Query 030748
Match_columns 172
No_of_seqs 201 out of 1349
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 03:58:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030748.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030748hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0014 MADS box transcription 100.0 3E-31 6.6E-36 211.1 1.4 60 1-60 1-60 (195)
2 smart00432 MADS MADS domain. 99.9 1.9E-28 4.1E-33 162.3 4.5 59 2-60 1-59 (59)
3 cd00120 MADS MADS: MCM1, Agamo 99.9 1.3E-27 2.8E-32 158.3 4.1 59 2-60 1-59 (59)
4 cd00265 MADS_MEF2_like MEF2 (m 99.9 2.6E-27 5.6E-32 164.8 3.2 59 2-60 1-59 (77)
5 cd00266 MADS_SRF_like SRF-like 99.9 2.1E-26 4.6E-31 162.3 4.1 59 2-60 1-59 (83)
6 PF00319 SRF-TF: SRF-type tran 99.9 2.7E-25 5.8E-30 143.0 -0.3 51 9-59 1-51 (51)
7 KOG0015 Regulator of arginine 99.8 2.2E-20 4.7E-25 156.8 1.5 59 2-60 63-121 (338)
8 PF01486 K-box: K-box region; 99.5 4.2E-14 9.2E-19 102.5 8.5 64 61-124 36-99 (100)
9 COG5068 ARG80 Regulator of arg 99.4 1.2E-13 2.6E-18 120.6 3.7 60 1-60 81-140 (412)
10 PF06005 DUF904: Protein of un 94.4 0.42 9.2E-06 32.7 7.8 48 71-123 1-48 (72)
11 PRK15422 septal ring assembly 89.3 2.9 6.2E-05 29.2 7.0 43 71-118 1-43 (79)
12 PF01166 TSC22: TSC-22/dip/bun 89.3 0.96 2.1E-05 29.8 4.4 29 96-124 17-45 (59)
13 KOG4797 Transcriptional regula 88.1 2.6 5.7E-05 31.2 6.5 46 76-121 43-95 (123)
14 PF06156 DUF972: Protein of un 86.1 6 0.00013 29.0 7.5 50 73-127 7-56 (107)
15 PRK13169 DNA replication intia 85.9 6.2 0.00013 29.2 7.6 49 73-126 7-55 (110)
16 COG3074 Uncharacterized protei 84.9 8.7 0.00019 26.3 7.2 41 71-116 1-41 (79)
17 cd07429 Cby_like Chibby, a nuc 84.2 1.7 3.8E-05 32.0 3.9 22 104-125 76-97 (108)
18 PF06698 DUF1192: Protein of u 82.4 2.6 5.7E-05 27.8 3.8 31 62-92 12-42 (59)
19 TIGR02449 conserved hypothetic 76.8 20 0.00043 24.1 7.3 52 75-126 1-54 (65)
20 PRK13729 conjugal transfer pil 76.0 59 0.0013 30.0 11.7 46 81-127 79-124 (475)
21 KOG4005 Transcription factor X 75.7 19 0.00041 30.4 7.8 59 64-123 57-120 (292)
22 KOG4797 Transcriptional regula 75.5 5.7 0.00012 29.4 4.2 32 94-125 58-92 (123)
23 TIGR02894 DNA_bind_RsfA transc 75.5 23 0.00051 27.9 7.9 57 69-125 78-136 (161)
24 PF10504 DUF2452: Protein of u 74.1 41 0.00089 26.5 8.9 45 72-116 28-75 (159)
25 smart00338 BRLZ basic region l 73.9 16 0.00034 23.8 5.8 37 85-125 15-51 (65)
26 PF10226 DUF2216: Uncharacteri 72.7 26 0.00057 28.4 7.7 30 95-124 50-79 (195)
27 PHA01750 hypothetical protein 71.1 29 0.00063 23.5 7.2 47 78-124 27-73 (75)
28 PF00170 bZIP_1: bZIP transcri 70.4 23 0.0005 22.9 5.9 35 86-124 16-50 (64)
29 PF07716 bZIP_2: Basic region 70.0 24 0.00053 22.1 5.9 36 86-125 15-50 (54)
30 KOG1962 B-cell receptor-associ 69.7 24 0.00051 29.2 7.0 55 71-125 155-211 (216)
31 PF07926 TPR_MLP1_2: TPR/MLP1/ 69.3 45 0.00097 24.9 8.2 30 96-125 101-130 (132)
32 PF02183 HALZ: Homeobox associ 69.0 23 0.00049 21.9 5.3 34 93-126 5-38 (45)
33 COG4467 Regulator of replicati 67.5 42 0.00091 24.9 7.2 48 73-125 7-54 (114)
34 PRK10884 SH3 domain-containing 65.9 44 0.00095 27.2 7.9 9 76-84 95-103 (206)
35 PF04977 DivIC: Septum formati 64.2 16 0.00035 24.1 4.3 29 98-126 22-50 (80)
36 PF05529 Bap31: B-cell recepto 63.2 49 0.0011 26.1 7.6 53 74-126 125-187 (192)
37 KOG4252 GTP-binding protein [S 61.8 52 0.0011 27.0 7.4 23 38-60 90-113 (246)
38 PF14645 Chibby: Chibby family 60.5 15 0.00032 27.3 3.9 23 103-125 74-96 (116)
39 PRK00888 ftsB cell division pr 59.7 29 0.00062 25.2 5.2 28 98-125 32-59 (105)
40 PF08432 Vfa1: AAA-ATPase Vps4 58.9 35 0.00075 27.1 6.0 35 39-73 11-53 (182)
41 PF04880 NUDE_C: NUDE protein, 58.6 21 0.00046 28.2 4.6 46 76-123 2-47 (166)
42 PF01093 Clusterin: Clusterin; 57.1 24 0.00052 32.1 5.3 60 67-126 2-70 (436)
43 PF06156 DUF972: Protein of un 56.2 30 0.00065 25.3 4.8 32 95-126 17-48 (107)
44 PRK00182 tatB sec-independent 56.0 20 0.00043 28.3 4.0 54 43-112 16-69 (160)
45 KOG0930 Guanine nucleotide exc 55.0 44 0.00096 29.1 6.3 43 69-120 9-51 (395)
46 PF10482 CtIP_N: Tumour-suppre 54.9 69 0.0015 24.0 6.5 49 75-123 57-119 (120)
47 PF03980 Nnf1: Nnf1 ; InterPr 54.8 44 0.00094 23.9 5.5 33 94-126 74-106 (109)
48 smart00030 CLb CLUSTERIN Beta 52.4 55 0.0012 26.8 6.1 30 66-95 7-36 (206)
49 PF10224 DUF2205: Predicted co 52.1 78 0.0017 22.0 8.3 31 96-126 33-63 (80)
50 PF01502 PRA-CH: Phosphoribosy 51.7 5.9 0.00013 27.4 0.4 35 19-53 20-63 (75)
51 PF10584 Proteasome_A_N: Prote 51.4 1.9 4.2E-05 23.1 -1.6 13 44-56 4-16 (23)
52 COG4026 Uncharacterized protei 50.6 1.5E+02 0.0033 24.9 9.4 12 64-75 96-107 (290)
53 PF11365 DUF3166: Protein of u 49.1 99 0.0021 22.3 6.6 34 95-128 10-43 (96)
54 PRK10884 SH3 domain-containing 48.8 1.5E+02 0.0031 24.2 8.2 8 76-83 102-109 (206)
55 PF05325 DUF730: Protein of un 48.5 1E+02 0.0023 22.4 6.9 59 36-95 20-99 (122)
56 TIGR02209 ftsL_broad cell divi 48.5 56 0.0012 21.9 5.0 31 96-126 27-57 (85)
57 PF03670 UPF0184: Uncharacteri 48.5 94 0.002 21.9 6.6 52 67-126 19-73 (83)
58 cd01109 HTH_YyaN Helix-Turn-He 47.1 1E+02 0.0022 22.0 6.8 53 70-123 57-109 (113)
59 PRK13169 DNA replication intia 46.1 55 0.0012 24.1 4.8 30 95-124 17-46 (110)
60 PF02151 UVR: UvrB/uvrC motif; 45.0 60 0.0013 18.7 4.2 34 75-108 3-36 (36)
61 KOG4196 bZIP transcription fac 44.7 1.1E+02 0.0024 23.3 6.4 27 99-125 80-106 (135)
62 PF05812 Herpes_BLRF2: Herpesv 43.3 40 0.00086 25.3 3.7 24 102-125 5-28 (118)
63 PF07407 Seadorna_VP6: Seadorn 43.1 69 0.0015 28.4 5.7 36 65-112 23-58 (420)
64 PHA03155 hypothetical protein; 42.4 40 0.00086 25.1 3.6 24 102-125 10-33 (115)
65 COG1382 GimC Prefoldin, chaper 42.3 1.4E+02 0.0031 22.3 7.2 41 85-126 70-110 (119)
66 TIGR03752 conj_TIGR03752 integ 41.3 85 0.0018 28.9 6.2 9 70-78 41-49 (472)
67 PF07798 DUF1640: Protein of u 41.1 1.7E+02 0.0037 22.8 7.9 54 71-124 44-97 (177)
68 cd01107 HTH_BmrR Helix-Turn-He 41.0 1.3E+02 0.0028 21.4 6.3 48 70-123 58-105 (108)
69 COG0139 HisI Phosphoribosyl-AM 41.0 14 0.0003 27.4 1.0 33 20-52 53-94 (111)
70 smart00340 HALZ homeobox assoc 40.9 54 0.0012 20.2 3.4 25 103-127 8-32 (44)
71 PF14916 CCDC92: Coiled-coil d 40.9 56 0.0012 21.6 3.8 22 104-125 25-46 (60)
72 PF07558 Shugoshin_N: Shugoshi 40.8 32 0.00069 21.3 2.5 31 93-123 14-44 (46)
73 cd04769 HTH_MerR2 Helix-Turn-H 40.7 1.1E+02 0.0024 22.0 5.8 54 70-123 56-109 (116)
74 PF04999 FtsL: Cell division p 40.7 83 0.0018 21.8 5.0 31 95-125 37-67 (97)
75 PF09798 LCD1: DNA damage chec 40.7 1.5E+02 0.0033 28.4 8.1 52 74-125 4-58 (654)
76 PF06005 DUF904: Protein of un 40.2 95 0.0021 21.0 5.0 22 99-120 17-38 (72)
77 PHA03162 hypothetical protein; 40.2 44 0.00095 25.6 3.6 24 102-125 15-38 (135)
78 PF04849 HAP1_N: HAP1 N-termin 40.2 39 0.00085 29.3 3.7 25 101-125 161-185 (306)
79 smart00338 BRLZ basic region l 39.2 1E+02 0.0023 19.8 5.3 28 96-123 36-63 (65)
80 PRK00708 sec-independent trans 39.1 76 0.0016 26.1 5.1 14 43-57 15-28 (209)
81 PRK03100 sec-independent trans 38.8 66 0.0014 24.6 4.4 14 43-57 16-29 (136)
82 PF08614 ATG16: Autophagy prot 38.8 2E+02 0.0042 22.8 8.5 24 101-124 159-182 (194)
83 PRK01919 tatB sec-independent 38.6 1.3E+02 0.0029 23.9 6.2 15 43-58 15-29 (169)
84 PF05983 Med7: MED7 protein; 37.4 2E+02 0.0043 22.4 8.1 51 72-122 105-160 (162)
85 PRK09413 IS2 repressor TnpA; R 37.1 98 0.0021 22.5 5.1 27 98-124 76-102 (121)
86 TIGR00219 mreC rod shape-deter 36.6 84 0.0018 26.7 5.3 32 95-126 75-110 (283)
87 smart00787 Spc7 Spc7 kinetocho 35.9 2.2E+02 0.0047 24.7 7.7 30 66-95 196-225 (312)
88 PF14775 NYD-SP28_assoc: Sperm 35.7 1.3E+02 0.0027 19.6 6.4 47 74-125 12-58 (60)
89 PRK13922 rod shape-determining 35.5 92 0.002 25.9 5.3 31 95-125 78-111 (276)
90 PHA00451 protein kinase 35.2 3.1E+02 0.0067 24.0 9.1 55 39-95 193-254 (362)
91 TIGR02338 gimC_beta prefoldin, 33.7 1.8E+02 0.0039 20.8 5.9 44 81-125 63-106 (110)
92 TIGR01950 SoxR redox-sensitive 33.0 1.6E+02 0.0035 22.3 5.8 55 70-124 57-111 (142)
93 PF09278 MerR-DNA-bind: MerR, 33.0 1.3E+02 0.0028 18.9 5.6 49 70-119 14-62 (65)
94 PF08317 Spc7: Spc7 kinetochor 32.8 3E+02 0.0066 23.6 8.2 30 66-95 201-230 (325)
95 KOG0995 Centromere-associated 32.6 2.6E+02 0.0057 26.5 8.0 38 90-127 291-328 (581)
96 cd04776 HTH_GnyR Helix-Turn-He 32.3 2E+02 0.0043 20.9 7.0 55 70-124 55-111 (118)
97 KOG0804 Cytoplasmic Zn-finger 31.8 2.3E+02 0.005 26.2 7.3 31 91-121 380-410 (493)
98 cd01108 HTH_CueR Helix-Turn-He 31.4 2.1E+02 0.0045 20.9 6.7 92 32-124 3-110 (127)
99 PRK09514 zntR zinc-responsive 31.1 2E+02 0.0043 21.6 6.1 55 70-124 58-112 (140)
100 KOG0709 CREB/ATF family transc 31.1 40 0.00088 30.9 2.5 57 70-126 233-312 (472)
101 TIGR02047 CadR-PbrR Cd(II)/Pb( 30.6 2.2E+02 0.0048 20.9 6.5 54 70-124 57-110 (127)
102 PRK15002 redox-sensitivie tran 30.1 2.2E+02 0.0047 22.0 6.2 94 30-123 12-120 (154)
103 cd04787 HTH_HMRTR_unk Helix-Tu 30.0 2.3E+02 0.0049 20.9 7.6 55 70-125 57-111 (133)
104 PF09738 DUF2051: Double stran 29.5 2.6E+02 0.0056 24.2 7.1 47 76-123 86-135 (302)
105 cd00890 Prefoldin Prefoldin is 29.4 1.5E+02 0.0032 21.2 5.0 34 92-125 93-126 (129)
106 cd04770 HTH_HMRTR Helix-Turn-H 29.3 2.2E+02 0.0047 20.5 6.5 53 70-123 57-109 (123)
107 TIGR02043 ZntR Zn(II)-responsi 29.2 2.2E+02 0.0048 21.0 6.0 54 70-124 58-112 (131)
108 COG2433 Uncharacterized conser 28.9 3.3E+02 0.0073 26.1 8.1 30 96-125 477-506 (652)
109 PRK10803 tol-pal system protei 28.9 2.6E+02 0.0056 23.3 6.9 27 98-124 59-85 (263)
110 cd01110 HTH_SoxR Helix-Turn-He 28.8 2.5E+02 0.0054 21.0 6.3 55 70-124 57-111 (139)
111 PRK10227 DNA-binding transcrip 28.8 2.5E+02 0.0054 21.0 6.5 54 70-124 57-110 (135)
112 PRK02759 bifunctional phosphor 28.6 90 0.002 25.5 3.9 37 17-53 47-93 (203)
113 PF11629 Mst1_SARAH: C termina 28.4 1.6E+02 0.0035 18.6 4.5 17 68-84 5-21 (49)
114 PF13991 BssS: BssS protein fa 28.3 1.7E+02 0.0037 20.0 4.7 55 33-92 6-63 (73)
115 PRK09343 prefoldin subunit bet 28.0 2.5E+02 0.0053 20.7 6.3 43 84-127 70-112 (121)
116 cd01282 HTH_MerR-like_sg3 Heli 27.8 2.3E+02 0.005 20.2 6.3 52 70-122 56-110 (112)
117 cd01106 HTH_TipAL-Mta Helix-Tu 27.6 2.2E+02 0.0047 19.9 6.0 41 70-117 57-97 (103)
118 PF09151 DUF1936: Domain of un 27.5 61 0.0013 18.7 2.0 24 34-57 2-25 (36)
119 PF09941 DUF2173: Uncharacteri 27.5 46 0.001 24.5 1.9 27 31-58 2-28 (108)
120 PF07412 Geminin: Geminin; In 26.4 1.6E+02 0.0035 24.0 5.0 28 96-123 128-155 (200)
121 PHA02414 hypothetical protein 26.2 2.5E+02 0.0054 20.5 5.4 44 73-117 38-81 (111)
122 PF04859 DUF641: Plant protein 26.1 2.9E+02 0.0064 20.9 6.9 51 72-123 81-131 (131)
123 PF11932 DUF3450: Protein of u 26.0 3.7E+02 0.008 22.0 8.3 27 98-124 54-80 (251)
124 PF10211 Ax_dynein_light: Axon 25.8 3.4E+02 0.0074 21.5 8.4 11 111-121 174-184 (189)
125 PRK13923 putative spore coat p 25.6 2.2E+02 0.0048 22.6 5.5 9 68-76 100-108 (170)
126 KOG4196 bZIP transcription fac 25.4 2.9E+02 0.0063 21.1 5.9 33 95-127 83-115 (135)
127 PF10662 PduV-EutP: Ethanolami 25.4 1.3E+02 0.0029 23.0 4.2 26 35-60 58-83 (143)
128 PRK04098 sec-independent trans 25.2 2.4E+02 0.0052 22.1 5.6 16 42-58 14-29 (158)
129 PF09789 DUF2353: Uncharacteri 24.5 3E+02 0.0066 24.1 6.6 42 85-127 72-113 (319)
130 PF10498 IFT57: Intra-flagella 24.1 4.4E+02 0.0095 23.3 7.7 45 74-119 241-285 (359)
131 PF15188 CCDC-167: Coiled-coil 23.8 2.3E+02 0.005 19.9 4.8 23 96-118 46-68 (85)
132 PF12548 DUF3740: Sulfatase pr 23.7 1.4E+02 0.003 23.1 4.0 39 83-122 97-135 (145)
133 PF08781 DP: Transcription fac 23.7 3.5E+02 0.0075 20.9 7.3 46 75-122 2-47 (142)
134 PF00170 bZIP_1: bZIP transcri 23.6 2.1E+02 0.0045 18.3 5.6 19 101-119 34-52 (64)
135 KOG4001 Axonemal dynein light 23.3 4.4E+02 0.0095 21.9 7.8 23 103-125 231-253 (259)
136 cd04785 HTH_CadR-PbrR-like Hel 23.1 3E+02 0.0066 20.0 6.5 54 70-124 57-110 (126)
137 cd04790 HTH_Cfa-like_unk Helix 23.1 3E+02 0.0065 21.4 5.9 87 31-124 3-105 (172)
138 PLN03230 acetyl-coenzyme A car 23.0 4.1E+02 0.0089 24.3 7.4 43 71-114 76-119 (431)
139 PF12808 Mto2_bdg: Micro-tubul 22.2 2.2E+02 0.0048 18.1 5.6 22 104-125 26-47 (52)
140 COG5000 NtrY Signal transducti 22.1 85 0.0018 30.2 2.9 58 36-93 374-432 (712)
141 COG4888 Uncharacterized Zn rib 22.0 63 0.0014 23.6 1.7 55 1-58 1-59 (104)
142 PF06305 DUF1049: Protein of u 21.4 1.1E+02 0.0024 19.6 2.7 19 101-119 49-67 (68)
143 KOG3119 Basic region leucine z 21.4 2.9E+02 0.0062 23.3 5.8 25 103-127 218-242 (269)
144 PF12537 DUF3735: Protein of u 21.3 1.8E+02 0.0038 19.4 3.7 25 73-97 47-71 (72)
145 PRK14127 cell division protein 21.3 2.3E+02 0.0051 20.8 4.6 49 68-124 20-68 (109)
146 PF07676 PD40: WD40-like Beta 21.1 1.1E+02 0.0023 17.2 2.3 22 40-61 8-29 (39)
147 cd04783 HTH_MerR1 Helix-Turn-H 21.0 3.3E+02 0.0072 19.7 6.0 52 70-124 57-108 (126)
148 PF11853 DUF3373: Protein of u 21.0 77 0.0017 29.3 2.4 25 101-125 32-56 (489)
149 PRK00051 hisI phosphoribosyl-A 20.8 45 0.00098 25.2 0.8 37 17-53 45-91 (125)
150 PF08946 Osmo_CC: Osmosensory 20.8 2.3E+02 0.0049 17.7 4.1 24 94-117 20-43 (46)
151 PF01763 Herpes_UL6: Herpesvir 20.6 2.5E+02 0.0055 26.5 5.7 33 95-127 365-397 (557)
152 PF07716 bZIP_2: Basic region 20.4 2.3E+02 0.0049 17.6 5.5 31 91-121 23-53 (54)
153 KOG4378 Nuclear protein COP1 [ 20.4 2.3E+02 0.005 26.7 5.3 23 4-26 521-543 (673)
154 PRK10963 hypothetical protein; 20.2 3E+02 0.0065 22.3 5.6 35 91-125 42-79 (223)
155 COG4026 Uncharacterized protei 20.2 5.3E+02 0.012 21.8 8.1 25 101-125 164-188 (290)
156 PF04568 IATP: Mitochondrial A 20.2 2.3E+02 0.005 20.5 4.3 24 100-123 72-99 (100)
157 TIGR01410 tatB twin arginine-t 20.1 2.7E+02 0.0058 19.1 4.5 14 43-57 14-27 (80)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=99.96 E-value=3e-31 Score=211.13 Aligned_cols=60 Identities=77% Similarity=1.102 Sum_probs=59.5
Q ss_pred CCcccceeEEecCCCCccchhhhhhcchhhhhhhhhcccCCceEEEEecCCCCccccccc
Q 030748 1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60 (172)
Q Consensus 1 mgr~ki~ik~I~~~~~R~~tf~KR~~Gl~KKa~Els~Lc~~~v~~i~~s~~g~~~~f~sp 60 (172)
|||+||+|++|+|+.+|+|||+|||.||||||+||||||||+||+|||||+|++|+||++
T Consensus 1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~ 60 (195)
T KOG0014|consen 1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSS 60 (195)
T ss_pred CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCc
Confidence 999999999999999999999999999999999999999999999999999999999997
No 2
>smart00432 MADS MADS domain.
Probab=99.95 E-value=1.9e-28 Score=162.28 Aligned_cols=59 Identities=75% Similarity=1.058 Sum_probs=58.2
Q ss_pred CcccceeEEecCCCCccchhhhhhcchhhhhhhhhcccCCceEEEEecCCCCccccccc
Q 030748 2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60 (172)
Q Consensus 2 gr~ki~ik~I~~~~~R~~tf~KR~~Gl~KKa~Els~Lc~~~v~~i~~s~~g~~~~f~sp 60 (172)
||+||+|++|+|+.+|++||+||+.||+|||+|||+||||+||+|||||+|++|.||+|
T Consensus 1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~p 59 (59)
T smart00432 1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59 (59)
T ss_pred CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccCC
Confidence 89999999999999999999999999999999999999999999999999999999986
No 3
>cd00120 MADS MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators. Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.94 E-value=1.3e-27 Score=158.34 Aligned_cols=59 Identities=80% Similarity=1.078 Sum_probs=57.9
Q ss_pred CcccceeEEecCCCCccchhhhhhcchhhhhhhhhcccCCceEEEEecCCCCccccccc
Q 030748 2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60 (172)
Q Consensus 2 gr~ki~ik~I~~~~~R~~tf~KR~~Gl~KKa~Els~Lc~~~v~~i~~s~~g~~~~f~sp 60 (172)
||+||+|++|+|+..|++||+||+.||+|||+|||+||||+||+|||||+|+++.||+|
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~~ 59 (59)
T cd00120 1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 59 (59)
T ss_pred CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccCC
Confidence 79999999999999999999999999999999999999999999999999999999985
No 4
>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.93 E-value=2.6e-27 Score=164.79 Aligned_cols=59 Identities=76% Similarity=1.077 Sum_probs=57.9
Q ss_pred CcccceeEEecCCCCccchhhhhhcchhhhhhhhhcccCCceEEEEecCCCCccccccc
Q 030748 2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60 (172)
Q Consensus 2 gr~ki~ik~I~~~~~R~~tf~KR~~Gl~KKa~Els~Lc~~~v~~i~~s~~g~~~~f~sp 60 (172)
||+||+|++|||+.+|++||+||+.||||||.|||+||||+||+|||||+|++|.|++|
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~ 59 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSP 59 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCC
Confidence 89999999999999999999999999999999999999999999999999999999875
No 5
>cd00266 MADS_SRF_like SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.92 E-value=2.1e-26 Score=162.31 Aligned_cols=59 Identities=63% Similarity=0.877 Sum_probs=57.7
Q ss_pred CcccceeEEecCCCCccchhhhhhcchhhhhhhhhcccCCceEEEEecCCCCccccccc
Q 030748 2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60 (172)
Q Consensus 2 gr~ki~ik~I~~~~~R~~tf~KR~~Gl~KKa~Els~Lc~~~v~~i~~s~~g~~~~f~sp 60 (172)
||+||+|++|+|+.+|++||+||+.||||||+||||||||+||+|||||+|+.|.||++
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~ 59 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPS 59 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCc
Confidence 89999999999999999999999999999999999999999999999999999999874
No 6
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=99.90 E-value=2.7e-25 Score=143.04 Aligned_cols=51 Identities=63% Similarity=0.991 Sum_probs=46.8
Q ss_pred EEecCCCCccchhhhhhcchhhhhhhhhcccCCceEEEEecCCCCcccccc
Q 030748 9 RRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFAS 59 (172)
Q Consensus 9 k~I~~~~~R~~tf~KR~~Gl~KKa~Els~Lc~~~v~~i~~s~~g~~~~f~s 59 (172)
|+|+|+..|++||+||+.||+|||.|||+||||+||+|||||+|++|.|+|
T Consensus 1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~LC~~~v~~iv~~~~g~~~~f~s 51 (51)
T PF00319_consen 1 KRIENKSRRKVTFSKRKKGLFKKASELSTLCGVDVALIVFSPDGKLYTFPS 51 (51)
T ss_dssp S--SSHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEEETTSEEEEEES
T ss_pred CCccchhHhHhHHHHHHhhhhhccceeeeecCCeEEEEEECCCCCEEEecC
Confidence 589999999999999999999999999999999999999999999999975
No 7
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.79 E-value=2.2e-20 Score=156.80 Aligned_cols=59 Identities=44% Similarity=0.639 Sum_probs=58.3
Q ss_pred CcccceeEEecCCCCccchhhhhhcchhhhhhhhhcccCCceEEEEecCCCCccccccc
Q 030748 2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60 (172)
Q Consensus 2 gr~ki~ik~I~~~~~R~~tf~KR~~Gl~KKa~Els~Lc~~~v~~i~~s~~g~~~~f~sp 60 (172)
||.||+|.||||+.+|.+||+|||.||||||+|||||+|.+|-|+|.|.+|.+|.|+.|
T Consensus 63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTp 121 (338)
T KOG0015|consen 63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATP 121 (338)
T ss_pred ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEeccc
Confidence 79999999999999999999999999999999999999999999999999999999998
No 8
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=99.53 E-value=4.2e-14 Score=102.51 Aligned_cols=64 Identities=48% Similarity=0.728 Sum_probs=62.8
Q ss_pred ccccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 61 RKLLGEGLASCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 61 R~l~GedL~~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
|++.|+||+++|++||..||++|+.+|.+||.+|++++.++|+.|++|+..|.++|..|+.++.
T Consensus 36 R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke~~l~~en~~L~~~~~ 99 (100)
T PF01486_consen 36 RHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKERELEEENNQLRQKIE 99 (100)
T ss_pred hccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 8999999999999999999999999999999999999999999999999999999999999875
No 9
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.41 E-value=1.2e-13 Score=120.61 Aligned_cols=60 Identities=43% Similarity=0.639 Sum_probs=59.2
Q ss_pred CCcccceeEEecCCCCccchhhhhhcchhhhhhhhhcccCCceEEEEecCCCCccccccc
Q 030748 1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60 (172)
Q Consensus 1 mgr~ki~ik~I~~~~~R~~tf~KR~~Gl~KKa~Els~Lc~~~v~~i~~s~~g~~~~f~sp 60 (172)
|||+||.|.+|+|+.+|.|||+||+.||+|||.||+||+|.+|.++|.|.+|.++.|+.|
T Consensus 81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp 140 (412)
T COG5068 81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTP 140 (412)
T ss_pred cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCC
Confidence 789999999999999999999999999999999999999999999999999999999998
No 10
>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=94.40 E-value=0.42 Score=32.68 Aligned_cols=48 Identities=33% Similarity=0.495 Sum_probs=32.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 71 CTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 71 ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
+|++.+..||..+..++..|.. ++.+++.|+.+...|.++|..|....
T Consensus 1 M~~E~l~~LE~ki~~aveti~~-----Lq~e~eeLke~n~~L~~e~~~L~~en 48 (72)
T PF06005_consen 1 MSLELLEQLEEKIQQAVETIAL-----LQMENEELKEKNNELKEENEELKEEN 48 (72)
T ss_dssp --HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 4788899999999999998865 44556666666555555555554443
No 11
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=89.31 E-value=2.9 Score=29.16 Aligned_cols=43 Identities=26% Similarity=0.488 Sum_probs=32.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 71 CTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTR 118 (172)
Q Consensus 71 ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~ 118 (172)
+|++=|..||..+..++..| .+++-+|+.|+.+...|.+++..
T Consensus 1 MS~EvleqLE~KIqqAvdtI-----~LLqmEieELKekn~~L~~e~~~ 43 (79)
T PRK15422 1 MSLEVFEKLEAKVQQAIDTI-----TLLQMEIEELKEKNNSLSQEVQN 43 (79)
T ss_pred CcHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 47788999999999999887 46666777777776666665433
No 12
>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=89.31 E-value=0.96 Score=29.76 Aligned_cols=29 Identities=41% Similarity=0.629 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 96 QVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 96 ~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
+.++++|.+|..+...|+.||..|+..+.
T Consensus 17 evLK~~I~eL~~~n~~Le~EN~~Lk~~~~ 45 (59)
T PF01166_consen 17 EVLKEQIAELEERNSQLEEENNLLKQNAS 45 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 67889999999999999999999986554
No 13
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=88.08 E-value=2.6 Score=31.20 Aligned_cols=46 Identities=28% Similarity=0.505 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 76 LQQIERQLEKSVSNIRARKN-------QVFNEQIAQLKEKGKVLEAENTRLEE 121 (172)
Q Consensus 76 L~~LE~~Le~~l~~IR~rK~-------~ll~~qi~~lkkk~~~L~eeN~~L~~ 121 (172)
+..+...++.++.-|+..-| +.++++|..|.++...|++||..|+.
T Consensus 43 VvaIDNKIeQAMDLVKtHLmfAVREEVe~Lk~qI~eL~er~~~Le~EN~lLk~ 95 (123)
T KOG4797|consen 43 VVAIDNKIEQAMDLVKTHLMFAVREEVEVLKEQIRELEERNSALERENSLLKT 95 (123)
T ss_pred eEeechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34466777777777777665 45555666666666666666666653
No 14
>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=86.06 E-value=6 Score=29.01 Aligned_cols=50 Identities=28% Similarity=0.414 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 030748 73 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGMEN 127 (172)
Q Consensus 73 ~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~~ 127 (172)
++.+..+|++|...+..|..-| .++..+-++...|+-||..|+.++....
T Consensus 7 ~~~l~~le~~l~~l~~~~~~LK-----~~~~~l~EEN~~L~~EN~~Lr~~l~~~~ 56 (107)
T PF06156_consen 7 FDRLDQLEQQLGQLLEELEELK-----KQLQELLEENARLRIENEHLRERLEELE 56 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4667788888888777776544 5555777788888889999998887643
No 15
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=85.94 E-value=6.2 Score=29.16 Aligned_cols=49 Identities=29% Similarity=0.420 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 73 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 73 ~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
++.+.++|+++...+..+..-| .++..+-++...|+-||..|+.++...
T Consensus 7 fd~l~~le~~l~~l~~el~~LK-----~~~~el~EEN~~L~iEN~~Lr~~l~~~ 55 (110)
T PRK13169 7 FDALDDLEQNLGVLLKELGALK-----KQLAELLEENTALRLENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5668888998888877776544 555677788888999999999999864
No 16
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=84.86 E-value=8.7 Score=26.31 Aligned_cols=41 Identities=27% Similarity=0.509 Sum_probs=27.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 71 CTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAEN 116 (172)
Q Consensus 71 ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN 116 (172)
+|++-+..||..+..++..| .++.-+|+.|++|...|..|-
T Consensus 1 MSlEv~ekLE~KiqqAvdTI-----~LLQmEieELKEknn~l~~e~ 41 (79)
T COG3074 1 MSLEVFEKLEAKVQQAIDTI-----TLLQMEIEELKEKNNSLSQEV 41 (79)
T ss_pred CchHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhhHhHHHH
Confidence 46777888888888888776 355556666666555444433
No 17
>cd07429 Cby_like Chibby, a nuclear inhibitor of Wnt/beta-catenin mediated transcription, and similar proteins. Chibby(Cby) is a well-conserved nuclear protein that functions as part of the Wnt/beta-catenin signaling pathway. Specifically, Cby binds directly to beta-catenin by interacting with its central region, which harbors armadillo repeats. Cby-beta-catenin interactions may also involve 14-3-3 proteins. By competing with other binding partners of beta-catenin, the Tcf/Lef transcription factors, Cby inhibits transcriptional activation. Cby has been shown to play a role in adipocyte differentiation. The C-terminal region of Cby appears to contain an alpha-helical coiled-coil motif.
Probab=84.21 E-value=1.7 Score=32.02 Aligned_cols=22 Identities=41% Similarity=0.487 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhc
Q 030748 104 QLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 104 ~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
.++++.+.|+|||..|+.|++.
T Consensus 76 rlkkk~~~LeEENNlLklKiev 97 (108)
T cd07429 76 RLKKKNQQLEEENNLLKLKIEV 97 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5667888899999999988874
No 18
>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=82.38 E-value=2.6 Score=27.78 Aligned_cols=31 Identities=29% Similarity=0.437 Sum_probs=23.5
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 030748 62 KLLGEGLASCTLEELQQIERQLEKSVSNIRA 92 (172)
Q Consensus 62 ~l~GedL~~ls~~EL~~LE~~Le~~l~~IR~ 92 (172)
+.+|+||+.+|++||..--..|+.-+.+++.
T Consensus 12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~ 42 (59)
T PF06698_consen 12 HEIGEDLSLLSVEELEERIALLEAEIARLEA 42 (59)
T ss_pred cccCCCchhcCHHHHHHHHHHHHHHHHHHHH
Confidence 6789999999999998866666655554443
No 19
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=76.76 E-value=20 Score=24.07 Aligned_cols=52 Identities=23% Similarity=0.285 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 75 ELQQIERQLEKSVSNIRARK--NQVFNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 75 EL~~LE~~Le~~l~~IR~rK--~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
||..||.+++.-+.....=+ +..+.++...++..-..|.+.|..-+.+++.+
T Consensus 1 ~L~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEam 54 (65)
T TIGR02449 1 ELQALAAQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEAM 54 (65)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888887776555433 57777777777777777777777777777764
No 20
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=75.98 E-value=59 Score=29.95 Aligned_cols=46 Identities=26% Similarity=0.325 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 030748 81 RQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGMEN 127 (172)
Q Consensus 81 ~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~~ 127 (172)
..||..|..+| ...+++..+.+.++.+++.++.||..|+.+++...
T Consensus 79 sELEKqLaaLr-qElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~ 124 (475)
T PRK13729 79 AQMQKQYEEIR-RELDVLNKQRGDDQRRIEKLGQDNAALAEQVKALG 124 (475)
T ss_pred HHHHHHHHHHH-HHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence 34555555553 23356667777889999999999999999996533
No 21
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=75.69 E-value=19 Score=30.38 Aligned_cols=59 Identities=27% Similarity=0.353 Sum_probs=33.7
Q ss_pred cCCCCCCCCHHHHHHHHHHHH--HHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 64 LGEGLASCTLEELQQIERQLE--KSVSNIRARKN---QVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 64 ~GedL~~ls~~EL~~LE~~Le--~~l~~IR~rK~---~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
..+.|+.||.+|-.. -..|. .+-..-|.||. .-|..+|..|.++.+.|+-||..|+.+-
T Consensus 57 Kr~RL~HLS~EEK~~-RrKLKNRVAAQtaRDrKKaRm~eme~~i~dL~een~~L~~en~~Lr~~n 120 (292)
T KOG4005|consen 57 KRRRLDHLSWEEKVQ-RRKLKNRVAAQTARDRKKARMEEMEYEIKDLTEENEILQNENDSLRAIN 120 (292)
T ss_pred HHHhhcccCHHHHHH-HHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345678899987443 22332 22344555553 4455666666666666666666666443
No 22
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=75.55 E-value=5.7 Score=29.42 Aligned_cols=32 Identities=31% Similarity=0.495 Sum_probs=25.2
Q ss_pred HHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 94 KNQVF---NEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 94 K~~ll---~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
|.++| +++++.|+.+++.|.+.|..|...-..
T Consensus 58 KtHLmfAVREEVe~Lk~qI~eL~er~~~Le~EN~l 92 (123)
T KOG4797|consen 58 KTHLMFAVREEVEVLKEQIRELEERNSALERENSL 92 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55777 478888999999999999988776543
No 23
>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=75.51 E-value=23 Score=27.90 Aligned_cols=57 Identities=21% Similarity=0.331 Sum_probs=36.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 69 ASCTLEELQQIERQLEKSVSNIRA--RKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 69 ~~ls~~EL~~LE~~Le~~l~~IR~--rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
.++++++....-++|......... .-++-+..++..|+++...|+.||..|..+...
T Consensus 78 ~~ltl~~vI~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~ 136 (161)
T TIGR02894 78 GSLTLQDVISFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRLST 136 (161)
T ss_pred ccCCHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 568999988877777754332222 223555666777777777777777777665543
No 24
>PF10504 DUF2452: Protein of unknown function (DUF2452); InterPro: IPR019534 This entry contains proteins that have no known function.
Probab=74.14 E-value=41 Score=26.48 Aligned_cols=45 Identities=31% Similarity=0.395 Sum_probs=36.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Q 030748 72 TLEELQQIERQLEKSVSNIRAR---KNQVFNEQIAQLKEKGKVLEAEN 116 (172)
Q Consensus 72 s~~EL~~LE~~Le~~l~~IR~r---K~~ll~~qi~~lkkk~~~L~eeN 116 (172)
+..||..|-++++.+-..+|.. |...|.+||..|+++-+.+.++-
T Consensus 28 ~~~dlv~la~~iq~Ad~~~~~~t~~kL~~I~eQi~~Lq~QA~~ile~~ 75 (159)
T PF10504_consen 28 DPFDLVDLAQQIQKADSAMRANTCNKLEVIAEQIRFLQEQARKILEEA 75 (159)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788999999998888888876 55788899999998877777644
No 25
>smart00338 BRLZ basic region leucin zipper.
Probab=73.89 E-value=16 Score=23.77 Aligned_cols=37 Identities=35% Similarity=0.442 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 85 KSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 85 ~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
.+-...|.||... +..|..++..|..+|..|..++..
T Consensus 15 ~aA~~~R~rKk~~----~~~Le~~~~~L~~en~~L~~~~~~ 51 (65)
T smart00338 15 EAARRSRERKKAE----IEELERKVEQLEAENERLKKEIER 51 (65)
T ss_pred HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666543 347777777777777777776654
No 26
>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain. Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.
Probab=72.73 E-value=26 Score=28.41 Aligned_cols=30 Identities=30% Similarity=0.407 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 95 NQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 95 ~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
-+.-..+|..|+.-.++|+++|.+|+.-+.
T Consensus 50 lQ~hl~EIR~LKe~NqkLqedNqELRdLCC 79 (195)
T PF10226_consen 50 LQQHLNEIRGLKEVNQKLQEDNQELRDLCC 79 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 344456788889999999999999986554
No 27
>PHA01750 hypothetical protein
Probab=71.15 E-value=29 Score=23.48 Aligned_cols=47 Identities=21% Similarity=0.304 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 78 QIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 78 ~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
.+.+.|.++.+.|-...-.-+..+|+.++.+...+++.-.++++++.
T Consensus 27 KIKq~lkdAvkeIV~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~d 73 (75)
T PHA01750 27 KIKQALKDAVKEIVNSELDNLKTEIEELKIKQDELSRQVEEIKRKLD 73 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhc
Confidence 45667778888787777777888888888888888888888887764
No 28
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=70.37 E-value=23 Score=22.92 Aligned_cols=35 Identities=34% Similarity=0.446 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 86 SVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 86 ~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
|-...|.||...+ +.|+.++..|..+|..|...+.
T Consensus 16 AAr~~R~RKk~~~----~~Le~~~~~L~~en~~L~~~~~ 50 (64)
T PF00170_consen 16 AARRSRQRKKQYI----EELEEKVEELESENEELKKELE 50 (64)
T ss_dssp HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhH----HHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666665443 3566666666666666655544
No 29
>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=69.99 E-value=24 Score=22.13 Aligned_cols=36 Identities=28% Similarity=0.394 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 86 SVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 86 ~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
+-..-|.||-. .+..|..++..|..+|..|..++..
T Consensus 15 AA~r~R~rkk~----~~~~le~~~~~L~~en~~L~~~i~~ 50 (54)
T PF07716_consen 15 AARRSRQRKKQ----REEELEQEVQELEEENEQLRQEIAQ 50 (54)
T ss_dssp HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555543 3447777888888888888777654
No 30
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=69.72 E-value=24 Score=29.17 Aligned_cols=55 Identities=20% Similarity=0.288 Sum_probs=38.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 71 CTLEELQQIERQLEKSVSNIRARK--NQVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 71 ls~~EL~~LE~~Le~~l~~IR~rK--~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
...+|+..|+..++..-....... ...+..|.+.++.+...|.|||..|+.+++.
T Consensus 155 ~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i~~ 211 (216)
T KOG1962|consen 155 KLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQIES 211 (216)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhc
Confidence 345667777777765544443333 3556678888888888888888888888875
No 31
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=69.26 E-value=45 Score=24.87 Aligned_cols=30 Identities=13% Similarity=0.315 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 96 QVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 96 ~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
..+..+|..++.+...|...|..|..+++.
T Consensus 101 ~~le~e~~~~~~r~~dL~~QN~lLh~QlE~ 130 (132)
T PF07926_consen 101 EQLEKELSELEQRIEDLNEQNKLLHDQLES 130 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 567789999999999999999999998875
No 32
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=69.04 E-value=23 Score=21.91 Aligned_cols=34 Identities=21% Similarity=0.252 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 93 RKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 93 rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
+-...++...+.|+.....|..||..|+..+...
T Consensus 5 ~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L 38 (45)
T PF02183_consen 5 RDYDALKASYDSLKAEYDSLKKENEKLRAEVQEL 38 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788888899999999999999998887653
No 33
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=67.46 E-value=42 Score=24.85 Aligned_cols=48 Identities=25% Similarity=0.466 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 73 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 73 ~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
++.+.++|++|-..+..+-.-| +++..|-+....|+=||..|+.++..
T Consensus 7 Fd~v~~le~~l~~l~~el~~lK-----~~l~~lvEEN~~L~lENe~LR~RL~~ 54 (114)
T COG4467 7 FDQVDNLEEQLGVLLAELGGLK-----QHLGSLVEENTALRLENEKLRERLGE 54 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHhhHHHHhhHHHHHHHhCC
Confidence 5667888888887777665544 45556666777788888888888876
No 34
>PRK10884 SH3 domain-containing protein; Provisional
Probab=65.86 E-value=44 Score=27.22 Aligned_cols=9 Identities=22% Similarity=0.553 Sum_probs=3.6
Q ss_pred HHHHHHHHH
Q 030748 76 LQQIERQLE 84 (172)
Q Consensus 76 L~~LE~~Le 84 (172)
|-.+|.++.
T Consensus 95 lp~le~el~ 103 (206)
T PRK10884 95 VPDLENQVK 103 (206)
T ss_pred HHHHHHHHH
Confidence 334444443
No 35
>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=64.16 E-value=16 Score=24.14 Aligned_cols=29 Identities=31% Similarity=0.416 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 98 FNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 98 l~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
+..++..++++...+.++|..|..++...
T Consensus 22 ~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 22 LNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44567777777777788887777777654
No 36
>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=63.19 E-value=49 Score=26.05 Aligned_cols=53 Identities=25% Similarity=0.290 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 74 EELQQIERQLEKSVSNIR----------ARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 74 ~EL~~LE~~Le~~l~~IR----------~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
.++..+++.++.+-+... ..+..-..++|++++++....+.+...|+++.+..
T Consensus 125 ~~l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l 187 (192)
T PF05529_consen 125 KELIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGL 187 (192)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666655554432 22345667889999999999888999998888753
No 37
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=61.80 E-value=52 Score=26.96 Aligned_cols=23 Identities=22% Similarity=0.314 Sum_probs=17.0
Q ss_pred ccCCceEEEEecCCCCc-cccccc
Q 030748 38 LCDAEVAVIIFSPRGKL-SEFASS 60 (172)
Q Consensus 38 Lc~~~v~~i~~s~~g~~-~~f~sp 60 (172)
--||++|++|||.++.. |++...
T Consensus 90 yrgaqa~vLVFSTTDr~SFea~~~ 113 (246)
T KOG4252|consen 90 YRGAQASVLVFSTTDRYSFEATLE 113 (246)
T ss_pred hccccceEEEEecccHHHHHHHHH
Confidence 46899999999988764 444443
No 38
>PF14645 Chibby: Chibby family
Probab=60.54 E-value=15 Score=27.29 Aligned_cols=23 Identities=30% Similarity=0.445 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q 030748 103 AQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 103 ~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
..++++.+.|+|||..|+.+++.
T Consensus 74 ~~l~~~n~~L~EENN~Lklk~el 96 (116)
T PF14645_consen 74 QRLRKENQQLEEENNLLKLKIEL 96 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 35566777788888888777763
No 39
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=59.66 E-value=29 Score=25.19 Aligned_cols=28 Identities=25% Similarity=0.302 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 98 FNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 98 l~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
+.+++..++++...++++|..|+.++..
T Consensus 32 l~~q~~~~~~e~~~l~~~n~~L~~eI~~ 59 (105)
T PRK00888 32 VNDQVAAQQQTNAKLKARNDQLFAEIDD 59 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455556666666666666666666654
No 40
>PF08432 Vfa1: AAA-ATPase Vps4-associated protein 1; InterPro: IPR013640 This is a family of fungal proteins of unknown function.
Probab=58.90 E-value=35 Score=27.07 Aligned_cols=35 Identities=20% Similarity=0.254 Sum_probs=23.1
Q ss_pred cCCceEEEEecC--------CCCcccccccccccCCCCCCCCH
Q 030748 39 CDAEVAVIIFSP--------RGKLSEFASSRKLLGEGLASCTL 73 (172)
Q Consensus 39 c~~~v~~i~~s~--------~g~~~~f~spR~l~GedL~~ls~ 73 (172)
.++..|+|||-| +++-|.|..|-||....+-+.-+
T Consensus 11 ~~~k~C~IC~KpsttVL~t~~~~DfFY~C~~HL~D~~F~~p~~ 53 (182)
T PF08432_consen 11 TDAKACFICYKPSTTVLITPDNKDFFYVCPSHLKDRQFATPIY 53 (182)
T ss_pred CCCCceeEecCCCceEEecCCCCCeEEeCcccccCcccCCCCC
Confidence 566667766655 56677788888887666544433
No 41
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=58.61 E-value=21 Score=28.22 Aligned_cols=46 Identities=17% Similarity=0.325 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 76 LQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 76 L~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
|..+|..|..++.+----..++ ++.+.|+.+++.|++|-+.|+..+
T Consensus 2 LeD~EsklN~AIERnalLE~EL--dEKE~L~~~~QRLkDE~RDLKqEl 47 (166)
T PF04880_consen 2 LEDFESKLNQAIERNALLESEL--DEKENLREEVQRLKDELRDLKQEL 47 (166)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHCH--------------
T ss_pred HHHHHHHHHHHHHHhHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666666554322222222 344456666677777777777666
No 42
>PF01093 Clusterin: Clusterin; InterPro: IPR000753 Clusterin is a vertebrate glycoprotein [], the exact function of which is not yet clear. Clusterin expression is complex, appearing as different forms in different cell compartments. One set of proteins is directed for secretion, and other clusterin species are expressed in the cytoplasm and nucleus. The secretory form of the clusterin protein (sCLU) is targeted to the ER by an initial leader peptide. This ~60kDa pre-sCLU protein is further glycosylated and proteolytically cleaved into alpha- and beta-subunits, held together by disulphide bonds. External sCLU is an 80kDa protein and may act as a molecular chaperone, scavenging denatured proteins outside cells following specific stress-induced injury such as heat shock. sCLU possesses nonspecific binding activity to hydrophobic domains of various proteins in vitro []. A specific nuclear form of CLU (nCLU) acts as a pro-death signal, inhibiting cell growth and survival. The nCLU protein has two coiled-coil domains, one at its N terminus that is unable to bind Ku70, and a C-terminal coiled-coil domain that is uniquely able to associate with Ku70 and is minimally required for cell death. Clusterin is synthesized as a precursor polypeptide of about 400 amino acids which is post-translationally cleaved to form two subunits of about 200 amino acids each. The two subunits are linked by five disulphide bonds to form an antiparallel ladder-like structure []. In each of the mature subunits the five cysteines that are involved in disulphide bonds are clustered in domains of about 30 amino acids located in the central part of the subunits. This entry represents the clusterin precursor and related proteins.; GO: 0008219 cell death
Probab=57.11 E-value=24 Score=32.12 Aligned_cols=60 Identities=12% Similarity=0.198 Sum_probs=34.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 67 GLASCTLEELQQIERQLEKSVSNIRARKN---------QVFNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 67 dL~~ls~~EL~~LE~~Le~~l~~IR~rK~---------~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
+|..+|...-.-+...+++||..|+..|. +-|..-+++.+++-+...+.-+....++++.
T Consensus 2 ~Lk~lS~~GekyvdeEik~Al~GvKqMK~~Mek~eeeh~~Lm~tL~k~kk~KeeAl~l~~e~e~kLee~ 70 (436)
T PF01093_consen 2 NLKELSEQGEKYVDEEIKNALNGVKQMKTMMEKTEEEHKELMKTLEKSKKEKEEALKLANEVEEKLEEE 70 (436)
T ss_pred chHHHhHhCchhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556666666778888888888887774 2233344444444333333344555555543
No 43
>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=56.24 E-value=30 Score=25.30 Aligned_cols=32 Identities=25% Similarity=0.195 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 95 NQVFNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 95 ~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
..-+.+++..|+..+..|.+||..|+-.....
T Consensus 17 l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~L 48 (107)
T PF06156_consen 17 LGQLLEELEELKKQLQELLEENARLRIENEHL 48 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566799999999999999999998665543
No 44
>PRK00182 tatB sec-independent translocase; Provisional
Probab=55.96 E-value=20 Score=28.26 Aligned_cols=54 Identities=15% Similarity=0.364 Sum_probs=30.1
Q ss_pred eEEEEecCCCCcccccccccccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 43 VAVIIFSPRGKLSEFASSRKLLGEGLASCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVL 112 (172)
Q Consensus 43 v~~i~~s~~g~~~~f~spR~l~GedL~~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L 112 (172)
|+||||+| ++++++. ..+...-..+..++...+..-.+=+..+++.+++....+
T Consensus 16 IaLlVfGP-erLP~~~---------------r~lg~~ir~~R~~~~~~k~el~~Elg~e~~elrk~l~~l 69 (160)
T PRK00182 16 VGLIVIGP-ERLPRLI---------------EDVRAALLAARTAINNAKQQLDGDFGEEFDEFRKPLNQI 69 (160)
T ss_pred HHHHhcCc-hHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 57788887 6666662 344445555555555554444444444556666655544
No 45
>KOG0930 consensus Guanine nucleotide exchange factor Cytohesin, contains PH and Sec7 domains [Intracellular trafficking, secretion, and vesicular transport]
Probab=55.04 E-value=44 Score=29.07 Aligned_cols=43 Identities=33% Similarity=0.451 Sum_probs=32.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 69 ASCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLE 120 (172)
Q Consensus 69 ~~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~ 120 (172)
++||..|-..|+ +||.||.+++ ++|+.|+.++....+|-..|.
T Consensus 9 ~~Ls~~E~~eL~--------~ir~rk~qL~-deIq~Lk~Ei~ev~~eid~~~ 51 (395)
T KOG0930|consen 9 NDLSEEERMELE--------NIRRRKQELL-DEIQRLKDEIAEVMEEIDNLE 51 (395)
T ss_pred CCCCHHHHHhHH--------HHHHHHHHHH-HHHHHHHHHHHHHHHHhhhhc
Confidence 467777766654 6899998887 588999988888887776654
No 46
>PF10482 CtIP_N: Tumour-suppressor protein CtIP N-terminal domain; InterPro: IPR019518 CtIP is predominantly a nuclear protein that complexes with both BRCA1 and the BRCA1-associated RING domain protein (BARD1). At the protein level, CtIP expression varies with cell cycle progression in a pattern identical to that of BRCA1. Thus, the steady-state levels of CtIP polypeptides, which remain low in resting cells and G1 cycling cells, increase dramatically as Dividing cells traverse the G1/S boundary. CtIP can potentially modulate the functions ascribed to BRCA1 in transcriptional regulation, DNA repair, and/or cell cycle checkpoint control []. This N-terminal domain carries a coiled-coil region and is essential for homodimerisation of the protein []. The C-terminal domain is family CtIP_C and carries functionally important CxxC and RHR motifs, absence of which lead cells to grow slowly and show hypersensitivity to genotoxins [].
Probab=54.90 E-value=69 Score=23.96 Aligned_cols=49 Identities=18% Similarity=0.369 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHH--------HHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 75 ELQQIERQLEKSVS--------NIRARKNQVFN------EQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 75 EL~~LE~~Le~~l~--------~IR~rK~~ll~------~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
-+..||..|..++. ..|.+..+|-. +.|..|......|.+||+.|...+
T Consensus 57 ~i~~LE~RLRaGlCDRC~VtqE~akK~qqefe~s~~qsLq~i~~L~nE~n~L~eEN~~L~eEl 119 (120)
T PF10482_consen 57 NIKVLENRLRAGLCDRCTVTQELAKKKQQEFESSHLQSLQHIFELTNEMNTLKEENKKLKEEL 119 (120)
T ss_pred HHHHHHHHHhcccchHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 35667777777662 22333322222 346677788889999999998765
No 47
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=54.83 E-value=44 Score=23.92 Aligned_cols=33 Identities=24% Similarity=0.208 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 94 KNQVFNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 94 K~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
-......+++.|+.....++.+|..|...+...
T Consensus 74 l~~~~~~~~~~L~~~l~~l~~eN~~L~~~i~~~ 106 (109)
T PF03980_consen 74 LAPYKKKEREQLNARLQELEEENEALAEEIQEQ 106 (109)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344556788899999999999999999988753
No 48
>smart00030 CLb CLUSTERIN Beta chain.
Probab=52.36 E-value=55 Score=26.78 Aligned_cols=30 Identities=10% Similarity=0.295 Sum_probs=23.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 66 EGLASCTLEELQQIERQLEKSVSNIRARKN 95 (172)
Q Consensus 66 edL~~ls~~EL~~LE~~Le~~l~~IR~rK~ 95 (172)
++|..+|...-.-+..++++||..|...|.
T Consensus 7 ~~Lk~lS~~G~kyvd~EI~nAl~GvKqMK~ 36 (206)
T smart00030 7 NELQEMSTQGSKYINKEIKNALKGVKQIKT 36 (206)
T ss_pred hhHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 445566666667788999999999988775
No 49
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=52.10 E-value=78 Score=22.02 Aligned_cols=31 Identities=26% Similarity=0.468 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 96 QVFNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 96 ~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
..|.++|+.-+..-.+|..||..|+..+...
T Consensus 33 ~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nL 63 (80)
T PF10224_consen 33 EALSDRVEEVKEENEKLESENEYLQQYIGNL 63 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456788888999999999999999998865
No 50
>PF01502 PRA-CH: Phosphoribosyl-AMP cyclohydrolase; InterPro: IPR002496 Phosphoribosyl-AMP cyclohydrolase 3.5.4.19 from EC catalyses the third step in the histidine biosynthetic pathway: 5-phosphoribosyl-AMP + H2O = 5-(5-phospho-D-ribosylaminoformimino)-1-(5-phospho-ribosyl) imidazole-4-carboxamide It requires Zn2+ ions for activity [].; GO: 0004635 phosphoribosyl-AMP cyclohydrolase activity, 0000105 histidine biosynthetic process; PDB: 1ZPS_B.
Probab=51.69 E-value=5.9 Score=27.36 Aligned_cols=35 Identities=26% Similarity=0.499 Sum_probs=26.8
Q ss_pred chhhhhhcchhhhh---------hhhhcccCCceEEEEecCCCC
Q 030748 19 VTFSKRRNGLLKKA---------FELSVLCDAEVAVIIFSPRGK 53 (172)
Q Consensus 19 ~tf~KR~~Gl~KKa---------~Els~Lc~~~v~~i~~s~~g~ 53 (172)
.-||+-|++|..|. .|+.+.||.|+-++.+-|.|.
T Consensus 20 ~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~ 63 (75)
T PF01502_consen 20 TYYSRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGP 63 (75)
T ss_dssp EEEETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-
T ss_pred EEEEccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCC
Confidence 34577777776664 789999999999999999887
No 51
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=51.42 E-value=1.9 Score=23.10 Aligned_cols=13 Identities=38% Similarity=0.813 Sum_probs=9.9
Q ss_pred EEEEecCCCCccc
Q 030748 44 AVIIFSPRGKLSE 56 (172)
Q Consensus 44 ~~i~~s~~g~~~~ 56 (172)
.+.+|||+|+++.
T Consensus 4 ~~t~FSp~Grl~Q 16 (23)
T PF10584_consen 4 SITTFSPDGRLFQ 16 (23)
T ss_dssp STTSBBTTSSBHH
T ss_pred CceeECCCCeEEe
Confidence 3457999999864
No 52
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=50.59 E-value=1.5e+02 Score=24.92 Aligned_cols=12 Identities=17% Similarity=0.363 Sum_probs=8.7
Q ss_pred cCCCCCCCCHHH
Q 030748 64 LGEGLASCTLEE 75 (172)
Q Consensus 64 ~GedL~~ls~~E 75 (172)
.|.|++.+.++=
T Consensus 96 iGHDvEhiD~el 107 (290)
T COG4026 96 IGHDVEHIDVEL 107 (290)
T ss_pred CCCCccccCHHH
Confidence 578888777653
No 53
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=49.14 E-value=99 Score=22.31 Aligned_cols=34 Identities=29% Similarity=0.248 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Q 030748 95 NQVFNEQIAQLKEKGKVLEAENTRLEEKCGMENW 128 (172)
Q Consensus 95 ~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~~~ 128 (172)
-+|..++.+-|.+++..+.++|+.|...+.....
T Consensus 10 LqFvEEEa~LlRRkl~ele~eN~~l~~EL~kyk~ 43 (96)
T PF11365_consen 10 LQFVEEEAELLRRKLSELEDENKQLTEELNKYKS 43 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688888899999999999999999988876553
No 54
>PRK10884 SH3 domain-containing protein; Provisional
Probab=48.83 E-value=1.5e+02 Score=24.18 Aligned_cols=8 Identities=13% Similarity=0.468 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 030748 76 LQQIERQL 83 (172)
Q Consensus 76 L~~LE~~L 83 (172)
+..+..+|
T Consensus 102 l~~l~~~l 109 (206)
T PRK10884 102 VKTLTDKL 109 (206)
T ss_pred HHHHHHHH
Confidence 33333333
No 55
>PF05325 DUF730: Protein of unknown function (DUF730); InterPro: IPR007989 This family consists of several uncharacterised Arabidopsis thaliana proteins of unknown function.
Probab=48.53 E-value=1e+02 Score=22.42 Aligned_cols=59 Identities=22% Similarity=0.435 Sum_probs=32.3
Q ss_pred hcccCCceEEEEecC-----CCCcccccccccc---cCCC----------C-C--CCCHHHHHHHHHHHHHHHHHHHHHH
Q 030748 36 SVLCDAEVAVIIFSP-----RGKLSEFASSRKL---LGEG----------L-A--SCTLEELQQIERQLEKSVSNIRARK 94 (172)
Q Consensus 36 s~Lc~~~v~~i~~s~-----~g~~~~f~spR~l---~Ged----------L-~--~ls~~EL~~LE~~Le~~l~~IR~rK 94 (172)
.|-||+.+.|||..+ +|++|. +.|-.+ .|.+ | + ++--+|...+.+.|+.+-++|...-
T Consensus 20 ~ie~dcnakvvvats~dpvts~klyf-scpyeisdg~g~~~gfkrwwtvalcdefdmikee~~emkkdleaankrve~q~ 98 (122)
T PF05325_consen 20 PIECDCNAKVVVATSRDPVTSGKLYF-SCPYEISDGPGRGCGFKRWWTVALCDEFDMIKEETIEMKKDLEAANKRVESQA 98 (122)
T ss_pred ceeccCCceEEEEeccCCcccceeee-cCccccccCCCCCccceeEEeeeechhhhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 678999999988776 455553 333110 0100 0 0 1122455566677777777776554
Q ss_pred H
Q 030748 95 N 95 (172)
Q Consensus 95 ~ 95 (172)
.
T Consensus 99 e 99 (122)
T PF05325_consen 99 E 99 (122)
T ss_pred h
Confidence 3
No 56
>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=48.52 E-value=56 Score=21.95 Aligned_cols=31 Identities=16% Similarity=0.167 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 96 QVFNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 96 ~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
.-+..++..++++...++.+|..|+.+....
T Consensus 27 ~~~~~~~~~~~~~~~~l~~en~~L~~ei~~l 57 (85)
T TIGR02209 27 RQLNNELQKLQLEIDKLQKEWRDLQLEVAEL 57 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556788889999999999999998887753
No 57
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=48.46 E-value=94 Score=21.86 Aligned_cols=52 Identities=17% Similarity=0.216 Sum_probs=34.5
Q ss_pred CCCCCCHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 67 GLASCTLEELQQIE---RQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 67 dL~~ls~~EL~~LE---~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
+.+.....|...|. .+|..+|..+-.|.++ +..+++.|.+.|++.+.++++.
T Consensus 19 ~~~e~~~~E~~~ins~LD~Lns~LD~LE~rnD~--------l~~~L~~LLesnrq~R~e~~~~ 73 (83)
T PF03670_consen 19 EDDEFDEEEYAAINSMLDQLNSCLDHLEQRNDH--------LHAQLQELLESNRQIRLEFQEQ 73 (83)
T ss_pred ccccccHHHHHHHHHHHHHHHHHHHHHHHhhhH--------HHHHHHHHHHHHHHHHHHHHHH
Confidence 33455666655554 4556677777666544 4457888888898888888764
No 58
>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=47.13 E-value=1e+02 Score=21.98 Aligned_cols=53 Identities=15% Similarity=0.236 Sum_probs=30.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
++|++|+..+-......-..+ ..-..++.+++..+..+...|+..-..|..++
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 109 (113)
T cd01109 57 GMSIKDIKEYAELRREGDSTI-PERLELLEEHREELEEQIAELQETLAYLDYKI 109 (113)
T ss_pred CCCHHHHHHHHHHHccCCccH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577787777654332211111 12235666777777777777766666666554
No 59
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=46.09 E-value=55 Score=24.13 Aligned_cols=30 Identities=27% Similarity=0.215 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 95 NQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 95 ~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
...+..++..|+..+..+.+||..|+-.-.
T Consensus 17 l~~l~~el~~LK~~~~el~EEN~~L~iEN~ 46 (110)
T PRK13169 17 LGVLLKELGALKKQLAELLEENTALRLEND 46 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667899999999999999999976544
No 60
>PF02151 UVR: UvrB/uvrC motif; InterPro: IPR001943 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [].; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3PXG_D 3PXI_C 1E52_B 1QOJ_B 2D7D_B 2NMV_B.
Probab=45.05 E-value=60 Score=18.69 Aligned_cols=34 Identities=26% Similarity=0.436 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 75 ELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 108 (172)
Q Consensus 75 EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk 108 (172)
.+..|+..+..+...-.--+...++++|..|+++
T Consensus 3 ~i~~l~~~m~~a~~~~dfE~Aa~~Rd~i~~l~~q 36 (36)
T PF02151_consen 3 LIKELEEKMEEAVENEDFEKAARLRDQIKALKKQ 36 (36)
T ss_dssp HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHcC
Confidence 4567777777777777777777888888777653
No 61
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=44.67 E-value=1.1e+02 Score=23.33 Aligned_cols=27 Identities=26% Similarity=0.414 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 99 NEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 99 ~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
..+-..|..++..|.+||..++..+.+
T Consensus 80 E~~k~~L~qqv~~L~~e~s~~~~E~da 106 (135)
T KOG4196|consen 80 EKEKAELQQQVEKLKEENSRLRRELDA 106 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555666666666666555544
No 62
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=43.32 E-value=40 Score=25.28 Aligned_cols=24 Identities=25% Similarity=0.313 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 102 IAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 102 i~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
+++|..++..|+=||+.|+.++..
T Consensus 5 ~EeLaaeL~kLqmENk~LKkkl~~ 28 (118)
T PF05812_consen 5 MEELAAELQKLQMENKALKKKLRQ 28 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHc
Confidence 568889999999999999999986
No 63
>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus. Members of this family are typically of around 420 residues in length. The function of this family is unknown.
Probab=43.08 E-value=69 Score=28.38 Aligned_cols=36 Identities=17% Similarity=0.233 Sum_probs=25.9
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 65 GEGLASCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVL 112 (172)
Q Consensus 65 GedL~~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L 112 (172)
...|++.|++|+..|-+ .++-++.+++.|+.++..|
T Consensus 23 ~~~~~~~~~~e~~aLr~------------EN~~LKkEN~~Lk~eVerL 58 (420)
T PF07407_consen 23 NHELEGVSIDENFALRM------------ENHSLKKENNDLKIEVERL 58 (420)
T ss_pred cccccccchhhhhhHHH------------HhHHHHHHHHHHHHHHHHH
Confidence 35678899999888742 3556667777777777777
No 64
>PHA03155 hypothetical protein; Provisional
Probab=42.43 E-value=40 Score=25.13 Aligned_cols=24 Identities=25% Similarity=0.304 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 102 IAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 102 i~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
+++|.+++..|+=||..|+.++..
T Consensus 10 vEeLaaeL~kL~~ENK~LKkkl~~ 33 (115)
T PHA03155 10 VEELEKELQKLKIENKALKKKLLQ 33 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHc
Confidence 457788899999999999999975
No 65
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=42.34 E-value=1.4e+02 Score=22.29 Aligned_cols=41 Identities=15% Similarity=0.297 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 85 KSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 85 ~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
.+...+..| -+++.-+|..|+++++.++++-..|+..+...
T Consensus 70 ~~~~eL~er-~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~ 110 (119)
T COG1382 70 EAVDELEER-KETLELRIKTLEKQEEKLQERLEELQSEIQKA 110 (119)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444343 36677789999999999999999999888764
No 66
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=41.31 E-value=85 Score=28.92 Aligned_cols=9 Identities=33% Similarity=0.386 Sum_probs=4.3
Q ss_pred CCCHHHHHH
Q 030748 70 SCTLEELQQ 78 (172)
Q Consensus 70 ~ls~~EL~~ 78 (172)
.++.+|++.
T Consensus 41 ~ltpee~ka 49 (472)
T TIGR03752 41 ELSPEELKA 49 (472)
T ss_pred cCCcchhHh
Confidence 445555444
No 67
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=41.05 E-value=1.7e+02 Score=22.79 Aligned_cols=54 Identities=17% Similarity=0.311 Sum_probs=33.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 71 CTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 71 ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
.+-.|+...+..+...+..+|.--...-+.++..++.....|+.+-..|+.++.
T Consensus 44 vtk~d~e~~~~~~~a~~~eLr~el~~~~k~~~~~lr~~~e~L~~eie~l~~~L~ 97 (177)
T PF07798_consen 44 VTKSDLENQEYLFKAAIAELRSELQNSRKSEFAELRSENEKLQREIEKLRQELR 97 (177)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355677777777778787777665544455555555555555555555555544
No 68
>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=41.02 E-value=1.3e+02 Score=21.38 Aligned_cols=48 Identities=21% Similarity=0.284 Sum_probs=30.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
++|++|+..+-..... ..-..++.++++.+.++...++..-..|...+
T Consensus 58 G~sl~~i~~l~~~~~~------~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l 105 (108)
T cd01107 58 GFPLEEIKEILDADND------DELRKLLREKLAELEAEIEELQRILRLLEDRL 105 (108)
T ss_pred CCCHHHHHHHHhcCCH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777776544332 33346667777777777777776666665544
No 69
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=40.99 E-value=14 Score=27.41 Aligned_cols=33 Identities=24% Similarity=0.539 Sum_probs=25.3
Q ss_pred hhhhhhcchhhh---------hhhhhcccCCceEEEEecCCC
Q 030748 20 TFSKRRNGLLKK---------AFELSVLCDAEVAVIIFSPRG 52 (172)
Q Consensus 20 tf~KR~~Gl~KK---------a~Els~Lc~~~v~~i~~s~~g 52 (172)
-||+=|+-|.+| +.|+.+-||.|+-++++.+.|
T Consensus 53 y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q~g 94 (111)
T COG0139 53 YYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQIG 94 (111)
T ss_pred EEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEeCC
Confidence 345555545555 579999999999999999855
No 70
>smart00340 HALZ homeobox associated leucin zipper.
Probab=40.94 E-value=54 Score=20.22 Aligned_cols=25 Identities=28% Similarity=0.266 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccc
Q 030748 103 AQLKEKGKVLEAENTRLEEKCGMEN 127 (172)
Q Consensus 103 ~~lkkk~~~L~eeN~~L~~k~~~~~ 127 (172)
+.|++=-..|-+||++|++.+++..
T Consensus 8 e~LKrcce~LteeNrRL~ke~~eLr 32 (44)
T smart00340 8 ELLKRCCESLTEENRRLQKEVQELR 32 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666778888888888887654
No 71
>PF14916 CCDC92: Coiled-coil domain of unknown function
Probab=40.91 E-value=56 Score=21.56 Aligned_cols=22 Identities=27% Similarity=0.158 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhc
Q 030748 104 QLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 104 ~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
.|..++..|+.+|..|..++.+
T Consensus 25 ~LH~EIe~Lq~~~~dL~~kL~m 46 (60)
T PF14916_consen 25 GLHAEIERLQKRNKDLTFKLIM 46 (60)
T ss_pred HHHHHHHHHHHhccccceeeee
Confidence 4455555555555555555544
No 72
>PF07558 Shugoshin_N: Shugoshin N-terminal coiled-coil region; InterPro: IPR011516 This entry represents the N-terminal domain of Shugoshin (Sgo1) kinetochore-attachment proteins. Shugoshin has a conserved coiled-coil N-terminal domain and a highly conserved C-terminal basic region (IPR011515 from INTERPRO). Shugoshin is a crucial target of Bub1 kinase that plays a central role in chromosome cohesion during mitosis and meiosis divisions by preventing premature dissociation of cohesin complex from centromeres after prophase, when most of cohesin complex dissociates from chromosomes arms [, ]. Shugoshin is thought to act by protecting Rec8 and Rad21 at the centromeres from separase degradation during anaphase I (during meiosis) so that sister chromatids remain tethered []. Shugoshin also acts as a spindle checkpoint component required for sensing tension between sister chromatids during mitosis, its degradation when they separate preventing cell cycle arrest and chromosome loss in anaphase, a time when sister chromatids are no longer under tension. Human shugoshin is diffusible and mediates kinetochore-driven formation of kinetochore-microtubules during bipolar spindle assembly []. Further, the primary role of shugoshin is to ensure bipolar attachment of kinetochores, and its role in protecting cohesion has co-developed to facilitate this process [].; GO: 0045132 meiotic chromosome segregation, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 3FGA_D.
Probab=40.84 E-value=32 Score=21.25 Aligned_cols=31 Identities=26% Similarity=0.363 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 93 RKNQVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 93 rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
|.+.++...|..+.++...|..||..|+...
T Consensus 14 K~Ns~l~~ki~~le~~~s~L~~en~~lR~~~ 44 (46)
T PF07558_consen 14 KRNSALSIKIQELENEVSKLLNENVNLRELV 44 (46)
T ss_dssp ----------------HHHHHHHHHHHHHHH
T ss_pred hHhHHHHhHHHHHHhHHHHHHHHHHHHHHHh
Confidence 4456777889999999999999999998765
No 73
>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=40.75 E-value=1.1e+02 Score=22.03 Aligned_cols=54 Identities=19% Similarity=0.130 Sum_probs=28.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
+++++|+..+-...+..-...-..-..++.++++.+.++...++..-..|...+
T Consensus 56 G~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 109 (116)
T cd04769 56 GFTLAELKAIFAGHEGRAVLPWPHLQQALEDKKQEIRAQITELQQLLARLDAFE 109 (116)
T ss_pred CCCHHHHHHHHhccccCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888877655443221011111134555666666666666665555555444
No 74
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=40.74 E-value=83 Score=21.85 Aligned_cols=31 Identities=23% Similarity=0.276 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 95 NQVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 95 ~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
...+..+++.++++...|++||..|+-+...
T Consensus 37 ~~~~~~~l~~l~~~~~~l~~e~~~L~lE~~~ 67 (97)
T PF04999_consen 37 SRQLFYELQQLEKEIDQLQEENERLRLEIAT 67 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455567899999999999999999876664
No 75
>PF09798 LCD1: DNA damage checkpoint protein; InterPro: IPR018622 This is a family of proteins which regulate checkpoint kinases. In Schizosaccharomyces pombe (Fission yeast) this protein is called Rad26 and in Saccharomyces cerevisiae (Baker's yeast) it is called LCD1 [].
Probab=40.68 E-value=1.5e+02 Score=28.42 Aligned_cols=52 Identities=17% Similarity=0.318 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 74 EELQQIERQLEKSVSNIRARKNQVF---NEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 74 ~EL~~LE~~Le~~l~~IR~rK~~ll---~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
+.|..|+++-+.-+...+.++.++- .++++.|+..+++|++|.+-|......
T Consensus 4 dkL~~Lq~ek~~E~~~l~~~~~~lk~~~~~el~~Lk~~vqkLEDEKKFL~nE~r~ 58 (654)
T PF09798_consen 4 DKLELLQQEKQKERQALKSSVEELKESHEEELNKLKSEVQKLEDEKKFLNNELRS 58 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577788877777777777776443 578889999999999999988776654
No 76
>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=40.24 E-value=95 Score=21.03 Aligned_cols=22 Identities=32% Similarity=0.409 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 030748 99 NEQIAQLKEKGKVLEAENTRLE 120 (172)
Q Consensus 99 ~~qi~~lkkk~~~L~eeN~~L~ 120 (172)
.+.|..|+.++..|+++|..|.
T Consensus 17 veti~~Lq~e~eeLke~n~~L~ 38 (72)
T PF06005_consen 17 VETIALLQMENEELKEKNNELK 38 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhHH
Confidence 3444444444444444444444
No 77
>PHA03162 hypothetical protein; Provisional
Probab=40.23 E-value=44 Score=25.57 Aligned_cols=24 Identities=25% Similarity=0.257 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 102 IAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 102 i~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
+++|..++..|+=||+.|+.++..
T Consensus 15 mEeLaaeL~kLqmENK~LKkkl~~ 38 (135)
T PHA03162 15 MEDLAAEIAKLQLENKALKKKIKE 38 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 457778889999999999999975
No 78
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=40.16 E-value=39 Score=29.35 Aligned_cols=25 Identities=40% Similarity=0.501 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 101 QIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 101 qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
+++.|++|.+.|++||..|+.....
T Consensus 161 ~le~Lq~Klk~LEeEN~~LR~Ea~~ 185 (306)
T PF04849_consen 161 QLEALQEKLKSLEEENEQLRSEASQ 185 (306)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4689999999999999999987654
No 79
>smart00338 BRLZ basic region leucin zipper.
Probab=39.15 E-value=1e+02 Score=19.75 Aligned_cols=28 Identities=18% Similarity=0.239 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 96 QVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 96 ~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
+.+..+...|..++..|..++..|...+
T Consensus 36 ~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 36 EQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455666677777777777777776554
No 80
>PRK00708 sec-independent translocase; Provisional
Probab=39.13 E-value=76 Score=26.09 Aligned_cols=14 Identities=21% Similarity=0.584 Sum_probs=8.7
Q ss_pred eEEEEecCCCCcccc
Q 030748 43 VAVIIFSPRGKLSEF 57 (172)
Q Consensus 43 v~~i~~s~~g~~~~f 57 (172)
|+||||+| .+++..
T Consensus 15 VaLvV~GP-krLP~~ 28 (209)
T PRK00708 15 VLIVVVGP-KDLPPM 28 (209)
T ss_pred HHHhhcCc-hHHHHH
Confidence 56788887 444444
No 81
>PRK03100 sec-independent translocase; Provisional
Probab=38.78 E-value=66 Score=24.65 Aligned_cols=14 Identities=21% Similarity=0.541 Sum_probs=8.0
Q ss_pred eEEEEecCCCCcccc
Q 030748 43 VAVIIFSPRGKLSEF 57 (172)
Q Consensus 43 v~~i~~s~~g~~~~f 57 (172)
|+||||+| .+++++
T Consensus 16 VaLvv~GP-krLP~~ 29 (136)
T PRK03100 16 AGLVILGP-ERLPGA 29 (136)
T ss_pred HHHhhcCc-hHHHHH
Confidence 46677775 444444
No 82
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=38.75 E-value=2e+02 Score=22.76 Aligned_cols=24 Identities=42% Similarity=0.444 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 101 QIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 101 qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
+...+.++...|++||..|-.++-
T Consensus 159 ~~~~~e~k~~~l~~En~~Lv~Rwm 182 (194)
T PF08614_consen 159 QLNMLEEKLRKLEEENRELVERWM 182 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444667888889999988876654
No 83
>PRK01919 tatB sec-independent translocase; Provisional
Probab=38.60 E-value=1.3e+02 Score=23.86 Aligned_cols=15 Identities=33% Similarity=0.711 Sum_probs=10.6
Q ss_pred eEEEEecCCCCccccc
Q 030748 43 VAVIIFSPRGKLSEFA 58 (172)
Q Consensus 43 v~~i~~s~~g~~~~f~ 58 (172)
|+||||+| .+++..+
T Consensus 15 VALiV~GP-ekLP~~a 29 (169)
T PRK01919 15 VALVVIGP-ERLPRVA 29 (169)
T ss_pred HHHheeCc-hHhHHHH
Confidence 68899998 5555553
No 84
>PF05983 Med7: MED7 protein; InterPro: IPR009244 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This family consists of several eukaryotic proteins, which are homologues of the yeast MED7 protein. Activation of gene transcription in metazoans is a multistep process that is triggered by factors that recognise transcriptional enhancer sites in DNA. These factors work with co-activators such as MED7 to direct transcriptional initiation by the RNA polymerase II apparatus [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3FBI_C 3FBN_A 1YKH_A 1YKE_A.
Probab=37.40 E-value=2e+02 Score=22.41 Aligned_cols=51 Identities=12% Similarity=0.246 Sum_probs=31.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 72 TLEELQQIERQLEKSVSNIRARKN-----QVFNEQIAQLKEKGKVLEAENTRLEEK 122 (172)
Q Consensus 72 s~~EL~~LE~~Le~~l~~IR~rK~-----~ll~~qi~~lkkk~~~L~eeN~~L~~k 122 (172)
.++++.-|--++...+...|-.+. .+|+.|++..+.....++.-....+..
T Consensus 105 ki~~i~~L~~NmhhllNeyRPhQARetLi~~me~Ql~~kr~~i~~i~~~~~~~~~~ 160 (162)
T PF05983_consen 105 KIEDIRLLFINMHHLLNEYRPHQARETLIMMMEEQLEEKREEIEEIRKVCEKAREV 160 (162)
T ss_dssp HHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777777777777777776654 455666666555555555554444433
No 85
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=37.13 E-value=98 Score=22.52 Aligned_cols=27 Identities=26% Similarity=0.139 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 98 FNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 98 l~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
..+++..|++++..|..||..|++...
T Consensus 76 ~~~ei~~L~~el~~L~~E~diLKKa~~ 102 (121)
T PRK09413 76 AMKQIKELQRLLGKKTMENELLKEAVE 102 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556788999999999999999988775
No 86
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=36.62 E-value=84 Score=26.65 Aligned_cols=32 Identities=22% Similarity=0.272 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhcc
Q 030748 95 NQVFNEQIAQLKEKG----KVLEAENTRLEEKCGME 126 (172)
Q Consensus 95 ~~ll~~qi~~lkkk~----~~L~eeN~~L~~k~~~~ 126 (172)
++-|++++..++.+. ..+++||++|+..+...
T Consensus 75 N~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~LL~~~ 110 (283)
T TIGR00219 75 NYKLRQELLKKNQQLEILTQNLKQENVRLRELLNSP 110 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 455556655553332 34889999999988754
No 87
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=35.95 E-value=2.2e+02 Score=24.66 Aligned_cols=30 Identities=23% Similarity=0.449 Sum_probs=23.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 66 EGLASCTLEELQQIERQLEKSVSNIRARKN 95 (172)
Q Consensus 66 edL~~ls~~EL~~LE~~Le~~l~~IR~rK~ 95 (172)
++++.++.++|..+-..|......|..++.
T Consensus 196 ~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~ 225 (312)
T smart00787 196 DELEDCDPTELDRAKEKLKKLLQEIMIKVK 225 (312)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788888998888888877777776665
No 88
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=35.67 E-value=1.3e+02 Score=19.65 Aligned_cols=47 Identities=23% Similarity=0.238 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 74 EELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 74 ~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
++-..+-+.|+.++.+= ++++. +...+..+...|+++|.+|+.-+..
T Consensus 12 ~~~~~~W~~L~~~l~rY----~~vL~-~R~~l~~e~~~L~~qN~eLr~lLkq 58 (60)
T PF14775_consen 12 DEKIRLWDALENFLKRY----NKVLL-DRAALIQEKESLEQQNEELRSLLKQ 58 (60)
T ss_pred hHHHHHHHHHHHHHHHH----HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444455555554322 23333 3345556668999999999987753
No 89
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=35.47 E-value=92 Score=25.86 Aligned_cols=31 Identities=32% Similarity=0.502 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhc
Q 030748 95 NQVFNEQIAQLKEKGK---VLEAENTRLEEKCGM 125 (172)
Q Consensus 95 ~~ll~~qi~~lkkk~~---~L~eeN~~L~~k~~~ 125 (172)
++.+++++..|+.+.. .+++||.+|+..+..
T Consensus 78 n~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~ 111 (276)
T PRK13922 78 NEELKKELLELESRLQELEQLEAENARLRELLNL 111 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4666677777766655 678899999987764
No 90
>PHA00451 protein kinase
Probab=35.18 E-value=3.1e+02 Score=23.98 Aligned_cols=55 Identities=18% Similarity=0.236 Sum_probs=36.8
Q ss_pred cCCceEEEEecCCCCcc-----cccccccccCCCCCCCCHHHHHHHHHHH--HHHHHHHHHHHH
Q 030748 39 CDAEVAVIIFSPRGKLS-----EFASSRKLLGEGLASCTLEELQQIERQL--EKSVSNIRARKN 95 (172)
Q Consensus 39 c~~~v~~i~~s~~g~~~-----~f~spR~l~GedL~~ls~~EL~~LE~~L--e~~l~~IR~rK~ 95 (172)
.|..-.=|+|+.+|.+| +|+..|...+- =++.+++|..=-+.+ +..+.+.|.||.
T Consensus 193 FDmHSGNiMf~~~g~p~ITDPVSFS~dr~re~G--F~ldPd~LiaEvEaia~~~~IeRck~rKa 254 (362)
T PHA00451 193 FDMHSGNIMFDQDGVPYITDPVSFSHDREREPG--FPLDPDELIAEVEAIANQRMIERCKNRKA 254 (362)
T ss_pred ccccCCceeeCCCCCeEecCCccccCccccCCC--CCCCHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 45666779999999876 56666655332 368888877533333 566777777775
No 91
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=33.74 E-value=1.8e+02 Score=20.84 Aligned_cols=44 Identities=16% Similarity=0.334 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 81 RQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 81 ~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
...+.++..+..+. +++...|..+.++...+++.-..++..+..
T Consensus 63 ~~~~e~~~~l~~r~-e~ie~~i~~lek~~~~l~~~l~e~q~~l~~ 106 (110)
T TIGR02338 63 TDKEEAIQELKEKK-ETLELRVKTLQRQEERLREQLKELQEKIQE 106 (110)
T ss_pred ecHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455554443 444667777777777777777777766654
No 92
>TIGR01950 SoxR redox-sensitive transcriptional activator SoxR. SoxR is a MerR-family homodimeric transcription factor with a 2Fe-2S cluster in each monomer. The motif CIGCGCxxxxxC is conserved. Oxidation of the iron-sulfur cluster activates SoxR. The physiological role in E. coli is response to oxidative stress. It is activated by superoxide, singlet oxygen, nitric oxide (NO), and hydrogen peroxide. In E. coli, SoxR increases expression of transcription factor SoxS; different downstream targets may exist in other species.
Probab=33.02 E-value=1.6e+02 Score=22.26 Aligned_cols=55 Identities=15% Similarity=0.118 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
++|++++..+-..+...-...-..-..++.+++..+.++...|+.--..|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~ki~~L~~~~~~L~~~~~ 111 (142)
T TIGR01950 57 GIPLATIGEALAVLPEGRTPTADDWARLSSQWREELDERIDQLNALRDQLDGCIG 111 (142)
T ss_pred CCCHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5788888887655432111111112245566666777777766666666665554
No 93
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=33.02 E-value=1.3e+02 Score=18.95 Aligned_cols=49 Identities=18% Similarity=0.344 Sum_probs=23.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRL 119 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L 119 (172)
++|++|+..+-.--+..-... ..-..++..+++.+.++...|..--..|
T Consensus 14 GfsL~eI~~~l~l~~~~~~~~-~~~~~~l~~~~~~i~~~i~~L~~~~~~L 62 (65)
T PF09278_consen 14 GFSLEEIRELLELYDQGDPPC-ADRRALLEEKLEEIEEQIAELQALRAQL 62 (65)
T ss_dssp T--HHHHHHHHHHCCSHCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHhccCCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888762211111111 1122566666666666666665544444
No 94
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=32.75 E-value=3e+02 Score=23.57 Aligned_cols=30 Identities=33% Similarity=0.613 Sum_probs=22.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 66 EGLASCTLEELQQIERQLEKSVSNIRARKN 95 (172)
Q Consensus 66 edL~~ls~~EL~~LE~~Le~~l~~IR~rK~ 95 (172)
..++.++.++|..+-..|...-..|..+|.
T Consensus 201 ~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~ 230 (325)
T PF08317_consen 201 EEIESCDQEELEALRQELAEQKEEIEAKKK 230 (325)
T ss_pred hhhhhcCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346778899999988888877777776655
No 95
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=32.64 E-value=2.6e+02 Score=26.47 Aligned_cols=38 Identities=18% Similarity=0.314 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 030748 90 IRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGMEN 127 (172)
Q Consensus 90 IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~~ 127 (172)
.+..+.+.+..+|+.-..+...|+.+|..|+.+++.+.
T Consensus 291 ~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~ 328 (581)
T KOG0995|consen 291 HMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIELQG 328 (581)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 33444456666777767777788889999998888653
No 96
>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=32.27 E-value=2e+02 Score=20.91 Aligned_cols=55 Identities=15% Similarity=0.216 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 70 SCTLEELQQIERQLEKSVSNI--RARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~I--R~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
++|++++..+-.....+-... .....+++.++++.++.+...|++--..|..++.
T Consensus 55 G~~L~~I~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~L~~~~~ 111 (118)
T cd04776 55 GFSLEEIRELLDLYDPPGGNRKQLEKMLEKIEKRRAELEQQRRDIDAALAELDAAEE 111 (118)
T ss_pred CCCHHHHHHHHHhhccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577877777665443321111 1222356667777777777776666666655543
No 97
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=31.83 E-value=2.3e+02 Score=26.16 Aligned_cols=31 Identities=23% Similarity=0.235 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 91 RARKNQVFNEQIAQLKEKGKVLEAENTRLEE 121 (172)
Q Consensus 91 R~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~ 121 (172)
-++|..-+...+++++++++.++|+|..|.+
T Consensus 380 ~e~k~~q~q~k~~k~~kel~~~~E~n~~l~k 410 (493)
T KOG0804|consen 380 VERKLQQLQTKLKKCQKELKEEREENKKLIK 410 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344455556666777777777777777653
No 98
>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=31.43 E-value=2.1e+02 Score=20.93 Aligned_cols=92 Identities=20% Similarity=0.172 Sum_probs=49.2
Q ss_pred hhhhhcccCCceEEEEecC-CCCcc-ccccc---ccccCCCC-----------CCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 32 AFELSVLCDAEVAVIIFSP-RGKLS-EFASS---RKLLGEGL-----------ASCTLEELQQIERQLEKSVSNIRARKN 95 (172)
Q Consensus 32 a~Els~Lc~~~v~~i~~s~-~g~~~-~f~sp---R~l~GedL-----------~~ls~~EL~~LE~~Le~~l~~IR~rK~ 95 (172)
..|+|-+||+.+..|.|-. .|-+. ..-++ |.+.-+++ -++|++|+..+-......-... ..-.
T Consensus 3 I~e~a~~~gvs~~tlRyYe~~GLl~~~~r~~~g~R~Y~~~~~~~l~~I~~lr~~G~sL~eI~~~l~~~~~~~~~~-~~~~ 81 (127)
T cd01108 3 IGEAAKLTGLSAKMIRYYEEIGLIPPPSRSDNGYRVYNQRDIEELRFIRRARDLGFSLEEIRELLALWRDPSRAS-ADVK 81 (127)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCCCCCCCcCCCCceecCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhCCCCCH-HHHH
Confidence 4677777887776665543 22221 11111 22111111 2578888887654333221111 1123
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 96 QVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 96 ~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
.++.++++.+.++...|+.-...|...+.
T Consensus 82 ~~l~~~~~~l~~~i~~L~~~~~~l~~~~~ 110 (127)
T cd01108 82 ALALEHIAELERKIAELQAMRRTLQQLAD 110 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57777788888888877777777766554
No 99
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=31.12 E-value=2e+02 Score=21.56 Aligned_cols=55 Identities=16% Similarity=0.181 Sum_probs=30.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
++|++|+..+-......-...-..-..++.++++.+.++...|++-...|.....
T Consensus 58 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 112 (140)
T PRK09514 58 GFTLEEIRELLSIRLDPEHHTCQEVKGIVDEKLAEVEAKIAELQHMRRSLQRLND 112 (140)
T ss_pred CCCHHHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888876543211000001122356677777777777777766666655443
No 100
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=31.08 E-value=40 Score=30.88 Aligned_cols=57 Identities=18% Similarity=0.227 Sum_probs=35.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHH-------------HHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 030748 70 SCTLEELQQIERQLEKSVSNIRAR-------------KNQVF----------NEQIAQLKEKGKVLEAENTRLEEKCGME 126 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~r-------------K~~ll----------~~qi~~lkkk~~~L~eeN~~L~~k~~~~ 126 (172)
+.++.+.-.|-+.=|..|++||.+ |.+.+ ..+-+.|++|+..|+..|..|..++...
T Consensus 233 G~slPs~lPLTKaEEriLKrvRRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~kkV~~Le~~N~sLl~qL~kl 312 (472)
T KOG0709|consen 233 GYSLPSKLPLTKAEERILKRVRRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQKKVEELELSNRSLLAQLKKL 312 (472)
T ss_pred cCcCcccCCchHHHHHHHHHHHHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHHHHHHHHhhccHHHHHHHHHH
Confidence 445555555556666777777654 22222 2244578888888888888888777643
No 101
>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=30.56 E-value=2.2e+02 Score=20.89 Aligned_cols=54 Identities=22% Similarity=0.317 Sum_probs=32.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
++|++|+..+-......-... ..-.+++..+++.+..+...|++.-..|.....
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (127)
T TIGR02047 57 DMSLAEIRQLLRYQDKPEKSC-SDVNALLDEHISHVRARIIKLQALIEQLVDLRG 110 (127)
T ss_pred CCCHHHHHHHHHhhhCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678888877654322211111 122357777888888888888777777765544
No 102
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=30.09 E-value=2.2e+02 Score=21.98 Aligned_cols=94 Identities=15% Similarity=0.119 Sum_probs=48.0
Q ss_pred hhhhhhhcccCCceEEEEecC-CCCccccccc---ccccCCCC-----------CCCCHHHHHHHHHHHHHHHHHHHHHH
Q 030748 30 KKAFELSVLCDAEVAVIIFSP-RGKLSEFASS---RKLLGEGL-----------ASCTLEELQQIERQLEKSVSNIRARK 94 (172)
Q Consensus 30 KKa~Els~Lc~~~v~~i~~s~-~g~~~~f~sp---R~l~GedL-----------~~ls~~EL~~LE~~Le~~l~~IR~rK 94 (172)
=+..|++-++|+.+.-|.|-. .|-+...-.+ |.+--+++ -++|++|+..+-......-...-..-
T Consensus 12 ~~IgevAk~~gvs~~TlRyYE~~GLi~~~r~~~g~R~Y~~~~i~~L~~I~~lr~lG~sL~eIk~ll~~~~~~~~~~~~~~ 91 (154)
T PRK15002 12 LTPGEVAKRSGVAVSALHFYESKGLITSIRNSGNQRRYKRDVLRYVAIIKIAQRIGIPLATIGEAFGVLPEGHTLSAKEW 91 (154)
T ss_pred ccHHHHHHHHCcCHHHHHHHHHCCCCCCccCCCCCEEECHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhhcCCCCCHHHH
Confidence 356788888888777665553 2222111011 11111111 25788888887654322211111112
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 95 NQVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 95 ~~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
..++.++++.+.++...|..--..|...+
T Consensus 92 ~~ll~~k~~~l~~~I~~L~~~~~~L~~~i 120 (154)
T PRK15002 92 KQLSSQWREELDRRIHTLVALRDELDGCI 120 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666666666665544
No 103
>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=30.02 E-value=2.3e+02 Score=20.91 Aligned_cols=55 Identities=13% Similarity=0.241 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
++|++|+..+-...+..-... ..-.+++..+++.+.++...|+.--..|..++..
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~ 111 (133)
T cd04787 57 GFSLKDIKEILSHADQGESPC-PMVRRLIEQRLAETERRIKELLKLRDRMQQAVSQ 111 (133)
T ss_pred CCCHHHHHHHHhhhccCCCcH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888887765433221111 1123577778888888888887777777766654
No 104
>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA. They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.
Probab=29.54 E-value=2.6e+02 Score=24.19 Aligned_cols=47 Identities=23% Similarity=0.366 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 76 LQQIERQLEKSV---SNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 76 L~~LE~~Le~~l---~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
|..+|..+..++ ..+=.-|. -+.-||+.|+.++..+++....|++.+
T Consensus 86 l~evEekyrkAMv~naQLDNek~-~l~yqvd~Lkd~lee~eE~~~~~~re~ 135 (302)
T PF09738_consen 86 LAEVEEKYRKAMVSNAQLDNEKS-ALMYQVDLLKDKLEELEETLAQLQREY 135 (302)
T ss_pred HHHHHHHHHHHHHHHhhhchHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555554433 22222232 233466666666666666555555544
No 105
>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=29.37 E-value=1.5e+02 Score=21.21 Aligned_cols=34 Identities=21% Similarity=0.327 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 92 ARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 92 ~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
.++...+..+++.+.+....+.++-..|...+..
T Consensus 93 ~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~ 126 (129)
T cd00890 93 KKRLETLEKQIEKLEKQLEKLQDQITELQEELQQ 126 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444566677777777777777777777766553
No 106
>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=29.32 E-value=2.2e+02 Score=20.47 Aligned_cols=53 Identities=17% Similarity=0.234 Sum_probs=30.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
++|++|+..+-.....+-... ..-.+++.++++.+.++...|+.-...|...+
T Consensus 57 G~sl~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 109 (123)
T cd04770 57 GFSLAEIRELLSLRDDGAAPC-AEVRALLEEKLAEVEAKIAELQALRAELAGLL 109 (123)
T ss_pred CCCHHHHHHHHHhhhcCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577777777655433211111 12235666777777777777776666665544
No 107
>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=29.15 E-value=2.2e+02 Score=20.99 Aligned_cols=54 Identities=15% Similarity=0.185 Sum_probs=32.7
Q ss_pred CCCHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 70 SCTLEELQQIERQLEK-SVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~-~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
++|++|+..+-..... .-... ..-..++.++++.++++...|+.-...|.....
T Consensus 58 G~sl~eI~~~l~~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 112 (131)
T TIGR02043 58 GFTLDEIKELLSIKLDATEHSC-AEVKAIVDAKLELVDEKINELTKIRRSLKKLSD 112 (131)
T ss_pred CCCHHHHHHHHHhhccCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888876653211 10011 122357777888888888887776666665554
No 108
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=28.90 E-value=3.3e+02 Score=26.09 Aligned_cols=30 Identities=17% Similarity=0.179 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 96 QVFNEQIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 96 ~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
+.+..+|..|++++..-...-.+|..++..
T Consensus 477 ~~~~~~I~~L~~~L~e~~~~ve~L~~~l~~ 506 (652)
T COG2433 477 RARDRRIERLEKELEEKKKRVEELERKLAE 506 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556667777777777666666666666654
No 109
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=28.85 E-value=2.6e+02 Score=23.35 Aligned_cols=27 Identities=7% Similarity=0.085 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 98 FNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 98 l~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
|..||+.|+..+..|+-.++.+.++++
T Consensus 59 l~~ql~~lq~ev~~LrG~~E~~~~~l~ 85 (263)
T PRK10803 59 LQQQLSDNQSDIDSLRGQIQENQYQLN 85 (263)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 344555555555555555555544444
No 110
>cd01110 HTH_SoxR Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator. Helix-turn-helix (HTH) transcriptional regulator SoxR. The global regulator, SoxR, up-regulates gene expression of another transcription activator, SoxS, which directly stimulates the oxidative stress regulon genes in E. coli. The soxRS response renders the bacterial cell resistant to superoxide-generating agents, macrophage-generated nitric oxide, organic solvents, and antibiotics. The SoxR proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the unusually long spacer between the -35 and -10 promoter elements. They also harbor a regulatory C-terminal domain containing an iron-sulfur center.
Probab=28.84 E-value=2.5e+02 Score=21.02 Aligned_cols=55 Identities=16% Similarity=0.169 Sum_probs=29.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
++|++|+..+-..+...-......-..++..+++.+.++...|+.--..|...+.
T Consensus 57 G~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~i~ 111 (139)
T cd01110 57 GLSLAEIAEALATLPEDRTPTKADWERLSRAWRDRLDERIAELQQLRDQLDGCIG 111 (139)
T ss_pred CCCHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5788888876554322210101111244555566666666666666666666664
No 111
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=28.84 E-value=2.5e+02 Score=20.99 Aligned_cols=54 Identities=15% Similarity=0.158 Sum_probs=33.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
++|++|+..+-...+..-... ..-.+++.+++..+..+...|+..-..|...+.
T Consensus 57 G~sl~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (135)
T PRK10227 57 GFNLEESGELVNLFNDPQRHS-ADVKRRTLEKVAEIERHIEELQSMRDQLLALAN 110 (135)
T ss_pred CCCHHHHHHHHHhhccCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888877665433211111 112356677777888888888877777776554
No 112
>PRK02759 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed
Probab=28.59 E-value=90 Score=25.53 Aligned_cols=37 Identities=27% Similarity=0.587 Sum_probs=29.1
Q ss_pred ccchh-hhhhcchhhhh---------hhhhcccCCceEEEEecCCCC
Q 030748 17 RQVTF-SKRRNGLLKKA---------FELSVLCDAEVAVIIFSPRGK 53 (172)
Q Consensus 17 R~~tf-~KR~~Gl~KKa---------~Els~Lc~~~v~~i~~s~~g~ 53 (172)
+.+|| |+-|+.|..|- .++.+-||.|.-++.+-+.|.
T Consensus 47 g~~~~~SRSr~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~ 93 (203)
T PRK02759 47 GEVTFFSRSKQRLWTKGETSGNTQKVVSIRLDCDNDTLLVLVEPIGP 93 (203)
T ss_pred CcEEEEeCCCCcccCCCCCCCCeEEEEEEEecCCCCeEEEEEEecCC
Confidence 34454 66678887765 589999999999999999875
No 113
>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=28.42 E-value=1.6e+02 Score=18.65 Aligned_cols=17 Identities=41% Similarity=0.364 Sum_probs=9.9
Q ss_pred CCCCCHHHHHHHHHHHH
Q 030748 68 LASCTLEELQQIERQLE 84 (172)
Q Consensus 68 L~~ls~~EL~~LE~~Le 84 (172)
|..+|++||..--..|+
T Consensus 5 Lk~ls~~eL~~rl~~LD 21 (49)
T PF11629_consen 5 LKFLSYEELQQRLASLD 21 (49)
T ss_dssp GGGS-HHHHHHHHHHHH
T ss_pred HhhCCHHHHHHHHHhCC
Confidence 45688888876444443
No 114
>PF13991 BssS: BssS protein family
Probab=28.34 E-value=1.7e+02 Score=20.02 Aligned_cols=55 Identities=15% Similarity=0.195 Sum_probs=35.0
Q ss_pred hhhhcccCCceEEEEecC---CCCcccccccccccCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 030748 33 FELSVLCDAEVAVIIFSP---RGKLSEFASSRKLLGEGLASCTLEELQQIERQLEKSVSNIRA 92 (172)
Q Consensus 33 ~Els~Lc~~~v~~i~~s~---~g~~~~f~spR~l~GedL~~ls~~EL~~LE~~Le~~l~~IR~ 92 (172)
++++.+-+-++.++-|+= .....+ ....|.-+ +++.+-.++|-..|+.++.+|..
T Consensus 6 W~i~pv~~~dal~lrl~yls~~~q~~e----~a~~~~~~-~lT~e~Ar~Li~~L~~~I~kiE~ 63 (73)
T PF13991_consen 6 WDIGPVDSYDALMLRLHYLSSPDQPPE----EAQVGRTY-WLTTEMARQLISILEAGIDKIES 63 (73)
T ss_pred ceeccccccceeEEEecccCCCCCCcc----ccccCcee-EecHHHHHHHHHHHHHHHHHHHh
Confidence 466777777777776652 111111 11112111 68999999999999999988865
No 115
>PRK09343 prefoldin subunit beta; Provisional
Probab=28.01 E-value=2.5e+02 Score=20.66 Aligned_cols=43 Identities=16% Similarity=0.217 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 030748 84 EKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGMEN 127 (172)
Q Consensus 84 e~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~~ 127 (172)
+.+...+..| .+++..+|..+.++...+++.-..+...+...-
T Consensus 70 ~e~~~~l~~r-~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll 112 (121)
T PRK09343 70 TKVEKELKER-KELLELRSRTLEKQEKKLREKLKELQAKINEML 112 (121)
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444343 356668888888888888888888888877643
No 116
>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=27.78 E-value=2.3e+02 Score=20.24 Aligned_cols=52 Identities=19% Similarity=0.212 Sum_probs=28.7
Q ss_pred CCCHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 70 SCTLEELQQIERQLEKSV---SNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEK 122 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l---~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k 122 (172)
++|++|+..+-......- ... ....+++.+++..+..+...|+.--..|...
T Consensus 56 G~sl~eI~~~l~~~~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~ 110 (112)
T cd01282 56 GLTLEEIREFLPCLRGGEPTFRPC-PDLLAVLRRELARIDRQIADLTRSRDRLDAY 110 (112)
T ss_pred CCCHHHHHHHHHHhhCCCccCCcc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888777655433221 111 1223566666666666666666655555443
No 117
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=27.58 E-value=2.2e+02 Score=19.89 Aligned_cols=41 Identities=20% Similarity=0.242 Sum_probs=19.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENT 117 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~ 117 (172)
+++++++..+-.... ..-.+++.++...|..+...|+..-.
T Consensus 57 g~~l~~i~~~~~~~~-------~~~~~~l~~~~~~l~~~i~~l~~~~~ 97 (103)
T cd01106 57 GFSLKEIKELLKDPS-------EDLLEALREQKELLEEKKERLDKLIK 97 (103)
T ss_pred CCCHHHHHHHHHcCc-------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777777654432 22223444444444444444444333
No 118
>PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins. Its exact function has not, as yet, been defined. ; PDB: 2QH1_B 1PVM_B.
Probab=27.55 E-value=61 Score=18.71 Aligned_cols=24 Identities=21% Similarity=0.509 Sum_probs=17.1
Q ss_pred hhhcccCCceEEEEecCCCCcccc
Q 030748 34 ELSVLCDAEVAVIIFSPRGKLSEF 57 (172)
Q Consensus 34 Els~Lc~~~v~~i~~s~~g~~~~f 57 (172)
.|+--||+-|-+.||...|..-.|
T Consensus 2 hlcpkcgvgvl~pvy~~kgeikvf 25 (36)
T PF09151_consen 2 HLCPKCGVGVLEPVYNQKGEIKVF 25 (36)
T ss_dssp -B-TTTSSSBEEEEE-TTS-EEEE
T ss_pred ccCCccCceEEEEeecCCCcEEEE
Confidence 467789999999999999976555
No 119
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=27.48 E-value=46 Score=24.50 Aligned_cols=27 Identities=37% Similarity=0.290 Sum_probs=22.2
Q ss_pred hhhhhhcccCCceEEEEecCCCCccccc
Q 030748 31 KAFELSVLCDAEVAVIIFSPRGKLSEFA 58 (172)
Q Consensus 31 Ka~Els~Lc~~~v~~i~~s~~g~~~~f~ 58 (172)
+..+|..|.||- |+..||++|++.+|-
T Consensus 2 ~l~~Lm~lpGv~-AAg~Fs~~G~l~e~~ 28 (108)
T PF09941_consen 2 KLDKLMKLPGVV-AAGEFSDDGKLVEYK 28 (108)
T ss_pred cHHHhhcCCCeE-EEEEECCCCeEEeee
Confidence 356788889986 678999999999883
No 120
>PF07412 Geminin: Geminin; InterPro: IPR022786 This family contains the eukaryotic protein geminin (approximately 200 residues long). Geminin inhibits DNA replication by preventing the incorporation of MCM complex into prereplication complex, and is degraded during the mitotic phase of the cell cycle. It has been proposed that geminin inhibits DNA replication during S, G2, and M phases and that geminin destruction at the metaphase-anaphase transition permits replication in the succeeding cell cycle []. ; GO: 0008156 negative regulation of DNA replication; PDB: 1T6F_B 2LP0_B 1UII_B 2WVR_B 2ZXX_B.
Probab=26.38 E-value=1.6e+02 Score=24.03 Aligned_cols=28 Identities=29% Similarity=0.353 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 96 QVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 96 ~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
+.|...|+.++..+..|.+||..|..-.
T Consensus 128 e~Lh~~ie~~~eEi~~lk~en~~L~ela 155 (200)
T PF07412_consen 128 EKLHKEIEQKDEEIAKLKEENEELKELA 155 (200)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCCHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466677777777777777776665433
No 121
>PHA02414 hypothetical protein
Probab=26.21 E-value=2.5e+02 Score=20.47 Aligned_cols=44 Identities=32% Similarity=0.417 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 73 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENT 117 (172)
Q Consensus 73 ~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~ 117 (172)
+.||+.+-..|+.-+. +.+.|..-+.-||..|.+++..|.+-|.
T Consensus 38 v~ELRdivvslDKd~A-v~sEKqshi~yQi~~Lee~i~aL~~~n~ 81 (111)
T PHA02414 38 VAELRDIVVSLDKDVA-VNSEKQSHIYYQIERLEEKISALAESNK 81 (111)
T ss_pred HHHHHHHHHHhhhHhh-hhHHHhhHHHHHHHHHHHHHHHHHhccc
Confidence 4455555555554443 3455566666799999999999888663
No 122
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=26.10 E-value=2.9e+02 Score=20.92 Aligned_cols=51 Identities=25% Similarity=0.349 Sum_probs=33.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 72 TLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKC 123 (172)
Q Consensus 72 s~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~ 123 (172)
.+.|++.+-...|..+.+.... ...-..+|..|+++...+...|..|.+++
T Consensus 81 ~~~e~qsli~~yE~~~~kLe~e-~~~Kdsei~~Lr~~L~~~~~~n~~Lekrl 131 (131)
T PF04859_consen 81 EIQEQQSLIKTYEIVVKKLEAE-LRAKDSEIDRLREKLDELNRANKSLEKRL 131 (131)
T ss_pred chHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence 4566776666666665544332 22334567788999999999998887653
No 123
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=26.00 E-value=3.7e+02 Score=22.00 Aligned_cols=27 Identities=26% Similarity=0.293 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 98 FNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 98 l~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
+..++..++++...|+..|+.|...+.
T Consensus 54 L~~e~~~l~~e~e~L~~~~~~l~~~v~ 80 (251)
T PF11932_consen 54 LLAEYRQLEREIENLEVYNEQLERQVA 80 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555554444
No 124
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=25.77 E-value=3.4e+02 Score=21.54 Aligned_cols=11 Identities=27% Similarity=0.519 Sum_probs=4.1
Q ss_pred HHHHHHHHHHH
Q 030748 111 VLEAENTRLEE 121 (172)
Q Consensus 111 ~L~eeN~~L~~ 121 (172)
.|...|..|+.
T Consensus 174 ~lk~~~~ql~~ 184 (189)
T PF10211_consen 174 FLKKQNQQLKA 184 (189)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 125
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=25.56 E-value=2.2e+02 Score=22.64 Aligned_cols=9 Identities=33% Similarity=0.648 Sum_probs=6.2
Q ss_pred CCCCCHHHH
Q 030748 68 LASCTLEEL 76 (172)
Q Consensus 68 L~~ls~~EL 76 (172)
..+++++++
T Consensus 100 ~~~it~~~v 108 (170)
T PRK13923 100 ISDLTLEDV 108 (170)
T ss_pred cccCCHHHH
Confidence 446777777
No 126
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=25.45 E-value=2.9e+02 Score=21.11 Aligned_cols=33 Identities=21% Similarity=0.256 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 030748 95 NQVFNEQIAQLKEKGKVLEAENTRLEEKCGMEN 127 (172)
Q Consensus 95 ~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~~ 127 (172)
...+.+|++.|+.....+..|-..++.+++...
T Consensus 83 k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~ 115 (135)
T KOG4196|consen 83 KAELQQQVEKLKEENSRLRRELDAYKSKYEALQ 115 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356778999999999999999999999998754
No 127
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=25.41 E-value=1.3e+02 Score=23.03 Aligned_cols=26 Identities=19% Similarity=0.280 Sum_probs=20.6
Q ss_pred hhcccCCceEEEEecCCCCccccccc
Q 030748 35 LSVLCDAEVAVIIFSPRGKLSEFASS 60 (172)
Q Consensus 35 ls~Lc~~~v~~i~~s~~g~~~~f~sp 60 (172)
+++.++|++-+++.+.+.....|++.
T Consensus 58 i~ta~dad~V~ll~dat~~~~~~pP~ 83 (143)
T PF10662_consen 58 IVTAQDADVVLLLQDATEPRSVFPPG 83 (143)
T ss_pred HHHHhhCCEEEEEecCCCCCccCCch
Confidence 67889999999999988766556543
No 128
>PRK04098 sec-independent translocase; Provisional
Probab=25.24 E-value=2.4e+02 Score=22.15 Aligned_cols=16 Identities=38% Similarity=0.592 Sum_probs=11.4
Q ss_pred ceEEEEecCCCCccccc
Q 030748 42 EVAVIIFSPRGKLSEFA 58 (172)
Q Consensus 42 ~v~~i~~s~~g~~~~f~ 58 (172)
=||||||+| ++++.++
T Consensus 14 vVaLlvfGP-~KLP~~~ 29 (158)
T PRK04098 14 VVAIIFLGP-DKLPQAM 29 (158)
T ss_pred HHHHhhcCc-hHHHHHH
Confidence 367888988 5776664
No 129
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=24.51 E-value=3e+02 Score=24.05 Aligned_cols=42 Identities=21% Similarity=0.324 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 030748 85 KSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCGMEN 127 (172)
Q Consensus 85 ~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~~ 127 (172)
..+...|.+ +.-+..++..|+++...++.++..|+.++....
T Consensus 72 ~lL~~sre~-Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r 113 (319)
T PF09789_consen 72 QLLSESREQ-NKKLKEEVEELRQKLNEAQGDIKLLREKLARQR 113 (319)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhh
Confidence 334444444 566778999999999999999999999988754
No 130
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=24.12 E-value=4.4e+02 Score=23.31 Aligned_cols=45 Identities=18% Similarity=0.412 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 74 EELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRL 119 (172)
Q Consensus 74 ~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L 119 (172)
..|..|...+...|.+|..|. +.+.+|++.+-.+.+.++.+-...
T Consensus 241 ~~L~kl~~~i~~~lekI~sRE-k~iN~qle~l~~eYr~~~~~ls~~ 285 (359)
T PF10498_consen 241 SQLDKLQQDISKTLEKIESRE-KYINNQLEPLIQEYRSAQDELSEV 285 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHhHHHHHHHHHHHHHHHHH
Confidence 456777778888888887774 333344444443333333333333
No 131
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=23.79 E-value=2.3e+02 Score=19.92 Aligned_cols=23 Identities=22% Similarity=0.368 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 030748 96 QVFNEQIAQLKEKGKVLEAENTR 118 (172)
Q Consensus 96 ~ll~~qi~~lkkk~~~L~eeN~~ 118 (172)
..+..++....++...|+.||+.
T Consensus 46 ~~l~~~l~~~E~eL~~LrkENrK 68 (85)
T PF15188_consen 46 NELKEKLENNEKELKLLRKENRK 68 (85)
T ss_pred HHHHHHhhccHHHHHHHHHhhhh
Confidence 34455555666666666666643
No 132
>PF12548 DUF3740: Sulfatase protein; InterPro: IPR024609 This uncharacterised domain is found in the C-terminal region of extracellular sulphatase proteins.
Probab=23.69 E-value=1.4e+02 Score=23.06 Aligned_cols=39 Identities=18% Similarity=0.269 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 83 LEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEK 122 (172)
Q Consensus 83 Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k 122 (172)
+=.++..+|.-|.+ +..+|+.|+.|+..|.|--..|+.+
T Consensus 97 iY~d~~aWk~hr~~-ID~eIe~Lq~Ki~~LKeiR~hLk~~ 135 (145)
T PF12548_consen 97 IYQDPKAWKDHRLH-IDHEIETLQDKIKNLKEIRGHLKKK 135 (145)
T ss_pred hhcCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33455556666644 5579999999999999988888753
No 133
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=23.67 E-value=3.5e+02 Score=20.88 Aligned_cols=46 Identities=22% Similarity=0.305 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 75 ELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEK 122 (172)
Q Consensus 75 EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k 122 (172)
|...|+..-.....+|+.|+..+- ++..-+.=.+.|-+.|+.+...
T Consensus 2 ~~~~Le~ek~~~~~rI~~K~~~Lq--EL~~Q~va~knLv~RN~~~~~~ 47 (142)
T PF08781_consen 2 ECEELEEEKQRRRERIKKKKEQLQ--ELILQQVAFKNLVQRNRQLEQS 47 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHS
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHhhhc
Confidence 566778777788888877765221 1112222366777788777654
No 134
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=23.65 E-value=2.1e+02 Score=18.29 Aligned_cols=19 Identities=21% Similarity=0.412 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030748 101 QIAQLKEKGKVLEAENTRL 119 (172)
Q Consensus 101 qi~~lkkk~~~L~eeN~~L 119 (172)
.+..|......|..++..|
T Consensus 34 ~~~~L~~en~~L~~~~~~L 52 (64)
T PF00170_consen 34 KVEELESENEELKKELEQL 52 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333
No 135
>KOG4001 consensus Axonemal dynein light chain [Cytoskeleton]
Probab=23.33 E-value=4.4e+02 Score=21.92 Aligned_cols=23 Identities=22% Similarity=0.289 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q 030748 103 AQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 103 ~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
.+++.....|.+-|+.|+.+++-
T Consensus 231 kk~~eei~fLk~tN~qLKaQLeg 253 (259)
T KOG4001|consen 231 KKMKEEIEFLKETNRQLKAQLEG 253 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 35566677788888888888764
No 136
>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=23.06 E-value=3e+02 Score=20.01 Aligned_cols=54 Identities=13% Similarity=0.214 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
++|++|+..+-......-... ..-..++..+++.+.++...|++-...|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (126)
T cd04785 57 GFSLEEIRALLALSDRPDRSC-AEADAIARAHLADVRARIADLRRLEAELKRMVA 110 (126)
T ss_pred CCCHHHHHHHHhhhhcCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888887654332211111 222456777888888888888887777776664
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=23.05 E-value=3e+02 Score=21.41 Aligned_cols=87 Identities=17% Similarity=0.218 Sum_probs=44.2
Q ss_pred hhhhhhcccCCceEEEEecC-CCCcc-ccccc---ccccCCCC-----------CCCCHHHHHHHHHHHHHHHHHHHHHH
Q 030748 31 KAFELSVLCDAEVAVIIFSP-RGKLS-EFASS---RKLLGEGL-----------ASCTLEELQQIERQLEKSVSNIRARK 94 (172)
Q Consensus 31 Ka~Els~Lc~~~v~~i~~s~-~g~~~-~f~sp---R~l~GedL-----------~~ls~~EL~~LE~~Le~~l~~IR~rK 94 (172)
+..|+|-+||+.+..|.|-. .|-+. ..-++ |.+.-+++ -+++++|+..+-..... ..
T Consensus 3 ~I~evA~~~gvs~~tLRyYe~~GLl~p~~r~~~gyR~Y~~~dl~rL~~I~~lr~~G~sL~eI~~ll~~~~~-------~~ 75 (172)
T cd04790 3 TISQLARQFGLSRSTLLYYERIGLLSPSARSESNYRLYGERDLERLEQICAYRSAGVSLEDIRSLLQQPGD-------DA 75 (172)
T ss_pred CHHHHHHHHCcCHHHHHHHHHCCCCCCCccCCCCCccCCHHHHHHHHHHHHHHHcCCCHHHHHHHHhcCCh-------hH
Confidence 35678888888877665543 22211 11111 22211111 25677777765443222 12
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 95 NQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 95 ~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
..++.+++..+.++...|++.-..|...+.
T Consensus 76 ~~~L~~~~~~l~~ei~~L~~~~~~l~~ll~ 105 (172)
T cd04790 76 TDVLRRRLAELNREIQRLRQQQRAIATLLK 105 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666666666666655555443
No 138
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=22.99 E-value=4.1e+02 Score=24.28 Aligned_cols=43 Identities=19% Similarity=0.354 Sum_probs=22.4
Q ss_pred CCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 71 CTLE-ELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEA 114 (172)
Q Consensus 71 ls~~-EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~e 114 (172)
|.++ .+..||.+++..-. +-....--+.++|..|+++...+.+
T Consensus 76 l~fe~pi~ele~ki~el~~-~~~~~~~~~~~ei~~l~~~~~~~~~ 119 (431)
T PLN03230 76 LPFEKPIVDLENRIDEVRE-LANKTGVDFSAQIAELEERYDQVRR 119 (431)
T ss_pred cchhhHHHHHHHHHHHHHh-hhhcccccHHHHHHHHHHHHHHHHH
Confidence 4443 57777777665322 2122223345667777666655544
No 139
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=22.20 E-value=2.2e+02 Score=18.14 Aligned_cols=22 Identities=23% Similarity=0.212 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhc
Q 030748 104 QLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 104 ~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
...+.+..|+.||..|+.++..
T Consensus 26 ~a~~rl~~l~~EN~~Lr~eL~~ 47 (52)
T PF12808_consen 26 AARKRLSKLEGENRLLRAELER 47 (52)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 4567788899999999988864
No 140
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=22.07 E-value=85 Score=30.15 Aligned_cols=58 Identities=26% Similarity=0.362 Sum_probs=35.5
Q ss_pred hcccCCceEEEEecCCCCccccccc-ccccCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 030748 36 SVLCDAEVAVIIFSPRGKLSEFASS-RKLLGEGLASCTLEELQQIERQLEKSVSNIRAR 93 (172)
Q Consensus 36 s~Lc~~~v~~i~~s~~g~~~~f~sp-R~l~GedL~~ls~~EL~~LE~~Le~~l~~IR~r 93 (172)
|||.|+-++||.|.++|..+.+-.+ -+++|-.++.+=-..|..+--.++......+..
T Consensus 374 ~VLsgvtaGVi~~d~~g~i~t~N~~ae~~l~~~~~~~~G~~lsa~ap~~~~vf~~~~a~ 432 (712)
T COG5000 374 AVLSGLTAGVIGFDNRGCITTVNPSAEQILGKPFDQLLGQSLSAIAPELEEVFAEAGAA 432 (712)
T ss_pred HHHhcCceeEEEEcCCCeeEeecchHHHHhcCChhHhhcchhhhhhhHHHHHHHHhhhh
Confidence 6999999999999999999998654 444444333221112344444444444444443
No 141
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=21.98 E-value=63 Score=23.64 Aligned_cols=55 Identities=18% Similarity=0.193 Sum_probs=32.7
Q ss_pred CCcccceeEEecCCCCccchhhhhhcchhhhhhhhhcccCCc----eEEEEecCCCCccccc
Q 030748 1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAE----VAVIIFSPRGKLSEFA 58 (172)
Q Consensus 1 mgr~ki~ik~I~~~~~R~~tf~KR~~Gl~KKa~Els~Lc~~~----v~~i~~s~~g~~~~f~ 58 (172)
|||++.+.++|-.. |...+.|+- .+.-=-+|.++.|-++ +++++.+..|--|++-
T Consensus 1 MG~rr~krr~~ik~--~~~~L~k~F-tCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls~e~e 59 (104)
T COG4888 1 MGRRRRKRRKIIKR--RPQVLPKTF-TCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLSFECE 59 (104)
T ss_pred CCcccccccccCcc--cCccCCceE-ecCccCCeeeeEEEEEecCceeEEEcccCcceEEEe
Confidence 99999988877542 111122211 1112226667766554 6778888888888774
No 142
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=21.45 E-value=1.1e+02 Score=19.55 Aligned_cols=19 Identities=37% Similarity=0.454 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030748 101 QIAQLKEKGKVLEAENTRL 119 (172)
Q Consensus 101 qi~~lkkk~~~L~eeN~~L 119 (172)
++..++++.+.++.|++.|
T Consensus 49 ~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 49 RIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 3445555555555555544
No 143
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=21.39 E-value=2.9e+02 Score=23.29 Aligned_cols=25 Identities=20% Similarity=0.231 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccc
Q 030748 103 AQLKEKGKVLEAENTRLEEKCGMEN 127 (172)
Q Consensus 103 ~~lkkk~~~L~eeN~~L~~k~~~~~ 127 (172)
++++.++..|+.||..|+.++++..
T Consensus 218 ~e~~~r~~~leken~~lr~~v~~l~ 242 (269)
T KOG3119|consen 218 DEMAHRVAELEKENEALRTQVEQLK 242 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4666777777778877777777543
No 144
>PF12537 DUF3735: Protein of unknown function (DUF3735); InterPro: IPR022535 This conserved domain is found in a subunit of a voltage dependent anion channel required for acidification and functions of the Golgi apparatus; it may function in counter-ion conductance. It belongs to the Golgi pH regulator (1.A.38 from TC) family
Probab=21.32 E-value=1.8e+02 Score=19.42 Aligned_cols=25 Identities=16% Similarity=0.298 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 73 LEELQQIERQLEKSVSNIRARKNQV 97 (172)
Q Consensus 73 ~~EL~~LE~~Le~~l~~IR~rK~~l 97 (172)
-.|+..+|..|......+.+||.++
T Consensus 47 ~~~i~~~~~~l~~t~~~l~~Kk~~l 71 (72)
T PF12537_consen 47 ESDINNAERRLWHTRDMLVEKKKRL 71 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 7789999999999999998887653
No 145
>PRK14127 cell division protein GpsB; Provisional
Probab=21.30 E-value=2.3e+02 Score=20.77 Aligned_cols=49 Identities=16% Similarity=0.343 Sum_probs=22.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 68 LASCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 68 L~~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
+.+++.+|....-+.+-.. .+.+..++..|+++...|+++...+..++.
T Consensus 20 ~RGYd~~EVD~FLd~V~~d--------ye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~ 68 (109)
T PRK14127 20 MRGYDQDEVDKFLDDVIKD--------YEAFQKEIEELQQENARLKAQVDELTKQVS 68 (109)
T ss_pred CCCCCHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3466777766544333221 122333444444444444444444444443
No 146
>PF07676 PD40: WD40-like Beta Propeller Repeat; InterPro: IPR011659 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This region appears to be related to the IPR001680 from INTERPRO repeat. This model is likely to miss copies within a sequence.; PDB: 2HQS_D 1C5K_A 2IVZ_A 2W8B_D 3IAX_A 1CRZ_A 1N6F_D 1N6D_C 1N6E_C 1K32_A ....
Probab=21.11 E-value=1.1e+02 Score=17.16 Aligned_cols=22 Identities=32% Similarity=0.448 Sum_probs=16.1
Q ss_pred CCceEEEEecCCCCcccccccc
Q 030748 40 DAEVAVIIFSPRGKLSEFASSR 61 (172)
Q Consensus 40 ~~~v~~i~~s~~g~~~~f~spR 61 (172)
+..-.-..+||+|+...|++.|
T Consensus 8 ~~~~~~p~~SpDGk~i~f~s~~ 29 (39)
T PF07676_consen 8 PGDDGSPAWSPDGKYIYFTSNR 29 (39)
T ss_dssp SSSEEEEEE-TTSSEEEEEEEC
T ss_pred CccccCEEEecCCCEEEEEecC
Confidence 3455678899999999998753
No 147
>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=21.01 E-value=3.3e+02 Score=19.71 Aligned_cols=52 Identities=17% Similarity=0.264 Sum_probs=29.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030748 70 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVLEAENTRLEEKCG 124 (172)
Q Consensus 70 ~ls~~EL~~LE~~Le~~l~~IR~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~ 124 (172)
++|++|+..+-..-... . ...-..++..+++.++++...|+.--..|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~--~-~~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~~ 108 (126)
T cd04783 57 GFTLDEIAELLELDDGT--D-CSEARELAEQKLAEVDEKIADLQRMRASLQELVS 108 (126)
T ss_pred CCCHHHHHHHHhcccCC--C-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777777654322211 0 1122356667777777777777766666665554
No 148
>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=20.97 E-value=77 Score=29.33 Aligned_cols=25 Identities=24% Similarity=0.385 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 101 QIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 101 qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
+|+.|++++..|+++...|..++..
T Consensus 32 kie~L~kql~~Lk~q~~~l~~~v~k 56 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDLNDRVDK 56 (489)
T ss_pred HHHHHHHHHHHHHHhhcccccccch
Confidence 7777777777777777676666654
No 149
>PRK00051 hisI phosphoribosyl-AMP cyclohydrolase; Reviewed
Probab=20.79 E-value=45 Score=25.22 Aligned_cols=37 Identities=22% Similarity=0.482 Sum_probs=28.2
Q ss_pred ccchh-hhhhcchhhhh---------hhhhcccCCceEEEEecCCCC
Q 030748 17 RQVTF-SKRRNGLLKKA---------FELSVLCDAEVAVIIFSPRGK 53 (172)
Q Consensus 17 R~~tf-~KR~~Gl~KKa---------~Els~Lc~~~v~~i~~s~~g~ 53 (172)
+.++| |+=|++|..|- .|+.+-||.|.-++.+.+.|.
T Consensus 45 g~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~Ll~~V~q~G~ 91 (125)
T PRK00051 45 GRAHYWSRSRQKLWRKGETSGHVQKVHEVRLDCDGDAVLLKVEQVGA 91 (125)
T ss_pred CcEEEEeCccCcccCCCCCcCCeEEEEEEEecCCCCEEEEEEEecCC
Confidence 34444 66577787665 689999999999999988774
No 150
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=20.75 E-value=2.3e+02 Score=17.70 Aligned_cols=24 Identities=33% Similarity=0.397 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 94 KNQVFNEQIAQLKEKGKVLEAENT 117 (172)
Q Consensus 94 K~~ll~~qi~~lkkk~~~L~eeN~ 117 (172)
|-+-+.++|..|++|-+.|-..+-
T Consensus 20 kiedid~qIaeLe~KR~~Lv~qHP 43 (46)
T PF08946_consen 20 KIEDIDEQIAELEAKRQRLVDQHP 43 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH--
T ss_pred hHHHHHHHHHHHHHHHHHHHHhCC
Confidence 344556778888877766665543
No 151
>PF01763 Herpes_UL6: Herpesvirus UL6 like; InterPro: IPR002660 This family consists of various proteins from the Herpesviridae that are similar to Human herpesvirus 1 (HHV-1) UL6 virion protein. UL6 is essential for cleavage and packaging of the viral genome [].; GO: 0006323 DNA packaging
Probab=20.61 E-value=2.5e+02 Score=26.48 Aligned_cols=33 Identities=27% Similarity=0.245 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 030748 95 NQVFNEQIAQLKEKGKVLEAENTRLEEKCGMEN 127 (172)
Q Consensus 95 ~~ll~~qi~~lkkk~~~L~eeN~~L~~k~~~~~ 127 (172)
.+.|.+||+++-+.+..|+++|..+..++...+
T Consensus 365 ~kcLe~qIn~qf~tIe~Lk~~n~~~~~kl~~~e 397 (557)
T PF01763_consen 365 NKCLEGQINNQFDTIEDLKEENQDLEKKLRELE 397 (557)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477888999999999999999999988887643
No 152
>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=20.40 E-value=2.3e+02 Score=17.55 Aligned_cols=31 Identities=19% Similarity=0.467 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030748 91 RARKNQVFNEQIAQLKEKGKVLEAENTRLEE 121 (172)
Q Consensus 91 R~rK~~ll~~qi~~lkkk~~~L~eeN~~L~~ 121 (172)
+.....-+..++..|......|..++..|..
T Consensus 23 kk~~~~~le~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 23 KKQREEELEQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3444556666777777777777777777754
No 153
>KOG4378 consensus Nuclear protein COP1 [Signal transduction mechanisms]
Probab=20.36 E-value=2.3e+02 Score=26.69 Aligned_cols=23 Identities=22% Similarity=0.346 Sum_probs=16.0
Q ss_pred ccceeEEecCCCCccchhhhhhc
Q 030748 4 GKTQMRRIENATSRQVTFSKRRN 26 (172)
Q Consensus 4 ~ki~ik~I~~~~~R~~tf~KR~~ 26 (172)
+++...+..|.+.+-.+|.+|-.
T Consensus 521 gn~~~~~lSN~TRns~~~~~~i~ 543 (673)
T KOG4378|consen 521 GNRRLRLLSNATRNSTPHHANIT 543 (673)
T ss_pred ccccccccccccccCCcccccCC
Confidence 45666677777777788877644
No 154
>PRK10963 hypothetical protein; Provisional
Probab=20.22 E-value=3e+02 Score=22.29 Aligned_cols=35 Identities=17% Similarity=0.008 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhc
Q 030748 91 RARKNQVFNEQIAQLKEKGKVLEA---ENTRLEEKCGM 125 (172)
Q Consensus 91 R~rK~~ll~~qi~~lkkk~~~L~e---eN~~L~~k~~~ 125 (172)
.+|+.+.+++++..|+.+...|.+ +|..+..++..
T Consensus 42 ~ErQ~~~LR~r~~~Le~~l~~Li~~A~~Ne~l~~~~~~ 79 (223)
T PRK10963 42 VEWQMARQRNHIHVLEEEMTLLMEQAIANEDLFYRLLP 79 (223)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555666666555555443 56666555553
No 155
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=20.22 E-value=5.3e+02 Score=21.76 Aligned_cols=25 Identities=40% Similarity=0.484 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Q 030748 101 QIAQLKEKGKVLEAENTRLEEKCGM 125 (172)
Q Consensus 101 qi~~lkkk~~~L~eeN~~L~~k~~~ 125 (172)
+.+..+...+.|+-||..|..++..
T Consensus 164 e~ee~~erlk~le~E~s~LeE~~~~ 188 (290)
T COG4026 164 EYEEVQERLKRLEVENSRLEEMLKK 188 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455566666666666666655543
No 156
>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=20.16 E-value=2.3e+02 Score=20.51 Aligned_cols=24 Identities=42% Similarity=0.400 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHH----HHHHHHHHHHHH
Q 030748 100 EQIAQLKEKGKV----LEAENTRLEEKC 123 (172)
Q Consensus 100 ~qi~~lkkk~~~----L~eeN~~L~~k~ 123 (172)
+|+..|+++... .+++-+.|...+
T Consensus 72 EqL~~Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 72 EQLKKLKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344455555444 445555554443
No 157
>TIGR01410 tatB twin arginine-targeting protein translocase TatB. This model represents the TatB protein of a Sec-independent system for transporting folded proteins, often with a bound redox cofactor, across the bacterial inner membrane. TatC is the multiple membrane spanning component. TatB, like the related TatA/E proteins, appears to span the membrane one time. The tat system recognizes proteins with an elongated signal sequence containing a conserved R-R in a motif approximated by RRxFLK N-terminal to the transmembrane helix. TIGRFAMs model TIGR01409 describes this twin-Arg signal sequence. A similar system, termed Delta-pH-dependent transport, operates on chloroplast-encoded proteins.
Probab=20.09 E-value=2.7e+02 Score=19.08 Aligned_cols=14 Identities=29% Similarity=0.617 Sum_probs=7.7
Q ss_pred eEEEEecCCCCcccc
Q 030748 43 VAVIIFSPRGKLSEF 57 (172)
Q Consensus 43 v~~i~~s~~g~~~~f 57 (172)
|++|+|+| .++++.
T Consensus 14 vallv~GP-~kLP~~ 27 (80)
T TIGR01410 14 VALVVLGP-ERLPVA 27 (80)
T ss_pred HHHheECc-hHHHHH
Confidence 45677766 444444
Done!