Query 025378
Match_columns 253
No_of_seqs 19 out of 21
Neff 2.2
Searched_HMMs 46136
Date Fri Mar 29 05:12:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025378.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025378hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK06975 bifunctional uroporph 87.3 3.2 7E-05 41.6 8.7 47 186-232 362-408 (656)
2 PF10805 DUF2730: Protein of u 84.5 15 0.00032 29.1 9.5 30 191-220 75-105 (106)
3 TIGR01386 cztS_silS_copS heavy 79.8 39 0.00086 29.5 11.2 14 183-196 249-262 (457)
4 cd07628 BAR_Atg24p The Bin/Amp 79.5 14 0.0003 31.4 8.2 92 146-237 8-115 (185)
5 TIGR03495 phage_LysB phage lys 78.6 40 0.00086 28.6 11.1 90 111-223 4-93 (135)
6 PF06295 DUF1043: Protein of u 78.2 13 0.00028 30.2 7.4 70 111-210 3-72 (128)
7 cd01106 HTH_TipAL-Mta Helix-Tu 78.1 7.3 0.00016 29.6 5.6 45 186-230 56-101 (103)
8 PRK11677 hypothetical protein; 77.6 13 0.00028 31.3 7.3 70 110-209 6-75 (134)
9 PRK09835 sensor kinase CusS; P 77.2 11 0.00023 33.5 7.1 17 182-198 269-285 (482)
10 PF05529 Bap31: B-cell recepto 77.0 12 0.00025 31.4 7.0 33 202-234 154-186 (192)
11 PF06008 Laminin_I: Laminin Do 77.0 23 0.00049 31.1 9.0 103 143-249 81-186 (264)
12 PRK13454 F0F1 ATP synthase sub 76.0 48 0.001 28.1 11.2 104 120-236 44-147 (181)
13 COG3105 Uncharacterized protei 75.0 6.6 0.00014 33.9 5.0 66 108-203 7-74 (138)
14 PF07889 DUF1664: Protein of u 73.2 6.5 0.00014 32.8 4.5 71 159-229 39-116 (126)
15 PRK11637 AmiB activator; Provi 73.0 84 0.0018 29.5 13.4 13 86-98 14-26 (428)
16 PRK11091 aerobic respiration c 72.8 99 0.0021 30.3 13.4 36 209-244 131-166 (779)
17 PF07889 DUF1664: Protein of u 68.8 17 0.00037 30.4 6.0 58 147-215 66-123 (126)
18 PF06120 Phage_HK97_TLTM: Tail 67.7 1.1E+02 0.0025 28.9 13.4 85 143-227 68-166 (301)
19 PF06305 DUF1049: Protein of u 67.5 15 0.00032 25.7 4.7 46 106-159 20-65 (68)
20 PF04375 HemX: HemX; InterPro 66.5 1.2E+02 0.0025 28.6 12.0 39 193-231 84-122 (372)
21 cd07624 BAR_SNX7_30 The Bin/Am 66.4 36 0.00079 29.0 7.7 95 143-237 15-124 (200)
22 COG3763 Uncharacterized protei 65.1 14 0.00031 28.8 4.6 30 108-137 8-37 (71)
23 TIGR02231 conserved hypothetic 62.1 58 0.0013 31.3 9.0 87 146-232 75-175 (525)
24 PRK10361 DNA recombination pro 61.4 1.4E+02 0.003 30.1 11.6 48 193-240 69-119 (475)
25 smart00503 SynN Syntaxin N-ter 60.7 67 0.0015 23.9 8.4 64 146-209 5-71 (117)
26 PF10506 MCC-bdg_PDZ: PDZ doma 59.6 76 0.0016 24.1 8.3 64 147-230 3-67 (67)
27 COG4942 Membrane-bound metallo 58.0 1.2E+02 0.0026 30.2 10.5 59 189-247 67-125 (420)
28 PF10828 DUF2570: Protein of u 56.9 96 0.0021 24.5 11.4 29 197-225 55-83 (110)
29 PHA02629 A-type inclusion body 53.3 32 0.00069 26.1 4.5 26 148-173 32-57 (61)
30 TIGR03785 marine_sort_HK prote 52.7 2.6E+02 0.0056 28.2 12.9 16 183-198 493-508 (703)
31 TIGR02680 conserved hypothetic 51.8 91 0.002 34.2 9.3 110 109-229 720-831 (1353)
32 PF09325 Vps5: Vps5 C terminal 49.0 1.4E+02 0.0031 24.8 8.2 91 146-236 28-135 (236)
33 PLN02372 violaxanthin de-epoxi 47.9 1.6E+02 0.0035 29.8 9.6 24 128-153 345-368 (455)
34 PRK11637 AmiB activator; Provi 47.5 1E+02 0.0022 29.0 7.8 17 146-162 44-60 (428)
35 KOG3165 Predicted nucleic-acid 47.4 7 0.00015 35.2 0.3 47 146-192 76-127 (195)
36 PRK11100 sensory histidine kin 46.9 2E+02 0.0043 25.2 12.3 19 181-199 262-280 (475)
37 PRK09174 F0F1 ATP synthase sub 46.6 2E+02 0.0044 25.2 11.9 74 123-207 69-142 (204)
38 PF11221 Med21: Subunit 21 of 46.2 1.4E+02 0.0031 24.5 7.7 72 152-228 65-141 (144)
39 PF04186 FxsA: FxsA cytoplasmi 45.6 66 0.0014 26.0 5.6 39 96-134 7-51 (119)
40 COG4942 Membrane-bound metallo 44.5 2.3E+02 0.005 28.3 10.1 119 124-242 38-194 (420)
41 cd07622 BAR_SNX4 The Bin/Amphi 43.8 1.7E+02 0.0036 25.6 8.1 96 145-240 17-126 (201)
42 cd01107 HTH_BmrR Helix-Turn-He 43.3 72 0.0016 24.6 5.3 41 189-229 60-102 (108)
43 PF08232 Striatin: Striatin fa 43.2 45 0.00097 27.5 4.4 49 127-176 11-59 (134)
44 PF12072 DUF3552: Domain of un 43.1 2.2E+02 0.0047 24.5 11.8 27 108-134 4-30 (201)
45 PF11446 DUF2897: Protein of u 42.9 28 0.0006 25.5 2.8 23 108-130 5-27 (55)
46 cd04775 HTH_Cfa-like Helix-Tur 42.8 68 0.0015 24.6 5.0 40 189-229 59-98 (102)
47 PF07763 FEZ: FEZ-like protein 42.3 69 0.0015 29.8 5.8 55 186-240 176-233 (244)
48 cd04770 HTH_HMRTR Helix-Turn-H 42.2 92 0.002 24.1 5.8 30 201-230 78-107 (123)
49 COG3851 UhpB Signal transducti 41.1 54 0.0012 33.1 5.2 42 116-162 263-306 (497)
50 PF10805 DUF2730: Protein of u 40.7 1.3E+02 0.0028 23.8 6.4 13 148-160 48-60 (106)
51 cd00179 SynN Syntaxin N-termin 39.3 1.8E+02 0.004 22.6 9.2 105 147-251 4-124 (151)
52 PF03672 UPF0154: Uncharacteri 38.5 52 0.0011 25.1 3.7 28 109-136 2-29 (64)
53 TIGR02883 spore_cwlD N-acetylm 38.2 76 0.0016 26.5 5.1 44 154-199 23-81 (189)
54 PF10186 Atg14: UV radiation r 37.9 2.3E+02 0.0051 24.1 8.0 48 147-194 61-108 (302)
55 PRK01844 hypothetical protein; 37.8 63 0.0014 25.3 4.1 28 109-136 9-36 (72)
56 PRK04778 septation ring format 37.5 4.2E+02 0.0091 26.2 11.3 44 111-154 10-53 (569)
57 PF08172 CASP_C: CASP C termin 36.3 57 0.0012 29.6 4.3 30 147-176 91-120 (248)
58 PF14487 DUF4433: Domain of un 36.2 16 0.00035 30.7 0.8 27 51-77 54-80 (205)
59 cd04790 HTH_Cfa-like_unk Helix 35.8 1E+02 0.0022 26.1 5.4 43 188-230 59-102 (172)
60 PRK13694 hypothetical protein; 35.5 45 0.00097 26.8 3.1 36 146-181 16-51 (83)
61 PF10073 DUF2312: Uncharacteri 35.2 46 0.00099 26.0 3.0 42 146-187 8-49 (74)
62 cd04788 HTH_NolA-AlbR Helix-Tu 34.0 88 0.0019 23.7 4.4 36 189-224 59-95 (96)
63 PF12718 Tropomyosin_1: Tropom 34.0 2.7E+02 0.0057 23.2 7.6 73 147-227 26-98 (143)
64 PF05957 DUF883: Bacterial pro 33.8 29 0.00062 26.2 1.7 20 108-127 73-94 (94)
65 COG3750 Uncharacterized protei 33.4 75 0.0016 25.7 4.0 42 146-187 18-59 (85)
66 PF06160 EzrA: Septation ring 33.2 3.8E+02 0.0082 26.7 9.7 45 111-155 6-50 (560)
67 PRK14827 undecaprenyl pyrophos 33.1 2E+02 0.0043 27.2 7.4 32 169-200 147-184 (296)
68 cd04784 HTH_CadR-PbrR Helix-Tu 32.9 1.5E+02 0.0032 23.3 5.7 30 201-230 78-107 (127)
69 PRK00523 hypothetical protein; 32.8 84 0.0018 24.6 4.1 29 108-136 9-37 (72)
70 PF04791 LMBR1: LMBR1-like mem 32.4 3.2E+02 0.0069 25.5 8.6 24 108-131 167-191 (471)
71 PRK10604 sensor protein RstB; 31.4 4.1E+02 0.0089 24.3 10.7 42 150-194 190-231 (433)
72 KOG2629 Peroxisomal membrane a 30.9 5E+02 0.011 25.1 12.0 95 113-231 91-197 (300)
73 PF07047 OPA3: Optic atrophy 3 30.8 1.6E+02 0.0034 24.2 5.7 34 197-230 100-133 (134)
74 PF06008 Laminin_I: Laminin Do 30.4 2.8E+02 0.0061 24.4 7.5 86 147-232 50-143 (264)
75 cd07666 BAR_SNX7 The Bin/Amphi 30.3 2.9E+02 0.0063 25.3 7.8 99 143-241 55-168 (243)
76 cd04769 HTH_MerR2 Helix-Turn-H 29.9 1.6E+02 0.0035 22.9 5.4 41 189-229 58-106 (116)
77 cd04781 HTH_MerR-like_sg6 Heli 29.9 1.8E+02 0.0038 22.8 5.6 43 188-230 57-102 (120)
78 PF08657 DASH_Spc34: DASH comp 29.4 1.6E+02 0.0035 27.1 6.1 61 87-170 154-215 (259)
79 PRK05771 V-type ATP synthase s 29.4 2.8E+02 0.006 27.7 8.1 79 150-228 44-126 (646)
80 cd04782 HTH_BltR Helix-Turn-He 29.4 1.3E+02 0.0028 22.9 4.6 36 188-223 58-95 (97)
81 PRK15048 methyl-accepting chem 29.3 5.1E+02 0.011 24.7 13.6 13 114-126 202-214 (553)
82 PF01920 Prefoldin_2: Prefoldi 29.2 2.3E+02 0.005 20.7 8.0 32 201-232 75-106 (106)
83 TIGR02043 ZntR Zn(II)-responsi 28.8 1.9E+02 0.0041 23.2 5.7 30 201-230 80-109 (131)
84 PRK06569 F0F1 ATP synthase sub 28.3 3.9E+02 0.0085 23.1 12.0 33 211-246 105-137 (155)
85 PF08614 ATG16: Autophagy prot 28.2 1.4E+02 0.003 25.4 5.1 83 144-230 69-151 (194)
86 PRK09514 zntR zinc-responsive 28.2 1.8E+02 0.0039 23.7 5.6 30 201-230 80-109 (140)
87 PRK06041 flagellar assembly pr 28.0 5.6E+02 0.012 25.7 9.9 100 141-241 90-191 (553)
88 PF01520 Amidase_3: N-acetylmu 27.7 1.3E+02 0.0028 23.9 4.5 42 155-198 22-64 (175)
89 PF11833 DUF3353: Protein of u 27.5 1.3E+02 0.0029 26.4 5.0 42 91-134 116-168 (194)
90 PRK09467 envZ osmolarity senso 27.3 4.4E+02 0.0095 23.3 13.3 44 151-197 208-251 (435)
91 cd01109 HTH_YyaN Helix-Turn-He 27.2 2.3E+02 0.005 21.8 5.8 30 201-230 78-107 (113)
92 KOG0994 Extracellular matrix g 27.1 2.4E+02 0.0051 32.5 7.7 92 108-207 1168-1262(1758)
93 PF05633 DUF793: Protein of un 26.5 3.4E+02 0.0074 26.8 8.0 69 144-225 310-378 (389)
94 cd04768 HTH_BmrR-like Helix-Tu 26.1 1.4E+02 0.0031 22.5 4.4 37 187-223 57-94 (96)
95 PF00901 Orbi_VP5: Orbivirus o 25.6 2.9E+02 0.0063 28.4 7.5 35 143-177 85-119 (508)
96 PF11853 DUF3373: Protein of u 25.6 68 0.0015 32.4 3.2 42 193-234 15-56 (489)
97 PF11353 DUF3153: Protein of u 25.5 66 0.0014 27.7 2.7 24 106-129 184-207 (209)
98 cd04787 HTH_HMRTR_unk Helix-Tu 25.4 2.3E+02 0.005 22.6 5.7 29 202-230 79-107 (133)
99 TIGR02051 MerR Hg(II)-responsi 25.1 2.3E+02 0.005 22.4 5.5 30 201-230 75-104 (124)
100 PRK09303 adaptive-response sen 24.9 5.2E+02 0.011 23.4 9.9 51 147-197 123-173 (380)
101 PRK13755 putative mercury tran 24.8 1.9E+02 0.004 25.3 5.2 28 108-135 50-81 (139)
102 PRK11463 fxsA phage T7 F exclu 24.7 1.7E+02 0.0037 24.6 5.0 35 96-130 11-51 (148)
103 PF09278 MerR-DNA-bind: MerR, 24.7 2.3E+02 0.0051 19.3 5.9 44 186-229 13-63 (65)
104 KOG1853 LIS1-interacting prote 24.6 4.5E+02 0.0098 25.6 8.2 25 210-234 148-172 (333)
105 PRK11085 magnesium/nickel/coba 24.4 5.9E+02 0.013 23.8 10.1 61 144-206 129-191 (316)
106 cd08577 PI-PLCc_GDPD_SF_unchar 24.4 28 0.00061 30.7 0.3 8 50-57 3-10 (228)
107 TIGR03185 DNA_S_dndD DNA sulfu 24.2 5.7E+02 0.012 25.6 9.2 33 144-176 204-236 (650)
108 TIGR02231 conserved hypothetic 24.0 6.4E+02 0.014 24.4 9.2 24 150-173 72-95 (525)
109 cd04783 HTH_MerR1 Helix-Turn-H 23.8 2.5E+02 0.0055 22.0 5.5 30 201-230 76-105 (126)
110 PF09090 MIF4G_like_2: MIF4G l 23.6 4.9E+02 0.011 23.0 7.8 30 159-188 143-172 (253)
111 PRK11644 sensory histidine kin 23.3 3.5E+02 0.0075 26.0 7.3 24 149-172 271-294 (495)
112 PF13600 DUF4140: N-terminal d 23.1 1.2E+02 0.0026 22.9 3.5 33 198-230 66-98 (104)
113 KOG3415 Putative Rab5-interact 23.0 1E+02 0.0022 26.6 3.3 31 91-121 37-72 (129)
114 PF04156 IncA: IncA protein; 23.0 4.3E+02 0.0093 21.7 12.0 31 145-175 84-114 (191)
115 PF03357 Snf7: Snf7; InterPro 22.9 3E+02 0.0064 21.7 5.8 66 161-232 6-71 (171)
116 PF05266 DUF724: Protein of un 22.5 1.6E+02 0.0034 25.9 4.5 20 212-231 127-146 (190)
117 PF14077 WD40_alt: Alternative 22.3 77 0.0017 23.3 2.1 19 143-161 12-30 (48)
118 PF09744 Jnk-SapK_ap_N: JNK_SA 22.1 5.1E+02 0.011 22.3 8.4 57 178-234 86-142 (158)
119 cd07598 BAR_FAM92 The Bin/Amph 22.0 5.6E+02 0.012 22.7 9.3 30 147-176 9-38 (211)
120 PF11915 DUF3433: Protein of u 22.0 1.1E+02 0.0024 22.6 3.0 22 107-128 3-24 (92)
121 PF02582 DUF155: Uncharacteris 21.9 2.9E+02 0.0062 22.9 5.8 38 149-187 84-121 (175)
122 TIGR00162 conserved hypothetic 21.9 86 0.0019 27.0 2.8 47 186-234 124-170 (188)
123 COG0357 GidB Predicted S-adeno 21.8 92 0.002 27.9 3.0 83 147-230 100-188 (215)
124 PF06005 DUF904: Protein of un 21.8 3.6E+02 0.0079 20.4 7.1 28 149-176 4-31 (72)
125 PRK10884 SH3 domain-containing 21.7 5.8E+02 0.012 22.7 8.6 20 144-163 88-107 (206)
126 PLN02678 seryl-tRNA synthetase 21.6 4.3E+02 0.0094 26.1 7.7 74 145-226 29-102 (448)
127 cd00890 Prefoldin Prefoldin is 21.5 2E+02 0.0043 21.9 4.4 35 200-234 85-119 (129)
128 KOG4421 Uncharacterized conser 21.4 32 0.0007 34.8 0.1 70 149-218 43-125 (637)
129 cd01108 HTH_CueR Helix-Turn-He 21.4 3.3E+02 0.0071 21.6 5.8 30 201-230 78-107 (127)
130 TIGR00414 serS seryl-tRNA synt 21.1 4.8E+02 0.01 25.1 7.8 26 147-172 28-53 (418)
131 PRK10404 hypothetical protein; 20.8 69 0.0015 25.6 1.8 21 107-127 79-101 (101)
132 KOG4657 Uncharacterized conser 20.6 6E+02 0.013 24.0 8.0 64 157-228 42-105 (246)
133 COG1730 GIM5 Predicted prefold 20.6 2.7E+02 0.006 23.8 5.5 40 186-225 99-138 (145)
134 PRK09039 hypothetical protein; 20.5 7.2E+02 0.016 23.4 9.5 32 203-234 138-169 (343)
135 PF05597 Phasin: Poly(hydroxya 20.5 3.4E+02 0.0073 22.8 5.9 34 167-221 95-128 (132)
136 cd07629 BAR_Atg20p The Bin/Amp 20.1 5.6E+02 0.012 21.9 7.8 44 185-228 60-104 (187)
137 COG5040 BMH1 14-3-3 family pro 20.1 1.8E+02 0.0039 27.4 4.5 52 119-172 53-109 (268)
No 1
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=87.28 E-value=3.2 Score=41.60 Aligned_cols=47 Identities=13% Similarity=0.098 Sum_probs=37.3
Q ss_pred ccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhhccc
Q 025378 186 LKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQVSP 232 (253)
Q Consensus 186 LrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL~AMQeqq 232 (253)
+..+..|...++++..+..+.+..|.+.||.++.+.|+-..++|++-
T Consensus 362 ~~~~~~e~~~~~~~~~~~~~~~~~~l~~le~~l~~~~~~~~~L~~~~ 408 (656)
T PRK06975 362 NDAQTAELRVKTEQAQASVHQLDSQFAQLDGKLADAQSAQQALEQQY 408 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455666667777778888999999999999999998888877654
No 2
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=84.54 E-value=15 Score=29.08 Aligned_cols=30 Identities=23% Similarity=0.241 Sum_probs=15.2
Q ss_pred HHHHHHHhhhhHHHHHHHhhhh-hHHHHHHH
Q 025378 191 TQAAALAQKNSEATRALAMQGD-VLEKELGE 220 (253)
Q Consensus 191 ~etaAlAqknSeatraLA~red-lLEkEL~e 220 (253)
.+.--.-+..++-++++.++-+ +||+||++
T Consensus 75 ~el~G~~~~l~~~l~~v~~~~~lLlE~~lk~ 105 (106)
T PF10805_consen 75 AELRGELKELSARLQGVSHQLDLLLENELKK 105 (106)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3333333444444555555544 46777753
No 3
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=79.85 E-value=39 Score=29.45 Aligned_cols=14 Identities=21% Similarity=0.401 Sum_probs=9.2
Q ss_pred hhhccchHHHHHHH
Q 025378 183 RKALKDPITQAAAL 196 (253)
Q Consensus 183 rRtLrdPI~etaAl 196 (253)
-.+||.|++.....
T Consensus 249 ~h~l~tpl~~~~~~ 262 (457)
T TIGR01386 249 AHELRTPLTNLLGQ 262 (457)
T ss_pred hhhhcCcHHHHHHH
Confidence 45678888865443
No 4
>cd07628 BAR_Atg24p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Atg24p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Atg24p is involved in membrane fusion events at the vacuolar surface during pexophagy. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=79.46 E-value=14 Score=31.43 Aligned_cols=92 Identities=12% Similarity=0.183 Sum_probs=57.0
Q ss_pred hHHHHHHHHHHHhHhHHHHHHHHH-------HHHHhhcceeeeeh---h-hccchHHHHHHHHhhhhHHHHHHHhh-hhh
Q 025378 146 NLVGRIEKLEEDMKSSATILRVLS-------RQLEKLGVRFRVTR---K-ALKDPITQAAALAQKNSEATRALAMQ-GDV 213 (253)
Q Consensus 146 ~l~~RiekLEe~vrs~~t~irvLS-------RqlEKLGvRfRvtr---R-tLrdPI~etaAlAqknSeatraLA~r-edl 213 (253)
.+.+.+.+||+.+...-.+...+. -.+..+|..|...- . +|-+|+...+....+.|..+..|+.. .+-
T Consensus 8 ei~e~~~~L~~~L~~l~ki~~Rl~kr~~~l~~d~~efg~~~~~L~~~E~~~L~~~l~~~~~~~~~~s~~~~~l~~~~~~~ 87 (185)
T cd07628 8 EIREKSDKLDENLTKIDKIFAKVVKRQSDLSVDYADLATQFQKLGSLESGEITEPFKIFSESLSQFSTSLRVLNKYTDEN 87 (185)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666654444433332 23334444443221 2 39999999999999999999999997 444
Q ss_pred HHHHHHHHHH----HHHHhhcccchhhh
Q 025378 214 LEKELGEIQK----VLLAMQVSPITWFY 237 (253)
Q Consensus 214 LEkEL~eiQ~----vL~AMQeqq~KQf~ 237 (253)
+..=|++..+ +-.+|....+||.+
T Consensus 88 f~~~Lkd~~~y~~s~k~~lk~R~~kq~d 115 (185)
T cd07628 88 YLTSLKDLLHYILSLKNLIKLRDQKQLD 115 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 7777777544 44445555566654
No 5
>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family. Members of this protein family are phage lysis regulatory protein, including the well-studied protein LysB (lysis protein B) of Enterobacteria phage P2. For members of this family, genes are found in phage or in prophage regions of bacterial genomes, typically near a phage lysozyme or phage holin.
Probab=78.65 E-value=40 Score=28.57 Aligned_cols=90 Identities=21% Similarity=0.068 Sum_probs=60.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhcccccCcccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchH
Q 025378 111 VVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPI 190 (253)
Q Consensus 111 ~V~LV~aV~iGaiIRrRQW~Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI 190 (253)
.+.++.+|+++.|.+ |+ . .++-+.++.-...++..-+.+..++.|++.|..--+- -=
T Consensus 4 i~l~~~a~~~~~~~~---~~-~------------~~l~~~~~~a~~~~~~~~~~l~~~~~qL~~l~~~a~~-------~~ 60 (135)
T TIGR03495 4 IVLLGLLVAGLGWQS---QR-L------------RNARADLERANRVLKAQQAELASKANQLIVLLALAKR-------NE 60 (135)
T ss_pred HHHHHHHHHHHHHHH---HH-H------------HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH-------HH
Confidence 445666666665653 31 1 2377888888888999999999999998877654321 11
Q ss_pred HHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHH
Q 025378 191 TQAAALAQKNSEATRALAMQGDVLEKELGEIQK 223 (253)
Q Consensus 191 ~etaAlAqknSeatraLA~redlLEkEL~eiQ~ 223 (253)
.+=+.+-++...+-..+++||..+|..+.|-+.
T Consensus 61 ~~Q~~Lr~~~~~~~~~l~~re~~i~rL~~ENe~ 93 (135)
T TIGR03495 61 EAQAQLRQQLAQARALLAQREQRIERLKRENED 93 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHH
Confidence 233445566677777888898888887777553
No 6
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=78.24 E-value=13 Score=30.21 Aligned_cols=70 Identities=21% Similarity=0.365 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhcccccCcccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchH
Q 025378 111 VVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPI 190 (253)
Q Consensus 111 ~V~LV~aV~iGaiIRrRQW~Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI 190 (253)
.+.||+|++||+++-|.-.... ....+||+++...-. + +---|.++.+..
T Consensus 3 ~i~lvvG~iiG~~~~r~~~~~~----------------~~q~~l~~eL~~~k~-------e-------l~~yk~~V~~HF 52 (128)
T PF06295_consen 3 IIGLVVGLIIGFLIGRLTSSNQ----------------QKQAKLEQELEQAKQ-------E-------LEQYKQEVNDHF 52 (128)
T ss_pred HHHHHHHHHHHHHHHHHhccch----------------hhHHHHHHHHHHHHH-------H-------HHHHHHHHHHHH
Confidence 5678999999988765533111 112344444432211 1 112367778888
Q ss_pred HHHHHHHhhhhHHHHHHHhh
Q 025378 191 TQAAALAQKNSEATRALAMQ 210 (253)
Q Consensus 191 ~etaAlAqknSeatraLA~r 210 (253)
.+||.+..++.+--+-|-+.
T Consensus 53 ~~ta~Ll~~l~~~Y~~l~~H 72 (128)
T PF06295_consen 53 AQTAELLDNLTQDYQKLYQH 72 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 88888888877766665544
No 7
>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=78.13 E-value=7.3 Score=29.59 Aligned_cols=45 Identities=18% Similarity=0.266 Sum_probs=36.9
Q ss_pred ccchHHHHHHHHhhh-hHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 186 LKDPITQAAALAQKN-SEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 186 LrdPI~etaAlAqkn-SeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
+--||.+.+...+.. .+....|..+..-|++|+.++++.+..+++
T Consensus 56 ~g~~l~~i~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 101 (103)
T cd01106 56 LGFSLKEIKELLKDPSEDLLEALREQKELLEEKKERLDKLIKTIDR 101 (103)
T ss_pred cCCCHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445777777766665 788889999999999999999999888764
No 8
>PRK11677 hypothetical protein; Provisional
Probab=77.62 E-value=13 Score=31.33 Aligned_cols=70 Identities=24% Similarity=0.310 Sum_probs=39.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhhcccccCcccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccch
Q 025378 110 GVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDP 189 (253)
Q Consensus 110 g~V~LV~aV~iGaiIRrRQW~Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdP 189 (253)
.++.||+|++||+++-|.-- . +....-.+...+++.++++. =-|.++-|.
T Consensus 6 a~i~livG~iiG~~~~R~~~-----~----~~~~q~~le~eLe~~k~ele---------------------~YkqeV~~H 55 (134)
T PRK11677 6 ALIGLVVGIIIGAVAMRFGN-----R----KLRQQQALQYELEKNKAELE---------------------EYRQELVSH 55 (134)
T ss_pred HHHHHHHHHHHHHHHHhhcc-----c----hhhHHHHHHHHHHHHHHHHH---------------------HHHHHHHHH
Confidence 34678889999988876311 1 10112223333333333332 235667777
Q ss_pred HHHHHHHHhhhhHHHHHHHh
Q 025378 190 ITQAAALAQKNSEATRALAM 209 (253)
Q Consensus 190 I~etaAlAqknSeatraLA~ 209 (253)
..+||.|..+..+.-+-|-+
T Consensus 56 Fa~TA~Ll~~L~~~Y~~Ly~ 75 (134)
T PRK11677 56 FARSAELLDTMAKDYRQLYQ 75 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 77888877777776665544
No 9
>PRK09835 sensor kinase CusS; Provisional
Probab=77.22 E-value=11 Score=33.51 Aligned_cols=17 Identities=18% Similarity=0.374 Sum_probs=11.0
Q ss_pred ehhhccchHHHHHHHHh
Q 025378 182 TRKALKDPITQAAALAQ 198 (253)
Q Consensus 182 trRtLrdPI~etaAlAq 198 (253)
.-.+|+.|+......++
T Consensus 269 laheL~tpl~~i~~~~~ 285 (482)
T PRK09835 269 IAHEIRTPITNLITQTE 285 (482)
T ss_pred HHHHhhhhHHHHHHHHH
Confidence 34577888887655443
No 10
>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=77.00 E-value=12 Score=31.40 Aligned_cols=33 Identities=24% Similarity=0.272 Sum_probs=25.3
Q ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHhhcccch
Q 025378 202 EATRALAMQGDVLEKELGEIQKVLLAMQVSPIT 234 (253)
Q Consensus 202 eatraLA~redlLEkEL~eiQ~vL~AMQeqq~K 234 (253)
+....+....+-|++||.+.++-+.||++|...
T Consensus 154 ~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~ 186 (192)
T PF05529_consen 154 EENKKLSEEIEKLKKELEKKEKEIEALKKQSEG 186 (192)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344456677788999999999999999887543
No 11
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=76.98 E-value=23 Score=31.14 Aligned_cols=103 Identities=21% Similarity=0.163 Sum_probs=76.2
Q ss_pred ccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcc-eeeeehhhccchHHHHHHHHhhhhHHH--HHHHhhhhhHHHHHH
Q 025378 143 ESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGV-RFRVTRKALKDPITQAAALAQKNSEAT--RALAMQGDVLEKELG 219 (253)
Q Consensus 143 ~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGv-RfRvtrRtLrdPI~etaAlAqknSeat--raLA~redlLEkEL~ 219 (253)
.......|...|+..+..+..-|..+-.+++.+|. -+-....+ +.+..+.|+.+=+.. |-+..+...-|.|++
T Consensus 81 ~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~----l~~~l~ea~~mL~emr~r~f~~~~~~Ae~El~ 156 (264)
T PF06008_consen 81 NTERTLQRAQDLEQFIQNLQDNIQELIEQVESLNENGDQLPSED----LQRALAEAQRMLEEMRKRDFTPQRQNAEDELK 156 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHH----HHHHHHHHHHHHHHHHhccchhHHHHHHHHHH
Confidence 34457789999999999999999999999999998 22222222 233344444444444 346788899999999
Q ss_pred HHHHHHHHhhcccchhhhhhhhHHHhhhhh
Q 025378 220 EIQKVLLAMQVSPITWFYHLSVLTVSIWNQ 249 (253)
Q Consensus 220 eiQ~vL~AMQeqq~KQf~~LS~l~~~~~~~ 249 (253)
+-++.|..+|..-.|.-+=...|.-.||+.
T Consensus 157 ~A~~LL~~v~~~~~~~~~~~~~l~~~i~~~ 186 (264)
T PF06008_consen 157 EAEDLLSRVQKWFQKPQQENESLAEAIRDD 186 (264)
T ss_pred HHHHHHHHHHHHHhhHHHhhHHHHHHHHHH
Confidence 999999999988666666777777778764
No 12
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=76.02 E-value=48 Score=28.11 Aligned_cols=104 Identities=13% Similarity=0.133 Sum_probs=68.6
Q ss_pred HHHHHHHHHHHHHhhhcccccCcccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhh
Q 025378 120 IGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQK 199 (253)
Q Consensus 120 iGaiIRrRQW~Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqk 199 (253)
+-.++.+--|..+.+. +-.|=.++++++...-..-+-....+++.--...-.|..-+.=|.++.+.+++
T Consensus 44 L~~ll~k~l~~PI~~~-----------l~~R~~~I~~~l~~Ae~~~~eA~~~~~eye~~L~~Ar~EA~~ii~~A~~ea~~ 112 (181)
T PRK13454 44 IYFVLTRVALPRIGAV-----------LAERQGTITNDLAAAEELKQKAVEAEKAYNKALADARAEAQRIVAETRAEIQA 112 (181)
T ss_pred HHHHHHHHHHHHHHHH-----------HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344566677666554 66777777777776666655555555555555566677777777788788887
Q ss_pred hhHHHHHHHhhhhhHHHHHHHHHHHHHHhhcccchhh
Q 025378 200 NSEATRALAMQGDVLEKELGEIQKVLLAMQVSPITWF 236 (253)
Q Consensus 200 nSeatraLA~redlLEkEL~eiQ~vL~AMQeqq~KQf 236 (253)
..+..+.-|.++ .++.+.+.++-+..+..+-.+++
T Consensus 113 ~~~~~~~~A~~e--~~~~~aea~~~I~~~k~~a~~~l 147 (181)
T PRK13454 113 ELDVAIAKADAE--IAAKAAESEKRIAEIRAGALESV 147 (181)
T ss_pred HHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 777777766544 67777777777766666655554
No 13
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=74.99 E-value=6.6 Score=33.89 Aligned_cols=66 Identities=26% Similarity=0.379 Sum_probs=37.7
Q ss_pred hhhh--HHHHHHHHHHHHHHHHHHHHHhhhcccccCcccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhh
Q 025378 108 ACGV--VSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKA 185 (253)
Q Consensus 108 vwg~--V~LV~aV~iGaiIRrRQW~Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRt 185 (253)
+|.+ ..||+||+||++|-|.-- ..-+-+ . .+-++|||+-.++=--|++
T Consensus 7 ~W~~a~igLvvGi~IG~li~Rlt~-----~~~k~q-----------~--------------~~q~ELe~~K~~ld~~rqe 56 (138)
T COG3105 7 TWEYALIGLVVGIIIGALIARLTN-----RKLKQQ-----------Q--------------KLQYELEKVKAQLDEYRQE 56 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcc-----hhhhhH-----------H--------------HHHHHHHHHHHHHHHHHHH
Confidence 4554 568999999999966422 111111 1 2334555555555555666
Q ss_pred ccchHHHHHHHHhhhhHH
Q 025378 186 LKDPITQAAALAQKNSEA 203 (253)
Q Consensus 186 LrdPI~etaAlAqknSea 203 (253)
|-+..+++|.+-++..+-
T Consensus 57 l~~HFa~sAeLlktl~~d 74 (138)
T COG3105 57 LVKHFARSAELLKTLAQD 74 (138)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 666777777665554443
No 14
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=73.18 E-value=6.5 Score=32.80 Aligned_cols=71 Identities=15% Similarity=0.300 Sum_probs=48.9
Q ss_pred HhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhh-------hhhHHHHHHHHHHHHHHhh
Q 025378 159 KSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQ-------GDVLEKELGEIQKVLLAMQ 229 (253)
Q Consensus 159 rs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqknSeatraLA~r-------edlLEkEL~eiQ~vL~AMQ 229 (253)
|++..++..++.|||++.-..+-|||.|..-|..+-.--.++-|++...... -+.+-.|+.++|.++..|.
T Consensus 39 r~m~~A~~~v~kql~~vs~~l~~tKkhLsqRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le 116 (126)
T PF07889_consen 39 RSMSDAVASVSKQLEQVSESLSSTKKHLSQRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQIGDDVDSVQQMVEGLE 116 (126)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 7788899999999999999999999999877776665555555555443222 2234455555555555543
No 15
>PRK11637 AmiB activator; Provisional
Probab=72.98 E-value=84 Score=29.52 Aligned_cols=13 Identities=15% Similarity=0.332 Sum_probs=6.0
Q ss_pred cCCCCChhhHHHH
Q 025378 86 TNDNFNLDSLLSI 98 (253)
Q Consensus 86 ~s~~~~~DslLS~ 98 (253)
.+..|...-++++
T Consensus 14 ~~~~~~~~~~~~~ 26 (428)
T PRK11637 14 KPRRFAIRPILYA 26 (428)
T ss_pred cchhhhhhhHHHH
Confidence 3444555444443
No 16
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=72.81 E-value=99 Score=30.29 Aligned_cols=36 Identities=11% Similarity=0.046 Sum_probs=22.4
Q ss_pred hhhhhHHHHHHHHHHHHHHhhcccchhhhhhhhHHH
Q 025378 209 MQGDVLEKELGEIQKVLLAMQVSPITWFYHLSVLTV 244 (253)
Q Consensus 209 ~redlLEkEL~eiQ~vL~AMQeqq~KQf~~LS~l~~ 244 (253)
.-.+.|++++.+.+....+++++++..-.++.-+..
T Consensus 131 ~~~~~L~~~i~~r~~~~~~l~~~~~~l~~il~~~~~ 166 (779)
T PRK11091 131 EAFEQLKNEIKEREETQIELEQQSSLLRSFLDASPD 166 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcc
Confidence 334567788888777777777666555455544433
No 17
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=68.83 E-value=17 Score=30.38 Aligned_cols=58 Identities=14% Similarity=0.313 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHH
Q 025378 147 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLE 215 (253)
Q Consensus 147 l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqknSeatraLA~redlLE 215 (253)
|.+||+.|...++.+.++...+-.+|..+ ++-+.+.-.-.+.--.++..|..+.+.+|
T Consensus 66 LsqRId~vd~klDe~~ei~~~i~~eV~~v-----------~~dv~~i~~dv~~v~~~V~~Le~ki~~ie 123 (126)
T PF07889_consen 66 LSQRIDRVDDKLDEQKEISKQIKDEVTEV-----------REDVSQIGDDVDSVQQMVEGLEGKIDEIE 123 (126)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHH-----------HhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45666666666666666666666666543 23334444444444445555544444444
No 18
>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12).
Probab=67.68 E-value=1.1e+02 Score=28.90 Aligned_cols=85 Identities=26% Similarity=0.312 Sum_probs=55.5
Q ss_pred ccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccch---H--------HHHHHHHhhhhHHHHHHHhhh
Q 025378 143 ESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDP---I--------TQAAALAQKNSEATRALAMQG 211 (253)
Q Consensus 143 ~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdP---I--------~etaAlAqknSeatraLA~re 211 (253)
+...|..-+.|+++++...-..|.-+-++++.|--...-.-+.+.+| + ...+....+.+++++.|+.-+
T Consensus 68 s~~ql~~~~~k~~~si~~q~~~i~~l~~~i~~l~~~i~~y~~~~~~~~~~~~~~~~n~~~~~~~~t~~la~~t~~L~~~~ 147 (301)
T PF06120_consen 68 SSTQLRANIAKAEESIAAQKRAIEDLQKKIDSLKDQIKNYQQQLAEKGITENGYIINHLMSQADATRKLAEATRELAVAQ 147 (301)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677888888888888777777777777775544332222333333 1 233456778889999999888
Q ss_pred hhHHHHH---HHHHHHHHH
Q 025378 212 DVLEKEL---GEIQKVLLA 227 (253)
Q Consensus 212 dlLEkEL---~eiQ~vL~A 227 (253)
+.||+.. .++|++|-.
T Consensus 148 ~~l~q~~~k~~~~q~~l~~ 166 (301)
T PF06120_consen 148 ERLEQMQSKASETQATLND 166 (301)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 8887764 456666543
No 19
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=67.52 E-value=15 Score=25.70 Aligned_cols=46 Identities=15% Similarity=0.250 Sum_probs=25.6
Q ss_pred HhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcccccCcccchHHHHHHHHHHHhH
Q 025378 106 VLACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMK 159 (253)
Q Consensus 106 ~~vwg~V~LV~aV~iGaiIRrRQW~Ri~~~~gr~~gr~~~~l~~RiekLEe~vr 159 (253)
..+|-.+.++.|+++|.++-.-.+.+.-.+.. .+..+++++|+++.
T Consensus 20 l~l~il~~f~~G~llg~l~~~~~~~~~r~~~~--------~~~k~l~~le~e~~ 65 (68)
T PF06305_consen 20 LGLLILIAFLLGALLGWLLSLPSRLRLRRRIR--------RLRKELKKLEKELE 65 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHH
Confidence 34455555666666666554444433333321 25568888888765
No 20
>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2.1.1.107 from EC) []; however, there is no direct evidence to support this annotation for these proteins, which come from mainly pathogenic Gram-negative organisms. There is some evidence to suggest that the proteins are membrane anchored as they have a predicted N-terminal signal peptide and transmembrane domain and may be involved in haem transport [].
Probab=66.52 E-value=1.2e+02 Score=28.59 Aligned_cols=39 Identities=23% Similarity=0.313 Sum_probs=25.5
Q ss_pred HHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhhcc
Q 025378 193 AAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQVS 231 (253)
Q Consensus 193 taAlAqknSeatraLA~redlLEkEL~eiQ~vL~AMQeq 231 (253)
...+.++..+....+..+.+-+|+.+.++|.-+.++...
T Consensus 84 l~~~~~~~~~~~~~l~~~l~~~~~~l~~l~~~~~~l~~~ 122 (372)
T PF04375_consen 84 LRQLQKQQQEQLQQLQQELAQLQQQLAELQQQLAALSQR 122 (372)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 333445556666667777777777777777777666554
No 21
>cd07624 BAR_SNX7_30 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 7 and 30. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX7, SNX30, and similar proteins. The specific functions of SNX7 and SNX30 have not been elucidated. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=66.43 E-value=36 Score=29.04 Aligned_cols=95 Identities=13% Similarity=0.083 Sum_probs=64.2
Q ss_pred ccchHHHHHHHHHHHhHhHHHHHHHHH-------HHHHhhcceeeeeh---hhccchHHHHHHHHhhhhHHHHHHHhhhh
Q 025378 143 ESVNLVGRIEKLEEDMKSSATILRVLS-------RQLEKLGVRFRVTR---KALKDPITQAAALAQKNSEATRALAMQGD 212 (253)
Q Consensus 143 ~~~~l~~RiekLEe~vrs~~t~irvLS-------RqlEKLGvRfRvtr---RtLrdPI~etaAlAqknSeatraLA~red 212 (253)
.=..+.+.|.+||+.+...-.+..++. -.+..+|..|...- ..|.+||..++....+.+.++..|+...+
T Consensus 15 eF~e~~eyi~~L~~~l~~~~kv~~Rl~kr~~el~~~~~efg~~~~~ls~~E~~L~~~L~~~~~~~~~~~~~~~~l~~~~~ 94 (200)
T cd07624 15 EFDKMNEYLTLFGEKLGTIERISQRIHKERIEYFDELKEYSPIFQLWSASETELAPLLEGVSSAVERCTAALEVLLSDHE 94 (200)
T ss_pred cHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345577788888888877665555443 34455565555432 26899999999999999999999999877
Q ss_pred -hHHHHHHHHHHHHHH----hhcccchhhh
Q 025378 213 -VLEKELGEIQKVLLA----MQVSPITWFY 237 (253)
Q Consensus 213 -lLEkEL~eiQ~vL~A----MQeqq~KQf~ 237 (253)
-+..=|+|.-....+ |....+||.+
T Consensus 95 ~~f~e~Lkey~~y~~svk~~l~~R~~~q~~ 124 (200)
T cd07624 95 FVFLPPLREYLLYSDAVKDVLKRRDQFQIE 124 (200)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466667665444443 3444445543
No 22
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=65.15 E-value=14 Score=28.80 Aligned_cols=30 Identities=23% Similarity=0.339 Sum_probs=27.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 025378 108 ACGVVSLVCGVWIGAIIRRRQWRRVCGEKA 137 (253)
Q Consensus 108 vwg~V~LV~aV~iGaiIRrRQW~Ri~~~~g 137 (253)
+|..+-|++|++.|.+|-||+-....+++-
T Consensus 8 l~ivl~ll~G~~~G~fiark~~~k~lk~NP 37 (71)
T COG3763 8 LLIVLALLAGLIGGFFIARKQMKKQLKDNP 37 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 788899999999999999999999888853
No 23
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=62.14 E-value=58 Score=31.31 Aligned_cols=87 Identities=21% Similarity=0.250 Sum_probs=48.2
Q ss_pred hHHHHHHHHHHHhHhHH---HHHHHHHHHHHhhcceee-eehhh---ccchHHHHHHHHhhhhHH-------HHHHHhhh
Q 025378 146 NLVGRIEKLEEDMKSSA---TILRVLSRQLEKLGVRFR-VTRKA---LKDPITQAAALAQKNSEA-------TRALAMQG 211 (253)
Q Consensus 146 ~l~~RiekLEe~vrs~~---t~irvLSRqlEKLGvRfR-vtrRt---LrdPI~etaAlAqknSea-------traLA~re 211 (253)
.|..+|++||..+...- .++..--..|+.++-... -.+.. -..++.+..+..+-..+. .+.+..++
T Consensus 75 ~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (525)
T TIGR02231 75 ELRKQIRELEAELRDLEDRGDALKALAKFLEDIREGLTEPIKDSAKRNEPDLKEWFQAFDFNGSEIERLLTEDREAERRI 154 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46667777777665553 344444455677664321 11110 123566666655444444 45666666
Q ss_pred hhHHHHHHHHHHHHHHhhccc
Q 025378 212 DVLEKELGEIQKVLLAMQVSP 232 (253)
Q Consensus 212 dlLEkEL~eiQ~vL~AMQeqq 232 (253)
+-+++||.++|.-|.++....
T Consensus 155 ~~~~~~l~~l~~~l~~l~~~~ 175 (525)
T TIGR02231 155 RELEKQLSELQNELNALLTGK 175 (525)
T ss_pred HHHHHHHHHHHHHHHhhccCC
Confidence 777777777777777666543
No 24
>PRK10361 DNA recombination protein RmuC; Provisional
Probab=61.37 E-value=1.4e+02 Score=30.07 Aligned_cols=48 Identities=13% Similarity=0.096 Sum_probs=22.2
Q ss_pred HHHHHhhhhHHHHHHHhhhhhHHHHHH---HHHHHHHHhhcccchhhhhhh
Q 025378 193 AAALAQKNSEATRALAMQGDVLEKELG---EIQKVLLAMQVSPITWFYHLS 240 (253)
Q Consensus 193 taAlAqknSeatraLA~redlLEkEL~---eiQ~vL~AMQeqq~KQf~~LS 240 (253)
...+-+.+++....++.-+..||+|-. |-...|..+++.=.+||+-|+
T Consensus 69 l~~~~~~~~~~~~~~~~l~~~le~~~~~~~ek~~~l~~~~~~L~~~F~~LA 119 (475)
T PRK10361 69 VRSLQSINTSLEADLREVTTRMEAAQQHADDKIRQMINSEQRLSEQFENLA 119 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444332 233344445555566776654
No 25
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=60.66 E-value=67 Score=23.86 Aligned_cols=64 Identities=16% Similarity=0.218 Sum_probs=42.9
Q ss_pred hHHHHHHHHHHHhHhHHHHHHHHHHHHHhhccee---eeehhhccchHHHHHHHHhhhhHHHHHHHh
Q 025378 146 NLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRF---RVTRKALKDPITQAAALAQKNSEATRALAM 209 (253)
Q Consensus 146 ~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRf---RvtrRtLrdPI~etaAlAqknSeatraLA~ 209 (253)
.+...++.+..++...-+-+..|.+..+++|.-. ...+..|.+=+.++-+++++....++.|..
T Consensus 5 ~F~~~v~~I~~~I~~i~~~v~~l~~l~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~lk~l~~ 71 (117)
T smart00503 5 EFFEKVEEIRANIQKISQNVAELQKLHEELLTPPDADKELREKLERLIDDIKRLAKEIRAKLKELEK 71 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777777777777777888888887553 234555666666666666666666666543
No 26
>PF10506 MCC-bdg_PDZ: PDZ domain of MCC-2 bdg protein for Usher syndrome; InterPro: IPR019536 The entry represents a protein that has a high homology to the tumour suppressor Usher syndrome type-1C protein-binding protein 1, or known as MCC2 (mutated in colon cancer). MCC2 protein binds the first PDZ domain of AIE-75 with its C-terminal amino acids -DTFL. A possible role of MCC2 as a tumour suppressor has been put forward. The carboxyl terminus of the predicted protein was DTFL which matched the consensus motif X-S/T-X-phi (phi: hydrophobic amino acid residue) for binding to the PDZ domain of AIE-75 [, ].
Probab=59.62 E-value=76 Score=24.15 Aligned_cols=64 Identities=28% Similarity=0.293 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhh-HHHHHHHHHHHH
Q 025378 147 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDV-LEKELGEIQKVL 225 (253)
Q Consensus 147 l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqknSeatraLA~redl-LEkEL~eiQ~vL 225 (253)
|.+||++|...++-..........+-|.|-. .+-+-||++|.. |--+ --....|++.+|
T Consensus 3 L~~~ie~L~~~n~~L~~~le~~k~~se~Ls~-----------------~lgk~es~~~al---rlal~ys~r~~e~~~~l 62 (67)
T PF10506_consen 3 LKRRIEELKSQNEMLSSTLEERKQQSEELSM-----------------DLGKYESNATAL---RLALKYSERCKEAYEVL 62 (67)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHhhhHHH---HHHHHHHHHHHHHHHHH
Confidence 6789999988888777777766666666532 233445555443 1110 112677889999
Q ss_pred HHhhc
Q 025378 226 LAMQV 230 (253)
Q Consensus 226 ~AMQe 230 (253)
+||+|
T Consensus 63 lal~E 67 (67)
T PF10506_consen 63 LALVE 67 (67)
T ss_pred HHhhC
Confidence 99986
No 27
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=57.97 E-value=1.2e+02 Score=30.19 Aligned_cols=59 Identities=12% Similarity=0.029 Sum_probs=42.1
Q ss_pred hHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhhcccchhhhhhhhHHHhhh
Q 025378 189 PITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQVSPITWFYHLSVLTVSIW 247 (253)
Q Consensus 189 PI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL~AMQeqq~KQf~~LS~l~~~~~ 247 (253)
-|.+.-....+.....+..+.-.+-+++.|..+.+-+.++++|..+|.+.|..+--...
T Consensus 67 ~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~r~qr~~La~~L~A~~ 125 (420)
T COG4942 67 QLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQEREQRRRLAEQLAALQ 125 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444445555666677788899999999999999999999999888765443
No 28
>PF10828 DUF2570: Protein of unknown function (DUF2570); InterPro: IPR022538 This entry is represented by Bacteriophage IME08, pseT.3. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of proteins with unknown function.
Probab=56.85 E-value=96 Score=24.47 Aligned_cols=29 Identities=17% Similarity=0.213 Sum_probs=16.6
Q ss_pred HhhhhHHHHHHHhhhhhHHHHHHHHHHHH
Q 025378 197 AQKNSEATRALAMQGDVLEKELGEIQKVL 225 (253)
Q Consensus 197 AqknSeatraLA~redlLEkEL~eiQ~vL 225 (253)
.+.|-.++...-.+++.+++|-.+.+..+
T Consensus 55 ~~~~r~~~~~~~~~~qq~r~~~e~~~e~i 83 (110)
T PF10828_consen 55 LQQNRQAVEEQQKREQQLRQQSEERRESI 83 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555556666666666666655555444
No 29
>PHA02629 A-type inclusion body protein; Provisional
Probab=53.25 E-value=32 Score=26.10 Aligned_cols=26 Identities=23% Similarity=0.383 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhHhHHHHHHHHHHHHH
Q 025378 148 VGRIEKLEEDMKSSATILRVLSRQLE 173 (253)
Q Consensus 148 ~~RiekLEe~vrs~~t~irvLSRqlE 173 (253)
-.||+-||.++|..++.|.+|-.-+|
T Consensus 32 rk~iavleaelr~~metik~lekf~e 57 (61)
T PHA02629 32 RKIIAVLEAELRKSMETIKALEKFME 57 (61)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46899999999999999999877655
No 30
>TIGR03785 marine_sort_HK proteobacterial dedicated sortase system histidine kinase. This histidine kinase protein is paired with an adjacent response regulator (TIGR03787) gene. It co-occurs with a variant sortase enzyme (TIGR03784), usually in the same gene neighborhood, in proteobacterial species most of which are marine, and with an LPXTG motif-containing sortase target conserved protein (TIGR03788). Sortases and LPXTG proteins are far more common in Gram-positive bacteria, where sortase systems mediate attachment to the cell wall or cross-linking of pilin structures. We give this predicted sensor histidine kinase the gene symbol psdS, for Proteobacterial Dedicated Sortase system Sensor histidine kinase.
Probab=52.70 E-value=2.6e+02 Score=28.19 Aligned_cols=16 Identities=13% Similarity=0.333 Sum_probs=10.8
Q ss_pred hhhccchHHHHHHHHh
Q 025378 183 RKALKDPITQAAALAQ 198 (253)
Q Consensus 183 rRtLrdPI~etaAlAq 198 (253)
--+||.|++.....++
T Consensus 493 SHELrtPL~~I~~~le 508 (703)
T TIGR03785 493 SHELRTPVAVVRSSLE 508 (703)
T ss_pred HHHHhhHHHHHHHHHH
Confidence 3688888887655443
No 31
>TIGR02680 conserved hypothetical protein TIGR02680. Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.
Probab=51.82 E-value=91 Score=34.25 Aligned_cols=110 Identities=20% Similarity=0.241 Sum_probs=76.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhhcccccCcccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehh--hc
Q 025378 109 CGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRK--AL 186 (253)
Q Consensus 109 wg~V~LV~aV~iGaiIRrRQW~Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrR--tL 186 (253)
.|..+-..+--||+-=|.|-.+|-..+ |.+||+.|++.+...-+-+..+..+++.|.-+.+.... .|
T Consensus 720 ~G~~~k~~a~~IG~~aR~~~R~~ri~e-----------l~~~IaeL~~~i~~l~~~l~~l~~r~~~L~~e~~~~Ps~~dL 788 (1353)
T TIGR02680 720 RGAWAKPAAEYIGAAARERARLRRIAE-----------LDARLAAVDDELAELARELRALGARQRALADELAGAPSDRSL 788 (1353)
T ss_pred ecccCCcchhHhhHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCchHH
Confidence 344445567889988888877665555 78889999999888888888888888888877655444 56
Q ss_pred cchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhh
Q 025378 187 KDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQ 229 (253)
Q Consensus 187 rdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL~AMQ 229 (253)
++-..+..+...+-..+.+.++...+-+++..+..+.+--+++
T Consensus 789 ~~A~~~l~~A~~~~~~a~~~l~~a~~~l~~a~~~~~~a~~~l~ 831 (1353)
T TIGR02680 789 RAAHRRAAEAERQAESAERELARAARKAAAAAAAWKQARRELE 831 (1353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6666666666666666666676666666665555544444333
No 32
>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking. This is the C-terminal dimerisation domain [].
Probab=48.99 E-value=1.4e+02 Score=24.80 Aligned_cols=91 Identities=25% Similarity=0.268 Sum_probs=55.6
Q ss_pred hHHHHHHHHHHHhHhHHHHHHHHHHHHHhhc-------ceeee-----ehhhccchHHHHHHHHhhhhHHHHHHHhhhhh
Q 025378 146 NLVGRIEKLEEDMKSSATILRVLSRQLEKLG-------VRFRV-----TRKALKDPITQAAALAQKNSEATRALAMQGDV 213 (253)
Q Consensus 146 ~l~~RiekLEe~vrs~~t~irvLSRqlEKLG-------vRfRv-----trRtLrdPI~etaAlAqknSeatraLA~redl 213 (253)
.....+++||+.++.....+..+..+-..+| .-|.. .-..|.+++.+.+....+.+++...++..+..
T Consensus 28 ~~~~~~~~le~~Lk~l~~~~~~l~~~~~~l~~~~~e~~~~~~~la~~E~~~~l~~~l~~l~~~~~~~~~~~~~~a~~~~~ 107 (236)
T PF09325_consen 28 EIKDYVDKLEEQLKKLYKSLERLVKRRQELASALAEFGSSFSQLAKSEEEKSLSEALSQLAEAFEKISELLEEQANQEEE 107 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence 3456677777777776665555544433333 22221 12568999999999999999999998887544
Q ss_pred -----HHHHHHHHHHHHHHhhcccchhh
Q 025378 214 -----LEKELGEIQKVLLAMQVSPITWF 236 (253)
Q Consensus 214 -----LEkEL~eiQ~vL~AMQeqq~KQf 236 (253)
|..-++-+++|-.++..-..++.
T Consensus 108 ~l~~~L~ey~~~~~svk~~l~~R~~~~~ 135 (236)
T PF09325_consen 108 TLGEPLREYLRYIESVKEALNRRDKKLI 135 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444433
No 33
>PLN02372 violaxanthin de-epoxidase
Probab=47.87 E-value=1.6e+02 Score=29.80 Aligned_cols=24 Identities=17% Similarity=0.266 Sum_probs=16.5
Q ss_pred HHHHHhhhcccccCcccchHHHHHHH
Q 025378 128 QWRRVCGEKARAEGRESVNLVGRIEK 153 (253)
Q Consensus 128 QW~Ri~~~~gr~~gr~~~~l~~Riek 153 (253)
.|...+...+.=| .+.+|+.||+|
T Consensus 345 df~~F~~tDNsCg--pep~l~~~l~~ 368 (455)
T PLN02372 345 DFSDFVRTDNTCG--PEPPLLERLEK 368 (455)
T ss_pred CHHHheeeCCCCC--CCchHHHHHHH
Confidence 4777777766444 57788888765
No 34
>PRK11637 AmiB activator; Provisional
Probab=47.45 E-value=1e+02 Score=29.03 Aligned_cols=17 Identities=6% Similarity=0.337 Sum_probs=7.8
Q ss_pred hHHHHHHHHHHHhHhHH
Q 025378 146 NLVGRIEKLEEDMKSSA 162 (253)
Q Consensus 146 ~l~~RiekLEe~vrs~~ 162 (253)
++..+++.+++.+...-
T Consensus 44 ~~~~~l~~l~~qi~~~~ 60 (428)
T PRK11637 44 DNRDQLKSIQQDIAAKE 60 (428)
T ss_pred hhHHHHHHHHHHHHHHH
Confidence 34445555544444433
No 35
>KOG3165 consensus Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]
Probab=47.41 E-value=7 Score=35.19 Aligned_cols=47 Identities=30% Similarity=0.457 Sum_probs=29.3
Q ss_pred hHHHHHHHHHHHhHhHHH-----HHHHHHHHHHhhcceeeeehhhccchHHH
Q 025378 146 NLVGRIEKLEEDMKSSAT-----ILRVLSRQLEKLGVRFRVTRKALKDPITQ 192 (253)
Q Consensus 146 ~l~~RiekLEe~vrs~~t-----~irvLSRqlEKLGvRfRvtrRtLrdPI~e 192 (253)
.+..+|.-.|+-++-.-+ +---.--.|||||-+|||.=|-.|||=-|
T Consensus 76 si~~KiDi~~gmmdcl~Ak~~pcitDCVmaELEkLg~kyrvALri~kDpr~e 127 (195)
T KOG3165|consen 76 SIQNKIDLFEGMMDCLYAKCIPCITDCVMAELEKLGQKYRVALRIAKDPRFE 127 (195)
T ss_pred HHHhHHHHHHHHHHHHHhccccchhHHHHHHHHHhcchhhhhhhhhcCCccc
Confidence 345555555544443321 11122346999999999999999999543
No 36
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=46.88 E-value=2e+02 Score=25.21 Aligned_cols=19 Identities=21% Similarity=0.309 Sum_probs=13.2
Q ss_pred eehhhccchHHHHHHHHhh
Q 025378 181 VTRKALKDPITQAAALAQK 199 (253)
Q Consensus 181 vtrRtLrdPI~etaAlAqk 199 (253)
..-..|+.|++.....++.
T Consensus 262 ~~~h~l~~pl~~i~~~~~~ 280 (475)
T PRK11100 262 TLTHELKSPLAAIRGAAEL 280 (475)
T ss_pred HhhhhhcCcHHHHHHHHHH
Confidence 3457889999887665543
No 37
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=46.57 E-value=2e+02 Score=25.18 Aligned_cols=74 Identities=18% Similarity=0.238 Sum_probs=40.2
Q ss_pred HHHHHHHHHHhhhcccccCcccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhH
Q 025378 123 IIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSE 202 (253)
Q Consensus 123 iIRrRQW~Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqknSe 202 (253)
++.+--|.++.+. |-.|=.++++++...-..-.-.-..+++.--...-.|..-+.=|.++...+++..+
T Consensus 69 lL~k~~~~pI~~v-----------Le~R~~~I~~~L~~Ae~~k~eAe~~~~~ye~~L~~Ar~eA~~Ii~~Ar~ea~~~~e 137 (204)
T PRK09174 69 FMSRVILPRIGGI-----------IETRRDRIAQDLDQAARLKQEADAAVAAYEQELAQARAKAHSIAQAAREAAKAKAE 137 (204)
T ss_pred HHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4466677666554 66777777777766655544444444443333334455555555555555555544
Q ss_pred HHHHH
Q 025378 203 ATRAL 207 (253)
Q Consensus 203 atraL 207 (253)
..+.-
T Consensus 138 ~~~~~ 142 (204)
T PRK09174 138 AERAA 142 (204)
T ss_pred HHHHH
Confidence 44433
No 38
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=46.19 E-value=1.4e+02 Score=24.50 Aligned_cols=72 Identities=25% Similarity=0.359 Sum_probs=52.2
Q ss_pred HHHHHHhHhHHHHHHHHHHHHHhh-----cceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHH
Q 025378 152 EKLEEDMKSSATILRVLSRQLEKL-----GVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLL 226 (253)
Q Consensus 152 ekLEe~vrs~~t~irvLSRqlEKL-----GvRfRvtrRtLrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL~ 226 (253)
+..|+..+..++-|-..+++.|.| |+- .+=.+=....+.|..+|-++-.-+..-.+.-|+.|..++.++.
T Consensus 65 ~~~~~~~~elA~dIi~kakqIe~LIdsLPg~~-----~see~Q~~~i~~L~~E~~~~~~el~~~v~e~e~ll~~v~~~i~ 139 (144)
T PF11221_consen 65 EEFEENIKELATDIIRKAKQIEYLIDSLPGIE-----VSEEEQLKRIKELEEENEEAEEELQEAVKEAEELLKQVQELIR 139 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHSTTSS-----S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC-----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567888888888888999999887 322 1222334566778888888888887777777888888887776
Q ss_pred Hh
Q 025378 227 AM 228 (253)
Q Consensus 227 AM 228 (253)
.+
T Consensus 140 ~i 141 (144)
T PF11221_consen 140 EI 141 (144)
T ss_dssp TT
T ss_pred HH
Confidence 54
No 39
>PF04186 FxsA: FxsA cytoplasmic membrane protein ; InterPro: IPR007313 This is a bacterial family of cytoplasmic membrane proteins. It includes two transmembrane regions. The molecular function of FxsA is unknown, but in Escherichia coli its overexpression has been shown to alleviate the exclusion of phage T7 in those cells with an F plasmid.; GO: 0016020 membrane
Probab=45.64 E-value=66 Score=26.02 Aligned_cols=39 Identities=21% Similarity=0.172 Sum_probs=31.3
Q ss_pred HHHHHHHHH------HHhhhhhHHHHHHHHHHHHHHHHHHHHHhh
Q 025378 96 LSISEVLWS------RVLACGVVSLVCGVWIGAIIRRRQWRRVCG 134 (253)
Q Consensus 96 LS~aEllcl------~~~vwg~V~LV~aV~iGaiIRrRQW~Ri~~ 134 (253)
.-++|+.++ .|+.|-.+.+++..++|+++=|+|+.+.-.
T Consensus 7 ~~~~Ei~~~i~v~~~iG~~~tll~vi~t~~lG~~llr~~g~~~~~ 51 (119)
T PF04186_consen 7 YPILEIAVLILVGSWIGFLWTLLLVILTAVLGIWLLRRQGRRALR 51 (119)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 446788776 477888888899999999999998886643
No 40
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=44.50 E-value=2.3e+02 Score=28.29 Aligned_cols=119 Identities=17% Similarity=0.132 Sum_probs=71.2
Q ss_pred HHHHHHHHHhhhcc---cccCcccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhc----------cchH
Q 025378 124 IRRRQWRRVCGEKA---RAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKAL----------KDPI 190 (253)
Q Consensus 124 IRrRQW~Ri~~~~g---r~~gr~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtL----------rdPI 190 (253)
=|+.||++-...-- +.....-..|-.=|.++|+++.+.-..+......+.|+.-+.......| ++=+
T Consensus 38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~r~qr~~L 117 (420)
T COG4942 38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQEREQRRRL 117 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 36778874332210 0111233346666777777777776666666666666655544333222 2222
Q ss_pred HHHHHHH-------------------------hhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhhcccchhhhhhhhH
Q 025378 191 TQAAALA-------------------------QKNSEATRALAMQGDVLEKELGEIQKVLLAMQVSPITWFYHLSVL 242 (253)
Q Consensus 191 ~etaAlA-------------------------qknSeatraLA~redlLEkEL~eiQ~vL~AMQeqq~KQf~~LS~l 242 (253)
.+..+.+ .--...+.+++++.|-|++.++++..+=-.|..+|.++...++-.
T Consensus 118 a~~L~A~~r~g~~p~~~ll~~~eda~~~~R~ai~~~~l~~~~~~~i~~l~~~~~~l~~~~~~iaaeq~~l~~~~~eq 194 (420)
T COG4942 118 AEQLAALQRSGRNPPPALLVSPEDAQRSVRLAIYYGALNPARAERIDALKATLKQLAAVRAEIAAEQAELTTLLSEQ 194 (420)
T ss_pred HHHHHHHHhccCCCCchhhcChhhhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333 333445678899999999999999988888888888877666543
No 41
>cd07622 BAR_SNX4 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 4. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX4 is involved in recycling traffic from the sorting endosome (post-Golgi endosome) back to the late Golgi. It is also implicated in the regulation of plasma membrane receptor trafficking and interacts with receptors for EGF, insulin, platelet-derived growth factor and leptin. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and
Probab=43.84 E-value=1.7e+02 Score=25.60 Aligned_cols=96 Identities=10% Similarity=0.104 Sum_probs=58.5
Q ss_pred chHHHHHHHHHHHhHhHHHHHHHHHH-------HHHhhcceeee---ehhhccchHHHHHHHHhhhhHHHHHHHhhhhhH
Q 025378 145 VNLVGRIEKLEEDMKSSATILRVLSR-------QLEKLGVRFRV---TRKALKDPITQAAALAQKNSEATRALAMQGDVL 214 (253)
Q Consensus 145 ~~l~~RiekLEe~vrs~~t~irvLSR-------qlEKLGvRfRv---trRtLrdPI~etaAlAqknSeatraLA~redlL 214 (253)
..+...+.+|++.+...-.+.+.+.+ .+..+|..|.. .=.+|-+||..+...+...+.++..++.-++-+
T Consensus 17 ~~ikey~~~L~~~l~~iekv~~Rl~~r~~~l~~~~~e~g~~f~~ls~~E~~l~~~le~~g~~~d~~~~~~~~~~~~~~~f 96 (201)
T cd07622 17 EDLKNYSDELQTNLNNLLKVRARLAERLYGVYKIHANYGRVFSEWSAIEKEMGDGLQKAGHYMDSYAASIDNGLEDEELI 96 (201)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 34556666666666554444433332 23445555542 125899999999988888999988888777666
Q ss_pred HHHHHHHHHH----HHHhhcccchhhhhhh
Q 025378 215 EKELGEIQKV----LLAMQVSPITWFYHLS 240 (253)
Q Consensus 215 EkEL~eiQ~v----L~AMQeqq~KQf~~LS 240 (253)
..=|+|.-.. -..|--...||.+.-.
T Consensus 97 ~e~LkEy~~ya~slk~vlk~r~~~q~~~e~ 126 (201)
T cd07622 97 ADQLKEYLFFADSLRAVCKKHELLQYDLEK 126 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6666664433 3333344556665543
No 42
>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=43.31 E-value=72 Score=24.60 Aligned_cols=41 Identities=22% Similarity=0.395 Sum_probs=31.2
Q ss_pred hHHHHHHHHhhh--hHHHHHHHhhhhhHHHHHHHHHHHHHHhh
Q 025378 189 PITQAAALAQKN--SEATRALAMQGDVLEKELGEIQKVLLAMQ 229 (253)
Q Consensus 189 PI~etaAlAqkn--SeatraLA~redlLEkEL~eiQ~vL~AMQ 229 (253)
||.+...+-... .++...|..+.+-||+++.++|.....|.
T Consensus 60 sl~~i~~l~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~ 102 (108)
T cd01107 60 PLEEIKEILDADNDDELRKLLREKLAELEAEIEELQRILRLLE 102 (108)
T ss_pred CHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555444 46888899999999999999988876665
No 43
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=43.18 E-value=45 Score=27.52 Aligned_cols=49 Identities=22% Similarity=0.415 Sum_probs=31.2
Q ss_pred HHHHHHhhhcccccCcccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhc
Q 025378 127 RQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLG 176 (253)
Q Consensus 127 RQW~Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLG 176 (253)
..|.|..+....-- -+-..+.+||++||.+.++.-.+-.-|-|.+.-|=
T Consensus 11 ~Ew~r~ErdR~~We-iERaEmkarIa~LEGE~r~~e~l~~dL~rrIkMLE 59 (134)
T PF08232_consen 11 TEWHRFERDRNQWE-IERAEMKARIAFLEGERRGQENLKKDLKRRIKMLE 59 (134)
T ss_pred HHHHHHHHHHHHhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35665555521000 13445899999999999988777666666555443
No 44
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=43.08 E-value=2.2e+02 Score=24.52 Aligned_cols=27 Identities=26% Similarity=0.511 Sum_probs=20.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHhh
Q 025378 108 ACGVVSLVCGVWIGAIIRRRQWRRVCG 134 (253)
Q Consensus 108 vwg~V~LV~aV~iGaiIRrRQW~Ri~~ 134 (253)
+-.++.+++|+++|.++++.....-..
T Consensus 4 i~~i~~~~vG~~~G~~~~~~~~~~~~~ 30 (201)
T PF12072_consen 4 IIAIVALIVGIGIGYLVRKKINRKKLE 30 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345678899999999998888765433
No 45
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=42.86 E-value=28 Score=25.53 Aligned_cols=23 Identities=26% Similarity=0.303 Sum_probs=19.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHH
Q 025378 108 ACGVVSLVCGVWIGAIIRRRQWR 130 (253)
Q Consensus 108 vwg~V~LV~aV~iGaiIRrRQW~ 130 (253)
+|..+.+|.||+||-|.=.|.-+
T Consensus 5 ~wlIIviVlgvIigNia~LK~sA 27 (55)
T PF11446_consen 5 PWLIIVIVLGVIIGNIAALKYSA 27 (55)
T ss_pred hhHHHHHHHHHHHhHHHHHHHhc
Confidence 79999999999999887666543
No 46
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=42.81 E-value=68 Score=24.60 Aligned_cols=40 Identities=13% Similarity=0.223 Sum_probs=25.1
Q ss_pred hHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhh
Q 025378 189 PITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQ 229 (253)
Q Consensus 189 PI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL~AMQ 229 (253)
||.+.+......+ ....+..+.+-+|+++.++++....++
T Consensus 59 ~l~ei~~~~~~~~-~~~~l~~~~~~l~~~i~~l~~~~~~l~ 98 (102)
T cd04775 59 PLEEIAGCLAQPH-VQAILEERLQSLNREIQRLRQQQQVLA 98 (102)
T ss_pred CHHHHHHHHcCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444443322 445677778888888888887776654
No 47
>PF07763 FEZ: FEZ-like protein; InterPro: IPR011680 This is a family of eukaryotic proteins thought to be involved in axonal outgrowth and fasciculation []. The N-terminal regions of these sequences are less conserved than the C-terminal regions, and are highly acidic []. The Caenorhabditis elegans homolog, UNC-76 (Q7JNU9 from SWISSPROT), may play structural and signalling roles in the control of axonal extension and adhesion (particularly in the presence of adjacent neuronal cells []) and these roles have also been postulated for other FEZ family proteins []. Certain homologs have been definitively found to interact with the N-terminal variable region (V1) of PKC-zeta, and this interaction causes cytoplasmic translocation of the FEZ family protein in mammalian neuronal cells []. The C-terminal region probably participates in the association with the regulatory domain of PKC-zeta []. The members of this family are predicted to form coiled-coil structures [, ], which may interact with members of the RhoA family of signalling proteins [], but are not thought to contain other characteristic protein motifs []. Certain members of this family are expressed almost exclusively in the brain, whereas others (such as FEZ2, Q76LN0 from SWISSPROT) are expressed in other tissues, and are thought to perform similar but unknown functions in these tissues [].
Probab=42.28 E-value=69 Score=29.82 Aligned_cols=55 Identities=20% Similarity=0.245 Sum_probs=36.1
Q ss_pred ccchHHHHHHHHhhhhHH-HHHHHhhhhh-HHHHHHHH-HHHHHHhhcccchhhhhhh
Q 025378 186 LKDPITQAAALAQKNSEA-TRALAMQGDV-LEKELGEI-QKVLLAMQVSPITWFYHLS 240 (253)
Q Consensus 186 LrdPI~etaAlAqknSea-traLA~redl-LEkEL~ei-Q~vL~AMQeqq~KQf~~LS 240 (253)
|-+=..+.-++.+.-||- +..||.|.++ +|||++-+ =++|+++|.-|..|.++..
T Consensus 176 L~~ll~e~E~~Ir~ySEeLV~qLA~RDELefEKEvKN~FIS~Ll~VQnrqre~r~~~k 233 (244)
T PF07763_consen 176 LNELLEEMETAIREYSEELVQQLALRDELEFEKEVKNTFISLLLEVQNRQREQRELAK 233 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444454443 4468888886 79999875 5788999988776666654
No 48
>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=42.15 E-value=92 Score=24.13 Aligned_cols=30 Identities=17% Similarity=0.175 Sum_probs=23.5
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 201 SEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 201 SeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
.+....|..+.+-+|+++.+++.....++.
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 107 (123)
T cd04770 78 AEVRALLEEKLAEVEAKIAELQALRAELAG 107 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677888899999999998888776653
No 49
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=41.06 E-value=54 Score=33.14 Aligned_cols=42 Identities=24% Similarity=0.337 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHH--HHHHhhhcccccCcccchHHHHHHHHHHHhHhHH
Q 025378 116 CGVWIGAIIRRRQ--WRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSA 162 (253)
Q Consensus 116 ~aV~iGaiIRrRQ--W~Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~ 162 (253)
.|+..|+-|-|.+ -.|+.+|=+ .+-++++++-.-||++|..+
T Consensus 263 ~Gl~LGiaIqrlrelnqrL~~EL~-----~~raLaeqListEEsiRk~v 306 (497)
T COG3851 263 TGLGLGIAIQRLRELNQRLQKELA-----RNRALAEQLISTEESIRKDV 306 (497)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----HhHHHHHHHHhhHHHHHHHH
Confidence 3444555454422 126666643 34568999999999988754
No 50
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=40.70 E-value=1.3e+02 Score=23.82 Aligned_cols=13 Identities=23% Similarity=0.429 Sum_probs=6.3
Q ss_pred HHHHHHHHHHhHh
Q 025378 148 VGRIEKLEEDMKS 160 (253)
Q Consensus 148 ~~RiekLEe~vrs 160 (253)
..|+.++|..++.
T Consensus 48 ~~Rl~~lE~~l~~ 60 (106)
T PF10805_consen 48 DRRLQALETKLEH 60 (106)
T ss_pred HHHHHHHHHHHHh
Confidence 4455555554443
No 51
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=39.29 E-value=1.8e+02 Score=22.64 Aligned_cols=105 Identities=11% Similarity=0.064 Sum_probs=60.5
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHHhhccee---eeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHH-----H-
Q 025378 147 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRF---RVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEK-----E- 217 (253)
Q Consensus 147 l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRf---RvtrRtLrdPI~etaAlAqknSeatraLA~redlLEk-----E- 217 (253)
+-..+..+...+...-..+..|.+..+++|.-. ...|+.|.+=+.++-..+.+....++.|....+-+++ +
T Consensus 4 F~~~v~~I~~~i~~i~~~v~~l~~l~~~~~t~~~~~~~~~~~l~~~~~~~~~~~~~ik~~lk~l~~~~~~~~~~~~s~~~ 83 (151)
T cd00179 4 FFEEVEEIRGNIDKISEDVEELQKLHSQLLTAPDADPELKQELESLVQEIKKLAKEIKGKLKELEESNEQNEALNGSSVD 83 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHH
Confidence 444555666666666666666666666776543 3456667777777777777777777766554332211 1
Q ss_pred -HHH------HHHHHHHhhcccchhhhhhhhHHHhhhhhcc
Q 025378 218 -LGE------IQKVLLAMQVSPITWFYHLSVLTVSIWNQYR 251 (253)
Q Consensus 218 -L~e------iQ~vL~AMQeqq~KQf~~LS~l~~~~~~~~~ 251 (253)
.+. .++...+|++-|.-|-+.-..--..+..||+
T Consensus 84 r~~~~q~~~L~~~f~~~m~~fq~~Q~~~~~~~k~~i~Rq~~ 124 (151)
T cd00179 84 RIRKTQHSGLSKKFVEVMTEFNKAQRKYRERYKERIQRQLE 124 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 111 2234556666666666665555556666654
No 52
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=38.50 E-value=52 Score=25.06 Aligned_cols=28 Identities=25% Similarity=0.382 Sum_probs=23.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhhc
Q 025378 109 CGVVSLVCGVWIGAIIRRRQWRRVCGEK 136 (253)
Q Consensus 109 wg~V~LV~aV~iGaiIRrRQW~Ri~~~~ 136 (253)
+..+.|++|+++|..+-|++-..-.++.
T Consensus 2 ~iilali~G~~~Gff~ar~~~~k~l~~N 29 (64)
T PF03672_consen 2 LIILALIVGAVIGFFIARKYMEKQLKEN 29 (64)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 4567889999999999999998877764
No 53
>TIGR02883 spore_cwlD N-acetylmuramoyl-L-alanine amidase CwlD. Members of this protein family are the CwlD family of N-acetylmuramoyl-L-alanine amidase. This family has been called the germination-specific N-acetylmuramoyl-L-alanine amidase. CwlD is required, along with the putative deactylase PdaA, to make muramic delta-lactam, a novel peptidoglycan constituent found only in spores. CwlD mutants show a germination defect.
Probab=38.21 E-value=76 Score=26.52 Aligned_cols=44 Identities=25% Similarity=0.329 Sum_probs=34.1
Q ss_pred HHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccc---------------hHHHHHHHHhh
Q 025378 154 LEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKD---------------PITQAAALAQK 199 (253)
Q Consensus 154 LEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrd---------------PI~etaAlAqk 199 (253)
.|+++ ...+...+...|++.|+++-+||.+=.+ ++.|-+..|.+
T Consensus 23 ~E~~~--~l~ia~~l~~~L~~~G~~V~ltr~~d~~~~~~~~~~~~~~~~~~L~~R~~~An~ 81 (189)
T TIGR02883 23 LEKDI--TLEIALKLKDYLQEQGALVVMTREDDSDLASEGTKGYSRRKIEDLRKRVKLINE 81 (189)
T ss_pred cHHHH--HHHHHHHHHHHHHhCCCEEEEEecCCcCccccccccccccccCCHHHHHHHHHh
Confidence 57777 4577799999999999999999996543 57776666653
No 54
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=37.91 E-value=2.3e+02 Score=24.07 Aligned_cols=48 Identities=21% Similarity=0.317 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHH
Q 025378 147 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAA 194 (253)
Q Consensus 147 l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~eta 194 (253)
+...++++++.+...-..+..+-+.+++.--+..-.|..|.+.-....
T Consensus 61 ~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~ 108 (302)
T PF10186_consen 61 LKREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLS 108 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555555555555555555555555555556655555444
No 55
>PRK01844 hypothetical protein; Provisional
Probab=37.82 E-value=63 Score=25.28 Aligned_cols=28 Identities=36% Similarity=0.501 Sum_probs=24.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhhc
Q 025378 109 CGVVSLVCGVWIGAIIRRRQWRRVCGEK 136 (253)
Q Consensus 109 wg~V~LV~aV~iGaiIRrRQW~Ri~~~~ 136 (253)
...+.|++|+++|..+-|++-+...++.
T Consensus 9 l~I~~li~G~~~Gff~ark~~~k~lk~N 36 (72)
T PRK01844 9 VGVVALVAGVALGFFIARKYMMNYLQKN 36 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 4567799999999999999999888874
No 56
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=37.45 E-value=4.2e+02 Score=26.24 Aligned_cols=44 Identities=25% Similarity=0.468 Sum_probs=27.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhcccccCcccchHHHHHHHH
Q 025378 111 VVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKL 154 (253)
Q Consensus 111 ~V~LV~aV~iGaiIRrRQW~Ri~~~~gr~~gr~~~~l~~RiekL 154 (253)
++.+++++++|.|+|||.-.+|..-..+-..-...++...|.|+
T Consensus 10 ~ii~i~~~~~~~~~rr~~~~~i~~Le~~k~~l~~~pv~~el~kv 53 (569)
T PRK04778 10 VVIIIIAYLAGLILRKRNYKRIDELEERKQELENLPVNDELEKV 53 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHH
Confidence 34555666788999999888776654433333444455555543
No 57
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=36.26 E-value=57 Score=29.64 Aligned_cols=30 Identities=27% Similarity=0.460 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHHhhc
Q 025378 147 LVGRIEKLEEDMKSSATILRVLSRQLEKLG 176 (253)
Q Consensus 147 l~~RiekLEe~vrs~~t~irvLSRqlEKLG 176 (253)
+..|..+||++++..-..+..|-+.+++|-
T Consensus 91 FR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~ 120 (248)
T PF08172_consen 91 FRQRNAELEEELRKQQQTISSLRREVESLR 120 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 788999999999999999999999988873
No 58
>PF14487 DUF4433: Domain of unknown function (DUF4433)
Probab=36.22 E-value=16 Score=30.72 Aligned_cols=27 Identities=26% Similarity=0.469 Sum_probs=21.4
Q ss_pred eccCCCCceeEeeCCCcccccccCCCC
Q 025378 51 ISHNDYTPFKFIPNSKFYHSLKPNNCS 77 (253)
Q Consensus 51 ~~~n~~~~f~f~~~~~~~~~Lka~~s~ 77 (253)
..-.||.||.|.|+|.+-+.++.....
T Consensus 54 ~~l~dyVpfyf~p~spmly~i~~~~~~ 80 (205)
T PF14487_consen 54 GGLHDYVPFYFCPRSPMLYRIRHRGNH 80 (205)
T ss_pred CccccEEEEEecCCChhhhhhhccCCc
Confidence 456799999999999999888555443
No 59
>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=35.79 E-value=1e+02 Score=26.06 Aligned_cols=43 Identities=19% Similarity=0.228 Sum_probs=30.2
Q ss_pred chHHHHHHHHh-hhhHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 188 DPITQAAALAQ-KNSEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 188 dPI~etaAlAq-knSeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
-||.+..++.. .+.++...|..+.+.|++|+.++++....++.
T Consensus 59 ~sL~eI~~ll~~~~~~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ 102 (172)
T cd04790 59 VSLEDIRSLLQQPGDDATDVLRRRLAELNREIQRLRQQQRAIAT 102 (172)
T ss_pred CCHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35556555443 33456667888999999999988887777654
No 60
>PRK13694 hypothetical protein; Provisional
Probab=35.52 E-value=45 Score=26.77 Aligned_cols=36 Identities=22% Similarity=0.376 Sum_probs=21.3
Q ss_pred hHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeee
Q 025378 146 NLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRV 181 (253)
Q Consensus 146 ~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRv 181 (253)
.++.|||+||++-.....-++-.=-...--|...-+
T Consensus 16 ~fIERIERLEeEkk~i~~dikdVyaEAK~~GfD~K~ 51 (83)
T PRK13694 16 AFIERIERLEEEKKTISDDIKDVYAEAKGNGFDVKA 51 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcHHH
Confidence 488999999999555544444443333344444333
No 61
>PF10073 DUF2312: Uncharacterized protein conserved in bacteria (DUF2312); InterPro: IPR018753 This entry is represented by Azospirillum phage Cd, Gp10. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family of hypothetical bacterial proteins have no known function.
Probab=35.15 E-value=46 Score=26.04 Aligned_cols=42 Identities=21% Similarity=0.385 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhcc
Q 025378 146 NLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALK 187 (253)
Q Consensus 146 ~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLr 187 (253)
.++.|||+||++-.....-++-.=....--|...-+.|+-++
T Consensus 8 ~~ieRiErLEeEk~~i~~dikdVyaEAK~~GfD~K~lr~ii~ 49 (74)
T PF10073_consen 8 QFIERIERLEEEKKAISDDIKDVYAEAKGNGFDTKALRQIIR 49 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence 478999999999998888887777777777776665554443
No 62
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=34.02 E-value=88 Score=23.72 Aligned_cols=36 Identities=14% Similarity=0.132 Sum_probs=24.1
Q ss_pred hHHHHHHHHhhhh-HHHHHHHhhhhhHHHHHHHHHHH
Q 025378 189 PITQAAALAQKNS-EATRALAMQGDVLEKELGEIQKV 224 (253)
Q Consensus 189 PI~etaAlAqknS-eatraLA~redlLEkEL~eiQ~v 224 (253)
||.+.+.+-.... +....|..+.+.||+++.+++.+
T Consensus 59 ~l~eI~~~l~~~~~~~~~~l~~~~~~l~~~i~~l~~~ 95 (96)
T cd04788 59 SLREIGRALDGPDFDPLELLRRQLARLEEQLELATRL 95 (96)
T ss_pred CHHHHHHHHhCCChhHHHHHHHHHHHHHHHHHHHHhc
Confidence 4555544443322 56677888899999999888753
No 63
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=34.01 E-value=2.7e+02 Score=23.21 Aligned_cols=73 Identities=22% Similarity=0.288 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHH
Q 025378 147 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLL 226 (253)
Q Consensus 147 l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL~ 226 (253)
+-.|..++|+.+.+.-.=+..|--+|+++.-++.-.+ +-+.+..... ...-.|-.|..+||.||....+-|-
T Consensus 26 le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k----~~lee~~~~~----~~~E~l~rriq~LEeele~ae~~L~ 97 (143)
T PF12718_consen 26 LEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAK----EKLEESEKRK----SNAEQLNRRIQLLEEELEEAEKKLK 97 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHhHHHHH----HhHHHHHhhHHHHHHHHHHHHHHHH
Confidence 4456666677777777777777777777765443222 1112221111 1222788999999999999887764
Q ss_pred H
Q 025378 227 A 227 (253)
Q Consensus 227 A 227 (253)
-
T Consensus 98 e 98 (143)
T PF12718_consen 98 E 98 (143)
T ss_pred H
Confidence 3
No 64
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=33.78 E-value=29 Score=26.19 Aligned_cols=20 Identities=30% Similarity=0.509 Sum_probs=15.0
Q ss_pred hhhhHH--HHHHHHHHHHHHHH
Q 025378 108 ACGVVS--LVCGVWIGAIIRRR 127 (253)
Q Consensus 108 vwg~V~--LV~aV~iGaiIRrR 127 (253)
+|..|. +.+|+++|.+++||
T Consensus 73 P~~svgiAagvG~llG~Ll~RR 94 (94)
T PF05957_consen 73 PWQSVGIAAGVGFLLGLLLRRR 94 (94)
T ss_pred hHHHHHHHHHHHHHHHHHHhCC
Confidence 666654 45678999999986
No 65
>COG3750 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.45 E-value=75 Score=25.69 Aligned_cols=42 Identities=24% Similarity=0.417 Sum_probs=27.1
Q ss_pred hHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhcc
Q 025378 146 NLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALK 187 (253)
Q Consensus 146 ~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLr 187 (253)
.++.|||+|||+-.....=+.-.--.+.--|..+.+.|.-+|
T Consensus 18 afIerIERlEeEk~~i~~dikdvy~eakg~GFDvKa~r~iir 59 (85)
T COG3750 18 AFIERIERLEEEKKTIADDIKDVYAEAKGHGFDVKAVRTIIR 59 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHH
Confidence 488999999998766655555555555555655555554443
No 66
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=33.15 E-value=3.8e+02 Score=26.67 Aligned_cols=45 Identities=18% Similarity=0.299 Sum_probs=25.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhcccccCcccchHHHHHHHHH
Q 025378 111 VVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLE 155 (253)
Q Consensus 111 ~V~LV~aV~iGaiIRrRQW~Ri~~~~gr~~gr~~~~l~~RiekLE 155 (253)
+|.++++.++|.|+|||.-.++..-..+-..-...++..+|.|+.
T Consensus 6 ivi~l~~~~~~~~~rk~~~k~i~~Le~~k~~l~~~pv~~el~kvk 50 (560)
T PF06160_consen 6 IVIVLIIYIIGYIYRKRYYKEIDELEERKNELMNLPVADELSKVK 50 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 455666777788888887776655433322223444555555443
No 67
>PRK14827 undecaprenyl pyrophosphate synthase; Provisional
Probab=33.09 E-value=2e+02 Score=27.19 Aligned_cols=32 Identities=25% Similarity=0.478 Sum_probs=21.0
Q ss_pred HHHHHhhcceeeeeh------hhccchHHHHHHHHhhh
Q 025378 169 SRQLEKLGVRFRVTR------KALKDPITQAAALAQKN 200 (253)
Q Consensus 169 SRqlEKLGvRfRvtr------RtLrdPI~etaAlAqkn 200 (253)
...+.+.|||+|+.. +.+++=|.++.+..++|
T Consensus 147 ~~~~~~~~irir~iG~~~~Lp~~v~~~i~~~e~~T~~n 184 (296)
T PRK14827 147 RDNLNKMGVRIRWVGSRPRLWRSVINELAIAEEMTKSN 184 (296)
T ss_pred HHHHHHCCcEEEEEechhhCCHHHHHHHHHHHHHhcCC
Confidence 345788999999998 44555555554445444
No 68
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=32.90 E-value=1.5e+02 Score=23.32 Aligned_cols=30 Identities=13% Similarity=0.169 Sum_probs=22.8
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 201 SEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 201 SeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
.++...|..+.+.+|+++.++++....++.
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (127)
T cd04784 78 AEVNALIDEHLAHVRARIAELQALEKQLQA 107 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667888999999999998877766553
No 69
>PRK00523 hypothetical protein; Provisional
Probab=32.82 E-value=84 Score=24.58 Aligned_cols=29 Identities=21% Similarity=0.460 Sum_probs=24.3
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Q 025378 108 ACGVVSLVCGVWIGAIIRRRQWRRVCGEK 136 (253)
Q Consensus 108 vwg~V~LV~aV~iGaiIRrRQW~Ri~~~~ 136 (253)
....+.|++|+++|..+-|++-+...+++
T Consensus 9 ~l~i~~li~G~~~Gffiark~~~k~l~~N 37 (72)
T PRK00523 9 GLGIPLLIVGGIIGYFVSKKMFKKQIREN 37 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 34566789999999999999999888874
No 70
>PF04791 LMBR1: LMBR1-like membrane protein; InterPro: IPR006876 This group of uncharacterised proteins have a conserved C-terminal region which is found in LMBR1 and in the lipocalin-1 receptor. LMBR1 was thought to play a role in preaxial polydactyly, but recent evidence now suggests this not to be the case [].
Probab=32.36 E-value=3.2e+02 Score=25.55 Aligned_cols=24 Identities=25% Similarity=0.458 Sum_probs=11.3
Q ss_pred hhhhHHHHHHHHHHHH-HHHHHHHH
Q 025378 108 ACGVVSLVCGVWIGAI-IRRRQWRR 131 (253)
Q Consensus 108 vwg~V~LV~aV~iGai-IRrRQW~R 131 (253)
.||.+.++.-.-.|.. |=+.-|+.
T Consensus 167 ~~Gl~l~i~~~g~Glv~iP~~l~~~ 191 (471)
T PF04791_consen 167 FWGLFLFIILLGYGLVAIPRDLWRS 191 (471)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHh
Confidence 5555555544334421 34555543
No 71
>PRK10604 sensor protein RstB; Provisional
Probab=31.41 E-value=4.1e+02 Score=24.27 Aligned_cols=42 Identities=17% Similarity=0.271 Sum_probs=20.7
Q ss_pred HHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHH
Q 025378 150 RIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAA 194 (253)
Q Consensus 150 RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~eta 194 (253)
-+..|.+.+..++.-++.+-....++ .+..--+||-|++...
T Consensus 190 el~~L~~~fn~m~~~l~~~~~~~~~l---~~~vsHeLrtPL~~i~ 231 (433)
T PRK10604 190 SLERLGVAFNQMADNINALIASKKQL---IDGIAHELRTPLVRLR 231 (433)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhhHhhcChHHHHH
Confidence 35556666655555444332221111 2233356888887653
No 72
>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=30.92 E-value=5e+02 Score=25.14 Aligned_cols=95 Identities=25% Similarity=0.357 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHHHHHHHH--HHhhhcccccCcccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchH
Q 025378 113 SLVCGVWIGAIIRRRQWR--RVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPI 190 (253)
Q Consensus 113 ~LV~aV~iGaiIRrRQW~--Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI 190 (253)
.+.+|++-|+..+-|+|- ++..+. ...+.+=...|-+.+....+++..|.-++-+. ++=
T Consensus 91 vi~aGi~y~~y~~~K~YV~P~~l~~~-------~~k~e~~k~~Ld~~~~~~~~~~~~l~~~va~v-----------~q~- 151 (300)
T KOG2629|consen 91 VILAGIAYAAYRFVKSYVLPRFLGES-------KDKLEADKRQLDDQFDKAAKSLNALMDEVAQV-----------SQL- 151 (300)
T ss_pred HHHhhHHHHHHHHHHHHHHHHhhCcc-------chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHH-
Confidence 445678888888888885 333221 11244444555555555566665555554332 111
Q ss_pred HHHHHHHhhhhHHHHHHHh----------hhhhHHHHHHHHHHHHHHhhcc
Q 025378 191 TQAAALAQKNSEATRALAM----------QGDVLEKELGEIQKVLLAMQVS 231 (253)
Q Consensus 191 ~etaAlAqknSeatraLA~----------redlLEkEL~eiQ~vL~AMQeq 231 (253)
++++.+|.-++|+. -.+-||.|+.-|-..|+-|+.-
T Consensus 152 -----~~~qq~Els~~L~~l~~~~~~~s~~~~k~esei~~Ik~lvln~~~f 197 (300)
T KOG2629|consen 152 -----LATQQSELSRALASLKNTLVQLSRNIEKLESEINTIKQLVLNMSNF 197 (300)
T ss_pred -----HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhccccc
Confidence 22222233333333 3556999999999999999753
No 73
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=30.82 E-value=1.6e+02 Score=24.16 Aligned_cols=34 Identities=21% Similarity=0.269 Sum_probs=17.9
Q ss_pred HhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 197 AQKNSEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 197 AqknSeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
+.|.+.--..+.++.+-||.++.+++..+.-||+
T Consensus 100 ~~ke~~Ke~~~~~~l~~L~~~i~~L~~~~~~~~~ 133 (134)
T PF07047_consen 100 ARKEAKKEEELQERLEELEERIEELEEQVEKQQE 133 (134)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3333333344555566666666666665555543
No 74
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=30.42 E-value=2.8e+02 Score=24.39 Aligned_cols=86 Identities=23% Similarity=0.251 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhh---ccchHHHHHHHHhhhhHHHHHHHh-----hhhhHHHHH
Q 025378 147 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKA---LKDPITQAAALAQKNSEATRALAM-----QGDVLEKEL 218 (253)
Q Consensus 147 l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRt---LrdPI~etaAlAqknSeatraLA~-----redlLEkEL 218 (253)
+-.-+..|++++...-.=+...++..+++....--|... |..=|..+....+..-+-+..+.. ...=|.+.+
T Consensus 50 ~e~~l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l 129 (264)
T PF06008_consen 50 LEKELESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVESLNENGDQLPSEDLQRAL 129 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHH
Confidence 444466666666665555555566666655443333322 222333333333333333334444 455678899
Q ss_pred HHHHHHHHHhhccc
Q 025378 219 GEIQKVLLAMQVSP 232 (253)
Q Consensus 219 ~eiQ~vL~AMQeqq 232 (253)
+|++..|..|+..+
T Consensus 130 ~ea~~mL~emr~r~ 143 (264)
T PF06008_consen 130 AEAQRMLEEMRKRD 143 (264)
T ss_pred HHHHHHHHHHHhcc
Confidence 99999999998764
No 75
>cd07666 BAR_SNX7 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 7. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. The specific function of SNX7 is still unknown. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=30.26 E-value=2.9e+02 Score=25.27 Aligned_cols=99 Identities=12% Similarity=0.119 Sum_probs=63.2
Q ss_pred ccchHHHHHHHHHHHhHhHHHHHHHHHHHH-------Hhhcceeee---ehhhccchHHHHHHHHhhhhHHHHH-HHhhh
Q 025378 143 ESVNLVGRIEKLEEDMKSSATILRVLSRQL-------EKLGVRFRV---TRKALKDPITQAAALAQKNSEATRA-LAMQG 211 (253)
Q Consensus 143 ~~~~l~~RiekLEe~vrs~~t~irvLSRql-------EKLGvRfRv---trRtLrdPI~etaAlAqknSeatra-LA~re 211 (253)
.=..+.+.+.+|++.+...-.++-.+.+.- ...|-=|-+ .=.+|-+|+++.|+...+++.++.. +....
T Consensus 55 eF~Emkey~d~L~~~L~~ieki~~Rl~kr~~ey~~~~~~fgk~~~lws~~E~~L~~~L~~~a~~~d~~~~~~~~~~~~l~ 134 (243)
T cd07666 55 EFTEMNEYVEAFSQKINVLDKISQRIYKEQREYFEELKEYGPIYTLWSASEEELADSLKGMASCIDRCCKATDKRMKGLS 134 (243)
T ss_pred HHHHHHHHHHHHHHHhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345578889999998888766665555332 233333333 1234889999999999999999888 44445
Q ss_pred hhHHHHHHHHH----HHHHHhhcccchhhhhhhh
Q 025378 212 DVLEKELGEIQ----KVLLAMQVSPITWFYHLSV 241 (253)
Q Consensus 212 dlLEkEL~eiQ----~vL~AMQeqq~KQf~~LS~ 241 (253)
+-|..=|+|.. ++-..|-+..++|.++=.+
T Consensus 135 ~~f~~~Lkeyv~y~~slK~vlk~R~~~Q~~le~k 168 (243)
T cd07666 135 EQLLPVIHEYVLYSETLMGVIKRRDQIQAELDSK 168 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666666644 3344455566777665443
No 76
>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=29.89 E-value=1.6e+02 Score=22.87 Aligned_cols=41 Identities=15% Similarity=0.285 Sum_probs=28.7
Q ss_pred hHHHHHHHHhhh--------hHHHHHHHhhhhhHHHHHHHHHHHHHHhh
Q 025378 189 PITQAAALAQKN--------SEATRALAMQGDVLEKELGEIQKVLLAMQ 229 (253)
Q Consensus 189 PI~etaAlAqkn--------SeatraLA~redlLEkEL~eiQ~vL~AMQ 229 (253)
||.+...+.... .+....|..+.+.+|+++.++|+.+..+.
T Consensus 58 sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~ 106 (116)
T cd04769 58 TLAELKAIFAGHEGRAVLPWPHLQQALEDKKQEIRAQITELQQLLARLD 106 (116)
T ss_pred CHHHHHHHHhccccCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555554332 24457788899999999999988877665
No 77
>cd04781 HTH_MerR-like_sg6 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, an
Probab=29.88 E-value=1.8e+02 Score=22.79 Aligned_cols=43 Identities=9% Similarity=0.169 Sum_probs=27.8
Q ss_pred chHHHHHHHHhhh---hHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 188 DPITQAAALAQKN---SEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 188 dPI~etaAlAqkn---SeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
-||.+.+...... ......|.++.+.+++++.+++....-++.
T Consensus 57 ~~L~eI~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~L~~ 102 (120)
T cd04781 57 FSLDEIQAMLSHDGKPPIDRQLLKAKAAELDQQIQRLQAMRELLRH 102 (120)
T ss_pred CCHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555555444332 223457788888899998888888776654
No 78
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=29.42 E-value=1.6e+02 Score=27.06 Aligned_cols=61 Identities=20% Similarity=0.282 Sum_probs=35.9
Q ss_pred CCCCChhhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH-HHHHHHHhhhcccccCcccchHHHHHHHHHHHhHhHHHHH
Q 025378 87 NDNFNLDSLLSISEVLWSRVLACGVVSLVCGVWIGAIIR-RRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATIL 165 (253)
Q Consensus 87 s~~~~~DslLS~aEllcl~~~vwg~V~LV~aV~iGaiIR-rRQW~Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~t~i 165 (253)
...+|.+.||..||-+|- +|-+ -++- .-|-. |.+| ..+..-|+.||..|..+..-+
T Consensus 154 ~~d~dvevLL~~ae~L~~---vYP~---~ga~--eki~~Lr~~y---------------~~l~~~i~~lE~~VaeQ~~qL 210 (259)
T PF08657_consen 154 VEDVDVEVLLRGAEKLCN---VYPL---PGAR--EKIAALRQRY---------------NQLSNSIAYLEAEVAEQEAQL 210 (259)
T ss_pred cccCCHHHHHHHHHHHHH---hCCC---hHHH--HHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHH
Confidence 578899999999999995 3422 2111 11111 1222 125666788888777776555
Q ss_pred HHHHH
Q 025378 166 RVLSR 170 (253)
Q Consensus 166 rvLSR 170 (253)
..+.+
T Consensus 211 ~~~n~ 215 (259)
T PF08657_consen 211 ERMNR 215 (259)
T ss_pred HHHhc
Confidence 55443
No 79
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=29.38 E-value=2.8e+02 Score=27.70 Aligned_cols=79 Identities=20% Similarity=0.222 Sum_probs=43.0
Q ss_pred HHHHHHHHhHhHHHHHHHHHHHHHhhcceeee--ehh--hccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHH
Q 025378 150 RIEKLEEDMKSSATILRVLSRQLEKLGVRFRV--TRK--ALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVL 225 (253)
Q Consensus 150 RiekLEe~vrs~~t~irvLSRqlEKLGvRfRv--trR--tLrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL 225 (253)
++.+.++.....-.+++.|....+|.|.-... ..+ ++.+-..+.....++-.+-+..+..+.+-||+|+.++++-+
T Consensus 44 ~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~i~~l~~~~~~L~~~~~~l~~~~ 123 (646)
T PRK05771 44 RLRKLRSLLTKLSEALDKLRSYLPKLNPLREEKKKVSVKSLEELIKDVEEELEKIEKEIKELEEEISELENEIKELEQEI 123 (646)
T ss_pred HHhHHHHHHHHHHHHHHHHHHhccccccchhhhccccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666677777777777776652211 111 11111122233344444556667777777777777777665
Q ss_pred HHh
Q 025378 226 LAM 228 (253)
Q Consensus 226 ~AM 228 (253)
..+
T Consensus 124 ~~l 126 (646)
T PRK05771 124 ERL 126 (646)
T ss_pred HHh
Confidence 543
No 80
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=29.37 E-value=1.3e+02 Score=22.86 Aligned_cols=36 Identities=19% Similarity=0.248 Sum_probs=22.8
Q ss_pred chHHHHHHHHhh--hhHHHHHHHhhhhhHHHHHHHHHH
Q 025378 188 DPITQAAALAQK--NSEATRALAMQGDVLEKELGEIQK 223 (253)
Q Consensus 188 dPI~etaAlAqk--nSeatraLA~redlLEkEL~eiQ~ 223 (253)
-||.+...+.+. ..+....|..+.+.+|+|+.+++.
T Consensus 58 ~~l~eI~~~l~~~~~~~~~~~l~~~~~~l~~~i~~l~~ 95 (97)
T cd04782 58 ISLKEIKDYLDNRNPDELIELLKKQEKEIKEEIEELQK 95 (97)
T ss_pred CCHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 355555554332 235566778888888888887765
No 81
>PRK15048 methyl-accepting chemotaxis protein II; Provisional
Probab=29.27 E-value=5.1e+02 Score=24.67 Aligned_cols=13 Identities=23% Similarity=-0.018 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHH
Q 025378 114 LVCGVWIGAIIRR 126 (253)
Q Consensus 114 LV~aV~iGaiIRr 126 (253)
++++++++.++++
T Consensus 202 ~~~~~~~~~~i~~ 214 (553)
T PRK15048 202 VLILLVAWYGIRR 214 (553)
T ss_pred HHHHHHHHHHHHH
Confidence 3444445555554
No 82
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=29.19 E-value=2.3e+02 Score=20.74 Aligned_cols=32 Identities=28% Similarity=0.299 Sum_probs=21.9
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHhhccc
Q 025378 201 SEATRALAMQGDVLEKELGEIQKVLLAMQVSP 232 (253)
Q Consensus 201 SeatraLA~redlLEkEL~eiQ~vL~AMQeqq 232 (253)
.+-...|--+..-+++++.+.++.|+++..+|
T Consensus 75 ~~~i~~l~~~~~~l~~~l~~~~~~l~~~~~~q 106 (106)
T PF01920_consen 75 EKEIKKLEKQLKYLEKKLKELKKKLYELFGQQ 106 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCCCS--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 33456667777788888888888888776554
No 83
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=28.75 E-value=1.9e+02 Score=23.19 Aligned_cols=30 Identities=10% Similarity=0.313 Sum_probs=23.0
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 201 SEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 201 SeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
.+....|..+.+.+|+++.++++....++.
T Consensus 80 ~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 109 (131)
T TIGR02043 80 AEVKAIVDAKLELVDEKINELTKIRRSLKK 109 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677788888899999888887766654
No 84
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=28.35 E-value=3.9e+02 Score=23.10 Aligned_cols=33 Identities=12% Similarity=0.206 Sum_probs=21.4
Q ss_pred hhhHHHHHHHHHHHHHHhhcccchhhhhhhhHHHhh
Q 025378 211 GDVLEKELGEIQKVLLAMQVSPITWFYHLSVLTVSI 246 (253)
Q Consensus 211 edlLEkEL~eiQ~vL~AMQeqq~KQf~~LS~l~~~~ 246 (253)
..+|++|+.++-++..-++.+-..+ |-.|+++|
T Consensus 105 ~~~~~~~~~~~~~~~~~~~~~~~~~---~i~~~~~i 137 (155)
T PRK06569 105 KNSINQNIEDINLAAKQFRTNKSEA---IIKLAVNI 137 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHH---HHHHHHHH
Confidence 4688999999998888555443333 33455554
No 85
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=28.18 E-value=1.4e+02 Score=25.36 Aligned_cols=83 Identities=24% Similarity=0.203 Sum_probs=20.6
Q ss_pred cchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHH
Q 025378 144 SVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQK 223 (253)
Q Consensus 144 ~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~ 223 (253)
..++-.++.++.+++-..-..=..++-+|-.+-...+-.+..++.=-...+.+-.++ ..|-.+..-|+.||.|.++
T Consensus 69 ~~~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~----~~L~~~~~~l~~~l~ek~k 144 (194)
T PF08614_consen 69 ISSLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAEL----AQLEEKIKDLEEELKEKNK 144 (194)
T ss_dssp ---------------------------------------------HHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
T ss_pred ccccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
Confidence 345677888888888777666667777777777777766666665444444444333 3445555566667777666
Q ss_pred HHHHhhc
Q 025378 224 VLLAMQV 230 (253)
Q Consensus 224 vL~AMQe 230 (253)
.+.-+|+
T Consensus 145 ~~e~l~D 151 (194)
T PF08614_consen 145 ANEILQD 151 (194)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 6655543
No 86
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=28.16 E-value=1.8e+02 Score=23.66 Aligned_cols=30 Identities=17% Similarity=0.197 Sum_probs=22.5
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 201 SEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 201 SeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
.+....|..+.+.+|+++.++++....|+.
T Consensus 80 ~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 109 (140)
T PRK09514 80 QEVKGIVDEKLAEVEAKIAELQHMRRSLQR 109 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667788888899998888877666654
No 87
>PRK06041 flagellar assembly protein J; Reviewed
Probab=28.03 E-value=5.6e+02 Score=25.75 Aligned_cols=100 Identities=10% Similarity=0.024 Sum_probs=69.4
Q ss_pred CcccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeee--hhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHH
Q 025378 141 GRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVT--RKALKDPITQAAALAQKNSEATRALAMQGDVLEKEL 218 (253)
Q Consensus 141 gr~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvt--rRtLrdPI~etaAlAqknSeatraLA~redlLEkEL 218 (253)
|-...++..++.+-|+ ....+.-.+..-|.++++|-.+.=. +.+-+-|-...+..-+..+.+.+.=..=+|.||+|.
T Consensus 90 g~~~~eifr~la~~~~-yG~~s~E~~~Iv~~v~~~g~d~~~Al~~~a~~tPS~~l~~fl~~l~~~i~sG~~l~~fL~~e~ 168 (553)
T PRK06041 90 DIDRDEIFRILSEKEE-YGALAKEFRKIYVLVDKWNYSLAEACRFVAKRTPSELFADFLDRLAYSIDSGEPLKEFLKQEQ 168 (553)
T ss_pred CCCHHHHHHHHhCchh-hhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence 4457778888885544 7777888888889999999877533 233455666666666666666665555578899888
Q ss_pred HHHHHHHHHhhcccchhhhhhhh
Q 025378 219 GEIQKVLLAMQVSPITWFYHLSV 241 (253)
Q Consensus 219 ~eiQ~vL~AMQeqq~KQf~~LS~ 241 (253)
...++--...|++-...++++.-
T Consensus 169 ~~~~~~~~~~~~~~le~L~~~~E 191 (553)
T PRK06041 169 DTVMEDYKTFYERALYSLDVWKD 191 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 88877777666666555555543
No 88
>PF01520 Amidase_3: N-acetylmuramoyl-L-alanine amidase; InterPro: IPR002508 The cell wall envelope of Gram-positive bacteria is a macromolecular, exoskeletal organelle that is assembled and turned over at designated sites. The cell wall also functions as a surface organelle that allows Gram-positive pathogens to interact with their environment, in particular the tissues of the infected host. All of these functions require that surface proteins and enzymes be properly targeted to the cell wall envelope. Two basic mechanisms, cell wall sorting and targeting, have been identified. Cell well sorting is the covalent attachment of surface proteins to the peptidoglycan via a C-terminal sorting signal that contains a consensus LPXTG sequence. More than 100 proteins that possess cell wall-sorting signals, including the M proteins of Streptococcus pyogenes, protein A of Staphylococcus aureus, and several internalins of Listeria monocytogenes, have been identified. Cell wall targeting involves the noncovalent attachment of proteins to the cell surface via specialised binding domains. Several of these wall-binding domains appear to interact with secondary wall polymers that are associated with the peptidoglycan, for example teichoic acids and polysaccharides. Proteins that are targeted to the cell surface include muralytic enzymes such as autolysins, lysostaphin, and phage lytic enzymes. Other examples for targeted proteins are the surface S-layer proteins of bacilli and clostridia, as well as virulence factors required for the pathogenesis of L. monocytogenes (internalin B) and Streptococcus pneumoniae (PspA) infections []. Autolysin 3.5.1.28 from EC hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain bacterial cell wall glycopeptides.; GO: 0008745 N-acetylmuramoyl-L-alanine amidase activity, 0009253 peptidoglycan catabolic process; PDB: 3QAY_A 3CZX_A 1JWQ_A 1XOV_A 3NE8_A.
Probab=27.74 E-value=1.3e+02 Score=23.90 Aligned_cols=42 Identities=33% Similarity=0.453 Sum_probs=29.9
Q ss_pred HHHhHhHHHHHHHHHHHHHhhcceeeeehhhcc-chHHHHHHHHh
Q 025378 155 EEDMKSSATILRVLSRQLEKLGVRFRVTRKALK-DPITQAAALAQ 198 (253)
Q Consensus 155 Ee~vrs~~t~irvLSRqlEKLGvRfRvtrRtLr-dPI~etaAlAq 198 (253)
|.++- ..+...|...|++.|+++-+||.+=. .++.+-++.|.
T Consensus 22 E~~~~--l~ia~~l~~~L~~~g~~V~~tr~~d~~~~l~~R~~~an 64 (175)
T PF01520_consen 22 EKDIN--LDIALRLKKELEKHGIKVYLTRDNDSDVSLQERAALAN 64 (175)
T ss_dssp HHHHH--HHHHHHHHHHHHHTTEEEEESSSSSHCCCHHHHHHHHH
T ss_pred CCHHH--HHHHHHHHHHHhcCCcEEEEeCCCCCCCCHHHHHHHHH
Confidence 44443 35567788899999999999999821 26777666663
No 89
>PF11833 DUF3353: Protein of unknown function (DUF3353); InterPro: IPR021788 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 205 to 258 amino acids in length.
Probab=27.48 E-value=1.3e+02 Score=26.38 Aligned_cols=42 Identities=19% Similarity=0.252 Sum_probs=30.6
Q ss_pred ChhhHHHHHHHHHH-----------HHhhhhhHHHHHHHHHHHHHHHHHHHHHhh
Q 025378 91 NLDSLLSISEVLWS-----------RVLACGVVSLVCGVWIGAIIRRRQWRRVCG 134 (253)
Q Consensus 91 ~~DslLS~aEllcl-----------~~~vwg~V~LV~aV~iGaiIRrRQW~Ri~~ 134 (253)
+..-.|+++=..|+ |.+.|+++.|++|.++|.++ -.|.+..-
T Consensus 116 ~~~l~Lal~~~~~iyfl~~K~~~~~rA~~~~~~~L~~G~~lGs~l--~~~l~~~~ 168 (194)
T PF11833_consen 116 GPGLQLALGLGACIYFLNRKERKLGRAFLWTLGGLVVGLILGSLL--ASWLPVDI 168 (194)
T ss_pred CcchHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHH--Hhhccccc
Confidence 33445666666665 68999999999999999988 45654443
No 90
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=27.27 E-value=4.4e+02 Score=23.29 Aligned_cols=44 Identities=14% Similarity=0.223 Sum_probs=21.0
Q ss_pred HHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHH
Q 025378 151 IEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALA 197 (253)
Q Consensus 151 iekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlA 197 (253)
+..|.+.+..+..-++.+.++-+.+ .+..--+||-|++.....+
T Consensus 208 i~~L~~~~n~m~~~l~~~~~~~~~~---~~~lsHeLrtPL~~i~~~~ 251 (435)
T PRK09467 208 VRSVTRAFNQMAAGIKQLEDDRTLL---MAGVSHDLRTPLTRIRLAT 251 (435)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---HHHhhhhccchHHHHHHHH
Confidence 3444444444444443333322211 2233467888888765443
No 91
>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=27.16 E-value=2.3e+02 Score=21.78 Aligned_cols=30 Identities=23% Similarity=0.353 Sum_probs=23.9
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 201 SEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 201 SeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
.+....|..+.+.||+++.+++..+..|..
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 107 (113)
T cd01109 78 PERLELLEEHREELEEQIAELQETLAYLDY 107 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677888999999999999988876653
No 92
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=27.13 E-value=2.4e+02 Score=32.52 Aligned_cols=92 Identities=15% Similarity=0.183 Sum_probs=58.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHhhhcccccCcccchHHHHHHHHHHHhHhHHHHH---HHHHHHHHhhcceeeeehh
Q 025378 108 ACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATIL---RVLSRQLEKLGVRFRVTRK 184 (253)
Q Consensus 108 vwg~V~LV~aV~iGaiIRrRQW~Ri~~~~gr~~gr~~~~l~~RiekLEe~vrs~~t~i---rvLSRqlEKLGvRfRvtrR 184 (253)
.|-.++--.+..+.++|-| ....+..|-.| .+..++.++|+.+...-.++ -+-.-.+++|+--+-.+||
T Consensus 1168 ~WD~il~~L~~rt~rl~~~---A~~l~~tGv~g-----ay~s~f~~me~kl~~ir~il~~~svs~~~i~~l~~~~~~lr~ 1239 (1758)
T KOG0994|consen 1168 TWDAILQELALRTHRLINR---AKELKQTGVLG-----AYASRFLDMEEKLEEIRAILSAPSVSAEDIAQLASATESLRR 1239 (1758)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHhhhccCch-----hhHhHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHH
Confidence 5766666666677755544 33334433223 58999999999888776665 3455678888888877787
Q ss_pred hccchHHHHHHHHhhhhHHHHHH
Q 025378 185 ALKDPITQAAALAQKNSEATRAL 207 (253)
Q Consensus 185 tLrdPI~etaAlAqknSeatraL 207 (253)
.|++---...++-++.|.++..+
T Consensus 1240 ~l~~~~e~L~~~E~~Lsdi~~~~ 1262 (1758)
T KOG0994|consen 1240 QLQALTEDLPQEEETLSDITNSL 1262 (1758)
T ss_pred HHHHHHhhhhhhhhhhhhhhhcc
Confidence 77655444455555555555444
No 93
>PF05633 DUF793: Protein of unknown function (DUF793); InterPro: IPR008511 This entry includes Protein BYPASS 1 which is required for normal root and shoot development. Prevents constitutive production of a root mobile carotenoid-derived signaling compound that is capable of arresting shoot and leaf development [, ].
Probab=26.47 E-value=3.4e+02 Score=26.78 Aligned_cols=69 Identities=14% Similarity=0.290 Sum_probs=47.4
Q ss_pred cchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHH
Q 025378 144 SVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQK 223 (253)
Q Consensus 144 ~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~ 223 (253)
...|..=|+.+|..++....++.... |=++ .|-..|.+..+++..++...|-+=-|.||++.+|.=+
T Consensus 310 s~gLLkEl~~ve~~vr~L~el~d~~~---------~p~~----~e~~~ev~~~V~EL~~~~~~L~~GLdpLerqVre~Fh 376 (389)
T PF05633_consen 310 SCGLLKELQQVEASVRELHELIDSFQ---------FPLE----EEKEEEVREAVEELARVCEALSQGLDPLERQVREVFH 376 (389)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHhcc---------CCcc----hhHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence 34566677777777777766666332 2122 2444567788888888888888888999999988755
Q ss_pred HH
Q 025378 224 VL 225 (253)
Q Consensus 224 vL 225 (253)
.+
T Consensus 377 ~I 378 (389)
T PF05633_consen 377 RI 378 (389)
T ss_pred HH
Confidence 43
No 94
>cd04768 HTH_BmrR-like Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators. Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=26.12 E-value=1.4e+02 Score=22.54 Aligned_cols=37 Identities=14% Similarity=0.230 Sum_probs=23.5
Q ss_pred cchHHHHHHHHhhhh-HHHHHHHhhhhhHHHHHHHHHH
Q 025378 187 KDPITQAAALAQKNS-EATRALAMQGDVLEKELGEIQK 223 (253)
Q Consensus 187 rdPI~etaAlAqknS-eatraLA~redlLEkEL~eiQ~ 223 (253)
--||.+...+..... +....|..+.+.+|+++.++++
T Consensus 57 G~~l~~I~~~l~~~~~~~~~~l~~~~~~l~~~i~~l~~ 94 (96)
T cd04768 57 GFSLAEIKELLDTEMEELTAMLLEKKQAIQQKIDRLQQ 94 (96)
T ss_pred CCCHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHHHh
Confidence 346666665554433 5566677777777777777765
No 95
>PF00901 Orbi_VP5: Orbivirus outer capsid protein VP5; InterPro: IPR000145 The orbivirus VP5 protein is one of the two proteins (with VP2) which make up the virus particle outer capsid. Cryoelectron microscopy indicates that VP5 is a trimer suggesting that there are 360 copies of VP5 per virion [].; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=25.61 E-value=2.9e+02 Score=28.42 Aligned_cols=35 Identities=20% Similarity=0.316 Sum_probs=26.5
Q ss_pred ccchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcc
Q 025378 143 ESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGV 177 (253)
Q Consensus 143 ~~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGv 177 (253)
.+-.+..+|.+||+..++-....+-=..-.+|+|-
T Consensus 85 gE~~l~~Kl~eLE~e~k~d~v~~khn~~I~~k~g~ 119 (508)
T PF00901_consen 85 GEQGLQRKLKELEDEQKEDEVREKHNKKIIEKFGN 119 (508)
T ss_pred hHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 44568899999999999887666665566677773
No 96
>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=25.55 E-value=68 Score=32.39 Aligned_cols=42 Identities=14% Similarity=0.054 Sum_probs=0.0
Q ss_pred HHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhhcccch
Q 025378 193 AAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQVSPIT 234 (253)
Q Consensus 193 taAlAqknSeatraLA~redlLEkEL~eiQ~vL~AMQeqq~K 234 (253)
++.+....+.+-..+.+|+|-|+|||.|+++-+..|++.-.|
T Consensus 15 ~~s~~~~a~~~~~~~~qkie~L~kql~~Lk~q~~~l~~~v~k 56 (489)
T PF11853_consen 15 FLSLPAAAMADDIDLLQKIEALKKQLEELKAQQDDLNDRVDK 56 (489)
T ss_pred HhccchhhhhhhhHHHHHHHHHHHHHHHHHHhhcccccccch
No 97
>PF11353 DUF3153: Protein of unknown function (DUF3153); InterPro: IPR021499 This family of proteins with unknown function appear to be restricted to Cyanobacteria. Some members are annotated as membrane proteins however this cannot be confirmed.
Probab=25.46 E-value=66 Score=27.68 Aligned_cols=24 Identities=33% Similarity=0.553 Sum_probs=20.1
Q ss_pred HhhhhhHHHHHHHHHHHHHHHHHH
Q 025378 106 VLACGVVSLVCGVWIGAIIRRRQW 129 (253)
Q Consensus 106 ~~vwg~V~LV~aV~iGaiIRrRQW 129 (253)
...||.+.+++.+++|.++|++..
T Consensus 184 ~lgiG~v~I~~l~~~~~~l~~~r~ 207 (209)
T PF11353_consen 184 PLGIGTVLIVLLILLGFLLRRRRL 207 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhc
Confidence 345799999999999999998865
No 98
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=25.43 E-value=2.3e+02 Score=22.59 Aligned_cols=29 Identities=21% Similarity=0.160 Sum_probs=22.6
Q ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 202 EATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 202 eatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
+....|..+.+-+|+++.++|+.+..++.
T Consensus 79 ~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 107 (133)
T cd04787 79 MVRRLIEQRLAETERRIKELLKLRDRMQQ 107 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45567788888999999998888777653
No 99
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=25.06 E-value=2.3e+02 Score=22.42 Aligned_cols=30 Identities=3% Similarity=0.097 Sum_probs=21.7
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 201 SEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 201 SeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
.+....|..+.+.+|+++.+++.....+++
T Consensus 75 ~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 104 (124)
T TIGR02051 75 REMYELASRKLKSVQAKMADLLRIERLLEE 104 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566777788888888888877766654
No 100
>PRK09303 adaptive-response sensory kinase; Validated
Probab=24.95 E-value=5.2e+02 Score=23.36 Aligned_cols=51 Identities=16% Similarity=0.143 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHH
Q 025378 147 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALA 197 (253)
Q Consensus 147 l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlA 197 (253)
+..++.++++++.........+..+++.+|-=++..--+||.|++-....+
T Consensus 123 ~~~~~~~l~~~~~~l~~~~~~l~e~~~~~~~l~~~iaHeLrtPLt~i~~~~ 173 (380)
T PRK09303 123 YSQELLQLSDELFVLRQENETLLEQLKFKDRVLAMLAHDLRTPLTAASLAL 173 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhcchHHHHHHHH
Confidence 355677777777666666666666666666556666788999997654433
No 101
>PRK13755 putative mercury transport protein MerC; Provisional
Probab=24.76 E-value=1.9e+02 Score=25.27 Aligned_cols=28 Identities=18% Similarity=0.284 Sum_probs=17.6
Q ss_pred hhhhHHHHHHHHHH----HHHHHHHHHHHhhh
Q 025378 108 ACGVVSLVCGVWIG----AIIRRRQWRRVCGE 135 (253)
Q Consensus 108 vwg~V~LV~aV~iG----aiIRrRQW~Ri~~~ 135 (253)
+=-.+|+..+++.- .|.--|||+|-.-.
T Consensus 50 i~~LlPlFA~iALlanalgW~sHRQW~Rs~lG 81 (139)
T PRK13755 50 ISTLLPLFAAIALLANALGWFSHRQWLRSALG 81 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34456666555432 28899999986543
No 102
>PRK11463 fxsA phage T7 F exclusion suppressor FxsA; Reviewed
Probab=24.72 E-value=1.7e+02 Score=24.63 Aligned_cols=35 Identities=11% Similarity=0.104 Sum_probs=27.0
Q ss_pred HHHHHHHHH------HHhhhhhHHHHHHHHHHHHHHHHHHH
Q 025378 96 LSISEVLWS------RVLACGVVSLVCGVWIGAIIRRRQWR 130 (253)
Q Consensus 96 LS~aEllcl------~~~vwg~V~LV~aV~iGaiIRrRQW~ 130 (253)
.-++|+.++ .|+.|-.+.++++.++|+++=|+|=.
T Consensus 11 ~~~iEi~~~i~v~~~iG~~~tl~lvi~t~~lG~~l~r~~G~ 51 (148)
T PRK11463 11 YPLIEIAVFIAVASVIGVGWTLLLVILTSVLGVLLARSQGF 51 (148)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346787776 47788888888999999998887633
No 103
>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=24.69 E-value=2.3e+02 Score=19.29 Aligned_cols=44 Identities=14% Similarity=0.207 Sum_probs=26.6
Q ss_pred ccchHHHHHHHH-------hhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhh
Q 025378 186 LKDPITQAAALA-------QKNSEATRALAMQGDVLEKELGEIQKVLLAMQ 229 (253)
Q Consensus 186 LrdPI~etaAlA-------qknSeatraLA~redlLEkEL~eiQ~vL~AMQ 229 (253)
|--|+.|...+. ....++...+..+.+-+|+.+.+++++...++
T Consensus 13 lGfsL~eI~~~l~l~~~~~~~~~~~~~~l~~~~~~i~~~i~~L~~~~~~L~ 63 (65)
T PF09278_consen 13 LGFSLEEIRELLELYDQGDPPCADRRALLEEKLEEIEEQIAELQALRAQLE 63 (65)
T ss_dssp TT--HHHHHHHHHHCCSHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334555555444 23344455777788888888888887766554
No 104
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=24.60 E-value=4.5e+02 Score=25.57 Aligned_cols=25 Identities=28% Similarity=0.247 Sum_probs=19.1
Q ss_pred hhhhHHHHHHHHHHHHHHhhcccch
Q 025378 210 QGDVLEKELGEIQKVLLAMQVSPIT 234 (253)
Q Consensus 210 redlLEkEL~eiQ~vL~AMQeqq~K 234 (253)
|...||-||.|-|.+|..||---..
T Consensus 148 rnAfLESELdEke~llesvqRLkdE 172 (333)
T KOG1853|consen 148 RNAFLESELDEKEVLLESVQRLKDE 172 (333)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 4456888999999999999854333
No 105
>PRK11085 magnesium/nickel/cobalt transporter CorA; Provisional
Probab=24.42 E-value=5.9e+02 Score=23.82 Aligned_cols=61 Identities=15% Similarity=0.173 Sum_probs=35.7
Q ss_pred cchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeee--ehhhccchHHHHHHHHhhhhHHHHH
Q 025378 144 SVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRV--TRKALKDPITQAAALAQKNSEATRA 206 (253)
Q Consensus 144 ~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRv--trRtLrdPI~etaAlAqknSeatra 206 (253)
+..+.-.| ||..++..+.++..+.+++|+++-++=- .+..+++.+++...+-.-++..-++
T Consensus 129 ~~~vl~~L--ld~iVd~~ad~lE~~~~~ld~ls~~if~~~~~~~~~~~l~~i~~l~~~~~~~r~~ 191 (316)
T PRK11085 129 AYELLLDL--FETKIEQLADEIENIYSDLEKLSRVIMEGHQGDEYDEALSTLAELEDIGWKVRLC 191 (316)
T ss_pred HHHHHHHH--HHHHHHHhHHHHHHHHHHHHHHHHHhccCCCchhHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666 7778888888888888888877765521 1113455555444444444443333
No 106
>cd08577 PI-PLCc_GDPD_SF_unchar3 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases. This subfamily corresponds to a group of uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipase C (PI-PLC), and glycerophosphodiester phosphodiesterases (GP-GDE), and also sphingomyelinases D (SMases D) and similar proteins. They hydrolyze the 3'-5' phosphodiester bonds in different substrates, utilizing a similar mechanism of general base and acid catalysis involving two conserved histidine residues.
Probab=24.42 E-value=28 Score=30.74 Aligned_cols=8 Identities=63% Similarity=0.750 Sum_probs=6.3
Q ss_pred eeccCCCC
Q 025378 50 HISHNDYT 57 (253)
Q Consensus 50 ~~~~n~~~ 57 (253)
.||||||.
T Consensus 3 ~hsHNDY~ 10 (228)
T cd08577 3 AHSHNDYW 10 (228)
T ss_pred cccccccc
Confidence 38999984
No 107
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=24.22 E-value=5.7e+02 Score=25.59 Aligned_cols=33 Identities=21% Similarity=0.412 Sum_probs=21.2
Q ss_pred cchHHHHHHHHHHHhHhHHHHHHHHHHHHHhhc
Q 025378 144 SVNLVGRIEKLEEDMKSSATILRVLSRQLEKLG 176 (253)
Q Consensus 144 ~~~l~~RiekLEe~vrs~~t~irvLSRqlEKLG 176 (253)
...+..+++++|+.+.....-...+..+++.+-
T Consensus 204 ~~~~~~~~~~le~el~~l~~~~e~l~~~i~~l~ 236 (650)
T TIGR03185 204 PSSILSEIEALEAELKEQSEKYEDLAQEIAHLR 236 (650)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445777888888887776665555555444443
No 108
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=24.03 E-value=6.4e+02 Score=24.41 Aligned_cols=24 Identities=21% Similarity=0.361 Sum_probs=11.7
Q ss_pred HHHHHHHHhHhHHHHHHHHHHHHH
Q 025378 150 RIEKLEEDMKSSATILRVLSRQLE 173 (253)
Q Consensus 150 RiekLEe~vrs~~t~irvLSRqlE 173 (253)
++..||+.++..-.-++.+.-+.+
T Consensus 72 ~~~~l~~~l~~l~~~~~~~~~~~~ 95 (525)
T TIGR02231 72 RLAELRKQIRELEAELRDLEDRGD 95 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555555444444443333
No 109
>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=23.81 E-value=2.5e+02 Score=22.05 Aligned_cols=30 Identities=17% Similarity=0.267 Sum_probs=22.3
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 201 SEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 201 SeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
.+....|..+.+.+|+++.++++....++.
T Consensus 76 ~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~ 105 (126)
T cd04783 76 SEARELAEQKLAEVDEKIADLQRMRASLQE 105 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556677889999999998888776653
No 110
>PF09090 MIF4G_like_2: MIF4G like; InterPro: IPR015174 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 2", and is found in nuclear cap-binding proteins and eIF4G. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA.; GO: 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A.
Probab=23.59 E-value=4.9e+02 Score=22.99 Aligned_cols=30 Identities=30% Similarity=0.493 Sum_probs=25.1
Q ss_pred HhHHHHHHHHHHHHHhhcceeeeehhhccc
Q 025378 159 KSSATILRVLSRQLEKLGVRFRVTRKALKD 188 (253)
Q Consensus 159 rs~~t~irvLSRqlEKLGvRfRvtrRtLrd 188 (253)
-....+...+.|.++|...|+|-.+++++.
T Consensus 143 ~~~~~~wE~l~~tl~k~~~rv~~~~~~~~~ 172 (253)
T PF09090_consen 143 LTRSYVWEILNRTLRKVTKRVRQVRKELEE 172 (253)
T ss_dssp TTSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345788999999999999999988888833
No 111
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=23.26 E-value=3.5e+02 Score=25.97 Aligned_cols=24 Identities=21% Similarity=0.318 Sum_probs=11.0
Q ss_pred HHHHHHHHHhHhHHHHHHHHHHHH
Q 025378 149 GRIEKLEEDMKSSATILRVLSRQL 172 (253)
Q Consensus 149 ~RiekLEe~vrs~~t~irvLSRql 172 (253)
.|.++++++++...+-.+.+.+++
T Consensus 271 ~r~r~l~~~L~~~l~~~~~l~~~L 294 (495)
T PRK11644 271 QRQRELNQSLQKELARNRHLAERL 294 (495)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444
No 112
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=23.11 E-value=1.2e+02 Score=22.87 Aligned_cols=33 Identities=24% Similarity=0.382 Sum_probs=26.3
Q ss_pred hhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 198 QKNSEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 198 qknSeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
+..++.+..|-.+.+-||++++.++..+.++..
T Consensus 66 ~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~ 98 (104)
T PF13600_consen 66 ESDSPELKELEEELEALEDELAALQDEIQALEA 98 (104)
T ss_pred ccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345668888889999999999999888877653
No 113
>KOG3415 consensus Putative Rab5-interacting protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.05 E-value=1e+02 Score=26.56 Aligned_cols=31 Identities=26% Similarity=0.249 Sum_probs=21.8
Q ss_pred ChhhHHHHH----HHHHH-HHhhhhhHHHHHHHHHH
Q 025378 91 NLDSLLSIS----EVLWS-RVLACGVVSLVCGVWIG 121 (253)
Q Consensus 91 ~~DslLS~a----Ellcl-~~~vwg~V~LV~aV~iG 121 (253)
|-|.||... ++..+ -|+.||.+||++.+.|-
T Consensus 37 DKdellDViyW~rQVi~l~lGviwGi~pL~G~l~iv 72 (129)
T KOG3415|consen 37 DKDELLDVIYWIRQVIGLILGVIWGIIPLVGFLGIV 72 (129)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHH
Confidence 567777654 33333 48999999999987764
No 114
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=23.03 E-value=4.3e+02 Score=21.71 Aligned_cols=31 Identities=26% Similarity=0.458 Sum_probs=20.5
Q ss_pred chHHHHHHHHHHHhHhHHHHHHHHHHHHHhh
Q 025378 145 VNLVGRIEKLEEDMKSSATILRVLSRQLEKL 175 (253)
Q Consensus 145 ~~l~~RiekLEe~vrs~~t~irvLSRqlEKL 175 (253)
.....++..+++.+...-.-+..+..+++++
T Consensus 84 ~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~ 114 (191)
T PF04156_consen 84 SELQQQLQQLQEELDQLQERIQELESELEKL 114 (191)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677777777777666666666666655
No 115
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=22.93 E-value=3e+02 Score=21.65 Aligned_cols=66 Identities=21% Similarity=0.298 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhhccc
Q 025378 161 SATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQVSP 232 (253)
Q Consensus 161 ~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL~AMQeqq 232 (253)
.-..++.|.++.++|-.+..-....++ .+..+.+-+..+.++.+.-.+|+.+..+...+.-++.+.
T Consensus 6 Lk~~~~~L~~~~~~le~~i~~~~~~~k------~~~~~~~~~~A~~~lk~~k~~~k~~~~~~~~~~~l~~~~ 71 (171)
T PF03357_consen 6 LKKTIRRLEKQIKRLEKKIKKLEKKAK------KAIKKGNKERAKIYLKRKKRLEKQLEKLLNQLSNLESVL 71 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCHHHHH------HHHCTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455555555555554443333221 223334456778888888889999888877776666543
No 116
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=22.47 E-value=1.6e+02 Score=25.87 Aligned_cols=20 Identities=30% Similarity=0.453 Sum_probs=14.0
Q ss_pred hhHHHHHHHHHHHHHHhhcc
Q 025378 212 DVLEKELGEIQKVLLAMQVS 231 (253)
Q Consensus 212 dlLEkEL~eiQ~vL~AMQeq 231 (253)
+-+|.++.+++.-+.-||++
T Consensus 127 ~~~e~~i~~Le~ki~el~~~ 146 (190)
T PF05266_consen 127 KELESEIKELEMKILELQRQ 146 (190)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 45677777777777777765
No 117
>PF14077 WD40_alt: Alternative WD40 repeat motif
Probab=22.34 E-value=77 Score=23.33 Aligned_cols=19 Identities=26% Similarity=0.478 Sum_probs=15.9
Q ss_pred ccchHHHHHHHHHHHhHhH
Q 025378 143 ESVNLVGRIEKLEEDMKSS 161 (253)
Q Consensus 143 ~~~~l~~RiekLEe~vrs~ 161 (253)
....+.-|+.+||++|+..
T Consensus 12 ~~e~l~vrv~eLEeEV~~L 30 (48)
T PF14077_consen 12 DQEQLRVRVSELEEEVRTL 30 (48)
T ss_pred CcchheeeHHHHHHHHHHH
Confidence 4567999999999999864
No 118
>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans. Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.
Probab=22.14 E-value=5.1e+02 Score=22.28 Aligned_cols=57 Identities=19% Similarity=0.214 Sum_probs=41.0
Q ss_pred eeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhhcccch
Q 025378 178 RFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQVSPIT 234 (253)
Q Consensus 178 RfRvtrRtLrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL~AMQeqq~K 234 (253)
-+|-.+++|..-|.+..+.-.+-..-+..++.+...||..=.+..+-..+|++.+.+
T Consensus 86 ~~~~e~k~L~~~v~~Le~e~r~L~~~~~~~~~q~~rlee~e~~l~~e~~~l~er~~e 142 (158)
T PF09744_consen 86 QWRQERKDLQSQVEQLEEENRQLELKLKNLSDQSSRLEEREAELKKEYNRLHERERE 142 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccccchhHHHHHHHHHHHHHHHHH
Confidence 456667777777777777777777667777788888877666666777777775544
No 119
>cd07598 BAR_FAM92 The Bin/Amphiphysin/Rvs (BAR) domain of Family with sequence similarity 92 (FAM92). BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions including organelle biogenesis, membrane trafficking or remodeling, and cell division and migration. This group is composed of proteins from the family with sequence similarity 92 (FAM92), which were originally identified by the presence of the unknown domain DUF1208. This domain shows similarity to the BAR domains of sorting nexins. Mammals contain at least two member types, FAM92A and FAM92B, which may exist in many variants. The Xenopus homolog of FAM92A1, xVAP019, is essential for embryo survival and cell differentiation. FAM92A1 may be involved in regulating cell proliferation and apoptosis. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=22.03 E-value=5.6e+02 Score=22.69 Aligned_cols=30 Identities=17% Similarity=0.288 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHHhhc
Q 025378 147 LVGRIEKLEEDMKSSATILRVLSRQLEKLG 176 (253)
Q Consensus 147 l~~RiekLEe~vrs~~t~irvLSRqlEKLG 176 (253)
+..||+.||+-++.....+..+.|.-.+||
T Consensus 9 i~~~i~~lE~hl~~l~~~~~~lv~k~~~L~ 38 (211)
T cd07598 9 IQERITNVEKHFGELCQDFAAYTRKTARLR 38 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 568999999999999999888888765554
No 120
>PF11915 DUF3433: Protein of unknown function (DUF3433); InterPro: IPR021840 This family of proteins are functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 784 to 1240 amino acids in length.
Probab=21.95 E-value=1.1e+02 Score=22.63 Aligned_cols=22 Identities=9% Similarity=0.135 Sum_probs=18.3
Q ss_pred hhhhhHHHHHHHHHHHHHHHHH
Q 025378 107 LACGVVSLVCGVWIGAIIRRRQ 128 (253)
Q Consensus 107 ~vwg~V~LV~aV~iGaiIRrRQ 128 (253)
++|.++|-.+|++++.+.+.-.
T Consensus 3 ~~~~~lPtlv~v~i~~~w~~id 24 (92)
T PF11915_consen 3 FLWTFLPTLVAVLIALLWQSID 24 (92)
T ss_pred eehhHHHHHHHHHHHHHHHHHH
Confidence 6899999999999998865544
No 121
>PF02582 DUF155: Uncharacterised ACR, YagE family COG1723; InterPro: IPR003734 This entry describes proteins of unknown function.
Probab=21.94 E-value=2.9e+02 Score=22.95 Aligned_cols=38 Identities=21% Similarity=0.351 Sum_probs=31.0
Q ss_pred HHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhcc
Q 025378 149 GRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALK 187 (253)
Q Consensus 149 ~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLr 187 (253)
-+++..|+.+...+.-++.+.++|+|-| ++.++|++|-
T Consensus 84 v~L~~~E~~v~~~l~~~~~i~~~L~~~G-~~~~~~k~l~ 121 (175)
T PF02582_consen 84 VKLDFFEEQVDKLLEETEPIPEELAKTG-KLPLSRKELL 121 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCCcCHHHHH
Confidence 3678899999999999999999999955 5566777543
No 122
>TIGR00162 conserved hypothetical protein TIGR00162. This ortholog set includes MJ1210 from Methanococcus jannaschii and AF0525 from Archaeoglobus fulgidus, but not MJ0106 or AF1251.
Probab=21.93 E-value=86 Score=27.01 Aligned_cols=47 Identities=19% Similarity=0.277 Sum_probs=27.0
Q ss_pred ccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHhhcccch
Q 025378 186 LKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQVSPIT 234 (253)
Q Consensus 186 LrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL~AMQeqq~K 234 (253)
+-||=. ++++-+.-++++ .+..=-+-||+|-.++++.+..||+++++
T Consensus 124 ~pDP~A-A~alL~~L~kll-gl~vd~~~L~e~Ae~ie~~~~~~~~~~~~ 170 (188)
T TIGR00162 124 MIDPKA-AKAVLEVLCKML-SLEVSVEALEERAKEMEKIIAKIKEMEEE 170 (188)
T ss_pred CCChHH-HHHHHHHHHHHH-CCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455532 333334445444 44555566777777777777777766653
No 123
>COG0357 GidB Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]
Probab=21.84 E-value=92 Score=27.89 Aligned_cols=83 Identities=23% Similarity=0.225 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHhHhHHHH-HHHHHHHHHhhcceee----eehhhccchHHHHHHHHhhhhHH-HHHHHhhhhhHHHHHHH
Q 025378 147 LVGRIEKLEEDMKSSATI-LRVLSRQLEKLGVRFR----VTRKALKDPITQAAALAQKNSEA-TRALAMQGDVLEKELGE 220 (253)
Q Consensus 147 l~~RiekLEe~vrs~~t~-irvLSRqlEKLGvRfR----vtrRtLrdPI~etaAlAqknSea-traLA~redlLEkEL~e 220 (253)
+..|+.+||+.....--- +++.--.+|+.+.+.+ ||-|++- +++.....+.-..-. -..++.+..-.++|+.|
T Consensus 100 ~~Kk~~FL~~~~~eL~L~nv~i~~~RaE~~~~~~~~~D~vtsRAva-~L~~l~e~~~pllk~~g~~~~~k~~~~~~e~~e 178 (215)
T COG0357 100 LGKKIAFLREVKKELGLENVEIVHGRAEEFGQEKKQYDVVTSRAVA-SLNVLLELCLPLLKVGGGFLAYKGLAGKDELPE 178 (215)
T ss_pred CchHHHHHHHHHHHhCCCCeEEehhhHhhcccccccCcEEEeehcc-chHHHHHHHHHhcccCCcchhhhHHhhhhhHHH
Confidence 447899999887766433 6666777899998665 7888774 345544444443333 33445555566777777
Q ss_pred HHHHHHHhhc
Q 025378 221 IQKVLLAMQV 230 (253)
Q Consensus 221 iQ~vL~AMQe 230 (253)
.++++...+.
T Consensus 179 ~~~a~~~~~~ 188 (215)
T COG0357 179 AEKAILPLGG 188 (215)
T ss_pred HHHHHHhhcC
Confidence 7777665543
No 124
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=21.79 E-value=3.6e+02 Score=20.44 Aligned_cols=28 Identities=25% Similarity=0.408 Sum_probs=23.7
Q ss_pred HHHHHHHHHhHhHHHHHHHHHHHHHhhc
Q 025378 149 GRIEKLEEDMKSSATILRVLSRQLEKLG 176 (253)
Q Consensus 149 ~RiekLEe~vrs~~t~irvLSRqlEKLG 176 (253)
.-+++||.-+..-+..|..|-+.+++|-
T Consensus 4 E~l~~LE~ki~~aveti~~Lq~e~eeLk 31 (72)
T PF06005_consen 4 ELLEQLEEKIQQAVETIALLQMENEELK 31 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478999999999999999998888763
No 125
>PRK10884 SH3 domain-containing protein; Provisional
Probab=21.65 E-value=5.8e+02 Score=22.69 Aligned_cols=20 Identities=25% Similarity=0.393 Sum_probs=14.9
Q ss_pred cchHHHHHHHHHHHhHhHHH
Q 025378 144 SVNLVGRIEKLEEDMKSSAT 163 (253)
Q Consensus 144 ~~~l~~RiekLEe~vrs~~t 163 (253)
..++..|+.+||.++...-+
T Consensus 88 ~p~~~~rlp~le~el~~l~~ 107 (206)
T PRK10884 88 TPSLRTRVPDLENQVKTLTD 107 (206)
T ss_pred CccHHHHHHHHHHHHHHHHH
Confidence 45688899999988776543
No 126
>PLN02678 seryl-tRNA synthetase
Probab=21.60 E-value=4.3e+02 Score=26.13 Aligned_cols=74 Identities=23% Similarity=0.249 Sum_probs=39.9
Q ss_pred chHHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHH
Q 025378 145 VNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKV 224 (253)
Q Consensus 145 ~~l~~RiekLEe~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~v 224 (253)
.+.+.+|.+|.+.-|...+-+..|-.+-.++.--+....+. ++...+ .-+-++.|..+..-||+++.+++.-
T Consensus 29 ~~~id~il~ld~~~r~l~~~~e~lr~erN~~sk~I~~~k~~-~~~~~~-------l~~~~~~Lk~ei~~le~~~~~~~~~ 100 (448)
T PLN02678 29 VELVDEVIALDKEWRQRQFELDSLRKEFNKLNKEVAKLKIA-KEDATE-------LIAETKELKKEITEKEAEVQEAKAA 100 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC-CCcHHH-------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44678888888888887776665544444333333221111 122222 2223445556666666666666665
Q ss_pred HH
Q 025378 225 LL 226 (253)
Q Consensus 225 L~ 226 (253)
+.
T Consensus 101 l~ 102 (448)
T PLN02678 101 LD 102 (448)
T ss_pred HH
Confidence 54
No 127
>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=21.54 E-value=2e+02 Score=21.87 Aligned_cols=35 Identities=26% Similarity=0.239 Sum_probs=24.5
Q ss_pred hhHHHHHHHhhhhhHHHHHHHHHHHHHHhhcccch
Q 025378 200 NSEATRALAMQGDVLEKELGEIQKVLLAMQVSPIT 234 (253)
Q Consensus 200 nSeatraLA~redlLEkEL~eiQ~vL~AMQeqq~K 234 (253)
-.+|..-+..|.+.|++++.++++.+..++.+..+
T Consensus 85 ~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~ 119 (129)
T cd00890 85 LEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQITE 119 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566777778888888887777777777665443
No 128
>KOG4421 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.44 E-value=32 Score=34.84 Aligned_cols=70 Identities=31% Similarity=0.417 Sum_probs=48.8
Q ss_pred HHHHHHHHHhHhHHHHHHHHHHHHHhhccee-----eeehhhccchHHHHHHHHhh--------hhHHHHHHHhhhhhHH
Q 025378 149 GRIEKLEEDMKSSATILRVLSRQLEKLGVRF-----RVTRKALKDPITQAAALAQK--------NSEATRALAMQGDVLE 215 (253)
Q Consensus 149 ~RiekLEe~vrs~~t~irvLSRqlEKLGvRf-----RvtrRtLrdPI~etaAlAqk--------nSeatraLA~redlLE 215 (253)
+...||-|.+.+-++.||..--..+.||.|- ||.--..-.|.++++.-..+ +|....+-|.|.|.+|
T Consensus 43 gk~~kl~eelk~k~a~irrieaendsl~frndql~rrvenfqfe~pt~~aa~k~~~~k~~~~~tqsdsaaaaaarid~~e 122 (637)
T KOG4421|consen 43 GKEAKLREELKQKAASIRRIEAENDSLGFRNDQLERRVENFQFEIPTHEAAKKKDKDKGGRRGTQSDSAAAAAARIDAAE 122 (637)
T ss_pred cchhHHHHHHHHHHHHHHHHHHhccccccchHHHHHHHHHhccCCCCCccccccccccCCCCCCCCCcccccccccchHH
Confidence 4578999999999999999999999999874 34333455666666543322 2334445567777777
Q ss_pred HHH
Q 025378 216 KEL 218 (253)
Q Consensus 216 kEL 218 (253)
++|
T Consensus 123 e~l 125 (637)
T KOG4421|consen 123 EAL 125 (637)
T ss_pred HHH
Confidence 765
No 129
>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=21.40 E-value=3.3e+02 Score=21.56 Aligned_cols=30 Identities=17% Similarity=0.197 Sum_probs=22.6
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 025378 201 SEATRALAMQGDVLEKELGEIQKVLLAMQV 230 (253)
Q Consensus 201 SeatraLA~redlLEkEL~eiQ~vL~AMQe 230 (253)
.+....|..+.+.+|+++.++|+....++.
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~ 107 (127)
T cd01108 78 ADVKALALEHIAELERKIAELQAMRRTLQQ 107 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345567888888889988888877766654
No 130
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=21.13 E-value=4.8e+02 Score=25.08 Aligned_cols=26 Identities=12% Similarity=0.166 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHH
Q 025378 147 LVGRIEKLEEDMKSSATILRVLSRQL 172 (253)
Q Consensus 147 l~~RiekLEe~vrs~~t~irvLSRql 172 (253)
.+.+|..|.+.-|...+-+..|-.+-
T Consensus 28 ~vd~i~~ld~~~r~~~~~~~~l~~er 53 (418)
T TIGR00414 28 DLEKLIALDDERKKLLSEIEELQAKR 53 (418)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777777777776665555544433
No 131
>PRK10404 hypothetical protein; Provisional
Probab=20.77 E-value=69 Score=25.59 Aligned_cols=21 Identities=19% Similarity=0.425 Sum_probs=15.2
Q ss_pred hhhhhHHH--HHHHHHHHHHHHH
Q 025378 107 LACGVVSL--VCGVWIGAIIRRR 127 (253)
Q Consensus 107 ~vwg~V~L--V~aV~iGaiIRrR 127 (253)
=+|..|.. .+|+++|.+|.||
T Consensus 79 ~Pw~avGiaagvGlllG~Ll~RR 101 (101)
T PRK10404 79 KPWQGIGVGAAVGLVLGLLLARR 101 (101)
T ss_pred CcHHHHHHHHHHHHHHHHHHhcC
Confidence 37776654 4578899998886
No 132
>KOG4657 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.63 E-value=6e+02 Score=24.05 Aligned_cols=64 Identities=22% Similarity=0.196 Sum_probs=32.3
Q ss_pred HhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHh
Q 025378 157 DMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAM 228 (253)
Q Consensus 157 ~vrs~~t~irvLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL~AM 228 (253)
.++|.++-.|.||+..+.+- -|..-+.||.+.-++.-|..--=-.+.-.+|+|+..+|+-+.+|
T Consensus 42 ~~nS~~efar~lS~~~~e~e--------~l~~~l~etene~~~~neL~~ek~~~q~~ieqeik~~q~elEvl 105 (246)
T KOG4657|consen 42 SMNSLVEFARALSQSQVELE--------NLKADLRETENELVKVNELKTEKEARQMGIEQEIKATQSELEVL 105 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555566666666554432 23344455555554444433222233345666776666655555
No 133
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=20.62 E-value=2.7e+02 Score=23.78 Aligned_cols=40 Identities=28% Similarity=0.273 Sum_probs=30.3
Q ss_pred ccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHH
Q 025378 186 LKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVL 225 (253)
Q Consensus 186 LrdPI~etaAlAqknSeatraLA~redlLEkEL~eiQ~vL 225 (253)
|++-+.+.-+..++.-++...|+++.+.+++++.+.+.-.
T Consensus 99 l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~~q~~ 138 (145)
T COG1730 99 LKKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQLQQKQ 138 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445556667778888888889999999998888876544
No 134
>PRK09039 hypothetical protein; Validated
Probab=20.50 E-value=7.2e+02 Score=23.37 Aligned_cols=32 Identities=19% Similarity=0.156 Sum_probs=24.5
Q ss_pred HHHHHHhhhhhHHHHHHHHHHHHHHhhcccch
Q 025378 203 ATRALAMQGDVLEKELGEIQKVLLAMQVSPIT 234 (253)
Q Consensus 203 atraLA~redlLEkEL~eiQ~vL~AMQeqq~K 234 (253)
-+..|-+|.+-|++.|+.+|..|.+.+++-+.
T Consensus 138 ~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~ 169 (343)
T PRK09039 138 QVELLNQQIAALRRQLAALEAALDASEKRDRE 169 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667788888888888888888887766543
No 135
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=20.47 E-value=3.4e+02 Score=22.77 Aligned_cols=34 Identities=32% Similarity=0.469 Sum_probs=22.4
Q ss_pred HHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHH
Q 025378 167 VLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEI 221 (253)
Q Consensus 167 vLSRqlEKLGvRfRvtrRtLrdPI~etaAlAqknSeatraLA~redlLEkEL~ei 221 (253)
.+++-|.+|||.-| + =+.+|..|.|-|+.+|.+.
T Consensus 95 rV~~aL~rLgvPs~---~------------------dv~~L~~rId~L~~~v~~l 128 (132)
T PF05597_consen 95 RVARALNRLGVPSR---K------------------DVEALSARIDQLTAQVERL 128 (132)
T ss_pred HHHHHHHhcCCCCH---H------------------HHHHHHHHHHHHHHHHHHH
Confidence 46777888998642 2 2456667777777777654
No 136
>cd07629 BAR_Atg20p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Atg20p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. The function of Atg20p is unknown but it has been shown to interact with Atg11p, which plays a role in linking cargo molecules with vesicle-forming components. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=20.06 E-value=5.6e+02 Score=21.94 Aligned_cols=44 Identities=16% Similarity=0.109 Sum_probs=32.1
Q ss_pred hccchHHHHHHHHhhhhHHHHHHHhhhh-hHHHHHHHHHHHHHHh
Q 025378 185 ALKDPITQAAALAQKNSEATRALAMQGD-VLEKELGEIQKVLLAM 228 (253)
Q Consensus 185 tLrdPI~etaAlAqknSeatraLA~red-lLEkEL~eiQ~vL~AM 228 (253)
+|-+||..++.....++-++..|+...+ -++.=|+|.-....++
T Consensus 60 ~L~~~le~~g~a~D~~~~~~~~l~~~l~~~f~EpL~E~~~y~~s~ 104 (187)
T cd07629 60 ELAEALEKVGQAVDSTYLATEALVGSLYYNINEPLSESAQFAGVV 104 (187)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence 6788888888888888888888887655 4666677655444333
No 137
>COG5040 BMH1 14-3-3 family protein [Signal transduction mechanisms]
Probab=20.06 E-value=1.8e+02 Score=27.40 Aligned_cols=52 Identities=31% Similarity=0.502 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHhhhcccccCcccchH----HHHHHHHHHHhHhH-HHHHHHHHHHH
Q 025378 119 WIGAIIRRRQWRRVCGEKARAEGRESVNL----VGRIEKLEEDMKSS-ATILRVLSRQL 172 (253)
Q Consensus 119 ~iGaiIRrRQW~Ri~~~~gr~~gr~~~~l----~~RiekLEe~vrs~-~t~irvLSRql 172 (253)
+||+ ||-.|+-+|...-++.|..+... ..-+.|+|+++... -.++-||..++
T Consensus 53 viga--RRaSWRivsSieQKeEsk~~~~qv~lI~eyrkkiE~EL~~icddiL~vl~~hl 109 (268)
T COG5040 53 VIGA--RRASWRIVSSIEQKEESKGNTHQVELIKEYRKKIETELTKICDDILSVLEKHL 109 (268)
T ss_pred Hhhh--hhhhhhhhhhHHHHHhcCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3453 88899988877555554433333 34567888888765 45666666554
Done!