Query 032827
Match_columns 132
No_of_seqs 137 out of 217
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 06:26:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032827.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032827hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4209 Splicing factor RNPS1, 99.6 8.5E-16 1.8E-20 124.8 5.1 112 15-126 46-228 (231)
2 COG1163 DRG Predicted GTPase [ 87.8 1.4 3E-05 39.0 5.8 68 21-91 4-110 (365)
3 PF06785 UPF0242: Uncharacteri 80.4 1.3 2.9E-05 39.4 2.4 56 16-75 148-206 (401)
4 PF08172 CASP_C: CASP C termin 71.7 9.2 0.0002 31.8 5.1 33 18-50 1-33 (248)
5 PF14077 WD40_alt: Alternative 66.2 5.1 0.00011 26.2 1.9 24 19-42 14-37 (48)
6 PF05190 MutS_IV: MutS family 62.6 17 0.00037 23.9 4.1 29 15-46 3-31 (92)
7 PF08181 DegQ: DegQ (SacQ) fam 59.3 29 0.00062 22.4 4.4 26 15-40 3-32 (46)
8 PF09006 Surfac_D-trimer: Lung 59.1 22 0.00048 23.1 4.0 20 18-37 1-20 (46)
9 PF08912 Rho_Binding: Rho Bind 58.5 24 0.00053 24.5 4.3 27 15-41 9-35 (69)
10 PF11853 DUF3373: Protein of u 58.1 6.8 0.00015 35.9 2.0 22 16-37 31-52 (489)
11 PF05529 Bap31: B-cell recepto 57.2 23 0.00049 27.4 4.5 26 12-37 157-182 (192)
12 COG2047 Uncharacterized protei 57.1 17 0.00037 30.9 4.0 29 17-45 217-245 (258)
13 PF08776 VASP_tetra: VASP tetr 57.1 25 0.00054 22.3 3.8 23 15-37 2-25 (40)
14 PF13600 DUF4140: N-terminal d 55.3 36 0.00079 23.6 4.9 34 12-45 66-99 (104)
15 PF11460 DUF3007: Protein of u 54.5 10 0.00023 28.2 2.1 25 17-43 79-103 (104)
16 PF08232 Striatin: Striatin fa 53.1 29 0.00064 26.1 4.4 28 15-42 24-51 (134)
17 PF08581 Tup_N: Tup N-terminal 52.3 26 0.00055 24.6 3.7 22 16-37 39-60 (79)
18 PF04508 Pox_A_type_inc: Viral 50.6 21 0.00046 20.0 2.5 18 16-33 1-18 (23)
19 COG4064 MtrG Tetrahydromethano 50.5 27 0.00058 24.8 3.5 20 14-33 13-32 (75)
20 PF01017 STAT_alpha: STAT prot 49.7 38 0.00083 26.4 4.8 31 15-45 8-38 (182)
21 KOG0148 Apoptosis-promoting RN 49.5 8.8 0.00019 33.5 1.2 15 61-75 158-172 (321)
22 cd02988 Phd_like_VIAF Phosduci 49.5 12 0.00026 29.5 1.9 19 15-33 58-77 (192)
23 TIGR01645 half-pint poly-U bin 49.5 18 0.0004 33.9 3.4 55 16-75 61-115 (612)
24 PF06305 DUF1049: Protein of u 48.2 18 0.00039 23.2 2.3 19 17-35 49-67 (68)
25 PF04201 TPD52: Tumour protein 47.9 45 0.00098 26.6 4.9 25 14-38 27-51 (162)
26 PHA02107 hypothetical protein 47.6 22 0.00048 29.2 3.2 26 23-48 184-209 (216)
27 PF05667 DUF812: Protein of un 47.0 24 0.00053 32.9 3.7 32 16-47 447-478 (594)
28 PF11853 DUF3373: Protein of u 46.8 20 0.00043 33.0 3.1 30 13-43 22-51 (489)
29 PLN03213 repressor of silencin 46.6 9.2 0.0002 36.1 1.0 23 61-83 4-43 (759)
30 PRK11239 hypothetical protein; 45.1 51 0.0011 27.5 5.0 32 15-46 182-213 (215)
31 PF07716 bZIP_2: Basic region 45.0 77 0.0017 19.9 4.8 21 17-37 26-46 (54)
32 PF00804 Syntaxin: Syntaxin; 43.9 62 0.0013 21.3 4.5 28 16-43 7-34 (103)
33 PRK09413 IS2 repressor TnpA; R 43.3 49 0.0011 23.9 4.2 25 15-39 77-101 (121)
34 COG1422 Predicted membrane pro 43.2 54 0.0012 27.1 4.8 18 15-32 71-88 (201)
35 TIGR01149 mtrG N5-methyltetrah 43.1 78 0.0017 22.2 4.9 32 14-45 10-42 (70)
36 PF14723 SSFA2_C: Sperm-specif 43.0 23 0.0005 28.8 2.6 14 14-27 103-116 (179)
37 PF04210 MtrG: Tetrahydrometha 42.8 74 0.0016 22.3 4.8 32 14-45 10-42 (70)
38 PF09278 MerR-DNA-bind: MerR, 42.7 72 0.0016 20.0 4.5 27 17-43 37-63 (65)
39 PRK01026 tetrahydromethanopter 41.6 82 0.0018 22.4 4.9 32 14-45 13-45 (77)
40 PF11336 DUF3138: Protein of u 41.5 75 0.0016 29.5 5.9 32 11-45 20-51 (514)
41 PF06156 DUF972: Protein of un 41.5 68 0.0015 23.5 4.7 27 15-41 21-47 (107)
42 TIGR01834 PHA_synth_III_E poly 41.4 51 0.0011 28.8 4.6 25 14-38 287-311 (320)
43 PF08317 Spc7: Spc7 kinetochor 41.0 59 0.0013 27.5 4.9 20 14-33 207-226 (325)
44 PRK13169 DNA replication intia 40.3 73 0.0016 23.7 4.8 28 16-43 22-49 (110)
45 cd04786 HTH_MerR-like_sg7 Heli 40.0 61 0.0013 24.1 4.4 30 17-46 79-108 (131)
46 PRK13922 rod shape-determining 39.9 60 0.0013 26.3 4.6 24 16-39 76-99 (276)
47 KOG3119 Basic region leucine z 39.3 62 0.0013 27.0 4.7 31 16-46 215-245 (269)
48 COG4985 ABC-type phosphate tra 39.3 24 0.00053 30.3 2.3 35 3-37 208-242 (289)
49 PF09803 DUF2346: Uncharacteri 38.7 80 0.0017 22.2 4.5 27 13-40 49-75 (80)
50 TIGR02894 DNA_bind_RsfA transc 38.6 74 0.0016 25.4 4.8 30 16-45 111-140 (161)
51 KOG0121 Nuclear cap-binding pr 38.3 8.7 0.00019 30.4 -0.5 9 67-75 36-44 (153)
52 PF15188 CCDC-167: Coiled-coil 38.3 44 0.00096 24.0 3.2 23 15-37 42-64 (85)
53 TIGR02209 ftsL_broad cell divi 38.1 81 0.0018 20.9 4.4 26 15-40 30-55 (85)
54 cd02987 Phd_like_Phd Phosducin 37.4 24 0.00052 27.2 1.9 19 15-33 37-56 (175)
55 PF07106 TBPIP: Tat binding pr 37.2 90 0.0019 23.6 5.0 18 16-33 72-89 (169)
56 PF14182 YgaB: YgaB-like prote 36.3 75 0.0016 22.8 4.0 28 16-46 40-67 (79)
57 KOG0930 Guanine nucleotide exc 36.1 42 0.00092 29.8 3.4 35 14-48 15-49 (395)
58 PF04568 IATP: Mitochondrial A 35.7 94 0.002 22.8 4.6 11 17-27 73-83 (100)
59 KOG3335 Predicted coiled-coil 35.7 1.5E+02 0.0033 24.1 6.2 23 15-37 105-127 (181)
60 cd04770 HTH_HMRTR Helix-Turn-H 35.5 84 0.0018 22.3 4.4 29 18-46 81-109 (123)
61 PF04977 DivIC: Septum formati 35.4 1E+02 0.0022 19.8 4.4 16 17-32 25-40 (80)
62 cd03490 Topoisomer_IB_N_1 Topo 35.1 72 0.0016 26.6 4.4 31 64-99 126-156 (217)
63 cd04789 HTH_Cfa Helix-Turn-Hel 35.0 96 0.0021 21.8 4.5 27 18-44 73-99 (102)
64 PRK13182 racA polar chromosome 35.0 55 0.0012 25.9 3.6 17 28-44 127-143 (175)
65 PF05266 DUF724: Protein of un 34.8 92 0.002 24.9 4.9 31 15-45 130-160 (190)
66 KOG4702 Uncharacterized conser 34.7 70 0.0015 22.7 3.7 26 15-40 48-75 (77)
67 PRK00888 ftsB cell division pr 34.6 1E+02 0.0022 22.3 4.7 21 16-36 41-61 (105)
68 PF09036 Bcr-Abl_Oligo: Bcr-Ab 33.9 1.3E+02 0.0027 21.6 4.9 32 14-45 31-66 (79)
69 PRK15365 type III secretion sy 33.8 1E+02 0.0022 23.2 4.6 31 16-46 9-39 (107)
70 cd01282 HTH_MerR-like_sg3 Heli 33.7 1E+02 0.0022 22.0 4.5 30 16-45 81-110 (112)
71 PHA03155 hypothetical protein; 33.3 55 0.0012 24.9 3.2 20 27-46 12-31 (115)
72 cd04775 HTH_Cfa-like Helix-Tur 33.2 1.1E+02 0.0023 21.5 4.5 28 17-44 72-99 (102)
73 PRK13848 conjugal transfer pro 33.0 78 0.0017 23.5 3.8 17 15-31 9-25 (98)
74 COG2047 Uncharacterized protei 32.9 23 0.0005 30.2 1.2 27 4-30 214-240 (258)
75 cd00660 Topoisomer_IB_N Topois 32.8 76 0.0017 26.5 4.2 31 64-99 127-157 (215)
76 PRK01203 prefoldin subunit alp 32.8 1.1E+02 0.0023 23.5 4.7 32 15-46 6-37 (130)
77 TIGR02051 MerR Hg(II)-responsi 32.7 97 0.0021 22.4 4.4 30 17-46 77-106 (124)
78 cd03488 Topoisomer_IB_N_htopoI 32.4 78 0.0017 26.4 4.2 31 64-99 127-157 (215)
79 cd03489 Topoisomer_IB_N_Ldtopo 32.2 84 0.0018 26.2 4.3 31 64-99 124-154 (212)
80 PF07352 Phage_Mu_Gam: Bacteri 32.1 56 0.0012 24.5 3.1 29 15-43 9-38 (149)
81 PF06698 DUF1192: Protein of u 31.8 1E+02 0.0022 20.7 4.0 23 15-37 20-42 (59)
82 PLN03120 nucleic acid binding 31.5 26 0.00056 29.7 1.3 11 65-75 2-12 (260)
83 PF04799 Fzo_mitofusin: fzo-li 31.2 1.1E+02 0.0024 24.6 4.8 26 17-42 128-153 (171)
84 KOG2796 Uncharacterized conser 30.8 52 0.0011 29.2 3.0 30 17-46 227-256 (366)
85 COG2118 DNA-binding protein [G 30.8 1E+02 0.0022 23.5 4.2 18 15-32 3-21 (116)
86 cd01106 HTH_TipAL-Mta Helix-Tu 30.6 1.2E+02 0.0025 21.1 4.3 30 15-44 72-101 (103)
87 PF08262 Lem_TRP: Leucophaea m 30.5 30 0.00065 16.0 0.9 8 95-102 2-9 (10)
88 KOG3478 Prefoldin subunit 6, K 30.4 66 0.0014 24.6 3.2 23 26-48 5-27 (120)
89 PF12761 End3: Actin cytoskele 30.2 1.1E+02 0.0024 25.0 4.7 30 7-36 87-116 (195)
90 COG1422 Predicted membrane pro 30.1 1.2E+02 0.0025 25.1 4.8 20 25-44 100-119 (201)
91 cd04781 HTH_MerR-like_sg6 Heli 29.6 1.6E+02 0.0034 21.1 5.0 31 16-46 74-104 (120)
92 PRK10884 SH3 domain-containing 29.6 1.1E+02 0.0024 24.8 4.5 16 16-31 100-115 (206)
93 PF02575 YbaB_DNA_bd: YbaB/Ebf 29.6 61 0.0013 22.0 2.7 14 18-31 4-17 (93)
94 KOG3119 Basic region leucine z 29.5 85 0.0018 26.2 4.0 31 15-45 228-258 (269)
95 cd04785 HTH_CadR-PbrR-like Hel 29.4 1.2E+02 0.0026 22.0 4.4 29 18-46 81-109 (126)
96 cd04784 HTH_CadR-PbrR Helix-Tu 29.4 1.2E+02 0.0026 21.8 4.4 28 18-45 81-108 (127)
97 PRK09514 zntR zinc-responsive 29.0 1.2E+02 0.0025 22.6 4.4 28 18-45 83-110 (140)
98 cd04787 HTH_HMRTR_unk Helix-Tu 29.0 1.2E+02 0.0026 22.2 4.4 28 18-45 81-108 (133)
99 COG2919 Septum formation initi 28.7 90 0.002 22.8 3.6 24 15-38 63-86 (117)
100 COG5374 Uncharacterized conser 28.6 67 0.0014 26.4 3.1 32 14-45 155-186 (192)
101 PRK10722 hypothetical protein; 28.5 2.5E+02 0.0055 23.9 6.6 22 12-33 172-193 (247)
102 PF11461 RILP: Rab interacting 28.5 1E+02 0.0022 20.8 3.6 21 16-36 10-30 (60)
103 TIGR02043 ZntR Zn(II)-responsi 28.3 1.3E+02 0.0027 22.1 4.4 29 18-46 83-111 (131)
104 PF13942 Lipoprotein_20: YfhG 28.2 2.1E+02 0.0045 23.3 5.9 38 12-50 126-167 (179)
105 cd04779 HTH_MerR-like_sg4 Heli 28.2 1.4E+02 0.0031 22.3 4.7 28 16-43 81-108 (134)
106 cd01107 HTH_BmrR Helix-Turn-He 28.0 1.4E+02 0.0029 21.1 4.4 28 18-45 77-104 (108)
107 KOG0105 Alternative splicing f 27.9 27 0.00059 29.3 0.8 9 67-75 6-14 (241)
108 PF10779 XhlA: Haemolysin XhlA 27.8 1.8E+02 0.0039 19.3 4.7 24 16-39 6-29 (71)
109 PF15082 DUF4549: Domain of un 27.5 88 0.0019 24.7 3.5 23 23-45 10-33 (144)
110 COG3167 PilO Tfp pilus assembl 27.4 50 0.0011 27.5 2.2 25 16-40 73-98 (211)
111 PF07820 TraC: TraC-like prote 27.1 94 0.002 22.8 3.4 17 15-31 8-24 (92)
112 cd01109 HTH_YyaN Helix-Turn-He 26.9 1.5E+02 0.0032 20.9 4.4 29 17-45 80-108 (113)
113 PF04949 Transcrip_act: Transc 26.8 1.4E+02 0.0031 23.9 4.6 30 15-44 40-77 (159)
114 KOG4010 Coiled-coil protein TP 26.8 1.5E+02 0.0032 24.7 4.9 27 14-40 42-68 (208)
115 TIGR02047 CadR-PbrR Cd(II)/Pb( 26.6 1.8E+02 0.0038 21.2 4.9 28 18-45 81-108 (127)
116 PF15397 DUF4618: Domain of un 26.5 1.4E+02 0.003 25.4 4.7 29 15-43 62-91 (258)
117 PF13015 PRKCSH_1: Glucosidase 26.4 1E+02 0.0022 24.0 3.7 30 15-47 2-31 (154)
118 PRK10227 DNA-binding transcrip 26.3 1.4E+02 0.0031 22.2 4.4 29 18-46 81-109 (135)
119 PF04678 DUF607: Protein of un 26.2 1.4E+02 0.0031 23.2 4.5 30 16-45 57-86 (180)
120 cd00890 Prefoldin Prefoldin is 26.2 2E+02 0.0042 20.1 4.9 30 16-45 94-123 (129)
121 cd01108 HTH_CueR Helix-Turn-He 26.0 1.5E+02 0.0032 21.5 4.4 29 18-46 81-109 (127)
122 PF10470 AKAP7_RIRII_bdg: PKA- 26.0 2.2E+02 0.0048 19.4 5.3 29 12-44 3-31 (61)
123 PF14000 Packaging_FI: DNA pac 26.0 67 0.0014 24.6 2.6 16 18-33 26-41 (125)
124 PF04799 Fzo_mitofusin: fzo-li 25.8 1.5E+02 0.0032 23.8 4.6 26 18-43 122-147 (171)
125 TIGR01642 U2AF_lg U2 snRNP aux 25.7 48 0.001 28.5 2.0 16 60-75 168-183 (509)
126 PF09707 Cas_Cas2CT1978: CRISP 25.4 27 0.00057 25.0 0.3 7 69-75 27-33 (86)
127 COG5570 Uncharacterized small 25.3 1.5E+02 0.0032 20.0 3.8 26 12-37 29-54 (57)
128 PF01920 Prefoldin_2: Prefoldi 25.1 2E+02 0.0043 19.3 4.7 28 17-44 63-90 (106)
129 COG4026 Uncharacterized protei 25.0 1.2E+02 0.0026 26.1 4.2 25 16-40 163-187 (290)
130 cd04783 HTH_MerR1 Helix-Turn-H 25.0 1.6E+02 0.0035 21.2 4.4 29 18-46 79-107 (126)
131 PF09340 NuA4: Histone acetylt 24.9 1.2E+02 0.0027 21.0 3.6 22 16-37 2-23 (80)
132 PF01166 TSC22: TSC-22/dip/bun 24.9 1.6E+02 0.0034 20.1 3.9 23 16-38 14-36 (59)
133 PF08172 CASP_C: CASP C termin 24.9 1.3E+02 0.0028 25.1 4.3 20 18-37 88-107 (248)
134 PF11671 Apis_Csd: Complementa 24.7 1.4E+02 0.003 23.6 4.1 7 69-75 87-93 (146)
135 PF06401 Alpha-2-MRAP_C: Alpha 24.7 1.6E+02 0.0035 24.4 4.8 32 14-45 127-158 (214)
136 PF06753 Bradykinin: Bradykini 24.6 48 0.001 17.8 1.1 12 87-98 2-13 (19)
137 cd04790 HTH_Cfa-like_unk Helix 24.6 1.5E+02 0.0032 22.9 4.4 30 17-46 75-104 (172)
138 COG3388 Predicted transcriptio 24.4 1.6E+02 0.0034 22.0 4.2 31 12-42 69-99 (101)
139 PRK00888 ftsB cell division pr 24.3 1.3E+02 0.0028 21.8 3.7 27 17-43 28-54 (105)
140 PF04889 Cwf_Cwc_15: Cwf15/Cwc 24.3 1.9E+02 0.0041 24.1 5.1 9 16-24 153-161 (244)
141 PF14662 CCDC155: Coiled-coil 24.3 1.6E+02 0.0035 24.2 4.6 22 15-36 66-87 (193)
142 TIGR02044 CueR Cu(I)-responsiv 24.2 1.7E+02 0.0036 21.2 4.4 29 18-46 81-109 (127)
143 cd04777 HTH_MerR-like_sg1 Heli 24.2 1.2E+02 0.0027 21.1 3.5 23 18-40 83-105 (107)
144 TIGR02743 TraW type-F conjugat 23.9 86 0.0019 25.5 3.0 26 16-42 35-60 (202)
145 CHL00154 rpl29 ribosomal prote 23.8 1.6E+02 0.0035 19.9 3.9 28 15-43 11-38 (67)
146 TIGR02231 conserved hypothetic 23.7 1.6E+02 0.0035 26.2 4.9 26 12-37 67-92 (525)
147 cd04788 HTH_NolA-AlbR Helix-Tu 23.5 95 0.0021 21.5 2.8 22 17-38 74-95 (96)
148 PF13815 Dzip-like_N: Iguana/D 23.5 2.3E+02 0.0049 20.5 4.9 30 16-45 80-109 (118)
149 KOG0159 Cytochrome P450 CYP11/ 23.5 54 0.0012 30.5 1.9 35 78-118 427-462 (519)
150 PF11333 DUF3135: Protein of u 23.4 1.5E+02 0.0034 20.8 3.9 39 12-50 14-58 (83)
151 cd00427 Ribosomal_L29_HIP Ribo 23.3 1.6E+02 0.0035 18.8 3.7 26 17-43 7-32 (57)
152 PF07795 DUF1635: Protein of u 23.3 1.6E+02 0.0035 24.5 4.5 25 16-40 15-43 (214)
153 PF09849 DUF2076: Uncharacteri 23.1 94 0.002 26.0 3.2 6 80-85 99-104 (247)
154 KOG4571 Activating transcripti 23.0 98 0.0021 27.0 3.3 26 17-42 263-288 (294)
155 TIGR01873 cas_CT1978 CRISPR-as 22.9 31 0.00067 24.8 0.2 7 69-75 27-33 (87)
156 PF11740 KfrA_N: Plasmid repli 22.7 2.5E+02 0.0054 19.6 4.9 16 20-35 92-107 (120)
157 PRK10244 anti-RssB factor; Pro 22.7 1.5E+02 0.0032 21.6 3.7 18 18-35 5-22 (88)
158 PF11365 DUF3166: Protein of u 22.6 2.3E+02 0.0051 20.7 4.8 29 15-43 14-42 (96)
159 PRK11637 AmiB activator; Provi 22.4 1.7E+02 0.0036 25.4 4.6 15 16-30 47-61 (428)
160 PF04120 Iron_permease: Low af 22.4 1.3E+02 0.0028 23.1 3.5 22 12-33 94-115 (132)
161 PF14265 DUF4355: Domain of un 22.3 1.9E+02 0.0041 20.7 4.2 21 14-34 47-67 (125)
162 PF14282 FlxA: FlxA-like prote 22.1 1.5E+02 0.0032 21.4 3.6 19 15-33 18-36 (106)
163 PF15619 Lebercilin: Ciliary p 22.1 1.9E+02 0.0041 23.1 4.6 32 16-47 19-50 (194)
164 PF05812 Herpes_BLRF2: Herpesv 22.1 75 0.0016 24.2 2.2 22 25-46 5-26 (118)
165 PRK09866 hypothetical protein; 22.0 1.5E+02 0.0033 28.9 4.6 32 16-47 446-477 (741)
166 PRK11558 putative ssRNA endonu 22.0 34 0.00073 25.1 0.3 7 69-75 29-35 (97)
167 TIGR00012 L29 ribosomal protei 21.9 2E+02 0.0044 18.3 3.9 24 17-41 6-29 (55)
168 PF11629 Mst1_SARAH: C termina 21.9 1.6E+02 0.0035 19.3 3.4 20 18-37 10-33 (49)
169 cd04782 HTH_BltR Helix-Turn-He 21.9 1.1E+02 0.0023 21.3 2.8 21 18-38 76-96 (97)
170 cd00584 Prefoldin_alpha Prefol 21.8 2.5E+02 0.0054 20.0 4.8 29 16-44 94-122 (129)
171 PHA02557 22 prohead core prote 21.8 1.7E+02 0.0037 25.2 4.5 19 17-35 142-160 (271)
172 PRK13738 conjugal transfer pil 21.8 1.1E+02 0.0024 25.0 3.3 27 16-43 33-59 (209)
173 PF12097 DUF3573: Protein of u 21.7 1.2E+02 0.0026 27.3 3.6 25 14-38 40-64 (383)
174 PRK13752 putative transcriptio 21.5 1.9E+02 0.0042 21.8 4.4 29 17-45 85-113 (144)
175 PF07106 TBPIP: Tat binding pr 21.4 1.5E+02 0.0032 22.4 3.7 19 15-33 78-96 (169)
176 cd04769 HTH_MerR2 Helix-Turn-H 21.3 2.1E+02 0.0046 20.3 4.4 29 18-46 81-109 (116)
177 PF15215 FDC-SP: Follicular de 21.1 81 0.0017 21.9 2.0 14 111-124 36-49 (67)
178 PF03478 DUF295: Protein of un 21.0 71 0.0015 19.9 1.6 25 62-86 4-31 (54)
179 cd04776 HTH_GnyR Helix-Turn-He 21.0 2.3E+02 0.0049 20.5 4.5 28 18-45 82-109 (118)
180 KOG2017 Molybdopterin synthase 20.8 81 0.0018 28.7 2.4 61 15-82 3-69 (427)
181 PF06005 DUF904: Protein of un 20.8 2.9E+02 0.0062 18.9 4.8 13 18-30 20-32 (72)
182 PF05278 PEARLI-4: Arabidopsis 20.8 1.6E+02 0.0035 25.2 4.1 15 17-31 208-222 (269)
183 COG1792 MreC Cell shape-determ 20.7 1.4E+02 0.003 25.1 3.7 13 76-88 174-186 (284)
184 PF04111 APG6: Autophagy prote 20.6 2.3E+02 0.005 24.1 5.0 7 76-82 131-137 (314)
185 PF14131 DUF4298: Domain of un 20.2 2.4E+02 0.0052 19.7 4.3 21 22-42 13-33 (90)
186 PRK06800 fliH flagellar assemb 20.1 2E+02 0.0043 24.1 4.4 29 16-44 38-66 (228)
187 cd04768 HTH_BmrR-like Helix-Tu 20.0 1.2E+02 0.0026 20.9 2.8 20 19-38 76-95 (96)
188 smart00338 BRLZ basic region l 20.0 2.2E+02 0.0047 18.2 3.8 19 17-35 27-45 (65)
No 1
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=99.60 E-value=8.5e-16 Score=124.77 Aligned_cols=112 Identities=32% Similarity=0.402 Sum_probs=90.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhcCCCCCCC---CCCCcccccccCCCceEeccc----------------
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVGNEMASKQDPAA---GGSSLANREEVDSRSVFVGNV---------------- 75 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~vekem~~~~~p~~---~~~t~eek~E~DsRSIYVGNV---------------- 75 (132)
+-+|++++.++.|+|.++.+|+.||..+++++...+..+. ...+.+.+.++|++|||||||
T Consensus 46 ~~~i~~~~~~~~e~e~~i~~le~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~d~~sv~v~nvd~~~t~~~~e~hf~~C 125 (231)
T KOG4209|consen 46 NFKISANYNRSSEKEWEITKLERMCPATVKPLMDLSLKAAVVVKEKFPERQKEVDAPSVWVGNVDFLVTLTKIELHFESC 125 (231)
T ss_pred CcccchhhcccccchhhhHHHHhhchhhhhhhhhcccccchhhhhcchhhhhccCCceEEEeccccccccchhhheeecc
Confidence 7899999999999999999999999999997765443221 236778899999999999999
Q ss_pred -------------------------------------------------cccccCCCCCcCCCCCCC-CCCcccCCCCCC
Q 032827 76 -------------------------------------------------TVKRTNVPGMKQHRPRRP-NPFMVYQSRGAI 105 (132)
Q Consensus 76 -------------------------------------------------~~kRtnvPGmkq~r~r~~-~p~~~~~~~~~~ 105 (132)
++||||+|||+++.++++ .|.++|+.+.|.
T Consensus 126 g~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~~r~~~pg~~~~~~~~~~~~~~~f~~~~~~ 205 (231)
T KOG4209|consen 126 GGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTLKRTNVPGMGRSSPPRRTSPRWTFRLEWPP 205 (231)
T ss_pred CCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeeeeeeecCCcCCCCCCcccCCCCccccccCC
Confidence 999999999999998765 356789999988
Q ss_pred CCCCCC-CCC-CCCCCcccCCCC
Q 032827 106 IPPFLY-SPY-GYGKIPRFRMPM 126 (132)
Q Consensus 106 ~~~~~~-~py-gyg~~pr~r~~~ 126 (132)
+.++.| +|. |+.+..++|...
T Consensus 206 ~~~~~~~~~~~~~~~~~~~~~~~ 228 (231)
T KOG4209|consen 206 MHQFYYRCPKNGSPRRRRYRGRS 228 (231)
T ss_pred CCcceeeccCCCccccccccccc
Confidence 888876 443 444455555443
No 2
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=87.85 E-value=1.4 Score=39.04 Aligned_cols=68 Identities=24% Similarity=0.401 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHH-----------------HHHHhHHHHHhhhcCCCCCCCCCCCcccccccCCCceEec--cc------
Q 032827 21 MKIRLKEMEEEAT-----------------ALRQMHAKVGNEMASKQDPAAGGSSLANREEVDSRSVFVG--NV------ 75 (132)
Q Consensus 21 mK~Rl~EMEeEA~-----------------kLremQ~~vekem~~~~~p~~~~~t~eek~E~DsRSIYVG--NV------ 75 (132)
+..++++||+|.+ +|.+|+.++++....+.. + ...-.=+++=|++-++|| ||
T Consensus 4 ieEkIk~iEeeia~tpknKaTe~hig~lKaklA~Lr~El~~~~~~~gg-g--g~gf~V~KsGda~v~lVGfPsvGKStLL 80 (365)
T COG1163 4 IEEKIKAIEEEIARTPKNKATEHHIGLLKAKLAELREELEKRKSKSGG-G--GSGFAVKKSGDATVALVGFPSVGKSTLL 80 (365)
T ss_pred HHHHHHHHHHHHHhcccchhhHHHHHHHHHHHHHHHHHHhhhhhcCCC-C--CCcceEeccCCeEEEEEcCCCccHHHHH
Confidence 4556777777753 355666666653111111 1 134455778899999999 66
Q ss_pred --------------cccccCCCCCcCCCCC
Q 032827 76 --------------TVKRTNVPGMKQHRPR 91 (132)
Q Consensus 76 --------------~~kRtnvPGmkq~r~r 91 (132)
=.-.|-||||=.|.|-
T Consensus 81 ~~LTnt~seva~y~FTTl~~VPG~l~Y~ga 110 (365)
T COG1163 81 NKLTNTKSEVADYPFTTLEPVPGMLEYKGA 110 (365)
T ss_pred HHHhCCCccccccCceecccccceEeecCc
Confidence 2235668999888765
No 3
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=80.37 E-value=1.3 Score=39.38 Aligned_cols=56 Identities=20% Similarity=0.407 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH-HHhHHHHHhhh--cCCCCCCCCCCCcccccccCCCceEeccc
Q 032827 16 VELDDMKIRLKEMEEEATAL-RQMHAKVGNEM--ASKQDPAAGGSSLANREEVDSRSVFVGNV 75 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kL-remQ~~vekem--~~~~~p~~~~~t~eek~E~DsRSIYVGNV 75 (132)
.-|+++++...|||||++.| +|+-+...-+. ..- -.+.-.+...-+|.|.+|||++
T Consensus 148 lqL~~l~~e~~Ekeeesq~LnrELaE~layqq~L~~e----yQatf~eq~~ml~kRQ~yI~~L 206 (401)
T PF06785_consen 148 LQLDALQQECGEKEEESQTLNRELAEALAYQQELNDE----YQATFVEQHSMLDKRQAYIGKL 206 (401)
T ss_pred HhHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHH----hhcccccchhhhHHHHHHHHHH
Confidence 46888999999999999876 45443332111 100 0112334556789999999996
No 4
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=71.67 E-value=9.2 Score=31.80 Aligned_cols=33 Identities=27% Similarity=0.528 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhhhcCCC
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNEMASKQ 50 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~vekem~~~~ 50 (132)
|++++.+|.+++++++.+++|-+++|.+....+
T Consensus 1 l~~lq~~l~~l~~~~~~~~~L~~kLE~DL~~~~ 33 (248)
T PF08172_consen 1 LEELQKELSELEAKLEEQKELNAKLENDLAKVQ 33 (248)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 678999999999999999999999999886543
No 5
>PF14077 WD40_alt: Alternative WD40 repeat motif
Probab=66.16 E-value=5.1 Score=26.24 Aligned_cols=24 Identities=29% Similarity=0.724 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHH
Q 032827 19 DDMKIRLKEMEEEATALRQMHAKV 42 (132)
Q Consensus 19 EemK~Rl~EMEeEA~kLremQ~~v 42 (132)
|.++.||.|+|+|...||.+...+
T Consensus 14 e~l~vrv~eLEeEV~~LrKINrdL 37 (48)
T PF14077_consen 14 EQLRVRVSELEEEVRTLRKINRDL 37 (48)
T ss_pred chheeeHHHHHHHHHHHHHHhHHH
Confidence 468899999999999999877554
No 6
>PF05190 MutS_IV: MutS family domain IV C-terminus.; InterPro: IPR007861 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the clamp domain (domain 4) found in proteins of the MutS family. The clamp domain is inserted within the core domain at the top of the lever helices. It has a beta-sheet structure [].; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B 1WBD_A 1WB9_A 3K0S_A 1OH6_A ....
Probab=62.64 E-value=17 Score=23.88 Aligned_cols=29 Identities=24% Similarity=0.495 Sum_probs=21.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
+.||+++++.+.+++++++. ++.++.+..
T Consensus 3 d~~Ld~~~~~~~~~~~~l~~---~~~~~~~~~ 31 (92)
T PF05190_consen 3 DEELDELREEYEEIEEELEE---LLEEIRKKL 31 (92)
T ss_dssp SHHHHHHHHHHHHHHHHHHH---HHHHHHHHC
T ss_pred CHHHHHHHHHHHHHHHHHHH---HHHHHHHHc
Confidence 57999999999999999654 344444443
No 7
>PF08181 DegQ: DegQ (SacQ) family; InterPro: IPR012554 This family consists of the DegQ (formerly sacQ) regulatory peptides. The DegQ family of peptides control the rates of synthesis of a class of both secreted and intracellular degradative enzymes in Bacillus subtilis. DegQ is 46 amino acids long and activates the synthesis of degradative enzymes. The expression of this peptide was shown to be subjected both to catabolite repression and DegS-DegU-mediated control. Thus allowing an increase in the rate of synthesis of degQ under conditions of nitrogen starvation [].
Probab=59.28 E-value=29 Score=22.38 Aligned_cols=26 Identities=23% Similarity=0.445 Sum_probs=19.6
Q ss_pred hHHHHHHHHHHHHHHHHHHH----HHHhHH
Q 032827 15 QVELDDMKIRLKEMEEEATA----LRQMHA 40 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~k----LremQ~ 40 (132)
.++||++|+-||.+|-|... |+.+..
T Consensus 3 k~~ieelkqll~rle~eirett~sl~nink 32 (46)
T PF08181_consen 3 KKKIEELKQLLWRLENEIRETTDSLRNINK 32 (46)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47899999999999988543 555443
No 8
>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=59.12 E-value=22 Score=23.05 Aligned_cols=20 Identities=5% Similarity=0.385 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 032827 18 LDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLre 37 (132)
++++|++|..||.....|+.
T Consensus 1 i~aLrqQv~aL~~qv~~Lq~ 20 (46)
T PF09006_consen 1 INALRQQVEALQGQVQRLQA 20 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHH
Confidence 47899999999988555543
No 9
>PF08912 Rho_Binding: Rho Binding; InterPro: IPR015008 Rho is responsible for the recognition and binding of Rho binding domain-containing proteins (such as ROCK) to Rho, resulting in activation of the GTPase which in turn modulates the phosphorylation of various signalling proteins. This domain is within an amphipathic alpha-helical coiled-coil and interacts with Rho through predominantly hydrophobic interactions []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0000910 cytokinesis, 0006468 protein phosphorylation; PDB: 1UIX_A 1S1C_X.
Probab=58.45 E-value=24 Score=24.55 Aligned_cols=27 Identities=22% Similarity=0.384 Sum_probs=22.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAK 41 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~ 41 (132)
..|.|++-.+++++++|..++++...+
T Consensus 9 ~~EkeeL~~klk~~qeel~~~k~~~~~ 35 (69)
T PF08912_consen 9 AKEKEELNNKLKKQQEELQKLKEEEQE 35 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 368999999999999999888876543
No 10
>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=58.06 E-value=6.8 Score=35.92 Aligned_cols=22 Identities=18% Similarity=0.448 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 032827 16 VELDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLre 37 (132)
++||++|++|++|+++...|.+
T Consensus 31 qkie~L~kql~~Lk~q~~~l~~ 52 (489)
T PF11853_consen 31 QKIEALKKQLEELKAQQDDLND 52 (489)
T ss_pred HHHHHHHHHHHHHHHhhccccc
Confidence 4788888888888877654433
No 11
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=57.17 E-value=23 Score=27.40 Aligned_cols=26 Identities=27% Similarity=0.452 Sum_probs=20.9
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHH
Q 032827 12 ENKQVELDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 12 ~~~d~ELEemK~Rl~EMEeEA~kLre 37 (132)
+..+.|++++|.+|++-|.|.+.|+.
T Consensus 157 ~~~~~ei~~lk~el~~~~~~~~~Lkk 182 (192)
T PF05529_consen 157 KKLSEEIEKLKKELEKKEKEIEALKK 182 (192)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34467999999999998888887776
No 12
>COG2047 Uncharacterized protein (ATP-grasp superfamily) [General function prediction only]
Probab=57.13 E-value=17 Score=30.94 Aligned_cols=29 Identities=28% Similarity=0.436 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
+.++++.|-+|||+=.+||++|++..+.+
T Consensus 217 d~~~Le~RAke~E~ii~k~~emee~~e~~ 245 (258)
T COG2047 217 DMEALEERAKEMEEIIEKLKEMEEMQEAQ 245 (258)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 67889999999999999999997666544
No 13
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=57.13 E-value=25 Score=22.26 Aligned_cols=23 Identities=22% Similarity=0.479 Sum_probs=16.1
Q ss_pred hHHHHHHHHH-HHHHHHHHHHHHH
Q 032827 15 QVELDDMKIR-LKEMEEEATALRQ 37 (132)
Q Consensus 15 d~ELEemK~R-l~EMEeEA~kLre 37 (132)
+.|||.||+. |.||-.|..|+++
T Consensus 2 ~~dle~~KqEIL~EvrkEl~K~K~ 25 (40)
T PF08776_consen 2 SSDLERLKQEILEEVRKELQKVKE 25 (40)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chhHHHHHHHHHHHHHHHHHHHHH
Confidence 4678888876 4567777776654
No 14
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=55.29 E-value=36 Score=23.60 Aligned_cols=34 Identities=24% Similarity=0.390 Sum_probs=25.0
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 12 ENKQVELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 12 ~~~d~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
+....++.+++.++++++++.+++..-.+-+..+
T Consensus 66 ~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~ 99 (104)
T PF13600_consen 66 ESDSPELKELEEELEALEDELAALQDEIQALEAQ 99 (104)
T ss_pred ccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456799999999999999988877655444443
No 15
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=54.45 E-value=10 Score=28.25 Aligned_cols=25 Identities=24% Similarity=0.510 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
.=|+|++|+.||-.|- |..||++++
T Consensus 79 ~~~~lqkRle~l~~eE--~~~L~~eie 103 (104)
T PF11460_consen 79 TNEELQKRLEELSPEE--LEALQAEIE 103 (104)
T ss_pred hHHHHHHHHHhCCHHH--HHHHHHHhc
Confidence 4467999999997552 344444443
No 16
>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=53.09 E-value=29 Score=26.12 Aligned_cols=28 Identities=21% Similarity=0.385 Sum_probs=21.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKV 42 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~v 42 (132)
+-|-.+||+|+..+|-|...++.++..+
T Consensus 24 eiERaEmkarIa~LEGE~r~~e~l~~dL 51 (134)
T PF08232_consen 24 EIERAEMKARIAFLEGERRGQENLKKDL 51 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3477789999999999988766655543
No 17
>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []. ; PDB: 3VP9_B 3VP8_B.
Probab=52.26 E-value=26 Score=24.63 Aligned_cols=22 Identities=18% Similarity=0.469 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 032827 16 VELDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLre 37 (132)
+|++.|+..|-+||....++|+
T Consensus 39 ~Em~~ir~~v~eLE~~h~kmK~ 60 (79)
T PF08581_consen 39 QEMQQIRQKVYELEQAHRKMKQ 60 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 6999999999999988887765
No 18
>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=50.64 E-value=21 Score=20.03 Aligned_cols=18 Identities=17% Similarity=0.521 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 032827 16 VELDDMKIRLKEMEEEAT 33 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~ 33 (132)
.|++..|.|+.++|.++.
T Consensus 1 ~E~~rlr~rI~dLer~L~ 18 (23)
T PF04508_consen 1 REMNRLRNRISDLERQLS 18 (23)
T ss_pred ChHHHHHHHHHHHHHHHH
Confidence 378888999999888764
No 19
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=50.50 E-value=27 Score=24.76 Aligned_cols=20 Identities=25% Similarity=0.529 Sum_probs=17.0
Q ss_pred ChHHHHHHHHHHHHHHHHHH
Q 032827 14 KQVELDDMKIRLKEMEEEAT 33 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~ 33 (132)
+.+|++++++||.|+|+-.+
T Consensus 13 ~~~dfne~~kRLdeieekve 32 (75)
T COG4064 13 DPDDFNEIHKRLDEIEEKVE 32 (75)
T ss_pred CHHHHHHHHHHHHHHHHHHH
Confidence 45799999999999998754
No 20
>PF01017 STAT_alpha: STAT protein, all-alpha domain; InterPro: IPR013800 The STAT protein (Signal Transducers and Activators of Transcription) family contains transcription factors that are specifically activated to regulate gene transcription when cells encounter cytokines and growth factors, hence they act as signal transducers in the cytoplasm and transcription activators in the nucleus []. Binding of these factors to cell-surface receptors leads to receptor autophosphorylation at a tyrosine, the phosphotyrosine being recognised by the STAT SH2 domain, which mediates the recruitment of STAT proteins from the cytosol and their association with the activated receptor. The STAT proteins are then activated by phosphorylation via members of the JAK family of protein kinases, causing them to dimerise and translocated to the nucleus, where they bind to specific promoter sequences in target genes. In mammals, STATs comprise a family of seven structurally and functionally related proteins: Stat1, Stat2, Stat3, Stat4, Stat5a and Stat5b, Stat6. STAT proteins play a critical role in regulating innate and acquired host immune responses. Dysregulation of at least two STAT signalling cascades (i.e. Stat3 and Stat5) is associated with cellular transformation. Signalling through the JAK/STAT pathway is initiated when a cytokine binds to its corresponding receptor. This leads to conformational changes in the cytoplasmic portion of the receptor, initiating activation of receptor associated members of the JAK family of kinases. The JAKs, in turn, mediate phosphorylation at the specific receptor tyrosine residues, which then serve as docking sites for STATs and other signalling molecules. Once recruited to the receptor, STATs also become phosphorylated by JAKs, on a single tyrosine residue. Activated STATs dissociate from the receptor, dimerise, translocate to the nucleus and bind to members of the GAS (gamma activated site) family of enhancers. The seven STAT proteins identified in mammals range in size from 750 and 850 amino acids. The chromosomal distribution of these STATs, as well as the identification of STATs in more primitive eukaryotes, suggest that this family arose from a single primordial gene. STATs share structurally and functionally conserved domains including: an N-terminal domain that strengthens interactions between STAT dimers on adjacent DNA-binding sites; a coiled-coil STAT domain that is implicated in protein-protein interactions; a DNA-binding domain with an immunoglobulin-like fold similar to p53 tumour suppressor protein; an EF-hand-like linker domain connecting the DNA-binding and SH2 domains; an SH2 domain (IPR000980 from INTERPRO) that acts as a phosphorylation-dependent switch to control receptor recognition and DNA-binding; and a C-terminal transactivation domain []. The crystal structure of the N terminus of Stat4 reveals a dimer. The interface of this dimer is formed by a ring-shaped element consisting of five short helices. Several studies suggest that this N-terminal dimerisation promotes cooperativity of binding to tandem GAS elements and with the transcriptional coactivator CBP/p300. This entry represents the all-alpha helical domain, which consists of four long helices arranged in a bundle with a left-handed twist (coiled-coil), which in turn forms a right-handed superhelix.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0004871 signal transducer activity, 0006355 regulation of transcription, DNA-dependent, 0007165 signal transduction, 0005634 nucleus; PDB: 1YVL_A 1BF5_A 3CWG_B 1BG1_A 1Y1U_B.
Probab=49.74 E-value=38 Score=26.35 Aligned_cols=31 Identities=19% Similarity=0.448 Sum_probs=26.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
+..|..++.++.+||++...|.++|+...=.
T Consensus 8 ~~~l~~l~~~vq~~e~~~k~Le~~QE~f~~~ 38 (182)
T PF01017_consen 8 EQKLQDLRNRVQETENDIKSLEDLQEEFDFQ 38 (182)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578899999999999999999999877643
No 21
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=49.52 E-value=8.8 Score=33.50 Aligned_cols=15 Identities=47% Similarity=0.820 Sum_probs=13.6
Q ss_pred cccccCCCceEeccc
Q 032827 61 NREEVDSRSVFVGNV 75 (132)
Q Consensus 61 ek~E~DsRSIYVGNV 75 (132)
++...|+.||||||+
T Consensus 158 NQssp~NtsVY~G~I 172 (321)
T KOG0148|consen 158 NQSSPDNTSVYVGNI 172 (321)
T ss_pred ccCCCCCceEEeCCc
Confidence 577899999999999
No 22
>cd02988 Phd_like_VIAF Phosducin (Phd)-like family, Viral inhibitor of apoptosis (IAP)-associated factor (VIAF) subfamily; VIAF is a Phd-like protein that functions in caspase activation during apoptosis. It was identified as an IAP binding protein through a screen of a human B-cell library using a prototype IAP. VIAF lacks a consensus IAP binding motif and while it does not function as an IAP antagonist, it still plays a regulatory role in the complete activation of caspases. VIAF itself is a substrate for IAP-mediated ubiquitination, suggesting that it may be a target of IAPs in the prevention of cell death. The similarity of VIAF to Phd points to a potential role distinct from apoptosis regulation. Phd functions as a cytosolic regulator of G protein by specifically binding to G protein betagamma (Gbg)-subunits. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=49.52 E-value=12 Score=29.48 Aligned_cols=19 Identities=32% Similarity=0.382 Sum_probs=13.9
Q ss_pred hHHHHHH-HHHHHHHHHHHH
Q 032827 15 QVELDDM-KIRLKEMEEEAT 33 (132)
Q Consensus 15 d~ELEem-K~Rl~EMEeEA~ 33 (132)
+++|+.. ++||+||.+++.
T Consensus 58 ~~~Le~yR~kRl~el~~~~~ 77 (192)
T cd02988 58 DRFLEEYRRKRLAEMKALAE 77 (192)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 3478888 678888887654
No 23
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=49.46 E-value=18 Score=33.91 Aligned_cols=55 Identities=16% Similarity=0.198 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhcCCCCCCCCCCCcccccccCCCceEeccc
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNEMASKQDPAAGGSSLANREEVDSRSVFVGNV 75 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~vekem~~~~~p~~~~~t~eek~E~DsRSIYVGNV 75 (132)
.+|+++|+-..|+.-+...|++-+.+..++....+. ....++.-...+.|||||+
T Consensus 61 ~~~~~~~~~~~~~s~~~~~lkQ~~~~qqqq~~~q~~-----~~~r~~a~~~~~rLfVGnL 115 (612)
T TIGR01645 61 DDIQKAKKYAMEQSIKQVLLKQTKAHQQQQLENQQR-----QQQRQQALAIMCRVYVGSI 115 (612)
T ss_pred HHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHH-----HHHHhhhhcCCCEEEEcCC
Confidence 467777777777666666666654433333221100 0111112234567999998
No 24
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=48.17 E-value=18 Score=23.15 Aligned_cols=19 Identities=26% Similarity=0.501 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 032827 17 ELDDMKIRLKEMEEEATAL 35 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kL 35 (132)
++...+++++++|.|.++|
T Consensus 49 ~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 49 RIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 4455555555555555544
No 25
>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=47.94 E-value=45 Score=26.62 Aligned_cols=25 Identities=32% Similarity=0.545 Sum_probs=21.3
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHh
Q 032827 14 KQVELDDMKIRLKEMEEEATALRQM 38 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~kLrem 38 (132)
.++|-++++..|...|+|..-|++.
T Consensus 27 sEeE~eeLr~EL~KvEeEI~TLrqv 51 (162)
T PF04201_consen 27 SEEEREELRSELAKVEEEIQTLRQV 51 (162)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999999999998877663
No 26
>PHA02107 hypothetical protein
Probab=47.56 E-value=22 Score=29.18 Aligned_cols=26 Identities=23% Similarity=0.523 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHhHHHHHhhhcC
Q 032827 23 IRLKEMEEEATALRQMHAKVGNEMAS 48 (132)
Q Consensus 23 ~Rl~EMEeEA~kLremQ~~vekem~~ 48 (132)
.||+|+++|.++|+.+..+++..|..
T Consensus 184 ~Ri~EID~EI~~LQA~RKEiEDN~K~ 209 (216)
T PHA02107 184 VRISEIDEEIKELQARRKEIEDNIKS 209 (216)
T ss_pred hhHhHHhHHHHHHHHHHHHHHHHHHH
Confidence 58999999999999999999988753
No 27
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=46.99 E-value=24 Score=32.88 Aligned_cols=32 Identities=22% Similarity=0.422 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhc
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNEMA 47 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~vekem~ 47 (132)
++|..++.+++++++|+....++..++.++..
T Consensus 447 ~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e 478 (594)
T PF05667_consen 447 QEIKELREEIKEIEEEIRQKEELYKQLVKELE 478 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 58888999999999999887777777776654
No 28
>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=46.78 E-value=20 Score=33.02 Aligned_cols=30 Identities=7% Similarity=0.303 Sum_probs=22.1
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 13 NKQVELDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 13 ~~d~ELEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
+..+|++.+| +|++|+.|+++|++-|..+.
T Consensus 22 a~~~~~~~~q-kie~L~kql~~Lk~q~~~l~ 51 (489)
T PF11853_consen 22 AMADDIDLLQ-KIEALKKQLEELKAQQDDLN 51 (489)
T ss_pred hhhhhhHHHH-HHHHHHHHHHHHHHhhcccc
Confidence 3456778888 99999999888877555433
No 29
>PLN03213 repressor of silencing 3; Provisional
Probab=46.64 E-value=9.2 Score=36.13 Aligned_cols=23 Identities=17% Similarity=0.203 Sum_probs=18.1
Q ss_pred cccccCCCceEeccc-----------------cccccCCC
Q 032827 61 NREEVDSRSVFVGNV-----------------TVKRTNVP 83 (132)
Q Consensus 61 ek~E~DsRSIYVGNV-----------------~~kRtnvP 83 (132)
+..+.-.-+|||||+ +.++..||
T Consensus 4 ees~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp 43 (759)
T PLN03213 4 KSSGGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV 43 (759)
T ss_pred cccCCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe
Confidence 344555689999999 78888888
No 30
>PRK11239 hypothetical protein; Provisional
Probab=45.12 E-value=51 Score=27.46 Aligned_cols=32 Identities=19% Similarity=0.260 Sum_probs=24.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
...++++..||.++|+|.+.|+..=+++..+.
T Consensus 182 ~~~~~~Le~rv~~Le~eva~L~~~l~~l~~~~ 213 (215)
T PRK11239 182 NAVDGDLQARVEALEIEVAELKQRLDSLLAHL 213 (215)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45678899999999999998877555555543
No 31
>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=45.02 E-value=77 Score=19.89 Aligned_cols=21 Identities=33% Similarity=0.585 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 032827 17 ELDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLre 37 (132)
.++.|..+|.+|+++-..|++
T Consensus 26 ~~~~le~~~~~L~~en~~L~~ 46 (54)
T PF07716_consen 26 REEELEQEVQELEEENEQLRQ 46 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666666655544
No 32
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=43.93 E-value=62 Score=21.30 Aligned_cols=28 Identities=21% Similarity=0.490 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
.+.++++..|..++....+|+.+|.+.-
T Consensus 7 ~~v~~i~~~i~~i~~~~~~l~~l~~~~l 34 (103)
T PF00804_consen 7 DEVQEIREDIDKIKEKLNELRKLHKKIL 34 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3667777777777777777777665443
No 33
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=43.34 E-value=49 Score=23.88 Aligned_cols=25 Identities=12% Similarity=0.175 Sum_probs=18.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhH
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMH 39 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ 39 (132)
..|+.+++++|.+++.|.+-|+...
T Consensus 77 ~~ei~~L~~el~~L~~E~diLKKa~ 101 (121)
T PRK09413 77 MKQIKELQRLLGKKTMENELLKEAV 101 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567778888888777777776644
No 34
>COG1422 Predicted membrane protein [Function unknown]
Probab=43.17 E-value=54 Score=27.07 Aligned_cols=18 Identities=22% Similarity=0.444 Sum_probs=12.1
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 032827 15 QVELDDMKIRLKEMEEEA 32 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA 32 (132)
.+.++++|.+++|.++|-
T Consensus 71 ~ekm~~~qk~m~efq~e~ 88 (201)
T COG1422 71 QEKMKELQKMMKEFQKEF 88 (201)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 456777777777766553
No 35
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G. coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranfersae is membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=43.10 E-value=78 Score=22.22 Aligned_cols=32 Identities=22% Similarity=0.426 Sum_probs=21.5
Q ss_pred ChHHHHHHHHHHHHHHHHHHH-HHHhHHHHHhh
Q 032827 14 KQVELDDMKIRLKEMEEEATA-LRQMHAKVGNE 45 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~k-LremQ~~veke 45 (132)
+.+|..+++.||.+||+-.+- --|++....+.
T Consensus 10 ~~~d~~~i~~rLd~iEeKVEf~~~E~~Qr~Gkk 42 (70)
T TIGR01149 10 EPDEFNEVMKRLDEIEEKVEFVNGEVAQRIGKK 42 (70)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 347999999999999987652 23444444443
No 36
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=42.99 E-value=23 Score=28.76 Aligned_cols=14 Identities=29% Similarity=0.380 Sum_probs=10.5
Q ss_pred ChHHHHHHHHHHHH
Q 032827 14 KQVELDDMKIRLKE 27 (132)
Q Consensus 14 ~d~ELEemK~Rl~E 27 (132)
+-+||+.||+-++-
T Consensus 103 T~~Elq~mr~~ln~ 116 (179)
T PF14723_consen 103 TVQELQQMRRSLNS 116 (179)
T ss_pred hHHHHHHHHHHHHH
Confidence 44689999887765
No 37
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=42.80 E-value=74 Score=22.31 Aligned_cols=32 Identities=19% Similarity=0.401 Sum_probs=21.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHH-HHHhHHHHHhh
Q 032827 14 KQVELDDMKIRLKEMEEEATA-LRQMHAKVGNE 45 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~k-LremQ~~veke 45 (132)
+.+|..++.+||.+||+-.+- -.|+...+.+.
T Consensus 10 ~~~~~~~i~~rLd~iEeKvEf~~~Ei~Qr~Gkk 42 (70)
T PF04210_consen 10 DPDDFNEIMKRLDEIEEKVEFTNAEIAQRAGKK 42 (70)
T ss_pred CHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhHH
Confidence 356899999999999987552 23344444443
No 38
>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=42.65 E-value=72 Score=19.97 Aligned_cols=27 Identities=22% Similarity=0.390 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
-++.++.+++++++..+.|..+.+.+.
T Consensus 37 ~~~~l~~~~~~i~~~i~~L~~~~~~L~ 63 (65)
T PF09278_consen 37 RRALLEEKLEEIEEQIAELQALRAQLE 63 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345688999999999888888777654
No 39
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=41.65 E-value=82 Score=22.44 Aligned_cols=32 Identities=19% Similarity=0.465 Sum_probs=21.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHH-HHHhHHHHHhh
Q 032827 14 KQVELDDMKIRLKEMEEEATA-LRQMHAKVGNE 45 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~k-LremQ~~veke 45 (132)
+.+|..++++||.++|+-.+- --|++....+.
T Consensus 13 ~~~d~~~i~~rLD~iEeKVEftn~Ei~Qr~Gkk 45 (77)
T PRK01026 13 DPKDFKEIQKRLDEIEEKVEFTNAEIFQRIGKK 45 (77)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 446899999999999987652 34444444443
No 40
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=41.51 E-value=75 Score=29.51 Aligned_cols=32 Identities=9% Similarity=0.391 Sum_probs=20.3
Q ss_pred ccCChHHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 11 TENKQVELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 11 ~~~~d~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
++....++++++++|+.++++ ..+|+++++..
T Consensus 20 a~a~a~~i~~L~~ql~aLq~~---v~eL~~~laa~ 51 (514)
T PF11336_consen 20 AAATADQIKALQAQLQALQDQ---VNELRAKLAAK 51 (514)
T ss_pred ccCCHHHHHHHHHHHHHHHHH---HHHHHHHHhcC
Confidence 455566788888887777766 34455555543
No 41
>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=41.48 E-value=68 Score=23.53 Aligned_cols=27 Identities=33% Similarity=0.464 Sum_probs=20.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAK 41 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~ 41 (132)
-.+|++||..|.++.+|-+.|+--...
T Consensus 21 ~~~~~~LK~~~~~l~EEN~~L~~EN~~ 47 (107)
T PF06156_consen 21 LEELEELKKQLQELLEENARLRIENEH 47 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 368999999999999987776554333
No 42
>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=41.35 E-value=51 Score=28.79 Aligned_cols=25 Identities=24% Similarity=0.525 Sum_probs=20.6
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHh
Q 032827 14 KQVELDDMKIRLKEMEEEATALRQM 38 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~kLrem 38 (132)
+-.||+++.+||.|+|.+..+|+.-
T Consensus 287 TRsElDe~~krL~ELrR~vr~L~k~ 311 (320)
T TIGR01834 287 TRSELDEAHQRIQQLRREVKSLKKR 311 (320)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4579999999999999998877653
No 43
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=40.99 E-value=59 Score=27.46 Aligned_cols=20 Identities=35% Similarity=0.484 Sum_probs=13.1
Q ss_pred ChHHHHHHHHHHHHHHHHHH
Q 032827 14 KQVELDDMKIRLKEMEEEAT 33 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~ 33 (132)
+..||+++|.+|.+.+.+.+
T Consensus 207 D~~eL~~lr~eL~~~~~~i~ 226 (325)
T PF08317_consen 207 DQEELEALRQELAEQKEEIE 226 (325)
T ss_pred CHHHHHHHHHHHHHHHHHHH
Confidence 44577777777777666665
No 44
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=40.27 E-value=73 Score=23.67 Aligned_cols=28 Identities=43% Similarity=0.478 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
.||++||..|.+|.+|=+.|+--...+-
T Consensus 22 ~el~~LK~~~~el~EEN~~L~iEN~~Lr 49 (110)
T PRK13169 22 KELGALKKQLAELLEENTALRLENDKLR 49 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6899999999999999877765444333
No 45
>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=40.04 E-value=61 Score=24.05 Aligned_cols=30 Identities=17% Similarity=0.175 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
-++.++.++.+++++.+.|.++++.+..-.
T Consensus 79 ~~~~l~~k~~~i~~~i~~L~~~~~~L~~~i 108 (131)
T cd04786 79 LLAALERKVADIEALEARLAQNKAQLLVLI 108 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345689999999999999988888776544
No 46
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=39.93 E-value=60 Score=26.31 Aligned_cols=24 Identities=29% Similarity=0.418 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhH
Q 032827 16 VELDDMKIRLKEMEEEATALRQMH 39 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ 39 (132)
+|.+++|+++.+++.+...|.+++
T Consensus 76 ~en~~L~~e~~~l~~~~~~~~~l~ 99 (276)
T PRK13922 76 EENEELKKELLELESRLQELEQLE 99 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466666777766666666544443
No 47
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=39.33 E-value=62 Score=26.97 Aligned_cols=31 Identities=32% Similarity=0.474 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
+..++|+.|+.+||.|.+.|+.--.++.++.
T Consensus 215 ~~~~e~~~r~~~leken~~lr~~v~~l~~el 245 (269)
T KOG3119|consen 215 QKEDEMAHRVAELEKENEALRTQVEQLKKEL 245 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4668899999999999888876444444444
No 48
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=39.25 E-value=24 Score=30.32 Aligned_cols=35 Identities=23% Similarity=0.319 Sum_probs=26.2
Q ss_pred CCCcccccccCChHHHHHHHHHHHHHHHHHHHHHH
Q 032827 3 GDDMDMIETENKQVELDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 3 ~~~~~~~~~~~~d~ELEemK~Rl~EMEeEA~kLre 37 (132)
+.+.|....++=+.|+.++++|++.+++++..|+.
T Consensus 208 ~g~Ld~~~q~~~~ae~seLq~r~~~l~~~L~~L~~ 242 (289)
T COG4985 208 NGQLDDEFQQHYVAEKSELQKRLAQLQTELDALRA 242 (289)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 45666555566678999999999999999665544
No 49
>PF09803 DUF2346: Uncharacterized conserved protein (DUF2346); InterPro: IPR018625 Members of this family of proteins have no known function.
Probab=38.69 E-value=80 Score=22.17 Aligned_cols=27 Identities=33% Similarity=0.516 Sum_probs=17.3
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHhHH
Q 032827 13 NKQVELDDMKIRLKEMEEEATALRQMHA 40 (132)
Q Consensus 13 ~~d~ELEemK~Rl~EMEeEA~kLremQ~ 40 (132)
...+||+++++++++-.++ ..+++|+.
T Consensus 49 ~~~~ele~~~~~~~~k~~~-rl~~~~e~ 75 (80)
T PF09803_consen 49 EIREELEEFKEELRKKREE-RLLREMEE 75 (80)
T ss_pred ccHHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence 3567999999988665543 33444443
No 50
>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=38.56 E-value=74 Score=25.41 Aligned_cols=30 Identities=23% Similarity=0.366 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
.|+++++.+++++|.|..+|..-+..++++
T Consensus 111 ~e~~~l~~~~e~Le~e~~~L~~~~~~~~eD 140 (161)
T TIGR02894 111 NQNESLQKRNEELEKELEKLRQRLSTIEED 140 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577788888888888888776655544443
No 51
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=38.32 E-value=8.7 Score=30.38 Aligned_cols=9 Identities=56% Similarity=0.947 Sum_probs=7.4
Q ss_pred CCceEeccc
Q 032827 67 SRSVFVGNV 75 (132)
Q Consensus 67 sRSIYVGNV 75 (132)
+-.|||||+
T Consensus 36 S~tvyVgNl 44 (153)
T KOG0121|consen 36 SCTVYVGNL 44 (153)
T ss_pred cceEEEeee
Confidence 445999999
No 52
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=38.28 E-value=44 Score=23.97 Aligned_cols=23 Identities=35% Similarity=0.562 Sum_probs=19.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 032827 15 QVELDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLre 37 (132)
+.|+.+++.++...|+++..|+.
T Consensus 42 E~E~~~l~~~l~~~E~eL~~Lrk 64 (85)
T PF15188_consen 42 EKELNELKEKLENNEKELKLLRK 64 (85)
T ss_pred HHHHHHHHHHhhccHHHHHHHHH
Confidence 46888899999999999888877
No 53
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=38.14 E-value=81 Score=20.88 Aligned_cols=26 Identities=19% Similarity=0.348 Sum_probs=17.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHH
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHA 40 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~ 40 (132)
..+++.++++++++++|-..|+.-.+
T Consensus 30 ~~~~~~~~~~~~~l~~en~~L~~ei~ 55 (85)
T TIGR02209 30 NNELQKLQLEIDKLQKEWRDLQLEVA 55 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35777777777777777666655433
No 54
>cd02987 Phd_like_Phd Phosducin (Phd)-like family, Phd subfamily; Phd is a cytosolic regulator of G protein functions. It specifically binds G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane. This impedes the formation of a functional G protein trimer (G protein alphabetagamma), thereby inhibiting G protein-mediated signal transduction. Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=37.36 E-value=24 Score=27.22 Aligned_cols=19 Identities=21% Similarity=0.321 Sum_probs=14.7
Q ss_pred hHHHHHH-HHHHHHHHHHHH
Q 032827 15 QVELDDM-KIRLKEMEEEAT 33 (132)
Q Consensus 15 d~ELEem-K~Rl~EMEeEA~ 33 (132)
+.+|+.+ ++||+||.+++.
T Consensus 37 e~~l~~~R~~R~~el~~~~~ 56 (175)
T cd02987 37 EEFLQQYREQRMQEMHAKLP 56 (175)
T ss_pred HHHHHHHHHHHHHHHHHhcc
Confidence 5688988 678899988753
No 55
>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=37.15 E-value=90 Score=23.62 Aligned_cols=18 Identities=33% Similarity=0.564 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 032827 16 VELDDMKIRLKEMEEEAT 33 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~ 33 (132)
.||.+|...+.++.++..
T Consensus 72 eel~~ld~ei~~L~~el~ 89 (169)
T PF07106_consen 72 EELAELDAEIKELREELA 89 (169)
T ss_pred hhHHHHHHHHHHHHHHHH
Confidence 344444444444444433
No 56
>PF14182 YgaB: YgaB-like protein
Probab=36.25 E-value=75 Score=22.75 Aligned_cols=28 Identities=18% Similarity=0.432 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
++|..|+..+..|..+ |+++|...+++.
T Consensus 40 a~l~~i~~EI~~mkk~---Lk~Iq~~Fe~QT 67 (79)
T PF14182_consen 40 AELHSIQEEISQMKKE---LKEIQRVFEKQT 67 (79)
T ss_pred HhHHHHHHHHHHHHHH---HHHHHHHHHHHH
Confidence 3444444444444444 556666555554
No 57
>KOG0930 consensus Guanine nucleotide exchange factor Cytohesin, contains PH and Sec7 domains [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.14 E-value=42 Score=29.79 Aligned_cols=35 Identities=26% Similarity=0.446 Sum_probs=29.6
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhcC
Q 032827 14 KQVELDDMKIRLKEMEEEATALRQMHAKVGNEMAS 48 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~kLremQ~~vekem~~ 48 (132)
+-.||+.+++|-+++=+|.++|+.--+.|..+...
T Consensus 15 E~~eL~~ir~rk~qL~deIq~Lk~Ei~ev~~eid~ 49 (395)
T KOG0930|consen 15 ERMELENIRRRKQELLDEIQRLKDEIAEVMEEIDN 49 (395)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 44699999999999999999999877777777653
No 58
>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=35.72 E-value=94 Score=22.80 Aligned_cols=11 Identities=45% Similarity=0.712 Sum_probs=5.1
Q ss_pred HHHHHHHHHHH
Q 032827 17 ELDDMKIRLKE 27 (132)
Q Consensus 17 ELEemK~Rl~E 27 (132)
.|++||.+|++
T Consensus 73 qL~~Lk~kl~~ 83 (100)
T PF04568_consen 73 QLKKLKEKLKE 83 (100)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 34444444444
No 59
>KOG3335 consensus Predicted coiled-coil protein [General function prediction only]
Probab=35.70 E-value=1.5e+02 Score=24.14 Aligned_cols=23 Identities=13% Similarity=0.489 Sum_probs=18.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 032827 15 QVELDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLre 37 (132)
.+|+++++.+|.+||.+++.++.
T Consensus 105 ~~e~~elr~~~~~l~~~i~~~~~ 127 (181)
T KOG3335|consen 105 KQEIMELRLKVEKLENAIAELTK 127 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46899999999999987765543
No 60
>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=35.48 E-value=84 Score=22.34 Aligned_cols=29 Identities=17% Similarity=0.299 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
++.++.++++++++.+.|..++..+..-.
T Consensus 81 ~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 109 (123)
T cd04770 81 RALLEEKLAEVEAKIAELQALRAELAGLL 109 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45589999999999999988887777543
No 61
>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=35.45 E-value=1e+02 Score=19.81 Aligned_cols=16 Identities=19% Similarity=0.574 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 032827 17 ELDDMKIRLKEMEEEA 32 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA 32 (132)
++.+++.++.+++++-
T Consensus 25 ei~~l~~~i~~l~~e~ 40 (80)
T PF04977_consen 25 EIAELQKEIEELKKEN 40 (80)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444333
No 62
>cd03490 Topoisomer_IB_N_1 Topoisomer_IB_N_1: A subgroup of the N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB. Topo IB proteins include the monomeric yeast and human topo I and heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA (bacterial) and type IB (eukaryotic). Topo I relaxes superhelical tension in duplex DNA by creating a single-strand nick, the broken strand can then rotate around the unbroken strand to remove DNA supercoils and, the nick is religated, liberating topo I. These enzymes regulate the topological changes that accompany DNA replication, transcription and other nuclear processes. Human topo I is the target of a diverse set of anticancer drugs including camptothecins (CPTs). CPTs bind to the topo I-DNA complex and inhibit religation of the single-strand nick, resulting in the accumulation of topo I-DNA adducts. In addition to differences in structure and some biochemical properties, Trypanoso
Probab=35.10 E-value=72 Score=26.64 Aligned_cols=31 Identities=23% Similarity=0.221 Sum_probs=23.1
Q ss_pred ccCCCceEeccccccccCCCCCcCCCCCCCCCCccc
Q 032827 64 EVDSRSVFVGNVTVKRTNVPGMKQHRPRRPNPFMVY 99 (132)
Q Consensus 64 E~DsRSIYVGNV~~kRtnvPGmkq~r~r~~~p~~~~ 99 (132)
-+|.|--=|||.... =||+ |||||--|-||-
T Consensus 126 ~vDG~kekVgNfriE---PPgL--FrGRG~HPK~G~ 156 (217)
T cd03490 126 LVDWIREKVSSNKLE---PPGL--FKGRGEHPKQGL 156 (217)
T ss_pred EECCEEEeeCCcccC---CCcc--cccCCCCCCCCc
Confidence 589999999998444 3565 677776688883
No 63
>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=34.99 E-value=96 Score=21.77 Aligned_cols=27 Identities=15% Similarity=0.128 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGN 44 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~vek 44 (132)
.+.++.++.+++++.+.|.++++.+..
T Consensus 73 ~~~l~~~~~~l~~~i~~l~~~~~~l~~ 99 (102)
T cd04789 73 RSLLLERLSSLAEQIARKQQARDLLAA 99 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466888999999999888888877654
No 64
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=34.98 E-value=55 Score=25.91 Aligned_cols=17 Identities=29% Similarity=0.479 Sum_probs=8.5
Q ss_pred HHHHHHHHHHhHHHHHh
Q 032827 28 MEEEATALRQMHAKVGN 44 (132)
Q Consensus 28 MEeEA~kLremQ~~vek 44 (132)
|||-++.|..|.+.+.+
T Consensus 127 ~ee~~~~l~~le~~~~~ 143 (175)
T PRK13182 127 MEEMLERLQKLEARLKK 143 (175)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44444445555555554
No 65
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=34.82 E-value=92 Score=24.91 Aligned_cols=31 Identities=16% Similarity=0.463 Sum_probs=21.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
+.++.+++++|-++++++++|+.+.+...++
T Consensus 130 e~~i~~Le~ki~el~~~~~~~~~~ke~~~~e 160 (190)
T PF05266_consen 130 ESEIKELEMKILELQRQAAKLKEKKEAKDKE 160 (190)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577778888888888877777655444443
No 66
>KOG4702 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.66 E-value=70 Score=22.74 Aligned_cols=26 Identities=27% Similarity=0.247 Sum_probs=19.8
Q ss_pred hHHHHHHHHHHHHH--HHHHHHHHHhHH
Q 032827 15 QVELDDMKIRLKEM--EEEATALRQMHA 40 (132)
Q Consensus 15 d~ELEemK~Rl~EM--EeEA~kLremQ~ 40 (132)
-+++|+.+..|.|- .+||++||.+|+
T Consensus 48 ~~~~EE~~~~lRe~~a~~eaK~~R~a~~ 75 (77)
T KOG4702|consen 48 TKRKEEYENFLREQMAFEEAKKIRGAAA 75 (77)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 36888899888884 567778888764
No 67
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=34.57 E-value=1e+02 Score=22.30 Aligned_cols=21 Identities=19% Similarity=0.205 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 032827 16 VELDDMKIRLKEMEEEATALR 36 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLr 36 (132)
+|+++++++-.++++|.+.|+
T Consensus 41 ~e~~~l~~~n~~L~~eI~~L~ 61 (105)
T PRK00888 41 QTNAKLKARNDQLFAEIDDLK 61 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 344444444444555544443
No 68
>PF09036 Bcr-Abl_Oligo: Bcr-Abl oncoprotein oligomerisation domain; InterPro: IPR015123 This entry represents the oligomerisation domain of the breakpoint cluster region oncoprotein Bcr, and the Bcr/Abl (Abelson-leukemia-virus) fusion protein created by a reciprocal (9;22) fusion []. Brc displays serine/threonine protein kinase activity (2.7.11.1 from EC), acting as a GTPase-activating protein for RAC1 and CDC42. Brc promotes the exchange of RAC or CDC42-bound GDP by GTP, thereby activating them []. The Bcr/Abl fusion protein loses some of the regulatory function of Bcr with regards to small Rho-like GTPases with negative consequences on cell motility, in particular on the capacity to adhere to endothelial cells []. The Bcr, Bcr/Abl oncoprotein oligomerisation domain consists of a short N-terminal helix (alpha-1), a flexible loop and a long C-terminal helix (alpha-2). Together these form an N-shaped structure, with the loop allowing the two helices to assume a parallel orientation. The monomeric domains associate into a dimer through the formation of an antiparallel coiled coil between the alpha-2 helices and domain swapping of two alpha-1 helices, where one alpha-1 helix swings back and packs against the alpha-2 helix from the second monomer. Two dimers then associate into a tetramer. The oligomerisation domain is essential for the oncogenicity of the Bcr-Abl protein []. ; GO: 0004674 protein serine/threonine kinase activity, 0005096 GTPase activator activity, 0006468 protein phosphorylation, 0007165 signal transduction; PDB: 1K1F_C.
Probab=33.89 E-value=1.3e+02 Score=21.59 Aligned_cols=32 Identities=19% Similarity=0.367 Sum_probs=24.9
Q ss_pred ChHHHHHHHHHHHHHHHHHHH----HHHhHHHHHhh
Q 032827 14 KQVELDDMKIRLKEMEEEATA----LRQMHAKVGNE 45 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~k----LremQ~~veke 45 (132)
-++|||.-|..|+-+|.|.++ .-=||.-++++
T Consensus 31 ~e~eLerCK~sirrLeqevnkERFrmiYLQTlLAkE 66 (79)
T PF09036_consen 31 IEQELERCKASIRRLEQEVNKERFRMIYLQTLLAKE 66 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 468999999999999999875 22367777765
No 69
>PRK15365 type III secretion system chaperone SseA; Provisional
Probab=33.76 E-value=1e+02 Score=23.20 Aligned_cols=31 Identities=19% Similarity=0.343 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
.||..++.|...+-+...+|+++|+++....
T Consensus 9 ~~l~DL~~rYs~L~s~lkKfkq~q~~I~q~L 39 (107)
T PRK15365 9 SEYRDLEQSYMQLNHCLKKFHQIRAKVSQQL 39 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3888999999999999999999999995544
No 70
>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=33.69 E-value=1e+02 Score=21.96 Aligned_cols=30 Identities=10% Similarity=0.171 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
+-++.++.++.+++++.+.|..+++.++.-
T Consensus 81 ~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~ 110 (112)
T cd01282 81 DLLAVLRRELARIDRQIADLTRSRDRLDAY 110 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345679999999999999998888777653
No 71
>PHA03155 hypothetical protein; Provisional
Probab=33.27 E-value=55 Score=24.90 Aligned_cols=20 Identities=20% Similarity=0.366 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHhHHHHHhhh
Q 032827 27 EMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 27 EMEeEA~kLremQ~~vekem 46 (132)
||++|+.+|+--...+-+.+
T Consensus 12 eLaaeL~kL~~ENK~LKkkl 31 (115)
T PHA03155 12 ELEKELQKLKIENKALKKKL 31 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444443333344444
No 72
>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=33.19 E-value=1.1e+02 Score=21.45 Aligned_cols=28 Identities=21% Similarity=0.265 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHh
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVGN 44 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~vek 44 (132)
..+-++.++.+++++.+.|+++++.++.
T Consensus 72 ~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 99 (102)
T cd04775 72 VQAILEERLQSLNREIQRLRQQQQVLAA 99 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566888889999998888888877664
No 73
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=32.97 E-value=78 Score=23.49 Aligned_cols=17 Identities=24% Similarity=0.421 Sum_probs=14.5
Q ss_pred hHHHHHHHHHHHHHHHH
Q 032827 15 QVELDDMKIRLKEMEEE 31 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeE 31 (132)
+.||+.+|.+|+++|-.
T Consensus 9 ~~eI~kLqe~lk~~e~k 25 (98)
T PRK13848 9 REEIAKLQEQLKQAETR 25 (98)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 46999999999999844
No 74
>COG2047 Uncharacterized protein (ATP-grasp superfamily) [General function prediction only]
Probab=32.94 E-value=23 Score=30.19 Aligned_cols=27 Identities=37% Similarity=0.571 Sum_probs=18.0
Q ss_pred CCcccccccCChHHHHHHHHHHHHHHH
Q 032827 4 DDMDMIETENKQVELDDMKIRLKEMEE 30 (132)
Q Consensus 4 ~~~~~~~~~~~d~ELEemK~Rl~EMEe 30 (132)
-.+||++-+.-.+|+|++-.||+|||+
T Consensus 214 iEid~~~Le~RAke~E~ii~k~~emee 240 (258)
T COG2047 214 IEIDMEALEERAKEMEEIIEKLKEMEE 240 (258)
T ss_pred ceecHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345665555556678888888888843
No 75
>cd00660 Topoisomer_IB_N Topoisomer_IB_N: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I and heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA (bacterial) and type IB (eukaryotic). Topo I relaxes superhelical tension in duplex DNA by creating a single-strand nick, the broken strand can then rotate around the unbroken strand to remove DNA supercoils and, the nick is religated, liberating topo I. These enzymes regulate the topological changes that accompany DNA replication, transcription and other nuclear processes. Human topo I is the target of a diverse set of anticancer drugs including camptothecins (CPTs). CPTs bind to the topo I-DNA complex and inhibit re-ligation of the single-strand nick, resulting in the accumulation of topo I-DNA adducts. In addition to differences in structure and some biochemical properties, Trypanosomatid parasite topo I diffe
Probab=32.78 E-value=76 Score=26.47 Aligned_cols=31 Identities=35% Similarity=0.485 Sum_probs=23.3
Q ss_pred ccCCCceEeccccccccCCCCCcCCCCCCCCCCccc
Q 032827 64 EVDSRSVFVGNVTVKRTNVPGMKQHRPRRPNPFMVY 99 (132)
Q Consensus 64 E~DsRSIYVGNV~~kRtnvPGmkq~r~r~~~p~~~~ 99 (132)
-+|.|.-=|||.... =||+ |||||--|-||-
T Consensus 127 ~vDG~kekVgNfrvE---PPgL--FrGRG~HPK~G~ 157 (215)
T cd00660 127 LVDGHKEKVGNFRIE---PPGL--FRGRGEHPKMGK 157 (215)
T ss_pred EECCEEEeeCCcccC---CCcc--cccCCCCCCCCc
Confidence 589999999998444 3555 677777788883
No 76
>PRK01203 prefoldin subunit alpha; Provisional
Probab=32.77 E-value=1.1e+02 Score=23.49 Aligned_cols=32 Identities=9% Similarity=0.286 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
..||+-|++++..|+++...|+..|+++....
T Consensus 6 ~~~~~~~~~q~e~l~~ql~~L~~a~se~~~~i 37 (130)
T PRK01203 6 EAQLNYIESLISSVDSQIDSLNKTLSEVQQTI 37 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46888999999999999999998888776543
No 77
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. 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(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=32.68 E-value=97 Score=22.44 Aligned_cols=30 Identities=10% Similarity=0.150 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
-++.++.++.+++++.+.|..++..+..-.
T Consensus 77 ~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 106 (124)
T TIGR02051 77 MYELASRKLKSVQAKMADLLRIERLLEELL 106 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356678889999999998888887776543
No 78
>cd03488 Topoisomer_IB_N_htopoI_like Topoisomer_IB_N_htopoI_like : N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I. Topo I enzymes are divided into: topo type IA (bacterial) and type IB (eukaryotic). Topo I relaxes superhelical tension in duplex DNA by creating a single-strand nick, the broken strand can then rotate around the unbroken strand to remove DNA supercoils and, the nick is religated, liberating topo I. These enzymes regulate the topological changes that accompany DNA replication, transcription and other nuclear processes. Human topo I is the target of a diverse set of anticancer drugs including camptothecins (CPTs). CPTs bind to the topo I-DNA complex and inhibit religation of the single-strand nick, resulting in the accumulation of topo I-DNA adducts. This family may represent more than one structural domain.
Probab=32.41 E-value=78 Score=26.41 Aligned_cols=31 Identities=29% Similarity=0.425 Sum_probs=23.3
Q ss_pred ccCCCceEeccccccccCCCCCcCCCCCCCCCCccc
Q 032827 64 EVDSRSVFVGNVTVKRTNVPGMKQHRPRRPNPFMVY 99 (132)
Q Consensus 64 E~DsRSIYVGNV~~kRtnvPGmkq~r~r~~~p~~~~ 99 (132)
-+|.|.-=|||.... =||+ |||||--|-||-
T Consensus 127 ~vDG~kekVgNfrvE---PPgL--FrGRG~HPK~G~ 157 (215)
T cd03488 127 ILDGHKEKVGNFRIE---PPGL--FRGRGAHPKTGK 157 (215)
T ss_pred EECCEEEeeCCcccC---CCcc--ccCCCCCCCCCc
Confidence 589999999998444 3555 677777788883
No 79
>cd03489 Topoisomer_IB_N_LdtopoI_like Topoisomer_IB_N_LdtopoI_like: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA (bacterial) and type IB (eukaryotic). Topo I relaxes superhelical tension in duplex DNA by creating a single-strand nick, the broken strand can then rotate around the unbroken strand to remove DNA supercoils and, the nick is religated, liberating topo I. These enzymes regulate the topological changes that accompany DNA replication, transcription and other nuclear processes. Human topo I is the target of a diverse set of anticancer drugs including camptothecins (CPTs). CPTs bind to the topo I-DNA complex and inhibit re-ligation of the single-strand nick, resulting in the accumulation of topo I-DNA adducts. In addition to differences in structure and some biochemical properties, Trypanosomatid parasite topo I differ from human
Probab=32.20 E-value=84 Score=26.17 Aligned_cols=31 Identities=32% Similarity=0.348 Sum_probs=23.3
Q ss_pred ccCCCceEeccccccccCCCCCcCCCCCCCCCCccc
Q 032827 64 EVDSRSVFVGNVTVKRTNVPGMKQHRPRRPNPFMVY 99 (132)
Q Consensus 64 E~DsRSIYVGNV~~kRtnvPGmkq~r~r~~~p~~~~ 99 (132)
-+|.|.-=|||.... =||+ |||||--|-||-
T Consensus 124 ~vDG~kekVgNFrvE---PPgL--FrGRG~HPK~G~ 154 (212)
T cd03489 124 VWDGVKEQVANFRVE---PPGL--FRGRGEHPKMGK 154 (212)
T ss_pred EECCEEEeeCCcccC---CCcc--cccCCCCCCCcc
Confidence 589999999998444 3565 677777788883
No 80
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=32.13 E-value=56 Score=24.52 Aligned_cols=29 Identities=10% Similarity=0.254 Sum_probs=18.3
Q ss_pred hHHHHHHHHHHHHHHHHHH-HHHHhHHHHH
Q 032827 15 QVELDDMKIRLKEMEEEAT-ALRQMHAKVG 43 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~-kLremQ~~ve 43 (132)
-.+|.++++++.+++.+++ .+.++++..+
T Consensus 9 l~ki~~l~~~~~~i~~~~~~~I~~i~~~~~ 38 (149)
T PF07352_consen 9 LRKIAELQREIARIEAEANDEIARIKEWYE 38 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577788888888777765 2444444433
No 81
>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=31.76 E-value=1e+02 Score=20.68 Aligned_cols=23 Identities=17% Similarity=0.387 Sum_probs=19.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 032827 15 QVELDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLre 37 (132)
.--+++++.|+.-|++|.++++.
T Consensus 20 ~lSv~EL~~RIa~L~aEI~R~~~ 42 (59)
T PF06698_consen 20 LLSVEELEERIALLEAEIARLEA 42 (59)
T ss_pred hcCHHHHHHHHHHHHHHHHHHHH
Confidence 34577889999999999998876
No 82
>PLN03120 nucleic acid binding protein; Provisional
Probab=31.45 E-value=26 Score=29.74 Aligned_cols=11 Identities=45% Similarity=0.570 Sum_probs=9.5
Q ss_pred cCCCceEeccc
Q 032827 65 VDSRSVFVGNV 75 (132)
Q Consensus 65 ~DsRSIYVGNV 75 (132)
.+.|+|||||+
T Consensus 2 ~~~rtVfVgNL 12 (260)
T PLN03120 2 MQVRTVKVSNV 12 (260)
T ss_pred CCCCEEEEeCC
Confidence 35799999999
No 83
>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=31.18 E-value=1.1e+02 Score=24.55 Aligned_cols=26 Identities=15% Similarity=0.386 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHH
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKV 42 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~v 42 (132)
||.++..++..||.-..+++.+.+++
T Consensus 128 eI~~L~~~i~~le~~~~~~k~LrnKa 153 (171)
T PF04799_consen 128 EIKQLEKEIQRLEEIQSKSKTLRNKA 153 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444444443
No 84
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.84 E-value=52 Score=29.17 Aligned_cols=30 Identities=13% Similarity=0.255 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
+++.|+.=....|.++.+|-++|.+.---+
T Consensus 227 D~k~a~~yf~~vek~~~kL~~~q~~~~V~~ 256 (366)
T KOG2796|consen 227 DIKTAEKYFQDVEKVTQKLDGLQGKIMVLM 256 (366)
T ss_pred cHHHHHHHHHHHHHHHhhhhccchhHHHHh
Confidence 456677777777788888888887665443
No 85
>COG2118 DNA-binding protein [General function prediction only]
Probab=30.81 E-value=1e+02 Score=23.52 Aligned_cols=18 Identities=28% Similarity=0.625 Sum_probs=12.0
Q ss_pred hHHHHHHHH-HHHHHHHHH
Q 032827 15 QVELDDMKI-RLKEMEEEA 32 (132)
Q Consensus 15 d~ELEemK~-Rl~EMEeEA 32 (132)
|.|||+|++ ||.|+...+
T Consensus 3 d~eLEeIRrrkl~eLQrq~ 21 (116)
T COG2118 3 DEELEEIRRRKLAELQRQA 21 (116)
T ss_pred hHHHHHHHHHHHHHHHHhh
Confidence 448999864 566666644
No 86
>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=30.58 E-value=1.2e+02 Score=21.07 Aligned_cols=30 Identities=13% Similarity=0.247 Sum_probs=22.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHh
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVGN 44 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~vek 44 (132)
+.-.+.++.+..+++++.+.|..+...+.+
T Consensus 72 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 101 (103)
T cd01106 72 EDLLEALREQKELLEEKKERLDKLIKTIDR 101 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445667888899999998888877766553
No 87
>PF08262 Lem_TRP: Leucophaea maderae tachykinin-related peptide ; InterPro: IPR013206 These peptides are designated Leucophaea maderae (Madeira cockroach) tachykinin-related peptides (Lem TRPs). Some were isolated from the midgut of L. maderae, whereas others appear to be brain specific. The Lem TRPs of the brain are myotropic and induce increases in the amplitude and frequency of spontaneous contractions and tonus of hindgut muscle in L. maderae []. They were also isolated from brain-corpora, cardiaca-corpora, allata-suboesophageal ganglion extracts of Locusta migratoria (Migratory locust). They stimulate visceral muscle contractions of the oviduct and the foregut of L. migratoria [].
Probab=30.47 E-value=30 Score=16.01 Aligned_cols=8 Identities=25% Similarity=0.451 Sum_probs=5.3
Q ss_pred CCcccCCC
Q 032827 95 PFMVYQSR 102 (132)
Q Consensus 95 p~~~~~~~ 102 (132)
|-|||.+.
T Consensus 2 psmgf~g~ 9 (10)
T PF08262_consen 2 PSMGFHGM 9 (10)
T ss_pred Cccccccc
Confidence 66777664
No 88
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=30.43 E-value=66 Score=24.64 Aligned_cols=23 Identities=30% Similarity=0.463 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHhHHHHHhhhcC
Q 032827 26 KEMEEEATALRQMHAKVGNEMAS 48 (132)
Q Consensus 26 ~EMEeEA~kLremQ~~vekem~~ 48 (132)
+.||+++++++.||..+++-+.+
T Consensus 5 ~kmee~~~kyq~LQk~l~k~~~~ 27 (120)
T KOG3478|consen 5 KKMEEEANKYQNLQKELEKYVES 27 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56899999999999888776643
No 89
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=30.18 E-value=1.1e+02 Score=25.01 Aligned_cols=30 Identities=30% Similarity=0.351 Sum_probs=20.2
Q ss_pred ccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 032827 7 DMIETENKQVELDDMKIRLKEMEEEATALR 36 (132)
Q Consensus 7 ~~~~~~~~d~ELEemK~Rl~EMEeEA~kLr 36 (132)
|-++..++|-|.--+|+.|.++|+...+..
T Consensus 87 dfS~~~~~dwEevrLkrELa~Le~~l~~~~ 116 (195)
T PF12761_consen 87 DFSATEGTDWEEVRLKRELAELEEKLSKVE 116 (195)
T ss_pred CCCCCCCCchHHHHHHHHHHHHHHHHHHHH
Confidence 444455666677778888888887755443
No 90
>COG1422 Predicted membrane protein [Function unknown]
Probab=30.09 E-value=1.2e+02 Score=25.11 Aligned_cols=20 Identities=15% Similarity=0.282 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHhHHHHHh
Q 032827 25 LKEMEEEATALRQMHAKVGN 44 (132)
Q Consensus 25 l~EMEeEA~kLremQ~~vek 44 (132)
|+.|+++.....+.|.++.+
T Consensus 100 lkkLq~~qmem~~~Q~elmk 119 (201)
T COG1422 100 LKKLQEKQMEMMDDQRELMK 119 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333333334444444443
No 91
>cd04781 HTH_MerR-like_sg6 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines 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, an
Probab=29.62 E-value=1.6e+02 Score=21.09 Aligned_cols=31 Identities=13% Similarity=0.275 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
...+.+.+++++++++.+.|..+++.+....
T Consensus 74 ~~~~~l~~~~~~l~~~i~~l~~~~~~L~~~~ 104 (120)
T cd04781 74 IDRQLLKAKAAELDQQIQRLQAMRELLRHVA 104 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457789999999999999988888877654
No 92
>PRK10884 SH3 domain-containing protein; Provisional
Probab=29.60 E-value=1.1e+02 Score=24.79 Aligned_cols=16 Identities=6% Similarity=0.320 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 032827 16 VELDDMKIRLKEMEEE 31 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeE 31 (132)
+||++++.+|.++..+
T Consensus 100 ~el~~l~~~l~~~~~~ 115 (206)
T PRK10884 100 NQVKTLTDKLNNIDNT 115 (206)
T ss_pred HHHHHHHHHHHHHHhH
Confidence 4555555555555444
No 93
>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=29.59 E-value=61 Score=22.00 Aligned_cols=14 Identities=29% Similarity=0.572 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHHH
Q 032827 18 LDDMKIRLKEMEEE 31 (132)
Q Consensus 18 LEemK~Rl~EMEeE 31 (132)
+++|++++.+++++
T Consensus 4 ~~~~~~~~~~~~~~ 17 (93)
T PF02575_consen 4 AQEMQEKMEEAQEE 17 (93)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444444433
No 94
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=29.54 E-value=85 Score=26.18 Aligned_cols=31 Identities=13% Similarity=0.395 Sum_probs=26.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
++|.++++.+|.+|..|..+|+++-.+..+.
T Consensus 228 eken~~lr~~v~~l~~el~~~~~~~~~~~~~ 258 (269)
T KOG3119|consen 228 EKENEALRTQVEQLKKELATLRRLFLQLPKP 258 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 4688899999999999999999987766654
No 95
>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=29.43 E-value=1.2e+02 Score=21.99 Aligned_cols=29 Identities=14% Similarity=0.226 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
++.++.++++++++.+.|..+...+..-.
T Consensus 81 ~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (126)
T cd04785 81 DAIARAHLADVRARIADLRRLEAELKRMV 109 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44578899999999998888887776544
No 96
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that 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 form 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=29.41 E-value=1.2e+02 Score=21.83 Aligned_cols=28 Identities=7% Similarity=0.087 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
.+-++.++++++++.+.|..++..+..-
T Consensus 81 ~~~l~~~~~~l~~~i~~L~~~~~~L~~~ 108 (127)
T cd04784 81 NALIDEHLAHVRARIAELQALEKQLQAL 108 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4557889999999999888888777653
No 97
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=29.04 E-value=1.2e+02 Score=22.64 Aligned_cols=28 Identities=18% Similarity=0.229 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
.+-++.++.+++++.+.|.+++..+..-
T Consensus 83 ~~~l~~~~~~l~~~i~~L~~~~~~L~~~ 110 (140)
T PRK09514 83 KGIVDEKLAEVEAKIAELQHMRRSLQRL 110 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4457899999999999988888776653
No 98
>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=29.03 E-value=1.2e+02 Score=22.17 Aligned_cols=28 Identities=18% Similarity=0.248 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
.+.++.++.+++++.+.|..+.+.+...
T Consensus 81 ~~~l~~~~~~l~~~i~~l~~~~~~l~~~ 108 (133)
T cd04787 81 RRLIEQRLAETERRIKELLKLRDRMQQA 108 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4668899999999998888777666653
No 99
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=28.69 E-value=90 Score=22.80 Aligned_cols=24 Identities=29% Similarity=0.426 Sum_probs=20.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHh
Q 032827 15 QVELDDMKIRLKEMEEEATALRQM 38 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLrem 38 (132)
.+|++.++++...+++|.+.|++=
T Consensus 63 ~~e~~~L~~~~~~l~~ei~~L~dg 86 (117)
T COG2919 63 QAELEKLSARNTALEAEIKDLKDG 86 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccc
Confidence 478889999999999998888764
No 100
>COG5374 Uncharacterized conserved protein [Function unknown]
Probab=28.61 E-value=67 Score=26.42 Aligned_cols=32 Identities=16% Similarity=0.257 Sum_probs=23.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 14 KQVELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
.+.+||.+|.++++.+.+..++-++-++++++
T Consensus 155 ~~~~le~Lqkn~~~~~k~~d~~ne~~~~v~~e 186 (192)
T COG5374 155 AQILLEGLQKNQEELFKLLDKYNELREQVQKE 186 (192)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 34578888888888888877777776666665
No 101
>PRK10722 hypothetical protein; Provisional
Probab=28.53 E-value=2.5e+02 Score=23.89 Aligned_cols=22 Identities=14% Similarity=0.338 Sum_probs=16.7
Q ss_pred cCChHHHHHHHHHHHHHHHHHH
Q 032827 12 ENKQVELDDMKIRLKEMEEEAT 33 (132)
Q Consensus 12 ~~~d~ELEemK~Rl~EMEeEA~ 33 (132)
.+.|.+||.++++..+++.++.
T Consensus 172 q~sD~qlD~lrqq~~~Lq~~L~ 193 (247)
T PRK10722 172 QSSDSELDALRQQQQRLQYQLE 193 (247)
T ss_pred hccHHHHHHHHHHHHHHHHHHH
Confidence 3456788888888888887754
No 102
>PF11461 RILP: Rab interacting lysosomal protein; InterPro: IPR021563 RILP contains a domain which contains two coiled-coil regions and is found mainly in the cytosol. RILP is recruited onto late endosomal and lysosomal membranes by Rab7 and acts as a downstream effector of Rab7. This recruitment process is important for phagosome maturation and fusion with late endosomes and lysosomes. ; PDB: 1YHN_B.
Probab=28.50 E-value=1e+02 Score=20.82 Aligned_cols=21 Identities=29% Similarity=0.381 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 032827 16 VELDDMKIRLKEMEEEATALR 36 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLr 36 (132)
+|=.++|.||-.+|||++-.+
T Consensus 10 ~ERNeLK~~v~~leEEL~~yk 30 (60)
T PF11461_consen 10 QERNELKARVFLLEEELAYYK 30 (60)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 456679999999999977655
No 103
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc 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-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=28.33 E-value=1.3e+02 Score=22.12 Aligned_cols=29 Identities=10% Similarity=0.165 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
.+-++.++.+++++.+.|..+++.+..-.
T Consensus 83 ~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 111 (131)
T TIGR02043 83 KAIVDAKLELVDEKINELTKIRRSLKKLS 111 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45578899999999999988887776543
No 104
>PF13942 Lipoprotein_20: YfhG lipoprotein
Probab=28.22 E-value=2.1e+02 Score=23.33 Aligned_cols=38 Identities=13% Similarity=0.392 Sum_probs=23.9
Q ss_pred cCChHHHHHHHHHHHHHHHHHH----HHHHhHHHHHhhhcCCC
Q 032827 12 ENKQVELDDMKIRLKEMEEEAT----ALRQMHAKVGNEMASKQ 50 (132)
Q Consensus 12 ~~~d~ELEemK~Rl~EMEeEA~----kLremQ~~vekem~~~~ 50 (132)
.+.|.+|+.|+..-..++.+++ ||..|. .+|.+..+.+
T Consensus 126 qssD~~lD~Lr~qq~~Lq~qL~~T~RKLEnLT-DIERQLSSRK 167 (179)
T PF13942_consen 126 QSSDSELDALRQQQQRLQYQLDTTTRKLENLT-DIERQLSSRK 167 (179)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-HHHHHHhccC
Confidence 4567788888888888877765 444432 3455555443
No 105
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). 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=28.17 E-value=1.4e+02 Score=22.33 Aligned_cols=28 Identities=11% Similarity=0.200 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
++++.++.+++++|+..+.|.++.+.++
T Consensus 81 ~~~~~l~~~i~~Le~~l~~L~~~~~~l~ 108 (134)
T cd04779 81 QEVQLVCDQIDGLEHRLKQLKPIASQTD 108 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667788888888888777777766664
No 106
>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=28.01 E-value=1.4e+02 Score=21.09 Aligned_cols=28 Identities=18% Similarity=0.294 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
.+.++.++.+++++.+.|.+++..++.-
T Consensus 77 ~~~l~~~~~~l~~~i~~l~~~~~~l~~~ 104 (108)
T cd01107 77 RKLLREKLAELEAEIEELQRILRLLEDR 104 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4458888888999888888888777654
No 107
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=27.91 E-value=27 Score=29.25 Aligned_cols=9 Identities=56% Similarity=1.128 Sum_probs=8.3
Q ss_pred CCceEeccc
Q 032827 67 SRSVFVGNV 75 (132)
Q Consensus 67 sRSIYVGNV 75 (132)
+++|||||+
T Consensus 6 ~~~iyvGNL 14 (241)
T KOG0105|consen 6 SRRIYVGNL 14 (241)
T ss_pred cceEEecCC
Confidence 689999998
No 108
>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=27.76 E-value=1.8e+02 Score=19.32 Aligned_cols=24 Identities=21% Similarity=0.364 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhH
Q 032827 16 VELDDMKIRLKEMEEEATALRQMH 39 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ 39 (132)
+.|..++.+++++++...+|..-.
T Consensus 6 e~l~~ie~~l~~~~~~i~~lE~~~ 29 (71)
T PF10779_consen 6 EKLNRIETKLDNHEERIDKLEKRD 29 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666665555544433
No 109
>PF15082 DUF4549: Domain of unknown function (DUF4549)
Probab=27.47 E-value=88 Score=24.67 Aligned_cols=23 Identities=17% Similarity=0.434 Sum_probs=19.2
Q ss_pred HHHHHHHHHHH-HHHHhHHHHHhh
Q 032827 23 IRLKEMEEEAT-ALRQMHAKVGNE 45 (132)
Q Consensus 23 ~Rl~EMEeEA~-kLremQ~~veke 45 (132)
.|++.+|+|++ .|.++++.+++.
T Consensus 10 erv~~lEkeLa~~L~eLK~eiEE~ 33 (144)
T PF15082_consen 10 ERVQQLEKELAKELYELKNEIEEN 33 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 57888999987 499999998875
No 110
>COG3167 PilO Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=27.42 E-value=50 Score=27.48 Aligned_cols=25 Identities=36% Similarity=0.585 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHH-HHHhHH
Q 032827 16 VELDDMKIRLKEMEEEATA-LRQMHA 40 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~k-LremQ~ 40 (132)
.-|+++|+++.|||+-..+ |+++-+
T Consensus 73 anL~~lr~Ql~emee~~~~llrQLPs 98 (211)
T COG3167 73 ANLEALRAQLAEMEERFDILLRQLPS 98 (211)
T ss_pred hchHHHHHHHHHHHHHHHHHHHhCCc
Confidence 3578899999999988775 455443
No 111
>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=27.05 E-value=94 Score=22.77 Aligned_cols=17 Identities=24% Similarity=0.495 Sum_probs=14.1
Q ss_pred hHHHHHHHHHHHHHHHH
Q 032827 15 QVELDDMKIRLKEMEEE 31 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeE 31 (132)
++||+.+|.+|+++|..
T Consensus 8 ~~eIekLqe~lk~~e~k 24 (92)
T PF07820_consen 8 REEIEKLQEQLKQAETK 24 (92)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 46899999999998844
No 112
>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=26.85 E-value=1.5e+02 Score=20.93 Aligned_cols=29 Identities=21% Similarity=0.298 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
-++.++.++.+++++.+.|..+++.++..
T Consensus 80 ~~~~l~~~~~~l~~~i~~l~~~~~~l~~~ 108 (113)
T cd01109 80 RLELLEEHREELEEQIAELQETLAYLDYK 108 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45668899999999988888887777654
No 113
>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []. This entry represents proteins annotated as RAB6-interacting golgins.
Probab=26.83 E-value=1.4e+02 Score=23.88 Aligned_cols=30 Identities=23% Similarity=0.469 Sum_probs=21.0
Q ss_pred hHHHHHHHHHHHH--------HHHHHHHHHHhHHHHHh
Q 032827 15 QVELDDMKIRLKE--------MEEEATALRQMHAKVGN 44 (132)
Q Consensus 15 d~ELEemK~Rl~E--------MEeEA~kLremQ~~vek 44 (132)
+.|||..|..|.+ +|++...|.+++..++.
T Consensus 40 EeeIErkKmeVrekVq~~LgrveEetkrLa~ireeLE~ 77 (159)
T PF04949_consen 40 EEEIERKKMEVREKVQAQLGRVEEETKRLAEIREELEV 77 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHh
Confidence 3566665554444 78888889888887773
No 114
>KOG4010 consensus Coiled-coil protein TPD52 [General function prediction only]
Probab=26.78 E-value=1.5e+02 Score=24.66 Aligned_cols=27 Identities=33% Similarity=0.527 Sum_probs=22.5
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHhHH
Q 032827 14 KQVELDDMKIRLKEMEEEATALRQMHA 40 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~kLremQ~ 40 (132)
.++|-|+++..|...|||..-||+.-+
T Consensus 42 Se~Ekeelr~EL~kvEeEI~TLrqVLa 68 (208)
T KOG4010|consen 42 SEEEKEELRTELAKVEEEIVTLRQVLA 68 (208)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356888999999999999988877544
No 115
>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=26.64 E-value=1.8e+02 Score=21.21 Aligned_cols=28 Identities=4% Similarity=0.039 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
.+-++.++.+++++.+.|+++.+.++.-
T Consensus 81 ~~~l~~~~~~l~~~i~~L~~~~~~L~~~ 108 (127)
T TIGR02047 81 NALLDEHISHVRARIIKLQALIEQLVDL 108 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3447888999999988888888877753
No 116
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=26.51 E-value=1.4e+02 Score=25.42 Aligned_cols=29 Identities=24% Similarity=0.423 Sum_probs=20.2
Q ss_pred hHHHHHHHHHHHHHHHHHH-HHHHhHHHHH
Q 032827 15 QVELDDMKIRLKEMEEEAT-ALRQMHAKVG 43 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~-kLremQ~~ve 43 (132)
...|+.+|..|.++|+..+ +|..||.+++
T Consensus 62 ~~~l~~ak~eLqe~eek~e~~l~~Lq~ql~ 91 (258)
T PF15397_consen 62 HKQLQQAKAELQEWEEKEESKLSKLQQQLE 91 (258)
T ss_pred hHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 4578888888888887665 4666665554
No 117
>PF13015 PRKCSH_1: Glucosidase II beta subunit-like protein
Probab=26.40 E-value=1e+02 Score=23.95 Aligned_cols=30 Identities=13% Similarity=0.419 Sum_probs=19.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhc
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVGNEMA 47 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~vekem~ 47 (132)
+.+|++++.+|.+++.+.+. ++..+..+.|
T Consensus 2 ~~~~~~~e~~~~~l~~~i~~---~~~~l~~dyG 31 (154)
T PF13015_consen 2 EKEIDEAERKLSDLESKIRE---LEDDLNKDYG 31 (154)
T ss_pred chHHHHHHHHHHHHHHHHHH---HHHHhhcccC
Confidence 35788888888888877544 3444444443
No 118
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=26.27 E-value=1.4e+02 Score=22.22 Aligned_cols=29 Identities=14% Similarity=0.129 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
++.++.++.++++..+.|..+++.+..-.
T Consensus 81 ~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (135)
T PRK10227 81 KRRTLEKVAEIERHIEELQSMRDQLLALA 109 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34568889999999888888877776543
No 119
>PF04678 DUF607: Protein of unknown function, DUF607; InterPro: IPR006769 This entry represents the C-terminal domain of coiled-coil domain containing protein 109.
Probab=26.22 E-value=1.4e+02 Score=23.15 Aligned_cols=30 Identities=17% Similarity=0.419 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
...+.++.+|.++++|.+.|.+...++++.
T Consensus 57 ~~~~~l~~~l~~~~~el~~le~~k~~id~~ 86 (180)
T PF04678_consen 57 SRERQLRKRLEELRQELAPLEKIKQEIDEK 86 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455667778888888877776666555543
No 120
>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=26.18 E-value=2e+02 Score=20.12 Aligned_cols=30 Identities=13% Similarity=0.356 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
.-++.++.++.+++++..+|..--+++...
T Consensus 94 ~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~ 123 (129)
T cd00890 94 KRLETLEKQIEKLEKQLEKLQDQITELQEE 123 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556666666666655554433444433
No 121
>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=26.02 E-value=1.5e+02 Score=21.51 Aligned_cols=29 Identities=14% Similarity=0.119 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
.+.++.++++++++.+.|..++..+..-.
T Consensus 81 ~~~l~~~~~~l~~~i~~L~~~~~~l~~~~ 109 (127)
T cd01108 81 KALALEHIAELERKIAELQAMRRTLQQLA 109 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688999999999998888887776544
No 122
>PF10470 AKAP7_RIRII_bdg: PKA-RI-RII subunit binding domain of A-kinase anchor protein; InterPro: IPR019511 This entry represents the RI-RII subunit-binding domain found at the C-terminal of the cyclic AMP-dependent protein kinase A (PKA) anchor protein, AKAP7. This protein anchors PKA, for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes, by binding to its regulatory subunits, RI and RII, hence being known as a dual-specific AKAP []. The 25 crucial amino acids of RII-binding domains in general form structurally conserved amphipathic helices with unrelated sequences; hydrophobic amino acid residues form the backbone of the interaction and hydrogen bond- and salt-bridge-forming amino acid residues increase the affinity of the interaction []. The nuclear localisation signal-containing domain is found at the N terminus.
Probab=25.99 E-value=2.2e+02 Score=19.45 Aligned_cols=29 Identities=24% Similarity=0.338 Sum_probs=21.0
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHhHHHHHh
Q 032827 12 ENKQVELDDMKIRLKEMEEEATALRQMHAKVGN 44 (132)
Q Consensus 12 ~~~d~ELEemK~Rl~EMEeEA~kLremQ~~vek 44 (132)
+.+|.||--+-+||-| -+.|+.+|.-.++
T Consensus 3 epDdaeL~~lSKrlVe----nAVlkAvQQy~eE 31 (61)
T PF10470_consen 3 EPDDAELVRLSKRLVE----NAVLKAVQQYLEE 31 (61)
T ss_pred ChhHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence 5678899999888875 4567777765554
No 123
>PF14000 Packaging_FI: DNA packaging protein FI
Probab=25.99 E-value=67 Score=24.59 Aligned_cols=16 Identities=31% Similarity=0.412 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 032827 18 LDDMKIRLKEMEEEAT 33 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~ 33 (132)
..+|-+||.|.|||+.
T Consensus 26 aAeiaqRVAEwEEEl~ 41 (125)
T PF14000_consen 26 AAEIAQRVAEWEEELD 41 (125)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3457789999999976
No 124
>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=25.76 E-value=1.5e+02 Score=23.83 Aligned_cols=26 Identities=19% Similarity=0.423 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
..+|+..+++|+.+.+.|..+|.+.-
T Consensus 122 ~~eL~~eI~~L~~~i~~le~~~~~~k 147 (171)
T PF04799_consen 122 KNELEDEIKQLEKEIQRLEEIQSKSK 147 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566667777777777777666543
No 125
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=25.68 E-value=48 Score=28.53 Aligned_cols=16 Identities=19% Similarity=0.559 Sum_probs=13.1
Q ss_pred ccccccCCCceEeccc
Q 032827 60 ANREEVDSRSVFVGNV 75 (132)
Q Consensus 60 eek~E~DsRSIYVGNV 75 (132)
....+-++|.|||||+
T Consensus 168 ~~~~~~~~r~lyVgnL 183 (509)
T TIGR01642 168 QQQATRQARRLYVGGI 183 (509)
T ss_pred CccCCccccEEEEeCC
Confidence 4456778899999999
No 126
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=25.45 E-value=27 Score=24.96 Aligned_cols=7 Identities=71% Similarity=1.241 Sum_probs=6.3
Q ss_pred ceEeccc
Q 032827 69 SVFVGNV 75 (132)
Q Consensus 69 SIYVGNV 75 (132)
-|||||+
T Consensus 27 GVyVg~~ 33 (86)
T PF09707_consen 27 GVYVGNV 33 (86)
T ss_pred CcEEcCC
Confidence 5999999
No 127
>COG5570 Uncharacterized small protein [Function unknown]
Probab=25.34 E-value=1.5e+02 Score=20.01 Aligned_cols=26 Identities=19% Similarity=0.391 Sum_probs=21.0
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHH
Q 032827 12 ENKQVELDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 12 ~~~d~ELEemK~Rl~EMEeEA~kLre 37 (132)
.-+|.+|-++|+|--.+-+|.++|+.
T Consensus 29 s~dd~~i~eLKRrKL~lKeeIEkLka 54 (57)
T COG5570 29 SSDDLAIRELKRRKLRLKEEIEKLKA 54 (57)
T ss_pred CcchHHHHHHHHHHHHHHHHHHHHhc
Confidence 34567889999998888889888874
No 128
>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=25.11 E-value=2e+02 Score=19.35 Aligned_cols=28 Identities=14% Similarity=0.380 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHh
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVGN 44 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~vek 44 (132)
=++.++.+++.++++..+|......+++
T Consensus 63 ~~~~L~~~~~~~~~~i~~l~~~~~~l~~ 90 (106)
T PF01920_consen 63 AIEELEERIEKLEKEIKKLEKQLKYLEK 90 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666666666666655444443333
No 129
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=25.00 E-value=1.2e+02 Score=26.09 Aligned_cols=25 Identities=32% Similarity=0.515 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHH
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHA 40 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~ 40 (132)
.|+++.+.||+++|-|...|.+|-.
T Consensus 163 ~e~ee~~erlk~le~E~s~LeE~~~ 187 (290)
T COG4026 163 AEYEEVQERLKRLEVENSRLEEMLK 187 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666677777766666555443
No 130
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. 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 winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury 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=25.00 E-value=1.6e+02 Score=21.19 Aligned_cols=29 Identities=21% Similarity=0.329 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
.+-++.++.+++++.+.|..+.+.+..-.
T Consensus 79 ~~~l~~~~~~l~~~i~~L~~~~~~l~~~~ 107 (126)
T cd04783 79 RELAEQKLAEVDEKIADLQRMRASLQELV 107 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34468889999999988888877776543
No 131
>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=24.94 E-value=1.2e+02 Score=20.98 Aligned_cols=22 Identities=27% Similarity=0.469 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 032827 16 VELDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLre 37 (132)
++|.++.++-+++|+++++|.+
T Consensus 2 ~~L~~l~~~k~~Le~~L~~lE~ 23 (80)
T PF09340_consen 2 KELKELLQKKKKLEKDLAALEK 23 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888888999988555433
No 132
>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=24.93 E-value=1.6e+02 Score=20.08 Aligned_cols=23 Identities=26% Similarity=0.430 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 032827 16 VELDDMKIRLKEMEEEATALRQM 38 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLrem 38 (132)
.|.|.+|.++.|+++.-..|..-
T Consensus 14 EEVevLK~~I~eL~~~n~~Le~E 36 (59)
T PF01166_consen 14 EEVEVLKEQIAELEERNSQLEEE 36 (59)
T ss_dssp TSHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 47888999999999887777663
No 133
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=24.93 E-value=1.3e+02 Score=25.07 Aligned_cols=20 Identities=35% Similarity=0.400 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 032827 18 LDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLre 37 (132)
=+-.|+|..|+|+|..++.+
T Consensus 88 RDRFR~Rn~ELE~elr~~~~ 107 (248)
T PF08172_consen 88 RDRFRQRNAELEEELRKQQQ 107 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 35578899999999876554
No 134
>PF11671 Apis_Csd: Complementary sex determiner protein; InterPro: IPR021007 Sex determination proteins are found in eukaryotes. Proteins in this family are typically between 168 and 410 amino acids in length. It plays a role in the gender determination of around 20% of all animals. In the honeybee, the mechanism of sex determination depends on the complementary sex determiner (csd) gene which produces an SR-type protein. Males are homozygous while females are homozygous for the csd gene. Heterozygosity generates an active protein which initiates female development []. This entry represents the C-terminal end of the sex determination protein.
Probab=24.72 E-value=1.4e+02 Score=23.60 Aligned_cols=7 Identities=43% Similarity=0.871 Sum_probs=4.8
Q ss_pred ceEeccc
Q 032827 69 SVFVGNV 75 (132)
Q Consensus 69 SIYVGNV 75 (132)
-||.||.
T Consensus 87 Pvyy~nf 93 (146)
T PF11671_consen 87 PVYYGNF 93 (146)
T ss_pred ceEecCC
Confidence 4677776
No 135
>PF06401 Alpha-2-MRAP_C: Alpha-2-macroglobulin RAP, C-terminal domain ; InterPro: IPR010483 The alpha-2-macroglobulin receptor-associated protein (RAP) is a intracellular glycoprotein that binds to the 2-macroglobulin receptor and other members of the low density lipoprotein receptor family. The protein inhibits binding of all currently known ligands of these receptors []. Two different studies have provided conflicting domain boundaries.; GO: 0008201 heparin binding, 0050750 low-density lipoprotein particle receptor binding, 0005783 endoplasmic reticulum; PDB: 2FCW_A 2P03_A 2FTU_A 2P01_A.
Probab=24.66 E-value=1.6e+02 Score=24.41 Aligned_cols=32 Identities=22% Similarity=0.319 Sum_probs=27.5
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 14 KQVELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
++.||+.+|..|.--|.-+.+|+-+|++++..
T Consensus 127 T~~ELeSlkeEL~HfE~rl~K~~H~~~el~~~ 158 (214)
T PF06401_consen 127 TEDELESLKEELKHFEKRLEKHRHYQEELELS 158 (214)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56899999999999999999999988877643
No 136
>PF06753 Bradykinin: Bradykinin; InterPro: IPR009608 This family consists of several bradykinin sequences. The skins of anuran amphibians, in addition to mucus glands, contain highly specialised poison glands, which, in reaction to stress or attack, exude a complex noxious cocktail of biologically active molecules. These secretions often contain a plethora of peptides among which bradykinin or structural variants have been identified [].; GO: 0005179 hormone activity, 0006950 response to stress, 0005576 extracellular region
Probab=24.65 E-value=48 Score=17.83 Aligned_cols=12 Identities=42% Similarity=0.556 Sum_probs=6.5
Q ss_pred CCCCCCCCCCcc
Q 032827 87 QHRPRRPNPFMV 98 (132)
Q Consensus 87 q~r~r~~~p~~~ 98 (132)
|.|+.+|.|+.|
T Consensus 2 qr~p~gftpfrg 13 (19)
T PF06753_consen 2 QRRPPGFTPFRG 13 (19)
T ss_pred CccCCCCCcccc
Confidence 445556666533
No 137
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, 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 domain
Probab=24.61 E-value=1.5e+02 Score=22.88 Aligned_cols=30 Identities=27% Similarity=0.407 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
-.+.++.++.+++++.+.|++++..+..-.
T Consensus 75 ~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll 104 (172)
T cd04790 75 ATDVLRRRLAELNREIQRLRQQQRAIATLL 104 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345688999999999999988887776543
No 138
>COG3388 Predicted transcriptional regulator [Transcription]
Probab=24.39 E-value=1.6e+02 Score=22.02 Aligned_cols=31 Identities=23% Similarity=0.292 Sum_probs=24.0
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 032827 12 ENKQVELDDMKIRLKEMEEEATALRQMHAKV 42 (132)
Q Consensus 12 ~~~d~ELEemK~Rl~EMEeEA~kLremQ~~v 42 (132)
|+.-+=+++|+.+|.|+-++++.+++.-+++
T Consensus 69 d~~~e~ie~i~~dl~ei~e~~~~i~e~~~~l 99 (101)
T COG3388 69 DDFPEFIEEIIGDLSEINEEAENIEEDVAKL 99 (101)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4445678999999999999998887754443
No 139
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=24.30 E-value=1.3e+02 Score=21.75 Aligned_cols=27 Identities=4% Similarity=0.060 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
.+.++++++.+++++.++|++-++.+.
T Consensus 28 ~~~~l~~q~~~~~~e~~~l~~~n~~L~ 54 (105)
T PRK00888 28 DYWRVNDQVAAQQQTNAKLKARNDQLF 54 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555554444333333
No 140
>PF04889 Cwf_Cwc_15: Cwf15/Cwc15 cell cycle control protein; InterPro: IPR006973 This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing [].; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=24.29 E-value=1.9e+02 Score=24.06 Aligned_cols=9 Identities=33% Similarity=0.475 Sum_probs=5.0
Q ss_pred HHHHHHHHH
Q 032827 16 VELDDMKIR 24 (132)
Q Consensus 16 ~ELEemK~R 24 (132)
+||+.||+.
T Consensus 153 ~ELekIKkE 161 (244)
T PF04889_consen 153 RELEKIKKE 161 (244)
T ss_pred HHHHHHHHH
Confidence 366666653
No 141
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=24.28 E-value=1.6e+02 Score=24.15 Aligned_cols=22 Identities=41% Similarity=0.549 Sum_probs=18.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 032827 15 QVELDDMKIRLKEMEEEATALR 36 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLr 36 (132)
+.||+.||.-++.+|++.+.|-
T Consensus 66 ~eEledLk~~~~~lEE~~~~L~ 87 (193)
T PF14662_consen 66 EEELEDLKTLAKSLEEENRSLL 87 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5699999999999999887663
No 142
>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=24.24 E-value=1.7e+02 Score=21.16 Aligned_cols=29 Identities=14% Similarity=0.197 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
++.++.++.+++++.+.|..+.+.++.-.
T Consensus 81 ~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (127)
T TIGR02044 81 KARTLEKVAEIERKISELQSMRDQLEALA 109 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44578889999999998888887777544
No 143
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), 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 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=24.21 E-value=1.2e+02 Score=21.09 Aligned_cols=23 Identities=22% Similarity=0.247 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHH
Q 032827 18 LDDMKIRLKEMEEEATALRQMHA 40 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~ 40 (132)
.+-++.++++++++.+.|..+.+
T Consensus 83 ~~~l~~~~~~l~~~i~~l~~~~~ 105 (107)
T cd04777 83 KSFLKNKKDELEKEIEDLKKAIQ 105 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 46688889999998888877654
No 144
>TIGR02743 TraW type-F conjugative transfer system protein TraW. This protein is an essential component of the F-type conjugative transfer sytem for plasmid DNA transfer and has been shown to be localized to the periplasm.
Probab=23.89 E-value=86 Score=25.46 Aligned_cols=26 Identities=27% Similarity=0.468 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKV 42 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~v 42 (132)
.=|+.|++||+.||+.- .|.+||++.
T Consensus 35 D~L~~I~~rl~~~e~sG-el~~~~~~~ 60 (202)
T TIGR02743 35 DMLEVIEQRLKRLEQSG-ELKAMQQRF 60 (202)
T ss_pred HHHHHHHHHHHhhhhCc-hHHHHHHHH
Confidence 35888999999999742 344555443
No 145
>CHL00154 rpl29 ribosomal protein L29; Validated
Probab=23.84 E-value=1.6e+02 Score=19.91 Aligned_cols=28 Identities=11% Similarity=0.192 Sum_probs=20.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
+...++++.+|.|+.+|.-.|+ +|..+.
T Consensus 11 ~ls~~eL~~~l~elk~elf~LR-fq~atg 38 (67)
T CHL00154 11 DLTDSEISEEIIKTKKELFDLR-LKKATR 38 (67)
T ss_pred hCCHHHHHHHHHHHHHHHHHHH-HHHHhC
Confidence 3456788899999999988888 565443
No 146
>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=23.73 E-value=1.6e+02 Score=26.17 Aligned_cols=26 Identities=19% Similarity=0.415 Sum_probs=18.3
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHH
Q 032827 12 ENKQVELDDMKIRLKEMEEEATALRQ 37 (132)
Q Consensus 12 ~~~d~ELEemK~Rl~EMEeEA~kLre 37 (132)
+..+.++.+++++|++++++.+++.+
T Consensus 67 ~~~~~~~~~l~~~l~~l~~~~~~~~~ 92 (525)
T TIGR02231 67 RPDPERLAELRKQIRELEAELRDLED 92 (525)
T ss_pred cCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456888888888888877766543
No 147
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively 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 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=23.54 E-value=95 Score=21.48 Aligned_cols=22 Identities=18% Similarity=0.348 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 032827 17 ELDDMKIRLKEMEEEATALRQM 38 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLrem 38 (132)
-++.++.++.+++++.+.|..|
T Consensus 74 ~~~~l~~~~~~l~~~i~~l~~~ 95 (96)
T cd04788 74 PLELLRRQLARLEEQLELATRL 95 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3566788888888887777654
No 148
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=23.50 E-value=2.3e+02 Score=20.52 Aligned_cols=30 Identities=30% Similarity=0.475 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
..++.++.+++++.++.++|+..-.+..++
T Consensus 80 ~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~ 109 (118)
T PF13815_consen 80 SQLEQLEERLQELQQEIEKLKQKLKKQKEE 109 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777777777777777766654444433
No 149
>KOG0159 consensus Cytochrome P450 CYP11/CYP12/CYP24/CYP27 subfamilies [Secondary metabolites biosynthesis, transport and catabolism]
Probab=23.45 E-value=54 Score=30.50 Aligned_cols=35 Identities=26% Similarity=0.541 Sum_probs=23.2
Q ss_pred cccCCCCCcCCCCCCC-CCCcccCCCCCCCCCCCCCCCCCCC
Q 032827 78 KRTNVPGMKQHRPRRP-NPFMVYQSRGAIIPPFLYSPYGYGK 118 (132)
Q Consensus 78 kRtnvPGmkq~r~r~~-~p~~~~~~~~~~~~~~~~~pygyg~ 118 (132)
.=+++|.=++|++-|| .+=. +... |+.++|||+|+
T Consensus 427 ~~~~F~~p~~F~PeRWL~~~~--~~~~----pF~~LPFGfG~ 462 (519)
T KOG0159|consen 427 NPAYFPDPEEFLPERWLKPST--KTIH----PFASLPFGFGP 462 (519)
T ss_pred ChhhCCCccccChhhhccccc--CCCC----CceecCCCCCc
Confidence 3667888888888776 2211 2223 56689999994
No 150
>PF11333 DUF3135: Protein of unknown function (DUF3135); InterPro: IPR021482 This family of proteins with unkown function appears to be restricted to Proteobacteria.
Probab=23.37 E-value=1.5e+02 Score=20.82 Aligned_cols=39 Identities=18% Similarity=0.321 Sum_probs=27.4
Q ss_pred cCChHHHHHHHHHHHH--HH----HHHHHHHHhHHHHHhhhcCCC
Q 032827 12 ENKQVELDDMKIRLKE--ME----EEATALRQMHAKVGNEMASKQ 50 (132)
Q Consensus 12 ~~~d~ELEemK~Rl~E--ME----eEA~kLremQ~~vekem~~~~ 50 (132)
..+-+.||++++++-+ |+ +-..+|+.+|..++......+
T Consensus 14 ~~dPe~fe~lr~~~~ee~I~~a~~~~q~rL~~lQ~~Id~~~~~~k 58 (83)
T PF11333_consen 14 QNDPEAFEQLRQELIEEMIESAPEEMQPRLRALQFHIDMQRSRCK 58 (83)
T ss_pred HhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHcC
Confidence 4455689999988766 22 234579999999998765433
No 151
>cd00427 Ribosomal_L29_HIP Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it participates in forming a protein ring that surrounds the polypeptide exit channel, providing structural support for the ribosome. L29 is involved in forming the translocon binding site, along with L19, L22, L23, L24, and L31e. In addition, L29 and L23 form the interaction site for trigger factor (TF) on the ribosomal surface, adjacent to the exit tunnel. L29 forms numerous interactions with L23 and with the 23S rRNA. In some eukaryotes, L29 is referred to as L35, which is distinct from L35 found in bacteria and some eukaryotes (primarily plastids and mitochondria). The mammalian homolog, HIP, is found on the surface of many tissues and cell lines. It is believed to play a role in cell adhesion and modulat
Probab=23.31 E-value=1.6e+02 Score=18.84 Aligned_cols=26 Identities=23% Similarity=0.468 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
..++++.+|.++..|.-.|+ +|..+.
T Consensus 7 s~~eL~~~l~~l~~elf~Lr-~q~~~~ 32 (57)
T cd00427 7 SDEELQEKLDELKKELFNLR-FQKATG 32 (57)
T ss_pred CHHHHHHHHHHHHHHHHHHH-HHHHHC
Confidence 45678888888888888887 455443
No 152
>PF07795 DUF1635: Protein of unknown function (DUF1635); InterPro: IPR012862 The members of this family include sequences that are parts of hypothetical proteins expressed by plant species. The region in question is about 170 amino acids long.
Probab=23.30 E-value=1.6e+02 Score=24.45 Aligned_cols=25 Identities=24% Similarity=0.426 Sum_probs=15.1
Q ss_pred HHHHHH----HHHHHHHHHHHHHHHHhHH
Q 032827 16 VELDDM----KIRLKEMEEEATALRQMHA 40 (132)
Q Consensus 16 ~ELEem----K~Rl~EMEeEA~kLremQ~ 40 (132)
.|||++ +..|+..|+++..|.+|-.
T Consensus 15 lELE~~k~~A~EElRk~eeqi~~L~~Ll~ 43 (214)
T PF07795_consen 15 LELEATKMEANEELRKREEQIAHLKDLLK 43 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478884 4445557777766655433
No 153
>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=23.15 E-value=94 Score=26.03 Aligned_cols=6 Identities=17% Similarity=0.191 Sum_probs=2.5
Q ss_pred cCCCCC
Q 032827 80 TNVPGM 85 (132)
Q Consensus 80 tnvPGm 85 (132)
..+|..
T Consensus 99 ~~~p~~ 104 (247)
T PF09849_consen 99 PPQPAP 104 (247)
T ss_pred CCCCCC
Confidence 444443
No 154
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=22.97 E-value=98 Score=26.95 Aligned_cols=26 Identities=27% Similarity=0.381 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHH
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKV 42 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~v 42 (132)
.=+++|.++.+||.|.+-||++=..+
T Consensus 263 rN~~LK~qa~~lerEI~ylKqli~e~ 288 (294)
T KOG4571|consen 263 RNEELKDQASELEREIRYLKQLILEV 288 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44568888888999988888754433
No 155
>TIGR01873 cas_CT1978 CRISPR-associated endoribonuclease Cas2, E. coli subfamily. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents a minor branch of the Cas2 family of CRISPR-associated endonuclease, whereas most Cas2 proteins are modeled instead by TIGR01573. This form of Cas2 is characteristic for the Ecoli subtype of CRISPR/Cas locus.
Probab=22.93 E-value=31 Score=24.80 Aligned_cols=7 Identities=57% Similarity=1.080 Sum_probs=6.3
Q ss_pred ceEeccc
Q 032827 69 SVFVGNV 75 (132)
Q Consensus 69 SIYVGNV 75 (132)
-||||||
T Consensus 27 GVyVg~~ 33 (87)
T TIGR01873 27 GVYVGGV 33 (87)
T ss_pred CcEEcCC
Confidence 5999999
No 156
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=22.72 E-value=2.5e+02 Score=19.56 Aligned_cols=16 Identities=13% Similarity=0.154 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 032827 20 DMKIRLKEMEEEATAL 35 (132)
Q Consensus 20 emK~Rl~EMEeEA~kL 35 (132)
+++.++.+++.++..+
T Consensus 92 ~~~~~~~~~~~~~~~~ 107 (120)
T PF11740_consen 92 ELEQERAAAEAELAEA 107 (120)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444443333
No 157
>PRK10244 anti-RssB factor; Provisional
Probab=22.68 E-value=1.5e+02 Score=21.60 Aligned_cols=18 Identities=28% Similarity=0.514 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 032827 18 LDDMKIRLKEMEEEATAL 35 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kL 35 (132)
+-+|=.||.+||+|++.|
T Consensus 5 I~elL~KlA~ke~esKeL 22 (88)
T PRK10244 5 IAELLAKLAQKEEESKEL 22 (88)
T ss_pred HHHHHHHHHHhhHHHHHH
Confidence 446777889999887654
No 158
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=22.56 E-value=2.3e+02 Score=20.70 Aligned_cols=29 Identities=24% Similarity=0.335 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
++|.+-|.++|.+||++-..|..--++..
T Consensus 14 EEEa~LlRRkl~ele~eN~~l~~EL~kyk 42 (96)
T PF11365_consen 14 EEEAELLRRKLSELEDENKQLTEELNKYK 42 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35778899999999988776655334443
No 159
>PRK11637 AmiB activator; Provisional
Probab=22.38 E-value=1.7e+02 Score=25.43 Aligned_cols=15 Identities=13% Similarity=0.255 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHH
Q 032827 16 VELDDMKIRLKEMEE 30 (132)
Q Consensus 16 ~ELEemK~Rl~EMEe 30 (132)
++|+++++++++++.
T Consensus 47 ~~l~~l~~qi~~~~~ 61 (428)
T PRK11637 47 DQLKSIQQDIAAKEK 61 (428)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344444444444333
No 160
>PF04120 Iron_permease: Low affinity iron permease ; InterPro: IPR007251 Although originally identified as a low-affinity iron(II) permease [, ], Fet4 has since been shown to import several other transition metal ions, including copper [, ] and zinc []. Copper, cobalt, and cadmium inhibit Fet4 [, ]. Fet4 is an integral protein of the plasma membrane [, ]. FET4 is not essential, not even in fet3 fet4 double mutants []. Over expression of FET4 improves growth under alkaline conditions []. Transcription of FET4 is induced by Aft1 in response to low levels of iron [, , ] or by Zap1 in response to low zinc [, ], but not in response to low copper []. When the high-affinity iron permease component Fet3 is deleted, FET4 is induced by the addition of copper, zinc, cobalt, or manganese []. It is also induced under anaerobic conditions [, , ] and repressed by Rox1 in aerobic conditions [, ]. Rox1 attenuates the activation of FET4 by Aft1 or Zap1 []. ; GO: 0055085 transmembrane transport
Probab=22.37 E-value=1.3e+02 Score=23.07 Aligned_cols=22 Identities=23% Similarity=0.490 Sum_probs=14.8
Q ss_pred cCChHHHHHHHHHHHHHHHHHH
Q 032827 12 ENKQVELDDMKIRLKEMEEEAT 33 (132)
Q Consensus 12 ~~~d~ELEemK~Rl~EMEeEA~ 33 (132)
+-+++||+++++++.++-+++.
T Consensus 94 ~l~~~el~~~~~~~~~~~~~~~ 115 (132)
T PF04120_consen 94 DLTEEELEEIRKRYERLAEQAR 115 (132)
T ss_pred cCCHHHHHHHHHHHHHHHHHhh
Confidence 4456777777777777666654
No 161
>PF14265 DUF4355: Domain of unknown function (DUF4355)
Probab=22.30 E-value=1.9e+02 Score=20.70 Aligned_cols=21 Identities=33% Similarity=0.529 Sum_probs=15.7
Q ss_pred ChHHHHHHHHHHHHHHHHHHH
Q 032827 14 KQVELDDMKIRLKEMEEEATA 34 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~k 34 (132)
...||++++.++.+++.+.+.
T Consensus 47 ~~~e~~~~~~el~~~~~e~~~ 67 (125)
T PF14265_consen 47 AQEELEELEKELEELEAELAR 67 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 446888888888888887653
No 162
>PF14282 FlxA: FlxA-like protein
Probab=22.12 E-value=1.5e+02 Score=21.35 Aligned_cols=19 Identities=11% Similarity=0.492 Sum_probs=9.3
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 032827 15 QVELDDMKIRLKEMEEEAT 33 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~ 33 (132)
+..|+.++++++.+++++.
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~ 36 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQ 36 (106)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4455555555555444443
No 163
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=22.11 E-value=1.9e+02 Score=23.14 Aligned_cols=32 Identities=22% Similarity=0.487 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhc
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNEMA 47 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~vekem~ 47 (132)
-+|.+++.++.++.-|-..|+.+|...++..+
T Consensus 19 n~l~elq~~l~~l~~ENk~Lk~lq~Rq~kAL~ 50 (194)
T PF15619_consen 19 NELAELQRKLQELRKENKTLKQLQKRQEKALQ 50 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37888999999999999999999988776653
No 164
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=22.06 E-value=75 Score=24.18 Aligned_cols=22 Identities=14% Similarity=0.317 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHhHHHHHhhh
Q 032827 25 LKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 25 l~EMEeEA~kLremQ~~vekem 46 (132)
+.||.+|+++|+--...+-+.+
T Consensus 5 ~EeLaaeL~kLqmENk~LKkkl 26 (118)
T PF05812_consen 5 MEELAAELQKLQMENKALKKKL 26 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444443333333444
No 165
>PRK09866 hypothetical protein; Provisional
Probab=22.01 E-value=1.5e+02 Score=28.90 Aligned_cols=32 Identities=22% Similarity=0.395 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhc
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGNEMA 47 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~vekem~ 47 (132)
.+++.+|.++.++|+..+.|..-|.+|.++.+
T Consensus 446 ~~~~~L~~~I~~~e~d~~~l~~~q~~~~~~~~ 477 (741)
T PRK09866 446 VACEQLRQNIHQVEESLQLLQLNQAQVSGEIK 477 (741)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 58899999999999999999998888887654
No 166
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=22.00 E-value=34 Score=25.10 Aligned_cols=7 Identities=57% Similarity=1.165 Sum_probs=6.3
Q ss_pred ceEeccc
Q 032827 69 SVFVGNV 75 (132)
Q Consensus 69 SIYVGNV 75 (132)
-||||||
T Consensus 29 GVyVg~~ 35 (97)
T PRK11558 29 GVYVGDV 35 (97)
T ss_pred CcEEcCC
Confidence 5999999
No 167
>TIGR00012 L29 ribosomal protein L29. called L29 in prokaryotic (50S) large subunits and L35 in eukaryotic (60S) large subunits.
Probab=21.94 E-value=2e+02 Score=18.35 Aligned_cols=24 Identities=21% Similarity=0.428 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHH
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAK 41 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~ 41 (132)
..++++.++.++.+|.-.|+ +|..
T Consensus 6 s~~EL~~~l~~lr~eLf~Lr-~~~~ 29 (55)
T TIGR00012 6 SKEELAKKLDELKKELFELR-FQKA 29 (55)
T ss_pred CHHHHHHHHHHHHHHHHHHH-HHHH
Confidence 45778888888888888887 4443
No 168
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=21.88 E-value=1.6e+02 Score=19.29 Aligned_cols=20 Identities=45% Similarity=0.723 Sum_probs=11.6
Q ss_pred HHHHHHHHH----HHHHHHHHHHH
Q 032827 18 LDDMKIRLK----EMEEEATALRQ 37 (132)
Q Consensus 18 LEemK~Rl~----EMEeEA~kLre 37 (132)
++++++||. +||.|.+.|+.
T Consensus 10 ~~eL~~rl~~LD~~ME~Eieelr~ 33 (49)
T PF11629_consen 10 YEELQQRLASLDPEMEQEIEELRQ 33 (49)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHH
Confidence 455556654 47777665544
No 169
>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=21.86 E-value=1.1e+02 Score=21.29 Aligned_cols=21 Identities=29% Similarity=0.483 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 032827 18 LDDMKIRLKEMEEEATALRQM 38 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLrem 38 (132)
.+.+++++.+++++.+.|.++
T Consensus 76 ~~~l~~~~~~l~~~i~~l~~~ 96 (97)
T cd04782 76 IELLKKQEKEIKEEIEELQKI 96 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 445677777777776666553
No 170
>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=21.82 E-value=2.5e+02 Score=20.03 Aligned_cols=29 Identities=7% Similarity=0.328 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHh
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGN 44 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~vek 44 (132)
.-++.++..++++++++.+|++--+.+..
T Consensus 94 ~r~~~l~~~~~~l~~~l~~l~~~~~~~~~ 122 (129)
T cd00584 94 KKIEELTKQIEKLQKELAKLKDQINTLEA 122 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666666666666655554444433
No 171
>PHA02557 22 prohead core protein; Provisional
Probab=21.79 E-value=1.7e+02 Score=25.25 Aligned_cols=19 Identities=42% Similarity=0.562 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 032827 17 ELDDMKIRLKEMEEEATAL 35 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kL 35 (132)
=+++|..+|.|||++++.|
T Consensus 142 vV~em~~~L~E~e~~~~~l 160 (271)
T PHA02557 142 VVAEMEEELDEMEEELNEL 160 (271)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4556666666666665543
No 172
>PRK13738 conjugal transfer pilus assembly protein TraW; Provisional
Probab=21.76 E-value=1.1e+02 Score=25.00 Aligned_cols=27 Identities=15% Similarity=0.165 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVG 43 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~ve 43 (132)
.=|+.|++||+.||+.-+ |..||++..
T Consensus 33 D~L~~I~~rL~~~e~sGe-l~~~~~~~~ 59 (209)
T PRK13738 33 DMLTVIMQRLQALEQSGE-MGRKMDAFK 59 (209)
T ss_pred hHHHHHHHHHHHhHhccH-HHHHHHHHH
Confidence 358889999999996533 555554433
No 173
>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=21.70 E-value=1.2e+02 Score=27.35 Aligned_cols=25 Identities=16% Similarity=0.450 Sum_probs=22.1
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHh
Q 032827 14 KQVELDDMKIRLKEMEEEATALRQM 38 (132)
Q Consensus 14 ~d~ELEemK~Rl~EMEeEA~kLrem 38 (132)
+.++|.+|+++++.++.|.+.|++-
T Consensus 40 ~~~~i~~Lq~QI~~Lq~ei~~l~~~ 64 (383)
T PF12097_consen 40 DQQEISELQKQIQQLQAEINQLEEQ 64 (383)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4679999999999999999988874
No 174
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=21.54 E-value=1.9e+02 Score=21.75 Aligned_cols=29 Identities=21% Similarity=0.258 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 17 ELDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
-.+-++++++++++..+.|..+++.+..-
T Consensus 85 ~~~ll~~k~~~l~~~i~~L~~~~~~L~~~ 113 (144)
T PRK13752 85 ASSLAEHKLKDVREKMADLARMEAVLSEL 113 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35567888999999998888888777653
No 175
>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=21.38 E-value=1.5e+02 Score=22.43 Aligned_cols=19 Identities=21% Similarity=0.527 Sum_probs=10.0
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 032827 15 QVELDDMKIRLKEMEEEAT 33 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~ 33 (132)
+.||.+++.+|.+++.+..
T Consensus 78 d~ei~~L~~el~~l~~~~k 96 (169)
T PF07106_consen 78 DAEIKELREELAELKKEVK 96 (169)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4455555555555554443
No 176
>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=21.34 E-value=2.1e+02 Score=20.29 Aligned_cols=29 Identities=17% Similarity=0.244 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNEM 46 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~vekem 46 (132)
.+.++.++++++++.+.|..+++.++.-.
T Consensus 81 ~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 109 (116)
T cd04769 81 QQALEDKKQEIRAQITELQQLLARLDAFE 109 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688888888888888877777766543
No 177
>PF15215 FDC-SP: Follicular dendritic cell secreted peptide
Probab=21.09 E-value=81 Score=21.90 Aligned_cols=14 Identities=21% Similarity=0.612 Sum_probs=10.2
Q ss_pred CCCCCCCCCcccCC
Q 032827 111 YSPYGYGKIPRFRM 124 (132)
Q Consensus 111 ~~pygyg~~pr~r~ 124 (132)
|+|++|-+.|+|++
T Consensus 36 fPp~~~~~yPw~~~ 49 (67)
T PF15215_consen 36 FPPFPNQRYPWFYR 49 (67)
T ss_pred CCCCCcCCCchhhh
Confidence 56667777888875
No 178
>PF03478 DUF295: Protein of unknown function (DUF295); InterPro: IPR005174 This family of proteins are found in plants. The function of the proteins is unknown.
Probab=21.02 E-value=71 Score=19.89 Aligned_cols=25 Identities=28% Similarity=0.684 Sum_probs=16.5
Q ss_pred ccccCCCceEeccc---cccccCCCCCc
Q 032827 62 REEVDSRSVFVGNV---TVKRTNVPGMK 86 (132)
Q Consensus 62 k~E~DsRSIYVGNV---~~kRtnvPGmk 86 (132)
-+++..|.||||.- +.-=...||++
T Consensus 4 v~~lGd~alFlg~~~~~~~~a~~~~g~~ 31 (54)
T PF03478_consen 4 VKSLGDRALFLGRNCSFSVSASDFPGLK 31 (54)
T ss_pred ccccCCEEEEEeCCccEEEECCCCCCcc
Confidence 45678899999975 33333366765
No 179
>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=21.00 E-value=2.3e+02 Score=20.48 Aligned_cols=28 Identities=18% Similarity=0.336 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q 032827 18 LDDMKIRLKEMEEEATALRQMHAKVGNE 45 (132)
Q Consensus 18 LEemK~Rl~EMEeEA~kLremQ~~veke 45 (132)
++.++.++.++++..+.|..+.+.+...
T Consensus 82 ~~~l~~~~~~l~~~~~~l~~~~~~L~~~ 109 (118)
T cd04776 82 LEKIEKRRAELEQQRRDIDAALAELDAA 109 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888888888877777766666544
No 180
>KOG2017 consensus Molybdopterin synthase sulfurylase [Coenzyme transport and metabolism]
Probab=20.84 E-value=81 Score=28.69 Aligned_cols=61 Identities=25% Similarity=0.342 Sum_probs=30.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhcCCCCCCCCCCCcccccccCCCceEe------ccccccccCC
Q 032827 15 QVELDDMKIRLKEMEEEATALRQMHAKVGNEMASKQDPAAGGSSLANREEVDSRSVFV------GNVTVKRTNV 82 (132)
Q Consensus 15 d~ELEemK~Rl~EMEeEA~kLremQ~~vekem~~~~~p~~~~~t~eek~E~DsRSIYV------GNV~~kRtnv 82 (132)
+.+|+.++.+| ++|+..|+.+.+......+.........+...==+|.+.| |+++.|+++|
T Consensus 3 e~~l~~l~~~l-------~a~~~e~~~~~~~l~~~~~~~~~~~Ls~dei~RYsRQlilpe~gV~GQ~~Lk~s~V 69 (427)
T KOG2017|consen 3 EEELNSLKSKL-------AALRAEQEPVPNRLEKVIDSSREAGLSLDEILRYSRQLILPEFGVHGQLSLKNSSV 69 (427)
T ss_pred hHHHHHHHHHH-------HHHHHhhcccccccccccccccccCCCHHHHHhhhheeeccccccccccccCCccE
Confidence 34555555554 4566667666655443322221122223333334566554 4447777776
No 181
>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=20.83 E-value=2.9e+02 Score=18.90 Aligned_cols=13 Identities=15% Similarity=0.388 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHH
Q 032827 18 LDDMKIRLKEMEE 30 (132)
Q Consensus 18 LEemK~Rl~EMEe 30 (132)
++.+|.++.++.+
T Consensus 20 i~~Lq~e~eeLke 32 (72)
T PF06005_consen 20 IALLQMENEELKE 32 (72)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3344444444444
No 182
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=20.82 E-value=1.6e+02 Score=25.24 Aligned_cols=15 Identities=40% Similarity=0.680 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHHH
Q 032827 17 ELDDMKIRLKEMEEE 31 (132)
Q Consensus 17 ELEemK~Rl~EMEeE 31 (132)
||++++..|++.|++
T Consensus 208 ELe~~~EeL~~~Eke 222 (269)
T PF05278_consen 208 ELEELEEELKQKEKE 222 (269)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444444444444433
No 183
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=20.68 E-value=1.4e+02 Score=25.11 Aligned_cols=13 Identities=15% Similarity=0.148 Sum_probs=6.7
Q ss_pred cccccCCCCCcCC
Q 032827 76 TVKRTNVPGMKQH 88 (132)
Q Consensus 76 ~~kRtnvPGmkq~ 88 (132)
|-.=+.+|++-+.
T Consensus 174 td~~~~i~v~i~r 186 (284)
T COG1792 174 TDVNSKIPVKINR 186 (284)
T ss_pred eccccceeEEecc
Confidence 3334556665554
No 184
>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=20.61 E-value=2.3e+02 Score=24.13 Aligned_cols=7 Identities=43% Similarity=0.795 Sum_probs=4.5
Q ss_pred cccccCC
Q 032827 76 TVKRTNV 82 (132)
Q Consensus 76 ~~kRtnv 82 (132)
..+||||
T Consensus 131 ~L~ktNv 137 (314)
T PF04111_consen 131 RLRKTNV 137 (314)
T ss_dssp CHHT--T
T ss_pred HHHhcCc
Confidence 8899999
No 185
>PF14131 DUF4298: Domain of unknown function (DUF4298)
Probab=20.19 E-value=2.4e+02 Score=19.72 Aligned_cols=21 Identities=19% Similarity=0.194 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHhHHHH
Q 032827 22 KIRLKEMEEEATALRQMHAKV 42 (132)
Q Consensus 22 K~Rl~EMEeEA~kLremQ~~v 42 (132)
..-+.++|+-.+++++.|..+
T Consensus 13 ~~~l~~le~~l~~~~~~~~~~ 33 (90)
T PF14131_consen 13 CELLEELEEALEKWQEAQPDY 33 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444455544443
No 186
>PRK06800 fliH flagellar assembly protein H; Validated
Probab=20.08 E-value=2e+02 Score=24.09 Aligned_cols=29 Identities=21% Similarity=0.343 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHh
Q 032827 16 VELDDMKIRLKEMEEEATALRQMHAKVGN 44 (132)
Q Consensus 16 ~ELEemK~Rl~EMEeEA~kLremQ~~vek 44 (132)
.|++++.+.-++++.++.+|+.-|.+++.
T Consensus 38 ~d~~~L~~~Q~~L~~e~~~l~~eqQ~l~~ 66 (228)
T PRK06800 38 KDHEELLAQQKSLHKELNQLRQEQQKLER 66 (228)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57777777778888888777766665543
No 187
>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=20.02 E-value=1.2e+02 Score=20.93 Aligned_cols=20 Identities=10% Similarity=0.227 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 032827 19 DDMKIRLKEMEEEATALRQM 38 (132)
Q Consensus 19 EemK~Rl~EMEeEA~kLrem 38 (132)
+.++.++.+++++.+.|.+|
T Consensus 76 ~~l~~~~~~l~~~i~~l~~~ 95 (96)
T cd04768 76 AMLLEKKQAIQQKIDRLQQL 95 (96)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 34677777777776666654
No 188
>smart00338 BRLZ basic region leucin zipper.
Probab=20.02 E-value=2.2e+02 Score=18.23 Aligned_cols=19 Identities=21% Similarity=0.594 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 032827 17 ELDDMKIRLKEMEEEATAL 35 (132)
Q Consensus 17 ELEemK~Rl~EMEeEA~kL 35 (132)
.++.+..++..++.+-..|
T Consensus 27 ~~~~Le~~~~~L~~en~~L 45 (65)
T smart00338 27 EIEELERKVEQLEAENERL 45 (65)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444433
Done!