Query 034008
Match_columns 106
No_of_seqs 52 out of 54
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 08:46:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034008.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034008hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00631 G-gamma: GGL domain; 99.7 2.7E-19 5.9E-24 116.0 1.7 68 32-106 1-68 (68)
2 cd00068 GGL G protein gamma su 97.8 4.7E-05 1E-09 48.5 4.5 51 36-88 2-54 (57)
3 smart00224 GGL G protein gamma 97.4 0.00042 9.1E-09 44.9 4.6 41 36-78 2-44 (63)
4 KOG4119 G protein gamma subuni 95.8 0.029 6.4E-07 38.1 5.3 51 34-86 8-60 (71)
5 PRK14011 prefoldin subunit alp 95.5 0.032 7E-07 41.5 5.1 54 30-83 7-60 (144)
6 PRK01203 prefoldin subunit alp 93.9 0.14 3.1E-06 37.9 4.9 54 30-83 4-59 (130)
7 TIGR00293 prefoldin, archaeal 93.3 0.22 4.8E-06 34.5 4.9 52 31-82 4-57 (126)
8 COG1730 GIM5 Predicted prefold 92.0 0.42 9.1E-06 35.9 5.2 54 29-82 9-65 (145)
9 PRK03947 prefoldin subunit alp 91.5 0.59 1.3E-05 33.1 5.3 53 30-82 10-65 (140)
10 PF13863 DUF4200: Domain of un 86.6 2.9 6.4E-05 28.6 5.8 48 28-75 76-123 (126)
11 cd00584 Prefoldin_alpha Prefol 86.4 2.3 5E-05 29.5 5.2 53 30-82 3-58 (129)
12 PF12325 TMF_TATA_bd: TATA ele 84.2 2.1 4.5E-05 31.1 4.3 38 21-58 11-48 (120)
13 PF06305 DUF1049: Protein of u 83.3 2.1 4.6E-05 26.5 3.5 25 28-52 43-67 (68)
14 PF10458 Val_tRNA-synt_C: Valy 80.5 2.9 6.3E-05 26.7 3.5 24 31-54 2-25 (66)
15 PF07334 IFP_35_N: Interferon- 77.3 4.4 9.5E-05 27.9 3.7 24 29-52 3-26 (76)
16 PF07716 bZIP_2: Basic region 75.6 6.4 0.00014 24.1 3.9 27 27-53 19-45 (54)
17 PF07716 bZIP_2: Basic region 72.6 7.6 0.00017 23.8 3.7 24 30-53 29-52 (54)
18 PRK13922 rod shape-determining 71.8 8.5 0.00018 29.9 4.6 54 25-78 68-121 (276)
19 KOG2911 Uncharacterized conser 70.3 11 0.00023 33.4 5.3 51 13-65 220-270 (439)
20 cd00890 Prefoldin Prefoldin is 70.3 19 0.00042 24.3 5.6 45 31-75 4-48 (129)
21 PF04977 DivIC: Septum formati 70.0 9.1 0.0002 23.8 3.7 22 31-52 29-50 (80)
22 PF03962 Mnd1: Mnd1 family; I 69.9 10 0.00022 28.9 4.6 38 23-60 100-137 (188)
23 KOG3048 Molecular chaperone Pr 69.3 14 0.0003 28.6 5.2 52 29-80 16-70 (153)
24 PF06657 Cep57_MT_bd: Centroso 68.9 9.3 0.0002 25.7 3.7 34 12-52 3-36 (79)
25 PF02185 HR1: Hr1 repeat; Int 68.8 14 0.00029 23.6 4.4 32 28-59 35-66 (70)
26 PF04799 Fzo_mitofusin: fzo-li 66.4 11 0.00023 29.4 4.1 34 36-69 123-156 (171)
27 PF04977 DivIC: Septum formati 65.3 20 0.00043 22.3 4.5 27 28-54 19-45 (80)
28 PF00170 bZIP_1: bZIP transcri 63.1 17 0.00038 22.6 4.0 26 28-53 21-46 (64)
29 PF05010 TACC: Transforming ac 62.7 20 0.00044 28.2 5.1 41 30-70 165-206 (207)
30 PF07106 TBPIP: Tat binding pr 62.4 24 0.00053 25.7 5.2 33 28-60 81-113 (169)
31 PF08286 Spc24: Spc24 subunit 62.3 2.9 6.2E-05 29.4 0.3 25 34-58 21-45 (118)
32 PF14282 FlxA: FlxA-like prote 61.7 11 0.00023 26.4 3.1 23 32-54 18-40 (106)
33 PF08286 Spc24: Spc24 subunit 61.6 2.6 5.7E-05 29.5 0.0 27 28-54 8-34 (118)
34 PRK09413 IS2 repressor TnpA; R 61.3 13 0.00028 25.8 3.5 30 31-60 76-105 (121)
35 PF11932 DUF3450: Protein of u 60.9 32 0.00069 26.6 5.8 50 29-79 73-127 (251)
36 PF14389 Lzipper-MIP1: Leucine 60.9 14 0.00031 25.1 3.5 25 29-53 57-81 (88)
37 PF10737 GerPC: Spore germinat 59.9 5.8 0.00013 30.8 1.6 22 35-56 1-22 (176)
38 PF03285 Paralemmin: Paralemmi 59.8 11 0.00025 31.1 3.4 27 32-58 9-35 (278)
39 PF02996 Prefoldin: Prefoldin 59.8 3.7 8E-05 27.7 0.5 43 33-82 3-48 (120)
40 TIGR02209 ftsL_broad cell divi 59.7 19 0.00041 23.0 3.8 23 32-54 37-59 (85)
41 PF04102 SlyX: SlyX; InterPro 59.5 11 0.00024 24.5 2.6 24 30-53 29-52 (69)
42 PRK14127 cell division protein 59.2 15 0.00034 26.4 3.6 26 30-55 41-66 (109)
43 COG5509 Uncharacterized small 58.2 13 0.00029 25.1 2.9 22 33-54 25-46 (65)
44 PF05531 NPV_P10: Nucleopolyhe 57.9 21 0.00044 24.5 3.9 49 31-79 9-68 (75)
45 PF14916 CCDC92: Coiled-coil d 57.5 12 0.00026 24.7 2.5 34 32-65 2-40 (60)
46 PLN03128 DNA topoisomerase 2; 56.9 21 0.00045 34.6 5.0 39 33-71 1095-1133(1135)
47 PHA02592 52 DNA topisomerase I 55.4 27 0.00058 30.4 5.0 37 32-68 401-437 (439)
48 PF04508 Pox_A_type_inc: Viral 55.2 20 0.00043 19.8 2.8 18 34-51 2-19 (23)
49 PRK02793 phi X174 lysis protei 53.9 24 0.00051 23.3 3.6 23 31-53 34-56 (72)
50 KOG0728 26S proteasome regulat 52.6 19 0.00041 31.1 3.6 28 27-54 39-66 (404)
51 PF07820 TraC: TraC-like prote 52.4 16 0.00035 26.0 2.7 21 35-55 4-24 (92)
52 PF04420 CHD5: CHD5-like prote 52.1 16 0.00035 27.0 2.8 28 33-60 66-93 (161)
53 PF12097 DUF3573: Protein of u 51.3 18 0.0004 31.5 3.4 24 32-55 41-64 (383)
54 smart00338 BRLZ basic region l 50.6 37 0.00079 21.1 3.9 27 27-53 20-46 (65)
55 cd04786 HTH_MerR-like_sg7 Heli 50.2 41 0.00089 24.1 4.6 38 35-75 80-117 (131)
56 PRK00295 hypothetical protein; 50.1 31 0.00067 22.5 3.6 22 31-52 31-52 (68)
57 PRK05729 valS valyl-tRNA synth 49.9 19 0.00042 32.9 3.5 26 30-55 808-833 (874)
58 PF13600 DUF4140: N-terminal d 49.6 39 0.00085 22.5 4.2 27 33-59 70-96 (104)
59 TIGR01834 PHA_synth_III_E poly 49.6 27 0.00059 29.5 4.1 34 21-54 284-317 (320)
60 PRK00846 hypothetical protein; 49.4 25 0.00053 24.1 3.2 24 30-53 10-33 (77)
61 PF06698 DUF1192: Protein of u 49.0 56 0.0012 21.4 4.7 29 23-51 18-46 (59)
62 PF04111 APG6: Autophagy prote 48.9 25 0.00055 28.8 3.7 30 28-57 45-74 (314)
63 PF13600 DUF4140: N-terminal d 48.6 32 0.00069 23.0 3.6 29 27-55 71-99 (104)
64 PLN02678 seryl-tRNA synthetase 48.4 47 0.001 28.9 5.4 47 31-83 76-122 (448)
65 PF05615 THOC7: Tho complex su 48.3 79 0.0017 22.3 5.8 46 28-73 83-128 (139)
66 PF14716 HHH_8: Helix-hairpin- 47.9 14 0.00029 23.5 1.6 38 29-66 29-67 (68)
67 TIGR02894 DNA_bind_RsfA transc 47.7 28 0.0006 27.0 3.6 25 30-54 108-132 (161)
68 TIGR02209 ftsL_broad cell divi 47.4 67 0.0014 20.5 4.9 26 29-54 27-52 (85)
69 PF01920 Prefoldin_2: Prefoldi 47.4 33 0.00071 22.3 3.5 19 35-53 64-82 (106)
70 KOG4196 bZIP transcription fac 47.4 75 0.0016 24.2 5.7 25 28-52 76-100 (135)
71 PF00170 bZIP_1: bZIP transcri 46.6 46 0.001 20.7 3.9 20 33-52 33-52 (64)
72 PF02403 Seryl_tRNA_N: Seryl-t 46.4 37 0.0008 22.8 3.7 25 29-53 70-94 (108)
73 PF13863 DUF4200: Domain of un 46.4 37 0.00081 23.1 3.8 24 29-52 84-107 (126)
74 cd00632 Prefoldin_beta Prefold 46.2 32 0.00069 23.4 3.4 18 36-53 66-83 (105)
75 PF11559 ADIP: Afadin- and alp 46.2 35 0.00076 24.3 3.7 26 29-54 62-87 (151)
76 PF04999 FtsL: Cell division p 45.9 41 0.00089 22.3 3.8 24 29-52 38-61 (97)
77 PRK00736 hypothetical protein; 45.8 39 0.00084 22.1 3.6 22 31-52 31-52 (68)
78 PF00521 DNA_topoisoIV: DNA gy 45.6 35 0.00075 28.8 4.1 27 32-58 390-416 (426)
79 cd00187 TOP4c DNA Topoisomeras 45.6 36 0.00078 29.5 4.3 24 33-56 405-428 (445)
80 PF10805 DUF2730: Protein of u 45.5 35 0.00077 23.7 3.6 24 29-52 68-91 (106)
81 PF10152 DUF2360: Predicted co 45.3 27 0.00058 25.7 3.1 29 30-58 25-53 (148)
82 PF10975 DUF2802: Protein of u 45.3 59 0.0013 21.4 4.4 39 32-70 4-42 (70)
83 PRK00888 ftsB cell division pr 45.2 44 0.00096 23.4 4.0 22 33-54 41-62 (105)
84 PF10211 Ax_dynein_light: Axon 45.2 38 0.00082 25.8 3.9 26 27-52 121-146 (189)
85 TIGR01062 parC_Gneg DNA topois 44.9 49 0.0011 30.6 5.2 48 28-75 348-395 (735)
86 PLN02943 aminoacyl-tRNA ligase 44.7 25 0.00054 32.9 3.4 25 31-55 887-911 (958)
87 PF12718 Tropomyosin_1: Tropom 44.6 28 0.00061 25.5 3.1 19 36-54 76-94 (143)
88 PRK02119 hypothetical protein; 44.3 32 0.0007 22.8 3.1 22 33-54 9-30 (73)
89 PHA03386 P10 fibrous body prot 44.0 47 0.001 23.9 4.0 40 31-70 10-53 (94)
90 PF10552 ORF6C: ORF6C domain; 43.5 46 0.001 23.2 3.9 41 31-71 6-47 (116)
91 PRK04325 hypothetical protein; 43.4 43 0.00094 22.2 3.6 13 35-47 39-51 (74)
92 PF02609 Exonuc_VII_S: Exonucl 43.2 31 0.00066 21.1 2.6 43 29-71 6-48 (53)
93 PTZ00108 DNA topoisomerase 2-l 43.0 50 0.0011 32.9 5.3 39 33-71 1102-1140(1388)
94 PF06156 DUF972: Protein of un 42.8 45 0.00098 23.7 3.8 26 28-53 3-28 (107)
95 PRK04406 hypothetical protein; 42.7 44 0.00096 22.3 3.5 14 34-47 40-53 (75)
96 PF08614 ATG16: Autophagy prot 42.6 36 0.00077 25.5 3.4 27 29-55 119-145 (194)
97 KOG4787 Uncharacterized conser 42.4 35 0.00076 32.2 3.9 47 30-76 519-566 (852)
98 PLN03237 DNA topoisomerase 2; 42.4 46 0.00099 33.5 4.9 39 33-71 1126-1164(1465)
99 PTZ00419 valyl-tRNA synthetase 42.1 30 0.00064 32.3 3.5 26 30-55 926-951 (995)
100 TIGR01837 PHA_granule_1 poly(h 41.9 41 0.00088 23.9 3.5 22 33-54 96-117 (118)
101 TIGR02338 gimC_beta prefoldin, 41.9 40 0.00087 23.2 3.4 22 34-55 68-89 (110)
102 COG3937 Uncharacterized conser 41.5 35 0.00076 25.0 3.1 22 29-50 86-107 (108)
103 KOG3478 Prefoldin subunit 6, K 41.5 39 0.00084 25.3 3.4 28 25-52 73-102 (120)
104 PF03285 Paralemmin: Paralemmi 41.4 24 0.00052 29.3 2.5 20 29-48 13-32 (278)
105 KOG4529 Uncharacterized conser 41.3 39 0.00085 29.6 3.9 40 21-63 30-92 (404)
106 PF09849 DUF2076: Uncharacteri 41.3 30 0.00064 28.0 3.0 25 32-56 54-78 (247)
107 KOG4603 TBP-1 interacting prot 41.2 36 0.00078 27.3 3.4 26 29-54 89-114 (201)
108 TIGR00219 mreC rod shape-deter 41.2 71 0.0015 25.7 5.1 52 27-78 67-119 (283)
109 PF14197 Cep57_CLD_2: Centroso 40.8 54 0.0012 21.6 3.7 21 32-52 46-66 (69)
110 PRK00888 ftsB cell division pr 40.7 55 0.0012 22.9 3.9 30 24-53 25-54 (105)
111 TIGR00103 DNA_YbaB_EbfC DNA-bi 40.4 36 0.00079 23.6 3.0 28 29-56 8-35 (102)
112 PF13747 DUF4164: Domain of un 40.1 91 0.002 21.3 4.9 39 29-67 35-74 (89)
113 PF05103 DivIVA: DivIVA protei 39.7 43 0.00094 22.7 3.2 25 30-54 29-53 (131)
114 PLN02381 valyl-tRNA synthetase 39.5 35 0.00075 32.5 3.5 26 30-55 994-1019(1066)
115 TIGR03709 PPK2_rel_1 polyphosp 39.4 81 0.0017 25.6 5.2 47 23-69 23-80 (264)
116 KOG0554 Asparaginyl-tRNA synth 38.9 65 0.0014 28.7 4.9 63 27-92 221-284 (446)
117 PF14389 Lzipper-MIP1: Leucine 38.7 45 0.00097 22.7 3.2 31 32-62 7-37 (88)
118 PF07061 Swi5: Swi5; InterPro 38.7 1E+02 0.0022 21.0 4.9 34 30-63 4-39 (83)
119 PF04880 NUDE_C: NUDE protein, 38.2 12 0.00027 28.7 0.4 29 28-56 26-54 (166)
120 PF04859 DUF641: Plant protein 38.0 52 0.0011 24.4 3.6 25 30-54 98-122 (131)
121 cd01107 HTH_BmrR Helix-Turn-He 38.0 48 0.001 22.6 3.2 22 32-53 81-102 (108)
122 PF14882 GHL12: Hypothetical g 37.8 9.1 0.0002 24.2 -0.3 22 71-92 6-28 (53)
123 PRK09039 hypothetical protein; 37.8 57 0.0012 27.0 4.2 28 29-56 140-167 (343)
124 PF03357 Snf7: Snf7; InterPro 37.6 59 0.0013 22.6 3.7 24 30-53 12-35 (171)
125 KOG3021 Predicted kinase [Gene 37.5 19 0.00041 30.5 1.4 22 22-43 163-184 (313)
126 PF08898 DUF1843: Domain of un 37.5 38 0.00083 22.0 2.5 16 31-46 36-51 (53)
127 PRK05431 seryl-tRNA synthetase 37.4 1.3E+02 0.0027 25.6 6.3 47 31-83 71-117 (425)
128 PF07106 TBPIP: Tat binding pr 36.9 54 0.0012 23.8 3.5 25 30-54 113-137 (169)
129 PLN02320 seryl-tRNA synthetase 36.8 1.1E+02 0.0023 27.3 5.9 49 31-85 135-183 (502)
130 PF09006 Surfac_D-trimer: Lung 36.8 48 0.001 21.0 2.8 31 35-68 1-31 (46)
131 PRK14626 hypothetical protein; 36.6 45 0.00098 23.8 3.0 24 30-53 9-32 (110)
132 TIGR00414 serS seryl-tRNA synt 36.5 93 0.002 26.4 5.3 48 30-83 73-120 (418)
133 TIGR02231 conserved hypothetic 36.3 74 0.0016 27.1 4.8 38 33-70 71-108 (525)
134 PF11853 DUF3373: Protein of u 36.2 33 0.00071 30.6 2.7 19 34-52 32-50 (489)
135 PF14257 DUF4349: Domain of un 35.6 48 0.001 25.6 3.3 24 33-56 162-185 (262)
136 PRK05560 DNA gyrase subunit A; 35.5 96 0.0021 28.7 5.6 47 28-74 351-397 (805)
137 PRK09343 prefoldin subunit bet 35.5 57 0.0012 23.2 3.4 24 33-56 71-94 (121)
138 cd04775 HTH_Cfa-like Helix-Tur 35.3 65 0.0014 21.7 3.5 26 28-53 73-98 (102)
139 PF04912 Dynamitin: Dynamitin 35.2 51 0.0011 27.3 3.5 25 28-52 89-113 (388)
140 PF07412 Geminin: Geminin; In 35.1 77 0.0017 25.3 4.4 37 34-70 133-169 (200)
141 PF08826 DMPK_coil: DMPK coile 35.1 64 0.0014 21.1 3.3 18 35-52 41-58 (61)
142 PF12709 Kinetocho_Slk19: Cent 35.0 64 0.0014 22.7 3.5 26 29-54 45-70 (87)
143 PRK05561 DNA topoisomerase IV 35.0 85 0.0018 28.9 5.2 43 33-75 437-484 (742)
144 PTZ00454 26S protease regulato 35.0 61 0.0013 27.3 4.0 18 35-52 45-62 (398)
145 COG3132 Uncharacterized protei 34.9 71 0.0015 25.9 4.2 24 31-54 190-213 (215)
146 PRK10636 putative ABC transpor 34.9 54 0.0012 28.9 3.8 24 32-55 562-585 (638)
147 COG3879 Uncharacterized protei 34.8 61 0.0013 26.6 3.9 25 29-53 60-84 (247)
148 TIGR00422 valS valyl-tRNA synt 34.7 47 0.001 30.3 3.5 26 29-54 812-837 (861)
149 PF04728 LPP: Lipoprotein leuc 34.2 85 0.0018 20.5 3.8 20 32-51 9-28 (56)
150 PRK00153 hypothetical protein; 34.2 51 0.0011 22.6 2.9 28 29-56 6-33 (104)
151 PF02575 YbaB_DNA_bd: YbaB/Ebf 34.0 61 0.0013 21.1 3.2 25 32-56 1-25 (93)
152 PRK06342 transcription elongat 33.9 1.2E+02 0.0027 22.7 5.1 34 12-45 19-53 (160)
153 PRK14623 hypothetical protein; 33.7 53 0.0011 23.4 3.0 23 31-53 6-28 (106)
154 PF15011 CK2S: Casein Kinase 2 33.2 1.8E+02 0.0039 21.9 5.9 59 19-78 51-112 (168)
155 cd00890 Prefoldin Prefoldin is 33.1 75 0.0016 21.3 3.6 23 32-54 86-108 (129)
156 COG4985 ABC-type phosphate tra 33.0 60 0.0013 27.3 3.6 27 28-54 216-242 (289)
157 PF07047 OPA3: Optic atrophy 3 33.0 69 0.0015 23.1 3.5 20 33-52 112-131 (134)
158 PF09278 MerR-DNA-bind: MerR, 33.0 73 0.0016 19.2 3.2 21 32-52 42-62 (65)
159 PRK05561 DNA topoisomerase IV 32.9 1.1E+02 0.0023 28.3 5.5 47 28-74 361-407 (742)
160 PF14282 FlxA: FlxA-like prote 32.8 70 0.0015 22.3 3.4 20 33-52 51-70 (106)
161 COG1729 Uncharacterized protei 32.8 50 0.0011 27.1 3.0 27 33-59 56-82 (262)
162 cd03351 LbH_UDP-GlcNAc_AT UDP- 32.7 43 0.00093 25.7 2.6 42 30-71 208-249 (254)
163 PF08537 NBP1: Fungal Nap bind 32.6 56 0.0012 27.9 3.4 23 31-53 180-202 (323)
164 PRK13130 H/ACA RNA-protein com 32.5 47 0.001 21.5 2.3 15 21-35 36-50 (56)
165 PRK14127 cell division protein 32.5 73 0.0016 23.0 3.6 24 31-54 35-58 (109)
166 TIGR01061 parC_Gpos DNA topois 32.4 1.1E+02 0.0023 28.3 5.3 47 28-74 348-394 (738)
167 cd07596 BAR_SNX The Bin/Amphip 32.4 1.5E+02 0.0033 21.0 5.2 20 34-53 146-165 (218)
168 TIGR01063 gyrA DNA gyrase, A s 32.4 1.1E+02 0.0024 28.3 5.5 47 28-74 348-394 (800)
169 PF09432 THP2: Tho complex sub 31.9 1E+02 0.0022 23.4 4.4 46 27-72 79-126 (132)
170 PF03885 DUF327: Protein of un 31.9 66 0.0014 23.4 3.3 29 23-51 95-123 (147)
171 TIGR02338 gimC_beta prefoldin, 31.8 99 0.0021 21.2 4.0 27 35-61 26-52 (110)
172 KOG2483 Upstream transcription 31.7 85 0.0018 25.3 4.2 28 29-56 115-142 (232)
173 smart00324 RhoGAP GTPase-activ 31.7 99 0.0021 21.7 4.1 24 57-80 55-78 (174)
174 TIGR02047 CadR-PbrR Cd(II)/Pb( 31.7 75 0.0016 22.3 3.5 25 30-54 83-107 (127)
175 PRK14629 hypothetical protein; 31.6 60 0.0013 22.9 3.0 25 31-55 8-32 (99)
176 PF01920 Prefoldin_2: Prefoldi 31.6 1.1E+02 0.0023 19.9 4.0 22 32-53 4-25 (106)
177 PF04233 Phage_Mu_F: Phage Mu 31.6 45 0.00099 21.8 2.2 37 57-106 76-112 (112)
178 PHA03395 p10 fibrous body prot 31.6 1.1E+02 0.0025 21.6 4.3 48 31-78 9-70 (87)
179 COG2919 Septum formation initi 31.4 73 0.0016 22.5 3.4 36 31-66 62-98 (117)
180 PF02370 M: M protein repeat; 31.2 94 0.002 16.8 3.4 20 34-53 2-21 (21)
181 PF10066 DUF2304: Uncharacteri 31.1 60 0.0013 22.6 2.9 20 29-48 89-108 (115)
182 PF03449 GreA_GreB_N: Transcri 31.1 1E+02 0.0023 20.3 3.9 26 26-51 9-35 (74)
183 PF14193 DUF4315: Domain of un 30.9 91 0.002 21.5 3.7 35 37-71 19-59 (83)
184 PRK00587 hypothetical protein; 30.9 64 0.0014 22.8 3.0 23 31-53 6-28 (99)
185 PF03087 DUF241: Arabidopsis p 30.7 78 0.0017 24.7 3.8 26 27-52 192-217 (231)
186 PF04380 BMFP: Membrane fusoge 30.7 90 0.002 20.7 3.6 24 31-54 55-78 (79)
187 cd01109 HTH_YyaN Helix-Turn-He 30.6 1E+02 0.0022 20.9 3.9 22 31-52 84-105 (113)
188 cd04776 HTH_GnyR Helix-Turn-He 30.5 85 0.0018 21.9 3.6 24 31-54 85-108 (118)
189 PF04156 IncA: IncA protein; 30.4 64 0.0014 23.5 3.0 26 30-55 78-103 (191)
190 PRK10697 DNA-binding transcrip 30.3 1E+02 0.0022 22.5 4.1 25 30-54 78-102 (118)
191 PRK13922 rod shape-determining 30.2 68 0.0015 24.9 3.3 32 33-64 69-100 (276)
192 PRK10227 DNA-binding transcrip 30.2 80 0.0017 22.7 3.5 26 29-54 82-107 (135)
193 PF10779 XhlA: Haemolysin XhlA 30.1 1.5E+02 0.0033 19.0 5.0 39 30-68 3-46 (71)
194 KOG2077 JNK/SAPK-associated pr 30.0 62 0.0014 30.5 3.5 22 30-52 348-369 (832)
195 PF11932 DUF3450: Protein of u 30.0 74 0.0016 24.6 3.5 14 33-46 56-69 (251)
196 COG1722 XseB Exonuclease VII s 29.8 53 0.0012 22.4 2.4 39 34-72 22-60 (81)
197 PF14357 DUF4404: Domain of un 29.8 89 0.0019 21.1 3.5 34 38-71 2-36 (85)
198 PF12709 Kinetocho_Slk19: Cent 29.8 89 0.0019 22.0 3.5 23 29-51 52-74 (87)
199 cd04789 HTH_Cfa Helix-Turn-Hel 29.8 94 0.002 21.0 3.6 24 29-52 74-97 (102)
200 COG1382 GimC Prefoldin, chaper 29.4 97 0.0021 22.8 3.8 24 30-53 81-104 (119)
201 smart00434 TOP4c DNA Topoisome 29.3 55 0.0012 28.2 2.9 26 33-58 415-440 (445)
202 PF05377 FlaC_arch: Flagella a 29.2 1.1E+02 0.0024 19.9 3.6 23 31-53 12-34 (55)
203 PF08618 Opi1: Transcription f 29.2 1.4E+02 0.0031 26.2 5.4 24 31-54 240-263 (427)
204 PRK05771 V-type ATP synthase s 29.0 1.1E+02 0.0025 26.9 4.8 27 28-54 217-243 (646)
205 COG3599 DivIVA Cell division i 28.9 87 0.0019 24.8 3.7 27 29-55 40-66 (212)
206 PF04568 IATP: Mitochondrial A 28.9 1E+02 0.0023 21.9 3.8 18 37-54 80-97 (100)
207 PRK14621 hypothetical protein; 28.8 73 0.0016 22.8 3.0 25 29-53 7-31 (111)
208 PRK14627 hypothetical protein; 28.8 72 0.0016 22.3 2.9 23 31-53 6-28 (100)
209 PRK11637 AmiB activator; Provi 28.6 77 0.0017 26.3 3.6 22 32-53 95-116 (428)
210 PF04102 SlyX: SlyX; InterPro 28.6 89 0.0019 20.2 3.2 42 32-73 3-52 (69)
211 PF05873 Mt_ATP-synt_D: ATP sy 28.4 85 0.0018 23.5 3.5 29 32-60 102-130 (161)
212 COG1382 GimC Prefoldin, chaper 28.4 1.3E+02 0.0028 22.2 4.3 33 31-63 25-57 (119)
213 PRK14622 hypothetical protein; 28.4 80 0.0017 22.2 3.1 25 29-53 4-28 (103)
214 PF11464 Rbsn: Rabenosyn Rab b 28.4 1.1E+02 0.0024 18.9 3.4 23 29-51 18-40 (42)
215 COG0718 Uncharacterized protei 28.3 82 0.0018 22.7 3.2 28 30-57 9-36 (105)
216 TIGR02044 CueR Cu(I)-responsiv 28.2 94 0.002 21.7 3.5 25 30-54 83-107 (127)
217 cd04770 HTH_HMRTR Helix-Turn-H 28.2 96 0.0021 21.2 3.5 20 36-55 82-101 (123)
218 COG2456 Uncharacterized conser 28.2 79 0.0017 23.7 3.2 22 29-50 89-110 (121)
219 PF11855 DUF3375: Protein of u 27.9 74 0.0016 27.4 3.4 22 33-54 144-165 (478)
220 PF07303 Occludin_ELL: Occludi 27.9 1E+02 0.0023 21.5 3.6 26 29-54 25-50 (101)
221 PF04201 TPD52: Tumour protein 27.9 98 0.0021 24.0 3.8 24 28-51 31-54 (162)
222 TIGR00293 prefoldin, archaeal 27.8 1.1E+02 0.0025 20.9 3.8 27 29-55 9-35 (126)
223 PRK13848 conjugal transfer pro 27.6 65 0.0014 23.4 2.6 18 37-54 7-24 (98)
224 PF13864 Enkurin: Calmodulin-b 27.4 1.1E+02 0.0025 20.6 3.7 33 19-54 63-95 (98)
225 PF02097 Filo_VP35: Filovirida 27.4 21 0.00044 30.5 0.0 52 29-85 79-134 (321)
226 PF12017 Tnp_P_element: Transp 27.3 1.7E+02 0.0037 23.4 5.2 26 29-54 14-39 (236)
227 PRK14625 hypothetical protein; 27.3 78 0.0017 22.7 3.0 24 30-53 6-29 (109)
228 PRK00295 hypothetical protein; 27.3 93 0.002 20.3 3.1 25 31-55 3-27 (68)
229 cd01106 HTH_TipAL-Mta Helix-Tu 27.2 1.2E+02 0.0026 20.3 3.7 20 34-53 74-93 (103)
230 cd04769 HTH_MerR2 Helix-Turn-H 27.1 1.2E+02 0.0026 20.8 3.8 25 30-54 83-107 (116)
231 KOG3251 Golgi SNAP receptor co 27.1 1.4E+02 0.003 24.2 4.6 37 35-71 5-44 (213)
232 PF14265 DUF4355: Domain of un 27.0 1.6E+02 0.0035 20.2 4.4 35 30-64 46-80 (125)
233 PF04111 APG6: Autophagy prote 27.0 1E+02 0.0023 25.2 4.0 24 30-53 61-84 (314)
234 PF00521 DNA_topoisoIV: DNA gy 26.6 1.7E+02 0.0037 24.7 5.3 47 28-74 314-360 (426)
235 COG4550 Predicted membrane pro 26.5 1.4E+02 0.003 22.4 4.3 25 34-58 65-89 (120)
236 PF08232 Striatin: Striatin fa 26.4 81 0.0017 22.9 3.0 26 34-59 26-51 (134)
237 PRK09039 hypothetical protein; 26.4 87 0.0019 25.9 3.5 20 31-50 156-175 (343)
238 PF14965 BRI3BP: Negative regu 26.4 84 0.0018 24.8 3.2 19 29-47 155-173 (177)
239 COG0525 ValS Valyl-tRNA synthe 26.3 72 0.0016 30.5 3.3 31 25-55 806-836 (877)
240 PF07028 DUF1319: Protein of u 26.2 96 0.0021 23.3 3.3 23 32-54 59-81 (126)
241 PF10211 Ax_dynein_light: Axon 26.2 1.1E+02 0.0025 23.2 3.9 33 25-57 110-144 (189)
242 PF14735 HAUS4: HAUS augmin-li 26.1 1.1E+02 0.0025 24.5 4.0 32 28-59 180-211 (238)
243 PRK14900 valS valyl-tRNA synth 25.8 72 0.0016 30.3 3.2 26 29-54 845-870 (1052)
244 PF03980 Nnf1: Nnf1 ; InterPr 25.8 1.4E+02 0.003 20.2 3.9 22 30-51 84-105 (109)
245 PF02344 Myc-LZ: Myc leucine z 25.8 1.5E+02 0.0034 17.6 3.9 27 28-54 3-29 (32)
246 PF03148 Tektin: Tektin family 25.6 2E+02 0.0042 24.1 5.4 48 28-75 59-110 (384)
247 TIGR02894 DNA_bind_RsfA transc 25.5 1E+02 0.0022 24.0 3.5 26 30-55 101-126 (161)
248 PF08655 DASH_Ask1: DASH compl 25.5 57 0.0012 21.8 1.9 17 35-51 1-17 (66)
249 cd00159 RhoGAP RhoGAP: GTPase- 25.5 1.5E+02 0.0032 20.2 4.0 38 42-79 31-73 (169)
250 KOG0930 Guanine nucleotide exc 25.4 1.5E+02 0.0032 25.9 4.7 33 30-62 28-60 (395)
251 PF10205 KLRAQ: Predicted coil 25.4 1.1E+02 0.0025 22.0 3.5 18 35-52 35-52 (102)
252 KOG4094 Uncharacterized conser 25.4 1.1E+02 0.0024 24.2 3.7 52 21-72 54-113 (178)
253 cd00089 HR1 Protein kinase C-r 25.4 1.3E+02 0.0028 19.1 3.5 27 29-55 45-71 (72)
254 PF13334 DUF4094: Domain of un 25.3 1E+02 0.0022 21.5 3.2 30 21-50 60-90 (95)
255 PRK11239 hypothetical protein; 25.3 96 0.0021 25.1 3.4 24 31-54 188-211 (215)
256 PF03195 DUF260: Protein of un 25.3 88 0.0019 22.0 2.9 19 34-52 79-97 (101)
257 PF15372 DUF4600: Domain of un 25.3 82 0.0018 23.6 2.9 25 32-56 13-38 (129)
258 TIGR02976 phageshock_pspB phag 25.1 1E+02 0.0022 20.9 3.0 25 31-55 40-64 (75)
259 PF03357 Snf7: Snf7; InterPro 25.0 1.5E+02 0.0033 20.6 4.1 25 29-53 4-28 (171)
260 PF14662 CCDC155: Coiled-coil 25.0 1.2E+02 0.0025 24.3 3.8 26 27-52 82-107 (193)
261 PF13815 Dzip-like_N: Iguana/D 24.9 1.3E+02 0.0029 20.9 3.8 17 35-51 82-98 (118)
262 PRK03992 proteasome-activating 24.8 1.2E+02 0.0026 25.1 4.0 29 29-57 25-53 (389)
263 PF07439 DUF1515: Protein of u 24.7 1.3E+02 0.0028 22.3 3.7 31 31-61 6-36 (112)
264 PF11853 DUF3373: Protein of u 24.6 73 0.0016 28.5 2.9 24 33-57 25-48 (489)
265 PF12795 MscS_porin: Mechanose 24.5 1.6E+02 0.0035 22.6 4.5 37 28-64 152-188 (240)
266 PRK13979 DNA topoisomerase IV 24.3 1.8E+02 0.0039 27.9 5.4 47 28-74 367-413 (957)
267 cd04785 HTH_CadR-PbrR-like Hel 24.3 1.2E+02 0.0026 21.1 3.5 23 31-53 84-106 (126)
268 TIGR03689 pup_AAA proteasome A 24.3 1E+02 0.0023 27.3 3.7 26 28-53 17-42 (512)
269 PF09340 NuA4: Histone acetylt 24.3 1.3E+02 0.0027 20.3 3.4 21 34-54 10-30 (80)
270 cd04772 HTH_TioE_rpt1 First He 24.2 68 0.0015 21.7 2.1 21 33-53 76-96 (99)
271 PRK05771 V-type ATP synthase s 24.2 1E+02 0.0022 27.2 3.6 20 34-53 101-120 (646)
272 PF00633 HHH: Helix-hairpin-he 24.2 48 0.001 18.6 1.2 20 41-60 5-24 (30)
273 PF13747 DUF4164: Domain of un 24.1 1.1E+02 0.0024 20.9 3.2 42 29-70 42-84 (89)
274 PF05679 CHGN: Chondroitin N-a 24.0 1.1E+02 0.0024 26.4 3.8 31 24-54 72-104 (499)
275 PF09311 Rab5-bind: Rabaptin-l 23.8 27 0.00058 26.2 0.1 17 39-55 56-72 (181)
276 PHA02675 ORF104 fusion protein 23.7 97 0.0021 22.2 2.8 26 44-69 34-60 (90)
277 COG3883 Uncharacterized protei 23.2 1.1E+02 0.0024 25.3 3.5 13 37-49 77-89 (265)
278 PRK03762 hypothetical protein; 23.1 1.1E+02 0.0023 21.8 3.0 26 28-53 7-32 (103)
279 cd07637 BAR_ACAP3 The Bin/Amph 23.0 76 0.0016 24.6 2.4 23 33-55 2-24 (200)
280 cd04782 HTH_BltR Helix-Turn-He 22.9 1.1E+02 0.0024 20.4 2.9 22 34-55 75-96 (97)
281 TIGR01061 parC_Gpos DNA topois 22.8 1.8E+02 0.004 26.8 5.1 43 33-75 427-474 (738)
282 cd04392 RhoGAP_ARHGAP19 RhoGAP 22.8 1.6E+02 0.0035 22.4 4.2 23 58-80 61-83 (208)
283 PF10393 Matrilin_ccoil: Trime 22.5 1.8E+02 0.0038 18.2 3.6 25 30-54 20-44 (47)
284 PRK04406 hypothetical protein; 22.5 1.3E+02 0.0028 20.1 3.1 25 31-55 9-33 (75)
285 cd04768 HTH_BmrR-like Helix-Tu 22.4 1.1E+02 0.0025 20.3 2.9 22 34-55 74-95 (96)
286 cd01108 HTH_CueR Helix-Turn-He 22.4 1.4E+02 0.003 20.8 3.5 22 31-52 84-105 (127)
287 smart00150 SPEC Spectrin repea 22.3 1.9E+02 0.0041 17.4 3.9 33 23-55 28-60 (101)
288 cd01282 HTH_MerR-like_sg3 Heli 22.3 1.5E+02 0.0033 20.2 3.6 19 36-54 84-102 (112)
289 TIGR00634 recN DNA repair prot 22.2 1.1E+02 0.0024 26.5 3.5 25 34-58 183-207 (563)
290 PF08700 Vps51: Vps51/Vps67; 22.2 1.8E+02 0.004 18.3 3.8 24 29-52 22-45 (87)
291 cd01878 HflX HflX subfamily. 22.2 1.4E+02 0.0031 21.1 3.6 21 33-53 6-26 (204)
292 PF07047 OPA3: Optic atrophy 3 22.1 1.5E+02 0.0032 21.4 3.6 28 27-54 99-126 (134)
293 PF03234 CDC37_N: Cdc37 N term 22.0 1.3E+02 0.0028 23.2 3.5 27 29-55 134-160 (177)
294 PF02346 Vac_Fusion: Chordopox 22.0 90 0.002 20.3 2.2 28 42-69 3-31 (57)
295 PF15047 DUF4533: Protein of u 21.9 2.2E+02 0.0047 23.4 4.8 42 29-70 181-225 (225)
296 KOG1003 Actin filament-coating 21.9 98 0.0021 25.0 2.9 19 33-51 4-22 (205)
297 PF05064 Nsp1_C: Nsp1-like C-t 21.8 1.1E+02 0.0024 21.5 2.9 45 32-79 63-107 (116)
298 cd04373 RhoGAP_p190 RhoGAP_p19 21.7 1.5E+02 0.0032 22.0 3.7 24 57-80 67-90 (185)
299 PF10359 Fmp27_WPPW: RNA pol I 21.7 1.7E+02 0.0038 25.1 4.5 24 31-54 168-191 (475)
300 PF12761 End3: Actin cytoskele 21.7 1.1E+02 0.0024 24.3 3.1 35 22-56 85-119 (195)
301 PF11083 Streptin-Immun: Lanti 21.7 1.1E+02 0.0024 22.1 2.9 18 34-51 53-70 (99)
302 PF11414 Suppressor_APC: Adeno 21.7 1.1E+02 0.0025 21.0 2.8 39 33-74 7-45 (84)
303 KOG0080 GTPase Rab18, small G 21.6 50 0.0011 26.6 1.2 19 65-83 28-46 (209)
304 PF10018 Med4: Vitamin-D-recep 21.6 1.5E+02 0.0033 22.2 3.8 20 31-50 27-46 (188)
305 PRK10803 tol-pal system protei 21.5 1.2E+02 0.0026 24.0 3.3 17 38-54 59-75 (263)
306 PRK10884 SH3 domain-containing 21.5 1.3E+02 0.0028 23.5 3.5 25 31-55 91-115 (206)
307 PRK13169 DNA replication intia 21.5 1.7E+02 0.0036 21.1 3.8 22 31-52 6-27 (110)
308 PRK14900 valS valyl-tRNA synth 21.4 77 0.0017 30.2 2.5 28 30-57 839-866 (1052)
309 TIGR01242 26Sp45 26S proteasom 21.4 1.5E+02 0.0032 23.9 3.8 28 30-57 17-44 (364)
310 PF14584 DUF4446: Protein of u 21.3 1.4E+02 0.0031 22.3 3.5 29 29-57 49-77 (151)
311 PF00700 Flagellin_C: Bacteria 21.2 2.3E+02 0.0049 17.9 4.0 32 29-60 23-54 (86)
312 PHA02047 phage lambda Rz1-like 21.2 3.4E+02 0.0073 19.8 5.2 43 30-74 38-80 (101)
313 PF00435 Spectrin: Spectrin re 21.2 2E+02 0.0044 17.3 3.8 32 22-53 30-61 (105)
314 cd04787 HTH_HMRTR_unk Helix-Tu 21.2 1.8E+02 0.004 20.4 3.9 24 30-53 83-106 (133)
315 PF06005 DUF904: Protein of un 21.2 2.1E+02 0.0045 19.1 3.9 21 32-52 10-30 (72)
316 PF11068 YlqD: YlqD protein; 21.1 1.8E+02 0.004 21.3 4.0 26 30-55 24-49 (131)
317 PRK14624 hypothetical protein; 21.0 1.2E+02 0.0026 22.0 3.0 24 31-54 11-34 (115)
318 PF09388 SpoOE-like: Spo0E lik 21.0 1.3E+02 0.0028 17.8 2.6 16 37-52 1-16 (45)
319 KOG3000 Microtubule-binding pr 21.0 2E+02 0.0044 24.1 4.7 38 27-64 192-237 (295)
320 PF13887 MRF_C1: Myelin gene r 21.0 1.2E+02 0.0025 18.5 2.4 24 32-55 13-36 (36)
321 PF02050 FliJ: Flagellar FliJ 20.9 2.1E+02 0.0045 18.0 3.8 23 30-52 56-78 (123)
322 PF01486 K-box: K-box region; 20.8 1.5E+02 0.0033 19.9 3.3 37 29-65 15-51 (100)
323 PF12107 VEK-30: Plasminogen ( 20.8 85 0.0018 16.3 1.5 9 33-41 3-11 (17)
324 PF06248 Zw10: Centromere/kine 20.7 2.6E+02 0.0057 24.3 5.4 43 29-71 79-121 (593)
325 PF12644 DUF3782: Protein of u 20.5 2.2E+02 0.0048 17.4 4.4 19 35-53 3-21 (64)
326 COG4026 Uncharacterized protei 20.4 1.2E+02 0.0027 25.5 3.2 18 35-52 172-189 (290)
327 PF12958 DUF3847: Protein of u 20.4 1.7E+02 0.0036 20.4 3.4 20 34-53 16-35 (86)
328 COG1675 TFA1 Transcription ini 20.3 1.1E+02 0.0024 23.7 2.8 23 34-56 150-172 (176)
329 PF01166 TSC22: TSC-22/dip/bun 20.2 1.2E+02 0.0025 20.3 2.5 22 34-55 15-36 (59)
330 PF05008 V-SNARE: Vesicle tran 20.2 2.3E+02 0.0049 17.8 3.9 24 27-50 55-78 (79)
331 PF09726 Macoilin: Transmembra 20.1 1.4E+02 0.0031 27.5 3.8 24 31-54 550-573 (697)
332 PF15070 GOLGA2L5: Putative go 20.0 2.6E+02 0.0056 25.5 5.4 37 29-65 83-120 (617)
No 1
>PF00631 G-gamma: GGL domain; InterPro: IPR015898 This entry represents the G protein gamma subunit and the GGL (G protein gamma-like) domain, which are related in sequence and are comprised of an extended alpha-helical polypeptide. The G protein gamma subunit forms a stable dimer with the beta subunit, but it does not make any contact with the alpha subunit, which contacts the opposite face of the beta subunit. The GGL domain is found in several RGS (regulators of G protein signaling) proteins. GGL domains can interact with beta subunits to form novel dimers that prevent gamma subunit binding, and may prevent heterotrimer formation by inhibiting alpha subunit binding. The interaction between G protein beta-5 neuro-specific isoforms and RGS GGL domains may represent a general mode of binding between beta-propeller proteins and their partners [].; GO: 0004871 signal transducer activity, 0007186 G-protein coupled receptor protein signaling pathway, 0005834 heterotrimeric G-protein complex; PDB: 3PSC_G 3SN6_G 1OMW_G 2BCJ_G 1GG2_G 3PVW_G 3PVU_G 3AH8_G 3CIK_G 1GP2_G ....
Probab=99.75 E-value=2.7e-19 Score=115.97 Aligned_cols=68 Identities=43% Similarity=0.850 Sum_probs=53.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCCCccccCCCCCchhHHhhhCCCCCCCcccccC
Q 034008 32 QAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDPLLPITNGPLNPLWDRWFERPKESRGCRCWIL 106 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t~gp~n~sWdRWfegp~~s~~c~cwil 106 (106)
++++.+|.+||.+|++||+. +++ +||.||++|++|+++.+|||||...||.+.+|..|+++ ++| ||||
T Consensus 1 ~~~~~~l~~ei~~L~~el~~-~r~-~vS~a~~~li~y~~~~~DPll~~~~~p~~~~~NPw~~~----~~~-C~il 68 (68)
T PF00631_consen 1 KQEKDQLKREIEQLRQELER-ERI-KVSKACKELIEYCESTPDPLLPGPWGPPSSSSNPWIEK----DGC-CWIL 68 (68)
T ss_dssp -THHHHHHHHHHHHHHHHTS------HHHHHHHHHHHHHGTC-HHHHT--SS--GGGSTTCC-----STH-HHHH
T ss_pred ChHHHHHHHHHHHHHHHHcc-cce-eHHHHHHHHHHHhcCCCCceeCCCCCCCCccCCCCcCC----CCC-eeeC
Confidence 36788999999999999999 999 99999999999999999999999999999999999999 667 9985
No 2
>cd00068 GGL G protein gamma subunit-like motifs, the alpha-helical G-gamma chain dimerizes with the G-beta propeller subunit as part of the heterotrimeric G-protein complex; involved in signal transduction via G-protein-coupled receptors
Probab=97.78 E-value=4.7e-05 Score=48.49 Aligned_cols=51 Identities=35% Similarity=0.446 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcC--CCCCccccCCCCCchh
Q 034008 36 KRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAI--PDPLLPITNGPLNPLW 88 (106)
Q Consensus 36 ~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~--pDPLLP~t~gp~n~sW 88 (106)
+.+.+++.+|..||.- .--++|.||.+++.|++.. .||||+-..++.|+..
T Consensus 2 ~~~~~~veqLr~el~~--~RikvS~a~~~l~~y~e~~~~~Dpll~g~~~~~NP~~ 54 (57)
T cd00068 2 DQLKKEVEQLRKELSR--ERLKVSKAAAELLKYCEQNAENDPLLTGPPSPSNPWI 54 (57)
T ss_pred HHHHHHHHHHHHHHCC--chhhHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Confidence 4677888888888765 3668999999999999999 9999987776667643
No 3
>smart00224 GGL G protein gamma subunit-like motifs.
Probab=97.36 E-value=0.00042 Score=44.92 Aligned_cols=41 Identities=39% Similarity=0.480 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhh--cCCCCCcc
Q 034008 36 KRLEQETRFLEEELEQLDKTEKASAACNETLRNVE--AIPDPLLP 78 (106)
Q Consensus 36 ~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ve--s~pDPLLP 78 (106)
+.+.+++.+|+.||+- .--++|.||.+++.|++ ..-||||.
T Consensus 2 ~~~~~~ve~Lr~el~~--~RikvS~a~~~li~y~e~~~~~DP~l~ 44 (63)
T smart00224 2 DQLRKEVEQLRKELSR--ERIKVSKAAEELLAYCEQHAEEDPLLT 44 (63)
T ss_pred hHHHHHHHHHHHHHCC--ceehHHHHHHHHHHHHHcCCCCCCCcC
Confidence 5678889999988875 36689999999999999 45566664
No 4
>KOG4119 consensus G protein gamma subunit [Signal transduction mechanisms]
Probab=95.81 E-value=0.029 Score=38.15 Aligned_cols=51 Identities=29% Similarity=0.311 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCC--CCCccccCCCCCc
Q 034008 34 ELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIP--DPLLPITNGPLNP 86 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~p--DPLLP~t~gp~n~ 86 (106)
++.++..++..|..|+.. | -.++|.+|+|+.+|+|... |||+-.-...+|+
T Consensus 8 ~~~q~k~~VeqLk~e~~~-~-R~~vS~a~~el~~y~E~~~~~DpLl~gv~~~~NP 60 (71)
T KOG4119|consen 8 KKPQMKKEVEQLKLEANI-E-RIKVSKAAAELLEYCETHATEDPLLEGVPEKENP 60 (71)
T ss_pred chHHHHHHHHHHHHHHHh-h-HhhHHHHHHHHHHHHHhcCccCccccCCccccCC
Confidence 455666777777777653 3 6789999999999999988 9998665555665
No 5
>PRK14011 prefoldin subunit alpha; Provisional
Probab=95.52 E-value=0.032 Score=41.51 Aligned_cols=54 Identities=20% Similarity=0.311 Sum_probs=48.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCCCccccCCC
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDPLLPITNGP 83 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t~gp 83 (106)
.++.+|+.+.+||..|+.+|..|.....=-..|+|.+..+....+=|+|+|.|-
T Consensus 7 ~~~~~l~~~~~qie~L~~si~~L~~a~~e~~~~ie~L~~l~~~~eiLVPLg~s~ 60 (144)
T PRK14011 7 NQFMALEVYNQQVQKLQEELSSIDMMKMELLKSIESMEGLKTSEEILIPLGPGA 60 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCeEEEEcCCCc
Confidence 567899999999999999999999888777899999998888888899998763
No 6
>PRK01203 prefoldin subunit alpha; Provisional
Probab=93.87 E-value=0.14 Score=37.95 Aligned_cols=54 Identities=20% Similarity=0.289 Sum_probs=44.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhh--cCCCCCccccCCC
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVE--AIPDPLLPITNGP 83 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ve--s~pDPLLP~t~gp 83 (106)
-+.++++.|++||..|+++|+.|.....=-..|.|.+.... ...+=|+|.|.|-
T Consensus 4 ~~~~~~~~~~~q~e~l~~ql~~L~~a~se~~~~ie~L~~~~~~~~~eiLVPLg~sl 59 (130)
T PRK01203 4 DVEAQLNYIESLISSVDSQIDSLNKTLSEVQQTISFLSDNELDNSKELLISIGSGI 59 (130)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCeEEEEccCCc
Confidence 45789999999999999999999988777778888888764 4566788988763
No 7
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=93.30 E-value=0.22 Score=34.48 Aligned_cols=52 Identities=25% Similarity=0.410 Sum_probs=42.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcC--CCCCccccCC
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAI--PDPLLPITNG 82 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~--pDPLLP~t~g 82 (106)
+++.+++|.+++..|+..+.+|+..-+--..+++++.++... .+=|+|++.|
T Consensus 4 l~~q~~ql~~~i~~l~~~i~~l~~~i~e~~~~~~~L~~l~~~~~~~~lv~lg~~ 57 (126)
T TIGR00293 4 LAAELQILQQQVESLQAQIAALRALIAELETAIETLEDLKGAEGKETLVPVGAG 57 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCeEEEEcCCC
Confidence 567888899999999999999888888888889999999876 3346787665
No 8
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=92.01 E-value=0.42 Score=35.92 Aligned_cols=54 Identities=22% Similarity=0.390 Sum_probs=47.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCC---CCCccccCC
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIP---DPLLPITNG 82 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~p---DPLLP~t~g 82 (106)
.++.|+++.|+++|..|+-++..|+..-.-=+-|++-++++.+.. -=|+|+..|
T Consensus 9 e~l~a~lq~l~~qie~L~~~i~~l~~~~~e~~~~~~tl~~lk~~~~g~E~LVpvGag 65 (145)
T COG1730 9 EELAAQLQILQSQIESLQAQIAALNAAISELQTAIETLENLKGAGEGKEVLVPVGAG 65 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEcCCC
Confidence 468899999999999999999999999988899999999998876 457777655
No 9
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=91.53 E-value=0.59 Score=33.08 Aligned_cols=53 Identities=26% Similarity=0.485 Sum_probs=42.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcC---CCCCccccCC
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAI---PDPLLPITNG 82 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~---pDPLLP~t~g 82 (106)
.+++.++.|.++|..|+..+..|+..-+--..+++.+.++... .+=|+|++.+
T Consensus 10 ~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~e~l~~l~~~~~~~e~lvplg~~ 65 (140)
T PRK03947 10 ELAAQLQALQAQIEALQQQLEELQASINELDTAKETLEELKSKGEGKETLVPIGAG 65 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCeEEEEcCCC
Confidence 5677889999999999999999999888888999999998853 3345666644
No 10
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=86.62 E-value=2.9 Score=28.62 Aligned_cols=48 Identities=25% Similarity=0.315 Sum_probs=38.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCC
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDP 75 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDP 75 (106)
+....++|..|..+|..|+.+...++..=.-...|++++..|-...+.
T Consensus 76 ~~~k~~ei~~l~~~l~~l~~~~~k~e~~l~~~~~Y~~fL~~v~~~~~e 123 (126)
T PF13863_consen 76 KEEKEAEIKKLKAELEELKSEISKLEEKLEEYKKYEEFLEKVVPKSPE 123 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccC
Confidence 445677888888888888888888888877778999999988766554
No 11
>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=86.36 E-value=2.3 Score=29.49 Aligned_cols=53 Identities=28% Similarity=0.459 Sum_probs=41.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhc---CCCCCccccCC
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEA---IPDPLLPITNG 82 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves---~pDPLLP~t~g 82 (106)
-+++.++.|.++|..|+.++..|...-.--..+++.+..+.. ..+=|+|++.|
T Consensus 3 ~l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~lvplg~~ 58 (129)
T cd00584 3 QLAAQLQVLQQEIEELQQELARLNEAIAEYEQAKETLETLKKADEGKETLVPLGAG 58 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCC
Confidence 356788889999999999999988888888888888888864 33456777654
No 12
>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=84.22 E-value=2.1 Score=31.12 Aligned_cols=38 Identities=34% Similarity=0.502 Sum_probs=33.2
Q ss_pred CCCCcchhhhhHHHHHHHHHHHHHHHHHHHHhhcchhH
Q 034008 21 GSGDTRGKHRIQAELKRLEQETRFLEEELEQLDKTEKA 58 (106)
Q Consensus 21 ~~~d~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~a 58 (106)
+.|..----|+++.|.+++-|+..|++||..|+.....
T Consensus 11 ~~~~~~~ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~ 48 (120)
T PF12325_consen 11 GGPSVQLVERLQSQLRRLEGELASLQEELARLEAERDE 48 (120)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677778899999999999999999999999876544
No 13
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=83.30 E-value=2.1 Score=26.54 Aligned_cols=25 Identities=44% Similarity=0.721 Sum_probs=21.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~L 52 (106)
..|...+++++++++.-+|.|+++|
T Consensus 43 ~~~~r~~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 43 RLRLRRRIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4567778999999999999998875
No 14
>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=80.49 E-value=2.9 Score=26.72 Aligned_cols=24 Identities=50% Similarity=0.808 Sum_probs=20.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+.+|+.+|+.++.-++.++..+++
T Consensus 2 ~~~E~~rL~Kel~kl~~~i~~~~~ 25 (66)
T PF10458_consen 2 VEAEIERLEKELEKLEKEIERLEK 25 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467899999999999999888775
No 15
>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=77.28 E-value=4.4 Score=27.92 Aligned_cols=24 Identities=50% Similarity=0.594 Sum_probs=20.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~L 52 (106)
|-|+-|-.+|.+||.-||.||+++
T Consensus 3 ~ei~eEn~~Lk~eiqkle~ELq~~ 26 (76)
T PF07334_consen 3 HEIQEENARLKEEIQKLEAELQQN 26 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567888899999999999998884
No 16
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is 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: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=75.63 E-value=6.4 Score=24.10 Aligned_cols=27 Identities=44% Similarity=0.503 Sum_probs=19.8
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
.+.|..+.+..|++++.+|+.|...|.
T Consensus 19 ~R~rkk~~~~~le~~~~~L~~en~~L~ 45 (54)
T PF07716_consen 19 SRQRKKQREEELEQEVQELEEENEQLR 45 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667777788888888887777774
No 17
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is 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: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=72.56 E-value=7.6 Score=23.77 Aligned_cols=24 Identities=33% Similarity=0.627 Sum_probs=19.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE 53 (106)
-+..+|+.|+.+...|+.++..|+
T Consensus 29 ~le~~~~~L~~en~~L~~~i~~L~ 52 (54)
T PF07716_consen 29 ELEQEVQELEEENEQLRQEIAQLE 52 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 356788889999999999888876
No 18
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=71.81 E-value=8.5 Score=29.90 Aligned_cols=54 Identities=22% Similarity=0.268 Sum_probs=42.8
Q ss_pred cchhhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCCCcc
Q 034008 25 TRGKHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDPLLP 78 (106)
Q Consensus 25 ~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP 78 (106)
+.....+.+|.++|.+|+..|+.++.+++.+..-..-.++++.+....+-.+++
T Consensus 68 ~~~~~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~~~~~~~~~i~ 121 (276)
T PRK13922 68 LASLFDLREENEELKKELLELESRLQELEQLEAENARLRELLNLKESLDYQFIT 121 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccCCCceEE
Confidence 344567888899999999999999999988888888889999888776534444
No 19
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.32 E-value=11 Score=33.37 Aligned_cols=51 Identities=18% Similarity=0.187 Sum_probs=35.7
Q ss_pred CCCCCCCCCCCCcchhhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHH
Q 034008 13 TQRTQSLTGSGDTRGKHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNET 65 (106)
Q Consensus 13 ~~rp~S~~~~~d~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv 65 (106)
.+++.+.+-.---++-|-++...+.|.++|.||++|++.... .+-.|||+-
T Consensus 220 i~~~~~~~it~~D~~V~~L~~~~~~L~kqie~L~qeie~~~~--~~r~~~k~g 270 (439)
T KOG2911|consen 220 IPSQDASIITEIDGSVADLIQARAKLAKQIEFLEQEIEKSKE--KLRQALKEG 270 (439)
T ss_pred CCcccccCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhc
Confidence 344444433334467888999999999999999999998753 333677663
No 20
>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=70.30 E-value=19 Score=24.27 Aligned_cols=45 Identities=22% Similarity=0.401 Sum_probs=33.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCC
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDP 75 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDP 75 (106)
+.+.++.|+++|..|+..+..|+..-.--..+++.+..+....+.
T Consensus 4 l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~ 48 (129)
T cd00890 4 LAAQLQQLQQQLEALQQQLQKLEAQLTEYEKAKETLETLKKAEEE 48 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCC
Confidence 456778888888888888888877777777778888887755444
No 21
>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=70.05 E-value=9.1 Score=23.84 Aligned_cols=22 Identities=41% Similarity=0.678 Sum_probs=11.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHh
Q 034008 31 IQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~L 52 (106)
++.+++.|.+|+..|++|++.|
T Consensus 29 l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 29 LQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3444445555555555555555
No 22
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=69.90 E-value=10 Score=28.94 Aligned_cols=38 Identities=21% Similarity=0.417 Sum_probs=32.4
Q ss_pred CCcchhhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHH
Q 034008 23 GDTRGKHRIQAELKRLEQETRFLEEELEQLDKTEKASA 60 (106)
Q Consensus 23 ~d~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~ 60 (106)
.+.-.|..++++++.|+.++..|+.||+.+...+|...
T Consensus 100 ~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i 137 (188)
T PF03962_consen 100 EESEEREELLEELEELKKELKELKKELEKYSENDPEKI 137 (188)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHH
Confidence 34478889999999999999999999998877777654
No 23
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=69.28 E-value=14 Score=28.60 Aligned_cols=52 Identities=27% Similarity=0.443 Sum_probs=41.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCC---CCcccc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPD---PLLPIT 80 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD---PLLP~t 80 (106)
--+-+=.++++||+.||++-|..|-|.+---+.|++-+.-|..+++ -|+|.|
T Consensus 16 eQL~~lk~q~dqEl~~lq~Sl~~L~~aq~k~~~~~~aln~~~~~~eGk~~LVPLT 70 (153)
T KOG3048|consen 16 EQLGALKKQFDQELNFLQDSLNALKGAQTKYEESIAALNDVQAANEGKKLLVPLT 70 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCeEEEecc
Confidence 3445567899999999999999999999888889988887766655 355554
No 24
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=68.90 E-value=9.3 Score=25.75 Aligned_cols=34 Identities=26% Similarity=0.365 Sum_probs=17.7
Q ss_pred CCCCCCCCCCCCCcchhhhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 12 NTQRTQSLTGSGDTRGKHRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 12 ~~~rp~S~~~~~d~~GkhR~~ael~~LeqEi~fLeeEL~~L 52 (106)
.+.||.++|+ .-+..=|+.|+-|+..|.-|+.+|
T Consensus 3 ~t~r~s~~p~-------~~Ls~vl~~LqDE~~hm~~e~~~L 36 (79)
T PF06657_consen 3 PTSRPSQSPG-------EALSEVLKALQDEFGHMKMEHQEL 36 (79)
T ss_pred CCCCCCCCHH-------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555543 233444556666666555555554
No 25
>PF02185 HR1: Hr1 repeat; InterPro: IPR000861 The HR1 repeat was first described as a three times repeated homology region of the N-terminal non-catalytic part of protein kinase PRK1(PKN) []. The first two of these repeats were later shown to bind the small G protein rho [, ] known to activate PKN in its GTP-bound form. Similar rho-binding domains also occur in a number of other protein kinases and in the rho-binding proteins rhophilin and rhotekin. Recently, the structure of the N-terminal HR1 repeat complexed with RhoA has been determined by X-ray crystallography []. It forms an antiparallel coiled-coil fold termed an ACC finger. This entry includes domains found within rho-associated protein kinases.; GO: 0007165 signal transduction, 0005622 intracellular; PDB: 1CXZ_B 3O0Z_C 2RMK_B 1URF_A.
Probab=68.81 E-value=14 Score=23.59 Aligned_cols=32 Identities=25% Similarity=0.439 Sum_probs=26.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHH
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKAS 59 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS 59 (106)
+.+.+.+|...++.|.+|+++|+.+......+
T Consensus 35 ~~~~~~~l~~s~~kI~~L~~~L~~l~~~~~~~ 66 (70)
T PF02185_consen 35 LSEAESQLRESNQKIELLREQLEKLQQRSQNS 66 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCCHH--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCC
Confidence 56778889999999999999999998776654
No 26
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=66.44 E-value=11 Score=29.37 Aligned_cols=34 Identities=24% Similarity=0.388 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhh
Q 034008 36 KRLEQETRFLEEELEQLDKTEKASAACNETLRNV 69 (106)
Q Consensus 36 ~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~V 69 (106)
+.|+.||.-|+.|++.||+++.-+...+.=..++
T Consensus 123 ~eL~~eI~~L~~~i~~le~~~~~~k~LrnKa~~L 156 (171)
T PF04799_consen 123 NELEDEIKQLEKEIQRLEEIQSKSKTLRNKANWL 156 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5688999999999999999998888766444333
No 27
>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=65.30 E-value=20 Score=22.29 Aligned_cols=27 Identities=26% Similarity=0.391 Sum_probs=20.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
..++.++++.|++++.-|++|.++|+.
T Consensus 19 ~~~~~~ei~~l~~~i~~l~~e~~~L~~ 45 (80)
T PF04977_consen 19 YYQLNQEIAELQKEIEELKKENEELKE 45 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 446677888888888888888887753
No 28
>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=63.10 E-value=17 Score=22.63 Aligned_cols=26 Identities=31% Similarity=0.446 Sum_probs=19.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
+.|..+.++.|+.++..|+.|...|.
T Consensus 21 R~RKk~~~~~Le~~~~~L~~en~~L~ 46 (64)
T PF00170_consen 21 RQRKKQYIEELEEKVEELESENEELK 46 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 45667777888888877777777665
No 29
>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules. The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].
Probab=62.72 E-value=20 Score=28.24 Aligned_cols=41 Identities=37% Similarity=0.520 Sum_probs=32.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcc-hhHHHHHHHHHhhhh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKT-EKASAACNETLRNVE 70 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~-~~aS~~CkEv~~~Ve 70 (106)
.++|.|++.+=.+..|++.|++-..= +.-.+.|-||+.-|+
T Consensus 165 aLqa~lkk~e~~~~SLe~~LeQK~kEn~ELtkICDeLI~k~~ 206 (207)
T PF05010_consen 165 ALQASLKKEEMKVQSLEESLEQKTKENEELTKICDELISKMG 206 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 46788888888888888888876654 667889999998775
No 30
>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=62.44 E-value=24 Score=25.66 Aligned_cols=33 Identities=27% Similarity=0.409 Sum_probs=25.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHH
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKASA 60 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~ 60 (106)
.-.++.++..|+++++-|+.||..|.......-
T Consensus 81 i~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~e 113 (169)
T PF07106_consen 81 IKELREELAELKKEVKSLEAELASLSSEPTNEE 113 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHH
Confidence 445677788888888888888888888775543
No 31
>PF08286 Spc24: Spc24 subunit of Ndc80; InterPro: IPR013252 Spc24 is a component of the evolutionarily conserved kinetochore-associated Ndc80 complex and is involved in chromosome segregation [].; PDB: 2VE7_D 2FV4_B 2FTX_B.
Probab=62.34 E-value=2.9 Score=29.35 Aligned_cols=25 Identities=44% Similarity=0.598 Sum_probs=1.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhcchhH
Q 034008 34 ELKRLEQETRFLEEELEQLDKTEKA 58 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~~~a 58 (106)
+|.+|+.|+..|+++|.+||.....
T Consensus 21 ~l~~l~~el~~L~~~l~eLe~~~~~ 45 (118)
T PF08286_consen 21 ELESLQSELEELKEELEELEEQEVE 45 (118)
T ss_dssp ----------------------HT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 4444444555555555555555544
No 32
>PF14282 FlxA: FlxA-like protein
Probab=61.65 E-value=11 Score=26.35 Aligned_cols=23 Identities=22% Similarity=0.609 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q 034008 32 QAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
...|..|+++|.-|+++|++|..
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~ 40 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQ 40 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc
Confidence 67899999999999999999976
No 33
>PF08286 Spc24: Spc24 subunit of Ndc80; InterPro: IPR013252 Spc24 is a component of the evolutionarily conserved kinetochore-associated Ndc80 complex and is involved in chromosome segregation [].; PDB: 2VE7_D 2FV4_B 2FTX_B.
Probab=61.60 E-value=2.6 Score=29.53 Aligned_cols=27 Identities=44% Similarity=0.613 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
|-++..+++.||++|.+|+-||..|-.
T Consensus 8 k~~laK~~~~LE~~l~~l~~el~~L~~ 34 (118)
T PF08286_consen 8 KFRLAKELSDLESELESLQSELEELKE 34 (118)
T ss_dssp ---------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457788899999999999998887743
No 34
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=61.29 E-value=13 Score=25.85 Aligned_cols=30 Identities=17% Similarity=0.072 Sum_probs=21.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcchhHHH
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKTEKASA 60 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~ 60 (106)
..+++.+|++++.-|+.|.+-|.+.-...+
T Consensus 76 ~~~ei~~L~~el~~L~~E~diLKKa~~~~~ 105 (121)
T PRK09413 76 AMKQIKELQRLLGKKTMENELLKEAVEYGR 105 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 567788888888888888876665554444
No 35
>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=60.92 E-value=32 Score=26.63 Aligned_cols=50 Identities=26% Similarity=0.335 Sum_probs=33.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcchhH-----HHHHHHHHhhhhcCCCCCccc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTEKA-----SAACNETLRNVEAIPDPLLPI 79 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~~a-----S~~CkEv~~~Ves~pDPLLP~ 79 (106)
.++...++.++++|.-|++++++++++..- -....++-.||+.-. ||+..
T Consensus 73 ~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~~v~~d~-Pf~~~ 127 (251)
T PF11932_consen 73 EQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDELEQFVELDL-PFLLE 127 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CCChH
Confidence 355666777777777777777777755432 237788888888653 66654
No 36
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=60.87 E-value=14 Score=25.12 Aligned_cols=25 Identities=28% Similarity=0.321 Sum_probs=21.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
.-+.++|..||-||..||..+.+|-
T Consensus 57 keLL~EIA~lE~eV~~LE~~v~~L~ 81 (88)
T PF14389_consen 57 KELLEEIALLEAEVAKLEQKVLSLY 81 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678899999999999998888774
No 37
>PF10737 GerPC: Spore germination protein GerPC; InterPro: IPR019673 GerPC is required for the formation of functionally normal spores. The gerP locus encodes a number of proteins which are thought to be involved in the establishment of normal spore coat structure and/or permeability, which allows the access of germinants to their receptor [].
Probab=59.93 E-value=5.8 Score=30.81 Aligned_cols=22 Identities=41% Similarity=0.634 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHhhcch
Q 034008 35 LKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~LE~~~ 56 (106)
|++||+.+..|++||++|..-.
T Consensus 1 I~~LE~~~~~l~~e~~~Lk~~p 22 (176)
T PF10737_consen 1 IQRLEQRLQELQQELEELKQQP 22 (176)
T ss_pred ChHHHHHHHHHHHHHHHHHhCC
Confidence 4678888888888888876543
No 38
>PF03285 Paralemmin: Paralemmin; InterPro: IPR004965 Paralemmin was identified in the chicken lens as a protein with a molecular weight of 65 kDa (isoform 1) and a splice variant of 60 kDa (isoform 2). Isoform 2 is predominant during infancy and levels of isoform 1 increase with age. Paralemmin is localised to the plasma membrane of fibre cells, and was not detected in the annular pad cells. Its localisation to the short side of the fibre cell and the sites of fibre cell interlocking suggests that paralemmin may play a role in the development of such interdigitating processes []. Palmitoylation is important for localising these proteins to the filopodia of dendritic cells where they have been implicated in the regulation of membrane dynamics and process outgrowth. ; GO: 0008360 regulation of cell shape, 0016020 membrane
Probab=59.84 E-value=11 Score=31.15 Aligned_cols=27 Identities=30% Similarity=0.479 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcchhH
Q 034008 32 QAELKRLEQETRFLEEELEQLDKTEKA 58 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~~~a 58 (106)
+++.+.||.-|.-||.||+.||+-..+
T Consensus 9 EqKtR~LEesI~RLEkEIe~LE~~es~ 35 (278)
T PF03285_consen 9 EQKTRSLEESIHRLEKEIEALENGESQ 35 (278)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence 456677777777777788877775433
No 39
>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=59.83 E-value=3.7 Score=27.74 Aligned_cols=43 Identities=33% Similarity=0.587 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhh---cCCCCCccccCC
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVE---AIPDPLLPITNG 82 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ve---s~pDPLLP~t~g 82 (106)
++++.|++++.+|++.+.+++.+ ++.+.... ...+-|+|++.|
T Consensus 3 ~~l~~l~~~~~~l~~~~~e~~~~-------~~~l~~l~~~~~~~~~lvplg~~ 48 (120)
T PF02996_consen 3 EELENLQQQIEQLEEQIEEYEEA-------KETLEELKKEKKEHEILVPLGSG 48 (120)
T ss_dssp CCCHHHHHHHHHHHHHHHHHHHH-------HHHHHHHTT--TT-EEEEEECTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhccCCCceeeecCCCC
Confidence 45677788888888777776543 33333332 234455666654
No 40
>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=59.75 E-value=19 Score=23.05 Aligned_cols=23 Identities=35% Similarity=0.520 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q 034008 32 QAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+.+++.++.|.+-|+.|+..|-.
T Consensus 37 ~~~~~~l~~en~~L~~ei~~l~~ 59 (85)
T TIGR02209 37 QLEIDKLQKEWRDLQLEVAELSR 59 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcC
Confidence 33444444444444444444444
No 41
>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=59.54 E-value=11 Score=24.46 Aligned_cols=24 Identities=33% Similarity=0.637 Sum_probs=11.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE 53 (106)
+.+.+|.+|+++++.|.+.|++++
T Consensus 29 ~Qq~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 29 EQQRQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345566666666666666665554
No 42
>PRK14127 cell division protein GpsB; Provisional
Probab=59.18 E-value=15 Score=26.44 Aligned_cols=26 Identities=31% Similarity=0.510 Sum_probs=17.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
.+.+++..|..|+..|+++|.+++.-
T Consensus 41 ~l~~e~~~Lk~e~~~l~~~l~e~~~~ 66 (109)
T PRK14127 41 AFQKEIEELQQENARLKAQVDELTKQ 66 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34566777777777777777777663
No 43
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=58.18 E-value=13 Score=25.13 Aligned_cols=22 Identities=27% Similarity=0.495 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 034008 33 AELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~ 54 (106)
.-|..|++-|..||+|++.|+-
T Consensus 25 lsV~El~eRIalLq~EIeRlkA 46 (65)
T COG5509 25 LSVAELEERIALLQAEIERLKA 46 (65)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 3467888999999999888863
No 44
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=57.91 E-value=21 Score=24.54 Aligned_cols=49 Identities=22% Similarity=0.357 Sum_probs=39.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhc-----------chhHHHHHHHHHhhhhcCCCCCccc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDK-----------TEKASAACNETLRNVEAIPDPLLPI 79 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~-----------~~~aS~~CkEv~~~Ves~pDPLLP~ 79 (106)
|.+.|+.+++.+.-||..++.|+. ++..++....|...|.++.|=|-|-
T Consensus 9 Ir~dIk~vd~KVdaLq~~V~~l~~~~~~v~~l~~klDa~~~~l~~l~~~V~~I~~iL~~~ 68 (75)
T PF05531_consen 9 IRQDIKAVDDKVDALQTQVDDLESNLPDVTELNKKLDAQSAQLTTLNTKVNEIQDILNPD 68 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 567888888888888888888776 6777888888888888887777653
No 45
>PF14916 CCDC92: Coiled-coil domain of unknown function
Probab=57.51 E-value=12 Score=24.72 Aligned_cols=34 Identities=21% Similarity=0.316 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH-hhcchh----HHHHHHHH
Q 034008 32 QAELKRLEQETRFLEEELEQ-LDKTEK----ASAACNET 65 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~-LE~~~~----aS~~CkEv 65 (106)
...|+.+++-|.|||+|=.. |.|++. --+-|+|+
T Consensus 2 ~~qv~s~e~~i~FLq~eH~~tL~~LH~EIe~Lq~~~~dL 40 (60)
T PF14916_consen 2 EQQVQSLEKSILFLQQEHAQTLKGLHAEIERLQKRNKDL 40 (60)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 45788999999999988543 444443 23467774
No 46
>PLN03128 DNA topoisomerase 2; Provisional
Probab=56.93 E-value=21 Score=34.60 Aligned_cols=39 Identities=26% Similarity=0.184 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhc
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEA 71 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 71 (106)
.++.+|.+|+.-+++||+.|+++.+..-=.+||..|.+.
T Consensus 1095 e~~~kL~~e~~~~~~ei~~l~~~t~~~~w~~DLd~~~~~ 1133 (1135)
T PLN03128 1095 EKVDELRAERAKKETEVEELKKTTPEDLWRKDLDAFEEA 1133 (1135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence 388999999999999999999999999999999998764
No 47
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=55.35 E-value=27 Score=30.37 Aligned_cols=37 Identities=24% Similarity=0.215 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhh
Q 034008 32 QAELKRLEQETRFLEEELEQLDKTEKASAACNETLRN 68 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~ 68 (106)
..++.+|++|+.-|++|++.|+.+.+..---+||.+|
T Consensus 401 ~~e~~kL~~e~~~l~~ei~~l~~~t~~~~w~~DL~~~ 437 (439)
T PHA02592 401 SDEREKLQKEAEELEKEHEYWKKTTAKKEYIKDLEEL 437 (439)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 3578899999999999999999998877777777665
No 48
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=55.18 E-value=20 Score=19.80 Aligned_cols=18 Identities=33% Similarity=0.514 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 034008 34 ELKRLEQETRFLEEELEQ 51 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~ 51 (106)
|+++|-..|+-||-+|..
T Consensus 2 E~~rlr~rI~dLer~L~~ 19 (23)
T PF04508_consen 2 EMNRLRNRISDLERQLSE 19 (23)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 678888888888888764
No 49
>PRK02793 phi X174 lysis protein; Provisional
Probab=53.94 E-value=24 Score=23.34 Aligned_cols=23 Identities=26% Similarity=0.452 Sum_probs=12.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh
Q 034008 31 IQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE 53 (106)
.+.+|.+|.++++.|-+.|++++
T Consensus 34 Qq~~I~~L~~~l~~L~~rl~~~~ 56 (72)
T PRK02793 34 HEMEMAKLRDHLRLLTEKLKASQ 56 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Confidence 44455555555555555555543
No 50
>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]
Probab=52.63 E-value=19 Score=31.15 Aligned_cols=28 Identities=32% Similarity=0.544 Sum_probs=24.8
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
.-+|++|+-+.||..++||.|||+.|.-
T Consensus 39 nlrrleaqrneln~kvr~lreel~~lqe 66 (404)
T KOG0728|consen 39 NLRRLEAQRNELNAKVRLLREELQLLQE 66 (404)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHhc
Confidence 3479999999999999999999999864
No 51
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=52.44 E-value=16 Score=26.04 Aligned_cols=21 Identities=24% Similarity=0.419 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHhhcc
Q 034008 35 LKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~LE~~ 55 (106)
+..|+.||.-|+|+|+++|+-
T Consensus 4 ~s~I~~eIekLqe~lk~~e~k 24 (92)
T PF07820_consen 4 SSKIREEIEKLQEQLKQAETK 24 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 467889999999999988753
No 52
>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=52.13 E-value=16 Score=27.03 Aligned_cols=28 Identities=36% Similarity=0.488 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchhHHH
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEKASA 60 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~aS~ 60 (106)
|+=.+|+|++.-|++||+++.+...+.+
T Consensus 66 AkwaKl~Rk~~kl~~el~~~~~~~~~~~ 93 (161)
T PF04420_consen 66 AKWAKLNRKLDKLEEELEKLNKSLSSEK 93 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445688888889999988877665544
No 53
>PF12097 DUF3573: Protein of unknown function (DUF3573); InterPro: IPR021956 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 372 to 530 amino acids in length.
Probab=51.35 E-value=18 Score=31.46 Aligned_cols=24 Identities=29% Similarity=0.559 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 32 QAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
+-+|..|.+||+.||.||++|+..
T Consensus 41 ~~~i~~Lq~QI~~Lq~ei~~l~~~ 64 (383)
T PF12097_consen 41 QQEISELQKQIQQLQAEINQLEEQ 64 (383)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456888999999999999999877
No 54
>smart00338 BRLZ basic region leucin zipper.
Probab=50.60 E-value=37 Score=21.15 Aligned_cols=27 Identities=37% Similarity=0.543 Sum_probs=18.5
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
.+-|..+.++.|+.++..|+.|-..|.
T Consensus 20 ~R~rKk~~~~~Le~~~~~L~~en~~L~ 46 (65)
T smart00338 20 SRERKKAEIEELERKVEQLEAENERLK 46 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566677777777777777766664
No 55
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=50.19 E-value=41 Score=24.09 Aligned_cols=38 Identities=21% Similarity=0.231 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCC
Q 034008 35 LKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDP 75 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDP 75 (106)
+..|++++.-|++++++|..+... +.++++.++.++++
T Consensus 80 ~~~l~~k~~~i~~~i~~L~~~~~~---L~~~i~~~~~~~~~ 117 (131)
T cd04786 80 LAALERKVADIEALEARLAQNKAQ---LLVLIDLIESKPDE 117 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhcCCCC
Confidence 445666666676666666665533 56677777766663
No 56
>PRK00295 hypothetical protein; Provisional
Probab=50.12 E-value=31 Score=22.53 Aligned_cols=22 Identities=23% Similarity=0.285 Sum_probs=10.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHh
Q 034008 31 IQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~L 52 (106)
.+.+|.+|.++++.|-+.|+++
T Consensus 31 Qq~~I~~L~~ql~~L~~rl~~~ 52 (68)
T PRK00295 31 QQRVIERLQLQMAALIKRQEEM 52 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3444455555555554444443
No 57
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=49.85 E-value=19 Score=32.93 Aligned_cols=26 Identities=46% Similarity=0.698 Sum_probs=22.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
-..+|+++|+.++..||.||+.+++.
T Consensus 808 d~~~e~~rL~K~l~kl~~ei~~~~~k 833 (874)
T PRK05729 808 DVEAELARLEKELAKLEKEIERVEKK 833 (874)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37789999999999999999988865
No 58
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=49.65 E-value=39 Score=22.51 Aligned_cols=27 Identities=44% Similarity=0.535 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchhHH
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEKAS 59 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~aS 59 (106)
.+++.|+++|..|++++..++.--.+-
T Consensus 70 ~~~~~l~~~l~~l~~~~~~~~~~~~~~ 96 (104)
T PF13600_consen 70 PELKELEEELEALEDELAALQDEIQAL 96 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 366666666666666666665544433
No 59
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=49.65 E-value=27 Score=29.48 Aligned_cols=34 Identities=15% Similarity=0.268 Sum_probs=27.1
Q ss_pred CCCCcchhhhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 21 GSGDTRGKHRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 21 ~~~d~~GkhR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+.|.-..-+-++..|..|+++++-|+.||.+|++
T Consensus 284 nlPTRsElDe~~krL~ELrR~vr~L~k~l~~l~~ 317 (320)
T TIGR01834 284 NLPTRSELDEAHQRIQQLRREVKSLKKRLGDLEA 317 (320)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3444455566777999999999999999999986
No 60
>PRK00846 hypothetical protein; Provisional
Probab=49.45 E-value=25 Score=24.09 Aligned_cols=24 Identities=33% Similarity=0.511 Sum_probs=11.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE 53 (106)
-+.+.|..||-.+.|.++=+++|.
T Consensus 10 ~le~Ri~~LE~rlAfQe~tIe~LN 33 (77)
T PRK00846 10 ALEARLVELETRLSFQEQALTELS 33 (77)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555554444443
No 61
>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=49.00 E-value=56 Score=21.38 Aligned_cols=29 Identities=17% Similarity=0.182 Sum_probs=20.5
Q ss_pred CCcchhhhhHHHHHHHHHHHHHHHHHHHH
Q 034008 23 GDTRGKHRIQAELKRLEQETRFLEEELEQ 51 (106)
Q Consensus 23 ~d~~GkhR~~ael~~LeqEi~fLeeEL~~ 51 (106)
=+.++-.=+...|..|+.||.-++.++..
T Consensus 18 Ls~lSv~EL~~RIa~L~aEI~R~~~~~~~ 46 (59)
T PF06698_consen 18 LSLLSVEELEERIALLEAEIARLEAAIAK 46 (59)
T ss_pred chhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36667677777777777777777777654
No 62
>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=48.91 E-value=25 Score=28.76 Aligned_cols=30 Identities=40% Similarity=0.581 Sum_probs=22.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchh
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEK 57 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~ 57 (106)
...+..+++.|++|...|.+||+.||.-..
T Consensus 45 ~~~~~~el~~le~Ee~~l~~eL~~LE~e~~ 74 (314)
T PF04111_consen 45 IEELEEELEKLEQEEEELLQELEELEKERE 74 (314)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355677888888888888888888876543
No 63
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=48.62 E-value=32 Score=22.96 Aligned_cols=29 Identities=28% Similarity=0.476 Sum_probs=23.9
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
=-..+.++|+.|++++..++.+++-++..
T Consensus 71 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~~ 99 (104)
T PF13600_consen 71 ELKELEEELEALEDELAALQDEIQALEAQ 99 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678889999999999999999887653
No 64
>PLN02678 seryl-tRNA synthetase
Probab=48.43 E-value=47 Score=28.87 Aligned_cols=47 Identities=23% Similarity=0.373 Sum_probs=33.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCCCccccCCC
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDPLLPITNGP 83 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t~gp 83 (106)
+.++++.|..||.-|++++++++. --.+++..+-..++|-.|+-...
T Consensus 76 l~~~~~~Lk~ei~~le~~~~~~~~------~l~~~~~~iPNi~~~~VP~G~de 122 (448)
T PLN02678 76 LIAETKELKKEITEKEAEVQEAKA------ALDAKLKTIGNLVHDSVPVSNDE 122 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHhCCCCCCccCCCCCCc
Confidence 455666666666666666666553 34578888999999999987544
No 65
>PF05615 THOC7: Tho complex subunit 7; InterPro: IPR008501 The Tho complex (THOC) is involved in transcription elongation and mRNA export from the nucleus []. This entry represents the subunit THOC7, which is found in higher eukaryotes, and the non-homologous subunit Mft1p found in yeast. The funtions of these subunits are unknown, and it is not known if these subunits are functionally equivalent.
Probab=48.29 E-value=79 Score=22.29 Aligned_cols=46 Identities=20% Similarity=0.408 Sum_probs=32.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCC
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIP 73 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~p 73 (106)
+.+|..+++.+..+|.-|+.+|..--.+-.--.-|-++...+.+.|
T Consensus 83 ~~~i~~~i~~~k~~ie~lk~~L~~ak~~r~~k~eyd~La~~I~~~p 128 (139)
T PF05615_consen 83 NEEIEQEIEQAKKEIEELKEELEEAKRVRQNKEEYDALAKKINSQP 128 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 3567778888888888888888776666555556666666666654
No 66
>PF14716 HHH_8: Helix-hairpin-helix domain; PDB: 2W9M_A 1HUZ_A 1HUO_A 2BPG_B 2BPF_A 1DK3_A 1BPE_A 1BNO_A 1BNP_A 1DK2_A ....
Probab=47.87 E-value=14 Score=23.46 Aligned_cols=38 Identities=32% Similarity=0.312 Sum_probs=27.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcchhHHH-HHHHHH
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTEKASA-ACNETL 66 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~-~CkEv~ 66 (106)
+|-.+.|..|...|..+++.+++|.|+++..+ ...|++
T Consensus 29 ~~Aa~~i~~l~~~i~~~~~~~~~l~gIG~~ia~kI~E~l 67 (68)
T PF14716_consen 29 RRAAAAIKALPYPITSGEEDLKKLPGIGKSIAKKIDEIL 67 (68)
T ss_dssp HHHHHHHHHSSS-HHSHHHHHCTSTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHhCCHhHhhHHHHHhhCCCCCHHHHHHHHHHH
Confidence 45556788889999999655999999997665 344443
No 67
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=47.74 E-value=28 Score=27.02 Aligned_cols=25 Identities=32% Similarity=0.530 Sum_probs=16.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
++..++..|.+++..|+.|++.|+.
T Consensus 108 ~l~~e~~~l~~~~e~Le~e~~~L~~ 132 (161)
T TIGR02894 108 RLKNQNESLQKRNEELEKELEKLRQ 132 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445666677777777777777655
No 68
>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=47.41 E-value=67 Score=20.48 Aligned_cols=26 Identities=27% Similarity=0.443 Sum_probs=20.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+...++++.+++++..+++|-++|.-
T Consensus 27 ~~~~~~~~~~~~~~~~l~~en~~L~~ 52 (85)
T TIGR02209 27 RQLNNELQKLQLEIDKLQKEWRDLQL 52 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677888899999999888888764
No 69
>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=47.38 E-value=33 Score=22.33 Aligned_cols=19 Identities=32% Similarity=0.618 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 034008 35 LKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~LE 53 (106)
+..|+.++..++.+++.|+
T Consensus 64 ~~~L~~~~~~~~~~i~~l~ 82 (106)
T PF01920_consen 64 IEELEERIEKLEKEIKKLE 82 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444443
No 70
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=47.37 E-value=75 Score=24.20 Aligned_cols=25 Identities=36% Similarity=0.501 Sum_probs=15.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~L 52 (106)
||-+.++-.+|.||+.-|.+|+.++
T Consensus 76 k~eLE~~k~~L~qqv~~L~~e~s~~ 100 (135)
T KOG4196|consen 76 KHELEKEKAELQQQVEKLKEENSRL 100 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555556666666666666665443
No 71
>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=46.61 E-value=46 Score=20.68 Aligned_cols=20 Identities=45% Similarity=0.622 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 034008 33 AELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~L 52 (106)
.++..|+.+..-|..++..|
T Consensus 33 ~~~~~L~~en~~L~~~~~~L 52 (64)
T PF00170_consen 33 EKVEELESENEELKKELEQL 52 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444433
No 72
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=46.40 E-value=37 Score=22.80 Aligned_cols=25 Identities=40% Similarity=0.690 Sum_probs=17.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
-.+.++++.|..+|.-|+++++.+|
T Consensus 70 ~~l~~e~~~lk~~i~~le~~~~~~e 94 (108)
T PF02403_consen 70 EELKAEVKELKEEIKELEEQLKELE 94 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466677777777777777777665
No 73
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=46.39 E-value=37 Score=23.10 Aligned_cols=24 Identities=42% Similarity=0.636 Sum_probs=15.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~L 52 (106)
.++.++|..|..+|..+++.|+.+
T Consensus 84 ~~l~~~l~~l~~~~~k~e~~l~~~ 107 (126)
T PF13863_consen 84 KKLKAELEELKSEISKLEEKLEEY 107 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666677777777777666654
No 74
>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=46.24 E-value=32 Score=23.39 Aligned_cols=18 Identities=17% Similarity=0.388 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 034008 36 KRLEQETRFLEEELEQLD 53 (106)
Q Consensus 36 ~~LeqEi~fLeeEL~~LE 53 (106)
..|+..+.+|+.+++.|+
T Consensus 66 ~~Le~~~e~le~~i~~l~ 83 (105)
T cd00632 66 TELKERLETIELRIKRLE 83 (105)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444444444433
No 75
>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=46.18 E-value=35 Score=24.32 Aligned_cols=26 Identities=31% Similarity=0.739 Sum_probs=15.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
|++.+++.+|+..+.-|++.++.+|.
T Consensus 62 ~~l~~d~~~l~~~~~rL~~~~~~~er 87 (151)
T PF11559_consen 62 RRLRSDIERLQNDVERLKEQLEELER 87 (151)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 45556666666666666666665553
No 76
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=45.90 E-value=41 Score=22.27 Aligned_cols=24 Identities=42% Similarity=0.541 Sum_probs=16.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~L 52 (106)
+....+++++++|+..|++|-+.|
T Consensus 38 ~~~~~~l~~l~~~~~~l~~e~~~L 61 (97)
T PF04999_consen 38 RQLFYELQQLEKEIDQLQEENERL 61 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345567777778877777775544
No 77
>PRK00736 hypothetical protein; Provisional
Probab=45.79 E-value=39 Score=22.06 Aligned_cols=22 Identities=14% Similarity=0.194 Sum_probs=10.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHh
Q 034008 31 IQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~L 52 (106)
.+.+|..|.++++.|-+.|+++
T Consensus 31 Qq~~i~~L~~ql~~L~~rl~~~ 52 (68)
T PRK00736 31 QWKTVEQMRKKLDALTERFLSL 52 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3444455555555555444443
No 78
>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=45.64 E-value=35 Score=28.78 Aligned_cols=27 Identities=33% Similarity=0.578 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcchhH
Q 034008 32 QAELKRLEQETRFLEEELEQLDKTEKA 58 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~~~a 58 (106)
..+++.|.+|+..|++||+.|+.+-+.
T Consensus 390 ~~e~~kL~~e~~~l~~ei~~l~~~~~~ 416 (426)
T PF00521_consen 390 KEEIEKLQKEIKELEKEIEELEKILPK 416 (426)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 368899999999999999999988776
No 79
>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=45.56 E-value=36 Score=29.50 Aligned_cols=24 Identities=38% Similarity=0.458 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcch
Q 034008 33 AELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~ 56 (106)
.++..|++|+.-|++|+++|+.+-
T Consensus 405 ~e~~kL~~E~~~l~~ei~~l~~~l 428 (445)
T cd00187 405 LEREKLLKELKELEAEIEDLEKIL 428 (445)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467889999999999999999887
No 80
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=45.46 E-value=35 Score=23.74 Aligned_cols=24 Identities=33% Similarity=0.462 Sum_probs=14.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~L 52 (106)
|+++.+|..++-+++-|...|+.+
T Consensus 68 ~~L~l~l~el~G~~~~l~~~l~~v 91 (106)
T PF10805_consen 68 HDLQLELAELRGELKELSARLQGV 91 (106)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHH
Confidence 556666666666666666655544
No 81
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=45.35 E-value=27 Score=25.71 Aligned_cols=29 Identities=28% Similarity=0.446 Sum_probs=24.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhH
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKA 58 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~a 58 (106)
++--.|++||..+.+||-.|.++.|++.+
T Consensus 25 ~~e~~Lq~~E~~l~iLEaKL~SIpgLe~v 53 (148)
T PF10152_consen 25 DMEQRLQRLEATLNILEAKLSSIPGLEDV 53 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccccccc
Confidence 45567999999999999999999887655
No 82
>PF10975 DUF2802: Protein of unknown function (DUF2802); InterPro: IPR021244 This bacterial family of proteins has no known function.
Probab=45.26 E-value=59 Score=21.41 Aligned_cols=39 Identities=26% Similarity=0.427 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhh
Q 034008 32 QAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVE 70 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ve 70 (106)
--+|..|++.+.-|++.+++++.-++.+..=..-+.-|.
T Consensus 4 g~~l~~l~~~l~~l~~~~~~~~~~d~~~~~Y~~A~klv~ 42 (70)
T PF10975_consen 4 GQRLAELEQQLKQLEDQQEELEQRDPDSPLYSQAIKLVR 42 (70)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHcCCCCcchHHHHHHHHH
Confidence 347889999999999999999988877654444444443
No 83
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=45.24 E-value=44 Score=23.38 Aligned_cols=22 Identities=18% Similarity=0.237 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 034008 33 AELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~ 54 (106)
++++.|+++...|++|++.|..
T Consensus 41 ~e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 41 QTNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHhhC
Confidence 3344555555566666666654
No 84
>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=45.16 E-value=38 Score=25.83 Aligned_cols=26 Identities=35% Similarity=0.681 Sum_probs=14.6
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~L 52 (106)
|+..+..+|+.|+.++..|+.++..|
T Consensus 121 ~~~~l~~~i~~L~~e~~~L~~~~~~l 146 (189)
T PF10211_consen 121 GKQELEEEIEELEEEKEELEKQVQEL 146 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555566666666665555544
No 85
>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=44.88 E-value=49 Score=30.65 Aligned_cols=48 Identities=17% Similarity=0.198 Sum_probs=44.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCC
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDP 75 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDP 75 (106)
.||+..=.++++-.+.-+++.|+-|||+-.|-...-||+..+-+..||
T Consensus 348 ~~R~~~~~rR~~~~l~k~~~rl~il~Gl~ia~~~iDevI~iIR~s~~~ 395 (735)
T TIGR01062 348 VFRRNTVIRRLTYRLNKVLQRLHILEGLRIAFLNIDEVIEIIREEDEP 395 (735)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcChhh
Confidence 799999999999999999999999999999999999999999888776
No 86
>PLN02943 aminoacyl-tRNA ligase
Probab=44.65 E-value=25 Score=32.89 Aligned_cols=25 Identities=28% Similarity=0.438 Sum_probs=21.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
..+|+++|+.|+..||.||+.+++.
T Consensus 887 ~~~E~~rL~K~l~klekei~~~~~k 911 (958)
T PLN02943 887 ISAEVERLSKRLSKMQTEYDALAAR 911 (958)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788999999999999998888764
No 87
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=44.55 E-value=28 Score=25.53 Aligned_cols=19 Identities=42% Similarity=0.723 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHhhc
Q 034008 36 KRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 36 ~~LeqEi~fLeeEL~~LE~ 54 (106)
..|++-|..||+||+..++
T Consensus 76 E~l~rriq~LEeele~ae~ 94 (143)
T PF12718_consen 76 EQLNRRIQLLEEELEEAEK 94 (143)
T ss_pred HHHHhhHHHHHHHHHHHHH
Confidence 3899999999999988764
No 88
>PRK02119 hypothetical protein; Provisional
Probab=44.29 E-value=32 Score=22.80 Aligned_cols=22 Identities=32% Similarity=0.510 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 034008 33 AELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+.|..||-.+.|+|+-+++|..
T Consensus 9 ~Ri~~LE~rla~QE~tie~LN~ 30 (73)
T PRK02119 9 NRIAELEMKIAFQENLLEELNQ 30 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555544443
No 89
>PHA03386 P10 fibrous body protein; Provisional
Probab=43.99 E-value=47 Score=23.88 Aligned_cols=40 Identities=18% Similarity=0.247 Sum_probs=27.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh----cchhHHHHHHHHHhhhh
Q 034008 31 IQAELKRLEQETRFLEEELEQLD----KTEKASAACNETLRNVE 70 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE----~~~~aS~~CkEv~~~Ve 70 (106)
|.++|+.++..+.-||.-++.|+ +++.-+.-.-++...|.
T Consensus 10 Ir~dIkavd~KVdaLQ~qV~dv~~n~~~LDa~~~qL~~l~tkV~ 53 (94)
T PHA03386 10 ILDAVQEVDTKVDALQTQLNGLEEDSQPLDGLPAQLTELDTKVS 53 (94)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHhcchhhhhHHHHHHHHHHHHH
Confidence 56788888888888888877776 35555555555555554
No 90
>PF10552 ORF6C: ORF6C domain; InterPro: IPR018878 This entry represents the carboxy-terminal domain from ORF6 (Q9B012 from SWISSPROT), an antirepressor protein from Lactococcus phage bIL285 [].
Probab=43.46 E-value=46 Score=23.16 Aligned_cols=41 Identities=10% Similarity=0.208 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcchhHHH-HHHHHHhhhhc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKTEKASA-ACNETLRNVEA 71 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~-~CkEv~~~Ves 71 (106)
++.++.+++++|.-++..++.|+.-.+.+. -|++|-.-|.+
T Consensus 6 ~~~~~~~~~~ki~~ve~~V~~l~~~~~i~~~q~~~i~~~v~~ 47 (116)
T PF10552_consen 6 LMQATEEHNEKIEEVENRVDDLEENMPIDPGQQKEIQKAVKS 47 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence 456788999999999999999976555444 56666554443
No 91
>PRK04325 hypothetical protein; Provisional
Probab=43.37 E-value=43 Score=22.18 Aligned_cols=13 Identities=31% Similarity=0.460 Sum_probs=4.8
Q ss_pred HHHHHHHHHHHHH
Q 034008 35 LKRLEQETRFLEE 47 (106)
Q Consensus 35 l~~LeqEi~fLee 47 (106)
|.+|.++++.|-+
T Consensus 39 I~~L~~ql~~L~~ 51 (74)
T PRK04325 39 LDLLQAQLRLLYQ 51 (74)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 92
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=43.19 E-value=31 Score=21.15 Aligned_cols=43 Identities=23% Similarity=0.398 Sum_probs=32.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEA 71 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 71 (106)
.|+..-|++|++.=-.|++=++..+.--.....|++.++.++.
T Consensus 6 ~~Le~Iv~~Le~~~~sLdes~~lyeeg~~l~~~c~~~L~~~e~ 48 (53)
T PF02609_consen 6 ERLEEIVEKLESGELSLDESLKLYEEGMELIKKCQERLEEAEQ 48 (53)
T ss_dssp HHHHHHHHHHHTT-S-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566667777765556788888888888889999999998875
No 93
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=42.99 E-value=50 Score=32.92 Aligned_cols=39 Identities=26% Similarity=0.256 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhc
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEA 71 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 71 (106)
-++.+|.+|+.-+++||+.|.++.+..--.+||..|.+.
T Consensus 1102 e~v~kL~~e~~~~~~e~~~L~~~t~~~lw~~DL~~~~~~ 1140 (1388)
T PTZ00108 1102 EKVEKLNAELEKKEKELEKLKNTTPKDMWLEDLDKFEEA 1140 (1388)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 378899999999999999999999999999988887653
No 94
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=42.77 E-value=45 Score=23.70 Aligned_cols=26 Identities=42% Similarity=0.511 Sum_probs=15.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
|+-+-..|..|+++|+.|-+++.+|-
T Consensus 3 k~~l~~~l~~le~~l~~l~~~~~~LK 28 (107)
T PF06156_consen 3 KKELFDRLDQLEQQLGQLLEELEELK 28 (107)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666666666655553
No 95
>PRK04406 hypothetical protein; Provisional
Probab=42.69 E-value=44 Score=22.34 Aligned_cols=14 Identities=0% Similarity=0.387 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHHH
Q 034008 34 ELKRLEQETRFLEE 47 (106)
Q Consensus 34 el~~LeqEi~fLee 47 (106)
+|.+|.++++.|-+
T Consensus 40 ~I~~L~~ql~~L~~ 53 (75)
T PRK04406 40 LITKMQDQMKYVVG 53 (75)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 96
>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=42.64 E-value=36 Score=25.54 Aligned_cols=27 Identities=41% Similarity=0.604 Sum_probs=16.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
..+.+++..|+++|.-|+++|++.++.
T Consensus 119 ~~l~~~~~~L~~~~~~l~~~l~ek~k~ 145 (194)
T PF08614_consen 119 AELEAELAQLEEKIKDLEEELKEKNKA 145 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666666666666665544
No 97
>KOG4787 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.41 E-value=35 Score=32.15 Aligned_cols=47 Identities=21% Similarity=0.196 Sum_probs=27.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhHH-HHHHHHHhhhhcCCCCC
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKAS-AACNETLRNVEAIPDPL 76 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS-~~CkEv~~~Ves~pDPL 76 (106)
|+++|+.-+..-+.-++++++.|-....+. +-||+++..=.+.+||-
T Consensus 519 ~L~~ElE~~~~~~~~~e~~~evL~~~~~~t~~l~Kq~L~~~~~q~de~ 566 (852)
T KOG4787|consen 519 DLVSELEGKIPTIDEIEQCCEVLAAVETQTGRLCKQFLKIDHAQKDER 566 (852)
T ss_pred HHHHHHHhhcCcHhHHHHHHHHHHHHhhhHHHHHHHHHHhcccCcchH
Confidence 344444444444444445555554444444 57888888888888874
No 98
>PLN03237 DNA topoisomerase 2; Provisional
Probab=42.38 E-value=46 Score=33.46 Aligned_cols=39 Identities=21% Similarity=0.135 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhc
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEA 71 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 71 (106)
-++.+|.+|+.-+++||+.|.++.+..-=.++|..|.+.
T Consensus 1126 E~~~kL~~~~~~k~~el~~l~~~t~~~lW~~DLd~f~~~ 1164 (1465)
T PLN03237 1126 EKVQELCADRDKLNIEVEDLKKTTPKSLWLKDLDALEKE 1164 (1465)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 578899999999999999999999999999999988764
No 99
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=42.09 E-value=30 Score=32.30 Aligned_cols=26 Identities=31% Similarity=0.422 Sum_probs=21.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
-+.+|+++|+.|+.+||.|++.+++.
T Consensus 926 d~~~E~~rL~K~l~kl~~ei~~~~~k 951 (995)
T PTZ00419 926 DLKKELAKLEKKLAKLQKSLESYLKK 951 (995)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37789999999999999999887764
No 100
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=41.88 E-value=41 Score=23.92 Aligned_cols=22 Identities=23% Similarity=0.406 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 034008 33 AELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~ 54 (106)
.+|+.|+..|.-|+..|+.|++
T Consensus 96 ~ev~~L~~RI~~Le~~l~~l~~ 117 (118)
T TIGR01837 96 EEIEALSAKIEQLAVQVEELRR 117 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3677788888888888877765
No 101
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=41.86 E-value=40 Score=23.19 Aligned_cols=22 Identities=18% Similarity=0.409 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhcc
Q 034008 34 ELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~ 55 (106)
.+..|+..|.|+++.++.|++-
T Consensus 68 ~~~~l~~r~e~ie~~i~~lek~ 89 (110)
T TIGR02338 68 AIQELKEKKETLELRVKTLQRQ 89 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666666666666666553
No 102
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=41.54 E-value=35 Score=25.05 Aligned_cols=22 Identities=23% Similarity=0.400 Sum_probs=16.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHH
Q 034008 29 HRIQAELKRLEQETRFLEEELE 50 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~ 50 (106)
|-+-.+|.+|++++.-||.+|+
T Consensus 86 ~~l~~rvd~Lerqv~~Lenk~k 107 (108)
T COG3937 86 DELTERVDALERQVADLENKLK 107 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 4456678888888888888775
No 103
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=41.46 E-value=39 Score=25.29 Aligned_cols=28 Identities=43% Similarity=0.545 Sum_probs=21.2
Q ss_pred cchhh--hhHHHHHHHHHHHHHHHHHHHHh
Q 034008 25 TRGKH--RIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 25 ~~Gkh--R~~ael~~LeqEi~fLeeEL~~L 52 (106)
..||| =|.+||+++|.+|+-+|+|+...
T Consensus 73 nV~kRlefI~~Eikr~e~~i~d~q~e~~k~ 102 (120)
T KOG3478|consen 73 NVGKRLEFISKEIKRLENQIRDSQEEFEKQ 102 (120)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34554 36789999999999999887653
No 104
>PF03285 Paralemmin: Paralemmin; InterPro: IPR004965 Paralemmin was identified in the chicken lens as a protein with a molecular weight of 65 kDa (isoform 1) and a splice variant of 60 kDa (isoform 2). Isoform 2 is predominant during infancy and levels of isoform 1 increase with age. Paralemmin is localised to the plasma membrane of fibre cells, and was not detected in the annular pad cells. Its localisation to the short side of the fibre cell and the sites of fibre cell interlocking suggests that paralemmin may play a role in the development of such interdigitating processes []. Palmitoylation is important for localising these proteins to the filopodia of dendritic cells where they have been implicated in the regulation of membrane dynamics and process outgrowth. ; GO: 0008360 regulation of cell shape, 0016020 membrane
Probab=41.37 E-value=24 Score=29.30 Aligned_cols=20 Identities=30% Similarity=0.519 Sum_probs=16.5
Q ss_pred hhhHHHHHHHHHHHHHHHHH
Q 034008 29 HRIQAELKRLEQETRFLEEE 48 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeE 48 (106)
+.+.--|+|||+||..||-+
T Consensus 13 R~LEesI~RLEkEIe~LE~~ 32 (278)
T PF03285_consen 13 RSLEESIHRLEKEIEALENG 32 (278)
T ss_pred HHHHHHHHHHHHHHHHhccC
Confidence 45667799999999999865
No 105
>KOG4529 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.31 E-value=39 Score=29.64 Aligned_cols=40 Identities=23% Similarity=0.403 Sum_probs=28.7
Q ss_pred CCCCcchhhhhHHHHHHHHHHHHHHH-----------------------HHHHHhhcchhHHHHHH
Q 034008 21 GSGDTRGKHRIQAELKRLEQETRFLE-----------------------EELEQLDKTEKASAACN 63 (106)
Q Consensus 21 ~~~d~~GkhR~~ael~~LeqEi~fLe-----------------------eEL~~LE~~~~aS~~Ck 63 (106)
.+.++-|++|++ .+|++|++||| +|+++||+.--++++||
T Consensus 30 ~f~~le~~~kl~---r~l~~ELkfLqkv~~~~~e~hl~S~N~~hy~sii~~~e~le~vt~Vl~vfk 92 (404)
T KOG4529|consen 30 KFITLEGRRKLL---RKLSSELKFLQKVSSKDKEPHLLSVNIGHYESIIREIEQLESVTGVLRVFK 92 (404)
T ss_pred hhcCCccHHHHH---HHHHHHHHHHHHHHhccccccceeechHHHHHHHHHHHhhhhhHHHHHhhc
Confidence 446777888764 45667777776 46777888888888885
No 106
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=41.26 E-value=30 Score=28.02 Aligned_cols=25 Identities=24% Similarity=0.357 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcch
Q 034008 32 QAELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~~ 56 (106)
.++|++++++|..||.+|.+.+.-.
T Consensus 54 E~AL~~a~~ri~eLe~ql~q~~~~~ 78 (247)
T PF09849_consen 54 EQALKQAQARIQELEAQLQQAQAPQ 78 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccc
Confidence 3679999999999999998854443
No 107
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=41.24 E-value=36 Score=27.33 Aligned_cols=26 Identities=19% Similarity=0.469 Sum_probs=21.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
-|++++++.|.++++..+-||++|..
T Consensus 89 ~~l~ek~q~l~~t~s~veaEik~L~s 114 (201)
T KOG4603|consen 89 VALTEKVQSLQQTCSYVEAEIKELSS 114 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47788888899999998888888754
No 108
>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=41.24 E-value=71 Score=25.72 Aligned_cols=52 Identities=17% Similarity=0.153 Sum_probs=33.4
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHhhc-chhHHHHHHHHHhhhhcCCCCCcc
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQLDK-TEKASAACNETLRNVEAIPDPLLP 78 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~LE~-~~~aS~~CkEv~~~Ves~pDPLLP 78 (106)
-...+.+|-++|.+|+..|+.+++.... +..=-.-.++++.+-+..++..++
T Consensus 67 ~~~~l~~EN~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~LL~~~~~~~~~~i~ 119 (283)
T TIGR00219 67 DVNNLEYENYKLRQELLKKNQQLEILTQNLKQENVRLRELLNSPLSSDEYKIS 119 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccCCceE
Confidence 3445667777777777666555554433 444455678888888877776654
No 109
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=40.84 E-value=54 Score=21.63 Aligned_cols=21 Identities=38% Similarity=0.540 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 034008 32 QAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~L 52 (106)
-.++..|..|+.+|+.||+.+
T Consensus 46 ~~e~~~Lk~E~e~L~~el~~~ 66 (69)
T PF14197_consen 46 YEENNKLKEENEALRKELEEL 66 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 346677777777777777654
No 110
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=40.69 E-value=55 Score=22.90 Aligned_cols=30 Identities=17% Similarity=0.135 Sum_probs=22.2
Q ss_pred CcchhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 24 DTRGKHRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 24 d~~GkhR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
.+.--+.+++++..+++|+.-|+++-+.|+
T Consensus 25 G~~~~~~l~~q~~~~~~e~~~l~~~n~~L~ 54 (105)
T PRK00888 25 GILDYWRVNDQVAAQQQTNAKLKARNDQLF 54 (105)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334567778888888888888888876654
No 111
>TIGR00103 DNA_YbaB_EbfC DNA-binding protein, YbaB/EbfC family. The function of this protein is unknown, but it has been expressed and crystallized. Its gene nearly always occurs next to recR and/or dnaX. It is restricted to Bacteria and the plant Arabidopsis. The plant form contains an additional N-terminal region that may serve as a transit peptide and shows a close relationship to the cyanobacterial member, suggesting that it is a chloroplast protein. Members of this family are found in a single copy per bacterial genome, but are broadly distributed. A member is present even in the minimal gene complement of Mycoplasm genitalium.
Probab=40.40 E-value=36 Score=23.63 Aligned_cols=28 Identities=18% Similarity=0.396 Sum_probs=22.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcch
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~ 56 (106)
-.++-+.+++++++.-+|+||++.+-..
T Consensus 8 ~~m~kqaq~mQ~k~~~~q~eL~~~~v~g 35 (102)
T TIGR00103 8 GELMKQAQQMQEKMKKLQEEIAQFEVTG 35 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccEEEE
Confidence 3567788899999999999999887443
No 112
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=40.05 E-value=91 Score=21.32 Aligned_cols=39 Identities=26% Similarity=0.459 Sum_probs=22.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhc-chhHHHHHHHHHh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDK-TEKASAACNETLR 67 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~-~~~aS~~CkEv~~ 67 (106)
..+.++|+.|+..-.-|.+||++.+. .......|+||..
T Consensus 35 ~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~ 74 (89)
T PF13747_consen 35 DELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSR 74 (89)
T ss_pred hhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 45556666666666666666665543 2333446666654
No 113
>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=39.68 E-value=43 Score=22.72 Aligned_cols=25 Identities=40% Similarity=0.644 Sum_probs=19.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
++..++..|.+|+.-|+.+++.|..
T Consensus 29 ~l~~~~~~l~~e~~~L~~~~~~l~~ 53 (131)
T PF05103_consen 29 ELAEELERLQRENAELKEEIEELQA 53 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5667778888888888888877765
No 114
>PLN02381 valyl-tRNA synthetase
Probab=39.45 E-value=35 Score=32.53 Aligned_cols=26 Identities=27% Similarity=0.482 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
-..+|+++|+.+|.+||.||+.+++.
T Consensus 994 D~~~E~~rL~K~l~klekei~~~~~k 1019 (1066)
T PLN02381 994 NAEAELEKLRNKMDEIQKQQEKLEKK 1019 (1066)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 37889999999999999999888764
No 115
>TIGR03709 PPK2_rel_1 polyphosphate:nucleotide phosphotransferase, PPK2 family. Members of this protein family belong to the polyphosphate kinase 2 (PPK2) family, which is not related in sequence to PPK1. While PPK1 tends to act in the biosynthesis of polyphosphate, or poly(P), members of the PPK2 family tend to use the terminal phosphate of poly(P) to regenerate ATP or GTP from the corresponding nucleoside diphosphate, or ADP from AMP as is the case with polyphosphate:AMP phosphotransferase (PAP). Members of this protein family most likely transfer the terminal phosphate between poly(P) and some nucleotide, but it is not clear which.
Probab=39.36 E-value=81 Score=25.61 Aligned_cols=47 Identities=21% Similarity=0.200 Sum_probs=36.8
Q ss_pred CCcchhhhhHHHHHHHHHHHHHHHHHHHH---------hhcchhHHH--HHHHHHhhh
Q 034008 23 GDTRGKHRIQAELKRLEQETRFLEEELEQ---------LDKTEKASA--ACNETLRNV 69 (106)
Q Consensus 23 ~d~~GkhR~~ael~~LeqEi~fLeeEL~~---------LE~~~~aS~--~CkEv~~~V 69 (106)
|.+.+|....+++..|..++..||..|.. +||++.|-. +-+.|++.+
T Consensus 23 ~~~~~k~~y~~~l~~l~~~L~~LQ~~l~~~~~~~vlIv~eG~DaAGKG~~I~~l~~~l 80 (264)
T TIGR03709 23 PGFDSKEEAEALLAELVARLSDLQEKLYAEGRRSLLLVLQAMDAAGKDGTIRHVMSGV 80 (264)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCCchHHHHHHHHhc
Confidence 34445999999999999999999999976 577877765 566666655
No 116
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=38.91 E-value=65 Score=28.72 Aligned_cols=63 Identities=22% Similarity=0.111 Sum_probs=36.4
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCCCccccCCCC-CchhHHhh
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDPLLPITNGPL-NPLWDRWF 92 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t~gp~-n~sWdRWf 92 (106)
--+|-+||--+||-|+.|.+. |+.+ ++-+-..-|+|+..+-.+-+-.+-.-.... .-+|+||-
T Consensus 221 ~tsRHLAEFwMlEaE~AF~~s-l~d~--m~~~e~~~K~mik~llek~~edmel~~k~~~~~~~~rl~ 284 (446)
T KOG0554|consen 221 HTSRHLAEFWMLEAELAFAES-LDDL--MSCAEAYIKHMIKYLLEKCIEDMELMHKNEDPGSIDRLE 284 (446)
T ss_pred CchhHHhhhhhhhhHHHHHHH-HHHH--HHHHHHHHHHHHHHHHhhccchhheeccccCCCccchhh
Confidence 457889999999999999984 4432 444445555555555444333332222222 24555553
No 117
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=38.71 E-value=45 Score=22.70 Aligned_cols=31 Identities=23% Similarity=0.272 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcchhHHHHH
Q 034008 32 QAELKRLEQETRFLEEELEQLDKTEKASAAC 62 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~~~aS~~C 62 (106)
...-..|+|||.-||+.|+.=..+..|=.+.
T Consensus 7 ~~~r~~LeqeV~~Lq~~L~~E~~~r~aLe~a 37 (88)
T PF14389_consen 7 HERRSALEQEVAELQKQLQEEQDLRRALEKA 37 (88)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455789999999999998766665554443
No 118
>PF07061 Swi5: Swi5; InterPro: IPR010760 This entry represents Swi5 and is involved in meiotic DNA repair synthesis and meiotic joint molecule formation []. It is known to interact with Swi2, Rhp51 and Swi6 [].
Probab=38.65 E-value=1e+02 Score=21.02 Aligned_cols=34 Identities=24% Similarity=0.475 Sum_probs=23.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcc--hhHHHHHH
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKT--EKASAACN 63 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~--~~aS~~Ck 63 (106)
.+.+.++.|+.++.-|+.++.+++.- +.+....+
T Consensus 4 ~l~~~~~~L~~~~~~l~~~i~~~~~~l~~~~~~~v~ 39 (83)
T PF07061_consen 4 SLEAEIQELKEQIEQLEKEISELEAELIEDPEKIVK 39 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHH
Confidence 56777888888888888888887664 44444333
No 119
>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=38.23 E-value=12 Score=28.73 Aligned_cols=29 Identities=34% Similarity=0.485 Sum_probs=6.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcch
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~ 56 (106)
|-.+..++|||.-|++-|+.||.--|++.
T Consensus 26 KE~L~~~~QRLkDE~RDLKqEl~V~ek~~ 54 (166)
T PF04880_consen 26 KENLREEVQRLKDELRDLKQELIVQEKLR 54 (166)
T ss_dssp HHHHHHCH---------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 56788899999999999999994445544
No 120
>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=37.98 E-value=52 Score=24.42 Aligned_cols=25 Identities=32% Similarity=0.615 Sum_probs=20.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
++++++..=+-||.+|.++|+++..
T Consensus 98 kLe~e~~~Kdsei~~Lr~~L~~~~~ 122 (131)
T PF04859_consen 98 KLEAELRAKDSEIDRLREKLDELNR 122 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5777888888888899988887754
No 121
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=37.96 E-value=48 Score=22.57 Aligned_cols=22 Identities=32% Similarity=0.403 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 034008 32 QAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE 53 (106)
...++.|+++|..|+.-++.|+
T Consensus 81 ~~~~~~l~~~i~~l~~~~~~l~ 102 (108)
T cd01107 81 REKLAELEAEIEELQRILRLLE 102 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555444444
No 122
>PF14882 GHL12: Hypothetical glycosyl hydrolase 12
Probab=37.84 E-value=9.1 Score=24.19 Aligned_cols=22 Identities=27% Similarity=0.717 Sum_probs=16.0
Q ss_pred cCCCCCccccCCCCC-chhHHhh
Q 034008 71 AIPDPLLPITNGPLN-PLWDRWF 92 (106)
Q Consensus 71 s~pDPLLP~t~gp~n-~sWdRWf 92 (106)
-+.||.||++..... ..|..|.
T Consensus 6 yk~DP~LPs~P~~~Y~~~W~~W~ 28 (53)
T PF14882_consen 6 YKEDPRLPSSPDKVYKDEWEGWY 28 (53)
T ss_pred cCCCCCCCCCHHHHHHHhhcCHH
Confidence 467999999988874 3565554
No 123
>PRK09039 hypothetical protein; Validated
Probab=37.83 E-value=57 Score=26.98 Aligned_cols=28 Identities=18% Similarity=0.344 Sum_probs=17.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcch
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~ 56 (106)
.++.++|..|..++.-||.+|..+|...
T Consensus 140 ~~L~~qI~aLr~Qla~le~~L~~ae~~~ 167 (343)
T PRK09039 140 ELLNQQIAALRRQLAALEAALDASEKRD 167 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555666666666666666666665544
No 124
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=37.57 E-value=59 Score=22.64 Aligned_cols=24 Identities=29% Similarity=0.512 Sum_probs=11.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE 53 (106)
++...+++|+++|..+..+++.+-
T Consensus 12 ~L~~~~~~le~~i~~~~~~~k~~~ 35 (171)
T PF03357_consen 12 RLEKQIKRLEKKIKKLEKKAKKAI 35 (171)
T ss_dssp HHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444444443
No 125
>KOG3021 consensus Predicted kinase [General function prediction only]
Probab=37.51 E-value=19 Score=30.47 Aligned_cols=22 Identities=27% Similarity=0.350 Sum_probs=17.8
Q ss_pred CCCcchhhhhHHHHHHHHHHHH
Q 034008 22 SGDTRGKHRIQAELKRLEQETR 43 (106)
Q Consensus 22 ~~d~~GkhR~~ael~~LeqEi~ 43 (106)
-+.|+++||++.+|++++.+-.
T Consensus 163 W~eFf~rhRlq~Qldl~~~~~~ 184 (313)
T KOG3021|consen 163 WEEFFARHRLQPQLDLLEKTYG 184 (313)
T ss_pred HHHHHHHHhhhHHHHHHHHhhc
Confidence 3468999999999999986543
No 126
>PF08898 DUF1843: Domain of unknown function (DUF1843); InterPro: IPR014994 This domain is found in functionally uncharacterised proteins. It can be found independently or at the C terminus of the protein.
Probab=37.49 E-value=38 Score=22.04 Aligned_cols=16 Identities=44% Similarity=0.538 Sum_probs=11.7
Q ss_pred hHHHHHHHHHHHHHHH
Q 034008 31 IQAELKRLEQETRFLE 46 (106)
Q Consensus 31 ~~ael~~LeqEi~fLe 46 (106)
+.+++..|+.||.-||
T Consensus 36 i~~al~~Lk~EIaklE 51 (53)
T PF08898_consen 36 IAAALEKLKAEIAKLE 51 (53)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 5667777777777765
No 127
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=37.40 E-value=1.3e+02 Score=25.62 Aligned_cols=47 Identities=30% Similarity=0.528 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCCCccccCCC
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDPLLPITNGP 83 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t~gp 83 (106)
+.++++.|.++|.-|+++++.+|. --.+++..+-..++|=.|+....
T Consensus 71 l~~~~~~l~~~~~~~~~~~~~~~~------~~~~~~~~iPN~~~~~vP~g~~~ 117 (425)
T PRK05431 71 LIAEVKELKEEIKALEAELDELEA------ELEELLLRIPNLPHDSVPVGKDE 117 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHhCCCCCCccCCCCCCC
Confidence 555666677777777776666653 45667788888889999876554
No 128
>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=36.85 E-value=54 Score=23.85 Aligned_cols=25 Identities=40% Similarity=0.624 Sum_probs=19.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
-+...|..|++||.-|++.|+.|.+
T Consensus 113 el~~~i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 113 ELREEIEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3567788888888888888887775
No 129
>PLN02320 seryl-tRNA synthetase
Probab=36.83 E-value=1.1e+02 Score=27.34 Aligned_cols=49 Identities=20% Similarity=0.283 Sum_probs=31.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCCCccccCCCCC
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDPLLPITNGPLN 85 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t~gp~n 85 (106)
+.++++.|.++|.-||++++.+| .--.+++..+-..+||-.|+.+...+
T Consensus 135 l~~~~k~lk~~i~~le~~~~~~~------~~l~~~~l~iPN~~h~~VP~G~de~~ 183 (502)
T PLN02320 135 LVEEGKNLKEGLVTLEEDLVKLT------DELQLEAQSIPNMTHPDVPVGGEDSS 183 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHhCCCCCCccCCCCCCCCC
Confidence 44455555555555555555444 35677888899999999998655444
No 130
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=36.81 E-value=48 Score=21.04 Aligned_cols=31 Identities=16% Similarity=0.222 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhh
Q 034008 35 LKRLEQETRFLEEELEQLDKTEKASAACNETLRN 68 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~ 68 (106)
|..|.|++.-||.+|+-|+. +=.-+|-+.-|
T Consensus 1 i~aLrqQv~aL~~qv~~Lq~---~fs~yKKa~lF 31 (46)
T PF09006_consen 1 INALRQQVEALQGQVQRLQA---AFSQYKKAELF 31 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHT
T ss_pred ChHHHHHHHHHHHHHHHHHH---HHHHHHHHHHC
Confidence 45678888888887776653 33344544444
No 131
>PRK14626 hypothetical protein; Provisional
Probab=36.58 E-value=45 Score=23.76 Aligned_cols=24 Identities=13% Similarity=0.350 Sum_probs=20.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE 53 (106)
-++.+.|.+++++.-+|+||++.+
T Consensus 9 ~mmkqaq~mQ~km~~~qeeL~~~~ 32 (110)
T PRK14626 9 ELMKQMQSIKENVEKAKEELKKEE 32 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccE
Confidence 356678899999999999999887
No 132
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=36.51 E-value=93 Score=26.36 Aligned_cols=48 Identities=27% Similarity=0.456 Sum_probs=32.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCCCccccCCC
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDPLLPITNGP 83 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t~gp 83 (106)
.+.++++.|.++|.-|+++++.+|. --.+++..+-..++|-.|+....
T Consensus 73 ~l~~~~~~l~~~~~~~~~~~~~~~~------~~~~~~~~lPN~~~~~vP~g~~~ 120 (418)
T TIGR00414 73 EIKKELKELKEELTELSAALKALEA------ELQDKLLSIPNIPHESVPVGKDE 120 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHhCCCCCCccCCCCCCc
Confidence 3445556666666666666655543 45677888888899999987644
No 133
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=36.32 E-value=74 Score=27.12 Aligned_cols=38 Identities=29% Similarity=0.396 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhh
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVE 70 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ve 70 (106)
.+++.|+++|.-|++||..++.--.+-.....+++...
T Consensus 71 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~~ 108 (525)
T TIGR02231 71 ERLAELRKQIRELEAELRDLEDRGDALKALAKFLEDIR 108 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 37888888888888888888887766666666666554
No 134
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=36.21 E-value=33 Score=30.59 Aligned_cols=19 Identities=16% Similarity=0.372 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 034008 34 ELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~L 52 (106)
+|+.|++||.-||++++.|
T Consensus 32 kie~L~kql~~Lk~q~~~l 50 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDL 50 (489)
T ss_pred HHHHHHHHHHHHHHhhccc
Confidence 6777777777777766643
No 135
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=35.58 E-value=48 Score=25.60 Aligned_cols=24 Identities=29% Similarity=0.414 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcch
Q 034008 33 AELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~ 56 (106)
.++-.+|+|+..++.||+++++-.
T Consensus 162 ~d~l~ie~~L~~v~~eIe~~~~~~ 185 (262)
T PF14257_consen 162 EDLLEIERELSRVRSEIEQLEGQL 185 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355567777777777777777643
No 136
>PRK05560 DNA gyrase subunit A; Validated
Probab=35.52 E-value=96 Score=28.67 Aligned_cols=47 Identities=26% Similarity=0.240 Sum_probs=40.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCC
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPD 74 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 74 (106)
.||+..-.++.+-++.-++++|+-|||+-.|-..-.+++..+.+..|
T Consensus 351 ~~r~~~~~~r~~~~l~~~~~~~~~l~g~~~~~~~~d~vI~iir~s~~ 397 (805)
T PRK05560 351 EHRKEVITRRTRFELRKAEERAHILEGLLIALDNIDEVIALIRASPT 397 (805)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHcCCC
Confidence 78999999999999999999999999999997777888887766543
No 137
>PRK09343 prefoldin subunit beta; Provisional
Probab=35.48 E-value=57 Score=23.16 Aligned_cols=24 Identities=29% Similarity=0.353 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcch
Q 034008 33 AELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~ 56 (106)
..++.|+..+.|++.+++.||+-.
T Consensus 71 e~~~~l~~r~E~ie~~ik~lekq~ 94 (121)
T PRK09343 71 KVEKELKERKELLELRSRTLEKQE 94 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666666666666666666543
No 138
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=35.34 E-value=65 Score=21.73 Aligned_cols=26 Identities=19% Similarity=0.339 Sum_probs=14.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
+.-+...++.|+++|.-|++.++.|+
T Consensus 73 ~~~l~~~~~~l~~~i~~l~~~~~~l~ 98 (102)
T cd04775 73 QAILEERLQSLNREIQRLRQQQQVLA 98 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455556666666666665555544
No 139
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=35.17 E-value=51 Score=27.29 Aligned_cols=25 Identities=40% Similarity=0.521 Sum_probs=20.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~L 52 (106)
+--...+++||.+||.-|++||+.+
T Consensus 89 ~Es~~~kl~RL~~Ev~EL~eEl~~~ 113 (388)
T PF04912_consen 89 KESPEQKLQRLRREVEELKEELEKR 113 (388)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456778888888888888888886
No 140
>PF07412 Geminin: Geminin; InterPro: IPR022786 This family contains the eukaryotic protein geminin (approximately 200 residues long). Geminin inhibits DNA replication by preventing the incorporation of MCM complex into prereplication complex, and is degraded during the mitotic phase of the cell cycle. It has been proposed that geminin inhibits DNA replication during S, G2, and M phases and that geminin destruction at the metaphase-anaphase transition permits replication in the succeeding cell cycle []. ; GO: 0008156 negative regulation of DNA replication; PDB: 1T6F_B 2LP0_B 1UII_B 2WVR_B 2ZXX_B.
Probab=35.12 E-value=77 Score=25.31 Aligned_cols=37 Identities=22% Similarity=0.304 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhh
Q 034008 34 ELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVE 70 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ve 70 (106)
+|..++.||..|++|+.+|--+-..-..-.+|+.-+.
T Consensus 133 ~ie~~~eEi~~lk~en~~L~elae~~~~la~~ie~l~ 169 (200)
T PF07412_consen 133 EIEQKDEEIAKLKEENEELKELAEHVQYLAEVIERLT 169 (200)
T ss_dssp HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444455555566655555555444445555555443
No 141
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=35.12 E-value=64 Score=21.10 Aligned_cols=18 Identities=44% Similarity=0.606 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 034008 35 LKRLEQETRFLEEELEQL 52 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~L 52 (106)
..-|++||.-|++|++++
T Consensus 41 n~eL~~ei~~L~~e~ee~ 58 (61)
T PF08826_consen 41 NRELEQEIERLKKEMEEL 58 (61)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 345677777777777654
No 142
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=35.01 E-value=64 Score=22.72 Aligned_cols=26 Identities=38% Similarity=0.518 Sum_probs=19.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
.|-+..|..|+.|+.-|.+|.++|.+
T Consensus 45 ~rwek~v~~L~~e~~~l~~E~e~L~~ 70 (87)
T PF12709_consen 45 ARWEKKVDELENENKALKRENEQLKK 70 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667777888888888888877765
No 143
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=34.99 E-value=85 Score=28.91 Aligned_cols=43 Identities=19% Similarity=0.255 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcc--hhHHH---HHHHHHhhhhcCCCC
Q 034008 33 AELKRLEQETRFLEEELEQLDKT--EKASA---ACNETLRNVEAIPDP 75 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~--~~aS~---~CkEv~~~Ves~pDP 75 (106)
.++..|++|+.-|++|+++|+.+ .+.-. .-+|+.+.-+.=.||
T Consensus 437 le~~kl~~E~~~l~~ei~~l~~iL~s~~~l~~~i~~eL~~ik~kfg~~ 484 (742)
T PRK05561 437 LEEIEIRKEQDELRKEIAELEAILASERKLRKLIKKELKADAKKFGDP 484 (742)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCCC
Confidence 56778999999999999999998 55544 477777777666666
No 144
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=34.97 E-value=61 Score=27.30 Aligned_cols=18 Identities=28% Similarity=0.368 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 034008 35 LKRLEQETRFLEEELEQL 52 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~L 52 (106)
++.+++|+..|++||+.|
T Consensus 45 ~~~~~~~~~~~~~~~~~~ 62 (398)
T PTZ00454 45 QKNLKRELIRAKEEVKRI 62 (398)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444444444444
No 145
>COG3132 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.94 E-value=71 Score=25.91 Aligned_cols=24 Identities=33% Similarity=0.414 Sum_probs=22.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
++|.|..||+|+.-|+.-|++|.+
T Consensus 190 learv~aLe~eva~L~~rld~ll~ 213 (215)
T COG3132 190 LEARVEALEQEVAELRARLDSLLG 213 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 899999999999999999999876
No 146
>PRK10636 putative ABC transporter ATP-binding protein; Provisional
Probab=34.93 E-value=54 Score=28.85 Aligned_cols=24 Identities=33% Similarity=0.516 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 32 QAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
+.+++.||.+|.-||+++++||..
T Consensus 562 ~~~~~~~e~~i~~le~~~~~l~~~ 585 (638)
T PRK10636 562 RKEIARLEKEMEKLNAQLAQAEEK 585 (638)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346667777777777777666643
No 147
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.81 E-value=61 Score=26.63 Aligned_cols=25 Identities=24% Similarity=0.408 Sum_probs=19.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
+++|+++..|.+||.-|+..+++..
T Consensus 60 ~s~Q~~~~~L~~ev~~~~~~~~s~~ 84 (247)
T COG3879 60 RSLQKKVNTLAAEVEDLENKLDSVR 84 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777888888888888877777
No 148
>TIGR00422 valS valyl-tRNA synthetase. The valyl-tRNA synthetase (ValS) is a class I amino acyl-tRNA ligase and is particularly closely related to the isoleucyl tRNA synthetase.
Probab=34.66 E-value=47 Score=30.34 Aligned_cols=26 Identities=19% Similarity=0.252 Sum_probs=23.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
-...+++++|+.++..||.||+.+++
T Consensus 812 ~d~~~e~~~l~k~l~~~~~~i~~~~~ 837 (861)
T TIGR00422 812 INKAKELARLQKQLDKEKKEVIRIEG 837 (861)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44789999999999999999999987
No 149
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=34.23 E-value=85 Score=20.49 Aligned_cols=20 Identities=10% Similarity=0.336 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 034008 32 QAELKRLEQETRFLEEELEQ 51 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~ 51 (106)
..+|+.|+.+|.-|+.++..
T Consensus 9 s~dVq~L~~kvdqLs~dv~~ 28 (56)
T PF04728_consen 9 SSDVQTLNSKVDQLSSDVNA 28 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444443
No 150
>PRK00153 hypothetical protein; Validated
Probab=34.19 E-value=51 Score=22.62 Aligned_cols=28 Identities=14% Similarity=0.391 Sum_probs=22.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcch
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~ 56 (106)
-.++.+.+++++++.-+|+||+.++-..
T Consensus 6 ~~m~~qaq~~q~~~~~~q~~l~~~~~~~ 33 (104)
T PRK00153 6 QNLMKQAQQMQEKMQKMQEELAQMEVEG 33 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccEEEE
Confidence 3467788999999999999999887443
No 151
>PF02575 YbaB_DNA_bd: YbaB/EbfC DNA-binding family; InterPro: IPR004401 The function of this protein is unknown. It is restricted to bacteria and a few plants, such as Arabidopsis. The plant form contains an additional N-terminal region that may serve as a transit peptide and shows a close relationship to the cyanobacterial member, suggesting that it is a chloroplast protein. Members of this family are found in a single copy per bacterial genome, but are broadly distributed. A crystal structure of one member, YbaB from Haemophilus influenzae, revealed a core structure consisting of two layers, alpha/beta; YbaB forms a tight dimer with a 3-layer structure, beta/alpha/beta []. YbaB is co-transcribed with RecR, which appears to protect DNA strands of the replilcation fork when it is blocked by DNA damage. A deletion of the YbaB operon resulted in increased sensitivity to DNA-damaging agents compared with the wild-type strain.; PDB: 1PUG_B 3F42_B 1YBX_B 1J8B_A.
Probab=33.95 E-value=61 Score=21.12 Aligned_cols=25 Identities=16% Similarity=0.311 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcch
Q 034008 32 QAELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~~ 56 (106)
+.+++.+.+++.-++++|++++...
T Consensus 1 m~~~~~~~~~~~~~~~~l~~~~~~~ 25 (93)
T PF02575_consen 1 MKQAQEMQEKMEEAQEELAEIEVTG 25 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHHHSEEEE
T ss_pred ChHHHHHHHHHHHHHHHHhcCEEEE
Confidence 4578899999999999999887554
No 152
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=33.86 E-value=1.2e+02 Score=22.70 Aligned_cols=34 Identities=12% Similarity=0.045 Sum_probs=23.3
Q ss_pred CCCCCCCCC-CCCCcchhhhhHHHHHHHHHHHHHH
Q 034008 12 NTQRTQSLT-GSGDTRGKHRIQAELKRLEQETRFL 45 (106)
Q Consensus 12 ~~~rp~S~~-~~~d~~GkhR~~ael~~LeqEi~fL 45 (106)
.++||.|+- -|--..|.-++++||++|..+|.-.
T Consensus 19 ~~~r~~~~~~~~lT~~G~~~L~~El~~L~~~i~~A 53 (160)
T PRK06342 19 LPDRPISPHPNLVTEAGLKALEDQLAQARAAYEAA 53 (160)
T ss_pred CCCCCCCCCCceECHHHHHHHHHHHHHHHHHHHHH
Confidence 457885332 3455678899999999997666544
No 153
>PRK14623 hypothetical protein; Provisional
Probab=33.71 E-value=53 Score=23.45 Aligned_cols=23 Identities=17% Similarity=0.281 Sum_probs=20.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh
Q 034008 31 IQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE 53 (106)
++...+++++++.-+|+||+..+
T Consensus 6 ~mkqaqkmQ~km~~~Qeel~~~~ 28 (106)
T PRK14623 6 MMGKLKEAQQKVEATKKRLDTVL 28 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHhccE
Confidence 56678999999999999999887
No 154
>PF15011 CK2S: Casein Kinase 2 substrate
Probab=33.18 E-value=1.8e+02 Score=21.90 Aligned_cols=59 Identities=27% Similarity=0.290 Sum_probs=46.1
Q ss_pred CCCCCCcchhhhhHHHHHHHHHHHHHHHHHHHHhhcch-hHHHHHHHHHhhhhcCC--CCCcc
Q 034008 19 LTGSGDTRGKHRIQAELKRLEQETRFLEEELEQLDKTE-KASAACNETLRNVEAIP--DPLLP 78 (106)
Q Consensus 19 ~~~~~d~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~-~aS~~CkEv~~~Ves~p--DPLLP 78 (106)
+..+||+.++=| ...+.-+|.++..|.|.|+++.++- ..++.+..+...++... |++-+
T Consensus 51 L~~fpdl~~rL~-~Kq~~ale~vl~~L~e~l~~l~~v~~~l~~~~~~~~~l~~~~~~~~~l~~ 112 (168)
T PF15011_consen 51 LRSFPDLQERLR-RKQLEALETVLAKLRETLEELQKVRDSLSRQVRDVFQLYEQHAGLDELSL 112 (168)
T ss_pred ccccccHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCH
Confidence 447889888644 3345678999999999999998875 45779999999999655 77754
No 155
>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=33.15 E-value=75 Score=21.35 Aligned_cols=23 Identities=26% Similarity=0.505 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q 034008 32 QAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
..+++.|++.+.+|+.+++.|++
T Consensus 86 ~eA~~~l~~r~~~l~~~~~~l~~ 108 (129)
T cd00890 86 EEAIEFLKKRLETLEKQIEKLEK 108 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34466677777777766666654
No 156
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=33.00 E-value=60 Score=27.33 Aligned_cols=27 Identities=26% Similarity=0.342 Sum_probs=21.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
-.|+.||...|+++..-|++||+.|..
T Consensus 216 q~~~~ae~seLq~r~~~l~~~L~~L~~ 242 (289)
T COG4985 216 QQHYVAEKSELQKRLAQLQTELDALRA 242 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 457778888888888888888887753
No 157
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=33.00 E-value=69 Score=23.12 Aligned_cols=20 Identities=35% Similarity=0.498 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 034008 33 AELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~L 52 (106)
.++..|+++|..|+.+++.+
T Consensus 112 ~~l~~L~~~i~~L~~~~~~~ 131 (134)
T PF07047_consen 112 ERLEELEERIEELEEQVEKQ 131 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555443
No 158
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=33.00 E-value=73 Score=19.20 Aligned_cols=21 Identities=24% Similarity=0.328 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 034008 32 QAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~L 52 (106)
...++.++++|..|+.-.+.|
T Consensus 42 ~~~~~~i~~~i~~L~~~~~~L 62 (65)
T PF09278_consen 42 EEKLEEIEEQIAELQALRAQL 62 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555444433333
No 159
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=32.95 E-value=1.1e+02 Score=28.28 Aligned_cols=47 Identities=19% Similarity=0.196 Sum_probs=42.3
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCC
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPD 74 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 74 (106)
.||+..=.++.+-++.-++++|+-|||+-.|-..-.+++..+-+..|
T Consensus 361 ~~R~~~~~rr~~~~l~k~~~r~~~l~g~~~~~~~id~vI~iir~s~~ 407 (742)
T PRK05561 361 DHRREVVTRRSQFRLDKVEKRLHILEGLLIAFLNIDEVIRIIRESDE 407 (742)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhcCcc
Confidence 79999999999999999999999999999888888888887776655
No 160
>PF14282 FlxA: FlxA-like protein
Probab=32.77 E-value=70 Score=22.25 Aligned_cols=20 Identities=20% Similarity=0.434 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 034008 33 AELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~L 52 (106)
..++.|+.+|.-|+-.|..|
T Consensus 51 ~q~q~Lq~QI~~LqaQI~ql 70 (106)
T PF14282_consen 51 QQIQLLQAQIQQLQAQIAQL 70 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444443
No 161
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.76 E-value=50 Score=27.13 Aligned_cols=27 Identities=30% Similarity=0.430 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchhHH
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEKAS 59 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~aS 59 (106)
..+..|+++|+-|+.++++|+|++..-
T Consensus 56 ~~~~~l~~Ql~~l~g~i~~L~~~~~~q 82 (262)
T COG1729 56 YRLTQLEQQLRQLQGKIEELRGIQELQ 82 (262)
T ss_pred hccHHHHHHHHHHHhhHHHHHhHHHHH
Confidence 357889999999999999998744433
No 162
>cd03351 LbH_UDP-GlcNAc_AT UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic pathway and is also referred to as LpxA. Lipid A is essential for the growth of Escherichia coli and related bacteria. It is also essential for maintaining the integrity of the outer membrane. UDP-GlcNAc acyltransferase is a homotrimer of left-handed parallel beta helix (LbH) subunits. Each subunit contains an N-terminal LbH region with 9 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X), and a C-terminal alpha-helical region.
Probab=32.72 E-value=43 Score=25.69 Aligned_cols=42 Identities=21% Similarity=0.295 Sum_probs=28.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEA 71 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 71 (106)
++.+++..+=+...-|++.|++||...+-+..-+++++|+.+
T Consensus 208 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~ 249 (254)
T cd03351 208 ALKRAYRILYRSGLTLEEALEELEEEAPDSPEVEELVDFIRS 249 (254)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHhcCCCHHHHHHHHHHHh
Confidence 334444444444556788888888876667777889999875
No 163
>PF08537 NBP1: Fungal Nap binding protein NBP1; InterPro: IPR013743 NBP1 is a nuclear protein which has been shown in Saccharomyces cerevisiae (Bakers yeast) to be essential for the G2/M transition of the cell cycle.
Probab=32.58 E-value=56 Score=27.91 Aligned_cols=23 Identities=35% Similarity=0.458 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh
Q 034008 31 IQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE 53 (106)
+|-+|+.|+++|.-++.||+.+.
T Consensus 180 Lqkk~~~l~~~l~~~~~eL~~~~ 202 (323)
T PF08537_consen 180 LQKKIDELEERLNDLEKELEITK 202 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46688899999999999887754
No 164
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=32.51 E-value=47 Score=21.49 Aligned_cols=15 Identities=27% Similarity=0.237 Sum_probs=12.1
Q ss_pred CCCCcchhhhhHHHH
Q 034008 21 GSGDTRGKHRIQAEL 35 (106)
Q Consensus 21 ~~~d~~GkhR~~ael 35 (106)
+.-|.+||||+..+-
T Consensus 36 Sp~D~y~~yR~~~kk 50 (56)
T PRK13130 36 SPEDKYGKYRRALKK 50 (56)
T ss_pred CCCCccHHHHHHHHH
Confidence 556999999998763
No 165
>PRK14127 cell division protein GpsB; Provisional
Probab=32.50 E-value=73 Score=22.96 Aligned_cols=24 Identities=17% Similarity=0.313 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+...+..|.+|+..|++|+..|+.
T Consensus 35 V~~dye~l~~e~~~Lk~e~~~l~~ 58 (109)
T PRK14127 35 VIKDYEAFQKEIEELQQENARLKA 58 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445677888888888888888875
No 166
>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=32.44 E-value=1.1e+02 Score=28.30 Aligned_cols=47 Identities=21% Similarity=0.232 Sum_probs=41.3
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCC
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPD 74 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 74 (106)
.||+..=.++.+-++.-+++.++-|||+-.|-..+.+++..+.+..|
T Consensus 348 ~~R~~~~~rr~~~~l~k~~~r~~il~g~~~~~~~id~~i~iir~~~~ 394 (738)
T TIGR01061 348 KHCHEVIINRSKYELEKASKRLEIVEGLIKAISIIDEIIKLIRSSED 394 (738)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhHHHHcCCC
Confidence 78998889999999999999999999999988899999988766554
No 167
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=32.41 E-value=1.5e+02 Score=21.03 Aligned_cols=20 Identities=30% Similarity=0.386 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 034008 34 ELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE 53 (106)
+|..|+.+|..++++++.++
T Consensus 146 ki~~l~~~i~~~e~~~~~~~ 165 (218)
T cd07596 146 KVEELEEELEEAESALEEAR 165 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 55555556666665555544
No 168
>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=32.36 E-value=1.1e+02 Score=28.34 Aligned_cols=47 Identities=23% Similarity=0.173 Sum_probs=41.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCC
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPD 74 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 74 (106)
.||+..-.++.+-++.-++++|+-|+|+-.|-..-.+++..+.+..|
T Consensus 348 ~~r~~~~~~r~~~~l~~~~~~~~~~~g~~~~~~~~d~vi~~ir~~~~ 394 (800)
T TIGR01063 348 EHRKDVITRRTIFELRKAEERAHILEGLLIALDNIDEVIALIRASQN 394 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhCCC
Confidence 79999999999999999999999999999988888888887765543
No 169
>PF09432 THP2: Tho complex subunit THP2; InterPro: IPR018557 The THO complex plays a role in coupling transcription elongation to mRNA export. It is composed of subunits THP2, HPR1, THO2 and MFT1 [].
Probab=31.89 E-value=1e+02 Score=23.36 Aligned_cols=46 Identities=22% Similarity=0.429 Sum_probs=38.5
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHhhcc--hhHHHHHHHHHhhhhcC
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQLDKT--EKASAACNETLRNVEAI 72 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~LE~~--~~aS~~CkEv~~~Ves~ 72 (106)
.||=++-.|+.|+.|+..=-+|.+.+|++ +.....-|-++.+|++.
T Consensus 79 Nky~L~~tL~~LtkEVn~Wr~ewd~iE~~mFGD~pnSmkkMl~nvesl 126 (132)
T PF09432_consen 79 NKYSLQDTLNQLTKEVNYWRKEWDNIEMLMFGDGPNSMKKMLQNVESL 126 (132)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHH
Confidence 47778889999999999999999999986 55666778888888763
No 170
>PF03885 DUF327: Protein of unknown function (DUF327); InterPro: IPR005585 The proteins in this family are around 140-170 residues in length. The proteins contain many conserved residues, with the most conserved motifs found in the central and C-terminal region. The function of these proteins is unknown. ; PDB: 2P61_A 2QUP_A.
Probab=31.85 E-value=66 Score=23.45 Aligned_cols=29 Identities=24% Similarity=0.406 Sum_probs=22.9
Q ss_pred CCcchhhhhHHHHHHHHHHHHHHHHHHHH
Q 034008 23 GDTRGKHRIQAELKRLEQETRFLEEELEQ 51 (106)
Q Consensus 23 ~d~~GkhR~~ael~~LeqEi~fLeeEL~~ 51 (106)
-|.+|++|...-|+..++++.-|-++|=.
T Consensus 95 ~~~~g~~k~y~iV~~ID~kL~~L~~~ll~ 123 (147)
T PF03885_consen 95 WDRRGRQKVYTIVKVIDEKLDELTDELLS 123 (147)
T ss_dssp --H-HHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred CCccCCCceeeehHHHHHHHHHHHHHHHH
Confidence 37789999999999999999999877643
No 171
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=31.76 E-value=99 Score=21.23 Aligned_cols=27 Identities=19% Similarity=0.346 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHhhcchhHHHH
Q 034008 35 LKRLEQETRFLEEELEQLDKTEKASAA 61 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~LE~~~~aS~~ 61 (106)
++.|+.+++-.+-=+++|+++++...|
T Consensus 26 ~~~le~~~~E~~~v~~eL~~l~~d~~v 52 (110)
T TIGR02338 26 KQQVEAQLKEAEKALEELERLPDDTPV 52 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCcchh
Confidence 333444444444444455555544443
No 172
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=31.73 E-value=85 Score=25.31 Aligned_cols=28 Identities=32% Similarity=0.445 Sum_probs=24.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcch
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~ 56 (106)
++.+..+.+|.+|=.+|+.+|++|++..
T Consensus 115 ~~~~~~~e~l~~e~~~l~~rl~ql~~~~ 142 (232)
T KOG2483|consen 115 ATQQQDIEDLSRENRKLKARLEQLSLPQ 142 (232)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCcc
Confidence 4556788999999999999999999776
No 173
>smart00324 RhoGAP GTPase-activator protein for Rho-like GTPases. GTPase activator proteins towards Rho/Rac/Cdc42-like small GTPases. etter domain limits and outliers.
Probab=31.68 E-value=99 Score=21.72 Aligned_cols=24 Identities=17% Similarity=0.364 Sum_probs=18.4
Q ss_pred hHHHHHHHHHhhhhcCCCCCcccc
Q 034008 57 KASAACNETLRNVEAIPDPLLPIT 80 (106)
Q Consensus 57 ~aS~~CkEv~~~Ves~pDPLLP~t 80 (106)
.+..+|-=+-.|..+-||||+|..
T Consensus 55 ~~~~va~~lK~~Lr~Lp~pli~~~ 78 (174)
T smart00324 55 DVHDVAGLLKLFLRELPEPLIPYE 78 (174)
T ss_pred CHHHHHHHHHHHHHhCCCccCCHH
Confidence 444566668888889999999964
No 174
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=31.66 E-value=75 Score=22.33 Aligned_cols=25 Identities=16% Similarity=0.203 Sum_probs=16.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
-+...++.|+++|..|+.-++.|+.
T Consensus 83 ~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (127)
T TIGR02047 83 LLDEHISHVRARIIKLQALIEQLVD 107 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666777777777666666654
No 175
>PRK14629 hypothetical protein; Provisional
Probab=31.65 E-value=60 Score=22.94 Aligned_cols=25 Identities=8% Similarity=0.213 Sum_probs=21.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
++-+.+.+++++.-+|+||++.+=.
T Consensus 8 ~mkqaq~mQ~km~~~Q~eL~~~~ve 32 (99)
T PRK14629 8 FLKNMSSFKDNIDNIKKEISQIVVC 32 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHhccEEE
Confidence 6778899999999999999987633
No 176
>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=31.64 E-value=1.1e+02 Score=19.86 Aligned_cols=22 Identities=32% Similarity=0.596 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 034008 32 QAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE 53 (106)
+++++.|.+++.-+...+..|+
T Consensus 4 ~~~~~~l~~~l~~~~~q~~~l~ 25 (106)
T PF01920_consen 4 QNKFQELNQQLQQLEQQIQQLE 25 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444433
No 177
>PF04233 Phage_Mu_F: Phage Mu protein F like protein; InterPro: IPR006528 This domain is found exclusively in phage-related proteins, internally or toward the C terminus. Some of these proteins have been identified as being involved in phage head morphogenesis [, ].
Probab=31.60 E-value=45 Score=21.79 Aligned_cols=37 Identities=22% Similarity=0.539 Sum_probs=27.0
Q ss_pred hHHHHHHHHHhhhhcCCCCCccccCCCCCchhHHhhhCCCCCCCcccccC
Q 034008 57 KASAACNETLRNVEAIPDPLLPITNGPLNPLWDRWFERPKESRGCRCWIL 106 (106)
Q Consensus 57 ~aS~~CkEv~~~Ves~pDPLLP~t~gp~n~sWdRWfegp~~s~~c~cwil 106 (106)
.++..|+.+.-.+-...||+..... |..--+|||.++
T Consensus 76 rt~~~c~~l~G~~~~~~~~~~~~~~-------------pp~h~nCRC~~i 112 (112)
T PF04233_consen 76 RTRPICRALDGKIFPLDDPFWGSNY-------------PPEHPNCRCTVI 112 (112)
T ss_pred CCChHHHHHhcCcccCCCCCcCCCC-------------CCCCCCCeeeeC
Confidence 4566899998888888888755222 666688999874
No 178
>PHA03395 p10 fibrous body protein; Provisional
Probab=31.58 E-value=1.1e+02 Score=21.58 Aligned_cols=48 Identities=21% Similarity=0.406 Sum_probs=28.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh-----------cchhHHHHHHHHHhhhhc---CCCCCcc
Q 034008 31 IQAELKRLEQETRFLEEELEQLD-----------KTEKASAACNETLRNVEA---IPDPLLP 78 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE-----------~~~~aS~~CkEv~~~Ves---~pDPLLP 78 (106)
|.+.|+.+...+..||..++.|. +++.-+...-.+.+.|.. ...|-+|
T Consensus 9 Ir~dIkavd~KVdalQ~~V~~l~~nlpdv~~l~~kLdaq~~~Ltti~tkv~~I~diLnpdiP 70 (87)
T PHA03395 9 IRQDIKAVSDKVDALQAAVDDVRANLPDVTEINEKLDAQSASLDTISSAVDNITDILNPDIP 70 (87)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHhcCCcHHHHHHHHHhHHHHHHHHHHHHHHHHHccCCCCC
Confidence 56777888877777776666555 344445544555544444 4334444
No 179
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=31.43 E-value=73 Score=22.46 Aligned_cols=36 Identities=28% Similarity=0.385 Sum_probs=23.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcc-hhHHHHHHHHH
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKT-EKASAACNETL 66 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~-~~aS~~CkEv~ 66 (106)
.+++++.|.++..+|+.|++.|+.= +-.-.-|+.-+
T Consensus 62 ~~~e~~~L~~~~~~l~~ei~~L~dg~~~i~e~AR~~l 98 (117)
T COG2919 62 QQAELEKLSARNTALEAEIKDLKDGRDYIEERARSEL 98 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHh
Confidence 3567777888888888888888765 43333444333
No 180
>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=31.20 E-value=94 Score=16.84 Aligned_cols=20 Identities=30% Similarity=0.336 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 034008 34 ELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE 53 (106)
+-+.||-+..-|++|.+-+|
T Consensus 2 akk~lEa~~qkLe~e~q~~e 21 (21)
T PF02370_consen 2 AKKQLEADHQKLEAEKQISE 21 (21)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHhhcC
Confidence 34567777777777766543
No 181
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=31.13 E-value=60 Score=22.55 Aligned_cols=20 Identities=45% Similarity=0.720 Sum_probs=12.4
Q ss_pred hhhHHHHHHHHHHHHHHHHH
Q 034008 29 HRIQAELKRLEQETRFLEEE 48 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeE 48 (106)
.|+..++++|-||+..+|.|
T Consensus 89 s~le~~i~~L~qeiAl~e~~ 108 (115)
T PF10066_consen 89 SRLEEKIKRLAQEIALLEAE 108 (115)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 45556666677777666543
No 182
>PF03449 GreA_GreB_N: Transcription elongation factor, N-terminal; InterPro: IPR022691 Bacterial proteins greA and greB are necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. Arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked DNA/RNA/ polymerase ternary complexes. Cleavage of the nascent transcript by cleavage factors, such as greA or greB, allows the resumption of elongation from the new 3' terminus [, ]. Escherichia coli GreA and GreB are sequence homologues and have homologues in every known bacterial genome []. GreA induces cleavage two or three nucleotides behind the terminus and can only prevent the formation of arrested complexes while greB releases longer sequences up to eighteen nucleotides in length and can rescue preexisting arrested complexes. These functional differences correlate with a distinctive structural feature, the distribution of positively charged residues on one face of the N-terminal coiled coil. Remarkably, despite close functional similarity, the prokaryotic Gre factors have no sequence or structural similarity with eukaryotic TFIIS. ; GO: 0003677 DNA binding, 0032784 regulation of transcription elongation, DNA-dependent; PDB: 1GRJ_A 2EUL_C 3AOH_Y 3AOI_X 2F23_A 2ETN_C 2P4V_B.
Probab=31.09 E-value=1e+02 Score=20.33 Aligned_cols=26 Identities=35% Similarity=0.569 Sum_probs=15.8
Q ss_pred chhhhhHHHHHHHHH-HHHHHHHHHHH
Q 034008 26 RGKHRIQAELKRLEQ-ETRFLEEELEQ 51 (106)
Q Consensus 26 ~GkhR~~ael~~Leq-Ei~fLeeEL~~ 51 (106)
-|.++++++|+.|.+ +.-.+-++|..
T Consensus 9 ~g~~~L~~EL~~L~~~~rpe~~~~i~~ 35 (74)
T PF03449_consen 9 EGYEKLQAELEHLKNVERPEIAEEIAE 35 (74)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence 367777777777766 44444444443
No 183
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=30.93 E-value=91 Score=21.46 Aligned_cols=35 Identities=17% Similarity=0.146 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHhhcchhHHH------HHHHHHhhhhc
Q 034008 37 RLEQETRFLEEELEQLDKTEKASA------ACNETLRNVEA 71 (106)
Q Consensus 37 ~LeqEi~fLeeEL~~LE~~~~aS~------~CkEv~~~Ves 71 (106)
.++..++-|+....++|.++.+.. -=.+|..|+..
T Consensus 19 e~Q~rlK~Le~qk~E~EN~EIv~~VR~~~mtp~eL~~~L~~ 59 (83)
T PF14193_consen 19 ELQARLKELEAQKTEAENLEIVQMVRSMKMTPEELAAFLRA 59 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 334444445555555566555543 23455555543
No 184
>PRK00587 hypothetical protein; Provisional
Probab=30.85 E-value=64 Score=22.77 Aligned_cols=23 Identities=17% Similarity=0.406 Sum_probs=20.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh
Q 034008 31 IQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE 53 (106)
++...+.+++++.-+|+||...|
T Consensus 6 lmkqaqkmQ~km~~~QeeL~~~~ 28 (99)
T PRK00587 6 LAQQLKKMQNTMEKKQKEFEEKE 28 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHhccE
Confidence 56678899999999999999887
No 185
>PF03087 DUF241: Arabidopsis protein of unknown function; InterPro: IPR004320 This family represents plant proteins of unknown function.
Probab=30.74 E-value=78 Score=24.68 Aligned_cols=26 Identities=35% Similarity=0.336 Sum_probs=17.3
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~L 52 (106)
.....+..|..||.-|.-||++|+.|
T Consensus 192 ~~~~~~~~Le~LE~~Ie~lE~glE~v 217 (231)
T PF03087_consen 192 EVQNAQKRLEELEECIEELEEGLECV 217 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666777777777777766654
No 186
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=30.65 E-value=90 Score=20.74 Aligned_cols=24 Identities=29% Similarity=0.353 Sum_probs=18.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+.+.|.++...|.-||..|..||.
T Consensus 55 q~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 55 QKAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345677778888888888888874
No 187
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=30.61 E-value=1e+02 Score=20.93 Aligned_cols=22 Identities=27% Similarity=0.391 Sum_probs=9.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHh
Q 034008 31 IQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~L 52 (106)
+...++.|+++|.-|+.-++.|
T Consensus 84 l~~~~~~l~~~i~~l~~~~~~l 105 (113)
T cd01109 84 LEEHREELEEQIAELQETLAYL 105 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444433
No 188
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=30.47 E-value=85 Score=21.89 Aligned_cols=24 Identities=33% Similarity=0.487 Sum_probs=13.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+..+++.|+++|..|++-++.|+.
T Consensus 85 l~~~~~~l~~~~~~l~~~~~~L~~ 108 (118)
T cd04776 85 IEKRRAELEQQRRDIDAALAELDA 108 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555666666666655555543
No 189
>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=30.43 E-value=64 Score=23.46 Aligned_cols=26 Identities=46% Similarity=0.702 Sum_probs=14.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
|.+.+++.+++.+.-|++||.++++.
T Consensus 78 ~~~~e~~~~~~~l~~l~~el~~l~~~ 103 (191)
T PF04156_consen 78 RLQGELSELQQQLQQLQEELDQLQER 103 (191)
T ss_pred hhhhhHHhHHHHHHHHHHHHHHHHHH
Confidence 34445666666666666665555443
No 190
>PRK10697 DNA-binding transcriptional activator PspC; Provisional
Probab=30.32 E-value=1e+02 Score=22.47 Aligned_cols=25 Identities=16% Similarity=0.286 Sum_probs=20.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
.-.+.+.+++++.+.+|.-|.++|.
T Consensus 78 s~~~~l~~~~~~~~~~e~Rlr~mE~ 102 (118)
T PRK10697 78 SSSELLDEVDRELAAGEQRLREMER 102 (118)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445689999999999999988885
No 191
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=30.23 E-value=68 Score=24.89 Aligned_cols=32 Identities=25% Similarity=0.262 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchhHHHHHHH
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEKASAACNE 64 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkE 64 (106)
..+..|.+|...|++|+.+|+.....-..+++
T Consensus 69 ~~~~~l~~en~~L~~e~~~l~~~~~~~~~l~~ 100 (276)
T PRK13922 69 ASLFDLREENEELKKELLELESRLQELEQLEA 100 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666666555444433333
No 192
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=30.20 E-value=80 Score=22.70 Aligned_cols=26 Identities=19% Similarity=0.220 Sum_probs=17.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
..+..++..|+++|..|+...+.|+.
T Consensus 82 ~~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (135)
T PRK10227 82 RRTLEKVAEIERHIEELQSMRDQLLA 107 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566677777777777777666654
No 193
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=30.12 E-value=1.5e+02 Score=18.97 Aligned_cols=39 Identities=23% Similarity=0.361 Sum_probs=26.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhHHH-----HHHHHHhh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKASA-----ACNETLRN 68 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~-----~CkEv~~~ 68 (106)
.++.+|.+++..+..+++.+..||.-..+.. .|+.+...
T Consensus 3 ~i~e~l~~ie~~l~~~~~~i~~lE~~~~~~e~~i~~~~~~l~~I 46 (71)
T PF10779_consen 3 DIKEKLNRIETKLDNHEERIDKLEKRDAANEKDIKNLNKQLEKI 46 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567788888888888888888877655543 45554443
No 194
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=30.05 E-value=62 Score=30.50 Aligned_cols=22 Identities=55% Similarity=0.613 Sum_probs=15.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHh
Q 034008 30 RIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~L 52 (106)
+.||.++ |+..|+-|||||+.+
T Consensus 348 ~kqak~K-lee~i~elEEElk~~ 369 (832)
T KOG2077|consen 348 VKQAKLK-LEEKIRELEEELKKA 369 (832)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHH
Confidence 4555554 677888888888865
No 195
>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=29.98 E-value=74 Score=24.61 Aligned_cols=14 Identities=50% Similarity=0.648 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHHHH
Q 034008 33 AELKRLEQETRFLE 46 (106)
Q Consensus 33 ael~~LeqEi~fLe 46 (106)
+++..|++|+..|+
T Consensus 56 ~e~~~l~~e~e~L~ 69 (251)
T PF11932_consen 56 AEYRQLEREIENLE 69 (251)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 196
>COG1722 XseB Exonuclease VII small subunit [DNA replication, recombination, and repair]
Probab=29.85 E-value=53 Score=22.43 Aligned_cols=39 Identities=26% Similarity=0.366 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcC
Q 034008 34 ELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAI 72 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~ 72 (106)
=|++||+-.--|++=|+.+|.--..++-|++.+.-++.+
T Consensus 22 IV~~LE~Gel~Le~sl~~~erG~~L~k~c~~~L~~Ae~~ 60 (81)
T COG1722 22 IVESLESGELPLEEALKEFERGMALYKECQEKLQQAEQR 60 (81)
T ss_pred HHHHHHcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666666677888999999999999999988876643
No 197
>PF14357 DUF4404: Domain of unknown function (DUF4404)
Probab=29.80 E-value=89 Score=21.14 Aligned_cols=34 Identities=24% Similarity=0.246 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHhhcchhHHH-HHHHHHhhhhc
Q 034008 38 LEQETRFLEEELEQLDKTEKASA-ACNETLRNVEA 71 (106)
Q Consensus 38 LeqEi~fLeeEL~~LE~~~~aS~-~CkEv~~~Ves 71 (106)
|.+++.-|.+||.+...+++..+ .-+++.+-++.
T Consensus 2 L~~~L~~L~~eL~~~~~ld~~~~~~L~~l~~dIe~ 36 (85)
T PF14357_consen 2 LQELLEKLHQELEQNPPLDEETRAELSSLDDDIEA 36 (85)
T ss_pred HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence 66777788888888888888777 56666665554
No 198
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=29.76 E-value=89 Score=22.02 Aligned_cols=23 Identities=26% Similarity=0.452 Sum_probs=18.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHH
Q 034008 29 HRIQAELKRLEQETRFLEEELEQ 51 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~ 51 (106)
.+++++++.|.+|+..|+-+|+.
T Consensus 52 ~~L~~e~~~l~~E~e~L~~~l~~ 74 (87)
T PF12709_consen 52 DELENENKALKRENEQLKKKLDT 74 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788899999999998887753
No 199
>cd04789 HTH_Cfa Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator. Putative helix-turn-helix (HTH) MerR-like transcription regulator; the N-terminal domain of Cfa, a cyclopropane fatty acid synthase and other related methyltransferases. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=29.75 E-value=94 Score=21.02 Aligned_cols=24 Identities=13% Similarity=0.145 Sum_probs=12.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~L 52 (106)
..+...++.|+++|..|+.-.+.|
T Consensus 74 ~~l~~~~~~l~~~i~~l~~~~~~l 97 (102)
T cd04789 74 SLLLERLSSLAEQIARKQQARDLL 97 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555444443
No 200
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=29.36 E-value=97 Score=22.83 Aligned_cols=24 Identities=33% Similarity=0.570 Sum_probs=16.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE 53 (106)
.+-.+|+.|+++...|+++|++|.
T Consensus 81 ~Le~ri~tLekQe~~l~e~l~eLq 104 (119)
T COG1382 81 TLELRIKTLEKQEEKLQERLEELQ 104 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445567777777777777777664
No 201
>smart00434 TOP4c DNA Topoisomerase IV. Bacterial DNA topoisomerase IV, GyrA, ParC
Probab=29.25 E-value=55 Score=28.17 Aligned_cols=26 Identities=38% Similarity=0.580 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchhH
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEKA 58 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~a 58 (106)
.++..|++|+.-|++|+++|+++-+.
T Consensus 415 ~e~~kL~~e~~~l~~ei~~l~~~l~~ 440 (445)
T smart00434 415 LEVEKLEKELKELEKEIEDLEKILAS 440 (445)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 46788999999999999999887543
No 202
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=29.22 E-value=1.1e+02 Score=19.89 Aligned_cols=23 Identities=17% Similarity=0.504 Sum_probs=12.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh
Q 034008 31 IQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE 53 (106)
+...|..+..|+.-|.++++.++
T Consensus 12 ~~~~i~tvk~en~~i~~~ve~i~ 34 (55)
T PF05377_consen 12 IESSINTVKKENEEISESVEKIE 34 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445555555555555555554
No 203
>PF08618 Opi1: Transcription factor Opi1; InterPro: IPR013927 Opi1 is a leucine zipper containing yeast transcription factor that negatively regulates phospholipid biosynthesis []. It represses the expression of several UAS(INO) cis acting element containing genes and its activity is mediated by phosphorylations catalysed by protein kinase A, protein kinase C and casein kinase II [].
Probab=29.21 E-value=1.4e+02 Score=26.18 Aligned_cols=24 Identities=17% Similarity=0.488 Sum_probs=20.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
++.+-.+|++.|.||++-|++.|.
T Consensus 240 Lr~AN~~i~~~i~~Lq~~l~e~e~ 263 (427)
T PF08618_consen 240 LRLANAHIDSKINFLQDVLEEYER 263 (427)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 445667899999999999999994
No 204
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=29.01 E-value=1.1e+02 Score=26.85 Aligned_cols=27 Identities=41% Similarity=0.553 Sum_probs=18.3
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
..+++.+++.+++++..+++||+++-.
T Consensus 217 l~~l~~~l~~l~~~~~~~~~~l~~~~~ 243 (646)
T PRK05771 217 IREIKEELEEIEKERESLLEELKELAK 243 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666777777777777777776554
No 205
>COG3599 DivIVA Cell division initiation protein [Cell division and chromosome partitioning]
Probab=28.88 E-value=87 Score=24.81 Aligned_cols=27 Identities=30% Similarity=0.378 Sum_probs=23.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
+.++.+++.|+++|..|+++|+.....
T Consensus 40 e~~l~e~~~l~~~i~~L~~~l~~~~~~ 66 (212)
T COG3599 40 EQLLDENEDLEDEIDELKEELKEAADA 66 (212)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 567788999999999999999988876
No 206
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=28.87 E-value=1e+02 Score=21.90 Aligned_cols=18 Identities=28% Similarity=0.617 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHhhc
Q 034008 37 RLEQETRFLEEELEQLDK 54 (106)
Q Consensus 37 ~LeqEi~fLeeEL~~LE~ 54 (106)
.|++||.+-+++|++||.
T Consensus 80 kl~~e~~~~~k~i~~le~ 97 (100)
T PF04568_consen 80 KLKEEIEHHRKEIDELEK 97 (100)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345566668888888874
No 207
>PRK14621 hypothetical protein; Provisional
Probab=28.84 E-value=73 Score=22.83 Aligned_cols=25 Identities=12% Similarity=0.279 Sum_probs=20.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
.-++-+.+++++++.-+|+||+..+
T Consensus 7 ~~mmkqaq~mQ~km~~~Q~eL~~~~ 31 (111)
T PRK14621 7 GDMMKQIQQAGEKMQDVQKQLEKLV 31 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccE
Confidence 3466788899999999999998865
No 208
>PRK14627 hypothetical protein; Provisional
Probab=28.78 E-value=72 Score=22.28 Aligned_cols=23 Identities=13% Similarity=0.235 Sum_probs=19.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh
Q 034008 31 IQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE 53 (106)
++...|.+++++.-+|+||+..+
T Consensus 6 ~mkqaq~mQ~km~~~Q~el~~~~ 28 (100)
T PRK14627 6 LMQMAQQMQRQMQKVQEELAATI 28 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHhccE
Confidence 55678889999999999999876
No 209
>PRK11637 AmiB activator; Provisional
Probab=28.65 E-value=77 Score=26.34 Aligned_cols=22 Identities=23% Similarity=0.425 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 034008 32 QAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE 53 (106)
+.+|+.++++|.-|+++|+.++
T Consensus 95 ~~~i~~~~~ei~~l~~eI~~~q 116 (428)
T PRK11637 95 QNTLNQLNKQIDELNASIAKLE 116 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555555444
No 210
>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=28.63 E-value=89 Score=20.16 Aligned_cols=42 Identities=14% Similarity=0.313 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc--------hhHHHHHHHHHhhhhcCC
Q 034008 32 QAELKRLEQETRFLEEELEQLDKT--------EKASAACNETLRNVEAIP 73 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~--------~~aS~~CkEv~~~Ves~p 73 (106)
.+.|..||-.+.|+++-+++|..+ +.--+-++-|.+-+.+..
T Consensus 3 e~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 3 EERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 455666777777777666666532 333345555555555444
No 211
>PF05873 Mt_ATP-synt_D: ATP synthase D chain, mitochondrial (ATP5H); InterPro: IPR008689 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit D from the F0 complex in F-ATPases found in mitochondria. The D subunit is part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. There is no homologue of subunit D in bacterial or chloroplast F-ATPase, whose peripheral stalks are composed of one copy of the delta subunit (homologous to OSCP), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2CLY_E 2WSS_U.
Probab=28.40 E-value=85 Score=23.53 Aligned_cols=29 Identities=14% Similarity=0.134 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcchhHHH
Q 034008 32 QAELKRLEQETRFLEEELEQLDKTEKASA 60 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~~~aS~ 60 (106)
..-++..+.+|.-|+.||+.++.+-|...
T Consensus 102 ~~~~~~s~~~i~~l~keL~~i~~~~P~e~ 130 (161)
T PF05873_consen 102 KEFEAESKKRIAELEKELANIESARPFEQ 130 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHT-------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCChHh
Confidence 34456677889999999999999888765
No 212
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=28.39 E-value=1.3e+02 Score=22.22 Aligned_cols=33 Identities=21% Similarity=0.406 Sum_probs=20.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHH
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKTEKASAACN 63 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~Ck 63 (106)
+....+.|+.+++-.+.=|++||+++.-..+-|
T Consensus 25 ~~~qk~~le~qL~E~~~al~Ele~l~eD~~vYk 57 (119)
T COG1382 25 VILQKQQLEAQLKEIEKALEELEKLDEDAPVYK 57 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCcccHHHH
Confidence 344556666777777777777777776554433
No 213
>PRK14622 hypothetical protein; Provisional
Probab=28.36 E-value=80 Score=22.19 Aligned_cols=25 Identities=20% Similarity=0.313 Sum_probs=21.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
..++.+.|.+++++.-+|+||+..+
T Consensus 4 ~~lmkqaq~mQ~~m~~~q~el~~~~ 28 (103)
T PRK14622 4 QYLMRQAKKLEKAMADAKEKLAEIA 28 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccE
Confidence 3567788999999999999999875
No 214
>PF11464 Rbsn: Rabenosyn Rab binding domain; InterPro: IPR021565 Rabenosyn-5 (Rbsn) is a multivalent effector with interacts with the Rab family.Rsbn contains distinct Rab4 and Rab5 binding sites within residues 264-500 and 627-784 respectively []. Rab proteins are GTPases involved in the regulation of all stages of membrane trafficking []. ; PDB: 1Z0K_B 1YZM_A 1Z0J_B.
Probab=28.36 E-value=1.1e+02 Score=18.86 Aligned_cols=23 Identities=30% Similarity=0.469 Sum_probs=16.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHH
Q 034008 29 HRIQAELKRLEQETRFLEEELEQ 51 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~ 51 (106)
.|..-||..|+.-++-|++|++.
T Consensus 18 ~~r~dEV~~L~~NL~EL~~e~~~ 40 (42)
T PF11464_consen 18 ARRFDEVATLEENLRELQDEIDE 40 (42)
T ss_dssp TT-HHHHHHHHHHHHHHHHHHHH
T ss_pred hcCcHHHHHHHHHHHHHHHHHHh
Confidence 45566788888888888887764
No 215
>COG0718 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.29 E-value=82 Score=22.67 Aligned_cols=28 Identities=21% Similarity=0.413 Sum_probs=22.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEK 57 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~ 57 (106)
-+....+++++++.-+|+||.+.|=...
T Consensus 9 ~l~kqaqqmQ~~~~~~Q~ela~~ev~g~ 36 (105)
T COG0718 9 KLMKQAQQMQKKMQKMQEELAQKEVTGK 36 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcEEeee
Confidence 4567889999999999999998874443
No 216
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=28.23 E-value=94 Score=21.65 Aligned_cols=25 Identities=20% Similarity=0.312 Sum_probs=15.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
.++..++.|+++|..|+.-++.|+.
T Consensus 83 ~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (127)
T TIGR02044 83 RTLEKVAEIERKISELQSMRDQLEA 107 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555666667777666666666554
No 217
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=28.20 E-value=96 Score=21.17 Aligned_cols=20 Identities=20% Similarity=0.275 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHhhcc
Q 034008 36 KRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 36 ~~LeqEi~fLeeEL~~LE~~ 55 (106)
+.|++++..|+++++.|..+
T Consensus 82 ~~l~~~~~~l~~~i~~l~~~ 101 (123)
T cd04770 82 ALLEEKLAEVEAKIAELQAL 101 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555554443
No 218
>COG2456 Uncharacterized conserved protein [Function unknown]
Probab=28.16 E-value=79 Score=23.68 Aligned_cols=22 Identities=23% Similarity=0.439 Sum_probs=18.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHH
Q 034008 29 HRIQAELKRLEQETRFLEEELE 50 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~ 50 (106)
-|+-+.++++||||..|--|+.
T Consensus 89 frlYl~IdkiereITelvreIA 110 (121)
T COG2456 89 FRLYLDIDKIEREITELVREIA 110 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4788889999999988887764
No 219
>PF11855 DUF3375: Protein of unknown function (DUF3375); InterPro: IPR021804 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 479 to 499 amino acids in length.
Probab=27.90 E-value=74 Score=27.41 Aligned_cols=22 Identities=23% Similarity=0.495 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 034008 33 AELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~ 54 (106)
..|..|++||.-|+.||+.|+-
T Consensus 144 ~Ri~~Le~e~~~i~~EI~~l~a 165 (478)
T PF11855_consen 144 RRIAELEREIAEIDAEIDRLEA 165 (478)
T ss_pred HHHHHHHHHHHHHHHHHHHHHC
Confidence 4577889999999999988864
No 220
>PF07303 Occludin_ELL: Occludin homology domain; InterPro: IPR010844 This represents a conserved region approximately 100 residues long within eukaryotic occludin proteins and the RNA polymerase II elongation factor ELL. Occludin is an integral membrane protein that localises to tight junctions [], while ELL is an elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by polymerase at multiple sites along the DNA []. This shared domain is thought to mediate protein interactions [].; PDB: 1WPA_A 3G7C_A 1XAW_A.
Probab=27.89 E-value=1e+02 Score=21.49 Aligned_cols=26 Identities=23% Similarity=0.410 Sum_probs=21.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
++++|+|....+...-|+.+|+.|-.
T Consensus 25 k~L~~~v~~v~~~f~~L~~~l~~l~~ 50 (101)
T PF07303_consen 25 KELHAEVDAVSRRFQELDSELKRLPP 50 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHS-T
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 57889999999999999999988765
No 221
>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=27.88 E-value=98 Score=24.03 Aligned_cols=24 Identities=25% Similarity=0.504 Sum_probs=17.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHH
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQ 51 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~ 51 (106)
|-.+..||.++|.||..|..-|-.
T Consensus 31 ~eeLr~EL~KvEeEI~TLrqvL~a 54 (162)
T PF04201_consen 31 REELRSELAKVEEEIQTLRQVLAA 54 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566778888888888888765433
No 222
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=27.77 E-value=1.1e+02 Score=20.88 Aligned_cols=27 Identities=15% Similarity=0.320 Sum_probs=17.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
..++.++..|+++|..|+..+.+++..
T Consensus 9 ~ql~~~i~~l~~~i~~l~~~i~e~~~~ 35 (126)
T TIGR00293 9 QILQQQVESLQAQIAALRALIAELETA 35 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666777777777766666665554
No 223
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=27.56 E-value=65 Score=23.37 Aligned_cols=18 Identities=28% Similarity=0.505 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHhhc
Q 034008 37 RLEQETRFLEEELEQLDK 54 (106)
Q Consensus 37 ~LeqEi~fLeeEL~~LE~ 54 (106)
.+..||.-||++|+++|.
T Consensus 7 ~I~~eI~kLqe~lk~~e~ 24 (98)
T PRK13848 7 KIREEIAKLQEQLKQAET 24 (98)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 456677777777777764
No 224
>PF13864 Enkurin: Calmodulin-binding
Probab=27.43 E-value=1.1e+02 Score=20.60 Aligned_cols=33 Identities=36% Similarity=0.461 Sum_probs=21.1
Q ss_pred CCCCCCcchhhhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 19 LTGSGDTRGKHRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 19 ~~~~~d~~GkhR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
.|-..|+.++.+.. ..||+++.-||+-++-|++
T Consensus 63 lp~~~DT~~~~~rK---~~lE~~L~qlE~dI~~lsr 95 (98)
T PF13864_consen 63 LPFSIDTLRKKRRK---EELEKELKQLEKDIKKLSR 95 (98)
T ss_pred CCcccCCHHHHHHH---HHHHHHHHHHHHHHHHHcc
Confidence 33446777777643 4567777777777666654
No 225
>PF02097 Filo_VP35: Filoviridae VP35; InterPro: IPR002953 The filoviridae are a group of viruses that cause haemorrhagic fevers with a high mortality rate. The family currently contains three viruses: Ebola virus sp., Lake Victoria marburgvirus and Reston ebolavirus, named after their corresponding outbreak regions. They possess negative-stranded RNA genomes, which encode at least 7 proteins. The VP35 protein is found in the genomes of all filoviruses. Its function is presently unknown, but it is thought to share the function of the phosphorylated proteins (polymerase subunits) of rhabdoviruses and paramyxoviruses due to its position in the genome. There is no evidence however, to suggest that VP35 is phosphorylated [].; PDB: 3KS8_D 3L2A_A 3KS4_A 3L28_E 3L25_D 3FKE_B 3L26_A 3L27_D 3L29_B.
Probab=27.36 E-value=21 Score=30.47 Aligned_cols=52 Identities=23% Similarity=0.370 Sum_probs=0.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcchhH----HHHHHHHHhhhhcCCCCCccccCCCCC
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTEKA----SAACNETLRNVEAIPDPLLPITNGPLN 85 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~~a----S~~CkEv~~~Ves~pDPLLP~t~gp~n 85 (106)
.|....++.|++.+..||.-|+.+-+|... ++.|-||+.- -| |||+|.|+.-
T Consensus 79 ~kQ~~~~e~L~~~l~~ie~~Lqpv~~M~~~i~~L~~~~sEmvAK----yd-~LvmttGrAT 134 (321)
T PF02097_consen 79 EKQIVTMESLEARLTEIEAQLQPVLSMSKTISSLNRSCSEMVAK----YD-LLVMTTGRAT 134 (321)
T ss_dssp -------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHH----hc-eeeeecCCcc
Confidence 355667788888888888888888776543 4578887754 33 7899999873
No 226
>PF12017 Tnp_P_element: Transposase protein; InterPro: IPR021896 Protein in this family are transposases found in insects. This region is about 230 amino acids in length and is found associated with PF05485 from PFAM.
Probab=27.34 E-value=1.7e+02 Score=23.42 Aligned_cols=26 Identities=35% Similarity=0.569 Sum_probs=14.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
|.+..+...|..+|+-|+.++++|..
T Consensus 14 ~~~~~e~~~Lk~kir~le~~l~~Lk~ 39 (236)
T PF12017_consen 14 RTLKIENKKLKKKIRRLEKELKKLKQ 39 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555566666666666655543
No 227
>PRK14625 hypothetical protein; Provisional
Probab=27.33 E-value=78 Score=22.71 Aligned_cols=24 Identities=8% Similarity=0.129 Sum_probs=20.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE 53 (106)
-++.+.|.+++++.-+|+||+..+
T Consensus 6 ~mmkqaq~mQ~km~~~Q~el~~~~ 29 (109)
T PRK14625 6 GLMKQAQAMQQKLADAQARLAETT 29 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccE
Confidence 356678889999999999999877
No 228
>PRK00295 hypothetical protein; Provisional
Probab=27.26 E-value=93 Score=20.27 Aligned_cols=25 Identities=16% Similarity=0.488 Sum_probs=16.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
+.+.|..||-.+.|+|+-+++|..+
T Consensus 3 ~e~Ri~~LE~kla~qE~tie~Ln~~ 27 (68)
T PRK00295 3 LEERVTELESRQAFQDDTIQALNDV 27 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456777787888887766666543
No 229
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=27.18 E-value=1.2e+02 Score=20.25 Aligned_cols=20 Identities=40% Similarity=0.604 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 034008 34 ELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE 53 (106)
..+.|.+....|++++++|+
T Consensus 74 ~~~~l~~~~~~l~~~i~~l~ 93 (103)
T cd01106 74 LLEALREQKELLEEKKERLD 93 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666654
No 230
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=27.08 E-value=1.2e+02 Score=20.80 Aligned_cols=25 Identities=16% Similarity=0.308 Sum_probs=16.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
-++..++.|+++|..|++.++.|+.
T Consensus 83 ~l~~~~~~l~~~i~~l~~~~~~l~~ 107 (116)
T cd04769 83 ALEDKKQEIRAQITELQQLLARLDA 107 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555666677777777766666654
No 231
>KOG3251 consensus Golgi SNAP receptor complex member [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.07 E-value=1.4e+02 Score=24.19 Aligned_cols=37 Identities=22% Similarity=0.294 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHhhcch---hHHHHHHHHHhhhhc
Q 034008 35 LKRLEQETRFLEEELEQLDKTE---KASAACNETLRNVEA 71 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~LE~~~---~aS~~CkEv~~~Ves 71 (106)
.+.-++++.-+|..|..+|++. .+++.|.++..+|..
T Consensus 5 y~~t~~~~~k~q~~l~rlE~~~~~~e~~~v~~~i~~sI~~ 44 (213)
T KOG3251|consen 5 YQSTNRQLDKLQRGLIRLERTIKTQEVSAVENSIQRSIDQ 44 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHccccccchHHHHHHHHHhHHH
Confidence 4555666666777777777654 588999998877754
No 232
>PF14265 DUF4355: Domain of unknown function (DUF4355)
Probab=26.95 E-value=1.6e+02 Score=20.22 Aligned_cols=35 Identities=34% Similarity=0.401 Sum_probs=29.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHH
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKASAACNE 64 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkE 64 (106)
+-+.+++.++.++.-|+.++...+-...+...+.|
T Consensus 46 k~~~e~~~~~~el~~~~~e~~~~e~~~~~~~~l~e 80 (125)
T PF14265_consen 46 KAQEELEELEKELEELEAELARRELRSEAKKVLAE 80 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45578899999999999999998888888887765
No 233
>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=26.95 E-value=1e+02 Score=25.20 Aligned_cols=24 Identities=42% Similarity=0.661 Sum_probs=10.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE 53 (106)
++.++|..|++|-.-|..||.+|+
T Consensus 61 ~l~~eL~~LE~e~~~l~~el~~le 84 (314)
T PF04111_consen 61 ELLQELEELEKEREELDQELEELE 84 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444433
No 234
>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=26.56 E-value=1.7e+02 Score=24.70 Aligned_cols=47 Identities=23% Similarity=0.165 Sum_probs=37.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCC
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPD 74 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 74 (106)
.||+..=.++.+-++.-++++|+-|+|+-.|-.-.+++...+.+.-|
T Consensus 314 ~~R~~~~~kR~~~~l~kl~~~l~il~gl~~~~~~idfIi~vI~~s~~ 360 (426)
T PF00521_consen 314 EFRLEYYQKRKQYLLEKLEERLHILEGLIKALNKIDFIIEVIRGSID 360 (426)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHSSS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccc
Confidence 57888888888888888889999999888887777777777766544
No 235
>COG4550 Predicted membrane protein [Function unknown]
Probab=26.51 E-value=1.4e+02 Score=22.36 Aligned_cols=25 Identities=32% Similarity=0.380 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhcchhH
Q 034008 34 ELKRLEQETRFLEEELEQLDKTEKA 58 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~~~a 58 (106)
++++-+..|..||+||+.+-=++.-
T Consensus 65 Alkqses~i~~le~ei~~~PlVeef 89 (120)
T COG4550 65 ALKQSESKIDELEAEIDHLPLVEEF 89 (120)
T ss_pred HHHHHHHHHHHHHHHHhcCchHHHH
Confidence 6677777777777777766444333
No 236
>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=26.41 E-value=81 Score=22.92 Aligned_cols=26 Identities=23% Similarity=0.279 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhcchhHH
Q 034008 34 ELKRLEQETRFLEEELEQLDKTEKAS 59 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~~~aS 59 (106)
|-+.|...|.|||.|.+.+|.+...=
T Consensus 26 ERaEmkarIa~LEGE~r~~e~l~~dL 51 (134)
T PF08232_consen 26 ERAEMKARIAFLEGERRGQENLKKDL 51 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445566777777777777766544
No 237
>PRK09039 hypothetical protein; Validated
Probab=26.39 E-value=87 Score=25.91 Aligned_cols=20 Identities=20% Similarity=0.312 Sum_probs=7.8
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 034008 31 IQAELKRLEQETRFLEEELE 50 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~ 50 (106)
++++|.-++++..-.+..|+
T Consensus 156 le~~L~~ae~~~~~~~~~i~ 175 (343)
T PRK09039 156 LEAALDASEKRDRESQAKIA 175 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444443333333333
No 238
>PF14965 BRI3BP: Negative regulator of p53/TP53
Probab=26.38 E-value=84 Score=24.80 Aligned_cols=19 Identities=26% Similarity=0.457 Sum_probs=16.3
Q ss_pred hhhHHHHHHHHHHHHHHHH
Q 034008 29 HRIQAELKRLEQETRFLEE 47 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLee 47 (106)
+++-++|+.||+||+.|+-
T Consensus 155 ~~LE~kv~~LE~qvr~L~~ 173 (177)
T PF14965_consen 155 ASLEAKVRHLERQVRELNI 173 (177)
T ss_pred ccHHHHHHHHHHHHHHHHH
Confidence 8899999999999988764
No 239
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=26.34 E-value=72 Score=30.50 Aligned_cols=31 Identities=39% Similarity=0.578 Sum_probs=25.2
Q ss_pred cchhhhhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 25 TRGKHRIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 25 ~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
+-|.=-..+++.+|+.|+..|+.|++.+++.
T Consensus 806 l~~~id~~~e~~rl~k~~~k~~~e~~~~~~k 836 (877)
T COG0525 806 LAGLIDLAAELARLEKELEKLEKEIDRIEKK 836 (877)
T ss_pred ccchhhHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence 4455567789999999999999999988754
No 240
>PF07028 DUF1319: Protein of unknown function (DUF1319); InterPro: IPR010746 This entry is represented by Commelina yellow mottle virus, Orf1. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family contains a number of viral proteins of unknown function approximately 200 residues long. Family members seem to be restricted to badnaviruses.
Probab=26.18 E-value=96 Score=23.26 Aligned_cols=23 Identities=48% Similarity=0.655 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q 034008 32 QAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
.++|+.|+.++.-|++||..|..
T Consensus 59 r~~l~~l~~~l~~l~~eL~~Lr~ 81 (126)
T PF07028_consen 59 RSELKELKQELDVLSKELQALRK 81 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45588899999999999988864
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=26.18 E-value=1.1e+02 Score=23.21 Aligned_cols=33 Identities=39% Similarity=0.441 Sum_probs=23.3
Q ss_pred cchhhhhHHH--HHHHHHHHHHHHHHHHHhhcchh
Q 034008 25 TRGKHRIQAE--LKRLEQETRFLEEELEQLDKTEK 57 (106)
Q Consensus 25 ~~GkhR~~ae--l~~LeqEi~fLeeEL~~LE~~~~ 57 (106)
|.-+..++++ ...|+.+|..|++|+++|+.-..
T Consensus 110 f~~rk~l~~e~~~~~l~~~i~~L~~e~~~L~~~~~ 144 (189)
T PF10211_consen 110 FGMRKALQAEQGKQELEEEIEELEEEKEELEKQVQ 144 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334555554 57888899999999988876543
No 242
>PF14735 HAUS4: HAUS augmin-like complex subunit 4
Probab=26.14 E-value=1.1e+02 Score=24.46 Aligned_cols=32 Identities=19% Similarity=0.299 Sum_probs=27.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHH
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKAS 59 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS 59 (106)
+..+.++++.++++..-.+.+|++.|++++.=
T Consensus 180 r~~L~~~~~~~e~~~~~a~~~L~~Ye~lg~~F 211 (238)
T PF14735_consen 180 RDHLEEAIEELEQELQKARQRLESYEGLGPEF 211 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccHhH
Confidence 34577889999999999999999999999863
No 243
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=25.79 E-value=72 Score=30.34 Aligned_cols=26 Identities=23% Similarity=0.438 Sum_probs=16.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
.|+.+++++|+.|+.-++.+|...+.
T Consensus 845 ~rLekel~kl~Kel~kl~~~L~n~~f 870 (1052)
T PRK14900 845 ARVDKEIGKVDQDLAVLERKLQNPSF 870 (1052)
T ss_pred hhHHHHHHHHHHHHHHHHHHhcCchh
Confidence 46666666666666666666666554
No 244
>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=25.76 E-value=1.4e+02 Score=20.25 Aligned_cols=22 Identities=36% Similarity=0.646 Sum_probs=10.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 034008 30 RIQAELKRLEQETRFLEEELEQ 51 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~ 51 (106)
++.+.++.++.+..-|.++|..
T Consensus 84 ~L~~~l~~l~~eN~~L~~~i~~ 105 (109)
T PF03980_consen 84 QLNARLQELEEENEALAEEIQE 105 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444455555555554444
No 245
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=25.75 E-value=1.5e+02 Score=17.57 Aligned_cols=27 Identities=26% Similarity=0.455 Sum_probs=21.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
-||+.++..+|.+.-..|+--|++|-+
T Consensus 3 EqkL~sekeqLrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 3 EQKLISEKEQLRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 378899999999988888888888754
No 246
>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=25.60 E-value=2e+02 Score=24.11 Aligned_cols=48 Identities=33% Similarity=0.446 Sum_probs=30.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhH----HHHHHHHHhhhhcCCCC
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKA----SAACNETLRNVEAIPDP 75 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~a----S~~CkEv~~~Ves~pDP 75 (106)
|..+..++..+..||..|+++-..||+.=.+ -.+|+|-+..=+.++.+
T Consensus 59 k~eL~~~l~~~~~Ei~~L~~~K~~le~aL~~~~~pl~i~~ecL~~R~~R~~~ 110 (384)
T PF03148_consen 59 KNELERELEELDEEIDLLEEEKRRLEKALEALRKPLSIAQECLSLREKRPGI 110 (384)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHhCCCCc
Confidence 4455666777777777777776666554333 33677777776666654
No 247
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=25.54 E-value=1e+02 Score=23.97 Aligned_cols=26 Identities=31% Similarity=0.464 Sum_probs=17.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
++.-|.+.|++|+.-|+.+++.|++-
T Consensus 101 ~~~~e~~~l~~e~~~l~~~~e~Le~e 126 (161)
T TIGR02894 101 ALQKENERLKNQNESLQKRNEELEKE 126 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556677777777777777777653
No 248
>PF08655 DASH_Ask1: DASH complex subunit Ask1; InterPro: IPR013964 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=25.51 E-value=57 Score=21.80 Aligned_cols=17 Identities=35% Similarity=0.649 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHH
Q 034008 35 LKRLEQETRFLEEELEQ 51 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~ 51 (106)
|.+|+|||.++=.|+++
T Consensus 1 lE~ldQ~iTl~LQeID~ 17 (66)
T PF08655_consen 1 LEQLDQEITLLLQEIDS 17 (66)
T ss_pred CcHHHHHHHHHHHHHHH
Confidence 45899999988777664
No 249
>cd00159 RhoGAP RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when bound to GDP. The Rho family of small G proteins, which includes Cdc42Hs, activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. G proteins generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude. The RhoGAPs are one of the major classes of regulators of Rho G proteins.
Probab=25.48 E-value=1.5e+02 Score=20.23 Aligned_cols=38 Identities=13% Similarity=0.316 Sum_probs=26.7
Q ss_pred HHHHHHHHHHhhc-----chhHHHHHHHHHhhhhcCCCCCccc
Q 034008 42 TRFLEEELEQLDK-----TEKASAACNETLRNVEAIPDPLLPI 79 (106)
Q Consensus 42 i~fLeeEL~~LE~-----~~~aS~~CkEv~~~Ves~pDPLLP~ 79 (106)
+..|.+.++.-.. ...+..+|.=+-.|+.+-|+||+|.
T Consensus 31 ~~~l~~~~~~~~~~~~~~~~~~~~va~~lK~~l~~Lp~pli~~ 73 (169)
T cd00159 31 IEELKKKFDRGEDIDDLEDYDVHDVASLLKLYLRELPEPLIPF 73 (169)
T ss_pred HHHHHHHHhcCCCCccccccCHHHHHHHHHHHHHcCCCccCCH
Confidence 4445555554443 2346668888889999999999997
No 250
>KOG0930 consensus Guanine nucleotide exchange factor Cytohesin, contains PH and Sec7 domains [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.44 E-value=1.5e+02 Score=25.89 Aligned_cols=33 Identities=27% Similarity=0.454 Sum_probs=28.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHH
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKASAAC 62 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~C 62 (106)
-+..+|++|..||.-.-+||+.|+-++++-+.=
T Consensus 28 qL~deIq~Lk~Ei~ev~~eid~~~~~e~skt~q 60 (395)
T KOG0930|consen 28 ELLDEIQRLKDEIAEVMEEIDNLESTEESKTKQ 60 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhccccchhhHH
Confidence 356789999999999999999999999866543
No 251
>PF10205 KLRAQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019343 This entry represents a N-terminal 100 residues long domain, which contains a conserved KLRAQ motif. This domain is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain a C-terminal TTKRSYEDQ motif domain (IPR019348 from INTERPRO). The function of these proteins is not known.
Probab=25.41 E-value=1.1e+02 Score=22.00 Aligned_cols=18 Identities=50% Similarity=0.532 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 034008 35 LKRLEQETRFLEEELEQL 52 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~L 52 (106)
|+.-++.|+-++.|+++|
T Consensus 35 Lk~ke~~LRk~eqE~dSL 52 (102)
T PF10205_consen 35 LKEKEQALRKLEQENDSL 52 (102)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333444444444444433
No 252
>KOG4094 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.41 E-value=1.1e+02 Score=24.15 Aligned_cols=52 Identities=25% Similarity=0.212 Sum_probs=35.1
Q ss_pred CCCCcchhhhh-----HHHHHHHHHHHHHHHHHHHHhhcch---hHHHHHHHHHhhhhcC
Q 034008 21 GSGDTRGKHRI-----QAELKRLEQETRFLEEELEQLDKTE---KASAACNETLRNVEAI 72 (106)
Q Consensus 21 ~~~d~~GkhR~-----~ael~~LeqEi~fLeeEL~~LE~~~---~aS~~CkEv~~~Ves~ 72 (106)
|+||-+.+-|- --|-..|+|+.+.+.+|+++-..-= .--+-=+|--+||+++
T Consensus 54 GPPD~~SnlRp~v~~y~deEs~Ler~lRl~R~E~~~WN~dFWa~hN~~F~~eKedFi~~k 113 (178)
T KOG4094|consen 54 GPPDNLSNLRPIVLRYVDEESELERQLRLAREELNQWNSDFWAEHNQLFDREKEDFIERK 113 (178)
T ss_pred CCchhhhhhhHHHHHhCCcccHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 77877765443 3456789999999999998865422 2223456666777765
No 253
>cd00089 HR1 Protein kinase C-related kinase homology region 1 domain; also known as the ACC (antiparallel coiled-coil) finger domain or Rho-binding domain. Found in vertebrate PRK1 and yeast PKC1 protein kinases C; those found in rhophilin bind RhoGTP; those in PRK1 bind RhoA and RhoB. Rho family members function as molecular switches, cycling between inactive and active forms, controlling a variety of cellular processes. HR1 repeats often occur in tandem repeat arrangments, seperated by a short linker region.
Probab=25.40 E-value=1.3e+02 Score=19.14 Aligned_cols=27 Identities=22% Similarity=0.364 Sum_probs=21.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
-..+.++...++.|.+|..+|+.+...
T Consensus 45 ~~~~~~l~es~~ki~~Lr~~L~k~~~~ 71 (72)
T cd00089 45 AEAEQMLRESKQKLELLKMQLEKLKQE 71 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 356778888999999999999887653
No 254
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=25.34 E-value=1e+02 Score=21.46 Aligned_cols=30 Identities=23% Similarity=0.351 Sum_probs=19.7
Q ss_pred CCCCcch-hhhhHHHHHHHHHHHHHHHHHHH
Q 034008 21 GSGDTRG-KHRIQAELKRLEQETRFLEEELE 50 (106)
Q Consensus 21 ~~~d~~G-khR~~ael~~LeqEi~fLeeEL~ 50 (106)
++.|..| --+-+-+|+-|++-|.-||-||-
T Consensus 60 ~~~di~~eV~kTh~aIq~LdKtIS~LEMELA 90 (95)
T PF13334_consen 60 DQRDIMGEVSKTHEAIQSLDKTISSLEMELA 90 (95)
T ss_pred CccchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444443 24455678888888888888774
No 255
>PRK11239 hypothetical protein; Provisional
Probab=25.31 E-value=96 Score=25.12 Aligned_cols=24 Identities=33% Similarity=0.408 Sum_probs=17.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+.++|..|++|+.-|+..|++|.+
T Consensus 188 Le~rv~~Le~eva~L~~~l~~l~~ 211 (215)
T PRK11239 188 LQARVEALEIEVAELKQRLDSLLA 211 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 666777777777777777776643
No 256
>PF03195 DUF260: Protein of unknown function DUF260; InterPro: IPR004883 The lateral organ boundaries (LOB) gene is expressed at the adaxial base of initiating lateral organs and encodes a plant-specific protein of unknown function. The N-terminal one half of the LOB protein contains a conserved approximately 100-amino acid domain (the LOB domain) that is present in 42 other Arabidopsis thaliana proteins and in proteins from a variety of other plant species. Genes encoding LOB domain (LBD) proteins are expressed in a variety of temporal- and tissue-specific patterns, suggesting that they may function in diverse processes [] The LOB domain contains conserved blocks of amino acids that identify the LBD gene family. In particular, a conserved C-x(2)-C-x(6)-C-x(3)-C motif, which is defining feature of the LOB domain, is present in all LBD proteins. It is possible that this motif forms a new zinc finger [].
Probab=25.29 E-value=88 Score=22.00 Aligned_cols=19 Identities=26% Similarity=0.403 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 034008 34 ELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~L 52 (106)
-|..|+++|..++.||..+
T Consensus 79 ~i~~L~~ql~~~~~el~~~ 97 (101)
T PF03195_consen 79 IISQLQQQLQQLQAELALV 97 (101)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5778888888888888765
No 257
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=25.26 E-value=82 Score=23.57 Aligned_cols=25 Identities=32% Similarity=0.513 Sum_probs=20.1
Q ss_pred HHHH-HHHHHHHHHHHHHHHHhhcch
Q 034008 32 QAEL-KRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 32 ~ael-~~LeqEi~fLeeEL~~LE~~~ 56 (106)
|.|+ .+|+++|.+|++.++.+.|..
T Consensus 13 Q~E~N~QLekqi~~l~~kiek~r~n~ 38 (129)
T PF15372_consen 13 QLELNDQLEKQIIILREKIEKIRGNP 38 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 4444 479999999999999998843
No 258
>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=25.07 E-value=1e+02 Score=20.88 Aligned_cols=25 Identities=32% Similarity=0.397 Sum_probs=20.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
-+..|+.|-+.++-|++-++.||.+
T Consensus 40 d~~~L~~L~~~a~rm~eRI~tLE~I 64 (75)
T TIGR02976 40 DQALLQELYAKADRLEERIDTLERI 64 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567788888888899888888865
No 259
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=25.03 E-value=1.5e+02 Score=20.57 Aligned_cols=25 Identities=24% Similarity=0.623 Sum_probs=20.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
..+.....+|++++..|+.+++.++
T Consensus 4 ~~Lk~~~~~L~~~~~~le~~i~~~~ 28 (171)
T PF03357_consen 4 LKLKKTIRRLEKQIKRLEKKIKKLE 28 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667778888888888888888875
No 260
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=24.98 E-value=1.2e+02 Score=24.27 Aligned_cols=26 Identities=31% Similarity=0.465 Sum_probs=17.9
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~L 52 (106)
++++++|+-..||+|.+.|..++..|
T Consensus 82 ~~~~L~aq~rqlEkE~q~L~~~i~~L 107 (193)
T PF14662_consen 82 ENRSLLAQARQLEKEQQSLVAEIETL 107 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677777777777777766666554
No 261
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=24.88 E-value=1.3e+02 Score=20.94 Aligned_cols=17 Identities=35% Similarity=0.620 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 034008 35 LKRLEQETRFLEEELEQ 51 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~ 51 (106)
+..|+.++..++++.++
T Consensus 82 ~~~l~~~~~~~~~~~~~ 98 (118)
T PF13815_consen 82 LEQLEERLQELQQEIEK 98 (118)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 262
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=24.81 E-value=1.2e+02 Score=25.07 Aligned_cols=29 Identities=34% Similarity=0.467 Sum_probs=18.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcchh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTEK 57 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~~ 57 (106)
.++..+++.+++++..|+++|+.|.+...
T Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 53 (389)
T PRK03992 25 RDLEAENEKLERELERLKSELEKLKSPPL 53 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCCCc
Confidence 34556666777777777777777666543
No 263
>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length. Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.
Probab=24.66 E-value=1.3e+02 Score=22.33 Aligned_cols=31 Identities=26% Similarity=0.408 Sum_probs=25.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcchhHHHH
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKTEKASAA 61 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~ 61 (106)
+.+++..|+++|+-|++-+++-|---.+||+
T Consensus 6 ~~~q~~~l~~~v~~lRed~r~SEdrsa~SRa 36 (112)
T PF07439_consen 6 LHQQLGTLNAEVKELREDIRRSEDRSAASRA 36 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Confidence 3457888999999999999988877777773
No 264
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=24.59 E-value=73 Score=28.46 Aligned_cols=24 Identities=21% Similarity=0.440 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchh
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEK 57 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~ 57 (106)
++++.|+ +|.-|+.||++|+.-..
T Consensus 25 ~~~~~~q-kie~L~kql~~Lk~q~~ 48 (489)
T PF11853_consen 25 DDIDLLQ-KIEALKKQLEELKAQQD 48 (489)
T ss_pred hhhHHHH-HHHHHHHHHHHHHHhhc
Confidence 4455555 99999999999987654
No 265
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=24.52 E-value=1.6e+02 Score=22.58 Aligned_cols=37 Identities=27% Similarity=0.340 Sum_probs=26.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHH
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNE 64 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkE 64 (106)
+-.+++++..|+.++.+|+-||.+........+.=.+
T Consensus 152 ~~~l~ae~~~l~~~~~~le~el~s~~~rq~L~~~qrd 188 (240)
T PF12795_consen 152 RWLLQAELAALEAQIEMLEQELLSNNNRQELLQLQRD 188 (240)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCcHHHHHHHHHHHH
Confidence 4456788888888888888888777666655544333
No 266
>PRK13979 DNA topoisomerase IV subunit A; Provisional
Probab=24.29 E-value=1.8e+02 Score=27.92 Aligned_cols=47 Identities=15% Similarity=0.265 Sum_probs=43.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCC
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPD 74 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 74 (106)
.||+..=.++.+-++.-+++.++-|||+-.|-..-.||++.+-+..|
T Consensus 367 ~~r~~~~~rr~~~~l~k~~~r~~i~eGl~~a~~~id~vi~~ir~s~~ 413 (957)
T PRK13979 367 EHQKEVVTRRTKKELEIAEKRFHIVEGFIKAIGIMDEIIKTIRSSKS 413 (957)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcCCC
Confidence 79999999999999999999999999999999999999998776654
No 267
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=24.28 E-value=1.2e+02 Score=21.10 Aligned_cols=23 Identities=17% Similarity=0.131 Sum_probs=11.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh
Q 034008 31 IQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE 53 (106)
++.+++.|+++|.-|+.-.+.|+
T Consensus 84 l~~~~~~l~~~i~~L~~~~~~L~ 106 (126)
T cd04785 84 ARAHLADVRARIADLRRLEAELK 106 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555554444443
No 268
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=24.26 E-value=1e+02 Score=27.25 Aligned_cols=26 Identities=27% Similarity=0.344 Sum_probs=22.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
-||+.+.|+...+||.-|++||+.|-
T Consensus 17 ~~~l~~~l~~~~~~~~~~~~~~~~~~ 42 (512)
T TIGR03689 17 NAKLAELLKAARDKLSKLKSQLEQLA 42 (512)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 36888899999999999999999884
No 269
>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=24.26 E-value=1.3e+02 Score=20.29 Aligned_cols=21 Identities=24% Similarity=0.395 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhc
Q 034008 34 ELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~ 54 (106)
.-+.|+.++.-||+++-.+|+
T Consensus 10 ~k~~Le~~L~~lE~qIy~~Et 30 (80)
T PF09340_consen 10 KKKKLEKDLAALEKQIYDKET 30 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334455555555555555444
No 270
>cd04772 HTH_TioE_rpt1 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD contains the N-terminal or first repeat (rpt1) of these tandem MerR-like domain proteins.
Probab=24.24 E-value=68 Score=21.65 Aligned_cols=21 Identities=24% Similarity=0.354 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 034008 33 AELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE 53 (106)
..++.|++++..|++++++|+
T Consensus 76 ~~~~ll~~~~~~l~~~i~~L~ 96 (99)
T cd04772 76 SALALVDAAHALLQRYRQQLD 96 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 446778888888888888775
No 271
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=24.21 E-value=1e+02 Score=27.19 Aligned_cols=20 Identities=45% Similarity=0.712 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 034008 34 ELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE 53 (106)
++..|++++..|++|+++++
T Consensus 101 ~i~~l~~~~~~L~~~~~~l~ 120 (646)
T PRK05771 101 EIKELEEEISELENEIKELE 120 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444443
No 272
>PF00633 HHH: Helix-hairpin-helix motif; InterPro: IPR000445 The HhH motif is an around 20 amino acids domain present in prokaryotic and eukaryotic non-sequence-specific DNA binding proteins [, , ]. The HhH motif is similar to, but distinct from, the HtH motif. Both of these motifs have two helices connected by a short turn. In the HtH motif the second helix binds to DNA with the helix in the major groove. This allows the contact between specific base and residues throughout the protein. In the HhH motif the second helix does not protrude from the surface of the protein and therefore cannot lie in the major groove of the DNA. Crystallographic studies suggest that the interaction of the HhH domain with DNA is mediated by amino acids located in the strongly conserved loop (L-P-G-V) and at the N-terminal end of the second helix []. This interaction could involve the formation of hydrogen bonds between protein backbone nitrogens and DNA phosphate groups []. The structural difference between the HtH and HhH domains is reflected at the functional level: whereas the HtH domain, found primarily in gene regulatory proteins, binds DNA in a sequence specific manner, the HhH domain is rather found in proteins involved in enzymatic activities and binds DNA with no sequence specificity []. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain [].; GO: 0003677 DNA binding; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A 1Z00_A 2A1J_B 1KEA_A 1VRL_A 1RRQ_A 3G0Q_A ....
Probab=24.21 E-value=48 Score=18.57 Aligned_cols=20 Identities=25% Similarity=0.052 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHhhcchhHHH
Q 034008 41 ETRFLEEELEQLDKTEKASA 60 (106)
Q Consensus 41 Ei~fLeeEL~~LE~~~~aS~ 60 (106)
.+.--.|||.+|.|+++..+
T Consensus 5 ~~pas~eeL~~lpGIG~~tA 24 (30)
T PF00633_consen 5 LIPASIEELMKLPGIGPKTA 24 (30)
T ss_dssp HHTSSHHHHHTSTT-SHHHH
T ss_pred cCCCCHHHHHhCCCcCHHHH
Confidence 33334689999999999876
No 273
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=24.14 E-value=1.1e+02 Score=20.86 Aligned_cols=42 Identities=21% Similarity=0.381 Sum_probs=31.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcch-hHHHHHHHHHhhhh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTE-KASAACNETLRNVE 70 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~-~aS~~CkEv~~~Ve 70 (106)
++|.+.-.+|.+++.-.+.+++.||.+. .+|+-.+-.++.|.
T Consensus 42 ~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~~a~e~Ir 84 (89)
T PF13747_consen 42 QRLDADRSRLAQELDQAEARANRLEEANREVSRRLDSAIETIR 84 (89)
T ss_pred HHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888899999999888888888764 46665555555543
No 274
>PF05679 CHGN: Chondroitin N-acetylgalactosaminyltransferase; InterPro: IPR008428 This family represents Chondroitin N-acetylgalactosaminyltransferase. Proteins have a type II transmembrane topology. The enzyme is involved in the biosynthetic initiation and elongation of chondroitin sulphate and is the key enzyme responsible for the selective chain assembly of chondroitin/dermatan sulphate on the linkage region tetrasaccharide common to various proteoglycans containing chondroitin/dermatan sulphate or heparin/heparan sulphate chains. ; GO: 0016758 transferase activity, transferring hexosyl groups, 0032580 Golgi cisterna membrane
Probab=23.95 E-value=1.1e+02 Score=26.43 Aligned_cols=31 Identities=29% Similarity=0.452 Sum_probs=23.2
Q ss_pred Ccchhhh--hHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 24 DTRGKHR--IQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 24 d~~GkhR--~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+++-=|+ ...+|++|.+||..|++|+..+-.
T Consensus 72 ~mYrLH~y~~~~~l~~l~~~i~~L~~ei~~~s~ 104 (499)
T PF05679_consen 72 YMYRLHRYFLSLELQKLRQEIAQLQREIQNMSN 104 (499)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4444343 456889999999999999997755
No 275
>PF09311 Rab5-bind: Rabaptin-like protein; InterPro: IPR015390 This domain is predominantly found in Rabaptin and allows for binding to the GTPase Rab5. This interaction is necessary and sufficient for Rab5-dependent recruitment of Rabaptin5 to early endosomal membranes []. ; PDB: 3NF1_A 3CEQ_B 3EDT_H 1X79_C 1TU3_F.
Probab=23.83 E-value=27 Score=26.22 Aligned_cols=17 Identities=41% Similarity=0.431 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhhcc
Q 034008 39 EQETRFLEEELEQLDKT 55 (106)
Q Consensus 39 eqEi~fLeeEL~~LE~~ 55 (106)
+++.--|++|.+.|+-+
T Consensus 56 e~~~~~Lpee~~~Lqfl 72 (181)
T PF09311_consen 56 EQEVAQLPEEVKHLQFL 72 (181)
T ss_dssp -----------------
T ss_pred hhhhhcCcchHHHHHHH
Confidence 45555555555555433
No 276
>PHA02675 ORF104 fusion protein; Provisional
Probab=23.70 E-value=97 Score=22.17 Aligned_cols=26 Identities=31% Similarity=0.339 Sum_probs=15.4
Q ss_pred HHHHHHHHhhcchhHHH-HHHHHHhhh
Q 034008 44 FLEEELEQLDKTEKASA-ACNETLRNV 69 (106)
Q Consensus 44 fLeeEL~~LE~~~~aS~-~CkEv~~~V 69 (106)
.||+-|..|++...-+. ||+++.+.+
T Consensus 34 sle~RL~~L~k~~~~i~~cC~~~~~~L 60 (90)
T PHA02675 34 SVEERLVSLLDSYKTITDCCRETGARL 60 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35555555555555444 888876554
No 277
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.18 E-value=1.1e+02 Score=25.34 Aligned_cols=13 Identities=23% Similarity=0.414 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHHH
Q 034008 37 RLEQETRFLEEEL 49 (106)
Q Consensus 37 ~LeqEi~fLeeEL 49 (106)
+++.+|.-|+.|+
T Consensus 77 ~~~~eik~l~~eI 89 (265)
T COG3883 77 QSKAEIKKLQKEI 89 (265)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 278
>PRK03762 hypothetical protein; Provisional
Probab=23.13 E-value=1.1e+02 Score=21.78 Aligned_cols=26 Identities=19% Similarity=0.344 Sum_probs=21.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 28 KHRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 28 khR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
=--++...+.+++++.-+|+||+..+
T Consensus 7 ~~~m~kqaqkmQ~km~~~Q~el~~~~ 32 (103)
T PRK03762 7 FSKLGEMLEQMQKKAKQLEEENANKE 32 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccE
Confidence 34566678889999999999999876
No 279
>cd07637 BAR_ACAP3 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 3. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP3 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 3), also called centaurin beta-5, is presumed to be an Arf GTPase activating protein (GAP) based on its similarity to the Arf6-specific GAPs ACAP1 and ACAP2. The specific function of ACAP3 is still unknown. ACAP3 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=22.99 E-value=76 Score=24.60 Aligned_cols=23 Identities=26% Similarity=0.393 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcc
Q 034008 33 AELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
|.|..+|++|.-||.+|+.|-+.
T Consensus 2 ~~~~~~E~~~~~le~~l~kl~K~ 24 (200)
T cd07637 2 ATIDEVETDVVEIEAKLDKLVKL 24 (200)
T ss_pred chHHHHHhhHHHHHHHHHHHHHH
Confidence 67899999999999999887654
No 280
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=22.89 E-value=1.1e+02 Score=20.41 Aligned_cols=22 Identities=27% Similarity=0.499 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhcc
Q 034008 34 ELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~ 55 (106)
-.+.|++++..|++++++|..+
T Consensus 75 ~~~~l~~~~~~l~~~i~~l~~~ 96 (97)
T cd04782 75 LIELLKKQEKEIKEEIEELQKI 96 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3566788888888888877654
No 281
>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=22.84 E-value=1.8e+02 Score=26.77 Aligned_cols=43 Identities=12% Similarity=0.143 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchh-----HHHHHHHHHhhhhcCCCC
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEK-----ASAACNETLRNVEAIPDP 75 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~-----aS~~CkEv~~~Ves~pDP 75 (106)
.++..|++|+.-|++|+++|+.+=. -.-.-+|+.+.-..=.||
T Consensus 427 ~e~~kl~~e~~~l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~kfg~~ 474 (738)
T TIGR01061 427 TDIFELKEEQNELEKKIISLEQIIASEKARNKLLKKQLEEYKKQFAQQ 474 (738)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCCC
Confidence 5677888999999999999988432 223566766666555555
No 282
>cd04392 RhoGAP_ARHGAP19 RhoGAP_ARHGAP19: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP19-like proteins. The function of ArhGAP19 is unknown. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=22.82 E-value=1.6e+02 Score=22.41 Aligned_cols=23 Identities=22% Similarity=0.323 Sum_probs=17.0
Q ss_pred HHHHHHHHHhhhhcCCCCCcccc
Q 034008 58 ASAACNETLRNVEAIPDPLLPIT 80 (106)
Q Consensus 58 aS~~CkEv~~~Ves~pDPLLP~t 80 (106)
+-.+|-=+-.|.-.-|+||+|..
T Consensus 61 ~h~va~lLK~flReLPePLi~~~ 83 (208)
T cd04392 61 AHDCATVLKGFLGELPEPLLTHA 83 (208)
T ss_pred HHHHHHHHHHHHHhCCCccCCHH
Confidence 34466666777788899999963
No 283
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=22.53 E-value=1.8e+02 Score=18.24 Aligned_cols=25 Identities=24% Similarity=0.462 Sum_probs=19.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+-..+|+.|.+.+..+-.-|+.||.
T Consensus 20 ~v~~~lq~Lt~kL~~vs~RLe~LEn 44 (47)
T PF10393_consen 20 KVTSALQSLTQKLDAVSKRLEALEN 44 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3456888888888888878887775
No 284
>PRK04406 hypothetical protein; Provisional
Probab=22.53 E-value=1.3e+02 Score=20.12 Aligned_cols=25 Identities=24% Similarity=0.524 Sum_probs=19.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
+.+.|..||-.|.|+++-+++|..+
T Consensus 9 le~Ri~~LE~~lAfQE~tIe~LN~~ 33 (75)
T PRK04406 9 LEERINDLECQLAFQEQTIEELNDA 33 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5567888888888888877777654
No 285
>cd04768 HTH_BmrR-like Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators. Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=22.45 E-value=1.1e+02 Score=20.30 Aligned_cols=22 Identities=9% Similarity=0.255 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhcc
Q 034008 34 ELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~ 55 (106)
-.+.|++.+..|++++++|+.+
T Consensus 74 ~~~~l~~~~~~l~~~i~~l~~~ 95 (96)
T cd04768 74 LTAMLLEKKQAIQQKIDRLQQL 95 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 4556888888888888888765
No 286
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=22.37 E-value=1.4e+02 Score=20.82 Aligned_cols=22 Identities=18% Similarity=0.182 Sum_probs=9.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHh
Q 034008 31 IQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~L 52 (106)
+..+++.|+++|..|+.-.+.|
T Consensus 84 l~~~~~~l~~~i~~L~~~~~~l 105 (127)
T cd01108 84 ALEHIAELERKIAELQAMRRTL 105 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444433333
No 287
>smart00150 SPEC Spectrin repeats.
Probab=22.34 E-value=1.9e+02 Score=17.38 Aligned_cols=33 Identities=24% Similarity=0.271 Sum_probs=25.6
Q ss_pred CCcchhhhhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 23 GDTRGKHRIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 23 ~d~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
.|.-+-..++.+.+.|..+|.-.+..++.+..+
T Consensus 28 ~d~~~~~~~~~~~~~~~~e~~~~~~~v~~~~~~ 60 (101)
T smart00150 28 KDLESVEALLKKHEALEAELEAHEERVEALNEL 60 (101)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 577777778888888888888888877777655
No 288
>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=22.34 E-value=1.5e+02 Score=20.25 Aligned_cols=19 Identities=16% Similarity=0.352 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHhhc
Q 034008 36 KRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 36 ~~LeqEi~fLeeEL~~LE~ 54 (106)
+.|++++..|++++++|..
T Consensus 84 ~~l~~~~~~l~~~i~~L~~ 102 (112)
T cd01282 84 AVLRRELARIDRQIADLTR 102 (112)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444443
No 289
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=22.23 E-value=1.1e+02 Score=26.52 Aligned_cols=25 Identities=28% Similarity=0.461 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhcchhH
Q 034008 34 ELKRLEQETRFLEEELEQLDKTEKA 58 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~~~a 58 (106)
+.+.+++++.+|+.+|++|+.+++.
T Consensus 183 ~~~~~~~eld~L~~ql~ELe~~~l~ 207 (563)
T TIGR00634 183 KEQELAQRLDFLQFQLEELEEADLQ 207 (563)
T ss_pred hhHHHHHHHHHHHHHHHHHHhCCcC
Confidence 3355677778877777777776653
No 290
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=22.19 E-value=1.8e+02 Score=18.33 Aligned_cols=24 Identities=33% Similarity=0.397 Sum_probs=18.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~L 52 (106)
..+..-.+.|.++|.-.++||+.+
T Consensus 22 ~~i~~~~~~L~~~i~~~~~eLr~~ 45 (87)
T PF08700_consen 22 KEIRQLENKLRQEIEEKDEELRKL 45 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556677888888888888875
No 291
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=22.18 E-value=1.4e+02 Score=21.11 Aligned_cols=21 Identities=19% Similarity=0.354 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 034008 33 AELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE 53 (106)
..++.+.++|.++++||+.+.
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~ 26 (204)
T cd01878 6 TDRRLIRERIAKLRRELEKVK 26 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666666666554
No 292
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=22.08 E-value=1.5e+02 Score=21.38 Aligned_cols=28 Identities=21% Similarity=0.366 Sum_probs=21.1
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
....-.++-+.+++++..|++++++|+-
T Consensus 99 s~~ke~~Ke~~~~~~l~~L~~~i~~L~~ 126 (134)
T PF07047_consen 99 SARKEAKKEEELQERLEELEERIEELEE 126 (134)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444556677888999999999988864
No 293
>PF03234 CDC37_N: Cdc37 N terminal kinase binding; InterPro: IPR013855 In Saccharomyces cerevisiae (Baker's yeast), cell division control protein Cdc37 is required for the productive formation of Cdc28-cyclin complexes. Cdc37 may be a kinase targeting subunit of Hsp90 [].
Probab=22.01 E-value=1.3e+02 Score=23.23 Aligned_cols=27 Identities=33% Similarity=0.556 Sum_probs=19.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
-+++..++.|....+.++.+|++|++-
T Consensus 134 ~~l~~H~~kl~~~~ke~~~kLeeLekE 160 (177)
T PF03234_consen 134 EELQEHRAKLEKEQKELKKKLEELEKE 160 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466677777777777778888887753
No 294
>PF02346 Vac_Fusion: Chordopoxvirus fusion protein; InterPro: IPR003436 This is a family of viral fusion proteins from the Chordopoxvirinae. A 14kDa Vaccinia virus protein has been demonstrated to function as a viral fusion protein mediating cell fusion at endosmomal (low) pH []. The protein, found in the envelope fraction of the virions, is required for fusing the outermost of the two golgi-derived membranes enveloping the virus with the plasma membrane, and its subsequent release extracellularly. The N-terminal proximal region is essential for its fusion ability.; GO: 0019064 viral envelope fusion with host membrane, 0019031 viral envelope
Probab=21.98 E-value=90 Score=20.33 Aligned_cols=28 Identities=29% Similarity=0.400 Sum_probs=17.4
Q ss_pred HHHHHHHHHHhhcch-hHHHHHHHHHhhh
Q 034008 42 TRFLEEELEQLDKTE-KASAACNETLRNV 69 (106)
Q Consensus 42 i~fLeeEL~~LE~~~-~aS~~CkEv~~~V 69 (106)
++.+++.|..||+.- .+..||++..+.+
T Consensus 3 ~k~~~~rl~~Lek~~~~~~~~c~~~~~~i 31 (57)
T PF02346_consen 3 IKDIEERLMVLEKDFRNAIKCCKENSEAI 31 (57)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence 455666666666654 4555888766543
No 295
>PF15047 DUF4533: Protein of unknown function (DUF4533)
Probab=21.94 E-value=2.2e+02 Score=23.37 Aligned_cols=42 Identities=19% Similarity=0.303 Sum_probs=29.9
Q ss_pred hhhHHHHH--HHHHHHHHHHHHHHHh-hcchhHHHHHHHHHhhhh
Q 034008 29 HRIQAELK--RLEQETRFLEEELEQL-DKTEKASAACNETLRNVE 70 (106)
Q Consensus 29 hR~~ael~--~LeqEi~fLeeEL~~L-E~~~~aS~~CkEv~~~Ve 70 (106)
|++|.+|. .+..=|..-++.|++. ..++|.-.+.++++..||
T Consensus 181 kklq~al~~~~~~~~ies~ad~Leq~v~am~p~le~lqkaiktve 225 (225)
T PF15047_consen 181 KKLQDALEREQAKNPIESAADHLEQFVKAMEPYLEILQKAIKTVE 225 (225)
T ss_pred HHHHHHHhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 56666554 5777788899988873 456777777777777664
No 296
>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]
Probab=21.92 E-value=98 Score=25.02 Aligned_cols=19 Identities=37% Similarity=0.677 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 034008 33 AELKRLEQETRFLEEELEQ 51 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~ 51 (106)
++|..|++.|..|++||+.
T Consensus 4 ~~va~lnrri~~leeele~ 22 (205)
T KOG1003|consen 4 ADVAALNRRIQLLEEELDR 22 (205)
T ss_pred hhHHHHHHHHHHHHHHHHH
Confidence 6788899999999988865
No 297
>PF05064 Nsp1_C: Nsp1-like C-terminal region; InterPro: IPR007758 The NSP1-like protein appears to be an essential component of the nuclear pore complex, for example preribosome nuclear export requires the Nup82p-Nup159p-Nsp1p complex. The C-terminal of Nsp1 is involved in binding Nup82 [], probably via coiled-coil formation [, ]. The family is related to the rotavirus nonstructural protein NSP1 which is the least conserved protein in the rotavirus genome. Its function in the replication process is not fully understood.; GO: 0017056 structural constituent of nuclear pore, 0005643 nuclear pore; PDB: 3T97_C.
Probab=21.81 E-value=1.1e+02 Score=21.48 Aligned_cols=45 Identities=27% Similarity=0.403 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCCCCccc
Q 034008 32 QAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPDPLLPI 79 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~ 79 (106)
..++..++..-.-|+.+|+.+|+-+. -..++++.+|..-+.++..
T Consensus 63 ~~~v~~~~~~Q~~ld~~L~~ie~qQ~---eLe~~L~~lE~~~~~l~~~ 107 (116)
T PF05064_consen 63 YSEVQKAESEQKRLDQELDFIEAQQK---ELEELLDPLEKQVEKLLSN 107 (116)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH---CHHHHHCCCCCTT------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444443332 1245677777777766653
No 298
>cd04373 RhoGAP_p190 RhoGAP_p190: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of p190-like proteins. p190, also named RhoGAP5, plays a role in neuritogenesis and axon branch stability. p190 shows a preference for Rho, over Rac and Cdc42, and consists of an N-terminal GTPase domain and a C-terminal GAP domain. The central portion of p190 contains important regulatory phosphorylation sites. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=21.72 E-value=1.5e+02 Score=21.96 Aligned_cols=24 Identities=25% Similarity=0.501 Sum_probs=19.2
Q ss_pred hHHHHHHHHHhhhhcCCCCCcccc
Q 034008 57 KASAACNETLRNVEAIPDPLLPIT 80 (106)
Q Consensus 57 ~aS~~CkEv~~~Ves~pDPLLP~t 80 (106)
.+-.+|-=+-.|...-||||+|..
T Consensus 67 ~~~~va~~lK~fLreLPePlip~~ 90 (185)
T cd04373 67 TVNAVAGALKSFFSELPDPLIPYS 90 (185)
T ss_pred cHHHHHHHHHHHHhcCCchhccHH
Confidence 345677888888999999999954
No 299
>PF10359 Fmp27_WPPW: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019449 The function of the FMP27 protein is not known. FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. This entry represents a domain within FMP27 that contains characteristic HQR and WPPW sequence motifs.
Probab=21.68 E-value=1.7e+02 Score=25.14 Aligned_cols=24 Identities=38% Similarity=0.494 Sum_probs=16.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
++..++.|+.+|.-+++.|.+++.
T Consensus 168 ~~~Rl~~L~~qi~~~~~~l~~~~~ 191 (475)
T PF10359_consen 168 IQERLDELEEQIEKHEEKLGELEL 191 (475)
T ss_pred HHHHHHHHHHHHHHHHHhhhcccc
Confidence 445567777777777777777553
No 300
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=21.67 E-value=1.1e+02 Score=24.31 Aligned_cols=35 Identities=26% Similarity=0.300 Sum_probs=20.8
Q ss_pred CCCcchhhhhHHHHHHHHHHHHHHHHHHHHhhcch
Q 034008 22 SGDTRGKHRIQAELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 22 ~~d~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~ 56 (106)
.+||-...=---|+-+|.+|+.-|+++|..++..-
T Consensus 85 gTdfS~~~~~dwEevrLkrELa~Le~~l~~~~~~~ 119 (195)
T PF12761_consen 85 GTDFSATEGTDWEEVRLKRELAELEEKLSKVEQAA 119 (195)
T ss_pred CCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44554422223367777777777777777666543
No 301
>PF11083 Streptin-Immun: Lantibiotic streptin immunity protein; InterPro: IPR021112 Streptococcal species produce a lantibiotic, streptin, in a similar manner to the production of nisin and subtilin by other lactic acid bacteria, in order to compete against competing bacteria within the environment []. The immunity protein protects the bacterium from destruction by its own lantibiotic. In general, there is little homology between the immunity proteins of different genera of bacteria.
Probab=21.66 E-value=1.1e+02 Score=22.08 Aligned_cols=18 Identities=33% Similarity=0.505 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 034008 34 ELKRLEQETRFLEEELEQ 51 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~ 51 (106)
-+.++|.||..||+||..
T Consensus 53 tle~ve~Ei~~lQ~qL~~ 70 (99)
T PF11083_consen 53 TLEQVEKEIRELQNQLGL 70 (99)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 467788899888888753
No 302
>PF11414 Suppressor_APC: Adenomatous polyposis coli tumour suppressor protein; PDB: 1M5I_A.
Probab=21.65 E-value=1.1e+02 Score=20.98 Aligned_cols=39 Identities=26% Similarity=0.325 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCC
Q 034008 33 AELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPD 74 (106)
Q Consensus 33 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 74 (106)
--++.||||=.+|-.+|+-+|+ +-.=+.+=+..|..+-+
T Consensus 7 k~mkeLEqEkd~LLqgLe~~Er---~r~Wy~~qL~~vq~rq~ 45 (84)
T PF11414_consen 7 KRMKELEQEKDVLLQGLEMEER---ERDWYQQQLQSVQERQR 45 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHhHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence 3578899999998777666654 44444445555555544
No 303
>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]
Probab=21.65 E-value=50 Score=26.61 Aligned_cols=19 Identities=42% Similarity=0.366 Sum_probs=17.2
Q ss_pred HHhhhhcCCCCCccccCCC
Q 034008 65 TLRNVEAIPDPLLPITNGP 83 (106)
Q Consensus 65 v~~~Ves~pDPLLP~t~gp 83 (106)
++.||+..-||+.|+|.|-
T Consensus 28 llrFv~~~fd~~~~~tIGv 46 (209)
T KOG0080|consen 28 LLRFVSNTFDDLHPTTIGV 46 (209)
T ss_pred HHHHHhcccCccCCceeee
Confidence 7899999999999998874
No 304
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=21.64 E-value=1.5e+02 Score=22.17 Aligned_cols=20 Identities=30% Similarity=0.458 Sum_probs=11.2
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 034008 31 IQAELKRLEQETRFLEEELE 50 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~ 50 (106)
++++|+.|.+|+.-|.+.++
T Consensus 27 ~~~~I~~L~~e~~~ld~~i~ 46 (188)
T PF10018_consen 27 NQARIQQLRAEIEELDEQIR 46 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45556666666665555443
No 305
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=21.53 E-value=1.2e+02 Score=24.05 Aligned_cols=17 Identities=18% Similarity=0.276 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHhhc
Q 034008 38 LEQETRFLEEELEQLDK 54 (106)
Q Consensus 38 LeqEi~fLeeEL~~LE~ 54 (106)
|.++|.-|+.|+.+|-|
T Consensus 59 l~~ql~~lq~ev~~LrG 75 (263)
T PRK10803 59 LQQQLSDNQSDIDSLRG 75 (263)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 34444444444444433
No 306
>PRK10884 SH3 domain-containing protein; Provisional
Probab=21.50 E-value=1.3e+02 Score=23.49 Aligned_cols=25 Identities=24% Similarity=0.546 Sum_probs=17.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
....|..|++|+.-|+++|.++++.
T Consensus 91 ~~~rlp~le~el~~l~~~l~~~~~~ 115 (206)
T PRK10884 91 LRTRVPDLENQVKTLTDKLNNIDNT 115 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 3456677888888888777777644
No 307
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=21.49 E-value=1.7e+02 Score=21.10 Aligned_cols=22 Identities=41% Similarity=0.415 Sum_probs=10.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHh
Q 034008 31 IQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~L 52 (106)
+-..|..|+++|..|-+|+.+|
T Consensus 6 lfd~l~~le~~l~~l~~el~~L 27 (110)
T PRK13169 6 IFDALDDLEQNLGVLLKELGAL 27 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555554444444
No 308
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=21.45 E-value=77 Score=30.16 Aligned_cols=28 Identities=21% Similarity=0.425 Sum_probs=24.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEK 57 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~ 57 (106)
-..+|+++|+.|+..|+.||+.+++.-.
T Consensus 839 D~~~e~~rLekel~kl~Kel~kl~~~L~ 866 (1052)
T PRK14900 839 DLAAETARVDKEIGKVDQDLAVLERKLQ 866 (1052)
T ss_pred CHHHHHhhHHHHHHHHHHHHHHHHHHhc
Confidence 3789999999999999999999886533
No 309
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=21.43 E-value=1.5e+02 Score=23.89 Aligned_cols=28 Identities=32% Similarity=0.406 Sum_probs=16.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEK 57 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~ 57 (106)
.++.+++.+++|+..++++|+++-...-
T Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 44 (364)
T TIGR01242 17 SLEKEKIRLERELERLRSEIERLRSPPL 44 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCe
Confidence 3455566666666666666666554443
No 310
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=21.27 E-value=1.4e+02 Score=22.25 Aligned_cols=29 Identities=21% Similarity=0.436 Sum_probs=20.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcchh
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTEK 57 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~~ 57 (106)
.+...++..+++++..++++++.|++...
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 77 (151)
T PF14584_consen 49 NELFDQIDELKEELEELEKRIEELEEKLR 77 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556777777777777777777776543
No 311
>PF00700 Flagellin_C: Bacterial flagellin C-terminal helical region; InterPro: IPR001029 Bacterial flagella are responsible for motility and chemotaxis []. They comprise a basal body, a hook and a filament, the latter accounting for 98% of the mass []. Flagellin is the subunit protein that polymerises to form the flagellae [], the subunits being transported through the centre of the filament to the tip, where they then polymerise []. Both the N- and C- termini of the subunit protein, which are alpha-helical in structure [], are required to mediate polymerisation. Although no export or assembly consensus sequences have been identified, Ala, Val, Leu, Ile, Gly, Ser, Thr, Asn, Gln and Asp tend to make up around 90% of the sequence, Cys and Trp being absent []. This entry represents the N and C termini that come together to form the D0 and D1 structural domains []. These domains are responsible for flagellin's ability to polymerise into a filament. ; GO: 0005198 structural molecule activity, 0001539 ciliary or flagellar motility, 0009288 bacterial-type flagellum; PDB: 1ORY_B 3V47_C 1IO1_A 1UCU_A 3A5X_A 3K8V_A 2ZBI_B 3K8W_A.
Probab=21.22 E-value=2.3e+02 Score=17.95 Aligned_cols=32 Identities=22% Similarity=0.438 Sum_probs=27.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcchhHHH
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTEKASA 60 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~ 60 (106)
-|+.....+++.....+++-+..+|+++.|..
T Consensus 23 ~~l~~~~~~~~~~~~~l~~~~s~i~d~D~a~~ 54 (86)
T PF00700_consen 23 NRLESAKDRLSNQSENLTASLSNIEDADMAEA 54 (86)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHhccHHHH
Confidence 46777888899999999999999999998865
No 312
>PHA02047 phage lambda Rz1-like protein
Probab=21.22 E-value=3.4e+02 Score=19.83 Aligned_cols=43 Identities=19% Similarity=0.234 Sum_probs=33.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhcCCC
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEAIPD 74 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 74 (106)
++.+.|..++..|.-+|+-.+.||.- +-+.=+||..-.+.++|
T Consensus 38 ~la~qLE~a~~r~~~~Q~~V~~l~~k--ae~~t~Ei~~aL~~n~~ 80 (101)
T PHA02047 38 RQTARLEALEVRYATLQRHVQAVEAR--TNTQRQEVDRALDQNRP 80 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHhCCC
Confidence 45677888889999999988888865 55566888888887654
No 313
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=21.21 E-value=2e+02 Score=17.26 Aligned_cols=32 Identities=25% Similarity=0.283 Sum_probs=22.2
Q ss_pred CCCcchhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 22 SGDTRGKHRIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 22 ~~d~~GkhR~~ael~~LeqEi~fLeeEL~~LE 53 (106)
..|.-.-..++.+++.++++|.-.+..++.|.
T Consensus 30 ~~~~~~~~~~~~~~~~~~~ei~~~~~~l~~l~ 61 (105)
T PF00435_consen 30 GSDLEELEEQLKKHKELQEEIESRQERLESLN 61 (105)
T ss_dssp SSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 34556666777777777777777777776665
No 314
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=21.20 E-value=1.8e+02 Score=20.39 Aligned_cols=24 Identities=17% Similarity=0.216 Sum_probs=13.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhh
Q 034008 30 RIQAELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE 53 (106)
-+...++.|+++|.-|+.-++.|+
T Consensus 83 ~l~~~~~~l~~~i~~l~~~~~~l~ 106 (133)
T cd04787 83 LIEQRLAETERRIKELLKLRDRMQ 106 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556666666666655554443
No 315
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=21.19 E-value=2.1e+02 Score=19.05 Aligned_cols=21 Identities=19% Similarity=0.344 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 034008 32 QAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~L 52 (106)
.++|+.+=..|..|+.|+++|
T Consensus 10 E~ki~~aveti~~Lq~e~eeL 30 (72)
T PF06005_consen 10 EEKIQQAVETIALLQMENEEL 30 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444
No 316
>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function. ; PDB: 4DCI_C.
Probab=21.13 E-value=1.8e+02 Score=21.33 Aligned_cols=26 Identities=27% Similarity=0.383 Sum_probs=17.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 30 RIQAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
.+++.++++++|+.-|+-+++.+..-
T Consensus 24 ~l~~~i~~~d~el~QLefq~kr~~~e 49 (131)
T PF11068_consen 24 ELQEQIQQLDQELQQLEFQGKRMIKE 49 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566777777777777776665543
No 317
>PRK14624 hypothetical protein; Provisional
Probab=21.04 E-value=1.2e+02 Score=21.95 Aligned_cols=24 Identities=0% Similarity=0.169 Sum_probs=19.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
++.+.|.+++++.-+|+||++.+=
T Consensus 11 ~mkqAq~mQ~km~~~QeeL~~~~v 34 (115)
T PRK14624 11 ALSNMGNIREKMEEVKKRIASIRV 34 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHhccEE
Confidence 556778899999999999988753
No 318
>PF09388 SpoOE-like: Spo0E like sporulation regulatory protein; InterPro: IPR018540 Spore formation is an extreme response to starvation and can also be a component of disease transmission. Sporulation is controlled by an expanded two-component system where starvation signals result in sensor kinase activation and phosphorylation of the master sporulation response regulator Spo0A. Phosphatases such as Spo0E dephosphorylate Spo0A thereby inhibiting sporulation. This is a family of Spo0E-like phosphatases. The structure of a Bacillus anthracis member of this family has revealed an anti-parallel alpha-helical structure []. ; PDB: 2BZB_B 2C0S_A.
Probab=21.03 E-value=1.3e+02 Score=17.78 Aligned_cols=16 Identities=38% Similarity=0.482 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHh
Q 034008 37 RLEQETRFLEEELEQL 52 (106)
Q Consensus 37 ~LeqEi~fLeeEL~~L 52 (106)
+|.++|..+.++|.++
T Consensus 1 ~L~~~Ie~~R~~L~~~ 16 (45)
T PF09388_consen 1 ELLEEIEELRQELNEL 16 (45)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHH
Confidence 4778888888888876
No 319
>KOG3000 consensus Microtubule-binding protein involved in cell cycle control [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=21.02 E-value=2e+02 Score=24.06 Aligned_cols=38 Identities=21% Similarity=0.378 Sum_probs=26.0
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHhhc--------chhHHHHHHH
Q 034008 27 GKHRIQAELKRLEQETRFLEEELEQLDK--------TEKASAACNE 64 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~~LE~--------~~~aS~~CkE 64 (106)
+..+.+.+|..|.++|.-++..++.||+ +..+..-|++
T Consensus 192 ~~~~~~qe~~~l~~~l~~~~~~~~~le~ERdfyf~kLr~iEil~q~ 237 (295)
T KOG3000|consen 192 PVDKLKQELEELTQQLTELKTTIASLEKERDFYFSKLRDIEILCQT 237 (295)
T ss_pred cchhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhccchhhhccC
Confidence 4556677777888887777777777764 4555566664
No 320
>PF13887 MRF_C1: Myelin gene regulatory factor -C-terminal domain 1
Probab=20.95 E-value=1.2e+02 Score=18.50 Aligned_cols=24 Identities=21% Similarity=0.314 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Q 034008 32 QAELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 32 ~ael~~LeqEi~fLeeEL~~LE~~ 55 (106)
-+++|.|-+-.+-|+.-+++||.+
T Consensus 13 V~AvqeLck~t~~Le~rI~ele~~ 36 (36)
T PF13887_consen 13 VGAVQELCKLTDNLETRIDELERW 36 (36)
T ss_pred HHHHHHHHHHhccHHHHHHHHhhC
Confidence 367888888888999888888753
No 321
>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.
Probab=20.88 E-value=2.1e+02 Score=18.05 Aligned_cols=23 Identities=30% Similarity=0.459 Sum_probs=11.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHh
Q 034008 30 RIQAELKRLEQETRFLEEELEQL 52 (106)
Q Consensus 30 R~~ael~~LeqEi~fLeeEL~~L 52 (106)
++...|..+++++..++.+++..
T Consensus 56 ~l~~~i~~~~~~~~~~~~~~~~~ 78 (123)
T PF02050_consen 56 ALEQAIQQQQQELERLEQEVEQA 78 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555554443
No 322
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=20.77 E-value=1.5e+02 Score=19.86 Aligned_cols=37 Identities=27% Similarity=0.385 Sum_probs=24.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHH
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTEKASAACNET 65 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv 65 (106)
.-+..++..|.+++..|+.++..+.|=+-.+-.-+||
T Consensus 15 e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL 51 (100)
T PF01486_consen 15 EELQQEIAKLRKENESLQKELRHLMGEDLESLSLKEL 51 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccccccccchHHH
Confidence 3456778888888888887777777655444444444
No 323
>PF12107 VEK-30: Plasminogen (Pg) ligand in fibrinolytic pathway; InterPro: IPR021965 Pg is an important mediator of angiostatin production in the fibrinolytic pathway. Pg is made up of five subunit kringle molecules (Pg-K1 to Pg-K5), of which the first three make the protein angiostatin. VEK-30 is a domain of the group A streptococcal protein PAM. It binds to Pg-K2 of angiostatin and activates the molecule to mediate its anti-angiogenic effects. VEK-30 binds to angiostatin via a C-terminal lysine with argininyl and glutamyl side chain residues known as a 'through space isostere' [].; PDB: 2KJ4_B 2DOI_B 2DOH_C 1I5K_D.
Probab=20.75 E-value=85 Score=16.34 Aligned_cols=9 Identities=67% Similarity=0.940 Sum_probs=6.6
Q ss_pred HHHHHHHHH
Q 034008 33 AELKRLEQE 41 (106)
Q Consensus 33 ael~~LeqE 41 (106)
|||++|.+|
T Consensus 3 aeLerLkne 11 (17)
T PF12107_consen 3 AELERLKNE 11 (17)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 677777766
No 324
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=20.71 E-value=2.6e+02 Score=24.32 Aligned_cols=43 Identities=21% Similarity=0.246 Sum_probs=30.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHhhhhc
Q 034008 29 HRIQAELKRLEQETRFLEEELEQLDKTEKASAACNETLRNVEA 71 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 71 (106)
+--.++++.|.+|+.+.+.-++-|+.+..+...-+++...+..
T Consensus 79 ~~a~~e~~~L~~eL~~~~~~l~~L~~L~~i~~~l~~~~~al~~ 121 (593)
T PF06248_consen 79 RDAAEELQELKRELEENEQLLEVLEQLQEIDELLEEVEEALKE 121 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3345667888888888888888888887777766666554443
No 325
>PF12644 DUF3782: Protein of unknown function (DUF3782); InterPro: IPR024271 This functionally uncharacterised family of proteins is found in bacteria and archaea. Proteins in this family are typically between 91 and 186 amino acids in length.
Probab=20.46 E-value=2.2e+02 Score=17.39 Aligned_cols=19 Identities=37% Similarity=0.420 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 034008 35 LKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~LE 53 (106)
.+.++++|.-++++|++++
T Consensus 3 ~~~~~~~i~a~~e~l~~~~ 21 (64)
T PF12644_consen 3 YATKEDEIMATKEELEELE 21 (64)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3455667777777777774
No 326
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=20.42 E-value=1.2e+02 Score=25.46 Aligned_cols=18 Identities=61% Similarity=0.715 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 034008 35 LKRLEQETRFLEEELEQL 52 (106)
Q Consensus 35 l~~LeqEi~fLeeEL~~L 52 (106)
|++|+-|-+.|+|+++.|
T Consensus 172 lk~le~E~s~LeE~~~~l 189 (290)
T COG4026 172 LKRLEVENSRLEEMLKKL 189 (290)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 333444444444444433
No 327
>PF12958 DUF3847: Protein of unknown function (DUF3847); InterPro: IPR024215 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=20.41 E-value=1.7e+02 Score=20.42 Aligned_cols=20 Identities=25% Similarity=0.474 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 034008 34 ELKRLEQETRFLEEELEQLD 53 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE 53 (106)
+|.+.+.++..|+-.++.|+
T Consensus 16 kl~q~e~~~k~L~nr~k~l~ 35 (86)
T PF12958_consen 16 KLEQAEHKIKQLENRKKKLE 35 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444455555555554
No 328
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=20.32 E-value=1.1e+02 Score=23.73 Aligned_cols=23 Identities=52% Similarity=0.618 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhcch
Q 034008 34 ELKRLEQETRFLEEELEQLDKTE 56 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~~ 56 (106)
.++.|+++|..|++||+..+...
T Consensus 150 ~i~~l~~~i~~l~~~l~~~~~~~ 172 (176)
T COG1675 150 EIEELESELDELEEELERNDKLK 172 (176)
T ss_pred HHHHHHHHHHHHHHHHhcccccc
Confidence 78899999999999998876653
No 329
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=20.23 E-value=1.2e+02 Score=20.26 Aligned_cols=22 Identities=32% Similarity=0.416 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhcc
Q 034008 34 ELKRLEQETRFLEEELEQLDKT 55 (106)
Q Consensus 34 el~~LeqEi~fLeeEL~~LE~~ 55 (106)
|+..|-..|.-|++...+||--
T Consensus 15 EVevLK~~I~eL~~~n~~Le~E 36 (59)
T PF01166_consen 15 EVEVLKEQIAELEERNSQLEEE 36 (59)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 6777788888888777777643
No 330
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=20.19 E-value=2.3e+02 Score=17.82 Aligned_cols=24 Identities=21% Similarity=0.441 Sum_probs=12.7
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHH
Q 034008 27 GKHRIQAELKRLEQETRFLEEELE 50 (106)
Q Consensus 27 GkhR~~ael~~LeqEi~fLeeEL~ 50 (106)
.|..++..|....+++.-|+.+|+
T Consensus 55 ~r~~~~~kl~~yr~~l~~lk~~l~ 78 (79)
T PF05008_consen 55 ERNQYKSKLRSYRSELKKLKKELK 78 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344555555555555555555544
No 331
>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=20.14 E-value=1.4e+02 Score=27.48 Aligned_cols=24 Identities=33% Similarity=0.638 Sum_probs=15.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhc
Q 034008 31 IQAELKRLEQETRFLEEELEQLDK 54 (106)
Q Consensus 31 ~~ael~~LeqEi~fLeeEL~~LE~ 54 (106)
+-.|+++|.+|++..||++..||.
T Consensus 550 lE~E~~~lr~elk~kee~~~~~e~ 573 (697)
T PF09726_consen 550 LESELKKLRRELKQKEEQIRELES 573 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445677777777766666666665
No 332
>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5
Probab=20.04 E-value=2.6e+02 Score=25.49 Aligned_cols=37 Identities=32% Similarity=0.466 Sum_probs=24.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHH-hhcchhHHHHHHHH
Q 034008 29 HRIQAELKRLEQETRFLEEELEQ-LDKTEKASAACNET 65 (106)
Q Consensus 29 hR~~ael~~LeqEi~fLeeEL~~-LE~~~~aS~~CkEv 65 (106)
-++++++..|..|+.-|+++|+. ++....-|+.++|-
T Consensus 83 ~~Lq~E~~~L~kElE~L~~qlqaqv~~ne~Ls~L~~Eq 120 (617)
T PF15070_consen 83 QQLQAEAEHLRKELESLEEQLQAQVENNEQLSRLNQEQ 120 (617)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777888888888888777755 34444556665543
Done!