Query psy14379
Match_columns 120
No_of_seqs 93 out of 115
Neff 3.0
Searched_HMMs 46136
Date Fri Aug 16 18:21:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14379.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14379hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04201 TPD52: Tumour protein 100.0 1.3E-34 2.7E-39 223.5 8.5 89 22-120 2-90 (162)
2 KOG4010|consensus 100.0 9.1E-32 2E-36 213.9 7.0 90 20-120 15-105 (208)
3 PF11221 Med21: Subunit 21 of 85.8 2.5 5.4E-05 31.4 5.4 42 52-96 97-138 (144)
4 PF06698 DUF1192: Protein of u 83.3 8.4 0.00018 25.8 6.6 35 47-88 16-50 (59)
5 PF14389 Lzipper-MIP1: Leucine 82.6 4.1 9E-05 28.4 5.1 28 63-97 58-85 (88)
6 TIGR02889 spore_YpeB germinati 82.4 2.1 4.6E-05 37.7 4.4 66 50-117 120-185 (435)
7 PF07106 TBPIP: Tat binding pr 78.5 11 0.00025 28.0 6.6 33 49-85 66-98 (169)
8 PF08776 VASP_tetra: VASP tetr 77.2 5.2 0.00011 25.3 3.8 23 61-83 13-36 (40)
9 PRK00736 hypothetical protein; 76.2 17 0.00038 24.2 6.4 38 61-98 7-44 (68)
10 PF01920 Prefoldin_2: Prefoldi 74.7 19 0.00042 23.9 6.4 37 61-97 64-100 (106)
11 PRK06342 transcription elongat 74.2 26 0.00056 26.9 7.7 27 49-79 28-54 (160)
12 PRK02793 phi X174 lysis protei 74.2 23 0.00051 23.8 6.7 39 59-97 8-46 (72)
13 PF04977 DivIC: Septum formati 74.1 20 0.00043 22.8 6.4 41 60-100 25-69 (80)
14 cd00187 TOP4c DNA Topoisomeras 73.6 6.1 0.00013 34.8 4.6 44 49-96 399-442 (445)
15 PF15456 Uds1: Up-regulated Du 72.3 12 0.00027 27.8 5.4 39 48-90 15-55 (124)
16 TIGR01801 CM_A chorismate muta 71.3 15 0.00034 26.1 5.5 38 62-102 7-47 (102)
17 TIGR01061 parC_Gpos DNA topois 71.2 6.7 0.00014 36.6 4.5 41 49-93 421-461 (738)
18 PF15290 Syntaphilin: Golgi-lo 70.5 19 0.0004 31.2 6.7 38 56-94 86-128 (305)
19 TIGR01791 CM_archaeal chorisma 70.4 14 0.00031 24.5 4.9 37 62-101 2-41 (83)
20 PF13744 HTH_37: Helix-turn-he 70.4 8.3 0.00018 25.6 3.7 44 49-100 2-45 (80)
21 PRK00295 hypothetical protein; 69.8 30 0.00065 23.1 6.4 38 61-98 7-44 (68)
22 TIGR01063 gyrA DNA gyrase, A s 69.7 7.7 0.00017 36.3 4.6 46 49-98 421-473 (800)
23 TIGR01795 CM_mono_cladeE monof 69.4 19 0.00042 25.2 5.6 37 62-101 6-45 (94)
24 PF04102 SlyX: SlyX; InterPro 69.2 30 0.00064 22.9 6.2 37 61-97 6-42 (69)
25 PRK05561 DNA topoisomerase IV 68.6 7.3 0.00016 36.3 4.2 46 49-98 431-483 (742)
26 PHA01750 hypothetical protein 68.6 26 0.00056 24.8 6.0 40 58-97 34-73 (75)
27 PF06667 PspB: Phage shock pro 68.3 15 0.00032 25.6 4.7 35 50-85 34-68 (75)
28 PTZ00421 coronin; Provisional 68.1 26 0.00056 30.8 7.3 32 60-91 454-485 (493)
29 PF07139 DUF1387: Protein of u 68.0 13 0.00029 31.9 5.3 45 62-109 203-253 (302)
30 PRK09239 chorismate mutase; Pr 67.9 27 0.00058 25.0 6.2 38 61-101 12-52 (104)
31 TIGR01807 CM_P2 chorismate mut 67.9 20 0.00043 23.7 5.1 37 62-101 2-43 (76)
32 PF04822 Takusan: Takusan; In 67.9 25 0.00055 24.8 5.9 35 49-83 8-43 (84)
33 PF09730 BicD: Microtubule-ass 67.8 26 0.00057 33.2 7.6 73 10-91 549-621 (717)
34 PF06628 Catalase-rel: Catalas 67.5 19 0.0004 23.6 4.9 47 51-97 19-68 (68)
35 PF14620 YPEB: YpeB sporulatio 67.3 10 0.00022 32.4 4.5 48 50-98 110-157 (361)
36 PRK07248 hypothetical protein; 66.1 23 0.0005 23.8 5.3 37 62-101 4-43 (87)
37 PF04880 NUDE_C: NUDE protein, 65.9 3.9 8.5E-05 32.1 1.6 38 52-90 18-55 (166)
38 PRK09458 pspB phage shock prot 65.8 18 0.00039 25.5 4.7 35 50-85 34-68 (75)
39 PF10186 Atg14: UV radiation r 65.3 31 0.00068 26.5 6.5 41 56-96 60-100 (302)
40 PRK04325 hypothetical protein; 64.3 37 0.0008 23.0 6.0 37 61-97 11-47 (74)
41 PRK00846 hypothetical protein; 63.5 37 0.0008 23.7 6.0 46 52-97 6-51 (77)
42 PF14282 FlxA: FlxA-like prote 63.1 36 0.00077 24.2 6.0 37 50-86 42-78 (106)
43 PRK00888 ftsB cell division pr 63.0 25 0.00055 25.1 5.3 48 56-103 31-82 (105)
44 TIGR01805 CM_mono_grmpos monof 62.9 25 0.00054 23.5 4.9 37 62-101 2-41 (81)
45 TIGR01799 CM_T chorismate muta 62.4 25 0.00055 23.6 4.9 37 62-101 2-41 (83)
46 KOG3335|consensus 62.4 19 0.00042 29.0 5.0 51 50-107 97-149 (181)
47 PRK04406 hypothetical protein; 62.2 48 0.001 22.7 6.5 38 60-97 12-49 (75)
48 KOG4571|consensus 61.7 21 0.00045 30.7 5.3 24 62-85 265-288 (294)
49 PRK11546 zraP zinc resistance 61.0 35 0.00075 26.3 6.0 37 49-89 41-77 (143)
50 TIGR01062 parC_Gneg DNA topois 59.4 16 0.00034 34.4 4.6 38 61-98 426-470 (735)
51 PRK05560 DNA gyrase subunit A; 58.1 16 0.00035 34.2 4.4 46 49-98 424-476 (805)
52 PF07544 Med9: RNA polymerase 57.9 24 0.00052 24.1 4.3 27 51-84 51-77 (83)
53 PF06698 DUF1192: Protein of u 57.8 30 0.00064 23.2 4.5 23 62-84 31-53 (59)
54 PRK13979 DNA topoisomerase IV 57.6 17 0.00038 35.1 4.6 44 50-97 441-491 (957)
55 PF01418 HTH_6: Helix-turn-hel 57.0 7.3 0.00016 25.7 1.5 23 91-113 53-75 (77)
56 TIGR01803 CM-like chorismate m 56.7 36 0.00078 22.8 4.9 37 62-101 2-41 (82)
57 PF08317 Spc7: Spc7 kinetochor 56.5 53 0.0012 27.2 6.8 42 50-95 204-245 (325)
58 PRK14127 cell division protein 55.9 80 0.0017 23.3 7.5 49 49-97 20-68 (109)
59 PF06120 Phage_HK97_TLTM: Tail 55.8 25 0.00054 30.0 4.8 18 19-36 48-65 (301)
60 PRK06285 chorismate mutase; Pr 55.5 43 0.00093 23.2 5.2 37 62-101 10-49 (96)
61 PRK10360 DNA-binding transcrip 55.4 16 0.00034 25.4 3.0 27 86-112 170-196 (196)
62 TIGR02976 phageshock_pspB phag 55.0 35 0.00075 23.6 4.6 35 50-85 34-68 (75)
63 PF05121 GvpK: Gas vesicle pro 54.9 24 0.00052 25.5 4.0 30 72-101 44-73 (88)
64 PRK07857 hypothetical protein; 54.8 67 0.0015 23.6 6.4 37 63-102 32-71 (106)
65 PF12329 TMF_DNA_bd: TATA elem 54.7 30 0.00066 23.4 4.3 32 64-95 38-69 (74)
66 TIGR01797 CM_P_1 chorismate mu 54.7 47 0.001 22.3 5.2 37 62-101 2-41 (83)
67 TIGR01808 CM_M_hiGC-arch monof 54.6 47 0.001 22.2 5.2 38 62-102 3-43 (74)
68 PF13801 Metal_resist: Heavy-m 54.3 58 0.0013 21.1 6.0 37 50-90 40-76 (125)
69 PRK02119 hypothetical protein; 53.9 67 0.0014 21.7 6.5 37 61-97 11-47 (73)
70 PF10458 Val_tRNA-synt_C: Valy 53.8 34 0.00074 22.2 4.3 25 59-83 4-28 (66)
71 PF05979 DUF896: Bacterial pro 51.7 15 0.00032 25.1 2.4 19 49-68 16-34 (65)
72 PF07564 DUF1542: Domain of Un 51.5 63 0.0014 20.8 6.3 48 47-94 7-57 (70)
73 PF07798 DUF1640: Protein of u 51.1 88 0.0019 23.7 6.7 27 81-108 121-147 (177)
74 PF09784 L31: Mitochondrial ri 51.0 19 0.0004 26.8 3.0 44 50-97 14-57 (103)
75 PRK12595 bifunctional 3-deoxy- 50.4 51 0.0011 28.2 5.9 38 62-102 7-47 (360)
76 cd00632 Prefoldin_beta Prefold 50.3 83 0.0018 21.8 6.2 36 61-96 65-100 (105)
77 COG2433 Uncharacterized conser 49.2 59 0.0013 30.9 6.5 26 71-96 479-504 (652)
78 PF04111 APG6: Autophagy prote 48.9 78 0.0017 26.5 6.7 33 63-95 47-79 (314)
79 PF00769 ERM: Ezrin/radixin/mo 48.8 43 0.00093 27.1 5.0 35 62-96 78-112 (246)
80 PF08178 GnsAB: GnsA/GnsB fami 48.8 20 0.00044 24.0 2.6 22 70-97 9-30 (54)
81 KOG4196|consensus 48.6 76 0.0016 24.7 6.1 34 62-95 77-110 (135)
82 PF09177 Syntaxin-6_N: Syntaxi 48.6 85 0.0019 21.5 5.8 36 53-88 33-68 (97)
83 KOG0930|consensus 48.2 1.1E+02 0.0023 27.2 7.6 62 48-109 7-85 (395)
84 PF09440 eIF3_N: eIF3 subunit 48.0 77 0.0017 23.7 5.9 47 54-100 64-120 (133)
85 PRK01631 hypothetical protein; 47.8 53 0.0011 23.2 4.7 19 49-68 17-35 (76)
86 KOG0977|consensus 47.5 71 0.0015 29.6 6.6 50 56-105 103-154 (546)
87 PRK02539 hypothetical protein; 46.9 53 0.0011 23.6 4.7 19 49-68 18-36 (85)
88 TIGR02209 ftsL_broad cell divi 46.9 75 0.0016 20.7 5.1 33 63-100 42-75 (85)
89 PF12329 TMF_DNA_bd: TATA elem 46.4 64 0.0014 21.8 4.8 24 73-96 33-56 (74)
90 PRK01546 hypothetical protein; 46.3 23 0.00049 25.1 2.7 19 49-68 19-37 (79)
91 KOG4302|consensus 46.0 95 0.0021 29.4 7.3 63 42-109 147-213 (660)
92 PF00816 Histone_HNS: H-NS his 45.8 42 0.00092 22.7 3.9 41 63-104 2-43 (93)
93 PHA02557 22 prohead core prote 45.6 1.2E+02 0.0026 26.0 7.3 41 55-95 137-177 (271)
94 PF04111 APG6: Autophagy prote 45.0 71 0.0015 26.7 5.8 36 59-94 57-92 (314)
95 PF10168 Nup88: Nuclear pore c 45.0 70 0.0015 30.0 6.3 30 49-83 627-656 (717)
96 PRK06443 chorismate mutase; Va 44.6 58 0.0013 26.1 5.1 39 62-103 8-49 (177)
97 PF04340 DUF484: Protein of un 44.6 1.5E+02 0.0032 23.0 7.8 62 52-115 42-107 (225)
98 PF14077 WD40_alt: Alternative 44.4 14 0.00031 24.2 1.3 19 63-81 15-33 (48)
99 PRK09039 hypothetical protein; 43.9 72 0.0016 27.0 5.8 50 62-111 147-202 (343)
100 PF10146 zf-C4H2: Zinc finger- 43.8 1.6E+02 0.0034 24.0 7.5 50 60-111 47-100 (230)
101 PF11629 Mst1_SARAH: C termina 43.2 94 0.002 20.4 5.0 36 49-87 5-40 (49)
102 PF00521 DNA_topoisoIV: DNA gy 42.6 48 0.001 28.5 4.6 32 49-84 385-416 (426)
103 PRK13922 rod shape-determining 42.1 1E+02 0.0022 24.5 6.1 37 60-100 77-113 (276)
104 KOG1760|consensus 41.8 70 0.0015 24.8 4.9 46 49-97 74-119 (131)
105 PRK09413 IS2 repressor TnpA; R 40.8 79 0.0017 22.4 4.8 23 61-83 80-102 (121)
106 PF15188 CCDC-167: Coiled-coil 40.7 63 0.0014 23.0 4.2 34 50-94 31-64 (85)
107 PF09824 ArsR: ArsR transcript 40.5 35 0.00077 27.1 3.2 20 82-101 117-136 (160)
108 PF05121 GvpK: Gas vesicle pro 40.0 70 0.0015 23.1 4.4 32 50-85 40-71 (88)
109 smart00434 TOP4c DNA Topoisome 40.0 34 0.00074 30.1 3.4 34 49-86 409-442 (445)
110 smart00787 Spc7 Spc7 kinetocho 39.9 81 0.0017 26.6 5.5 42 50-95 199-240 (312)
111 TIGR03184 DNA_S_dndE DNA sulfu 39.6 18 0.0004 26.3 1.4 18 87-104 9-26 (105)
112 PF12325 TMF_TATA_bd: TATA ele 39.4 98 0.0021 22.9 5.3 31 63-93 72-102 (120)
113 KOG1055|consensus 39.2 16 0.00034 35.5 1.3 47 65-113 760-815 (865)
114 PRK11199 tyrA bifunctional cho 39.2 74 0.0016 26.7 5.2 36 62-100 6-44 (374)
115 PF07795 DUF1635: Protein of u 39.0 1.3E+02 0.0027 24.9 6.3 34 55-88 15-50 (214)
116 PRK14143 heat shock protein Gr 38.8 2.2E+02 0.0048 23.4 7.8 21 62-82 70-90 (238)
117 KOG4673|consensus 38.4 1.4E+02 0.0031 29.3 7.3 47 59-105 587-644 (961)
118 PF05529 Bap31: B-cell recepto 38.2 93 0.002 23.5 5.1 30 66-95 154-183 (192)
119 PRK14153 heat shock protein Gr 38.1 1.5E+02 0.0033 23.7 6.5 21 63-83 37-57 (194)
120 KOG3119|consensus 38.1 70 0.0015 26.2 4.7 9 104-112 248-256 (269)
121 PF07544 Med9: RNA polymerase 37.8 91 0.002 21.3 4.6 24 72-95 58-81 (83)
122 PRK09631 DNA topoisomerase IV 37.5 81 0.0018 29.5 5.5 37 62-98 407-447 (635)
123 COG4942 Membrane-bound metallo 37.1 1.1E+02 0.0025 27.4 6.2 17 63-79 42-58 (420)
124 PF14257 DUF4349: Domain of un 36.6 67 0.0015 25.3 4.3 19 98-116 212-230 (262)
125 PF15619 Lebercilin: Ciliary p 36.5 55 0.0012 25.8 3.8 27 62-88 167-193 (194)
126 PF05278 PEARLI-4: Arabidopsis 36.2 2.5E+02 0.0054 23.9 7.8 36 60-95 194-229 (269)
127 PF07106 TBPIP: Tat binding pr 36.2 95 0.0021 23.0 4.8 10 104-113 146-155 (169)
128 PF00831 Ribosomal_L29: Riboso 36.1 18 0.00039 23.2 0.8 24 49-79 4-27 (58)
129 PF12761 End3: Actin cytoskele 36.0 82 0.0018 25.5 4.7 35 47-83 86-120 (195)
130 PF08621 RPAP1_N: RPAP1-like, 35.7 27 0.00058 22.4 1.6 20 49-68 12-31 (49)
131 PF06305 DUF1049: Protein of u 35.4 39 0.00085 21.2 2.3 18 62-79 51-68 (68)
132 COG2088 SpoVG Uncharacterized 35.1 23 0.0005 26.1 1.4 19 5-23 59-77 (95)
133 PF10165 Ric8: Guanine nucleot 35.1 92 0.002 27.1 5.2 22 45-66 400-421 (446)
134 PF13600 DUF4140: N-terminal d 34.9 1.3E+02 0.0027 20.5 4.9 29 62-90 73-101 (104)
135 KOG4196|consensus 34.9 1.5E+02 0.0033 23.1 5.8 37 56-92 78-114 (135)
136 KOG0933|consensus 34.8 2.8E+02 0.006 28.3 8.8 92 24-117 644-752 (1174)
137 PF04849 HAP1_N: HAP1 N-termin 34.8 1.8E+02 0.0039 25.1 6.8 72 24-100 10-88 (306)
138 PF08870 DUF1832: Domain of un 34.8 28 0.0006 25.4 1.7 18 87-104 10-27 (113)
139 PF03980 Nnf1: Nnf1 ; InterPr 34.5 1.1E+02 0.0025 21.1 4.7 38 49-86 61-107 (109)
140 PF05190 MutS_IV: MutS family 34.4 1.1E+02 0.0023 19.5 4.3 28 63-100 8-35 (92)
141 PF11365 DUF3166: Protein of u 34.2 1.4E+02 0.0031 21.7 5.3 31 62-92 4-34 (96)
142 PLN02956 PSII-Q subunit 33.9 1.3E+02 0.0028 24.4 5.5 51 50-110 78-128 (185)
143 KOG1760|consensus 33.9 2.3E+02 0.0049 22.0 7.2 26 61-86 97-122 (131)
144 COG2973 TrpR Trp operon repres 33.6 89 0.0019 23.3 4.2 38 51-100 37-74 (103)
145 PRK03947 prefoldin subunit alp 33.2 1.8E+02 0.004 20.8 6.5 40 53-95 91-130 (140)
146 PF08280 HTH_Mga: M protein tr 33.2 1.3E+02 0.0027 18.9 4.7 35 74-109 7-41 (59)
147 PF02096 60KD_IMP: 60Kd inner 33.1 1.7E+02 0.0037 21.9 5.8 41 61-104 32-72 (198)
148 PRK11637 AmiB activator; Provi 33.1 2.3E+02 0.0051 24.0 7.2 33 62-94 50-82 (428)
149 PF04859 DUF641: Plant protein 33.1 1.5E+02 0.0033 22.5 5.5 26 63-88 98-123 (131)
150 PF09537 DUF2383: Domain of un 32.8 1E+02 0.0023 20.8 4.3 41 77-117 35-80 (111)
151 PF00170 bZIP_1: bZIP transcri 32.4 1.3E+02 0.0029 19.0 6.4 36 60-95 27-62 (64)
152 PF06102 DUF947: Domain of unk 32.3 2.3E+02 0.0051 21.8 7.2 41 55-95 59-101 (168)
153 PF13815 Dzip-like_N: Iguana/D 32.1 1.6E+02 0.0034 21.1 5.2 33 63-95 84-116 (118)
154 PF09726 Macoilin: Transmembra 32.1 1.3E+02 0.0029 28.2 6.0 34 63-96 542-575 (697)
155 PF12325 TMF_TATA_bd: TATA ele 32.0 1.5E+02 0.0033 21.9 5.3 23 63-85 20-42 (120)
156 KOG4673|consensus 31.9 96 0.0021 30.5 5.1 27 64-90 344-370 (961)
157 PF04012 PspA_IM30: PspA/IM30 31.3 2.3E+02 0.005 21.6 6.4 41 58-98 97-137 (221)
158 PF09236 AHSP: Alpha-haemoglob 31.1 1.6E+02 0.0034 21.6 5.0 19 54-72 56-74 (89)
159 PF09304 Cortex-I_coil: Cortex 30.9 2.3E+02 0.005 21.2 7.0 42 63-109 34-75 (107)
160 PF00992 Troponin: Troponin; 30.8 2E+02 0.0044 21.3 5.8 45 49-93 40-84 (132)
161 PF07334 IFP_35_N: Interferon- 30.7 1.1E+02 0.0023 21.6 4.1 18 62-79 10-27 (76)
162 PF00038 Filament: Intermediat 30.1 1.6E+02 0.0036 23.3 5.5 36 63-98 220-255 (312)
163 PF07798 DUF1640: Protein of u 30.1 2.4E+02 0.0053 21.3 7.5 30 52-81 44-73 (177)
164 PF02996 Prefoldin: Prefoldin 30.1 1.6E+02 0.0034 20.1 4.8 39 52-93 73-111 (120)
165 cd00427 Ribosomal_L29_HIP Ribo 29.9 61 0.0013 20.6 2.5 24 49-79 3-26 (57)
166 cd04765 HTH_MlrA-like_sg2 Heli 29.9 65 0.0014 22.4 2.9 18 63-80 80-97 (99)
167 PRK05771 V-type ATP synthase s 29.8 2.2E+02 0.0047 25.7 6.8 46 64-109 91-137 (646)
168 PRK03947 prefoldin subunit alp 29.6 2.1E+02 0.0046 20.4 6.0 39 59-97 101-139 (140)
169 PF08614 ATG16: Autophagy prot 29.5 2.6E+02 0.0056 21.4 6.4 25 63-87 120-144 (194)
170 COG0188 GyrA Type IIA topoisom 29.4 88 0.0019 30.1 4.5 33 62-94 437-469 (804)
171 PF04420 CHD5: CHD5-like prote 29.3 1.1E+02 0.0024 23.1 4.3 26 62-87 69-94 (161)
172 CHL00154 rpl29 ribosomal prote 29.1 1.2E+02 0.0025 20.4 3.9 26 47-79 7-32 (67)
173 PF12761 End3: Actin cytoskele 29.1 95 0.0021 25.2 4.1 31 64-94 165-195 (195)
174 TIGR01005 eps_transp_fam exopo 29.0 3.6E+02 0.0077 24.5 8.0 34 66-99 194-227 (754)
175 PF06971 Put_DNA-bind_N: Putat 29.0 67 0.0015 20.5 2.6 20 89-109 31-50 (50)
176 PRK14549 50S ribosomal protein 28.7 40 0.00086 22.6 1.6 26 47-79 7-32 (69)
177 PF02686 Glu-tRNAGln: Glu-tRNA 28.7 33 0.00071 21.8 1.1 26 52-81 1-26 (72)
178 PF00038 Filament: Intermediat 28.2 2.6E+02 0.0057 22.2 6.4 28 63-90 259-286 (312)
179 PF15011 CK2S: Casein Kinase 2 28.1 2.8E+02 0.006 21.3 6.6 50 47-96 52-101 (168)
180 PRK10869 recombination and rep 28.1 4.4E+02 0.0096 23.6 8.5 19 53-71 318-336 (553)
181 PF13864 Enkurin: Calmodulin-b 28.0 88 0.0019 21.6 3.3 27 49-75 34-60 (98)
182 PF13443 HTH_26: Cro/C1-type H 27.9 61 0.0013 19.6 2.2 31 78-109 2-32 (63)
183 smart00529 HTH_DTXR Helix-turn 27.8 1.2E+02 0.0027 19.6 3.8 6 52-57 67-72 (96)
184 PF13907 DUF4208: Domain of un 27.7 2E+02 0.0044 20.0 5.1 42 50-96 37-78 (100)
185 TIGR00012 L29 ribosomal protei 27.7 86 0.0019 19.9 2.9 23 50-79 3-25 (55)
186 PF08172 CASP_C: CASP C termin 27.6 1.9E+02 0.0041 23.7 5.6 34 60-93 87-120 (248)
187 PF00524 PPV_E1_N: E1 Protein, 27.6 65 0.0014 24.2 2.7 23 81-103 67-89 (130)
188 KOG0288|consensus 27.4 2.2E+02 0.0047 26.1 6.4 39 57-95 25-63 (459)
189 PF05529 Bap31: B-cell recepto 26.9 99 0.0021 23.3 3.6 18 62-79 164-181 (192)
190 PRK00306 50S ribosomal protein 26.8 58 0.0012 21.3 2.1 25 48-79 5-29 (66)
191 PF11598 COMP: Cartilage oligo 26.6 1.4E+02 0.0031 19.0 3.8 21 63-83 19-39 (45)
192 PF03148 Tektin: Tektin family 26.6 2.4E+02 0.0051 24.1 6.2 33 58-90 264-296 (384)
193 PF08232 Striatin: Striatin fa 26.6 2.7E+02 0.0058 20.6 6.0 36 59-94 25-60 (134)
194 KOG0933|consensus 26.4 1.9E+02 0.004 29.4 6.1 56 56-116 812-867 (1174)
195 PRK00461 rpmC 50S ribosomal pr 26.1 62 0.0013 23.0 2.3 24 48-71 4-27 (87)
196 PRK10622 pheA bifunctional cho 26.1 1.9E+02 0.004 25.0 5.5 37 62-101 8-47 (386)
197 PF11559 ADIP: Afadin- and alp 26.1 2.6E+02 0.0056 20.3 6.2 37 61-97 54-90 (151)
198 PF14723 SSFA2_C: Sperm-specif 26.0 2.5E+02 0.0053 22.8 5.8 9 50-58 137-145 (179)
199 PF04156 IncA: IncA protein; 26.0 2.8E+02 0.006 20.6 5.8 32 63-94 85-116 (191)
200 PF11932 DUF3450: Protein of u 26.0 3.2E+02 0.007 21.5 6.5 22 74-95 71-92 (251)
201 smart00338 BRLZ basic region l 25.9 1.8E+02 0.0039 18.4 5.8 32 63-94 30-61 (65)
202 PF11932 DUF3450: Protein of u 25.9 3.3E+02 0.0071 21.5 6.5 19 63-81 53-71 (251)
203 PF10372 YojJ: Bacterial membr 25.7 1E+02 0.0023 21.2 3.2 27 60-86 11-37 (70)
204 PHA02562 46 endonuclease subun 25.7 2.8E+02 0.0061 23.7 6.5 13 63-75 310-322 (562)
205 PF09766 FimP: Fms-interacting 25.7 2.2E+02 0.0047 24.2 5.8 27 62-88 111-137 (355)
206 COG0099 RpsM Ribosomal protein 25.6 1E+02 0.0022 23.4 3.5 10 49-58 45-54 (121)
207 PF09766 FimP: Fms-interacting 25.5 3.6E+02 0.0078 22.9 7.1 36 61-96 103-138 (355)
208 PF10186 Atg14: UV radiation r 25.3 3.2E+02 0.0069 21.0 7.4 24 62-85 73-96 (302)
209 PF09340 NuA4: Histone acetylt 25.2 1.5E+02 0.0033 20.3 4.0 20 59-78 9-28 (80)
210 PF05119 Terminase_4: Phage te 24.9 1.1E+02 0.0024 20.2 3.2 22 87-108 71-92 (100)
211 PF04423 Rad50_zn_hook: Rad50 24.7 1.1E+02 0.0025 18.8 3.1 26 50-75 28-53 (54)
212 KOG4253|consensus 24.6 1.6E+02 0.0036 23.7 4.6 31 65-96 44-79 (175)
213 PF09486 HrpB7: Bacterial type 24.6 2.5E+02 0.0054 21.9 5.5 39 61-99 81-119 (158)
214 TIGR00219 mreC rod shape-deter 24.5 2.8E+02 0.006 22.9 6.1 35 63-100 77-111 (283)
215 PRK00034 gatC aspartyl/glutamy 24.2 1.4E+02 0.0031 20.0 3.7 27 51-81 18-44 (95)
216 KOG3335|consensus 24.2 2.5E+02 0.0053 22.8 5.5 24 72-95 105-128 (181)
217 PF08317 Spc7: Spc7 kinetochor 24.2 3.3E+02 0.0071 22.6 6.5 19 62-80 233-251 (325)
218 PRK12758 DNA topoisomerase IV 24.2 1.9E+02 0.0041 28.4 5.6 37 62-98 428-468 (869)
219 PF02370 M: M protein repeat; 24.2 1.4E+02 0.003 16.5 3.4 18 61-78 3-20 (21)
220 PRK07075 isochorismate-pyruvat 23.7 1.9E+02 0.0041 20.4 4.4 31 62-95 11-44 (101)
221 cd08777 Death_RIP1 Death Domai 23.7 1.1E+02 0.0024 21.1 3.1 26 72-100 2-27 (86)
222 PF01978 TrmB: Sugar-specific 23.7 1.2E+02 0.0027 18.8 3.1 29 72-100 8-36 (68)
223 PRK14158 heat shock protein Gr 23.6 3E+02 0.0064 22.0 5.9 20 63-82 44-63 (194)
224 PF11461 RILP: Rab interacting 23.5 1.5E+02 0.0032 20.0 3.6 26 59-84 10-35 (60)
225 COG0255 RpmC Ribosomal protein 23.4 80 0.0017 21.6 2.3 21 48-68 7-27 (69)
226 KOG0415|consensus 23.3 1.4E+02 0.0031 27.2 4.4 17 42-58 193-209 (479)
227 PF11069 DUF2870: Protein of u 23.2 3.1E+02 0.0068 20.2 6.6 45 50-96 45-92 (98)
228 KOG2391|consensus 23.1 2.8E+02 0.0061 24.8 6.1 27 68-94 248-274 (365)
229 PF10883 DUF2681: Protein of u 23.0 2.9E+02 0.0062 19.7 5.3 33 63-95 27-61 (87)
230 PF00769 ERM: Ezrin/radixin/mo 22.9 3E+02 0.0066 22.2 5.9 36 58-93 4-39 (246)
231 PHA02119 hypothetical protein 22.8 77 0.0017 22.8 2.2 20 78-97 7-26 (87)
232 PF06295 DUF1043: Protein of u 22.8 3.1E+02 0.0067 20.0 5.7 34 62-95 28-61 (128)
233 cd00584 Prefoldin_alpha Prefol 22.7 2.8E+02 0.006 19.4 5.1 33 62-94 90-122 (129)
234 COG4026 Uncharacterized protei 22.6 3.5E+02 0.0076 23.3 6.4 34 57-90 147-180 (290)
235 PF08182 Pedibin: Pedibin/Hym- 22.5 1.3E+02 0.0029 18.6 2.9 25 71-95 2-26 (35)
236 PF09726 Macoilin: Transmembra 22.4 2.3E+02 0.005 26.7 5.8 45 50-96 608-652 (697)
237 KOG2264|consensus 22.3 2.1E+02 0.0045 27.9 5.5 37 57-93 98-134 (907)
238 PF14643 DUF4455: Domain of un 22.2 4.4E+02 0.0094 23.1 7.1 56 49-108 236-291 (473)
239 TIGR02977 phageshock_pspA phag 22.2 3.3E+02 0.0072 21.2 5.9 22 72-93 105-126 (219)
240 PRK11557 putative DNA-binding 22.2 65 0.0014 25.1 1.9 22 91-112 49-70 (278)
241 PF10211 Ax_dynein_light: Axon 22.2 3.8E+02 0.0083 20.8 7.5 29 63-91 124-152 (189)
242 TIGR00135 gatC glutamyl-tRNA(G 21.9 1.5E+02 0.0033 20.0 3.5 27 51-81 16-42 (93)
243 PF07996 T4SS: Type IV secreti 21.8 1.6E+02 0.0034 21.9 3.9 25 61-85 21-45 (195)
244 PF11068 YlqD: YlqD protein; 21.8 3.5E+02 0.0076 20.3 7.4 55 51-109 12-66 (131)
245 PRK15482 transcriptional regul 21.8 66 0.0014 25.3 1.9 21 91-111 53-73 (285)
246 PRK09039 hypothetical protein; 21.7 2.2E+02 0.0048 24.1 5.1 34 63-96 50-83 (343)
247 PF00901 Orbi_VP5: Orbivirus o 21.6 4.1E+02 0.009 24.7 7.1 52 49-110 79-130 (508)
248 PF05103 DivIVA: DivIVA protei 21.5 1.1E+02 0.0023 21.2 2.7 44 50-93 16-59 (131)
249 PF05278 PEARLI-4: Arabidopsis 21.3 5.2E+02 0.011 22.0 7.7 48 63-115 211-258 (269)
250 cd08915 V_Alix_like Protein-in 21.3 4.4E+02 0.0095 21.6 6.6 39 63-101 81-119 (342)
251 PF12777 MT: Microtubule-bindi 21.3 4.4E+02 0.0095 22.0 6.7 39 57-95 233-271 (344)
252 PRK11337 DNA-binding transcrip 21.2 68 0.0015 25.2 1.9 21 91-111 65-85 (292)
253 PF07888 CALCOCO1: Calcium bin 21.1 3.2E+02 0.007 25.4 6.3 32 65-96 163-194 (546)
254 PF12795 MscS_porin: Mechanose 21.1 2.7E+02 0.0059 21.8 5.2 29 50-82 145-173 (240)
255 PRK11302 DNA-binding transcrip 20.9 71 0.0015 24.7 1.9 22 91-112 53-74 (284)
256 PF15112 DUF4559: Domain of un 20.8 2.6E+02 0.0057 24.3 5.4 104 11-116 185-298 (307)
257 PF13514 AAA_27: AAA domain 20.6 5.4E+02 0.012 24.9 7.9 51 59-109 801-851 (1111)
258 PF08667 BetR: BetR domain; I 20.6 1.1E+02 0.0023 23.8 2.7 27 76-102 8-38 (147)
259 KOG3632|consensus 20.6 2.8E+02 0.0061 28.5 6.1 55 42-96 144-198 (1335)
260 KOG3990|consensus 20.6 1.4E+02 0.003 26.0 3.6 24 66-89 225-248 (305)
261 PRK13729 conjugal transfer pil 20.5 3.1E+02 0.0068 25.1 6.0 42 55-96 79-120 (475)
262 PRK14163 heat shock protein Gr 20.4 4.8E+02 0.01 21.3 7.3 21 63-83 44-64 (214)
263 PF02388 FemAB: FemAB family; 20.4 4.2E+02 0.0091 22.6 6.5 19 63-81 246-264 (406)
264 PRK10780 periplasmic chaperone 20.4 3.7E+02 0.008 20.0 5.7 21 62-82 53-73 (165)
265 PHA00097 K protein K 20.3 1.5E+02 0.0033 19.9 3.1 38 12-73 3-40 (56)
266 cd00890 Prefoldin Prefoldin is 20.2 3E+02 0.0064 18.8 6.0 43 50-95 81-123 (129)
No 1
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=100.00 E-value=1.3e-34 Score=223.51 Aligned_cols=89 Identities=36% Similarity=0.517 Sum_probs=81.7
Q ss_pred hhhhcccccCcccccccCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchh
Q psy14379 22 LTIIRSFHVVGEEANNLDLSPDSGINDLQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVW 101 (120)
Q Consensus 22 ~~~~~~~~e~gEd~~~~~~~~ds~~~~~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l 101 (120)
|-+.||+|++|||+++...+. .++|||+|++ |||+||+|||+||+||||||+||+|||+|||||||||+|
T Consensus 2 ll~~~~~~e~~~~~~~~~~~~------~~~LsEeE~e----eLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrkLGit~l 71 (162)
T PF04201_consen 2 LLRTDPMTEEGEDTAASISAS------EEGLSEEERE----ELRSELAKVEEEIQTLRQVLAAKERHCAELKRKLGITPL 71 (162)
T ss_pred CCCCCCCCCCCcchhhhccCC------cccCCHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHCCchH
Confidence 346899999999998755443 4899999986 999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcchhhhhcCC
Q psy14379 102 KEFNDDLTQSIKNVKETQV 120 (120)
Q Consensus 102 ~eLkqniskgw~dVq~Sn~ 120 (120)
++|||||+|||||||+|++
T Consensus 72 ~elkqnlskg~~~vq~S~a 90 (162)
T PF04201_consen 72 SELKQNLSKGWHDVQDSNA 90 (162)
T ss_pred HHHHHHHHHHhHhhhchhH
Confidence 9999999999999999985
No 2
>KOG4010|consensus
Probab=99.97 E-value=9.1e-32 Score=213.93 Aligned_cols=90 Identities=40% Similarity=0.595 Sum_probs=76.8
Q ss_pred hhhhhhccccc-CcccccccCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCc
Q psy14379 20 DVLTIIRSFHV-VGEEANNLDLSPDSGINDLQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGF 98 (120)
Q Consensus 20 ~~~~~~~~~~e-~gEd~~~~~~~~ds~~~~~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGi 98 (120)
+.+-+..|..+ +|++.++ .++.+.+||+||+| |||.||+||||||.||||||+||+|||+||||||||
T Consensus 15 ~gl~~~~pt~~~~~~~~a~-------s~s~~~~LSe~Eke----elr~EL~kvEeEI~TLrqVLaAKerH~~ELKRKLGl 83 (208)
T KOG4010|consen 15 QGLLLTEPTSEPVGTDVAA-------SASEFEALSEEEKE----ELRTELAKVEEEIVTLRQVLAAKERHAAELKRKLGL 83 (208)
T ss_pred ccccccCCCCCCCccchhh-------hhhHHhhhcHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence 33445555555 5555553 23448999999987 999999999999999999999999999999999999
Q ss_pred chhHHHHHHHhhcchhhhhcCC
Q psy14379 99 TVWKEFNDDLTQSIKNVKETQV 120 (120)
Q Consensus 99 T~l~eLkqniskgw~dVq~Sn~ 120 (120)
|+|+||+|||++|||||++|++
T Consensus 84 t~~~EL~qnisksw~d~q~st~ 105 (208)
T KOG4010|consen 84 TVLKELKQNISKSWKDVQASTA 105 (208)
T ss_pred chHHHHHHHHHHHHhhhhhHHH
Confidence 9999999999999999999874
No 3
>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=85.82 E-value=2.5 Score=31.38 Aligned_cols=42 Identities=26% Similarity=0.340 Sum_probs=30.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 52 LSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 52 LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
-|+|++.+.-.+|..|+..++.| |++++..++.....+...|
T Consensus 97 ~see~Q~~~i~~L~~E~~~~~~e---l~~~v~e~e~ll~~v~~~i 138 (144)
T PF11221_consen 97 VSEEEQLKRIKELEEENEEAEEE---LQEAVKEAEELLKQVQELI 138 (144)
T ss_dssp S-HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence 57888887778888888777654 6777888887777776543
No 4
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=83.33 E-value=8.4 Score=25.79 Aligned_cols=35 Identities=40% Similarity=0.511 Sum_probs=24.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy14379 47 NDLQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKT 88 (120)
Q Consensus 47 ~~~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~ 88 (120)
.+++.||.+|.+ .-++-++.||.-+++.+..|..+
T Consensus 16 ~dLs~lSv~EL~-------~RIa~L~aEI~R~~~~~~~K~a~ 50 (59)
T PF06698_consen 16 EDLSLLSVEELE-------ERIALLEAEIARLEAAIAKKSAS 50 (59)
T ss_pred CCchhcCHHHHH-------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 568899998754 55666677777777777777544
No 5
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=82.64 E-value=4.1 Score=28.38 Aligned_cols=28 Identities=29% Similarity=0.373 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
+|-.|++-+|.||.-| |++..+|+++|+
T Consensus 58 eLL~EIA~lE~eV~~L-------E~~v~~L~~~l~ 85 (88)
T PF14389_consen 58 ELLEEIALLEAEVAKL-------EQKVLSLYRQLF 85 (88)
T ss_pred HHHHHHHHHHHHHHHH-------HHHHHHHHHHHH
Confidence 7899999999999988 677777887764
No 6
>TIGR02889 spore_YpeB germination protein YpeB. Members of this family are YpeB, a protein usually encoded with the putative spore-cortex-lytic enzyme SleB and required, together with SleB, for normal germination. This family is retricted to endospore-forming species in the Firmicutes lineage of bacteria, and found in all such species to date except Clostridium perfringens. The matching phenotypes of mutants in SleB (called a lytic transglycosylase) and YpeB suggests that YpeB is necessary to allow SleB to function.
Probab=82.35 E-value=2.1 Score=37.70 Aligned_cols=66 Identities=11% Similarity=0.228 Sum_probs=56.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchhHHHHHHHhhcchhhhh
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVWKEFNDDLTQSIKNVKE 117 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l~eLkqniskgw~dVq~ 117 (120)
..||++|++.. ++|+..-.+++++.+.+.+-+....-++.++.++++ ..+.....++..|+++|..
T Consensus 120 ~~lt~~e~~tL-~~L~~~a~~l~~~L~~~q~~v~~g~l~w~~~~~~~~-~~~~~~~~~~~~~f~~ve~ 185 (435)
T TIGR02889 120 KSLSDKEYKTL-TTLYNQAVKLENQLRKVQNIVMQGGVRWGEIRKLYS-GDEAQMPEAILNDFKDVEK 185 (435)
T ss_pred CCCCHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHcCCccchhHhhhhc-cccccCCcchhhHHHHHHH
Confidence 58999999755 689999999999999999999999999999999777 6666777777888887764
No 7
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=78.49 E-value=11 Score=27.95 Aligned_cols=33 Identities=36% Similarity=0.455 Sum_probs=14.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASK 85 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAK 85 (120)
++.+|+||.. ++..++..+.+++..|++-...-
T Consensus 66 ~~~~s~eel~----~ld~ei~~L~~el~~l~~~~k~l 98 (169)
T PF07106_consen 66 LEVPSPEELA----ELDAEIKELREELAELKKEVKSL 98 (169)
T ss_pred cCCCCchhHH----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455565543 33334444444444443333333
No 8
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=77.19 E-value=5.2 Score=25.34 Aligned_cols=23 Identities=35% Similarity=0.491 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHH-HHHHHHH
Q psy14379 61 KAEWTQELARVEEEIN-TLKHVLA 83 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~-TLrQVLa 83 (120)
-+|.|.||.|+.+||- .+||-|.
T Consensus 13 L~EvrkEl~K~K~EIIeA~~~eL~ 36 (40)
T PF08776_consen 13 LEEVRKELQKVKEEIIEAIRQELS 36 (40)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3589999999988875 7877765
No 9
>PRK00736 hypothetical protein; Provisional
Probab=76.24 E-value=17 Score=24.24 Aligned_cols=38 Identities=32% Similarity=0.371 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCc
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGF 98 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGi 98 (120)
-.+|...|+-.|+=|..|..|++.-.+....|+|+|..
T Consensus 7 i~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~ 44 (68)
T PRK00736 7 LTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDA 44 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35888999999999999999999999999999988654
No 10
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=74.68 E-value=19 Score=23.91 Aligned_cols=37 Identities=32% Similarity=0.425 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
.+.|......++.+|..|+--+...++...+++.+|.
T Consensus 64 ~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~ 100 (106)
T PF01920_consen 64 IEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLY 100 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4689999999999999999999999999999988764
No 11
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=74.21 E-value=26 Score=26.89 Aligned_cols=27 Identities=7% Similarity=0.105 Sum_probs=20.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLK 79 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLr 79 (120)
..-||.+=.+ .|+.||..+.++|...|
T Consensus 28 ~~~lT~~G~~----~L~~El~~L~~~i~~Ar 54 (160)
T PRK06342 28 PNLVTEAGLK----ALEDQLAQARAAYEAAQ 54 (160)
T ss_pred CceECHHHHH----HHHHHHHHHHHHHHHHH
Confidence 4568999876 78888888887777654
No 12
>PRK02793 phi X174 lysis protein; Provisional
Probab=74.20 E-value=23 Score=23.85 Aligned_cols=39 Identities=23% Similarity=0.239 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 59 KQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 59 ~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
+.-.+|...|+=.|+=|..|..|++.-.+....|+++|.
T Consensus 8 ~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~ 46 (72)
T PRK02793 8 ARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLR 46 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334688999999999999999999999999999888743
No 13
>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=74.07 E-value=20 Score=22.75 Aligned_cols=41 Identities=22% Similarity=0.352 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---HhhhHHHHH-hhCcch
Q psy14379 60 QKAEWTQELARVEEEINTLKHVLASK---TKTAQDLKK-KLGFTV 100 (120)
Q Consensus 60 ~~eELr~EL~KvEeEI~TLrQVLaAK---ek~~~ELKR-KLGiT~ 100 (120)
+..+++.++.++..++..|++-+..- ..+..++=| +||++.
T Consensus 25 ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~ie~~AR~~lgm~~ 69 (80)
T PF04977_consen 25 EIAELQKEIEELKKENEELKEEIERLKNDPDYIEKVAREKLGMVK 69 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcCCcC
Confidence 34466666666666666665555443 223333334 888764
No 14
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=73.58 E-value=6.1 Score=34.84 Aligned_cols=44 Identities=34% Similarity=0.498 Sum_probs=36.9
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
+..||-+|.+ +|+.|+.++++||..|...|++..+....|+..|
T Consensus 399 L~~LT~~e~~----kL~~E~~~l~~ei~~l~~~l~~~~~~~~~i~~eL 442 (445)
T cd00187 399 LRRLTKLERE----KLLKELKELEAEIEDLEKILASEERPKDLWKEEL 442 (445)
T ss_pred HHHhhhhHHH----HHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence 5678888876 8999999999999999999988888777777653
No 15
>PF15456 Uds1: Up-regulated During Septation
Probab=72.34 E-value=12 Score=27.81 Aligned_cols=39 Identities=33% Similarity=0.436 Sum_probs=31.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHhhhH
Q psy14379 48 DLQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLAS--KTKTAQ 90 (120)
Q Consensus 48 ~~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaA--Kek~~~ 90 (120)
.++-||.||-+ +|+.|+..+..-|..+|.-|+. |-|.++
T Consensus 15 ~feiLs~eEVe----~LKkEl~~L~~R~~~lr~kl~le~k~RdAa 55 (124)
T PF15456_consen 15 EFEILSFEEVE----ELKKELRSLDSRLEYLRRKLALESKIRDAA 55 (124)
T ss_pred cCcccCHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48999999997 9999999999999999987664 444444
No 16
>TIGR01801 CM_A chorismate mutase domain of gram positive AroA protein. This model represents a small clade of chorismate mutase domains N-terminally fused to the first enzyme in the chorismate pathway, 2-dehydro-3-deoxyphosphoheptanoate aldolase (DAHP synthetase, AroA) which are found in some gram positive species and Deinococcus. Only in Deinococcus, where this domain is the sole CM domain in the genome can a trusted assignment of function be made. In the other species there is at least one other trusted CM domain present. The similarity between the Deinococcus gene and the others in this clade is sufficiently strong (~44% identity), that the whole clade can be trusted to be functional. The possibility exists, however, that in the gram positive species the fusion to the first enzyme in the pathway has evolved a separate, regulatory role.
Probab=71.29 E-value=15 Score=26.09 Aligned_cols=38 Identities=13% Similarity=0.262 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh---hhHHHHHhhCcchhH
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTK---TAQDLKKKLGFTVWK 102 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek---~~~ELKRKLGiT~l~ 102 (120)
++||.++..+..+|..| |+.+.. ..+++|++.|.+.+.
T Consensus 7 ~~lR~~ID~ID~eIl~L---L~eR~~~~~~Ig~~K~~~~~~i~d 47 (102)
T TIGR01801 7 EDLRAEVDQLNRQILAL---ISRRGEVVAQIGHAKSAQGPNHYD 47 (102)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHCCCCCCC
Confidence 38999999999999987 555443 346889988876543
No 17
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=71.25 E-value=6.7 Score=36.56 Aligned_cols=41 Identities=27% Similarity=0.353 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLK 93 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELK 93 (120)
+..||..|.+ +|+.|+.++.+||..|+..|+...+...-|+
T Consensus 421 l~~lt~~e~~----kl~~e~~~l~~~i~~l~~iL~~~~~~~~~i~ 461 (738)
T TIGR01061 421 LYRLTNTDIF----ELKEEQNELEKKIISLEQIIASEKARNKLLK 461 (738)
T ss_pred HHHHhHHHHH----HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 4567777765 8999999999999999999988877665443
No 18
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=70.48 E-value=19 Score=31.22 Aligned_cols=38 Identities=32% Similarity=0.464 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHhhhHHHHH
Q psy14379 56 EQEKQKAEWTQELARV-----EEEINTLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 56 E~e~~~eELr~EL~Kv-----EeEI~TLrQVLaAKek~~~ELKR 94 (120)
+|+.+-+|||++|+.. |||-+.+---||-||.|- |||+
T Consensus 86 dRetEI~eLksQL~RMrEDWIEEECHRVEAQLALKEARk-EIkQ 128 (305)
T PF15290_consen 86 DRETEIDELKSQLARMREDWIEEECHRVEAQLALKEARK-EIKQ 128 (305)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH
Confidence 5666777999999986 677777777888888775 6665
No 19
>TIGR01791 CM_archaeal chorismate mutase, archaeal type. This model represents a clade of archaeal chorismate mutases. Chorismate mutase catalyzes the conversion of chorismate into prephenate which is subsequently converted into either phenylalanine or tyrosine. In Sulfolobus this gene is found as a fusion with prephenate dehydrogenase (although the non-TIGR annotation contains a typographical error indicating it as a dehydratase) which is the next enzyme in the tyrosine biosynthesis pathway. The Archaeoglobus gene contains an N-terminal prephenate dehydrogenase domain and a C-terminal prephenate dehydratase domain followed by a regulatory amino acid-binding ACT domain. The Thermoplasma volcanium gene is adjacent to prephenate dehydratase.
Probab=70.39 E-value=14 Score=24.54 Aligned_cols=37 Identities=22% Similarity=0.412 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh---hHHHHHhhCcchh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKT---AQDLKKKLGFTVW 101 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~---~~ELKRKLGiT~l 101 (120)
++||.++..+..+|..| |+.+... .+++|+..|...+
T Consensus 2 ~~lR~~Id~iD~~i~~L---l~~R~~l~~~i~~~K~~~g~~i~ 41 (83)
T TIGR01791 2 EELRQEIEEIDKSILDL---IEKRIKIARKIGEIKHNNGLPIT 41 (83)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHcCCCCC
Confidence 47899999999999988 6655543 4578888886543
No 20
>PF13744 HTH_37: Helix-turn-helix domain; PDB: 2A6C_B 2O38_A.
Probab=70.39 E-value=8.3 Score=25.57 Aligned_cols=44 Identities=23% Similarity=0.367 Sum_probs=24.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcch
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTV 100 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~ 100 (120)
+..|+.++.++. ++|++|... |++.+.++.--..++-+.+|++.
T Consensus 2 ~~dl~~~~~~~~--~~k~~l~~~------i~~~~~~~~ltQ~e~A~~lgisq 45 (80)
T PF13744_consen 2 FADLGFEEAEEL--EAKAQLMAA------IRELREERGLTQAELAERLGISQ 45 (80)
T ss_dssp -------HHHHH--HHHHHHHHH------HHHHHHCCT--HHHHHHHHTS-H
T ss_pred cCcCCHhHHHHH--HHHHHHHHH------HHHHHHHcCCCHHHHHHHHCCCh
Confidence 346777776533 567776543 66667777777779999999987
No 21
>PRK00295 hypothetical protein; Provisional
Probab=69.80 E-value=30 Score=23.08 Aligned_cols=38 Identities=18% Similarity=0.288 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCc
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGF 98 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGi 98 (120)
-.+|...|+=.|+-|..|..|++.-.+....|+++|..
T Consensus 7 i~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~ 44 (68)
T PRK00295 7 VTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAA 44 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35888999999999999999999999999999987543
No 22
>TIGR01063 gyrA DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV.
Probab=69.69 E-value=7.7 Score=36.34 Aligned_cols=46 Identities=30% Similarity=0.459 Sum_probs=36.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH-------HHHHhhCc
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQ-------DLKKKLGF 98 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~-------ELKRKLGi 98 (120)
+..||..|.+ .|+.|+.++++||..|+..|+...+... ++|+++|-
T Consensus 421 L~~Lt~~e~~----kl~~e~~~l~~ei~~l~~iL~~~~~l~~vi~~EL~eikkkfg~ 473 (800)
T TIGR01063 421 LQRLTGLERE----KLQEEYKELLELIADLEDILASEERVLEIIREELEEIKEQFGD 473 (800)
T ss_pred HHHHhHHHHH----HHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHhCC
Confidence 3456666765 8999999999999999999999886644 56666663
No 23
>TIGR01795 CM_mono_cladeE monofunctional chorismate mutase, alpha proteobacterial type. The alpha proteobacterial members are trusted because the pathways of CM are evident and there is only one plausible CM in the genome. In S. coelicolor, however, there is another aparrent monofunctional CM.
Probab=69.45 E-value=19 Score=25.23 Aligned_cols=37 Identities=19% Similarity=0.269 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh---hhHHHHHhhCcchh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTK---TAQDLKKKLGFTVW 101 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek---~~~ELKRKLGiT~l 101 (120)
+++|.++..+..+|..| |+.+.+ ..+++|+..|+..+
T Consensus 6 ~~lR~~ID~ID~qLv~L---L~~R~~~~~~ia~~K~~~~~~v~ 45 (94)
T TIGR01795 6 KALRQSIDNIDAAVIHM---LAERFKCTSQVGVLKANAGLAPA 45 (94)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhCCCCCC
Confidence 48999999999999988 776665 45678988887554
No 24
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=69.21 E-value=30 Score=22.89 Aligned_cols=37 Identities=24% Similarity=0.367 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
-.+|...|+=.|+-|..|.+|++.-.+....|++.|.
T Consensus 6 i~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~ 42 (69)
T PF04102_consen 6 IEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLR 42 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3588899999999999999999999999999998754
No 25
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=68.60 E-value=7.3 Score=36.33 Aligned_cols=46 Identities=33% Similarity=0.375 Sum_probs=35.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH-------HHHHhhCc
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQ-------DLKKKLGF 98 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~-------ELKRKLGi 98 (120)
+..||..|.+ .|+.|+.+++.||..|...|++..+.+. ++|+|+|-
T Consensus 431 L~~Lt~le~~----kl~~E~~~l~~ei~~l~~iL~s~~~l~~~i~~eL~~ik~kfg~ 483 (742)
T PRK05561 431 LRRLAKLEEI----EIRKEQDELRKEIAELEAILASERKLRKLIKKELKADAKKFGD 483 (742)
T ss_pred HHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCC
Confidence 3456666665 8999999999999999999999877654 55666663
No 26
>PHA01750 hypothetical protein
Probab=68.57 E-value=26 Score=24.76 Aligned_cols=40 Identities=25% Similarity=0.356 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 58 EKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 58 e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
.+-++-.++||..+--||+.+.--.-.-+++..|||||+.
T Consensus 34 dAvkeIV~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~d 73 (75)
T PHA01750 34 DAVKEIVNSELDNLKTEIEELKIKQDELSRQVEEIKRKLD 73 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhc
Confidence 3445577888888888888776545556677788888863
No 27
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=68.29 E-value=15 Score=25.57 Aligned_cols=35 Identities=34% Similarity=0.545 Sum_probs=29.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASK 85 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAK 85 (120)
.+||++|.. .-++|...-.++++-|+||=..|.|.
T Consensus 34 ~gLs~~d~~-~L~~L~~~a~rm~eRI~tLE~ILdae 68 (75)
T PF06667_consen 34 QGLSEEDEQ-RLQELYEQAERMEERIETLERILDAE 68 (75)
T ss_pred CCCCHHHHH-HHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 689999865 44688888899999999998888764
No 28
>PTZ00421 coronin; Provisional
Probab=68.07 E-value=26 Score=30.84 Aligned_cols=32 Identities=19% Similarity=0.281 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Q psy14379 60 QKAEWTQELARVEEEINTLKHVLASKTKTAQD 91 (120)
Q Consensus 60 ~~eELr~EL~KvEeEI~TLrQVLaAKek~~~E 91 (120)
+-.+|..+|.+-++||+++|..|..||...-+
T Consensus 454 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 485 (493)
T PTZ00421 454 RLQALSEKLRTQHEEIKRCREALQKKESIVME 485 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34577888888899999999999999987655
No 29
>PF07139 DUF1387: Protein of unknown function (DUF1387); InterPro: IPR009816 This family represents a conserved region approximately 300 residues long within a number of hypothetical proteins of unknown function that seem to be restricted to mammals.
Probab=68.01 E-value=13 Score=31.90 Aligned_cols=45 Identities=22% Similarity=0.343 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCc------chhHHHHHHHh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGF------TVWKEFNDDLT 109 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGi------T~l~eLkqnis 109 (120)
-.|..||-||.+|.--| |.++++++-+|||.--. -.|.|||.+|-
T Consensus 203 vaLl~EmdkVK~EAmei---L~aRqkkAeeLkrltd~A~~MsE~Ql~ELRadIK 253 (302)
T PF07139_consen 203 VALLAEMDKVKAEAMEI---LDARQKKAEELKRLTDRASQMSEEQLAELRADIK 253 (302)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence 37899999999988877 99999999999985322 24677777764
No 30
>PRK09239 chorismate mutase; Provisional
Probab=67.94 E-value=27 Score=25.00 Aligned_cols=38 Identities=21% Similarity=0.254 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh---hHHHHHhhCcchh
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKT---AQDLKKKLGFTVW 101 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~---~~ELKRKLGiT~l 101 (120)
-++||.++..+-.+|..| |+.+.+. .+.+|+..|.+.+
T Consensus 12 L~~lR~~ID~ID~eIv~L---La~R~~l~~~Ia~~K~~~~~~i~ 52 (104)
T PRK09239 12 LAALRQSIDNIDAALIHM---LAERFKCTQAVGVLKAEHGLPPA 52 (104)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHCCCCCC
Confidence 458999999999999988 6666554 4578988887654
No 31
>TIGR01807 CM_P2 chorismate mutase domain of proteobacterial P-protein, clade 2. This model represents one of two separate clades of the chorismate mutase domain of the gamma and beta and epsilon proteobacterial "P-protein" which contains an N-terminal chorismate mutase domain and a C-terminal prephenate dehydratase domain. It is also found in Aquifex aolicus.
Probab=67.91 E-value=20 Score=23.66 Aligned_cols=37 Identities=19% Similarity=0.390 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh---hHHHHHh--hCcchh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKT---AQDLKKK--LGFTVW 101 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~---~~ELKRK--LGiT~l 101 (120)
++||.++..+..+|..| |+.+... .+++|+. .|.+.+
T Consensus 2 ~~lR~~ID~iD~~iv~L---l~~R~~~~~~i~~~K~~~~~~~~i~ 43 (76)
T TIGR01807 2 EELRNKIDAIDDRILDL---LSERATYAQAVGELKGSGASGASFY 43 (76)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhccCCCCcC
Confidence 37899999999999988 6666543 4578888 777644
No 32
>PF04822 Takusan: Takusan; InterPro: IPR006907 This family includes several uncharacterised muridae (mouse and rat) proteins.
Probab=67.87 E-value=25 Score=24.81 Aligned_cols=35 Identities=34% Similarity=0.479 Sum_probs=30.0
Q ss_pred CCCCCHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQE-KQKAEWTQELARVEEEINTLKHVLA 83 (120)
Q Consensus 49 ~~~LseEE~e-~~~eELr~EL~KvEeEI~TLrQVLa 83 (120)
.+.+|..+.. ...|+|..+|-++-.|=.-||..|+
T Consensus 8 ~~~ls~~e~~~k~lE~L~~eL~~it~ERnELr~~L~ 43 (84)
T PF04822_consen 8 PPNLSKKEKKMKELERLKFELQKITKERNELRDILA 43 (84)
T ss_pred CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578888777 7788999999999988889999887
No 33
>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=67.75 E-value=26 Score=33.15 Aligned_cols=73 Identities=19% Similarity=0.197 Sum_probs=40.4
Q ss_pred chhhhhhhhhhhhhhhcccccCcccccccCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy14379 10 IIPKCCLEMQDVLTIIRSFHVVGEEANNLDLSPDSGINDLQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTA 89 (120)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~e~gEd~~~~~~~~ds~~~~~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~ 89 (120)
||-.+-..||-||+++-.+..-.--.. ..+| ..+...|+...+--.||+=|+.=-|.|.|||.||-|- |+-
T Consensus 549 ~irdQikhL~~av~~t~e~srq~~~~~--~~~~------~~d~d~e~l~eqilKLKSLLSTKREQIaTLRTVLKAN-KqT 619 (717)
T PF09730_consen 549 IIRDQIKHLQRAVDRTTELSRQRVASR--SSAS------EADKDKEELQEQILKLKSLLSTKREQIATLRTVLKAN-KQT 619 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhcccc--ccCC------cccccHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH
Confidence 455566678888886543332111000 0001 1122223322233467888888789999999999886 444
Q ss_pred HH
Q psy14379 90 QD 91 (120)
Q Consensus 90 ~E 91 (120)
+|
T Consensus 620 AE 621 (717)
T PF09730_consen 620 AE 621 (717)
T ss_pred HH
Confidence 43
No 34
>PF06628 Catalase-rel: Catalase-related immune-responsive; InterPro: IPR010582 Catalases (1.11.1.6 from EC) are antioxidant enzymes that catalyse the conversion of hydrogen peroxide to water and molecular oxygen, serving to protect cells from its toxic effects []. Hydrogen peroxide is produced as a consequence of oxidative cellular metabolism and can be converted to the highly reactive hydroxyl radical via transition metals, this radical being able to damage a wide variety of molecules within a cell, leading to oxidative stress and cell death. Catalases act to neutralise hydrogen peroxide toxicity, and are produced by all aerobic organisms ranging from bacteria to man. Most catalases are mono-functional, haem-containing enzymes, although there are also bifunctional haem-containing peroxidase/catalases (IPR000763 from INTERPRO) that are closely related to plant peroxidases, and non-haem, manganese-containing catalases (IPR007760 from INTERPRO) that are found in bacteria []. This entry represents a small conserved region within catalase enzymes that carries the immune-responsive amphipathic octa-peptide that is recognised by T cells [].; PDB: 2CAH_A 1NM0_A 1H7K_A 1E93_A 1H6N_A 3HB6_A 2CAG_A 1M85_A 1MQF_A 1A4E_C ....
Probab=67.46 E-value=19 Score=23.62 Aligned_cols=47 Identities=28% Similarity=0.345 Sum_probs=31.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHH-HH--HHHHHHHHHHhhhHHHHHhhC
Q psy14379 51 NLSPEEQEKQKAEWTQELARVEEE-IN--TLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 51 ~LseEE~e~~~eELr~EL~KvEeE-I~--TLrQVLaAKek~~~ELKRKLG 97 (120)
.||++|++..-.-+-..|+.+-++ |+ .|..+-.+=......+...||
T Consensus 19 ~l~~~er~~lv~nia~~l~~v~~~~i~~r~l~~f~~vd~~lg~~v~~~lg 68 (68)
T PF06628_consen 19 VLSDEERERLVENIAGHLSGVSDEEIQERVLAYFYKVDPDLGQRVAEALG 68 (68)
T ss_dssp HSSHHHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHH-HHHHHHHHHHHT
T ss_pred HCCHHHHHHHHHHHHHHHccCChhhHHHHHHHHHHHhCHHHHHHHHHHcC
Confidence 579999998888999999998776 77 444444333334444555554
No 35
>PF14620 YPEB: YpeB sporulation
Probab=67.32 E-value=10 Score=32.44 Aligned_cols=48 Identities=19% Similarity=0.244 Sum_probs=42.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCc
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGF 98 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGi 98 (120)
..||++|.... ++|+.....+..+.+.|.+-+.+..-++.++.++++=
T Consensus 110 ~~Lt~~e~~tL-~~L~~~s~~l~~~L~~~~~~v~~~~l~w~d~~~~~~~ 157 (361)
T PF14620_consen 110 EPLTDEEYKTL-KELYEQSGELNKELQDVQNKVLSGNLRWMDVEKALAS 157 (361)
T ss_pred CCCCHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHhhhh
Confidence 68999998755 6999999999999999999999999999999888664
No 36
>PRK07248 hypothetical protein; Provisional
Probab=66.10 E-value=23 Score=23.84 Aligned_cols=37 Identities=24% Similarity=0.370 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh---hHHHHHhhCcchh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKT---AQDLKKKLGFTVW 101 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~---~~ELKRKLGiT~l 101 (120)
++||.++..+..+|..| |+.+... .+.+|++.|.+.+
T Consensus 4 ~~lR~~ID~iD~~i~~L---l~~R~~l~~~I~~~K~~~~~~v~ 43 (87)
T PRK07248 4 EEIRQEIDQIDDQLVAL---LEKRMALVEQVVAYKKATGKPVL 43 (87)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHcCCCCC
Confidence 47899999999999988 6555443 3578988887654
No 37
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=65.90 E-value=3.9 Score=32.11 Aligned_cols=38 Identities=26% Similarity=0.404 Sum_probs=11.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q psy14379 52 LSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQ 90 (120)
Q Consensus 52 LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ 90 (120)
|-|+|. .+|+.|+.++..+.+|+..|||=|..++|...
T Consensus 18 lLE~EL-dEKE~L~~~~QRLkDE~RDLKqEl~V~ek~~~ 55 (166)
T PF04880_consen 18 LLESEL-DEKENLREEVQRLKDELRDLKQELIVQEKLRK 55 (166)
T ss_dssp HHHHHH-HHHHHHHHCH----------------------
T ss_pred HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 445666 45789999999999999999999988887653
No 38
>PRK09458 pspB phage shock protein B; Provisional
Probab=65.75 E-value=18 Score=25.47 Aligned_cols=35 Identities=37% Similarity=0.546 Sum_probs=27.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASK 85 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAK 85 (120)
.+||++|+. +-++|-..-.++++-|+||-..|.|-
T Consensus 34 ~~Ls~~d~~-~L~~L~~~A~rm~~RI~tLE~ILDae 68 (75)
T PRK09458 34 QGLSQEEQQ-RLAQLTEKAERMRERIQALEAILDAE 68 (75)
T ss_pred CCCCHHHHH-HHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 589999875 34677788888999999998888763
No 39
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=65.28 E-value=31 Score=26.55 Aligned_cols=41 Identities=22% Similarity=0.452 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 56 EQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 56 E~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
+...+.++++..+..+..+|..++.-+..+.++..+++..|
T Consensus 60 ~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l 100 (302)
T PF10186_consen 60 QLKREIEELRERLERLRERIERLRKRIEQKRERLEELRESL 100 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444556777777777777777777777777777766553
No 40
>PRK04325 hypothetical protein; Provisional
Probab=64.32 E-value=37 Score=22.99 Aligned_cols=37 Identities=27% Similarity=0.274 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
-.+|...|+=.|+=|..|..|++.-.+....|+|+|.
T Consensus 11 i~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~ 47 (74)
T PRK04325 11 ITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLR 47 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3588999999999999999999999999999998754
No 41
>PRK00846 hypothetical protein; Provisional
Probab=63.52 E-value=37 Score=23.73 Aligned_cols=46 Identities=20% Similarity=0.196 Sum_probs=38.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 52 LSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 52 LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
|-.++-++.-.+|...|+=-|+=|..|-+|++.-.+....|+++|.
T Consensus 6 ~~~~~le~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~ 51 (77)
T PRK00846 6 LRDQALEARLVELETRLSFQEQALTELSEALADARLTGARNAELIR 51 (77)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555566789999999999999999999999999999998754
No 42
>PF14282 FlxA: FlxA-like protein
Probab=63.14 E-value=36 Score=24.23 Aligned_cols=37 Identities=16% Similarity=0.316 Sum_probs=26.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKT 86 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKe 86 (120)
.+|++|++..+++.|..+|..++..|..|..-.+.+.
T Consensus 42 ~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~q~~~~~ 78 (106)
T PF14282_consen 42 SDLDAEQKQQQIQLLQAQIQQLQAQIAQLQSQQAEQQ 78 (106)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677888888888888888888888877755554443
No 43
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=63.03 E-value=25 Score=25.10 Aligned_cols=48 Identities=17% Similarity=0.156 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-H--hhhHHH-HHhhCcchhHH
Q psy14379 56 EQEKQKAEWTQELARVEEEINTLKHVLASK-T--KTAQDL-KKKLGFTVWKE 103 (120)
Q Consensus 56 E~e~~~eELr~EL~KvEeEI~TLrQVLaAK-e--k~~~EL-KRKLGiT~l~e 103 (120)
+..++.++++.|+.+++.+-..|+.=+..- . .+..++ +++||++-=+|
T Consensus 31 ~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyiEe~AR~~Lg~vk~gE 82 (105)
T PRK00888 31 RVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQEAIEERARNELGMVKPGE 82 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHHHHcCCCCCCC
Confidence 334445566666666655555444332221 1 233333 45688875444
No 44
>TIGR01805 CM_mono_grmpos monofunctional chorismate mutase, gram positive-type, clade 2. This model represents a clade of chorismate mutase proteins/domains from gram positive species. The sequence from Enterococcus is fused to the C-terminus of an aparrent acetyltransferase, and the seuence from Clostridium acetobutylicum (but not perfringens) is fused to the N-terminus of shikimate-5-dehydrogenase, another enzyme of the chorismate pathway. All the other members of this clade are mono-functional. Members of this clade from Streptococcus and Lactococcus have been found which represent the sole chorismate mutase domain in their respective genomes which also exhibit evidence of the enzymes of both the upstream and downstream branches of the chorismate pathways.
Probab=62.95 E-value=25 Score=23.46 Aligned_cols=37 Identities=14% Similarity=0.364 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh---hHHHHHhhCcchh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKT---AQDLKKKLGFTVW 101 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~---~~ELKRKLGiT~l 101 (120)
+++|.++..+..+|..| |+.+..- .+.+|+..|.+.+
T Consensus 2 ~~lR~~Id~iD~~i~~L---l~~R~~~~~~i~~~K~~~~~~i~ 41 (81)
T TIGR01805 2 ELIRKKIDEIDDKLVVL---FEERMEVVKEIAAYKKKNGIPIF 41 (81)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHcCCCCC
Confidence 47899999999999987 6555443 3578888887654
No 45
>TIGR01799 CM_T chorismate mutase domain of T-protein. This model represents the chorismate mutase domain of the gamma proteobacterial "T-protein" which consists of an N-terminal chorismate mutase domain and a C-terminal prephenate dehydrogenase domain.
Probab=62.40 E-value=25 Score=23.60 Aligned_cols=37 Identities=22% Similarity=0.434 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh---hHHHHHhhCcchh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKT---AQDLKKKLGFTVW 101 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~---~~ELKRKLGiT~l 101 (120)
+++|.++..+..+|..| |+.+... .+.+|++.|...+
T Consensus 2 ~~lR~~ID~ID~~il~L---l~~R~~~~~~ia~~K~~~~~~v~ 41 (83)
T TIGR01799 2 EDLRGEIDGVDQELLHL---LAKRLELVAQVGKVKHAAGLPIY 41 (83)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhCCCCCC
Confidence 37899999999999987 6555433 3578988887544
No 46
>KOG3335|consensus
Probab=62.36 E-value=19 Score=29.04 Aligned_cols=51 Identities=18% Similarity=0.246 Sum_probs=32.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC--cchhHHHHHH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG--FTVWKEFNDD 107 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG--iT~l~eLkqn 107 (120)
+...+|.+..+.+|||..+.++|.+|..+++ .+.+|.++|+ .+.+.+++|+
T Consensus 97 e~~kee~~~~e~~elr~~~~~l~~~i~~~~~-------~~~~L~~~l~~~~~el~~~~q~ 149 (181)
T KOG3335|consen 97 ERKKEEKRKQEIMELRLKVEKLENAIAELTK-------FFSQLHSKLNKPESELKPIRQA 149 (181)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHcCccccccccccC
Confidence 5566888887888888888777776666554 4455545544 2344445544
No 47
>PRK04406 hypothetical protein; Provisional
Probab=62.17 E-value=48 Score=22.65 Aligned_cols=38 Identities=16% Similarity=0.251 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 60 QKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 60 ~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
.-.+|...|+=.|+=|..|..|++.-.+....|+|+|.
T Consensus 12 Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~ 49 (75)
T PRK04406 12 RINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMK 49 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34688899999999999999999999999999998743
No 48
>KOG4571|consensus
Probab=61.73 E-value=21 Score=30.74 Aligned_cols=24 Identities=25% Similarity=0.390 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 62 AEWTQELARVEEEINTLKHVLASK 85 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAK 85 (120)
++||..+..+|.||+-|||.+..+
T Consensus 265 ~~LK~qa~~lerEI~ylKqli~e~ 288 (294)
T KOG4571|consen 265 EELKDQASELEREIRYLKQLILEV 288 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666677777777766554
No 49
>PRK11546 zraP zinc resistance protein; Provisional
Probab=60.95 E-value=35 Score=26.35 Aligned_cols=37 Identities=22% Similarity=0.300 Sum_probs=24.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTA 89 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~ 89 (120)
...||+|.++ .++.=..+--.+...||+-|.+|.-..
T Consensus 41 ~~~LT~EQQa----~~q~I~~~f~~~t~~LRqqL~aKr~EL 77 (143)
T PRK11546 41 AAPLTTEQQA----AWQKIHNDFYAQTSALRQQLVSKRYEY 77 (143)
T ss_pred cccCCHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4579999986 344444444566667777777775443
No 50
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit, proteobacterial. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=59.41 E-value=16 Score=34.42 Aligned_cols=38 Identities=24% Similarity=0.304 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhH-------HHHHhhCc
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQ-------DLKKKLGF 98 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~-------ELKRKLGi 98 (120)
..+++.|+..++.||..|+..|++..+... ++|.++|-
T Consensus 426 ~~~i~~E~~~l~~e~~~l~~~L~~~~~~~~~i~~el~~~~~~~g~ 470 (735)
T TIGR01062 426 EHAIIDEQSELEKERAILEKILKSERELNQLVKKEIQADATKYGL 470 (735)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCC
Confidence 358899999999999999999999988855 55566663
No 51
>PRK05560 DNA gyrase subunit A; Validated
Probab=58.14 E-value=16 Score=34.23 Aligned_cols=46 Identities=30% Similarity=0.393 Sum_probs=35.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-------hHHHHHhhCc
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKT-------AQDLKKKLGF 98 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~-------~~ELKRKLGi 98 (120)
+..||..|.+ .|+.|+.++.+||..|+..|+...+. +.++|+++|-
T Consensus 424 L~~LT~~e~~----kL~~E~~~l~~ei~~l~~iL~~~~~l~~~i~~EL~~ikkkfg~ 476 (805)
T PRK05560 424 LQRLTGLERD----KIEDEYKELLALIADLKDILASPERLLEIIKEELLEIKEKFGD 476 (805)
T ss_pred HHHHhHHHHH----HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCC
Confidence 4557777765 88999999999999999999997554 4466777773
No 52
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=57.91 E-value=24 Score=24.12 Aligned_cols=27 Identities=37% Similarity=0.521 Sum_probs=19.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 51 NLSPEEQEKQKAEWTQELARVEEEINTLKHVLAS 84 (120)
Q Consensus 51 ~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaA 84 (120)
.-|.||+ ..++..+|++|.+.|+||..
T Consensus 51 ~~s~eeq-------~~~i~~Le~~i~~k~~~L~~ 77 (83)
T PF07544_consen 51 DRSVEEQ-------EEEIEELEEQIRKKREVLQK 77 (83)
T ss_pred cCCHHHH-------HHHHHHHHHHHHHHHHHHHH
Confidence 3456655 47777778888888888764
No 53
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=57.76 E-value=30 Score=23.16 Aligned_cols=23 Identities=30% Similarity=0.274 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 62 AEWTQELARVEEEINTLKHVLAS 84 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaA 84 (120)
+-|+.|+..++.+|..=+...+|
T Consensus 31 a~L~aEI~R~~~~~~~K~a~r~A 53 (59)
T PF06698_consen 31 ALLEAEIARLEAAIAKKSASRAA 53 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 36888888888888766555544
No 54
>PRK13979 DNA topoisomerase IV subunit A; Provisional
Probab=57.55 E-value=17 Score=35.12 Aligned_cols=44 Identities=25% Similarity=0.396 Sum_probs=33.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH-------HHHHhhC
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQ-------DLKKKLG 97 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~-------ELKRKLG 97 (120)
.-||--|++ .|+.|+..+.++|..|...|+...+... ++|+++|
T Consensus 441 ~~Lt~le~~----kl~~E~~eL~~~I~~l~~iL~~~~~l~~vi~~EL~eik~kyg 491 (957)
T PRK13979 441 YRLTGLEIV----AFEKEYKELEKLIKKLTKILSSEKELLKVIKKELKEVKEKYG 491 (957)
T ss_pred HhhhhhHHH----HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhC
Confidence 344444554 8899999999999999999999987766 4555555
No 55
>PF01418 HTH_6: Helix-turn-helix domain, rpiR family; InterPro: IPR000281 This domain contains a helix-turn-helix motif []. Every member of this family is N-terminal to a SIS domain IPR001347 from INTERPRO. Members of this family are probably regulators of genes involved in phosphosugar metobolism.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2O3F_B 3IWF_B.
Probab=56.99 E-value=7.3 Score=25.66 Aligned_cols=23 Identities=43% Similarity=0.661 Sum_probs=19.2
Q ss_pred HHHHhhCcchhHHHHHHHhhcch
Q psy14379 91 DLKKKLGFTVWKEFNDDLTQSIK 113 (120)
Q Consensus 91 ELKRKLGiT~l~eLkqniskgw~ 113 (120)
.+=||||++.+.+||..+.+...
T Consensus 53 Rf~kkLG~~gf~efk~~l~~~~~ 75 (77)
T PF01418_consen 53 RFCKKLGFSGFKEFKIALAQELS 75 (77)
T ss_dssp HHHHHCTTTCHHHHHHHHHCHHH
T ss_pred HHHHHhCCCCHHHHHHHHHHHHh
Confidence 45689999999999999987643
No 56
>TIGR01803 CM-like chorismate mutase related enzymes. This subfamily includes two enzymes which are variants on the mechanism of chorismate mutase and are likely to have evolved from an ancestral chorismate mutase enzyme. 4-amino-4-deoxy-chorismate mutase produces amino-deoxy-prephenate which is subsequently converted to para-dimethylamino-phenylalanine, a component of the natural product pristinamycin. Isochorismate-pyruvate lyase presumably catalyzes the same type of 2+2+2 cyclo-rearrangement as chorismate mutase, but acting on isochorismate, this results in two broken bonds instead of one broken and one made. The product of this reaction is salicylate (2-hydroxy-benzoate) which is also incorporated into various natural products.
Probab=56.65 E-value=36 Score=22.78 Aligned_cols=37 Identities=14% Similarity=0.240 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh---hHHHHHhhCcchh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKT---AQDLKKKLGFTVW 101 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~---~~ELKRKLGiT~l 101 (120)
++||.++..+..+|..| |+.+.+. .+.+|+..|...+
T Consensus 2 ~~lR~~ID~ID~~lv~L---l~~R~~~~~~ia~~K~~~~~~v~ 41 (82)
T TIGR01803 2 ADIREAIDRIDLALVQA---LGRRMDYVKRASEFKRSHEAAIP 41 (82)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCCCC
Confidence 37899999999999988 6666544 3578887776554
No 57
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=56.50 E-value=53 Score=27.17 Aligned_cols=42 Identities=36% Similarity=0.425 Sum_probs=27.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
+....++.+ .+|.+|+.+..+|..+|+-|...+.+...|+.+
T Consensus 204 ~~~D~~eL~----~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~ 245 (325)
T PF08317_consen 204 ESCDQEELE----ALRQELAEQKEEIEAKKKELAELQEELEELEEK 245 (325)
T ss_pred hhcCHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455554 677777777777777777776666666665544
No 58
>PRK14127 cell division protein GpsB; Provisional
Probab=55.92 E-value=80 Score=23.26 Aligned_cols=49 Identities=16% Similarity=0.284 Sum_probs=38.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
+-|.+.+|-+.--.++-.++..+..|+..|+.-+..-+....++++++.
T Consensus 20 ~RGYd~~EVD~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~ 68 (109)
T PRK14127 20 MRGYDQDEVDKFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQVS 68 (109)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 5689999888777777777777778888888888888888888877654
No 59
>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12).
Probab=55.81 E-value=25 Score=29.97 Aligned_cols=18 Identities=17% Similarity=0.296 Sum_probs=13.6
Q ss_pred hhhhhhhcccccCccccc
Q psy14379 19 QDVLTIIRSFHVVGEEAN 36 (120)
Q Consensus 19 ~~~~~~~~~~~e~gEd~~ 36 (120)
|+|+.||+.+++.-+.-.
T Consensus 48 ~~A~~fA~~ld~~~~kl~ 65 (301)
T PF06120_consen 48 QEAIEFADSLDELKEKLK 65 (301)
T ss_pred HHHHHHHHhhHHHHHHHH
Confidence 578889999988765543
No 60
>PRK06285 chorismate mutase; Provisional
Probab=55.52 E-value=43 Score=23.18 Aligned_cols=37 Identities=32% Similarity=0.597 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh---HHHHHhhCcchh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTA---QDLKKKLGFTVW 101 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~---~ELKRKLGiT~l 101 (120)
++||.++..+..+|..| |+.+...+ +.+|+..|...+
T Consensus 10 ~elR~~ID~ID~~iv~L---l~~R~~l~~~I~~~K~~~~~~v~ 49 (96)
T PRK06285 10 NEIRKRIDEIDEQIIDL---IAERTSLAKEIAELKKSLGMPIF 49 (96)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHcCCCCC
Confidence 48999999999999988 66655443 577888776543
No 61
>PRK10360 DNA-binding transcriptional activator UhpA; Provisional
Probab=55.35 E-value=16 Score=25.37 Aligned_cols=27 Identities=19% Similarity=0.175 Sum_probs=23.9
Q ss_pred HhhhHHHHHhhCcchhHHHHHHHhhcc
Q psy14379 86 TKTAQDLKKKLGFTVWKEFNDDLTQSI 112 (120)
Q Consensus 86 ek~~~ELKRKLGiT~l~eLkqniskgw 112 (120)
++|...|++|||...-.+|-.-+.+||
T Consensus 170 ~~~~~~l~~Kl~~~~~~~l~~~~~~~~ 196 (196)
T PRK10360 170 HVHRANLMEKLGVSNDVELARRMFDGW 196 (196)
T ss_pred HHHHHHHHHHhCCCCHHHHHHHHHhcC
Confidence 467788999999999999999999998
No 62
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=54.98 E-value=35 Score=23.63 Aligned_cols=35 Identities=31% Similarity=0.467 Sum_probs=28.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASK 85 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAK 85 (120)
.+||.+|.+. -++|.....++++-|+||=..|.+.
T Consensus 34 ~~ls~~d~~~-L~~L~~~a~rm~eRI~tLE~ILd~e 68 (75)
T TIGR02976 34 ASLSTDDQAL-LQELYAKADRLEERIDTLERILDAE 68 (75)
T ss_pred CCCCHHHHHH-HHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 4799998764 4688888899999999998888764
No 63
>PF05121 GvpK: Gas vesicle protein K ; InterPro: IPR007805 Gas vesicles are intracellular, protein-coated, and hollow organelles found in cyanobacteria and halophilic archaea. They are permeable to ambient gases by diffusion and provide buoyancy, enabling cells to move upwards in liquid to access oxygen and/or light. Proteins containing this domain are involved in the formation of gas vesicles [].; GO: 0031412 gas vesicle organization
Probab=54.89 E-value=24 Score=25.50 Aligned_cols=30 Identities=27% Similarity=0.398 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHhhCcchh
Q psy14379 72 EEEINTLKHVLASKTKTAQDLKKKLGFTVW 101 (120)
Q Consensus 72 EeEI~TLrQVLaAKek~~~ELKRKLGiT~l 101 (120)
++||..|=..|..-+.+..+||..+|+++=
T Consensus 44 e~qiErlG~tLm~Le~~~~~l~~~~gl~~~ 73 (88)
T PF05121_consen 44 EEQIERLGETLMKLEEAMEELCERFGLTPE 73 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCHH
Confidence 355555555666666667777888888873
No 64
>PRK07857 hypothetical protein; Provisional
Probab=54.85 E-value=67 Score=23.63 Aligned_cols=37 Identities=24% Similarity=0.298 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh---hhHHHHHhhCcchhH
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTK---TAQDLKKKLGFTVWK 102 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek---~~~ELKRKLGiT~l~ 102 (120)
+||+++.++..+|..| |+.+.+ +.+++|++.|...+.
T Consensus 32 ~lR~eID~ID~eIl~L---L~eR~~la~eIg~~K~~~g~pI~d 71 (106)
T PRK07857 32 ELREEIDRLDAEILAL---VKRRTEVSQAIGKARMASGGTRLV 71 (106)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhccCCCccC
Confidence 8999999999999987 655543 455789988886653
No 65
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=54.71 E-value=30 Score=23.36 Aligned_cols=32 Identities=22% Similarity=0.389 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 64 WTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 64 Lr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
||......|..|..|+.-+...+.....|+++
T Consensus 38 Lr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~ 69 (74)
T PF12329_consen 38 LRAKIKELEKQIKELKKKLEELEKELESLEER 69 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444444444443
No 66
>TIGR01797 CM_P_1 chorismate mutase domain of proteobacterial P-protein, clade 1. This model represents the chorismate mutase domain of the gamma and beta proteobacterial "P-protein" which contains an N-terminal chorismate mutase domain and a C-terminal prephenate dehydratase domain.
Probab=54.69 E-value=47 Score=22.34 Aligned_cols=37 Identities=19% Similarity=0.197 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh---HHHHHhhCcchh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTA---QDLKKKLGFTVW 101 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~---~ELKRKLGiT~l 101 (120)
++||.++.++..+|..| |+-+.+-+ +.+|++.|++.+
T Consensus 2 ~~lR~~ID~ID~~lv~L---l~~R~~~~~~i~~~K~~~~~~v~ 41 (83)
T TIGR01797 2 LALREKISAIDEKLLKL---LAERRELAFEVGKSKLLSHRPVR 41 (83)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHcCCCCC
Confidence 37899999999999887 65554433 578888887654
No 67
>TIGR01808 CM_M_hiGC-arch monofunctional chorismate mutase, high GC gram positive type. This model represents the monofunctional chorismate mutase from high GC gram-positive bacteria and archaea. Trusted annotations from Corynebacterium and Pyrococcus are aparrently the sole chorismate mutase enzymes in their respective genomes. This is coupled with the presence in those genomes of the enzymes of the chorismate pathways both up- and downstream of chorismate mutase.
Probab=54.62 E-value=47 Score=22.21 Aligned_cols=38 Identities=18% Similarity=0.228 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh---hHHHHHhhCcchhH
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKT---AQDLKKKLGFTVWK 102 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~---~~ELKRKLGiT~l~ 102 (120)
.+||.++..+..+|..| |+.+..- .+.+|+..|.+.+.
T Consensus 3 ~~lR~~ID~ID~~ii~L---L~~R~~~~~~i~~~K~~~~~~i~d 43 (74)
T TIGR01808 3 DTLREEIDRLDAEILAL---VKRRAEISQAIGKARMASGGTRLV 43 (74)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhCCCCCCC
Confidence 37899999999999988 6555433 46788888876543
No 68
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=54.27 E-value=58 Score=21.15 Aligned_cols=37 Identities=22% Similarity=0.400 Sum_probs=23.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQ 90 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ 90 (120)
-+||++.+. +++.-+.+.-.+...+|+-+.++.....
T Consensus 40 l~Lt~eQ~~----~l~~~~~~~~~~~~~~r~~~~~~r~~l~ 76 (125)
T PF13801_consen 40 LNLTPEQQA----KLRALMDEFRQEMRALRQELRAARQELR 76 (125)
T ss_dssp S-TTHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCCHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 589999876 5555555555666667766666655443
No 69
>PRK02119 hypothetical protein; Provisional
Probab=53.92 E-value=67 Score=21.74 Aligned_cols=37 Identities=19% Similarity=0.223 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
-.+|...|+=.|+-|..|..|++.-.+....|+|+|.
T Consensus 11 i~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~ 47 (73)
T PRK02119 11 IAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLR 47 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688889999999999999999999999999998754
No 70
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=53.82 E-value=34 Score=22.18 Aligned_cols=25 Identities=28% Similarity=0.464 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 59 KQKAEWTQELARVEEEINTLKHVLA 83 (120)
Q Consensus 59 ~~~eELr~EL~KvEeEI~TLrQVLa 83 (120)
++.+.|..+|.+++.+|..+..-|+
T Consensus 4 ~E~~rL~Kel~kl~~~i~~~~~kL~ 28 (66)
T PF10458_consen 4 AEIERLEKELEKLEKEIERLEKKLS 28 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4456899999999999999987765
No 71
>PF05979 DUF896: Bacterial protein of unknown function (DUF896); InterPro: IPR009242 This family consists of several short, hypothetical bacterial proteins of unknown function. They may be involved in the bacterial SOS response [].; PDB: 2HEP_A 3BHP_C 2JVD_A.
Probab=51.74 E-value=15 Score=25.07 Aligned_cols=19 Identities=37% Similarity=0.485 Sum_probs=10.5
Q ss_pred CCCCCHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQEL 68 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL 68 (120)
..|||+||.+ ++++||.+-
T Consensus 16 ~~gLT~eE~~-Eq~~LR~eY 34 (65)
T PF05979_consen 16 EEGLTEEEKA-EQAELRQEY 34 (65)
T ss_dssp TT---HHHHH-HHHHHHHHH
T ss_pred cCCCCHHHHH-HHHHHHHHH
Confidence 3699999985 445666654
No 72
>PF07564 DUF1542: Domain of Unknown Function (DUF1542); InterPro: IPR011439 This domain is found in several cell surface proteins. Some are involved in antibiotic resistance (e.g. Q9RL69 from SWISSPROT and Q9LCJ9 from SWISSPROT) [] and/or cellular adhesion (e.g. Q931R6 from SWISSPROT) []. In some proteins it is repeated more than fifteen times.
Probab=51.45 E-value=63 Score=20.77 Aligned_cols=48 Identities=31% Similarity=0.298 Sum_probs=37.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhhhHHHHH
Q psy14379 47 NDLQNLSPEEQEKQKAEWTQELARVEEEIN---TLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 47 ~~~~~LseEE~e~~~eELr~EL~KvEeEI~---TLrQVLaAKek~~~ELKR 94 (120)
...+.||.||+......+..-+.+-...|. |--+|=.+|..-...|..
T Consensus 7 ~~~~~~T~eEK~~A~~~v~~~~~~a~~~I~~a~t~~~V~~~~~~~~~~I~~ 57 (70)
T PF07564_consen 7 NNNPNATDEEKQAAKQKVDQILNQAINAINQATTNADVDKAKNKGIQAINK 57 (70)
T ss_pred hcCCcCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHc
Confidence 445799999999888888888888877777 777777777766666653
No 73
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=51.14 E-value=88 Score=23.70 Aligned_cols=27 Identities=15% Similarity=0.235 Sum_probs=11.5
Q ss_pred HHHHHHhhhHHHHHhhCcchhHHHHHHH
Q psy14379 81 VLASKTKTAQDLKKKLGFTVWKEFNDDL 108 (120)
Q Consensus 81 VLaAKek~~~ELKRKLGiT~l~eLkqni 108 (120)
....-+.+..++..|+... ++.||..|
T Consensus 121 e~~~~~~ki~e~~~ki~~e-i~~lr~~i 147 (177)
T PF07798_consen 121 EQAKQELKIQELNNKIDTE-IANLRTEI 147 (177)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence 3444444444554444433 23344433
No 74
>PF09784 L31: Mitochondrial ribosomal protein L31; InterPro: IPR016340 This group represents a predicted mitochondrial ribosomal protein L31, fungal type [, ].
Probab=50.97 E-value=19 Score=26.82 Aligned_cols=44 Identities=27% Similarity=0.276 Sum_probs=33.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
--||.-.+ ..+|.-|..|.+=|.+|.+.|..+-..|.-|-+-+-
T Consensus 14 wRlS~~qK----~r~R~Rlr~VD~vi~~l~~al~~~~~~~~~~~~~~~ 57 (103)
T PF09784_consen 14 WRLSSPQK----ARQRKRLRAVDSVIDTLYEALKKKGKQCKALERLKF 57 (103)
T ss_pred CCCChHHH----HHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence 45666554 478899999999999999999877666666655443
No 75
>PRK12595 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed
Probab=50.42 E-value=51 Score=28.18 Aligned_cols=38 Identities=16% Similarity=0.284 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh---hHHHHHhhCcchhH
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKT---AQDLKKKLGFTVWK 102 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~---~~ELKRKLGiT~l~ 102 (120)
++||.++.++..+|..| |+.+.+- .+++|++.|++.+.
T Consensus 7 ~~lR~~ID~ID~eIl~L---L~~R~~~~~~I~~~K~~~g~pi~d 47 (360)
T PRK12595 7 EQLRKEIDEINLQLLEL---LSKRGELVQEIGEEKTKQGTKRYD 47 (360)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhCCCCCCC
Confidence 48999999999999988 6555443 45789998876543
No 76
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=50.28 E-value=83 Score=21.78 Aligned_cols=36 Identities=19% Similarity=0.353 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
...|...+..++.+|..|..-+...++...+++.+|
T Consensus 65 ~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l 100 (105)
T cd00632 65 RTELKERLETIELRIKRLERQEEDLQEKLKELQEKI 100 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467788888888888888888888888888888764
No 77
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=49.24 E-value=59 Score=30.86 Aligned_cols=26 Identities=31% Similarity=0.516 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 71 VEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 71 vEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
.+.+|.+|+--|..|.++..+|+++|
T Consensus 479 ~~~~I~~L~~~L~e~~~~ve~L~~~l 504 (652)
T COG2433 479 RDRRIERLEKELEEKKKRVEELERKL 504 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667777777777777777788774
No 78
>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=48.88 E-value=78 Score=26.48 Aligned_cols=33 Identities=27% Similarity=0.414 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
++..||.+++.|...|.+-|..-++...+|.+.
T Consensus 47 ~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~e 79 (314)
T PF04111_consen 47 ELEEELEKLEQEEEELLQELEELEKEREELDQE 79 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555555555555555555555544443
No 79
>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []. Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.
Probab=48.83 E-value=43 Score=27.06 Aligned_cols=35 Identities=31% Similarity=0.440 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
+.|..++...+.+|..|.+....|+..+..|+.+|
T Consensus 78 ~~Le~e~~e~~~~i~~l~ee~~~ke~Ea~~lq~el 112 (246)
T PF00769_consen 78 EQLEQELREAEAEIARLEEESERKEEEAEELQEEL 112 (246)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48899999999999999999999999999998764
No 80
>PF08178 GnsAB: GnsA/GnsB family; InterPro: IPR012563 This family consists of the GnsA/GnsB family. GnsA and GnsB are multicopy suppressors of the secG null mutation. These proteins participate in the synthesis of phospholipids, suggesting the functional relationship between SecG and membrane phospholipids. Over expression of gnsA and gnsB causes a remarkable increase in the unsaturated fatty acid content. However, the gnsA-gnsB double null mutant exhibits no effect. Both proteins are predicted to possess a helix-turn-helix structure [].
Probab=48.78 E-value=20 Score=23.99 Aligned_cols=22 Identities=45% Similarity=0.756 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 70 RVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 70 KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
|.|++|.+| +.-| .+||++++|
T Consensus 9 k~EeeI~~l---I~kK---i~ELrk~~G 30 (54)
T PF08178_consen 9 KAEEEISAL---ITKK---IAELRKKTG 30 (54)
T ss_pred HHHHHHHHH---HHHH---HHHhccccC
Confidence 569999988 5544 779999887
No 81
>KOG4196|consensus
Probab=48.59 E-value=76 Score=24.69 Aligned_cols=34 Identities=21% Similarity=0.282 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
.+|..+-+.+..++.+|++-++.-.+...-+|-|
T Consensus 77 ~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k 110 (135)
T KOG4196|consen 77 HELEKEKAELQQQVEKLKEENSRLRRELDAYKSK 110 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444445544444444444444443
No 82
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=48.58 E-value=85 Score=21.47 Aligned_cols=36 Identities=25% Similarity=0.277 Sum_probs=30.7
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy14379 53 SPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKT 88 (120)
Q Consensus 53 seEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~ 88 (120)
+.+|......+|+..|..++..+..|.+.+..=++.
T Consensus 33 ~~~e~~~~~~eL~~~l~~ie~~L~DL~~aV~ive~n 68 (97)
T PF09177_consen 33 SSEELKWLKRELRNALQSIEWDLEDLEEAVRIVEKN 68 (97)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred CcHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 677777788899999999999999999999887776
No 83
>KOG0930|consensus
Probab=48.17 E-value=1.1e+02 Score=27.24 Aligned_cols=62 Identities=29% Similarity=0.289 Sum_probs=33.7
Q ss_pred CCCCCCHHHHHHH------H-------HHHHHHHHHHHHHHHHHHHHHHHH----HhhhHHHHHhhCcchhHHHHHHHh
Q psy14379 48 DLQNLSPEEQEKQ------K-------AEWTQELARVEEEINTLKHVLASK----TKTAQDLKKKLGFTVWKEFNDDLT 109 (120)
Q Consensus 48 ~~~~LseEE~e~~------~-------eELr~EL~KvEeEI~TLrQVLaAK----ek~~~ELKRKLGiT~l~eLkqnis 109 (120)
++++||++|++.. + +.|+.|++.|-+||.-|-.+=.+| .|..+-=++|+.+.||..|+--++
T Consensus 7 ep~~Ls~~E~~eL~~ir~rk~qL~deIq~Lk~Ei~ev~~eid~~~~~e~skt~q~~k~~~~GRKKFNmDP~Kgiq~l~e 85 (395)
T KOG0930|consen 7 EPNDLSEEERMELENIRRRKQELLDEIQRLKDEIAEVMEEIDNLESTEESKTKQRNKQVAMGRKKFNMDPKKGIQFLIE 85 (395)
T ss_pred CCCCCCHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccchhhHHHhHHHhhchhhcCCChHHHhHHHHH
Confidence 4689999998632 1 123333333333443332222222 333344468889999888875544
No 84
>PF09440 eIF3_N: eIF3 subunit 6 N terminal domain; InterPro: IPR019010 This entry represents the N-terminal domain of subunit 6 (or e) (eIF3e) of the translation initiation factor eIF3. EIF3 is required in protein synthesis in mammalian cells and, together with other initiation factors, stimulates binding of initiator methionyl-tRNAi and mRNA to the 40S ribosomal subunit to form the 48 S initiation complex []. The eIF3 complex also prevents premature association of the 40 and 60 S ribosomal subunits and interacts with other initiation factors involved in start codon selection. EIF3 has at least 13 protein components (eIF3a-m or 1-13), where subunits h, i, k, and m are likely to be on the periphery of the complex []. Subunit 6 is produced by the int6 gene, one of the frequent integration sites for mouse mammary tumor viruses [].
Probab=48.03 E-value=77 Score=23.73 Aligned_cols=47 Identities=28% Similarity=0.413 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHhhhHHHHHhhCcch
Q psy14379 54 PEEQEKQKAEWTQELARVEEEINTLKHVLA----------SKTKTAQDLKKKLGFTV 100 (120)
Q Consensus 54 eEE~e~~~eELr~EL~KvEeEI~TLrQVLa----------AKek~~~ELKRKLGiT~ 100 (120)
++|-.+.|++.-.+|..++++..-+-+++. -|..-..-|+++.|||+
T Consensus 64 p~e~~~kr~~Vl~~l~~l~~~~~~v~~~~~~~ev~~~l~~dk~~nl~~L~~~h~it~ 120 (133)
T PF09440_consen 64 PAELAEKREEVLAELKELEEETEPVLELLEDPEVVKNLRSDKKQNLEYLEENHGITP 120 (133)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHccHHHHHHHHHHhcCCCH
Confidence 345555566777777777666554444442 34445557888999987
No 85
>PRK01631 hypothetical protein; Provisional
Probab=47.82 E-value=53 Score=23.17 Aligned_cols=19 Identities=16% Similarity=0.284 Sum_probs=14.1
Q ss_pred CCCCCHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQEL 68 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL 68 (120)
..|||++|.+ ++++||.|-
T Consensus 17 ~~gLT~eE~~-Eq~~LR~eY 35 (76)
T PRK01631 17 ATGLTVDEKQ-EQQMLRQNY 35 (76)
T ss_pred ccCCCHHHHH-HHHHHHHHH
Confidence 4799999986 446777665
No 86
>KOG0977|consensus
Probab=47.48 E-value=71 Score=29.56 Aligned_cols=50 Identities=20% Similarity=0.304 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH--HHHHhhCcchhHHHH
Q psy14379 56 EQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQ--DLKKKLGFTVWKEFN 105 (120)
Q Consensus 56 E~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~--ELKRKLGiT~l~eLk 105 (120)
+..+.++++..++.|+++|+..||.-+..+++.+. +.+-......++.+.
T Consensus 103 e~~~~ra~~e~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~le 154 (546)
T KOG0977|consen 103 ETARERAKLEIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELE 154 (546)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhh
Confidence 44456789999999999999999999999976665 344443455555554
No 87
>PRK02539 hypothetical protein; Provisional
Probab=46.92 E-value=53 Score=23.63 Aligned_cols=19 Identities=26% Similarity=0.400 Sum_probs=14.1
Q ss_pred CCCCCHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQEL 68 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL 68 (120)
..|||+||.+ ++++||.+-
T Consensus 18 ~~gLT~eEk~-Eq~~LR~eY 36 (85)
T PRK02539 18 TEGLTGEEKV-EQAKLREEY 36 (85)
T ss_pred ccCCCHHHHH-HHHHHHHHH
Confidence 4799999986 446777664
No 88
>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=46.86 E-value=75 Score=20.66 Aligned_cols=33 Identities=21% Similarity=0.432 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHH-HHhhCcch
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDL-KKKLGFTV 100 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~EL-KRKLGiT~ 100 (120)
.++.|-.++..||..|. .. .|..++ +++||+++
T Consensus 42 ~l~~en~~L~~ei~~l~----~~-~rIe~~Ar~~lgM~~ 75 (85)
T TIGR02209 42 KLQKEWRDLQLEVAELS----RH-ERIEKIAKKQLGMKL 75 (85)
T ss_pred HHHHHHHHHHHHHHHHc----CH-HHHHHHHHHhcCCCC
Confidence 44444444555555442 23 234444 35678875
No 89
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=46.43 E-value=64 Score=21.78 Aligned_cols=24 Identities=33% Similarity=0.480 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 73 EEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 73 eEI~TLrQVLaAKek~~~ELKRKL 96 (120)
.-|--||+-...-+....++++++
T Consensus 33 ~~IKKLr~~~~e~e~~~~~l~~~~ 56 (74)
T PF12329_consen 33 NTIKKLRAKIKELEKQIKELKKKL 56 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566666666666666666553
No 90
>PRK01546 hypothetical protein; Provisional
Probab=46.32 E-value=23 Score=25.11 Aligned_cols=19 Identities=21% Similarity=0.407 Sum_probs=14.0
Q ss_pred CCCCCHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQEL 68 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL 68 (120)
..|||++|.. ++++||.|-
T Consensus 19 ~~gLT~eEk~-Eq~~LR~eY 37 (79)
T PRK01546 19 AEGLTEEEQR-ERQSLREQY 37 (79)
T ss_pred ccCCCHHHHH-HHHHHHHHH
Confidence 4799999986 446777664
No 91
>KOG4302|consensus
Probab=45.98 E-value=95 Score=29.39 Aligned_cols=63 Identities=29% Similarity=0.364 Sum_probs=46.9
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhhHHHHHhhCcchh---HHHHHHHh
Q psy14379 42 PDSGINDLQNLSPEEQEKQKAEWTQELARVEEEIN-TLKHVLASKTKTAQDLKKKLGFTVW---KEFNDDLT 109 (120)
Q Consensus 42 ~ds~~~~~~~LseEE~e~~~eELr~EL~KvEeEI~-TLrQVLaAKek~~~ELKRKLGiT~l---~eLkqnis 109 (120)
+...+.|...||.++.+ ++|..|..+++|.. -|+.|+.-| .....|-.-||+.+- ..+-+++.
T Consensus 147 ~~~~~~D~~dlsl~kLe----elr~~L~~L~~ek~~Rlekv~~~~-~~I~~l~~~Lg~~~~~~vt~~~~sL~ 213 (660)
T KOG4302|consen 147 PSFLIADESDLSLEKLE----ELREHLNELQKEKSDRLEKVLELK-EEIKSLCSVLGLDFSMTVTDVEPSLV 213 (660)
T ss_pred CcccccCcccccHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhCCCcccchhhhhhhhh
Confidence 34455678999999886 99999999998887 677777666 566677788999876 44444443
No 92
>PF00816 Histone_HNS: H-NS histone family Partial NMR structure.; InterPro: IPR001801 The histone-like nucleoid-structuring (H-NS) protein belongs to a family of bacterial proteins that play a role in the formation of nucleoid structure and affect gene expression under certain conditions [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2LEV_A 1HNS_A 1LR1_B 1HNR_A 1NI8_A 1OV9_A 2JR1_A 3NR7_A 2L93_A 2L92_A.
Probab=45.79 E-value=42 Score=22.70 Aligned_cols=41 Identities=17% Similarity=0.319 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHhhhHHHHHhhCcchhHHH
Q psy14379 63 EWTQELARVEEEINTLKHV-LASKTKTAQDLKKKLGFTVWKEF 104 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQV-LaAKek~~~ELKRKLGiT~l~eL 104 (120)
+|...+.+++.+|..++.- ..+.-..+.++=..+|||+ .+|
T Consensus 2 eL~~~~~~l~~~~~~~~~~e~~~~~~~i~~~~~~~Gis~-~el 43 (93)
T PF00816_consen 2 ELEAQIKELEKEIEERRKQEREEAIAEIRELMAEYGISP-EEL 43 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTT--H-HHC
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCH-HHh
Confidence 5666666666666644322 2222233344556789885 444
No 93
>PHA02557 22 prohead core protein; Provisional
Probab=45.63 E-value=1.2e+02 Score=25.96 Aligned_cols=41 Identities=29% Similarity=0.353 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 55 EEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 55 EE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
+|+-..-++|..+|...+.++.+|..-+.+-+.+...++|.
T Consensus 137 ee~vdvV~em~~~L~E~e~~~~~l~~en~~l~e~i~~~~r~ 177 (271)
T PHA02557 137 EEKVDVVAEMEEELDEMEEELNELFEENVALEEYINEVKRE 177 (271)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444556888888888888888888888888888888885
No 94
>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=45.01 E-value=71 Score=26.73 Aligned_cols=36 Identities=25% Similarity=0.382 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q psy14379 59 KQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 59 ~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKR 94 (120)
.+.+++..||.++|.|-.-|.+-|...+....+|++
T Consensus 57 ~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~ 92 (314)
T PF04111_consen 57 QEEEELLQELEELEKEREELDQELEELEEELEELDE 92 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334578888888888888888778887777777664
No 95
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=44.98 E-value=70 Score=30.02 Aligned_cols=30 Identities=33% Similarity=0.583 Sum_probs=23.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLA 83 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLa 83 (120)
.+.||..|+ +|+.||..+.+.+.-|+.-|.
T Consensus 627 ~P~LS~AEr-----~~~~EL~~~~~~l~~l~~si~ 656 (717)
T PF10168_consen 627 LPVLSEAER-----EFKKELERMKDQLQDLKASIE 656 (717)
T ss_pred CCCCCHHHH-----HHHHHHHHHHHHHHHHHHHHH
Confidence 467999998 789999999888876654443
No 96
>PRK06443 chorismate mutase; Validated
Probab=44.59 E-value=58 Score=26.14 Aligned_cols=39 Identities=13% Similarity=0.242 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh---hhHHHHHhhCcchhHH
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTK---TAQDLKKKLGFTVWKE 103 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek---~~~ELKRKLGiT~l~e 103 (120)
++||.++.++..||-.| |+.+.. +.+++|++.|...+..
T Consensus 8 eeLR~eID~ID~eIL~L---L~kRm~la~eIg~~K~~~g~pI~Dp 49 (177)
T PRK06443 8 EDLRSEILENTMDIIEL---IEKRRELARMIGIIKMRNGLSIRDS 49 (177)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhcCCCCCCCh
Confidence 47999999999999987 555443 3457899888766543
No 97
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=44.58 E-value=1.5e+02 Score=22.99 Aligned_cols=62 Identities=18% Similarity=0.174 Sum_probs=43.5
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH---HH-HHhhCcchhHHHHHHHhhcchhh
Q psy14379 52 LSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQ---DL-KKKLGFTVWKEFNDDLTQSIKNV 115 (120)
Q Consensus 52 LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~---EL-KRKLGiT~l~eLkqniskgw~dV 115 (120)
.|--| .|-+.||.+...++..+..|-+.-..-++-.. .+ .+-|+...+.++-+.+..+|++.
T Consensus 42 vSL~e--rQ~~~LR~~~~~L~~~l~~Li~~Ar~Ne~~~~~~~~l~l~LL~a~sl~~l~~~L~~~l~~~ 107 (225)
T PF04340_consen 42 VSLVE--RQLERLRERNRQLEEQLEELIENARENEAIFQRLHRLVLALLAARSLQELLQALDDGLRED 107 (225)
T ss_dssp HHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--SHHHHHHHHHHHHHHT
T ss_pred ccHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHh
Confidence 34444 45679999999999999988766544333322 32 36799999999999999998875
No 98
>PF14077 WD40_alt: Alternative WD40 repeat motif
Probab=44.41 E-value=14 Score=24.20 Aligned_cols=19 Identities=26% Similarity=0.560 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy14379 63 EWTQELARVEEEINTLKHV 81 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQV 81 (120)
.++.-.+.+|+|.++||.+
T Consensus 15 ~l~vrv~eLEeEV~~LrKI 33 (48)
T PF14077_consen 15 QLRVRVSELEEEVRTLRKI 33 (48)
T ss_pred hheeeHHHHHHHHHHHHHH
Confidence 5677788889999999865
No 99
>PRK09039 hypothetical protein; Validated
Probab=43.88 E-value=72 Score=26.95 Aligned_cols=50 Identities=14% Similarity=0.248 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC------cchhHHHHHHHhhc
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG------FTVWKEFNDDLTQS 111 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG------iT~l~eLkqniskg 111 (120)
+.||..|+.++.+|..+.+-....+.+..+|+++|- ...|..+|.++-..
T Consensus 147 ~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~~~~~l~~~~~~~~~~ 202 (343)
T PRK09039 147 AALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQRVQELNRYRSEFFGR 202 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 345555555555555555444555555555554442 23445555555333
No 100
>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=43.77 E-value=1.6e+02 Score=24.02 Aligned_cols=50 Identities=18% Similarity=0.448 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHH----HHHHHHHhhhHHHHHhhCcchhHHHHHHHhhc
Q psy14379 60 QKAEWTQELARVEEEINTLK----HVLASKTKTAQDLKKKLGFTVWKEFNDDLTQS 111 (120)
Q Consensus 60 ~~eELr~EL~KvEeEI~TLr----QVLaAKek~~~ELKRKLGiT~l~eLkqniskg 111 (120)
+|...-.||..+...|.+|= |.-..+++.-..+.|++| -+..||+.++..
T Consensus 47 Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~e--ey~~Lk~~in~~ 100 (230)
T PF10146_consen 47 ERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYE--EYKPLKDEINEL 100 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHH
Confidence 34455666777777776543 334455555555555554 444555555443
No 101
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=43.16 E-value=94 Score=20.41 Aligned_cols=36 Identities=33% Similarity=0.423 Sum_probs=23.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTK 87 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek 87 (120)
+..||.+|.++..+-|-.+ .|.||.-||+--.+|.+
T Consensus 5 Lk~ls~~eL~~rl~~LD~~---ME~Eieelr~RY~~KRq 40 (49)
T PF11629_consen 5 LKFLSYEELQQRLASLDPE---MEQEIEELRQRYQAKRQ 40 (49)
T ss_dssp GGGS-HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
T ss_pred HhhCCHHHHHHHHHhCCHH---HHHHHHHHHHHHHHhhc
Confidence 5678888765433333333 38999999998888843
No 102
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=42.56 E-value=48 Score=28.52 Aligned_cols=32 Identities=34% Similarity=0.587 Sum_probs=28.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLAS 84 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaA 84 (120)
+..||.++.+ +|..|+.+++.||..|...+..
T Consensus 385 L~~LT~~e~~----kL~~e~~~l~~ei~~l~~~~~~ 416 (426)
T PF00521_consen 385 LRRLTKEEIE----KLQKEIKELEKEIEELEKILPK 416 (426)
T ss_dssp GGGGSHHHHH----HHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHhhHHHHH----HHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999986 8999999999999999998887
No 103
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=42.14 E-value=1e+02 Score=24.47 Aligned_cols=37 Identities=19% Similarity=0.365 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcch
Q psy14379 60 QKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTV 100 (120)
Q Consensus 60 ~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~ 100 (120)
+-++|++|+++++.++..+++. ...-..||+.|++..
T Consensus 77 en~~L~~e~~~l~~~~~~~~~l----~~en~~L~~lL~~~~ 113 (276)
T PRK13922 77 ENEELKKELLELESRLQELEQL----EAENARLRELLNLKE 113 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHhcCcc
Confidence 3457777777777777766433 234467888888765
No 104
>KOG1760|consensus
Probab=41.75 E-value=70 Score=24.80 Aligned_cols=46 Identities=26% Similarity=0.309 Sum_probs=26.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
|-..+-+....+-++-+. .++.+|.+|++-+.+=..+..+||.-|+
T Consensus 74 F~~~~~~~~~~~LEe~ke---~l~k~i~~les~~e~I~~~m~~LK~~LY 119 (131)
T KOG1760|consen 74 FIHVKLDKLQDQLEEKKE---TLEKEIEELESELESISARMDELKKVLY 119 (131)
T ss_pred heeccHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344454444333333333 3367777777777777777778876553
No 105
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=40.75 E-value=79 Score=22.36 Aligned_cols=23 Identities=22% Similarity=0.182 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 61 KAEWTQELARVEEEINTLKHVLA 83 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLa 83 (120)
-.+|+.++.+++.|+.-|+.+++
T Consensus 80 i~~L~~el~~L~~E~diLKKa~~ 102 (121)
T PRK09413 80 IKELQRLLGKKTMENELLKEAVE 102 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45899999999998888876653
No 106
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=40.70 E-value=63 Score=23.03 Aligned_cols=34 Identities=41% Similarity=0.604 Sum_probs=22.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKR 94 (120)
..||+|.|+ .| |+|..+|+..|..-|+++.-|++
T Consensus 31 ~eLs~e~R~--------~l---E~E~~~l~~~l~~~E~eL~~Lrk 64 (85)
T PF15188_consen 31 RELSPEARR--------SL---EKELNELKEKLENNEKELKLLRK 64 (85)
T ss_pred cCCChHHHH--------HH---HHHHHHHHHHhhccHHHHHHHHH
Confidence 478888764 22 46667777777777777766665
No 107
>PF09824 ArsR: ArsR transcriptional regulator; InterPro: IPR014517 Members of this family of archaeal proteins are conserved transcriptional regulators belonging to the ArsR family.
Probab=40.45 E-value=35 Score=27.06 Aligned_cols=20 Identities=25% Similarity=0.439 Sum_probs=15.6
Q ss_pred HHHHHhhhHHHHHhhCcchh
Q psy14379 82 LASKTKTAQDLKKKLGFTVW 101 (120)
Q Consensus 82 LaAKek~~~ELKRKLGiT~l 101 (120)
+.+...-.+.|-|+||++|+
T Consensus 117 v~~Gn~Sl~~lsr~l~~sp~ 136 (160)
T PF09824_consen 117 VEAGNTSLSDLSRKLGISPV 136 (160)
T ss_pred HHcCCCcHHHHHHHhCCCHH
Confidence 34456667899999999995
No 108
>PF05121 GvpK: Gas vesicle protein K ; InterPro: IPR007805 Gas vesicles are intracellular, protein-coated, and hollow organelles found in cyanobacteria and halophilic archaea. They are permeable to ambient gases by diffusion and provide buoyancy, enabling cells to move upwards in liquid to access oxygen and/or light. Proteins containing this domain are involved in the formation of gas vesicles [].; GO: 0031412 gas vesicle organization
Probab=40.05 E-value=70 Score=23.11 Aligned_cols=32 Identities=25% Similarity=0.327 Sum_probs=27.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASK 85 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAK 85 (120)
.+||+++-| .+-.-|.++|+.|.-|+....-.
T Consensus 40 G~Lse~qiE----rlG~tLm~Le~~~~~l~~~~gl~ 71 (88)
T PF05121_consen 40 GSLSEEQIE----RLGETLMKLEEAMEELCERFGLT 71 (88)
T ss_pred CCCCHHHHH----HHHHHHHHHHHHHHHHHHHcCCC
Confidence 589999986 88899999999999998776544
No 109
>smart00434 TOP4c DNA Topoisomerase IV. Bacterial DNA topoisomerase IV, GyrA, ParC
Probab=40.04 E-value=34 Score=30.06 Aligned_cols=34 Identities=38% Similarity=0.546 Sum_probs=25.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKT 86 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKe 86 (120)
+..||.+|.+ +|+.|+.++++||..|...|....
T Consensus 409 L~~LT~~e~~----kL~~e~~~l~~ei~~l~~~l~~~~ 442 (445)
T smart00434 409 LRRLTKLEVE----KLEKELKELEKEIEDLEKILASEL 442 (445)
T ss_pred HHHhhhhHHH----HHHHHHHHHHHHHHHHHHhccchh
Confidence 4567777765 788888888888888888776654
No 110
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=39.88 E-value=81 Score=26.63 Aligned_cols=42 Identities=21% Similarity=0.300 Sum_probs=26.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
....++|.. .+|.+|+++..+|...++-|..++.+..+++-+
T Consensus 199 ~~~d~~eL~----~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~ 240 (312)
T smart00787 199 EDCDPTELD----RAKEKLKKLLQEIMIKVKKLEELEEELQELESK 240 (312)
T ss_pred HhCCHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556655 566666666677776776666666666665543
No 111
>TIGR03184 DNA_S_dndE DNA sulfur modification protein DndE. This model describes the DndE protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndE is a putative carboxylase homologous to NCAIR synthetases.
Probab=39.59 E-value=18 Score=26.26 Aligned_cols=18 Identities=28% Similarity=0.656 Sum_probs=15.0
Q ss_pred hhhHHHHHhhCcchhHHH
Q psy14379 87 KTAQDLKKKLGFTVWKEF 104 (120)
Q Consensus 87 k~~~ELKRKLGiT~l~eL 104 (120)
-+...|||+.||+||+-|
T Consensus 9 ~~L~~Lk~~Tgi~~~Nil 26 (105)
T TIGR03184 9 DQLRRLKRRTGLTPWNIL 26 (105)
T ss_pred HHHHHHhcccCCCcchHH
Confidence 456689999999998866
No 112
>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=39.44 E-value=98 Score=22.94 Aligned_cols=31 Identities=29% Similarity=0.511 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLK 93 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELK 93 (120)
.|+.++..++..-.|+-+.|..|.-+..||+
T Consensus 72 ~L~~el~~l~~ry~t~LellGEK~E~veEL~ 102 (120)
T PF12325_consen 72 ELEQELEELQQRYQTLLELLGEKSEEVEELR 102 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHhcchHHHHHHHH
Confidence 3444444444444444444444444444444
No 113
>KOG1055|consensus
Probab=39.24 E-value=16 Score=35.47 Aligned_cols=47 Identities=15% Similarity=0.179 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcch---------hHHHHHHHhhcch
Q psy14379 65 TQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTV---------WKEFNDDLTQSIK 113 (120)
Q Consensus 65 r~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~---------l~eLkqniskgw~ 113 (120)
|.+.-|-|. .+||+-|..||+...|+|++|+..+ .+.++-.++++-+
T Consensus 760 r~~~lk~EN--~~l~~~i~ekee~i~e~~~~l~~~~~~~~~~~~g~sq~~~~~~~~~~ 815 (865)
T KOG1055|consen 760 RLRLLKKEN--RRLRKKIMEKEERLSELKHQLQPRPRKTITEIPGNSQLRSRRHKPSP 815 (865)
T ss_pred Hhhhhhccc--HHHHHhcccchHHHHHHHHhcccccccccccCCCCcccccccCCCCC
Confidence 555544444 8999999999999999999999877 4455555555433
No 114
>PRK11199 tyrA bifunctional chorismate mutase/prephenate dehydrogenase; Provisional
Probab=39.24 E-value=74 Score=26.73 Aligned_cols=36 Identities=17% Similarity=0.420 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh---hHHHHHhhCcch
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKT---AQDLKKKLGFTV 100 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~---~~ELKRKLGiT~ 100 (120)
+++|.++.++..+|..| |+.+.+. .+++|++.|+..
T Consensus 6 ~~lR~~ID~iD~~iv~L---l~~R~~~~~~ia~~K~~~~~~v 44 (374)
T PRK11199 6 TALRDQIDEVDKQLLEL---LAKRLELVAQVGEVKSRHGLPI 44 (374)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhCCCCC
Confidence 48999999999999988 6666543 356788888654
No 115
>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=39.03 E-value=1.3e+02 Score=24.85 Aligned_cols=34 Identities=35% Similarity=0.416 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHhh
Q psy14379 55 EEQEKQKAEWTQELARVEEEINTLKHVLA--SKTKT 88 (120)
Q Consensus 55 EE~e~~~eELr~EL~KvEeEI~TLrQVLa--AKek~ 88 (120)
=|.|+.+.+-+.||.|-|++|..|...|. .|||-
T Consensus 15 lELE~~k~~A~EElRk~eeqi~~L~~Ll~~a~~ERD 50 (214)
T PF07795_consen 15 LELEATKMEANEELRKREEQIAHLKDLLKKAYQERD 50 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37777888899999999999999988875 44443
No 116
>PRK14143 heat shock protein GrpE; Provisional
Probab=38.76 E-value=2.2e+02 Score=23.38 Aligned_cols=21 Identities=29% Similarity=0.452 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy14379 62 AEWTQELARVEEEINTLKHVL 82 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVL 82 (120)
.+|..+|.+++.++..|+.-+
T Consensus 70 ~~l~~el~~l~~e~~elkd~~ 90 (238)
T PRK14143 70 AQLEQELESLKQELEELNSQY 90 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 367777777777777665444
No 117
>KOG4673|consensus
Probab=38.44 E-value=1.4e+02 Score=29.34 Aligned_cols=47 Identities=21% Similarity=0.294 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHhhhHHHHHhhCcchhHHHH
Q psy14379 59 KQKAEWTQELARVE-----------EEINTLKHVLASKTKTAQDLKKKLGFTVWKEFN 105 (120)
Q Consensus 59 ~~~eELr~EL~KvE-----------eEI~TLrQVLaAKek~~~ELKRKLGiT~l~eLk 105 (120)
.+-++||.-|.+.| .||..|.+-|.+-|+||.+|-+.+|-|+--=||
T Consensus 587 qqv~dLR~~L~~~Eq~aarrEd~~R~Ei~~LqrRlqaaE~R~eel~q~v~~TTrPLlR 644 (961)
T KOG4673|consen 587 QQVEDLRQTLSKKEQQAARREDMFRGEIEDLQRRLQAAERRCEELIQQVPETTRPLLR 644 (961)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccHHHH
Confidence 34457787787765 689999999999999999999999977533333
No 118
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=38.23 E-value=93 Score=23.50 Aligned_cols=30 Identities=40% Similarity=0.529 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 66 QELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 66 ~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
.+.++.++||..|+.=|..++.....||.+
T Consensus 154 ~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ 183 (192)
T PF05529_consen 154 EENKKLSEEIEKLKKELEKKEKEIEALKKQ 183 (192)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556677777777777777776666654
No 119
>PRK14153 heat shock protein GrpE; Provisional
Probab=38.13 E-value=1.5e+02 Score=23.68 Aligned_cols=21 Identities=33% Similarity=0.371 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy14379 63 EWTQELARVEEEINTLKHVLA 83 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLa 83 (120)
.+..++.++++++..|+.-+.
T Consensus 37 ~~~~ei~~l~~e~~elkd~~l 57 (194)
T PRK14153 37 TADSETEKCREEIESLKEQLF 57 (194)
T ss_pred cchHHHHHHHHHHHHHHHHHH
Confidence 455666666777766654443
No 120
>KOG3119|consensus
Probab=38.09 E-value=70 Score=26.24 Aligned_cols=9 Identities=11% Similarity=-0.119 Sum_probs=3.5
Q ss_pred HHHHHhhcc
Q psy14379 104 FNDDLTQSI 112 (120)
Q Consensus 104 Lkqniskgw 112 (120)
|++.+.+.|
T Consensus 248 ~~~~~~~~~ 256 (269)
T KOG3119|consen 248 LRRLFLQLP 256 (269)
T ss_pred HHHHHHhhc
Confidence 333333333
No 121
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=37.75 E-value=91 Score=21.26 Aligned_cols=24 Identities=33% Similarity=0.519 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 72 EEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 72 EeEI~TLrQVLaAKek~~~ELKRK 95 (120)
+++|..|++=+..|..-.+.+|.+
T Consensus 58 ~~~i~~Le~~i~~k~~~L~~~~~~ 81 (83)
T PF07544_consen 58 EEEIEELEEQIRKKREVLQKFKER 81 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 678889998888888887777764
No 122
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=37.46 E-value=81 Score=29.48 Aligned_cols=37 Identities=16% Similarity=0.174 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh----hhHHHHHhhCc
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTK----TAQDLKKKLGF 98 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek----~~~ELKRKLGi 98 (120)
+.++.|+..++++|..|...|+..-. ...+||.|+|-
T Consensus 407 ~k~~~e~~~l~~~i~~~~~~L~~~~~~~~~el~~l~~kyg~ 447 (635)
T PRK09631 407 DKNQKEIRILNKELKSVEKNLKSIKGYAINFIDKLLAKYSK 447 (635)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 36778888888888888888877332 33466677774
No 123
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=37.13 E-value=1.1e+02 Score=27.40 Aligned_cols=17 Identities=24% Similarity=0.423 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy14379 63 EWTQELARVEEEINTLK 79 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLr 79 (120)
.+++++++++.+|.--+
T Consensus 42 q~q~ei~~~~~~i~~~~ 58 (420)
T COG4942 42 QIQKEIAALEKKIREQQ 58 (420)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44444444444444333
No 124
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=36.58 E-value=67 Score=25.33 Aligned_cols=19 Identities=16% Similarity=0.177 Sum_probs=12.9
Q ss_pred cchhHHHHHHHhhcchhhh
Q psy14379 98 FTVWKEFNDDLTQSIKNVK 116 (120)
Q Consensus 98 iT~l~eLkqniskgw~dVq 116 (120)
.+.|..++.-+..||+.+.
T Consensus 212 ~~~~~~~~~al~~~~~~~~ 230 (262)
T PF14257_consen 212 PSFGSRFRDALKNGWNALV 230 (262)
T ss_pred CCcchHHHHHHHHHHHHHH
Confidence 3445577778888887664
No 125
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=36.50 E-value=55 Score=25.83 Aligned_cols=27 Identities=30% Similarity=0.434 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKT 88 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~ 88 (120)
.+++.++..+.+||..|+|-|..|+|.
T Consensus 167 ~~~~~~~~~l~~ei~~L~~klkEKer~ 193 (194)
T PF15619_consen 167 KEAQEEVKSLQEEIQRLNQKLKEKERE 193 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 367788888889999999999988875
No 126
>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=36.20 E-value=2.5e+02 Score=23.90 Aligned_cols=36 Identities=28% Similarity=0.443 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 60 QKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 60 ~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
+++...+.|...+.|...+..=|..+++..++++.+
T Consensus 194 eke~~~r~l~~~~~ELe~~~EeL~~~Eke~~e~~~~ 229 (269)
T PF05278_consen 194 EKEEKDRKLELKKEELEELEEELKQKEKEVKEIKER 229 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555556655556666666666666654
No 127
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=36.17 E-value=95 Score=23.04 Aligned_cols=10 Identities=20% Similarity=0.275 Sum_probs=4.5
Q ss_pred HHHHHhhcch
Q psy14379 104 FNDDLTQSIK 113 (120)
Q Consensus 104 Lkqniskgw~ 113 (120)
=++.+.+.|.
T Consensus 146 e~~~~~~~~~ 155 (169)
T PF07106_consen 146 EKEKLEKEYK 155 (169)
T ss_pred HHHHHHHHHH
Confidence 3444444444
No 128
>PF00831 Ribosomal_L29: Ribosomal L29 protein; InterPro: IPR001854 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L29 is one of the proteins from the large ribosomal subunit. L29 belongs to a family of ribosomal proteins of 63 to 138 amino-acid residues which, on the basis of sequence similarities [], groups: Red algal L29. Bacterial L29. Mammalian L35 Caenorhabditis elegans L35 (ZK652.4). Yeast L35. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1VSP_W 3MS1_Y 3MRZ_Y 3F1H_2 3PYT_Y 3PYO_Y 3D5D_2 3D5B_2 3PYR_Y 1VSA_W ....
Probab=36.07 E-value=18 Score=23.22 Aligned_cols=24 Identities=33% Similarity=0.549 Sum_probs=13.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLK 79 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLr 79 (120)
+-.||.+|. ..+|..+..|...||
T Consensus 4 lr~ls~~eL-------~~~l~elk~eL~~Lr 27 (58)
T PF00831_consen 4 LRELSDEEL-------QEKLEELKKELFNLR 27 (58)
T ss_dssp HCHSHHHHH-------HHHHHHHHHHHHHHH
T ss_pred HHhCCHHHH-------HHHHHHHHHHHHHHH
Confidence 445666655 455555555555554
No 129
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=36.00 E-value=82 Score=25.54 Aligned_cols=35 Identities=20% Similarity=0.363 Sum_probs=18.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 47 NDLQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLA 83 (120)
Q Consensus 47 ~~~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLa 83 (120)
++++.-..++-|. -.|+.||+.+|+.+.-..+.-.
T Consensus 86 TdfS~~~~~dwEe--vrLkrELa~Le~~l~~~~~~~~ 120 (195)
T PF12761_consen 86 TDFSATEGTDWEE--VRLKRELAELEEKLSKVEQAAE 120 (195)
T ss_pred CCCCCCCCCchHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence 5565533233221 2577777777776665544443
No 130
>PF08621 RPAP1_N: RPAP1-like, N-terminal; InterPro: IPR013930 Inhibition of RNA polymerase II-associated protein 1 (RPAP1) synthesis in Saccharomyces cerevisiae (Baker's yeast) results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11 []. This entry represents the N-terminal region of RPAP-1 that is conserved from yeast to humans.
Probab=35.74 E-value=27 Score=22.37 Aligned_cols=20 Identities=40% Similarity=0.655 Sum_probs=15.3
Q ss_pred CCCCCHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQEL 68 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL 68 (120)
+..+|++|.++++++|..-|
T Consensus 12 L~~MS~eEI~~er~eL~~~L 31 (49)
T PF08621_consen 12 LASMSPEEIEEEREELLESL 31 (49)
T ss_pred HHhCCHHHHHHHHHHHHHhC
Confidence 46889999987777776665
No 131
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=35.43 E-value=39 Score=21.16 Aligned_cols=18 Identities=28% Similarity=0.573 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy14379 62 AEWTQELARVEEEINTLK 79 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLr 79 (120)
..+++++.+.|.|+..||
T Consensus 51 ~~~~k~l~~le~e~~~lr 68 (68)
T PF06305_consen 51 RRLRKELKKLEKELEQLR 68 (68)
T ss_pred HHHHHHHHHHHHHHHhcC
Confidence 456667777777766554
No 132
>COG2088 SpoVG Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]
Probab=35.15 E-value=23 Score=26.07 Aligned_cols=19 Identities=32% Similarity=0.455 Sum_probs=17.2
Q ss_pred cccCCchhhhhhhhhhhhh
Q psy14379 5 HIKHPIIPKCCLEMQDVLT 23 (120)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~ 23 (120)
.|-|||-+.--.++||||-
T Consensus 59 DI~HPI~~~~R~kIq~aVl 77 (95)
T COG2088 59 DIAHPINSDTREKIQDAVL 77 (95)
T ss_pred hccCcCCHHHHHHHHHHHH
Confidence 4789999999999999986
No 133
>PF10165 Ric8: Guanine nucleotide exchange factor synembryn; InterPro: IPR019318 Ric8 is involved in the EGL-30 neurotransmitter signalling pathway []. It is a guanine nucleotide exchange factor [] that regulates neurotransmitter secretion.
Probab=35.15 E-value=92 Score=27.07 Aligned_cols=22 Identities=18% Similarity=0.290 Sum_probs=16.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHH
Q psy14379 45 GINDLQNLSPEEQEKQKAEWTQ 66 (120)
Q Consensus 45 ~~~~~~~LseEE~e~~~eELr~ 66 (120)
..+..+++|+||+|.+.+.|=.
T Consensus 400 ~~~~~~~mt~eeke~ea~~l~~ 421 (446)
T PF10165_consen 400 KPNPMPEMTEEEKEREAERLFV 421 (446)
T ss_pred CCCCccccchhHHHHHHHHHHH
Confidence 3466889999999876655543
No 134
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=34.90 E-value=1.3e+02 Score=20.47 Aligned_cols=29 Identities=21% Similarity=0.346 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTAQ 90 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~~ 90 (120)
.+|+.+|..++.++..++.-+.+-+.+..
T Consensus 73 ~~l~~~l~~l~~~~~~~~~~~~~~~~~~~ 101 (104)
T PF13600_consen 73 KELEEELEALEDELAALQDEIQALEAQIA 101 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36777777777777766665555544443
No 135
>KOG4196|consensus
Probab=34.87 E-value=1.5e+02 Score=23.05 Aligned_cols=37 Identities=32% Similarity=0.430 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q psy14379 56 EQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDL 92 (120)
Q Consensus 56 E~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~EL 92 (120)
|.|.++.+|..|+.++.+|+..++.=|-+-...+.-|
T Consensus 78 eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l 114 (135)
T KOG4196|consen 78 ELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEAL 114 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788889999999999999998887776665555444
No 136
>KOG0933|consensus
Probab=34.80 E-value=2.8e+02 Score=28.28 Aligned_cols=92 Identities=27% Similarity=0.359 Sum_probs=56.9
Q ss_pred hhcccccCccccccc-CCCCCCC---CC---CCCCCCHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHH
Q psy14379 24 IIRSFHVVGEEANNL-DLSPDSG---IN---DLQNLSPEEQEKQKAEWTQELARVEEEINT----------LKHVLASKT 86 (120)
Q Consensus 24 ~~~~~~e~gEd~~~~-~~~~ds~---~~---~~~~LseEE~e~~~eELr~EL~KvEeEI~T----------LrQVLaAKe 86 (120)
++++|.-.|+.-..+ +++..+. ++ ++..|-.-+ .+-+..++||..+|.+|.+ |+|=|.-|.
T Consensus 644 ~~rsVTl~GDV~dP~GtlTGGs~~~~a~~L~~l~~l~~~~--~~~~~~q~el~~le~eL~~le~~~~kf~~l~~ql~l~~ 721 (1174)
T KOG0933|consen 644 RTRSVTLEGDVYDPSGTLTGGSRSKGADLLRQLQKLKQAQ--KELRAIQKELEALERELKSLEAQSQKFRDLKQQLELKL 721 (1174)
T ss_pred ccceeeecCceeCCCCcccCCCCCCcccHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888889877432 2332221 11 111122222 2233568899999998874 567778888
Q ss_pred hhhHHHHHhhCcchhHHHHHHHhhcchhhhh
Q psy14379 87 KTAQDLKKKLGFTVWKEFNDDLTQSIKNVKE 117 (120)
Q Consensus 87 k~~~ELKRKLGiT~l~eLkqniskgw~dVq~ 117 (120)
+.++-+++++--++...+-.++-.-..+|..
T Consensus 722 ~~l~l~~~r~~~~e~~~~~~~~~~~~e~v~e 752 (1174)
T KOG0933|consen 722 HELALLEKRLEQNEFHKLLDDLKELLEEVEE 752 (1174)
T ss_pred HHHHHHHHHHhcChHhhHHHHHHHHHHHHHH
Confidence 8888888888888877777666555555544
No 137
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=34.80 E-value=1.8e+02 Score=25.10 Aligned_cols=72 Identities=15% Similarity=0.303 Sum_probs=46.1
Q ss_pred hhcccccCc-ccccccCCCCCCCCCCCCCCCHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 24 IIRSFHVVG-EEANNLDLSPDSGINDLQNLSPEEQEKQKAEW------TQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 24 ~~~~~~e~g-Ed~~~~~~~~ds~~~~~~~LseEE~e~~~eEL------r~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
|||++-.-+ .|=. +|...++..++||++..+.--..+ -.+.+|+-+.|..+-..|..|+|-+ +|--++
T Consensus 10 r~d~l~~~~~~dw~----~p~~~~~~~~~ls~~~~~~~l~y~~Lc~~rv~qmtkty~Didavt~lLeEkerDL-elaA~i 84 (306)
T PF04849_consen 10 RADTLYGYDNQDWL----TPAAPPDRRPELSPEQIEETLRYFLLCSDRVSQMTKTYNDIDAVTRLLEEKERDL-ELAARI 84 (306)
T ss_pred cccccccccccccc----CCCCCCCCCCCCCHHHHHHHHHHHHhcccchhhhhcchhhHHHHHHHHHHHhhhH-HHHHHH
Confidence 667765533 2222 232233457889999886333333 3456888899999999999999876 555556
Q ss_pred Ccch
Q psy14379 97 GFTV 100 (120)
Q Consensus 97 GiT~ 100 (120)
|=+-
T Consensus 85 GqsL 88 (306)
T PF04849_consen 85 GQSL 88 (306)
T ss_pred hHHH
Confidence 5443
No 138
>PF08870 DUF1832: Domain of unknown function (DUF1832); InterPro: IPR014969 This entry describes the DndE protein encoded by an operon associated with a sulphur-containing modification to DNA []. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndE is a putative carboxylase homologous to NCAIR synthetases.
Probab=34.79 E-value=28 Score=25.40 Aligned_cols=18 Identities=28% Similarity=0.665 Sum_probs=14.5
Q ss_pred hhhHHHHHhhCcchhHHH
Q psy14379 87 KTAQDLKKKLGFTVWKEF 104 (120)
Q Consensus 87 k~~~ELKRKLGiT~l~eL 104 (120)
-+...||++.||++|+-+
T Consensus 10 ~~L~~Lk~~tgi~~~Nil 27 (113)
T PF08870_consen 10 EQLKKLKRRTGITPWNIL 27 (113)
T ss_pred HHHHHHHHhcCCCcccHH
Confidence 456689999999998654
No 139
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=34.52 E-value=1.1e+02 Score=21.12 Aligned_cols=38 Identities=26% Similarity=0.474 Sum_probs=26.1
Q ss_pred CCCCCHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEE---------QEKQKAEWTQELARVEEEINTLKHVLASKT 86 (120)
Q Consensus 49 ~~~LseEE---------~e~~~eELr~EL~KvEeEI~TLrQVLaAKe 86 (120)
.+.|++++ +..+++.|+..|.+++.+-..|.+.|.++.
T Consensus 61 ~~~l~P~~~i~a~l~~~~~~~~~~L~~~l~~l~~eN~~L~~~i~~~r 107 (109)
T PF03980_consen 61 RHSLTPEEDIRAHLAPYKKKEREQLNARLQELEEENEALAEEIQEQR 107 (109)
T ss_pred CCCCChHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 35566664 234556888888888888888877777664
No 140
>PF05190 MutS_IV: MutS family domain IV C-terminus.; InterPro: IPR007861 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the clamp domain (domain 4) found in proteins of the MutS family. The clamp domain is inserted within the core domain at the top of the lever helices. It has a beta-sheet structure [].; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B 1WBD_A 1WB9_A 3K0S_A 1OH6_A ....
Probab=34.36 E-value=1.1e+02 Score=19.53 Aligned_cols=28 Identities=36% Similarity=0.663 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcch
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTV 100 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~ 100 (120)
+++..+..++++|+.+ ..+++++||+..
T Consensus 8 ~~~~~~~~~~~~l~~~----------~~~~~~~~~~~~ 35 (92)
T PF05190_consen 8 ELREEYEEIEEELEEL----------LEEIRKKLGIPS 35 (92)
T ss_dssp HHHHHHHHHHHHHHHH----------HHHHHHHCT-TT
T ss_pred HHHHHHHHHHHHHHHH----------HHHHHHHcCCCc
Confidence 5666666666665544 456677888854
No 141
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=34.25 E-value=1.4e+02 Score=21.66 Aligned_cols=31 Identities=32% Similarity=0.400 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTAQDL 92 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~~EL 92 (120)
.+||..|.=||||..-||.-|+-=+.+-..|
T Consensus 4 aeLR~qLqFvEEEa~LlRRkl~ele~eN~~l 34 (96)
T PF11365_consen 4 AELRRQLQFVEEEAELLRRKLSELEDENKQL 34 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3788888888888888888777655554433
No 142
>PLN02956 PSII-Q subunit
Probab=33.91 E-value=1.3e+02 Score=24.37 Aligned_cols=51 Identities=18% Similarity=0.172 Sum_probs=30.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchhHHHHHHHhh
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVWKEFNDDLTQ 110 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l~eLkqnisk 110 (120)
+++|+||-+ .-..+-.++|..|+..+..| -|.+.+ ++=-.+++.|++||+.
T Consensus 78 p~~speeA~-------ar~k~~A~~l~~LK~LI~k~--~W~yvr-n~LRgp~s~Lr~DL~~ 128 (185)
T PLN02956 78 PERTVEEAE-------SGVRGHAENLLRVKALIESE--SWKEAQ-KALRRSASNLKQDLYA 128 (185)
T ss_pred CCCCHHHHH-------HHHHHHHHHHHHHHHHhhhc--cHHHHH-HHHHccHHHHHHHHHH
Confidence 679999976 33445567777777766665 222222 2223355667777653
No 143
>KOG1760|consensus
Probab=33.90 E-value=2.3e+02 Score=22.04 Aligned_cols=26 Identities=31% Similarity=0.408 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKT 86 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKe 86 (120)
-+.|++++..+...+..|+-+|.||-
T Consensus 97 i~~les~~e~I~~~m~~LK~~LYaKF 122 (131)
T KOG1760|consen 97 IEELESELESISARMDELKKVLYAKF 122 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34556666666677778999999884
No 144
>COG2973 TrpR Trp operon repressor [Transcription]
Probab=33.56 E-value=89 Score=23.35 Aligned_cols=38 Identities=29% Similarity=0.498 Sum_probs=23.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcch
Q psy14379 51 NLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTV 100 (120)
Q Consensus 51 ~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~ 100 (120)
-||+.|++ .+-.-+.=|++ |..++.-.-||+.+||.+.
T Consensus 37 lLTpdERe----al~~Rv~Iv~e--------LL~ge~sQREi~~~Lgvsi 74 (103)
T COG2973 37 LLTPDERE----ALGTRVRIVEE--------LLRGELSQREIAQKLGVSI 74 (103)
T ss_pred HcCHhHHH----HHHHHHHHHHH--------HHhccccHHHHHHHhCcch
Confidence 46777765 34444433443 4556666679999998764
No 145
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=33.24 E-value=1.8e+02 Score=20.78 Aligned_cols=40 Identities=13% Similarity=0.199 Sum_probs=28.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 53 SPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 53 seEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
+-+|. .+.|...+..++..|.+|.+-|..+.++...+.+.
T Consensus 91 ~~~eA---~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~ 130 (140)
T PRK03947 91 DLDEA---IEILDKRKEELEKALEKLEEALQKLASRIAQLAQE 130 (140)
T ss_pred cHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44443 35777777777777788888887777777777665
No 146
>PF08280 HTH_Mga: M protein trans-acting positive regulator (MGA) HTH domain; InterPro: IPR013199 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions [].; PDB: 2WTE_A 3SQN_A.
Probab=33.24 E-value=1.3e+02 Score=18.90 Aligned_cols=35 Identities=26% Similarity=0.401 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHhhhHHHHHhhCcchhHHHHHHHh
Q psy14379 74 EINTLKHVLASKTKTAQDLKKKLGFTVWKEFNDDLT 109 (120)
Q Consensus 74 EI~TLrQVLaAKek~~~ELKRKLGiT~l~eLkqnis 109 (120)
++.-|...+..+.-...+|..+||+|.- .|+++++
T Consensus 7 q~~Ll~~L~~~~~~~~~ela~~l~~S~r-ti~~~i~ 41 (59)
T PF08280_consen 7 QLKLLELLLKNKWITLKELAKKLNISER-TIKNDIN 41 (59)
T ss_dssp HHHHHHHHHHHTSBBHHHHHHHCTS-HH-HHHHHHH
T ss_pred HHHHHHHHHcCCCCcHHHHHHHHCCCHH-HHHHHHH
Confidence 3444555566667778899999999973 3555543
No 147
>PF02096 60KD_IMP: 60Kd inner membrane protein; InterPro: IPR001708 This family of proteins is required for the insertion of integral membrane proteins into cellular membranes. Many of these integral membrane proteins are associated with respiratory chain complexes, for example a large number of members of this family play an essential role in the activity and assembly of cytochrome c oxidase. Stage III sporulation protein J (SP3J) is a probable lipoprotein, rich in basic and hydrophobic amino acids. Mutations in the protein abolish the transcription of prespore-specific genes transcribed by the sigma G form of RNA polymerase []. SP3J could be involved in a signal transduction pathway coupling gene expression in the prespore to events in the mother cell, or it may be necessary for essential metabolic interactions between the two cells []. The protein shows a high degree of similarity to Bacillus subtilis YQJG, to yeast OXA1 and also to bacterial 60 kDa inner-membrane proteins [, , , ]. ; GO: 0051205 protein insertion into membrane, 0016021 integral to membrane
Probab=33.12 E-value=1.7e+02 Score=21.85 Aligned_cols=41 Identities=24% Similarity=0.250 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchhHHH
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVWKEF 104 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l~eL 104 (120)
..+++-|+.++.+....-++- ..+...+|.+|.|++++..+
T Consensus 32 ~~~~~P~l~~i~~k~~~~~~~---~~~~~~~l~k~~~~~p~~~~ 72 (198)
T PF02096_consen 32 MQELQPELKEIQEKYKEDQQK---MQQEMQKLYKKHGVNPLKGC 72 (198)
T ss_pred HHHHHHHHHHHHHhhhHHHHH---HHHHHHHHHHHcCCCcHHHH
Confidence 346667776666655322222 33445578899999998654
No 148
>PRK11637 AmiB activator; Provisional
Probab=33.11 E-value=2.3e+02 Score=24.03 Aligned_cols=33 Identities=15% Similarity=0.149 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKR 94 (120)
++++.++.+.+.+|..+++-+..-+.....|-+
T Consensus 50 ~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~ 82 (428)
T PRK11637 50 KSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEE 82 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455544444444444444433333333333
No 149
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=33.09 E-value=1.5e+02 Score=22.47 Aligned_cols=26 Identities=23% Similarity=0.366 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKT 88 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~ 88 (120)
+|++|+..=+.||..||.-|..=.+.
T Consensus 98 kLe~e~~~Kdsei~~Lr~~L~~~~~~ 123 (131)
T PF04859_consen 98 KLEAELRAKDSEIDRLREKLDELNRA 123 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445544455555555444443333
No 150
>PF09537 DUF2383: Domain of unknown function (DUF2383); InterPro: IPR019052 This entry represents a functionally uncharacterised ferritin like domain.; PDB: 3FSE_B.
Probab=32.77 E-value=1e+02 Score=20.85 Aligned_cols=41 Identities=17% Similarity=0.319 Sum_probs=26.1
Q ss_pred HHHHHHHHHHhhhHHHH---HhhCcch--hHHHHHHHhhcchhhhh
Q psy14379 77 TLKHVLASKTKTAQDLK---KKLGFTV--WKEFNDDLTQSIKNVKE 117 (120)
Q Consensus 77 TLrQVLaAKek~~~ELK---RKLGiT~--l~eLkqniskgw~dVq~ 117 (120)
.|.+....+.+++.+|. +.||-.| -..+.-.+.+.|-+|+.
T Consensus 35 ~f~~~~~~~~~~~~~L~~~i~~~Gg~p~~~gs~~g~~~r~~~~ik~ 80 (111)
T PF09537_consen 35 LFQEFAQERQQHAEELQAEIQELGGEPEESGSFKGALHRAWMDIKS 80 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTT--H----HHCHHHH-TTTHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCcCcccCHHHHHHHHHHHHHH
Confidence 45555666677777776 5678776 34678888999988875
No 151
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=32.40 E-value=1.3e+02 Score=18.96 Aligned_cols=36 Identities=28% Similarity=0.311 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 60 QKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 60 ~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
.-++|..++..++.+...|+.-+..-...+..|+..
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e 62 (64)
T PF00170_consen 27 YIEELEEKVEELESENEELKKELEQLKKEIQSLKSE 62 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 345677777777777777777777666666666653
No 152
>PF06102 DUF947: Domain of unknown function (DUF947); InterPro: IPR009292 This is a family of eukaryotic proteins with unknown function.
Probab=32.34 E-value=2.3e+02 Score=21.77 Aligned_cols=41 Identities=27% Similarity=0.327 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 55 EEQEKQKAEWTQELARV--EEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 55 EE~e~~~eELr~EL~Kv--EeEI~TLrQVLaAKek~~~ELKRK 95 (120)
|-++.+.++|+.+|.+. .++...|++.|..-+.+....+++
T Consensus 59 d~r~~E~~~Lk~~lk~~k~~~~~e~lk~~L~~~~~q~~~~~~~ 101 (168)
T PF06102_consen 59 DYREKEIKELKKQLKKTKDPEEREELKRELQRMESQLKARKRK 101 (168)
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556667888888887 477777777777766666555543
No 153
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=32.15 E-value=1.6e+02 Score=21.06 Aligned_cols=33 Identities=27% Similarity=0.475 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
.+..++.....++..|++-+......+..||+.
T Consensus 84 ~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk~E 116 (118)
T PF13815_consen 84 QLEERLQELQQEIEKLKQKLKKQKEEIKKLKKE 116 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455555555666666666666665555555553
No 154
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=32.11 E-value=1.3e+02 Score=28.19 Aligned_cols=34 Identities=24% Similarity=0.404 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
-+|.....+|.||..||.=|..||-++..|...+
T Consensus 542 ~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~ 575 (697)
T PF09726_consen 542 SCRQRRRQLESELKKLRRELKQKEEQIRELESEL 575 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677777789999999999999999999888765
No 155
>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=31.97 E-value=1.5e+02 Score=21.91 Aligned_cols=23 Identities=30% Similarity=0.436 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 63 EWTQELARVEEEINTLKHVLASK 85 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAK 85 (120)
.|.+.|...|-|+.+|++-+++-
T Consensus 20 ~L~s~lr~~E~E~~~l~~el~~l 42 (120)
T PF12325_consen 20 RLQSQLRRLEGELASLQEELARL 42 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555555544443
No 156
>KOG4673|consensus
Probab=31.89 E-value=96 Score=30.45 Aligned_cols=27 Identities=22% Similarity=0.330 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhH
Q psy14379 64 WTQELARVEEEINTLKHVLASKTKTAQ 90 (120)
Q Consensus 64 Lr~EL~KvEeEI~TLrQVLaAKek~~~ 90 (120)
.+.||.|+..+|..|-++|.+++.++-
T Consensus 344 ~q~eLdK~~~~i~~Ln~~leaReaqll 370 (961)
T KOG4673|consen 344 VQLELDKTKKEIKMLNNALEAREAQLL 370 (961)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 479999999999999999999988764
No 157
>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=31.35 E-value=2.3e+02 Score=21.61 Aligned_cols=41 Identities=27% Similarity=0.330 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCc
Q psy14379 58 EKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGF 98 (120)
Q Consensus 58 e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGi 98 (120)
+.+.+.++..+...+..+..|+.-|..=+.+..++|++...
T Consensus 97 e~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~ 137 (221)
T PF04012_consen 97 EEQAERLEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREE 137 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456777788888888888888888777888888877653
No 158
>PF09236 AHSP: Alpha-haemoglobin stabilising protein; InterPro: IPR015317 Alpha-haemoglobin stabilising protein (AHSP) acts a molecular chaperone for free alpha-haemoglobin, preventing the harmful aggregation of alpha-haemoglobin during normal erythroid cell development: it specifically protects free alpha-haemoglobin from precipitation. AHSP adopts a helical secondary structure consisting of an elongated antiparallel three alpha-helix bundle []. ; GO: 0030492 hemoglobin binding, 0006457 protein folding, 0020027 hemoglobin metabolic process, 0030097 hemopoiesis, 0050821 protein stabilization; PDB: 1Y01_A 1XZY_A 3OVU_A 1W0A_A 3IA3_C 1Z8U_A 1W0B_A 1W09_A.
Probab=31.08 E-value=1.6e+02 Score=21.59 Aligned_cols=19 Identities=32% Similarity=0.443 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy14379 54 PEEQEKQKAEWTQELARVE 72 (120)
Q Consensus 54 eEE~e~~~eELr~EL~KvE 72 (120)
..||++..+||+.||..+.
T Consensus 56 qqeqdrAlqel~qeL~tla 74 (89)
T PF09236_consen 56 QQEQDRALQELQQELNTLA 74 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 4566666667777665443
No 159
>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=30.85 E-value=2.3e+02 Score=21.19 Aligned_cols=42 Identities=19% Similarity=0.313 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchhHHHHHHHh
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVWKEFNDDLT 109 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l~eLkqnis 109 (120)
+|..+=..++.-.++|++--.+..+++.+|.++ +.+++.++.
T Consensus 34 eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqak-----i~ea~~~le 75 (107)
T PF09304_consen 34 ELAKQKDQLRNALQSLQAQNASRNQRIAELQAK-----IDEARRNLE 75 (107)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHH
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHH
Confidence 343333334555567888888889999999987 456666654
No 160
>PF00992 Troponin: Troponin; InterPro: IPR001978 The troponin (Tn) complex regulates Ca2+ induced muscle contraction. Tn contains three subunits, Ca2+ binding (TnC), inhibitory (TnI), and tropomyosin binding (TnT). This family includes troponin T and troponin I. Troponin I binds to actin and troponin T binds to tropomyosin [, , ].; PDB: 1J1D_C 1MXL_I 1LXF_I 2KRD_I 1J1E_F 2L1R_B 2KGB_I 1YTZ_I 1YV0_I 1VDJ_A ....
Probab=30.83 E-value=2e+02 Score=21.32 Aligned_cols=45 Identities=27% Similarity=0.355 Sum_probs=29.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLK 93 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELK 93 (120)
++|++.++..+.-++|...+.++|+|=-.+=.-...+.....+|+
T Consensus 40 ~~g~~~~eL~~~~k~lh~ri~~leeEryd~E~kv~k~~~Ei~elk 84 (132)
T PF00992_consen 40 LDGLSRAELQELCKELHERIDKLEEERYDLEEKVAKQDYEIEELK 84 (132)
T ss_dssp GTTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence 578999998888888888888887764444443433333333333
No 161
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=30.65 E-value=1.1e+02 Score=21.55 Aligned_cols=18 Identities=28% Similarity=0.473 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy14379 62 AEWTQELARVEEEINTLK 79 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLr 79 (120)
.+|+.||.|+|+|.+-++
T Consensus 10 ~~Lk~eiqkle~ELq~~~ 27 (76)
T PF07334_consen 10 ARLKEEIQKLEAELQQNK 27 (76)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 477777777777766553
No 162
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=30.14 E-value=1.6e+02 Score=23.31 Aligned_cols=36 Identities=19% Similarity=0.367 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCc
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGF 98 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGi 98 (120)
+++..+..+..+|.+|+...++-+++..++...++.
T Consensus 220 ~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~~~ 255 (312)
T PF00038_consen 220 ELRRQIQSLQAELESLRAKNASLERQLRELEQRLDE 255 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhhhhHhhhhhhccccchhhhhhhHHHHHHHHHH
Confidence 567777777788888888888888888888776653
No 163
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=30.08 E-value=2.4e+02 Score=21.28 Aligned_cols=30 Identities=13% Similarity=0.297 Sum_probs=18.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 52 LSPEEQEKQKAEWTQELARVEEEINTLKHV 81 (120)
Q Consensus 52 LseEE~e~~~eELr~EL~KvEeEI~TLrQV 81 (120)
+|-.+.+...-.+++.++++.-||+.++.-
T Consensus 44 vtk~d~e~~~~~~~a~~~eLr~el~~~~k~ 73 (177)
T PF07798_consen 44 VTKSDLENQEYLFKAAIAELRSELQNSRKS 73 (177)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666667777776666655433
No 164
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=30.06 E-value=1.6e+02 Score=20.13 Aligned_cols=39 Identities=23% Similarity=0.315 Sum_probs=22.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q psy14379 52 LSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLK 93 (120)
Q Consensus 52 LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELK 93 (120)
+|-+|-. +-+..-+..+++.+..|++.+.....+...+.
T Consensus 73 ~s~~eA~---~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~ 111 (120)
T PF02996_consen 73 MSLEEAI---EFLKKRIKELEEQLEKLEKELAELQAQIEQLE 111 (120)
T ss_dssp EEHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHH
T ss_pred ecHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455432 35566666666666666666666666555444
No 165
>cd00427 Ribosomal_L29_HIP Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it participates in forming a protein ring that surrounds the polypeptide exit channel, providing structural support for the ribosome. L29 is involved in forming the translocon binding site, along with L19, L22, L23, L24, and L31e. In addition, L29 and L23 form the interaction site for trigger factor (TF) on the ribosomal surface, adjacent to the exit tunnel. L29 forms numerous interactions with L23 and with the 23S rRNA. In some eukaryotes, L29 is referred to as L35, which is distinct from L35 found in bacteria and some eukaryotes (primarily plastids and mitochondria). The mammalian homolog, HIP, is found on the surface of many tissues and cell lines. It is believed to play a role in cell adhesion and modulat
Probab=29.92 E-value=61 Score=20.63 Aligned_cols=24 Identities=29% Similarity=0.461 Sum_probs=13.9
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLK 79 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLr 79 (120)
+-.||.+|. ..+|..+..|...||
T Consensus 3 ir~ls~~eL-------~~~l~~l~~elf~Lr 26 (57)
T cd00427 3 LREKSDEEL-------QEKLDELKKELFNLR 26 (57)
T ss_pred HHHCCHHHH-------HHHHHHHHHHHHHHH
Confidence 456777765 455555555555555
No 166
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=29.91 E-value=65 Score=22.40 Aligned_cols=18 Identities=22% Similarity=0.374 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy14379 63 EWTQELARVEEEINTLKH 80 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQ 80 (120)
++..+|.++.+||.-||+
T Consensus 80 ~~~~~~~~~~~~~~~l~~ 97 (99)
T cd04765 80 EAEERLPSIRAELLDLRD 97 (99)
T ss_pred hHHHHHHHHHHHHHHHHh
Confidence 556666666666666654
No 167
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=29.79 E-value=2.2e+02 Score=25.69 Aligned_cols=46 Identities=24% Similarity=0.473 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHH-HhhCcchhHHHHHHHh
Q psy14379 64 WTQELARVEEEINTLKHVLASKTKTAQDLK-KKLGFTVWKEFNDDLT 109 (120)
Q Consensus 64 Lr~EL~KvEeEI~TLrQVLaAKek~~~ELK-RKLGiT~l~eLkqnis 109 (120)
...++.++++++..|.+-+..-+.+..+++ ++--+.+|..+--+++
T Consensus 91 ~~~~~~~~~~~i~~l~~~~~~L~~~~~~l~~~~~~l~~~~~ld~~l~ 137 (646)
T PRK05771 91 VEEELEKIEKEIKELEEEISELENEIKELEQEIERLEPWGNFDLDLS 137 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCHH
Confidence 344555555555555444444444444444 2233445555544443
No 168
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=29.64 E-value=2.1e+02 Score=20.44 Aligned_cols=39 Identities=26% Similarity=0.412 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 59 KQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 59 ~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
+..+.|...+.+++..|..+++-+........++..+.|
T Consensus 101 ~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~~~~~ 139 (140)
T PRK03947 101 KRKEELEKALEKLEEALQKLASRIAQLAQELQQLQQEAA 139 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344577777777777777777777777777777766543
No 169
>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=29.53 E-value=2.6e+02 Score=21.36 Aligned_cols=25 Identities=44% Similarity=0.581 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTK 87 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek 87 (120)
+|+.+++.++.+|..|...|..|.+
T Consensus 120 ~l~~~~~~L~~~~~~l~~~l~ek~k 144 (194)
T PF08614_consen 120 ELEAELAQLEEKIKDLEEELKEKNK 144 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333344444444443333
No 170
>COG0188 GyrA Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit [DNA replication, recombination, and repair]
Probab=29.36 E-value=88 Score=30.13 Aligned_cols=33 Identities=33% Similarity=0.480 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKR 94 (120)
+.++.|+..++.+|..|...|++-++...-+|.
T Consensus 437 ~~i~~E~~~L~~~i~~l~~iL~s~~~~~~~i~~ 469 (804)
T COG0188 437 EKIEKELKELEKEIADLEKILASEERLLDIIKK 469 (804)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 478999999999999999999998887764443
No 171
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=29.34 E-value=1.1e+02 Score=23.07 Aligned_cols=26 Identities=31% Similarity=0.539 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTK 87 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek 87 (120)
..|++.+.|+++|+..+.+-+.+...
T Consensus 69 aKl~Rk~~kl~~el~~~~~~~~~~~~ 94 (161)
T PF04420_consen 69 AKLNRKLDKLEEELEKLNKSLSSEKS 94 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45777888888888888777766644
No 172
>CHL00154 rpl29 ribosomal protein L29; Validated
Probab=29.11 E-value=1.2e+02 Score=20.40 Aligned_cols=26 Identities=23% Similarity=0.500 Sum_probs=15.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 47 NDLQNLSPEEQEKQKAEWTQELARVEEEINTLK 79 (120)
Q Consensus 47 ~~~~~LseEE~e~~~eELr~EL~KvEeEI~TLr 79 (120)
.++-.||.+|. ..+|..+..|.-.||
T Consensus 7 ~elr~ls~~eL-------~~~l~elk~elf~LR 32 (67)
T CHL00154 7 TDIIDLTDSEI-------SEEIIKTKKELFDLR 32 (67)
T ss_pred HHHHhCCHHHH-------HHHHHHHHHHHHHHH
Confidence 34567888765 455555555556665
No 173
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=29.09 E-value=95 Score=25.18 Aligned_cols=31 Identities=29% Similarity=0.505 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q psy14379 64 WTQELARVEEEINTLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 64 Lr~EL~KvEeEI~TLrQVLaAKek~~~ELKR 94 (120)
++..|.-||+.+..|-..|..|...++.|++
T Consensus 165 v~~Dl~~ie~QV~~Le~~L~~k~~eL~~L~q 195 (195)
T PF12761_consen 165 VREDLDTIEEQVDGLESHLSSKKQELQQLRQ 195 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3455666677777777778777776666653
No 174
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=29.01 E-value=3.6e+02 Score=24.52 Aligned_cols=34 Identities=9% Similarity=0.059 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcc
Q psy14379 66 QELARVEEEINTLKHVLASKTKTAQDLKKKLGFT 99 (120)
Q Consensus 66 ~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT 99 (120)
.-..=+++.|..||+-|.+.|+.....|++.|+.
T Consensus 194 ~a~~~L~~ql~~l~~~l~~aE~~l~~fk~~~~l~ 227 (754)
T TIGR01005 194 AAADFLAPEIADLSKQSRDAEAEVAAYRAQSDLL 227 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence 3344567889999999999999999999999983
No 175
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=28.95 E-value=67 Score=20.52 Aligned_cols=20 Identities=35% Similarity=0.594 Sum_probs=15.4
Q ss_pred hHHHHHhhCcchhHHHHHHHh
Q psy14379 89 AQDLKKKLGFTVWKEFNDDLT 109 (120)
Q Consensus 89 ~~ELKRKLGiT~l~eLkqnis 109 (120)
+.+|-..+|+++ ..+|.|||
T Consensus 31 S~~La~~~gi~~-~qVRKDlS 50 (50)
T PF06971_consen 31 SQELAEALGITP-AQVRKDLS 50 (50)
T ss_dssp HHHHHHHHTS-H-HHHHHHHH
T ss_pred HHHHHHHHCCCH-HHhcccCC
Confidence 458999999999 56888876
No 176
>PRK14549 50S ribosomal protein L29P; Provisional
Probab=28.74 E-value=40 Score=22.61 Aligned_cols=26 Identities=23% Similarity=0.525 Sum_probs=16.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 47 NDLQNLSPEEQEKQKAEWTQELARVEEEINTLK 79 (120)
Q Consensus 47 ~~~~~LseEE~e~~~eELr~EL~KvEeEI~TLr 79 (120)
.++-.||.+|. ..+|..+..|...||
T Consensus 7 ~elr~ls~~eL-------~~~l~elk~eLf~LR 32 (69)
T PRK14549 7 SEIREMSPEER-------EEKLEELKLELLKER 32 (69)
T ss_pred HHHHhCCHHHH-------HHHHHHHHHHHHHHH
Confidence 34667888765 555555566666676
No 177
>PF02686 Glu-tRNAGln: Glu-tRNAGln amidotransferase C subunit; InterPro: IPR003837 Glu-tRNAGln amidotransferase is a heterotrimeric enzyme that is required for correct decoding of glutamine codons during translation. The Glu-tRNA Gln amidotransferase enzyme is an important translational fidelity mechanism replacing incorrectly charged Glu-tRNAGln with the correct Gln-tRANGln via transmidation of the misacylated Glu-tRNAGln []. This activity supplements the lack of glutaminyl-tRNA synthetase activity in Gram-positive eubacteria, cyanobacteria, archaea, and organelles [].; GO: 0006450 regulation of translational fidelity; PDB: 2DQN_C 3IP4_C 2G5I_C 2F2A_C 2G5H_C 2DF4_C 3AL0_C 3KFU_G 3H0R_I 3H0L_U ....
Probab=28.68 E-value=33 Score=21.79 Aligned_cols=26 Identities=31% Similarity=0.482 Sum_probs=16.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 52 LSPEEQEKQKAEWTQELARVEEEINTLKHV 81 (120)
Q Consensus 52 LseEE~e~~~eELr~EL~KvEeEI~TLrQV 81 (120)
||++|.+ .+..+|..+=.-+.+|.+|
T Consensus 1 l~eeE~~----~~~~~l~~il~~~~~l~~v 26 (72)
T PF02686_consen 1 LTEEELE----KLTKQLNDILDYVEKLQEV 26 (72)
T ss_dssp --HHHHH----HHHHHHHHHHHHHTTGGGS
T ss_pred CCHHHHH----HHHHHHHHHHHHHHHHhhc
Confidence 5777776 6777777766666666443
No 178
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=28.19 E-value=2.6e+02 Score=22.16 Aligned_cols=28 Identities=32% Similarity=0.539 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQ 90 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ 90 (120)
.+...++.+|.||..||+-+....+...
T Consensus 259 ~~~~~i~~le~el~~l~~~~~~~~~ey~ 286 (312)
T PF00038_consen 259 EYQAEIAELEEELAELREEMARQLREYQ 286 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhhhccchhHHHHHHHHHHHHHHHH
Confidence 4444444445555555444444443333
No 179
>PF15011 CK2S: Casein Kinase 2 substrate
Probab=28.12 E-value=2.8e+02 Score=21.31 Aligned_cols=50 Identities=20% Similarity=0.288 Sum_probs=42.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 47 NDLQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 47 ~~~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
..+++|-+--+.++.+.+..+|.++.+...+|..|-.+=++++....+-+
T Consensus 52 ~~fpdl~~rL~~Kq~~ale~vl~~L~e~l~~l~~v~~~l~~~~~~~~~l~ 101 (168)
T PF15011_consen 52 RSFPDLQERLRRKQLEALETVLAKLRETLEELQKVRDSLSRQVRDVFQLY 101 (168)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44789999999999999999999999999999999888888887766543
No 180
>PRK10869 recombination and repair protein; Provisional
Probab=28.10 E-value=4.4e+02 Score=23.65 Aligned_cols=19 Identities=26% Similarity=0.431 Sum_probs=10.8
Q ss_pred CHHHHHHHHHHHHHHHHHH
Q psy14379 53 SPEEQEKQKAEWTQELARV 71 (120)
Q Consensus 53 seEE~e~~~eELr~EL~Kv 71 (120)
|.++--..+++++.||..+
T Consensus 318 ~~~~~~~~~~~l~~eL~~L 336 (553)
T PRK10869 318 SPEELPQHHQQLLEEQQQL 336 (553)
T ss_pred CHHHHHHHHHHHHHHHHHh
Confidence 5555555555666666554
No 181
>PF13864 Enkurin: Calmodulin-binding
Probab=28.04 E-value=88 Score=21.63 Aligned_cols=27 Identities=19% Similarity=0.275 Sum_probs=16.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEI 75 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI 75 (120)
..-|+++|+.+....|+....++..|.
T Consensus 34 ~~~l~eeER~~lL~~Lk~~~~el~~ey 60 (98)
T PF13864_consen 34 MRLLSEEERQELLEGLKKNWDELNKEY 60 (98)
T ss_pred cccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 457888888765555555555554443
No 182
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=27.93 E-value=61 Score=19.63 Aligned_cols=31 Identities=29% Similarity=0.446 Sum_probs=19.6
Q ss_pred HHHHHHHHHhhhHHHHHhhCcchhHHHHHHHh
Q psy14379 78 LKHVLASKTKTAQDLKKKLGFTVWKEFNDDLT 109 (120)
Q Consensus 78 LrQVLaAKek~~~ELKRKLGiT~l~eLkqnis 109 (120)
|++.+..+..-..+|-++.||+. +.|..=++
T Consensus 2 L~~~m~~~~it~~~La~~~gis~-~tl~~~~~ 32 (63)
T PF13443_consen 2 LKELMAERGITQKDLARKTGISR-STLSRILN 32 (63)
T ss_dssp HHHHHHHTT--HHHHHHHHT--H-HHHHHHHT
T ss_pred HHHHHHHcCCCHHHHHHHHCcCH-HHHHHHHh
Confidence 67778888888889999999987 44444333
No 183
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=27.80 E-value=1.2e+02 Score=19.59 Aligned_cols=6 Identities=33% Similarity=0.418 Sum_probs=2.3
Q ss_pred CCHHHH
Q psy14379 52 LSPEEQ 57 (120)
Q Consensus 52 LseEE~ 57 (120)
+++++.
T Consensus 67 ~~~~e~ 72 (96)
T smart00529 67 VDEEEV 72 (96)
T ss_pred CCHHHH
Confidence 333433
No 184
>PF13907 DUF4208: Domain of unknown function (DUF4208)
Probab=27.75 E-value=2e+02 Score=20.04 Aligned_cols=42 Identities=19% Similarity=0.353 Sum_probs=28.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
.+|+.+|+. ..|+.+|.++=+.|...-+-.... ....|++.|
T Consensus 37 ~~l~~~e~a---~~lk~~L~~IG~~I~~~l~~~~~~--~~~~l~~~L 78 (100)
T PF13907_consen 37 KGLPRKERA---KILKKELLKIGDFIDSILKEYKDD--EPEKLRKHL 78 (100)
T ss_pred CCCCHHHHH---HHHHHHHHHHHHHHHHHHHhcccc--hHHHHHHHH
Confidence 478888764 689999999999999763333222 334555544
No 185
>TIGR00012 L29 ribosomal protein L29. called L29 in prokaryotic (50S) large subunits and L35 in eukaryotic (60S) large subunits.
Probab=27.69 E-value=86 Score=19.89 Aligned_cols=23 Identities=26% Similarity=0.435 Sum_probs=14.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLK 79 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLr 79 (120)
-.+|.+| |..+|.++..|...||
T Consensus 3 r~~s~~E-------L~~~l~~lr~eLf~Lr 25 (55)
T TIGR00012 3 REKSKEE-------LAKKLDELKKELFELR 25 (55)
T ss_pred hhCCHHH-------HHHHHHHHHHHHHHHH
Confidence 3566664 5666777777777776
No 186
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=27.65 E-value=1.9e+02 Score=23.74 Aligned_cols=34 Identities=24% Similarity=0.433 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q psy14379 60 QKAEWTQELARVEEEINTLKHVLASKTKTAQDLK 93 (120)
Q Consensus 60 ~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELK 93 (120)
||...|.-...+|+|...+.+.+..-......||
T Consensus 87 QRDRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~ 120 (248)
T PF08172_consen 87 QRDRFRQRNAELEEELRKQQQTISSLRREVESLR 120 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555444444444444444333
No 187
>PF00524 PPV_E1_N: E1 Protein, N terminal domain; InterPro: IPR014000 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species. The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a centrally-located DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. This entry represents the N-terminal region of E1, which contains the nuclear localisation signal.; GO: 0016817 hydrolase activity, acting on acid anhydrides
Probab=27.64 E-value=65 Score=24.20 Aligned_cols=23 Identities=17% Similarity=0.069 Sum_probs=15.7
Q ss_pred HHHHHHhhhHHHHHhhCcchhHH
Q psy14379 81 VLASKTKTAQDLKKKLGFTVWKE 103 (120)
Q Consensus 81 VLaAKek~~~ELKRKLGiT~l~e 103 (120)
...+=+++...|||||.-+|-..
T Consensus 67 ~~~~d~~~v~~LKRK~~~SP~~~ 89 (130)
T PF00524_consen 67 EAEDDERAVQALKRKYLGSPKSK 89 (130)
T ss_pred HHHHHHHHHHHHHHHHcCCcccc
Confidence 34444577778899988787444
No 188
>KOG0288|consensus
Probab=27.42 E-value=2.2e+02 Score=26.13 Aligned_cols=39 Identities=21% Similarity=0.272 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 57 QEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 57 ~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
.+++.++|++++..++.|-.+++--+..||..+++||..
T Consensus 25 ~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~e 63 (459)
T KOG0288|consen 25 CEKAQSRLSAQLVILRAESRAIKAKLQEKELELNRLQEE 63 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344567888888888888888888888888888888764
No 189
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=26.89 E-value=99 Score=23.35 Aligned_cols=18 Identities=39% Similarity=0.590 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy14379 62 AEWTQELARVEEEINTLK 79 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLr 79 (120)
++|+.||.+.+.|+.+|+
T Consensus 164 ~~lk~el~~~~~~~~~Lk 181 (192)
T PF05529_consen 164 EKLKKELEKKEKEIEALK 181 (192)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 488899999999988885
No 190
>PRK00306 50S ribosomal protein L29; Reviewed
Probab=26.78 E-value=58 Score=21.33 Aligned_cols=25 Identities=32% Similarity=0.539 Sum_probs=15.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 48 DLQNLSPEEQEKQKAEWTQELARVEEEINTLK 79 (120)
Q Consensus 48 ~~~~LseEE~e~~~eELr~EL~KvEeEI~TLr 79 (120)
++-.||.+|. ..+|..+..|...||
T Consensus 5 elr~ls~~eL-------~~~l~~lkkeL~~lR 29 (66)
T PRK00306 5 ELRELSVEEL-------NEKLLELKKELFNLR 29 (66)
T ss_pred HHhhCCHHHH-------HHHHHHHHHHHHHHH
Confidence 4567888865 455555566666666
No 191
>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.
Probab=26.64 E-value=1.4e+02 Score=18.97 Aligned_cols=21 Identities=19% Similarity=0.238 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy14379 63 EWTQELARVEEEINTLKHVLA 83 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLa 83 (120)
|+|..|..--.||..||..+.
T Consensus 19 elk~~l~~Q~kE~~~LRntI~ 39 (45)
T PF11598_consen 19 ELKELLRQQIKETRFLRNTIM 39 (45)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 555555555567777777664
No 192
>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []. The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule
Probab=26.61 E-value=2.4e+02 Score=24.12 Aligned_cols=33 Identities=27% Similarity=0.323 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q psy14379 58 EKQKAEWTQELARVEEEINTLKHVLASKTKTAQ 90 (120)
Q Consensus 58 e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ 90 (120)
+-+..+...|++.+|.+|..|+..+..|+....
T Consensus 264 e~ql~~~~~ei~~~e~~i~~L~~ai~~k~~~lk 296 (384)
T PF03148_consen 264 EWQLKKTLQEIAEMEKNIEDLEKAIRDKEGPLK 296 (384)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence 344456667777778888999999999976643
No 193
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=26.61 E-value=2.7e+02 Score=20.63 Aligned_cols=36 Identities=17% Similarity=0.155 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q psy14379 59 KQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 59 ~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKR 94 (120)
.+|.|++.-++.+|-|..++...-..-.||..-|-.
T Consensus 25 iERaEmkarIa~LEGE~r~~e~l~~dL~rrIkMLE~ 60 (134)
T PF08232_consen 25 IERAEMKARIAFLEGERRGQENLKKDLKRRIKMLEY 60 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456799999999999999887776666666654443
No 194
>KOG0933|consensus
Probab=26.40 E-value=1.9e+02 Score=29.44 Aligned_cols=56 Identities=29% Similarity=0.419 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchhHHHHHHHhhcchhhh
Q psy14379 56 EQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVWKEFNDDLTQSIKNVK 116 (120)
Q Consensus 56 E~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l~eLkqniskgw~dVq 116 (120)
.++...+.|.-|...++.||.++.+-|...+..+..|+..+| .|.-++.+--++|.
T Consensus 812 k~~~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~-----~l~~kv~~~~~~~~ 867 (1174)
T KOG0933|consen 812 KRENEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELG-----NLEAKVDKVEKDVK 867 (1174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHhHHhHHH
Confidence 344455678888888999999999999999999999999866 45555554444443
No 195
>PRK00461 rpmC 50S ribosomal protein L29; Reviewed
Probab=26.13 E-value=62 Score=22.95 Aligned_cols=24 Identities=38% Similarity=0.353 Sum_probs=15.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHH
Q psy14379 48 DLQNLSPEEQEKQKAEWTQELARV 71 (120)
Q Consensus 48 ~~~~LseEE~e~~~eELr~EL~Kv 71 (120)
++-.||.+|...+-.+++.||..+
T Consensus 4 elR~lS~eEL~e~L~elkkELf~L 27 (87)
T PRK00461 4 ELRKKSVEELEKLVIELKAELFTL 27 (87)
T ss_pred HHHhCCHHHHHHHHHHHHHHHHHH
Confidence 466788887765555555555444
No 196
>PRK10622 pheA bifunctional chorismate mutase/prephenate dehydratase; Provisional
Probab=26.10 E-value=1.9e+02 Score=25.02 Aligned_cols=37 Identities=16% Similarity=0.195 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh---hhHHHHHhhCcchh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTK---TAQDLKKKLGFTVW 101 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek---~~~ELKRKLGiT~l 101 (120)
+++|.++..+..+|-.| |+.+.. +.+++|++.|...+
T Consensus 8 ~~lR~~ID~ID~~ii~L---l~~R~~~~~~I~~~K~~~~~pi~ 47 (386)
T PRK10622 8 LALREKISALDEKLLAL---LAERRELAVEVAKAKLLSHRPVR 47 (386)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhCCCCCc
Confidence 48999999999999877 555543 34688998887543
No 197
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=26.08 E-value=2.6e+02 Score=20.25 Aligned_cols=37 Identities=16% Similarity=0.430 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhC
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLG 97 (120)
++.|...+.+++.++..|..-+..-+.+.+++.|+++
T Consensus 54 ~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~ 90 (151)
T PF11559_consen 54 REDLSDKLRRLRSDIERLQNDVERLKEQLEELERELA 90 (151)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555444444444444444444443
No 198
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=26.03 E-value=2.5e+02 Score=22.83 Aligned_cols=9 Identities=44% Similarity=0.722 Sum_probs=5.9
Q ss_pred CCCCHHHHH
Q psy14379 50 QNLSPEEQE 58 (120)
Q Consensus 50 ~~LseEE~e 58 (120)
..||||||+
T Consensus 137 ~hMSeeER~ 145 (179)
T PF14723_consen 137 RHMSEEERE 145 (179)
T ss_pred hcCCHHHHH
Confidence 467777764
No 199
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=25.99 E-value=2.8e+02 Score=20.55 Aligned_cols=32 Identities=25% Similarity=0.441 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKR 94 (120)
+++..|+.+++|+..+++-+.....+...++.
T Consensus 85 ~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~ 116 (191)
T PF04156_consen 85 ELQQQLQQLQEELDQLQERIQELESELEKLKE 116 (191)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666666666666666666666666665554
No 200
>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=25.99 E-value=3.2e+02 Score=21.50 Aligned_cols=22 Identities=18% Similarity=0.247 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHhhhHHHHHh
Q psy14379 74 EINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 74 EI~TLrQVLaAKek~~~ELKRK 95 (120)
.+..|...+.+.++..++|+++
T Consensus 71 ~~~~l~~~v~~q~~el~~L~~q 92 (251)
T PF11932_consen 71 YNEQLERQVASQEQELASLEQQ 92 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444445555555555544
No 201
>smart00338 BRLZ basic region leucin zipper.
Probab=25.94 E-value=1.8e+02 Score=18.36 Aligned_cols=32 Identities=22% Similarity=0.343 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKR 94 (120)
+|..++..++.+...|+.-+..-+.....|+.
T Consensus 30 ~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~ 61 (65)
T smart00338 30 ELERKVEQLEAENERLKKEIERLRRELEKLKS 61 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444444444444443
No 202
>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=25.88 E-value=3.3e+02 Score=21.48 Aligned_cols=19 Identities=32% Similarity=0.401 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy14379 63 EWTQELARVEEEINTLKHV 81 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQV 81 (120)
+|..++..++.|+..|+.-
T Consensus 53 ~L~~e~~~l~~e~e~L~~~ 71 (251)
T PF11932_consen 53 ELLAEYRQLEREIENLEVY 71 (251)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444333
No 203
>PF10372 YojJ: Bacterial membrane-spanning protein N-terminus; InterPro: IPR019457 This entry is found at the N terminus of a family of putative membrane-spanning bacterial proteins. These proteins often contain IPR003390 from INTERPRO towards the C terminus. ; PDB: 2FB5_A.
Probab=25.74 E-value=1e+02 Score=21.19 Aligned_cols=27 Identities=30% Similarity=0.412 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 60 QKAEWTQELARVEEEINTLKHVLASKT 86 (120)
Q Consensus 60 ~~eELr~EL~KvEeEI~TLrQVLaAKe 86 (120)
.|..++..|.+++.+|....+.|-...
T Consensus 11 ~K~~lk~~L~~I~~~~~~i~~~ld~~~ 37 (70)
T PF10372_consen 11 LKEQLKQYLEQIEEEISQIIQTLDEDD 37 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTT-TT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 467899999999999999888887553
No 204
>PHA02562 46 endonuclease subunit; Provisional
Probab=25.65 E-value=2.8e+02 Score=23.68 Aligned_cols=13 Identities=23% Similarity=0.498 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHHH
Q psy14379 63 EWTQELARVEEEI 75 (120)
Q Consensus 63 ELr~EL~KvEeEI 75 (120)
++++++..+++.|
T Consensus 310 ~l~~~l~~l~~~i 322 (562)
T PHA02562 310 ELQHSLEKLDTAI 322 (562)
T ss_pred HHHHHHHHHHHHH
Confidence 3344444333333
No 205
>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=25.65 E-value=2.2e+02 Score=24.25 Aligned_cols=27 Identities=22% Similarity=0.220 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKT 88 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~ 88 (120)
++|..+..++..+|.+.+..|.+=..+
T Consensus 111 ~el~~~k~~l~~~~~~k~~~L~~l~~~ 137 (355)
T PF09766_consen 111 KELEQRKKKLQQENKKKKKFLDSLPPQ 137 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 344444444555555555554444333
No 206
>COG0099 RpsM Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=25.56 E-value=1e+02 Score=23.45 Aligned_cols=10 Identities=40% Similarity=0.521 Sum_probs=7.1
Q ss_pred CCCCCHHHHH
Q psy14379 49 LQNLSPEEQE 58 (120)
Q Consensus 49 ~~~LseEE~e 58 (120)
...|||||.+
T Consensus 45 ~~eLteeei~ 54 (121)
T COG0099 45 VGELTEEEIE 54 (121)
T ss_pred hccCCHHHHH
Confidence 3578888776
No 207
>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=25.46 E-value=3.6e+02 Score=22.91 Aligned_cols=36 Identities=19% Similarity=0.278 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
|++|..++.+++..-..|.+-...|.++...|..+|
T Consensus 103 Rk~L~~~~~el~~~k~~l~~~~~~k~~~L~~l~~~L 138 (355)
T PF09766_consen 103 RKRLEEQLKELEQRKKKLQQENKKKKKFLDSLPPQL 138 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 456666666666666666666666766666666543
No 208
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=25.32 E-value=3.2e+02 Score=21.01 Aligned_cols=24 Identities=13% Similarity=0.264 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 62 AEWTQELARVEEEINTLKHVLASK 85 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAK 85 (120)
+.++.++.++..+|...|.-+...
T Consensus 73 ~~l~~~i~~~~~~i~~~r~~l~~~ 96 (302)
T PF10186_consen 73 ERLRERIERLRKRIEQKRERLEEL 96 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555444444444444443
No 209
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=25.16 E-value=1.5e+02 Score=20.33 Aligned_cols=20 Identities=25% Similarity=0.418 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy14379 59 KQKAEWTQELARVEEEINTL 78 (120)
Q Consensus 59 ~~~eELr~EL~KvEeEI~TL 78 (120)
+.|++|..+|+++|.+|-.+
T Consensus 9 ~~k~~Le~~L~~lE~qIy~~ 28 (80)
T PF09340_consen 9 QKKKKLEKDLAALEKQIYDK 28 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45668888888888877655
No 210
>PF05119 Terminase_4: Phage terminase, small subunit; InterPro: IPR006448 This entry is represented by Streptococcus phage 7201, Orf21. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This group of sequences describe the distinct family of phage (and integrated prophage) putative terminase small subunit sequnces. Members tend to be encoded by the gene adjacent to the phage terminase large subunit gene.
Probab=24.91 E-value=1.1e+02 Score=20.19 Aligned_cols=22 Identities=23% Similarity=0.238 Sum_probs=16.0
Q ss_pred hhhHHHHHhhCcchhHHHHHHH
Q psy14379 87 KTAQDLKKKLGFTVWKEFNDDL 108 (120)
Q Consensus 87 k~~~ELKRKLGiT~l~eLkqni 108 (120)
+++..|-+.||+||-++.|-..
T Consensus 71 ~~~~~l~~~lGLtP~sR~kl~~ 92 (100)
T PF05119_consen 71 KQMRSLASELGLTPASRAKLAV 92 (100)
T ss_pred HHHHHHHHHcCCCHHHHhhccC
Confidence 4455566789999988877544
No 211
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=24.74 E-value=1.1e+02 Score=18.82 Aligned_cols=26 Identities=15% Similarity=0.388 Sum_probs=16.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEI 75 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI 75 (120)
..|+++.+.....+++.++..+.++|
T Consensus 28 r~l~~e~~~~li~~~~~~i~~~~~~l 53 (54)
T PF04423_consen 28 RPLDEEHRQELIKKYKSEIEELPEKL 53 (54)
T ss_dssp -EE-HHHHHHHHHHHHHHHHHHHH--
T ss_pred CCCCHHHHHHHHHHHHHHHHhhhhcc
Confidence 47899988766667777776666654
No 212
>KOG4253|consensus
Probab=24.63 E-value=1.6e+02 Score=23.74 Aligned_cols=31 Identities=26% Similarity=0.379 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH-----HHhhhHHHHHhh
Q psy14379 65 TQELARVEEEINTLKHVLAS-----KTKTAQDLKKKL 96 (120)
Q Consensus 65 r~EL~KvEeEI~TLrQVLaA-----Kek~~~ELKRKL 96 (120)
+.|+.++ +||++++|-|.| +-.+.+.|-||+
T Consensus 44 kk~~q~~-~ei~dmKqelnavs~qD~fAkwaRlnRKi 79 (175)
T KOG4253|consen 44 KKESQKV-AEIQDMKQELNAVSMQDNFAKWARLNRKI 79 (175)
T ss_pred HHHHHHH-HHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Confidence 4444444 457777777765 334456666763
No 213
>PF09486 HrpB7: Bacterial type III secretion protein (HrpB7); InterPro: IPR013392 This entry represents proteins encoded by genes which are found in type III secretion operons in a narrow range of species including Xanthomonas, Burkholderia and Ralstonia.
Probab=24.63 E-value=2.5e+02 Score=21.86 Aligned_cols=39 Identities=10% Similarity=0.243 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcc
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFT 99 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT 99 (120)
+..+..++...|.+..+|++.|.+|....+...+.+.-.
T Consensus 81 r~~l~~~~~~~e~~~a~l~~~l~~~~~~ia~~~raIarn 119 (158)
T PF09486_consen 81 RDVLEERVRAAEAELAALRQALRAAEDEIAATRRAIARN 119 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 446677788889999999999999999999888876543
No 214
>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=24.48 E-value=2.8e+02 Score=22.85 Aligned_cols=35 Identities=17% Similarity=0.264 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcch
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTV 100 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~ 100 (120)
+||.|+.++..+.+.+.+- -++.-..||+.|++..
T Consensus 77 ~Lr~e~~~l~~~~~~~~~~---l~~EN~rLr~LL~~~~ 111 (283)
T TIGR00219 77 KLRQELLKKNQQLEILTQN---LKQENVRLRELLNSPL 111 (283)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhcCcc
Confidence 5555555553333332111 2344557888888864
No 215
>PRK00034 gatC aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed
Probab=24.23 E-value=1.4e+02 Score=20.01 Aligned_cols=27 Identities=30% Similarity=0.495 Sum_probs=19.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 51 NLSPEEQEKQKAEWTQELARVEEEINTLKHV 81 (120)
Q Consensus 51 ~LseEE~e~~~eELr~EL~KvEeEI~TLrQV 81 (120)
.|+++|.+ .+..+|.++-+-+..|.++
T Consensus 18 ~l~~ee~~----~~~~~l~~il~~~~~l~~v 44 (95)
T PRK00034 18 ELSEEELE----KFAGQLNKILDFVEQLNEV 44 (95)
T ss_pred CCCHHHHH----HHHHHHHHHHHHHHHHhhc
Confidence 57788765 7788888877777777654
No 216
>KOG3335|consensus
Probab=24.22 E-value=2.5e+02 Score=22.84 Aligned_cols=24 Identities=21% Similarity=0.253 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 72 EEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 72 EeEI~TLrQVLaAKek~~~ELKRK 95 (120)
+.||.-||-.+...+....++++.
T Consensus 105 ~~e~~elr~~~~~l~~~i~~~~~~ 128 (181)
T KOG3335|consen 105 KQEIMELRLKVEKLENAIAELTKF 128 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677888888888888888876
No 217
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=24.20 E-value=3.3e+02 Score=22.56 Aligned_cols=19 Identities=42% Similarity=0.625 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy14379 62 AEWTQELARVEEEINTLKH 80 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQ 80 (120)
++++.+|..++++|..+..
T Consensus 233 ~el~~el~~l~~~i~~~~~ 251 (325)
T PF08317_consen 233 AELQEELEELEEKIEELEE 251 (325)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3445555555544444433
No 218
>PRK12758 DNA topoisomerase IV subunit A; Provisional
Probab=24.20 E-value=1.9e+02 Score=28.43 Aligned_cols=37 Identities=41% Similarity=0.449 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh----hhHHHHHhhCc
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTK----TAQDLKKKLGF 98 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek----~~~ELKRKLGi 98 (120)
+.+..|+.+++++|..|...|+.--+ ...+||.|+|-
T Consensus 428 ~k~~~e~~~l~~~i~~~~~~L~~l~~~ii~el~~i~~kyg~ 468 (869)
T PRK12758 428 DKADELIARLEAEIAEVKHHLAHLTDYAIAYFTNLKKKYGK 468 (869)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 36678888888888888888887332 23356666664
No 219
>PF02370 M: M protein repeat; InterPro: IPR003345 This short repeat is found in multiple copies in bacterial M proteins. The M proteins bind to IgA and are closely associated with virulence. The M protein has been postulated to be a major group A streptococcal (GAS) virulence factor because of its contribution to the bacterial resistance to opsonophagocytosis [].; PDB: 2KK9_A.
Probab=24.19 E-value=1.4e+02 Score=16.53 Aligned_cols=18 Identities=17% Similarity=0.219 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy14379 61 KAEWTQELARVEEEINTL 78 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TL 78 (120)
+.+|..++.|+++|-+-+
T Consensus 3 kk~lEa~~qkLe~e~q~~ 20 (21)
T PF02370_consen 3 KKQLEADHQKLEAEKQIS 20 (21)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 457889999999886643
No 220
>PRK07075 isochorismate-pyruvate lyase; Reviewed
Probab=23.70 E-value=1.9e+02 Score=20.38 Aligned_cols=31 Identities=13% Similarity=0.319 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhH---HHHHh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTAQ---DLKKK 95 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~~---ELKRK 95 (120)
.++|.++..+..+|..| |+.+.+.+. .+|+.
T Consensus 11 ~~lR~~ID~ID~~iv~L---L~eR~~~~~~ia~~K~~ 44 (101)
T PRK07075 11 DDIREAIDRLDRDIIAA---LGRRMQYVKAASRFKPS 44 (101)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhcCc
Confidence 47999999999999988 766665444 45553
No 221
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=23.69 E-value=1.1e+02 Score=21.06 Aligned_cols=26 Identities=35% Similarity=0.531 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHhhCcch
Q psy14379 72 EEEINTLKHVLASKTKTAQDLKKKLGFTV 100 (120)
Q Consensus 72 EeEI~TLrQVLaAKek~~~ELKRKLGiT~ 100 (120)
++++..|+.-|+++ +..|=|+||+|.
T Consensus 2 ~~~l~~l~~~lG~~---Wk~lar~LG~s~ 27 (86)
T cd08777 2 EKHLDLLRENLGKK---WKRCARKLGFTE 27 (86)
T ss_pred HHHHHHHHHHHHHH---HHHHHHHcCCCH
Confidence 45556666655544 555667788775
No 222
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=23.69 E-value=1.2e+02 Score=18.85 Aligned_cols=29 Identities=24% Similarity=0.407 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHhhCcch
Q psy14379 72 EEEINTLKHVLASKTKTAQDLKKKLGFTV 100 (120)
Q Consensus 72 EeEI~TLrQVLaAKek~~~ELKRKLGiT~ 100 (120)
+.|+..+..+|........+|-+.+|++.
T Consensus 8 ~~E~~vy~~Ll~~~~~t~~eIa~~l~i~~ 36 (68)
T PF01978_consen 8 ENEAKVYLALLKNGPATAEEIAEELGISR 36 (68)
T ss_dssp HHHHHHHHHHHHHCHEEHHHHHHHHTSSH
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHCcCH
Confidence 45667777778888889999999999975
No 223
>PRK14158 heat shock protein GrpE; Provisional
Probab=23.55 E-value=3e+02 Score=22.01 Aligned_cols=20 Identities=25% Similarity=0.127 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy14379 63 EWTQELARVEEEINTLKHVL 82 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVL 82 (120)
.+..+|.++++++..|+.-+
T Consensus 44 ~le~~l~~le~e~~el~d~~ 63 (194)
T PRK14158 44 ELEEALAAKEAEAAANWDKY 63 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 55666666666666655443
No 224
>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=23.52 E-value=1.5e+02 Score=19.97 Aligned_cols=26 Identities=23% Similarity=0.304 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 59 KQKAEWTQELARVEEEINTLKHVLAS 84 (120)
Q Consensus 59 ~~~eELr~EL~KvEeEI~TLrQVLaA 84 (120)
.+|.+|+..+.-++||....|.-+..
T Consensus 10 ~ERNeLK~~v~~leEEL~~yk~~~~~ 35 (60)
T PF11461_consen 10 QERNELKARVFLLEEELAYYKSELLP 35 (60)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccCC
Confidence 34779999999999999998765443
No 225
>COG0255 RpmC Ribosomal protein L29 [Translation, ribosomal structure and biogenesis]
Probab=23.38 E-value=80 Score=21.57 Aligned_cols=21 Identities=38% Similarity=0.460 Sum_probs=13.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHH
Q psy14379 48 DLQNLSPEEQEKQKAEWTQEL 68 (120)
Q Consensus 48 ~~~~LseEE~e~~~eELr~EL 68 (120)
++-.+|.||......+|+.||
T Consensus 7 elR~~s~eeL~~~l~eLK~EL 27 (69)
T COG0255 7 ELREKSVEELEEELRELKKEL 27 (69)
T ss_pred HHHhCCHHHHHHHHHHHHHHH
Confidence 456788887765555555555
No 226
>KOG0415|consensus
Probab=23.29 E-value=1.4e+02 Score=27.22 Aligned_cols=17 Identities=41% Similarity=0.407 Sum_probs=11.5
Q ss_pred CCCCCCCCCCCCHHHHH
Q psy14379 42 PDSGINDLQNLSPEEQE 58 (120)
Q Consensus 42 ~ds~~~~~~~LseEE~e 58 (120)
.|..+.+.+++|.||.+
T Consensus 193 ~de~~d~~~g~saeel~ 209 (479)
T KOG0415|consen 193 LDEDEDDDEGLSAEELE 209 (479)
T ss_pred cCcccccccccCHHHHH
Confidence 35555677888888764
No 227
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=23.15 E-value=3.1e+02 Score=20.18 Aligned_cols=45 Identities=29% Similarity=0.334 Sum_probs=30.6
Q ss_pred CCCCHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 50 QNLSPEEQEKQKAE---WTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 50 ~~LseEE~e~~~eE---Lr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
+.+|+|+|.+.-.. =+.||.++|+ ......|.+-=.-..-||+.|
T Consensus 45 p~isee~qk~mm~~~~rrqEElKkLee--~ddd~ylns~Wad~~~Lk~~~ 92 (98)
T PF11069_consen 45 PVISEEEQKAMMAYYYRRQEELKKLEE--DDDDSYLNSQWADPKALKRQF 92 (98)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHh--hhHHHHHHHhccChHHHHHHh
Confidence 67899988644322 2578888887 566667777666666788764
No 228
>KOG2391|consensus
Probab=23.08 E-value=2.8e+02 Score=24.77 Aligned_cols=27 Identities=26% Similarity=0.196 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHH
Q psy14379 68 LARVEEEINTLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 68 L~KvEeEI~TLrQVLaAKek~~~ELKR 94 (120)
..|++++++||-|-+..-.+.+.=|++
T Consensus 248 ~~kL~~~~etLEqq~~~L~~niDIL~~ 274 (365)
T KOG2391|consen 248 KQKLVAMKETLEQQLQSLQKNIDILKS 274 (365)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence 334444444454444444444433443
No 229
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=23.00 E-value=2.9e+02 Score=19.72 Aligned_cols=33 Identities=18% Similarity=0.250 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhH--HHHHh
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQ--DLKKK 95 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~--ELKRK 95 (120)
.++++..|+.+|+++|.+--+..+.+.. .+|+|
T Consensus 27 ka~~~~~kL~~en~qlk~Ek~~~~~qvkn~~vrqk 61 (87)
T PF10883_consen 27 KAKKQNAKLQKENEQLKTEKAVAETQVKNAKVRQK 61 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677788999999999887777666554 45555
No 230
>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []. Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.
Probab=22.93 E-value=3e+02 Score=22.19 Aligned_cols=36 Identities=31% Similarity=0.524 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q psy14379 58 EKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLK 93 (120)
Q Consensus 58 e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELK 93 (120)
|..+.+|...|.+.+++..--++.|...+..+..|-
T Consensus 4 Er~k~Ele~rL~q~eee~~~a~~~L~e~e~~a~~Le 39 (246)
T PF00769_consen 4 EREKQELEERLRQMEEEMRRAQEALEESEETAEELE 39 (246)
T ss_dssp HHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334456666666666666655555555555444443
No 231
>PHA02119 hypothetical protein
Probab=22.80 E-value=77 Score=22.78 Aligned_cols=20 Identities=30% Similarity=0.501 Sum_probs=15.1
Q ss_pred HHHHHHHHHhhhHHHHHhhC
Q psy14379 78 LKHVLASKTKTAQDLKKKLG 97 (120)
Q Consensus 78 LrQVLaAKek~~~ELKRKLG 97 (120)
.-||+.|..=--.||||||.
T Consensus 7 ~aqv~~aq~fateelkrkla 26 (87)
T PHA02119 7 YAQVLMAQQFATEELKRKLA 26 (87)
T ss_pred HHHHHHHHHHHHHHHHHhcc
Confidence 45777777666679999975
No 232
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=22.75 E-value=3.1e+02 Score=19.99 Aligned_cols=34 Identities=21% Similarity=0.332 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
..|+.||.+.+.|+..-||-+..=--+.++|=.+
T Consensus 28 ~~l~~eL~~~k~el~~yk~~V~~HF~~ta~Ll~~ 61 (128)
T PF06295_consen 28 AKLEQELEQAKQELEQYKQEVNDHFAQTAELLDN 61 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788999999999999998888766666665443
No 233
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=22.71 E-value=2.8e+02 Score=19.43 Aligned_cols=33 Identities=15% Similarity=0.252 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q psy14379 62 AEWTQELARVEEEINTLKHVLASKTKTAQDLKK 94 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKR 94 (120)
+-+...+..+++.+..|...+..+..+...+..
T Consensus 90 ~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~ 122 (129)
T cd00584 90 EFLDKKIEELTKQIEKLQKELAKLKDQINTLEA 122 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666666676666666666655543
No 234
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=22.63 E-value=3.5e+02 Score=23.30 Aligned_cols=34 Identities=24% Similarity=0.290 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q psy14379 57 QEKQKAEWTQELARVEEEINTLKHVLASKTKTAQ 90 (120)
Q Consensus 57 ~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ 90 (120)
.-+++++|+.||..+|.|...++.-|..-+...+
T Consensus 147 ~~~EkeeL~~eleele~e~ee~~erlk~le~E~s 180 (290)
T COG4026 147 LQKEKEELLKELEELEAEYEEVQERLKRLEVENS 180 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3356778888998888888877777766555444
No 235
>PF08182 Pedibin: Pedibin/Hym-346 family; InterPro: IPR012594 This family consists of the pedibin and Hym-346 signalling peptides. These two peptides have been isolated from Hydra attenuata (Hydra) (Hydra vulgaris) and Hydra magnipapillata (Hydra). Experiments have indicated that both cause a reduction in the positional value gradient, the principle patterning process governing the maintenance of form in the adult hydra. The peptides cause an increase in the rate of foot regeneration following bisection of the body column. Thus both play important signalling roles in patterning processes in cnidaria and maybe in more complex metazoans [].
Probab=22.50 E-value=1.3e+02 Score=18.56 Aligned_cols=25 Identities=28% Similarity=0.417 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 71 VEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 71 vEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
+-.||.-|.-+++.=+-.+.+|-+|
T Consensus 2 L~~EI~~Lq~~~a~Gedv~~~LE~K 26 (35)
T PF08182_consen 2 LCAEIDVLQIQLADGEDVCKELEQK 26 (35)
T ss_pred HHHHHHHHHHHHhcchhHHHHHHHH
Confidence 3567888888888888888887765
No 236
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=22.42 E-value=2.3e+02 Score=26.70 Aligned_cols=45 Identities=24% Similarity=0.347 Sum_probs=32.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
..||.|-|- |-+|=+-|-...-+|.-+-.-|..|++...|||.|+
T Consensus 608 ~sLsaEtri--KldLfsaLg~akrq~ei~~~~~~~~d~ei~~lk~ki 652 (697)
T PF09726_consen 608 NSLSAETRI--KLDLFSALGDAKRQLEIAQGQLRKKDKEIEELKAKI 652 (697)
T ss_pred HhhhHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466766654 336777777777777777777888888888888874
No 237
>KOG2264|consensus
Probab=22.33 E-value=2.1e+02 Score=27.88 Aligned_cols=37 Identities=24% Similarity=0.401 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q psy14379 57 QEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLK 93 (120)
Q Consensus 57 ~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELK 93 (120)
.|..|.||.+|++++---|..|++.+-.|.-.+..||
T Consensus 98 le~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk 134 (907)
T KOG2264|consen 98 LEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALK 134 (907)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 3444557777777776667777766666554444443
No 238
>PF14643 DUF4455: Domain of unknown function (DUF4455)
Probab=22.25 E-value=4.4e+02 Score=23.10 Aligned_cols=56 Identities=20% Similarity=0.322 Sum_probs=35.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchhHHHHHHH
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVWKEFNDDL 108 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l~eLkqni 108 (120)
+|.+|.+.-. +|...|..+-+.|.+..+....+-+..-|-...=...-+..+++.+
T Consensus 236 Pp~~t~~~v~----eW~~~l~~l~~~~d~~~~~~~~~lr~~~E~~~~ec~~~ve~~k~~L 291 (473)
T PF14643_consen 236 PPNLTKEKVE----EWYASLNALNEQIDEYHQQCMEKLRALYEKICQECLALVEKLKQEL 291 (473)
T ss_pred CCCCCHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3678888865 8999999998888776666666655444433333333344444443
No 239
>TIGR02977 phageshock_pspA phage shock protein A. Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.
Probab=22.18 E-value=3.3e+02 Score=21.23 Aligned_cols=22 Identities=23% Similarity=0.376 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHhhhHHHH
Q psy14379 72 EEEINTLKHVLASKTKTAQDLK 93 (120)
Q Consensus 72 EeEI~TLrQVLaAKek~~~ELK 93 (120)
+.++..++..+..=..+..+|+
T Consensus 105 ~~~~~~~~~~v~~l~~~l~~L~ 126 (219)
T TIGR02977 105 ERELAAVEETLAKLQEDIAKLQ 126 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333333
No 240
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=22.18 E-value=65 Score=25.09 Aligned_cols=22 Identities=18% Similarity=0.484 Sum_probs=19.0
Q ss_pred HHHHhhCcchhHHHHHHHhhcc
Q psy14379 91 DLKKKLGFTVWKEFNDDLTQSI 112 (120)
Q Consensus 91 ELKRKLGiT~l~eLkqniskgw 112 (120)
.+=||||+.-+.+||..+.+..
T Consensus 49 Rf~kklG~~Gf~efk~~l~~~~ 70 (278)
T PRK11557 49 KFAQKLGYKGFPALKLALSEAL 70 (278)
T ss_pred HHHHHcCCCCHHHHHHHHHHHh
Confidence 5669999999999999998653
No 241
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=22.17 E-value=3.8e+02 Score=20.81 Aligned_cols=29 Identities=21% Similarity=0.354 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQD 91 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~E 91 (120)
++..++..++.++..|..-+..=..++..
T Consensus 124 ~l~~~i~~L~~e~~~L~~~~~~l~~~~e~ 152 (189)
T PF10211_consen 124 ELEEEIEELEEEKEELEKQVQELKNKCEQ 152 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555555555444444433333333
No 242
>TIGR00135 gatC glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) amidotransferase, C subunit. This model has been revised to remove the candidate sequence from Methanococcus jannaschii, now part of a related model.
Probab=21.90 E-value=1.5e+02 Score=19.98 Aligned_cols=27 Identities=30% Similarity=0.469 Sum_probs=19.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 51 NLSPEEQEKQKAEWTQELARVEEEINTLKHV 81 (120)
Q Consensus 51 ~LseEE~e~~~eELr~EL~KvEeEI~TLrQV 81 (120)
.||++|.+ .+..+|.++-+-+.+|.+|
T Consensus 16 ~l~eee~~----~~~~~l~~il~~~~~L~~v 42 (93)
T TIGR00135 16 ELSEEEAE----SFAGDLDKILGFVEQLNEV 42 (93)
T ss_pred CCCHHHHH----HHHHHHHHHHHHHHHHhcC
Confidence 57888876 7778887777777777554
No 243
>PF07996 T4SS: Type IV secretion system proteins; InterPro: IPR014158 This entry contains VirB5, a protein that is involved in the type IV DNA secretion systems typified by the Agrobacterium Ti plasmid vir system where it interacts with several other proteins essential for proper pilus formation []. VirB5 is homologous to the IncN (N-type) conjugation system protein TraC [] as well as the P-type protein TrbJ and the F-type protein TraE [].; PDB: 1R8I_A.
Probab=21.84 E-value=1.6e+02 Score=21.93 Aligned_cols=25 Identities=24% Similarity=0.502 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 61 KAEWTQELARVEEEINTLKHVLASK 85 (120)
Q Consensus 61 ~eELr~EL~KvEeEI~TLrQVLaAK 85 (120)
-++|..++....+.|.++++.+.+.
T Consensus 21 ~~~~~~q~~q~~~Ql~~~k~q~~s~ 45 (195)
T PF07996_consen 21 LAQWKQQLEQLKQQLQQAKQQYNSL 45 (195)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3588899999999999988888773
No 244
>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function. ; PDB: 4DCI_C.
Probab=21.79 E-value=3.5e+02 Score=20.28 Aligned_cols=55 Identities=11% Similarity=0.258 Sum_probs=30.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchhHHHHHHHh
Q psy14379 51 NLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVWKEFNDDLT 109 (120)
Q Consensus 51 ~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l~eLkqnis 109 (120)
-|||.-++....++...++.++-|.+-|.. -..|..++.++ -++.....+++-++
T Consensus 12 ivTe~~K~~l~~~l~~~i~~~d~el~QLef---q~kr~~~e~~~-~~~~~~~~i~~q~~ 66 (131)
T PF11068_consen 12 IVTEKWKEELLQELQEQIQQLDQELQQLEF---QGKRMIKEIKK-QNAQQIQSIQQQFE 66 (131)
T ss_dssp E--HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHT-TSSHHHHHHHHHHH
T ss_pred EECHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhh-cchhhHHHHHHHHH
Confidence 467777777777888888888877776632 22234444443 23334444444443
No 245
>PRK15482 transcriptional regulator MurR; Provisional
Probab=21.77 E-value=66 Score=25.33 Aligned_cols=21 Identities=24% Similarity=0.330 Sum_probs=17.8
Q ss_pred HHHHhhCcchhHHHHHHHhhc
Q psy14379 91 DLKKKLGFTVWKEFNDDLTQS 111 (120)
Q Consensus 91 ELKRKLGiT~l~eLkqniskg 111 (120)
.+=||||++-+.+||..+.+.
T Consensus 53 Rf~kkLGf~Gf~efk~~l~~~ 73 (285)
T PRK15482 53 KFAQKLGAQGFTELRMALIGE 73 (285)
T ss_pred HHHHHhCCCCHHHHHHHHHHH
Confidence 566999999999999888654
No 246
>PRK09039 hypothetical protein; Validated
Probab=21.70 E-value=2.2e+02 Score=24.08 Aligned_cols=34 Identities=24% Similarity=0.371 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
....||.+++.+|..|-.+|.-...+...|...+
T Consensus 50 ~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l 83 (343)
T PRK09039 50 GKDSALDRLNSQIAELADLLSLERQGNQDLQDSV 83 (343)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 5667788888888888777777666666665544
No 247
>PF00901 Orbi_VP5: Orbivirus outer capsid protein VP5; InterPro: IPR000145 The orbivirus VP5 protein is one of the two proteins (with VP2) which make up the virus particle outer capsid. Cryoelectron microscopy indicates that VP5 is a trimer suggesting that there are 360 copies of VP5 per virion [].; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=21.62 E-value=4.1e+02 Score=24.71 Aligned_cols=52 Identities=21% Similarity=0.287 Sum_probs=35.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchhHHHHHHHhh
Q psy14379 49 LQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVWKEFNDDLTQ 110 (120)
Q Consensus 49 ~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l~eLkqnisk 110 (120)
+.-||+-|+ .++..|..+|+|-.-= ..+++|-..+.+|+| .-|.++++-+..
T Consensus 79 pDPLsPgE~-----~l~~Kl~eLE~e~k~d----~v~~khn~~I~~k~g-~~L~~v~~~~~~ 130 (508)
T PF00901_consen 79 PDPLSPGEQ-----GLQRKLKELEDEQKED----EVREKHNKKIIEKFG-NDLEKVYKFMKG 130 (508)
T ss_pred CCCCCHhHH-----HHHHHHHHHHHHHhhH----HHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence 457999998 6788888888765522 235678888888888 446666554433
No 248
>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=21.52 E-value=1.1e+02 Score=21.20 Aligned_cols=44 Identities=23% Similarity=0.387 Sum_probs=28.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLK 93 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELK 93 (120)
-|..++|-+.--..+..++..+..++..|++-+..-..+..+++
T Consensus 16 rGYd~~eVD~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~ 59 (131)
T PF05103_consen 16 RGYDPDEVDDFLDELAEELERLQRENAELKEEIEELQAQLEELR 59 (131)
T ss_dssp EEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCT-----
T ss_pred CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence 46777777777777777777777777777776666655555554
No 249
>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=21.32 E-value=5.2e+02 Score=22.02 Aligned_cols=48 Identities=17% Similarity=0.270 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchhHHHHHHHhhcchhh
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVWKEFNDDLTQSIKNV 115 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l~eLkqniskgw~dV 115 (120)
.+..||.+.|.++.-+++-+.+=..|+++|+-+ -..|..++...+..|
T Consensus 211 ~~~EeL~~~Eke~~e~~~~i~e~~~rl~~l~~~-----~~~l~k~~~~~~sKV 258 (269)
T PF05278_consen 211 ELEEELKQKEKEVKEIKERITEMKGRLGELEME-----STRLSKTIKSIKSKV 258 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHH
Confidence 445566666667766666655544555555432 124445554444433
No 250
>cd08915 V_Alix_like Protein-interacting V-domain of mammalian Alix and related domains. This superfamily contains the V-shaped (V) domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, and related domains. Alix, HD-PTP, Bro1, and Rim20 all interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP functions in cell migration and endosomal trafficking, Bro1 in endosomal trafficking, and Rim20 in the response to the external pH via the Rim101 pathway. The Alix V-domain contains
Probab=21.26 E-value=4.4e+02 Score=21.61 Aligned_cols=39 Identities=23% Similarity=0.411 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchh
Q psy14379 63 EWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVW 101 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l 101 (120)
+|..-...+++.+....+.|..-+.....++.++|-.-|
T Consensus 81 ~l~~l~~~~~~~l~~~~~~L~~E~~ed~~~R~k~g~~~w 119 (342)
T cd08915 81 ELSKLRQNVEELLQECEELLEEEAAEDDQLRAKFGTLRW 119 (342)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhCcccC
Confidence 444455556777777777888888889999999998555
No 251
>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=21.26 E-value=4.4e+02 Score=21.95 Aligned_cols=39 Identities=33% Similarity=0.436 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 57 QEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 57 ~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
.++.-++.+.+|.++++.+..|+.-+....+....|..+
T Consensus 233 ~~~~L~~~~~~l~~l~~~l~~l~~~~~~~~~e~~~l~~~ 271 (344)
T PF12777_consen 233 AEEQLAEKQAELAELEEKLAALQKEYEEAQKEKQELEEE 271 (344)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455788889999988888887776655555555443
No 252
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=21.22 E-value=68 Score=25.21 Aligned_cols=21 Identities=29% Similarity=0.583 Sum_probs=18.2
Q ss_pred HHHHhhCcchhHHHHHHHhhc
Q psy14379 91 DLKKKLGFTVWKEFNDDLTQS 111 (120)
Q Consensus 91 ELKRKLGiT~l~eLkqniskg 111 (120)
.+=||||++-+.+||..+.+.
T Consensus 65 Rf~kkLGf~gf~efk~~l~~~ 85 (292)
T PRK11337 65 KVAKKLGFSGFRNLRSALEDY 85 (292)
T ss_pred HHHHHcCCCCHHHHHHHHHHH
Confidence 456999999999999999864
No 253
>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=21.07 E-value=3.2e+02 Score=25.43 Aligned_cols=32 Identities=22% Similarity=0.429 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 65 TQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 65 r~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
..+..++..++..|..-|...++.+..|+++.
T Consensus 163 e~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~ 194 (546)
T PF07888_consen 163 EEEVEQLREEVERLEAELEQEEEEMEQLKQQQ 194 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445556667777777777777777553
No 254
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=21.06 E-value=2.7e+02 Score=21.77 Aligned_cols=29 Identities=31% Similarity=0.341 Sum_probs=15.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVL 82 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVL 82 (120)
+.|++..+- .|+.|++-++.+|..|++.|
T Consensus 145 ~~l~~a~~~----~l~ae~~~l~~~~~~le~el 173 (240)
T PF12795_consen 145 SPLSEAQRW----LLQAELAALEAQIEMLEQEL 173 (240)
T ss_pred chhhHHHHH----HHHHHHHHHHHHHHHHHHHH
Confidence 355555443 55666665555555544444
No 255
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=20.88 E-value=71 Score=24.71 Aligned_cols=22 Identities=23% Similarity=0.344 Sum_probs=18.9
Q ss_pred HHHHhhCcchhHHHHHHHhhcc
Q psy14379 91 DLKKKLGFTVWKEFNDDLTQSI 112 (120)
Q Consensus 91 ELKRKLGiT~l~eLkqniskgw 112 (120)
.+=||||+.-+.+||..+.+..
T Consensus 53 Rf~kklG~~gf~e~k~~l~~~~ 74 (284)
T PRK11302 53 RFCRSLDTKGFPDFKLHLAQSL 74 (284)
T ss_pred HHHHHcCCCCHHHHHHHHHHHh
Confidence 5669999999999999988654
No 256
>PF15112 DUF4559: Domain of unknown function (DUF4559)
Probab=20.79 E-value=2.6e+02 Score=24.29 Aligned_cols=104 Identities=17% Similarity=0.166 Sum_probs=48.2
Q ss_pred hhhhhhhhhhhhhhhcccccCcccccccCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH----------HHHHHH
Q psy14379 11 IPKCCLEMQDVLTIIRSFHVVGEEANNLDLSPDSGINDLQNLSPEEQEKQKAEWTQELARVEEE----------INTLKH 80 (120)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~e~gEd~~~~~~~~ds~~~~~~~LseEE~e~~~eELr~EL~KvEeE----------I~TLrQ 80 (120)
|-.--.++.+.++.-..+...++|......+-...+.+.+.+++=|.+..++.|++=+...|+. ++++++
T Consensus 185 ~~~a~~~Ie~ll~~d~~v~~~~~d~~Dg~~~~~~~~~~~~~i~e~e~e~Lke~lqel~~~~e~~~~~~ee~~~~l~~~~~ 264 (307)
T PF15112_consen 185 IVAAGSRIEQLLTSDWAVHIPEEDQRDGCESETDVYLSESQILEIEMELLKEKLQELYLQAEEQEVLPEEDSKRLEVLKE 264 (307)
T ss_pred HHHHHHHHHHHHhhhhhhcCchhhccchhhhccchhhhHHHHHHHHHHHHHHHHHHHHHHHhhccccchhhhHHHHHHHH
Confidence 3344456677776555566666666542222211122334455555554444444333444432 346666
Q ss_pred HHHHHHhhhHHHHHhhCcchhHHHHHHHhhcchhhh
Q psy14379 81 VLASKTKTAQDLKKKLGFTVWKEFNDDLTQSIKNVK 116 (120)
Q Consensus 81 VLaAKek~~~ELKRKLGiT~l~eLkqniskgw~dVq 116 (120)
+|..-.-=..-|+-++ ..|..|...+.+-=.+|.
T Consensus 265 fL~~NkDL~~~l~~e~--qkL~~l~~k~~~~~~~v~ 298 (307)
T PF15112_consen 265 FLRNNKDLRSNLQEEL--QKLDSLQTKHQKLESDVK 298 (307)
T ss_pred HHHhcHHHHHHHHHHH--HHHHHHHHHhcchhhhhh
Confidence 6654422111233333 555666655555444443
No 257
>PF13514 AAA_27: AAA domain
Probab=20.63 E-value=5.4e+02 Score=24.88 Aligned_cols=51 Identities=16% Similarity=0.264 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhCcchhHHHHHHHh
Q psy14379 59 KQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKLGFTVWKEFNDDLT 109 (120)
Q Consensus 59 ~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKLGiT~l~eLkqnis 109 (120)
...+.++.++...++++..+.+-|..-+....+|-+..|.+...+|.+-..
T Consensus 801 ~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~~a~~~~~e~l~~~~~ 851 (1111)
T PF13514_consen 801 EERERLQEQLEELEEELEQAEEELEELEAELAELLEQAGVEDEEELREAEE 851 (1111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHH
Confidence 345577888888899999999999999899999999999998888876543
No 258
>PF08667 BetR: BetR domain; InterPro: IPR013975 CheY-like phosphoacceptor (or receiver [REC]) domain is a common module in a variety of response regulators of the bacterial signal transduction systems. BetR is one of the many response regulators and is encoded mainly in Burkholderia spp. It is a N-terminal helix-turn-helix domain (HTH) and has been shown to be related to the XRE-type HTH domain (IPR001387 from INTERPRO), it has been suggested that BetR would have dimerization, protein-protein interaction, and activation/relief-of-inhibition properties [].
Probab=20.61 E-value=1.1e+02 Score=23.77 Aligned_cols=27 Identities=26% Similarity=0.415 Sum_probs=20.2
Q ss_pred HHHHHHHH----HHHhhhHHHHHhhCcchhH
Q psy14379 76 NTLKHVLA----SKTKTAQDLKKKLGFTVWK 102 (120)
Q Consensus 76 ~TLrQVLa----AKek~~~ELKRKLGiT~l~ 102 (120)
..+|..|. +|.++.++|-+-||||.-+
T Consensus 8 erV~~Ll~~~Gi~kr~~~s~LA~iL~Is~ss 38 (147)
T PF08667_consen 8 ERVRELLDRKGIPKRKHASELADILGISYSS 38 (147)
T ss_pred HHHHHHHHHcCCcchhhHHHHHHHHCCCHHH
Confidence 45666666 5568899999999998743
No 259
>KOG3632|consensus
Probab=20.57 E-value=2.8e+02 Score=28.45 Aligned_cols=55 Identities=15% Similarity=0.064 Sum_probs=42.7
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 42 PDSGINDLQNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 42 ~ds~~~~~~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
++++-+-++.+-+-+.+++-..|.+||.+-.-+|..|-++-..+.+++.+++-.|
T Consensus 144 ~e~v~~~p~~~~~~~~~q~i~~lE~el~~~r~~c~~l~~~a~~~~rr~Ee~e~ql 198 (1335)
T KOG3632|consen 144 PESVCPYPPADVTKVTVQEIKNLETELNFFRTSCINLLEVAESNFRRFEEEESQL 198 (1335)
T ss_pred hhhccCCCccccchHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhhHHHHHHH
Confidence 3444444555555566666678999999999999999999999999999888654
No 260
>KOG3990|consensus
Probab=20.55 E-value=1.4e+02 Score=25.98 Aligned_cols=24 Identities=29% Similarity=0.477 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q psy14379 66 QELARVEEEINTLKHVLASKTKTA 89 (120)
Q Consensus 66 ~EL~KvEeEI~TLrQVLaAKek~~ 89 (120)
.-+++++|||.+|...|.-|....
T Consensus 225 V~i~~lkeeia~Lkk~L~qkdq~i 248 (305)
T KOG3990|consen 225 VKIQKLKEEIARLKKLLHQKDQLI 248 (305)
T ss_pred HHHHHHHHHHHHHHHHHhhhHHHH
Confidence 446677888888887776554433
No 261
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=20.46 E-value=3.1e+02 Score=25.10 Aligned_cols=42 Identities=14% Similarity=0.183 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhh
Q psy14379 55 EEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKKL 96 (120)
Q Consensus 55 EE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRKL 96 (120)
+|.|++-+.||.|+..+...-..+.+.|..++.....|+.++
T Consensus 79 sELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 79 AQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
No 262
>PRK14163 heat shock protein GrpE; Provisional
Probab=20.44 E-value=4.8e+02 Score=21.30 Aligned_cols=21 Identities=19% Similarity=0.200 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy14379 63 EWTQELARVEEEINTLKHVLA 83 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQVLa 83 (120)
+|..+|..+++++..|+.-+.
T Consensus 44 ~l~~~l~~l~~e~~el~d~~l 64 (214)
T PRK14163 44 GLTAQLDQVRTALGERTADLQ 64 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 566667777777766655443
No 263
>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=20.40 E-value=4.2e+02 Score=22.61 Aligned_cols=19 Identities=26% Similarity=0.496 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy14379 63 EWTQELARVEEEINTLKHV 81 (120)
Q Consensus 63 ELr~EL~KvEeEI~TLrQV 81 (120)
.|..++.+++.+|..|..-
T Consensus 246 ~l~~~~~~~~~~i~~l~~~ 264 (406)
T PF02388_consen 246 SLQEKLEKLEKEIEKLEEK 264 (406)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4455555555555444443
No 264
>PRK10780 periplasmic chaperone; Provisional
Probab=20.40 E-value=3.7e+02 Score=19.97 Aligned_cols=21 Identities=24% Similarity=0.351 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy14379 62 AEWTQELARVEEEINTLKHVL 82 (120)
Q Consensus 62 eELr~EL~KvEeEI~TLrQVL 82 (120)
..++.||.+.+.|++.+.+-|
T Consensus 53 ~~~q~el~~~~~elq~~~~~~ 73 (165)
T PRK10780 53 KGRASELQRMETDLQAKMQKL 73 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455566666666666665555
No 265
>PHA00097 K protein K
Probab=20.32 E-value=1.5e+02 Score=19.88 Aligned_cols=38 Identities=26% Similarity=0.413 Sum_probs=27.5
Q ss_pred hhhhhhhhhhhhhhcccccCcccccccCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy14379 12 PKCCLEMQDVLTIIRSFHVVGEEANNLDLSPDSGINDLQNLSPEEQEKQKAEWTQELARVEE 73 (120)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~e~gEd~~~~~~~~ds~~~~~~~LseEE~e~~~eELr~EL~KvEe 73 (120)
||--+-||..+-.+-.++++|==+.| ||++++|+|+|.
T Consensus 3 ~kttli~qelllltyelnrsgllven------------------------eeiqs~lk~le~ 40 (56)
T PHA00097 3 PKTTLILQELLLLTYELNRSGLLVEN------------------------EEIQSQLKKLEK 40 (56)
T ss_pred chhHHHHHHHHHHHHhhccccceecc------------------------HHHHHHHHHHHH
Confidence 66677788888888777776533322 378999999886
No 266
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=20.16 E-value=3e+02 Score=18.78 Aligned_cols=43 Identities=21% Similarity=0.254 Sum_probs=29.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Q psy14379 50 QNLSPEEQEKQKAEWTQELARVEEEINTLKHVLASKTKTAQDLKKK 95 (120)
Q Consensus 50 ~~LseEE~e~~~eELr~EL~KvEeEI~TLrQVLaAKek~~~ELKRK 95 (120)
--.|-++-. +-+...+..++.++..|..-+..+..+...|+..
T Consensus 81 ve~~~~eA~---~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~ 123 (129)
T cd00890 81 VEKSLEEAI---EFLKKRLETLEKQIEKLEKQLEKLQDQITELQEE 123 (129)
T ss_pred EEecHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555543 4677777777888888888888888877777764
Done!