Query psy2906
Match_columns 85
No_of_seqs 70 out of 72
Neff 3.6
Searched_HMMs 46136
Date Fri Aug 16 20:37:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2906.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2906hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF15186 TEX13: Testis-express 93.0 0.25 5.5E-06 36.4 5.0 28 52-79 121-148 (152)
2 PF13152 DUF3967: Protein of u 91.4 0.22 4.7E-06 28.6 2.4 19 40-58 2-21 (34)
3 PF10224 DUF2205: Predicted co 88.5 1.9 4.2E-05 28.4 5.5 36 41-76 16-51 (80)
4 PF08826 DMPK_coil: DMPK coile 87.5 3.5 7.7E-05 25.9 6.0 37 43-79 13-49 (61)
5 PF15066 CAGE1: Cancer-associa 84.2 2.6 5.6E-05 36.3 5.4 38 42-79 384-421 (527)
6 PF05030 SSXT: SSXT protein (N 79.8 6.4 0.00014 25.3 4.8 36 36-76 11-46 (65)
7 PF15619 Lebercilin: Ciliary p 77.4 16 0.00034 27.2 7.0 45 27-71 54-98 (194)
8 PF10146 zf-C4H2: Zinc finger- 77.0 17 0.00037 27.8 7.2 47 31-77 36-82 (230)
9 PF08990 Docking: Erythronolid 74.1 6.4 0.00014 21.3 3.2 24 43-66 4-27 (27)
10 PRK07353 F0F1 ATP synthase sub 70.2 27 0.00059 23.4 6.3 39 36-74 30-69 (140)
11 PRK14472 F0F1 ATP synthase sub 69.9 30 0.00065 24.4 6.7 40 36-75 43-83 (175)
12 PRK07352 F0F1 ATP synthase sub 67.8 38 0.00082 23.9 6.9 33 36-68 44-77 (174)
13 PF12352 V-SNARE_C: Snare regi 67.6 23 0.00051 21.0 5.3 38 39-76 3-40 (66)
14 PF15619 Lebercilin: Ciliary p 66.8 20 0.00044 26.6 5.5 49 31-79 107-160 (194)
15 COG4913 Uncharacterized protei 66.3 13 0.00029 34.2 5.2 48 31-78 663-714 (1104)
16 PRK14475 F0F1 ATP synthase sub 64.5 37 0.0008 23.9 6.3 39 36-74 35-74 (167)
17 PRK13460 F0F1 ATP synthase sub 64.0 45 0.00097 23.5 6.6 35 36-70 41-76 (173)
18 PRK08475 F0F1 ATP synthase sub 62.9 49 0.0011 23.5 6.7 34 36-69 47-81 (167)
19 CHL00019 atpF ATP synthase CF0 62.7 41 0.0009 23.9 6.3 40 36-75 49-89 (184)
20 PF00430 ATP-synt_B: ATP synth 62.2 38 0.00083 21.9 5.6 41 36-76 24-65 (132)
21 PRK00888 ftsB cell division pr 61.2 26 0.00056 23.6 4.8 30 50-79 29-58 (105)
22 COG0711 AtpF F0F1-type ATP syn 61.1 45 0.00097 23.6 6.2 43 36-78 31-74 (161)
23 KOG3227|consensus 60.5 15 0.00032 28.9 3.9 38 36-78 25-62 (231)
24 COG1677 FliE Flagellar hook-ba 60.4 26 0.00057 23.9 4.7 39 29-67 33-72 (105)
25 PF05400 FliT: Flagellar prote 60.4 34 0.00074 20.3 6.9 18 35-52 12-29 (84)
26 PF07795 DUF1635: Protein of u 60.0 33 0.00071 26.5 5.7 42 39-80 3-58 (214)
27 TIGR01144 ATP_synt_b ATP synth 59.7 51 0.0011 22.2 6.3 39 36-74 20-59 (147)
28 KOG0018|consensus 59.6 46 0.001 31.4 7.4 54 19-76 641-697 (1141)
29 PF13851 GAS: Growth-arrest sp 59.5 65 0.0014 23.8 7.0 17 64-80 116-132 (201)
30 PRK09174 F0F1 ATP synthase sub 59.1 48 0.001 24.6 6.3 36 36-71 78-114 (204)
31 PF04977 DivIC: Septum formati 59.1 36 0.00078 20.3 4.8 30 50-79 19-48 (80)
32 PF06673 L_lactis_ph-MCP: Lact 58.2 21 0.00046 28.6 4.5 44 42-85 5-48 (347)
33 PF14193 DUF4315: Domain of un 57.9 34 0.00074 22.6 4.8 31 44-74 4-34 (83)
34 PF15294 Leu_zip: Leucine zipp 57.9 44 0.00096 26.7 6.2 33 30-62 149-181 (278)
35 PRK14474 F0F1 ATP synthase sub 57.7 59 0.0013 24.7 6.7 38 36-73 30-68 (250)
36 PRK05759 F0F1 ATP synthase sub 56.9 59 0.0013 22.0 6.7 40 36-75 29-69 (156)
37 CHL00118 atpG ATP synthase CF0 56.7 62 0.0014 22.5 6.3 38 36-73 47-85 (156)
38 PF11221 Med21: Subunit 21 of 56.5 34 0.00075 23.8 4.9 35 47-81 103-137 (144)
39 PF00261 Tropomyosin: Tropomyo 56.0 70 0.0015 23.7 6.8 44 36-79 3-46 (237)
40 PRK13455 F0F1 ATP synthase sub 55.9 62 0.0013 23.0 6.3 35 37-71 53-88 (184)
41 PF08912 Rho_Binding: Rho Bind 55.4 52 0.0011 21.4 5.2 43 37-79 6-48 (69)
42 PRK11637 AmiB activator; Provi 54.9 83 0.0018 25.1 7.4 31 46-76 80-110 (428)
43 PF09766 FimP: Fms-interacting 54.5 71 0.0015 25.5 6.9 51 29-79 85-139 (355)
44 PRK13461 F0F1 ATP synthase sub 54.4 69 0.0015 22.1 6.7 31 36-66 30-61 (159)
45 PF11461 RILP: Rab interacting 54.2 13 0.00028 23.5 2.2 18 62-79 3-20 (60)
46 PRK09173 F0F1 ATP synthase sub 53.4 72 0.0016 22.0 6.2 39 36-74 27-66 (159)
47 PF07445 priB_priC: Primosomal 52.4 87 0.0019 22.6 7.2 49 31-79 116-169 (173)
48 PF13851 GAS: Growth-arrest sp 52.2 78 0.0017 23.4 6.4 46 31-76 45-90 (201)
49 PF14257 DUF4349: Domain of un 51.6 59 0.0013 24.1 5.8 43 37-79 142-186 (262)
50 PF09789 DUF2353: Uncharacteri 51.2 54 0.0012 26.5 5.8 36 41-76 126-168 (319)
51 PRK06231 F0F1 ATP synthase sub 50.4 97 0.0021 22.8 6.7 38 36-73 73-111 (205)
52 PF05384 DegS: Sensor protein 50.3 56 0.0012 23.8 5.3 35 45-79 81-115 (159)
53 TIGR02209 ftsL_broad cell divi 50.0 58 0.0013 19.9 4.9 31 49-79 25-55 (85)
54 TIGR03495 phage_LysB phage lys 50.0 40 0.00087 24.1 4.5 34 51-84 71-104 (135)
55 PRK10093 primosomal replicatio 48.8 1.1E+02 0.0024 22.8 7.2 50 30-79 112-167 (171)
56 TIGR01834 PHA_synth_III_E poly 48.7 92 0.002 25.3 6.8 45 36-80 262-314 (320)
57 PRK13453 F0F1 ATP synthase sub 48.2 96 0.0021 21.9 6.6 40 36-75 43-83 (173)
58 PF05911 DUF869: Plant protein 47.5 71 0.0015 28.7 6.4 44 36-79 111-158 (769)
59 PRK11637 AmiB activator; Provi 46.4 78 0.0017 25.3 6.0 32 46-77 73-104 (428)
60 smart00030 CLb CLUSTERIN Beta 46.3 67 0.0015 24.9 5.4 33 41-73 43-75 (206)
61 COG1196 Smc Chromosome segrega 45.9 64 0.0014 29.4 6.0 41 41-81 172-212 (1163)
62 KOG1962|consensus 45.8 67 0.0015 24.8 5.4 38 43-80 153-190 (216)
63 TIGR02492 flgK_ends flagellar 45.4 16 0.00035 28.3 2.0 15 39-53 196-210 (322)
64 PF14584 DUF4446: Protein of u 44.9 87 0.0019 22.5 5.6 39 28-66 40-78 (151)
65 PRK10265 chaperone-modulator p 44.9 38 0.00082 22.4 3.5 24 35-58 72-95 (101)
66 KOG3047|consensus 44.7 65 0.0014 23.9 4.9 31 38-69 34-64 (157)
67 PF04380 BMFP: Membrane fusoge 44.0 84 0.0018 20.0 5.4 41 29-69 30-78 (79)
68 PRK15366 type III secretion sy 43.9 52 0.0011 22.1 4.0 24 42-65 17-40 (80)
69 PRK00409 recombination and DNA 43.7 1E+02 0.0022 27.3 6.8 48 29-76 515-562 (782)
70 PF11932 DUF3450: Protein of u 43.7 1E+02 0.0022 22.9 6.0 46 34-79 42-94 (251)
71 PRK14473 F0F1 ATP synthase sub 43.4 1.1E+02 0.0024 21.2 6.7 32 36-67 33-65 (164)
72 PF04111 APG6: Autophagy prote 43.1 94 0.002 24.4 6.0 45 31-75 47-91 (314)
73 KOG4286|consensus 42.7 32 0.00069 31.7 3.6 33 43-75 222-254 (966)
74 PF01093 Clusterin: Clusterin; 42.7 98 0.0021 26.1 6.3 37 41-77 37-73 (436)
75 KOG2685|consensus 42.1 99 0.0021 26.3 6.2 42 39-80 349-390 (421)
76 TIGR03321 alt_F1F0_F0_B altern 42.0 1.4E+02 0.0031 22.2 6.7 32 36-67 30-62 (246)
77 PF15188 CCDC-167: Coiled-coil 41.5 92 0.002 20.8 4.9 39 41-79 5-53 (85)
78 PF05911 DUF869: Plant protein 39.2 1.1E+02 0.0025 27.5 6.5 45 36-80 598-642 (769)
79 KOG4398|consensus 38.9 1.1E+02 0.0023 25.4 5.8 47 31-77 9-55 (359)
80 KOG0999|consensus 38.4 74 0.0016 28.7 5.1 40 41-80 149-188 (772)
81 KOG4559|consensus 37.9 1.5E+02 0.0032 21.1 5.8 46 9-54 1-63 (120)
82 PF11577 NEMO: NF-kappa-B esse 37.8 1.1E+02 0.0024 19.6 7.1 48 33-80 5-56 (68)
83 PF09730 BicD: Microtubule-ass 37.8 90 0.0019 28.0 5.6 38 43-80 78-115 (717)
84 PF11172 DUF2959: Protein of u 37.8 1.1E+02 0.0023 23.6 5.3 39 41-79 21-74 (201)
85 PF12777 MT: Microtubule-bindi 37.6 44 0.00096 26.2 3.4 34 45-78 225-258 (344)
86 TIGR02449 conserved hypothetic 37.0 1.1E+02 0.0024 19.4 4.7 33 36-68 30-62 (65)
87 PRK14471 F0F1 ATP synthase sub 36.8 1.4E+02 0.0031 20.6 6.3 32 36-67 33-65 (164)
88 PRK08147 flgK flagellar hook-a 36.8 24 0.00052 29.3 1.9 16 38-53 197-212 (547)
89 cd07633 BAR_OPHN1 The Bin/Amph 35.2 2.1E+02 0.0044 22.1 6.5 23 30-52 70-92 (207)
90 PF09730 BicD: Microtubule-ass 35.1 2E+02 0.0043 25.9 7.3 50 31-80 269-318 (717)
91 PF12592 DUF3763: Protein of u 34.5 76 0.0017 19.5 3.4 22 62-83 7-28 (57)
92 TIGR03007 pepcterm_ChnLen poly 34.3 1.2E+02 0.0025 24.4 5.3 38 43-80 199-236 (498)
93 TIGR00153 conserved hypothetic 34.0 1.8E+02 0.0039 21.0 7.4 54 31-84 15-72 (216)
94 PRK07521 flgK flagellar hook-a 34.0 28 0.00061 28.6 1.8 15 39-53 190-204 (483)
95 KOG1510|consensus 33.9 1.2E+02 0.0025 22.3 4.8 32 50-81 93-124 (139)
96 TIGR01069 mutS2 MutS2 family p 33.7 1.6E+02 0.0035 26.1 6.5 47 29-75 510-556 (771)
97 PRK06799 flgK flagellar hook-a 32.3 31 0.00068 28.1 1.8 16 38-53 197-212 (431)
98 TIGR00219 mreC rod shape-deter 32.2 1.8E+02 0.0039 22.5 5.9 41 37-80 69-109 (283)
99 PF02403 Seryl_tRNA_N: Seryl-t 32.1 1.4E+02 0.003 19.1 4.6 33 42-74 68-100 (108)
100 COG5241 RAD10 Nucleotide excis 31.5 34 0.00074 26.7 1.8 19 27-45 4-22 (224)
101 PRK06568 F0F1 ATP synthase sub 31.4 2E+02 0.0044 20.7 6.3 39 36-74 29-75 (154)
102 COG1256 FlgK Flagellar hook-as 31.4 33 0.00071 29.4 1.8 15 39-53 199-213 (552)
103 PRK13454 F0F1 ATP synthase sub 31.2 2E+02 0.0043 20.6 6.2 33 36-68 56-89 (181)
104 PF15290 Syntaphilin: Golgi-lo 31.1 1E+02 0.0022 25.2 4.5 21 59-79 114-134 (305)
105 PF02050 FliJ: Flagellar FliJ 30.9 1.3E+02 0.0028 18.3 4.9 33 46-78 3-35 (123)
106 KOG1760|consensus 30.9 1.8E+02 0.0038 21.2 5.3 36 43-78 79-118 (131)
107 PRK13729 conjugal transfer pil 30.6 1.7E+02 0.0037 25.2 5.9 26 55-80 97-122 (475)
108 PRK12714 flgK flagellar hook-a 30.4 37 0.00079 29.1 2.0 15 39-53 193-207 (624)
109 PF06548 Kinesin-related: Kine 30.3 1.3E+02 0.0027 26.2 5.1 30 50-79 436-465 (488)
110 KOG3650|consensus 30.1 1.4E+02 0.0031 21.2 4.6 36 41-76 56-91 (120)
111 PRK07191 flgK flagellar hook-a 30.1 36 0.00079 27.7 1.9 15 39-53 195-209 (456)
112 PF15458 NTR2: Nineteen comple 29.7 1.7E+02 0.0036 22.4 5.3 34 44-77 211-244 (254)
113 PF14703 DUF4463: Domain of un 29.6 1.2E+02 0.0025 18.4 3.7 26 37-62 9-34 (85)
114 PF15294 Leu_zip: Leucine zipp 29.4 2E+02 0.0044 22.9 5.9 40 41-80 132-171 (278)
115 KOG3000|consensus 28.9 1E+02 0.0022 24.8 4.1 36 44-79 194-229 (295)
116 PF02388 FemAB: FemAB family; 28.8 3E+02 0.0064 22.1 6.8 48 31-78 239-289 (406)
117 PF08614 ATG16: Autophagy prot 28.7 2E+02 0.0044 20.6 5.4 9 64-72 167-175 (194)
118 PF14661 HAUS6_N: HAUS augmin- 28.7 2.4E+02 0.0053 21.1 6.0 40 36-78 169-208 (247)
119 PF14523 Syntaxin_2: Syntaxin- 28.7 1.5E+02 0.0033 18.5 5.4 29 41-69 30-58 (102)
120 KOG3119|consensus 28.4 1.7E+02 0.0038 22.5 5.2 27 53-79 213-239 (269)
121 PRK07739 flgK flagellar hook-a 28.2 43 0.00093 27.8 2.0 15 39-53 207-221 (507)
122 PF04012 PspA_IM30: PspA/IM30 28.1 2.3E+02 0.005 20.3 7.3 49 31-79 95-143 (221)
123 PF05278 PEARLI-4: Arabidopsis 28.0 3.1E+02 0.0068 21.9 6.8 43 36-78 209-251 (269)
124 PRK10404 hypothetical protein; 27.9 1.6E+02 0.0034 19.8 4.4 26 41-66 38-63 (101)
125 PF09748 Med10: Transcription 27.8 1.9E+02 0.0042 19.9 5.0 36 49-84 85-120 (128)
126 COG1422 Predicted membrane pro 27.0 76 0.0016 24.4 3.0 19 44-62 75-93 (201)
127 PRK06975 bifunctional uroporph 26.8 1.9E+02 0.0041 25.0 5.7 34 46-79 376-409 (656)
128 TIGR01636 phage_rinA phage tra 26.8 2.1E+02 0.0045 19.5 5.6 16 29-44 50-65 (134)
129 PRK10884 SH3 domain-containing 26.5 2.3E+02 0.0049 21.3 5.4 19 57-75 148-166 (206)
130 PF11414 Suppressor_APC: Adeno 26.1 84 0.0018 20.7 2.8 14 63-76 8-21 (84)
131 PRK05683 flgK flagellar hook-a 26.0 48 0.001 29.0 2.0 15 39-53 195-209 (676)
132 PRK06945 flgK flagellar hook-a 25.8 49 0.0011 28.7 2.0 15 39-53 197-211 (651)
133 PRK12715 flgK flagellar hook-a 25.6 47 0.001 28.8 1.9 16 38-53 190-205 (649)
134 PF09304 Cortex-I_coil: Cortex 25.5 2.4E+02 0.0052 19.7 6.1 40 40-79 36-75 (107)
135 PLN03188 kinesin-12 family pro 25.3 1.5E+02 0.0033 28.6 5.1 31 49-79 1205-1235(1320)
136 PRK08871 flgK flagellar hook-a 25.3 52 0.0011 28.5 2.0 16 38-53 194-209 (626)
137 KOG2629|consensus 25.0 3.8E+02 0.0082 21.9 6.7 50 30-79 136-185 (300)
138 KOG4673|consensus 25.0 1.2E+02 0.0026 28.1 4.2 28 52-79 406-433 (961)
139 TIGR02231 conserved hypothetic 24.8 3.8E+02 0.0082 22.0 6.8 24 57-80 147-170 (525)
140 PRK06665 flgK flagellar hook-a 24.8 50 0.0011 28.3 1.8 15 39-53 207-221 (627)
141 COG4372 Uncharacterized protei 24.8 2.1E+02 0.0045 24.8 5.4 38 41-78 74-111 (499)
142 PF04822 Takusan: Takusan; In 24.6 2.2E+02 0.0047 18.8 4.9 27 57-83 21-47 (84)
143 PF07130 YebG: YebG protein; 24.4 2E+02 0.0044 18.9 4.3 31 41-71 26-56 (75)
144 TIGR00634 recN DNA repair prot 24.3 2.8E+02 0.006 23.1 6.0 39 41-79 161-199 (563)
145 PF03962 Mnd1: Mnd1 family; I 24.0 1.7E+02 0.0037 21.4 4.3 25 41-65 103-127 (188)
146 PRK07720 fliJ flagellar biosyn 24.0 2.4E+02 0.0051 19.1 6.0 39 42-80 17-55 (146)
147 PRK06569 F0F1 ATP synthase sub 23.7 2.9E+02 0.0064 20.1 6.0 27 51-77 65-92 (155)
148 PRK09039 hypothetical protein; 23.5 2.4E+02 0.0051 22.5 5.3 35 48-82 151-185 (343)
149 KOG3230|consensus 23.5 1.5E+02 0.0033 23.2 4.1 28 47-77 11-38 (224)
150 KOG2483|consensus 23.4 2.5E+02 0.0054 21.7 5.3 35 46-80 103-137 (232)
151 PF13870 DUF4201: Domain of un 23.3 2.7E+02 0.0059 19.5 7.0 22 30-51 42-69 (177)
152 PRK10869 recombination and rep 23.2 3.2E+02 0.0068 23.1 6.2 40 40-79 156-195 (553)
153 PF06103 DUF948: Bacterial pro 23.0 2E+02 0.0044 17.9 5.4 16 50-65 28-43 (90)
154 PF12325 TMF_TATA_bd: TATA ele 23.0 2.7E+02 0.0058 19.3 5.4 18 57-74 32-49 (120)
155 KOG1003|consensus 23.0 1.7E+02 0.0036 22.7 4.2 39 40-78 9-48 (205)
156 PF07888 CALCOCO1: Calcium bin 22.5 2.8E+02 0.006 24.3 5.8 30 41-70 283-312 (546)
157 PF05600 DUF773: Protein of un 22.3 1.8E+02 0.0039 24.6 4.6 38 42-79 433-470 (507)
158 cd07599 BAR_Rvs167p The Bin/Am 22.0 2.3E+02 0.0051 20.4 4.7 30 55-84 149-178 (216)
159 PRK10884 SH3 domain-containing 21.5 3.5E+02 0.0076 20.3 5.6 26 54-79 124-149 (206)
160 COG4026 Uncharacterized protei 21.3 3.5E+02 0.0075 21.9 5.8 36 41-76 149-184 (290)
161 PF12808 Mto2_bdg: Micro-tubul 21.3 1.6E+02 0.0034 18.0 3.1 21 59-79 26-46 (52)
162 TIGR03741 PRTRC_E PRTRC system 21.2 2.3E+02 0.0049 19.4 4.2 36 29-64 57-92 (104)
163 PF14131 DUF4298: Domain of un 21.2 2.5E+02 0.0053 18.2 5.4 33 36-68 5-37 (90)
164 PRK04863 mukB cell division pr 20.7 2.9E+02 0.0063 26.7 6.0 40 41-80 293-332 (1486)
165 COG4942 Membrane-bound metallo 20.7 3.3E+02 0.0071 23.1 5.8 22 41-62 59-80 (420)
166 PRK10920 putative uroporphyrin 20.4 5E+02 0.011 21.5 7.3 36 44-79 88-123 (390)
167 PF13600 DUF4140: N-terminal d 20.3 2.4E+02 0.0053 17.9 4.9 31 48-78 70-100 (104)
168 PF11315 Med30: Mediator compl 20.2 3.5E+02 0.0076 19.7 5.4 35 39-73 109-143 (150)
169 PRK05689 fliJ flagellar biosyn 20.2 2.8E+02 0.0061 18.6 7.4 50 31-80 6-55 (147)
170 PF05103 DivIVA: DivIVA protei 20.1 1.3E+02 0.0029 19.5 2.8 49 31-79 22-70 (131)
No 1
>PF15186 TEX13: Testis-expressed sequence 13 protein family
Probab=92.98 E-value=0.25 Score=36.42 Aligned_cols=28 Identities=36% Similarity=0.401 Sum_probs=23.2
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 52 ETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 52 etQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
|+.-+|..++..|+++.+|||-|...|-
T Consensus 121 eaa~qL~~~~a~L~~v~~ERD~Lr~kLl 148 (152)
T PF15186_consen 121 EAAFQLQLTQAALQEVQKERDLLRWKLL 148 (152)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444788999999999999999998654
No 2
>PF13152 DUF3967: Protein of unknown function (DUF3967)
Probab=91.43 E-value=0.22 Score=28.56 Aligned_cols=19 Identities=32% Similarity=0.681 Sum_probs=15.1
Q ss_pred hhhhHH-HHHHHHHHHHHHH
Q psy2906 40 FDEKDK-LLDNLRETQDRLS 58 (85)
Q Consensus 40 LdERDk-Lle~LretQe~L~ 58 (85)
|++||+ |+.+|||.||+--
T Consensus 2 ~e~RD~~Lm~~iREiQE~Kk 21 (34)
T PF13152_consen 2 LEERDEQLMQTIREIQETKK 21 (34)
T ss_pred hhhHHHHHHHHHHHHHHHHH
Confidence 578885 7899999998743
No 3
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=88.46 E-value=1.9 Score=28.44 Aligned_cols=36 Identities=31% Similarity=0.538 Sum_probs=33.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQR 76 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~ErdsLqr 76 (85)
++|++|.....+.|++|...-.|..+|..|.+.|..
T Consensus 16 e~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~ 51 (80)
T PF10224_consen 16 EEKEELIQEILELQDSLEALSDRVEEVKEENEKLES 51 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 679999999999999999999999999999998875
No 4
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=87.45 E-value=3.5 Score=25.94 Aligned_cols=37 Identities=22% Similarity=0.308 Sum_probs=31.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 43 KDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 43 RDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
+.-|.+-|+.++.+...++.||++.+..+..|...+.
T Consensus 13 kQ~~~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~ 49 (61)
T PF08826_consen 13 KQAIQEELTKVKSANLAFESKLQEAEKRNRELEQEIE 49 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888999999999999999999999888888765
No 5
>PF15066 CAGE1: Cancer-associated gene protein 1 family
Probab=84.20 E-value=2.6 Score=36.32 Aligned_cols=38 Identities=26% Similarity=0.441 Sum_probs=33.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 42 EKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 42 ERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
|+.-+=-+|+..|+.|+.+|.+|+|..+|++.||-||.
T Consensus 384 EKnd~~k~lqnLqe~la~tqk~LqEsr~eKetLqlelk 421 (527)
T PF15066_consen 384 EKNDIEKTLQNLQEALANTQKHLQESRNEKETLQLELK 421 (527)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 44445568999999999999999999999999998875
No 6
>PF05030 SSXT: SSXT protein (N-terminal region); InterPro: IPR007726 SSXT (also known as SYT or SS18) appears to function synergistically with RBM14 as a transcriptional coactivator []. The SSXT protein is involved in synovial sarcoma in humans. A SYT-SSX fusion gene resulting from the chromosomal translocation t(X;18) (p11;q11) is characteristic of synovial sarcomas. This translocation fuses the SSXT (SYT) gene from chromosome 18 to either of two homologous genes at Xp11, SSX1 or SSX2 []. This entry also includes SS18-like protein 1, a transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons [],[].
Probab=79.82 E-value=6.4 Score=25.28 Aligned_cols=36 Identities=28% Similarity=0.494 Sum_probs=30.0
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQR 76 (85)
Q Consensus 36 MvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqr 76 (85)
+-.||||.+.|....-|.|. .+|..|+..=...|+|
T Consensus 11 IQk~LdEN~~LI~~I~e~qn-----~Gr~~Ec~qyq~~Lhr 46 (65)
T PF05030_consen 11 IQKMLDENDQLIQCIQEYQN-----KGRAQECVQYQQILHR 46 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHH-----cCCHHHHHHHHHHHHH
Confidence 56799999999999999987 6788888776666666
No 7
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=77.38 E-value=16 Score=27.19 Aligned_cols=45 Identities=27% Similarity=0.320 Sum_probs=39.7
Q ss_pred CCcChHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q psy2906 27 GEDANFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKER 71 (85)
Q Consensus 27 ~~~~nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~Er 71 (85)
+..+.+-|||-.+-+|=.-|-+.||.+|++.-.+..++++...+.
T Consensus 54 ~~e~~Lpqll~~h~eEvr~Lr~~LR~~q~~~r~~~~klk~~~~el 98 (194)
T PF15619_consen 54 DTEAELPQLLQRHNEEVRVLRERLRKSQEQERELERKLKDKDEEL 98 (194)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556899999999999999999999999999999999999555443
No 8
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=76.96 E-value=17 Score=27.82 Aligned_cols=47 Identities=17% Similarity=0.357 Sum_probs=39.3
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q psy2906 31 NFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQ 77 (85)
Q Consensus 31 nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQ 77 (85)
.++..|--.+.||...+|.||....-+.....=++..+.||+..+..
T Consensus 36 e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~ 82 (230)
T PF10146_consen 36 EYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEK 82 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566888999999999999999999988888888888888776653
No 9
>PF08990 Docking: Erythronolide synthase docking; InterPro: IPR015083 The N-terminal docking domain found in modular polyketide synthase assumes an alpha-helical structure, wherein two alpha-helices are connected by a short loop. Two such N-terminal domains dimerise to form amphipathic parallel alpha-helical coiled coils: dimerisation is essential for protein function []. ; GO: 0016740 transferase activity, 0048037 cofactor binding; PDB: 2HG4_E.
Probab=74.14 E-value=6.4 Score=21.29 Aligned_cols=24 Identities=29% Similarity=0.411 Sum_probs=21.3
Q ss_pred hHHHHHHHHHHHHHHHHHHhHHHH
Q psy2906 43 KDKLLDNLRETQDRLSETSGKLSM 66 (85)
Q Consensus 43 RDkLle~LretQe~L~~~q~rL~e 66 (85)
=+||.+-|+.+...|-.++.||.|
T Consensus 4 e~kLr~YLkr~t~eL~~~r~RLre 27 (27)
T PF08990_consen 4 EDKLRDYLKRVTAELRRARRRLRE 27 (27)
T ss_dssp HCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhC
Confidence 379999999999999999999875
No 10
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=70.16 E-value=27 Score=23.36 Aligned_cols=39 Identities=21% Similarity=0.277 Sum_probs=24.2
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKERDSL 74 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~ErdsL 74 (85)
+.++|++|. ++.+.|.++.+....++..+.+.+......
T Consensus 30 i~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~~~e~~L~~a 69 (140)
T PRK07353 30 VGKVVEEREDYIRTNRAEAKERLAEAEKLEAQYEQQLASA 69 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777774 566777777766666666655544444333
No 11
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=69.88 E-value=30 Score=24.42 Aligned_cols=40 Identities=8% Similarity=0.189 Sum_probs=25.7
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKERDSLQ 75 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~ErdsLq 75 (85)
+.++|++|. ++.+.|.++......++..+.+.+......+
T Consensus 43 i~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~a~ 83 (175)
T PRK14472 43 ILSALEEREKGIQSSIDRAHSAKDEAEAILRKNRELLAKAD 83 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777775 5667787777776666666555555444443
No 12
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=67.77 E-value=38 Score=23.86 Aligned_cols=33 Identities=21% Similarity=0.541 Sum_probs=19.1
Q ss_pred HHHhhhhh-HHHHHHHHHHHHHHHHHHhHHHHHH
Q psy2906 36 MVTMFDEK-DKLLDNLRETQDRLSETSGKLSMVE 68 (85)
Q Consensus 36 MvnMLdER-DkLle~LretQe~L~~~q~rL~eve 68 (85)
+.++|++| +++.+.|.++.+....++..+.+.+
T Consensus 44 I~~~l~~R~~~I~~~l~~A~~~~~ea~~~~~~~~ 77 (174)
T PRK07352 44 LGKILEERREAILQALKEAEERLRQAAQALAEAQ 77 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555665 5666777776666555555544333
No 13
>PF12352 V-SNARE_C: Snare region anchored in the vesicle membrane C-terminus; PDB: 1GL2_C 2NPS_C.
Probab=67.62 E-value=23 Score=20.98 Aligned_cols=38 Identities=21% Similarity=0.344 Sum_probs=27.6
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy2906 39 MFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQR 76 (85)
Q Consensus 39 MLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqr 76 (85)
++.|++.|-.+.+-.-+.+..+..=+.++..-|+.|++
T Consensus 3 l~~e~~~L~~s~~~~~e~~~~g~~~l~~L~~Qre~L~~ 40 (66)
T PF12352_consen 3 LLRESDSLQRSHRMADETEEIGAATLEDLRSQREQLKR 40 (66)
T ss_dssp HHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677777777777777777777777777777777765
No 14
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=66.76 E-value=20 Score=26.57 Aligned_cols=49 Identities=27% Similarity=0.456 Sum_probs=36.0
Q ss_pred hHHHHHH-HhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHH----HHHHHHHh
Q psy2906 31 NFEQLMV-TMFDEKDKLLDNLRETQDRLSETSGKLSMVEKER----DSLQRQIA 79 (85)
Q Consensus 31 nfEqLMv-nMLdERDkLle~LretQe~L~~~q~rL~eve~Er----dsLqrQl~ 79 (85)
++++|.- .=|.||++|...|...+..+..+..+.+.+++.- .+.+||+.
T Consensus 107 ~L~~L~~dknL~eReeL~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~rql~ 160 (194)
T PF15619_consen 107 HLKKLSEDKNLAEREELQRKLSQLEQKLQEKEKKIQELEKQLELENKSFRRQLA 160 (194)
T ss_pred HHHHHHHcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence 4556533 3578899999999999999999999988776643 34445554
No 15
>COG4913 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=66.33 E-value=13 Score=34.22 Aligned_cols=48 Identities=23% Similarity=0.342 Sum_probs=36.4
Q ss_pred hHHHH----HHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2906 31 NFEQL----MVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 31 nfEqL----MvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl 78 (85)
||+++ .+--+.|++|++|.|..|++.++.++..|...+..--.|-||.
T Consensus 663 ~fa~ID~~Sa~rqIael~~~lE~L~~t~~~~~~~~~~l~aaQT~~~vler~~ 714 (1104)
T COG4913 663 NFASIDLPSAQRQIAELQARLERLTHTQSDIAIAKAALDAAQTRQKVLERQY 714 (1104)
T ss_pred chhhcchhhHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67766 4556799999999999999999988888776655555554443
No 16
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=64.48 E-value=37 Score=23.89 Aligned_cols=39 Identities=26% Similarity=0.306 Sum_probs=24.7
Q ss_pred HHHhhhhh-HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q psy2906 36 MVTMFDEK-DKLLDNLRETQDRLSETSGKLSMVEKERDSL 74 (85)
Q Consensus 36 MvnMLdER-DkLle~LretQe~L~~~q~rL~eve~ErdsL 74 (85)
+.++|++| +++.+.|.++.....+++..+++.+......
T Consensus 35 i~~~le~R~~~I~~~l~~Ae~~k~eAe~~~~~~e~~L~~A 74 (167)
T PRK14475 35 LAGALDAYAAKIQAELDEAQRLREEAQALLADVKAEREEA 74 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777777 4566777777777666666655555444433
No 17
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=64.04 E-value=45 Score=23.52 Aligned_cols=35 Identities=14% Similarity=0.265 Sum_probs=20.5
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKE 70 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~E 70 (85)
+.++|++|. ++...|.++.+....++..+.+.++.
T Consensus 41 i~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~ 76 (173)
T PRK13460 41 ILKALDERASGVQNDINKASELRLEAEALLKDYEAR 76 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556778775 55566666666555555554444433
No 18
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=62.93 E-value=49 Score=23.50 Aligned_cols=34 Identities=24% Similarity=0.348 Sum_probs=19.5
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEK 69 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~ 69 (85)
+.++|++|. ++-+.|.++.+....++..+.+.+.
T Consensus 47 i~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~ 81 (167)
T PRK08475 47 LKNFYKSRINKISKRLEEIQEKLKESKEKKEDALK 81 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667775 5666666666655555555443333
No 19
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=62.65 E-value=41 Score=23.94 Aligned_cols=40 Identities=18% Similarity=0.407 Sum_probs=25.8
Q ss_pred HHHhhhhh-HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q psy2906 36 MVTMFDEK-DKLLDNLRETQDRLSETSGKLSMVEKERDSLQ 75 (85)
Q Consensus 36 MvnMLdER-DkLle~LretQe~L~~~q~rL~eve~ErdsLq 75 (85)
+.++|++| +++.+.|.++.+....++..+++.+......+
T Consensus 49 I~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~A~ 89 (184)
T CHL00019 49 LSDLLDNRKQTILNTIRNSEERREEAIEKLEKARARLRQAE 89 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666776 45677788777777777766665555444433
No 20
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=62.19 E-value=38 Score=21.93 Aligned_cols=41 Identities=20% Similarity=0.307 Sum_probs=24.5
Q ss_pred HHHhhhhh-HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy2906 36 MVTMFDEK-DKLLDNLRETQDRLSETSGKLSMVEKERDSLQR 76 (85)
Q Consensus 36 MvnMLdER-DkLle~LretQe~L~~~q~rL~eve~ErdsLqr 76 (85)
+.+.|++| +++...+.+++.....++..+.+.++.....+.
T Consensus 24 i~~~l~~R~~~I~~~~~~a~~~~~ea~~~~~e~~~~l~~a~~ 65 (132)
T PF00430_consen 24 IKKFLDERKAKIQSELEEAEELKEEAEQLLAEYEEKLAEARE 65 (132)
T ss_dssp HHHHCS--S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566665 456667777777777777776666666555554
No 21
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=61.23 E-value=26 Score=23.56 Aligned_cols=30 Identities=13% Similarity=0.213 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 50 LRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 50 LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
.++.+.++...+.+++++..+++.|++++.
T Consensus 29 ~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~ 58 (105)
T PRK00888 29 YWRVNDQVAAQQQTNAKLKARNDQLFAEID 58 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666667777777777777777776654
No 22
>COG0711 AtpF F0F1-type ATP synthase, subunit b [Energy production and conversion]
Probab=61.11 E-value=45 Score=23.60 Aligned_cols=43 Identities=26% Similarity=0.397 Sum_probs=33.7
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~ErdsLqrQl 78 (85)
+.+.||+|. ++-+.|.+++....+++.-+.+++.++...++|-
T Consensus 31 i~~~l~~R~~~I~~~l~~A~~~~~ea~~~~~~~~~~l~~Ar~~a 74 (161)
T COG0711 31 ILKALDERQAKIADDLAEAERLKEEAQALLAEYEQELEEAREQA 74 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346677775 6778899999998888888888888888777643
No 23
>KOG3227|consensus
Probab=60.51 E-value=15 Score=28.89 Aligned_cols=38 Identities=32% Similarity=0.525 Sum_probs=31.3
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 36 MvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl 78 (85)
+--||||.++|.-.+-|.|. -.|+.||-.-.-.|+|-|
T Consensus 25 IQk~LdEN~~LI~~I~e~Qn-----~Gk~~EC~qyq~~LhrNL 62 (231)
T KOG3227|consen 25 IQKMLDENKHLIQCIVESQN-----KGKLSECAQYQALLHRNL 62 (231)
T ss_pred HHHHHHhhhHHHHHHHHhhc-----cchHHHHHHHHHHHHHhH
Confidence 56799999999999999885 578888888777777744
No 24
>COG1677 FliE Flagellar hook-basal body protein [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=60.37 E-value=26 Score=23.88 Aligned_cols=39 Identities=13% Similarity=0.224 Sum_probs=34.3
Q ss_pred cChHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhH-HHHH
Q psy2906 29 DANFEQLMVTMFDEKDKLLDNLRETQDRLSETSGK-LSMV 67 (85)
Q Consensus 29 ~~nfEqLMvnMLdERDkLle~LretQe~L~~~q~r-L~ev 67 (85)
++.|.+...+++++=.+.+..-++..++.+..+.. |++|
T Consensus 33 ~~sF~~~L~~ai~~vn~~Q~~a~~~~~~~~~G~~~~l~dV 72 (105)
T COG1677 33 GASFAEVLKNAIDDVNDTQKKAEKASEAFILGQAGDLHDV 72 (105)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHH
Confidence 44899999999999999999999999999888877 7755
No 25
>PF05400 FliT: Flagellar protein FliT; InterPro: IPR008622 This entry represents the bacterial flagellar FliT family of dual-function proteins. Together with FlgN, FliT has been proposed to act as a substrate-specific export chaperone, facilitating the incorporation of the enterobacterial hook-associated axial proteins (HAPs) FlgK/FlgL and FliD into the growing flagellum []. FliT has also been shown to act as a transcriptional regulator in Salmonella typhimurium [].; GO: 0019861 flagellum; PDB: 3A7M_A 3H3M_B 3NKZ_C 2G42_A 2FZT_B.
Probab=60.36 E-value=34 Score=20.35 Aligned_cols=18 Identities=33% Similarity=0.580 Sum_probs=14.7
Q ss_pred HHHHhhhhhHHHHHHHHH
Q psy2906 35 LMVTMFDEKDKLLDNLRE 52 (85)
Q Consensus 35 LMvnMLdERDkLle~Lre 52 (85)
-+..++++|+.|++.|.+
T Consensus 12 ~l~~l~~~R~~ll~~l~~ 29 (84)
T PF05400_consen 12 ELEELLDERQELLERLFE 29 (84)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 356788999999988876
No 26
>PF07795 DUF1635: Protein of unknown function (DUF1635); InterPro: IPR012862 The members of this family include sequences that are parts of hypothetical proteins expressed by plant species. The region in question is about 170 amino acids long.
Probab=60.02 E-value=33 Score=26.49 Aligned_cols=42 Identities=24% Similarity=0.287 Sum_probs=26.8
Q ss_pred hhhhhHHHHHHHHHHHH--------------HHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 39 MFDEKDKLLDNLRETQD--------------RLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 39 MLdERDkLle~LretQe--------------~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
|=|-|.+|+-+.-|... ++...-.=|+.+-+|||..+.|+..
T Consensus 3 ~EELRq~Ll~TTlELE~~k~~A~EElRk~eeqi~~L~~Ll~~a~~ERDEAr~qlq~ 58 (214)
T PF07795_consen 3 MEELRQKLLYTTLELEATKMEANEELRKREEQIAHLKDLLKKAYQERDEAREQLQK 58 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566676666544433 3333333366888999999998764
No 27
>TIGR01144 ATP_synt_b ATP synthase, F0 subunit b. This model describes the F1/F0 ATP synthase b subunit in bacteria only. Scoring just below the trusted cutoff are the N-terminal domains of Mycobacterial b/delta fusion proteins and a subunit from an archaeon, Methanosarcina barkeri, in which the ATP synthase homolog differs in architecture and is not experimentally confirmed. This model helps resolve b from the related b' subunit. Within the family is an example from a sodium-translocating rather than proton-translocating ATP synthase.
Probab=59.66 E-value=51 Score=22.19 Aligned_cols=39 Identities=10% Similarity=0.128 Sum_probs=25.0
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKERDSL 74 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~ErdsL 74 (85)
+.++|++|. ++.+.|.++.+....++..+.+.+......
T Consensus 20 i~~~l~~R~~~I~~~l~~A~~~~~ea~~~~~e~~~~l~~A 59 (147)
T TIGR01144 20 LAKAIETRQKKIADGLASAERAKKEAALAQKKAQVILKEA 59 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567787774 566777777777776666655555444433
No 28
>KOG0018|consensus
Probab=59.56 E-value=46 Score=31.42 Aligned_cols=54 Identities=24% Similarity=0.289 Sum_probs=31.7
Q ss_pred CCCCCCCCCCcChHHHHHHHhhhhhHHHHHHHHHHHHH---HHHHHhHHHHHHHHHHHHHH
Q psy2906 19 GQRGSLFSGEDANFEQLMVTMFDEKDKLLDNLRETQDR---LSETSGKLSMVEKERDSLQR 76 (85)
Q Consensus 19 ~~~~~~~~~~~~nfEqLMvnMLdERDkLle~LretQe~---L~~~q~rL~eve~ErdsLqr 76 (85)
+||+++..=++-.|.|||- -|+||++.|.+.|.+ +...+.+...++..+-.++.
T Consensus 641 sGG~s~~~wdek~~~~L~~----~k~rl~eel~ei~~~~~e~~~v~~~i~~le~~~~~~~~ 697 (1141)
T KOG0018|consen 641 SGGSSGAKWDEKEVDQLKE----KKERLLEELKEIQKRRKEVSSVESKIHGLEMRLKYSKL 697 (1141)
T ss_pred cCCccCCCcCHHHHHHHHH----HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 4444432224567888885 599999999998873 22333344444444444443
No 29
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=59.50 E-value=65 Score=23.81 Aligned_cols=17 Identities=35% Similarity=0.618 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHhh
Q psy2906 64 LSMVEKERDSLQRQIAA 80 (85)
Q Consensus 64 L~eve~ErdsLqrQl~~ 80 (85)
+..|+.|||.|.+.|..
T Consensus 116 ~~kle~ErdeL~~kf~~ 132 (201)
T PF13851_consen 116 FEKLEQERDELYRKFES 132 (201)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44666666666665554
No 30
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=59.15 E-value=48 Score=24.59 Aligned_cols=36 Identities=14% Similarity=0.305 Sum_probs=22.2
Q ss_pred HHHhhhhh-HHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q psy2906 36 MVTMFDEK-DKLLDNLRETQDRLSETSGKLSMVEKER 71 (85)
Q Consensus 36 MvnMLdER-DkLle~LretQe~L~~~q~rL~eve~Er 71 (85)
+.++|++| +++-+.|.++.....+++..+++.+...
T Consensus 78 I~~vLe~R~~~I~~~L~~Ae~~k~eAe~~~~~ye~~L 114 (204)
T PRK09174 78 IGGIIETRRDRIAQDLDQAARLKQEADAAVAAYEQEL 114 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566776 5667777777776666666655444443
No 31
>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=59.12 E-value=36 Score=20.25 Aligned_cols=30 Identities=17% Similarity=0.365 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 50 LRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 50 LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
+...+..+...+.++++...+++.|+.++.
T Consensus 19 ~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~ 48 (80)
T PF04977_consen 19 YYQLNQEIAELQKEIEELKKENEELKEEIE 48 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455566666666666666666666554
No 32
>PF06673 L_lactis_ph-MCP: Lactococcus lactis bacteriophage major capsid protein; InterPro: IPR009559 This family consists of several Lactococcus lactis bacteriophage major capsid proteins.
Probab=58.21 E-value=21 Score=28.64 Aligned_cols=44 Identities=23% Similarity=0.446 Sum_probs=34.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhCCCC
Q psy2906 42 EKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAASLPQR 85 (85)
Q Consensus 42 ERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~~lpq~ 85 (85)
|....+.+..|+-....+...|..|+-+||+.|+..-.+++|.+
T Consensus 5 etqemmkqaieagvkvreleakveelnkereelkkereanipse 48 (347)
T PF06673_consen 5 ETQEMMKQAIEAGVKVRELEAKVEELNKEREELKKEREANIPSE 48 (347)
T ss_pred HHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHhhhcCCCCC
Confidence 44455666666666667778889999999999999988888864
No 33
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=57.93 E-value=34 Score=22.59 Aligned_cols=31 Identities=16% Similarity=0.442 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q psy2906 44 DKLLDNLRETQDRLSETSGKLSMVEKERDSL 74 (85)
Q Consensus 44 DkLle~LretQe~L~~~q~rL~eve~ErdsL 74 (85)
+||..-+..|.+..++.|.||++++..+-.+
T Consensus 4 eKi~~eieK~k~Kiae~Q~rlK~Le~qk~E~ 34 (83)
T PF14193_consen 4 EKIRAEIEKTKEKIAELQARLKELEAQKTEA 34 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888889999999999999888766544
No 34
>PF15294 Leu_zip: Leucine zipper
Probab=57.86 E-value=44 Score=26.66 Aligned_cols=33 Identities=33% Similarity=0.505 Sum_probs=25.7
Q ss_pred ChHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHh
Q psy2906 30 ANFEQLMVTMFDEKDKLLDNLRETQDRLSETSG 62 (85)
Q Consensus 30 ~nfEqLMvnMLdERDkLle~LretQe~L~~~q~ 62 (85)
..+|..-..+|+|+.||-.+|.++|.-.+....
T Consensus 149 ~~le~~at~~l~Ek~kl~~~L~~lq~~~~~~~~ 181 (278)
T PF15294_consen 149 KSLEKQATSALDEKSKLEAQLKELQDEQGDQKG 181 (278)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 356777889999999999999999984444444
No 35
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=57.66 E-value=59 Score=24.72 Aligned_cols=38 Identities=8% Similarity=0.349 Sum_probs=23.0
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKERDS 73 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~Erds 73 (85)
+.++|++|. ++-..|.++.+....++..+++.++....
T Consensus 30 i~~~l~eR~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~ 68 (250)
T PRK14474 30 IIQVMKKRQQRIANRWQDAEQRQQEAGQEAERYRQKQQS 68 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567788875 56667777777666665554444443333
No 36
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=56.87 E-value=59 Score=22.04 Aligned_cols=40 Identities=15% Similarity=0.216 Sum_probs=24.1
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKERDSLQ 75 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~ErdsLq 75 (85)
+.++|++|. ++.+.|.++......++..+++.+......+
T Consensus 29 i~~~l~~R~~~I~~~l~~a~~~~~~a~~~~~e~~~~l~~a~ 69 (156)
T PRK05759 29 IMKALEERQKKIADGLAAAERAKKELELAQAKYEAQLAEAR 69 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677774 5566677776666666666655554444433
No 37
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=56.71 E-value=62 Score=22.47 Aligned_cols=38 Identities=18% Similarity=0.329 Sum_probs=22.9
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKERDS 73 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~Erds 73 (85)
+.++|++|. ++-+.|.++.+...+++..+.+.+.....
T Consensus 47 i~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~L~~ 85 (156)
T CHL00118 47 LLKVLDERKEYIRKNLTKASEILAKANELTKQYEQELSK 85 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455667775 55667777776666666665544444333
No 38
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 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. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=56.46 E-value=34 Score=23.81 Aligned_cols=35 Identities=23% Similarity=0.359 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhh
Q psy2906 47 LDNLRETQDRLSETSGKLSMVEKERDSLQRQIAAS 81 (85)
Q Consensus 47 le~LretQe~L~~~q~rL~eve~ErdsLqrQl~~~ 81 (85)
+..+++.++.+..+...++++-+|.+.|..++...
T Consensus 103 ~~~i~~L~~E~~~~~~el~~~v~e~e~ll~~v~~~ 137 (144)
T PF11221_consen 103 LKRIKELEEENEEAEEELQEAVKEAEELLKQVQEL 137 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888888888999999999999998888754
No 39
>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=56.00 E-value=70 Score=23.73 Aligned_cols=44 Identities=32% Similarity=0.444 Sum_probs=37.0
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 36 MVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 36 MvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
|..+=++=|..-+.+..++..|..+..++..++.+-.+|+|.+.
T Consensus 3 ~~~l~~eld~~~~~~~~~~~~l~~~~~~~~~aE~e~~~l~rri~ 46 (237)
T PF00261_consen 3 IQQLKDELDEAEERLEEAEEKLKEAEKRAEKAEAEVASLQRRIQ 46 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555777888889999999999999999999999999998664
No 40
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=55.95 E-value=62 Score=22.96 Aligned_cols=35 Identities=20% Similarity=0.283 Sum_probs=21.0
Q ss_pred HHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHHH
Q psy2906 37 VTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKER 71 (85)
Q Consensus 37 vnMLdERD-kLle~LretQe~L~~~q~rL~eve~Er 71 (85)
.++|++|. ++.+.|.++.+...+++..+.+.+...
T Consensus 53 ~~~L~~R~~~I~~~l~~Ae~~~~eA~~~l~e~e~~L 88 (184)
T PRK13455 53 GGMLDKRAEGIRSELEEARALREEAQTLLASYERKQ 88 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667764 566677777666666666555444433
No 41
>PF08912 Rho_Binding: Rho Binding; InterPro: IPR015008 Rho is responsible for the recognition and binding of Rho binding domain-containing proteins (such as ROCK) to Rho, resulting in activation of the GTPase which in turn modulates the phosphorylation of various signalling proteins. This domain is within an amphipathic alpha-helical coiled-coil and interacts with Rho through predominantly hydrophobic interactions []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0000910 cytokinesis, 0006468 protein phosphorylation; PDB: 1UIX_A 1S1C_X.
Probab=55.39 E-value=52 Score=21.38 Aligned_cols=43 Identities=19% Similarity=0.369 Sum_probs=31.9
Q ss_pred HHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 37 VTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 37 vnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
-++-.|.+-|...|++.|+.|......-+++..-+.++..+|+
T Consensus 6 ~~l~~EkeeL~~klk~~qeel~~~k~~~~~~~~ik~~~eK~L~ 48 (69)
T PF08912_consen 6 ANLAKEKEELNNKLKKQQEELQKLKEEEQEIEEIKAQYEKQLN 48 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHCHH
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566899999999999999987766666556666666555544
No 42
>PRK11637 AmiB activator; Provisional
Probab=54.93 E-value=83 Score=25.14 Aligned_cols=31 Identities=23% Similarity=0.369 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy2906 46 LLDNLRETQDRLSETSGKLSMVEKERDSLQR 76 (85)
Q Consensus 46 Lle~LretQe~L~~~q~rL~eve~ErdsLqr 76 (85)
|...|..++..+..++.++++++++.+.++.
T Consensus 80 l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~ 110 (428)
T PRK11637 80 QEEAISQASRKLRETQNTLNQLNKQIDELNA 110 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333444444444444444444444443
No 43
>PF09766 FimP: Fms-interacting protein; InterPro: IPR019163 This entry represents Thoc5 which is one of the subunits of the THO complex, which additionally contains: HPR1, Thoc2, Thoc6 and Thoc7. The evolutionarily conserved multisubunit THO complex, which is recruited to actively transcribed genes is required for the efficient expression of genes that have internal tandem repeats. It is suggested that the THO complex functions to rectify aberrant structures that arise during transcription [, ] and is required for cell proliferation and for proper export of heat-shock mRNAs under heat stress []. This entry also identifies the crucial 144 N-terminal residues of the FmiP protein, which is essential for the binding of the protein to the cytoplasmic domain of activated Fms-molecules in M-CSF induced haematopoietic differentiation of macrophages. The C terminus contains a putative nuclear localisation sequence and a leucine zipper which suggest further, as yet unknown, nuclear functions. The level of FMIP expression might form a threshold that determines whether cells differentiate into macrophages or into granulocytes [].
Probab=54.49 E-value=71 Score=25.51 Aligned_cols=51 Identities=24% Similarity=0.338 Sum_probs=36.4
Q ss_pred cChHHHHHHHhh----hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 29 DANFEQLMVTMF----DEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 29 ~~nfEqLMvnML----dERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
..+=-++|+.-| .+|-+|.+.+.+.+.+....+.-.+.-.+.-++|.-+|.
T Consensus 85 ~~~~H~lml~RL~~EL~~Rk~L~~~~~el~~~k~~l~~~~~~k~~~L~~l~~~L~ 139 (355)
T PF09766_consen 85 EDDEHQLMLARLEFELEQRKRLEEQLKELEQRKKKLQQENKKKKKFLDSLPPQLK 139 (355)
T ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 345568888887 799999999998888777766665555555555555544
No 44
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=54.44 E-value=69 Score=22.08 Aligned_cols=31 Identities=3% Similarity=0.168 Sum_probs=18.0
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSM 66 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~e 66 (85)
+.++|++|. ++-..|.++.+....++..+.+
T Consensus 30 i~~~l~~R~~~I~~~l~~A~~~~~eA~~~~~e 61 (159)
T PRK13461 30 IKAVIDSRQSEIDNKIEKADEDQKKARELKLK 61 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567788875 4555666655555554444433
No 45
>PF11461 RILP: Rab interacting lysosomal protein; InterPro: IPR021563 RILP contains a domain which contains two coiled-coil regions and is found mainly in the cytosol. RILP is recruited onto late endosomal and lysosomal membranes by Rab7 and acts as a downstream effector of Rab7. This recruitment process is important for phagosome maturation and fusion with late endosomes and lysosomes. ; PDB: 1YHN_B.
Probab=54.17 E-value=13 Score=23.49 Aligned_cols=18 Identities=28% Similarity=0.409 Sum_probs=14.5
Q ss_pred hHHHHHHHHHHHHHHHHh
Q psy2906 62 GKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 62 ~rL~eve~ErdsLqrQl~ 79 (85)
.-|++|.+||+.|+.++-
T Consensus 3 ~ELr~VL~ERNeLK~~v~ 20 (60)
T PF11461_consen 3 QELREVLQERNELKARVF 20 (60)
T ss_dssp TTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 358899999999998764
No 46
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=53.45 E-value=72 Score=21.99 Aligned_cols=39 Identities=15% Similarity=0.295 Sum_probs=24.6
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKERDSL 74 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~ErdsL 74 (85)
+.++|++|. ++.+.|.++.+....++..+.+.+.+....
T Consensus 27 i~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~~~e~~L~~A 66 (159)
T PRK09173 27 IARSLDARADRIKNELAEARRLREEAQQLLAEYQRKRKEA 66 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567787774 566777777777666666555554444433
No 47
>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=52.35 E-value=87 Score=22.63 Aligned_cols=49 Identities=16% Similarity=0.399 Sum_probs=39.8
Q ss_pred hHHHHHHHhhhhhHHHHHH-----HHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 31 NFEQLMVTMFDEKDKLLDN-----LRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 31 nfEqLMvnMLdERDkLle~-----LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
+||.=+..|..+|...+++ -...|..+..+++||.-|.+-...+-++|.
T Consensus 116 e~erRL~~mi~~~e~~l~~~~~~~~~~lq~ei~a~e~RL~RCr~Ai~~iE~~I~ 169 (173)
T PF07445_consen 116 EYERRLLAMIQEREQQLEQAQSFEQQQLQQEILALEQRLQRCRQAIEKIEEQIQ 169 (173)
T ss_pred HHHHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666699999999999884 345677899999999999888888877664
No 48
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=52.24 E-value=78 Score=23.37 Aligned_cols=46 Identities=28% Similarity=0.460 Sum_probs=38.1
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy2906 31 NFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQR 76 (85)
Q Consensus 31 nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqr 76 (85)
.-+.+|-..--|..+|.+-|..++......+.+|+..++++-+|+.
T Consensus 45 ~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~kdK~~L~~ 90 (201)
T PF13851_consen 45 RNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNYEKDKQSLQN 90 (201)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456788888889999999999999999998888888888887764
No 49
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=51.55 E-value=59 Score=24.14 Aligned_cols=43 Identities=28% Similarity=0.389 Sum_probs=30.1
Q ss_pred HHhhhhhHHHHHHHHHH--HHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 37 VTMFDEKDKLLDNLRET--QDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 37 vnMLdERDkLle~Lret--Qe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
-+.-.+++||++-|..+ -+.+...+.+|.+++-+-|+++.|+.
T Consensus 142 ~~l~~~~~rl~~ll~ka~~~~d~l~ie~~L~~v~~eIe~~~~~~~ 186 (262)
T PF14257_consen 142 KNLEAEEERLLELLEKAKTVEDLLEIERELSRVRSEIEQLEGQLK 186 (262)
T ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34446778888877755 34555777778888888888877664
No 50
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=51.17 E-value=54 Score=26.54 Aligned_cols=36 Identities=19% Similarity=0.444 Sum_probs=31.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHH-------HHHHHHHHHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLS-------MVEKERDSLQR 76 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~-------eve~ErdsLqr 76 (85)
+||.+|+.+|...+.+....+.-++ |+..|||..+.
T Consensus 126 ~ere~lV~qLEk~~~q~~qLe~d~qs~lDEkeEl~~ERD~yk~ 168 (319)
T PF09789_consen 126 HEREDLVEQLEKLREQIEQLERDLQSLLDEKEELVTERDAYKC 168 (319)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999888887755 88889998876
No 51
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=50.38 E-value=97 Score=22.85 Aligned_cols=38 Identities=3% Similarity=0.177 Sum_probs=22.7
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKERDS 73 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~Erds 73 (85)
+.++|++|. ++-+.|.++++...+++..+.+.++....
T Consensus 73 i~~~L~~R~~~I~~~L~~Ae~~~~eA~~~l~e~e~~L~~ 111 (205)
T PRK06231 73 TQRFLNKRKELIEAEINQANELKQQAQQLLENAKQRHEN 111 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677775 45666777766666666665544444333
No 52
>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins. The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction
Probab=50.29 E-value=56 Score=23.84 Aligned_cols=35 Identities=23% Similarity=0.355 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 45 KLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 45 kLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
+.++...+.|-.|...+.+-+.+-..||.|.|.|.
T Consensus 81 ~AYe~A~~lQ~~L~~~re~E~qLr~rRD~LErrl~ 115 (159)
T PF05384_consen 81 EAYEEAHELQVRLAMLREREKQLRERRDELERRLR 115 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677778888888888888888888888887553
No 53
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=50.04 E-value=58 Score=19.93 Aligned_cols=31 Identities=23% Similarity=0.339 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 49 NLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 49 ~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
..+..+..+...+.++.+.+.|.+.|+.+++
T Consensus 25 ~~~~~~~~~~~~~~~~~~l~~en~~L~~ei~ 55 (85)
T TIGR02209 25 QTRQLNNELQKLQLEIDKLQKEWRDLQLEVA 55 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567777788888888888888888887665
No 54
>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family. Members of this protein family are phage lysis regulatory protein, including the well-studied protein LysB (lysis protein B) of Enterobacteria phage P2. For members of this family, genes are found in phage or in prophage regions of bacterial genomes, typically near a phage lysozyme or phage holin.
Probab=50.02 E-value=40 Score=24.11 Aligned_cols=34 Identities=18% Similarity=0.425 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhCCC
Q psy2906 51 RETQDRLSETSGKLSMVEKERDSLQRQIAASLPQ 84 (85)
Q Consensus 51 retQe~L~~~q~rL~eve~ErdsLqrQl~~~lpq 84 (85)
..+...+..-+.++.++.+|.+.|++=-+++||-
T Consensus 71 ~~~~~~l~~re~~i~rL~~ENe~lR~Wa~t~LPd 104 (135)
T TIGR03495 71 AQARALLAQREQRIERLKRENEDLRRWADTPLPD 104 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHcCHHHHHHhcCCCcH
Confidence 3344445556667889999999999999999984
No 55
>PRK10093 primosomal replication protein N''; Provisional
Probab=48.84 E-value=1.1e+02 Score=22.81 Aligned_cols=50 Identities=16% Similarity=0.334 Sum_probs=41.6
Q ss_pred ChHHHHHHHhhhhhHHHHHHH------HHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 30 ANFEQLMVTMFDEKDKLLDNL------RETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 30 ~nfEqLMvnMLdERDkLle~L------retQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
-.||+=.+.|..+|...|++. ...|..|..+.+||.-|.+-...+.+++.
T Consensus 112 Qd~ERRL~~Mv~dre~~L~~a~~~~~qq~lq~el~alegRL~RCrqAl~~IE~~Ie 167 (171)
T PRK10093 112 QEFERRLLEMVAERRARLARATDLVEQQTLHREVEAYEGRLARCRHALEKIENVLA 167 (171)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 368888999999999999943 44688899999999999888777777765
No 56
>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=48.73 E-value=92 Score=25.30 Aligned_cols=45 Identities=13% Similarity=0.302 Sum_probs=32.8
Q ss_pred HHHhhhhhHHHHHHHHH--------HHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 36 MVTMFDEKDKLLDNLRE--------TQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 36 MvnMLdERDkLle~Lre--------tQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
.-.+++-|-.+-+...+ |+..+++++.||.|++++-..|+|+|..
T Consensus 262 vna~m~lr~~~qe~~e~~L~~LnlPTRsElDe~~krL~ELrR~vr~L~k~l~~ 314 (320)
T TIGR01834 262 INALMRLRIQQQEIVEALLKMLNLPTRSELDEAHQRIQQLRREVKSLKKRLGD 314 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555444444443 5677889999999999999999999875
No 57
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=48.24 E-value=96 Score=21.94 Aligned_cols=40 Identities=5% Similarity=0.143 Sum_probs=25.2
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMVEKERDSLQ 75 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~eve~ErdsLq 75 (85)
+..+|++|. ++.+.|.++......++..+.+.+......+
T Consensus 43 i~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~ 83 (173)
T PRK13453 43 LKDVMDKRERDINRDIDDAEQAKLNAQKLEEENKQKLKETQ 83 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556777775 4557777777777776666665554444433
No 58
>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants. The function of this family is unknown.
Probab=47.49 E-value=71 Score=28.72 Aligned_cols=44 Identities=27% Similarity=0.462 Sum_probs=37.3
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHH----HHHhHHHHHHHHHHHHHHHHh
Q psy2906 36 MVTMFDEKDKLLDNLRETQDRLS----ETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 36 MvnMLdERDkLle~LretQe~L~----~~q~rL~eve~ErdsLqrQl~ 79 (85)
+...|.+|++++.-|.+..-+.. ..+.||.-++||.-+|+-.++
T Consensus 111 l~~~l~~~~~~i~~l~~~~~~~e~~~~~l~~~l~~~eken~~Lkye~~ 158 (769)
T PF05911_consen 111 LSKALQEKEKLIAELSEEKSQAEAEIEDLMARLESTEKENSSLKYELH 158 (769)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788999999999998876654 677899999999999997665
No 59
>PRK11637 AmiB activator; Provisional
Probab=46.44 E-value=78 Score=25.29 Aligned_cols=32 Identities=28% Similarity=0.483 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q psy2906 46 LLDNLRETQDRLSETSGKLSMVEKERDSLQRQ 77 (85)
Q Consensus 46 Lle~LretQe~L~~~q~rL~eve~ErdsLqrQ 77 (85)
+...|...+.+|..++.++.+.+.+.+.++.+
T Consensus 73 ~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~e 104 (428)
T PRK11637 73 LLAQLKKQEEAISQASRKLRETQNTLNQLNKQ 104 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333444444444444433
No 60
>smart00030 CLb CLUSTERIN Beta chain.
Probab=46.25 E-value=67 Score=24.85 Aligned_cols=33 Identities=21% Similarity=0.298 Sum_probs=25.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKERDS 73 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~Erds 73 (85)
+||-+||.+|.+|++.-.+|....+|++.--..
T Consensus 43 eeh~~ll~tLe~~kk~KeeAlk~~~e~e~kL~E 75 (206)
T smart00030 43 KERKSLLSTLEEAKKKKEEALKDTRESEEKLKE 75 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999999998887777776666654433
No 61
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=45.93 E-value=64 Score=29.36 Aligned_cols=41 Identities=24% Similarity=0.378 Sum_probs=36.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhh
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAAS 81 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~~ 81 (85)
..|.+....|+++++.|......+.++++.-+.|.+|.+.+
T Consensus 172 ~r~~ea~~~L~~~~~nl~~~~~~~~el~~~l~~L~~q~~~a 212 (1163)
T COG1196 172 ERKEEAERKLERTEENLERLEDLLEELEKQLEKLERQAEKA 212 (1163)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67888999999999999999999999999999999987754
No 62
>KOG1962|consensus
Probab=45.81 E-value=67 Score=24.80 Aligned_cols=38 Identities=29% Similarity=0.432 Sum_probs=27.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 43 KDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 43 RDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
-|++.+-+...++.|...+.+|...++..+.|+.|.+.
T Consensus 153 ~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~ 190 (216)
T KOG1962|consen 153 NDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEG 190 (216)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666666666777777777777777777777777653
No 63
>TIGR02492 flgK_ends flagellar hook-associated protein FlgK. The flagellar hook-associated protein FlgK of bacterial flagella has conserved N- and C-terminal domains. The central region is highly variable in length and sequence, and often contains substantial runs of low-complexity sequence. This model is built from an alignment of FlgK sequences with the central region excised. Note that several other proteins of the flagellar apparatus also are homologous in the N- and C-terminal regions to FlgK, but are excluded from this model.
Probab=45.39 E-value=16 Score=28.25 Aligned_cols=15 Identities=33% Similarity=0.669 Sum_probs=13.4
Q ss_pred hhhhhHHHHHHHHHH
Q psy2906 39 MFDEKDKLLDNLRET 53 (85)
Q Consensus 39 MLdERDkLle~Lret 53 (85)
+||+||+|++.|-+.
T Consensus 196 L~DqRD~ll~~LS~~ 210 (322)
T TIGR02492 196 LLDQRDLLLKELSQL 210 (322)
T ss_pred hHHHHHHHHHHHHhH
Confidence 889999999999764
No 64
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=44.95 E-value=87 Score=22.49 Aligned_cols=39 Identities=33% Similarity=0.563 Sum_probs=32.0
Q ss_pred CcChHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHH
Q psy2906 28 EDANFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSM 66 (85)
Q Consensus 28 ~~~nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~e 66 (85)
+..++|.+.....++=+.+.+.+.+.+.++.....+++.
T Consensus 40 ~~~~lE~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 78 (151)
T PF14584_consen 40 DGKNLEDLLNELFDQIDELKEELEELEKRIEELEEKLRN 78 (151)
T ss_pred CcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345899999999999888888888888888887777654
No 65
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=44.86 E-value=38 Score=22.36 Aligned_cols=24 Identities=33% Similarity=0.436 Sum_probs=20.0
Q ss_pred HHHHhhhhhHHHHHHHHHHHHHHH
Q psy2906 35 LMVTMFDEKDKLLDNLRETQDRLS 58 (85)
Q Consensus 35 LMvnMLdERDkLle~LretQe~L~ 58 (85)
+++++||+.+.|-..++..+.+|.
T Consensus 72 lvl~LLd~i~~Lr~el~~L~~~l~ 95 (101)
T PRK10265 72 VALTLLDEIAHLKQENRLLRQRLS 95 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 489999999999888888877663
No 66
>KOG3047|consensus
Probab=44.68 E-value=65 Score=23.89 Aligned_cols=31 Identities=29% Similarity=0.220 Sum_probs=20.5
Q ss_pred HhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q psy2906 38 TMFDEKDKLLDNLRETQDRLSETSGKLSMVEK 69 (85)
Q Consensus 38 nMLdERDkLle~LretQe~L~~~q~rL~eve~ 69 (85)
.-+||||||++++.++- .|-.+-.||.+.-|
T Consensus 34 k~~d~~dKl~eQ~aeY~-kLk~t~eRL~eaah 64 (157)
T KOG3047|consen 34 KEEDEFDKLQEQCAEYA-KLKFTCERLLEAAH 64 (157)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHhch
Confidence 34599999999987763 45555555555443
No 67
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=43.97 E-value=84 Score=20.03 Aligned_cols=41 Identities=20% Similarity=0.320 Sum_probs=35.4
Q ss_pred cChHHHHHHHhh--------hhhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q psy2906 29 DANFEQLMVTMF--------DEKDKLLDNLRETQDRLSETSGKLSMVEK 69 (85)
Q Consensus 29 ~~nfEqLMvnML--------dERDkLle~LretQe~L~~~q~rL~eve~ 69 (85)
..||...+-+.| +|=|-+-.-|..|++.|.....|++++|.
T Consensus 30 e~~~r~~l~~~l~kldlVtREEFd~q~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 30 EKNIRARLQSALSKLDLVTREEFDAQKAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 478888888887 78888999999999999999999998874
No 68
>PRK15366 type III secretion system chaperone SsaE; Provisional
Probab=43.91 E-value=52 Score=22.09 Aligned_cols=24 Identities=33% Similarity=0.569 Sum_probs=18.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHH
Q psy2906 42 EKDKLLDNLRETQDRLSETSGKLS 65 (85)
Q Consensus 42 ERDkLle~LretQe~L~~~q~rL~ 65 (85)
+-+.+++.|++.+.+|..+=++.+
T Consensus 17 ~a~~~i~~L~aa~~rL~~al~~P~ 40 (80)
T PRK15366 17 EAKGIILQLRAARKQLEENNGKLQ 40 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCC
Confidence 347788888988888888766644
No 69
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=43.74 E-value=1e+02 Score=27.31 Aligned_cols=48 Identities=17% Similarity=0.295 Sum_probs=35.8
Q ss_pred cChHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy2906 29 DANFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQR 76 (85)
Q Consensus 29 ~~nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqr 76 (85)
..+|+.|+-.+=++|..+-+..++....+.+++...++++++++.|..
T Consensus 515 ~~~~~~li~~l~~~~~~~e~~~~~~~~~~~e~~~~~~~l~~~~~~l~~ 562 (782)
T PRK00409 515 KEKLNELIASLEELERELEQKAEEAEALLKEAEKLKEELEEKKEKLQE 562 (782)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468999998888888887777777777777777776666666666554
No 70
>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=43.72 E-value=1e+02 Score=22.86 Aligned_cols=46 Identities=26% Similarity=0.307 Sum_probs=29.5
Q ss_pred HHHHHhhhhhHHHHHHHHHHHHHHHHHHhH-------HHHHHHHHHHHHHHHh
Q psy2906 34 QLMVTMFDEKDKLLDNLRETQDRLSETSGK-------LSMVEKERDSLQRQIA 79 (85)
Q Consensus 34 qLMvnMLdERDkLle~LretQe~L~~~q~r-------L~eve~ErdsLqrQl~ 79 (85)
+.+-..-+|+..|+..++.....+...+.. +...+++.++|++|+.
T Consensus 42 ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~ 94 (251)
T PF11932_consen 42 KRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIE 94 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 335556678888877777766666555544 4456666667766655
No 71
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=43.39 E-value=1.1e+02 Score=21.19 Aligned_cols=32 Identities=9% Similarity=0.302 Sum_probs=18.9
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMV 67 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~ev 67 (85)
+.++|++|. ++-+.|.++...-..++..+.+.
T Consensus 33 i~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~ 65 (164)
T PRK14473 33 VLNLLNERTRRIEESLRDAEKVREQLANAKRDY 65 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567778775 45566666665555555544433
No 72
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=43.07 E-value=94 Score=24.44 Aligned_cols=45 Identities=24% Similarity=0.394 Sum_probs=25.7
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q psy2906 31 NFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQ 75 (85)
Q Consensus 31 nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLq 75 (85)
.++.=+-.+-.|..+|.+.|.+.+..-......+.+++.+...++
T Consensus 47 ~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~ 91 (314)
T PF04111_consen 47 ELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELD 91 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455566666666666666666555555555555555544
No 73
>KOG4286|consensus
Probab=42.74 E-value=32 Score=31.71 Aligned_cols=33 Identities=33% Similarity=0.325 Sum_probs=29.2
Q ss_pred hHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q psy2906 43 KDKLLDNLRETQDRLSETSGKLSMVEKERDSLQ 75 (85)
Q Consensus 43 RDkLle~LretQe~L~~~q~rL~eve~ErdsLq 75 (85)
=|+-|+.|+|.|..+++.+.+|.+.|.+|...+
T Consensus 222 v~~~le~l~elq~a~~el~~~l~~ae~~~~~w~ 254 (966)
T KOG4286|consen 222 IDETLERLQELQEATDELDLKLRQAEVIKGSWQ 254 (966)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHhhhhccc
Confidence 367899999999999999999999999986654
No 74
>PF01093 Clusterin: Clusterin; InterPro: IPR000753 Clusterin is a vertebrate glycoprotein [], the exact function of which is not yet clear. Clusterin expression is complex, appearing as different forms in different cell compartments. One set of proteins is directed for secretion, and other clusterin species are expressed in the cytoplasm and nucleus. The secretory form of the clusterin protein (sCLU) is targeted to the ER by an initial leader peptide. This ~60kDa pre-sCLU protein is further glycosylated and proteolytically cleaved into alpha- and beta-subunits, held together by disulphide bonds. External sCLU is an 80kDa protein and may act as a molecular chaperone, scavenging denatured proteins outside cells following specific stress-induced injury such as heat shock. sCLU possesses nonspecific binding activity to hydrophobic domains of various proteins in vitro []. A specific nuclear form of CLU (nCLU) acts as a pro-death signal, inhibiting cell growth and survival. The nCLU protein has two coiled-coil domains, one at its N terminus that is unable to bind Ku70, and a C-terminal coiled-coil domain that is uniquely able to associate with Ku70 and is minimally required for cell death. Clusterin is synthesized as a precursor polypeptide of about 400 amino acids which is post-translationally cleaved to form two subunits of about 200 amino acids each. The two subunits are linked by five disulphide bonds to form an antiparallel ladder-like structure []. In each of the mature subunits the five cysteines that are involved in disulphide bonds are clustered in domains of about 30 amino acids located in the central part of the subunits. This entry represents the clusterin precursor and related proteins.; GO: 0008219 cell death
Probab=42.72 E-value=98 Score=26.14 Aligned_cols=37 Identities=16% Similarity=0.259 Sum_probs=28.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQ 77 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQ 77 (85)
+|+-+||.+|+++++.-.+|..-.+|++..-..-.++
T Consensus 37 eeh~~Lm~tL~k~kk~KeeAl~l~~e~e~kLee~e~~ 73 (436)
T PF01093_consen 37 EEHKELMKTLEKSKKEKEEALKLANEVEEKLEEEEEV 73 (436)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7888999999999988888777777776655444443
No 75
>KOG2685|consensus
Probab=42.09 E-value=99 Score=26.27 Aligned_cols=42 Identities=29% Similarity=0.487 Sum_probs=37.4
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 39 MFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 39 MLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
..+|=++|-+++.-.++.|++++.-|+.+.+-+..|++-|..
T Consensus 349 L~~EV~~l~~t~~~L~~kL~eA~~~l~~L~~~~~rLe~di~~ 390 (421)
T KOG2685|consen 349 LVDEVHELDDTVAALKEKLDEAEDSLKLLVNHRARLERDIAI 390 (421)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 458888999999999999999999999999999999986653
No 76
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=41.97 E-value=1.4e+02 Score=22.18 Aligned_cols=32 Identities=13% Similarity=0.295 Sum_probs=19.0
Q ss_pred HHHhhhhhHH-HHHHHHHHHHHHHHHHhHHHHH
Q psy2906 36 MVTMFDEKDK-LLDNLRETQDRLSETSGKLSMV 67 (85)
Q Consensus 36 MvnMLdERDk-Lle~LretQe~L~~~q~rL~ev 67 (85)
+.++|++|.+ +-+.|.++.+...+++..+++.
T Consensus 30 i~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~ 62 (246)
T TIGR03321 30 ILDAMDAREKKIAGELADADTKKREAEQERREY 62 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677888754 5556666666555555444433
No 77
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=41.46 E-value=92 Score=20.79 Aligned_cols=39 Identities=28% Similarity=0.457 Sum_probs=30.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHH----------HHHHHHHHHHHHHh
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLS----------MVEKERDSLQRQIA 79 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~----------eve~ErdsLqrQl~ 79 (85)
-|=|++=|.+..+..+|.....||. +.++|..++..++.
T Consensus 5 ~eId~lEekl~~cr~~le~ve~rL~~~eLs~e~R~~lE~E~~~l~~~l~ 53 (85)
T PF15188_consen 5 KEIDGLEEKLAQCRRRLEAVESRLRRRELSPEARRSLEKELNELKEKLE 53 (85)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHcccCCChHHHHHHHHHHHHHHHHhh
Confidence 4557888888899999998888876 67777777776665
No 78
>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants. The function of this family is unknown.
Probab=39.24 E-value=1.1e+02 Score=27.46 Aligned_cols=45 Identities=24% Similarity=0.353 Sum_probs=39.6
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 36 MVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 36 MvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
.-.+-.+..+|-..|.++++.|..++.+|+|.+..-..|+.+|..
T Consensus 598 lE~le~eK~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL~~ 642 (769)
T PF05911_consen 598 LEKLESEKEELEMELASCQDQLESLKNQLKESEQKLEELQSELES 642 (769)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456668889999999999999999999999999999999988874
No 79
>KOG4398|consensus
Probab=38.94 E-value=1.1e+02 Score=25.43 Aligned_cols=47 Identities=15% Similarity=0.265 Sum_probs=39.6
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q psy2906 31 NFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQ 77 (85)
Q Consensus 31 nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQ 77 (85)
.+||++-.==+||.|-.+.|+.+.|-+...-+|++-.+..||.+||.
T Consensus 9 ~~~~~i~k~nee~~~~~~~~~k~~e~~qkl~sr~~~~~ekke~i~r~ 55 (359)
T KOG4398|consen 9 QLKQTICKGNEEMEKNSEGLLKTKEKNQKLYSRAQRHQEKKEKIQRH 55 (359)
T ss_pred HHHHHHhcCcHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34555555568999999999999999999999999999999999984
No 80
>KOG0999|consensus
Probab=38.39 E-value=74 Score=28.66 Aligned_cols=40 Identities=33% Similarity=0.426 Sum_probs=33.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
++|-||-+-|+|++.+=+-.-+-..|++.|..+||.|++.
T Consensus 149 ~qR~rlr~elKe~KfRE~RllseYSELEEENIsLQKqVs~ 188 (772)
T KOG0999|consen 149 DQRRRLRDELKEYKFREARLLSEYSELEEENISLQKQVSN 188 (772)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHH
Confidence 6788888888888888777777788999999999998864
No 81
>KOG4559|consensus
Probab=37.91 E-value=1.5e+02 Score=21.15 Aligned_cols=46 Identities=26% Similarity=0.410 Sum_probs=28.6
Q ss_pred cccccCCCCC-CCCCCCC--CCCcChHHHHHHHhhh--------------hhHHHHHHHHHHH
Q psy2906 9 MPTISEDVVP-GQRGSLF--SGEDANFEQLMVTMFD--------------EKDKLLDNLRETQ 54 (85)
Q Consensus 9 MPTIsEd~~~-~~~~~~~--~~~~~nfEqLMvnMLd--------------ERDkLle~LretQ 54 (85)
||.|+|-++. +..++.+ ..-+.|+-||--+|.| |--||||..-.+.
T Consensus 1 l~d~~e~a~TlsSa~~~~a~~~~~PhirqLAdkM~dKt~ef~qHeLe~~iEdYKLLEeMNkaT 63 (120)
T KOG4559|consen 1 LADINEHAPTLSSAPPFEALPAHDPHIRQLADKMFDKTEEFFQHELEAPIEDYKLLEEMNKAT 63 (120)
T ss_pred CCCccccCCcccCCCCCcCCCCCCccHHHHHHHHHHhHHHHHHHHHcCcHHHHHHHHHHHHHH
Confidence 4667766532 1222221 1346899999999985 4568888877654
No 82
>PF11577 NEMO: NF-kappa-B essential modulator NEMO; InterPro: IPR021063 This entry represents a conserved domain found at the N-terminal of NF-kappa-B essential modulator (NEMO) and optineurin proteins. NEMO is a regulatory protein which is part of the IKK complex along with the catalytic IKKalpha and beta kinases. The IKK complex phosphorylates IkappaB targeting it for degradation which results in the release of NF-kappaB which initiates the inflammatory response, cell proliferation or cell differentiation []. NEMO activates the IKK complex's activity by associating with the unphosphorylated IKK kinase C termini. The core domain of NEMO is a dimer which binds to two fragments of IKK []. ; PDB: 3BRT_B 3BRV_D.
Probab=37.83 E-value=1.1e+02 Score=19.56 Aligned_cols=48 Identities=21% Similarity=0.355 Sum_probs=35.1
Q ss_pred HHHHHHhhhhhHHHHHHHHHHHHHH----HHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 33 EQLMVTMFDEKDKLLDNLRETQDRL----SETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 33 EqLMvnMLdERDkLle~LretQe~L----~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
-+-|-..|.|+.+|=|+|+-+-..+ .....--.++-.+|+.+.++|..
T Consensus 5 ~~~l~~LL~EN~~LKealrQ~N~~Mker~e~l~~wqe~~~~e~~~~~~kf~E 56 (68)
T PF11577_consen 5 QQQLQELLQENQDLKEALRQNNQAMKERFEELLAWQEKQKEEREFLERKFQE 56 (68)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567889999999999999775443 44444445788899999988874
No 83
>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=37.79 E-value=90 Score=27.96 Aligned_cols=38 Identities=26% Similarity=0.357 Sum_probs=22.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 43 KDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 43 RDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
|.+|-+-++|++.+=.-.=+-..|+|-|+.+||.|++.
T Consensus 78 ~~~lr~e~ke~K~rE~rll~dyselEeENislQKqvs~ 115 (717)
T PF09730_consen 78 RKRLREEIKEYKFREARLLQDYSELEEENISLQKQVSV 115 (717)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH
Confidence 33343444444333322223345999999999999874
No 84
>PF11172 DUF2959: Protein of unknown function (DUF2959); InterPro: IPR021342 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=37.76 E-value=1.1e+02 Score=23.61 Aligned_cols=39 Identities=18% Similarity=0.394 Sum_probs=26.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHH---------------HHHHHHHHHHHHHh
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLS---------------MVEKERDSLQRQIA 79 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~---------------eve~ErdsLqrQl~ 79 (85)
..||-|++-..++++++..++..++ ++++..+.|+.++.
T Consensus 21 hKRdilvdrVe~Ardsq~eaqeQF~sALe~f~sl~~~~ggdLe~~Y~~ln~~ye 74 (201)
T PF11172_consen 21 HKRDILVDRVEDARDSQQEAQEQFKSALEQFKSLVNFDGGDLEDKYNALNDEYE 74 (201)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCcHHHHHHHHHHHHH
Confidence 4677787777777777777766654 66677777776654
No 85
>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.
Probab=37.56 E-value=44 Score=26.16 Aligned_cols=34 Identities=24% Similarity=0.422 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2906 45 KLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 45 kLle~LretQe~L~~~q~rL~eve~ErdsLqrQl 78 (85)
++-..|.+++..|...+.+|++++..-..|+.++
T Consensus 225 ~a~~~l~~~~~~L~~~~~~l~~l~~~l~~l~~~~ 258 (344)
T PF12777_consen 225 EAEAELEEAEEQLAEKQAELAELEEKLAALQKEY 258 (344)
T ss_dssp HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333455555555555555555555444444444
No 86
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=36.98 E-value=1.1e+02 Score=19.44 Aligned_cols=33 Identities=18% Similarity=0.316 Sum_probs=17.9
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHH
Q psy2906 36 MVTMFDEKDKLLDNLRETQDRLSETSGKLSMVE 68 (85)
Q Consensus 36 MvnMLdERDkLle~LretQe~L~~~q~rL~eve 68 (85)
..++-.||+.|.+...-+..++...-.||+-.+
T Consensus 30 ~~~~~~ER~~L~ekne~Ar~rvEamI~RLk~le 62 (65)
T TIGR02449 30 EKTWREERAQLLEKNEQARQKVEAMITRLKALE 62 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence 344445566666555555555555555555443
No 87
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=36.82 E-value=1.4e+02 Score=20.61 Aligned_cols=32 Identities=9% Similarity=0.174 Sum_probs=17.7
Q ss_pred HHHhhhhhH-HHHHHHHHHHHHHHHHHhHHHHH
Q psy2906 36 MVTMFDEKD-KLLDNLRETQDRLSETSGKLSMV 67 (85)
Q Consensus 36 MvnMLdERD-kLle~LretQe~L~~~q~rL~ev 67 (85)
+.++|++|. ++-+.|.++...-..++..+.+.
T Consensus 33 i~~~l~~R~~~I~~~l~~A~~~~~ea~~~~~e~ 65 (164)
T PRK14471 33 ILGAVKEREDSIKNALASAEEARKEMQNLQADN 65 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677765 45555666655555555443333
No 88
>PRK08147 flgK flagellar hook-associated protein FlgK; Validated
Probab=36.81 E-value=24 Score=29.26 Aligned_cols=16 Identities=25% Similarity=0.681 Sum_probs=13.8
Q ss_pred HhhhhhHHHHHHHHHH
Q psy2906 38 TMFDEKDKLLDNLRET 53 (85)
Q Consensus 38 nMLdERDkLle~Lret 53 (85)
-+||+||+|++.|-+.
T Consensus 197 dL~DqRD~ll~eLS~~ 212 (547)
T PRK08147 197 DLLDQRDQLVSELNQI 212 (547)
T ss_pred hhHHHHHHHHHHHHhh
Confidence 3899999999999764
No 89
>cd07633 BAR_OPHN1 The Bin/Amphiphysin/Rvs (BAR) domain of Oligophrenin-1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Oligophrenin-1 (OPHN1) is a GTPase activating protein (GAP) with activity towards RhoA, Rac, and Cdc42, that is expressed in developing spinal cord and in adult brain areas with high plasticity. It plays a role in regulating the actin cystoskeleton as well as morphology changes in axons and dendrites, and may also function in modulating neuronal connectivity. Mutations in the OPHN1 gene causes X-linked mental retardation associated with cerebellar hypoplasia, lateral ventricle enlargement and epilepsy. OPHN1 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, and a Rho GAP domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=35.19 E-value=2.1e+02 Score=22.08 Aligned_cols=23 Identities=17% Similarity=0.397 Sum_probs=20.2
Q ss_pred ChHHHHHHHhhhhhHHHHHHHHH
Q psy2906 30 ANFEQLMVTMFDEKDKLLDNLRE 52 (85)
Q Consensus 30 ~nfEqLMvnMLdERDkLle~Lre 52 (85)
..|-+++-+|.++|++|+++...
T Consensus 70 ~~F~~~L~~ie~~r~~l~d~aq~ 92 (207)
T cd07633 70 KEFAELLQEVEEERMMMVQNASD 92 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 58999999999999999998643
No 90
>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=35.14 E-value=2e+02 Score=25.86 Aligned_cols=50 Identities=32% Similarity=0.482 Sum_probs=37.0
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 31 NFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 31 nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
.++|=...+=.|..-|+-+|+++|.+|..+++.|.+-...-..|..++++
T Consensus 269 KL~qQL~qve~EK~~L~~~L~e~Q~qLe~a~~als~q~eki~~L~e~l~a 318 (717)
T PF09730_consen 269 KLKQQLLQVEREKSSLLSNLQESQKQLEHAQGALSEQQEKINRLTEQLDA 318 (717)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555666645555599999999999999999988766666666666653
No 91
>PF12592 DUF3763: Protein of unknown function (DUF3763); InterPro: IPR022547 This domain is found in bacterial regulartory ATPases 3.6.3. from EC, and is approximately 60 amino acids in length. The domain is found C-terminal to PF07728 from PFAM. There is a single completely conserved residue F that may be functionally important. ; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances; PDB: 3NBX_X.
Probab=34.51 E-value=76 Score=19.54 Aligned_cols=22 Identities=18% Similarity=0.214 Sum_probs=10.6
Q ss_pred hHHHHHHHHHHHHHHHHhhhCC
Q psy2906 62 GKLSMVEKERDSLQRQIAASLP 83 (85)
Q Consensus 62 ~rL~eve~ErdsLqrQl~~~lp 83 (85)
.+|.+++++--.-+++|+.++|
T Consensus 7 ~qL~~~~~~l~~qR~~F~~~qP 28 (57)
T PF12592_consen 7 AQLDEAEHELRQQRSLFHQHQP 28 (57)
T ss_dssp HHHHHHHHHHHHHHHHHHTT--
T ss_pred HHHHHHHHHHHHHHHHHhhcCC
Confidence 3444455554455556666655
No 92
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.
Probab=34.28 E-value=1.2e+02 Score=24.35 Aligned_cols=38 Identities=24% Similarity=0.405 Sum_probs=26.3
Q ss_pred hHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 43 KDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 43 RDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
-+.+.+.+.+.+.++..++.++.+++...+.|+.++..
T Consensus 199 ~~~~~~~l~~l~~~l~~~~~~l~~~~a~~~~l~~~l~~ 236 (498)
T TIGR03007 199 EGDYYSEISEAQEELEAARLELNEAIAQRDALKRQLGG 236 (498)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 33455666777777777777777777777777777664
No 93
>TIGR00153 conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport.
Probab=34.04 E-value=1.8e+02 Score=20.96 Aligned_cols=54 Identities=19% Similarity=0.247 Sum_probs=39.7
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHH----HHHHHHHhHHHHHHHHHHHHHHHHhhhCCC
Q psy2906 31 NFEQLMVTMFDEKDKLLDNLRETQ----DRLSETSGKLSMVEKERDSLQRQIAASLPQ 84 (85)
Q Consensus 31 nfEqLMvnMLdERDkLle~LretQ----e~L~~~q~rL~eve~ErdsLqrQl~~~lpq 84 (85)
.|++.+-...+-=..|.+.+.... ........+++++||+=|.++|.+-..||+
T Consensus 15 ~l~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~I~~lE~eaD~i~~~i~~~L~~ 72 (216)
T TIGR00153 15 NERQHIEKVGECVQLLIKSFELLKSGNNEKDEELRKEIIEIEHEADEIKREIRLNLEK 72 (216)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcc
Confidence 788877666665555555555443 145677888999999999999998888775
No 94
>PRK07521 flgK flagellar hook-associated protein FlgK; Validated
Probab=33.96 E-value=28 Score=28.57 Aligned_cols=15 Identities=33% Similarity=0.694 Sum_probs=13.3
Q ss_pred hhhhhHHHHHHHHHH
Q psy2906 39 MFDEKDKLLDNLRET 53 (85)
Q Consensus 39 MLdERDkLle~Lret 53 (85)
++|+||+|++.|-+.
T Consensus 190 L~DqRD~ll~~LS~~ 204 (483)
T PRK07521 190 ALDQRDKLLKQISQI 204 (483)
T ss_pred hHHHHHHHHHHHHhh
Confidence 789999999999764
No 95
>KOG1510|consensus
Probab=33.93 E-value=1.2e+02 Score=22.26 Aligned_cols=32 Identities=16% Similarity=0.236 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhh
Q psy2906 50 LRETQDRLSETSGKLSMVEKERDSLQRQIAAS 81 (85)
Q Consensus 50 LretQe~L~~~q~rL~eve~ErdsLqrQl~~~ 81 (85)
+-+.|+...+.+.-|.++..+.+.|.+|+...
T Consensus 93 i~kLq~en~e~~~el~~~v~~~e~Ll~~vq~~ 124 (139)
T KOG1510|consen 93 IKKLQEENEEVALELEELVSKGEKLLEQVQSL 124 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566666667777777777777888877654
No 96
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=33.68 E-value=1.6e+02 Score=26.05 Aligned_cols=47 Identities=15% Similarity=0.169 Sum_probs=32.7
Q ss_pred cChHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q psy2906 29 DANFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQ 75 (85)
Q Consensus 29 ~~nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLq 75 (85)
..+|+.|+-.+-++|.++-+..++....+.+++...++++.+...|+
T Consensus 510 ~~~~~~li~~L~~~~~~~e~~~~~~~~~~~e~~~~~~~l~~~~~~l~ 556 (771)
T TIGR01069 510 KEEINVLIEKLSALEKELEQKNEHLEKLLKEQEKLKKELEQEMEELK 556 (771)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35788888888888887777777777777666666555555554444
No 97
>PRK06799 flgK flagellar hook-associated protein FlgK; Validated
Probab=32.27 E-value=31 Score=28.06 Aligned_cols=16 Identities=25% Similarity=0.684 Sum_probs=13.6
Q ss_pred HhhhhhHHHHHHHHHH
Q psy2906 38 TMFDEKDKLLDNLRET 53 (85)
Q Consensus 38 nMLdERDkLle~Lret 53 (85)
.+||+||+|++.|-+.
T Consensus 197 dL~DqRD~ll~eLS~~ 212 (431)
T PRK06799 197 QLLDERDRILTEMSKY 212 (431)
T ss_pred hhHHHHHHHHHHHHhh
Confidence 3789999999999764
No 98
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=32.18 E-value=1.8e+02 Score=22.49 Aligned_cols=41 Identities=17% Similarity=0.151 Sum_probs=27.2
Q ss_pred HHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 37 VTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 37 vnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
.++.+|.++|-+.+.+.+.++.. ..+++++|.+.|+.-|+.
T Consensus 69 ~~l~~EN~~Lr~e~~~l~~~~~~---~~~~l~~EN~rLr~LL~~ 109 (283)
T TIGR00219 69 NNLEYENYKLRQELLKKNQQLEI---LTQNLKQENVRLRELLNS 109 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhcC
Confidence 34557777777666655443332 345688999999987775
No 99
>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=32.10 E-value=1.4e+02 Score=19.14 Aligned_cols=33 Identities=21% Similarity=0.433 Sum_probs=16.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q psy2906 42 EKDKLLDNLRETQDRLSETSGKLSMVEKERDSL 74 (85)
Q Consensus 42 ERDkLle~LretQe~L~~~q~rL~eve~ErdsL 74 (85)
+++.|.....+..+.+......+.+++.+.+.+
T Consensus 68 ~~~~l~~e~~~lk~~i~~le~~~~~~e~~l~~~ 100 (108)
T PF02403_consen 68 DAEELKAEVKELKEEIKELEEQLKELEEELNEL 100 (108)
T ss_dssp CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555555555555444433
No 100
>COG5241 RAD10 Nucleotide excision repair endonuclease NEF1, RAD10 subunit [DNA replication, recombination, and repair]
Probab=31.46 E-value=34 Score=26.69 Aligned_cols=19 Identities=11% Similarity=0.338 Sum_probs=16.4
Q ss_pred CCcChHHHHHHHhhhhhHH
Q psy2906 27 GEDANFEQLMVTMFDEKDK 45 (85)
Q Consensus 27 ~~~~nfEqLMvnMLdERDk 45 (85)
-++..|||+.++.+++|.|
T Consensus 4 ~d~~~fe~i~~~~~~~~~~ 22 (224)
T COG5241 4 TDPTSFESILAGVAKLRKE 22 (224)
T ss_pred CchHHHHHHHHHHHHHHHh
Confidence 3567999999999999976
No 101
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=31.37 E-value=2e+02 Score=20.71 Aligned_cols=39 Identities=13% Similarity=0.216 Sum_probs=20.4
Q ss_pred HHHhhhhhHHH-HHHHHHHH-------HHHHHHHhHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKDKL-LDNLRETQ-------DRLSETSGKLSMVEKERDSL 74 (85)
Q Consensus 36 MvnMLdERDkL-le~LretQ-------e~L~~~q~rL~eve~ErdsL 74 (85)
+.+|||+|.+- -+.|.++. .-+...+.+|++...|.+..
T Consensus 29 I~~~LeeR~~~I~~~Ld~Ae~~r~eA~~l~~e~e~~L~~Ar~EA~~I 75 (154)
T PRK06568 29 ILNSLDAKILEVQEKVLKAEKLKEDAALLFEQTNAQIKKLETLRSQM 75 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67889888643 34444332 33344444455555554443
No 102
>COG1256 FlgK Flagellar hook-associated protein [Cell motility and secretion]
Probab=31.37 E-value=33 Score=29.39 Aligned_cols=15 Identities=33% Similarity=0.793 Sum_probs=12.9
Q ss_pred hhhhhHHHHHHHHHH
Q psy2906 39 MFDEKDKLLDNLRET 53 (85)
Q Consensus 39 MLdERDkLle~Lret 53 (85)
.||.||+|++.|.+.
T Consensus 199 LlDqRD~Lv~eLs~~ 213 (552)
T COG1256 199 LLDQRDQLVDELSQL 213 (552)
T ss_pred HHHHHHHHHHHHHhh
Confidence 589999999999763
No 103
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=31.21 E-value=2e+02 Score=20.62 Aligned_cols=33 Identities=6% Similarity=0.116 Sum_probs=17.6
Q ss_pred HHHhhhhhHHH-HHHHHHHHHHHHHHHhHHHHHH
Q psy2906 36 MVTMFDEKDKL-LDNLRETQDRLSETSGKLSMVE 68 (85)
Q Consensus 36 MvnMLdERDkL-le~LretQe~L~~~q~rL~eve 68 (85)
+.++|++|.+- -+.|.+..+...+++..+++.+
T Consensus 56 I~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~eye 89 (181)
T PRK13454 56 IGAVLAERQGTITNDLAAAEELKQKAVEAEKAYN 89 (181)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 44566887654 4455555555555544444333
No 104
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=31.11 E-value=1e+02 Score=25.21 Aligned_cols=21 Identities=29% Similarity=0.268 Sum_probs=12.4
Q ss_pred HHHhHHHHHHHHHHHHHHHHh
Q psy2906 59 ETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 59 ~~q~rL~eve~ErdsLqrQl~ 79 (85)
+||..|||+-+|-..|+--+.
T Consensus 114 EAQLALKEARkEIkQLkQvie 134 (305)
T PF15290_consen 114 EAQLALKEARKEIKQLKQVIE 134 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 355556677777666665443
No 105
>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.
Probab=30.95 E-value=1.3e+02 Score=18.31 Aligned_cols=33 Identities=30% Similarity=0.455 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2906 46 LLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 46 Lle~LretQe~L~~~q~rL~eve~ErdsLqrQl 78 (85)
.--.|-+.+..+...+.+|..+...++.+..++
T Consensus 3 a~~~l~~~~~~~~~~~~~l~~L~~~~~~~~~~~ 35 (123)
T PF02050_consen 3 AEQELAEAQQELQEAEEQLEQLQQERQEYQEQL 35 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444455555555555555555555554433
No 106
>KOG1760|consensus
Probab=30.95 E-value=1.8e+02 Score=21.19 Aligned_cols=36 Identities=28% Similarity=0.468 Sum_probs=22.0
Q ss_pred hHHHHHHHHHHHHHHHH----HHhHHHHHHHHHHHHHHHH
Q psy2906 43 KDKLLDNLRETQDRLSE----TSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 43 RDkLle~LretQe~L~~----~q~rL~eve~ErdsLqrQl 78 (85)
++++.+.|.++.++|.. ..+++.....+-+.|+.+|
T Consensus 79 ~~~~~~~LEe~ke~l~k~i~~les~~e~I~~~m~~LK~~L 118 (131)
T KOG1760|consen 79 LDKLQDQLEEKKETLEKEIEELESELESISARMDELKKVL 118 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68899999998887643 3333444444444454444
No 107
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=30.56 E-value=1.7e+02 Score=25.17 Aligned_cols=26 Identities=12% Similarity=0.318 Sum_probs=22.1
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 55 DRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 55 e~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
..+...+.||++.+.|...|+.|+.+
T Consensus 97 aq~~dle~KIkeLEaE~~~Lk~Ql~a 122 (475)
T PRK13729 97 KQRGDDQRRIEKLGQDNAALAEQVKA 122 (475)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHh
Confidence 56677888899999999999999864
No 108
>PRK12714 flgK flagellar hook-associated protein FlgK; Provisional
Probab=30.36 E-value=37 Score=29.12 Aligned_cols=15 Identities=27% Similarity=0.547 Sum_probs=13.2
Q ss_pred hhhhhHHHHHHHHHH
Q psy2906 39 MFDEKDKLLDNLRET 53 (85)
Q Consensus 39 MLdERDkLle~Lret 53 (85)
+||+||+|++.|-+.
T Consensus 193 LlDqRD~ll~eLS~~ 207 (624)
T PRK12714 193 LLDQRDALVSKLVGY 207 (624)
T ss_pred hHHHHHHHHHHHHhh
Confidence 799999999999753
No 109
>PF06548 Kinesin-related: Kinesin-related; InterPro: IPR010544 This entry represents a domain within kinesin-related proteins from higher plants. Many proteins containing this domain also contain the IPR001752 from INTERPRO domain. Kinesins are ATP-driven microtubule motor proteins that produce directed force []. Some family members are associated with the phragmoplast, a structure composed mainly of microtubules that executes cytokinesis in higher plants [].
Probab=30.29 E-value=1.3e+02 Score=26.15 Aligned_cols=30 Identities=27% Similarity=0.385 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 50 LRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 50 LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
|+|+-++...++-|...++.|.+.+..|++
T Consensus 436 l~eaeea~~~a~~r~~~~eqe~ek~~kqie 465 (488)
T PF06548_consen 436 LREAEEAASVAQERAMDAEQENEKAKKQIE 465 (488)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445556667777788888888888876
No 110
>KOG3650|consensus
Probab=30.08 E-value=1.4e+02 Score=21.20 Aligned_cols=36 Identities=28% Similarity=0.444 Sum_probs=31.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQR 76 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~ErdsLqr 76 (85)
+|.-||.-+.-|.|.+|+...+|..-|..|.=.|+.
T Consensus 56 EEKaRlItQVLELQnTLdDLSqRVdsVKEEnLKLrS 91 (120)
T KOG3650|consen 56 EEKARLITQVLELQNTLDDLSQRVDSVKEENLKLRS 91 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence 789999999999999999999999888777665553
No 111
>PRK07191 flgK flagellar hook-associated protein FlgK; Validated
Probab=30.08 E-value=36 Score=27.74 Aligned_cols=15 Identities=20% Similarity=0.461 Sum_probs=13.3
Q ss_pred hhhhhHHHHHHHHHH
Q psy2906 39 MFDEKDKLLDNLRET 53 (85)
Q Consensus 39 MLdERDkLle~Lret 53 (85)
+||+||+|++.|-+.
T Consensus 195 L~DqRD~ll~eLS~~ 209 (456)
T PRK07191 195 LLDQRDLQIKKLSGL 209 (456)
T ss_pred hHHHHHHHHHHHHhh
Confidence 789999999999764
No 112
>PF15458 NTR2: Nineteen complex-related protein 2
Probab=29.66 E-value=1.7e+02 Score=22.39 Aligned_cols=34 Identities=24% Similarity=0.471 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q psy2906 44 DKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQ 77 (85)
Q Consensus 44 DkLle~LretQe~L~~~q~rL~eve~ErdsLqrQ 77 (85)
.+|-.+|...+.+....+.+|..+.+|+..+..+
T Consensus 211 ~rL~~~l~~le~~~~~~~~~l~~l~~E~~~I~~r 244 (254)
T PF15458_consen 211 ERLRESLSSLEDSKSQLQQQLESLEKEKEEIEER 244 (254)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888999999999999999999999988877653
No 113
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=29.56 E-value=1.2e+02 Score=18.42 Aligned_cols=26 Identities=12% Similarity=0.364 Sum_probs=20.2
Q ss_pred HHhhhhhHHHHHHHHHHHHHHHHHHh
Q psy2906 37 VTMFDEKDKLLDNLRETQDRLSETSG 62 (85)
Q Consensus 37 vnMLdERDkLle~LretQe~L~~~q~ 62 (85)
-.++++|++++..|..+...+.-...
T Consensus 9 ~~Lv~~R~~~~~kLE~a~~~~~~~~~ 34 (85)
T PF14703_consen 9 EKLVEEREKAVRKLESAESKYLKNAN 34 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 35679999999999888877765554
No 114
>PF15294 Leu_zip: Leucine zipper
Probab=29.41 E-value=2e+02 Score=22.94 Aligned_cols=40 Identities=20% Similarity=0.327 Sum_probs=34.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
.|.++|.+-....+++|...+.+-..+-.|+..|+++|..
T Consensus 132 kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~ 171 (278)
T PF15294_consen 132 KEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKE 171 (278)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888888888888888888888899999999988863
No 115
>KOG3000|consensus
Probab=28.87 E-value=1e+02 Score=24.79 Aligned_cols=36 Identities=33% Similarity=0.462 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 44 DKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 44 DkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
+|+.+.+.+.-..|.....++...++|||++-+-|.
T Consensus 194 ~~~~qe~~~l~~~l~~~~~~~~~le~ERdfyf~kLr 229 (295)
T KOG3000|consen 194 DKLKQELEELTQQLTELKTTIASLEKERDFYFSKLR 229 (295)
T ss_pred hhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhcc
Confidence 344888899999999999999999999999987543
No 116
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=28.76 E-value=3e+02 Score=22.11 Aligned_cols=48 Identities=21% Similarity=0.403 Sum_probs=26.0
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHHH---HHhHHHHHHHHHHHHHHHH
Q psy2906 31 NFEQLMVTMFDEKDKLLDNLRETQDRLSE---TSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 31 nfEqLMvnMLdERDkLle~LretQe~L~~---~q~rL~eve~ErdsLqrQl 78 (85)
|+.+..-+.-++.++|...+.+..+.|.. ...|+++.++..+++.+.+
T Consensus 239 ~~~~~~~~l~~~~~~~~~~i~~l~~~l~~~~k~~~k~~~~~~q~~~~~k~~ 289 (406)
T PF02388_consen 239 NGKEYLESLQEKLEKLEKEIEKLEEKLEKNPKKKNKLKELEEQLASLEKRI 289 (406)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHHHHHHH-THHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHHH
Confidence 44455555556666666655555555444 2334556666666655544
No 117
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=28.71 E-value=2e+02 Score=20.59 Aligned_cols=9 Identities=33% Similarity=0.468 Sum_probs=3.4
Q ss_pred HHHHHHHHH
Q psy2906 64 LSMVEKERD 72 (85)
Q Consensus 64 L~eve~Erd 72 (85)
+..++.|++
T Consensus 167 ~~~l~~En~ 175 (194)
T PF08614_consen 167 LRKLEEENR 175 (194)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 333333333
No 118
>PF14661 HAUS6_N: HAUS augmin-like complex subunit 6 N-terminus
Probab=28.71 E-value=2.4e+02 Score=21.09 Aligned_cols=40 Identities=25% Similarity=0.317 Sum_probs=24.2
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 36 MvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl 78 (85)
+++++++++.+...+++....| ..+..++.+++..++.++
T Consensus 169 ~~~~~~~~~~~~~~~~~~aq~L---~~k~r~l~~~~~~~~~~~ 208 (247)
T PF14661_consen 169 FLQILQEKDAARQKYQEFAQLL---RKKYRELSAECAELQAQL 208 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHh
Confidence 5555566666655555544333 235667777777777776
No 119
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=28.70 E-value=1.5e+02 Score=18.47 Aligned_cols=29 Identities=17% Similarity=0.294 Sum_probs=20.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEK 69 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~ 69 (85)
+.|++|-+...++.+-...+...++.+..
T Consensus 30 ~lR~~i~~~~~~~~~l~k~~~~~l~~l~~ 58 (102)
T PF14523_consen 30 ELREKIHQLIQKTNQLIKEISELLKKLNS 58 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67888877777777777677666665544
No 120
>KOG3119|consensus
Probab=28.36 E-value=1.7e+02 Score=22.49 Aligned_cols=27 Identities=22% Similarity=0.449 Sum_probs=21.7
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 53 TQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 53 tQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
.+....+++.|..++++|++.|++++.
T Consensus 213 ~k~~~~e~~~r~~~leken~~lr~~v~ 239 (269)
T KOG3119|consen 213 RKQKEDEMAHRVAELEKENEALRTQVE 239 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444557888899999999999998665
No 121
>PRK07739 flgK flagellar hook-associated protein FlgK; Validated
Probab=28.16 E-value=43 Score=27.76 Aligned_cols=15 Identities=40% Similarity=0.835 Sum_probs=13.3
Q ss_pred hhhhhHHHHHHHHHH
Q psy2906 39 MFDEKDKLLDNLRET 53 (85)
Q Consensus 39 MLdERDkLle~Lret 53 (85)
+||+||+|++.|-+.
T Consensus 207 LlDqRD~ll~~LS~~ 221 (507)
T PRK07739 207 LYDQRDLLLDELSKI 221 (507)
T ss_pred hHHHHHHHHHHHHhh
Confidence 789999999999764
No 122
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=28.10 E-value=2.3e+02 Score=20.32 Aligned_cols=49 Identities=16% Similarity=0.293 Sum_probs=31.8
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 31 NFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 31 nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
.++...-..-..-+.+-.+......+|.....|+.++..+++.|..+.+
T Consensus 95 ~~e~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~ar~~ 143 (221)
T PF04012_consen 95 DLEEQAERLEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREELKAREN 143 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444555566666666667777777788888888887776544
No 123
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=28.04 E-value=3.1e+02 Score=21.87 Aligned_cols=43 Identities=23% Similarity=0.435 Sum_probs=32.2
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2906 36 MVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 36 MvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl 78 (85)
|-.+++|=.+.-..+.|+++++..+..||.+++-++-.+..-+
T Consensus 209 Le~~~EeL~~~Eke~~e~~~~i~e~~~rl~~l~~~~~~l~k~~ 251 (269)
T PF05278_consen 209 LEELEEELKQKEKEVKEIKERITEMKGRLGELEMESTRLSKTI 251 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555666666677778888888888888888888887777643
No 124
>PRK10404 hypothetical protein; Provisional
Probab=27.85 E-value=1.6e+02 Score=19.80 Aligned_cols=26 Identities=19% Similarity=0.276 Sum_probs=20.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSM 66 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~e 66 (85)
+-|+|+-..|.+++++|..++....+
T Consensus 38 ~lR~r~~~~L~~ar~~l~~~~~~~~~ 63 (101)
T PRK10404 38 ELKARAEKALDDVKKRVSQASDSYYY 63 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 56899999999999988887765443
No 125
>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=27.83 E-value=1.9e+02 Score=19.86 Aligned_cols=36 Identities=19% Similarity=0.326 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhCCC
Q psy2906 49 NLRETQDRLSETSGKLSMVEKERDSLQRQIAASLPQ 84 (85)
Q Consensus 49 ~LretQe~L~~~q~rL~eve~ErdsLqrQl~~~lpq 84 (85)
.+..++..-..+.+|..-..+=|+.|.+.+..+.|.
T Consensus 85 ~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~~~fPe 120 (128)
T PF09748_consen 85 FVELVRRENQYVKGKMEAFKSFRDVLAEELASAFPE 120 (128)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHChH
Confidence 344455555667888899999999999999999995
No 126
>COG1422 Predicted membrane protein [Function unknown]
Probab=27.00 E-value=76 Score=24.40 Aligned_cols=19 Identities=21% Similarity=0.323 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q psy2906 44 DKLLDNLRETQDRLSETSG 62 (85)
Q Consensus 44 DkLle~LretQe~L~~~q~ 62 (85)
.|+.+.++|.|+.-.+++.
T Consensus 75 ~~~qk~m~efq~e~~eA~~ 93 (201)
T COG1422 75 KELQKMMKEFQKEFREAQE 93 (201)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4555666666666666655
No 127
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=26.84 E-value=1.9e+02 Score=24.98 Aligned_cols=34 Identities=15% Similarity=0.333 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 46 LLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 46 Lle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
+.++.++.+.+++..+.++.+....+.+|+.++.
T Consensus 376 ~~~~~~~~~~~l~~le~~l~~~~~~~~~L~~~~~ 409 (656)
T PRK06975 376 AQASVHQLDSQFAQLDGKLADAQSAQQALEQQYQ 409 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6677777888888888888888888888887664
No 128
>TIGR01636 phage_rinA phage transcriptional activator, RinA family. This model represents a family of phage proteins, including RinA, a transcriptional activator in staphylococcal phage phi 11. This family shows similarity to ArpU, a phage-related putative autolysin regulator, and to some sporulation-specific sigma factors.
Probab=26.82 E-value=2.1e+02 Score=19.45 Aligned_cols=16 Identities=13% Similarity=0.285 Sum_probs=10.7
Q ss_pred cChHHHHHHHhhhhhH
Q psy2906 29 DANFEQLMVTMFDEKD 44 (85)
Q Consensus 29 ~~nfEqLMvnMLdERD 44 (85)
...+|+++......+.
T Consensus 50 ~~~tE~~~ik~~~D~~ 65 (134)
T TIGR01636 50 SVVTERMVITIAMDRR 65 (134)
T ss_pred CcHHHHHHHHHHhhHH
Confidence 3577998888765433
No 129
>PRK10884 SH3 domain-containing protein; Provisional
Probab=26.50 E-value=2.3e+02 Score=21.28 Aligned_cols=19 Identities=21% Similarity=0.160 Sum_probs=7.1
Q ss_pred HHHHHhHHHHHHHHHHHHH
Q psy2906 57 LSETSGKLSMVEKERDSLQ 75 (85)
Q Consensus 57 L~~~q~rL~eve~ErdsLq 75 (85)
|+.++.++..++.+.|.++
T Consensus 148 l~~~~~~~~~l~~~~~~~~ 166 (206)
T PRK10884 148 LIVAQKKVDAANLQLDDKQ 166 (206)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333
No 130
>PF11414 Suppressor_APC: Adenomatous polyposis coli tumour suppressor protein; PDB: 1M5I_A.
Probab=26.12 E-value=84 Score=20.73 Aligned_cols=14 Identities=29% Similarity=0.582 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHH
Q psy2906 63 KLSMVEKERDSLQR 76 (85)
Q Consensus 63 rL~eve~ErdsLqr 76 (85)
+++++++|||.|-.
T Consensus 8 ~mkeLEqEkd~LLq 21 (84)
T PF11414_consen 8 RMKELEQEKDVLLQ 21 (84)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHh
Confidence 34555555555443
No 131
>PRK05683 flgK flagellar hook-associated protein FlgK; Validated
Probab=26.03 E-value=48 Score=29.00 Aligned_cols=15 Identities=27% Similarity=0.572 Sum_probs=13.3
Q ss_pred hhhhhHHHHHHHHHH
Q psy2906 39 MFDEKDKLLDNLRET 53 (85)
Q Consensus 39 MLdERDkLle~Lret 53 (85)
+||+||+|++.|-+.
T Consensus 195 LlDqRD~Ll~eLS~~ 209 (676)
T PRK05683 195 LLDARDEAVRQLNEL 209 (676)
T ss_pred hHHHHHHHHHHHHhh
Confidence 899999999999764
No 132
>PRK06945 flgK flagellar hook-associated protein FlgK; Validated
Probab=25.77 E-value=49 Score=28.68 Aligned_cols=15 Identities=27% Similarity=0.689 Sum_probs=13.3
Q ss_pred hhhhhHHHHHHHHHH
Q psy2906 39 MFDEKDKLLDNLRET 53 (85)
Q Consensus 39 MLdERDkLle~Lret 53 (85)
+||+||+|++.|-+.
T Consensus 197 LlDqRD~ll~eLS~~ 211 (651)
T PRK06945 197 LLDQRDQLVSELSKL 211 (651)
T ss_pred hHHHHHHHHHHHHhh
Confidence 899999999999764
No 133
>PRK12715 flgK flagellar hook-associated protein FlgK; Provisional
Probab=25.61 E-value=47 Score=28.82 Aligned_cols=16 Identities=31% Similarity=0.598 Sum_probs=13.8
Q ss_pred HhhhhhHHHHHHHHHH
Q psy2906 38 TMFDEKDKLLDNLRET 53 (85)
Q Consensus 38 nMLdERDkLle~Lret 53 (85)
.+||+||+|++.|-+.
T Consensus 190 dLlDqRD~ll~eLS~~ 205 (649)
T PRK12715 190 ELLDHRDELLKQLSGY 205 (649)
T ss_pred HhHHHHHHHHHHHHhh
Confidence 4899999999999764
No 134
>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold). The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.
Probab=25.52 E-value=2.4e+02 Score=19.73 Aligned_cols=40 Identities=18% Similarity=0.328 Sum_probs=24.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 40 FDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 40 LdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
--+||-|=.+++..+.+......|+.+++.+-+.+.++++
T Consensus 36 ~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~le 75 (107)
T PF09304_consen 36 AKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEARRNLE 75 (107)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566666666666666656666666666666666555554
No 135
>PLN03188 kinesin-12 family protein; Provisional
Probab=25.27 E-value=1.5e+02 Score=28.58 Aligned_cols=31 Identities=23% Similarity=0.321 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 49 NLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 49 ~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
-|+|+.+++..+|.|..+++.|.+.+..|++
T Consensus 1205 rl~eaeea~~~a~~r~~~~eqe~~~~~k~~~ 1235 (1320)
T PLN03188 1205 RLKEAEEALTVAQKRAMDAEQEAAEAYKQID 1235 (1320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566667777777788888888877665
No 136
>PRK08871 flgK flagellar hook-associated protein FlgK; Validated
Probab=25.25 E-value=52 Score=28.47 Aligned_cols=16 Identities=25% Similarity=0.586 Sum_probs=13.7
Q ss_pred HhhhhhHHHHHHHHHH
Q psy2906 38 TMFDEKDKLLDNLRET 53 (85)
Q Consensus 38 nMLdERDkLle~Lret 53 (85)
.+||+||+|++.|-+.
T Consensus 194 dLlDqRD~ll~eLS~~ 209 (626)
T PRK08871 194 DLMDQHEKLVKELSQY 209 (626)
T ss_pred hhHHHHHHHHHHHHhh
Confidence 3899999999999764
No 137
>KOG2629|consensus
Probab=24.99 E-value=3.8e+02 Score=21.91 Aligned_cols=50 Identities=16% Similarity=0.219 Sum_probs=37.2
Q ss_pred ChHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 30 ANFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 30 ~nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
..+++||-....-|+++..+.+|.=++|+.....|--..+.++.+.++++
T Consensus 136 ~~~~~l~~~va~v~q~~~~qq~Els~~L~~l~~~~~~~s~~~~k~esei~ 185 (300)
T KOG2629|consen 136 KSLNALMDEVAQVSQLLATQQSELSRALASLKNTLVQLSRNIEKLESEIN 185 (300)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence 46778888888889999988888888888777776555555555555554
No 138
>KOG4673|consensus
Probab=24.96 E-value=1.2e+02 Score=28.08 Aligned_cols=28 Identities=32% Similarity=0.503 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 52 ETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 52 etQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
|+-.+++....|++-+-+|||.|+++++
T Consensus 406 e~~QRva~lEkKvqa~~kERDalr~e~k 433 (961)
T KOG4673|consen 406 EYHQRVATLEKKVQALTKERDALRREQK 433 (961)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 4566788899999999999999999876
No 139
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=24.79 E-value=3.8e+02 Score=22.01 Aligned_cols=24 Identities=25% Similarity=0.347 Sum_probs=11.6
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 57 LSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 57 L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
+.....++++++++...|+++|..
T Consensus 147 ~~~~~~~~~~~~~~l~~l~~~l~~ 170 (525)
T TIGR02231 147 DREAERRIRELEKQLSELQNELNA 170 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333444445555555555555543
No 140
>PRK06665 flgK flagellar hook-associated protein FlgK; Validated
Probab=24.78 E-value=50 Score=28.35 Aligned_cols=15 Identities=33% Similarity=0.649 Sum_probs=13.2
Q ss_pred hhhhhHHHHHHHHHH
Q psy2906 39 MFDEKDKLLDNLRET 53 (85)
Q Consensus 39 MLdERDkLle~Lret 53 (85)
+||+||+|++.|-+.
T Consensus 207 LlDqRD~ll~eLS~~ 221 (627)
T PRK06665 207 LLDRRDLLVDKLSSL 221 (627)
T ss_pred hHHHHHHHHHHHHhh
Confidence 789999999999764
No 141
>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]
Probab=24.76 E-value=2.1e+02 Score=24.83 Aligned_cols=38 Identities=21% Similarity=0.358 Sum_probs=31.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl 78 (85)
=+=|-|.-.||-....|..++..+.+++.||+....-+
T Consensus 74 fqlddi~~qlr~~rtel~~a~~~k~~~e~er~~~~~El 111 (499)
T COG4372 74 FQLDDIRPQLRALRTELGTAQGEKRAAETEREAARSEL 111 (499)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34578899999999999999999999999888776533
No 142
>PF04822 Takusan: Takusan; InterPro: IPR006907 This family includes several uncharacterised muridae (mouse and rat) proteins.
Probab=24.64 E-value=2.2e+02 Score=18.85 Aligned_cols=27 Identities=26% Similarity=0.282 Sum_probs=18.2
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHhhhCC
Q psy2906 57 LSETSGKLSMVEKERDSLQRQIAASLP 83 (85)
Q Consensus 57 L~~~q~rL~eve~ErdsLqrQl~~~lp 83 (85)
|...-..|+-+.+|||.|++.|....+
T Consensus 21 lE~L~~eL~~it~ERnELr~~L~~~~~ 47 (84)
T PF04822_consen 21 LERLKFELQKITKERNELRDILALYTE 47 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 334445577788888888888875443
No 143
>PF07130 YebG: YebG protein; InterPro: IPR009813 This family consists of several bacterial YebG proteins of around 75 residues in length. The exact function of this protein is unknown but it is thought to be involved in the SOS response. The induction of the yebG gene occurs as cell enter into the stationary growth phase and is dependent on is dependent on cyclic AMP and H-NS [].; PDB: 3ERM_E.
Probab=24.37 E-value=2e+02 Score=18.92 Aligned_cols=31 Identities=29% Similarity=0.296 Sum_probs=21.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKER 71 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~Er 71 (85)
|..||.||.......=|..+..-+.|-..|.
T Consensus 26 DAyDKmLd~Ad~L~~~L~~~~~~lde~~~E~ 56 (75)
T PF07130_consen 26 DAYDKMLDLADNLTDFLEQSVLGLDEAQAEE 56 (75)
T ss_dssp HHHHHHHHHHHHHHHHHHHHSTT--HHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCCCHHHHHH
Confidence 7788888888887777777666666655543
No 144
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=24.26 E-value=2.8e+02 Score=23.15 Aligned_cols=39 Identities=18% Similarity=0.203 Sum_probs=25.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
.+-.++...+++++..|...+.+-++..++.+.++-|++
T Consensus 161 ~~~~~~~~~~~~~~~~L~~l~~~~~~~~~eld~L~~ql~ 199 (563)
T TIGR00634 161 KAYRELYQAWLKARQQLKDRQQKEQELAQRLDFLQFQLE 199 (563)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence 444445556666666666666666677777777777765
No 145
>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=24.04 E-value=1.7e+02 Score=21.42 Aligned_cols=25 Identities=32% Similarity=0.593 Sum_probs=12.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLS 65 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~ 65 (85)
+||.++++.|.+.+..+...+..|+
T Consensus 103 ~eR~~~l~~l~~l~~~~~~l~~el~ 127 (188)
T PF03962_consen 103 EEREELLEELEELKKELKELKKELE 127 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555544444443
No 146
>PRK07720 fliJ flagellar biosynthesis chaperone; Validated
Probab=23.97 E-value=2.4e+02 Score=19.06 Aligned_cols=39 Identities=26% Similarity=0.403 Sum_probs=29.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 42 EKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 42 ERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
+.|.....|-.++..+...+.+|..+...|+....++..
T Consensus 17 ~ee~a~~~L~~a~~~~~~~~~~L~~L~~~~~~~~~~~~~ 55 (146)
T PRK07720 17 EKEKALGEYEEAVSRFEQVAEKLYELLKQKEDLEQAKEE 55 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555667778888888888898888888888877653
No 147
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=23.66 E-value=2.9e+02 Score=20.06 Aligned_cols=27 Identities=22% Similarity=0.409 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHhHHHHHHHH-HHHHHHH
Q psy2906 51 RETQDRLSETSGKLSMVEKE-RDSLQRQ 77 (85)
Q Consensus 51 retQe~L~~~q~rL~eve~E-rdsLqrQ 77 (85)
.++++.|..+..+.+++..| ||.+...
T Consensus 65 a~ye~~L~~Ar~eA~~I~~e~~~~~~a~ 92 (155)
T PRK06569 65 KYYNEEIDKTNTEIDRLKKEKIDSLESE 92 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33555555566666666666 6665543
No 148
>PRK09039 hypothetical protein; Validated
Probab=23.53 E-value=2.4e+02 Score=22.47 Aligned_cols=35 Identities=14% Similarity=0.203 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhC
Q psy2906 48 DNLRETQDRLSETSGKLSMVEKERDSLQRQIAASL 82 (85)
Q Consensus 48 e~LretQe~L~~~q~rL~eve~ErdsLqrQl~~~l 82 (85)
.+|...+..|+.++.+.++.....+.|++.|+.+|
T Consensus 151 ~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~ 185 (343)
T PRK09039 151 RQLAALEAALDASEKRDRESQAKIADLGRRLNVAL 185 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555555555555555443
No 149
>KOG3230|consensus
Probab=23.50 E-value=1.5e+02 Score=23.21 Aligned_cols=28 Identities=36% Similarity=0.509 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q psy2906 47 LDNLRETQDRLSETSGKLSMVEKERDSLQRQ 77 (85)
Q Consensus 47 le~LretQe~L~~~q~rL~eve~ErdsLqrQ 77 (85)
-|-||++|..|..+. .|+++||-.|+.|
T Consensus 11 ~e~Lr~nqRal~~a~---ReleRer~~le~q 38 (224)
T KOG3230|consen 11 AELLRENQRALNKAT---RELERERQKLELQ 38 (224)
T ss_pred HHHHHHhHHHHHHHH---HHHHHHHHHHHHH
Confidence 367899999988764 5788999988875
No 150
>KOG2483|consensus
Probab=23.36 E-value=2.5e+02 Score=21.72 Aligned_cols=35 Identities=9% Similarity=0.287 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 46 LLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 46 Lle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
-.+....++......+..+.++.++...|+++|..
T Consensus 103 A~~~i~~l~~~~~~~~~~~e~l~~e~~~l~~rl~q 137 (232)
T KOG2483|consen 103 ALEHIQSLERKSATQQQDIEDLSRENRKLKARLEQ 137 (232)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444555556666788889999999998863
No 151
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=23.27 E-value=2.7e+02 Score=19.50 Aligned_cols=22 Identities=36% Similarity=0.575 Sum_probs=11.6
Q ss_pred ChHHHH------HHHhhhhhHHHHHHHH
Q psy2906 30 ANFEQL------MVTMFDEKDKLLDNLR 51 (85)
Q Consensus 30 ~nfEqL------MvnMLdERDkLle~Lr 51 (85)
..|||| ...=++||++=|--|+
T Consensus 42 iDFeqLkien~~l~~kIeERn~eL~~Lk 69 (177)
T PF13870_consen 42 IDFEQLKIENQQLNEKIEERNKELLKLK 69 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777 3344456655444443
No 152
>PRK10869 recombination and repair protein; Provisional
Probab=23.18 E-value=3.2e+02 Score=23.10 Aligned_cols=40 Identities=13% Similarity=0.119 Sum_probs=28.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 40 FDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 40 LdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
+.+-.+++..++++...|...+.+-++..+++|.|+-|++
T Consensus 156 ~~~~~~~y~~~~~~~~~l~~l~~~~~~~~~~~d~l~fql~ 195 (553)
T PRK10869 156 LQEMRAAYQLWHQSCRDLAQHQQQSQERAARKQLLQYQLK 195 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 3445556666666777777777777777788888888776
No 153
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=23.00 E-value=2e+02 Score=17.93 Aligned_cols=16 Identities=13% Similarity=0.281 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHhHHH
Q psy2906 50 LRETQDRLSETSGKLS 65 (85)
Q Consensus 50 LretQe~L~~~q~rL~ 65 (85)
+.+...++...+..+.
T Consensus 28 l~~~~~ti~~l~~~~~ 43 (90)
T PF06103_consen 28 LDEVNKTIDTLQEQVD 43 (90)
T ss_pred HHHHHHHHHHHHHhHH
Confidence 3333333333333333
No 154
>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=22.98 E-value=2.7e+02 Score=19.34 Aligned_cols=18 Identities=39% Similarity=0.560 Sum_probs=6.7
Q ss_pred HHHHHhHHHHHHHHHHHH
Q psy2906 57 LSETSGKLSMVEKERDSL 74 (85)
Q Consensus 57 L~~~q~rL~eve~ErdsL 74 (85)
+...+.++..++++||.+
T Consensus 32 ~~~l~~el~~l~~~r~~l 49 (120)
T PF12325_consen 32 LASLQEELARLEAERDEL 49 (120)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 155
>KOG1003|consensus
Probab=22.98 E-value=1.7e+02 Score=22.72 Aligned_cols=39 Identities=28% Similarity=0.468 Sum_probs=28.3
Q ss_pred hhhhHHHH-HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2906 40 FDEKDKLL-DNLRETQDRLSETSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 40 LdERDkLl-e~LretQe~L~~~q~rL~eve~ErdsLqrQl 78 (85)
|..|=-|+ +-|.-+|++|..++.||.+.++.-|.-.|+.
T Consensus 9 lnrri~~leeele~aqErl~~a~~KL~Eaeq~~dE~er~~ 48 (205)
T KOG1003|consen 9 LNRRIQLLEEELDRAQERLATALQKLEEAEQAADESERGM 48 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccHHHHHH
Confidence 34444433 5688899999999999999988777555443
No 156
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=22.48 E-value=2.8e+02 Score=24.27 Aligned_cols=30 Identities=27% Similarity=0.514 Sum_probs=21.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKE 70 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~E 70 (85)
.+-+.|.+.||.++++|..++.+..-+.+|
T Consensus 283 ~e~e~LkeqLr~~qe~lqaSqq~~~~L~~E 312 (546)
T PF07888_consen 283 QENEALKEQLRSAQEQLQASQQEAELLRKE 312 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455678888888888888888774433333
No 157
>PF05600 DUF773: Protein of unknown function (DUF773); InterPro: IPR008491 This family contains several eukaryotic sequences which are thought to be CDK5 activator-binding proteins, however, the function of this family is unknown.
Probab=22.30 E-value=1.8e+02 Score=24.58 Aligned_cols=38 Identities=18% Similarity=0.261 Sum_probs=22.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 42 EKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 42 ERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
-.|||.++|+.-+..-.-...+...+...|..++.++.
T Consensus 433 Yvdrl~~~L~qk~~~~~k~~~~~~~l~~kr~e~~~e~~ 470 (507)
T PF05600_consen 433 YVDRLVESLQQKLKQEEKLRRKREDLEEKRQEAQEEQQ 470 (507)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45777777776666666666555555555555554443
No 158
>cd07599 BAR_Rvs167p The Bin/Amphiphysin/Rvs (BAR) domain of Saccharomyces cerevisiae Reduced viability upon starvation protein 167 and similar proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of fungal proteins with similarity to Saccharomyces cerevisiae Reduced viability upon starvation protein 167 (Rvs167p) and Schizosaccharomyces pombe Hob1 (homolog of Bin1). S. cerevisiae Rvs167p plays a role in regulation of the actin cytoskeleton, endocytosis, and sporulation. It forms a heterodimer with another BAR domain protein Rvs161p. Rvs161p and Rvs167p share common functions but are not interchangeable. Their BAR domains cannot be replaced with each other and the overexpression of one cannot suppress the mutant phenotypes of the other. Rvs167p also interacts with the GTPase activating protein (GAP) Gyp5p, which is involved in ER to Golgi vesicle trafficking. BAR domains fo
Probab=22.01 E-value=2.3e+02 Score=20.37 Aligned_cols=30 Identities=23% Similarity=0.446 Sum_probs=23.5
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHhhhCCC
Q psy2906 55 DRLSETSGKLSMVEKERDSLQRQIAASLPQ 84 (85)
Q Consensus 55 e~L~~~q~rL~eve~ErdsLqrQl~~~lpq 84 (85)
..|..++.+|.++..+=+.++.+|-.-||.
T Consensus 149 ~kl~kae~~l~~a~~~y~~lN~~Lk~eLP~ 178 (216)
T cd07599 149 KQLAKLERKLEEAKEEYEALNELLKSELPK 178 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 446667778888888888888888888873
No 159
>PRK10884 SH3 domain-containing protein; Provisional
Probab=21.53 E-value=3.5e+02 Score=20.26 Aligned_cols=26 Identities=15% Similarity=0.404 Sum_probs=12.1
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 54 QDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 54 Qe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
|+.++.......++.+++..|+.++.
T Consensus 124 ~~~~~~~~~~~~~L~~~n~~L~~~l~ 149 (206)
T PRK10884 124 QQKVAQSDSVINGLKEENQKLKNQLI 149 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333344445555555555443
No 160
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=21.32 E-value=3.5e+02 Score=21.90 Aligned_cols=36 Identities=31% Similarity=0.477 Sum_probs=22.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQR 76 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~ErdsLqr 76 (85)
.|...|++-|.+.+-.+...|-||+.++.|.-.|.-
T Consensus 149 ~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE 184 (290)
T COG4026 149 KEKEELLKELEELEAEYEEVQERLKRLEVENSRLEE 184 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556666666666666677777777666655543
No 161
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=21.32 E-value=1.6e+02 Score=18.04 Aligned_cols=21 Identities=24% Similarity=0.351 Sum_probs=17.6
Q ss_pred HHHhHHHHHHHHHHHHHHHHh
Q psy2906 59 ETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 59 ~~q~rL~eve~ErdsLqrQl~ 79 (85)
.+..+|.+++.|...|+.+|+
T Consensus 26 ~a~~rl~~l~~EN~~Lr~eL~ 46 (52)
T PF12808_consen 26 AARKRLSKLEGENRLLRAELE 46 (52)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 455679999999999999886
No 162
>TIGR03741 PRTRC_E PRTRC system protein E. A novel genetic system characterized by six or seven major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family averages about 150 amino acids in length, but the last third contains low-complexity sequence that complicates sequence comparisons. This model does not include the low-complexity region.
Probab=21.22 E-value=2.3e+02 Score=19.41 Aligned_cols=36 Identities=17% Similarity=0.246 Sum_probs=31.5
Q ss_pred cChHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHH
Q psy2906 29 DANFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKL 64 (85)
Q Consensus 29 ~~nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL 64 (85)
|.-|=+-+-.-..-|.-|++++..++..|..++.+.
T Consensus 57 D~gF~~ai~~~~~~~~sL~~q~ea~~~~le~a~~~~ 92 (104)
T TIGR03741 57 DAGFAGALGQYVEARQSLAEQAAATRAVLEAAKAAE 92 (104)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 688999999999999999999999999998665543
No 163
>PF14131 DUF4298: Domain of unknown function (DUF4298)
Probab=21.20 E-value=2.5e+02 Score=18.23 Aligned_cols=33 Identities=21% Similarity=0.383 Sum_probs=23.7
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHH
Q psy2906 36 MVTMFDEKDKLLDNLRETQDRLSETSGKLSMVE 68 (85)
Q Consensus 36 MvnMLdERDkLle~LretQe~L~~~q~rL~eve 68 (85)
|=..+++=-+++..|.++.+++..++.+.+++.
T Consensus 5 me~~y~~~~~~l~~le~~l~~~~~~~~~~~~L~ 37 (90)
T PF14131_consen 5 MEKIYNEWCELLEELEEALEKWQEAQPDYRKLR 37 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566777778888888888887777766554
No 164
>PRK04863 mukB cell division protein MukB; Provisional
Probab=20.74 E-value=2.9e+02 Score=26.73 Aligned_cols=40 Identities=23% Similarity=0.233 Sum_probs=27.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 41 DEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
.+|.+....|.+++..|....-.+.+++.....|++|...
T Consensus 293 ~rk~eA~kkLe~tE~nL~rI~diL~ELe~rL~kLEkQaEk 332 (1486)
T PRK04863 293 RELYTSRRQLAAEQYRLVEMARELAELNEAESDLEQDYQA 332 (1486)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555666666667777776666677777777777776654
No 165
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=20.66 E-value=3.3e+02 Score=23.08 Aligned_cols=22 Identities=18% Similarity=0.389 Sum_probs=9.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHh
Q psy2906 41 DEKDKLLDNLRETQDRLSETSG 62 (85)
Q Consensus 41 dERDkLle~LretQe~L~~~q~ 62 (85)
+++.||...|-+....+.....
T Consensus 59 ~~~~kL~~~lk~~e~~i~~~~~ 80 (420)
T COG4942 59 DQRAKLEKQLKSLETEIASLEA 80 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444333333333
No 166
>PRK10920 putative uroporphyrinogen III C-methyltransferase; Provisional
Probab=20.37 E-value=5e+02 Score=21.47 Aligned_cols=36 Identities=22% Similarity=0.374 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 44 DKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 44 DkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
..|...+......+..++.++++..+...+|+.++.
T Consensus 88 ~~l~~~~~~~~~~l~~~e~~~~~l~~q~~~Lq~~~~ 123 (390)
T PRK10920 88 QELEGILKQQAKALDQANRQQAALAKQLDELQQKVA 123 (390)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444455555566677777777777777777665
No 167
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=20.26 E-value=2.4e+02 Score=17.86 Aligned_cols=31 Identities=26% Similarity=0.451 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy2906 48 DNLRETQDRLSETSGKLSMVEKERDSLQRQI 78 (85)
Q Consensus 48 e~LretQe~L~~~q~rL~eve~ErdsLqrQl 78 (85)
+.+.+.+++|...+.++..+..+++.+..++
T Consensus 70 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~ 100 (104)
T PF13600_consen 70 PELKELEEELEALEDELAALQDEIQALEAQI 100 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555566666666666666665554
No 168
>PF11315 Med30: Mediator complex subunit 30; InterPro: IPR021019 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. Med30 is a metazoan-specific subunit of Mediator [], having no homologues in yeasts.
Probab=20.24 E-value=3.5e+02 Score=19.69 Aligned_cols=35 Identities=17% Similarity=0.434 Sum_probs=26.3
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q psy2906 39 MFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDS 73 (85)
Q Consensus 39 MLdERDkLle~LretQe~L~~~q~rL~eve~Erds 73 (85)
.++||.+|+|++.+--.+|-+.--++...--|-+.
T Consensus 109 ~~~er~el~e~v~~KN~qLk~iid~lR~~iweIN~ 143 (150)
T PF11315_consen 109 LLEERKELIEQVKQKNQQLKEIIDQLRNIIWEINT 143 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68999999998888877777777766655554443
No 169
>PRK05689 fliJ flagellar biosynthesis chaperone; Validated
Probab=20.23 E-value=2.8e+02 Score=18.58 Aligned_cols=50 Identities=16% Similarity=0.239 Sum_probs=38.3
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Q psy2906 31 NFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80 (85)
Q Consensus 31 nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~~ 80 (85)
.|+.++-==-.+.|.....|-.++..+...+.+|..+...|+....++..
T Consensus 6 rL~~vl~l~~~~ee~a~~~la~a~~~~~~~~~~L~~L~~y~~~y~~~~~~ 55 (147)
T PRK05689 6 ALATLLDLAEKAEEQAALQLGQARQELQQAEQQLKMLEDYRLEYRQQLND 55 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444446777888888899999999999999999999888776653
No 170
>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []. Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.
Probab=20.10 E-value=1.3e+02 Score=19.49 Aligned_cols=49 Identities=20% Similarity=0.396 Sum_probs=22.3
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy2906 31 NFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79 (85)
Q Consensus 31 nfEqLMvnMLdERDkLle~LretQe~L~~~q~rL~eve~ErdsLqrQl~ 79 (85)
-....+-.+.++=+.|.....+.+..+...+.++.+.......|++.|.
T Consensus 22 eVD~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~~~~~~l~~~l~ 70 (131)
T PF05103_consen 22 EVDDFLDELAEELERLQRENAELKEEIEELQAQLEELREEEESLQRALI 70 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCT----------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHhhh
Confidence 3444555555666777777777777777777778887777777777654
Done!