Query 018016
Match_columns 362
No_of_seqs 112 out of 136
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 05:25:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018016.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018016hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07851 TMPIT: TMPIT-like pro 100.0 7E-127 1E-131 928.4 32.5 312 10-354 17-330 (330)
2 KOG4758 Predicted membrane pro 100.0 1.5E-82 3.3E-87 576.7 13.7 211 126-350 1-213 (220)
3 KOG4758 Predicted membrane pro 99.6 2.2E-15 4.9E-20 138.4 8.3 184 11-204 2-195 (220)
4 PF07851 TMPIT: TMPIT-like pro 94.1 0.26 5.7E-06 49.7 8.9 120 11-141 1-121 (330)
5 COG3883 Uncharacterized protei 79.9 5.4 0.00012 39.4 6.7 89 6-118 37-126 (265)
6 COG1422 Predicted membrane pro 78.3 41 0.00089 32.2 11.8 40 176-220 137-176 (201)
7 PF03962 Mnd1: Mnd1 family; I 78.1 21 0.00046 33.1 9.7 81 4-91 66-148 (188)
8 PF09726 Macoilin: Transmembra 77.7 7.7 0.00017 42.8 7.8 60 4-64 503-563 (697)
9 PF03904 DUF334: Domain of unk 70.5 1.1E+02 0.0024 29.9 13.3 39 19-57 44-82 (230)
10 PRK11637 AmiB activator; Provi 70.2 19 0.00041 36.7 8.0 8 217-224 306-313 (428)
11 PF01151 ELO: GNS1/SUR4 family 69.8 97 0.0021 29.5 12.2 79 196-305 115-193 (250)
12 KOG3312 Predicted membrane pro 68.6 18 0.00039 33.7 6.6 22 175-196 142-163 (186)
13 PF10158 LOH1CR12: Tumour supp 64.4 62 0.0013 28.8 9.0 44 9-60 58-101 (131)
14 PF10186 Atg14: UV radiation r 61.9 58 0.0012 30.5 8.9 30 32-61 77-106 (302)
15 PF12329 TMF_DNA_bd: TATA elem 60.8 57 0.0012 26.1 7.4 47 10-60 8-54 (74)
16 PRK11637 AmiB activator; Provi 59.7 47 0.001 33.9 8.5 9 111-119 141-149 (428)
17 PF08317 Spc7: Spc7 kinetochor 58.0 65 0.0014 32.0 8.9 54 10-63 180-233 (325)
18 KOG4603 TBP-1 interacting prot 57.2 20 0.00044 33.9 4.9 17 123-139 148-164 (201)
19 PF07106 TBPIP: Tat binding pr 56.7 1.1E+02 0.0025 27.2 9.5 21 12-32 77-97 (169)
20 PF05565 Sipho_Gp157: Siphovir 56.6 54 0.0012 29.6 7.5 53 7-59 29-81 (162)
21 PF04508 Pox_A_type_inc: Viral 53.2 19 0.00042 23.5 2.9 21 40-60 2-22 (23)
22 KOG4418 Predicted membrane pro 52.2 6.9 0.00015 40.9 1.2 25 201-225 15-39 (438)
23 PRK00488 pheS phenylalanyl-tRN 50.7 69 0.0015 32.8 7.9 110 9-144 9-118 (339)
24 PF14257 DUF4349: Domain of un 50.4 57 0.0012 31.0 6.9 50 14-63 105-156 (262)
25 PF10498 IFT57: Intra-flagella 50.3 93 0.002 31.9 8.8 17 79-95 309-325 (359)
26 PRK09039 hypothetical protein; 49.4 1E+02 0.0022 31.2 8.8 42 18-59 123-164 (343)
27 PF07106 TBPIP: Tat binding pr 47.8 63 0.0014 28.8 6.4 48 39-95 86-133 (169)
28 PF09730 BicD: Microtubule-ass 47.6 1.3E+02 0.0027 34.0 9.9 78 7-95 359-436 (717)
29 PF01923 Cob_adeno_trans: Coba 46.0 1.4E+02 0.003 26.8 8.4 74 15-95 27-100 (163)
30 PF03915 AIP3: Actin interacti 44.6 81 0.0018 33.2 7.5 90 6-95 205-316 (424)
31 PF00435 Spectrin: Spectrin re 44.4 1.3E+02 0.0029 22.5 7.5 20 14-33 48-67 (105)
32 PF10186 Atg14: UV radiation r 43.5 1E+02 0.0023 28.7 7.5 12 241-252 262-273 (302)
33 PF07889 DUF1664: Protein of u 43.4 1.9E+02 0.0042 25.7 8.6 16 44-59 66-81 (126)
34 KOG0972 Huntingtin interacting 42.8 1E+02 0.0022 31.7 7.6 88 10-97 237-334 (384)
35 PF14147 Spore_YhaL: Sporulati 41.8 18 0.0004 27.9 1.8 20 201-220 2-21 (52)
36 PRK04406 hypothetical protein; 41.6 1.8E+02 0.0038 23.5 7.5 32 28-59 28-59 (75)
37 PF05478 Prominin: Prominin; 41.3 1.7E+02 0.0036 32.8 9.7 26 78-105 357-382 (806)
38 PF13864 Enkurin: Calmodulin-b 41.3 47 0.001 27.5 4.3 17 42-58 47-63 (98)
39 PLN02915 cellulose synthase A 41.2 50 0.0011 38.5 5.8 27 181-209 864-890 (1044)
40 KOG4054 Uncharacterized conser 41.1 2.5E+02 0.0055 26.6 9.4 64 243-311 105-173 (183)
41 PF02403 Seryl_tRNA_N: Seryl-t 41.1 1.1E+02 0.0025 25.0 6.6 15 43-57 47-61 (108)
42 PF07439 DUF1515: Protein of u 40.6 2.4E+02 0.0053 24.9 8.6 54 11-64 12-65 (112)
43 KOG3208 SNARE protein GS28 [In 40.0 1.2E+02 0.0026 29.7 7.4 54 7-60 51-110 (231)
44 KOG0995 Centromere-associated 40.0 96 0.0021 34.0 7.3 55 9-63 462-516 (581)
45 PF15456 Uds1: Up-regulated Du 39.5 1.8E+02 0.0039 25.7 7.8 41 13-58 21-61 (124)
46 PF11241 DUF3043: Protein of u 37.8 2.4E+02 0.0052 26.4 8.7 24 170-193 99-122 (170)
47 PLN02372 violaxanthin de-epoxi 37.8 1.7E+02 0.0036 31.3 8.4 73 8-95 373-449 (455)
48 PF10234 Cluap1: Clusterin-ass 37.7 2.8E+02 0.0061 27.6 9.7 52 8-59 163-214 (267)
49 PRK10884 SH3 domain-containing 37.6 2.7E+02 0.0059 26.4 9.3 13 43-55 122-134 (206)
50 PF05377 FlaC_arch: Flagella a 37.4 94 0.002 24.2 5.0 30 30-59 12-41 (55)
51 PF10392 COG5: Golgi transport 37.3 2.7E+02 0.006 24.0 9.2 25 39-63 72-96 (132)
52 PRK10884 SH3 domain-containing 37.3 2.2E+02 0.0049 27.0 8.6 12 47-58 133-144 (206)
53 PRK07739 flgK flagellar hook-a 37.1 3E+02 0.0065 29.1 10.4 51 9-59 148-198 (507)
54 PF04065 Not3: Not1 N-terminal 36.9 1.7E+02 0.0037 28.5 7.9 79 6-89 128-208 (233)
55 PF04899 MbeD_MobD: MbeD/MobD 36.7 2.3E+02 0.0049 22.9 7.6 51 5-59 8-62 (70)
56 PLN03217 transcription factor 36.6 43 0.00093 28.5 3.3 35 19-54 44-78 (93)
57 KOG0804 Cytoplasmic Zn-finger 36.6 1.7E+02 0.0038 31.5 8.4 16 80-95 430-445 (493)
58 PF00804 Syntaxin: Syntaxin; 35.9 1.1E+02 0.0023 23.9 5.4 39 14-56 17-55 (103)
59 PLN02189 cellulose synthase 35.5 71 0.0015 37.3 5.8 29 179-209 860-888 (1040)
60 PF15450 DUF4631: Domain of un 35.2 1.7E+02 0.0037 31.8 8.2 63 4-66 384-446 (531)
61 PF10018 Med4: Vitamin-D-recep 34.7 1.8E+02 0.0039 26.7 7.4 49 11-60 9-57 (188)
62 COG4026 Uncharacterized protei 34.2 3.3E+02 0.0071 27.2 9.3 18 112-129 244-261 (290)
63 PF10925 DUF2680: Protein of u 34.2 1.4E+02 0.0031 23.1 5.7 48 36-95 4-53 (59)
64 PF10168 Nup88: Nuclear pore c 34.2 1.2E+02 0.0026 33.9 7.2 13 43-55 611-623 (717)
65 smart00502 BBC B-Box C-termina 33.3 2.5E+02 0.0055 22.4 7.4 7 83-89 84-90 (127)
66 PRK05431 seryl-tRNA synthetase 33.1 2E+02 0.0044 29.8 8.3 63 19-95 43-108 (425)
67 PF05781 MRVI1: MRVI1 protein; 33.1 1E+02 0.0022 33.5 6.3 55 4-59 221-275 (538)
68 KOG4593 Mitotic checkpoint pro 32.1 2.5E+02 0.0055 31.7 9.1 58 6-63 139-196 (716)
69 PRK08476 F0F1 ATP synthase sub 32.0 3.5E+02 0.0076 23.7 9.0 44 5-48 39-82 (141)
70 PF09748 Med10: Transcription 31.9 2.4E+02 0.0051 24.7 7.3 49 13-63 2-50 (128)
71 PF11932 DUF3450: Protein of u 31.9 3E+02 0.0066 26.1 8.7 12 178-189 192-203 (251)
72 PF09403 FadA: Adhesion protei 31.6 3.7E+02 0.008 23.9 8.5 36 3-38 44-79 (126)
73 PF00880 Nebulin: Nebulin repe 31.3 16 0.00035 23.7 0.0 13 128-140 16-28 (29)
74 smart00806 AIP3 Actin interact 31.1 1.3E+02 0.0029 31.8 6.6 90 6-95 209-320 (426)
75 PF00038 Filament: Intermediat 30.9 4.4E+02 0.0095 25.3 9.7 50 10-59 187-236 (312)
76 PTZ00251 fatty acid elongase; 30.9 5.3E+02 0.012 25.4 11.9 78 198-307 138-215 (272)
77 PHA02562 46 endonuclease subun 30.9 2.9E+02 0.0063 28.6 9.0 13 80-92 381-393 (562)
78 PF08317 Spc7: Spc7 kinetochor 30.1 3.8E+02 0.0083 26.6 9.4 52 8-59 146-197 (325)
79 PF04849 HAP1_N: HAP1 N-termin 30.0 2.1E+02 0.0047 29.1 7.6 25 12-36 218-242 (306)
80 COG4942 Membrane-bound metallo 30.0 2.5E+02 0.0055 29.8 8.3 31 32-62 52-82 (420)
81 KOG1341 Na+/K+ transporter [In 29.1 1.5E+02 0.0033 33.4 6.8 45 173-219 478-523 (854)
82 cd07597 BAR_SNX8 The Bin/Amphi 28.8 2.6E+02 0.0056 26.8 7.7 75 10-95 116-190 (246)
83 PF09726 Macoilin: Transmembra 28.6 1.3E+02 0.0027 33.6 6.2 29 28-56 456-484 (697)
84 KOG0963 Transcription factor/C 28.0 2.9E+02 0.0062 30.8 8.6 72 12-95 290-361 (629)
85 smart00787 Spc7 Spc7 kinetocho 28.0 3.5E+02 0.0076 27.2 8.7 13 80-92 248-260 (312)
86 PF00261 Tropomyosin: Tropomyo 27.8 5.2E+02 0.011 24.4 9.5 48 7-58 141-188 (237)
87 KOG1237 H+/oligopeptide sympor 27.7 1.6E+02 0.0035 31.7 6.8 58 285-342 457-514 (571)
88 PF12325 TMF_TATA_bd: TATA ele 27.6 4.2E+02 0.0092 23.2 8.6 20 76-95 94-113 (120)
89 KOG0250 DNA repair protein RAD 27.2 3.1E+02 0.0067 32.4 9.0 37 19-55 352-388 (1074)
90 PF15048 OSTbeta: Organic solu 27.2 82 0.0018 28.2 3.7 39 312-350 28-66 (125)
91 PF05791 Bacillus_HBL: Bacillu 26.8 5E+02 0.011 23.8 9.9 19 77-95 162-180 (184)
92 smart00787 Spc7 Spc7 kinetocho 26.6 4.2E+02 0.0091 26.7 9.0 19 40-58 205-223 (312)
93 PRK04778 septation ring format 26.3 4.7E+02 0.01 28.1 9.8 26 117-143 467-492 (569)
94 PHA02562 46 endonuclease subun 26.2 3.9E+02 0.0084 27.7 9.0 33 33-65 214-246 (562)
95 KOG4797 Transcriptional regula 26.0 3.1E+02 0.0067 24.4 6.9 43 16-60 46-88 (123)
96 PF02076 STE3: Pheromone A rec 26.0 2.4E+02 0.0053 27.8 7.1 57 144-200 108-193 (283)
97 COG1196 Smc Chromosome segrega 25.7 5.8E+02 0.013 29.8 11.0 27 202-228 1060-1092(1163)
98 COG5608 LEA14-like dessication 25.5 19 0.00042 33.3 -0.5 15 192-206 105-119 (161)
99 PF12534 DUF3733: Leucine-rich 25.5 57 0.0012 26.1 2.2 21 199-219 20-41 (65)
100 KOG4603 TBP-1 interacting prot 25.5 6.1E+02 0.013 24.4 9.4 52 9-60 81-144 (201)
101 PF11945 WASH_WAHD: WAHD domai 25.4 2.5E+02 0.0055 28.2 7.2 85 13-120 17-102 (297)
102 PF07412 Geminin: Geminin; In 25.3 2.4E+02 0.0053 27.1 6.7 57 2-59 113-169 (200)
103 PF10498 IFT57: Intra-flagella 25.2 4.5E+02 0.0097 27.1 9.0 59 5-63 257-318 (359)
104 PF12718 Tropomyosin_1: Tropom 25.2 4.9E+02 0.011 23.2 8.3 47 12-59 47-93 (143)
105 PF10063 DUF2301: Uncharacteri 24.8 94 0.002 28.1 3.7 38 285-334 78-117 (135)
106 TIGR03752 conj_TIGR03752 integ 24.8 2.1E+02 0.0046 30.7 6.8 37 21-57 69-105 (472)
107 PF10168 Nup88: Nuclear pore c 24.7 2.6E+02 0.0056 31.3 7.8 39 13-55 571-609 (717)
108 PF07739 TipAS: TipAS antibiot 24.6 1.7E+02 0.0037 23.7 4.9 75 10-99 4-78 (118)
109 PF06637 PV-1: PV-1 protein (P 24.6 3.2E+02 0.0069 29.1 7.8 27 25-51 335-361 (442)
110 PRK11546 zraP zinc resistance 24.3 2.9E+02 0.0064 25.2 6.7 59 22-95 48-106 (143)
111 PF04156 IncA: IncA protein; 24.1 3.5E+02 0.0076 24.1 7.3 66 3-83 126-191 (191)
112 PF04048 Sec8_exocyst: Sec8 ex 23.7 5E+02 0.011 22.8 9.2 27 38-64 78-104 (142)
113 KOG0288 WD40 repeat protein Ti 23.7 3.7E+02 0.0079 28.9 8.1 56 10-65 12-67 (459)
114 KOG2629 Peroxisomal membrane a 23.7 4.8E+02 0.01 26.6 8.7 47 45-104 153-199 (300)
115 PF03915 AIP3: Actin interacti 23.5 99 0.0022 32.5 4.1 59 39-105 213-271 (424)
116 PF13851 GAS: Growth-arrest sp 23.3 6.2E+02 0.013 23.7 9.1 74 10-87 110-187 (201)
117 smart00806 AIP3 Actin interact 23.2 4.1E+02 0.0088 28.4 8.4 89 9-105 175-275 (426)
118 PF06705 SF-assemblin: SF-asse 23.2 5.8E+02 0.013 24.2 8.9 32 6-37 44-75 (247)
119 PF06825 HSBP1: Heat shock fac 23.0 1.1E+02 0.0024 23.6 3.2 36 24-59 13-48 (54)
120 PLN02400 cellulose synthase 23.0 1E+02 0.0023 36.1 4.4 27 181-209 905-931 (1085)
121 TIGR00414 serS seryl-tRNA synt 23.0 2.8E+02 0.006 28.7 7.2 40 20-59 46-89 (418)
122 PLN02678 seryl-tRNA synthetase 22.8 3.8E+02 0.0083 28.4 8.2 16 42-57 74-89 (448)
123 PF07889 DUF1664: Protein of u 22.8 5.5E+02 0.012 22.9 9.3 31 6-36 42-72 (126)
124 PF04740 LXG: LXG domain of WX 22.8 3E+02 0.0065 24.8 6.6 10 21-30 113-122 (204)
125 PF06248 Zw10: Centromere/kine 22.7 4.3E+02 0.0094 28.2 8.7 47 10-56 10-56 (593)
126 cd00632 Prefoldin_beta Prefold 22.6 3.1E+02 0.0067 22.7 6.2 52 12-63 28-87 (105)
127 PF04849 HAP1_N: HAP1 N-termin 22.6 3.6E+02 0.0078 27.5 7.6 44 12-59 232-275 (306)
128 TIGR02338 gimC_beta prefoldin, 22.5 4.6E+02 0.01 21.9 7.3 78 1-90 22-107 (110)
129 PF10393 Matrilin_ccoil: Trime 22.5 2.1E+02 0.0047 21.5 4.6 30 25-54 16-45 (47)
130 PLN02190 cellulose synthase-li 22.5 1.5E+02 0.0032 33.7 5.3 58 144-208 546-604 (756)
131 PF07445 priB_priC: Primosomal 22.4 5.6E+02 0.012 23.5 8.3 21 42-62 141-161 (173)
132 PRK05683 flgK flagellar hook-a 22.3 5.9E+02 0.013 28.4 9.8 51 9-59 136-186 (676)
133 TIGR03185 DNA_S_dndD DNA sulfu 22.1 5.3E+02 0.011 28.0 9.3 21 42-62 265-285 (650)
134 PRK09039 hypothetical protein; 21.9 4.2E+02 0.009 26.8 8.0 80 35-124 133-216 (343)
135 PF07028 DUF1319: Protein of u 21.9 5.9E+02 0.013 22.9 8.1 30 32-61 53-82 (126)
136 PRK06569 F0F1 ATP synthase sub 21.7 6.4E+02 0.014 23.2 9.2 44 4-47 41-84 (155)
137 PF00015 MCPsignal: Methyl-acc 21.6 5.2E+02 0.011 22.6 7.8 26 11-36 79-104 (213)
138 PF10234 Cluap1: Clusterin-ass 21.6 2.8E+02 0.0061 27.6 6.6 18 34-51 199-216 (267)
139 PF04977 DivIC: Septum formati 21.5 3.2E+02 0.0069 20.6 5.7 25 39-63 24-48 (80)
140 PF10805 DUF2730: Protein of u 21.4 2E+02 0.0044 24.3 4.9 49 38-95 34-82 (106)
141 PF08919 F_actin_bind: F-actin 21.4 5.2E+02 0.011 22.5 7.5 73 13-94 31-108 (110)
142 PF04568 IATP: Mitochondrial A 21.0 3.4E+02 0.0073 23.3 6.1 18 21-38 72-89 (100)
143 TIGR01834 PHA_synth_III_E poly 21.0 3.6E+02 0.0078 27.6 7.3 26 38-63 288-313 (320)
144 PF07544 Med9: RNA polymerase 20.7 2E+02 0.0044 23.3 4.5 51 41-95 23-76 (83)
145 PF12329 TMF_DNA_bd: TATA elem 20.6 2.3E+02 0.005 22.7 4.8 29 35-63 15-43 (74)
146 PRK14140 heat shock protein Gr 20.4 1.4E+02 0.0031 28.2 4.1 31 29-59 34-64 (191)
147 KOG0933 Structural maintenance 20.4 3.6E+02 0.0079 31.9 7.8 20 79-98 865-884 (1174)
148 PLN02320 seryl-tRNA synthetase 20.4 6E+02 0.013 27.6 9.1 18 41-58 132-149 (502)
149 KOG0996 Structural maintenance 20.3 3.4E+02 0.0074 32.6 7.7 30 34-63 902-931 (1293)
150 PLN02436 cellulose synthase A 20.2 1.9E+02 0.004 34.2 5.6 28 181-210 916-943 (1094)
151 TIGR01837 PHA_granule_1 poly(h 20.0 5.3E+02 0.011 22.2 7.2 8 80-87 105-112 (118)
No 1
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=100.00 E-value=6.8e-127 Score=928.41 Aligned_cols=312 Identities=35% Similarity=0.615 Sum_probs=295.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHH
Q 018016 10 KVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQK 89 (362)
Q Consensus 10 ~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ 89 (362)
++...+-.+|+||+.++|+.|+++|+||+ +|+++++++|++|+++++. ++++.+++++++|++
T Consensus 17 qethr~Y~qKleel~~lQ~~C~ssI~~Qk-------krLk~L~~sLk~~~~~~~~----------e~~~~i~~L~~~Ik~ 79 (330)
T PF07851_consen 17 QETHRSYKQKLEELSKLQDKCSSSISHQK-------KRLKELKKSLKRCKKSLSA----------EERELIEKLEEDIKE 79 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHhccCCCh----------hHHHHHHHHHHHHHH
Confidence 34445678899999999999999999997 5999999999999854331 278999999999999
Q ss_pred HhcccccchhhhcCCCCCCCccceeecccceeeeccccccccchhhhhhhHHHHHHHHHHHHHHHHHH-HHHhhcCCCCC
Q 018016 90 AQCLIYDGDASAFLPSKAQGAFVKMFIGPINVRASRKDVQLKVKEEYNSYRDRTALLFLLFPSTLLIL-RSWIWDGCLPA 168 (362)
Q Consensus 90 ~~~~~~~~dme~~LP~k~nG~yL~liLG~vNVtll~k~~kf~yKdEYEkFKl~~t~i~ll~~~~ll~~-~~~~~d~~~~~ 168 (362)
|+++++ |||++||+| ||+||+++||||||+++++++||+|||||||||+++|++++++|++|+++ ++++.|
T Consensus 80 r~~~l~--DmEa~LPkk-NGlyL~liLGnVNVsll~k~~kf~yKdEYEkFKl~~tii~l~~~~~~~~~~~~r~~d----- 151 (330)
T PF07851_consen 80 RRCQLF--DMEAFLPKK-NGLYLRLILGNVNVSLLSKQAKFKYKDEYEKFKLYLTIILLLFAVALLFLLNYRVLD----- 151 (330)
T ss_pred HHhhHH--HHHhhCCCC-CCcccceecccccceecccccccchhhhHHHHHHHHHHHHHHHHHHHHHHcChHHHH-----
Confidence 999999 999999975 99999999999999999999999999999999999999999999988875 455555
Q ss_pred chHHHHHHHHHHHHHHHHHhhhhhhcCCCCCchhHHHHHHHHHHhhhhhhcccccCCCcchhhhhhhhHHHHHHHHHHHH
Q 018016 169 FPVQLYQAWLLFLYTGLALRENILRINGSDIRPWWIYHHYCAMLMALVSLTWEIKGQPNCAQKQRGVQLFLQWAMMQGVA 248 (362)
Q Consensus 169 ~~~~~~~flLvwyYcTLtiREsIL~vNGSrIkgWWv~HHY~S~~lsgv~LtWp~~~~p~~~~~~~f~~qFl~fs~yqs~V 248 (362)
++|+|||||||||||||||||+||||||||||+.|||+||++||||||| |||..||+||+||+.||+|||+|
T Consensus 152 ---~~~~f~lvwyY~tLtiRE~IL~~NGS~Ik~WW~~HHy~s~~~s~v~Ltw-----p~~~~~~~fr~~fl~f~~~~~~v 223 (330)
T PF07851_consen 152 ---QLFNFLLVWYYCTLTIRESILIVNGSRIKGWWVFHHYISTFLSGVMLTW-----PDGEAYQKFRPQFLLFSLYQSVV 223 (330)
T ss_pred ---HHHHHHHHHHHHHHHHHHHhhccCCCcchHHHHHHHHHHHHHHhccccC-----CCcHHHHHHHHHHHHHHHHHHHH
Confidence 5999999999999999999999999999999999999999999999999 79999999999999999999999
Q ss_pred HHHHHHhhhhhhHHHHHhCCCCccccc-ccCCcccccchHhHHHHHHHHHHHHHHHHHHHHHhhccCCCCchhHHHHHHH
Q 018016 249 MLLQNRYQRQRLYTRIALGKAKRMDVV-WGETAGVDGQLWLLCPILFILQGFEAYVGLLLLKTALVGVVPEWQVSFCGAL 327 (362)
Q Consensus 249 Q~lQ~~YQrgcLYrl~ALGe~~~MDvt-~g~~~~v~ggLtfLlPfLf~g~~fQlYna~tL~~~s~~~~~~EWQV~~~~ll 327 (362)
|+||||||||||||||||||||+|||| +|++|||.||||||+||||+||+||+||||+||+++++|+|+||||+|||++
T Consensus 224 q~lQ~~YQ~~~Ly~l~AlG~~~~mdvt~eG~~s~~~~~L~fLlPfLf~~~~~q~yn~~~l~~~~~~~~~~ewqv~~~~~~ 303 (330)
T PF07851_consen 224 QFLQYRYQRGCLYRLRALGKRHNMDVTVEGFQSWMWRGLTFLLPFLFFGQFFQLYNAYTLFELSYHPECREWQVFVCGLL 303 (330)
T ss_pred HHHHHHHHHhHHHHHHHhccCccceeeecccccchhccHHHHHHHHHHHHHHHHHHHHHHHHHHcCccchHHHHHHHHHH
Confidence 999999999999999999999999999 7999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHhhhh
Q 018016 328 LVLMAVGNFINTVQTLMTKSRFKAKMK 354 (362)
Q Consensus 328 flil~~GNf~TTl~vv~~K~~~~~~~~ 354 (362)
|++||+|||+||++|+++|+|+++|||
T Consensus 304 f~~l~~gN~~tt~~v~~~K~~~~~~~~ 330 (330)
T PF07851_consen 304 FLILFLGNFFTTLKVVHQKLKKKAKMK 330 (330)
T ss_pred HHHHHhhhHHHHHHHHHHHHHhhhccC
Confidence 999999999999999999999999986
No 2
>KOG4758 consensus Predicted membrane protein [General function prediction only]
Probab=100.00 E-value=1.5e-82 Score=576.70 Aligned_cols=211 Identities=29% Similarity=0.390 Sum_probs=203.0
Q ss_pred ccccccchhhhhhhHHHHHHHHHHHHHHHHH-HHHHhhcCCCCCchHHHHHHHHHHHHHHHHHhhhhhhcCCCCCchhHH
Q 018016 126 KDVQLKVKEEYNSYRDRTALLFLLFPSTLLI-LRSWIWDGCLPAFPVQLYQAWLLFLYTGLALRENILRINGSDIRPWWI 204 (362)
Q Consensus 126 k~~kf~yKdEYEkFKl~~t~i~ll~~~~ll~-~~~~~~d~~~~~~~~~~~~flLvwyYcTLtiREsIL~vNGSrIkgWWv 204 (362)
+++|++|||||||||++.+++.+++++.+.+ ++.|..|. +|+|+|||||||||||||||++| |||||||+
T Consensus 1 ~~~k~~~Kd~~ek~K~~~~~~~~~is~~~~~~l~~R~~~~--------af~fllvwyycTltiresil~~n-srikgww~ 71 (220)
T KOG4758|consen 1 MEVEEEVKQIIDEVKELHDSAASFISFSSQQELNLRQKAS--------AFDFLLVWYYCTLTIRESILPKN-SRIKGWWA 71 (220)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHheeehhhhcccch-hhhhHHHH
Confidence 4789999999999999999999999999955 77788775 78999999999999999999999 99999999
Q ss_pred HHHHHHHHhhhhhhcccccCCCcchhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHhCCCCcccccc-cCCcccc
Q 018016 205 YHHYCAMLMALVSLTWEIKGQPNCAQKQRGVQLFLQWAMMQGVAMLLQNRYQRQRLYTRIALGKAKRMDVVW-GETAGVD 283 (362)
Q Consensus 205 ~HHY~S~~lsgv~LtWp~~~~p~~~~~~~f~~qFl~fs~yqs~VQ~lQ~~YQrgcLYrl~ALGe~~~MDvt~-g~~~~v~ 283 (362)
.|||+|+++||||||| |+|..||+||+||+.||+|||+||++||+||||||||++||||||+||+|. |+.||+.
T Consensus 72 ~hh~Vst~~sgvlltw-----PqG~~~q~Fr~qf~~fsl~~s~vq~lq~~Yqrg~lYRlkalger~~~d~Tvegf~SwmW 146 (220)
T KOG4758|consen 72 RHHLVSTETSGVLLTW-----PQGRFYQKFRNQFLVFSLYQSVVQFLQYYYQRGCLYRLKALGERHFMDLTVEGFQSWMW 146 (220)
T ss_pred HHhhhhhhhcceeecC-----CCcHHHHHHHhHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhccChhHHHHHHHHHH
Confidence 9999999999999999 799999999999999999999999999999999999999999999999996 8899999
Q ss_pred cchHhHHHHHHHHHHHHHHHHHHHHHhhccCCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 018016 284 GQLWLLCPILFILQGFEAYVGLLLLKTALVGVVPEWQVSFCGALLVLMAVGNFINTVQTLMTKSRFK 350 (362)
Q Consensus 284 ggLtfLlPfLf~g~~fQlYna~tL~~~s~~~~~~EWQV~~~~llflil~~GNf~TTl~vv~~K~~~~ 350 (362)
|||+||+||||+|||||+|||+|||.++.+|.|.||||.++|.+|+++|+||+.||++|||.|++..
T Consensus 147 rGltfllPflf~g~~~QlynAwtLf~lA~~~~~~~w~v~~~s~~fl~lF~gn~~ttl~vV~~k~~~~ 213 (220)
T KOG4758|consen 147 RGLTFLLPFLFIGHFWQLYNAWTLFLLAGLPMCEEWQVAVGSFIFLLLFLGNFPTTLMVVHIKIREE 213 (220)
T ss_pred CcchhhhhHHHhhHHHHHHHHHHHHHHccCccchHHHHHhccchHHHHHhcCCccchhhhhHHHHHh
Confidence 9999999999999999999999999999999999999999999999999999999999999999874
No 3
>KOG4758 consensus Predicted membrane protein [General function prediction only]
Probab=99.60 E-value=2.2e-15 Score=138.39 Aligned_cols=184 Identities=28% Similarity=0.335 Sum_probs=162.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHH
Q 018016 11 VEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKA 90 (362)
Q Consensus 11 ~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~ 90 (362)
++++|+++..||.+.+-+.+.+.|+-..+.+..+|+.....+..|.++-..+... +. +++. ..+.+.-.+
T Consensus 2 ~~k~~~Kd~~ek~K~~~~~~~~~is~~~~~~l~~R~~~~af~fllvwyycTltir---es----il~~---nsrikgww~ 71 (220)
T KOG4758|consen 2 EVEEEVKQIIDEVKELHDSAASFISFSSQQELNLRQKASAFDFLLVWYYCTLTIR---ES----ILPK---NSRIKGWWA 71 (220)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHheeehh---hh----cccc---hhhhhHHHH
Confidence 5788999999999999999999999888888999999999999998875444421 10 1222 255666788
Q ss_pred hcccccchhhhcCCCCCCCccceeecccceeeeccccccccchhhhhh---hHHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 018016 91 QCLIYDGDASAFLPSKAQGAFVKMFIGPINVRASRKDVQLKVKEEYNS---YRDRTALLFLLFPSTLLILRSWIWDGCLP 167 (362)
Q Consensus 91 ~~~~~~~dme~~LP~k~nG~yL~liLG~vNVtll~k~~kf~yKdEYEk---FKl~~t~i~ll~~~~ll~~~~~~~d~~~~ 167 (362)
.+.+.+++..+.+|.+|+|.+.+.+-|++|+..+.++.....|.+|.+ +|++.......++.++.-+.+|.|.||.+
T Consensus 72 ~hh~Vst~~sgvlltwPqG~~~q~Fr~qf~~fsl~~s~vq~lq~~Yqrg~lYRlkalger~~~d~Tvegf~SwmWrGltf 151 (220)
T KOG4758|consen 72 RHHLVSTETSGVLLTWPQGRFYQKFRNQFLVFSLYQSVVQFLQYYYQRGCLYRLKALGERHFMDLTVEGFQSWMWRGLTF 151 (220)
T ss_pred HHhhhhhhhcceeecCCCcHHHHHHHhHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhccChhHHHHHHHHHHCcchh
Confidence 888989999999999999999999999999999999999999999999 99999888999999999999999999999
Q ss_pred Cch-------HHHHHHHHHHHHHHHHHhhhhhhcCCCCCchhHH
Q 018016 168 AFP-------VQLYQAWLLFLYTGLALRENILRINGSDIRPWWI 204 (362)
Q Consensus 168 ~~~-------~~~~~flLvwyYcTLtiREsIL~vNGSrIkgWWv 204 (362)
.+| .|+|++|.++-|..+..||++++.|||.|..|-.
T Consensus 152 llPflf~g~~~QlynAwtLf~lA~~~~~~~w~v~~~s~~fl~lF 195 (220)
T KOG4758|consen 152 LLPFLFIGHFWQLYNAWTLFLLAGLPMCEEWQVAVGSFIFLLLF 195 (220)
T ss_pred hhhHHHhhHHHHHHHHHHHHHHccCccchHHHHHhccchHHHHH
Confidence 898 9999999999999999999999999999999853
No 4
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=94.11 E-value=0.26 Score=49.66 Aligned_cols=120 Identities=23% Similarity=0.204 Sum_probs=67.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHH
Q 018016 11 VEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKA 90 (362)
Q Consensus 11 ~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~ 90 (362)
++++||+++.+|.++||+.+..++.|.....+..++..+++++..+|++.-..++. + ..++.-.+-.+.+++.
T Consensus 1 e~~eEW~eL~~efq~Lqethr~Y~qKleel~~lQ~~C~ssI~~QkkrLk~L~~sLk-~------~~~~~~~e~~~~i~~L 73 (330)
T PF07851_consen 1 ECEEEWEELQKEFQELQETHRSYKQKLEELSKLQDKCSSSISHQKKRLKELKKSLK-R------CKKSLSAEERELIEKL 73 (330)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-H------hccCCChhHHHHHHHH
Confidence 47899999999999999999999999654444444555555555566543333221 0 1111222333445555
Q ss_pred hcccccchhhhcCCCCCCCccceeeccc-ceeeeccccccccchhhhhhhHH
Q 018016 91 QCLIYDGDASAFLPSKAQGAFVKMFIGP-INVRASRKDVQLKVKEEYNSYRD 141 (362)
Q Consensus 91 ~~~~~~~dme~~LP~k~nG~yL~liLG~-vNVtll~k~~kf~yKdEYEkFKl 141 (362)
+..+. +.+.-+-. -..||---=|- +++.+-+-+...-=|++==++|+
T Consensus 74 ~~~Ik--~r~~~l~D--mEa~LPkkNGlyL~liLGnVNVsll~k~~kf~yKd 121 (330)
T PF07851_consen 74 EEDIK--ERRCQLFD--MEAFLPKKNGLYLRLILGNVNVSLLSKQAKFKYKD 121 (330)
T ss_pred HHHHH--HHHhhHHH--HHhhCCCCCCcccceecccccceecccccccchhh
Confidence 55555 43333331 22344322232 66666655666555665555554
No 5
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.93 E-value=5.4 Score=39.41 Aligned_cols=89 Identities=15% Similarity=0.259 Sum_probs=51.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHH
Q 018016 6 SNCEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEE 85 (362)
Q Consensus 6 ~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 85 (362)
++-..++.++....-+|+.+|++.+.+..+++ +.++++...+...|++++. .|+++++
T Consensus 37 ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~----~~~~~~i~~~~~eik~l~~------------------eI~~~~~ 94 (265)
T COG3883 37 DSKLSELQKEKKNIQNEIESLDNQIEEIQSKI----DELQKEIDQSKAEIKKLQK------------------EIAELKE 94 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH------------------HHHHHHH
Confidence 33445566666666666666666665555554 3466666766666666543 3445666
Q ss_pred HHHHHhcccccchhhh-cCCCCCCCccceeeccc
Q 018016 86 DLQKAQCLIYDGDASA-FLPSKAQGAFVKMFIGP 118 (362)
Q Consensus 86 ~i~~~~~~~~~~dme~-~LP~k~nG~yL~liLG~ 118 (362)
+|.+|+..+.+ -+++ +-..... -|+.+|||.
T Consensus 95 ~I~~r~~~l~~-raRAmq~nG~~t-~Yidvil~S 126 (265)
T COG3883 95 NIVERQELLKK-RARAMQVNGTAT-SYIDVILNS 126 (265)
T ss_pred HHHHHHHHHHH-HHHHHHHcCChh-HHHHHHHcc
Confidence 67777666653 1222 2222122 389999885
No 6
>COG1422 Predicted membrane protein [Function unknown]
Probab=78.35 E-value=41 Score=32.23 Aligned_cols=40 Identities=15% Similarity=0.180 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHhhhhhhcCCCCCchhHHHHHHHHHHhhhhhhcc
Q 018016 176 AWLLFLYTGLALRENILRINGSDIRPWWIYHHYCAMLMALVSLTW 220 (362)
Q Consensus 176 flLvwyYcTLtiREsIL~vNGSrIkgWWv~HHY~S~~lsgv~LtW 220 (362)
.||-|.|-+..++-+ +-.+--||..|-.+.++..|.++.|
T Consensus 137 ~Wl~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~gW 176 (201)
T COG1422 137 AWLRWFVGTGGYLVS-----EPNMALPTLFHILYHTAVFGDFLGW 176 (201)
T ss_pred HHHHHHHccCccccc-----CccchhHHhhhhhhhccccccchHH
Confidence 567777777776622 2556779999999999999999998
No 7
>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=78.14 E-value=21 Score=33.10 Aligned_cols=81 Identities=23% Similarity=0.313 Sum_probs=51.8
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh--chhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHH
Q 018016 4 KRSNCEKVEEEEVERVVEEAKELQEAAATLINRT--SSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLAD 81 (362)
Q Consensus 4 ~~~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq--~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~ 81 (362)
++.+-.+.+.+++++.-++..+|++.....-... ..|-..+-+++.+|...++.++..+... ++-||+.++
T Consensus 66 ~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~-------~~~Dp~~i~ 138 (188)
T PF03962_consen 66 KRQNKLEKLQKEIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKY-------SENDPEKIE 138 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HhcCHHHHH
Confidence 3455577788888888888888888877663221 1233455666777777777666555532 123788888
Q ss_pred HHHHHHHHHh
Q 018016 82 KLEEDLQKAQ 91 (362)
Q Consensus 82 ~l~~~i~~~~ 91 (362)
++++++...+
T Consensus 139 ~~~~~~~~~~ 148 (188)
T PF03962_consen 139 KLKEEIKIAK 148 (188)
T ss_pred HHHHHHHHHH
Confidence 8887655443
No 8
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=77.68 E-value=7.7 Score=42.79 Aligned_cols=60 Identities=32% Similarity=0.366 Sum_probs=40.0
Q ss_pred hhhhhhHHHHHHHHHHHH-HHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhc
Q 018016 4 KRSNCEKVEEEEVERVVE-EAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHS 64 (362)
Q Consensus 4 ~~~~~~~~~~~e~~~~le-e~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~ 64 (362)
+|-.+|+.+.+|=+++.+ |-++-+..+....+|+ .-.+++++|.++|+..+++++.++..
T Consensus 503 ~R~~lEkQL~eErk~r~~ee~~aar~~~~~~~~r~-e~~e~~r~r~~~lE~E~~~lr~elk~ 563 (697)
T PF09726_consen 503 QRASLEKQLQEERKARKEEEEKAARALAQAQATRQ-ECAESCRQRRRQLESELKKLRRELKQ 563 (697)
T ss_pred HHHHHHHHHHHHHHHHhHHHHhhhhccccchhccc-hhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777777777654443 3333333334444554 56778999999999999999877664
No 9
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function.
Probab=70.50 E-value=1.1e+02 Score=29.94 Aligned_cols=39 Identities=8% Similarity=0.167 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHH
Q 018016 19 VVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRR 57 (362)
Q Consensus 19 ~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r 57 (362)
.++|++.-++...++++-.....+...|+.+.+.++|+.
T Consensus 44 e~~eLk~qnkli~K~l~ei~~~qd~reK~~~~I~ssL~e 82 (230)
T PF03904_consen 44 EIQELKRQNKLIIKYLSEIEEKQDIREKNLKEIKSSLEE 82 (230)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566777777777778777776677777777777777754
No 10
>PRK11637 AmiB activator; Provisional
Probab=70.20 E-value=19 Score=36.69 Aligned_cols=8 Identities=25% Similarity=0.953 Sum_probs=6.1
Q ss_pred hhcccccC
Q 018016 217 SLTWEIKG 224 (362)
Q Consensus 217 ~LtWp~~~ 224 (362)
.|.||++|
T Consensus 306 ~~~~Pv~g 313 (428)
T PRK11637 306 QAFWPVRG 313 (428)
T ss_pred CCccCCCC
Confidence 57899865
No 11
>PF01151 ELO: GNS1/SUR4 family; InterPro: IPR002076 This group of eukaryotic integral membrane proteins are evolutionary related, but exact function has not yet clearly been established. The proteins have from 290 to 435 amino acid residues. Structurally, they seem to be formed of three sections: a N-terminal region with two transmembrane domains, a central hydrophilic loop and a C-terminal region that contains from one to three transmembrane domains. Members of this family are involved in long chain fatty acid elongation systems that produce the 26-carbon precursors for ceramide and sphingolipid synthesis []. Predicted to be integral membrane proteins, in eukaryotes they are probably located on the endoplasmic reticulum. Yeast ELO3 (P40319 from SWISSPROT) affects plasma membrane H+-ATPase activity, and may act on a glucose-signalling pathway that controls the expression of several genes that are transcriptionally regulated by glucose such as PMA1 []. ; GO: 0016021 integral to membrane
Probab=69.85 E-value=97 Score=29.50 Aligned_cols=79 Identities=20% Similarity=0.287 Sum_probs=53.3
Q ss_pred CCCCchhHHHHHHHHHHhhhhhhcccccCCCcchhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHhCCCCccccc
Q 018016 196 GSDIRPWWIYHHYCAMLMALVSLTWEIKGQPNCAQKQRGVQLFLQWAMMQGVAMLLQNRYQRQRLYTRIALGKAKRMDVV 275 (362)
Q Consensus 196 GSrIkgWWv~HHY~S~~lsgv~LtWp~~~~p~~~~~~~f~~qFl~fs~yqs~VQ~lQ~~YQrgcLYrl~ALGe~~~MDvt 275 (362)
+.++--==+.||-.....+-..+.+. |++.. ....+.-++|..+=|-| |-+.|+|-|. ..
T Consensus 115 kK~lsfLHvYHH~~~~~~~w~~~~~~----~~~~~--------~~~~~~N~~VH~iMY~Y-----Y~l~a~g~~~-~~-- 174 (250)
T PF01151_consen 115 KKQLSFLHVYHHASTLLYCWISYKYG----PGGQI--------WFIAALNSFVHVIMYSY-----YFLSALGIRK-VP-- 174 (250)
T ss_pred CCCcchhHHhhhhhhhhhhhheeeec----cccch--------hHHHHHHHHHHHHHHHH-----HHHHhccccc-ch--
Confidence 44666666789998888887777773 22221 22347889999999999 9999999331 11
Q ss_pred ccCCcccccchHhHHHHHHHHHHHHHHHHH
Q 018016 276 WGETAGVDGQLWLLCPILFILQGFEAYVGL 305 (362)
Q Consensus 276 ~g~~~~v~ggLtfLlPfLf~g~~fQlYna~ 305 (362)
...=|.+-.+|+.|+-.+.
T Consensus 175 -----------~~~k~~IT~~Qi~QF~~~~ 193 (250)
T PF01151_consen 175 -----------RWWKKYITSLQIVQFVIGI 193 (250)
T ss_pred -----------hHHHHHHhHHhhhhhHHHH
Confidence 2224566677777776554
No 12
>KOG3312 consensus Predicted membrane protein [Function unknown]
Probab=68.60 E-value=18 Score=33.70 Aligned_cols=22 Identities=23% Similarity=0.558 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHhhhhhhcCC
Q 018016 175 QAWLLFLYTGLALRENILRING 196 (362)
Q Consensus 175 ~flLvwyYcTLtiREsIL~vNG 196 (362)
.|..+|.-||++||.||-..=|
T Consensus 142 SfiFLYiLCtmsiRqNlQK~LG 163 (186)
T KOG3312|consen 142 SFIFLYILCTMSIRQNLQKILG 163 (186)
T ss_pred HHHHHHHHHHHHHHHHHHHHhC
Confidence 4667899999999999977665
No 13
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=64.36 E-value=62 Score=28.78 Aligned_cols=44 Identities=18% Similarity=0.296 Sum_probs=30.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhh
Q 018016 9 EKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRS 60 (362)
Q Consensus 9 ~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~ 60 (362)
.++++.+.+.+.++..+-|++.+++.... +++.+++..|.+|..
T Consensus 58 iKevd~~~~~l~~~~~erqk~~~k~ae~L--------~kv~els~~L~~~~~ 101 (131)
T PF10158_consen 58 IKEVDQEIAKLLQQMVERQKRFAKFAEQL--------EKVNELSQQLSRCQS 101 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHH
Confidence 56666777777777777777777776654 257777777777763
No 14
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=61.88 E-value=58 Score=30.47 Aligned_cols=30 Identities=23% Similarity=0.254 Sum_probs=17.8
Q ss_pred HHHhhhchhhHHHHHHHHHHHHHHHHHhhh
Q 018016 32 TLINRTSSEEQSLRQRALSLDSNIRRLRSL 61 (362)
Q Consensus 32 s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~ 61 (362)
..+.+++.+.+..++++.++...+...+..
T Consensus 77 ~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~ 106 (302)
T PF10186_consen 77 ERIERLRKRIEQKRERLEELRESLEQRRSR 106 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555566666666666666666554433
No 15
>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=60.75 E-value=57 Score=26.13 Aligned_cols=47 Identities=23% Similarity=0.449 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhh
Q 018016 10 KVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRS 60 (362)
Q Consensus 10 ~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~ 60 (362)
.+=.+.|+++.+|-.+|+..-..+-+-++ .|+...+++...+..++.
T Consensus 8 ~EKDe~Ia~L~eEGekLSk~el~~~~~IK----KLr~~~~e~e~~~~~l~~ 54 (74)
T PF12329_consen 8 AEKDEQIAQLMEEGEKLSKKELKLNNTIK----KLRAKIKELEKQIKELKK 54 (74)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHhhHHHHH----HHHHHHHHHHHHHHHHHH
Confidence 34457788888888888877666655554 377777777777776653
No 16
>PRK11637 AmiB activator; Provisional
Probab=59.72 E-value=47 Score=33.89 Aligned_cols=9 Identities=0% Similarity=0.032 Sum_probs=6.2
Q ss_pred cceeecccc
Q 018016 111 FVKMFIGPI 119 (362)
Q Consensus 111 yL~liLG~v 119 (362)
||.++++.=
T Consensus 141 ~l~vLl~a~ 149 (428)
T PRK11637 141 GLQLILSGE 149 (428)
T ss_pred HHHHHhcCC
Confidence 677777753
No 17
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=58.05 E-value=65 Score=31.98 Aligned_cols=54 Identities=19% Similarity=0.183 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhh
Q 018016 10 KVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 10 ~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
..+.+.-+.+-+|+..|++.....-+--..|..+++.++.+++..|...+..+.
T Consensus 180 ~~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~ 233 (325)
T PF08317_consen 180 PKLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKELA 233 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444455556666666666543333345677777777777777765444433
No 18
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=57.17 E-value=20 Score=33.93 Aligned_cols=17 Identities=24% Similarity=0.376 Sum_probs=13.0
Q ss_pred eccccccccchhhhhhh
Q 018016 123 ASRKDVQLKVKEEYNSY 139 (362)
Q Consensus 123 ll~k~~kf~yKdEYEkF 139 (362)
+.++++|=..+++|++.
T Consensus 148 ~vtpedk~~v~~~y~~~ 164 (201)
T KOG4603|consen 148 HVTPEDKEQVYREYQKY 164 (201)
T ss_pred cCCHHHHHHHHHHHHHH
Confidence 34577888888999875
No 19
>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=56.70 E-value=1.1e+02 Score=27.17 Aligned_cols=21 Identities=24% Similarity=0.400 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 018016 12 EEEEVERVVEEAKELQEAAAT 32 (362)
Q Consensus 12 ~~~e~~~~lee~~~Lq~~~~s 32 (362)
+..|+.++-+|+..|+..+++
T Consensus 77 ld~ei~~L~~el~~l~~~~k~ 97 (169)
T PF07106_consen 77 LDAEIKELREELAELKKEVKS 97 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555444443
No 20
>PF05565 Sipho_Gp157: Siphovirus Gp157; InterPro: IPR008840 This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophage. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage [].
Probab=56.64 E-value=54 Score=29.57 Aligned_cols=53 Identities=21% Similarity=0.329 Sum_probs=30.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 7 NCEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 7 ~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
...+++.++.+.|++-+..+-....+-+.-.+.|...|+.|.+...+.+.+++
T Consensus 29 dtLe~i~~~~~~K~~~~~~~Ik~~ea~~e~~k~E~krL~~rkk~~e~~~~~Lk 81 (162)
T PF05565_consen 29 DTLESIEDEIEEKADNIAKVIKNLEADIEAIKAEIKRLQERKKSIENRIDRLK 81 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666666666666666665555555555555555555555555554444
No 21
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=53.17 E-value=19 Score=23.53 Aligned_cols=21 Identities=29% Similarity=0.430 Sum_probs=17.9
Q ss_pred hhHHHHHHHHHHHHHHHHHhh
Q 018016 40 EEQSLRQRALSLDSNIRRLRS 60 (362)
Q Consensus 40 e~~~l~k~~~~l~~~l~r~~~ 60 (362)
|.+.++.|+.+|+..|..|++
T Consensus 2 E~~rlr~rI~dLer~L~~C~~ 22 (23)
T PF04508_consen 2 EMNRLRNRISDLERQLSECRR 22 (23)
T ss_pred hHHHHHHHHHHHHHHHHHHhc
Confidence 567889999999999988863
No 22
>KOG4418 consensus Predicted membrane protein [Function unknown]
Probab=52.16 E-value=6.9 Score=40.89 Aligned_cols=25 Identities=24% Similarity=0.664 Sum_probs=22.5
Q ss_pred hhHHHHHHHHHHhhhhhhcccccCC
Q 018016 201 PWWIYHHYCAMLMALVSLTWEIKGQ 225 (362)
Q Consensus 201 gWWv~HHY~S~~lsgv~LtWp~~~~ 225 (362)
-||..||++-+..++.+.|||+.+.
T Consensus 15 ~w~rH~gF~iTyt~lLlkiwr~S~~ 39 (438)
T KOG4418|consen 15 TWWRHHGFIITYTYLLLKIWRTSGA 39 (438)
T ss_pred HHHHhhchhhhhhhhHhhcccccce
Confidence 4999999999999999999987654
No 23
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=50.73 E-value=69 Score=32.77 Aligned_cols=110 Identities=12% Similarity=0.128 Sum_probs=55.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHH
Q 018016 9 EKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQ 88 (362)
Q Consensus 9 ~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~ 88 (362)
.+++.++++ .+....+|++.-..++.| +++.-++.|.++++...-++-- ... -.++.+++++.+.
T Consensus 9 ~~~~~~~i~-~~~~~~~l~~~r~~~lgk-kg~l~~~~~~l~~l~~eer~~~---G~~----------~n~~k~~~~~~~~ 73 (339)
T PRK00488 9 VEEALAAIA-AASDLEALEALRVKYLGK-KGELTELLKGLGKLPPEERKEA---GAL----------INELKQAIEAALE 73 (339)
T ss_pred HHHHHHHHH-HCCCHHHHHHHHHHHhCC-chHHHHHHHHHhcCCHHHHHHH---HHH----------HHHHHHHHHHHHH
Confidence 334444443 222346677777778877 5655555555555544333211 100 1234455555666
Q ss_pred HHhcccccchhhhcCCCCCCCccceeecccceeeeccccccccchhhhhhhHHHHH
Q 018016 89 KAQCLIYDGDASAFLPSKAQGAFVKMFIGPINVRASRKDVQLKVKEEYNSYRDRTA 144 (362)
Q Consensus 89 ~~~~~~~~~dme~~LP~k~nG~yL~liLG~vNVtll~k~~kf~yKdEYEkFKl~~t 144 (362)
+++..+..-+.++.+.+. .+|||++.......=+.-..+++..+.
T Consensus 74 ~~~~~l~~~~~~~~l~~e-----------~~d~t~p~~~~~~G~~HPl~~~~~~Ir 118 (339)
T PRK00488 74 ERKEELEAAALNARLAAE-----------TIDVTLPGRRIELGSLHPITQTIEEIE 118 (339)
T ss_pred HHHHHHHHHHHHHhhhhc-----------cccccCCCCCCCCCCCCHHHHHHHHHH
Confidence 666666533333333321 257777664444444556666666653
No 24
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=50.39 E-value=57 Score=30.98 Aligned_cols=50 Identities=22% Similarity=0.335 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhch--hhHHHHHHHHHHHHHHHHHhhhhh
Q 018016 14 EEVERVVEEAKELQEAAATLINRTSS--EEQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 14 ~e~~~~lee~~~Lq~~~~s~i~rq~~--e~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
+..++.++++.++-..-+..++.+-- +--.+..|++.++...+|+..-+.
T Consensus 105 ~~~~~~l~~l~~~g~v~~~~~~~~DvT~~y~D~~arl~~l~~~~~rl~~ll~ 156 (262)
T PF14257_consen 105 DKFDSFLDELSELGKVTSRNISSEDVTEQYVDLEARLKNLEAEEERLLELLE 156 (262)
T ss_pred HHHHHHHHHHhccCceeeeeccccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555544333333322211 122355677777777777654333
No 25
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=50.35 E-value=93 Score=31.90 Aligned_cols=17 Identities=0% Similarity=0.204 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHhcccc
Q 018016 79 LADKLEEDLQKAQCLIY 95 (362)
Q Consensus 79 ~~~~l~~~i~~~~~~~~ 95 (362)
.+++++.+|+++...+.
T Consensus 309 eLe~vK~emeerg~~mt 325 (359)
T PF10498_consen 309 ELEQVKQEMEERGSSMT 325 (359)
T ss_pred HHHHHHHHHHHhcCCCC
Confidence 34555566666666655
No 26
>PRK09039 hypothetical protein; Validated
Probab=49.36 E-value=1e+02 Score=31.19 Aligned_cols=42 Identities=12% Similarity=0.243 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 18 RVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 18 ~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
+.|.+.+..-+....-+.+-+.|.++|++++..+...|.-.+
T Consensus 123 ~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae 164 (343)
T PRK09039 123 QELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASE 164 (343)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444445566666667777777776666665443
No 27
>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=47.80 E-value=63 Score=28.82 Aligned_cols=48 Identities=19% Similarity=0.246 Sum_probs=23.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHHhcccc
Q 018016 39 SEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKAQCLIY 95 (362)
Q Consensus 39 ~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~ 95 (362)
.|...|++.++.|...|+.+.+..+. ++ -.+.+.++++++.+....+.
T Consensus 86 ~el~~l~~~~k~l~~eL~~L~~~~t~----~e-----l~~~i~~l~~e~~~l~~kL~ 133 (169)
T PF07106_consen 86 EELAELKKEVKSLEAELASLSSEPTN----EE-----LREEIEELEEEIEELEEKLE 133 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCH----HH-----HHHHHHHHHHHHHHHHHHHH
Confidence 34444555666666666655432221 00 23345555555555555544
No 28
>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []. Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus
Probab=47.62 E-value=1.3e+02 Score=33.95 Aligned_cols=78 Identities=23% Similarity=0.204 Sum_probs=57.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHH
Q 018016 7 NCEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEED 86 (362)
Q Consensus 7 ~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 86 (362)
...+....|+.+.-+|++.|.+.....-.+++.+.+.++.+++.|...+.++.+... .+.+.+..|+.+
T Consensus 359 ~Ky~vav~Ev~~Lk~ELk~Lk~k~~~~~~~~~~ek~~~~~e~q~L~ekl~~lek~~r-----------e~qeri~~LE~E 427 (717)
T PF09730_consen 359 CKYKVAVSEVIQLKAELKALKSKYNELEERYKQEKDRLESEVQNLKEKLMSLEKSSR-----------EDQERISELEKE 427 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-----------hhHHHHHHHHHH
Confidence 345577788888999999998888888888887777778888888887777653222 256778888888
Q ss_pred HHHHhcccc
Q 018016 87 LQKAQCLIY 95 (362)
Q Consensus 87 i~~~~~~~~ 95 (362)
+......--
T Consensus 428 Lr~l~~~A~ 436 (717)
T PF09730_consen 428 LRALSKLAG 436 (717)
T ss_pred HHHHHHHHH
Confidence 777666554
No 29
>PF01923 Cob_adeno_trans: Cobalamin adenosyltransferase; InterPro: IPR002779 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents EutT- and PduO-type ATP:cob(I)alamin adenosyltransferases. PduO functions to convert cobalamin to AdoCbl for 1,2-propanediol degradation [], while EutT produces AdoCbl for ethanolamine utilisation []. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 2ZHY_A 2ZHZ_B 3KE5_C 3KE4_B 2AH6_C 1NOG_A 2IDX_C 3GAH_A 3CI1_A 3CI3_A ....
Probab=46.00 E-value=1.4e+02 Score=26.78 Aligned_cols=74 Identities=16% Similarity=0.175 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHHhccc
Q 018016 15 EVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKAQCLI 94 (362)
Q Consensus 15 e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~ 94 (362)
|+-+.++|+.+.=-.+.+.+. .+.+++.+..+...|-.+...+.... ++...++.++.++.+++.|.+.....
T Consensus 27 e~~G~lDEl~a~igla~~~~~-----~~~~~~~L~~iq~~L~~l~~~la~~~--~~~~~~i~~~~v~~Le~~i~~~~~~~ 99 (163)
T PF01923_consen 27 EAYGTLDELNAFIGLARSEIK-----EEELREILERIQNELFDLGAELATPE--EDEEPEITEEDVQELEEEIDEYSEEL 99 (163)
T ss_dssp HHHHHHHHHHHHHHHHHTHCT-----THHHHHHHHHHHHHHHHHHHHHHTTT--TSSSCS--HHHHHHHHHHHHHHHHHS
T ss_pred eeeeeHHHHHHHHHHHHHHcC-----chhHHHHHHHHHHHHHHHHHHHcCCC--cccccccCHHHHHHHHHHHHHHHhcC
Confidence 566788999888888888773 22344556666666666655555431 11113457788888888887766554
Q ss_pred c
Q 018016 95 Y 95 (362)
Q Consensus 95 ~ 95 (362)
.
T Consensus 100 ~ 100 (163)
T PF01923_consen 100 P 100 (163)
T ss_dssp -
T ss_pred C
Confidence 3
No 30
>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6. In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.
Probab=44.56 E-value=81 Score=33.19 Aligned_cols=90 Identities=18% Similarity=0.286 Sum_probs=52.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHH---------------HHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccc--
Q 018016 6 SNCEKVEEEEVERVVEEAKELQEAAAT---------------LINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISS-- 68 (362)
Q Consensus 6 ~~~~~~~~~e~~~~lee~~~Lq~~~~s---------------~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~-- 68 (362)
++|.+.+.++...++..+.+||+..-. .+....++.+.+.+.++.+...+.+.++.....-|+
T Consensus 205 ~~~k~~L~~~sd~Ll~kVdDLQD~VE~LRkDV~~RgvRp~~~qle~v~kdi~~a~~~L~~m~~~i~~~kp~WkKiWE~EL 284 (424)
T PF03915_consen 205 ESGKKKLSEESDRLLTKVDDLQDLVEDLRKDVVQRGVRPSPKQLETVAKDISRASKELKKMKEYIKTEKPIWKKIWESEL 284 (424)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHH
Confidence 578889999999999999999987543 222333444445555555555554444322211001
Q ss_pred -----cccccccCHHHHHHHHHHHHHHhcccc
Q 018016 69 -----TNNLLRFDSKLADKLEEDLQKAQCLIY 95 (362)
Q Consensus 69 -----~~~~~~~~~~~~~~l~~~i~~~~~~~~ 95 (362)
+........+++.+|+++++++...|.
T Consensus 285 ~~V~eEQqfL~~QedL~~DL~eDl~k~~etf~ 316 (424)
T PF03915_consen 285 QKVCEEQQFLKLQEDLLSDLKEDLKKASETFA 316 (424)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 111122245678888888888877665
No 31
>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=44.44 E-value=1.3e+02 Score=22.52 Aligned_cols=20 Identities=40% Similarity=0.479 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 018016 14 EEVERVVEEAKELQEAAATL 33 (362)
Q Consensus 14 ~e~~~~lee~~~Lq~~~~s~ 33 (362)
+|+...-+.+.++.+.+...
T Consensus 48 ~ei~~~~~~l~~l~~~~~~L 67 (105)
T PF00435_consen 48 EEIESRQERLESLNEQAQQL 67 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333
No 32
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=43.50 E-value=1e+02 Score=28.74 Aligned_cols=12 Identities=17% Similarity=0.260 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHH
Q 018016 241 WAMMQGVAMLLQ 252 (362)
Q Consensus 241 fs~yqs~VQ~lQ 252 (362)
|-+-..++|++.
T Consensus 262 ~lLn~nI~~L~~ 273 (302)
T PF10186_consen 262 FLLNKNIAQLCF 273 (302)
T ss_pred HHHHHHHHHHHH
Confidence 334556666665
No 33
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=43.40 E-value=1.9e+02 Score=25.72 Aligned_cols=16 Identities=25% Similarity=0.376 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHh
Q 018016 44 LRQRALSLDSNIRRLR 59 (362)
Q Consensus 44 l~k~~~~l~~~l~r~~ 59 (362)
|.+|+..++..|..+.
T Consensus 66 LsqRId~vd~klDe~~ 81 (126)
T PF07889_consen 66 LSQRIDRVDDKLDEQK 81 (126)
T ss_pred HHHHHHHHHhhHHHHH
Confidence 3356666666665553
No 34
>KOG0972 consensus Huntingtin interacting protein 1 (Hip1) interactor Hippi [Signal transduction mechanisms]
Probab=42.83 E-value=1e+02 Score=31.72 Aligned_cols=88 Identities=22% Similarity=0.298 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccc----ccccc-c---cC--HHH
Q 018016 10 KVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISS----TNNLL-R---FD--SKL 79 (362)
Q Consensus 10 ~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~----~~~~~-~---~~--~~~ 79 (362)
++|++-++-.---+.+|.+.....+.|+...+.+|-.+++.|-+.-++....++++.+. +.+.+ | ++ -..
T Consensus 237 ~nIe~~~~~~~~~Ldklh~eit~~LEkI~SREK~lNnqL~~l~q~fr~a~~~lse~~e~y~q~~~gv~~rT~~L~eVm~e 316 (384)
T KOG0972|consen 237 KNIEQKVGNVGPYLDKLHKEITKALEKIASREKSLNNQLASLMQKFRRATDTLSELREKYKQASVGVSSRTETLDEVMDE 316 (384)
T ss_pred HHHHHhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence 33444444444455666666666666666666666666666665555543332222100 00100 0 01 123
Q ss_pred HHHHHHHHHHHhcccccc
Q 018016 80 ADKLEEDLQKAQCLIYDG 97 (362)
Q Consensus 80 ~~~l~~~i~~~~~~~~~~ 97 (362)
+++++++|+++...+.||
T Consensus 317 ~E~~KqemEe~G~~msDG 334 (384)
T KOG0972|consen 317 IEQLKQEMEEQGAKMSDG 334 (384)
T ss_pred HHHHHHHHHHhcccccCC
Confidence 566667777777777643
No 35
>PF14147 Spore_YhaL: Sporulation protein YhaL
Probab=41.84 E-value=18 Score=27.87 Aligned_cols=20 Identities=20% Similarity=0.692 Sum_probs=18.3
Q ss_pred hhHHHHHHHHHHhhhhhhcc
Q 018016 201 PWWIYHHYCAMLMALVSLTW 220 (362)
Q Consensus 201 gWWv~HHY~S~~lsgv~LtW 220 (362)
||||+--++.++.||.|..=
T Consensus 2 PwWvY~vi~gI~~S~ym~v~ 21 (52)
T PF14147_consen 2 PWWVYFVIAGIIFSGYMAVK 21 (52)
T ss_pred cchHHHHHHHHHHHHHHHHH
Confidence 89999999999999999863
No 36
>PRK04406 hypothetical protein; Provisional
Probab=41.64 E-value=1.8e+02 Score=23.54 Aligned_cols=32 Identities=3% Similarity=0.101 Sum_probs=21.2
Q ss_pred HHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 28 EAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 28 ~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
+.-+.-+.+|.++.+.|+++++.|...++...
T Consensus 28 e~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 59 (75)
T PRK04406 28 EELNDALSQQQLLITKMQDQMKYVVGKVKNMD 59 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 33445566777777788888877777665543
No 37
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=41.35 E-value=1.7e+02 Score=32.83 Aligned_cols=26 Identities=15% Similarity=0.270 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHhcccccchhhhcCCC
Q 018016 78 KLADKLEEDLQKAQCLIYDGDASAFLPS 105 (362)
Q Consensus 78 ~~~~~l~~~i~~~~~~~~~~dme~~LP~ 105 (362)
..+.++++++.+.+..+. ++...+|.
T Consensus 357 ~~v~~ik~~l~~~~~~i~--~~a~~i~~ 382 (806)
T PF05478_consen 357 DVVPPIKRDLDSIGKQIR--SQAKQIPN 382 (806)
T ss_pred hhhHHHHHHHHHHHHHHH--HHHHHhHH
Confidence 345556666666666666 66666663
No 38
>PF13864 Enkurin: Calmodulin-binding
Probab=41.30 E-value=47 Score=27.47 Aligned_cols=17 Identities=18% Similarity=0.352 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q 018016 42 QSLRQRALSLDSNIRRL 58 (362)
Q Consensus 42 ~~l~k~~~~l~~~l~r~ 58 (362)
+.|+++-.++...++++
T Consensus 47 ~~Lk~~~~el~~ey~~l 63 (98)
T PF13864_consen 47 EGLKKNWDELNKEYQKL 63 (98)
T ss_pred HHHHHHHHHHHHHHHhC
Confidence 44555555555555443
No 39
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=41.17 E-value=50 Score=38.46 Aligned_cols=27 Identities=22% Similarity=0.410 Sum_probs=19.9
Q ss_pred HHHHHHHhhhhhhcCCCCCchhHHHHHHH
Q 018016 181 LYTGLALRENILRINGSDIRPWWIYHHYC 209 (362)
Q Consensus 181 yYcTLtiREsIL~vNGSrIkgWWv~HHY~ 209 (362)
.++...+.| .+-.|-.|+.||..+-|+
T Consensus 864 s~~~~~lLE--~~wsG~si~~WWrnQq~w 890 (1044)
T PLN02915 864 SIIATSVLE--LRWSGVSIEDLWRNEQFW 890 (1044)
T ss_pred HHHHHHHHH--HHhcCCCHHHHHhhhhHH
Confidence 455666777 335677799999999886
No 40
>KOG4054 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.08 E-value=2.5e+02 Score=26.64 Aligned_cols=64 Identities=19% Similarity=0.232 Sum_probs=41.7
Q ss_pred HHHHHHH----HHHHHhhhhhhHHHHHhCCCCcccccccCCcccccchHhHH-HHHHHHHHHHHHHHHHHHHhh
Q 018016 243 MMQGVAM----LLQNRYQRQRLYTRIALGKAKRMDVVWGETAGVDGQLWLLC-PILFILQGFEAYVGLLLLKTA 311 (362)
Q Consensus 243 ~yqs~VQ----~lQ~~YQrgcLYrl~ALGe~~~MDvt~g~~~~v~ggLtfLl-PfLf~g~~fQlYna~tL~~~s 311 (362)
+-.++|+ +.+.-||=-++.-+-+++|+++--.++++.++ +.+. -.-+-.|+||+|.+..|..-.
T Consensus 105 ~a~~lf~i~p~~~~~~~~f~~v~e~~t~~e~~~s~~~~~~~p~-----~y~~~~la~qVh~~~ly~~~~Lv~aw 173 (183)
T KOG4054|consen 105 IAMGLFMIFPLVYGVGGQFCAVRELATMEERNSSTTVKLEFPG-----WYLFLVLAVQVHGFQLYFSKKLVDAW 173 (183)
T ss_pred HHHHHHHHHHHHHhcccccHHHHHHHHHccccccceeeecccH-----HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3445666 55666666788888999999988333333332 2222 223567999999999997543
No 41
>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=41.06 E-value=1.1e+02 Score=25.02 Aligned_cols=15 Identities=27% Similarity=0.377 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHHH
Q 018016 43 SLRQRALSLDSNIRR 57 (362)
Q Consensus 43 ~l~k~~~~l~~~l~r 57 (362)
.|+.+-..+++.+..
T Consensus 47 ~lr~~rN~~sk~I~~ 61 (108)
T PF02403_consen 47 ELRAERNELSKEIGK 61 (108)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHhHHHHHHHH
Confidence 333333444444433
No 42
>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length. Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.
Probab=40.57 E-value=2.4e+02 Score=24.91 Aligned_cols=54 Identities=17% Similarity=0.251 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhc
Q 018016 11 VEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHS 64 (362)
Q Consensus 11 ~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~ 64 (362)
++.+|++..=|.++.=.+++.+|=..-....|.|.+|+..|.+++..++.+.++
T Consensus 12 ~l~~~v~~lRed~r~SEdrsa~SRa~mhrRlDElV~Rv~~lEs~~~~lk~dVse 65 (112)
T PF07439_consen 12 TLNAEVKELREDIRRSEDRSAASRASMHRRLDELVERVTTLESSVSTLKADVSE 65 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHhhHHh
Confidence 344444444444444444444444444455677777777777776666544443
No 43
>KOG3208 consensus SNARE protein GS28 [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.02 E-value=1.2e+02 Score=29.70 Aligned_cols=54 Identities=20% Similarity=0.251 Sum_probs=32.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHH---HH---hhhchhhHHHHHHHHHHHHHHHHHhh
Q 018016 7 NCEKVEEEEVERVVEEAKELQEAAAT---LI---NRTSSEEQSLRQRALSLDSNIRRLRS 60 (362)
Q Consensus 7 ~~~~~~~~e~~~~lee~~~Lq~~~~s---~i---~rq~~e~~~l~k~~~~l~~~l~r~~~ 60 (362)
--++.++.|++++||++.++-+..+. +- +......+.=+..|++.-+..+|.++
T Consensus 51 ~s~ks~~~eie~LLeql~~vndsm~~~~~s~a~~aa~~htL~RHrEILqdy~qef~rir~ 110 (231)
T KOG3208|consen 51 RSFKSLENEIEGLLEQLQDVNDSMNDCASSPANSAAVMHTLQRHREILQDYTQEFRRIRS 110 (231)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHhhccCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34788999999999999998877665 10 11111222223456666666655543
No 44
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=39.96 E-value=96 Score=34.01 Aligned_cols=55 Identities=15% Similarity=0.061 Sum_probs=30.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhh
Q 018016 9 EKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 9 ~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
...++.|+....+.+.-....+.....+++.|.+.|-+++..++.++..-.+.+.
T Consensus 462 l~~~~~el~~~~~~~~~~k~e~eee~~k~~~E~e~le~~l~~l~l~~~~~m~~a~ 516 (581)
T KOG0995|consen 462 LGEIELELKKAESKYELKKEEAEEEWKKCRKEIEKLEEELLNLKLVLNTSMKEAE 516 (581)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444445555556666667777777777777755443333
No 45
>PF15456 Uds1: Up-regulated During Septation
Probab=39.49 E-value=1.8e+02 Score=25.67 Aligned_cols=41 Identities=24% Similarity=0.314 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHH
Q 018016 13 EEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRL 58 (362)
Q Consensus 13 ~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~ 58 (362)
.|||+++=.|++.|.++|.+.-.+. +|..++.+...++.++
T Consensus 21 ~eEVe~LKkEl~~L~~R~~~lr~kl-----~le~k~RdAa~sl~~l 61 (124)
T PF15456_consen 21 FEEVEELKKELRSLDSRLEYLRRKL-----ALESKIRDAAHSLSRL 61 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHh
Confidence 4788888899999999998877665 3667777777777666
No 46
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=37.80 E-value=2.4e+02 Score=26.43 Aligned_cols=24 Identities=21% Similarity=0.420 Sum_probs=16.8
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhh
Q 018016 170 PVQLYQAWLLFLYTGLALRENILR 193 (362)
Q Consensus 170 ~~~~~~flLvwyYcTLtiREsIL~ 193 (362)
.++.+..+++|-+.-+.|=|+|+.
T Consensus 99 ~~~~~~~~~~~~~~~~~iid~~~l 122 (170)
T PF11241_consen 99 QVQLYVTLAMYVLLLLVIIDGVIL 122 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355677777777778888777643
No 47
>PLN02372 violaxanthin de-epoxidase
Probab=37.78 E-value=1.7e+02 Score=31.30 Aligned_cols=73 Identities=21% Similarity=0.281 Sum_probs=41.3
Q ss_pred hhHHHHHHH----HHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHH
Q 018016 8 CEKVEEEEV----ERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKL 83 (362)
Q Consensus 8 ~~~~~~~e~----~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l 83 (362)
-|+.|..|+ +++-+|++++.+...+...++ +|.+.+++|++.....-+.++ .++.+.++++
T Consensus 373 ~e~~i~~e~~~~~~e~~~~v~~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~f~~~ls----------kee~~~l~~~ 437 (455)
T PLN02372 373 GEKTIVKEARQIEEELEKEVEKLGKEEESLFKRV-----ALEEGLKELEQDEENFLKELS----------KEEKELLEKL 437 (455)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHhhhh----------HHHHHHHHHH
Confidence 355666663 333444556666666666663 566677777766644332222 1256667777
Q ss_pred HHHHHHHhcccc
Q 018016 84 EEDLQKAQCLIY 95 (362)
Q Consensus 84 ~~~i~~~~~~~~ 95 (362)
+.+..+-+..|.
T Consensus 438 ~~~~~~vek~f~ 449 (455)
T PLN02372 438 KMEASEVEKLFG 449 (455)
T ss_pred HHHHHHHHHHhh
Confidence 766666665553
No 48
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=37.67 E-value=2.8e+02 Score=27.62 Aligned_cols=52 Identities=21% Similarity=0.348 Sum_probs=29.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 8 CEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 8 ~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
.|+.+.+-++...+++.++++.+.+--+-...=+..+.|+-.+|+.+-||++
T Consensus 163 iE~~l~~ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~ 214 (267)
T PF10234_consen 163 IEKALKEAIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQ 214 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666667777777766655444333333334455555555555554
No 49
>PRK10884 SH3 domain-containing protein; Provisional
Probab=37.64 E-value=2.7e+02 Score=26.42 Aligned_cols=13 Identities=31% Similarity=0.401 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHHH
Q 018016 43 SLRQRALSLDSNI 55 (362)
Q Consensus 43 ~l~k~~~~l~~~l 55 (362)
.+++++.+.++.+
T Consensus 122 ~l~~~~~~~~~~~ 134 (206)
T PRK10884 122 EMQQKVAQSDSVI 134 (206)
T ss_pred HHHHHHHHHHHHH
Confidence 3344444433333
No 50
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=37.44 E-value=94 Score=24.23 Aligned_cols=30 Identities=17% Similarity=0.347 Sum_probs=19.9
Q ss_pred HHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 30 AATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 30 ~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
.++.++-.++|-+.+++.+..++.+++++.
T Consensus 12 ~~~~i~tvk~en~~i~~~ve~i~envk~ll 41 (55)
T PF05377_consen 12 IESSINTVKKENEEISESVEKIEENVKDLL 41 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566667777777777777777776653
No 51
>PF10392 COG5: Golgi transport complex subunit 5; InterPro: IPR019465 The conserved oligomeric Golgi (COG) complex is a peripheral membrane complex involved in intra-Golgi protein trafficking. Subunit 5 is located in the smaller, B lobe, together with subunits 6-8, and has been shown to bind subunits 1 and 7 [].
Probab=37.31 E-value=2.7e+02 Score=24.05 Aligned_cols=25 Identities=40% Similarity=0.367 Sum_probs=16.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhhh
Q 018016 39 SEEQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 39 ~e~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
...++++..+..|..+.+|++..+.
T Consensus 72 ~~l~~v~~~v~~L~~s~~RL~~eV~ 96 (132)
T PF10392_consen 72 SVLQAVRSSVESLQSSYERLRSEVI 96 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3556667777777777777775444
No 52
>PRK10884 SH3 domain-containing protein; Provisional
Probab=37.30 E-value=2.2e+02 Score=26.98 Aligned_cols=12 Identities=17% Similarity=0.158 Sum_probs=4.5
Q ss_pred HHHHHHHHHHHH
Q 018016 47 RALSLDSNIRRL 58 (362)
Q Consensus 47 ~~~~l~~~l~r~ 58 (362)
.+.+|+...+++
T Consensus 133 ~~~~L~~~n~~L 144 (206)
T PRK10884 133 VINGLKEENQKL 144 (206)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 53
>PRK07739 flgK flagellar hook-associated protein FlgK; Validated
Probab=37.12 E-value=3e+02 Score=29.15 Aligned_cols=51 Identities=18% Similarity=0.241 Sum_probs=44.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 9 EKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 9 ~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
-+.+...+.+..+++.++++.+...|.-...+.-.|-+++.+|...|.+.+
T Consensus 148 a~~La~~~n~~~~~L~~~~~~~~~~i~~~V~~iN~ll~~Ia~LN~~I~~~~ 198 (507)
T PRK07739 148 AQALAETFNYLSQSLTDIQNDLKSEIDVTVKEINSLASQISDLNKQIAKVE 198 (507)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 356778888899999999999999999999989999999999988887654
No 54
>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=36.94 E-value=1.7e+02 Score=28.49 Aligned_cols=79 Identities=16% Similarity=0.215 Sum_probs=44.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHH--HhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHH
Q 018016 6 SNCEKVEEEEVERVVEEAKELQEAAATL--INRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKL 83 (362)
Q Consensus 6 ~~~~~~~~~e~~~~lee~~~Lq~~~~s~--i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l 83 (362)
++|-+++..+++..-.|+.+|+..-... -+......+.|+..+.-..-++.+++.-+..+ .+ ..++|+.++.+
T Consensus 128 ~~~Id~L~~QiE~~E~E~E~L~~~~kKkk~~~~~~~r~~~l~~~ierhk~Hi~kLE~lLR~L---~N--~~l~~e~V~~i 202 (233)
T PF04065_consen 128 KDSIDELNRQIEQLEAEIESLSSQKKKKKKDSTKQERIEELESRIERHKFHIEKLELLLRLL---DN--DELDPEQVEDI 202 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccCccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHH---Hc--CCCCHHHHHHH
Confidence 3556666777776666777776543321 11112234455556666666666665333333 11 23689999998
Q ss_pred HHHHHH
Q 018016 84 EEDLQK 89 (362)
Q Consensus 84 ~~~i~~ 89 (362)
+++|.-
T Consensus 203 kediey 208 (233)
T PF04065_consen 203 KEDIEY 208 (233)
T ss_pred HHHHHH
Confidence 888753
No 55
>PF04899 MbeD_MobD: MbeD/MobD like ; InterPro: IPR006983 The MbeD and MobD proteins are plasmid encoded, and are involved in the plasmid mobilisation and transfer in the presence of conjugative plasmids [].
Probab=36.67 E-value=2.3e+02 Score=22.89 Aligned_cols=51 Identities=22% Similarity=0.253 Sum_probs=29.4
Q ss_pred hhhhhHHHHHHHHHHHHHH----HHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 5 RSNCEKVEEEEVERVVEEA----KELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 5 ~~~~~~~~~~e~~~~lee~----~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
--||.+++.++..+.+.+- .+||..++. .+.+..+|+.+...|..-+.++.
T Consensus 8 Ll~ale~Lq~~y~~q~~~Wq~sy~~Lq~~~~~----t~~~~a~L~~qv~~Ls~qv~~Ls 62 (70)
T PF04899_consen 8 LLSALEELQQSYEKQQQEWQSSYADLQHMFEQ----TSQENAALSEQVNNLSQQVQRLS 62 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----hHHHHHHHHHHHHHHHHHHHHHH
Confidence 3477777777766665543 344444433 33445566777776666666554
No 56
>PLN03217 transcription factor ATBS1; Provisional
Probab=36.64 E-value=43 Score=28.49 Aligned_cols=35 Identities=29% Similarity=0.319 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHH
Q 018016 19 VVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSN 54 (362)
Q Consensus 19 ~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~ 54 (362)
+.-..+-||+.|+ ||..-..|.|.|..|+.+|-.+
T Consensus 44 k~saskvLqEtC~-YIrsLhrEvDdLSerLs~LL~t 78 (93)
T PLN03217 44 KVSAARVLQDTCN-YIRNLHREVDDLSERLSELLAN 78 (93)
T ss_pred cccHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHhc
Confidence 3334455888884 8888888899999988888544
No 57
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=36.57 E-value=1.7e+02 Score=31.45 Aligned_cols=16 Identities=13% Similarity=0.104 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHhcccc
Q 018016 80 ADKLEEDLQKAQCLIY 95 (362)
Q Consensus 80 ~~~l~~~i~~~~~~~~ 95 (362)
+...+++|.+.+.++.
T Consensus 430 ~~s~d~~I~dLqEQlr 445 (493)
T KOG0804|consen 430 LGSKDEKITDLQEQLR 445 (493)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344444444444444
No 58
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=35.93 E-value=1.1e+02 Score=23.87 Aligned_cols=39 Identities=13% Similarity=0.325 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHH
Q 018016 14 EEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIR 56 (362)
Q Consensus 14 ~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~ 56 (362)
+.+...++++.+|+....+... . ...+++++..+...++
T Consensus 17 ~~i~~~~~~l~~l~~~~l~~~~---~-d~~~~~el~~l~~~i~ 55 (103)
T PF00804_consen 17 DKIKEKLNELRKLHKKILSSPD---Q-DSELKRELDELTDEIK 55 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHTSSS---H-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhcCCCC---c-chhHHHHHHHHHHHHH
Confidence 4455566666666655555544 1 1344455555544443
No 59
>PLN02189 cellulose synthase
Probab=35.49 E-value=71 Score=37.28 Aligned_cols=29 Identities=24% Similarity=0.582 Sum_probs=23.0
Q ss_pred HHHHHHHHHhhhhhhcCCCCCchhHHHHHHH
Q 018016 179 LFLYTGLALRENILRINGSDIRPWWIYHHYC 209 (362)
Q Consensus 179 vwyYcTLtiREsIL~vNGSrIkgWWv~HHY~ 209 (362)
+-.+++..+=| ++--|-.|+.||..+-++
T Consensus 860 f~~~~~~~llE--~~~sG~s~~~WWrnQq~w 888 (1040)
T PLN02189 860 FMSIFATGILE--LRWSGVSIEEWWRNEQFW 888 (1040)
T ss_pred HHHHHHHHHHH--HHhcCCcHHHHhhhhhHH
Confidence 34677888888 555688899999998876
No 60
>PF15450 DUF4631: Domain of unknown function (DUF4631)
Probab=35.22 E-value=1.7e+02 Score=31.85 Aligned_cols=63 Identities=14% Similarity=0.151 Sum_probs=48.2
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccc
Q 018016 4 KRSNCEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSI 66 (362)
Q Consensus 4 ~~~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~ 66 (362)
|-+++..+.++....-+|.+..+|+...+++.+...-.|+|-+.+.+++...-..++++...+
T Consensus 384 rL~e~~~e~~~~~r~~lekl~~~q~e~~~~l~~v~eKVd~LpqqI~~vs~Kc~~~Ksd~d~kI 446 (531)
T PF15450_consen 384 RLSEAKNEWESDERKSLEKLDQWQNEMEKHLKEVQEKVDSLPQQIEEVSDKCDLHKSDSDTKI 446 (531)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhhhhhc
Confidence 445666677777888888899999999999988888888888888888777666565555544
No 61
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=34.73 E-value=1.8e+02 Score=26.71 Aligned_cols=49 Identities=20% Similarity=0.317 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhh
Q 018016 11 VEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRS 60 (362)
Q Consensus 11 ~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~ 60 (362)
+...+....|+++...|+.. .-|.+.+.|.++|-.+++++...|..|++
T Consensus 9 ~~d~~L~~~L~~l~~hq~~~-~~I~~L~~e~~~ld~~i~~~~~~L~~~~~ 57 (188)
T PF10018_consen 9 EADDELSSALEELQEHQENQ-ARIQQLRAEIEELDEQIRDILKQLKEARK 57 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555666666666666653 33444455555555555555555555443
No 62
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=34.21 E-value=3.3e+02 Score=27.19 Aligned_cols=18 Identities=17% Similarity=0.514 Sum_probs=14.5
Q ss_pred ceeecccceeeecccccc
Q 018016 112 VKMFIGPINVRASRKDVQ 129 (362)
Q Consensus 112 L~liLG~vNVtll~k~~k 129 (362)
..++||.+-+.++++++-
T Consensus 244 ~~i~lg~~~iaapsREda 261 (290)
T COG4026 244 VEILLGTVYIAAPSREDA 261 (290)
T ss_pred cceeeeeeeeecCchHHH
Confidence 457899999999888664
No 63
>PF10925 DUF2680: Protein of unknown function (DUF2680); InterPro: IPR024485 Members in this family of proteins are annotated as YckD however currently no function is known.
Probab=34.21 E-value=1.4e+02 Score=23.11 Aligned_cols=48 Identities=17% Similarity=0.293 Sum_probs=34.0
Q ss_pred hhchhhHHHHHHHHHHHHHH--HHHhhhhhccccccccccccCHHHHHHHHHHHHHHhcccc
Q 018016 36 RTSSEEQSLRQRALSLDSNI--RRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKAQCLIY 95 (362)
Q Consensus 36 rq~~e~~~l~k~~~~l~~~l--~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~ 95 (362)
-|+.|.++|.+.+-+++..+ +..+ .. .+.++-++.+.+.|+++.....
T Consensus 4 ~Qk~el~~l~~qm~e~kK~~idk~Ve---~G---------~iTqeqAd~ik~~id~~~~~~~ 53 (59)
T PF10925_consen 4 QQKKELKALYKQMLELKKQIIDKYVE---AG---------VITQEQADAIKKHIDQRQEYMQ 53 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---cC---------CCCHHHHHHHHHHHHHHHHHHH
Confidence 46677788888888887777 3333 11 1478888889999988877664
No 64
>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=34.20 E-value=1.2e+02 Score=33.91 Aligned_cols=13 Identities=15% Similarity=0.061 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHH
Q 018016 43 SLRQRALSLDSNI 55 (362)
Q Consensus 43 ~l~k~~~~l~~~l 55 (362)
.|.+|++.+...+
T Consensus 611 ~L~~R~~~vl~~l 623 (717)
T PF10168_consen 611 KLMKRVDRVLQLL 623 (717)
T ss_pred HHHHHHHHHHHHH
Confidence 4555555554444
No 65
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=33.29 E-value=2.5e+02 Score=22.42 Aligned_cols=7 Identities=29% Similarity=0.449 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 018016 83 LEEDLQK 89 (362)
Q Consensus 83 l~~~i~~ 89 (362)
++..+.+
T Consensus 84 l~~~l~~ 90 (127)
T smart00502 84 LTQKQEK 90 (127)
T ss_pred HHHHHHH
Confidence 3333333
No 66
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=33.14 E-value=2e+02 Score=29.77 Aligned_cols=63 Identities=24% Similarity=0.277 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHhh--hch-hhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHHhcccc
Q 018016 19 VVEEAKELQEAAATLINR--TSS-EEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKAQCLIY 95 (362)
Q Consensus 19 ~lee~~~Lq~~~~s~i~r--q~~-e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~ 95 (362)
.++++++-++.++..|.+ ..+ +.++|.++.++++..|+.++..+ .++-+++.+.+....|...
T Consensus 43 ~~~~lr~~rn~~sk~i~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~--------------~~~~~~~~~~~~~iPN~~~ 108 (425)
T PRK05431 43 ELEELQAERNALSKEIGQAKRKGEDAEALIAEVKELKEEIKALEAEL--------------DELEAELEELLLRIPNLPH 108 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHhCCCCCC
Confidence 344555555556666654 111 33456666666666666554222 2233445555566666665
No 67
>PF05781 MRVI1: MRVI1 protein; InterPro: IPR008677 This family consists of mammalian MRVI1 proteins which are related to the lymphoid-restricted membrane protein (JAW1) and the IP3 receptor associated cGMP kinase substrates A and B (IRAGA and IRAGB). The function of MRVI1 is unknown although mutations in the Mrvi1 gene induces myeloid leukaemia by altering the expression of a gene important for myeloid cell growth and/or differentiation so it has been speculated that Mrvi1 is a tumour suppressor gene []. IRAG is very similar in sequence to MRVI1 and is an essential NO/cGKI-dependent regulator of IP3-induced calcium release. Activation of cGKI decreases IP3-stimulated elevations in intracellular calcium, induces smooth muscle relaxation and contributes to the antiproliferative and pro-apoptotic effects of NO/cGMP []. Jaw1 is a member of a class of proteins with COOH-terminal hydrophobic membrane anchors and is structurally similar to proteins involved in vesicle targeting and fusion. This suggests that the function and/or the structure of the ER in lymphocytes may be modified by lymphoid-restricted resident ER proteins [].
Probab=33.06 E-value=1e+02 Score=33.53 Aligned_cols=55 Identities=16% Similarity=0.093 Sum_probs=43.5
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 4 KRSNCEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 4 ~~~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
.|+-+|+++..|+++..+-+..|...|..-... +.-.+.|++.+..|.....|.-
T Consensus 221 ~RdlaEeNl~kEi~~~~~~l~~l~~lc~~d~e~-~e~~~kl~~~l~~l~~~~~rvs 275 (538)
T PF05781_consen 221 SRDLAEENLKKEIENCLKLLESLAPLCWEDNES-REIIQKLQKSLDVLHQCATRVS 275 (538)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccchhhHHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 478899999999999999999999999864333 3346777888887777776663
No 68
>KOG4593 consensus Mitotic checkpoint protein MAD1 [Cell cycle control, cell division, chromosome partitioning]
Probab=32.15 E-value=2.5e+02 Score=31.66 Aligned_cols=58 Identities=19% Similarity=0.077 Sum_probs=47.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhh
Q 018016 6 SNCEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 6 ~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
.-|+.+...|...++.|+..|....-+++++...+..-...+++.+...+.+.++.+.
T Consensus 139 ~~k~~el~~e~~~k~ae~~~lr~k~dss~s~~q~e~~~~~~~~~~~~s~l~~~eke~~ 196 (716)
T KOG4593|consen 139 LKKELELLREKEDKLAELGTLRNKLDSSLSELQWEVMLQEMRAKRLHSELQNEEKELD 196 (716)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467788888899999999999999999999888888888888888888877665544
No 69
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=31.96 E-value=3.5e+02 Score=23.70 Aligned_cols=44 Identities=23% Similarity=0.379 Sum_probs=24.1
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHH
Q 018016 5 RSNCEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRA 48 (362)
Q Consensus 5 ~~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~ 48 (362)
|+.--++-.++++..-+++.+++.....-++.-+.|.+.+...+
T Consensus 39 R~~~I~~~l~~A~~~~~ea~~~~~e~e~~l~~Ar~eA~~~~~~a 82 (141)
T PRK08476 39 RNASIKNDLEKVKTNSSDVSEIEHEIETILKNAREEANKIRQKA 82 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333334455555666666666666666666665555554443
No 70
>PF09748 Med10: Transcription factor subunit Med10 of Mediator complex; InterPro: IPR019145 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. Med10 is one of the protein subunits of the Mediator complex, tethered to Med14 (Rgr1) protein. Med10 specifically mediates basal-level HIS4 transcription via Gcn4. In addition, there is a putative requirement for Med10 in Bas2-mediated transcription []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=31.88 E-value=2.4e+02 Score=24.71 Aligned_cols=49 Identities=20% Similarity=0.333 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhh
Q 018016 13 EEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 13 ~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
++.++++++.+.++....+.+-... -.++|.+++..+..+|+++.+...
T Consensus 2 e~~l~~~i~~l~el~~~v~d~~~~~--s~~~L~~ki~~lv~~L~~l~~~~~ 50 (128)
T PF09748_consen 2 EQQLEDVIQSLYELGVIVSDFQGPP--SQEALNQKINQLVTSLQELDKLAQ 50 (128)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCCCC--cHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5678889999999999988886222 246899999999999988864433
No 71
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=31.88 E-value=3e+02 Score=26.08 Aligned_cols=12 Identities=17% Similarity=0.282 Sum_probs=6.3
Q ss_pred HHHHHHHHHHhh
Q 018016 178 LLFLYTGLALRE 189 (362)
Q Consensus 178 LvwyYcTLtiRE 189 (362)
+.+||-|+.=++
T Consensus 192 ~~l~~~t~Dg~~ 203 (251)
T PF11932_consen 192 VALYYQTLDGSQ 203 (251)
T ss_pred hhheeECCCccc
Confidence 455666654333
No 72
>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices. ; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.
Probab=31.58 E-value=3.7e+02 Score=23.91 Aligned_cols=36 Identities=36% Similarity=0.346 Sum_probs=23.9
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 018016 3 EKRSNCEKVEEEEVERVVEEAKELQEAAATLINRTS 38 (362)
Q Consensus 3 ~~~~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~ 38 (362)
+-|.|-++...+.++..++++++++..+...+.+..
T Consensus 44 ~~r~~~~k~~ae~a~~~L~~~~~~~~~i~e~~~kl~ 79 (126)
T PF09403_consen 44 EARYNEEKQEAEAAEAELAELKELYAEIEEKIEKLK 79 (126)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 345555666667777777777777777777666653
No 73
>PF00880 Nebulin: Nebulin repeat; InterPro: IPR000900 Nebulin is a 600-800kDa protein found in the thin filaments of striated vertebrate muscle. It is presumed to play a role in binding and stabilising F-actin [], essentially by providing a template for actin polymerisation (i.e., acting as an "actin zipper"). The amino acid sequence shows a uniform repeating pattern along its length, a repeated 35-residue motif constituting up to 97% of the polypeptide. Analysis of individual repeats reveals a progressive N- to C-terminal divergence, coupled with an increasing alpha-helix propensity. This correlates with a higher binding affinity for F-actin at the C terminus. Thus, it is postulated that once the repeats have formed an initiation complex, the whole length of the nebulin molecule may then associate in a highly co-operative process with the thin filament, in a manner similar to the closing of a zipper [].
Probab=31.28 E-value=16 Score=23.73 Aligned_cols=13 Identities=31% Similarity=0.588 Sum_probs=11.0
Q ss_pred ccccchhhhhhhH
Q 018016 128 VQLKVKEEYNSYR 140 (362)
Q Consensus 128 ~kf~yKdEYEkFK 140 (362)
+..+||++||+.|
T Consensus 16 Sd~~Yk~~~ek~k 28 (29)
T PF00880_consen 16 SDVKYKEDYEKSK 28 (29)
T ss_pred HHHHHHHHHHHcc
Confidence 4678999999976
No 74
>smart00806 AIP3 Actin interacting protein 3. Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.
Probab=31.09 E-value=1.3e+02 Score=31.83 Aligned_cols=90 Identities=18% Similarity=0.299 Sum_probs=52.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHH---------------HhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccc--
Q 018016 6 SNCEKVEEEEVERVVEEAKELQEAAATL---------------INRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISS-- 68 (362)
Q Consensus 6 ~~~~~~~~~e~~~~lee~~~Lq~~~~s~---------------i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~-- 68 (362)
++|-+.+.++.+.++..+.+||+..-.. .....+|.+...++++.+...|++-++.-+..=|+
T Consensus 209 e~~k~kL~~~Sd~lltkVDDLQD~vE~LRkDV~~RgVRp~~~qLe~v~kdi~~a~keL~~m~~~i~~eKP~WkKiWE~EL 288 (426)
T smart00806 209 ESSKKKLSEDSDSLLTKVDDLQDIIEALRKDVAQRGVRPSKKQLETVQKELETARKELKKMEEYIDIEKPIWKKIWEAEL 288 (426)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHH
Confidence 5678899999999999999999976432 22223344444444444444444332211100000
Q ss_pred -----cccccccCHHHHHHHHHHHHHHhcccc
Q 018016 69 -----TNNLLRFDSKLADKLEEDLQKAQCLIY 95 (362)
Q Consensus 69 -----~~~~~~~~~~~~~~l~~~i~~~~~~~~ 95 (362)
+-+...+..+++.+|+++++++...|.
T Consensus 289 ~~VcEEqqfL~lQedL~~DL~dDL~ka~eTf~ 320 (426)
T smart00806 289 DKVCEEQQFLTLQEDLIADLKEDLEKAEETFD 320 (426)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 111223345678889999988888776
No 75
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=30.92 E-value=4.4e+02 Score=25.30 Aligned_cols=50 Identities=24% Similarity=0.324 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 10 KVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 10 ~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
+++++-...+++++..-....+..+.+.+.|...++..+.+|...|.+++
T Consensus 187 ~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~ 236 (312)
T PF00038_consen 187 EELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLR 236 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccc
Confidence 34455555666676666666666666666666666666666666665554
No 76
>PTZ00251 fatty acid elongase; Provisional
Probab=30.88 E-value=5.3e+02 Score=25.42 Aligned_cols=78 Identities=21% Similarity=0.214 Sum_probs=49.2
Q ss_pred CCchhHHHHHHHHHHhhhhhhcccccCCCcchhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHhCCCCccccccc
Q 018016 198 DIRPWWIYHHYCAMLMALVSLTWEIKGQPNCAQKQRGVQLFLQWAMMQGVAMLLQNRYQRQRLYTRIALGKAKRMDVVWG 277 (362)
Q Consensus 198 rIkgWWv~HHY~S~~lsgv~LtWp~~~~p~~~~~~~f~~qFl~fs~yqs~VQ~lQ~~YQrgcLYrl~ALGe~~~MDvt~g 277 (362)
++--==+.||-...+.+=.. + . + .-.-+..+.++-++|..+=|.| |-+.|+|.+.. +.
T Consensus 138 qvsFLHvYHH~~~~~~~w~~--~---~-~-------g~~~~~~~~~lNs~VH~iMY~Y-----Y~lsa~g~~~~--~~-- 195 (272)
T PTZ00251 138 KLPFLSWFHHVTIFLYAWMS--Y---Q-Q-------GSSIWICAAAMNYFVHSIMYFY-----FALSEAGFKKL--VK-- 195 (272)
T ss_pred CchHHHHHHHHHHHHHHHHH--H---h-C-------CCcHHHHHHHHHHHHHHHHHHH-----HHHHhcCCchh--hh--
Confidence 55555567897654333321 2 1 1 1122444678999999999999 99999997632 11
Q ss_pred CCcccccchHhHHHHHHHHHHHHHHHHHHH
Q 018016 278 ETAGVDGQLWLLCPILFILQGFEAYVGLLL 307 (362)
Q Consensus 278 ~~~~v~ggLtfLlPfLf~g~~fQlYna~tL 307 (362)
. .-+.+-..|+.|+..+...
T Consensus 196 ---------~-~kk~IT~lQi~Qfv~~~~~ 215 (272)
T PTZ00251 196 ---------P-FAMYITLLQITQMVGGLFV 215 (272)
T ss_pred ---------H-HHHHHHHHHHHHHHHHHHH
Confidence 0 1267778888888766433
No 77
>PHA02562 46 endonuclease subunit; Provisional
Probab=30.86 E-value=2.9e+02 Score=28.58 Aligned_cols=13 Identities=31% Similarity=0.406 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHhc
Q 018016 80 ADKLEEDLQKAQC 92 (362)
Q Consensus 80 ~~~l~~~i~~~~~ 92 (362)
++++.+++.+...
T Consensus 381 l~~l~~~l~~~~~ 393 (562)
T PHA02562 381 LAKLQDELDKIVK 393 (562)
T ss_pred HHHHHHHHHHHHH
Confidence 3333334433333
No 78
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=30.09 E-value=3.8e+02 Score=26.62 Aligned_cols=52 Identities=17% Similarity=0.171 Sum_probs=21.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 8 CEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 8 ~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
-.+++.+....-++.+.+=.+.....+.+...-...++.+...|...+.+++
T Consensus 146 ll~gl~~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk 197 (325)
T PF08317_consen 146 LLEGLKEGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLK 197 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444333333333333333333333333444444444544444443
No 79
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=30.05 E-value=2.1e+02 Score=29.05 Aligned_cols=25 Identities=32% Similarity=0.462 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 018016 12 EEEEVERVVEEAKELQEAAATLINR 36 (362)
Q Consensus 12 ~~~e~~~~lee~~~Lq~~~~s~i~r 36 (362)
+.+|.+++.||+...|+-.++..++
T Consensus 218 LseELa~k~Ee~~rQQEEIt~Llsq 242 (306)
T PF04849_consen 218 LSEELARKTEENRRQQEEITSLLSQ 242 (306)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444444333
No 80
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=29.97 E-value=2.5e+02 Score=29.77 Aligned_cols=31 Identities=23% Similarity=0.344 Sum_probs=18.7
Q ss_pred HHHhhhchhhHHHHHHHHHHHHHHHHHhhhh
Q 018016 32 TLINRTSSEEQSLRQRALSLDSNIRRLRSLL 62 (362)
Q Consensus 32 s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~ 62 (362)
+.|..+.++.+.|++.+++++..+.+.+.++
T Consensus 52 ~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql 82 (420)
T COG4942 52 KKIREQQDQRAKLEKQLKSLETEIASLEAQL 82 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555556666777777776666655443
No 81
>KOG1341 consensus Na+/K+ transporter [Inorganic ion transport and metabolism]
Probab=29.13 E-value=1.5e+02 Score=33.39 Aligned_cols=45 Identities=29% Similarity=0.547 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhhcCCCCCchhHHHHHHHHHHh-hhhhhc
Q 018016 173 LYQAWLLFLYTGLALRENILRINGSDIRPWWIYHHYCAMLM-ALVSLT 219 (362)
Q Consensus 173 ~~~flLvwyYcTLtiREsIL~vNGSrIkgWWv~HHY~S~~l-sgv~Lt 219 (362)
.|-.+++|-|..-|=||=| +.+|=+ +|||-+---.|+|- .|..||
T Consensus 478 afV~llv~i~t~k~~~eVv-~~~gis-p~ww~~FTs~S~F~nlGfslt 523 (854)
T KOG1341|consen 478 AFVTLLVFIYTAKTSREVV-RSKGIS-PGWWAFFTSMSAFNNLGFSLT 523 (854)
T ss_pred HHHHHHHHhhcchhhhhhc-ccCCCC-cchhhhhhHHHHHhccCcccC
Confidence 3556799999999999954 555543 68999887777775 344444
No 82
>cd07597 BAR_SNX8 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 8. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX8 and the yeast counterpart Mvp1p are involved in sorting and delivery of late-Golgi proteins, such as carboxypeptidase Y, to vacuoles. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=28.80 E-value=2.6e+02 Score=26.79 Aligned_cols=75 Identities=17% Similarity=0.107 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHH
Q 018016 10 KVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQK 89 (362)
Q Consensus 10 ~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ 89 (362)
+.+.|..+..++=+.++++.|--+=.-.....+.|.+|+...+..+.+++.. + + ..++.+++++..|.+
T Consensus 116 ~~vlE~Lk~~~d~l~S~r~lf~R~~k~~~~~i~~l~~ri~~~~~kl~~l~~~-~-------~---~~~~e~ekl~~~i~~ 184 (246)
T cd07597 116 DGVLEKLKLQLDLLVSLRDLFERHEKLSLNNIQRLLKRIELNKKKLESLRAK-P-------D---VKGAEVDKLEASIIK 184 (246)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhhcC-C-------C---CchhHHHHHHHHHhc
Confidence 3444455555555555666665444333445677888888888887776521 1 1 145677788887766
Q ss_pred Hhcccc
Q 018016 90 AQCLIY 95 (362)
Q Consensus 90 ~~~~~~ 95 (362)
-+..+.
T Consensus 185 d~~~i~ 190 (246)
T cd07597 185 DKESIA 190 (246)
T ss_pred cHHHHH
Confidence 665555
No 83
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=28.60 E-value=1.3e+02 Score=33.64 Aligned_cols=29 Identities=10% Similarity=0.186 Sum_probs=14.7
Q ss_pred HHHHHHHhhhchhhHHHHHHHHHHHHHHH
Q 018016 28 EAAATLINRTSSEEQSLRQRALSLDSNIR 56 (362)
Q Consensus 28 ~~~~s~i~rq~~e~~~l~k~~~~l~~~l~ 56 (362)
..+.+.++..++|-|.|+.|+..|...-+
T Consensus 456 r~lk~eL~qlr~ene~Lq~Kl~~L~~aRq 484 (697)
T PF09726_consen 456 RSLKSELSQLRQENEQLQNKLQNLVQARQ 484 (697)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555555555554443
No 84
>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]
Probab=28.04 E-value=2.9e+02 Score=30.82 Aligned_cols=72 Identities=11% Similarity=0.249 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHHh
Q 018016 12 EEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKAQ 91 (362)
Q Consensus 12 ~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~ 91 (362)
-+.|+.++.+++..+|.....-+...+.+..+|-+.++..+..|..++..+.+ ....+++++++.-.+
T Consensus 290 kd~~i~~L~~di~~~~~S~~~e~e~~~~qI~~le~~l~~~~~~leel~~kL~~------------~sDYeeIK~ELsiLk 357 (629)
T KOG0963|consen 290 KDSEIAQLSNDIERLEASLVEEREKHKAQISALEKELKAKISELEELKEKLNS------------RSDYEEIKKELSILK 357 (629)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh------------hccHHHHHHHHHHHH
Confidence 45678888889999998888888888888888888888888888877654442 344566777766666
Q ss_pred cccc
Q 018016 92 CLIY 95 (362)
Q Consensus 92 ~~~~ 95 (362)
.+=|
T Consensus 358 ~ief 361 (629)
T KOG0963|consen 358 AIEF 361 (629)
T ss_pred Hhhc
Confidence 6555
No 85
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=28.00 E-value=3.5e+02 Score=27.22 Aligned_cols=13 Identities=15% Similarity=0.358 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHhc
Q 018016 80 ADKLEEDLQKAQC 92 (362)
Q Consensus 80 ~~~l~~~i~~~~~ 92 (362)
.+++.++|.+++.
T Consensus 248 k~e~~~~I~~ae~ 260 (312)
T smart00787 248 KSELNTEIAEAEK 260 (312)
T ss_pred HHHHHHHHHHHHH
Confidence 3344444444443
No 86
>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=27.77 E-value=5.2e+02 Score=24.42 Aligned_cols=48 Identities=21% Similarity=0.283 Sum_probs=28.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHH
Q 018016 7 NCEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRL 58 (362)
Q Consensus 7 ~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~ 58 (362)
+...++++++..+-+.+++|+.....+..| ++.+..+++.|...|+..
T Consensus 141 ~ki~eLE~el~~~~~~lk~lE~~~~~~~~r----e~~~e~~i~~L~~~lkea 188 (237)
T PF00261_consen 141 SKIKELEEELKSVGNNLKSLEASEEKASER----EDEYEEKIRDLEEKLKEA 188 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHhhhhhhhhhHH----HHHHHHHHHHHHHHHHHH
Confidence 344566666666666666666666655544 244556666666666544
No 87
>KOG1237 consensus H+/oligopeptide symporter [Amino acid transport and metabolism]
Probab=27.72 E-value=1.6e+02 Score=31.75 Aligned_cols=58 Identities=17% Similarity=0.194 Sum_probs=50.6
Q ss_pred chHhHHHHHHHHHHHHHHHHHHHHHhhccCCCCchhHHHHHHHHHHHHHhHHHHHHHH
Q 018016 285 QLWLLCPILFILQGFEAYVGLLLLKTALVGVVPEWQVSFCGALLVLMAVGNFINTVQT 342 (362)
Q Consensus 285 gLtfLlPfLf~g~~fQlYna~tL~~~s~~~~~~EWQV~~~~llflil~~GNf~TTl~v 342 (362)
....++|=.++.-+-+++.+.+..+..+..--.+-+-.+-|+-++.+++||++.++.+
T Consensus 457 Si~W~iPQyvLig~~Evf~~vg~lEFfY~qaP~sMkS~~~al~l~t~a~G~~lss~Lv 514 (571)
T KOG1237|consen 457 SILWQIPQYVLLGAGEVFTSVGGLEFFYSQAPESMKSVATALWLLTVAVGNYLSSVLV 514 (571)
T ss_pred eHHHHHHHHHHHHHHHHHHhhhhHHHhHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577899999999999999999999988765556888999999999999999988766
No 88
>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=27.58 E-value=4.2e+02 Score=23.24 Aligned_cols=20 Identities=20% Similarity=0.282 Sum_probs=14.5
Q ss_pred CHHHHHHHHHHHHHHhcccc
Q 018016 76 DSKLADKLEEDLQKAQCLIY 95 (362)
Q Consensus 76 ~~~~~~~l~~~i~~~~~~~~ 95 (362)
..+.+++++.++..-+.+++
T Consensus 94 K~E~veEL~~Dv~DlK~myr 113 (120)
T PF12325_consen 94 KSEEVEELRADVQDLKEMYR 113 (120)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 46678888888877766654
No 89
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=27.24 E-value=3.1e+02 Score=32.42 Aligned_cols=37 Identities=19% Similarity=0.228 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHH
Q 018016 19 VVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNI 55 (362)
Q Consensus 19 ~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l 55 (362)
..++++..+..|.++|.+.+.+.+.+.|.+.++....
T Consensus 352 e~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~ 388 (1074)
T KOG0250|consen 352 EVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQT 388 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555666677777777777777776666655
No 90
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=27.20 E-value=82 Score=28.25 Aligned_cols=39 Identities=15% Similarity=0.220 Sum_probs=30.0
Q ss_pred ccCCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 018016 312 LVGVVPEWQVSFCGALLVLMAVGNFINTVQTLMTKSRFK 350 (362)
Q Consensus 312 ~~~~~~EWQV~~~~llflil~~GNf~TTl~vv~~K~~~~ 350 (362)
+.++...|-..++++.|+++.+|=|+-...+..++-|++
T Consensus 28 R~ED~tpWNysiL~Ls~vvlvi~~~LLgrsi~ANRnrK~ 66 (125)
T PF15048_consen 28 RVEDATPWNYSILALSFVVLVISFFLLGRSIQANRNRKM 66 (125)
T ss_pred ecCCCCCcchHHHHHHHHHHHHHHHHHHHHhHhcccccc
Confidence 456677899999999999999998877776665544433
No 91
>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []. Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.
Probab=26.76 E-value=5e+02 Score=23.81 Aligned_cols=19 Identities=11% Similarity=0.081 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHhcccc
Q 018016 77 SKLADKLEEDLQKAQCLIY 95 (362)
Q Consensus 77 ~~~~~~l~~~i~~~~~~~~ 95 (362)
.+.+++++.+|.+-+..+.
T Consensus 162 ~g~I~~L~~~I~~~~~~I~ 180 (184)
T PF05791_consen 162 NGDIPQLQKQIENLNEEIK 180 (184)
T ss_dssp T--HHHHHHHHHHHTGGG-
T ss_pred cCCHHHHHHHHHHHHHHHH
Confidence 4567888888888777664
No 92
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=26.64 E-value=4.2e+02 Score=26.69 Aligned_cols=19 Identities=16% Similarity=0.057 Sum_probs=9.5
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 018016 40 EEQSLRQRALSLDSNIRRL 58 (362)
Q Consensus 40 e~~~l~k~~~~l~~~l~r~ 58 (362)
|...++.++++.+..+...
T Consensus 205 eL~~lk~~l~~~~~ei~~~ 223 (312)
T smart00787 205 ELDRAKEKLKKLLQEIMIK 223 (312)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4445555555555555433
No 93
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=26.27 E-value=4.7e+02 Score=28.08 Aligned_cols=26 Identities=23% Similarity=0.452 Sum_probs=14.9
Q ss_pred ccceeeeccccccccchhhhhhhHHHH
Q 018016 117 GPINVRASRKDVQLKVKEEYNSYRDRT 143 (362)
Q Consensus 117 G~vNVtll~k~~kf~yKdEYEkFKl~~ 143 (362)
||||+....++-. .-.+.|+.+...+
T Consensus 467 g~VNm~ai~~e~~-e~~~~~~~L~~q~ 492 (569)
T PRK04778 467 KPINMEAVNRLLE-EATEDVETLEEET 492 (569)
T ss_pred CCCCHHHHHHHHH-HHHHHHHHHHHHH
Confidence 7889887753221 2345566665554
No 94
>PHA02562 46 endonuclease subunit; Provisional
Probab=26.18 E-value=3.9e+02 Score=27.67 Aligned_cols=33 Identities=21% Similarity=0.250 Sum_probs=20.7
Q ss_pred HHhhhchhhHHHHHHHHHHHHHHHHHhhhhhcc
Q 018016 33 LINRTSSEEQSLRQRALSLDSNIRRLRSLLHSS 65 (362)
Q Consensus 33 ~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~ 65 (362)
.+...+.+.+.+.+....+...+.+++..+..+
T Consensus 214 ~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l 246 (562)
T PHA02562 214 NIARKQNKYDELVEEAKTIKAEIEELTDELLNL 246 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455566667777777777777776655544
No 95
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=25.97 E-value=3.1e+02 Score=24.43 Aligned_cols=43 Identities=19% Similarity=0.307 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhh
Q 018016 16 VERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRS 60 (362)
Q Consensus 16 ~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~ 60 (362)
++-|+|++-+|=+.+..+--| .|.+.|+.++.+|.....+++.
T Consensus 46 IDNKIeQAMDLVKtHLmfAVR--EEVe~Lk~qI~eL~er~~~Le~ 88 (123)
T KOG4797|consen 46 IDNKIEQAMDLVKTHLMFAVR--EEVEVLKEQIRELEERNSALER 88 (123)
T ss_pred echHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence 566899999999888888766 5899999999999988877753
No 96
>PF02076 STE3: Pheromone A receptor; InterPro: IPR001499 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). Little is known about the structure and function of the mating factor receptors, STE2 and STE3. It is believed, however, that they are integral membrane proteins that may be involved in the response to mating factors on the cell membrane [, , ]. The amino acid sequences of both receptors contain high proportions of hydrophobic residues grouped into 7 domains, in a manner reminiscent of the rhodopsins and other receptors believed to interact with G-proteins. However, while a similar 3D framework has been proposed to account for this, there is no significant sequence similarity either between STE2 and STE3, or between these and the rhodopsin-type family: the receptors thus bear their own unique '7TM' signatures. The STE3 gene of Saccharomyces cerevisiae (Baker's yeast) is the cell-surface receptor that binds the 13-residue lipopeptide a-factor. Several related fungal pheromone receptor sequences are known: these include pheromone B alpha 1 and B alpha 3, and pheromone B beta 1 receptors from Schizophyllum commune; pheromone receptor 1 from Ustilago hordei; and pheromone receptors 1 and 2 from Ustilago maydis. Members of the family share about 20% sequence identity.; GO: 0004932 mating-type factor pheromone receptor activity, 0007186 G-protein coupled receptor protein signaling pathway, 0016021 integral to membrane
Probab=25.95 E-value=2.4e+02 Score=27.78 Aligned_cols=57 Identities=28% Similarity=0.517 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHhhc---------CCCCCchHH-----HHHHH------HHHHHHHHHHh---------hhhhhc
Q 018016 144 ALLFLLFPSTLLILRSWIWD---------GCLPAFPVQ-----LYQAW------LLFLYTGLALR---------ENILRI 194 (362)
Q Consensus 144 t~i~ll~~~~ll~~~~~~~d---------~~~~~~~~~-----~~~fl------LvwyYcTLtiR---------EsIL~v 194 (362)
..+.+.+|++...++..+.. ||.+..... ++..| ..-+||.||+| +.+|..
T Consensus 108 ~~i~~g~Pil~m~l~yivQ~~Rf~I~e~~GC~~~~~~s~~~~~l~~iwp~i~~lia~vYa~lt~~~f~~rr~~f~~~l~~ 187 (283)
T PF02076_consen 108 LLICFGIPILQMALHYIVQGHRFDIVEDVGCYPAIYPSWPTIFLFIIWPPIFSLIAAVYAILTLRRFIRRRKQFRDILSS 187 (283)
T ss_pred HHHHHHHHHHHHHHHHHhcccceeEecccCCccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45777888877666554432 676543211 11111 12399999998 455555
Q ss_pred CCCCCc
Q 018016 195 NGSDIR 200 (362)
Q Consensus 195 NGSrIk 200 (362)
++|.+.
T Consensus 188 s~s~l~ 193 (283)
T PF02076_consen 188 SNSGLN 193 (283)
T ss_pred CCCccc
Confidence 555443
No 97
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=25.73 E-value=5.8e+02 Score=29.84 Aligned_cols=27 Identities=11% Similarity=-0.037 Sum_probs=16.4
Q ss_pred hHHHHHHHH------HHhhhhhhcccccCCCcc
Q 018016 202 WWIYHHYCA------MLMALVSLTWEIKGQPNC 228 (362)
Q Consensus 202 WWv~HHY~S------~~lsgv~LtWp~~~~p~~ 228 (362)
||..=|.+| ++||.++-+|...|.|=|
T Consensus 1060 ~~~~l~~LSGGEKsLtAlAllFAi~~~~PaPf~ 1092 (1163)
T COG1196 1060 KLQSLSLLSGGEKSLTALALLFAIQKYRPAPFY 1092 (1163)
T ss_pred CccchhhcCCcHHHHHHHHHHHHHHhhCCCCee
Confidence 444555665 566777777776666633
No 98
>COG5608 LEA14-like dessication related protein [Defense mechanisms]
Probab=25.52 E-value=19 Score=33.35 Aligned_cols=15 Identities=47% Similarity=1.300 Sum_probs=13.3
Q ss_pred hhcCCCCCchhHHHH
Q 018016 192 LRINGSDIRPWWIYH 206 (362)
Q Consensus 192 L~vNGSrIkgWWv~H 206 (362)
++.|-|+||.||+.|
T Consensus 105 l~~d~~~~ke~w~~h 119 (161)
T COG5608 105 LRLDNSKIKEWWVTH 119 (161)
T ss_pred EEEehHHHHHHHHHH
Confidence 567899999999988
No 99
>PF12534 DUF3733: Leucine-rich repeat containing protein 8 ; InterPro: IPR021040 This entry represents a conserved domain, approximately 60 amino acids in length, found in a number of eukaryotic protein; mostly as a duplicated N-terminal domain in proteins having a C-terminal leucine-rich repeat domain (PF00560 from PFAM). Each domain contains two completely conserved residues (W and Y) that may be functionally important. Most of the proteins in this entry are annotated as leucine-rich repeat containing protein 8, but beyond that there is little known about their function.
Probab=25.51 E-value=57 Score=26.11 Aligned_cols=21 Identities=29% Similarity=1.094 Sum_probs=16.4
Q ss_pred CchhH-HHHHHHHHHhhhhhhc
Q 018016 199 IRPWW-IYHHYCAMLMALVSLT 219 (362)
Q Consensus 199 IkgWW-v~HHY~S~~lsgv~Lt 219 (362)
-|+|| ++..|++.++..|...
T Consensus 20 lkPWwdvf~~YL~~~mlmi~v~ 41 (65)
T PF12534_consen 20 LKPWWDVFFDYLVLLMLMIFVF 41 (65)
T ss_pred HccHHHHHHHHHHHHHHHHHHH
Confidence 48999 6888998888777653
No 100
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=25.46 E-value=6.1e+02 Score=24.36 Aligned_cols=52 Identities=13% Similarity=0.280 Sum_probs=30.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhh------------chhhHHHHHHHHHHHHHHHHHhh
Q 018016 9 EKVEEEEVERVVEEAKELQEAAATLINRT------------SSEEQSLRQRALSLDSNIRRLRS 60 (362)
Q Consensus 9 ~~~~~~e~~~~lee~~~Lq~~~~s~i~rq------------~~e~~~l~k~~~~l~~~l~r~~~ 60 (362)
+..+.+++...-|.+.+||+.|++-=+-. ..+.++|++.++.....|+..+.
T Consensus 81 l~~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~k~ 144 (201)
T KOG4603|consen 81 LQVLDGKIVALTEKVQSLQQTCSYVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERLKNIKA 144 (201)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566677777777888888887543322 23344555555555555555553
No 101
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=25.39 E-value=2.5e+02 Score=28.20 Aligned_cols=85 Identities=19% Similarity=0.340 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHHhc
Q 018016 13 EEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKAQC 92 (362)
Q Consensus 13 ~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~ 92 (362)
+|-+.+.++-+..|++.+..--+|.......-++|+..+...+..|+. .+++|+.. +++-.
T Consensus 17 eEti~qi~~aL~~L~~v~~diF~rI~~Rv~~~~~~l~~i~~Ri~~~qa------------------Ki~~l~gs-~kAi~ 77 (297)
T PF11945_consen 17 EETILQIADALEYLDKVSNDIFSRISARVERNRERLQAIQQRIEVAQA------------------KIEKLQGS-KKAIT 77 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------HHHHHhCC-CccEE
Confidence 355667777777777777777777766566666777777766666542 23334332 44555
Q ss_pred ccccchhhhcCCC-CCCCccceeecccce
Q 018016 93 LIYDGDASAFLPS-KAQGAFVKMFIGPIN 120 (362)
Q Consensus 93 ~~~~~dme~~LP~-k~nG~yL~liLG~vN 120 (362)
++. .+..|. ....-|-.++=|+.+
T Consensus 78 vfs----~akyP~~~~~~~y~siF~~~~~ 102 (297)
T PF11945_consen 78 VFS----PAKYPAPDRLQDYSSIFTGATD 102 (297)
T ss_pred EeC----cccCCCccccccccccccCcCc
Confidence 554 233354 224557777776544
No 102
>PF07412 Geminin: Geminin; InterPro: IPR022786 This family contains the eukaryotic protein geminin (approximately 200 residues long). Geminin inhibits DNA replication by preventing the incorporation of MCM complex into prereplication complex, and is degraded during the mitotic phase of the cell cycle. It has been proposed that geminin inhibits DNA replication during S, G2, and M phases and that geminin destruction at the metaphase-anaphase transition permits replication in the succeeding cell cycle []. ; GO: 0008156 negative regulation of DNA replication; PDB: 1T6F_B 2LP0_B 1UII_B 2WVR_B 2ZXX_B.
Probab=25.34 E-value=2.4e+02 Score=27.09 Aligned_cols=57 Identities=26% Similarity=0.293 Sum_probs=42.4
Q ss_pred chhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 2 DEKRSNCEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 2 ~~~~~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
.|+|.-++++..+|-+.+.+++..+++.+...-.. -.+...|..+++.+..-|.++.
T Consensus 113 AE~RR~AL~eaL~ENe~Lh~~ie~~~eEi~~lk~e-n~~L~elae~~~~la~~ie~l~ 169 (200)
T PF07412_consen 113 AEERRKALEEALEENEKLHKEIEQKDEEIAKLKEE-NEELKELAEHVQYLAEVIERLT 169 (200)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHh
Confidence 46788888999999998888888888887655433 3455667777777777777764
No 103
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=25.18 E-value=4.5e+02 Score=27.06 Aligned_cols=59 Identities=8% Similarity=0.196 Sum_probs=27.1
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchh---hHHHHHHHHHHHHHHHHHhhhhh
Q 018016 5 RSNCEKVEEEEVERVVEEAKELQEAAATLINRTSSE---EQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 5 ~~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e---~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
-++=|+-|-...+..+.|+++.|+.-+..-.+.+.- ...+.+.+..+...|.+.|..+.
T Consensus 257 I~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~eme 318 (359)
T PF10498_consen 257 IESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEISEELEQVKQEME 318 (359)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455555566666666665555544433332221 12233344444455544443333
No 104
>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=25.18 E-value=4.9e+02 Score=23.20 Aligned_cols=47 Identities=26% Similarity=0.360 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 12 EEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 12 ~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
++.+++..-+.+...++....+-.+ ....++|.+|+..|...|.+..
T Consensus 47 lE~eld~~~~~l~~~k~~lee~~~~-~~~~E~l~rriq~LEeele~ae 93 (143)
T PF12718_consen 47 LEEELDKLEEQLKEAKEKLEESEKR-KSNAEQLNRRIQLLEEELEEAE 93 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHH-HHhHHHHHhhHHHHHHHHHHHH
Confidence 4445555555555555554444443 2334456666666666555443
No 105
>PF10063 DUF2301: Uncharacterized integral membrane protein (DUF2301); InterPro: IPR019275 This family contains uncharacterised integral membrane proteins.
Probab=24.83 E-value=94 Score=28.09 Aligned_cols=38 Identities=18% Similarity=0.247 Sum_probs=26.8
Q ss_pred chHhHHHHHHHHHHHHHHHHHHHHHhhccCCCCchhHHHH--HHHHHHHHHh
Q 018016 285 QLWLLCPILFILQGFEAYVGLLLLKTALVGVVPEWQVSFC--GALLVLMAVG 334 (362)
Q Consensus 285 gLtfLlPfLf~g~~fQlYna~tL~~~s~~~~~~EWQV~~~--~llflil~~G 334 (362)
++++++|.+.+||.+.+-+.-.. +...+ +++|+++++-
T Consensus 78 ~l~~llp~llLghl~g~~~~~~~------------~~ll~~~~~L~~i~A~r 117 (135)
T PF10063_consen 78 LLTFLLPLLLLGHLFGLLPASVE------------LALLGIWALLFLIFAIR 117 (135)
T ss_pred hHHHHHHHHHHHHHHCCCcHHHH------------HHHHHHHHHHHHHHHHH
Confidence 79999999999998876444332 23333 7888887753
No 106
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=24.77 E-value=2.1e+02 Score=30.75 Aligned_cols=37 Identities=19% Similarity=0.282 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHH
Q 018016 21 EEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRR 57 (362)
Q Consensus 21 ee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r 57 (362)
.|+++-+....+...++++|-+.|++|-.+++..|+.
T Consensus 69 k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~ 105 (472)
T TIGR03752 69 KELRKRLAKLISENEALKAENERLQKREQSIDQQIQQ 105 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence 3444444555566677888888999999999988854
No 107
>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=24.72 E-value=2.6e+02 Score=31.32 Aligned_cols=39 Identities=23% Similarity=0.309 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHH
Q 018016 13 EEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNI 55 (362)
Q Consensus 13 ~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l 55 (362)
..+.++.++++.++++.-.+.-. ..+.|++|+.+.....
T Consensus 571 k~~~e~Ql~~L~~l~e~~~~l~~----~ae~LaeR~e~a~d~Q 609 (717)
T PF10168_consen 571 KQQKEQQLKELQELQEERKSLRE----SAEKLAERYEEAKDKQ 609 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
Confidence 34445555566666665333322 2345666666655544
No 108
>PF07739 TipAS: TipAS antibiotic-recognition domain; InterPro: IPR012925 TipAL is a bacterial transcriptional regulator of the MerR family. The tipA gene can be expressed as a long form, TipAL, and a short form, TipAS, which constitutes the C-terminal part of TipAL. TipAS forms the antibiotic-recognition domain []. This domain, which has an alpha-helical globin-like fold, is also found at the C terminus of other MerR family transcription factors, including Mta, a central regulator of multidrug resistance in Bacillus subtilis [], and SkgA from Caulobacter crescentus []. ; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1NY9_A 3HH0_A 3QAO_A.
Probab=24.62 E-value=1.7e+02 Score=23.69 Aligned_cols=75 Identities=21% Similarity=0.134 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHH
Q 018016 10 KVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQK 89 (362)
Q Consensus 10 ~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ 89 (362)
+++.+.+++ +.+++.+++.. ..++ .+.+.+.++..+|...|..+...-. ++ +.+.++++-....+
T Consensus 4 ~e~~e~yg~--~~~~~~~~~~~-~l~~--~~~~~~~~~~~~l~~~l~~~~~~g~-------~p---~s~evq~l~~~~~~ 68 (118)
T PF07739_consen 4 EEARERYGD--EAYAESEERLA-SLSK--EEWQELQKEWDELFAELAALMEEGV-------DP---DSPEVQELAERWME 68 (118)
T ss_dssp -HHHHH----------------------------TTHHHHHHHHHHHHHHHHT---------T---T-HHHHHHHHHHHH
T ss_pred HHHHHHHCh--HHHHHHHHHHH-cCCH--HHHHHHHHHHHHHHHHHHHHHHcCC-------Cc---CCHHHHHHHHHHHH
Confidence 456666776 66666665552 2222 3456677888888888888763211 11 44556666555555
Q ss_pred Hhcccccchh
Q 018016 90 AQCLIYDGDA 99 (362)
Q Consensus 90 ~~~~~~~~dm 99 (362)
.-+.++++|.
T Consensus 69 ~~~~~~~~~~ 78 (118)
T PF07739_consen 69 LINQFTGGDP 78 (118)
T ss_dssp HHHHSS---H
T ss_pred HHHHHhCCCH
Confidence 5445664443
No 109
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=24.56 E-value=3.2e+02 Score=29.07 Aligned_cols=27 Identities=30% Similarity=0.292 Sum_probs=11.9
Q ss_pred HHHHHHHHHHhhhchhhHHHHHHHHHH
Q 018016 25 ELQEAAATLINRTSSEEQSLRQRALSL 51 (362)
Q Consensus 25 ~Lq~~~~s~i~rq~~e~~~l~k~~~~l 51 (362)
+||..|+..-..--.|--+|+|+=..|
T Consensus 335 klqaec~rQ~qlaLEEKaaLrkerd~L 361 (442)
T PF06637_consen 335 KLQAECARQTQLALEEKAALRKERDSL 361 (442)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566666554443333333333333333
No 110
>PRK11546 zraP zinc resistance protein; Provisional
Probab=24.27 E-value=2.9e+02 Score=25.15 Aligned_cols=59 Identities=15% Similarity=0.190 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHHhcccc
Q 018016 22 EAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKAQCLIY 95 (362)
Q Consensus 22 e~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~ 95 (362)
+-.++|+....+.++ .+.||+++..-...|+.+. .+ +.+ |++.|.++.++|...+..+.
T Consensus 48 QQa~~q~I~~~f~~~----t~~LRqqL~aKr~ELnALl---~~-----~~p---D~~kI~aL~kEI~~Lr~kL~ 106 (143)
T PRK11546 48 QQAAWQKIHNDFYAQ----TSALRQQLVSKRYEYNALL---TA-----NPP---DSSKINAVAKEMENLRQSLD 106 (143)
T ss_pred HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH---cC-----CCC---CHHHHHHHHHHHHHHHHHHH
Confidence 334444444444443 4567777777777776543 11 122 56667777766666655554
No 111
>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=24.06 E-value=3.5e+02 Score=24.15 Aligned_cols=66 Identities=21% Similarity=0.319 Sum_probs=0.0
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHH
Q 018016 3 EKRSNCEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADK 82 (362)
Q Consensus 3 ~~~~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (362)
+....-.+.+.++.+...+|.++++ ..+.+.+.+.+.++..+..+..+..++.....+ ..+..++
T Consensus 126 ~~~~~~l~~l~~~~~~~~~e~~~l~----~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----------~~~l~~~ 190 (191)
T PF04156_consen 126 KSVEERLDSLDESIKELEKEIRELQ----KELQDSREEVQELRSQLERLQENLQQLEEKIQE-----------LQELLEQ 190 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHhh
Q ss_pred H
Q 018016 83 L 83 (362)
Q Consensus 83 l 83 (362)
+
T Consensus 191 ~ 191 (191)
T PF04156_consen 191 L 191 (191)
T ss_pred C
No 112
>PF04048 Sec8_exocyst: Sec8 exocyst complex component specific domain; InterPro: IPR007191 Sec8 is a component of the exocyst complex involved in the docking of exocystic vesicles with a fusion site on the plasma membrane. The exocyst complex is composed of Sec3, Sec5, Sec6, Sec8, Sec10, Sec15, Exo70 and Exo84.; GO: 0006904 vesicle docking involved in exocytosis, 0015031 protein transport, 0000145 exocyst
Probab=23.70 E-value=5e+02 Score=22.76 Aligned_cols=27 Identities=22% Similarity=0.270 Sum_probs=19.1
Q ss_pred chhhHHHHHHHHHHHHHHHHHhhhhhc
Q 018016 38 SSEEQSLRQRALSLDSNIRRLRSLLHS 64 (362)
Q Consensus 38 ~~e~~~l~k~~~~l~~~l~r~~~~~~~ 64 (362)
......-++++..++..|..|+..+..
T Consensus 78 ~~~i~~sq~~i~~lK~~L~~ak~~L~~ 104 (142)
T PF04048_consen 78 LSSISESQERIRELKESLQEAKSLLGC 104 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344555667888888888888866654
No 113
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=23.70 E-value=3.7e+02 Score=28.86 Aligned_cols=56 Identities=7% Similarity=0.110 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHhhhhhcc
Q 018016 10 KVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLRSLLHSS 65 (362)
Q Consensus 10 ~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~ 65 (362)
+.=.+.++..+.+..+-|++.++....++.|.++++.++......|.|++.....+
T Consensus 12 dqr~~~~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~e~~~l 67 (459)
T KOG0288|consen 12 DQRLIDLNTELAQCEKAQSRLSAQLVILRAESRAIKAKLQEKELELNRLQEENTQL 67 (459)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666677778888888888888889999999999999999999987665543
No 114
>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.70 E-value=4.8e+02 Score=26.63 Aligned_cols=47 Identities=23% Similarity=0.374 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHHhcccccchhhhcCC
Q 018016 45 RQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKAQCLIYDGDASAFLP 104 (362)
Q Consensus 45 ~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~dme~~LP 104 (362)
.+..+++...|.+++..+.. ....+++++.++...+..+. .|..+-|
T Consensus 153 ~~qq~Els~~L~~l~~~~~~-----------~s~~~~k~esei~~Ik~lvl--n~~~f~~ 199 (300)
T KOG2629|consen 153 ATQQSELSRALASLKNTLVQ-----------LSRNIEKLESEINTIKQLVL--NMSNFAP 199 (300)
T ss_pred HHHHHHHHHHHHHHHHHHHH-----------hhhhHHHHHHHHHHHHHHHh--cccccCC
Confidence 33444666666555432222 12335566777766666666 6766664
No 115
>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6. In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.
Probab=23.53 E-value=99 Score=32.55 Aligned_cols=59 Identities=15% Similarity=0.218 Sum_probs=41.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHHhcccccchhhhcCCC
Q 018016 39 SEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKAQCLIYDGDASAFLPS 105 (362)
Q Consensus 39 ~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~dme~~LP~ 105 (362)
.+.+.|=.++.+|...+..++++...- -.|..+..++.+..+|.++..-+. +|+.++|.
T Consensus 213 ~~sd~Ll~kVdDLQD~VE~LRkDV~~R------gvRp~~~qle~v~kdi~~a~~~L~--~m~~~i~~ 271 (424)
T PF03915_consen 213 EESDRLLTKVDDLQDLVEDLRKDVVQR------GVRPSPKQLETVAKDISRASKELK--KMKEYIKT 271 (424)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHH--HHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHc------CCcCCHHHHHHHHHHHHHHHHHHH--HHHHHHHH
Confidence 455667777777777777777665432 123367788888999999999998 89999885
No 116
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=23.33 E-value=6.2e+02 Score=23.70 Aligned_cols=74 Identities=16% Similarity=0.296 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhch----hhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHH
Q 018016 10 KVEEEEVERVVEEAKELQEAAATLINRTSS----EEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEE 85 (362)
Q Consensus 10 ~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~----e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 85 (362)
+.+.+....+-+|-.+|.++..+.|.-..+ ...-|.++++.+...+..-..++.+.... +.++|++++.+..
T Consensus 110 evL~qr~~kle~ErdeL~~kf~~~i~evqQk~~~kn~lLEkKl~~l~~~lE~keaqL~evl~~----~nldp~~~~~v~~ 185 (201)
T PF13851_consen 110 EVLEQRFEKLEQERDELYRKFESAIQEVQQKTGLKNLLLEKKLQALSEQLEKKEAQLNEVLAA----ANLDPAALSQVSK 185 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----cCCCHHHHHHHHH
Confidence 455666666677777777777766654332 22356788888888886554455544311 2247776665554
Q ss_pred HH
Q 018016 86 DL 87 (362)
Q Consensus 86 ~i 87 (362)
.+
T Consensus 186 ~l 187 (201)
T PF13851_consen 186 KL 187 (201)
T ss_pred HH
Confidence 43
No 117
>smart00806 AIP3 Actin interacting protein 3. Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.
Probab=23.24 E-value=4.1e+02 Score=28.35 Aligned_cols=89 Identities=15% Similarity=0.251 Sum_probs=57.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH--------HHH----hhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccC
Q 018016 9 EKVEEEEVERVVEEAKELQEAAA--------TLI----NRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFD 76 (362)
Q Consensus 9 ~~~~~~e~~~~lee~~~Lq~~~~--------s~i----~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~ 76 (362)
...+.+-++.+.+++.+.++.+. +++ ++-..+.|.|=.++-+|..-+..++++.... . -|-.
T Consensus 175 ~~~~~~sm~~i~~k~~~~k~~~~~~~~~s~R~y~e~~k~kL~~~Sd~lltkVDDLQD~vE~LRkDV~~R---g---VRp~ 248 (426)
T smart00806 175 FTEIKESIKDILEKIDKFKSSSLSASGSSNRAYVESSKKKLSEDSDSLLTKVDDLQDIIEALRKDVAQR---G---VRPS 248 (426)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhccCCCcchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc---C---CCCC
Confidence 45666667777777777776422 122 2223455666666666666666666664432 1 1226
Q ss_pred HHHHHHHHHHHHHHhcccccchhhhcCCC
Q 018016 77 SKLADKLEEDLQKAQCLIYDGDASAFLPS 105 (362)
Q Consensus 77 ~~~~~~l~~~i~~~~~~~~~~dme~~LP~ 105 (362)
+..++.+.++|..+..-+. +|+.|+..
T Consensus 249 ~~qLe~v~kdi~~a~keL~--~m~~~i~~ 275 (426)
T smart00806 249 KKQLETVQKELETARKELK--KMEEYIDI 275 (426)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHhh
Confidence 7788888899999999999 99999975
No 118
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=23.20 E-value=5.8e+02 Score=24.17 Aligned_cols=32 Identities=41% Similarity=0.412 Sum_probs=24.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018016 6 SNCEKVEEEEVERVVEEAKELQEAAATLINRT 37 (362)
Q Consensus 6 ~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq 37 (362)
...++.+..|+.+-.|..++||..+.+.++.-
T Consensus 44 ~~Le~~l~~E~k~R~E~~~~lq~~~e~~i~~~ 75 (247)
T PF06705_consen 44 QKLEKALEAEVKRRVESNKKLQSKFEEQINNM 75 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567788888888888888888877777654
No 119
>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=23.03 E-value=1.1e+02 Score=23.64 Aligned_cols=36 Identities=17% Similarity=0.266 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 24 KELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 24 ~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
..+|++..+-.+......|.+.+|+-+|.++|..+.
T Consensus 13 ~qmq~kFq~mS~~I~~riDeM~~RIDdLE~si~dl~ 48 (54)
T PF06825_consen 13 QQMQDKFQTMSDQILGRIDEMSSRIDDLEKSIADLM 48 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 345666666555555556788888888888886654
No 120
>PLN02400 cellulose synthase
Probab=23.02 E-value=1e+02 Score=36.13 Aligned_cols=27 Identities=26% Similarity=0.573 Sum_probs=20.1
Q ss_pred HHHHHHHhhhhhhcCCCCCchhHHHHHHH
Q 018016 181 LYTGLALRENILRINGSDIRPWWIYHHYC 209 (362)
Q Consensus 181 yYcTLtiREsIL~vNGSrIkgWWv~HHY~ 209 (362)
-++..++=| ++.-|-.|+.||..+-++
T Consensus 905 ~~~~~~lLE--~~~sG~si~~WWrnQq~w 931 (1085)
T PLN02400 905 SIFATGILE--LRWSGVGIEDWWRNEQFW 931 (1085)
T ss_pred HHHHHHHHH--HhhcCccHHHhhhcccee
Confidence 455566667 555677899999998876
No 121
>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=22.97 E-value=2.8e+02 Score=28.74 Aligned_cols=40 Identities=13% Similarity=0.288 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHhhh--chh--hHHHHHHHHHHHHHHHHHh
Q 018016 20 VEEAKELQEAAATLINRT--SSE--EQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 20 lee~~~Lq~~~~s~i~rq--~~e--~~~l~k~~~~l~~~l~r~~ 59 (362)
++++++-++.+++.|... .++ .++|..++++++..|+.++
T Consensus 46 ~~~l~~erN~~sk~i~~~~~~~~~~~~~l~~~~~~l~~~~~~~~ 89 (418)
T TIGR00414 46 IEELQAKRNELSKQIGKAKGQKKDKIEEIKKELKELKEELTELS 89 (418)
T ss_pred HHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHH
Confidence 444555555566655441 111 3456666666666655543
No 122
>PLN02678 seryl-tRNA synthetase
Probab=22.82 E-value=3.8e+02 Score=28.37 Aligned_cols=16 Identities=19% Similarity=0.219 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 018016 42 QSLRQRALSLDSNIRR 57 (362)
Q Consensus 42 ~~l~k~~~~l~~~l~r 57 (362)
++|..++++|+..|+.
T Consensus 74 ~~l~~~~~~Lk~ei~~ 89 (448)
T PLN02678 74 TELIAETKELKKEITE 89 (448)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444443
No 123
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=22.76 E-value=5.5e+02 Score=22.87 Aligned_cols=31 Identities=19% Similarity=0.262 Sum_probs=16.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018016 6 SNCEKVEEEEVERVVEEAKELQEAAATLINR 36 (362)
Q Consensus 6 ~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~r 36 (362)
.|+++.+....+++-|.+++-.+.-+.-|.+
T Consensus 42 ~~A~~~v~kql~~vs~~l~~tKkhLsqRId~ 72 (126)
T PF07889_consen 42 SDAVASVSKQLEQVSESLSSTKKHLSQRIDR 72 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455556666665555555555554444444
No 124
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=22.75 E-value=3e+02 Score=24.76 Aligned_cols=10 Identities=30% Similarity=0.567 Sum_probs=4.4
Q ss_pred HHHHHHHHHH
Q 018016 21 EEAKELQEAA 30 (362)
Q Consensus 21 ee~~~Lq~~~ 30 (362)
+....+++..
T Consensus 113 ~~~~~~~~~~ 122 (204)
T PF04740_consen 113 EQIEDLQDEI 122 (204)
T ss_pred HHHHHHHHHH
Confidence 3444444444
No 125
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=22.67 E-value=4.3e+02 Score=28.23 Aligned_cols=47 Identities=21% Similarity=0.246 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHH
Q 018016 10 KVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIR 56 (362)
Q Consensus 10 ~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~ 56 (362)
+.+...+.++.+++.+++....+.|.+.-.|-....+..+++....+
T Consensus 10 edl~~~I~~L~~~i~~~k~eV~~~I~~~y~df~~~~~~~~~L~~~~~ 56 (593)
T PF06248_consen 10 EDLRKSISRLSRRIEELKEEVHSMINKKYSDFSPSLQSAKDLIERSK 56 (593)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 45666777777777777777777777655444443344444333333
No 126
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=22.58 E-value=3.1e+02 Score=22.69 Aligned_cols=52 Identities=21% Similarity=0.357 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHH--HHHHHHHhhh-----chh-hHHHHHHHHHHHHHHHHHhhhhh
Q 018016 12 EEEEVERVVEEAKELQ--EAAATLINRT-----SSE-EQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 12 ~~~e~~~~lee~~~Lq--~~~~s~i~rq-----~~e-~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
-..|...+++|+..|. ..|-..|... ..| ...|.+++..+...++++.++..
T Consensus 28 ~~~E~~~v~~EL~~l~~d~~vy~~VG~vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~ 87 (105)
T cd00632 28 QLNENKKALEELEKLADDAEVYKLVGNVLVKQEKEEARTELKERLETIELRIKRLERQEE 87 (105)
T ss_pred HHHHHHHHHHHHHcCCCcchHHHHhhhHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677777777773 2232333221 111 23456667777777777664444
No 127
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=22.58 E-value=3.6e+02 Score=27.50 Aligned_cols=44 Identities=23% Similarity=0.401 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 12 EEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 12 ~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
--+||.+++.++.+||.+|..+-. |-+.|++++.+.+.+..++.
T Consensus 232 QQEEIt~LlsqivdlQ~r~k~~~~----EnEeL~q~L~~ske~Q~~L~ 275 (306)
T PF04849_consen 232 QQEEITSLLSQIVDLQQRCKQLAA----ENEELQQHLQASKESQRQLQ 275 (306)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh----hHHHHHHHHHHHHHHHHHHH
Confidence 456777777777777777776643 34556666666655555544
No 128
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=22.50 E-value=4.6e+02 Score=21.92 Aligned_cols=78 Identities=19% Similarity=0.353 Sum_probs=0.0
Q ss_pred CchhhhhhhHHHHHHHHHHHHHHHHH-------HHHHHHHHhhhchhh-HHHHHHHHHHHHHHHHHhhhhhccccccccc
Q 018016 1 MDEKRSNCEKVEEEEVERVVEEAKEL-------QEAAATLINRTSSEE-QSLRQRALSLDSNIRRLRSLLHSSISSTNNL 72 (362)
Q Consensus 1 ~~~~~~~~~~~~~~e~~~~lee~~~L-------q~~~~s~i~rq~~e~-~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~ 72 (362)
++..+.. .+.=..|.+.+++|+..| ...-...+.+-+.|. ..|.+|+..++..++++++....+
T Consensus 22 l~~q~~~-le~~~~E~~~v~~eL~~l~~d~~vyk~VG~vlv~~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l------- 93 (110)
T TIGR02338 22 VATQKQQ-VEAQLKEAEKALEELERLPDDTPVYKSVGNLLVKTDKEEAIQELKEKKETLELRVKTLQRQEERL------- 93 (110)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHcCCCcchhHHHhchhhheecHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------
Q ss_pred cccCHHHHHHHHHHHHHH
Q 018016 73 LRFDSKLADKLEEDLQKA 90 (362)
Q Consensus 73 ~~~~~~~~~~l~~~i~~~ 90 (362)
.+.+.+++.+++++
T Consensus 94 ----~~~l~e~q~~l~~~ 107 (110)
T TIGR02338 94 ----REQLKELQEKIQEA 107 (110)
T ss_pred ----HHHHHHHHHHHHHH
No 129
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=22.49 E-value=2.1e+02 Score=21.50 Aligned_cols=30 Identities=10% Similarity=0.258 Sum_probs=16.0
Q ss_pred HHHHHHHHHHhhhchhhHHHHHHHHHHHHH
Q 018016 25 ELQEAAATLINRTSSEEQSLRQRALSLDSN 54 (362)
Q Consensus 25 ~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~ 54 (362)
+.|+...+.+.+-....+++.+|+..|...
T Consensus 16 ~FQ~~v~~~lq~Lt~kL~~vs~RLe~LEn~ 45 (47)
T PF10393_consen 16 AFQNKVTSALQSLTQKLDAVSKRLEALENR 45 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 445555555544443355666666666544
No 130
>PLN02190 cellulose synthase-like protein
Probab=22.46 E-value=1.5e+02 Score=33.69 Aligned_cols=58 Identities=17% Similarity=0.330 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCCchHH-HHHHHHHHHHHHHHHhhhhhhcCCCCCchhHHHHHH
Q 018016 144 ALLFLLFPSTLLILRSWIWDGCLPAFPVQ-LYQAWLLFLYTGLALRENILRINGSDIRPWWIYHHY 208 (362)
Q Consensus 144 t~i~ll~~~~ll~~~~~~~d~~~~~~~~~-~~~flLvwyYcTLtiREsIL~vNGSrIkgWWv~HHY 208 (362)
.+++++.|..|++....+ +|..+.- ++.++ .-.||..++=|-..- |-.|++||..+-.
T Consensus 546 ~l~Y~~lP~l~Ll~g~~i----~P~~~~~~~~~~l-~~~~~~~~l~E~~~s--G~s~~~WWnnqr~ 604 (756)
T PLN02190 546 ELIYCLLPAYCLLHNSAL----FPKGVYLGIIVTL-VGMHCLYTLWEFMSL--GFSVQSWYVSQSF 604 (756)
T ss_pred HHHHHHHHHHHHHcCCcc----ccCccHHHHHHHH-HHHHHHHHHHHHHHc--CCcHHHHHhhhhe
Confidence 356677777766544322 2322111 12222 224566677775543 6679999998843
No 131
>PF07445 priB_priC: Primosomal replication protein priB and priC; InterPro: IPR010890 This family contains the bacterial primosomal replication proteins priB and priC (approximately 180 residues long). In Escherichia coli, these function in the assembly of the primosome [].
Probab=22.36 E-value=5.6e+02 Score=23.50 Aligned_cols=21 Identities=33% Similarity=0.588 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 018016 42 QSLRQRALSLDSNIRRLRSLL 62 (362)
Q Consensus 42 ~~l~k~~~~l~~~l~r~~~~~ 62 (362)
+.+++++..+...+.||...+
T Consensus 141 ~~lq~ei~a~e~RL~RCr~Ai 161 (173)
T PF07445_consen 141 QQLQQEILALEQRLQRCRQAI 161 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 457888999999999987433
No 132
>PRK05683 flgK flagellar hook-associated protein FlgK; Validated
Probab=22.33 E-value=5.9e+02 Score=28.38 Aligned_cols=51 Identities=6% Similarity=0.107 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 9 EKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 9 ~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
-+.+.....+.-+++.++++.....|.-...+.-.+-+++.+|...|.+.+
T Consensus 136 A~~La~~fn~~~~~L~~l~~~vn~qI~~~V~~IN~l~~qIA~LN~qI~~~~ 186 (676)
T PRK05683 136 AQGLSKRFNSLSSQLNQQNSNINSQLSAMTDQVNNLTTSIASYNKQIAQAS 186 (676)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 356677778888888899999999999999888888888888888887643
No 133
>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=22.12 E-value=5.3e+02 Score=27.98 Aligned_cols=21 Identities=14% Similarity=0.278 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 018016 42 QSLRQRALSLDSNIRRLRSLL 62 (362)
Q Consensus 42 ~~l~k~~~~l~~~l~r~~~~~ 62 (362)
+.|.++++.+...+.+.+.++
T Consensus 265 ~~Le~ei~~le~e~~e~~~~l 285 (650)
T TIGR03185 265 EQLERQLKEIEAARKANRAQL 285 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555554444333
No 134
>PRK09039 hypothetical protein; Validated
Probab=21.94 E-value=4.2e+02 Score=26.83 Aligned_cols=80 Identities=18% Similarity=0.228 Sum_probs=39.9
Q ss_pred hhhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHHhcc-cccchhhhcCCCCCCCccce
Q 018016 35 NRTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKAQCL-IYDGDASAFLPSKAQGAFVK 113 (362)
Q Consensus 35 ~rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~-~~~~dme~~LP~k~nG~yL~ 113 (362)
+....+.+.|+.++..|+..|.++...+... +.........+++++..+..+-.. .. +++.|- ..+|=+
T Consensus 133 se~~~~V~~L~~qI~aLr~Qla~le~~L~~a----e~~~~~~~~~i~~L~~~L~~a~~~~~~--~l~~~~----~~~~~~ 202 (343)
T PRK09039 133 ARALAQVELLNQQIAALRRQLAALEAALDAS----EKRDRESQAKIADLGRRLNVALAQRVQ--ELNRYR----SEFFGR 202 (343)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHhH----HHHHHH
Confidence 3334456677777777777777776555542 111011223455555555555433 33 555552 233333
Q ss_pred e--ecc-cceeeec
Q 018016 114 M--FIG-PINVRAS 124 (362)
Q Consensus 114 l--iLG-~vNVtll 124 (362)
| ++| +-++.+-
T Consensus 203 l~~~~~~~~~iri~ 216 (343)
T PRK09039 203 LREILGDREGIRIV 216 (343)
T ss_pred HHHHhCCCCCcEEE
Confidence 3 555 3455543
No 135
>PF07028 DUF1319: Protein of unknown function (DUF1319); InterPro: IPR010746 This entry is represented by Commelina yellow mottle virus, Orf1. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family contains a number of viral proteins of unknown function approximately 200 residues long. Family members seem to be restricted to badnaviruses.
Probab=21.92 E-value=5.9e+02 Score=22.94 Aligned_cols=30 Identities=23% Similarity=0.279 Sum_probs=14.8
Q ss_pred HHHhhhchhhHHHHHHHHHHHHHHHHHhhh
Q 018016 32 TLINRTSSEEQSLRQRALSLDSNIRRLRSL 61 (362)
Q Consensus 32 s~i~rq~~e~~~l~k~~~~l~~~l~r~~~~ 61 (362)
+....|+.+.+.+.+++..+...|+.++++
T Consensus 53 ki~~~Qr~~l~~l~~~l~~l~~eL~~Lr~~ 82 (126)
T PF07028_consen 53 KIQESQRSELKELKQELDVLSKELQALRKE 82 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444555555555555555443
No 136
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=21.70 E-value=6.4e+02 Score=23.21 Aligned_cols=44 Identities=16% Similarity=0.231 Sum_probs=24.1
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHH
Q 018016 4 KRSNCEKVEEEEVERVVEEAKELQEAAATLINRTSSEEQSLRQR 47 (362)
Q Consensus 4 ~~~~~~~~~~~e~~~~lee~~~Lq~~~~s~i~rq~~e~~~l~k~ 47 (362)
+|..--.+=.+++++.-+|+.+++......+...+.|.+.++.+
T Consensus 41 ~R~~~I~~~L~~Ae~~k~eAe~l~a~ye~~L~~Ar~eA~~I~~e 84 (155)
T PRK06569 41 NRQTNIQDNITQADTLTIEVEKLNKYYNEEIDKTNTEIDRLKKE 84 (155)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34333333344555566666666666666666666555555444
No 137
>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.
Probab=21.60 E-value=5.2e+02 Score=22.60 Aligned_cols=26 Identities=19% Similarity=0.420 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018016 11 VEEEEVERVVEEAKELQEAAATLINR 36 (362)
Q Consensus 11 ~~~~e~~~~lee~~~Lq~~~~s~i~r 36 (362)
.+++|+..+.++..+.-......+..
T Consensus 79 vvA~eir~LA~~t~~~~~~I~~~i~~ 104 (213)
T PF00015_consen 79 VVADEIRKLAEQTSESAKEISEIIEE 104 (213)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhhhhhhHHHHHHHHHhh
Confidence 34444444444444444444433333
No 138
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=21.58 E-value=2.8e+02 Score=27.61 Aligned_cols=18 Identities=28% Similarity=0.342 Sum_probs=10.4
Q ss_pred HhhhchhhHHHHHHHHHH
Q 018016 34 INRTSSEEQSLRQRALSL 51 (362)
Q Consensus 34 i~rq~~e~~~l~k~~~~l 51 (362)
|.|.+.|.+--+|||+.|
T Consensus 199 Iekkk~ELER~qKRL~sL 216 (267)
T PF10234_consen 199 IEKKKQELERNQKRLQSL 216 (267)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 555566666666666533
No 139
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=21.53 E-value=3.2e+02 Score=20.64 Aligned_cols=25 Identities=16% Similarity=0.214 Sum_probs=12.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhhh
Q 018016 39 SEEQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 39 ~e~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
.|...|++++..++....+++..+.
T Consensus 24 ~ei~~l~~~i~~l~~e~~~L~~ei~ 48 (80)
T PF04977_consen 24 QEIAELQKEIEELKKENEELKEEIE 48 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555543333
No 140
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=21.42 E-value=2e+02 Score=24.29 Aligned_cols=49 Identities=14% Similarity=0.161 Sum_probs=28.8
Q ss_pred chhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHHHHHhcccc
Q 018016 38 SSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDLQKAQCLIY 95 (362)
Q Consensus 38 ~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~ 95 (362)
+.+.+++++++...+..+.+.+..+..+ + +.+.+.+++-.|.+-++.+.
T Consensus 34 ~~~~~~l~~~~~~~~~Rl~~lE~~l~~L----P-----t~~dv~~L~l~l~el~G~~~ 82 (106)
T PF10805_consen 34 REDIEKLEERLDEHDRRLQALETKLEHL----P-----TRDDVHDLQLELAELRGELK 82 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhC----C-----CHHHHHHHHHHHHHHHhHHH
Confidence 3456666666666666666666555544 1 45555666666655555554
No 141
>PF08919 F_actin_bind: F-actin binding; InterPro: IPR015015 The F-actin binding domain forms a compact bundle of four antiparallel alpha-helices, which are arranged in a left-handed topology. Binding of F-actin to the F-actin binding domain may result in cytoplasmic retention and subcellular distribution of the protein, as well as possible inhibition of protein function []. ; GO: 0004715 non-membrane spanning protein tyrosine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1ZZP_A 2KK1_A.
Probab=21.40 E-value=5.2e+02 Score=22.52 Aligned_cols=73 Identities=18% Similarity=0.297 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh-----hhchhhHHHHHHHHHHHHHHHHHhhhhhccccccccccccCHHHHHHHHHHH
Q 018016 13 EEEVERVVEEAKELQEAAATLIN-----RTSSEEQSLRQRALSLDSNIRRLRSLLHSSISSTNNLLRFDSKLADKLEEDL 87 (362)
Q Consensus 13 ~~e~~~~lee~~~Lq~~~~s~i~-----rq~~e~~~l~k~~~~l~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i 87 (362)
.+.|-+++|.+..|++.|++|.. |-| =+-|+.+.-|+...+.++...+.. .++ .+...+.++...+
T Consensus 31 ~~~~~qL~D~~~~l~~~C~~yaD~~~~p~~K---F~FREllsrLE~~~rqLr~~~s~~-~~~-----~~~~l~~~l~~~i 101 (110)
T PF08919_consen 31 MAQWSQLSDKLQQLHSSCSGYADSIIQPHAK---FAFRELLSRLESQSRQLRSCGSSN-SSP-----ENQRLVSDLQNTI 101 (110)
T ss_dssp ---HHHHHHHHHHHHHHHHHHGGG-S-CCCH---HHHHHHHHHHHHHHHHHCHSSSSS-SST-----T--THHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCcCcchh---hhHHHHHHHHHHHHHHHHhccCCC-CCc-----ccHHHHHHHHHHH
Confidence 56678899999999999999998 211 123445666666665554322211 011 2566788888888
Q ss_pred HHHhccc
Q 018016 88 QKAQCLI 94 (362)
Q Consensus 88 ~~~~~~~ 94 (362)
++.-+.+
T Consensus 102 keI~~~V 108 (110)
T PF08919_consen 102 KEISNIV 108 (110)
T ss_dssp HHHHHHH
T ss_pred HHHHHHh
Confidence 7765544
No 142
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=21.03 E-value=3.4e+02 Score=23.34 Aligned_cols=18 Identities=28% Similarity=0.329 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHhhhc
Q 018016 21 EEAKELQEAAATLINRTS 38 (362)
Q Consensus 21 ee~~~Lq~~~~s~i~rq~ 38 (362)
|.+.+|.+....-+++++
T Consensus 72 EqL~~Lk~kl~~e~~~~~ 89 (100)
T PF04568_consen 72 EQLKKLKEKLKEEIEHHR 89 (100)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444444444443
No 143
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=20.98 E-value=3.6e+02 Score=27.60 Aligned_cols=26 Identities=27% Similarity=0.331 Sum_probs=14.1
Q ss_pred chhhHHHHHHHHHHHHHHHHHhhhhh
Q 018016 38 SSEEQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 38 ~~e~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
+.|.|.+.+|+.+|+..++++++.+.
T Consensus 288 RsElDe~~krL~ELrR~vr~L~k~l~ 313 (320)
T TIGR01834 288 RSELDEAHQRIQQLRREVKSLKKRLG 313 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555555554444
No 144
>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=20.69 E-value=2e+02 Score=23.31 Aligned_cols=51 Identities=18% Similarity=0.265 Sum_probs=28.5
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhccc---cccccccccCHHHHHHHHHHHHHHhcccc
Q 018016 41 EQSLRQRALSLDSNIRRLRSLLHSSI---SSTNNLLRFDSKLADKLEEDLQKAQCLIY 95 (362)
Q Consensus 41 ~~~l~k~~~~l~~~l~r~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~i~~~~~~~~ 95 (362)
...+-..+.+++.-|++|+..+.++- .+.+ .-.+.++.+++++...+.++.
T Consensus 23 ~kd~~~~~~~lk~Klq~ar~~i~~lpgi~~s~e----eq~~~i~~Le~~i~~k~~~L~ 76 (83)
T PF07544_consen 23 SKDLDTATGSLKHKLQKARAAIRELPGIDRSVE----EQEEEIEELEEQIRKKREVLQ 76 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCccCCHH----HHHHHHHHHHHHHHHHHHHHH
Confidence 33444555556666666654444321 1111 134568888888887777765
No 145
>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=20.58 E-value=2.3e+02 Score=22.68 Aligned_cols=29 Identities=24% Similarity=0.501 Sum_probs=18.9
Q ss_pred hhhchhhHHHHHHHHHHHHHHHHHhhhhh
Q 018016 35 NRTSSEEQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 35 ~rq~~e~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
.--..|++.|++.-..+..+|++++....
T Consensus 15 a~L~eEGekLSk~el~~~~~IKKLr~~~~ 43 (74)
T PF12329_consen 15 AQLMEEGEKLSKKELKLNNTIKKLRAKIK 43 (74)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 33355667777777777777877764444
No 146
>PRK14140 heat shock protein GrpE; Provisional
Probab=20.44 E-value=1.4e+02 Score=28.17 Aligned_cols=31 Identities=19% Similarity=0.312 Sum_probs=15.7
Q ss_pred HHHHHHhhhchhhHHHHHHHHHHHHHHHHHh
Q 018016 29 AAATLINRTSSEEQSLRQRALSLDSNIRRLR 59 (362)
Q Consensus 29 ~~~s~i~rq~~e~~~l~k~~~~l~~~l~r~~ 59 (362)
..++.|+-...+.+.+++++.+++..+.|+.
T Consensus 34 ~~~~~~~~l~~~i~~l~~ei~elkd~~lR~~ 64 (191)
T PRK14140 34 SEAELLDEEQAKIAELEAKLDELEERYLRLQ 64 (191)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444434444555566666666655543
No 147
>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=20.42 E-value=3.6e+02 Score=31.95 Aligned_cols=20 Identities=20% Similarity=0.167 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHhcccccch
Q 018016 79 LADKLEEDLQKAQCLIYDGD 98 (362)
Q Consensus 79 ~~~~l~~~i~~~~~~~~~~d 98 (362)
..++..++++.....+.+.|
T Consensus 865 ~~~~~~~el~~~k~k~~~~d 884 (1174)
T KOG0933|consen 865 DVKKAQAELKDQKAKQRDID 884 (1174)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 34455555666566665544
No 148
>PLN02320 seryl-tRNA synthetase
Probab=20.37 E-value=6e+02 Score=27.55 Aligned_cols=18 Identities=22% Similarity=0.322 Sum_probs=8.6
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 018016 41 EQSLRQRALSLDSNIRRL 58 (362)
Q Consensus 41 ~~~l~k~~~~l~~~l~r~ 58 (362)
.++|..+.++++..|+.+
T Consensus 132 ~~~l~~~~k~lk~~i~~l 149 (502)
T PLN02320 132 RQALVEEGKNLKEGLVTL 149 (502)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344555555555544443
No 149
>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=20.30 E-value=3.4e+02 Score=32.56 Aligned_cols=30 Identities=10% Similarity=0.304 Sum_probs=22.5
Q ss_pred HhhhchhhHHHHHHHHHHHHHHHHHhhhhh
Q 018016 34 INRTSSEEQSLRQRALSLDSNIRRLRSLLH 63 (362)
Q Consensus 34 i~rq~~e~~~l~k~~~~l~~~l~r~~~~~~ 63 (362)
...|+.+.+++.+++..+...|.++...+.
T Consensus 902 ~q~qk~kv~~~~~~~~~l~~~i~k~~~~i~ 931 (1293)
T KOG0996|consen 902 VQAQKDKVEKINEQLDKLEADIAKLTVAIK 931 (1293)
T ss_pred hHHhHHHHHHHHHHHHHHHHHHHHhHHHHh
Confidence 456777788888888888888888764433
No 150
>PLN02436 cellulose synthase A
Probab=20.17 E-value=1.9e+02 Score=34.20 Aligned_cols=28 Identities=18% Similarity=0.521 Sum_probs=18.8
Q ss_pred HHHHHHHhhhhhhcCCCCCchhHHHHHHHH
Q 018016 181 LYTGLALRENILRINGSDIRPWWIYHHYCA 210 (362)
Q Consensus 181 yYcTLtiREsIL~vNGSrIkgWWv~HHY~S 210 (362)
-++..++=| .+.-|-.|+.||..+-|+-
T Consensus 916 s~~~~~lLE--~~wsG~si~~WWrnQq~w~ 943 (1094)
T PLN02436 916 SIAATGILE--MQWGGVGIDDWWRNEQFWV 943 (1094)
T ss_pred HHHHHHHHH--HHhccccHHHhhhhhhHHH
Confidence 344555556 3444777999999988763
No 151
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=20.04 E-value=5.3e+02 Score=22.24 Aligned_cols=8 Identities=13% Similarity=0.343 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 018016 80 ADKLEEDL 87 (362)
Q Consensus 80 ~~~l~~~i 87 (362)
+++|+..+
T Consensus 105 I~~Le~~l 112 (118)
T TIGR01837 105 IEQLAVQV 112 (118)
T ss_pred HHHHHHHH
Confidence 33333333
Done!