PF02403_consen 41 LQQELEELRAERNELSKEIGKLKKAG--EDAEELKAEVKELKEEIKELEEQL 90 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCHTT--CCTHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhHHHHHHHHHhhCc--ccHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567777888888888888888888 667778888888888888887765
No 43
>PRK14158 heat shock protein GrpE; Provisional
Probab=65.14 E-value=49 Score=31.61 Aligned_cols=92 Identities=14% Similarity=0.095 Sum_probs=56.7
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhh
Q 015276 124 SAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLV 203 (410)
Q Consensus 124 ~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls 203 (410)
.....+++..++++|..+-+++++|-+ .-+.+.++.+-++. ..+++. . ..++..+-.++-.+|-
T Consensus 35 ~~~~~~~~~~le~~l~~le~e~~el~d-----~~lR~~AefeN~Rk---R~~kE~-e-------~~~~~a~~~~~~~lLp 98 (194)
T PRK14158 35 PVAAADRIKELEEALAAKEAEAAANWD-----KYLRERADLENYRK---RVQKEK-E-------ELLKYGNESLILEILP 98 (194)
T ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHH---HHHHHH-H-------HHHHHHHHHHHHHHHh
Confidence 445567788899999998888888843 34444444444432 222221 0 1234456678889999
Q ss_pred ccchhhHhhhhhcc----cccccHHHHHHHHH
Q 015276 204 ANDAAERTQSHISG----KQHIGYGMVRDFIT 231 (410)
Q Consensus 204 ~~D~d~Rl~dH~~G----K~HlGy~kIRe~l~ 231 (410)
+.|+-.|.-.|... .++-|+..|...+.
T Consensus 99 V~DnLerAl~~~~~~~~~~i~~Gv~mi~k~l~ 130 (194)
T PRK14158 99 AVDNMERALDHADEESMSAIIEGIRMTLSMLL 130 (194)
T ss_pred HHhHHHHHHhccCcchHHHHHHHHHHHHHHHH
Confidence 99999997677542 24555555544433
No 44
>PRK03918 chromosome segregation protein; Provisional
Probab=64.69 E-value=59 Score=36.82 Aligned_cols=12 Identities=33% Similarity=0.847 Sum_probs=8.6
Q ss_pred ccccccchhhhc
Q 015276 193 ALCEICGSFLVA 204 (410)
Q Consensus 193 ~VCeVCGA~Ls~ 204 (410)
-||++||.-|.-
T Consensus 436 ~~Cp~c~~~L~~ 447 (880)
T PRK03918 436 GKCPVCGRELTE 447 (880)
T ss_pred CCCCCCCCcCCc
Confidence 478888877653
No 45
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=64.51 E-value=23 Score=30.37 Aligned_cols=53 Identities=19% Similarity=0.340 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 92 FCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGE 150 (410)
Q Consensus 92 ~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGe 150 (410)
-+..||.+++.+..+|..+.+... .....+..+|..|..+|..|-.++..|.+
T Consensus 50 ~f~~flken~~k~~rA~k~a~~e~------k~~~~k~~ei~~l~~~l~~l~~~~~k~e~ 102 (126)
T PF13863_consen 50 KFDKFLKENEAKRERAEKRAEEEK------KKKEEKEAEIKKLKAELEELKSEISKLEE 102 (126)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567788888888888877776432 12233444555555555555555444433
No 46
>KOG3454 consensus U1 snRNP-specific protein C [RNA processing and modification]
Probab=64.38 E-value=8.2 Score=35.90 Aligned_cols=39 Identities=21% Similarity=0.576 Sum_probs=30.5
Q ss_pred ccccccchhhhccchhhHhhhhhcccccccHHHHHHHHHHHH
Q 015276 193 ALCEICGSFLVANDAAERTQSHISGKQHIGYGMVRDFITEYK 234 (410)
Q Consensus 193 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlGy~kIRe~l~eLk 234 (410)
.-||-|-.||. +|+..=--.|.+|+.|+--++ ..+.+..
T Consensus 4 YyCDYCdt~Lt-hDslsvRK~H~~GrkH~~nvk--~YY~k~~ 42 (165)
T KOG3454|consen 4 YYCDYCDTYLT-HDSLSVRKTHCGGRKHKDNVK--DYYQKWM 42 (165)
T ss_pred chhhhhhhhhh-cccHHHHHhhhhhHHHHHHHH--HHHHHHH
Confidence 46999999986 899999999999999986444 3444433
No 47
>PRK14144 heat shock protein GrpE; Provisional
Probab=63.06 E-value=41 Score=32.26 Aligned_cols=91 Identities=11% Similarity=0.162 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccch
Q 015276 128 SEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVANDA 207 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~ 207 (410)
..++..++++|..+-+++++|- +..+.+.++.+-++.- ++.+. . ...+..+=.++-++|-+.|+
T Consensus 44 ~~~~~~l~~~i~~le~e~~elk-----dk~lR~~AefeN~RKR---~~kE~-e-------~~~~~a~~~~~~~LLpV~Dn 107 (199)
T PRK14144 44 HPSYTALEEQLTLAEQKAHENW-----EKSVRALAELENVRRR---MEREV-A-------NAHKYGVEKLISALLPVVDS 107 (199)
T ss_pred chhHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHH---HHHHH-H-------HHHHHHHHHHHHHHhhHHhH
Confidence 3456678888888888888773 4556666666666432 22221 0 11122333578899999999
Q ss_pred hhHhhhhhc----ccccccHHHHHHHHHHHH
Q 015276 208 AERTQSHIS----GKQHIGYGMVRDFITEYK 234 (410)
Q Consensus 208 d~Rl~dH~~----GK~HlGy~kIRe~l~eLk 234 (410)
-.|.-.|.. +.++-|+..|...+...-
T Consensus 108 LerAl~~~~~~~~~~i~~Gv~mi~k~l~~~L 138 (199)
T PRK14144 108 LEQALQLADKNSDPSMHEGLELTMKLFLDAL 138 (199)
T ss_pred HHHHHHcccccchhHHHHHHHHHHHHHHHHH
Confidence 999766653 446778887766555443
No 48
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=62.77 E-value=24 Score=33.18 Aligned_cols=36 Identities=22% Similarity=0.275 Sum_probs=28.6
Q ss_pred hccccccccchhhhccchhhHhhhhhcccccccHHHHHHHHHHHHHHH
Q 015276 190 KKMALCEICGSFLVANDAAERTQSHISGKQHIGYGMVRDFITEYKEAK 237 (410)
Q Consensus 190 qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlGy~kIRe~l~eLke~~ 237 (410)
...++|+.||+-|--.|+.. .+..+.+.+++|.+..
T Consensus 130 ~~~F~Cp~Cg~~L~~~d~s~------------~i~~l~~~i~~l~~~l 165 (176)
T COG1675 130 ELGFTCPKCGEDLEEYDSSE------------EIEELESELDELEEEL 165 (176)
T ss_pred HhCCCCCCCCchhhhccchH------------HHHHHHHHHHHHHHHH
Confidence 34599999999999999988 5666777777777654
No 49
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=60.97 E-value=4 Score=28.86 Aligned_cols=32 Identities=22% Similarity=0.441 Sum_probs=17.5
Q ss_pred ccccccchhhhccchhhHhhhhhcccccccHHH
Q 015276 193 ALCEICGSFLVANDAAERTQSHISGKQHIGYGM 225 (410)
Q Consensus 193 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlGy~k 225 (410)
.-||.|..+|. +|+..=...|..|..|..=++
T Consensus 4 yyCdyC~~~~~-~d~~~~Rk~H~~G~kH~~nv~ 35 (38)
T PF06220_consen 4 YYCDYCKKYLT-HDSPSIRKQHERGWKHKENVK 35 (38)
T ss_dssp -B-TTT--B-S---SHHHHHHHT--THHHHHHH
T ss_pred eecccccceec-CCChHHHHHhhccHHHHHHHH
Confidence 57999999965 566555689999999986443
No 50
>PF01895 PhoU: PhoU domain; InterPro: IPR008170 This family contains phosphate regulatory proteins including PhoU. PhoU proteins are known to play a role in the regulation of phosphate uptake. The PhoU domain is composed of a three helix bundle []. The PhoU protein contains two copies of this domain. The domain binds to an iron cluster via its conserved E/DXXXD motif. Deletion of PhoU activates constitutive expression of the phosphate ABC transporter and allows phosphate transport, but causes a growth defect; suggesting that the protein has some secondary function []. ; PDB: 2I0M_A 1T72_B 1T8B_A 1SUM_B 1VCT_A 2BKN_A 2BKP_A 2BKO_A.
Probab=60.83 E-value=57 Score=25.05 Aligned_cols=82 Identities=13% Similarity=0.126 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccchhhH
Q 015276 131 LSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVANDAAER 210 (410)
Q Consensus 131 I~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~R 210 (410)
|..+.+.+..++..+-..-..++.+.|+.+...-+.+......+.+.. ... ...++.+.-=.-+-.++.+..+=+|
T Consensus 1 i~~m~~~~~~~l~~~~~~~~~~d~~~a~~i~~~e~~id~~~~~~~~~~-~~~---~~~~~~~~~~~~~~~~~~i~~~lER 76 (88)
T PF01895_consen 1 ISEMGELVEEMLDDAIEAFEERDSELAQEIIQLEEEIDELYREIRRQI-LKI---LKNQNPLEELRELVGLLRIARDLER 76 (88)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHHHHH-HHH---HHHHCGHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhHHHHHHHHHHHHHHH-HHH---HhhCCCHHHHHHHHHHHHHHHHHHH
Confidence 456777888888888888888888777766665555554444444432 110 0011111001124557777888899
Q ss_pred hhhhhc
Q 015276 211 TQSHIS 216 (410)
Q Consensus 211 l~dH~~ 216 (410)
++||..
T Consensus 77 igD~~~ 82 (88)
T PF01895_consen 77 IGDHAV 82 (88)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 999864
No 51
>PRK11115 transcriptional regulator PhoU; Provisional
Probab=60.80 E-value=1.2e+02 Score=28.48 Aligned_cols=81 Identities=19% Similarity=0.089 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhcccccccc--chhhhcc
Q 015276 128 SEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEIC--GSFLVAN 205 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVC--GA~Ls~~ 205 (410)
...|.++-+.+..++..+-..-..++++.|..+...-+.+......+.... ... . .-..|.+- ..++.+.
T Consensus 125 ~~~l~~l~~~v~~~l~~a~~a~~~~d~~~a~~i~~~d~~Id~~~~~~~~~~-~~~---l----~~~~~~~~~~~~l~~i~ 196 (236)
T PRK11115 125 LVSLESLGRHTIQMLHDVLDAFARMDLDEAVRIYREDKKVDQEYEGIVRQL-MTY---M----MEDPRTIPSVLTVLWCA 196 (236)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHH---H----HhCcccHHHHHHHHHHH
Confidence 356888888889999988888888999998887776666654444333322 110 0 11467775 3333366
Q ss_pred chhhHhhhhhc
Q 015276 206 DAAERTQSHIS 216 (410)
Q Consensus 206 D~d~Rl~dH~~ 216 (410)
..-+|++||..
T Consensus 197 ~~lERigDh~~ 207 (236)
T PRK11115 197 RSIERIGDRCQ 207 (236)
T ss_pred HHHHHHHHHHH
Confidence 78899999963
No 52
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=59.49 E-value=1.3e+02 Score=28.46 Aligned_cols=54 Identities=26% Similarity=0.392 Sum_probs=34.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhc-CCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEA-GKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGee-GeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
....++|..+..+|..+-.+++.+... ++-++-..++++++.|+.+.+.|++++
T Consensus 72 ~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el 126 (188)
T PF03962_consen 72 EKLQKEIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKEL 126 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566667777777777777666433 222355667777777777777777665
No 53
>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]
Probab=58.57 E-value=95 Score=30.27 Aligned_cols=82 Identities=18% Similarity=0.270 Sum_probs=64.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Q 015276 91 QFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVE 170 (410)
Q Consensus 91 ~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~E 170 (410)
..|+..|.+++.-+..++.-+++.- ........++..+...+..+-.+++.+...|+-+=|-..+.+...|...
T Consensus 27 ~~l~Q~ird~~~~l~~ar~~~A~~~------a~~k~~e~~~~~~~~~~~k~e~~A~~Al~~g~E~LAr~al~~~~~le~~ 100 (225)
T COG1842 27 KMLEQAIRDMESELAKARQALAQAI------ARQKQLERKLEEAQARAEKLEEKAELALQAGNEDLAREALEEKQSLEDL 100 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 6788889998888888887776542 2334566789999999999999999999999988888888888888777
Q ss_pred HHHHHhhh
Q 015276 171 KTTLTQQS 178 (410)
Q Consensus 171 ke~le~~~ 178 (410)
.+.++..+
T Consensus 101 ~~~~~~~~ 108 (225)
T COG1842 101 AKALEAEL 108 (225)
T ss_pred HHHHHHHH
Confidence 77666654
No 54
>PRK14148 heat shock protein GrpE; Provisional
Probab=58.47 E-value=60 Score=31.01 Aligned_cols=90 Identities=18% Similarity=0.262 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccch
Q 015276 128 SEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVANDA 207 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~ 207 (410)
..++..++++|..+-+++++|- +.-+.+.++.+-++. .++++. ....+..++.+.-.+|-+.|+
T Consensus 39 ~~e~~~l~~~l~~l~~e~~elk-----d~~lR~~Ae~eN~rK---R~~rE~--------e~~~~~a~~~~~~~LLpV~Dn 102 (195)
T PRK14148 39 EEQLERAKDTIKELEDSCDQFK-----DEALRAKAEMENIRK---RAERDV--------SNARKFGIEKFAKELLPVIDS 102 (195)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHH---HHHHHH--------HHHHHHHHHHHHHHHhhHHhH
Confidence 3456777777777777777773 333444444444432 122111 122345667788999999999
Q ss_pred hhHhhhhhcc-----cccccHHHHHHHHHHH
Q 015276 208 AERTQSHISG-----KQHIGYGMVRDFITEY 233 (410)
Q Consensus 208 d~Rl~dH~~G-----K~HlGy~kIRe~l~eL 233 (410)
-.|.-.|... .++-|+..|...+...
T Consensus 103 lerAl~~~~~~~~~~~l~~Gv~mi~k~l~~v 133 (195)
T PRK14148 103 IEQALKHEVKLEEAIAMKEGIELTAKMLVDI 133 (195)
T ss_pred HHHHHhccccchhHHHHHHHHHHHHHHHHHH
Confidence 9997777643 3555766665544443
No 55
>PRK10698 phage shock protein PspA; Provisional
Probab=58.42 E-value=96 Score=29.95 Aligned_cols=77 Identities=16% Similarity=0.168 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHH-------HHHHH
Q 015276 92 FCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEA-------LMRKV 164 (410)
Q Consensus 92 ~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~-------lm~kv 164 (410)
.|..+|.+++.-+..++.=|+... ........++..+...|...-.+++.....|+=+-|-. ...++
T Consensus 28 ~l~q~i~em~~~l~~~r~alA~~~------A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K~~~~~~~ 101 (222)
T PRK10698 28 LVRLMIQEMEDTLVEVRSTSARAL------AEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLI 101 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence 456666666666666655554321 12344567888999999999999999999998888877 44555
Q ss_pred HHHHHHHHHH
Q 015276 165 EILNVEKTTL 174 (410)
Q Consensus 165 E~Lk~Eke~l 174 (410)
..|+.+.+..
T Consensus 102 ~~l~~~~~~~ 111 (222)
T PRK10698 102 ATLEHEVTLV 111 (222)
T ss_pred HHHHHHHHHH
Confidence 5554444443
No 56
>TIGR00527 gcvH glycine cleavage system H protein. The genome of Aquifex aeolicus contains one protein scoring above the trusted cutoff and clustering with other bacterial H proteins, and four more proteins clustering together and scoring below the trusted cutoff; it seems doubtful that all of these homologs are authentic H protein. The Chlamydial homolog of H protein is nearly as divergent as the Aquifex outgroup, is not accompanied by P and T proteins, is not included in the seed alignment, and consequently also scores below the trusted cutoff.
Probab=57.20 E-value=8.3 Score=34.10 Aligned_cols=43 Identities=28% Similarity=0.237 Sum_probs=34.1
Q ss_pred ceeccCCCccccccccceeeeeeeeeecchhhhhccCcccceeeEEeeec
Q 015276 346 YFVETLPSPFHQILLKEKRVEIRVFLELKFQKWVSDGYRPFSCTIIFFNE 395 (410)
Q Consensus 346 ~~~d~~p~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 395 (410)
.|++.|++|- +|+.-+- |..+-..||+++=|-|++|+|+-+|+
T Consensus 39 ~~v~lp~~G~-~v~~g~~------~~~IEs~K~~~~i~sPvsG~Vv~vN~ 81 (127)
T TIGR00527 39 VFVELPEVGA-EVSAGES------CGSVESVKAASDIYAPVSGTVVEVND 81 (127)
T ss_pred ceeecCCCCC-EecCCCE------EEEEEEeeeeeeeecCCcEEEEEehH
Confidence 7889998884 4665553 44555679999999999999999986
No 57
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=56.61 E-value=13 Score=37.87 Aligned_cols=9 Identities=44% Similarity=0.859 Sum_probs=4.7
Q ss_pred HHHHHHHHH
Q 015276 227 RDFITEYKE 235 (410)
Q Consensus 227 Re~l~eLke 235 (410)
|+++..++.
T Consensus 154 rdm~~AYK~ 162 (335)
T KOG0113|consen 154 RDMKAAYKD 162 (335)
T ss_pred HHHHHHHHh
Confidence 555555554
No 58
>PF04032 Rpr2: RNAse P Rpr2/Rpp21/SNM1 subunit domain; InterPro: IPR007175 This family contains a ribonuclease P subunit of human and yeast. Other members of the family include the probable archaeal homologues. This subunit possibly binds the precursor tRNA [].; PDB: 2K3R_A 2KI7_B 2ZAE_B 1X0T_A.
Probab=56.10 E-value=31 Score=27.53 Aligned_cols=60 Identities=20% Similarity=0.366 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccch
Q 015276 137 KIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVANDA 207 (410)
Q Consensus 137 kI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~ 207 (410)
.|+-|.+-|..+...+..+-|...+..+..+-.+. ....+++-+..+|.-||.+|+-+-|
T Consensus 2 Ri~~L~~~a~~~~~~~~~~lsr~y~~~~~~i~~k~-----------~~~l~~~~kr~~Ck~C~~~liPG~~ 61 (85)
T PF04032_consen 2 RINFLYQAAHLLLADGSPSLSRHYMKLMRKISKKT-----------RIRLPPEIKRTICKKCGSLLIPGVN 61 (85)
T ss_dssp HHHHHHHHHH-HHCCC-HHHHHHHHHHHHHHHHHC-----------T---STTCCCTB-TTT--B--CTTT
T ss_pred HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-----------CCCCChHHhcccccCCCCEEeCCCc
Confidence 45666666666677888888888887777665321 1123456788999999999998754
No 59
>PRK10246 exonuclease subunit SbcC; Provisional
Probab=54.81 E-value=52 Score=38.72 Aligned_cols=9 Identities=44% Similarity=1.088 Sum_probs=8.0
Q ss_pred ccccccchh
Q 015276 193 ALCEICGSF 201 (410)
Q Consensus 193 ~VCeVCGA~ 201 (410)
++|+|||+.
T Consensus 504 ePCPVCGS~ 512 (1047)
T PRK10246 504 QPCPLCGST 512 (1047)
T ss_pred CCcCCCCcc
Confidence 899999984
No 60
>PF02151 UVR: UvrB/uvrC motif; InterPro: IPR001943 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [].; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3PXG_D 3PXI_C 1E52_B 1QOJ_B 2D7D_B 2NMV_B.
Probab=54.43 E-value=43 Score=23.10 Aligned_cols=35 Identities=26% Similarity=0.332 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Q 015276 136 EKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVE 170 (410)
Q Consensus 136 ekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~E 170 (410)
+.|..|..+.+.+.+..+.++|..+=.++..|+.+
T Consensus 2 ~~i~~l~~~m~~a~~~~dfE~Aa~~Rd~i~~l~~q 36 (36)
T PF02151_consen 2 KLIKELEEKMEEAVENEDFEKAARLRDQIKALKKQ 36 (36)
T ss_dssp HHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHcC
Confidence 56788889999999999999999998888888754
No 61
>PRK10884 SH3 domain-containing protein; Provisional
Probab=53.92 E-value=86 Score=30.13 Aligned_cols=55 Identities=20% Similarity=0.213 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHH
Q 015276 92 FCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETL 148 (410)
Q Consensus 92 ~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeL 148 (410)
-+...+-.++..+...+.+|+...... .....+..+++...+..|.+|-++-++|
T Consensus 90 ~~~~rlp~le~el~~l~~~l~~~~~~~--~~~~~~l~~~~~~~~~~~~~L~~~n~~L 144 (206)
T PRK10884 90 SLRTRVPDLENQVKTLTDKLNNIDNTW--NQRTAEMQQKVAQSDSVINGLKEENQKL 144 (206)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556677788888888886543111 1233445555555565555555555555
No 62
>PRK14162 heat shock protein GrpE; Provisional
Probab=53.63 E-value=65 Score=30.77 Aligned_cols=92 Identities=20% Similarity=0.200 Sum_probs=56.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhcc
Q 015276 126 EKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVAN 205 (410)
Q Consensus 126 ~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~ 205 (410)
+...++..++.+|..+-+++++|- +.-+.+.++.+-++.- .+++. . ...+..+-.++-.+|-+.
T Consensus 36 ~~~~e~~~l~~~l~~l~~e~~elk-----d~~lR~~AEfeN~rkR---~~kE~-e-------~~~~~a~~~~~~~LLpV~ 99 (194)
T PRK14162 36 EKQNPVEDLEKEIADLKAKNKDLE-----DKYLRSQAEIQNMQNR---YAKER-A-------QLIKYESQSLAKDVLPAM 99 (194)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHH---HHHHH-H-------HHHHHHHHHHHHHHhhHH
Confidence 345677788888888888888773 3444555555555421 22211 0 112334556788999999
Q ss_pred chhhHhhhhhcc-----cccccHHHHHHHHHHH
Q 015276 206 DAAERTQSHISG-----KQHIGYGMVRDFITEY 233 (410)
Q Consensus 206 D~d~Rl~dH~~G-----K~HlGy~kIRe~l~eL 233 (410)
|+-.|.-.|... .++-|+..|...+...
T Consensus 100 DnLerAl~~~~~~~~~~~l~~Gvemi~k~l~~v 132 (194)
T PRK14162 100 DNLERALAVKADDEAAKQLKKGVQMTLDHLVKA 132 (194)
T ss_pred hHHHHHHhccccchhHHHHHHHHHHHHHHHHHH
Confidence 999997677542 3456766665555443
No 63
>PF06495 Transformer: Fruit fly transformer protein; InterPro: IPR010519 This family consists of transformer proteins from several Drosophila species and also from Ceratitis capitata (Mediterranean fruit fly). The transformer locus (tra) produces an RNA processing protein that alternatively splices the doublesex pre-mRNA in the sex determination hierarchy of Drosophila melanogaster [].; GO: 0006397 mRNA processing, 0046660 female sex differentiation, 0005634 nucleus
Probab=52.83 E-value=15 Score=34.62 Aligned_cols=11 Identities=27% Similarity=0.332 Sum_probs=6.4
Q ss_pred CCccccccccc
Q 015276 352 PSPFHQILLKE 362 (410)
Q Consensus 352 p~g~~~~~~~~ 362 (410)
|+..-|..||+
T Consensus 133 ~~~~~~~~~m~ 143 (182)
T PF06495_consen 133 PPPAPQFNPMQ 143 (182)
T ss_pred CCccccccccc
Confidence 44466666773
No 64
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=51.99 E-value=27 Score=32.90 Aligned_cols=71 Identities=20% Similarity=0.293 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhh-hccchhh
Q 015276 131 LSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFL-VANDAAE 209 (410)
Q Consensus 131 I~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~L-s~~D~d~ 209 (410)
+..+..+|..|--+|+.|-.+++-...+.+-.+++.|+-|..++..+. ....|+.|-.|=-=| .++|.+.
T Consensus 107 L~s~~~ei~~L~~kI~~L~~~in~~~k~~~n~~i~slk~EL~d~iKe~---------e~~emeLyyecMkkL~~a~~~es 177 (181)
T PF04645_consen 107 LKSIKKEIEILRLKISSLQKEINKNKKKDLNEEIESLKSELNDLIKER---------EIREMELYYECMKKLAKAHEVES 177 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHhhhhhhhh
Confidence 344444444555555555555544444444555556655555555443 124566666666656 5555544
Q ss_pred H
Q 015276 210 R 210 (410)
Q Consensus 210 R 210 (410)
+
T Consensus 178 k 178 (181)
T PF04645_consen 178 K 178 (181)
T ss_pred c
Confidence 3
No 65
>COG3783 CybC Soluble cytochrome b562 [Energy production and conversion]
Probab=51.97 E-value=97 Score=26.66 Aligned_cols=40 Identities=18% Similarity=0.340 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHH---HHHHHHHhhcCCHHHHHHHHHHHHHHHH
Q 015276 130 QLSVLEEKIKNL---LEQVETLGEAGKVDEAEALMRKVEILNV 169 (410)
Q Consensus 130 eI~~LeekI~~L---l~eaEeLGeeGeVdeAq~lm~kvE~Lk~ 169 (410)
++....+-...| +.++.+|..+|++++|.+...++..++.
T Consensus 51 E~kdyrhGfd~li~~iD~a~klaqeGnl~eAKaaak~l~d~Rn 93 (100)
T COG3783 51 EMKDYRHGFDILIGQIDKADKLAQEGNLDEAKAAAKTLKDTRN 93 (100)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence 344444444433 3556779999999999999888777654
No 66
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=51.87 E-value=80 Score=29.77 Aligned_cols=78 Identities=18% Similarity=0.293 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHH
Q 015276 89 LAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEIL 167 (410)
Q Consensus 89 ~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~L 167 (410)
.+.-|+.=|.++..+|...+..|+....+......-....+++..|..++..|..+.+.+.. .+.+.-+.+-..+..+
T Consensus 70 ~~~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~~-~Dp~~i~~~~~~~~~~ 147 (188)
T PF03962_consen 70 KLEKLQKEIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKYSE-NDPEKIEKLKEEIKIA 147 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHH
Confidence 34455666666677777777777655322221122234567788888888888888886665 3444333333333333
No 67
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=51.17 E-value=1.1e+02 Score=29.94 Aligned_cols=46 Identities=17% Similarity=0.179 Sum_probs=27.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 126 EKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQ 177 (410)
Q Consensus 126 ~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~ 177 (410)
.+.+-+..-+.+|..||+-+++. |++++++. .++.-.+++++..++
T Consensus 47 ~il~Ll~~kd~ef~~llkla~eq---~k~e~~m~---~Lea~VEkrD~~IQq 92 (272)
T KOG4552|consen 47 NILKLLDSKDDEFKTLLKLAPEQ---QKREQLMR---TLEAHVEKRDEVIQQ 92 (272)
T ss_pred HHHHHHHhccHHHHHHHHHhHhH---HHHHHHHH---HHHHHHHHhHHHHHH
Confidence 45566677788899999887754 45666544 334444444443333
No 68
>PF12998 ING: Inhibitor of growth proteins N-terminal histone-binding; InterPro: IPR024610 Histones undergo numerous post-translational modifications, including acetylation and methylation, at residues which are then probable docking sites for various chromatin remodelling complexes. Inhibitor of growth proteins (INGs) specifically bind to residues that have been thus modified. INGs carry a well-characterised C-terminal PHD-type zinc-finger domain, binding with lysine 4-tri-methylated histone H3 (H3K4me3), as well as this N-terminal domain that binds unmodified H3 tails. Although these two regions can bind histones independently, together they increase the apparent association of the ING for the H3 tail. This entry represents the N-terminal histone binding domain found in inhibitor proteins.; PDB: 4AFL_A.
Probab=50.85 E-value=97 Score=25.40 Aligned_cols=74 Identities=20% Similarity=0.184 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcCCC-CCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHH
Q 015276 93 CEKLVMDLDRRVRRGRERLSQEVEP-APPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEIL 167 (410)
Q Consensus 93 L~~lI~d~DrkI~~~k~RLe~~~ee-~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~L 167 (410)
.-..|.++|.++......+...... ...........++...+-.+|...+.++..|+++ +|.-|......|+.-
T Consensus 20 ~l~~irelD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~~~~~~~l~de-Kv~lA~~~~d~v~~h 94 (105)
T PF12998_consen 20 NLTLIRELDAKSQDLLEELDQQIQKFIKNHGSPSLSPEKRRELLKEIQEEYERALELSDE-KVALAQQAYDLVDRH 94 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTS--S-HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHhhcccccCChHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence 3356677777766665555432100 0000010111235667778888888888888886 455555555444443
No 69
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=49.69 E-value=17 Score=27.17 Aligned_cols=12 Identities=33% Similarity=0.789 Sum_probs=6.2
Q ss_pred cccccchhhhcc
Q 015276 194 LCEICGSFLVAN 205 (410)
Q Consensus 194 VCeVCGA~Ls~~ 205 (410)
+|+|||.-|.-.
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 999999886533
No 70
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=48.94 E-value=34 Score=28.01 Aligned_cols=12 Identities=33% Similarity=0.780 Sum_probs=9.8
Q ss_pred ccccccchhhhc
Q 015276 193 ALCEICGSFLVA 204 (410)
Q Consensus 193 ~VCeVCGA~Ls~ 204 (410)
.+|.|||-.|..
T Consensus 79 ~~C~vC~k~l~~ 90 (109)
T PF10367_consen 79 TKCSVCGKPLGN 90 (109)
T ss_pred CCccCcCCcCCC
Confidence 679999988753
No 71
>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known.
Probab=48.36 E-value=2.6e+02 Score=27.76 Aligned_cols=82 Identities=16% Similarity=0.114 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCC-c------h----hhHHHHHHHHHHHHHHHHHHHHHhhcCCHHH
Q 015276 88 ELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPI-S------A----EKSEQLSVLEEKIKNLLEQVETLGEAGKVDE 156 (410)
Q Consensus 88 e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~-~------~----~~~eeI~~LeekI~~Ll~eaEeLGeeGeVde 156 (410)
.-+.-|+.-+.++-..|..+++.|....+....... . . ...+.+..+ ..|..+...++.|.++|+..+
T Consensus 67 ~~v~el~~~l~~a~~~~~~~R~~L~~~~~~~~~~~L~Il~~~rkr~~l~~ll~~L~~i-~~v~~~~~~l~~ll~~~dy~~ 145 (291)
T PF10475_consen 67 SSVQELQDELEEALVICKNLRRNLKSADENLTKSGLEILRLQRKRQNLKKLLEKLEQI-KTVQQTQSRLQELLEEGDYPG 145 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhcCCHHH
Confidence 345566777777778888888888765422211000 0 0 111222222 345577788899999999999
Q ss_pred HHHHHHHHHHHHHH
Q 015276 157 AEALMRKVEILNVE 170 (410)
Q Consensus 157 Aq~lm~kvE~Lk~E 170 (410)
|..+..+++.+-.+
T Consensus 146 Al~li~~~~~~l~~ 159 (291)
T PF10475_consen 146 ALDLIEECQQLLEE 159 (291)
T ss_pred HHHHHHHHHHHHHh
Confidence 99999999988654
No 72
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=48.13 E-value=11 Score=24.19 Aligned_cols=20 Identities=30% Similarity=0.684 Sum_probs=15.7
Q ss_pred cccccccchhhhccchhhHhhhhh
Q 015276 192 MALCEICGSFLVANDAAERTQSHI 215 (410)
Q Consensus 192 l~VCeVCGA~Ls~~D~d~Rl~dH~ 215 (410)
|..|.+||- .-+..+|+.|.
T Consensus 2 l~~C~~CgR----~F~~~~l~~H~ 21 (25)
T PF13913_consen 2 LVPCPICGR----KFNPDRLEKHE 21 (25)
T ss_pred CCcCCCCCC----EECHHHHHHHH
Confidence 688999994 34778888885
No 73
>PRK14151 heat shock protein GrpE; Provisional
Probab=48.02 E-value=71 Score=29.96 Aligned_cols=90 Identities=18% Similarity=0.214 Sum_probs=54.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccc
Q 015276 127 KSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVAND 206 (410)
Q Consensus 127 ~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D 206 (410)
.+..+..++++|..+-+++++|- +.-+.+.++.+-++. ..+++. . ...+.-+-.++-.+|-+.|
T Consensus 18 ~~~~~~~l~~~i~~le~e~~el~-----d~~lR~~Ae~eN~rk---R~~kE~-e-------~~~~~a~~~~~~~LLpv~D 81 (176)
T PRK14151 18 EAAAGDDLTARVQELEEQLAAAK-----DQSLRAAADLQNVRR---RAEQDV-E-------KAHKFALEKFAGDLLPVVD 81 (176)
T ss_pred cccchhhHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHH---HHHHHH-H-------HHHHHHHHHHHHHHhhHHh
Confidence 34556677777877777777774 334455555555532 222221 0 1123345567889999999
Q ss_pred hhhHhhhhhc------ccccccHHHHHHHHHH
Q 015276 207 AAERTQSHIS------GKQHIGYGMVRDFITE 232 (410)
Q Consensus 207 ~d~Rl~dH~~------GK~HlGy~kIRe~l~e 232 (410)
+-.|.-.|.. ..++-|+..|...+..
T Consensus 82 nlerAl~~~~~~~~~~~~~~~Gv~mi~k~l~~ 113 (176)
T PRK14151 82 SLERGLELSSADDEAIKPMREGVELTLKMFQD 113 (176)
T ss_pred HHHHHHhcccccchhHHHHHHHHHHHHHHHHH
Confidence 9999767653 2356677766655544
No 74
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=46.97 E-value=1.9e+02 Score=31.84 Aligned_cols=150 Identities=21% Similarity=0.247 Sum_probs=78.6
Q ss_pred HHHHHHhhcCCCCCCChhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH
Q 015276 66 QKLKESFEKSPRHDAYVPKFEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQV 145 (410)
Q Consensus 66 ~~lK~~Ye~~~~~~~~~~~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~ea 145 (410)
..||+-|......+.+++. -.+|.++..-+..|....+... .-.-.+..+++..++++|..|.+-.
T Consensus 232 ~~Lk~Gyr~m~~~gY~l~~-------------~~id~~~~~L~~~l~~~~~~l~-~Leld~aeeel~~I~e~ie~lYd~l 297 (570)
T COG4477 232 QDLKAGYRDMKEEGYHLEH-------------VNIDSRLERLKEQLVENSELLT-QLELDEAEEELGLIQEKIESLYDLL 297 (570)
T ss_pred HHHHHHHHHHHHccCCccc-------------ccHHHHHHHHHHHHHHHHhHHH-HhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 4788888776555544222 2334444444444432221010 0112344578889999999999999
Q ss_pred HHHhhcCCHHHHH---------HHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhcc--ccccccchhhhccchhhHhhhh
Q 015276 146 ETLGEAGKVDEAE---------ALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKM--ALCEICGSFLVANDAAERTQSH 214 (410)
Q Consensus 146 EeLGeeGeVdeAq---------~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl--~VCeVCGA~Ls~~D~d~Rl~dH 214 (410)
|--.+.+++-+.- .+-+.-+.|+++.+.+.+.+.-+.. .....++. +.=++=.++..+. -
T Consensus 298 E~EveA~~~V~~~~~~l~~~l~k~ke~n~~L~~Eie~V~~sY~l~e~-e~~~vr~~e~eL~el~~~~~~i~--------~ 368 (570)
T COG4477 298 EREVEAKNVVEENLPILPDYLEKAKENNEHLKEEIERVKESYRLAET-ELGSVRKFEKELKELESVLDEIL--------E 368 (570)
T ss_pred HHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHHHhccChh-HHHHHHHHHHHHHHHHHHHHHHH--------H
Confidence 9888887765542 2222333444555544444310100 01111111 1111112222222 2
Q ss_pred hcccccccHHHHHHHHHHHHHHHH
Q 015276 215 ISGKQHIGYGMVRDFITEYKEAKE 238 (410)
Q Consensus 215 ~~GK~HlGy~kIRe~l~eLke~~e 238 (410)
..+.+|+.|..+.++++++.+...
T Consensus 369 ~~~~~~~~yS~lq~~l~~~~~~l~ 392 (570)
T COG4477 369 NIEAQEVAYSELQDNLEEIEKALT 392 (570)
T ss_pred HhhcccccHHHHHHHHHHHHHHHH
Confidence 468899999999999999877553
No 75
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=45.62 E-value=1.5e+02 Score=24.14 Aligned_cols=55 Identities=18% Similarity=0.286 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 93 CEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGE 150 (410)
Q Consensus 93 L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGe 150 (410)
+..-+..+-.||.+++.-+...+. .. ....+...+|..|+++|..+-+-+..+++
T Consensus 26 ~~~~~~~lk~Klq~ar~~i~~lpg-i~--~s~eeq~~~i~~Le~~i~~k~~~L~~~~~ 80 (83)
T PF07544_consen 26 LDTATGSLKHKLQKARAAIRELPG-ID--RSVEEQEEEIEELEEQIRKKREVLQKFKE 80 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCC-cc--CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556677788888888888876542 21 23456667888888888877776666655
No 76
>PRK14163 heat shock protein GrpE; Provisional
Probab=45.54 E-value=1e+02 Score=29.89 Aligned_cols=87 Identities=11% Similarity=0.147 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccchh
Q 015276 129 EQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVANDAA 208 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~d 208 (410)
..+..|.++|..+-+++++|- +.-+.+.++.+-++. .++++. . ...+.-+=.+.-.+|-+.|+-
T Consensus 40 ~~~~~l~~~l~~l~~e~~el~-----d~~lR~~AEfeN~rk---R~~kE~-e-------~~~~~a~~~~~~~LLpVlDnL 103 (214)
T PRK14163 40 AATAGLTAQLDQVRTALGERT-----ADLQRLQAEYQNYRR---RVERDR-V-------TVKEIAVANLLSELLPVLDDV 103 (214)
T ss_pred hhhHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHH---HHHHHH-H-------HHHHHHHHHHHHHHhhhHhHH
Confidence 345677778888878887773 334444555555442 222211 0 112223334677899999999
Q ss_pred hHhhhhhcccccccHHHHHHHHHHH
Q 015276 209 ERTQSHISGKQHIGYGMVRDFITEY 233 (410)
Q Consensus 209 ~Rl~dH~~GK~HlGy~kIRe~l~eL 233 (410)
.|.-.|. .++-|+..|.+.|...
T Consensus 104 erAl~~~--~l~~Gv~mi~k~l~~~ 126 (214)
T PRK14163 104 GRAREHG--ELVGGFKSVAESLETT 126 (214)
T ss_pred HHHHhch--hHHHHHHHHHHHHHHH
Confidence 9987773 5777887776655543
No 77
>PRK14154 heat shock protein GrpE; Provisional
Probab=45.48 E-value=92 Score=30.14 Aligned_cols=87 Identities=10% Similarity=0.088 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccchhh
Q 015276 130 QLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVANDAAE 209 (410)
Q Consensus 130 eI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~ 209 (410)
.+..|+.+|..+-+++++|- +.-+.+.++.+-+++-.+.-.+ ...+..+-.++-++|-+.|+-.
T Consensus 53 ~~~~l~~el~~le~e~~elk-----d~~lRl~ADfeNyRKR~~kE~e-----------~~~~~a~e~~~~~LLpVlDnLe 116 (208)
T PRK14154 53 SREKLEGQLTRMERKVDEYK-----TQYLRAQAEMDNLRKRIEREKA-----------DIIKFGSKQLITDLLPVADSLI 116 (208)
T ss_pred chhhHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHhhHHhHHH
Confidence 35566667777777777663 3345555555555432221111 1223345567889999999999
Q ss_pred Hhhhhhc------ccccccHHHHHHHHHH
Q 015276 210 RTQSHIS------GKQHIGYGMVRDFITE 232 (410)
Q Consensus 210 Rl~dH~~------GK~HlGy~kIRe~l~e 232 (410)
|.-.|.. ..+.-|+..|.+.|..
T Consensus 117 RAL~~~~~~~~~~~~l~eGvemi~k~l~~ 145 (208)
T PRK14154 117 HGLESPASEDPQVKSMRDGMSLTLDLLHN 145 (208)
T ss_pred HHHhcccccchhHHHHHHHHHHHHHHHHH
Confidence 9666653 2355566655444433
No 78
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=44.96 E-value=1.3e+02 Score=27.41 Aligned_cols=112 Identities=20% Similarity=0.184 Sum_probs=60.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchh-hHHHHHHHHHHHHHHHHHHHHHhhcCCHH-----H--HHHH
Q 015276 89 LAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAE-KSEQLSVLEEKIKNLLEQVETLGEAGKVD-----E--AEAL 160 (410)
Q Consensus 89 ~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~-~~eeI~~LeekI~~Ll~eaEeLGeeGeVd-----e--Aq~l 160 (410)
+...++.=...++.-|..+++.+....+ .+.+ .+.-..-|...|..+....+.+...-.++ + ...+
T Consensus 5 l~e~~~~~~~~L~~~le~a~e~~~~~~e------lT~eEl~lv~~ylkRDl~~~a~~~~~~~~~~~~~~~lie~slw~~L 78 (146)
T PF07295_consen 5 LEEALEHSEEELQEALEKAKEYLVAAGE------LTREELALVSAYLKRDLEEFARYYEELREWLSPDLQLIEESLWDEL 78 (146)
T ss_pred HHHHHhcCHHHHHHHHHHHHHHHHHHhh------cCHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHH
Confidence 3444556667778888888888865431 2222 22222234444555555554422222222 1 1345
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhh---hhhhhhhccccccccchhhhccch
Q 015276 161 MRKVEILNVEKTTLTQQSQNDKV---LMMAQEKKMALCEICGSFLVANDA 207 (410)
Q Consensus 161 m~kvE~Lk~Eke~le~~~~~~~~---~~~~~~qkl~VCeVCGA~Ls~~D~ 207 (410)
+.-++.-+-|..+|.+.+ .... +|.-.....-||+-||.-+....+
T Consensus 79 ~~ItDkTqvEw~el~~d~-~h~g~Y~sGE~~g~G~l~C~~Cg~~~~~~~~ 127 (146)
T PF07295_consen 79 SSITDKTQVEWAELAQDL-EHHGVYHSGEVVGPGTLVCENCGHEVELTHP 127 (146)
T ss_pred HhhhchhHHHHHHHHHHH-HhcCCeecCcEecCceEecccCCCEEEecCC
Confidence 555666666777776655 2110 111123467899999988877654
No 79
>PF09969 DUF2203: Uncharacterized conserved protein (DUF2203); InterPro: IPR018699 This family has no known function.
Probab=44.94 E-value=71 Score=28.10 Aligned_cols=27 Identities=26% Similarity=0.546 Sum_probs=21.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhc
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEA 151 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGee 151 (410)
.....++..+..+|..++++|+++|-+
T Consensus 46 ~~~~~~~~~~~~~~~~~i~~i~~~Gv~ 72 (120)
T PF09969_consen 46 NGLEAELEELEARLRELIDEIEELGVE 72 (120)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHcCcE
Confidence 445677888888888888888888864
No 80
>TIGR01554 major_cap_HK97 phage major capsid protein, HK97 family. This family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease.
Probab=44.59 E-value=48 Score=34.02 Aligned_cols=43 Identities=19% Similarity=0.220 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHhh--cCCHHHHHHHHHHHHHHHHHHHHHH
Q 015276 133 VLEEKIKNLLEQVETLGE--AGKVDEAEALMRKVEILNVEKTTLT 175 (410)
Q Consensus 133 ~LeekI~~Ll~eaEeLGe--eGeVdeAq~lm~kvE~Lk~Eke~le 175 (410)
+|.++++.+.+++..|-+ +...+++.+...++++|+.+.+.++
T Consensus 3 el~~~~~~~~~~~r~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 47 (378)
T TIGR01554 3 ELKEQREEIVAEIRSLLDKAEKLEKELTAAALEKEELETDVEKLK 47 (378)
T ss_pred hHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 444444555555555544 3444444444444444444444433
No 81
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=44.52 E-value=82 Score=24.46 Aligned_cols=59 Identities=29% Similarity=0.416 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcC-CCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHh
Q 015276 91 QFCEKLVMDLDRRVRRGRERLSQEV-EPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLG 149 (410)
Q Consensus 91 ~~L~~lI~d~DrkI~~~k~RLe~~~-ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLG 149 (410)
.-|++=+..+...|.....+|.... -...|+.+.....+++.++..+|..+.+.++.|+
T Consensus 7 ~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~~~l~~Lk 66 (66)
T PF10458_consen 7 ERLEKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLEEALEQLK 66 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3467777888888999988886421 0122234556667789999999999988888774
No 82
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=44.36 E-value=80 Score=28.91 Aligned_cols=54 Identities=19% Similarity=0.267 Sum_probs=46.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
....++...|..+|.++.+|....=.+.+..+.-++-.++++|.+|.+++.+..
T Consensus 36 ~~~~~~~~~l~~Ei~~l~~E~~~iS~qDeFAkwaKl~Rk~~kl~~el~~~~~~~ 89 (161)
T PF04420_consen 36 SKSSKEQRQLRKEILQLKRELNAISAQDEFAKWAKLNRKLDKLEEELEKLNKSL 89 (161)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHTTS-TTTSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677889999999999999999999999999999999999999998887765
No 83
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=43.97 E-value=66 Score=32.96 Aligned_cols=26 Identities=35% Similarity=0.722 Sum_probs=20.7
Q ss_pred CcchhhcCCChhHhhhhcccCCCCCCCCC
Q 015276 36 VCPFYMVRFCPHDLFVNTRSDLGPCPRIH 64 (410)
Q Consensus 36 VCk~yLvG~CPhdLF~NTK~DLG~C~kiH 64 (410)
.|.|-+|..|--.+|.. .-++||..+
T Consensus 25 ~CGH~~C~sCv~~l~~~---~~~~CP~C~ 50 (309)
T TIGR00570 25 VCGHTLCESCVDLLFVR---GSGSCPECD 50 (309)
T ss_pred CCCCcccHHHHHHHhcC---CCCCCCCCC
Confidence 79999999998888854 336899443
No 84
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=43.55 E-value=99 Score=32.35 Aligned_cols=24 Identities=33% Similarity=0.405 Sum_probs=12.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHh
Q 015276 126 EKSEQLSVLEEKIKNLLEQVETLG 149 (410)
Q Consensus 126 ~~~eeI~~LeekI~~Ll~eaEeLG 149 (410)
.+.+++..++.+|.++.++.++.-
T Consensus 246 ~l~~~~~~~~~~i~~l~~~l~~~~ 269 (406)
T PF02388_consen 246 SLQEKLEKLEKEIEKLEEKLEKNP 269 (406)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH-T
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCc
Confidence 344555555555555555544433
No 85
>PF10979 DUF2786: Protein of unknown function (DUF2786); InterPro: IPR024498 This domain is found in proteins that have no known function.
Probab=43.43 E-value=57 Score=23.71 Aligned_cols=35 Identities=37% Similarity=0.473 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Q 015276 134 LEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVE 170 (410)
Q Consensus 134 LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~E 170 (410)
+-++|..||..++.-+ +.-.||+..+.+++.|..+
T Consensus 3 il~kI~kLLalA~~~~--~~~~EA~~A~~kAq~Lm~k 37 (43)
T PF10979_consen 3 ILEKIRKLLALAESTG--SNEHEAEAALAKAQRLMAK 37 (43)
T ss_pred HHHHHHHHHHHhhCCC--CCHHHHHHHHHHHHHHHHH
Confidence 4567778887777322 6667999999999999764
No 86
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=43.07 E-value=10 Score=41.10 Aligned_cols=8 Identities=25% Similarity=0.160 Sum_probs=3.9
Q ss_pred eeccCCCc
Q 015276 347 FVETLPSP 354 (410)
Q Consensus 347 ~~d~~p~g 354 (410)
=|-+.|++
T Consensus 492 e~~~~par 499 (653)
T KOG2548|consen 492 EAEAGPAR 499 (653)
T ss_pred ccccCccc
Confidence 35554544
No 87
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=42.77 E-value=1.2e+02 Score=26.27 Aligned_cols=50 Identities=28% Similarity=0.337 Sum_probs=30.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhc--CCHHHHHHHHHHHHHHHHHHHHH
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEA--GKVDEAEALMRKVEILNVEKTTL 174 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGee--GeVdeAq~lm~kvE~Lk~Eke~l 174 (410)
.++...|..++++|+.|++++++|-.. .-++|-..|--+-+.|++...++
T Consensus 4 ~~l~~~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~ 55 (107)
T PF06156_consen 4 KELFDRLDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEEL 55 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677888888888888888887653 22333344444444444444433
No 88
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=42.46 E-value=1.3e+02 Score=24.19 Aligned_cols=22 Identities=41% Similarity=0.490 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 015276 129 EQLSVLEEKIKNLLEQVETLGE 150 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGe 150 (410)
+.+..|+.+|+.+++.|..|-.
T Consensus 4 E~l~~LE~ki~~aveti~~Lq~ 25 (72)
T PF06005_consen 4 ELLEQLEEKIQQAVETIALLQM 25 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666666666655544
No 89
>PRK14147 heat shock protein GrpE; Provisional
Probab=42.03 E-value=68 Score=29.97 Aligned_cols=85 Identities=13% Similarity=0.162 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccchhhHh
Q 015276 132 SVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVANDAAERT 211 (410)
Q Consensus 132 ~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~Rl 211 (410)
..++.+|..+-+++++|- +.-+.+.++.+-++. .++++. . ...+..+-.++-.+|-+.|+-.|.
T Consensus 21 ~~l~~~l~~l~~e~~elk-----d~~lR~~Ad~eN~rk---R~~kE~-e-------~~~~~a~~~~~~~lLpv~DnlerA 84 (172)
T PRK14147 21 DPLKAEVESLRSEIALVK-----ADALRERADLENQRK---RIARDV-E-------QARKFANEKLLGELLPVFDSLDAG 84 (172)
T ss_pred hhHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHH---HHHHHH-H-------HHHHHHHHHHHHHHhhhhhHHHHH
Confidence 345556666666666653 223344444444432 222221 1 122334556888999999999996
Q ss_pred hhhhcc---cccccHHHHHHHHHH
Q 015276 212 QSHISG---KQHIGYGMVRDFITE 232 (410)
Q Consensus 212 ~dH~~G---K~HlGy~kIRe~l~e 232 (410)
-.|... .++-|+..|.+.+..
T Consensus 85 l~~~~~~~~~l~~Gv~mi~k~l~~ 108 (172)
T PRK14147 85 LTAAGTEPSPLRDGLELTYKQLLK 108 (172)
T ss_pred HhcccchHHHHHHHHHHHHHHHHH
Confidence 666543 345566655554443
No 90
>smart00356 ZnF_C3H1 zinc finger.
Probab=41.76 E-value=11 Score=23.43 Aligned_cols=23 Identities=30% Similarity=0.834 Sum_probs=17.0
Q ss_pred CCCcchhhcCCChhHhhhhcccCCCCCCCCCc
Q 015276 34 KEVCPFYMVRFCPHDLFVNTRSDLGPCPRIHD 65 (410)
Q Consensus 34 ~~VCk~yLvG~CPhdLF~NTK~DLG~C~kiHd 65 (410)
+.+|++|+.|.||+. ..|+-.|+
T Consensus 4 ~~~C~~~~~g~C~~g---------~~C~~~H~ 26 (27)
T smart00356 4 TELCKFFKRGYCPYG---------DRCKFAHP 26 (27)
T ss_pred CCcCcCccCCCCCCC---------CCcCCCCc
Confidence 358999999999652 25777775
No 91
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=41.70 E-value=3.2e+02 Score=30.37 Aligned_cols=26 Identities=23% Similarity=0.359 Sum_probs=15.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGE 150 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGe 150 (410)
....+++.+++.+|..+..+++.+-.
T Consensus 205 ~~~~~~~~~le~el~~l~~~~e~l~~ 230 (650)
T TIGR03185 205 SSILSEIEALEAELKEQSEKYEDLAQ 230 (650)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666666666666666666543
No 92
>COG4911 Uncharacterized conserved protein [Function unknown]
Probab=41.59 E-value=1.1e+02 Score=26.87 Aligned_cols=55 Identities=18% Similarity=0.146 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 88 ELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGE 150 (410)
Q Consensus 88 e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGe 150 (410)
|++..|.-++.++-.+.++-+.+.+.- . .++..-.|.+++.+++.++++|+++|-
T Consensus 11 e~~~el~P~l~d~~~~~r~~~n~~e~L----~----~qedk~~l~e~e~q~k~~l~~i~e~G~ 65 (123)
T COG4911 11 ETARELLPWLRDRLIQLRKIKNEIELL----L----VQEDKYALQEYESQTKKILDEIIEKGI 65 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh----c----ccccHHHHHHHHHHHHHHHHHHHHcCc
Confidence 667777777777777766666666532 1 122235688999999999999999885
No 93
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=41.44 E-value=8.8 Score=36.73 Aligned_cols=28 Identities=25% Similarity=0.437 Sum_probs=0.0
Q ss_pred ccccccccchhhhccchhhH-hhhhhcccccc
Q 015276 191 KMALCEICGSFLVANDAAER-TQSHISGKQHI 221 (410)
Q Consensus 191 kl~VCeVCGA~Ls~~D~d~R-l~dH~~GK~Hl 221 (410)
+...|||||-+.-.+ +| .+.||+.--|.
T Consensus 100 ~ey~CEICGN~~Y~G---rkaFekHF~E~rH~ 128 (196)
T PF11931_consen 100 VEYKCEICGNQSYKG---RKAFEKHFQEWRHA 128 (196)
T ss_dssp --------------------------------
T ss_pred CeeeeEeCCCcceec---HHHHHHhcChhHHH
Confidence 448999999885544 55 79999998885
No 94
>PLN02678 seryl-tRNA synthetase
Probab=41.34 E-value=72 Score=34.21 Aligned_cols=47 Identities=23% Similarity=0.280 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 129 EQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQ 177 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~ 177 (410)
.++..|..+++.+.++|-.+...+ +++..+++++..|+++...++.+
T Consensus 47 ~~~e~lr~erN~~sk~I~~~k~~~--~~~~~l~~~~~~Lk~ei~~le~~ 93 (448)
T PLN02678 47 FELDSLRKEFNKLNKEVAKLKIAK--EDATELIAETKELKKEITEKEAE 93 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCC--CcHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555555555443333 23444555555555555555444
No 95
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=40.69 E-value=68 Score=32.61 Aligned_cols=23 Identities=13% Similarity=0.378 Sum_probs=0.0
Q ss_pred CCCCCCCcHHHHHHhhcCCCCCC
Q 015276 58 GPCPRIHDQKLKESFEKSPRHDA 80 (410)
Q Consensus 58 G~C~kiHd~~lK~~Ye~~~~~~~ 80 (410)
..|...=.+.|+.+|+.+.+..+
T Consensus 4 ~eC~~~l~~~l~~~~~~~~~E~~ 26 (314)
T PF04111_consen 4 QECTDLLLEQLDKQLEQAEKERD 26 (314)
T ss_dssp -----------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666667788888887754333
No 96
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=40.53 E-value=31 Score=35.18 Aligned_cols=31 Identities=23% Similarity=0.298 Sum_probs=26.3
Q ss_pred HHHHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Q 015276 140 NLLEQVETLGEAGKVDEAEALMRKVEILNVE 170 (410)
Q Consensus 140 ~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~E 170 (410)
=-...|++....|+|++|+.|+.++|.|--+
T Consensus 259 Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~ 289 (303)
T PRK10564 259 YFNQAIKQAVKKGDVDKALKLLDEAERLGST 289 (303)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc
Confidence 3447788899999999999999999998543
No 97
>KOG1666 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.52 E-value=3.3e+02 Score=26.70 Aligned_cols=84 Identities=11% Similarity=0.202 Sum_probs=46.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHH
Q 015276 82 VPKFEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALM 161 (410)
Q Consensus 82 ~~~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm 161 (410)
+.+||.+|-.... ++..+|.++ ... +.......-.+|+..-+++++|+.+.+.-..+--...=-.++
T Consensus 5 fe~yEqqy~~l~a----~it~k~~~~-----~~~----~~~ekk~~l~~i~~~leEa~ell~qMdlEvr~lp~~~Rs~~~ 71 (220)
T KOG1666|consen 5 FEGYEQQYRELSA----EITKKIGRA-----LSL----PGSEKKQLLSEIDSKLEEANELLDQMDLEVRELPPNFRSSYL 71 (220)
T ss_pred HHHHHHHHHHHHH----HHHHhHHHH-----hcC----CchHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCchhhhHHH
Confidence 4588988876544 444555554 111 011222223344444455555555555544443333345578
Q ss_pred HHHHHHHHHHHHHHhhh
Q 015276 162 RKVEILNVEKTTLTQQS 178 (410)
Q Consensus 162 ~kvE~Lk~Eke~le~~~ 178 (410)
.++...+...+.+..++
T Consensus 72 ~KlR~yksdl~~l~~e~ 88 (220)
T KOG1666|consen 72 SKLREYKSDLKKLKREL 88 (220)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 88888888888887776
No 98
>PF12854 PPR_1: PPR repeat
Probab=40.50 E-value=32 Score=23.06 Aligned_cols=21 Identities=33% Similarity=0.487 Sum_probs=17.4
Q ss_pred HHHHHHhhcCCHHHHHHHHHH
Q 015276 143 EQVETLGEAGKVDEAEALMRK 163 (410)
Q Consensus 143 ~eaEeLGeeGeVdeAq~lm~k 163 (410)
.=|..+..+|+|++|..++.+
T Consensus 12 ~lI~~~Ck~G~~~~A~~l~~~ 32 (34)
T PF12854_consen 12 TLIDGYCKAGRVDEAFELFDE 32 (34)
T ss_pred HHHHHHHHCCCHHHHHHHHHh
Confidence 346778999999999999865
No 99
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=40.47 E-value=10 Score=30.05 Aligned_cols=26 Identities=23% Similarity=0.671 Sum_probs=18.4
Q ss_pred ccccccccch---------hhhccchhh-Hhhhhhc
Q 015276 191 KMALCEICGS---------FLVANDAAE-RTQSHIS 216 (410)
Q Consensus 191 kl~VCeVCGA---------~Ls~~D~d~-Rl~dH~~ 216 (410)
.-++|+|||. ||++.|.+. =+|+-++
T Consensus 17 d~e~CP~Cgs~~~te~W~G~~iIidpe~SeIAkrlg 52 (64)
T COG2093 17 DTEICPVCGSTDLTEEWFGLLIIIDPEKSEIAKRLG 52 (64)
T ss_pred CCccCCCCCCcccchhhccEEEEEcCcHHHHHHHhC
Confidence 3478999998 578888887 2554443
No 100
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=40.01 E-value=1.8e+02 Score=22.57 Aligned_cols=83 Identities=18% Similarity=0.207 Sum_probs=49.3
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCCCCCCc-------hhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 015276 94 EKLVMDLDRRVRRGRERLSQEVEPAPPPPIS-------AEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEI 166 (410)
Q Consensus 94 ~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~-------~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~ 166 (410)
..-+.++..=|......|....-... .... .....+|......|..+.+.++.|.. ..-..+..+..+++.
T Consensus 7 ~~~~~~l~~Wl~~~e~~l~~~~~~~~-~~~~~~~~~~~~~~~~ei~~~~~~l~~l~~~~~~L~~-~~~~~~~~i~~~~~~ 84 (105)
T PF00435_consen 7 QQEADELLDWLQETEAKLSSSEPGSD-LEELEEQLKKHKELQEEIESRQERLESLNEQAQQLID-SGPEDSDEIQEKLEE 84 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHCSCTHSSS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-TTHTTHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCCCC-HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH-cCCCcHHHHHHHHHH
Confidence 34455556666667677732210000 0111 23345566677777777788888833 346677778888888
Q ss_pred HHHHHHHHHhhh
Q 015276 167 LNVEKTTLTQQS 178 (410)
Q Consensus 167 Lk~Eke~le~~~ 178 (410)
|......|....
T Consensus 85 l~~~w~~l~~~~ 96 (105)
T PF00435_consen 85 LNQRWEALCELV 96 (105)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 888777776654
No 101
>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein). HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.
Probab=39.14 E-value=1.9e+02 Score=22.72 Aligned_cols=50 Identities=28% Similarity=0.350 Sum_probs=38.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHH
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTL 174 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~l 174 (410)
.++.+-...++..|..+++++..+-..++.+.|...+.++.=+..-.+.+
T Consensus 27 ~~L~~l~~~~~~~~~~~~~~l~~~f~~~d~~~A~~~~~kLky~~kl~~~i 76 (78)
T PF07743_consen 27 AELEELKKEIEERIKELIKELAEAFDAKDWEEAKEALRKLKYLQKLLEEI 76 (78)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHHHHHHh
Confidence 55666677888899999999999999999999999888876665544433
No 102
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=39.01 E-value=4.1e+02 Score=29.15 Aligned_cols=159 Identities=16% Similarity=0.194 Sum_probs=77.7
Q ss_pred HHHHHHhhcCCCCCCChhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH
Q 015276 66 QKLKESFEKSPRHDAYVPKFEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQV 145 (410)
Q Consensus 66 ~~lK~~Ye~~~~~~~~~~~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~ea 145 (410)
..|+.-|......+.+++.. -+..-|.++...|..+...|+.. ...+..+.+..+.++|..|...+
T Consensus 229 ~eL~~gy~~m~~~gy~l~~~------~i~~~i~~i~~~l~~~~~~L~~l--------~l~~~~~~~~~i~~~Id~lYd~l 294 (560)
T PF06160_consen 229 EELKEGYREMEEEGYYLEHL------DIEEEIEQIEEQLEEALALLKNL--------ELDEVEEENEEIEERIDQLYDIL 294 (560)
T ss_pred HHHHHHHHHHHHCCCCCCCC------CHHHHHHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHHHHHHHHH
Confidence 45777777665444432221 13455666677777777777432 23455667788888888888877
Q ss_pred HHHhhcC-CHHHHHH-HHHHHHHHHHHHHHHHhhhhhh-hhhhhhhhhccccccccchhhhccchhhHhhhhhccccccc
Q 015276 146 ETLGEAG-KVDEAEA-LMRKVEILNVEKTTLTQQSQND-KVLMMAQEKKMALCEICGSFLVANDAAERTQSHISGKQHIG 222 (410)
Q Consensus 146 EeLGeeG-eVdeAq~-lm~kvE~Lk~Eke~le~~~~~~-~~~~~~~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlG 222 (410)
|.-.... .|++.+. +...++.++.+-..|..++ .. ..+-.-.+.-+..=.....-|......--...+-....++-
T Consensus 295 e~E~~Ak~~V~~~~~~l~~~l~~~~~~~~~l~~e~-~~v~~sY~L~~~e~~~~~~l~~~l~~l~~~~~~~~~~i~~~~~~ 373 (560)
T PF06160_consen 295 EKEVEAKKYVEKNLKELYEYLEHAKEQNKELKEEL-ERVSQSYTLNHNELEIVRELEKQLKELEKRYEDLEERIEEQQVP 373 (560)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH-HHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcC
Confidence 7755543 2332222 2233333333333333332 00 00000000000000011122222222222233445566899
Q ss_pred HHHHHHHHHHHHHHHHH
Q 015276 223 YGMVRDFITEYKEAKEK 239 (410)
Q Consensus 223 y~kIRe~l~eLke~~ek 239 (410)
|..|.+.++++.+....
T Consensus 374 yS~i~~~l~~~~~~l~~ 390 (560)
T PF06160_consen 374 YSEIQEELEEIEEQLEE 390 (560)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999988775544
No 103
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=38.96 E-value=3e+02 Score=24.96 Aligned_cols=66 Identities=26% Similarity=0.371 Sum_probs=47.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCH
Q 015276 84 KFEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKV 154 (410)
Q Consensus 84 ~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeV 154 (410)
.++.+ +.-|+.=+..+...+......|..-. . .+.+.+....|..|..+|..|..+++.|-..+..
T Consensus 76 ~ld~e-i~~L~~el~~l~~~~k~l~~eL~~L~--~--~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~~~~ 141 (169)
T PF07106_consen 76 ELDAE-IKELREELAELKKEVKSLEAELASLS--S--EPTNEELREEIEELEEEIEELEEKLEKLRSGSKP 141 (169)
T ss_pred HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHh--c--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 34444 55666777777777777777776533 1 1356788899999999999999999999884443
No 104
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=38.75 E-value=83 Score=33.28 Aligned_cols=48 Identities=25% Similarity=0.365 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 128 SEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQ 177 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~ 177 (410)
..+++.|..+.+.+.++|-.+...++ ++..+++++.+|+++.+.++++
T Consensus 41 ~~~~~~lr~~rn~~sk~i~~~~~~~~--~~~~l~~~~~~l~~~~~~~~~~ 88 (425)
T PRK05431 41 QTELEELQAERNALSKEIGQAKRKGE--DAEALIAEVKELKEEIKALEAE 88 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCC--cHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566666666666655444441 2333445555555555554443
No 105
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=38.62 E-value=1.3e+02 Score=26.31 Aligned_cols=49 Identities=24% Similarity=0.328 Sum_probs=35.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
.++-.+|..++++|+.++++++.|-.. +..+|++--.|+-|-+.|...+
T Consensus 4 keiFd~v~~le~~l~~l~~el~~lK~~-----l~~lvEEN~~L~lENe~LR~RL 52 (114)
T COG4467 4 KEIFDQVDNLEEQLGVLLAELGGLKQH-----LGSLVEENTALRLENEKLRERL 52 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHhhHHHHhhHHHHHHHh
Confidence 567788999999999999999887653 4455666666666655555544
No 106
>PRK11020 hypothetical protein; Provisional
Probab=38.51 E-value=1.9e+02 Score=25.58 Aligned_cols=22 Identities=23% Similarity=0.350 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 015276 129 EQLSVLEEKIKNLLEQVETLGE 150 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGe 150 (410)
+.|..+..+|..|..+|+.|-.
T Consensus 31 ~~i~qf~~E~~~l~k~I~~lk~ 52 (118)
T PRK11020 31 EKYAQFEKEKATLEAEIARLKE 52 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666666666554
No 107
>TIGR03077 not_gcvH glycine cleavage protein H-like protein, Chlamydial. The H protein (GcvH) of the glycine cleavage system shuttles the methylamine group of glycine from the P protein to the T protein. Most Chlamydia but lack the P and T proteins, and have a single homolog of GcvH that appears deeply split from canonical GcvH in molecular phylogenetic trees. The protein family modeled here is observed the Chlamydial GcvH homolog, so far always seen as part of a two-gene operon, downstream of a member of the uncharacterized protein family TIGR03076. The function of this protein is unknown.
Probab=38.41 E-value=24 Score=30.57 Aligned_cols=43 Identities=19% Similarity=0.104 Sum_probs=35.0
Q ss_pred ceeccCCCccccccccceeeeeeeeeecchhhhhccCcccceeeEEeeec
Q 015276 346 YFVETLPSPFHQILLKEKRVEIRVFLELKFQKWVSDGYRPFSCTIIFFNE 395 (410)
Q Consensus 346 ~~~d~~p~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 395 (410)
.|.+.|++| .+|+.-+ .|..+--.||+++=|-|++.+|+-+|+
T Consensus 33 ~~v~lp~~G-~~V~~g~------~i~~IEs~K~~~ei~sP~sG~Vv~vN~ 75 (110)
T TIGR03077 33 LHIDLPSVG-SSCKEGE------VLVILESSKSAIEVLSPVSGEVIEVNI 75 (110)
T ss_pred EEEECCCCC-CEEcCCC------EEEEEEeccEEEEEeCCCCEEEEEEHH
Confidence 688888887 5566554 456667789999999999999999985
No 108
>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]
Probab=38.40 E-value=2.4e+02 Score=30.30 Aligned_cols=116 Identities=20% Similarity=0.197 Sum_probs=69.3
Q ss_pred CCCCCcchhhcCCChhHhhhhcccCCCCCCCCCcHH---------HHHHhhcC-CCCCCCh---hhhHHHHHHHHHHHHH
Q 015276 32 DDKEVCPFYMVRFCPHDLFVNTRSDLGPCPRIHDQK---------LKESFEKS-PRHDAYV---PKFEAELAQFCEKLVM 98 (410)
Q Consensus 32 ~D~~VCk~yLvG~CPhdLF~NTK~DLG~C~kiHd~~---------lK~~Ye~~-~~~~~~~---~~YE~e~~~~L~~lI~ 98 (410)
.|.-||+++.--+=-++.=.+|+.+++.|-++|..- +-..|..+ ....-.. ..-+.-++..|...+.
T Consensus 74 ~~~~~~~~~~~p~r~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~f~i~~~qt~~d~PlC~eC~d~l~~~ld~e~~ 153 (447)
T KOG2751|consen 74 QESSVVVYFSPPVRDSDTEHNLSFELGENGSDGSNTKTLSATINVLTRLFDILSSQTQVDHPLCEECMDVLLNKLDKEVE 153 (447)
T ss_pred hhccceecccCcccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHhhccCCcccchHHHHHHHHHHHHHHHHH
Confidence 355688888877777888889999999888777531 11122222 1111111 1234556667777777
Q ss_pred HHHHHHHHHH---HhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhc
Q 015276 99 DLDRRVRRGR---ERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEA 151 (410)
Q Consensus 99 d~DrkI~~~k---~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGee 151 (410)
+++.-++.=+ ++|+++... ...+++..++.++..+=..|+++++.|-++
T Consensus 154 ~~~~e~~~Y~~~l~~Le~~~~~----~~~~~~~~e~~~l~~eE~~L~q~lk~le~~ 205 (447)
T KOG2751|consen 154 DAEDEVDTYKACLQRLEQQNQD----VSEEDLLKELKNLKEEEERLLQQLEELEKE 205 (447)
T ss_pred HHHHHHHHHHHHHHHHhhcCcc----cchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7776665444 455544311 133455566777777777788888776543
No 109
>PRK00624 glycine cleavage system protein H; Provisional
Probab=38.17 E-value=24 Score=30.80 Aligned_cols=43 Identities=19% Similarity=0.102 Sum_probs=34.3
Q ss_pred ceeccCCCccccccccceeeeeeeeeecchhhhhccCcccceeeEEeeec
Q 015276 346 YFVETLPSPFHQILLKEKRVEIRVFLELKFQKWVSDGYRPFSCTIIFFNE 395 (410)
Q Consensus 346 ~~~d~~p~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 395 (410)
.|.+.|+.| .+|+.-+ .|.++--.||+++=|-|++++|+-+|+
T Consensus 35 ~~v~lp~~G-~~V~~g~------~i~~IEs~K~~~~i~sPvsG~Vv~vN~ 77 (114)
T PRK00624 35 LHIDLPSVG-SFCKEGE------VLVILESSKSAIEVLSPVSGEVIEVNT 77 (114)
T ss_pred EEEECCCCC-CEEeCCC------EEEEEEeccEEEEEeCCCCEEEEEEHH
Confidence 688888887 4455554 455666789999999999999999985
No 110
>PRK00239 rpsT 30S ribosomal protein S20; Reviewed
Probab=37.95 E-value=72 Score=26.65 Aligned_cols=38 Identities=16% Similarity=0.240 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Q 015276 133 VLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVE 170 (410)
Q Consensus 133 ~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~E 170 (410)
..-..|...+.+++.+.++|+.++|..++.++..+-.+
T Consensus 23 ~~kS~~kT~iKk~~~ai~~~~~~~a~~~~~~a~s~iDk 60 (88)
T PRK00239 23 SRKSRVRTAIKKVEAAIAAGDKEAAEEALKAAQSKIDK 60 (88)
T ss_pred HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence 44566778888889999999999999999998887543
No 111
>TIGR02135 phoU_full phosphate transport system regulatory protein PhoU. This model describes PhoU, a regulatory protein of unknown mechanism for high-affinity phosphate ABC transporter systems. The protein consists of two copies of the domain described by Pfam model pfam01895. Deletion of PhoU activates constitutive expression of the phosphate ABC transporter and allows phosphate transport, but causes a growth defect and so likely has some second function.
Probab=37.78 E-value=3e+02 Score=24.69 Aligned_cols=83 Identities=12% Similarity=0.039 Sum_probs=55.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhcccccc--ccchhh
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCE--ICGSFL 202 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCe--VCGA~L 202 (410)
.+...+|..+-..+..++..+-.+-..++.+.|..+.+.-+.+...-.++.+.. .. ..++ ..|+ .+-.|+
T Consensus 112 ~~~~~el~~m~~~v~~~l~~a~~al~~~d~~~~~~i~~~e~~id~l~~~i~~~~-~~----~~~~---~~~~~~~~~~~~ 183 (212)
T TIGR02135 112 PKHLEELEKMGKLALKMLKDALDAFLNKDAELARQVAEMDERVDELYRQIFREL-VT----YMKE---NPENIEAALDVL 183 (212)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHH-HH----HHHH---CcccHHHHHHHH
Confidence 344567888888999999998888888888777666655555544333333322 11 1011 3476 566777
Q ss_pred hccchhhHhhhhh
Q 015276 203 VANDAAERTQSHI 215 (410)
Q Consensus 203 s~~D~d~Rl~dH~ 215 (410)
.+..+=+|+.||.
T Consensus 184 ~i~~~lERigD~~ 196 (212)
T TIGR02135 184 LIARYLERIGDHA 196 (212)
T ss_pred HHHHHHHHHHHHH
Confidence 8888999999997
No 112
>PF06632 XRCC4: DNA double-strand break repair and V(D)J recombination protein XRCC4; InterPro: IPR010585 This entry represents the DNA double-strand break repair and V(D)J recombination protein XRCC4, which is found in certain Metazoans, fungi and plants. XRCC4 binds to DNA, and to DNA ligase IV (LIG4) to form the LIG4-XRCC4 complex []. The LIG4-XRCC4 complex is responsible for the ligation step in the non-homologous end joining (NHEJ) pathway of DNA double-strand break repair. XRCC4 enhances the joining activity of LIG4. It is thought that XRCC4 and LIG4 are essential for alignment-based gap filling, as well as for final ligation of the breaks []. Binding of the LIG4-XRCC4 complex to DNA ends is dependent on the assembly of the DNA-dependent protein kinase complex DNA-PK to these DNA ends. ; GO: 0003677 DNA binding, 0006302 double-strand break repair, 0006310 DNA recombination, 0005634 nucleus; PDB: 3RWR_R 1IK9_B 3SR2_E 3Q4F_H 3II6_B 1FU1_A 3MUD_B.
Probab=37.47 E-value=3e+02 Score=28.60 Aligned_cols=46 Identities=26% Similarity=0.343 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 132 SVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQ 177 (410)
Q Consensus 132 ~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~ 177 (410)
..|...++.+++++|++..+-+--|..-+.+=+.-|+++|.+|...
T Consensus 154 erL~~e~~~~~~qlE~~v~~K~~~E~~L~~KF~~vLNeKK~KIR~l 199 (342)
T PF06632_consen 154 ERLESEANKLLKQLEKFVNAKEEHEEDLYAKFVLVLNEKKAKIREL 199 (342)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 3566777788888888888766667766666677777777777654
No 113
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=37.36 E-value=1.4e+02 Score=30.43 Aligned_cols=34 Identities=21% Similarity=0.378 Sum_probs=17.5
Q ss_pred HHHHHhhcCCCCCCChhhhHHHHHHHHHHHHHHHHHHH
Q 015276 67 KLKESFEKSPRHDAYVPKFEAELAQFCEKLVMDLDRRV 104 (410)
Q Consensus 67 ~lK~~Ye~~~~~~~~~~~YE~e~~~~L~~lI~d~DrkI 104 (410)
.+-..|-....+..+ ||+. ++.|+.|...++..+
T Consensus 120 ~lvK~~aRl~ak~~W---YeWR-~kllegLk~~L~~~~ 153 (312)
T smart00787 120 QLVKTFARLEAKKMW---YEWR-MKLLEGLKEGLDENL 153 (312)
T ss_pred HHHHHHHHHHHHHHH---HHHH-HHHHHHHHHHHHHHH
Confidence 444555444333444 6764 344666665555554
No 114
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=37.18 E-value=1.1e+02 Score=31.11 Aligned_cols=9 Identities=33% Similarity=0.648 Sum_probs=4.5
Q ss_pred HHHHHHhhc
Q 015276 66 QKLKESFEK 74 (410)
Q Consensus 66 ~~lK~~Ye~ 74 (410)
+.|+.++..
T Consensus 159 ~~L~~D~~~ 167 (325)
T PF08317_consen 159 ELLQEDYAK 167 (325)
T ss_pred HHHHHHHHH
Confidence 445555543
No 115
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=36.98 E-value=1.5e+02 Score=26.21 Aligned_cols=52 Identities=23% Similarity=0.319 Sum_probs=42.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 126 EKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQ 177 (410)
Q Consensus 126 ~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~ 177 (410)
.+..++..|+.+|..+..+|-.+...|+.+.|..++...-.+......+...
T Consensus 12 ~L~~~~~~le~~i~~~~~~~k~~~~~~~~~~A~~~lk~~k~~~k~~~~~~~~ 63 (171)
T PF03357_consen 12 RLEKQIKRLEKKIKKLEKKAKKAIKKGNKERAKIYLKRKKRLEKQLEKLLNQ 63 (171)
T ss_dssp HHHHHHHHHHHHHHHCHHHHHHHHCTT-HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456788899999999999999999999999999988888887777666554
No 116
>PF01597 GCV_H: Glycine cleavage H-protein; InterPro: IPR002930 This is a family of glycine cleavage H-proteins, part of the glycine cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyses the catabolism of glycine in eukaryotes. A lipoyl group is attached to a completely conserved lysine residue. The H protein shuttles the methylamine group of glycine from the P protein to the T protein [].; GO: 0006546 glycine catabolic process, 0005960 glycine cleavage complex; PDB: 3KLR_A 2EDG_A 1ONL_B 2KA7_A 1ZKO_A 3TZU_C 3MXU_A 3A8I_F 3A8J_E 3A7A_B ....
Probab=36.68 E-value=18 Score=31.66 Aligned_cols=43 Identities=30% Similarity=0.325 Sum_probs=30.3
Q ss_pred ceeccCCCccccccccceeeeeeeeeecchhhhhccCcccceeeEEeeec
Q 015276 346 YFVETLPSPFHQILLKEKRVEIRVFLELKFQKWVSDGYRPFSCTIIFFNE 395 (410)
Q Consensus 346 ~~~d~~p~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 395 (410)
.|++.|++|-. |+.-+ .|+.+...||+.+=|-|++|+|+-+|+
T Consensus 34 ~~v~lp~~g~~-~~~g~------~~~~ies~k~~~~l~sPvsG~Vv~vN~ 76 (122)
T PF01597_consen 34 VYVELPKVGTK-LKKGD------PFASIESSKAVSDLYSPVSGTVVEVNE 76 (122)
T ss_dssp EEEE-B-TT-E-E-TTS------EEEEEEESSEEEEEEESSSEEEEEE-G
T ss_pred EEEEEccCCCE-EecCC------cEEEEEECceeeecccceEEEEEEEcc
Confidence 68888888764 44433 456666799999999999999999997
No 117
>TIGR02420 dksA RNA polymerase-binding protein DksA. The model that is the basis for this family describes a small, pleiotropic protein, DksA (DnaK suppressor A), originally named as a multicopy suppressor of temperature sensitivity of dnaKJ mutants. DksA mutants are defective in quorum sensing, virulence, etc. DksA is now understood to bind RNA polymerase directly and modulate its response to small molecules to control the level of transcription of rRNA. Nearly all members of this family are in the Proteobacteria. Whether the closest homologs outside the Proteobacteria function equivalently is unknown. The low value set for the noise cutoff allows identification of possible DksA proteins from outside the proteobacteria. TIGR02419 describes a closely related family of short sequences usually found in prophage regions of proteobacterial genomes or in known phage.
Probab=36.46 E-value=1.9e+02 Score=24.63 Aligned_cols=13 Identities=31% Similarity=0.713 Sum_probs=9.7
Q ss_pred ccccccccchhhh
Q 015276 191 KMALCEICGSFLV 203 (410)
Q Consensus 191 kl~VCeVCGA~Ls 203 (410)
.--+|+.||.-+.
T Consensus 79 ~yG~C~~Cge~I~ 91 (110)
T TIGR02420 79 EYGYCEECGEEIG 91 (110)
T ss_pred CCCchhccCCccc
Confidence 3469999998653
No 118
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=36.07 E-value=2.8e+02 Score=28.15 Aligned_cols=23 Identities=22% Similarity=0.225 Sum_probs=14.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 015276 85 FEAELAQFCEKLVMDLDRRVRRGR 108 (410)
Q Consensus 85 YE~e~~~~L~~lI~d~DrkI~~~k 108 (410)
||+. ++.++.|+..++..+..-+
T Consensus 140 YeWR-~~ll~gl~~~L~~~~~~L~ 162 (325)
T PF08317_consen 140 YEWR-MQLLEGLKEGLEENLELLQ 162 (325)
T ss_pred HHHH-HHHHHHHHHHHHHHHHHHH
Confidence 7776 5666777776666654433
No 119
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=35.98 E-value=1e+02 Score=32.51 Aligned_cols=49 Identities=22% Similarity=0.289 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 129 EQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
.+++.|..+.+.+.++|-.+...|+ +++..+.+++.+|+++...++++.
T Consensus 44 ~~~~~l~~erN~~sk~i~~~~~~~~-~~~~~l~~~~~~l~~~~~~~~~~~ 92 (418)
T TIGR00414 44 SEIEELQAKRNELSKQIGKAKGQKK-DKIEEIKKELKELKEELTELSAAL 92 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCc-chHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555566666666655544442 115556666666666666665543
No 120
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=35.96 E-value=13 Score=24.01 Aligned_cols=24 Identities=29% Similarity=0.804 Sum_probs=14.8
Q ss_pred CCCcchhhc-CCChhHhhhhcccCCCCCCCCCcH
Q 015276 34 KEVCPFYMV-RFCPHDLFVNTRSDLGPCPRIHDQ 66 (410)
Q Consensus 34 ~~VCk~yLv-G~CPhdLF~NTK~DLG~C~kiHd~ 66 (410)
..+|++|+. |.||+. ..|+-.|++
T Consensus 3 ~~~C~~f~~~g~C~~G---------~~C~f~H~~ 27 (27)
T PF00642_consen 3 TKLCRFFMRTGTCPFG---------DKCRFAHGE 27 (27)
T ss_dssp SSB-HHHHHTS--TTG---------GGSSSBSSG
T ss_pred cccChhhccCCccCCC---------CCcCccCCC
Confidence 478999999 999864 346666653
No 121
>PRK11637 AmiB activator; Provisional
Probab=35.54 E-value=1.9e+02 Score=30.24 Aligned_cols=22 Identities=9% Similarity=-0.102 Sum_probs=13.8
Q ss_pred cceeccCC-Cccccccccceeee
Q 015276 345 YYFVETLP-SPFHQILLKEKRVE 366 (410)
Q Consensus 345 y~~~d~~p-~g~~~~~~~~~~~~ 366 (410)
..++|+.+ +|...++|..=+|.
T Consensus 329 ~~Gi~i~~~~g~~v~A~~~G~V~ 351 (428)
T PRK11637 329 WKGMVIGASEGTEVKAIADGRVL 351 (428)
T ss_pred CCCEEeecCCCCeEEecCCeEEE
Confidence 45666654 46777777776664
No 122
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=35.35 E-value=1.8e+02 Score=25.35 Aligned_cols=47 Identities=23% Similarity=0.346 Sum_probs=30.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHh
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQ 176 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~ 176 (410)
.++-..+..|+++|+.+++++++|-.. ...++++-..|+.|=+.|..
T Consensus 4 ~elfd~l~~le~~l~~l~~el~~LK~~-----~~el~EEN~~L~iEN~~Lr~ 50 (110)
T PRK13169 4 KEIFDALDDLEQNLGVLLKELGALKKQ-----LAELLEENTALRLENDKLRE 50 (110)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHH
Confidence 456678888888888888888888653 44455555555554444433
No 123
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=35.19 E-value=38 Score=30.43 Aligned_cols=38 Identities=18% Similarity=0.148 Sum_probs=24.4
Q ss_pred cchhhhccchhhHhhhhhc-----ccccccHHHHHHHHHHHHH
Q 015276 198 CGSFLVANDAAERTQSHIS-----GKQHIGYGMVRDFITEYKE 235 (410)
Q Consensus 198 CGA~Ls~~D~d~Rl~dH~~-----GK~HlGy~kIRe~l~eLke 235 (410)
.-.+|-+.|+-.|...|+. ...+-||..|.+.+..+-+
T Consensus 64 ~~~ll~v~D~l~~a~~~~~~~~~~~~~~~g~~~~~~~l~~~L~ 106 (165)
T PF01025_consen 64 LKDLLPVLDNLERALEAAKSNEEEESLLEGLEMILKQLEDILE 106 (165)
T ss_dssp HHHHHHHHHHHHHHHCC-SHHCTCHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHH
Confidence 3447778888888888763 4556677776666655443
No 124
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=34.42 E-value=1e+02 Score=24.56 Aligned_cols=43 Identities=23% Similarity=0.361 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 131 LSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 131 I~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
+..|+.+|..|+...+.|-.+. ..+-.++..+..|+..|....
T Consensus 2 L~~Le~kle~Li~~~~~L~~EN-----~~Lr~q~~~~~~ER~~L~ekn 44 (65)
T TIGR02449 2 LQALAAQVEHLLEYLERLKSEN-----RLLRAQEKTWREERAQLLEKN 44 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHH
Confidence 6788999999999999998864 447777888888888876653
No 125
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=34.37 E-value=4.3e+02 Score=27.01 Aligned_cols=44 Identities=30% Similarity=0.370 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 129 EQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQ 177 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~ 177 (410)
++|..+..+|..+..+++++-.+ =..+-..++.+.+++.++..+
T Consensus 211 ~~l~~~~~ei~~~~~~l~e~~~~-----l~~l~~~I~~~~~~k~e~~~~ 254 (312)
T smart00787 211 EKLKKLLQEIMIKVKKLEELEEE-----LQELESKIEDLTNKKSELNTE 254 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555544444332 222333444444444444443
No 126
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=34.31 E-value=38 Score=34.64 Aligned_cols=19 Identities=16% Similarity=0.171 Sum_probs=9.6
Q ss_pred hhccchhhHhhhhhccccc
Q 015276 202 LVANDAAERTQSHISGKQH 220 (410)
Q Consensus 202 Ls~~D~d~Rl~dH~~GK~H 220 (410)
.+-+=-.+||--=|+|+-.
T Consensus 182 TvkgW~PRRLGGGLGg~r~ 200 (335)
T KOG0113|consen 182 TVKGWLPRRLGGGLGGRRY 200 (335)
T ss_pred cccccccccccCCcCCccc
Confidence 3333445566655666543
No 127
>PRK14146 heat shock protein GrpE; Provisional
Probab=33.94 E-value=1.6e+02 Score=28.48 Aligned_cols=43 Identities=21% Similarity=0.174 Sum_probs=29.2
Q ss_pred hccccccccchhhhccchhhHhhhhhc-----ccccccHHHHHHHHHH
Q 015276 190 KKMALCEICGSFLVANDAAERTQSHIS-----GKQHIGYGMVRDFITE 232 (410)
Q Consensus 190 qkl~VCeVCGA~Ls~~D~d~Rl~dH~~-----GK~HlGy~kIRe~l~e 232 (410)
.+..+-.++-.+|-+.|+-.|.-.|.. ..++-|+..|...|..
T Consensus 99 ~~~a~e~~~~~lLpv~DnlerAl~~~~~~~~~~~l~~Gv~mi~k~l~~ 146 (215)
T PRK14146 99 RKEAVKSLVSGFLNPIDNLERVGATQNQSEELKPFVEGVKMILKEFYS 146 (215)
T ss_pred HHHHHHHHHHHHhhHHhHHHHHHhcccccchhhHHHHHHHHHHHHHHH
Confidence 344667789999999999999766653 2245566665544443
No 128
>TIGR00029 S20 ribosomal protein S20. This family consists of bacterial (and chloroplast) examples of the bacteria ribosomal small subunit protein S20.
Probab=33.81 E-value=92 Score=26.02 Aligned_cols=37 Identities=19% Similarity=0.220 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHH
Q 015276 133 VLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNV 169 (410)
Q Consensus 133 ~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~ 169 (410)
..-..|...+.+++.+.++|+.++|+.++.++..+-.
T Consensus 23 ~~kS~~kT~iKk~~~ai~~~d~~~a~~~l~~a~s~iD 59 (87)
T TIGR00029 23 SQKSKMKTIIKKVYAAIAAGDKDKAQEAFKEAAKKLD 59 (87)
T ss_pred HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 4456677888999999999999999999988877654
No 129
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=33.60 E-value=1.9e+02 Score=23.26 Aligned_cols=45 Identities=24% Similarity=0.347 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 128 SEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQ 177 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~ 177 (410)
...|.+-+++|..||.+-|.|-.. =..+...+-.|+.+..+++..
T Consensus 4 ~~~l~EKDe~Ia~L~eEGekLSk~-----el~~~~~IKKLr~~~~e~e~~ 48 (74)
T PF12329_consen 4 EKKLAEKDEQIAQLMEEGEKLSKK-----ELKLNNTIKKLRAKIKELEKQ 48 (74)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHH-----HHhhHHHHHHHHHHHHHHHHH
Confidence 345566666666666666666543 233445555555555544443
No 130
>PRK14160 heat shock protein GrpE; Provisional
Probab=33.60 E-value=2.7e+02 Score=27.01 Aligned_cols=41 Identities=17% Similarity=0.077 Sum_probs=26.9
Q ss_pred hccccccccchhhhccchhhHhhhhhc--ccccccHHHHHHHH
Q 015276 190 KKMALCEICGSFLVANDAAERTQSHIS--GKQHIGYGMVRDFI 230 (410)
Q Consensus 190 qkl~VCeVCGA~Ls~~D~d~Rl~dH~~--GK~HlGy~kIRe~l 230 (410)
.+..+..+.-.+|-+.|+-.|.-.|.. ..++-|+..|...+
T Consensus 106 ~~~a~e~~~~~LLpVlDnLerAl~~~~~~~~l~~Gv~mi~kql 148 (211)
T PRK14160 106 YSDACEDVLKELLPVLDNLERAAAVEGSVEDLKKGIEMTVKQF 148 (211)
T ss_pred HHHHHHHHHHHHhhHHhHHHHHHhcccchhHHHHHHHHHHHHH
Confidence 344566788899999999999666632 12455655554433
No 131
>COG5136 U1 snRNP-specific protein C [RNA processing and modification]
Probab=33.55 E-value=46 Score=31.16 Aligned_cols=30 Identities=27% Similarity=0.489 Sum_probs=26.0
Q ss_pred ccccccchhhhccchhhHhhhhhcccccccH
Q 015276 193 ALCEICGSFLVANDAAERTQSHISGKQHIGY 223 (410)
Q Consensus 193 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlGy 223 (410)
..||-|-.+|. +|+..=...|..|+.|+-.
T Consensus 4 Y~CeyC~~~Lt-hD~lsvRk~H~~G~~H~~~ 33 (188)
T COG5136 4 YFCEYCNKMLT-HDRLSVRKMHCGGAKHGLM 33 (188)
T ss_pred hHHHHHHHHHh-ccHHHHHHHhhhhHHHHHH
Confidence 46999999986 8888888999999999753
No 132
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=33.22 E-value=2.5e+02 Score=26.01 Aligned_cols=37 Identities=22% Similarity=0.336 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 130 QLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 130 eI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
+...++++|.++-+++++ .-.+++.|+++.+.+++++
T Consensus 155 ~~~~~~~ei~~lk~el~~------------~~~~~~~LkkQ~~~l~~ey 191 (192)
T PF05529_consen 155 ENKKLSEEIEKLKKELEK------------KEKEIEALKKQSEGLQKEY 191 (192)
T ss_pred hhhhhHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHhhc
Confidence 334445555555555544 3334455555555555443
No 133
>PRK14155 heat shock protein GrpE; Provisional
Probab=32.86 E-value=1.3e+02 Score=28.94 Aligned_cols=87 Identities=18% Similarity=0.173 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccchhhH
Q 015276 131 LSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVANDAAER 210 (410)
Q Consensus 131 I~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~R 210 (410)
+..+..+|..+-+++++|- +..+.+.++.+-+++- .+++. . ...+.-+=.++-.+|-+.|+-.|
T Consensus 15 ~~~l~~~l~~le~e~~elk-----d~~lR~~AefeN~RKR---~~kE~-e-------~~~~~a~~~~~~~LLpV~DnLer 78 (208)
T PRK14155 15 ADDAAQEIEALKAEVAALK-----DQALRYAAEAENTKRR---AEREM-N-------DARAYAIQKFARDLLGAADNLGR 78 (208)
T ss_pred ccchHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHH---HHHHH-H-------HHHHHHHHHHHHHHhhHHhhHHH
Confidence 3455556666666666653 3344555555555432 22221 0 11122333467789999999999
Q ss_pred hhhhhc--------ccccccHHHHHHHHHHH
Q 015276 211 TQSHIS--------GKQHIGYGMVRDFITEY 233 (410)
Q Consensus 211 l~dH~~--------GK~HlGy~kIRe~l~eL 233 (410)
.-.|+. ..++-|+..|.+.+...
T Consensus 79 Al~~~~~~~~~~~~~~i~~Gvemi~k~~~~~ 109 (208)
T PRK14155 79 ATAASPKDSADPAVKNFIIGVEMTEKELLGA 109 (208)
T ss_pred HHhcccccccchHHHHHHHHHHHHHHHHHHH
Confidence 777764 23566777776555443
No 134
>PF01649 Ribosomal_S20p: Ribosomal protein S20; InterPro: IPR002583 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 family consists of bacterial (and chloroplast) examples of the ribosomal small subunit protein S20. Bacterial ribosomal protein S20 forms part of the 30S ribosomal subunit, and interacts with 16S rRNA.; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1I94_T 1FJG_T 4DH9_T 3KNJ_T 3TVG_W 3UYF_W 3V28_T 3KIS_t 3HUY_T 1HNX_T ....
Probab=32.78 E-value=1e+02 Score=25.54 Aligned_cols=37 Identities=22% Similarity=0.280 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHH
Q 015276 133 VLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNV 169 (410)
Q Consensus 133 ~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~ 169 (410)
..-..|...+.+++.+.++|+.++|+.++..+..+-.
T Consensus 22 ~~kS~~rT~iKk~~~ai~~~~~~~a~~~l~~a~s~iD 58 (84)
T PF01649_consen 22 SRKSRVRTAIKKFREAIEAGDKEEAKELLRKAYSAID 58 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHH
Confidence 4556778899999999999999999999988887653
No 135
>PRK14141 heat shock protein GrpE; Provisional
Probab=32.74 E-value=1.8e+02 Score=28.16 Aligned_cols=43 Identities=14% Similarity=0.162 Sum_probs=29.6
Q ss_pred ccccccccchhhhccchhhHhhhhhcc-----------cccccHHHHHHHHHHH
Q 015276 191 KMALCEICGSFLVANDAAERTQSHISG-----------KQHIGYGMVRDFITEY 233 (410)
Q Consensus 191 kl~VCeVCGA~Ls~~D~d~Rl~dH~~G-----------K~HlGy~kIRe~l~eL 233 (410)
+..+..++-.+|-+.|+-.|.-.|+.. .++-|+..|...|...
T Consensus 77 ~~a~~~~~~dLLpViDnLerAl~~~~~~~~~~~~~~~~~l~eGv~mi~k~l~~v 130 (209)
T PRK14141 77 AYGIAGFARDMLSVSDNLRRALDAIPAEARAAADAGLKALIEGVEMTERAMLNA 130 (209)
T ss_pred HHHHHHHHHHHhhhHhHHHHHHhccccccccccchhHHHHHHHHHHHHHHHHHH
Confidence 445566888999999999997777642 3555666665554443
No 136
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=32.73 E-value=20 Score=33.53 Aligned_cols=35 Identities=26% Similarity=0.361 Sum_probs=27.8
Q ss_pred ccccccccchhhhccchhhHhhhhhcccccccHHHHHHHHHHHHHHH
Q 015276 191 KMALCEICGSFLVANDAAERTQSHISGKQHIGYGMVRDFITEYKEAK 237 (410)
Q Consensus 191 kl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlGy~kIRe~l~eLke~~ 237 (410)
--+.|++||..|.-.||..-+ ..|.+.+++|++..
T Consensus 135 ~~F~Cp~Cg~~L~~~dn~~~~------------~~l~~~I~~l~~~~ 169 (178)
T PRK06266 135 YGFRCPQCGEMLEEYDNSELI------------KELKEQIKELEEEL 169 (178)
T ss_pred cCCcCCCCCCCCeecccHHHH------------HHHHHHHHHHHHHh
Confidence 359999999999999988765 35777777777654
No 137
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=32.53 E-value=2.5e+02 Score=26.25 Aligned_cols=18 Identities=33% Similarity=0.730 Sum_probs=10.7
Q ss_pred ccccccccchhhhccchhh
Q 015276 191 KMALCEICGSFLVANDAAE 209 (410)
Q Consensus 191 kl~VCeVCGA~Ls~~D~d~ 209 (410)
+.-||.|||= +..+.++.
T Consensus 133 ~~~vC~vCGy-~~~ge~P~ 150 (166)
T COG1592 133 KVWVCPVCGY-THEGEAPE 150 (166)
T ss_pred CEEEcCCCCC-cccCCCCC
Confidence 3788888883 33334443
No 138
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=32.48 E-value=1.8e+02 Score=27.96 Aligned_cols=80 Identities=19% Similarity=0.277 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHH
Q 015276 90 AQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNV 169 (410)
Q Consensus 90 ~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~ 169 (410)
...|+.++..++..+...++.++.-. ..-...-.+...+|..|+.+-..++.+.=++..+ +..+-.+|..|+.
T Consensus 138 n~~Le~~~~~le~~l~~~k~~ie~vN--~~RK~~Q~~~~~~L~~Le~~W~~~v~kn~eie~a-----~~~Le~ei~~l~~ 210 (221)
T PF05700_consen 138 NEQLEAMLKRLEKELAKLKKEIEEVN--RERKRRQEEAGEELRYLEQRWKELVSKNLEIEVA-----CEELEQEIEQLKR 210 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHH
Confidence 34566666666666666665554321 0000001123456677777777777666665542 4555566666666
Q ss_pred HHHHHHh
Q 015276 170 EKTTLTQ 176 (410)
Q Consensus 170 Eke~le~ 176 (410)
+..+++.
T Consensus 211 ~~~~~~~ 217 (221)
T PF05700_consen 211 KAAELKE 217 (221)
T ss_pred HHHHHhc
Confidence 5554443
No 139
>PRK10708 hypothetical protein; Provisional
Probab=32.02 E-value=27 Score=27.24 Aligned_cols=14 Identities=43% Similarity=0.762 Sum_probs=11.4
Q ss_pred ceeeEEeeeccCCc
Q 015276 386 FSCTIIFFNELGGK 399 (410)
Q Consensus 386 ~~~~~~~~~~~~~~ 399 (410)
|.-.|.||||+++.
T Consensus 40 YP~GiWFFNE~~~~ 53 (62)
T PRK10708 40 YPLGIWFFNEAGHQ 53 (62)
T ss_pred CCCceEEEeccCCC
Confidence 45679999999875
No 140
>PF14282 FlxA: FlxA-like protein
Probab=31.99 E-value=2e+02 Score=24.49 Aligned_cols=53 Identities=19% Similarity=0.380 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHH
Q 015276 94 EKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETL 148 (410)
Q Consensus 94 ~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeL 148 (410)
...|..+..+|....+.|..-..... .....+.+++..|..+|..|-.+|-.|
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~~~~--~~~e~k~~q~q~Lq~QI~~LqaQI~ql 70 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQDSD--LDAEQKQQQIQLLQAQIQQLQAQIAQL 70 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccC--CCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677777777777777754332111 123445667777777777776666443
No 141
>PRK12495 hypothetical protein; Provisional
Probab=31.90 E-value=50 Score=32.28 Aligned_cols=12 Identities=33% Similarity=0.764 Sum_probs=10.6
Q ss_pred cccccccchhhh
Q 015276 192 MALCEICGSFLV 203 (410)
Q Consensus 192 l~VCeVCGA~Ls 203 (410)
.+.|++||.-|.
T Consensus 42 a~hC~~CG~PIp 53 (226)
T PRK12495 42 NAHCDECGDPIF 53 (226)
T ss_pred hhhcccccCccc
Confidence 389999999988
No 142
>PLN00204 CP12 gene family protein; Provisional
Probab=30.68 E-value=1.4e+02 Score=26.80 Aligned_cols=43 Identities=19% Similarity=0.210 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHHHHHH
Q 015276 133 VLEEKIKNLLEQVETLGEAGKV-DEAEALMRKVEILNVEKTTLT 175 (410)
Q Consensus 133 ~LeekI~~Ll~eaEeLGeeGeV-deAq~lm~kvE~Lk~Eke~le 175 (410)
.|+++|.+.+++++++-.+|.. .++......||+|+.++.-..
T Consensus 56 ~L~e~Ie~aI~eArevCa~g~~S~eCaaAWDeVEELqAeasHqr 99 (126)
T PLN00204 56 GISEKVEKSIKEAEETCADDPASGECVAAWDEVEELSAAASHAR 99 (126)
T ss_pred cHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHcc
Confidence 5788899999999998887744 567778999999988776443
No 143
>PRK11637 AmiB activator; Provisional
Probab=30.66 E-value=3.1e+02 Score=28.73 Aligned_cols=20 Identities=15% Similarity=0.134 Sum_probs=13.5
Q ss_pred cccceeeEEeeeccCCcccc
Q 015276 383 YRPFSCTIIFFNELGGKGRL 402 (410)
Q Consensus 383 ~~~~~~~~~~~~~~~~~~~~ 402 (410)
+-|++++|+|...++|-|.+
T Consensus 343 ~A~~~G~V~~~~~~~~~G~~ 362 (428)
T PRK11637 343 KAIADGRVLLADWLQGYGLV 362 (428)
T ss_pred EecCCeEEEEeeccCCcccE
Confidence 45677777777666666643
No 144
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=30.00 E-value=3e+02 Score=31.65 Aligned_cols=41 Identities=27% Similarity=0.295 Sum_probs=30.8
Q ss_pred HHHHHHhhcCCCCCCChhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 015276 66 QKLKESFEKSPRHDAYVPKFEAELAQFCEKLVMDLDRRVRRGR 108 (410)
Q Consensus 66 ~~lK~~Ye~~~~~~~~~~~YE~e~~~~L~~lI~d~DrkI~~~k 108 (410)
++||+++-+++....- --+.-+..-|++|-.++|..+..|-
T Consensus 439 ekLk~eilKAk~s~~~--~~~~~L~e~IeKLk~E~d~e~S~A~ 479 (762)
T PLN03229 439 EKLKEQILKAKESSSK--PSELALNEMIEKLKKEIDLEYTEAV 479 (762)
T ss_pred HHHHHHHHhcccccCC--CCChHHHHHHHHHHHHHHHHHHHhh
Confidence 5788888777432222 3477888999999999999988773
No 145
>TIGR02135 phoU_full phosphate transport system regulatory protein PhoU. This model describes PhoU, a regulatory protein of unknown mechanism for high-affinity phosphate ABC transporter systems. The protein consists of two copies of the domain described by Pfam model pfam01895. Deletion of PhoU activates constitutive expression of the phosphate ABC transporter and allows phosphate transport, but causes a growth defect and so likely has some second function.
Probab=29.67 E-value=2.7e+02 Score=25.06 Aligned_cols=36 Identities=14% Similarity=0.103 Sum_probs=21.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHH
Q 015276 127 KSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMR 162 (410)
Q Consensus 127 ~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~ 162 (410)
..++|..+...+..++..+..+-..++.+.|+.+..
T Consensus 10 ~~~el~~m~~~~~~ml~~~~~~~~~~d~~~~~~i~~ 45 (212)
T TIGR02135 10 LREELLEMGGLVEEQLEDAVRALTEKDRELARKVIE 45 (212)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHH
Confidence 344566666666666666666666666555554443
No 146
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=29.47 E-value=47 Score=34.79 Aligned_cols=16 Identities=13% Similarity=-0.014 Sum_probs=8.3
Q ss_pred ccHHHHHHHHHHHHHH
Q 015276 221 IGYGMVRDFITEYKEA 236 (410)
Q Consensus 221 lGy~kIRe~l~eLke~ 236 (410)
--+..+++.-....+.
T Consensus 360 ~~~~~~~~~~~d~r~r 375 (479)
T KOG0415|consen 360 TEGHETPDHNSDDRER 375 (479)
T ss_pred CCCCCCcccchhhhhh
Confidence 3455555555555543
No 147
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=29.28 E-value=4.3e+02 Score=24.13 Aligned_cols=63 Identities=21% Similarity=0.246 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCC-CCCchhhHHHHHHHHHHHHHHHHHHHHHh
Q 015276 87 AELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPP-PPISAEKSEQLSVLEEKIKNLLEQVETLG 149 (410)
Q Consensus 87 ~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~-~~~~~~~~eeI~~LeekI~~Ll~eaEeLG 149 (410)
...+..+..-+.+.+.++......+....+.... ........+++..+++.+..+.+++..|-
T Consensus 87 ~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~ 150 (191)
T PF04156_consen 87 QQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQ 150 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555666666666766666666533211000 01234566788899999999999999888
No 148
>KOG3032 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.19 E-value=1.8e+02 Score=28.91 Aligned_cols=38 Identities=26% Similarity=0.337 Sum_probs=28.5
Q ss_pred HHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 015276 143 EQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQND 181 (410)
Q Consensus 143 ~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~ 181 (410)
+.+..-.+.++++|-+....+|+.|+.++.+|.+.. ++
T Consensus 192 ed~~l~reieeidEQi~~~kkvekl~~qK~ellnkk-Re 229 (264)
T KOG3032|consen 192 EDAALTREIEEIDEQISYKKKVEKLKRQKMELLNKK-RE 229 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hh
Confidence 333334455778888889999999999999988776 44
No 149
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=29.15 E-value=24 Score=32.33 Aligned_cols=21 Identities=29% Similarity=0.403 Sum_probs=17.7
Q ss_pred ccccccccchhhhccchhhHh
Q 015276 191 KMALCEICGSFLVANDAAERT 211 (410)
Q Consensus 191 kl~VCeVCGA~Ls~~D~d~Rl 211 (410)
--+.|++||+.|.-.||..-+
T Consensus 127 ~~F~Cp~Cg~~L~~~dn~~~i 147 (158)
T TIGR00373 127 LNFTCPRCGAMLDYLDNSEAI 147 (158)
T ss_pred cCCcCCCCCCEeeeccCHHHH
Confidence 359999999999999987654
No 150
>PRK14150 heat shock protein GrpE; Provisional
Probab=29.04 E-value=2.3e+02 Score=26.90 Aligned_cols=44 Identities=18% Similarity=0.157 Sum_probs=29.5
Q ss_pred hccccccccchhhhccchhhHhhhhhcc------cccccHHHHHHHHHHH
Q 015276 190 KKMALCEICGSFLVANDAAERTQSHISG------KQHIGYGMVRDFITEY 233 (410)
Q Consensus 190 qkl~VCeVCGA~Ls~~D~d~Rl~dH~~G------K~HlGy~kIRe~l~eL 233 (410)
++..+-.++-.+|-+.|+-.|.-.|... .++-|+..|...+...
T Consensus 83 ~~~a~~~~~~~lL~v~DnlerAl~~~~~~~~~~~~~~~Gv~mi~~~l~~~ 132 (193)
T PRK14150 83 HKFALEKFANELLPVIDNLERALQAADKENEALKALIEGVELTLKSLLDT 132 (193)
T ss_pred HHHHHHHHHHHHHhHHhHHHHHHhcccccchhHHHHHHHHHHHHHHHHHH
Confidence 3445667888999999999996566532 3556776665555443
No 151
>COG4499 Predicted membrane protein [Function unknown]
Probab=28.97 E-value=1.9e+02 Score=30.74 Aligned_cols=74 Identities=12% Similarity=0.104 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHH
Q 015276 93 CEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILN 168 (410)
Q Consensus 93 L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk 168 (410)
|.+.+.|.|--.=..-.++++.. ........+..+.|++++.+|+..+++.+++.++-+-+++...-.+-|+++
T Consensus 335 IAr~L~D~d~~~~Al~k~~eevk--sn~~lsg~~r~e~lk~~n~~lqd~~k~~~e~k~e~das~~aeaka~eek~~ 408 (434)
T COG4499 335 IARNLDDNDLTLLALTKLYEEVK--SNTDLSGDKRQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLK 408 (434)
T ss_pred HHHhCCcchhHHHHHHHHHHHHh--cccCCCchHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhHhhhhhhhhh
Confidence 44455555555444445555443 111234567889999999999999999999998766555444433334443
No 152
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=28.69 E-value=18 Score=27.74 Aligned_cols=20 Identities=30% Similarity=0.655 Sum_probs=12.2
Q ss_pred ccccccccchhhhccchhhH
Q 015276 191 KMALCEICGSFLVANDAAER 210 (410)
Q Consensus 191 kl~VCeVCGA~Ls~~D~d~R 210 (410)
+--.|++|||.++..-|-+|
T Consensus 23 ~PatCP~C~a~~~~srnLrR 42 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRR 42 (54)
T ss_dssp --EE-TTT--EESSHHHHHH
T ss_pred CCCCCCcchhhccchhhHHH
Confidence 45789999999988766666
No 153
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=28.14 E-value=2.9e+02 Score=31.26 Aligned_cols=70 Identities=20% Similarity=0.305 Sum_probs=43.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcCC---------HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccc
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEAGK---------VDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALC 195 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGeeGe---------VdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VC 195 (410)
+.+..+|..++.+++.++..+...---|. ++.-..+...++.|.+++++-.+++ .+ -..|..++|
T Consensus 64 ~~L~~~ia~~eael~~l~s~l~~~~~~~~~~~k~e~tLke~l~~l~~~le~lr~qk~eR~~ef-~e-----l~~qie~l~ 137 (660)
T KOG4302|consen 64 ARLLQEIAVIEAELNDLCSALGEPSIIGEISDKIEGTLKEQLESLKPYLEGLRKQKDERRAEF-KE-----LYHQIEKLC 137 (660)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCcccccccccccCccHHHHHHHHHHHHHHHHHHHHHHHHHH-HH-----HHHHHHHHH
Confidence 34456777888888888877766555454 4445566666777777776666655 22 134555778
Q ss_pred c-ccch
Q 015276 196 E-ICGS 200 (410)
Q Consensus 196 e-VCGA 200 (410)
+ +||-
T Consensus 138 ~~l~g~ 143 (660)
T KOG4302|consen 138 EELGGP 143 (660)
T ss_pred HHhcCC
Confidence 7 5555
No 154
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=27.72 E-value=3.8e+02 Score=26.09 Aligned_cols=86 Identities=19% Similarity=0.236 Sum_probs=49.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCC-CCCCchhhHHHHHHHHHHHHHHHHHHHHHhh---cCCHHHHHH
Q 015276 84 KFEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAP-PPPISAEKSEQLSVLEEKIKNLLEQVETLGE---AGKVDEAEA 159 (410)
Q Consensus 84 ~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~-~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGe---eGeVdeAq~ 159 (410)
.+|.+ +.-|..=+..+..++..+......-..... .-.........|..+...|..++.++..|+. .+....-..
T Consensus 49 ~~e~~-l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~ 127 (264)
T PF06008_consen 49 PLEKE-LESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVESLNENGDQLPSEDLQR 127 (264)
T ss_pred HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHHHHH
Confidence 55555 444555566666666666554433210000 0012345567788999999999999999999 444444444
Q ss_pred HHHHHHHHHHH
Q 015276 160 LMRKVEILNVE 170 (410)
Q Consensus 160 lm~kvE~Lk~E 170 (410)
.+++|+.+-.+
T Consensus 128 ~l~ea~~mL~e 138 (264)
T PF06008_consen 128 ALAEAQRMLEE 138 (264)
T ss_pred HHHHHHHHHHH
Confidence 55555555443
No 155
>PRK06424 transcription factor; Provisional
Probab=27.37 E-value=22 Score=32.25 Aligned_cols=9 Identities=44% Similarity=1.202 Sum_probs=6.0
Q ss_pred ccccchhhh
Q 015276 195 CEICGSFLV 203 (410)
Q Consensus 195 CeVCGA~Ls 203 (410)
||+||+.+.
T Consensus 3 CE~CG~~~~ 11 (144)
T PRK06424 3 CEMCGKKVP 11 (144)
T ss_pred ccccCcccC
Confidence 777777644
No 156
>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae.
Probab=27.36 E-value=2e+02 Score=26.46 Aligned_cols=49 Identities=29% Similarity=0.331 Sum_probs=38.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHh--hcCCHHHHHHHHHHHHHHHHHHHHH
Q 015276 126 EKSEQLSVLEEKIKNLLEQVETLG--EAGKVDEAEALMRKVEILNVEKTTL 174 (410)
Q Consensus 126 ~~~eeI~~LeekI~~Ll~eaEeLG--eeGeVdeAq~lm~kvE~Lk~Eke~l 174 (410)
.....|..++..|.....+++.|- .-.+|+.+.+|..+|..|+++.+..
T Consensus 58 ~~~~~v~~~~~~i~~k~~El~~L~~~d~~kv~~~E~L~d~v~eLkeel~~e 108 (146)
T PF05852_consen 58 EIKNKVSSLETEISEKKKELSHLKKFDRKKVEDLEKLTDRVEELKEELEFE 108 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445667788888888888888874 4578999999999999998876543
No 157
>KOG1510 consensus RNA polymerase II holoenzyme and mediator subcomplex, subunit SURB7/SRB7 [Transcription]
Probab=27.19 E-value=4.9e+02 Score=23.79 Aligned_cols=44 Identities=20% Similarity=0.280 Sum_probs=31.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHH
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTT 173 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~ 173 (410)
....++|..|++++.+...+.+++... +..++.+|+.+-+....
T Consensus 87 e~Ql~~i~kLq~en~e~~~el~~~v~~-----~e~Ll~~vq~~le~~a~ 130 (139)
T KOG1510|consen 87 EAQLEKIKKLQEENEEVALELEELVSK-----GEKLLEQVQSLLEDIAD 130 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHH
Confidence 345567889998888888887777554 55677777777665543
No 158
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=27.12 E-value=50 Score=37.72 Aligned_cols=13 Identities=31% Similarity=0.595 Sum_probs=7.0
Q ss_pred CCCcHHHHHHhhc
Q 015276 62 RIHDQKLKESFEK 74 (410)
Q Consensus 62 kiHd~~lK~~Ye~ 74 (410)
++-...|+..||.
T Consensus 432 ~v~e~dL~~~fee 444 (894)
T KOG0132|consen 432 NVTEQDLANLFEE 444 (894)
T ss_pred hhhHHHHHHHHHh
Confidence 4444556655554
No 159
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=27.05 E-value=24 Score=24.24 Aligned_cols=11 Identities=36% Similarity=0.772 Sum_probs=8.8
Q ss_pred ccccccccchh
Q 015276 191 KMALCEICGSF 201 (410)
Q Consensus 191 kl~VCeVCGA~ 201 (410)
...+|+||||-
T Consensus 17 ~p~~CP~Cg~~ 27 (34)
T cd00729 17 APEKCPICGAP 27 (34)
T ss_pred CCCcCcCCCCc
Confidence 45799999984
No 160
>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []. This entry represents proteins annotated as RAB6-interacting golgins.
Probab=26.83 E-value=4.8e+02 Score=24.23 Aligned_cols=89 Identities=21% Similarity=0.294 Sum_probs=46.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhc-----CCHHHHH
Q 015276 84 KFEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEA-----GKVDEAE 158 (410)
Q Consensus 84 ~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGee-----GeVdeAq 158 (410)
..|+.-+...+++-..+ -+|+-...||++..++... .......+|..+..+|...-.++.-||.. -+..+|+
T Consensus 42 eIErkKmeVrekVq~~L-grveEetkrLa~ireeLE~--l~dP~RkEv~~vRkkID~vNreLkpl~~~cqKKEkEykeal 118 (159)
T PF04949_consen 42 EIERKKMEVREKVQAQL-GRVEEETKRLAEIREELEV--LADPMRKEVEMVRKKIDSVNRELKPLGQSCQKKEKEYKEAL 118 (159)
T ss_pred HHHHHHHHHHHHHHHHH-hHHHHHHHHHHHHHHHHHh--hccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 34555555555544443 3455555566554332221 12223456677777777777777777653 2233333
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 015276 159 ALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 159 ~lm~kvE~Lk~Eke~le~~~ 178 (410)
+..++.+.+|+.|-..+
T Consensus 119 ---ea~nEknkeK~~Lv~~L 135 (159)
T PF04949_consen 119 ---EAFNEKNKEKAQLVTRL 135 (159)
T ss_pred ---HHHHHHHHHHHHHHHHH
Confidence 33345555666666554
No 161
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=26.53 E-value=23 Score=33.38 Aligned_cols=32 Identities=28% Similarity=0.590 Sum_probs=24.7
Q ss_pred hhhhccccccccchhhhccchhhHhhhhhcccccc
Q 015276 187 AQEKKMALCEICGSFLVANDAAERTQSHISGKQHI 221 (410)
Q Consensus 187 ~~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~Hl 221 (410)
..++.-.-|+||.+. +-|+-+ .-||+.||.|.
T Consensus 70 ~sq~~GyyCdVCdcv--vKDSin-flDHiNgKkHq 101 (193)
T KOG4727|consen 70 RSQKGGYYCDVCDCV--VKDSIN-FLDHINGKKHQ 101 (193)
T ss_pred ccccCceeeeeccee--ehhhHH-HHHHhccHHHH
Confidence 345666899999954 777765 45899999995
No 162
>PRK14140 heat shock protein GrpE; Provisional
Probab=26.43 E-value=3.2e+02 Score=26.04 Aligned_cols=89 Identities=21% Similarity=0.203 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccch
Q 015276 128 SEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVANDA 207 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~ 207 (410)
.+.|.++..+|..+-+++.+|-+ .-+.+.+..+-++. ..+++. ...++..+=.++..+|-+.|+
T Consensus 36 ~~~~~~l~~~i~~l~~ei~elkd-----~~lR~~Ae~eN~rk---R~~rE~--------~~~~~~a~~~~~~~LLpvlDn 99 (191)
T PRK14140 36 AELLDEEQAKIAELEAKLDELEE-----RYLRLQADFENYKR---RIQKEN--------EAAEKYRAQSLASDLLPALDN 99 (191)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHH---HHHHHH--------HHHHHHHHHHHHHHHHHHHHH
Confidence 45677777778777777776632 22333333333322 122111 012233444578899999999
Q ss_pred hhHhhhhhcc-----cccccHHHHHHHHHH
Q 015276 208 AERTQSHISG-----KQHIGYGMVRDFITE 232 (410)
Q Consensus 208 d~Rl~dH~~G-----K~HlGy~kIRe~l~e 232 (410)
-.|.-.|... .+.-|+..|.+.+..
T Consensus 100 LerAl~~~~~~~~~~~i~~Gv~mi~k~l~~ 129 (191)
T PRK14140 100 FERALQIEADDEQTKSLLKGVEMVHRQLLE 129 (191)
T ss_pred HHHHHhccCccchHHHHHHHHHHHHHHHHH
Confidence 9997777543 234465555444443
No 163
>PF06721 DUF1204: Protein of unknown function (DUF1204); InterPro: IPR009596 This family represents the C terminus of a number of Arabidopsis thaliana hypothetical proteins of unknown function. Family members contain a conserved DFD motif.
Probab=26.41 E-value=2e+02 Score=27.70 Aligned_cols=70 Identities=13% Similarity=0.233 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHHHHH-HhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchh
Q 015276 129 EQLSVLEEKIKNLLEQVET-LGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSF 201 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEe-LGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~ 201 (410)
.+-.+|+..|..-+...+. -.+..+..-..++-.-++.+|+..+.+...+ .+. .....+-|+.|+|||..
T Consensus 50 ~K~deLedr~~se~KRLRsrR~~~AEn~rrs~L~kv~~l~QARidRvK~Hi-Ddk--ia~ePkFle~nQV~Gni 120 (228)
T PF06721_consen 50 VKFDELEDRISSEQKRLRSRRINYAENNRRSALEKVASLYQARIDRVKAHI-DDK--IADEPKFLEFNQVKGNI 120 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhh--hhcchHHHHHHHhhchH
Confidence 3445555555544444443 1112222334555666667777777777765 332 12234667889999975
No 164
>PF11587 Prion_bPrPp: Major prion protein bPrPp - N terminal; PDB: 1SKH_A.
Probab=26.27 E-value=17 Score=24.52 Aligned_cols=23 Identities=35% Similarity=0.436 Sum_probs=20.7
Q ss_pred hhcCCChhHhhhhcccCCCCCCC
Q 015276 40 YMVRFCPHDLFVNTRSDLGPCPR 62 (410)
Q Consensus 40 yLvG~CPhdLF~NTK~DLG~C~k 62 (410)
..+||+---||+-|=+|+|-|.|
T Consensus 4 ~~lgcWilvLfvatwsdvglcKK 26 (29)
T PF11587_consen 4 SHLGCWILVLFVATWSDVGLCKK 26 (29)
T ss_dssp TTTTTHHHHHHHHHHHHHTTSSS
T ss_pred ccccHHHHHHHHHHHhhhccccC
Confidence 35789999999999999999987
No 165
>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]
Probab=26.25 E-value=2.8e+02 Score=30.57 Aligned_cols=137 Identities=20% Similarity=0.188 Sum_probs=75.3
Q ss_pred CCcchhhcCCChhHhhhhcccCCCCCCCCCcHHHHHHhhcC-----CCCCCChhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 015276 35 EVCPFYMVRFCPHDLFVNTRSDLGPCPRIHDQKLKESFEKS-----PRHDAYVPKFEAELAQFCEKLVMDLDRRVRRGRE 109 (410)
Q Consensus 35 ~VCk~yLvG~CPhdLF~NTK~DLG~C~kiHd~~lK~~Ye~~-----~~~~~~~~~YE~e~~~~L~~lI~d~DrkI~~~k~ 109 (410)
.||.-=|+.-=-.-+|.| -.+---|+|+-++.=+..=..+ ....-.++..|.-++..|.+=+++.+-+|....+
T Consensus 141 ~v~~~P~~~~~s~S~~~~-~~~EaL~ekLk~~~een~~lr~k~~llk~Et~~~~~keq~~y~~~~KelrdtN~q~~s~~e 219 (596)
T KOG4360|consen 141 SVCSTPLVSNESRSAFQR-ELLEALQEKLKPLEEENTQLRSKAMLLKTETLTYEEKEQQLYGDCVKELRDTNTQARSGQE 219 (596)
T ss_pred ccccCCCccCcchhhHHH-HHHHHHHhhcCChHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477666554433456666 3344567777664322111111 2223344567888888899999999999999988
Q ss_pred hhhhcCCCCC-CCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHH-HHHHHHHHHHHhhh
Q 015276 110 RLSQEVEPAP-PPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKV-EILNVEKTTLTQQS 178 (410)
Q Consensus 110 RLe~~~ee~~-~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kv-E~Lk~Eke~le~~~ 178 (410)
-|+.-.++.. ..+.......+|..++++|..+.-+.|+|++ -..+|..+ ++|..|.++++.++
T Consensus 220 el~~kt~el~~q~Ee~skLlsql~d~qkk~k~~~~Ekeel~~------~Lq~~~da~~ql~aE~~EleDky 284 (596)
T KOG4360|consen 220 ELQSKTKELSRQQEENSKLLSQLVDLQKKIKYLRHEKEELDE------HLQAYKDAQRQLTAELEELEDKY 284 (596)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH------HHHHHHhhHHHHHHHHHHHHHHH
Confidence 8864321111 0112233445566666666666666666654 23333333 34455555565554
No 166
>smart00150 SPEC Spectrin repeats.
Probab=26.16 E-value=2.8e+02 Score=21.32 Aligned_cols=50 Identities=30% Similarity=0.363 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 128 SEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
..+|......|..+...++.|...|. ..+..+...++.|+...+.|....
T Consensus 44 ~~e~~~~~~~v~~~~~~~~~L~~~~~-~~~~~i~~~~~~l~~~w~~l~~~~ 93 (101)
T smart00150 44 EAELEAHEERVEALNELGEQLIEEGH-PDAEEIEERLEELNERWEELKELA 93 (101)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666666777777777777754 345667777777877777666544
No 167
>PRK14139 heat shock protein GrpE; Provisional
Probab=26.12 E-value=3.2e+02 Score=25.90 Aligned_cols=89 Identities=17% Similarity=0.172 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccch
Q 015276 128 SEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVANDA 207 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~ 207 (410)
..++..++.+|..+-+++++|- +.-+.+.++.+-++.- ++++. . ...+.-+=.++-.+|-+.|+
T Consensus 31 ~~e~~~l~~~l~~le~e~~elk-----d~~lR~~AefeN~rKR---~~kE~-e-------~~~~~a~~~~~~~LLpv~Dn 94 (185)
T PRK14139 31 EDAAPALEAELAEAEAKAAELQ-----DSFLRAKAETENVRRR---AQEDV-A-------KAHKFAIESFAESLLPVKDS 94 (185)
T ss_pred chhHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHH---HHHHH-H-------HHHHHHHHHHHHHHhhHHhH
Confidence 3467778888888888888874 3445555555555432 22211 0 01112222456678999999
Q ss_pred hhHhhhhhc---ccccccHHHHHHHHHH
Q 015276 208 AERTQSHIS---GKQHIGYGMVRDFITE 232 (410)
Q Consensus 208 d~Rl~dH~~---GK~HlGy~kIRe~l~e 232 (410)
-.|.-.|.. ..++-|+..|...+..
T Consensus 95 LerAl~~~~~~~~~l~~Gv~mi~k~l~~ 122 (185)
T PRK14139 95 LEAALADESGDLEKLREGVELTLKQLTS 122 (185)
T ss_pred HHHHHhcccchHHHHHHHHHHHHHHHHH
Confidence 999656654 3355666666555543
No 168
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=26.12 E-value=1e+02 Score=28.90 Aligned_cols=25 Identities=36% Similarity=0.391 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 154 VDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 154 VdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
|+|=..|..+++.|+.|..+|.+++
T Consensus 23 LdEKE~L~~~~QRLkDE~RDLKqEl 47 (166)
T PF04880_consen 23 LDEKENLREEVQRLKDELRDLKQEL 47 (166)
T ss_dssp HHHHHHHHHCH--------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555556666666666666665553
No 169
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=25.66 E-value=3.2e+02 Score=24.51 Aligned_cols=23 Identities=30% Similarity=0.489 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 015276 128 SEQLSVLEEKIKNLLEQVETLGE 150 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~eaEeLGe 150 (410)
..+|..|..+|..|..+++.|..
T Consensus 108 ~~dv~~L~~rId~L~~~v~~l~~ 130 (132)
T PF05597_consen 108 RKDVEALSARIDQLTAQVERLAN 130 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 46777888888888888887754
No 170
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=25.63 E-value=1.7e+02 Score=25.07 Aligned_cols=41 Identities=22% Similarity=0.119 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Q 015276 130 QLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVE 170 (410)
Q Consensus 130 eI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~E 170 (410)
-+......|...+..+++....++-++|...+.+++..=.+
T Consensus 20 ~l~~~~~~i~~~l~~i~~~i~~~dW~~A~~~~~~l~~~W~k 60 (121)
T PF14276_consen 20 YLNNSTDSIEEQLEQIEEAIENEDWEKAYKETEELEKEWDK 60 (121)
T ss_pred hhhhHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence 34556788888999999999999999999988887776443
No 171
>PF07535 zf-DBF: DBF zinc finger; InterPro: IPR006572 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. In eukaryotes, initiation of DNA replication requires the assembly of pre-replication complexes (pre-RCs) on chromatin during the G1 phase. In the S phase, pre-RCs are activated by two protein kinases, Cdk2 and Cdc7, which results in the loading of replication factors and the unwinding of replication origins by the MCM helicase complex []. Cdc7 is a serine/threonine kinase that is conserved from yeast to human. It is regulated by its association with a regulatory subunit, the Dbf4 protein. This complex is often referred to as DDK (Dbf4-dependent kinase) []. DBF4 contains an N-terminal BRCT domain and a C-terminal conserved region that could potentially coordinate one zinc atom, the DBF4-type zinc finger. This entry represents the zinc finger, which is important for the interaction with Cdc7 [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding
Probab=25.48 E-value=35 Score=25.65 Aligned_cols=41 Identities=24% Similarity=0.400 Sum_probs=29.0
Q ss_pred hhccccccccchhhhccchhhHhhhhhcccccccHHHHHHHHHHHHH
Q 015276 189 EKKMALCEICGSFLVANDAAERTQSHISGKQHIGYGMVRDFITEYKE 235 (410)
Q Consensus 189 ~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlGy~kIRe~l~eLke 235 (410)
+++--.||+|-.- .| =+..|+.+.+|..|+.=-.-+.+|..
T Consensus 2 ~~k~GYCE~C~~k---y~---~l~~Hi~s~~Hr~FA~~~~Nf~~lD~ 42 (49)
T PF07535_consen 2 DKKPGYCENCRVK---YD---DLEEHIQSEKHRKFAENDSNFKELDS 42 (49)
T ss_pred CCCCccCccccch---hh---hHHHHhCCHHHHHHHcCcccHHHHHH
Confidence 3455789999864 22 28899999999999865554544444
No 172
>cd07973 Spt4 Transcription elongation factor Spt4. Spt4 is a transcription elongation factor. Three transcription-elongation factors Spt4, Spt5, and Spt6, are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles. Spt4 functions entirely in the context of the Spt4-Spt5 heterodimer and it has been found only as a complex to Spt5 in Yeast and Human. Spt4 is a small protein that has zinc finger at the N-terminus. Spt5 is a large protein that has several interesting structural features of an acidic N-terminus, a single NGN domain, five or six KOW domains, and a set of simple C-termianl repeats. Spt4 binds to Spt5 NGN domain. Unlike Spt5, Spt4 is not essential for viability in yeast, however Spt4 is critical for normal function of the Spt4-Spt5 compl
Probab=25.42 E-value=26 Score=30.00 Aligned_cols=23 Identities=22% Similarity=0.349 Sum_probs=17.9
Q ss_pred cccccccchhhhccchhhHhhhh
Q 015276 192 MALCEICGSFLVANDAAERTQSH 214 (410)
Q Consensus 192 l~VCeVCGA~Ls~~D~d~Rl~dH 214 (410)
-..|++||.||-..++..++.|-
T Consensus 20 ~~gCpnC~~~l~~~g~~~~v~~~ 42 (98)
T cd07973 20 RDGCPNCEGYLDMKGNHERVYDC 42 (98)
T ss_pred CCCCCCCcchhccCCCccccccc
Confidence 46999999999887777766554
No 173
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=25.30 E-value=2.2e+02 Score=24.10 Aligned_cols=40 Identities=23% Similarity=0.295 Sum_probs=23.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHH
Q 015276 127 KSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLT 175 (410)
Q Consensus 127 ~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le 175 (410)
...++..|..+|+.+.+.+..|.. ...+++.++...+.+.
T Consensus 4 l~~~~~~l~~~i~~l~~~~~~l~~---------~~~e~~~~~~~l~~l~ 43 (129)
T cd00890 4 LAAQLQQLQQQLEALQQQLQKLEA---------QLTEYEKAKETLETLK 43 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHhh
Confidence 345566666666666666666554 4555555555555444
No 174
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=25.24 E-value=5.6e+02 Score=24.32 Aligned_cols=50 Identities=22% Similarity=0.308 Sum_probs=34.4
Q ss_pred HHHHHHHHHHH---HHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 129 EQLSVLEEKIK---NLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 129 eeI~~LeekI~---~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
.+|...+.+|. .-+.....|.+.++..+...+..+++.+..+.+......
T Consensus 89 ~klk~~~~el~k~~~~l~~L~~L~~dknL~eReeL~~kL~~~~~~l~~~~~ki 141 (194)
T PF15619_consen 89 RKLKDKDEELLKTKDELKHLKKLSEDKNLAEREELQRKLSQLEQKLQEKEKKI 141 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444443 445566778888999999999999998888776655543
No 175
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=25.22 E-value=1.5e+02 Score=26.10 Aligned_cols=53 Identities=19% Similarity=0.314 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHH
Q 015276 99 DLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEA 159 (410)
Q Consensus 99 d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~ 159 (410)
-+|.||+.|-.=+ ++. ..-...+++..|.++|.+|.+....|-.|..+-....
T Consensus 45 aIDNKIeQAMDLV-KtH-------LmfAVREEVe~Lk~qI~eL~er~~~Le~EN~lLk~~~ 97 (123)
T KOG4797|consen 45 AIDNKIEQAMDLV-KTH-------LMFAVREEVEVLKEQIRELEERNSALERENSLLKTLA 97 (123)
T ss_pred eechHHHHHHHHH-HHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 4667777774333 221 2345667888888888888888877777655544433
No 176
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=25.19 E-value=2.1e+02 Score=25.93 Aligned_cols=50 Identities=34% Similarity=0.395 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCHHHH-----------HHHHHHHHHHHHHHHHHHhhh
Q 015276 129 EQLSVLEEKIKNLLEQVETLGEAGKVDEA-----------EALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGeeGeVdeA-----------q~lm~kvE~Lk~Eke~le~~~ 178 (410)
+++..|+.+|..|.+++.+|..+-.--.+ ..+...++.|+.+.+.++..+
T Consensus 72 eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL 132 (169)
T PF07106_consen 72 EELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKL 132 (169)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666655554322222 234555556666666665554
No 177
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=25.18 E-value=2.2e+02 Score=32.32 Aligned_cols=20 Identities=30% Similarity=0.506 Sum_probs=16.3
Q ss_pred hhhccccccccchhhhccch
Q 015276 188 QEKKMALCEICGSFLVANDA 207 (410)
Q Consensus 188 ~~qkl~VCeVCGA~Ls~~D~ 207 (410)
.+-.++-|+.||+-.+.+|-
T Consensus 674 ~etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 674 YETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred HHHhcCCCCCCCCCCCcccc
Confidence 35577999999999888884
No 178
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=25.02 E-value=4.3e+02 Score=22.39 Aligned_cols=35 Identities=29% Similarity=0.363 Sum_probs=22.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHH
Q 015276 127 KSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALM 161 (410)
Q Consensus 127 ~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm 161 (410)
.-+++...-........++-.|...|+.++|..++
T Consensus 110 ~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~a~~~~ 144 (181)
T PF12729_consen 110 LLEEFKEAWKAYRKLRDQVIELAKSGDNDEARAIL 144 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence 34455555555556667777777788888776553
No 179
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=25.00 E-value=4.4e+02 Score=26.11 Aligned_cols=26 Identities=23% Similarity=0.298 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcC
Q 015276 90 AQFCEKLVMDLDRRVRRGRERLSQEV 115 (410)
Q Consensus 90 ~~~L~~lI~d~DrkI~~~k~RLe~~~ 115 (410)
+.-|+.-|...+-.|+...+|++...
T Consensus 54 ~e~le~qv~~~e~ei~~~r~r~~~~e 79 (239)
T COG1579 54 LEDLENQVSQLESEIQEIRERIKRAE 79 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33466667777777777777776554
No 180
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=24.94 E-value=1.9e+02 Score=30.97 Aligned_cols=50 Identities=20% Similarity=0.244 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 128 SEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
..++..|..+.+.+.++|-..+..|+- .++.+++++..|+.+.+.++.+.
T Consensus 42 ~~~~e~l~~~rn~~sk~ig~~~~~~~~-~~~~l~~e~~~l~~~l~~~e~~~ 91 (429)
T COG0172 42 LRELEELQAERNELSKEIGRALKRGED-DAEELIAEVKELKEKLKELEAAL 91 (429)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhccch-hHHHHHHHHHHHHHHHHhccHHH
Confidence 345556666666777777655555443 67778888888887777776654
No 181
>PF10781 DSRB: Dextransucrase DSRB; InterPro: IPR019717 DSRB is a novel dextransucrase which produces a dextran different from the typical dextran, as it contains (1-6) and (1-2) linkages, when this strain is grown in the presence of sucrose [].
Probab=24.73 E-value=43 Score=26.11 Aligned_cols=14 Identities=36% Similarity=0.627 Sum_probs=11.3
Q ss_pred ceeeEEeeeccCCc
Q 015276 386 FSCTIIFFNELGGK 399 (410)
Q Consensus 386 ~~~~~~~~~~~~~~ 399 (410)
|.-.|.||||.++.
T Consensus 40 YP~GiWFFNE~~~~ 53 (62)
T PF10781_consen 40 YPAGIWFFNEKDSP 53 (62)
T ss_pred CCcceEEEecCCCC
Confidence 45679999999875
No 182
>COG0509 GcvH Glycine cleavage system H protein (lipoate-binding) [Amino acid transport and metabolism]
Probab=24.59 E-value=46 Score=29.98 Aligned_cols=43 Identities=26% Similarity=0.184 Sum_probs=32.3
Q ss_pred ceeccCCCccccccccceeeeeeeeeecchhhhhccCcccceeeEEeeec
Q 015276 346 YFVETLPSPFHQILLKEKRVEIRVFLELKFQKWVSDGYRPFSCTIIFFNE 395 (410)
Q Consensus 346 ~~~d~~p~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 395 (410)
-|.+.|+.|.+.- -= .+|..+-.-||+||=|-|.+.+||=.|+
T Consensus 42 v~Velpe~G~~v~-~g------~~~~~vESvKaasdvyaPvsGeVvevN~ 84 (131)
T COG0509 42 VFVELPEVGAEVK-AG------ESLAVVESVKAASDVYAPVSGEVVEVNE 84 (131)
T ss_pred EEEEcCCCCCeec-CC------CeEEEEEeeeeeccccCCCceeEEEech
Confidence 4667777775432 11 3566667889999999999999999997
No 183
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=24.56 E-value=7.1e+02 Score=26.02 Aligned_cols=25 Identities=4% Similarity=0.113 Sum_probs=13.9
Q ss_pred hHhhhhhcccccccHHHHHHHHHHHHH
Q 015276 209 ERTQSHISGKQHIGYGMVRDFITEYKE 235 (410)
Q Consensus 209 ~Rl~dH~~GK~HlGy~kIRe~l~eLke 235 (410)
.-|..||.+-. ..-+|...+..+..
T Consensus 144 ~~L~~~F~~yk--si~~I~~L~~~i~~ 168 (383)
T PF04100_consen 144 KELLEHFKPYK--SIPQIAELSKRIDQ 168 (383)
T ss_pred HHHHHHHHccc--CcHHHHHHHHHHHH
Confidence 45677886543 34455555555444
No 184
>KOG3231 consensus Predicted assembly/vacuolar sorting protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.38 E-value=5e+02 Score=24.63 Aligned_cols=41 Identities=22% Similarity=0.353 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHH
Q 015276 133 VLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTT 173 (410)
Q Consensus 133 ~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~ 173 (410)
.++++-..|-.+|..+...|+-|.|--|..++=.|..++..
T Consensus 33 ~me~~Ek~LElEIkk~Aa~GnndAcr~LAKQLV~lRkQKtr 73 (208)
T KOG3231|consen 33 AMEKQEKQLELEIKKMAAIGNNDACRVLAKQLVHLRKQKTR 73 (208)
T ss_pred HHHHHHHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhhhh
Confidence 44555556667888899999999999999988888877754
No 185
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=24.35 E-value=37 Score=19.80 Aligned_cols=19 Identities=26% Similarity=0.684 Sum_probs=10.9
Q ss_pred cccccchhhhccchhhHhhhhh
Q 015276 194 LCEICGSFLVANDAAERTQSHI 215 (410)
Q Consensus 194 VCeVCGA~Ls~~D~d~Rl~dH~ 215 (410)
.|++||.-.. +..-+..|+
T Consensus 2 ~C~~C~~~~~---~~~~l~~H~ 20 (24)
T PF13894_consen 2 QCPICGKSFR---SKSELRQHM 20 (24)
T ss_dssp E-SSTS-EES---SHHHHHHHH
T ss_pred CCcCCCCcCC---cHHHHHHHH
Confidence 6999997633 445566665
No 186
>COG2178 Predicted RNA-binding protein of the translin family [Translation, ribosomal structure and biogenesis]
Probab=24.25 E-value=5.2e+02 Score=25.07 Aligned_cols=51 Identities=22% Similarity=0.173 Sum_probs=38.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHh
Q 015276 126 EKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQ 176 (410)
Q Consensus 126 ~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~ 176 (410)
+..+++-.|.-+|.-+-..+=.+.-.|++++|....+++.++-++...+-+
T Consensus 17 ~~REE~l~lsRei~r~s~~aI~~~H~~~~eeA~~~l~~a~~~v~~Lk~~l~ 67 (204)
T COG2178 17 KAREEALKLSREIVRLSGEAIFLLHRGDFEEAEKKLKKASEAVEKLKRLLA 67 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345677788888888888888888899999998888877777666654433
No 187
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=24.24 E-value=2.5e+02 Score=30.53 Aligned_cols=45 Identities=13% Similarity=0.282 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 129 EQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
.++.+|+.+|..|-.+.+.|..... .+-+++++|..+.+.|+.++
T Consensus 76 ~kasELEKqLaaLrqElq~~saq~~-----dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 76 VTAAQMQKQYEEIRRELDVLNKQRG-----DDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhh-----hHHHHHHHHHHHHHHHHHHH
Confidence 4556667777766666664444322 23445556666666666554
No 188
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=24.08 E-value=5.2e+02 Score=23.25 Aligned_cols=19 Identities=21% Similarity=0.121 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 015276 160 LMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 160 lm~kvE~Lk~Eke~le~~~ 178 (410)
....++.|......|+.++
T Consensus 71 ~~~~~E~l~rriq~LEeel 89 (143)
T PF12718_consen 71 RKSNAEQLNRRIQLLEEEL 89 (143)
T ss_pred HHHhHHHHHhhHHHHHHHH
Confidence 3333444444444444443
No 189
>PF06632 XRCC4: DNA double-strand break repair and V(D)J recombination protein XRCC4; InterPro: IPR010585 This entry represents the DNA double-strand break repair and V(D)J recombination protein XRCC4, which is found in certain Metazoans, fungi and plants. XRCC4 binds to DNA, and to DNA ligase IV (LIG4) to form the LIG4-XRCC4 complex []. The LIG4-XRCC4 complex is responsible for the ligation step in the non-homologous end joining (NHEJ) pathway of DNA double-strand break repair. XRCC4 enhances the joining activity of LIG4. It is thought that XRCC4 and LIG4 are essential for alignment-based gap filling, as well as for final ligation of the breaks []. Binding of the LIG4-XRCC4 complex to DNA ends is dependent on the assembly of the DNA-dependent protein kinase complex DNA-PK to these DNA ends. ; GO: 0003677 DNA binding, 0006302 double-strand break repair, 0006310 DNA recombination, 0005634 nucleus; PDB: 3RWR_R 1IK9_B 3SR2_E 3Q4F_H 3II6_B 1FU1_A 3MUD_B.
Probab=23.85 E-value=3.1e+02 Score=28.49 Aligned_cols=43 Identities=23% Similarity=0.264 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 131 LSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 131 I~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
+..|.+++..|..+.+.|- .++..+.+++|++...|++++..+
T Consensus 139 ~~~l~~~~~~L~~enerL~-----~e~~~~~~qlE~~v~~K~~~E~~L 181 (342)
T PF06632_consen 139 NSRLQAENEHLQKENERLE-----SEANKLLKQLEKFVNAKEEHEEDL 181 (342)
T ss_dssp HHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566666666666664 345667778888888888777765
No 190
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=23.60 E-value=29 Score=24.25 Aligned_cols=16 Identities=38% Similarity=0.719 Sum_probs=12.1
Q ss_pred hhccccccccchhhhc
Q 015276 189 EKKMALCEICGSFLVA 204 (410)
Q Consensus 189 ~qkl~VCeVCGA~Ls~ 204 (410)
-+.-.||++||.-|+.
T Consensus 18 P~~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 18 PKVEGVCDNCGGELVQ 33 (36)
T ss_dssp -SSTTBCTTTTEBEBE
T ss_pred CCCCCccCCCCCeeEe
Confidence 4566899999997763
No 191
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.46 E-value=4.1e+02 Score=21.69 Aligned_cols=25 Identities=20% Similarity=0.242 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCC
Q 015276 129 EQLSVLEEKIKNLLEQVETLGEAGK 153 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGeeGe 153 (410)
.+|..-=+.|..|--+||+|-+..+
T Consensus 11 ~KiqqAvdTI~LLQmEieELKEknn 35 (79)
T COG3074 11 AKVQQAIDTITLLQMEIEELKEKNN 35 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444444455566667777776654
No 192
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=23.41 E-value=6.2e+02 Score=28.11 Aligned_cols=31 Identities=6% Similarity=0.085 Sum_probs=24.0
Q ss_pred hHhhhhhcccccccHHHHHHHHHHHHHHHHH
Q 015276 209 ERTQSHISGKQHIGYGMVRDFITEYKEAKEK 239 (410)
Q Consensus 209 ~Rl~dH~~GK~HlGy~kIRe~l~eLke~~ek 239 (410)
....+-|--++|+....||..++.......+
T Consensus 237 ~~~r~~F~~eL~~Ai~eiRaqye~~~~~nR~ 267 (546)
T KOG0977|consen 237 ADNREYFKNELALAIREIRAQYEAISRQNRK 267 (546)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 4556778889999999999999887665444
No 193
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=23.40 E-value=1.4e+02 Score=23.61 Aligned_cols=22 Identities=23% Similarity=0.409 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 015276 128 SEQLSVLEEKIKNLLEQVETLG 149 (410)
Q Consensus 128 ~eeI~~LeekI~~Ll~eaEeLG 149 (410)
..+|..|..+|..|.+++..+.
T Consensus 31 q~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 31 QRQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3445555555555555555544
No 194
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=23.26 E-value=3.8e+02 Score=26.83 Aligned_cols=50 Identities=28% Similarity=0.372 Sum_probs=27.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCCH---------HHHHHHHHHHHHHHHHHHHHHh
Q 015276 127 KSEQLSVLEEKIKNLLEQVETLGEAGKV---------DEAEALMRKVEILNVEKTTLTQ 176 (410)
Q Consensus 127 ~~eeI~~LeekI~~Ll~eaEeLGeeGeV---------deAq~lm~kvE~Lk~Eke~le~ 176 (410)
+.+.+.+|+-+|..|+++-+.|-.+.+- .+-..+...++.|+++..++.+
T Consensus 88 KKaRm~eme~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le~~~~~l~~~~~ 146 (292)
T KOG4005|consen 88 KKARMEEMEYEIKDLTEENEILQNENDSLRAINESLLAKNHELDSELELLRQELAELKQ 146 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHH
Confidence 3445666666666666666666555443 3334444455555555544443
No 195
>PLN02943 aminoacyl-tRNA ligase
Probab=23.12 E-value=1.9e+02 Score=33.89 Aligned_cols=66 Identities=21% Similarity=0.195 Sum_probs=43.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC-CCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 84 KFEAELAQFCEKLVMDLDRRVRRGRERLSQEV-EPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGE 150 (410)
Q Consensus 84 ~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~-ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGe 150 (410)
.++.+..+ |++-+..++..|.+.+.+|.... ..+.++.......+++.+++++|..+.+.++.|++
T Consensus 886 D~~~E~~r-L~K~l~klekei~~~~~kLsN~~F~~KAP~evv~~e~~kl~~~~~~l~~~~~~l~~l~~ 952 (958)
T PLN02943 886 DISAEVER-LSKRLSKMQTEYDALAARLSSPKFVEKAPEDVVRGVREKAAEAEEKIKLTKNRLAFLKS 952 (958)
T ss_pred cHHHHHHH-HHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 46666655 88888899999999999996432 11222233344556677777777777777776653
No 196
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=23.11 E-value=25 Score=23.21 Aligned_cols=13 Identities=46% Similarity=1.076 Sum_probs=6.9
Q ss_pred ccccchhhhccch
Q 015276 195 CEICGSFLVANDA 207 (410)
Q Consensus 195 CeVCGA~Ls~~D~ 207 (410)
|++||+-|+..+.
T Consensus 2 CP~C~s~l~~~~~ 14 (28)
T PF03119_consen 2 CPVCGSKLVREEG 14 (28)
T ss_dssp -TTT--BEEE-CC
T ss_pred cCCCCCEeEcCCC
Confidence 9999999885443
No 197
>PRK14161 heat shock protein GrpE; Provisional
Probab=22.88 E-value=6.4e+02 Score=23.68 Aligned_cols=40 Identities=20% Similarity=0.303 Sum_probs=26.4
Q ss_pred ccccccchhhhccchhhHhhhhhcc-------cccccHHHHHHHHHH
Q 015276 193 ALCEICGSFLVANDAAERTQSHISG-------KQHIGYGMVRDFITE 232 (410)
Q Consensus 193 ~VCeVCGA~Ls~~D~d~Rl~dH~~G-------K~HlGy~kIRe~l~e 232 (410)
.+=.++-.+|-+.|+-.|.-.|... .+.-|+..|...+..
T Consensus 67 a~~~~~~~LLpv~DnlerAl~~~~~~~~~~~~~~~~Gv~mi~k~l~~ 113 (178)
T PRK14161 67 AIATFAKELLNVSDNLSRALAHKPANSDVEVTNIIAGVQMTKDELDK 113 (178)
T ss_pred HHHHHHHHHhhHHhHHHHHHhcCccccchhHHHHHHHHHHHHHHHHH
Confidence 4445788999999999997677643 345566555444433
No 198
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=22.62 E-value=1.1e+02 Score=18.70 Aligned_cols=22 Identities=14% Similarity=0.280 Sum_probs=17.9
Q ss_pred HHHHhhcCCHHHHHHHHHHHHH
Q 015276 145 VETLGEAGKVDEAEALMRKVEI 166 (410)
Q Consensus 145 aEeLGeeGeVdeAq~lm~kvE~ 166 (410)
+..++..|++++|..+..+..+
T Consensus 7 i~~~~~~~~~~~a~~~~~~M~~ 28 (31)
T PF01535_consen 7 ISGYCKMGQFEEALEVFDEMRE 28 (31)
T ss_pred HHHHHccchHHHHHHHHHHHhH
Confidence 5678999999999998876543
No 199
>PF06825 HSBP1: Heat shock factor binding protein 1; InterPro: IPR009643 Heat shock factor binding protein 1 (HSBP1) appears to be a negative regulator of the heat shock response [].; PDB: 3CI9_A.
Probab=22.57 E-value=2.6e+02 Score=21.42 Aligned_cols=20 Identities=20% Similarity=0.454 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 015276 88 ELAQFCEKLVMDLDRRVRRG 107 (410)
Q Consensus 88 e~~~~L~~lI~d~DrkI~~~ 107 (410)
++-.+.+.++.++..|....
T Consensus 3 elt~~v~~lL~qmq~kFq~m 22 (54)
T PF06825_consen 3 ELTAFVQNLLQQMQDKFQTM 22 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45566777777777666544
No 200
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=22.57 E-value=6.1e+02 Score=24.84 Aligned_cols=79 Identities=16% Similarity=0.189 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhc--CCHHHHHHHHHH
Q 015276 86 EAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEA--GKVDEAEALMRK 163 (410)
Q Consensus 86 E~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGee--GeVdeAq~lm~k 163 (410)
|.++++-.+.+|.|+..-+..- .+ ......++|..+...|+.|-..|..+-.+ --.+.+..++.+
T Consensus 23 e~~~~e~ee~~L~e~~kE~~~L----~~---------Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~ee 89 (230)
T PF10146_consen 23 EVESLENEEKCLEEYRKEMEEL----LQ---------ERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEE 89 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH----HH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555556666665544321 11 11223345555555555544444333322 134567777888
Q ss_pred HHHHHHHHHHHHhh
Q 015276 164 VEILNVEKTTLTQQ 177 (410)
Q Consensus 164 vE~Lk~Eke~le~~ 177 (410)
+..|+.+.+++..+
T Consensus 90 y~~Lk~~in~~R~e 103 (230)
T PF10146_consen 90 YKPLKDEINELRKE 103 (230)
T ss_pred HHHHHHHHHHHHHH
Confidence 88888888877766
No 201
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=22.55 E-value=29 Score=24.51 Aligned_cols=13 Identities=38% Similarity=0.718 Sum_probs=10.4
Q ss_pred ccccccchhhhcc
Q 015276 193 ALCEICGSFLVAN 205 (410)
Q Consensus 193 ~VCeVCGA~Ls~~ 205 (410)
+.|+.||+.|+.-
T Consensus 2 ~~CP~Cg~~lv~r 14 (39)
T PF01396_consen 2 EKCPKCGGPLVLR 14 (39)
T ss_pred cCCCCCCceeEEE
Confidence 5799999988764
No 202
>PRK14153 heat shock protein GrpE; Provisional
Probab=22.53 E-value=2.6e+02 Score=26.69 Aligned_cols=87 Identities=16% Similarity=0.188 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccccccccchhhhccchhhH
Q 015276 131 LSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQSQNDKVLMMAQEKKMALCEICGSFLVANDAAER 210 (410)
Q Consensus 131 I~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~R 210 (410)
+..++.+|..+-+++++|- +.-+.+.++.+-++.-.+ ++. . ...+..+=.++-.+|-+.|+-.|
T Consensus 35 ~~~~~~ei~~l~~e~~elk-----d~~lR~~AEfeN~rKR~~---kE~-e-------~~~~~a~~~~~~~LLpv~DnLer 98 (194)
T PRK14153 35 DSTADSETEKCREEIESLK-----EQLFRLAAEFDNFRKRTA---REM-E-------ENRKFVLEQVLLDLLEVTDNFER 98 (194)
T ss_pred cccchHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHH---HHH-H-------HHHHHHHHHHHHHHhhHHhHHHH
Confidence 4455556666666666553 233444444444432211 111 0 01122233466889999999999
Q ss_pred hhhhhc-----ccccccHHHHHHHHHHH
Q 015276 211 TQSHIS-----GKQHIGYGMVRDFITEY 233 (410)
Q Consensus 211 l~dH~~-----GK~HlGy~kIRe~l~eL 233 (410)
.-+|.. ..++-|+..|...+...
T Consensus 99 Al~~~~~~~~~~~l~~Gvemi~k~~~~v 126 (194)
T PRK14153 99 ALESARTAEDMNSIVEGIEMVSKQFFSI 126 (194)
T ss_pred HHhcccccchHHHHHHHHHHHHHHHHHH
Confidence 766653 23566776665555443
No 203
>PRK01156 chromosome segregation protein; Provisional
Probab=22.41 E-value=7.5e+02 Score=28.40 Aligned_cols=10 Identities=30% Similarity=1.112 Sum_probs=8.2
Q ss_pred cccccccchh
Q 015276 192 MALCEICGSF 201 (410)
Q Consensus 192 l~VCeVCGA~ 201 (410)
--||+|||.-
T Consensus 452 ~~~Cp~c~~~ 461 (895)
T PRK01156 452 QSVCPVCGTT 461 (895)
T ss_pred CCCCCCCCCc
Confidence 4799999973
No 204
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=22.27 E-value=6.1e+02 Score=30.39 Aligned_cols=63 Identities=14% Similarity=0.201 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCC---CCC-CCCCchhhHHHHHHHHHHHHHHHHHHHHHhhc
Q 015276 89 LAQFCEKLVMDLDRRVRRGRERLSQEVE---PAP-PPPISAEKSEQLSVLEEKIKNLLEQVETLGEA 151 (410)
Q Consensus 89 ~~~~L~~lI~d~DrkI~~~k~RLe~~~e---e~~-~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGee 151 (410)
.++.|+..+...+++|.+....+.+... ... +.+.......+|....++|.+..+..|+|.++
T Consensus 697 ~~~~l~~~~~q~~~~~~~~~~em~el~n~~e~~~~~~~~~~~l~~ei~~~~~eIe~~~~~~e~l~~e 763 (1074)
T KOG0250|consen 697 KLRELSEHIEQIKRRIRKKRAEMTELKNTAEEKQVDISKLEDLAREIKKKEKEIEEKEAPLEKLKEE 763 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666667777776666644321 110 01122334445555555555555555555554
No 205
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=22.13 E-value=2.6e+02 Score=23.18 Aligned_cols=38 Identities=24% Similarity=0.400 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 129 EQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
+-+..|+++|+..++.|.-|-.+ |++||++...|.++.
T Consensus 4 EvleqLE~KIqqAvdtI~LLqmE------------ieELKekn~~L~~e~ 41 (79)
T PRK15422 4 EVFEKLEAKVQQAIDTITLLQME------------IEELKEKNNSLSQEV 41 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHH
No 206
>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.03 E-value=4.6e+02 Score=29.23 Aligned_cols=127 Identities=15% Similarity=0.263 Sum_probs=68.9
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHh
Q 015276 97 VMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQ 176 (410)
Q Consensus 97 I~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~ 176 (410)
+.++++...+|+.++... ...++..+.|..|+..|+..-.+.-. ...+|++-..+.++|+.+|.-++.-..
T Consensus 396 c~kme~qLkkAh~~~dda-------r~~pe~~d~i~~le~e~~~y~de~~k--aqaevdrlLeilkeveneKnDkdkkia 466 (654)
T KOG4809|consen 396 CSKMEAQLKKAHNIEDDA-------RMNPEFADQIKQLEKEASYYRDECGK--AQAEVDRLLEILKEVENEKNDKDKKIA 466 (654)
T ss_pred HHHHHHHHHHHHHhhHhh-------hcChhhHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhhhccccchhh
Confidence 344555666666666432 13455567777787777755444332 234578888899999998876655443
Q ss_pred hhh---hhhhhhhh--hhhccccccccchhhhccchhhHhhhhhcccccccHHHHHHHHHHHHHHH
Q 015276 177 QSQ---NDKVLMMA--QEKKMALCEICGSFLVANDAAERTQSHISGKQHIGYGMVRDFITEYKEAK 237 (410)
Q Consensus 177 ~~~---~~~~~~~~--~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~HlGy~kIRe~l~eLke~~ 237 (410)
++. .+.+...+ .++ -+|=--=.|-+++ ..-+|-+.|..--+|+- |++.+.+|...+
T Consensus 467 eler~~kdqnkkvaNlkHk-~q~Ekkk~aq~le-e~rrred~~~d~sqhlq---~eel~~alektk 527 (654)
T KOG4809|consen 467 ELERHMKDQNKKVANLKHK-QQLEKKKNAQLLE-EVRRREDSMADNSQHLQ---IEELMNALEKTK 527 (654)
T ss_pred hcCchhhhhhhHHhhHHHH-HHHHHHHHHHHHH-HHHHHHhhhcchHHHHH---HHHHHHHHHHHh
Confidence 330 11110000 111 0111111233332 34566788888877764 888887776543
No 207
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=21.97 E-value=8.6e+02 Score=24.86 Aligned_cols=72 Identities=19% Similarity=0.344 Sum_probs=34.9
Q ss_pred HHHHHhhcC---CCCCCChhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHH
Q 015276 67 KLKESFEKS---PRHDAYVPKFEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLE 143 (410)
Q Consensus 67 ~lK~~Ye~~---~~~~~~~~~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~ 143 (410)
.+...++.. .......|.-|.++.+.|.. +...+..++.-++... ...+...+|..+-.+-..+-.
T Consensus 111 ~ler~i~~Le~~~~T~~L~~e~E~~lvq~I~~----L~k~le~~~k~~e~~~-------~~~el~aei~~lk~~~~e~~e 179 (294)
T COG1340 111 SLEREIERLEKKQQTSVLTPEEERELVQKIKE----LRKELEDAKKALEENE-------KLKELKAEIDELKKKAREIHE 179 (294)
T ss_pred HHHHHHHHHHHHHHhcCCChHHHHHHHHHHHH----HHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH
Confidence 455555443 23344555667777766555 5555555555554321 223333444444444444444
Q ss_pred HHHHHh
Q 015276 144 QVETLG 149 (410)
Q Consensus 144 eaEeLG 149 (410)
+|.+|.
T Consensus 180 ki~~la 185 (294)
T COG1340 180 KIQELA 185 (294)
T ss_pred HHHHHH
Confidence 444443
No 208
>PRK11020 hypothetical protein; Provisional
Probab=21.94 E-value=5.7e+02 Score=22.71 Aligned_cols=54 Identities=15% Similarity=0.111 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHH-HHHHHHhhc
Q 015276 90 AQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLL-EQVETLGEA 151 (410)
Q Consensus 90 ~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll-~eaEeLGee 151 (410)
++.|..-++-|.++...+..|-.. ....+...+|..|+.+|+.+- .+..+|..+
T Consensus 7 iq~L~drLD~~~~Klaaa~~rgd~--------~~i~qf~~E~~~l~k~I~~lk~~~~~~lske 61 (118)
T PRK11020 7 IKRLSDRLDAIRHKLAAASLRGDA--------EKYAQFEKEKATLEAEIARLKEVQSQKLSKE 61 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555566666666555444321 234455566667777776543 333444443
No 209
>CHL00102 rps20 ribosomal protein S20
Probab=21.80 E-value=1.9e+02 Score=24.49 Aligned_cols=36 Identities=11% Similarity=0.052 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHhhc-------CCHHHHHHHHHHHHHHHH
Q 015276 134 LEEKIKNLLEQVETLGEA-------GKVDEAEALMRKVEILNV 169 (410)
Q Consensus 134 LeekI~~Ll~eaEeLGee-------GeVdeAq~lm~kvE~Lk~ 169 (410)
.-..|..++.+++.+.+. |+.++|+.++..+..+-.
T Consensus 24 ~kS~~rT~iKk~~~ai~~~~~~~~~~d~~~a~~~l~~a~s~iD 66 (93)
T CHL00102 24 YKSSVKTLIKKYLKNLEDYKTSPNSNNKKKVQETLSSVYSKID 66 (93)
T ss_pred HHHHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHH
Confidence 344556677777777776 999999999988887754
No 210
>PHA03161 hypothetical protein; Provisional
Probab=21.60 E-value=2.9e+02 Score=25.51 Aligned_cols=48 Identities=19% Similarity=0.207 Sum_probs=38.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHh--hcCCHHHHHHHHHHHHHHHHHHH
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLG--EAGKVDEAEALMRKVEILNVEKT 172 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLG--eeGeVdeAq~lm~kvE~Lk~Eke 172 (410)
..+...|..++..|...-.|++.|- .-.+|+.+.++..+|++|+.+..
T Consensus 57 ~~i~~~v~~l~~~I~~k~kE~~~L~~fd~kkl~~~E~L~drv~eLkeel~ 106 (150)
T PHA03161 57 KSIEGMLQAVDLSIQEKKKELSLLKAFDRHKLSAAEDLQDKILELKEDIH 106 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456678888889999988888885 45789999999999999987654
No 211
>smart00746 TRASH metallochaperone-like domain.
Probab=21.55 E-value=22 Score=22.06 Aligned_cols=24 Identities=21% Similarity=0.393 Sum_probs=13.5
Q ss_pred ccccchhhhccchhhHhhhhhccccc
Q 015276 195 CEICGSFLVANDAAERTQSHISGKQH 220 (410)
Q Consensus 195 CeVCGA~Ls~~D~d~Rl~dH~~GK~H 220 (410)
|++||..+....... ... +.|+.+
T Consensus 1 c~~C~~~~~~~~~~~-~~~-~~g~~~ 24 (39)
T smart00746 1 CSFCGKDIYNPGTGI-MVV-NDGKVF 24 (39)
T ss_pred CCCCCCCccCCCCce-EEE-ECCEEE
Confidence 899998876433322 222 555554
No 212
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=21.41 E-value=3.5e+02 Score=25.65 Aligned_cols=54 Identities=17% Similarity=0.203 Sum_probs=43.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
+....+|..|+-+|..|-.+++.--..+--.+-+.+-.++..++.+++..+-++
T Consensus 108 ~s~~~ei~~L~~kI~~L~~~in~~~k~~~n~~i~slk~EL~d~iKe~e~~emeL 161 (181)
T PF04645_consen 108 KSIKKEIEILRLKISSLQKEINKNKKKDLNEEIESLKSELNDLIKEREIREMEL 161 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 456678999999999999999886666555556778888999999998888765
No 213
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=21.03 E-value=5e+02 Score=21.76 Aligned_cols=24 Identities=17% Similarity=0.223 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcC
Q 015276 92 FCEKLVMDLDRRVRRGRERLSQEV 115 (410)
Q Consensus 92 ~L~~lI~d~DrkI~~~k~RLe~~~ 115 (410)
-|..-++++|.-|..|+.|.....
T Consensus 31 ~v~~kLneLd~Li~eA~~r~~~~~ 54 (109)
T PF03980_consen 31 DVVEKLNELDKLIEEAKERKNSGE 54 (109)
T ss_pred hHHHHHHHHHHHHHHHHHhHhccc
Confidence 356678889999999999887543
No 214
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=20.94 E-value=5.5e+02 Score=27.89 Aligned_cols=23 Identities=17% Similarity=0.257 Sum_probs=15.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHh
Q 015276 127 KSEQLSVLEEKIKNLLEQVETLG 149 (410)
Q Consensus 127 ~~eeI~~LeekI~~Ll~eaEeLG 149 (410)
...++..++++++.+..+.+.+-
T Consensus 380 ~e~k~~q~q~k~~k~~kel~~~~ 402 (493)
T KOG0804|consen 380 VERKLQQLQTKLKKCQKELKEER 402 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556777788877777666655
No 215
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=20.77 E-value=54 Score=37.81 Aligned_cols=7 Identities=14% Similarity=0.363 Sum_probs=4.0
Q ss_pred eeEEeee
Q 015276 388 CTIIFFN 394 (410)
Q Consensus 388 ~~~~~~~ 394 (410)
|..-|||
T Consensus 422 c~f~v~h 428 (1194)
T KOG4246|consen 422 CCFSVEH 428 (1194)
T ss_pred hheeeeh
Confidence 4456666
No 216
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=20.66 E-value=6.5e+02 Score=24.37 Aligned_cols=54 Identities=28% Similarity=0.324 Sum_probs=38.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHH----HhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVET----LGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEe----LGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
..++++..+++.+|..+-++.+. |...+.|++-+++-.++..++.+.+.++.+.
T Consensus 128 ~DvT~~y~D~~arl~~l~~~~~rl~~ll~ka~~~~d~l~ie~~L~~v~~eIe~~~~~~ 185 (262)
T PF14257_consen 128 EDVTEQYVDLEARLKNLEAEEERLLELLEKAKTVEDLLEIERELSRVRSEIEQLEGQL 185 (262)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666655555444 2345689999999999999999988888765
No 217
>KOG1882 consensus Transcriptional regulator SNIP1, contains FHA domain [Signal transduction mechanisms]
Probab=20.58 E-value=58 Score=32.48 Aligned_cols=15 Identities=0% Similarity=-0.073 Sum_probs=7.5
Q ss_pred eccCCCccccccccc
Q 015276 348 VETLPSPFHQILLKE 362 (410)
Q Consensus 348 ~d~~p~g~~~~~~~~ 362 (410)
|.-+-...+|+.|..
T Consensus 121 ~~k~~~~~k~~~~~d 135 (293)
T KOG1882|consen 121 GGKEGIALKEVEPQD 135 (293)
T ss_pred cCCccccccccCchh
Confidence 544444455555544
No 218
>PF15500 Toxin_39: Putative RNase-like toxin
Probab=20.53 E-value=1.1e+02 Score=26.01 Aligned_cols=11 Identities=36% Similarity=0.748 Sum_probs=8.1
Q ss_pred CCCCCCCCCcH
Q 015276 56 DLGPCPRIHDQ 66 (410)
Q Consensus 56 DLG~C~kiHd~ 66 (410)
+--|||.||-+
T Consensus 29 SppPCPvi~ve 39 (96)
T PF15500_consen 29 SPPPCPVIRVE 39 (96)
T ss_pred CCCCCCchhHH
Confidence 66789888854
No 219
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=20.53 E-value=5e+02 Score=29.66 Aligned_cols=22 Identities=41% Similarity=0.530 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 015276 129 EQLSVLEEKIKNLLEQVETLGE 150 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGe 150 (410)
++|..+.++++.+-+.++.|.+
T Consensus 579 ~~L~~l~e~~~~l~~~ae~Lae 600 (717)
T PF10168_consen 579 KELQELQEERKSLRESAEKLAE 600 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555544
No 220
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=20.50 E-value=2.5e+02 Score=29.46 Aligned_cols=100 Identities=26% Similarity=0.390 Sum_probs=56.2
Q ss_pred hhHhhhhcccCCCCCCCC-CcHHHHHHhhcCCCCCCChhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCc
Q 015276 46 PHDLFVNTRSDLGPCPRI-HDQKLKESFEKSPRHDAYVPKFEAELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPIS 124 (410)
Q Consensus 46 PhdLF~NTK~DLG~C~ki-Hd~~lK~~Ye~~~~~~~~~~~YE~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~ 124 (410)
|+--.++|+..|-.-... -++++++.-.++-+....-|-||. .+++++-++|+ ..|.. ..
T Consensus 17 p~le~sq~~FlLt~p~~~~~~~~~~e~l~~~Ird~~Map~Ye~----lce~~~i~~D~------~~l~~---------m~ 77 (393)
T KOG0687|consen 17 PDLELSQLRFLLTHPEVLGQKAAAREKLLAAIRDEDMAPLYEY----LCESLVIKLDQ------DLLNS---------MK 77 (393)
T ss_pred cchhHHHHHHHHcCccccCcCHHHHHHHHHHHHhcccchHHHH----HHhhcceeccH------HHHHH---------HH
Confidence 444556666665433222 467777777666444455556665 23333333332 22321 23
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Q 015276 125 AEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVE 170 (410)
Q Consensus 125 ~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~E 170 (410)
+.+.++|.+|+++|. .+|+. .|+.+.+++.+.++|=+..-
T Consensus 78 ~~neeki~eld~~ie----daeen--lGE~ev~ea~~~kaeYycqi 117 (393)
T KOG0687|consen 78 KANEEKIKELDEKIE----DAEEN--LGESEVREAMLRKAEYYCQI 117 (393)
T ss_pred HhhHHHHHHHHHHHH----HHHHh--cchHHHHHHHHHHHHHHHHh
Confidence 445567777665553 44444 57889999999998888753
No 221
>TIGR02473 flagell_FliJ flagellar export protein FliJ. Members of this family are the FliJ protein found, in nearly every case, in the midst of other flagellar biosynthesis genes in bacgterial genomes. Typically the fliJ gene is found adjacent to the gene for the flagellum-specific ATPase FliI. Sequence scoring in the gray zone between trusted and noise cutoffs include both probable FliJ proteins and components of bacterial type III secretion systems.
Probab=20.50 E-value=5.4e+02 Score=21.94 Aligned_cols=24 Identities=25% Similarity=0.100 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC
Q 015276 129 EQLSVLEEKIKNLLEQVETLGEAG 152 (410)
Q Consensus 129 eeI~~LeekI~~Ll~eaEeLGeeG 152 (410)
.+|..|...+......+...+..|
T Consensus 34 ~~l~~l~~~~~~~~~~~~~~~~~g 57 (141)
T TIGR02473 34 TQLQQLIKYREEYEQQALEKVGAG 57 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCC
Confidence 344444444445545444444444
No 222
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.45 E-value=1.3e+03 Score=28.07 Aligned_cols=122 Identities=11% Similarity=0.168 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHH
Q 015276 88 ELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEIL 167 (410)
Q Consensus 88 e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~L 167 (410)
+++.-+..-|.++...+..+...+.... ........++..+..++......+. +...++. .-..++.+
T Consensus 577 ~~~~~~~~el~~~~~~~~~~~~el~~~e------~~l~~~~~~l~~~~~eL~~~~~~i~---~~~~~~~---~~~~L~~~ 644 (1311)
T TIGR00606 577 DWLHSKSKEINQTRDRLAKLNKELASLE------QNKNHINNELESKEEQLSSYEDKLF---DVCGSQD---EESDLERL 644 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHh---cCCCchh---HHHHHHHH
Confidence 3444455555555555555555553221 1122333445555555554444444 2223333 22234444
Q ss_pred HHHHHHHHhhhhh--------hhhhhhhhhhccccccccchhhhccchhhHhhhhhcccccc
Q 015276 168 NVEKTTLTQQSQN--------DKVLMMAQEKKMALCEICGSFLVANDAAERTQSHISGKQHI 221 (410)
Q Consensus 168 k~Eke~le~~~~~--------~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~Hl 221 (410)
+.+.+.+...+.. ......+....-..|++|.--+...+.-..+-.++..++--
T Consensus 645 ~~~l~~~~~~~~~~~~~~~~~~k~ie~a~~~~~~~C~LC~R~f~~eee~~~f~~~L~~~~~~ 706 (1311)
T TIGR00606 645 KEEIEKSSKQRAMLAGATAVYSQFITQLTDENQSCCPVCQRVFQTEAELQEFISDLQSKLRL 706 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcCCCCCCCCCChhHHHHHHHHHHHHHhc
Confidence 4444444332200 00001111144569999998765443324555555544444
No 223
>KOG2801 consensus Probable Rab-GAPs [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.40 E-value=36 Score=34.78 Aligned_cols=21 Identities=38% Similarity=0.852 Sum_probs=15.5
Q ss_pred cccchhhhccchhhHhhhhhcccc
Q 015276 196 EICGSFLVANDAAERTQSHISGKQ 219 (410)
Q Consensus 196 eVCGA~Ls~~D~d~Rl~dH~~GK~ 219 (410)
+||||||+.. -.+| +.|+||+
T Consensus 402 evcgaylstd-wser--nkfggkl 422 (559)
T KOG2801|consen 402 EVCGAYLSTD-WSER--NKFGGKL 422 (559)
T ss_pred HHhhHhcccc-hhhh--cccCcee
Confidence 7999999844 3333 6799985
No 224
>KOG4182 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.23 E-value=3.7e+02 Score=29.66 Aligned_cols=51 Identities=12% Similarity=0.186 Sum_probs=36.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhhh
Q 015276 126 EKSEQLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQS 178 (410)
Q Consensus 126 ~~~eeI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~~ 178 (410)
........|.+++..++.++. ..+|+-.++++.++.++..+.+.+...+.+
T Consensus 78 ~Lq~Da~~Lq~kma~il~el~--~aegesadCiAaLaRldn~kQkleaA~esL 128 (828)
T KOG4182|consen 78 ALQADAHRLQEKMAAILLELA--AAEGESADCIAALARLDNKKQKLEAAKESL 128 (828)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHhCChHHHHHHHHHhccHHHHHHHHHHHH
Confidence 345567788899988887764 467888888888888877766555444443
No 225
>TIGR00270 conserved hypothetical protein TIGR00270.
Probab=20.19 E-value=38 Score=31.03 Aligned_cols=8 Identities=63% Similarity=1.518 Sum_probs=5.8
Q ss_pred ccccchhh
Q 015276 195 CEICGSFL 202 (410)
Q Consensus 195 CeVCGA~L 202 (410)
||+||+-+
T Consensus 3 CEiCG~~i 10 (154)
T TIGR00270 3 CEICGRKI 10 (154)
T ss_pred cccCCCcc
Confidence 88888653
No 226
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=20.18 E-value=6.7e+02 Score=24.69 Aligned_cols=81 Identities=17% Similarity=0.259 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCchhhHHHHHHHHHHHH------HHHHHHHHHhhcCCHHHHHHH
Q 015276 87 AELAQFCEKLVMDLDRRVRRGRERLSQEVEPAPPPPISAEKSEQLSVLEEKIK------NLLEQVETLGEAGKVDEAEAL 160 (410)
Q Consensus 87 ~e~~~~L~~lI~d~DrkI~~~k~RLe~~~ee~~~~~~~~~~~eeI~~LeekI~------~Ll~eaEeLGeeGeVdeAq~l 160 (410)
.+...||..+|.++.+.|.....-++.-................+..|...|. ..|+.+=.|.+.|.|+-
T Consensus 121 ~e~~~wl~~~Id~L~~QiE~~E~E~E~L~~~~kKkk~~~~~~~r~~~l~~~ierhk~Hi~kLE~lLR~L~N~~l~~---- 196 (233)
T PF04065_consen 121 EEARDWLKDSIDELNRQIEQLEAEIESLSSQKKKKKKDSTKQERIEELESRIERHKFHIEKLELLLRLLDNDELDP---- 196 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCH----
Confidence 56888999999999999998887765321000000112234555666666665 44566666778888854
Q ss_pred HHHHHHHHHHHH
Q 015276 161 MRKVEILNVEKT 172 (410)
Q Consensus 161 m~kvE~Lk~Eke 172 (410)
.+|+.++.-.+
T Consensus 197 -e~V~~ikedie 207 (233)
T PF04065_consen 197 -EQVEDIKEDIE 207 (233)
T ss_pred -HHHHHHHHHHH
Confidence 45555655443
No 227
>PRK04406 hypothetical protein; Provisional
Probab=20.12 E-value=86 Score=25.42 Aligned_cols=10 Identities=20% Similarity=0.361 Sum_probs=3.9
Q ss_pred HHHHHHHHHH
Q 015276 130 QLSVLEEKIK 139 (410)
Q Consensus 130 eI~~LeekI~ 139 (410)
.|..|+.+|.
T Consensus 12 Ri~~LE~~lA 21 (75)
T PRK04406 12 RINDLECQLA 21 (75)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 228
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=20.12 E-value=2.3e+02 Score=26.73 Aligned_cols=46 Identities=26% Similarity=0.368 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhh
Q 015276 130 QLSVLEEKIKNLLEQVETLGEAGKVDEAEALMRKVEILNVEKTTLTQQ 177 (410)
Q Consensus 130 eI~~LeekI~~Ll~eaEeLGeeGeVdeAq~lm~kvE~Lk~Eke~le~~ 177 (410)
-..+|+++|..|-.+|+.|-.- ...|..+-.++..|..+.+..++.
T Consensus 121 ~~~eL~~eI~~L~~~i~~le~~--~~~~k~LrnKa~~L~~eL~~F~~~ 166 (171)
T PF04799_consen 121 TKNELEDEIKQLEKEIQRLEEI--QSKSKTLRNKANWLESELERFQEQ 166 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3446777777777777766441 233344445555555555444443
No 229
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.11 E-value=35 Score=28.30 Aligned_cols=15 Identities=53% Similarity=0.888 Sum_probs=11.6
Q ss_pred cccccccchhhhccc
Q 015276 192 MALCEICGSFLVAND 206 (410)
Q Consensus 192 l~VCeVCGA~Ls~~D 206 (410)
|-+|+|||+-|...+
T Consensus 1 ~llCP~C~v~l~~~~ 15 (88)
T COG3809 1 MLLCPICGVELVMSV 15 (88)
T ss_pred CcccCcCCceeeeee
Confidence 468999999887553
Done!